Multiple sequence alignment - TraesCS1D01G313400

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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 TraesCS1D01G313400 chr1D 100.000 2546 0 0 1 2546 408744199 408746744 0.000000e+00 4702.0
1 TraesCS1D01G313400 chr1D 90.351 912 35 13 887 1776 408613079 408613959 0.000000e+00 1147.0
2 TraesCS1D01G313400 chr1D 79.968 629 71 16 1914 2520 282178764 282179359 1.820000e-111 412.0
3 TraesCS1D01G313400 chr1A 93.477 1671 71 12 887 2546 504702472 504704115 0.000000e+00 2447.0
4 TraesCS1D01G313400 chr2D 97.083 857 23 2 32 887 31861647 31862502 0.000000e+00 1443.0
5 TraesCS1D01G313400 chr2D 80.974 657 61 24 1917 2523 553727165 553726523 1.780000e-126 462.0
6 TraesCS1D01G313400 chr2D 86.824 296 34 5 32 324 346082896 346082603 2.440000e-85 326.0
7 TraesCS1D01G313400 chr2D 87.843 255 24 5 635 888 346080123 346079875 2.480000e-75 292.0
8 TraesCS1D01G313400 chr1B 90.999 911 47 11 887 1775 550035495 550036392 0.000000e+00 1195.0
9 TraesCS1D01G313400 chr1B 91.769 571 43 4 1302 1869 550038877 550039446 0.000000e+00 791.0
10 TraesCS1D01G313400 chr1B 82.803 628 77 14 1917 2522 329210405 329209787 1.340000e-147 532.0
11 TraesCS1D01G313400 chr1B 94.054 185 10 1 2363 2546 550039845 550040029 1.930000e-71 279.0
12 TraesCS1D01G313400 chr3A 94.059 505 16 4 28 531 730908078 730907587 0.000000e+00 754.0
13 TraesCS1D01G313400 chr3A 95.793 309 12 1 578 886 730905583 730905276 4.890000e-137 497.0
14 TraesCS1D01G313400 chr3A 97.015 67 2 0 523 589 730906930 730906864 2.070000e-21 113.0
15 TraesCS1D01G313400 chr5D 84.335 632 66 9 1914 2522 348265983 348265362 2.820000e-164 588.0
16 TraesCS1D01G313400 chr5D 80.110 729 74 19 887 1547 490982284 490981559 6.370000e-131 477.0
17 TraesCS1D01G313400 chr5D 81.144 472 58 13 1017 1459 491682629 491683098 1.450000e-92 350.0
18 TraesCS1D01G313400 chr5D 83.944 355 51 5 1223 1573 491727901 491728253 4.060000e-88 335.0
19 TraesCS1D01G313400 chr5D 84.451 328 45 4 1223 1547 490977004 490976680 4.090000e-83 318.0
20 TraesCS1D01G313400 chr5D 85.424 295 13 2 887 1151 490977432 490977138 1.930000e-71 279.0
21 TraesCS1D01G313400 chr5D 87.281 228 14 8 939 1151 491727540 491727767 1.960000e-61 246.0
22 TraesCS1D01G313400 chr5A 84.286 630 65 10 1914 2522 448554905 448554289 3.650000e-163 584.0
23 TraesCS1D01G313400 chr7A 84.102 629 69 16 1915 2522 556484290 556483672 1.700000e-161 579.0
24 TraesCS1D01G313400 chr7A 85.084 476 50 5 2067 2522 712250847 712251321 1.380000e-127 466.0
25 TraesCS1D01G313400 chr7A 79.152 566 68 27 32 576 90519973 90520509 1.880000e-91 346.0
26 TraesCS1D01G313400 chr7A 85.145 276 30 4 1953 2224 20167541 20167273 3.230000e-69 272.0
27 TraesCS1D01G313400 chr3B 83.949 623 73 11 1917 2520 658461384 658460770 2.840000e-159 571.0
28 TraesCS1D01G313400 chr4A 83.467 623 66 17 1914 2509 729171353 729171965 1.720000e-151 545.0
29 TraesCS1D01G313400 chr4A 88.148 270 19 7 1958 2224 712859626 712859367 2.460000e-80 309.0
30 TraesCS1D01G313400 chr2B 82.993 588 75 13 1932 2514 236778905 236779472 2.260000e-140 508.0
31 TraesCS1D01G313400 chr3D 83.808 562 57 17 1981 2522 583388617 583388070 1.050000e-138 503.0
32 TraesCS1D01G313400 chr5B 80.711 731 68 32 887 1549 606829125 606829850 3.780000e-138 501.0
33 TraesCS1D01G313400 chr5B 79.899 597 85 18 1932 2522 640560439 640559872 3.050000e-109 405.0
34 TraesCS1D01G313400 chr5B 82.857 385 57 7 1175 1555 605627022 605626643 1.130000e-88 337.0
35 TraesCS1D01G313400 chr5B 83.881 335 47 5 1223 1554 605608497 605608167 1.900000e-81 313.0
36 TraesCS1D01G313400 chr5B 85.315 286 21 13 887 1151 605531809 605531524 2.500000e-70 276.0
37 TraesCS1D01G313400 chr5B 84.983 293 13 12 890 1151 605608922 605608630 4.180000e-68 268.0
38 TraesCS1D01G313400 chr5B 84.106 302 14 6 887 1154 605627376 605627075 6.990000e-66 261.0
39 TraesCS1D01G313400 chr7B 86.047 430 47 7 1914 2337 45178373 45177951 1.390000e-122 449.0
40 TraesCS1D01G313400 chr7B 81.982 222 27 10 1914 2131 523098093 523098305 2.600000e-40 176.0
41 TraesCS1D01G313400 chr7D 85.559 367 34 1 2169 2516 612329558 612329924 1.440000e-97 366.0
42 TraesCS1D01G313400 chr7D 89.130 276 20 4 1951 2224 20043944 20043677 4.060000e-88 335.0
43 TraesCS1D01G313400 chr7D 88.506 87 9 1 1831 1917 495104215 495104300 1.250000e-18 104.0
44 TraesCS1D01G313400 chr7D 92.188 64 5 0 824 887 19281619 19281682 9.700000e-15 91.6
45 TraesCS1D01G313400 chr4D 78.537 629 58 19 1917 2522 432460827 432460253 2.430000e-90 342.0


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 TraesCS1D01G313400 chr1D 408744199 408746744 2545 False 4702.000000 4702 100.000000 1 2546 1 chr1D.!!$F3 2545
