Multiple sequence alignment - TraesCS2D01G357300

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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 TraesCS2D01G357300 chr2D 100.000 3273 0 0 1 3273 459321013 459324285 0.000000e+00 6045.0
1 TraesCS2D01G357300 chr2D 76.410 1259 238 44 990 2208 531235283 531236522 2.770000e-175 625.0
2 TraesCS2D01G357300 chr2D 82.172 617 79 11 1649 2240 531329300 531329910 4.880000e-138 501.0
3 TraesCS2D01G357300 chr2D 92.823 209 12 2 773 980 459321090 459320884 1.910000e-77 300.0
4 TraesCS2D01G357300 chr2D 79.370 349 55 14 1013 1345 529693979 529694326 2.540000e-56 230.0
5 TraesCS2D01G357300 chr2D 94.017 117 7 0 375 491 641373041 641373157 9.330000e-41 178.0
6 TraesCS2D01G357300 chr2D 84.058 207 7 9 135 316 126836066 126836271 3.360000e-40 176.0
7 TraesCS2D01G357300 chr2D 82.692 208 9 9 135 316 578924065 578924271 3.380000e-35 159.0
8 TraesCS2D01G357300 chr2D 95.238 84 4 0 1 84 459321862 459321779 2.050000e-27 134.0
9 TraesCS2D01G357300 chr2D 90.476 42 4 0 2431 2472 87744435 87744394 4.560000e-04 56.5
10 TraesCS2D01G357300 chr1D 97.251 982 21 5 1 979 77832316 77831338 0.000000e+00 1659.0
11 TraesCS2D01G357300 chr1D 86.395 147 16 4 44 187 492149016 492149161 1.220000e-34 158.0
12 TraesCS2D01G357300 chr1D 74.296 284 52 16 2431 2704 466125260 466125532 2.080000e-17 100.0
13 TraesCS2D01G357300 chr5D 96.710 851 23 4 134 981 458842690 458841842 0.000000e+00 1411.0
14 TraesCS2D01G357300 chr5D 92.523 214 13 2 767 979 458842709 458842920 1.480000e-78 303.0
15 TraesCS2D01G357300 chr5D 96.875 160 4 1 1 159 458842792 458842633 1.940000e-67 267.0
16 TraesCS2D01G357300 chr5D 98.131 107 2 0 612 718 549786260 549786366 1.550000e-43 187.0
17 TraesCS2D01G357300 chr5D 92.683 41 3 0 1303 1343 444143623 444143583 3.530000e-05 60.2
18 TraesCS2D01G357300 chr5D 97.059 34 1 0 579 612 128567913 128567946 1.270000e-04 58.4
19 TraesCS2D01G357300 chr2B 90.668 1018 68 14 979 1972 540730761 540731775 0.000000e+00 1328.0
20 TraesCS2D01G357300 chr2B 82.244 1301 176 19 991 2240 631140353 631141649 0.000000e+00 1072.0
21 TraesCS2D01G357300 chr2B 92.846 629 31 6 1963 2586 540734383 540735002 0.000000e+00 900.0
22 TraesCS2D01G357300 chr2B 75.933 1259 244 42 990 2208 630882871 630884110 2.810000e-165 592.0
23 TraesCS2D01G357300 chr2B 74.208 1136 223 50 1060 2146 629866259 629867373 8.450000e-111 411.0
24 TraesCS2D01G357300 chr2A 80.568 1302 176 32 991 2240 675839952 675841228 0.000000e+00 931.0
25 TraesCS2D01G357300 chr2A 94.291 508 27 1 2766 3273 602492143 602492648 0.000000e+00 776.0
26 TraesCS2D01G357300 chr2A 91.039 558 26 8 979 1512 602489298 602489855 0.000000e+00 732.0
27 TraesCS2D01G357300 chr2A 76.293 1257 243 43 990 2208 675708402 675709641 1.290000e-173 619.0
28 TraesCS2D01G357300 chr7D 96.020 402 13 2 579 979 378711013 378710614 0.000000e+00 651.0
29 TraesCS2D01G357300 chr7D 94.776 402 16 3 579 979 598520374 598519977 3.590000e-174 621.0
30 TraesCS2D01G357300 chr7D 96.757 185 6 0 579 763 452138933 452138749 3.170000e-80 309.0
31 TraesCS2D01G357300 chr7D 92.523 214 13 2 767 979 598521008 598521219 1.480000e-78 303.0
32 TraesCS2D01G357300 chr7D 92.593 189 11 3 1 187 378711767 378711580 5.380000e-68 268.0
33 TraesCS2D01G357300 chr7D 98.413 126 1 1 1 125 598521091 598520966 1.530000e-53 220.0
34 TraesCS2D01G357300 chr7D 98.131 107 2 0 612 718 563446606 563446500 1.550000e-43 187.0
35 TraesCS2D01G357300 chr7D 77.647 340 31 20 17 316 519828988 519829322 7.270000e-37 165.0
36 TraesCS2D01G357300 chr6D 93.516 401 18 3 579 978 361414927 361414534 1.010000e-164 590.0
37 TraesCS2D01G357300 chr6D 90.576 191 15 3 1 189 361415595 361415406 1.950000e-62 250.0
38 TraesCS2D01G357300 chr6D 82.329 249 16 14 135 357 12473612 12473366 1.200000e-44 191.0
39 TraesCS2D01G357300 chr6D 82.258 248 18 9 135 357 133973071 133973317 1.200000e-44 191.0
40 TraesCS2D01G357300 chr6D 82.464 211 10 9 135 319 404188245 404188036 3.380000e-35 159.0
41 TraesCS2D01G357300 chr3D 92.695 397 20 4 586 981 495318734 495318346 6.130000e-157 564.0
42 TraesCS2D01G357300 chr3D 82.584 178 24 7 13 187 546663844 546664017 2.030000e-32 150.0
43 TraesCS2D01G357300 chr3D 80.612 196 30 8 3 194 563838318 563838509 9.470000e-31 145.0
44 TraesCS2D01G357300 chr4A 77.874 461 80 12 2245 2688 60144067 60143612 1.940000e-67 267.0
45 TraesCS2D01G357300 chr3A 78.610 374 55 15 2315 2671 569953505 569953870 1.180000e-54 224.0
