Multiple sequence alignment - TraesCS3D01G061400

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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 TraesCS3D01G061400 chr3D 100.000 2632 0 0 1 2632 26650557 26647926 0.000000e+00 4861.0
1 TraesCS3D01G061400 chr3D 89.048 1324 87 19 474 1792 26690198 26688928 0.000000e+00 1589.0
2 TraesCS3D01G061400 chr3D 88.431 510 34 6 1805 2291 26688820 26688313 2.260000e-165 592.0
3 TraesCS3D01G061400 chr3D 96.429 56 2 0 12 67 26681948 26681893 2.790000e-15 93.5
4 TraesCS3D01G061400 chrUn 88.071 1643 130 40 756 2351 38820755 38822378 0.000000e+00 1888.0
5 TraesCS3D01G061400 chrUn 86.966 959 100 15 756 1704 38808434 38809377 0.000000e+00 1055.0
6 TraesCS3D01G061400 chrUn 87.873 569 42 10 1810 2351 38815232 38815800 0.000000e+00 643.0
7 TraesCS3D01G061400 chrUn 79.536 474 47 15 1846 2289 55588232 55588685 2.560000e-75 292.0
8 TraesCS3D01G061400 chrUn 78.641 103 16 5 476 574 421930372 421930472 2.190000e-06 63.9
9 TraesCS3D01G061400 chr3A 96.206 1028 38 1 764 1790 36771086 36770059 0.000000e+00 1681.0
10 TraesCS3D01G061400 chr3A 88.383 439 47 4 12 448 36772195 36771759 2.320000e-145 525.0
11 TraesCS3D01G061400 chr3A 83.374 409 54 8 750 1155 36722379 36721982 1.490000e-97 366.0
12 TraesCS3D01G061400 chr3B 88.168 1048 103 15 756 1792 45198960 45197923 0.000000e+00 1229.0
13 TraesCS3D01G061400 chr3B 82.019 862 125 20 785 1632 44857770 44856925 0.000000e+00 706.0
14 TraesCS3D01G061400 chr3B 87.102 566 49 10 1810 2351 45197813 45197248 1.030000e-173 619.0
15 TraesCS3D01G061400 chr3B 80.186 858 132 19 756 1605 44848401 44847574 2.240000e-170 608.0
16 TraesCS3D01G061400 chr3B 77.326 172 14 9 1845 1992 799926735 799926565 7.810000e-11 78.7
17 TraesCS3D01G061400 chr3B 92.500 40 3 0 271 310 382695062 382695023 1.020000e-04 58.4
18 TraesCS3D01G061400 chr1B 82.824 786 109 18 909 1684 636680042 636679273 0.000000e+00 680.0
19 TraesCS3D01G061400 chr1B 82.284 429 62 13 909 1331 636662458 636662038 2.490000e-95 359.0
20 TraesCS3D01G061400 chr1B 84.043 282 37 6 1950 2227 681066858 681066581 5.590000e-67 265.0
21 TraesCS3D01G061400 chr1B 77.876 113 20 4 465 574 676805588 676805478 6.080000e-07 65.8
22 TraesCS3D01G061400 chr7A 82.839 472 49 14 1845 2287 117752594 117752126 6.830000e-106 394.0
23 TraesCS3D01G061400 chr7D 83.099 426 51 10 1875 2282 628671667 628672089 4.140000e-98 368.0
