Multiple sequence alignment - TraesCS6B01G156700

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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 TraesCS6B01G156700 chr6B 100.000 3182 0 0 1 3182 159371039 159374220 0.000000e+00 5877.0
1 TraesCS6B01G156700 chr6B 88.088 1553 154 17 618 2163 159284484 159286012 0.000000e+00 1814.0
2 TraesCS6B01G156700 chr6B 88.155 1545 154 13 629 2167 158289354 158287833 0.000000e+00 1812.0
3 TraesCS6B01G156700 chr6B 94.444 576 22 3 1 566 492213338 492212763 0.000000e+00 878.0
4 TraesCS6B01G156700 chr6A 91.632 2438 121 32 575 2983 100734131 100736514 0.000000e+00 3295.0
5 TraesCS6B01G156700 chr6A 88.472 1544 150 16 629 2166 100426629 100425108 0.000000e+00 1840.0
6 TraesCS6B01G156700 chr6A 93.689 206 12 1 2978 3182 419773700 419773495 1.110000e-79 307.0
7 TraesCS6B01G156700 chr6A 91.351 185 15 1 618 802 100733491 100733674 5.270000e-63 252.0
8 TraesCS6B01G156700 chr6A 93.846 65 4 0 2305 2369 551840498 551840434 7.260000e-17 99.0
9 TraesCS6B01G156700 chr6D 88.067 1542 153 13 618 2152 83489726 83491243 0.000000e+00 1799.0
10 TraesCS6B01G156700 chr6D 87.694 1544 160 16 630 2166 83225194 83223674 0.000000e+00 1772.0
11 TraesCS6B01G156700 chr4B 96.837 569 15 2 1 566 644085860 644086428 0.000000e+00 948.0
12 TraesCS6B01G156700 chr4D 95.139 576 17 6 1 567 190494111 190493538 0.000000e+00 898.0
13 TraesCS6B01G156700 chr4D 96.894 161 2 2 408 566 190496896 190497055 1.880000e-67 267.0
14 TraesCS6B01G156700 chr2D 94.473 579 17 5 1 566 157009808 157009232 0.000000e+00 878.0
15 TraesCS6B01G156700 chr2D 97.500 160 3 1 408 567 157014480 157014638 4.040000e-69 272.0
16 TraesCS6B01G156700 chr2A 80.920 587 74 20 1 571 334905340 334905904 2.270000e-116 429.0
17 TraesCS6B01G156700 chr2A 93.846 65 4 0 2305 2369 80987364 80987300 7.260000e-17 99.0
18 TraesCS6B01G156700 chr3D 91.259 286 20 3 282 566 267924725 267925006 4.980000e-103 385.0
19 TraesCS6B01G156700 chr3D 91.860 258 14 1 1 251 267924469 267924726 1.400000e-93 353.0
20 TraesCS6B01G156700 chr3D 96.855 159 5 0 408 566 267914321 267914163 1.880000e-67 267.0
21 TraesCS6B01G156700 chr3D 92.308 65 5 0 2305 2369 363272432 363272368 3.380000e-15 93.5
22 TraesCS6B01G156700 chr2B 94.660 206 10 1 2978 3182 686807088 686806883 5.120000e-83 318.0
23 TraesCS6B01G156700 chr3B 94.175 206 11 1 2978 3182 55399182 55399387 2.380000e-81 313.0
24 TraesCS6B01G156700 chr1B 94.175 206 11 1 2978 3182 655293827 655294032 2.380000e-81 313.0
25 TraesCS6B01G156700 chr1B 93.689 206 12 1 2978 3182 688126535 688126330 1.110000e-79 307.0
26 TraesCS6B01G156700 chr1B 93.237 207 12 2 2978 3182 36282866 36283072 1.430000e-78 303.0
27 TraesCS6B01G156700 chr1B 92.308 65 5 0 2305 2369 480973000 480972936 3.380000e-15 93.5
28 TraesCS6B01G156700 chr5B 93.689 206 11 2 2978 3182 38148653 38148857 1.110000e-79 307.0
29 TraesCS6B01G156700 chr1A 93.689 206 12 1 2978 3182 30784579 30784374 1.110000e-79 307.0
30 TraesCS6B01G156700 chr1A 93.846 65 4 0 2305 2369 478362880 478362944 7.260000e-17 99.0
31 TraesCS6B01G156700 chr1A 92.308 65 5 0 2305 2369 146184644 146184708 3.380000e-15 93.5
32 TraesCS6B01G156700 chr1D 93.204 206 13 1 2978 3182 233886802 233887007 5.160000e-78 302.0
33 TraesCS6B01G156700 chr1D 92.308 65 5 0 2305 2369 358222572 358222636 3.380000e-15 93.5
34 TraesCS6B01G156700 chr4A 84.307 274 40 3 109 380 731734360 731734632 6.770000e-67 265.0
35 TraesCS6B01G156700 chr3A 95.181 166 7 1 403 568 495498009 495497845 8.750000e-66 261.0
36 TraesCS6B01G156700 chr5A 93.846 65 4 0 2305 2369 5695972 5695908 7.260000e-17 99.0
37 TraesCS6B01G156700 chr5A 93.846 65 4 0 2305 2369 493820289 493820225 7.260000e-17 99.0


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 TraesCS6B01G156700 chr6B 159371039 159374220 3181 False 5877.0 5877 100.0000 1 3182 1 chr6B.!!$F2 3181
1 TraesCS6B01G156700 chr6B 159284484 159286012 1528 False 1814.0 1814 88.0880 618 2163 1 chr6B.!!$F1 1545
2 TraesCS6B01G156700 chr6B 158287833 158289354 1521 True 1812.0 1812 88.1550 629 2167 1 chr6B.!!$R1 1538
3 TraesCS6B01G156700 chr6B 492212763 492213338 575 True 878.0 878 94.4440 1 566 1 chr6B.!!$R2 565
4 TraesCS6B01G156700 chr6A 100425108 100426629 1521 True 1840.0 1840 88.4720 629 2166 1 chr6A.!!$R1 1537
5 TraesCS6B01G156700 chr6A 100733491 100736514 3023 False 1773.5 3295 91.4915 575 2983 2 chr6A.!!$F1 2408
6 TraesCS6B01G156700 chr6D 83489726 83491243 1517 False 1799.0 1799 88.0670 618 2152 1 chr6D.!!$F1 1534
7 TraesCS6B01G156700 chr6D 83223674 83225194 1520 True 1772.0 1772 87.6940 630 2166 1 chr6D.!!$R1 1536
8 TraesCS6B01G156700 chr4B 644085860 644086428 568 False 948.0 948 96.8370 1 566 1 chr4B.!!$F1 565