46 TraesCS2D01G357300 chr3A 83.471 121 16 4 2319 2438 669177479 669177362 3.450000e-20 110.0
47 TraesCS2D01G357300 chr1B 77.950 322 55 11 2306 2612 522745769 522745449 1.550000e-43 187.0
48 TraesCS2D01G357300 chr1B 75.646 271 55 8 2367 2631 4086596 4086861 1.230000e-24 124.0
49 TraesCS2D01G357300 chr7B 73.950 476 96 17 2248 2704 509511681 509511215 2.020000e-37 167.0
50 TraesCS2D01G357300 chr7B 79.245 212 31 12 2275 2483 388897624 388897825 5.700000e-28 135.0
51 TraesCS2D01G357300 chr7B 85.526 76 9 2 2408 2483 561728740 561728667 9.740000e-11 78.7
52 TraesCS2D01G357300 chr3B 83.234 167 22 6 2323 2486 736667621 736667458 7.320000e-32 148.0
53 TraesCS2D01G357300 chrUn 80.952 189 29 7 3 186 77055514 77055328 3.400000e-30 143.0
54 TraesCS2D01G357300 chr4D 75.399 313 46 19 2329 2615 8921062 8920755 4.430000e-24 122.0
55 TraesCS2D01G357300 chr1A 92.857 84 6 0 486 569 416581675 416581758 4.430000e-24 122.0
56 TraesCS2D01G357300 chr4B 77.434 226 35 13 2249 2466 417141110 417140893 1.600000e-23 121.0
57 TraesCS2D01G357300 chr4B 79.762 168 26 5 2324 2486 671695315 671695151 7.420000e-22 115.0
58 TraesCS2D01G357300 chr6A 97.059 34 1 0 579 612 25778314 25778347 1.270000e-04 58.4
59 TraesCS2D01G357300 chr5B 100.000 28 0 0 2400 2427 409802185 409802158 6.000000e-03 52.8


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 TraesCS2D01G357300 chr2D 459321013 459324285 3272 False 6045.0 6045 100.0000 1 3273 1 chr2D.!!$F2 3272
1 TraesCS2D01G357300 chr2D 531235283 531236522 1239 False 625.0 625 76.4100 990 2208 1 chr2D.!!$F4 1218
2 TraesCS2D01G357300 chr2D 531329300 531329910 610 False 501.0 501 82.1720 1649 2240 1 chr2D.!!$F5 591
3 TraesCS2D01G357300 chr2D 459320884 459321862 978 True 217.0 300 94.0305 1 980 2 chr2D.!!$R2 979
4 TraesCS2D01G357300 chr1D 77831338 77832316 978 True 1659.0 1659 97.2510 1 979 1 chr1D.!!$R1 978
5 TraesCS2D01G357300 chr5D 458841842 458842792 950 True 839.0 1411 96.7925 1 981 2 chr5D.!!$R2 980
6 TraesCS2D01G357300 chr2B 540730761 540735002 4241 False 1114.0 1328 91.7570 979 2586 2 chr2B.!!$F4 1607
7 TraesCS2D01G357300 chr2B 631140353 631141649 1296 False 1072.0 1072 82.2440 991 2240 1 chr2B.!!$F3 1249
8 TraesCS2D01G357300 chr2B 630882871 630884110 1239 False 592.0 592 75.9330 990 2208 1 chr2B.!!$F2 1218
9 TraesCS2D01G357300 chr2B 629866259 629867373 1114 False 411.0 411 74.2080 1060 2146 1 chr2B.!!$F1 1086
10 TraesCS2D01G357300 chr2A 675839952 675841228 1276 False 931.0 931 80.5680 991 2240 1 chr2A.!!$F2 1249
11 TraesCS2D01G357300 chr2A 602489298 602492648 3350 False 754.0 776 92.6650 979 3273 2 chr2A.!!$F3 2294
12 TraesCS2D01G357300 chr2A 675708402 675709641 1239 False 619.0 619 76.2930 990 2208 1 chr2A.!!$F1 1218
13 TraesCS2D01G357300 chr7D 378710614 378711767 1153 True 459.5 651 94.3065 1 979 2 chr7D.!!$R3 978
14 TraesCS2D01G357300 chr7D 598519977 598521091 1114 True 420.5 621 96.5945 1 979 2 chr7D.!!$R4 978
15 TraesCS2D01G357300 chr6D 361414534 361415595 1061 True 420.0 590 92.0460 1 978 2 chr6D.!!$R3 977

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
895 1930 0.039527 GAAACAGCCAACGCCGATTT 60.04 50.0 0.0 0.0 34.57 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2682 7664 0.037697 TAGTTGATTGCTCCGTGCGT 60.038 50.0 0.0 0.0 46.63 5.24 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
895 1930 0.039527 GAAACAGCCAACGCCGATTT 60.040 50.000 0.00 0.00 34.57 2.17
907 1943 3.479505 CGCCGATTTTGGTGTTATCAA 57.520 42.857 0.00 0.00 34.75 2.57
987 2023 9.819267 GTTTTATGCTATTTACTCCACTACTCT 57.181 33.333 0.00 0.00 0.00 3.24
1213 2253 1.142748 GCAGCTGCTCGTGTATCCT 59.857 57.895 31.33 0.00 38.21 3.24
1247 2290 2.035442 GTCGGGAACAAGCTCCTGC 61.035 63.158 0.00 0.00 41.12 4.85
1295 2338 1.726853 CGTCCCAGACAAGATGGAAC 58.273 55.000 0.00 0.00 40.51 3.62
1350 2393 2.026734 CGCTGCGGTCGATGATCT 59.973 61.111 15.40 0.00 0.00 2.75
1412 2478 0.456221 ATCTACTCAACGTCAGGCCG 59.544 55.000 0.00 0.00 0.00 6.13
1439 2505 3.126831 CCTCCGGAAAATCATCTTCTCG 58.873 50.000 5.23 0.00 0.00 4.04
1505 2571 2.507324 GGCTCCGACGTCTTGCTC 60.507 66.667 14.70 5.71 0.00 4.26
1699 3514 2.364186 CCCCCTGGCCATCCAAAC 60.364 66.667 5.51 0.00 42.91 2.93
1796 3703 4.947147 TGGCTGCCCAACCACGTC 62.947 66.667 17.53 0.00 38.46 4.34
1886 3916 5.509501 GGCAGAAGTGGTGAATTTTGATGAA 60.510 40.000 0.00 0.00 0.00 2.57
1990 6783 2.029649 TCTACTACGAGGCACAAACCAC 60.030 50.000 0.00 0.00 0.00 4.16