24 TraesCS3D01G061400 chr7D 92.308 65 5 0 2284 2348 628672125 628672189 2.790000e-15 93.5
25 TraesCS3D01G061400 chr5A 75.000 280 38 13 1846 2100 642133892 642133620 1.670000e-17 100.0
26 TraesCS3D01G061400 chr5A 86.047 86 11 1 2196 2281 451391745 451391661 1.000000e-14 91.6
27 TraesCS3D01G061400 chr6A 100.000 38 0 0 1846 1883 37841542 37841505 1.310000e-08 71.3
28 TraesCS3D01G061400 chr7B 78.641 103 16 5 476 574 712029036 712028936 2.190000e-06 63.9


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 TraesCS3D01G061400 chr3D 26647926 26650557 2631 True 4861.00 4861 100.0000 1 2632 1 chr3D.!!$R1 2631
1 TraesCS3D01G061400 chr3D 26688313 26690198 1885 True 1090.50 1589 88.7395 474 2291 2 chr3D.!!$R3 1817
2 TraesCS3D01G061400 chrUn 38820755 38822378 1623 False 1888.00 1888 88.0710 756 2351 1 chrUn.!!$F3 1595
3 TraesCS3D01G061400 chrUn 38808434 38809377 943 False 1055.00 1055 86.9660 756 1704 1 chrUn.!!$F1 948
4 TraesCS3D01G061400 chrUn 38815232 38815800 568 False 643.00 643 87.8730 1810 2351 1 chrUn.!!$F2 541
5 TraesCS3D01G061400 chr3A 36770059 36772195 2136 True 1103.00 1681 92.2945 12 1790 2 chr3A.!!$R2 1778
6 TraesCS3D01G061400 chr3B 45197248 45198960 1712 True 924.00 1229 87.6350 756 2351 2 chr3B.!!$R5 1595
7 TraesCS3D01G061400 chr3B 44856925 44857770 845 True 706.00 706 82.0190 785 1632 1 chr3B.!!$R2 847
8 TraesCS3D01G061400 chr3B 44847574 44848401 827 True 608.00 608 80.1860 756 1605 1 chr3B.!!$R1 849
9 TraesCS3D01G061400 chr1B 636679273 636680042 769 True 680.00 680 82.8240 909 1684 1 chr1B.!!$R2 775
10 TraesCS3D01G061400 chr7D 628671667 628672189 522 False 230.75 368 87.7035 1875 2348 2 chr7D.!!$F1 473

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
419 422 0.039527 GCGTTGGGTGGTTCATGAAC 60.04 55.0 27.16 27.16 40.45 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2409 3140 0.108585 AGGCGTGAAGTTGACACCAT 59.891 50.0 2.29 0.0 35.17 3.55 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
80 81 1.499056 CATCACGCTGTCTGTTGGC 59.501 57.895 0.00 0.00 0.00 4.52
89 90 3.623060 CGCTGTCTGTTGGCTAATATGTT 59.377 43.478 0.00 0.00 0.00 2.71
103 104 5.581085 GCTAATATGTTCGGGTGTCATATCC 59.419 44.000 0.00 0.00 34.85 2.59
126 127 3.947196 TCATCACATGTAAGCATTGGTCC 59.053 43.478 0.00 0.00 31.99 4.46
146 147 3.140144 TCCCCAGGGAATATGTTTGGATC 59.860 47.826 7.25 0.00 42.05 3.36
153 154 3.960102 GGAATATGTTTGGATCTGGCCAA 59.040 43.478 7.01 0.00 45.77 4.52