9 TraesCS6B01G156700 chr4D 190493538 190494111 573 True 898.0 898 95.1390 1 567 1 chr4D.!!$R1 566
10 TraesCS6B01G156700 chr2D 157009232 157009808 576 True 878.0 878 94.4730 1 566 1 chr2D.!!$R1 565
11 TraesCS6B01G156700 chr2A 334905340 334905904 564 False 429.0 429 80.9200 1 571 1 chr2A.!!$F1 570
12 TraesCS6B01G156700 chr3D 267924469 267925006 537 False 369.0 385 91.5595 1 566 2 chr3D.!!$F1 565

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
581 607 0.796312 TTTCGATTGTGCTTCCGCTC 59.204 50.0 0.0 0.0 36.97 5.03 F
1249 1320 0.439985 CATCTTCGTCCGTGTGCAAG 59.560 55.0 0.0 0.0 0.00 4.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1571 1642 0.176449 TGTCCTCATGCCACTCATCG 59.824 55.0 0.00 0.0 31.79 3.84 R
2615 2693 0.036164 AGCACCTGCCGTGACAAATA 59.964 50.0 5.27 0.0 46.20 1.40 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
567 593 2.235402 GGGGTATGTGGACTTCTTTCGA 59.765 50.000 0.00 0.00 0.00 3.71
569 595 4.514401 GGGTATGTGGACTTCTTTCGATT 58.486 43.478 0.00 0.00 0.00 3.34
570 596 4.332819 GGGTATGTGGACTTCTTTCGATTG 59.667 45.833 0.00 0.00 0.00 2.67
572 598 5.163854 GGTATGTGGACTTCTTTCGATTGTG 60.164 44.000 0.00 0.00 0.00 3.33
573 599 2.548057 TGTGGACTTCTTTCGATTGTGC 59.452 45.455 0.00 0.00 0.00 4.57
575 601 3.251004 GTGGACTTCTTTCGATTGTGCTT 59.749 43.478 0.00 0.00 0.00 3.91
576 602 3.498397 TGGACTTCTTTCGATTGTGCTTC 59.502 43.478 0.00 0.00 0.00 3.86
577 603 3.120165 GGACTTCTTTCGATTGTGCTTCC 60.120 47.826 0.00 0.00 0.00 3.46
578 604 2.480419 ACTTCTTTCGATTGTGCTTCCG 59.520 45.455 0.00 0.00 0.00 4.30
580 606 0.798776 CTTTCGATTGTGCTTCCGCT 59.201 50.000 0.00 0.00 36.97 5.52
581 607 0.796312 TTTCGATTGTGCTTCCGCTC 59.204 50.000 0.00 0.00 36.97 5.03
583 609 1.014044 TCGATTGTGCTTCCGCTCAC 61.014 55.000 0.00 0.00 39.15 3.51
584 610 1.291184 CGATTGTGCTTCCGCTCACA 61.291 55.000 0.00 0.00 39.15 3.58
595 661 1.134220 TCCGCTCACAAACCTTCAACT 60.134 47.619 0.00 0.00 0.00 3.16
599 667 2.860136 GCTCACAAACCTTCAACTTTGC 59.140 45.455 0.00 0.00 31.63 3.68
604 672 3.509575 ACAAACCTTCAACTTTGCAGTCA 59.490 39.130 0.00 0.00 31.63 3.41
742 811 7.254421 GGCAAAAATAGAAGAAACACAAACCAG 60.254 37.037 0.00 0.00 0.00 4.00
746 815 1.068588 GAAGAAACACAAACCAGGGGC 59.931 52.381 0.00 0.00 0.00 5.80
765 834 5.891551 AGGGGCGACATTTTCATAAATAGTT 59.108 36.000 0.00 0.00 32.75 2.24
806 875 1.959042 AGTTTGAGCTGTGACTGGTG 58.041 50.000 0.00 0.00 0.00 4.17
980 1051 2.404559 ACAAACCTGTGTCCTGTCCTA 58.595 47.619 0.00 0.00 33.30 2.94
1134 1205 1.153429 GGTAGACCCGCGCTTTCAT 60.153 57.895 5.56 0.00 0.00 2.57
1237 1308 1.226974 ATCGACACCGGCATCTTCG 60.227 57.895 0.00 2.57 36.24 3.79
1248 1319 1.565156 GCATCTTCGTCCGTGTGCAA 61.565 55.000 0.00 0.00 33.09 4.08
1249 1320 0.439985 CATCTTCGTCCGTGTGCAAG 59.560 55.000 0.00 0.00 0.00 4.01
1283 1354 1.303074 ACCACTCCGTGCTCGACTA 60.303 57.895 10.21 0.00 39.71 2.59
1374 1445 0.693049 ATGTTGCCGAGTTTCCTCCT 59.307 50.000 0.00 0.00 33.93 3.69
1455 1526 1.681793 CTTCGACTACGGATGGTCCAT 59.318 52.381 3.26 3.26 35.91 3.41
1466 1537 1.337384 ATGGTCCATGCGGCTGTCTA 61.337 55.000 2.68 0.00 0.00 2.59
1471 1542 1.153842 CATGCGGCTGTCTACGTCA 60.154 57.895 0.00 0.00 0.00 4.35
1478 1549 1.337823 GGCTGTCTACGTCAATGTGGT 60.338 52.381 0.00 0.00 0.00 4.16
1571 1642 0.106708 TGGACTCACACAAGCTGGAC 59.893 55.000 0.00 0.00 0.00 4.02
1654 1725 3.708563 AAAACAAACCCTCACACATCG 57.291 42.857 0.00 0.00 0.00 3.84
1665 1736 2.014554 ACACATCGTGCGTGTCGAC 61.015 57.895 9.11 9.11 44.11 4.20
1689 1760 2.292521 ACCAGATAGCTCCAGTTCCTCA 60.293 50.000 0.00 0.00 0.00 3.86
1721 1792 0.605319 ACACCGCCACAAATGATCGT 60.605 50.000 0.00 0.00 0.00 3.73
1738 1815 3.866883 TCGTGACATGTTCAGCTATGA 57.133 42.857 0.00 0.00 33.71 2.15
1821 1898 0.678684 CCCGGCTTTTGGTTATCCGT 60.679 55.000 0.00 0.00 38.54 4.69
1869 1946 1.406341 GCCATGCCATTGACAAGCATT 60.406 47.619 11.16 0.00 44.61 3.56
2105 2182 0.675633 ATTGTCAGTTGTTGCCAGCC 59.324 50.000 0.00 0.00 0.00 4.85
2190 2267 4.381398 CGTCTTCTGGAGTGATCAGTTGAT 60.381 45.833 4.13 0.00 37.51 2.57
2255 2332 3.269759 TGCTTTGCAGGTGATCACACAA 61.270 45.455 26.47 22.02 40.20 3.33
2275 2352 7.214467 CACAACTTTATGTGGTTTAGGATGT 57.786 36.000 0.00 0.00 45.47 3.06
2276 2353 8.330466 CACAACTTTATGTGGTTTAGGATGTA 57.670 34.615 0.00 0.00 45.47 2.29
2277 2354 8.234546 CACAACTTTATGTGGTTTAGGATGTAC 58.765 37.037 0.00 0.00 45.47 2.90
2280 2357 7.336396 ACTTTATGTGGTTTAGGATGTACTCC 58.664 38.462 0.00 0.00 45.33 3.85
2281 2358 4.772886 ATGTGGTTTAGGATGTACTCCC 57.227 45.455 7.50 2.60 46.27 4.30
2282 2359 3.798515 TGTGGTTTAGGATGTACTCCCT 58.201 45.455 10.65 10.65 46.27 4.20
2283 2360 3.773119 TGTGGTTTAGGATGTACTCCCTC 59.227 47.826 9.41 0.00 46.27 4.30
2284 2361 4.031611 GTGGTTTAGGATGTACTCCCTCT 58.968 47.826 9.41 0.00 46.27 3.69