1 TraesCS1D01G313400 chr1D 408613079 408613959 880 False 1147.000000 1147 90.351000 887 1776 1 chr1D.!!$F2 889
2 TraesCS1D01G313400 chr1D 282178764 282179359 595 False 412.000000 412 79.968000 1914 2520 1 chr1D.!!$F1 606
3 TraesCS1D01G313400 chr1A 504702472 504704115 1643 False 2447.000000 2447 93.477000 887 2546 1 chr1A.!!$F1 1659
4 TraesCS1D01G313400 chr2D 31861647 31862502 855 False 1443.000000 1443 97.083000 32 887 1 chr2D.!!$F1 855
5 TraesCS1D01G313400 chr2D 553726523 553727165 642 True 462.000000 462 80.974000 1917 2523 1 chr2D.!!$R1 606
6 TraesCS1D01G313400 chr2D 346079875 346082896 3021 True 309.000000 326 87.333500 32 888 2 chr2D.!!$R2 856
7 TraesCS1D01G313400 chr1B 550035495 550040029 4534 False 755.000000 1195 92.274000 887 2546 3 chr1B.!!$F1 1659
8 TraesCS1D01G313400 chr1B 329209787 329210405 618 True 532.000000 532 82.803000 1917 2522 1 chr1B.!!$R1 605
9 TraesCS1D01G313400 chr3A 730905276 730908078 2802 True 454.666667 754 95.622333 28 886 3 chr3A.!!$R1 858
10 TraesCS1D01G313400 chr5D 348265362 348265983 621 True 588.000000 588 84.335000 1914 2522 1 chr5D.!!$R1 608
11 TraesCS1D01G313400 chr5D 490981559 490982284 725 True 477.000000 477 80.110000 887 1547 1 chr5D.!!$R2 660
12 TraesCS1D01G313400 chr5D 490976680 490977432 752 True 298.500000 318 84.937500 887 1547 2 chr5D.!!$R3 660
13 TraesCS1D01G313400 chr5D 491727540 491728253 713 False 290.500000 335 85.612500 939 1573 2 chr5D.!!$F2 634
14 TraesCS1D01G313400 chr5A 448554289 448554905 616 True 584.000000 584 84.286000 1914 2522 1 chr5A.!!$R1 608
15 TraesCS1D01G313400 chr7A 556483672 556484290 618 True 579.000000 579 84.102000 1915 2522 1 chr7A.!!$R2 607
16 TraesCS1D01G313400 chr7A 90519973 90520509 536 False 346.000000 346 79.152000 32 576 1 chr7A.!!$F1 544
17 TraesCS1D01G313400 chr3B 658460770 658461384 614 True 571.000000 571 83.949000 1917 2520 1 chr3B.!!$R1 603
18 TraesCS1D01G313400 chr4A 729171353 729171965 612 False 545.000000 545 83.467000 1914 2509 1 chr4A.!!$F1 595
19 TraesCS1D01G313400 chr2B 236778905 236779472 567 False 508.000000 508 82.993000 1932 2514 1 chr2B.!!$F1 582
20 TraesCS1D01G313400 chr3D 583388070 583388617 547 True 503.000000 503 83.808000 1981 2522 1 chr3D.!!$R1 541
21 TraesCS1D01G313400 chr5B 606829125 606829850 725 False 501.000000 501 80.711000 887 1549 1 chr5B.!!$F1 662
22 TraesCS1D01G313400 chr5B 640559872 640560439 567 True 405.000000 405 79.899000 1932 2522 1 chr5B.!!$R2 590
23 TraesCS1D01G313400 chr5B 605626643 605627376 733 True 299.000000 337 83.481500 887 1555 2 chr5B.!!$R4 668
24 TraesCS1D01G313400 chr5B 605608167 605608922 755 True 290.500000 313 84.432000 890 1554 2 chr5B.!!$R3 664
25 TraesCS1D01G313400 chr4D 432460253 432460827 574 True 342.000000 342 78.537000 1917 2522 1 chr4D.!!$R1 605

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
880 3567 0.035598 TCGACCCGAATTTCTGGCAA 59.964 50.0 6.76 0.0 31.06 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2257 9573 1.00534 CTTGAAGAGCATCGCAGGAC 58.995 55.0 0.0 0.0 42.67 3.85 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
24 25 6.355747 ACCTCCCTATATATAGAGTACGTGC 58.644 44.000 19.51 0.00 32.05 5.34
25 26 6.069789 ACCTCCCTATATATAGAGTACGTGCA 60.070 42.308 19.51 0.00 32.05 4.57
26 27 6.827251 CCTCCCTATATATAGAGTACGTGCAA 59.173 42.308 19.51 0.00 32.05 4.08
27 28 7.338703 CCTCCCTATATATAGAGTACGTGCAAA 59.661 40.741 19.51 0.00 32.05 3.68
28 29 8.277490 TCCCTATATATAGAGTACGTGCAAAG 57.723 38.462 19.51 0.27 32.05 2.77
29 30 6.973474 CCCTATATATAGAGTACGTGCAAAGC 59.027 42.308 19.51 0.00 32.05 3.51
30 31 6.687531 CCTATATATAGAGTACGTGCAAAGCG 59.312 42.308 19.51 0.00 32.05 4.68
48 49 0.384309 CGATAGTAGCCTGGTTCGCA 59.616 55.000 0.00 0.00 0.00 5.10
73 74 3.399181 GGTGCGATCCCTGACCCA 61.399 66.667 0.00 0.00 0.00 4.51
160 162 1.227764 CCCTGATCGATGGTGCTGG 60.228 63.158 0.54 1.48 0.00 4.85
208 211 1.489649 AGTTCATGAGGATGGAGGCTG 59.510 52.381 0.00 0.00 0.00 4.85
400 2406 1.450360 AGGAGAACCTTGGAGGCTTT 58.550 50.000 0.00 0.00 45.36 3.51
636 3323 9.520204 AAGTTAGATGTGATTTTGTTTTGACTG 57.480 29.630 0.00 0.00 0.00 3.51
637 3324 8.137437 AGTTAGATGTGATTTTGTTTTGACTGG 58.863 33.333 0.00 0.00 0.00 4.00
638 3325 6.713762 AGATGTGATTTTGTTTTGACTGGA 57.286 33.333 0.00 0.00 0.00 3.86
639 3326 7.111247 AGATGTGATTTTGTTTTGACTGGAA 57.889 32.000 0.00 0.00 0.00 3.53
640 3327 7.729116 AGATGTGATTTTGTTTTGACTGGAAT 58.271 30.769 0.00 0.00 0.00 3.01
641 3328 8.859090 AGATGTGATTTTGTTTTGACTGGAATA 58.141 29.630 0.00 0.00 0.00 1.75
642 3329 8.816640 ATGTGATTTTGTTTTGACTGGAATAC 57.183 30.769 0.00 0.00 0.00 1.89
643 3330 6.915300 TGTGATTTTGTTTTGACTGGAATACG 59.085 34.615 0.00 0.00 0.00 3.06
644 3331 6.362283 GTGATTTTGTTTTGACTGGAATACGG 59.638 38.462 0.00 0.00 0.00 4.02