2055 6851 1.583856 CAATGTACTACAGCGAGCACG 59.416 52.381 0.00 0.00 42.93 5.34
2068 6864 1.660607 CGAGCACGTGTATTGCAGAAT 59.339 47.619 18.38 0.00 42.83 2.40
2097 6893 1.169661 TGTTGGCGATGGTGTGGAAC 61.170 55.000 0.00 0.00 37.35 3.62
2333 7315 1.924731 CCCTCCTTTCTTGGGTTTCC 58.075 55.000 0.00 0.00 36.32 3.13
2334 7316 1.534729 CCTCCTTTCTTGGGTTTCCG 58.465 55.000 0.00 0.00 35.24 4.30
2338 7320 2.092321 TCCTTTCTTGGGTTTCCGTTGA 60.092 45.455 0.00 0.00 35.24 3.18
2339 7321 2.890945 CCTTTCTTGGGTTTCCGTTGAT 59.109 45.455 0.00 0.00 35.24 2.57
2340 7322 3.320826 CCTTTCTTGGGTTTCCGTTGATT 59.679 43.478 0.00 0.00 35.24 2.57
2341 7323 4.202212 CCTTTCTTGGGTTTCCGTTGATTT 60.202 41.667 0.00 0.00 35.24 2.17
2342 7324 5.346181 TTTCTTGGGTTTCCGTTGATTTT 57.654 34.783 0.00 0.00 35.24 1.82
2343 7325 5.346181 TTCTTGGGTTTCCGTTGATTTTT 57.654 34.783 0.00 0.00 35.24 1.94
2362 7344 4.678509 TTTTGATACTGTCAACCGATGC 57.321 40.909 0.00 0.00 46.14 3.91
2371 7353 1.606668 GTCAACCGATGCCAGACAAAA 59.393 47.619 0.00 0.00 0.00 2.44
2386 7368 7.987458 TGCCAGACAAAAATAAAACCAACATAA 59.013 29.630 0.00 0.00 0.00 1.90
2447 7429 7.370383 ACTTTTCTAAAATCACGTCATGCATT 58.630 30.769 0.00 0.00 0.00 3.56
2586 7568 6.017605 GCATTCACTACCCATACTCAAATCAG 60.018 42.308 0.00 0.00 0.00 2.90
2587 7569 6.867519 TTCACTACCCATACTCAAATCAGA 57.132 37.500 0.00 0.00 0.00 3.27
2588 7570 7.437713 TTCACTACCCATACTCAAATCAGAT 57.562 36.000 0.00 0.00 0.00 2.90
2589 7571 8.547481 TTCACTACCCATACTCAAATCAGATA 57.453 34.615 0.00 0.00 0.00 1.98
2590 7572 8.547481 TCACTACCCATACTCAAATCAGATAA 57.453 34.615 0.00 0.00 0.00 1.75
2591 7573 8.988060 TCACTACCCATACTCAAATCAGATAAA 58.012 33.333 0.00 0.00 0.00 1.40
2592 7574 9.784531 CACTACCCATACTCAAATCAGATAAAT 57.215 33.333 0.00 0.00 0.00 1.40
2616 7598 5.995565 TTATCGGTCTAGAATATGGTGGG 57.004 43.478 0.00 0.00 0.00 4.61
2617 7599 3.323774 TCGGTCTAGAATATGGTGGGT 57.676 47.619 0.00 0.00 0.00 4.51
2618 7600 2.963101 TCGGTCTAGAATATGGTGGGTG 59.037 50.000 0.00 0.00 0.00 4.61
2619 7601 2.037251 CGGTCTAGAATATGGTGGGTGG 59.963 54.545 0.00 0.00 0.00 4.61
2620 7602 3.314693 GGTCTAGAATATGGTGGGTGGA 58.685 50.000 0.00 0.00 0.00 4.02
2621 7603 3.714798 GGTCTAGAATATGGTGGGTGGAA 59.285 47.826 0.00 0.00 0.00 3.53
2622 7604 4.202367 GGTCTAGAATATGGTGGGTGGAAG 60.202 50.000 0.00 0.00 0.00 3.46
2623 7605 3.973973 TCTAGAATATGGTGGGTGGAAGG 59.026 47.826 0.00 0.00 0.00 3.46
2624 7606 1.215423 AGAATATGGTGGGTGGAAGGC 59.785 52.381 0.00 0.00 0.00 4.35
2625 7607 1.006813 AATATGGTGGGTGGAAGGCA 58.993 50.000 0.00 0.00 0.00 4.75
2626 7608 1.234806 ATATGGTGGGTGGAAGGCAT 58.765 50.000 0.00 0.00 0.00 4.40
2627 7609 1.900254 TATGGTGGGTGGAAGGCATA 58.100 50.000 0.00 0.00 0.00 3.14
2628 7610 1.234806 ATGGTGGGTGGAAGGCATAT 58.765 50.000 0.00 0.00 0.00 1.78
2629 7611 0.258484 TGGTGGGTGGAAGGCATATG 59.742 55.000 0.00 0.00 0.00 1.78
2630 7612 0.258774 GGTGGGTGGAAGGCATATGT 59.741 55.000 4.29 0.00 0.00 2.29
2631 7613 1.680338 GTGGGTGGAAGGCATATGTC 58.320 55.000 0.00 0.00 0.00 3.06
2632 7614 0.180171 TGGGTGGAAGGCATATGTCG 59.820 55.000 4.29 0.00 0.00 4.35
2633 7615 1.166531 GGGTGGAAGGCATATGTCGC 61.167 60.000 4.29 0.00 0.00 5.19
2634 7616 0.463654 GGTGGAAGGCATATGTCGCA 60.464 55.000 4.29 0.00 0.00 5.10
2635 7617 1.597742 GTGGAAGGCATATGTCGCAT 58.402 50.000 4.29 0.00 0.00 4.73
2636 7618 2.549992 GGTGGAAGGCATATGTCGCATA 60.550 50.000 4.29 2.73 0.00 3.14
2637 7619 3.338249 GTGGAAGGCATATGTCGCATAT 58.662 45.455 4.29 6.54 0.00 1.78
2638 7620 4.503910 GTGGAAGGCATATGTCGCATATA 58.496 43.478 4.29 0.00 0.00 0.86
2639 7621 4.935205 GTGGAAGGCATATGTCGCATATAA 59.065 41.667 4.29 0.00 0.00 0.98
2640 7622 4.935205 TGGAAGGCATATGTCGCATATAAC 59.065 41.667 4.29 7.81 0.00 1.89
2641 7623 5.178797 GGAAGGCATATGTCGCATATAACT 58.821 41.667 4.29 9.35 0.00 2.24
2642 7624 6.071051 TGGAAGGCATATGTCGCATATAACTA 60.071 38.462 4.29 0.00 0.00 2.24
2643 7625 6.477033 GGAAGGCATATGTCGCATATAACTAG 59.523 42.308 4.29 0.00 0.00 2.57
2644 7626 6.531503 AGGCATATGTCGCATATAACTAGT 57.468 37.500 4.29 0.00 0.00 2.57
2645 7627 6.333416 AGGCATATGTCGCATATAACTAGTG 58.667 40.000 4.29 2.66 0.00 2.74
2646 7628 6.071334 AGGCATATGTCGCATATAACTAGTGT 60.071 38.462 4.29 0.00 0.00 3.55
2647 7629 6.590292 GGCATATGTCGCATATAACTAGTGTT 59.410 38.462 4.29 0.00 39.98 3.32
2648 7630 7.411912 GGCATATGTCGCATATAACTAGTGTTG 60.412 40.741 4.29 0.00 37.59 3.33
2649 7631 7.328493 GCATATGTCGCATATAACTAGTGTTGA 59.672 37.037 4.29 0.00 37.59 3.18