2285 2362 4.030913 TGGTTTAGGATGTACTCCCTCTG 58.969 47.826 9.41 0.00 46.27 3.35
2287 2364 5.206587 GGTTTAGGATGTACTCCCTCTGTA 58.793 45.833 9.41 0.00 46.27 2.74
2288 2365 5.659971 GGTTTAGGATGTACTCCCTCTGTAA 59.340 44.000 9.41 0.00 46.27 2.41
2289 2366 6.155737 GGTTTAGGATGTACTCCCTCTGTAAA 59.844 42.308 9.41 3.74 46.27 2.01
2290 2367 7.310858 GGTTTAGGATGTACTCCCTCTGTAAAA 60.311 40.741 9.41 3.45 46.27 1.52
2291 2368 7.989947 TTAGGATGTACTCCCTCTGTAAAAT 57.010 36.000 9.41 0.00 46.27 1.82
2294 2371 7.133483 AGGATGTACTCCCTCTGTAAAATAGT 58.867 38.462 7.50 0.00 46.27 2.12
2295 2372 8.287350 AGGATGTACTCCCTCTGTAAAATAGTA 58.713 37.037 7.50 0.00 46.27 1.82
2296 2373 8.358895 GGATGTACTCCCTCTGTAAAATAGTAC 58.641 40.741 0.00 0.00 38.19 2.73
2297 2374 9.134055 GATGTACTCCCTCTGTAAAATAGTACT 57.866 37.037 0.00 0.00 38.91 2.73
2298 2375 8.517062 TGTACTCCCTCTGTAAAATAGTACTC 57.483 38.462 0.00 0.00 38.91 2.59
2396 2474 2.545526 CTGTGTGTTTGCCTCTACACTG 59.454 50.000 0.00 0.00 43.82 3.66
2398 2476 2.287915 GTGTGTTTGCCTCTACACTGTG 59.712 50.000 6.19 6.19 43.82 3.66
2402 2480 2.238942 TTGCCTCTACACTGTGTGTG 57.761 50.000 22.97 15.00 46.84 3.82
2411 2489 1.725641 CACTGTGTGTGTGTGTCTGT 58.274 50.000 0.00 0.00 41.53 3.41
2412 2490 1.394572 CACTGTGTGTGTGTGTCTGTG 59.605 52.381 0.00 0.00 41.53 3.66
2413 2491 1.001974 ACTGTGTGTGTGTGTCTGTGT 59.998 47.619 0.00 0.00 0.00 3.72
2436 2514 7.852945 GTGTCTACTTTTGTTCAGACATTTGAG 59.147 37.037 6.56 0.00 44.75 3.02
2444 2522 9.950680 TTTTGTTCAGACATTTGAGTCTAATTC 57.049 29.630 0.00 0.68 46.65 2.17
2498 2576 2.885135 ATCATGCTGGGAAACACTGA 57.115 45.000 0.00 0.00 0.00 3.41
2499 2577 2.885135 TCATGCTGGGAAACACTGAT 57.115 45.000 0.00 0.00 0.00 2.90
2507 2585 4.142600 GCTGGGAAACACTGATTGACATAC 60.143 45.833 0.00 0.00 0.00 2.39
2530 2608 0.451783 GCTGGGTTGTGCCTTTATCG 59.548 55.000 0.00 0.00 37.43 2.92
2565 2643 3.249320 CACTGTGATGTGACTTCCACTTG 59.751 47.826 0.32 0.00 45.86 3.16
2583 2661 5.065218 CCACTTGTGGTACTTGCTGAATATC 59.935 44.000 11.39 0.00 0.00 1.63
2591 2669 6.595326 TGGTACTTGCTGAATATCAACTCTTG 59.405 38.462 0.00 0.00 0.00 3.02
2610 2688 4.389992 TCTTGAATCTTGATGACGCTGAAC 59.610 41.667 0.00 0.00 0.00 3.18
2615 2693 1.736126 CTTGATGACGCTGAACTGCAT 59.264 47.619 0.00 0.00 0.00 3.96
2616 2694 2.671130 TGATGACGCTGAACTGCATA 57.329 45.000 0.00 0.00 0.00 3.14
2624 2702 3.120199 ACGCTGAACTGCATATTTGTCAC 60.120 43.478 0.00 0.00 0.00 3.67
2626 2704 3.728864 GCTGAACTGCATATTTGTCACGG 60.729 47.826 0.00 0.00 0.00 4.94
2636 2714 2.601194 TTTGTCACGGCAGGTGCTCA 62.601 55.000 1.26 2.58 46.56 4.26
2679 2757 8.717821 GTTGTGTTTACTGCTATGATAAACTCA 58.282 33.333 7.41 7.05 39.04 3.41
2697 2775 4.097418 ACTCAGGTCCAACTTACTGCTAT 58.903 43.478 0.00 0.00 0.00 2.97
2716 2794 8.129840 ACTGCTATGATAAACTCTAACAGTACG 58.870 37.037 0.00 0.00 32.30 3.67
2721 2799 7.949903 TGATAAACTCTAACAGTACGCAAAA 57.050 32.000 0.00 0.00 32.30 2.44
2747 2825 7.147724 ACCTGATAGATACATCCGACTGAAAAA 60.148 37.037 0.00 0.00 0.00 1.94
2748 2826 7.383572 CCTGATAGATACATCCGACTGAAAAAG 59.616 40.741 0.00 0.00 0.00 2.27
2749 2827 8.007405 TGATAGATACATCCGACTGAAAAAGA 57.993 34.615 0.00 0.00 0.00 2.52
2750 2828 8.138074 TGATAGATACATCCGACTGAAAAAGAG 58.862 37.037 0.00 0.00 0.00 2.85
2751 2829 6.531503 AGATACATCCGACTGAAAAAGAGA 57.468 37.500 0.00 0.00 0.00 3.10
2752 2830 6.568869 AGATACATCCGACTGAAAAAGAGAG 58.431 40.000 0.00 0.00 0.00 3.20
2755 2833 5.611374 ACATCCGACTGAAAAAGAGAGAAA 58.389 37.500 0.00 0.00 0.00 2.52
2757 2835 6.542370 ACATCCGACTGAAAAAGAGAGAAAAA 59.458 34.615 0.00 0.00 0.00 1.94
2775 2878 9.911788 AGAGAAAAATCTAGATAATGCTCCAAA 57.088 29.630 16.73 0.00 0.00 3.28
2781 2884 8.443953 AATCTAGATAATGCTCCAAAGTGAAC 57.556 34.615 5.46 0.00 0.00 3.18
2782 2885 6.946340 TCTAGATAATGCTCCAAAGTGAACA 58.054 36.000 0.00 0.00 0.00 3.18
2807 2910 3.118592 AGTTCGGATCATCCTTGTCTTCC 60.119 47.826 1.10 0.00 33.30 3.46
2849 2952 7.583230 TGCAACAAAATAAATTGATTTCAGGC 58.417 30.769 1.03 4.73 34.38 4.85
2867 2970 6.811253 TCAGGCGAGTACAAACAAATTTAT 57.189 33.333 0.00 0.00 0.00 1.40
2868 2971 7.908827 TCAGGCGAGTACAAACAAATTTATA 57.091 32.000 0.00 0.00 0.00 0.98
2916 3019 9.284968 TCTAGGTTCATTAAGCTATAAAATGGC 57.715 33.333 0.00 0.00 43.00 4.40
2917 3020 7.896383 AGGTTCATTAAGCTATAAAATGGCA 57.104 32.000 0.00 0.00 41.57 4.92
2918 3021 8.305046 AGGTTCATTAAGCTATAAAATGGCAA 57.695 30.769 0.00 0.00 41.57 4.52
2919 3022 8.927411 AGGTTCATTAAGCTATAAAATGGCAAT 58.073 29.630 0.00 0.00 41.57 3.56
2920 3023 9.546428 GGTTCATTAAGCTATAAAATGGCAATT 57.454 29.630 0.00 0.00 39.48 2.32
2983 3086 5.051039 GCAGTTTTGAAAATCTTCGGTTTCC 60.051 40.000 0.00 0.00 33.63 3.13
2984 3087 5.462068 CAGTTTTGAAAATCTTCGGTTTCCC 59.538 40.000 0.00 0.00 33.63 3.97