645 3332 4.839668 TTTGTTTTGACTGGAATACGGG 57.160 40.909 0.00 0.00 0.00 5.28
646 3333 3.773418 TGTTTTGACTGGAATACGGGA 57.227 42.857 0.00 0.00 0.00 5.14
647 3334 4.088056 TGTTTTGACTGGAATACGGGAA 57.912 40.909 0.00 0.00 0.00 3.97
648 3335 4.462133 TGTTTTGACTGGAATACGGGAAA 58.538 39.130 0.00 0.00 0.00 3.13
649 3336 5.074115 TGTTTTGACTGGAATACGGGAAAT 58.926 37.500 0.00 0.00 0.00 2.17
650 3337 6.239396 TGTTTTGACTGGAATACGGGAAATA 58.761 36.000 0.00 0.00 0.00 1.40
651 3338 6.887545 TGTTTTGACTGGAATACGGGAAATAT 59.112 34.615 0.00 0.00 0.00 1.28
652 3339 8.047911 TGTTTTGACTGGAATACGGGAAATATA 58.952 33.333 0.00 0.00 0.00 0.86
653 3340 9.063615 GTTTTGACTGGAATACGGGAAATATAT 57.936 33.333 0.00 0.00 0.00 0.86
654 3341 8.842358 TTTGACTGGAATACGGGAAATATATC 57.158 34.615 0.00 0.00 0.00 1.63
655 3342 7.547697 TGACTGGAATACGGGAAATATATCA 57.452 36.000 0.00 0.00 0.00 2.15
656 3343 7.969004 TGACTGGAATACGGGAAATATATCAA 58.031 34.615 0.00 0.00 0.00 2.57
657 3344 7.876068 TGACTGGAATACGGGAAATATATCAAC 59.124 37.037 0.00 0.00 0.00 3.18
658 3345 7.741785 ACTGGAATACGGGAAATATATCAACA 58.258 34.615 0.00 0.00 0.00 3.33
659 3346 7.660208 ACTGGAATACGGGAAATATATCAACAC 59.340 37.037 0.00 0.00 0.00 3.32
660 3347 7.510407 TGGAATACGGGAAATATATCAACACA 58.490 34.615 0.00 0.00 0.00 3.72
661 3348 7.659799 TGGAATACGGGAAATATATCAACACAG 59.340 37.037 0.00 0.00 0.00 3.66
662 3349 7.876068 GGAATACGGGAAATATATCAACACAGA 59.124 37.037 0.00 0.00 0.00 3.41
663 3350 9.436957 GAATACGGGAAATATATCAACACAGAT 57.563 33.333 0.00 0.00 0.00 2.90
664 3351 9.436957 AATACGGGAAATATATCAACACAGATC 57.563 33.333 0.00 0.00 0.00 2.75
665 3352 5.926542 ACGGGAAATATATCAACACAGATCG 59.073 40.000 0.00 0.00 0.00 3.69
666 3353 5.926542 CGGGAAATATATCAACACAGATCGT 59.073 40.000 0.00 0.00 0.00 3.73
667 3354 7.088272 CGGGAAATATATCAACACAGATCGTA 58.912 38.462 0.00 0.00 0.00 3.43
668 3355 7.597369 CGGGAAATATATCAACACAGATCGTAA 59.403 37.037 0.00 0.00 0.00 3.18
669 3356 9.436957 GGGAAATATATCAACACAGATCGTAAT 57.563 33.333 0.00 0.00 0.00 1.89
681 3368 9.840427 AACACAGATCGTAATATTTTTGAAAGG 57.160 29.630 0.00 0.00 0.00 3.11
682 3369 9.226606 ACACAGATCGTAATATTTTTGAAAGGA 57.773 29.630 0.00 0.00 0.00 3.36
685 3372 9.586150 CAGATCGTAATATTTTTGAAAGGATCG 57.414 33.333 0.00 0.00 33.62 3.69
686 3373 9.326413 AGATCGTAATATTTTTGAAAGGATCGT 57.674 29.630 0.00 0.00 33.62 3.73
687 3374 9.370126 GATCGTAATATTTTTGAAAGGATCGTG 57.630 33.333 0.00 0.00 0.00 4.35
688 3375 7.690228 TCGTAATATTTTTGAAAGGATCGTGG 58.310 34.615 0.00 0.00 0.00 4.94
689 3376 6.910433 CGTAATATTTTTGAAAGGATCGTGGG 59.090 38.462 0.00 0.00 0.00 4.61
690 3377 5.852282 ATATTTTTGAAAGGATCGTGGGG 57.148 39.130 0.00 0.00 0.00 4.96
691 3378 2.961531 TTTTGAAAGGATCGTGGGGA 57.038 45.000 0.00 0.00 0.00 4.81
692 3379 3.449746 TTTTGAAAGGATCGTGGGGAT 57.550 42.857 0.00 0.00 38.35 3.85
697 3384 2.717639 AAGGATCGTGGGGATCTTTG 57.282 50.000 3.96 0.00 46.27 2.77
698 3385 1.916181 AAGGATCGTGGGGATCTTTGT 59.084 47.619 3.96 0.00 46.27 2.83
699 3386 3.112263 AAGGATCGTGGGGATCTTTGTA 58.888 45.455 3.96 0.00 46.27 2.41
700 3387 3.716872 AAGGATCGTGGGGATCTTTGTAT 59.283 43.478 3.96 0.00 46.27 2.29
701 3388 4.202367 AAGGATCGTGGGGATCTTTGTATC 60.202 45.833 3.96 0.00 46.27 2.24
702 3389 2.882927 TCGTGGGGATCTTTGTATCG 57.117 50.000 0.00 0.00 0.00 2.92
703 3390 1.202486 TCGTGGGGATCTTTGTATCGC 60.202 52.381 0.00 0.00 37.92 4.58
704 3391 1.217882 GTGGGGATCTTTGTATCGCG 58.782 55.000 0.00 0.00 39.15 5.87
705 3392 0.828022 TGGGGATCTTTGTATCGCGT 59.172 50.000 5.77 0.00 39.15 6.01
706 3393 2.033372 TGGGGATCTTTGTATCGCGTA 58.967 47.619 5.77 0.00 39.15 4.42
707 3394 2.223876 TGGGGATCTTTGTATCGCGTAC 60.224 50.000 5.77 8.90 39.15 3.67
708 3395 2.401351 GGGATCTTTGTATCGCGTACC 58.599 52.381 5.77 0.00 32.03 3.34
709 3396 2.223876 GGGATCTTTGTATCGCGTACCA 60.224 50.000 5.77 0.00 32.03 3.25
710 3397 2.793232 GGATCTTTGTATCGCGTACCAC 59.207 50.000 5.77 0.37 32.03 4.16
711 3398 1.898938 TCTTTGTATCGCGTACCACG 58.101 50.000 5.77 0.00 45.88 4.94
712 3399 1.468127 TCTTTGTATCGCGTACCACGA 59.532 47.619 5.77 7.96 46.05 4.35
713 3400 2.095314 TCTTTGTATCGCGTACCACGAA 60.095 45.455 5.77 5.44 46.05 3.85
714 3401 1.616620 TTGTATCGCGTACCACGAAC 58.383 50.000 5.77 9.38 46.05 3.95
715 3402 0.179166 TGTATCGCGTACCACGAACC 60.179 55.000 5.77 4.58 46.05 3.62
716 3403 1.062365 TATCGCGTACCACGAACCG 59.938 57.895 5.77 0.00 46.05 4.44
717 3404 2.321668 TATCGCGTACCACGAACCGG 62.322 60.000 5.77 0.00 46.05 5.28
720 3407 4.403137 CGTACCACGAACCGGCGA 62.403 66.667 9.30 0.00 46.05 5.54
721 3408 2.182537 GTACCACGAACCGGCGAT 59.817 61.111 9.30 0.00 34.83 4.58
722 3409 1.875364 GTACCACGAACCGGCGATC 60.875 63.158 9.30 5.42 34.83 3.69
723 3410 3.399797 TACCACGAACCGGCGATCG 62.400 63.158 25.70 25.70 44.33 3.69
727 3414 2.653130 CGAACCGGCGATCGTACC 60.653 66.667 17.81 9.36 37.11 3.34