2650 7632 9.191995 CATATGTCGCATATAACTAGTGTTGAA 57.808 33.333 0.00 0.00 37.59 2.69
2651 7633 6.880822 TGTCGCATATAACTAGTGTTGAAC 57.119 37.500 0.00 0.00 37.59 3.18
2652 7634 6.391537 TGTCGCATATAACTAGTGTTGAACA 58.608 36.000 0.00 0.00 37.59 3.18
2653 7635 6.869388 TGTCGCATATAACTAGTGTTGAACAA 59.131 34.615 0.00 0.00 37.59 2.83
2654 7636 7.148705 TGTCGCATATAACTAGTGTTGAACAAC 60.149 37.037 0.00 10.28 41.50 3.32
2655 7637 6.311935 TCGCATATAACTAGTGTTGAACAACC 59.688 38.462 13.87 6.63 40.46 3.77
2656 7638 6.091577 CGCATATAACTAGTGTTGAACAACCA 59.908 38.462 13.87 1.59 40.46 3.67
2657 7639 7.241376 GCATATAACTAGTGTTGAACAACCAC 58.759 38.462 13.87 11.70 40.46 4.16
2658 7640 7.119262 GCATATAACTAGTGTTGAACAACCACT 59.881 37.037 13.87 16.64 40.46 4.00
2659 7641 9.647797 CATATAACTAGTGTTGAACAACCACTA 57.352 33.333 13.87 16.82 40.46 2.74
2660 7642 9.871238 ATATAACTAGTGTTGAACAACCACTAG 57.129 33.333 28.87 28.87 45.47 2.57
2661 7643 5.864418 ACTAGTGTTGAACAACCACTAGA 57.136 39.130 32.36 17.65 44.44 2.43
2662 7644 6.229936 ACTAGTGTTGAACAACCACTAGAA 57.770 37.500 32.36 17.25 44.44 2.10
2663 7645 6.827727 ACTAGTGTTGAACAACCACTAGAAT 58.172 36.000 32.36 21.99 44.44 2.40
2664 7646 7.959175 ACTAGTGTTGAACAACCACTAGAATA 58.041 34.615 32.36 15.43 44.44 1.75
2665 7647 8.594550 ACTAGTGTTGAACAACCACTAGAATAT 58.405 33.333 32.36 21.43 44.44 1.28
2666 7648 7.907214 AGTGTTGAACAACCACTAGAATATC 57.093 36.000 13.87 0.00 40.46 1.63
2667 7649 7.680730 AGTGTTGAACAACCACTAGAATATCT 58.319 34.615 13.87 0.00 40.46 1.98
2668 7650 8.812972 AGTGTTGAACAACCACTAGAATATCTA 58.187 33.333 13.87 0.00 40.46 1.98
2669 7651 9.601217 GTGTTGAACAACCACTAGAATATCTAT 57.399 33.333 13.87 0.00 40.46 1.98
2670 7652 9.599866 TGTTGAACAACCACTAGAATATCTATG 57.400 33.333 13.87 0.00 40.46 2.23
2671 7653 9.601217 GTTGAACAACCACTAGAATATCTATGT 57.399 33.333 0.00 0.00 35.36 2.29
2672 7654 9.599866 TTGAACAACCACTAGAATATCTATGTG 57.400 33.333 0.00 8.65 32.71 3.21
2673 7655 7.710907 TGAACAACCACTAGAATATCTATGTGC 59.289 37.037 0.00 2.36 32.15 4.57
2674 7656 6.525629 ACAACCACTAGAATATCTATGTGCC 58.474 40.000 0.00 0.00 32.15 5.01
2675 7657 5.746990 ACCACTAGAATATCTATGTGCCC 57.253 43.478 0.00 0.00 32.15 5.36
2676 7658 5.155161 ACCACTAGAATATCTATGTGCCCA 58.845 41.667 0.00 0.00 32.15 5.36
2677 7659 5.787494 ACCACTAGAATATCTATGTGCCCAT 59.213 40.000 0.00 0.00 32.15 4.00
2678 7660 6.273260 ACCACTAGAATATCTATGTGCCCATT 59.727 38.462 0.00 0.00 32.15 3.16
2679 7661 6.596888 CCACTAGAATATCTATGTGCCCATTG 59.403 42.308 0.00 0.00 32.15 2.82
2680 7662 6.093219 CACTAGAATATCTATGTGCCCATTGC 59.907 42.308 0.00 0.00 41.77 3.56
2690 7672 3.361158 CCCATTGCAACGCACGGA 61.361 61.111 0.00 0.00 38.71 4.69
2691 7673 2.176546 CCATTGCAACGCACGGAG 59.823 61.111 0.00 0.00 38.71 4.63
2692 7674 2.502510 CATTGCAACGCACGGAGC 60.503 61.111 0.00 0.00 38.71 4.70
2693 7675 2.977456 ATTGCAACGCACGGAGCA 60.977 55.556 0.00 7.43 46.13 4.26
2694 7676 3.205536 TTGCAACGCACGGAGCAA 61.206 55.556 16.67 16.67 46.13 3.91
2695 7677 2.551006 TTGCAACGCACGGAGCAAT 61.551 52.632 16.67 0.00 46.13 3.56
2696 7678 2.202349 GCAACGCACGGAGCAATC 60.202 61.111 3.06 0.00 46.13 2.67
2697 7679 2.965147 GCAACGCACGGAGCAATCA 61.965 57.895 3.06 0.00 46.13 2.57
2698 7680 1.573932 CAACGCACGGAGCAATCAA 59.426 52.632 3.06 0.00 46.13 2.57
2699 7681 0.725784 CAACGCACGGAGCAATCAAC 60.726 55.000 3.06 0.00 46.13 3.18
2700 7682 0.884704 AACGCACGGAGCAATCAACT 60.885 50.000 3.06 0.00 46.13 3.16
2701 7683 0.037697 ACGCACGGAGCAATCAACTA 60.038 50.000 3.06 0.00 46.13 2.24
2702 7684 0.647410 CGCACGGAGCAATCAACTAG 59.353 55.000 3.06 0.00 46.13 2.57
2703 7685 1.726853 GCACGGAGCAATCAACTAGT 58.273 50.000 0.00 0.00 44.79 2.57
2704 7686 2.734175 CGCACGGAGCAATCAACTAGTA 60.734 50.000 0.00 0.00 46.13 1.82
2705 7687 3.458189 GCACGGAGCAATCAACTAGTAT 58.542 45.455 0.00 0.00 44.79 2.12
2706 7688 4.617959 GCACGGAGCAATCAACTAGTATA 58.382 43.478 0.00 0.00 44.79 1.47
2707 7689 5.230942 GCACGGAGCAATCAACTAGTATAT 58.769 41.667 0.00 0.00 44.79 0.86
2708 7690 5.696724 GCACGGAGCAATCAACTAGTATATT 59.303 40.000 0.00 0.00 44.79 1.28
2709 7691 6.866770 GCACGGAGCAATCAACTAGTATATTA 59.133 38.462 0.00 0.00 44.79 0.98
2710 7692 7.545965 GCACGGAGCAATCAACTAGTATATTAT 59.454 37.037 0.00 0.00 44.79 1.28
2733 7715 7.807977 ATAAAAGAACGGCAATGATACATCT 57.192 32.000 0.00 0.00 0.00 2.90
2734 7716 5.741388 AAAGAACGGCAATGATACATCTC 57.259 39.130 0.00 0.00 0.00 2.75