2985 3088 4.594123 TTTGAAAATCTTCGGTTTCCCC 57.406 40.909 0.00 0.00 33.63 4.81
2986 3089 2.521126 TGAAAATCTTCGGTTTCCCCC 58.479 47.619 0.00 0.00 33.63 5.40
3003 3106 4.047125 CCATCCCAACCCGCACCT 62.047 66.667 0.00 0.00 0.00 4.00
3004 3107 2.438434 CATCCCAACCCGCACCTC 60.438 66.667 0.00 0.00 0.00 3.85
3005 3108 4.096003 ATCCCAACCCGCACCTCG 62.096 66.667 0.00 0.00 38.08 4.63
3007 3110 4.323477 CCCAACCCGCACCTCGAA 62.323 66.667 0.00 0.00 41.67 3.71
3008 3111 3.047877 CCAACCCGCACCTCGAAC 61.048 66.667 0.00 0.00 41.67 3.95
3009 3112 3.411351 CAACCCGCACCTCGAACG 61.411 66.667 0.00 0.00 41.67 3.95
3015 3118 4.415332 GCACCTCGAACGCTCCGA 62.415 66.667 0.00 0.00 34.61 4.55
3016 3119 2.257371 CACCTCGAACGCTCCGAA 59.743 61.111 0.00 0.00 35.48 4.30
3017 3120 1.153823 CACCTCGAACGCTCCGAAT 60.154 57.895 0.00 0.00 35.48 3.34
3018 3121 1.139095 ACCTCGAACGCTCCGAATC 59.861 57.895 0.00 0.00 35.48 2.52
3019 3122 1.589196 CCTCGAACGCTCCGAATCC 60.589 63.158 0.00 0.00 35.48 3.01
3020 3123 1.138883 CTCGAACGCTCCGAATCCA 59.861 57.895 0.00 0.00 35.48 3.41
3021 3124 0.867753 CTCGAACGCTCCGAATCCAG 60.868 60.000 0.00 0.00 35.48 3.86
3022 3125 2.517450 CGAACGCTCCGAATCCAGC 61.517 63.158 0.00 0.00 0.00 4.85
3023 3126 2.125106 AACGCTCCGAATCCAGCC 60.125 61.111 0.00 0.00 31.37 4.85
3024 3127 2.852495 GAACGCTCCGAATCCAGCCA 62.852 60.000 0.00 0.00 31.37 4.75
3025 3128 2.892425 CGCTCCGAATCCAGCCAC 60.892 66.667 0.00 0.00 31.37 5.01
3026 3129 2.514824 GCTCCGAATCCAGCCACC 60.515 66.667 0.00 0.00 0.00 4.61
3027 3130 2.989639 CTCCGAATCCAGCCACCA 59.010 61.111 0.00 0.00 0.00 4.17
3028 3131 1.299648 CTCCGAATCCAGCCACCAA 59.700 57.895 0.00 0.00 0.00 3.67
3029 3132 0.322456 CTCCGAATCCAGCCACCAAA 60.322 55.000 0.00 0.00 0.00 3.28
3030 3133 0.608035 TCCGAATCCAGCCACCAAAC 60.608 55.000 0.00 0.00 0.00 2.93
3031 3134 1.595093 CCGAATCCAGCCACCAAACC 61.595 60.000 0.00 0.00 0.00 3.27
3032 3135 0.893270 CGAATCCAGCCACCAAACCA 60.893 55.000 0.00 0.00 0.00 3.67
3033 3136 1.337118 GAATCCAGCCACCAAACCAA 58.663 50.000 0.00 0.00 0.00 3.67
3034 3137 1.000843 GAATCCAGCCACCAAACCAAC 59.999 52.381 0.00 0.00 0.00 3.77
3035 3138 0.831711 ATCCAGCCACCAAACCAACC 60.832 55.000 0.00 0.00 0.00 3.77
3036 3139 1.760086 CCAGCCACCAAACCAACCA 60.760 57.895 0.00 0.00 0.00 3.67
3037 3140 1.441311 CAGCCACCAAACCAACCAC 59.559 57.895 0.00 0.00 0.00 4.16
3038 3141 1.760480 AGCCACCAAACCAACCACC 60.760 57.895 0.00 0.00 0.00 4.61
3039 3142 2.060980 GCCACCAAACCAACCACCA 61.061 57.895 0.00 0.00 0.00 4.17
3040 3143 1.819905 CCACCAAACCAACCACCAC 59.180 57.895 0.00 0.00 0.00 4.16
3041 3144 1.681486 CCACCAAACCAACCACCACC 61.681 60.000 0.00 0.00 0.00 4.61
3042 3145 1.382009 ACCAAACCAACCACCACCC 60.382 57.895 0.00 0.00 0.00 4.61
3043 3146 1.075600 CCAAACCAACCACCACCCT 60.076 57.895 0.00 0.00 0.00 4.34
3044 3147 1.398958 CCAAACCAACCACCACCCTG 61.399 60.000 0.00 0.00 0.00 4.45
3045 3148 1.760480 AAACCAACCACCACCCTGC 60.760 57.895 0.00 0.00 0.00 4.85
3046 3149 4.579384 ACCAACCACCACCCTGCG 62.579 66.667 0.00 0.00 0.00 5.18
3063 3166 4.090057 GCCAACGCGGTCTTGAGC 62.090 66.667 12.47 8.20 36.97 4.26
3064 3167 3.423154 CCAACGCGGTCTTGAGCC 61.423 66.667 12.47 0.00 0.00 4.70
3065 3168 2.357517 CAACGCGGTCTTGAGCCT 60.358 61.111 12.47 0.00 0.00 4.58
3066 3169 2.048127 AACGCGGTCTTGAGCCTC 60.048 61.111 12.47 0.00 0.00 4.70
3067 3170 3.591254 AACGCGGTCTTGAGCCTCC 62.591 63.158 12.47 0.00 0.00 4.30
3068 3171 4.069232 CGCGGTCTTGAGCCTCCA 62.069 66.667 0.00 0.00 0.00 3.86
3069 3172 2.435059 GCGGTCTTGAGCCTCCAC 60.435 66.667 0.00 0.00 0.00 4.02
3070 3173 2.125912 CGGTCTTGAGCCTCCACG 60.126 66.667 0.00 0.00 0.00 4.94
3071 3174 2.435059 GGTCTTGAGCCTCCACGC 60.435 66.667 0.00 0.00 0.00 5.34
3072 3175 2.435059 GTCTTGAGCCTCCACGCC 60.435 66.667 0.00 0.00 0.00 5.68
3073 3176 4.069232 TCTTGAGCCTCCACGCCG 62.069 66.667 0.00 0.00 0.00 6.46
3074 3177 4.379243 CTTGAGCCTCCACGCCGT 62.379 66.667 0.00 0.00 0.00 5.68
3075 3178 4.373116 TTGAGCCTCCACGCCGTC 62.373 66.667 0.00 0.00 0.00 4.79
3077 3180 4.500116 GAGCCTCCACGCCGTCTC 62.500 72.222 0.00 0.00 0.00 3.36
3080 3183 4.436998 CCTCCACGCCGTCTCACC 62.437 72.222 0.00 0.00 0.00 4.02
3081 3184 3.680786 CTCCACGCCGTCTCACCA 61.681 66.667 0.00 0.00 0.00 4.17
3082 3185 3.916392 CTCCACGCCGTCTCACCAC 62.916 68.421 0.00 0.00 0.00 4.16
3100 3203 4.373116 GGCACCGCGAAGTGAGGA 62.373 66.667 17.98 0.00 43.07 3.71
3101 3204 3.112709 GCACCGCGAAGTGAGGAC 61.113 66.667 17.98 0.00 43.07 3.85
3102 3205 2.338620 CACCGCGAAGTGAGGACA 59.661 61.111 8.23 0.00 43.07 4.02
3103 3206 1.734477 CACCGCGAAGTGAGGACAG 60.734 63.158 8.23 0.00 43.07 3.51
3104 3207 2.811317 CCGCGAAGTGAGGACAGC 60.811 66.667 8.23 0.00 43.07 4.40
3105 3208 3.175240 CGCGAAGTGAGGACAGCG 61.175 66.667 0.00 0.00 43.07 5.18