167 168 1.375098 GGCCAAGCTGTCATCTCTGC 61.375 60.000 0.00 0.00 0.00 4.26
170 171 1.066358 CCAAGCTGTCATCTCTGCTGA 60.066 52.381 0.00 0.00 41.17 4.26
175 176 2.419713 GCTGTCATCTCTGCTGAATCCA 60.420 50.000 0.00 0.00 0.00 3.41
204 205 1.607178 TCGGCCCTCGTGGTTCTTA 60.607 57.895 0.00 0.00 40.32 2.10
205 206 1.153628 CGGCCCTCGTGGTTCTTAG 60.154 63.158 0.00 0.00 36.04 2.18
208 209 0.606604 GCCCTCGTGGTTCTTAGTCA 59.393 55.000 2.33 0.00 36.04 3.41
215 216 2.869801 CGTGGTTCTTAGTCAGTTTGCA 59.130 45.455 0.00 0.00 0.00 4.08
231 232 3.576078 TTGCAGGTATGGTCCTTATGG 57.424 47.619 0.00 0.00 35.37 2.74
236 237 4.262506 GCAGGTATGGTCCTTATGGTCTAC 60.263 50.000 0.00 0.00 35.37 2.59
239 240 5.839606 AGGTATGGTCCTTATGGTCTACTTC 59.160 44.000 0.00 0.00 33.52 3.01
256 257 6.197842 GTCTACTTCTTTTTCTTTGTCGACGA 59.802 38.462 11.62 6.16 0.00 4.20
266 267 1.877576 TTGTCGACGATGAGCCAGCT 61.878 55.000 11.62 0.00 0.00 4.24
267 268 1.587613 GTCGACGATGAGCCAGCTC 60.588 63.158 12.78 12.78 43.01 4.09
282 284 1.003580 CAGCTCTTTGGGGTCTTAGCA 59.996 52.381 0.00 0.00 32.42 3.49
298 300 1.620822 AGCACAATGACTTCCCAACC 58.379 50.000 0.00 0.00 0.00 3.77
302 304 0.796312 CAATGACTTCCCAACCGTCG 59.204 55.000 0.00 0.00 0.00 5.12
316 318 5.452356 CCCAACCGTCGACTATAAATAAGGT 60.452 44.000 14.70 7.07 0.00 3.50
319 321 7.706179 CCAACCGTCGACTATAAATAAGGTTTA 59.294 37.037 14.70 0.00 37.35 2.01
320 322 8.534778 CAACCGTCGACTATAAATAAGGTTTAC 58.465 37.037 14.70 0.00 37.35 2.01
323 325 6.360681 CGTCGACTATAAATAAGGTTTACCCG 59.639 42.308 14.70 0.00 38.74 5.28
341 343 2.749621 CCCGACTTTGATGAGAAAAGGG 59.250 50.000 1.45 0.00 38.66 3.95
348 350 3.565764 TGATGAGAAAAGGGCGATGAT 57.434 42.857 0.00 0.00 0.00 2.45
362 364 2.809446 CGATGATAGACGGAAGCACAA 58.191 47.619 0.00 0.00 0.00 3.33
394 396 5.122869 TCATTCTCATGCTTGTAGACTTTGC 59.877 40.000 0.00 0.00 0.00 3.68
413 416 1.227853 AGTCTGCGTTGGGTGGTTC 60.228 57.895 0.00 0.00 0.00 3.62
419 422 0.039527 GCGTTGGGTGGTTCATGAAC 60.040 55.000 27.16 27.16 40.45 3.18
440 443 8.050778 TGAACCTGATTGTAATATTTGTCACC 57.949 34.615 0.00 0.00 0.00 4.02
443 446 7.633789 ACCTGATTGTAATATTTGTCACCTCT 58.366 34.615 0.00 0.00 0.00 3.69
452 461 6.814954 ATATTTGTCACCTCTGATGGTAGT 57.185 37.500 0.00 0.00 38.45 2.73
459 468 3.748048 CACCTCTGATGGTAGTGTTGTTG 59.252 47.826 0.00 0.00 38.45 3.33
463 472 3.814842 TCTGATGGTAGTGTTGTTGCAAG 59.185 43.478 0.00 0.00 0.00 4.01
468 477 6.264292 TGATGGTAGTGTTGTTGCAAGTTATT 59.736 34.615 0.00 0.00 0.00 1.40