733 3420 4.276146 GGCGATCGTACCGGGGTC 62.276 72.222 17.81 0.00 0.00 4.46
734 3421 3.520862 GCGATCGTACCGGGGTCA 61.521 66.667 17.81 0.00 0.00 4.02
735 3422 2.853290 GCGATCGTACCGGGGTCAT 61.853 63.158 17.81 0.00 0.00 3.06
736 3423 1.285023 CGATCGTACCGGGGTCATC 59.715 63.158 6.32 0.72 0.00 2.92
737 3424 1.285023 GATCGTACCGGGGTCATCG 59.715 63.158 6.32 1.00 0.00 3.84
738 3425 1.152902 ATCGTACCGGGGTCATCGA 60.153 57.895 6.32 6.87 33.47 3.59
739 3426 1.450531 ATCGTACCGGGGTCATCGAC 61.451 60.000 6.32 0.00 32.49 4.20
751 3438 4.783764 GGTCATCGACCCAAAAATCTTT 57.216 40.909 1.47 0.00 46.19 2.52
752 3439 4.485163 GGTCATCGACCCAAAAATCTTTG 58.515 43.478 1.47 0.00 46.19 2.77
770 3457 2.255856 GATCGCGATCCTCGTCCC 59.744 66.667 33.80 10.92 42.81 4.46
771 3458 3.270335 GATCGCGATCCTCGTCCCC 62.270 68.421 33.80 10.19 42.81 4.81
772 3459 4.807631 TCGCGATCCTCGTCCCCA 62.808 66.667 3.71 0.00 42.81 4.96
773 3460 3.833645 CGCGATCCTCGTCCCCAA 61.834 66.667 0.00 0.00 42.81 4.12
774 3461 2.822399 GCGATCCTCGTCCCCAAT 59.178 61.111 0.00 0.00 42.81 3.16
775 3462 1.146263 GCGATCCTCGTCCCCAATT 59.854 57.895 0.00 0.00 42.81 2.32
776 3463 0.391597 GCGATCCTCGTCCCCAATTA 59.608 55.000 0.00 0.00 42.81 1.40
777 3464 1.605712 GCGATCCTCGTCCCCAATTAG 60.606 57.143 0.00 0.00 42.81 1.73
778 3465 1.605712 CGATCCTCGTCCCCAATTAGC 60.606 57.143 0.00 0.00 34.72 3.09
779 3466 0.393077 ATCCTCGTCCCCAATTAGCG 59.607 55.000 0.00 0.00 0.00 4.26
780 3467 0.974010 TCCTCGTCCCCAATTAGCGT 60.974 55.000 0.00 0.00 0.00 5.07
781 3468 0.107848 CCTCGTCCCCAATTAGCGTT 60.108 55.000 0.00 0.00 0.00 4.84
782 3469 1.677820 CCTCGTCCCCAATTAGCGTTT 60.678 52.381 0.00 0.00 0.00 3.60
783 3470 1.664151 CTCGTCCCCAATTAGCGTTTC 59.336 52.381 0.00 0.00 0.00 2.78
784 3471 1.002201 TCGTCCCCAATTAGCGTTTCA 59.998 47.619 0.00 0.00 0.00 2.69
785 3472 1.807742 CGTCCCCAATTAGCGTTTCAA 59.192 47.619 0.00 0.00 0.00 2.69
786 3473 2.226912 CGTCCCCAATTAGCGTTTCAAA 59.773 45.455 0.00 0.00 0.00 2.69
787 3474 3.669557 CGTCCCCAATTAGCGTTTCAAAG 60.670 47.826 0.00 0.00 0.00 2.77
788 3475 3.504520 GTCCCCAATTAGCGTTTCAAAGA 59.495 43.478 0.00 0.00 0.00 2.52
789 3476 4.022676 GTCCCCAATTAGCGTTTCAAAGAA 60.023 41.667 0.00 0.00 0.00 2.52
790 3477 4.217550 TCCCCAATTAGCGTTTCAAAGAAG 59.782 41.667 0.00 0.00 0.00 2.85
791 3478 4.022329 CCCCAATTAGCGTTTCAAAGAAGT 60.022 41.667 0.00 0.00 0.00 3.01
792 3479 5.182380 CCCCAATTAGCGTTTCAAAGAAGTA 59.818 40.000 0.00 0.00 0.00 2.24
793 3480 6.127730 CCCCAATTAGCGTTTCAAAGAAGTAT 60.128 38.462 0.00 0.00 0.00 2.12
794 3481 7.066525 CCCCAATTAGCGTTTCAAAGAAGTATA 59.933 37.037 0.00 0.00 0.00 1.47
795 3482 7.908601 CCCAATTAGCGTTTCAAAGAAGTATAC 59.091 37.037 0.00 0.00 0.00 1.47
796 3483 8.665685 CCAATTAGCGTTTCAAAGAAGTATACT 58.334 33.333 0.00 0.00 0.00 2.12
797 3484 9.690434 CAATTAGCGTTTCAAAGAAGTATACTC 57.310 33.333 5.70 0.20 0.00 2.59
798 3485 7.823149 TTAGCGTTTCAAAGAAGTATACTCC 57.177 36.000 5.70 0.00 0.00 3.85
799 3486 6.038997 AGCGTTTCAAAGAAGTATACTCCT 57.961 37.500 5.70 0.00 0.00 3.69
800 3487 6.100668 AGCGTTTCAAAGAAGTATACTCCTC 58.899 40.000 5.70 0.90 0.00 3.71
801 3488 5.004535 GCGTTTCAAAGAAGTATACTCCTCG 59.995 44.000 5.70 0.00 0.00 4.63
802 3489 6.091437 CGTTTCAAAGAAGTATACTCCTCGT 58.909 40.000 5.70 0.00 0.00 4.18
803 3490 6.250951 CGTTTCAAAGAAGTATACTCCTCGTC 59.749 42.308 5.70 0.00 0.00 4.20
804 3491 5.481200 TCAAAGAAGTATACTCCTCGTCG 57.519 43.478 5.70 0.00 0.00 5.12
805 3492 4.940046 TCAAAGAAGTATACTCCTCGTCGT 59.060 41.667 5.70 0.00 0.00 4.34
806 3493 6.108687 TCAAAGAAGTATACTCCTCGTCGTA 58.891 40.000 5.70 0.00 0.00 3.43
807 3494 5.982465 AAGAAGTATACTCCTCGTCGTAC 57.018 43.478 5.70 0.00 0.00 3.67
808 3495 4.376146 AGAAGTATACTCCTCGTCGTACC 58.624 47.826 5.70 0.00 0.00 3.34
809 3496 3.827008 AGTATACTCCTCGTCGTACCA 57.173 47.619 0.00 0.00 0.00 3.25
810 3497 3.462021 AGTATACTCCTCGTCGTACCAC 58.538 50.000 0.00 0.00 0.00 4.16
811 3498 1.293924 ATACTCCTCGTCGTACCACG 58.706 55.000 6.69 6.69 44.19 4.94
812 3499 0.037326 TACTCCTCGTCGTACCACGT 60.037 55.000 12.74 0.00 43.14 4.49
813 3500 0.886490 ACTCCTCGTCGTACCACGTT 60.886 55.000 12.74 0.00 43.14 3.99
814 3501 0.179205 CTCCTCGTCGTACCACGTTC 60.179 60.000 12.74 0.00 43.14 3.95
815 3502 1.154150 CCTCGTCGTACCACGTTCC 60.154 63.158 12.74 0.00 43.14 3.62
816 3503 1.510623 CTCGTCGTACCACGTTCCG 60.511 63.158 12.74 0.00 43.14 4.30
817 3504 2.502510 CGTCGTACCACGTTCCGG 60.503 66.667 4.74 0.00 43.14 5.14
818 3505 2.953821 GTCGTACCACGTTCCGGA 59.046 61.111 0.00 0.00 43.14 5.14
819 3506 1.154150 GTCGTACCACGTTCCGGAG 60.154 63.158 3.34 0.00 43.14 4.63
820 3507 2.180017 CGTACCACGTTCCGGAGG 59.820 66.667 3.34 4.86 43.52 4.30
821 3508 3.346631 CGTACCACGTTCCGGAGGG 62.347 68.421 3.34 8.12 42.71 4.30