3106 3209 3.482783 GCGAAGTGAGGACAGCGC 61.483 66.667 0.00 0.00 36.03 5.92
3107 3210 3.175240 CGAAGTGAGGACAGCGCG 61.175 66.667 0.00 0.00 0.00 6.86
3108 3211 2.811317 GAAGTGAGGACAGCGCGG 60.811 66.667 8.83 5.83 0.00 6.46
3116 3219 3.188786 GACAGCGCGGCGAAGAAT 61.189 61.111 28.54 5.62 0.00 2.40
3117 3220 3.144120 GACAGCGCGGCGAAGAATC 62.144 63.158 28.54 11.35 0.00 2.52
3118 3221 3.188100 CAGCGCGGCGAAGAATCA 61.188 61.111 28.54 0.00 0.00 2.57
3119 3222 2.887568 AGCGCGGCGAAGAATCAG 60.888 61.111 28.54 0.00 0.00 2.90
3120 3223 2.885644 GCGCGGCGAAGAATCAGA 60.886 61.111 28.54 0.00 0.00 3.27
3121 3224 2.998667 CGCGGCGAAGAATCAGAC 59.001 61.111 19.16 0.00 0.00 3.51
3122 3225 2.517450 CGCGGCGAAGAATCAGACC 61.517 63.158 19.16 0.00 0.00 3.85
3123 3226 2.174319 GCGGCGAAGAATCAGACCC 61.174 63.158 12.98 0.00 0.00 4.46
3124 3227 1.878522 CGGCGAAGAATCAGACCCG 60.879 63.158 0.00 0.00 0.00 5.28
3125 3228 1.521681 GGCGAAGAATCAGACCCGG 60.522 63.158 0.00 0.00 0.00 5.73
3126 3229 1.521681 GCGAAGAATCAGACCCGGG 60.522 63.158 22.25 22.25 0.00 5.73
3127 3230 1.956629 GCGAAGAATCAGACCCGGGA 61.957 60.000 32.02 4.18 0.00 5.14
3128 3231 0.179108 CGAAGAATCAGACCCGGGAC 60.179 60.000 32.02 23.52 0.00 4.46
3129 3232 1.196012 GAAGAATCAGACCCGGGACT 58.804 55.000 32.02 25.86 0.00 3.85
3130 3233 2.385803 GAAGAATCAGACCCGGGACTA 58.614 52.381 32.02 15.50 0.00 2.59
3131 3234 2.074729 AGAATCAGACCCGGGACTAG 57.925 55.000 32.02 20.27 0.00 2.57
3132 3235 1.041437 GAATCAGACCCGGGACTAGG 58.959 60.000 32.02 16.01 0.00 3.02
3138 3241 2.445845 CCCGGGACTAGGGCATCA 60.446 66.667 18.48 0.00 42.77 3.07
3139 3242 2.511452 CCCGGGACTAGGGCATCAG 61.511 68.421 18.48 0.00 42.77 2.90
3140 3243 2.423446 CGGGACTAGGGCATCAGC 59.577 66.667 0.00 0.00 41.10 4.26
3141 3244 2.434843 CGGGACTAGGGCATCAGCA 61.435 63.158 0.00 0.00 44.61 4.41
3148 3251 3.213264 GGGCATCAGCACCATTGG 58.787 61.111 0.00 0.00 44.61 3.16
3149 3252 2.497770 GGCATCAGCACCATTGGC 59.502 61.111 1.54 0.00 44.61 4.52
3150 3253 2.352821 GGCATCAGCACCATTGGCA 61.353 57.895 1.54 0.00 44.61 4.92
3151 3254 1.153706 GCATCAGCACCATTGGCAC 60.154 57.895 1.54 0.00 41.58 5.01
3152 3255 1.138036 CATCAGCACCATTGGCACG 59.862 57.895 1.54 0.00 0.00 5.34
3153 3256 2.703798 ATCAGCACCATTGGCACGC 61.704 57.895 1.54 3.36 0.00 5.34
3154 3257 4.764336 CAGCACCATTGGCACGCG 62.764 66.667 3.53 3.53 0.00 6.01
3174 3277 4.798682 AGGGCCCTACCTCCACCG 62.799 72.222 27.42 0.00 35.43 4.94
3176 3279 3.468140 GGCCCTACCTCCACCGTC 61.468 72.222 0.00 0.00 34.51 4.79
3177 3280 2.682494 GCCCTACCTCCACCGTCA 60.682 66.667 0.00 0.00 0.00 4.35
3178 3281 2.722201 GCCCTACCTCCACCGTCAG 61.722 68.421 0.00 0.00 0.00 3.51
3179 3282 2.722201 CCCTACCTCCACCGTCAGC 61.722 68.421 0.00 0.00 0.00 4.26
3180 3283 2.490217 CTACCTCCACCGTCAGCG 59.510 66.667 0.00 0.00 37.95 5.18
3181 3284 2.034532 TACCTCCACCGTCAGCGA 59.965 61.111 0.00 0.00 41.33 4.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 8.047413 TGTGCATATGCTTTTATATGATGAGG 57.953 34.615 27.13 0.00 41.44 3.86
573 599 1.593196 TGAAGGTTTGTGAGCGGAAG 58.407 50.000 0.00 0.00 0.00 3.46
575 601 1.134220 AGTTGAAGGTTTGTGAGCGGA 60.134 47.619 0.00 0.00 0.00 5.54
576 602 1.308998 AGTTGAAGGTTTGTGAGCGG 58.691 50.000 0.00 0.00 0.00 5.52
577 603 3.108144 CAAAGTTGAAGGTTTGTGAGCG 58.892 45.455 0.00 0.00 0.00 5.03
578 604 2.860136 GCAAAGTTGAAGGTTTGTGAGC 59.140 45.455 0.00 0.00 36.27 4.26
580 606 3.509575 ACTGCAAAGTTGAAGGTTTGTGA 59.490 39.130 4.07 0.00 38.20 3.58
581 607 3.848726 ACTGCAAAGTTGAAGGTTTGTG 58.151 40.909 4.07 0.42 38.20 3.33
583 609 4.108699 TGACTGCAAAGTTGAAGGTTTG 57.891 40.909 4.07 0.00 38.20 2.93
584 610 5.507985 GCTATGACTGCAAAGTTGAAGGTTT 60.508 40.000 4.07 0.00 38.20 3.27
595 661 5.163723 GCAAGTTCATAGCTATGACTGCAAA 60.164 40.000 33.97 21.48 42.00 3.68
599 667 3.812053 GGGCAAGTTCATAGCTATGACTG 59.188 47.826 31.46 26.69 42.00 3.51
604 672 4.712476 CAGAAGGGCAAGTTCATAGCTAT 58.288 43.478 0.00 0.00 0.00 2.97
742 811 5.767816 ACTATTTATGAAAATGTCGCCCC 57.232 39.130 0.00 0.00 36.02 5.80
772 841 7.040478 ACAGCTCAAACTTGCTCAATAACATTA 60.040 33.333 0.00 0.00 37.44 1.90
839 910 2.906354 ACGAACAAGACTTGTCAGCTT 58.094 42.857 20.81 5.24 44.59 3.74
1089 1160 3.458163 CCGAGCGGGCAAGGAGTA 61.458 66.667 0.00 0.00 0.00 2.59
1186 1257 2.438434 GTAGCCGCCCAATGCAGT 60.438 61.111 0.00 0.00 41.33 4.40
1237 1308 2.260869 ATGGCACTTGCACACGGAC 61.261 57.895 3.15 0.00 44.36 4.79
1248 1319 1.078848 GTCCTCGAAGCATGGCACT 60.079 57.895 0.00 0.00 0.00 4.40
1249 1320 2.109126 GGTCCTCGAAGCATGGCAC 61.109 63.158 0.00 0.00 0.00 5.01
1283 1354 3.003763 GAAGGAGGCCGTCAGGGT 61.004 66.667 0.00 0.00 38.44 4.34
1374 1445 1.130054 ACAAGCAGAGGGAGGCAAGA 61.130 55.000 0.00 0.00 0.00 3.02