470 479 6.269315 TGGTAGTGTTGTTGCAAGTTATTTG 58.731 36.000 0.00 0.00 39.88 2.32
471 480 5.689961 GGTAGTGTTGTTGCAAGTTATTTGG 59.310 40.000 0.00 0.00 37.26 3.28
472 481 4.692228 AGTGTTGTTGCAAGTTATTTGGG 58.308 39.130 0.00 0.00 37.26 4.12
490 499 1.873591 GGGCTGTCACAGTGTTTACAG 59.126 52.381 22.82 22.82 41.78 2.74
531 540 2.223340 GCTGATCTAACCAAACATGGCG 60.223 50.000 0.00 0.00 0.00 5.69
532 541 2.355756 CTGATCTAACCAAACATGGCGG 59.644 50.000 0.00 0.00 0.00 6.13
533 542 1.065551 GATCTAACCAAACATGGCGGC 59.934 52.381 0.00 0.00 0.00 6.53
551 560 4.246458 GCGGCCAGTATCTAGGAATAAAG 58.754 47.826 2.24 0.00 0.00 1.85
552 561 4.246458 CGGCCAGTATCTAGGAATAAAGC 58.754 47.826 2.24 0.00 0.00 3.51
556 565 4.686554 CCAGTATCTAGGAATAAAGCGTGC 59.313 45.833 0.00 0.00 0.00 5.34
624 633 2.083167 ATGAAACAATTTGGGCTGCG 57.917 45.000 0.78 0.00 0.00 5.18
642 651 1.599542 GCGCTTGTTGTTTGACTCTCT 59.400 47.619 0.00 0.00 0.00 3.10
644 653 3.126831 CGCTTGTTGTTTGACTCTCTCT 58.873 45.455 0.00 0.00 0.00 3.10
645 654 3.183373 CGCTTGTTGTTTGACTCTCTCTC 59.817 47.826 0.00 0.00 0.00 3.20
646 655 4.376146 GCTTGTTGTTTGACTCTCTCTCT 58.624 43.478 0.00 0.00 0.00 3.10
647 656 4.447389 GCTTGTTGTTTGACTCTCTCTCTC 59.553 45.833 0.00 0.00 0.00 3.20
648 657 4.230314 TGTTGTTTGACTCTCTCTCTCG 57.770 45.455 0.00 0.00 0.00 4.04
649 658 2.983803 GTTGTTTGACTCTCTCTCTCGC 59.016 50.000 0.00 0.00 0.00 5.03
650 659 1.197949 TGTTTGACTCTCTCTCTCGCG 59.802 52.381 0.00 0.00 0.00 5.87
651 660 1.198178 GTTTGACTCTCTCTCTCGCGT 59.802 52.381 5.77 0.00 0.00 6.01
652 661 2.381725 TTGACTCTCTCTCTCGCGTA 57.618 50.000 5.77 0.00 0.00 4.42
712 721 1.077501 ACGGTCAGGGGCATGAATG 60.078 57.895 0.00 0.00 0.00 2.67
737 1048 5.297029 GGACCGATTTATTTTTCAGCTAGCT 59.703 40.000 12.68 12.68 0.00 3.32
753 1064 9.471084 TTCAGCTAGCTTAATTTTAACAAAACC 57.529 29.630 16.46 0.00 32.37 3.27
812 1329 5.106396 CCTGAGATCTTTTGTGATTCGCTTT 60.106 40.000 0.00 0.00 0.00 3.51
1171 1704 2.617274 GCAACAACCTCGGACCTGC 61.617 63.158 0.00 0.00 0.00 4.85
1813 2465 4.043750 CCGTCTACGTGTTTAGTGACAAA 58.956 43.478 0.00 0.00 37.74 2.83
1819 2471 7.215007 GTCTACGTGTTTAGTGACAAAAACAAC 59.785 37.037 14.92 8.06 44.64 3.32
1820 2472 5.759963 ACGTGTTTAGTGACAAAAACAACA 58.240 33.333 14.92 2.21 44.64 3.33
1832 2484 5.848786 ACAAAAACAACAACAAATACGTGC 58.151 33.333 0.00 0.00 0.00 5.34
1885 2559 3.804193 CTTTTCGGCCCGCTCAGC 61.804 66.667 0.00 0.00 0.00 4.26