2735 7717 3.733337 AGAACGGCAATGATACATCTCC 58.267 45.455 0.00 0.00 0.00 3.71
2736 7718 3.389329 AGAACGGCAATGATACATCTCCT 59.611 43.478 0.00 0.00 0.00 3.69
2737 7719 3.393089 ACGGCAATGATACATCTCCTC 57.607 47.619 0.00 0.00 0.00 3.71
2738 7720 2.968574 ACGGCAATGATACATCTCCTCT 59.031 45.455 0.00 0.00 0.00 3.69
2739 7721 3.244009 ACGGCAATGATACATCTCCTCTG 60.244 47.826 0.00 0.00 0.00 3.35
2740 7722 3.072944 GGCAATGATACATCTCCTCTGC 58.927 50.000 0.00 0.00 0.00 4.26
2741 7723 3.072944 GCAATGATACATCTCCTCTGCC 58.927 50.000 0.00 0.00 0.00 4.85
2742 7724 3.244491 GCAATGATACATCTCCTCTGCCT 60.244 47.826 0.00 0.00 0.00 4.75
2743 7725 4.567971 CAATGATACATCTCCTCTGCCTC 58.432 47.826 0.00 0.00 0.00 4.70
2744 7726 3.609256 TGATACATCTCCTCTGCCTCT 57.391 47.619 0.00 0.00 0.00 3.69
2745 7727 3.495331 TGATACATCTCCTCTGCCTCTC 58.505 50.000 0.00 0.00 0.00 3.20
2746 7728 3.117360 TGATACATCTCCTCTGCCTCTCA 60.117 47.826 0.00 0.00 0.00 3.27
2747 7729 2.244486 ACATCTCCTCTGCCTCTCAA 57.756 50.000 0.00 0.00 0.00 3.02
2748 7730 2.544721 ACATCTCCTCTGCCTCTCAAA 58.455 47.619 0.00 0.00 0.00 2.69
2749 7731 2.235898 ACATCTCCTCTGCCTCTCAAAC 59.764 50.000 0.00 0.00 0.00 2.93
2750 7732 1.270907 TCTCCTCTGCCTCTCAAACC 58.729 55.000 0.00 0.00 0.00 3.27
2751 7733 0.108424 CTCCTCTGCCTCTCAAACCG 60.108 60.000 0.00 0.00 0.00 4.44
2752 7734 1.743252 CCTCTGCCTCTCAAACCGC 60.743 63.158 0.00 0.00 0.00 5.68
2753 7735 1.743252 CTCTGCCTCTCAAACCGCC 60.743 63.158 0.00 0.00 0.00 6.13
2754 7736 2.177594 CTCTGCCTCTCAAACCGCCT 62.178 60.000 0.00 0.00 0.00 5.52
2755 7737 0.902984 TCTGCCTCTCAAACCGCCTA 60.903 55.000 0.00 0.00 0.00 3.93
2756 7738 0.179000 CTGCCTCTCAAACCGCCTAT 59.821 55.000 0.00 0.00 0.00 2.57
2757 7739 0.178068 TGCCTCTCAAACCGCCTATC 59.822 55.000 0.00 0.00 0.00 2.08
2758 7740 0.178068 GCCTCTCAAACCGCCTATCA 59.822 55.000 0.00 0.00 0.00 2.15
2759 7741 1.406887 GCCTCTCAAACCGCCTATCAA 60.407 52.381 0.00 0.00 0.00 2.57
2760 7742 2.555199 CCTCTCAAACCGCCTATCAAG 58.445 52.381 0.00 0.00 0.00 3.02
2761 7743 2.093447 CCTCTCAAACCGCCTATCAAGT 60.093 50.000 0.00 0.00 0.00 3.16
2762 7744 3.190874 CTCTCAAACCGCCTATCAAGTC 58.809 50.000 0.00 0.00 0.00 3.01
2763 7745 2.832129 TCTCAAACCGCCTATCAAGTCT 59.168 45.455 0.00 0.00 0.00 3.24
2764 7746 3.119101 TCTCAAACCGCCTATCAAGTCTC 60.119 47.826 0.00 0.00 0.00 3.36
2806 7788 1.636003 CTTCCTAGGCCCCAACTCTTT 59.364 52.381 2.96 0.00 0.00 2.52
2822 7804 9.191995 CCCAACTCTTTTAAATTTACATGTGTC 57.808 33.333 9.11 0.00 0.00 3.67
2909 7891 6.369065 ACTTGACACTCGGTTTAAGATTCATC 59.631 38.462 0.00 0.00 31.94 2.92
2926 7908 7.253422 AGATTCATCCATCAACTTTAAAAGCG 58.747 34.615 0.00 0.00 0.00 4.68
2978 7960 1.477553 CATGAATCAACCCCCACCTG 58.522 55.000 0.00 0.00 0.00 4.00
3139 8121 3.381590 GGGGTTCCAAGAAAGCATATCAC 59.618 47.826 0.00 0.00 0.00 3.06
3165 8147 0.471617 ATCTGCTAGGGCACATGGAC 59.528 55.000 0.00 0.00 44.28 4.02
3169 8151 3.371097 CTAGGGCACATGGACGCGT 62.371 63.158 13.85 13.85 0.00 6.01
3175 8157 1.372872 CACATGGACGCGTGAGTCA 60.373 57.895 20.70 10.21 42.62 3.41
3192 8174 3.502455 AGCGACATGTGCATGCGG 61.502 61.111 14.09 5.07 42.39 5.69
3213 8195 1.084289 GCCTACAACCAACCATCGAC 58.916 55.000 0.00 0.00 0.00 4.20
3231 8213 0.832135 ACGCCTCAAGGAGACCTTCA 60.832 55.000 6.81 0.00 42.67 3.02
3233 8215 0.687354 GCCTCAAGGAGACCTTCACA 59.313 55.000 0.00 0.00 42.67 3.58
3234 8216 1.280421 GCCTCAAGGAGACCTTCACAT 59.720 52.381 0.00 0.00 42.67 3.21
3236 8218 2.568956 CCTCAAGGAGACCTTCACATGA 59.431 50.000 0.00 0.00 42.67 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
744 1728 6.126409 GTGGTATAAAATCAATCAGGTCCCA 58.874 40.000 0.00 0.00 0.00 4.37
885 1920 2.814919 TGATAACACCAAAATCGGCGTT 59.185 40.909 6.85 0.00 35.52 4.84
895 1930 8.954950 AATTTGTTTGTGATTGATAACACCAA 57.045 26.923 0.00 0.00 36.35 3.67
987 2023 1.100510 CCGTGTCTCTGGGTCGATAA 58.899 55.000 0.00 0.00 0.00 1.75
1213 2253 2.959372 ACGAATCGTCCACGCAGA 59.041 55.556 0.96 0.00 33.69 4.26
1295 2338 1.006102 AGCCGACGAACCTCTTGTG 60.006 57.895 0.00 0.00 0.00 3.33
1350 2393 0.809385 GTTGACGATCACGAGGGAGA 59.191 55.000 0.00 0.00 42.66 3.71
1439 2505 3.732849 CTGGAGGTGGGGGCTTCC 61.733 72.222 0.00 0.00 35.46 3.46
1505 2571 4.705519 CGGCCGCCAACTTTGCAG 62.706 66.667 14.67 0.00 0.00 4.41
1792 3699 1.684983 TCTTGAAGAAAGGGTCGACGT 59.315 47.619 9.92 0.00 36.46 4.34
1795 3702 4.283467 TGAAGATCTTGAAGAAAGGGTCGA 59.717 41.667 14.00 0.00 36.46 4.20
1796 3703 4.390297 GTGAAGATCTTGAAGAAAGGGTCG 59.610 45.833 14.00 0.00 36.46 4.79