843 3530 4.112341 CGACCCTCGACCCGTGAC 62.112 72.222 0.00 0.00 43.74 3.67
844 3531 3.756727 GACCCTCGACCCGTGACC 61.757 72.222 0.00 0.00 0.00 4.02
850 3537 4.729856 CGACCCGTGACCCCGTTC 62.730 72.222 0.00 0.00 0.00 3.95
851 3538 4.383861 GACCCGTGACCCCGTTCC 62.384 72.222 0.00 0.00 0.00 3.62
852 3539 4.948080 ACCCGTGACCCCGTTCCT 62.948 66.667 0.00 0.00 0.00 3.36
853 3540 4.078516 CCCGTGACCCCGTTCCTC 62.079 72.222 0.00 0.00 0.00 3.71
854 3541 4.430765 CCGTGACCCCGTTCCTCG 62.431 72.222 0.00 0.00 39.52 4.63
855 3542 3.367743 CGTGACCCCGTTCCTCGA 61.368 66.667 0.00 0.00 42.86 4.04
856 3543 2.260743 GTGACCCCGTTCCTCGAC 59.739 66.667 0.00 0.00 42.86 4.20
857 3544 2.993264 TGACCCCGTTCCTCGACC 60.993 66.667 0.00 0.00 42.86 4.79
858 3545 3.767806 GACCCCGTTCCTCGACCC 61.768 72.222 0.00 0.00 42.86 4.46
861 3548 3.145551 CCCGTTCCTCGACCCGAT 61.146 66.667 0.00 0.00 42.86 4.18
862 3549 2.412112 CCGTTCCTCGACCCGATC 59.588 66.667 0.00 0.00 42.86 3.69
871 3558 3.126528 GACCCGATCGACCCGAAT 58.873 61.111 18.66 0.00 39.99 3.34
872 3559 1.440476 GACCCGATCGACCCGAATT 59.560 57.895 18.66 0.00 39.99 2.17
873 3560 0.179092 GACCCGATCGACCCGAATTT 60.179 55.000 18.66 0.00 39.99 1.82
874 3561 0.179092 ACCCGATCGACCCGAATTTC 60.179 55.000 18.66 0.00 39.99 2.17
875 3562 0.104304 CCCGATCGACCCGAATTTCT 59.896 55.000 18.66 0.00 39.99 2.52
876 3563 1.209128 CCGATCGACCCGAATTTCTG 58.791 55.000 18.66 0.00 39.99 3.02
877 3564 1.209128 CGATCGACCCGAATTTCTGG 58.791 55.000 10.26 5.40 39.99 3.86
878 3565 0.938008 GATCGACCCGAATTTCTGGC 59.062 55.000 6.76 0.33 39.99 4.85
879 3566 0.251916 ATCGACCCGAATTTCTGGCA 59.748 50.000 6.76 0.00 39.99 4.92
880 3567 0.035598 TCGACCCGAATTTCTGGCAA 59.964 50.000 6.76 0.00 31.06 4.52
881 3568 0.168128 CGACCCGAATTTCTGGCAAC 59.832 55.000 6.76 0.00 0.00 4.17
882 3569 1.534729 GACCCGAATTTCTGGCAACT 58.465 50.000 6.76 0.00 37.61 3.16
883 3570 2.706890 GACCCGAATTTCTGGCAACTA 58.293 47.619 6.76 0.00 37.61 2.24
884 3571 3.279434 GACCCGAATTTCTGGCAACTAT 58.721 45.455 6.76 0.00 37.61 2.12
885 3572 3.016736 ACCCGAATTTCTGGCAACTATG 58.983 45.455 6.76 0.00 37.61 2.23
982 3695 0.319555 TTGGCTGCGTACTCAGTCAC 60.320 55.000 19.21 8.23 46.97 3.67
1003 3721 0.462581 GATGGCGTCCAAGCAGATGA 60.463 55.000 2.68 0.00 36.95 2.92
1216 4031 6.986904 AACTAATTTCCTGCTAACTACTGC 57.013 37.500 0.00 0.00 0.00 4.40
1327 4782 2.525629 TTGTCAGGACCTCCGGCA 60.526 61.111 0.00 0.00 42.08 5.69
1416 5675 0.737219 GCGGCATGAAGCTCAAGATT 59.263 50.000 0.00 0.00 44.79 2.40
1596 5918 4.149221 TGTTGTTATACGAAGCGTTGTGAG 59.851 41.667 2.39 0.00 41.54 3.51
1699 8968 5.363939 AGCTATCTTTCCTTGCAGTGTATC 58.636 41.667 0.00 0.00 0.00 2.24
1711 8980 4.430007 TGCAGTGTATCGGTGAAGTTATC 58.570 43.478 0.00 0.00 0.00 1.75
1712 8981 4.081917 TGCAGTGTATCGGTGAAGTTATCA 60.082 41.667 0.00 0.00 35.05 2.15
1754 9026 8.507249 ACAGAATTGCTATTTTTCAGTGACTAC 58.493 33.333 0.00 0.00 0.00 2.73
1872 9146 7.148407 CGATCCCTAAAAATAAATGAGGATCCG 60.148 40.741 5.98 2.83 43.64 4.18
1880 9154 0.035458 AATGAGGATCCGGCGGAATC 59.965 55.000 34.58 28.17 34.34 2.52
1882 9156 1.121407 TGAGGATCCGGCGGAATCAT 61.121 55.000 34.58 25.79 34.34 2.45
1896 9170 3.895656 CGGAATCATCCCTTAGTGGAGTA 59.104 47.826 0.00 0.00 43.37 2.59
1897 9171 4.021894 CGGAATCATCCCTTAGTGGAGTAG 60.022 50.000 0.00 0.00 43.37 2.57
1898 9172 4.902448 GGAATCATCCCTTAGTGGAGTAGT 59.098 45.833 0.00 0.00 40.10 2.73
1899 9173 5.367060 GGAATCATCCCTTAGTGGAGTAGTT 59.633 44.000 0.00 0.00 40.10 2.24
1900 9174 6.126739 GGAATCATCCCTTAGTGGAGTAGTTT 60.127 42.308 0.00 0.00 40.10 2.66
1901 9175 6.893020 ATCATCCCTTAGTGGAGTAGTTTT 57.107 37.500 0.00 0.00 37.96 2.43
1902 9176 7.989947 ATCATCCCTTAGTGGAGTAGTTTTA 57.010 36.000 0.00 0.00 37.96 1.52
1903 9177 7.179076 TCATCCCTTAGTGGAGTAGTTTTAC 57.821 40.000 0.00 0.00 37.96 2.01
1904 9178 6.958192 TCATCCCTTAGTGGAGTAGTTTTACT 59.042 38.462 0.00 0.00 42.79 2.24
2152 9462 7.867445 AATTTAAACACACGAAATGATCCAC 57.133 32.000 0.00 0.00 0.00 4.02
2212 9523 0.606130 ATGACGTTGCCAGTGATGCA 60.606 50.000 0.00 0.00 36.84 3.96
2257 9573 1.927174 CATGAACTTAGCGGTTCTCGG 59.073 52.381 16.61 6.79 44.02 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 6.354938 TGCACGTACTCTATATATAGGGAGG 58.645 44.000 23.81 15.61 34.44 4.30
3 4 7.148120 GCTTTGCACGTACTCTATATATAGGGA 60.148 40.741 23.81 7.66 34.44 4.20
6 7 7.461918 TCGCTTTGCACGTACTCTATATATAG 58.538 38.462 12.84 12.84 0.00 1.31
7 8 7.368480 TCGCTTTGCACGTACTCTATATATA 57.632 36.000 0.00 0.00 0.00 0.86
8 9 6.250344 TCGCTTTGCACGTACTCTATATAT 57.750 37.500 0.00 0.00 0.00 0.86
9 10 5.678132 TCGCTTTGCACGTACTCTATATA 57.322 39.130 0.00 0.00 0.00 0.86
10 11 4.563337 TCGCTTTGCACGTACTCTATAT 57.437 40.909 0.00 0.00 0.00 0.86
11 12 4.563337 ATCGCTTTGCACGTACTCTATA 57.437 40.909 0.00 0.00 0.00 1.31