1948 2626 1.746220 CGGGATACAAAATTTCGGCCA 59.254 47.619 2.24 0.00 39.74 5.36
2056 2748 3.362399 CTCTGCCGGTGAGATGCGT 62.362 63.158 17.84 0.00 33.68 5.24
2243 2938 1.333636 ATCGAGAGGAACAGGGGCAG 61.334 60.000 0.00 0.00 0.00 4.85
2271 2968 0.250553 CACGCCCCACTTCCTTGTTA 60.251 55.000 0.00 0.00 0.00 2.41
2288 3019 8.752005 TCCTTGTTATCCTTTTAATCATCCAG 57.248 34.615 0.00 0.00 0.00 3.86
2294 3025 9.788960 GTTATCCTTTTAATCATCCAGTTTGAC 57.211 33.333 0.00 0.00 0.00 3.18
2351 3082 3.427503 CGCTGCCGTTCCTTTTATTCAAT 60.428 43.478 0.00 0.00 0.00 2.57
2352 3083 4.494484 GCTGCCGTTCCTTTTATTCAATT 58.506 39.130 0.00 0.00 0.00 2.32
2353 3084 4.327087 GCTGCCGTTCCTTTTATTCAATTG 59.673 41.667 0.00 0.00 0.00 2.32
2354 3085 5.708948 CTGCCGTTCCTTTTATTCAATTGA 58.291 37.500 3.38 3.38 0.00 2.57
2355 3086 6.090483 TGCCGTTCCTTTTATTCAATTGAA 57.910 33.333 22.52 22.52 38.56 2.69
2356 3087 5.923684 TGCCGTTCCTTTTATTCAATTGAAC 59.076 36.000 22.71 7.01 36.80 3.18
2357 3088 5.923684 GCCGTTCCTTTTATTCAATTGAACA 59.076 36.000 22.71 9.28 36.80 3.18
2358 3089 6.589907 GCCGTTCCTTTTATTCAATTGAACAT 59.410 34.615 22.71 10.96 36.80 2.71
2359 3090 7.411804 GCCGTTCCTTTTATTCAATTGAACATG 60.412 37.037 22.71 11.51 36.80 3.21
2360 3091 7.411804 CCGTTCCTTTTATTCAATTGAACATGC 60.412 37.037 22.71 6.19 36.80 4.06
2361 3092 7.116090 CGTTCCTTTTATTCAATTGAACATGCA 59.884 33.333 22.71 0.00 36.80 3.96
2362 3093 7.887996 TCCTTTTATTCAATTGAACATGCAC 57.112 32.000 22.71 0.00 36.80 4.57
2363 3094 7.440198 TCCTTTTATTCAATTGAACATGCACA 58.560 30.769 22.71 3.36 36.80 4.57
2364 3095 7.930325 TCCTTTTATTCAATTGAACATGCACAA 59.070 29.630 22.71 8.35 36.80 3.33
2365 3096 8.557864 CCTTTTATTCAATTGAACATGCACAAA 58.442 29.630 22.71 7.87 36.80 2.83
2366 3097 9.932699 CTTTTATTCAATTGAACATGCACAAAA 57.067 25.926 22.71 16.20 36.80 2.44
2370 3101 8.836268 ATTCAATTGAACATGCACAAAATAGT 57.164 26.923 22.71 0.00 36.80 2.12
2371 3102 9.926158 ATTCAATTGAACATGCACAAAATAGTA 57.074 25.926 22.71 0.00 36.80 1.82
2372 3103 8.741101 TCAATTGAACATGCACAAAATAGTAC 57.259 30.769 5.45 0.00 0.00 2.73
2373 3104 8.575589 TCAATTGAACATGCACAAAATAGTACT 58.424 29.630 5.45 0.00 0.00 2.73
2374 3105 9.838975 CAATTGAACATGCACAAAATAGTACTA 57.161 29.630 4.77 4.77 0.00 1.82
2376 3107 7.609760 TGAACATGCACAAAATAGTACTAGG 57.390 36.000 8.85 1.00 0.00 3.02
2377 3108 7.390823 TGAACATGCACAAAATAGTACTAGGA 58.609 34.615 8.85 0.00 0.00 2.94
2378 3109 7.880713 TGAACATGCACAAAATAGTACTAGGAA 59.119 33.333 8.85 0.00 0.00 3.36