1797 3704 4.390297 CGTGAAGATCTTGAAGAAAGGGTC 59.610 45.833 14.00 0.00 36.46 4.46
1886 3916 1.528309 CCCCAAGAACAAGGCGTGT 60.528 57.895 0.00 0.00 44.64 4.49
1990 6783 2.070783 GCAACTCATTTGTTGGGCATG 58.929 47.619 9.04 0.00 45.19 4.06
2055 6851 6.149474 ACACTTTGGTCTATTCTGCAATACAC 59.851 38.462 0.00 0.00 0.00 2.90
2097 6893 3.766676 CGTGAGGTGATATCCTATCCG 57.233 52.381 0.00 0.00 38.02 4.18
2261 7243 2.354203 GGAAGGCGACTGAATCAACTCT 60.354 50.000 0.00 0.00 42.68 3.24
2273 7255 1.950973 GAGTGAGGAGGGAAGGCGAC 61.951 65.000 0.00 0.00 0.00 5.19
2343 7325 2.027653 TGGCATCGGTTGACAGTATCAA 60.028 45.455 0.00 0.00 45.39 2.57
2344 7326 1.552792 TGGCATCGGTTGACAGTATCA 59.447 47.619 0.00 0.00 38.92 2.15
2345 7327 2.309528 TGGCATCGGTTGACAGTATC 57.690 50.000 0.00 0.00 38.92 2.24
2351 7333 1.234821 TTTGTCTGGCATCGGTTGAC 58.765 50.000 0.00 0.00 0.00 3.18
2428 7410 7.463544 TGAGTTAATGCATGACGTGATTTTAG 58.536 34.615 0.00 0.00 0.00 1.85
2530 7512 9.999660 AAAAGTTTGGTTTAGTTGAGGTTTTAA 57.000 25.926 0.00 0.00 0.00 1.52
2531 7513 9.642327 GAAAAGTTTGGTTTAGTTGAGGTTTTA 57.358 29.630 0.00 0.00 0.00 1.52
2539 7521 5.814705 TGCCATGAAAAGTTTGGTTTAGTTG 59.185 36.000 0.00 0.00 32.90 3.16
2540 7522 5.983540 TGCCATGAAAAGTTTGGTTTAGTT 58.016 33.333 0.00 0.00 32.90 2.24
2590 7572 8.705594 CCCACCATATTCTAGACCGATAATATT 58.294 37.037 0.00 0.00 0.00 1.28
2591 7573 7.844779 ACCCACCATATTCTAGACCGATAATAT 59.155 37.037 0.00 0.00 0.00 1.28
2592 7574 7.123697 CACCCACCATATTCTAGACCGATAATA 59.876 40.741 0.00 0.00 0.00 0.98
2593 7575 6.023603 ACCCACCATATTCTAGACCGATAAT 58.976 40.000 0.00 0.00 0.00 1.28
2594 7576 5.245301 CACCCACCATATTCTAGACCGATAA 59.755 44.000 0.00 0.00 0.00 1.75
2595 7577 4.770531 CACCCACCATATTCTAGACCGATA 59.229 45.833 0.00 0.00 0.00 2.92
2596 7578 3.578716 CACCCACCATATTCTAGACCGAT 59.421 47.826 0.00 0.00 0.00 4.18
2597 7579 2.963101 CACCCACCATATTCTAGACCGA 59.037 50.000 0.00 0.00 0.00 4.69
2598 7580 2.037251 CCACCCACCATATTCTAGACCG 59.963 54.545 0.00 0.00 0.00 4.79
2599 7581 3.314693 TCCACCCACCATATTCTAGACC 58.685 50.000 0.00 0.00 0.00 3.85
2600 7582 4.202367 CCTTCCACCCACCATATTCTAGAC 60.202 50.000 0.00 0.00 0.00 2.59
2601 7583 3.973973 CCTTCCACCCACCATATTCTAGA 59.026 47.826 0.00 0.00 0.00 2.43
2602 7584 3.496870 GCCTTCCACCCACCATATTCTAG 60.497 52.174 0.00 0.00 0.00 2.43
2603 7585 2.441750 GCCTTCCACCCACCATATTCTA 59.558 50.000 0.00 0.00 0.00 2.10
2604 7586 1.215423 GCCTTCCACCCACCATATTCT 59.785 52.381 0.00 0.00 0.00 2.40
2605 7587 1.064017 TGCCTTCCACCCACCATATTC 60.064 52.381 0.00 0.00 0.00 1.75
2606 7588 1.006813 TGCCTTCCACCCACCATATT 58.993 50.000 0.00 0.00 0.00 1.28
2607 7589 1.234806 ATGCCTTCCACCCACCATAT 58.765 50.000 0.00 0.00 0.00 1.78
2608 7590 1.900254 TATGCCTTCCACCCACCATA 58.100 50.000 0.00 0.00 0.00 2.74
2609 7591 1.133388 CATATGCCTTCCACCCACCAT 60.133 52.381 0.00 0.00 0.00 3.55
2610 7592 0.258484 CATATGCCTTCCACCCACCA 59.742 55.000 0.00 0.00 0.00 4.17
2611 7593 0.258774 ACATATGCCTTCCACCCACC 59.741 55.000 1.58 0.00 0.00 4.61
2612 7594 1.680338 GACATATGCCTTCCACCCAC 58.320 55.000 1.58 0.00 0.00 4.61
2613 7595 0.180171 CGACATATGCCTTCCACCCA 59.820 55.000 1.58 0.00 0.00 4.51
2614 7596 1.166531 GCGACATATGCCTTCCACCC 61.167 60.000 1.58 0.00 0.00 4.61
2615 7597 0.463654 TGCGACATATGCCTTCCACC 60.464 55.000 1.58 0.00 0.00 4.61
2616 7598 1.597742 ATGCGACATATGCCTTCCAC 58.402 50.000 1.58 0.00 0.00 4.02
2617 7599 3.701205 ATATGCGACATATGCCTTCCA 57.299 42.857 1.58 0.00 0.00 3.53
2618 7600 5.178797 AGTTATATGCGACATATGCCTTCC 58.821 41.667 17.27 0.00 0.00 3.46
2619 7601 7.009631 CACTAGTTATATGCGACATATGCCTTC 59.990 40.741 17.27 0.00 0.00 3.46
2620 7602 6.813649 CACTAGTTATATGCGACATATGCCTT 59.186 38.462 17.27 7.40 0.00 4.35
2621 7603 6.071334 ACACTAGTTATATGCGACATATGCCT 60.071 38.462 17.27 14.73 0.00 4.75
2622 7604 6.100004 ACACTAGTTATATGCGACATATGCC 58.900 40.000 17.27 10.31 0.00 4.40
2623 7605 7.328493 TCAACACTAGTTATATGCGACATATGC 59.672 37.037 17.27 11.97 35.85 3.14
2624 7606 8.742554 TCAACACTAGTTATATGCGACATATG 57.257 34.615 17.27 0.00 35.85 1.78
2625 7607 9.193133 GTTCAACACTAGTTATATGCGACATAT 57.807 33.333 14.08 14.08 35.85 1.78
2626 7608 8.192110 TGTTCAACACTAGTTATATGCGACATA 58.808 33.333 0.00 0.00 35.85 2.29
2627 7609 7.039270 TGTTCAACACTAGTTATATGCGACAT 58.961 34.615 0.00 0.00 35.85 3.06
2628 7610 6.391537 TGTTCAACACTAGTTATATGCGACA 58.608 36.000 0.00 0.00 35.85 4.35
2629 7611 6.880822 TGTTCAACACTAGTTATATGCGAC 57.119 37.500 0.00 0.00 35.85 5.19