12 13 2.933495 TCGCTTTGCACGTACTCTAT 57.067 45.000 0.00 0.00 0.00 1.98
13 14 2.933495 ATCGCTTTGCACGTACTCTA 57.067 45.000 0.00 0.00 0.00 2.43
14 15 2.163815 ACTATCGCTTTGCACGTACTCT 59.836 45.455 0.00 0.00 0.00 3.24
15 16 2.527100 ACTATCGCTTTGCACGTACTC 58.473 47.619 0.00 0.00 0.00 2.59
16 17 2.649331 ACTATCGCTTTGCACGTACT 57.351 45.000 0.00 0.00 0.00 2.73
17 18 2.215812 GCTACTATCGCTTTGCACGTAC 59.784 50.000 0.00 0.00 0.00 3.67
18 19 2.456989 GCTACTATCGCTTTGCACGTA 58.543 47.619 0.00 0.00 0.00 3.57
19 20 1.278238 GCTACTATCGCTTTGCACGT 58.722 50.000 0.00 0.00 0.00 4.49
20 21 0.577269 GGCTACTATCGCTTTGCACG 59.423 55.000 0.00 0.00 0.00 5.34
21 22 1.594862 CAGGCTACTATCGCTTTGCAC 59.405 52.381 0.00 0.00 0.00 4.57
22 23 1.473257 CCAGGCTACTATCGCTTTGCA 60.473 52.381 0.00 0.00 0.00 4.08
23 24 1.221414 CCAGGCTACTATCGCTTTGC 58.779 55.000 0.00 0.00 0.00 3.68
24 25 2.604046 ACCAGGCTACTATCGCTTTG 57.396 50.000 0.00 0.00 0.00 2.77
25 26 2.481449 CGAACCAGGCTACTATCGCTTT 60.481 50.000 0.00 0.00 0.00 3.51
26 27 1.067212 CGAACCAGGCTACTATCGCTT 59.933 52.381 0.00 0.00 0.00 4.68
27 28 0.669077 CGAACCAGGCTACTATCGCT 59.331 55.000 0.00 0.00 0.00 4.93
28 29 0.940047 GCGAACCAGGCTACTATCGC 60.940 60.000 16.49 16.49 41.69 4.58
29 30 0.384309 TGCGAACCAGGCTACTATCG 59.616 55.000 6.75 6.75 32.77 2.92
30 31 2.141535 CTGCGAACCAGGCTACTATC 57.858 55.000 0.00 0.00 37.93 2.08
48 49 3.148279 GGATCGCACCCTCGACCT 61.148 66.667 0.00 0.00 41.62 3.85
73 74 0.961358 GATCCGGATCGATCGACCCT 60.961 60.000 27.93 7.78 29.96 4.34
160 162 2.324860 GTCTTGCATTACGTTTTGGGC 58.675 47.619 0.00 0.00 0.00 5.36
208 211 4.947147 TTGCGTGGTGCCCTGGTC 62.947 66.667 0.00 0.00 45.60 4.02
610 3297 9.520204 CAGTCAAAACAAAATCACATCTAACTT 57.480 29.630 0.00 0.00 0.00 2.66
611 3298 8.137437 CCAGTCAAAACAAAATCACATCTAACT 58.863 33.333 0.00 0.00 0.00 2.24
612 3299 8.134895 TCCAGTCAAAACAAAATCACATCTAAC 58.865 33.333 0.00 0.00 0.00 2.34
613 3300 8.231692 TCCAGTCAAAACAAAATCACATCTAA 57.768 30.769 0.00 0.00 0.00 2.10
614 3301 7.815840 TCCAGTCAAAACAAAATCACATCTA 57.184 32.000 0.00 0.00 0.00 1.98
615 3302 6.713762 TCCAGTCAAAACAAAATCACATCT 57.286 33.333 0.00 0.00 0.00 2.90
616 3303 7.951530 ATTCCAGTCAAAACAAAATCACATC 57.048 32.000 0.00 0.00 0.00 3.06
617 3304 7.594758 CGTATTCCAGTCAAAACAAAATCACAT 59.405 33.333 0.00 0.00 0.00 3.21
618 3305 6.915300 CGTATTCCAGTCAAAACAAAATCACA 59.085 34.615 0.00 0.00 0.00 3.58
619 3306 6.362283 CCGTATTCCAGTCAAAACAAAATCAC 59.638 38.462 0.00 0.00 0.00 3.06
620 3307 6.442952 CCGTATTCCAGTCAAAACAAAATCA 58.557 36.000 0.00 0.00 0.00 2.57
621 3308 5.861787 CCCGTATTCCAGTCAAAACAAAATC 59.138 40.000 0.00 0.00 0.00 2.17
622 3309 5.536916 TCCCGTATTCCAGTCAAAACAAAAT 59.463 36.000 0.00 0.00 0.00 1.82
623 3310 4.888239 TCCCGTATTCCAGTCAAAACAAAA 59.112 37.500 0.00 0.00 0.00 2.44
624 3311 4.462133 TCCCGTATTCCAGTCAAAACAAA 58.538 39.130 0.00 0.00 0.00 2.83
625 3312 4.088056 TCCCGTATTCCAGTCAAAACAA 57.912 40.909 0.00 0.00 0.00 2.83
626 3313 3.773418 TCCCGTATTCCAGTCAAAACA 57.227 42.857 0.00 0.00 0.00 2.83
627 3314 5.638596 ATTTCCCGTATTCCAGTCAAAAC 57.361 39.130 0.00 0.00 0.00 2.43
628 3315 9.280174 GATATATTTCCCGTATTCCAGTCAAAA 57.720 33.333 0.00 0.00 0.00 2.44
629 3316 8.433599 TGATATATTTCCCGTATTCCAGTCAAA 58.566 33.333 0.00 0.00 0.00 2.69
630 3317 7.969004 TGATATATTTCCCGTATTCCAGTCAA 58.031 34.615 0.00 0.00 0.00 3.18
631 3318 7.547697 TGATATATTTCCCGTATTCCAGTCA 57.452 36.000 0.00 0.00 0.00 3.41
632 3319 7.876068 TGTTGATATATTTCCCGTATTCCAGTC 59.124 37.037 0.00 0.00 0.00 3.51
633 3320 7.660208 GTGTTGATATATTTCCCGTATTCCAGT 59.340 37.037 0.00 0.00 0.00 4.00
634 3321 7.659799 TGTGTTGATATATTTCCCGTATTCCAG 59.340 37.037 0.00 0.00 0.00 3.86
635 3322 7.510407 TGTGTTGATATATTTCCCGTATTCCA 58.490 34.615 0.00 0.00 0.00 3.53
636 3323 7.876068 TCTGTGTTGATATATTTCCCGTATTCC 59.124 37.037 0.00 0.00 0.00 3.01
637 3324 8.827177 TCTGTGTTGATATATTTCCCGTATTC 57.173 34.615 0.00 0.00 0.00 1.75
638 3325 9.436957 GATCTGTGTTGATATATTTCCCGTATT 57.563 33.333 0.00 0.00 0.00 1.89
639 3326 7.759886 CGATCTGTGTTGATATATTTCCCGTAT 59.240 37.037 0.00 0.00 0.00 3.06
640 3327 7.088272 CGATCTGTGTTGATATATTTCCCGTA 58.912 38.462 0.00 0.00 0.00 4.02
641 3328 5.926542 CGATCTGTGTTGATATATTTCCCGT 59.073 40.000 0.00 0.00 0.00 5.28
642 3329 5.926542 ACGATCTGTGTTGATATATTTCCCG 59.073 40.000 0.00 0.00 0.00 5.14
643 3330 8.827177 TTACGATCTGTGTTGATATATTTCCC 57.173 34.615 0.00 0.00 0.00 3.97
655 3342 9.840427 CCTTTCAAAAATATTACGATCTGTGTT 57.160 29.630 0.00 0.00 0.00 3.32
656 3343 9.226606 TCCTTTCAAAAATATTACGATCTGTGT 57.773 29.630 0.00 0.00 0.00 3.72
659 3346 9.586150 CGATCCTTTCAAAAATATTACGATCTG 57.414 33.333 0.00 0.00 0.00 2.90
660 3347 9.326413 ACGATCCTTTCAAAAATATTACGATCT 57.674 29.630 0.00 0.00 0.00 2.75