2379 3110 7.611213 ACATGCACAAAATAGTACTAGGAAC 57.389 36.000 8.85 0.00 0.00 3.62
2380 3111 6.312918 ACATGCACAAAATAGTACTAGGAACG 59.687 38.462 8.85 0.00 0.00 3.95
2381 3112 6.028146 TGCACAAAATAGTACTAGGAACGA 57.972 37.500 8.85 0.00 0.00 3.85
2382 3113 6.097356 TGCACAAAATAGTACTAGGAACGAG 58.903 40.000 8.85 0.00 37.02 4.18
2383 3114 6.071784 TGCACAAAATAGTACTAGGAACGAGA 60.072 38.462 8.85 0.00 34.38 4.04
2384 3115 6.810182 GCACAAAATAGTACTAGGAACGAGAA 59.190 38.462 8.85 0.00 34.38 2.87
2385 3116 7.330208 GCACAAAATAGTACTAGGAACGAGAAA 59.670 37.037 8.85 0.00 34.38 2.52
2386 3117 9.199982 CACAAAATAGTACTAGGAACGAGAAAA 57.800 33.333 8.85 0.00 34.38 2.29
2387 3118 9.768662 ACAAAATAGTACTAGGAACGAGAAAAA 57.231 29.630 8.85 0.00 34.38 1.94
2408 3139 4.616181 AAAATGGTTCGATCCGACAATC 57.384 40.909 7.99 0.00 34.89 2.67
2409 3140 2.979814 ATGGTTCGATCCGACAATCA 57.020 45.000 7.99 0.00 34.89 2.57
2410 3141 2.979814 TGGTTCGATCCGACAATCAT 57.020 45.000 7.99 0.00 34.89 2.45
2411 3142 2.549926 TGGTTCGATCCGACAATCATG 58.450 47.619 7.99 0.00 34.89 3.07
2412 3143 1.867233 GGTTCGATCCGACAATCATGG 59.133 52.381 0.00 0.00 34.89 3.66
2413 3144 2.550978 GTTCGATCCGACAATCATGGT 58.449 47.619 0.00 0.00 34.89 3.55
2414 3145 2.223537 TCGATCCGACAATCATGGTG 57.776 50.000 0.00 0.00 0.00 4.17
2415 3146 1.480545 TCGATCCGACAATCATGGTGT 59.519 47.619 2.97 2.97 0.00 4.16
2416 3147 1.860950 CGATCCGACAATCATGGTGTC 59.139 52.381 16.27 16.27 41.66 3.67
2417 3148 2.738321 CGATCCGACAATCATGGTGTCA 60.738 50.000 22.35 10.37 44.66 3.58
2418 3149 2.849294 TCCGACAATCATGGTGTCAA 57.151 45.000 22.35 12.02 44.66 3.18
2419 3150 2.422597 TCCGACAATCATGGTGTCAAC 58.577 47.619 22.35 5.05 44.66 3.18
2420 3151 2.038426 TCCGACAATCATGGTGTCAACT 59.962 45.455 22.35 0.00 44.66 3.16
2421 3152 2.813754 CCGACAATCATGGTGTCAACTT 59.186 45.455 22.35 0.00 44.66 2.66
2422 3153 3.120199 CCGACAATCATGGTGTCAACTTC 60.120 47.826 22.35 3.98 44.66 3.01
2423 3154 3.498018 CGACAATCATGGTGTCAACTTCA 59.502 43.478 22.35 0.00 44.66 3.02
2424 3155 4.611355 CGACAATCATGGTGTCAACTTCAC 60.611 45.833 22.35 0.00 44.66 3.18
2425 3156 3.250762 ACAATCATGGTGTCAACTTCACG 59.749 43.478 0.00 0.00 36.76 4.35
2426 3157 1.225855 TCATGGTGTCAACTTCACGC 58.774 50.000 0.00 0.00 36.76 5.34
2427 3158 0.238289 CATGGTGTCAACTTCACGCC 59.762 55.000 0.00 0.00 43.66 5.68
2428 3159 0.108585 ATGGTGTCAACTTCACGCCT 59.891 50.000 0.00 0.00 43.73 5.52