1455 1526 0.735978 CATTGACGTAGACAGCCGCA 60.736 55.000 0.00 0.00 31.90 5.69
1466 1537 0.465460 ACTGCCAACCACATTGACGT 60.465 50.000 0.00 0.00 41.23 4.34
1471 1542 1.960689 GGTAACACTGCCAACCACATT 59.039 47.619 0.00 0.00 32.04 2.71
1571 1642 0.176449 TGTCCTCATGCCACTCATCG 59.824 55.000 0.00 0.00 31.79 3.84
1665 1736 1.139853 GAACTGGAGCTATCTGGTGGG 59.860 57.143 0.00 0.00 0.00 4.61
1689 1760 2.890371 GGTGTAGACGGCCACGAT 59.110 61.111 2.24 0.00 44.60 3.73
1721 1792 5.111989 GCTTAGTCATAGCTGAACATGTCA 58.888 41.667 0.00 0.00 35.74 3.58
1738 1815 2.188817 CTCCACCAGGTAAGGCTTAGT 58.811 52.381 7.33 0.00 35.89 2.24
1794 1871 0.881796 CCAAAAGCCGGGACTTTCTC 59.118 55.000 2.18 0.00 38.92 2.87
1821 1898 1.554836 CAAGCAGGAGGTCAGAGAGA 58.445 55.000 0.00 0.00 0.00 3.10
2054 2131 3.384168 AGACTGTATGGCCTTGGTATGA 58.616 45.455 3.32 0.00 0.00 2.15
2105 2182 4.021104 TGTGTCCACTGATCCAGTAAAGAG 60.021 45.833 0.00 0.00 43.43 2.85
2176 2253 5.363101 TGAATAGCCATCAACTGATCACTC 58.637 41.667 0.00 0.00 31.21 3.51
2255 2332 7.336396 GGAGTACATCCTAAACCACATAAAGT 58.664 38.462 0.00 0.00 45.64 2.66
2271 2348 9.134055 AGTACTATTTTACAGAGGGAGTACATC 57.866 37.037 10.83 0.00 40.01 3.06
2272 2349 9.134055 GAGTACTATTTTACAGAGGGAGTACAT 57.866 37.037 10.83 0.00 40.01 2.29
2273 2350 8.334734 AGAGTACTATTTTACAGAGGGAGTACA 58.665 37.037 10.83 0.00 40.01 2.90
2274 2351 8.750515 AGAGTACTATTTTACAGAGGGAGTAC 57.249 38.462 0.00 0.00 38.58 2.73
2276 2353 9.939424 AATAGAGTACTATTTTACAGAGGGAGT 57.061 33.333 0.00 0.00 44.03 3.85
2361 2438 1.873591 CACACAGCCAAACACTACCTC 59.126 52.381 0.00 0.00 0.00 3.85
2396 2474 2.010145 AGACACAGACACACACACAC 57.990 50.000 0.00 0.00 0.00 3.82
2398 2476 3.438297 AGTAGACACAGACACACACAC 57.562 47.619 0.00 0.00 0.00 3.82
2402 2480 5.350365 TGAACAAAAGTAGACACAGACACAC 59.650 40.000 0.00 0.00 0.00 3.82
2404 2482 5.810587 TCTGAACAAAAGTAGACACAGACAC 59.189 40.000 0.00 0.00 0.00 3.67
2412 2490 7.920738 ACTCAAATGTCTGAACAAAAGTAGAC 58.079 34.615 0.00 0.00 39.30 2.59
2413 2491 7.987458 AGACTCAAATGTCTGAACAAAAGTAGA 59.013 33.333 0.00 0.00 44.64 2.59
2444 2522 5.224888 CCAGCATATTTCCAAATTCATCCG 58.775 41.667 0.00 0.00 0.00 4.18
2454 2532 1.824230 GCACAACCCAGCATATTTCCA 59.176 47.619 0.00 0.00 0.00 3.53
2498 2576 3.084039 CAACCCAGCAGTGTATGTCAAT 58.916 45.455 0.00 0.00 0.00 2.57
2499 2577 2.158682 ACAACCCAGCAGTGTATGTCAA 60.159 45.455 0.00 0.00 0.00 3.18
2507 2585 1.394266 AAAGGCACAACCCAGCAGTG 61.394 55.000 0.00 0.00 40.58 3.66
2530 2608 5.574055 CACATCACAGTGCATATTTCCAAAC 59.426 40.000 0.00 0.00 32.04 2.93
2565 2643 6.109359 AGAGTTGATATTCAGCAAGTACCAC 58.891 40.000 0.00 0.00 33.91 4.16
2583 2661 4.391216 AGCGTCATCAAGATTCAAGAGTTG 59.609 41.667 0.00 0.00 0.00 3.16
2591 2669 3.484886 GCAGTTCAGCGTCATCAAGATTC 60.485 47.826 0.00 0.00 0.00 2.52
2610 2688 1.064505 CCTGCCGTGACAAATATGCAG 59.935 52.381 0.00 0.00 44.32 4.41
2615 2693 0.036164 AGCACCTGCCGTGACAAATA 59.964 50.000 5.27 0.00 46.20 1.40
2616 2694 1.228245 AGCACCTGCCGTGACAAAT 60.228 52.632 5.27 0.00 46.20 2.32
2624 2702 1.010419 GCAATTTTGAGCACCTGCCG 61.010 55.000 0.00 0.00 43.38 5.69
2626 2704 0.319405 AGGCAATTTTGAGCACCTGC 59.681 50.000 0.00 0.00 42.49 4.85
2636 2714 7.524717 AACACAACTCTACATAGGCAATTTT 57.475 32.000 0.00 0.00 0.00 1.82
2679 2757 6.808321 TTATCATAGCAGTAAGTTGGACCT 57.192 37.500 0.00 0.00 0.00 3.85
2697 2775 7.095523 GGTTTTGCGTACTGTTAGAGTTTATCA 60.096 37.037 0.00 0.00 35.96 2.15
2716 2794 5.177696 GTCGGATGTATCTATCAGGTTTTGC 59.822 44.000 0.00 0.00 0.00 3.68
2721 2799 4.986783 TCAGTCGGATGTATCTATCAGGT 58.013 43.478 0.00 0.00 0.00 4.00
2747 2825 8.932610 TGGAGCATTATCTAGATTTTTCTCTCT 58.067 33.333 11.25 0.00 0.00 3.10
2748 2826 9.553064 TTGGAGCATTATCTAGATTTTTCTCTC 57.447 33.333 11.25 9.90 0.00 3.20
2749 2827 9.911788 TTTGGAGCATTATCTAGATTTTTCTCT 57.088 29.630 11.25 1.49 0.00 3.10
2751 2829 9.692325 ACTTTGGAGCATTATCTAGATTTTTCT 57.308 29.630 11.25 3.94 0.00 2.52
2752 2830 9.727627 CACTTTGGAGCATTATCTAGATTTTTC 57.272 33.333 11.25 2.72 0.00 2.29
2755 2833 8.897752 GTTCACTTTGGAGCATTATCTAGATTT 58.102 33.333 11.25 0.00 0.00 2.17
2757 2835 7.568349 TGTTCACTTTGGAGCATTATCTAGAT 58.432 34.615 10.73 10.73 0.00 1.98
2781 2884 3.866651 ACAAGGATGATCCGAACTTCTG 58.133 45.455 5.71 0.00 42.75 3.02
2782 2885 3.772025 AGACAAGGATGATCCGAACTTCT 59.228 43.478 5.71 2.45 42.75 2.85
2807 2910 0.524816 GCAAGGTGCATCATGAAGCG 60.525 55.000 17.34 4.63 44.26 4.68
2830 2933 8.519526 TGTACTCGCCTGAAATCAATTTATTTT 58.480 29.630 0.00 0.00 0.00 1.82
2831 2934 8.050778 TGTACTCGCCTGAAATCAATTTATTT 57.949 30.769 0.00 0.00 0.00 1.40
2849 2952 9.988350 AATCTGCTATAAATTTGTTTGTACTCG 57.012 29.630 0.00 0.00 0.00 4.18
2867 2970 8.131847 AGATGCTCTGTCATATAAATCTGCTA 57.868 34.615 0.00 0.00 0.00 3.49