2630 7612 6.311935 GGTTGTTCAACACTAGTTATATGCGA 59.688 38.462 15.89 0.00 35.85 5.10
2631 7613 6.091577 TGGTTGTTCAACACTAGTTATATGCG 59.908 38.462 15.89 0.00 35.85 4.73
2632 7614 7.119262 AGTGGTTGTTCAACACTAGTTATATGC 59.881 37.037 15.89 0.00 43.13 3.14
2633 7615 8.547967 AGTGGTTGTTCAACACTAGTTATATG 57.452 34.615 15.89 0.00 43.13 1.78
2641 7623 8.812972 AGATATTCTAGTGGTTGTTCAACACTA 58.187 33.333 15.89 16.97 43.13 2.74
2642 7624 7.680730 AGATATTCTAGTGGTTGTTCAACACT 58.319 34.615 15.89 16.80 46.30 3.55
2643 7625 7.907214 AGATATTCTAGTGGTTGTTCAACAC 57.093 36.000 15.89 11.92 35.43 3.32
2644 7626 9.599866 CATAGATATTCTAGTGGTTGTTCAACA 57.400 33.333 15.89 0.00 31.67 3.33
2645 7627 9.601217 ACATAGATATTCTAGTGGTTGTTCAAC 57.399 33.333 7.09 7.09 31.67 3.18
2646 7628 9.599866 CACATAGATATTCTAGTGGTTGTTCAA 57.400 33.333 0.00 0.00 31.67 2.69
2647 7629 7.710907 GCACATAGATATTCTAGTGGTTGTTCA 59.289 37.037 12.10 0.00 33.13 3.18
2648 7630 7.171678 GGCACATAGATATTCTAGTGGTTGTTC 59.828 40.741 12.10 0.00 33.13 3.18
2649 7631 6.992715 GGCACATAGATATTCTAGTGGTTGTT 59.007 38.462 12.10 0.00 33.13 2.83
2650 7632 6.464465 GGGCACATAGATATTCTAGTGGTTGT 60.464 42.308 12.10 1.48 33.13 3.32
2651 7633 5.934625 GGGCACATAGATATTCTAGTGGTTG 59.065 44.000 12.10 1.02 33.13 3.77
2652 7634 5.606749 TGGGCACATAGATATTCTAGTGGTT 59.393 40.000 0.00 0.00 33.13 3.67
2653 7635 5.155161 TGGGCACATAGATATTCTAGTGGT 58.845 41.667 0.00 1.12 33.13 4.16
2654 7636 5.745312 TGGGCACATAGATATTCTAGTGG 57.255 43.478 0.00 0.68 33.13 4.00
2655 7637 6.093219 GCAATGGGCACATAGATATTCTAGTG 59.907 42.308 0.00 0.00 43.97 2.74
2656 7638 6.176183 GCAATGGGCACATAGATATTCTAGT 58.824 40.000 0.00 0.00 43.97 2.57
2657 7639 6.674694 GCAATGGGCACATAGATATTCTAG 57.325 41.667 0.00 0.00 43.97 2.43
2673 7655 3.326889 CTCCGTGCGTTGCAATGGG 62.327 63.158 19.93 12.62 41.47 4.00
2674 7656 2.176546 CTCCGTGCGTTGCAATGG 59.823 61.111 19.93 8.34 41.47 3.16
2675 7657 2.502510 GCTCCGTGCGTTGCAATG 60.503 61.111 14.54 14.54 41.47 2.82
2676 7658 1.865788 ATTGCTCCGTGCGTTGCAAT 61.866 50.000 19.94 19.94 46.73 3.56
2677 7659 3.205536 TTGCTCCGTGCGTTGCAA 61.206 55.556 13.99 13.99 46.63 4.08
2678 7660 2.965147 GATTGCTCCGTGCGTTGCA 61.965 57.895 5.06 5.06 46.63 4.08
2679 7661 2.202349 GATTGCTCCGTGCGTTGC 60.202 61.111 0.00 0.00 46.63 4.17
2680 7662 0.725784 GTTGATTGCTCCGTGCGTTG 60.726 55.000 0.00 0.00 46.63 4.10
2681 7663 0.884704 AGTTGATTGCTCCGTGCGTT 60.885 50.000 0.00 0.00 46.63 4.84
2682 7664 0.037697 TAGTTGATTGCTCCGTGCGT 60.038 50.000 0.00 0.00 46.63 5.24
2683 7665 0.647410 CTAGTTGATTGCTCCGTGCG 59.353 55.000 0.00 0.00 46.63 5.34
2684 7666 1.726853 ACTAGTTGATTGCTCCGTGC 58.273 50.000 0.00 0.00 43.25 5.34
2685 7667 8.988064 ATAATATACTAGTTGATTGCTCCGTG 57.012 34.615 0.00 0.00 0.00 4.94
2707 7689 9.337396 AGATGTATCATTGCCGTTCTTTTATAA 57.663 29.630 0.00 0.00 0.00 0.98
2708 7690 8.902540 AGATGTATCATTGCCGTTCTTTTATA 57.097 30.769 0.00 0.00 0.00 0.98
2709 7691 7.041098 GGAGATGTATCATTGCCGTTCTTTTAT 60.041 37.037 0.00 0.00 0.00 1.40
2710 7692 6.260050 GGAGATGTATCATTGCCGTTCTTTTA 59.740 38.462 0.00 0.00 0.00 1.52
2711 7693 5.066505 GGAGATGTATCATTGCCGTTCTTTT 59.933 40.000 0.00 0.00 0.00 2.27
2712 7694 4.576463 GGAGATGTATCATTGCCGTTCTTT 59.424 41.667 0.00 0.00 0.00 2.52
2713 7695 4.130118 GGAGATGTATCATTGCCGTTCTT 58.870 43.478 0.00 0.00 0.00 2.52
2714 7696 3.389329 AGGAGATGTATCATTGCCGTTCT 59.611 43.478 0.00 0.00 0.00 3.01
2715 7697 3.733337 AGGAGATGTATCATTGCCGTTC 58.267 45.455 0.00 0.00 0.00 3.95
2716 7698 3.389329 AGAGGAGATGTATCATTGCCGTT 59.611 43.478 0.00 0.00 0.00 4.44
2717 7699 2.968574 AGAGGAGATGTATCATTGCCGT 59.031 45.455 0.00 0.00 0.00 5.68
2718 7700 3.324117 CAGAGGAGATGTATCATTGCCG 58.676 50.000 0.00 0.00 0.00 5.69
2719 7701 3.072944 GCAGAGGAGATGTATCATTGCC 58.927 50.000 0.00 0.00 0.00 4.52
2720 7702 3.072944 GGCAGAGGAGATGTATCATTGC 58.927 50.000 0.00 0.00 0.00 3.56
2721 7703 4.283978 AGAGGCAGAGGAGATGTATCATTG 59.716 45.833 0.00 0.00 0.00 2.82
2722 7704 4.491675 AGAGGCAGAGGAGATGTATCATT 58.508 43.478 0.00 0.00 0.00 2.57
2723 7705 4.088634 GAGAGGCAGAGGAGATGTATCAT 58.911 47.826 0.00 0.00 0.00 2.45
2724 7706 3.117360 TGAGAGGCAGAGGAGATGTATCA 60.117 47.826 0.00 0.00 0.00 2.15
2725 7707 3.495331 TGAGAGGCAGAGGAGATGTATC 58.505 50.000 0.00 0.00 0.00 2.24
2726 7708 3.609256 TGAGAGGCAGAGGAGATGTAT 57.391 47.619 0.00 0.00 0.00 2.29
2727 7709 3.388552 TTGAGAGGCAGAGGAGATGTA 57.611 47.619 0.00 0.00 0.00 2.29