661 3348 9.370126 CACGATCCTTTCAAAAATATTACGATC 57.630 33.333 0.00 0.00 0.00 3.69
662 3349 8.342634 CCACGATCCTTTCAAAAATATTACGAT 58.657 33.333 0.00 0.00 0.00 3.73
663 3350 7.201661 CCCACGATCCTTTCAAAAATATTACGA 60.202 37.037 0.00 0.00 0.00 3.43
664 3351 6.910433 CCCACGATCCTTTCAAAAATATTACG 59.090 38.462 0.00 0.00 0.00 3.18
665 3352 7.067737 TCCCCACGATCCTTTCAAAAATATTAC 59.932 37.037 0.00 0.00 0.00 1.89
666 3353 7.120051 TCCCCACGATCCTTTCAAAAATATTA 58.880 34.615 0.00 0.00 0.00 0.98
667 3354 5.955355 TCCCCACGATCCTTTCAAAAATATT 59.045 36.000 0.00 0.00 0.00 1.28
668 3355 5.515106 TCCCCACGATCCTTTCAAAAATAT 58.485 37.500 0.00 0.00 0.00 1.28
669 3356 4.924625 TCCCCACGATCCTTTCAAAAATA 58.075 39.130 0.00 0.00 0.00 1.40
670 3357 3.773560 TCCCCACGATCCTTTCAAAAAT 58.226 40.909 0.00 0.00 0.00 1.82
671 3358 3.231207 TCCCCACGATCCTTTCAAAAA 57.769 42.857 0.00 0.00 0.00 1.94
672 3359 2.961531 TCCCCACGATCCTTTCAAAA 57.038 45.000 0.00 0.00 0.00 2.44
673 3360 2.999331 GATCCCCACGATCCTTTCAAA 58.001 47.619 0.00 0.00 41.51 2.69
674 3361 2.710096 GATCCCCACGATCCTTTCAA 57.290 50.000 0.00 0.00 41.51 2.69
681 3368 3.318017 CGATACAAAGATCCCCACGATC 58.682 50.000 0.00 0.00 46.86 3.69
682 3369 2.548067 GCGATACAAAGATCCCCACGAT 60.548 50.000 0.00 0.00 0.00 3.73
683 3370 1.202486 GCGATACAAAGATCCCCACGA 60.202 52.381 0.00 0.00 0.00 4.35
684 3371 1.217882 GCGATACAAAGATCCCCACG 58.782 55.000 0.00 0.00 0.00 4.94
685 3372 1.217882 CGCGATACAAAGATCCCCAC 58.782 55.000 0.00 0.00 0.00 4.61
686 3373 0.828022 ACGCGATACAAAGATCCCCA 59.172 50.000 15.93 0.00 0.00 4.96
687 3374 2.401351 GTACGCGATACAAAGATCCCC 58.599 52.381 15.93 0.00 33.54 4.81
688 3375 2.223876 TGGTACGCGATACAAAGATCCC 60.224 50.000 15.93 0.00 35.23 3.85
689 3376 2.793232 GTGGTACGCGATACAAAGATCC 59.207 50.000 15.93 0.00 35.23 3.36
703 3390 3.688475 ATCGCCGGTTCGTGGTACG 62.688 63.158 1.90 0.00 44.19 3.67
704 3391 1.875364 GATCGCCGGTTCGTGGTAC 60.875 63.158 1.90 0.00 0.00 3.34
705 3392 2.491152 GATCGCCGGTTCGTGGTA 59.509 61.111 1.90 0.00 0.00 3.25
706 3393 4.789075 CGATCGCCGGTTCGTGGT 62.789 66.667 0.26 0.00 32.18 4.16
707 3394 3.399797 TACGATCGCCGGTTCGTGG 62.400 63.158 27.85 11.46 45.38 4.94
708 3395 2.100797 TACGATCGCCGGTTCGTG 59.899 61.111 27.85 10.53 45.38 4.35
709 3396 2.100991 GTACGATCGCCGGTTCGT 59.899 61.111 24.96 24.96 46.85 3.85
710 3397 2.653130 GGTACGATCGCCGGTTCG 60.653 66.667 16.60 17.99 43.93 3.95
723 3410 2.810403 GGTCGATGACCCCGGTAC 59.190 66.667 0.00 0.00 46.19 3.34
759 3446 1.605712 CGCTAATTGGGGACGAGGATC 60.606 57.143 0.00 0.00 0.00 3.36
760 3447 0.393077 CGCTAATTGGGGACGAGGAT 59.607 55.000 0.00 0.00 0.00 3.24
761 3448 0.974010 ACGCTAATTGGGGACGAGGA 60.974 55.000 12.90 0.00 0.00 3.71
762 3449 0.107848 AACGCTAATTGGGGACGAGG 60.108 55.000 12.90 0.00 0.00 4.63
763 3450 1.664151 GAAACGCTAATTGGGGACGAG 59.336 52.381 12.90 0.00 0.00 4.18
764 3451 1.002201 TGAAACGCTAATTGGGGACGA 59.998 47.619 12.90 0.00 0.00 4.20
765 3452 1.444836 TGAAACGCTAATTGGGGACG 58.555 50.000 12.90 0.00 0.00 4.79
766 3453 3.504520 TCTTTGAAACGCTAATTGGGGAC 59.495 43.478 12.90 4.63 0.00 4.46
767 3454 3.757270 TCTTTGAAACGCTAATTGGGGA 58.243 40.909 12.90 0.00 0.00 4.81
768 3455 4.022329 ACTTCTTTGAAACGCTAATTGGGG 60.022 41.667 4.23 4.23 0.00 4.96
769 3456 5.121221 ACTTCTTTGAAACGCTAATTGGG 57.879 39.130 0.00 0.00 0.00 4.12
770 3457 8.665685 AGTATACTTCTTTGAAACGCTAATTGG 58.334 33.333 0.00 0.00 0.00 3.16
771 3458 9.690434 GAGTATACTTCTTTGAAACGCTAATTG 57.310 33.333 6.88 0.00 0.00 2.32
772 3459 8.880750 GGAGTATACTTCTTTGAAACGCTAATT 58.119 33.333 6.88 0.00 0.00 1.40
773 3460 8.258708 AGGAGTATACTTCTTTGAAACGCTAAT 58.741 33.333 7.98 0.00 0.00 1.73
774 3461 7.609056 AGGAGTATACTTCTTTGAAACGCTAA 58.391 34.615 7.98 0.00 0.00 3.09
775 3462 7.166691 AGGAGTATACTTCTTTGAAACGCTA 57.833 36.000 7.98 0.00 0.00 4.26
776 3463 6.038997 AGGAGTATACTTCTTTGAAACGCT 57.961 37.500 7.98 0.00 0.00 5.07
777 3464 5.004535 CGAGGAGTATACTTCTTTGAAACGC 59.995 44.000 15.12 0.00 30.24 4.84
778 3465 6.091437 ACGAGGAGTATACTTCTTTGAAACG 58.909 40.000 15.12 14.13 30.24 3.60
779 3466 6.250951 CGACGAGGAGTATACTTCTTTGAAAC 59.749 42.308 15.12 0.56 30.24 2.78
780 3467 6.072286 ACGACGAGGAGTATACTTCTTTGAAA 60.072 38.462 15.12 0.00 30.24 2.69
781 3468 5.413833 ACGACGAGGAGTATACTTCTTTGAA 59.586 40.000 15.12 0.00 30.24 2.69
782 3469 4.940046 ACGACGAGGAGTATACTTCTTTGA 59.060 41.667 15.12 0.00 30.24 2.69
783 3470 5.232610 ACGACGAGGAGTATACTTCTTTG 57.767 43.478 15.12 12.79 30.24 2.77
784 3471 5.295540 GGTACGACGAGGAGTATACTTCTTT 59.704 44.000 15.12 5.61 30.24 2.52
785 3472 4.813697 GGTACGACGAGGAGTATACTTCTT 59.186 45.833 15.12 0.00 30.24 2.52
786 3473 4.141846 TGGTACGACGAGGAGTATACTTCT 60.142 45.833 13.88 13.88 33.59 2.85