2868 2971 7.006865 AGATGCTCTGTCATATAAATCTGCT 57.993 36.000 0.00 0.00 0.00 4.24
2882 2985 5.130145 AGCTTAATGAACCTAGATGCTCTGT 59.870 40.000 0.00 0.00 0.00 3.41
2917 3020 8.260114 CAGGTCAAAAATTATAGGGCAAGAATT 58.740 33.333 0.00 0.00 0.00 2.17
2918 3021 7.147672 CCAGGTCAAAAATTATAGGGCAAGAAT 60.148 37.037 0.00 0.00 0.00 2.40
2919 3022 6.154363 CCAGGTCAAAAATTATAGGGCAAGAA 59.846 38.462 0.00 0.00 0.00 2.52
2920 3023 5.656416 CCAGGTCAAAAATTATAGGGCAAGA 59.344 40.000 0.00 0.00 0.00 3.02
2921 3024 5.422012 ACCAGGTCAAAAATTATAGGGCAAG 59.578 40.000 0.00 0.00 0.00 4.01
2922 3025 5.186797 CACCAGGTCAAAAATTATAGGGCAA 59.813 40.000 0.00 0.00 0.00 4.52
2923 3026 4.709397 CACCAGGTCAAAAATTATAGGGCA 59.291 41.667 0.00 0.00 0.00 5.36
2924 3027 4.953579 TCACCAGGTCAAAAATTATAGGGC 59.046 41.667 0.00 0.00 0.00 5.19
2925 3028 6.833416 TCATCACCAGGTCAAAAATTATAGGG 59.167 38.462 0.00 0.00 0.00 3.53
2926 3029 7.880160 TCATCACCAGGTCAAAAATTATAGG 57.120 36.000 0.00 0.00 0.00 2.57
2962 3065 5.900339 GGGAAACCGAAGATTTTCAAAAC 57.100 39.130 0.00 0.00 43.64 2.43
2986 3089 3.995506 GAGGTGCGGGTTGGGATGG 62.996 68.421 0.00 0.00 0.00 3.51
2987 3090 2.438434 GAGGTGCGGGTTGGGATG 60.438 66.667 0.00 0.00 0.00 3.51
2988 3091 4.096003 CGAGGTGCGGGTTGGGAT 62.096 66.667 0.00 0.00 36.03 3.85
2990 3093 4.323477 TTCGAGGTGCGGGTTGGG 62.323 66.667 0.00 0.00 41.33 4.12
2991 3094 3.047877 GTTCGAGGTGCGGGTTGG 61.048 66.667 0.00 0.00 41.33 3.77
2992 3095 3.411351 CGTTCGAGGTGCGGGTTG 61.411 66.667 0.00 0.00 41.33 3.77
2998 3101 3.909258 TTCGGAGCGTTCGAGGTGC 62.909 63.158 0.00 0.00 37.93 5.01
2999 3102 1.140407 GATTCGGAGCGTTCGAGGTG 61.140 60.000 0.00 0.00 37.93 4.00
3000 3103 1.139095 GATTCGGAGCGTTCGAGGT 59.861 57.895 0.00 0.00 37.93 3.85
3001 3104 1.589196 GGATTCGGAGCGTTCGAGG 60.589 63.158 0.00 0.00 37.93 4.63
3002 3105 0.867753 CTGGATTCGGAGCGTTCGAG 60.868 60.000 0.00 0.00 37.93 4.04
3003 3106 1.138883 CTGGATTCGGAGCGTTCGA 59.861 57.895 0.00 0.00 34.62 3.71
3004 3107 2.517450 GCTGGATTCGGAGCGTTCG 61.517 63.158 0.00 0.00 0.00 3.95
3005 3108 2.174319 GGCTGGATTCGGAGCGTTC 61.174 63.158 0.00 0.00 35.95 3.95
3006 3109 2.125106 GGCTGGATTCGGAGCGTT 60.125 61.111 0.00 0.00 35.95 4.84
3007 3110 3.390521 TGGCTGGATTCGGAGCGT 61.391 61.111 0.00 0.00 35.95 5.07
3008 3111 2.892425 GTGGCTGGATTCGGAGCG 60.892 66.667 0.00 0.00 35.95 5.03
3009 3112 2.514824 GGTGGCTGGATTCGGAGC 60.515 66.667 0.00 0.00 34.23 4.70
3010 3113 0.322456 TTTGGTGGCTGGATTCGGAG 60.322 55.000 0.00 0.00 0.00 4.63
3011 3114 0.608035 GTTTGGTGGCTGGATTCGGA 60.608 55.000 0.00 0.00 0.00 4.55
3012 3115 1.595093 GGTTTGGTGGCTGGATTCGG 61.595 60.000 0.00 0.00 0.00 4.30
3013 3116 0.893270 TGGTTTGGTGGCTGGATTCG 60.893 55.000 0.00 0.00 0.00 3.34
3014 3117 1.000843 GTTGGTTTGGTGGCTGGATTC 59.999 52.381 0.00 0.00 0.00 2.52
3015 3118 1.047801 GTTGGTTTGGTGGCTGGATT 58.952 50.000 0.00 0.00 0.00 3.01
3016 3119 0.831711 GGTTGGTTTGGTGGCTGGAT 60.832 55.000 0.00 0.00 0.00 3.41
3017 3120 1.456705 GGTTGGTTTGGTGGCTGGA 60.457 57.895 0.00 0.00 0.00 3.86
3018 3121 1.760086 TGGTTGGTTTGGTGGCTGG 60.760 57.895 0.00 0.00 0.00 4.85
3019 3122 1.441311 GTGGTTGGTTTGGTGGCTG 59.559 57.895 0.00 0.00 0.00 4.85
3020 3123 1.760480 GGTGGTTGGTTTGGTGGCT 60.760 57.895 0.00 0.00 0.00 4.75
3021 3124 2.060980 TGGTGGTTGGTTTGGTGGC 61.061 57.895 0.00 0.00 0.00 5.01
3022 3125 1.681486 GGTGGTGGTTGGTTTGGTGG 61.681 60.000 0.00 0.00 0.00 4.61
3023 3126 1.681486 GGGTGGTGGTTGGTTTGGTG 61.681 60.000 0.00 0.00 0.00 4.17
3024 3127 1.382009 GGGTGGTGGTTGGTTTGGT 60.382 57.895 0.00 0.00 0.00 3.67
3025 3128 1.075600 AGGGTGGTGGTTGGTTTGG 60.076 57.895 0.00 0.00 0.00 3.28
3026 3129 2.026945 GCAGGGTGGTGGTTGGTTTG 62.027 60.000 0.00 0.00 0.00 2.93
3027 3130 1.760480 GCAGGGTGGTGGTTGGTTT 60.760 57.895 0.00 0.00 0.00 3.27
3028 3131 2.123468 GCAGGGTGGTGGTTGGTT 60.123 61.111 0.00 0.00 0.00 3.67
3029 3132 4.579384 CGCAGGGTGGTGGTTGGT 62.579 66.667 0.00 0.00 0.00 3.67
3046 3149 4.090057 GCTCAAGACCGCGTTGGC 62.090 66.667 4.92 5.59 43.94 4.52
3047 3150 3.423154 GGCTCAAGACCGCGTTGG 61.423 66.667 4.92 0.00 46.41 3.77
3048 3151 2.357517 AGGCTCAAGACCGCGTTG 60.358 61.111 4.92 3.08 0.00 4.10
3049 3152 2.048127 GAGGCTCAAGACCGCGTT 60.048 61.111 10.25 0.00 0.00 4.84
3050 3153 4.070552 GGAGGCTCAAGACCGCGT 62.071 66.667 17.69 0.00 0.00 6.01
3051 3154 4.069232 TGGAGGCTCAAGACCGCG 62.069 66.667 17.69 0.00 0.00 6.46
3052 3155 2.435059 GTGGAGGCTCAAGACCGC 60.435 66.667 17.69 1.51 0.00 5.68
3053 3156 2.125912 CGTGGAGGCTCAAGACCG 60.126 66.667 17.69 0.98 0.00 4.79
3054 3157 2.435059 GCGTGGAGGCTCAAGACC 60.435 66.667 17.69 0.00 0.00 3.85
3055 3158 2.435059 GGCGTGGAGGCTCAAGAC 60.435 66.667 17.69 8.53 42.90 3.01
3056 3159 4.069232 CGGCGTGGAGGCTCAAGA 62.069 66.667 17.69 0.00 44.22 3.02