2728 7710 2.235898 GTTTGAGAGGCAGAGGAGATGT 59.764 50.000 0.00 0.00 0.00 3.06
2729 7711 2.419851 GGTTTGAGAGGCAGAGGAGATG 60.420 54.545 0.00 0.00 0.00 2.90
2730 7712 1.836802 GGTTTGAGAGGCAGAGGAGAT 59.163 52.381 0.00 0.00 0.00 2.75
2731 7713 1.270907 GGTTTGAGAGGCAGAGGAGA 58.729 55.000 0.00 0.00 0.00 3.71
2732 7714 0.108424 CGGTTTGAGAGGCAGAGGAG 60.108 60.000 0.00 0.00 0.00 3.69
2733 7715 1.975327 CGGTTTGAGAGGCAGAGGA 59.025 57.895 0.00 0.00 0.00 3.71
2734 7716 1.743252 GCGGTTTGAGAGGCAGAGG 60.743 63.158 0.00 0.00 0.00 3.69
2735 7717 1.743252 GGCGGTTTGAGAGGCAGAG 60.743 63.158 0.00 0.00 0.00 3.35
2736 7718 0.902984 TAGGCGGTTTGAGAGGCAGA 60.903 55.000 0.00 0.00 0.00 4.26
2737 7719 0.179000 ATAGGCGGTTTGAGAGGCAG 59.821 55.000 0.00 0.00 0.00 4.85
2738 7720 0.178068 GATAGGCGGTTTGAGAGGCA 59.822 55.000 0.00 0.00 0.00 4.75
2739 7721 0.178068 TGATAGGCGGTTTGAGAGGC 59.822 55.000 0.00 0.00 0.00 4.70
2740 7722 2.093447 ACTTGATAGGCGGTTTGAGAGG 60.093 50.000 0.00 0.00 0.00 3.69
2741 7723 3.118956 AGACTTGATAGGCGGTTTGAGAG 60.119 47.826 0.00 0.00 33.24 3.20
2742 7724 2.832129 AGACTTGATAGGCGGTTTGAGA 59.168 45.455 0.00 0.00 33.24 3.27
2743 7725 3.190874 GAGACTTGATAGGCGGTTTGAG 58.809 50.000 0.00 0.00 33.24 3.02
2744 7726 2.565391 TGAGACTTGATAGGCGGTTTGA 59.435 45.455 0.00 0.00 33.24 2.69
2745 7727 2.972625 TGAGACTTGATAGGCGGTTTG 58.027 47.619 0.00 0.00 33.24 2.93
2746 7728 3.432326 GGATGAGACTTGATAGGCGGTTT 60.432 47.826 0.00 0.00 33.24 3.27
2747 7729 2.103263 GGATGAGACTTGATAGGCGGTT 59.897 50.000 0.00 0.00 33.24 4.44
2748 7730 1.689273 GGATGAGACTTGATAGGCGGT 59.311 52.381 0.00 0.00 33.24 5.68
2749 7731 1.967066 AGGATGAGACTTGATAGGCGG 59.033 52.381 0.00 0.00 33.24 6.13
2750 7732 5.398603 AATAGGATGAGACTTGATAGGCG 57.601 43.478 0.00 0.00 33.24 5.52
2751 7733 7.763528 CACATAATAGGATGAGACTTGATAGGC 59.236 40.741 0.00 0.00 0.00 3.93
2752 7734 8.811017 ACACATAATAGGATGAGACTTGATAGG 58.189 37.037 0.00 0.00 0.00 2.57
2754 7736 9.987272 CAACACATAATAGGATGAGACTTGATA 57.013 33.333 0.00 0.00 0.00 2.15
2755 7737 7.443575 GCAACACATAATAGGATGAGACTTGAT 59.556 37.037 0.00 0.00 0.00 2.57
2756 7738 6.763135 GCAACACATAATAGGATGAGACTTGA 59.237 38.462 0.00 0.00 0.00 3.02
2757 7739 6.539826 TGCAACACATAATAGGATGAGACTTG 59.460 38.462 0.00 0.00 0.00 3.16
2758 7740 6.653020 TGCAACACATAATAGGATGAGACTT 58.347 36.000 0.00 0.00 0.00 3.01
2759 7741 6.239217 TGCAACACATAATAGGATGAGACT 57.761 37.500 0.00 0.00 0.00 3.24
2760 7742 6.925610 TTGCAACACATAATAGGATGAGAC 57.074 37.500 0.00 0.00 0.00 3.36
2761 7743 7.994911 AGATTTGCAACACATAATAGGATGAGA 59.005 33.333 0.00 0.00 0.00 3.27
2762 7744 8.162878 AGATTTGCAACACATAATAGGATGAG 57.837 34.615 0.00 0.00 0.00 2.90
2763 7745 8.523915 AAGATTTGCAACACATAATAGGATGA 57.476 30.769 0.00 0.00 0.00 2.92
2764 7746 7.864379 GGAAGATTTGCAACACATAATAGGATG 59.136 37.037 0.00 0.00 0.00 3.51
2779 7761 0.258774 GGGGCCTAGGAAGATTTGCA 59.741 55.000 14.75 0.00 0.00 4.08
2822 7804 8.021955 TCAAATGCTATTGACAATATCTAGCG 57.978 34.615 8.32 0.00 35.02 4.26
2863 7845 9.967451 TCAAGTTTAGGATTGTAATATGGACAA 57.033 29.630 6.04 6.04 40.88 3.18
2909 7891 3.058501 ACGACCGCTTTTAAAGTTGATGG 60.059 43.478 6.57 4.11 0.00 3.51
2924 7906 4.736896 GGGGTGTGAGACGACCGC 62.737 72.222 0.00 0.00 37.94 5.68
2926 7908 2.567497 TTCGGGGTGTGAGACGACC 61.567 63.158 0.00 0.00 34.82 4.79
2996 7978 1.388065 CGGTGCCCAAGTCAAAACCA 61.388 55.000 0.00 0.00 0.00 3.67
3009 7991 5.043672 TCAAAATATGATGTGGCGGTGCC 62.044 47.826 0.00 0.00 40.51 5.01
3076 8058 0.320247 GCACTCCATCCTCGCCATAG 60.320 60.000 0.00 0.00 0.00 2.23
3099 8081 3.100545 CATGTACAGGGGTCATGGC 57.899 57.895 0.33 0.00 36.36 4.40
3169 8151 0.037046 ATGCACATGTCGCTGACTCA 60.037 50.000 17.30 1.63 33.15 3.41
3175 8157 3.502455 CCGCATGCACATGTCGCT 61.502 61.111 19.57 4.85 40.80 4.93
3192 8174 1.029947 CGATGGTTGGTTGTAGGCCC 61.030 60.000 0.00 0.00 0.00 5.80
3197 8179 0.671163 GGCGTCGATGGTTGGTTGTA 60.671 55.000 6.79 0.00 0.00 2.41
3213 8195 0.390472 GTGAAGGTCTCCTTGAGGCG 60.390 60.000 5.73 0.00 44.82 5.52
3231 8213 3.281158 TCATTGGTCGATTGCATCATGT 58.719 40.909 0.00 0.00 0.00 3.21
3233 8215 3.562973 GTCTCATTGGTCGATTGCATCAT 59.437 43.478 0.00 0.00 0.00 2.45
3234 8216 2.938451 GTCTCATTGGTCGATTGCATCA 59.062 45.455 0.00 0.00 0.00 3.07
3236 8218 1.935873 CGTCTCATTGGTCGATTGCAT 59.064 47.619 0.00 0.00 0.00 3.96


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

AutoCloner maintained by Alex Coulton.