787 3474 4.025313 GTGGTACGACGAGGAGTATACTTC 60.025 50.000 6.88 4.70 0.00 3.01
788 3475 3.873952 GTGGTACGACGAGGAGTATACTT 59.126 47.826 6.88 0.00 0.00 2.24
789 3476 3.462021 GTGGTACGACGAGGAGTATACT 58.538 50.000 4.68 4.68 0.00 2.12
790 3477 2.219674 CGTGGTACGACGAGGAGTATAC 59.780 54.545 23.96 0.00 46.05 1.47
791 3478 2.159099 ACGTGGTACGACGAGGAGTATA 60.159 50.000 32.72 0.00 46.05 1.47
792 3479 1.293924 CGTGGTACGACGAGGAGTAT 58.706 55.000 23.96 0.00 46.05 2.12
793 3480 0.037326 ACGTGGTACGACGAGGAGTA 60.037 55.000 32.72 0.00 46.05 2.59
794 3481 0.886490 AACGTGGTACGACGAGGAGT 60.886 55.000 32.72 10.71 46.05 3.85
795 3482 0.179205 GAACGTGGTACGACGAGGAG 60.179 60.000 32.72 7.76 46.05 3.69
796 3483 1.577328 GGAACGTGGTACGACGAGGA 61.577 60.000 32.72 0.00 46.05 3.71
797 3484 1.154150 GGAACGTGGTACGACGAGG 60.154 63.158 32.72 8.47 46.05 4.63
798 3485 4.447365 GGAACGTGGTACGACGAG 57.553 61.111 32.72 9.17 46.05 4.18
826 3513 4.112341 GTCACGGGTCGAGGGTCG 62.112 72.222 0.00 0.00 42.10 4.79
827 3514 3.756727 GGTCACGGGTCGAGGGTC 61.757 72.222 0.00 0.00 0.00 4.46
833 3520 4.729856 GAACGGGGTCACGGGTCG 62.730 72.222 0.00 0.00 38.39 4.79
834 3521 4.383861 GGAACGGGGTCACGGGTC 62.384 72.222 0.00 0.00 38.39 4.46
835 3522 4.948080 AGGAACGGGGTCACGGGT 62.948 66.667 0.00 0.00 38.39 5.28
836 3523 4.078516 GAGGAACGGGGTCACGGG 62.079 72.222 0.00 0.00 38.39 5.28
837 3524 4.430765 CGAGGAACGGGGTCACGG 62.431 72.222 0.00 0.00 38.39 4.94
838 3525 3.367743 TCGAGGAACGGGGTCACG 61.368 66.667 0.00 0.00 42.82 4.35
839 3526 2.260743 GTCGAGGAACGGGGTCAC 59.739 66.667 0.00 0.00 42.82 3.67
840 3527 2.993264 GGTCGAGGAACGGGGTCA 60.993 66.667 0.00 0.00 42.82 4.02
841 3528 3.767806 GGGTCGAGGAACGGGGTC 61.768 72.222 0.00 0.00 42.82 4.46
844 3531 3.135056 GATCGGGTCGAGGAACGGG 62.135 68.421 0.00 0.00 39.91 5.28
845 3532 2.412112 GATCGGGTCGAGGAACGG 59.588 66.667 0.00 0.00 39.91 4.44
854 3541 0.179092 AAATTCGGGTCGATCGGGTC 60.179 55.000 16.41 6.31 35.23 4.46
855 3542 0.179092 GAAATTCGGGTCGATCGGGT 60.179 55.000 16.41 0.00 35.23 5.28
856 3543 0.104304 AGAAATTCGGGTCGATCGGG 59.896 55.000 16.41 2.71 35.23 5.14
857 3544 1.209128 CAGAAATTCGGGTCGATCGG 58.791 55.000 16.41 4.17 35.23 4.18
858 3545 1.209128 CCAGAAATTCGGGTCGATCG 58.791 55.000 9.36 9.36 35.23 3.69
859 3546 0.938008 GCCAGAAATTCGGGTCGATC 59.062 55.000 13.39 0.00 35.23 3.69
860 3547 0.251916 TGCCAGAAATTCGGGTCGAT 59.748 50.000 13.39 0.00 35.23 3.59
861 3548 0.035598 TTGCCAGAAATTCGGGTCGA 59.964 50.000 13.39 3.76 34.05 4.20
862 3549 0.168128 GTTGCCAGAAATTCGGGTCG 59.832 55.000 13.39 0.00 34.05 4.79
863 3550 1.534729 AGTTGCCAGAAATTCGGGTC 58.465 50.000 13.39 6.80 34.05 4.46
864 3551 2.871096 TAGTTGCCAGAAATTCGGGT 57.129 45.000 13.39 0.00 34.05 5.28
865 3552 2.358898 CCATAGTTGCCAGAAATTCGGG 59.641 50.000 7.82 7.82 34.70 5.14
866 3553 2.223572 GCCATAGTTGCCAGAAATTCGG 60.224 50.000 0.64 0.64 0.00 4.30
867 3554 2.423185 TGCCATAGTTGCCAGAAATTCG 59.577 45.455 0.00 0.00 0.00 3.34
868 3555 4.454728 TTGCCATAGTTGCCAGAAATTC 57.545 40.909 0.00 0.00 0.00 2.17
869 3556 4.824289 CTTTGCCATAGTTGCCAGAAATT 58.176 39.130 0.00 0.00 0.00 1.82
870 3557 3.368739 GCTTTGCCATAGTTGCCAGAAAT 60.369 43.478 0.00 0.00 0.00 2.17
871 3558 2.029110 GCTTTGCCATAGTTGCCAGAAA 60.029 45.455 0.00 0.00 0.00 2.52
872 3559 1.545582 GCTTTGCCATAGTTGCCAGAA 59.454 47.619 0.00 0.00 0.00 3.02
873 3560 1.176527 GCTTTGCCATAGTTGCCAGA 58.823 50.000 0.00 0.00 0.00 3.86
874 3561 3.727419 GCTTTGCCATAGTTGCCAG 57.273 52.632 0.00 0.00 0.00 4.85
982 3695 0.463295 ATCTGCTTGGACGCCATCAG 60.463 55.000 15.67 15.67 36.50 2.90
1003 3721 3.419759 GGCGAACACGGCGACAAT 61.420 61.111 16.62 0.00 42.04 2.71
1173 3943 2.432206 TCGCGTCACAGAGAAAATGA 57.568 45.000 5.77 0.00 0.00 2.57
1216 4031 3.181534 CCGTACTTGAACACTGCGTTATG 60.182 47.826 0.00 0.00 38.19 1.90
1416 5675 3.434319 GCGGTGTCGAGGACGGTA 61.434 66.667 4.99 0.00 40.21 4.02
1587 5909 1.166531 AGGGCTCAAACTCACAACGC 61.167 55.000 0.00 0.00 0.00 4.84
1596 5918 4.320608 TGAACAATTCAAGGGCTCAAAC 57.679 40.909 0.00 0.00 36.59 2.93
1664 8933 7.020914 AGGAAAGATAGCTTCGCAAATAAAG 57.979 36.000 0.00 0.00 31.82 1.85
1754 9026 7.148373 CCAACTTGAATGAAGCCCAAATAATTG 60.148 37.037 0.00 0.00 34.68 2.32
1872 9146 1.543429 CCACTAAGGGATGATTCCGCC 60.543 57.143 0.00 0.00 43.63 6.13
1880 9154 7.184067 AGTAAAACTACTCCACTAAGGGATG 57.816 40.000 0.00 0.00 36.09 3.51
1882 9156 6.847421 GAGTAAAACTACTCCACTAAGGGA 57.153 41.667 1.55 0.00 40.31 4.20
1912 9186 9.503427 CGGTCAAATCTTAATGGAGTAAAAATC 57.497 33.333 0.00 0.00 0.00 2.17
2212 9523 6.244552 TCAGCTCCAAGATGATCTTATTGT 57.755 37.500 7.46 0.00 35.46 2.71
2257 9573 1.005340 CTTGAAGAGCATCGCAGGAC 58.995 55.000 0.00 0.00 42.67 3.85


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

AutoCloner maintained by Alex Coulton.