3057 3160 4.379243 ACGGCGTGGAGGCTCAAG 62.379 66.667 13.76 7.75 44.22 3.02
3058 3161 4.373116 GACGGCGTGGAGGCTCAA 62.373 66.667 21.19 0.76 44.22 3.02
3060 3163 4.500116 GAGACGGCGTGGAGGCTC 62.500 72.222 21.19 14.00 44.22 4.70
3063 3166 4.436998 GGTGAGACGGCGTGGAGG 62.437 72.222 21.19 0.00 0.00 4.30
3064 3167 3.680786 TGGTGAGACGGCGTGGAG 61.681 66.667 21.19 0.00 0.00 3.86
3065 3168 3.986006 GTGGTGAGACGGCGTGGA 61.986 66.667 21.19 0.00 0.00 4.02
3083 3186 4.373116 TCCTCACTTCGCGGTGCC 62.373 66.667 6.13 0.00 37.16 5.01
3084 3187 3.112709 GTCCTCACTTCGCGGTGC 61.113 66.667 6.13 0.00 37.16 5.01
3085 3188 1.734477 CTGTCCTCACTTCGCGGTG 60.734 63.158 6.13 7.84 38.44 4.94
3086 3189 2.651361 CTGTCCTCACTTCGCGGT 59.349 61.111 6.13 0.00 0.00 5.68
3087 3190 2.811317 GCTGTCCTCACTTCGCGG 60.811 66.667 6.13 0.00 0.00 6.46
3088 3191 3.175240 CGCTGTCCTCACTTCGCG 61.175 66.667 0.00 0.00 34.50 5.87
3089 3192 3.482783 GCGCTGTCCTCACTTCGC 61.483 66.667 0.00 0.00 37.01 4.70
3090 3193 3.175240 CGCGCTGTCCTCACTTCG 61.175 66.667 5.56 0.00 0.00 3.79
3091 3194 2.811317 CCGCGCTGTCCTCACTTC 60.811 66.667 5.56 0.00 0.00 3.01
3099 3202 3.144120 GATTCTTCGCCGCGCTGTC 62.144 63.158 8.21 0.00 0.00 3.51
3100 3203 3.188786 GATTCTTCGCCGCGCTGT 61.189 61.111 8.21 0.00 0.00 4.40
3101 3204 3.147889 CTGATTCTTCGCCGCGCTG 62.148 63.158 8.21 0.00 0.00 5.18
3102 3205 2.887568 CTGATTCTTCGCCGCGCT 60.888 61.111 8.21 0.00 0.00 5.92
3103 3206 2.885644 TCTGATTCTTCGCCGCGC 60.886 61.111 8.21 0.00 0.00 6.86
3104 3207 2.517450 GGTCTGATTCTTCGCCGCG 61.517 63.158 6.39 6.39 0.00 6.46
3105 3208 2.174319 GGGTCTGATTCTTCGCCGC 61.174 63.158 0.00 0.00 0.00 6.53
3106 3209 1.878522 CGGGTCTGATTCTTCGCCG 60.879 63.158 0.00 0.00 0.00 6.46
3107 3210 1.521681 CCGGGTCTGATTCTTCGCC 60.522 63.158 0.00 0.00 0.00 5.54
3108 3211 1.521681 CCCGGGTCTGATTCTTCGC 60.522 63.158 14.18 0.00 0.00 4.70
3109 3212 0.179108 GTCCCGGGTCTGATTCTTCG 60.179 60.000 22.86 0.00 0.00 3.79
3110 3213 1.196012 AGTCCCGGGTCTGATTCTTC 58.804 55.000 22.86 0.00 0.00 2.87
3111 3214 2.389715 CTAGTCCCGGGTCTGATTCTT 58.610 52.381 28.00 4.64 0.00 2.52
3112 3215 1.411787 CCTAGTCCCGGGTCTGATTCT 60.412 57.143 28.00 14.22 0.00 2.40
3113 3216 1.041437 CCTAGTCCCGGGTCTGATTC 58.959 60.000 28.00 8.25 0.00 2.52
3114 3217 0.398664 CCCTAGTCCCGGGTCTGATT 60.399 60.000 28.00 5.32 36.91 2.57
3115 3218 1.233369 CCCTAGTCCCGGGTCTGAT 59.767 63.158 28.00 6.85 36.91 2.90
3116 3219 2.687902 CCCTAGTCCCGGGTCTGA 59.312 66.667 28.00 12.36 36.91 3.27
3117 3220 3.155167 GCCCTAGTCCCGGGTCTG 61.155 72.222 28.00 17.58 43.92 3.51
3118 3221 2.948801 GATGCCCTAGTCCCGGGTCT 62.949 65.000 23.98 23.98 43.92 3.85
3119 3222 2.446036 ATGCCCTAGTCCCGGGTC 60.446 66.667 22.86 16.35 43.92 4.46
3120 3223 2.446036 GATGCCCTAGTCCCGGGT 60.446 66.667 22.86 4.16 43.92 5.28
3121 3224 2.445845 TGATGCCCTAGTCCCGGG 60.446 66.667 16.85 16.85 44.89 5.73
3122 3225 3.142393 CTGATGCCCTAGTCCCGG 58.858 66.667 0.00 0.00 0.00 5.73
3123 3226 2.423446 GCTGATGCCCTAGTCCCG 59.577 66.667 0.00 0.00 0.00 5.14
3124 3227 1.147153 GTGCTGATGCCCTAGTCCC 59.853 63.158 0.00 0.00 38.71 4.46
3125 3228 1.147153 GGTGCTGATGCCCTAGTCC 59.853 63.158 0.00 0.00 38.71 3.85
3126 3229 0.471617 ATGGTGCTGATGCCCTAGTC 59.528 55.000 0.00 0.00 38.71 2.59
3127 3230 0.921896 AATGGTGCTGATGCCCTAGT 59.078 50.000 0.00 0.00 38.71 2.57
3128 3231 1.315690 CAATGGTGCTGATGCCCTAG 58.684 55.000 0.00 0.00 38.71 3.02
3129 3232 0.106569 CCAATGGTGCTGATGCCCTA 60.107 55.000 0.00 0.00 38.71 3.53
3130 3233 1.380785 CCAATGGTGCTGATGCCCT 60.381 57.895 0.00 0.00 38.71 5.19
3131 3234 3.085119 GCCAATGGTGCTGATGCCC 62.085 63.158 0.00 0.00 38.71 5.36
3132 3235 2.352821 TGCCAATGGTGCTGATGCC 61.353 57.895 0.00 0.00 38.71 4.40
3133 3236 1.153706 GTGCCAATGGTGCTGATGC 60.154 57.895 0.00 0.00 40.20 3.91
3134 3237 1.138036 CGTGCCAATGGTGCTGATG 59.862 57.895 0.00 0.00 0.00 3.07
3135 3238 2.703798 GCGTGCCAATGGTGCTGAT 61.704 57.895 0.00 0.00 0.00 2.90
3136 3239 3.364441 GCGTGCCAATGGTGCTGA 61.364 61.111 0.00 0.00 0.00 4.26
3137 3240 4.764336 CGCGTGCCAATGGTGCTG 62.764 66.667 0.00 0.00 0.00 4.41
3157 3260 4.798682 CGGTGGAGGTAGGGCCCT 62.799 72.222 31.35 31.35 38.26 5.19
3159 3262 3.468140 GACGGTGGAGGTAGGGCC 61.468 72.222 0.00 0.00 37.58 5.80
3160 3263 2.682494 TGACGGTGGAGGTAGGGC 60.682 66.667 0.00 0.00 0.00 5.19
3161 3264 2.722201 GCTGACGGTGGAGGTAGGG 61.722 68.421 0.00 0.00 0.00 3.53
3162 3265 2.893398 GCTGACGGTGGAGGTAGG 59.107 66.667 0.00 0.00 0.00 3.18
3163 3266 2.044555 TCGCTGACGGTGGAGGTAG 61.045 63.158 0.00 0.00 40.63 3.18
3164 3267 2.034532 TCGCTGACGGTGGAGGTA 59.965 61.111 0.00 0.00 40.63 3.08


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

AutoCloner maintained by Alex Coulton.