2429 3160 0.531974 TGGTGTCAACTTCACGCCTC 60.532 55.000 0.00 0.00 43.73 4.70
2430 3161 0.249911 GGTGTCAACTTCACGCCTCT 60.250 55.000 0.00 0.00 40.70 3.69
2431 3162 0.861837 GTGTCAACTTCACGCCTCTG 59.138 55.000 0.00 0.00 0.00 3.35
2432 3163 0.880278 TGTCAACTTCACGCCTCTGC 60.880 55.000 0.00 0.00 0.00 4.26
2433 3164 1.301716 TCAACTTCACGCCTCTGCC 60.302 57.895 0.00 0.00 0.00 4.85
2434 3165 1.302033 CAACTTCACGCCTCTGCCT 60.302 57.895 0.00 0.00 0.00 4.75
2435 3166 1.004440 AACTTCACGCCTCTGCCTC 60.004 57.895 0.00 0.00 0.00 4.70
2436 3167 2.507992 CTTCACGCCTCTGCCTCG 60.508 66.667 0.00 0.00 0.00 4.63
2437 3168 4.742201 TTCACGCCTCTGCCTCGC 62.742 66.667 0.00 0.00 0.00 5.03
2474 3205 4.432741 GCTGTTGCCCCTCTCCCC 62.433 72.222 0.00 0.00 0.00 4.81
2475 3206 2.612115 CTGTTGCCCCTCTCCCCT 60.612 66.667 0.00 0.00 0.00 4.79
2476 3207 2.935481 TGTTGCCCCTCTCCCCTG 60.935 66.667 0.00 0.00 0.00 4.45
2477 3208 2.936032 GTTGCCCCTCTCCCCTGT 60.936 66.667 0.00 0.00 0.00 4.00
2478 3209 2.935481 TTGCCCCTCTCCCCTGTG 60.935 66.667 0.00 0.00 0.00 3.66
2479 3210 3.810687 TTGCCCCTCTCCCCTGTGT 62.811 63.158 0.00 0.00 0.00 3.72
2480 3211 3.721706 GCCCCTCTCCCCTGTGTG 61.722 72.222 0.00 0.00 0.00 3.82
2481 3212 3.011517 CCCCTCTCCCCTGTGTGG 61.012 72.222 0.00 0.00 0.00 4.17
2491 3222 4.935495 CTGTGTGGGTGTGCCGCT 62.935 66.667 0.00 0.00 34.97 5.52
2492 3223 4.927782 TGTGTGGGTGTGCCGCTC 62.928 66.667 0.00 0.00 34.97 5.03
2504 3235 4.150454 CCGCTCCCTCCCTCTCCT 62.150 72.222 0.00 0.00 0.00 3.69
2505 3236 2.837291 CGCTCCCTCCCTCTCCTG 60.837 72.222 0.00 0.00 0.00 3.86
2506 3237 2.366570 GCTCCCTCCCTCTCCTGT 59.633 66.667 0.00 0.00 0.00 4.00
2507 3238 2.063378 GCTCCCTCCCTCTCCTGTG 61.063 68.421 0.00 0.00 0.00 3.66
2508 3239 2.039624 TCCCTCCCTCTCCTGTGC 59.960 66.667 0.00 0.00 0.00 4.57
2509 3240 3.086600 CCCTCCCTCTCCTGTGCC 61.087 72.222 0.00 0.00 0.00 5.01
2510 3241 2.040278 CCTCCCTCTCCTGTGCCT 59.960 66.667 0.00 0.00 0.00 4.75
2511 3242 2.063378 CCTCCCTCTCCTGTGCCTC 61.063 68.421 0.00 0.00 0.00 4.70
2512 3243 1.001503 CTCCCTCTCCTGTGCCTCT 59.998 63.158 0.00 0.00 0.00 3.69
2513 3244 1.000993 TCCCTCTCCTGTGCCTCTC 59.999 63.158 0.00 0.00 0.00 3.20
2514 3245 2.063378 CCCTCTCCTGTGCCTCTCC 61.063 68.421 0.00 0.00 0.00 3.71
2515 3246 2.063378 CCTCTCCTGTGCCTCTCCC 61.063 68.421 0.00 0.00 0.00 4.30
2516 3247 1.305633 CTCTCCTGTGCCTCTCCCA 60.306 63.158 0.00 0.00 0.00 4.37
2517 3248 1.610673 TCTCCTGTGCCTCTCCCAC 60.611 63.158 0.00 0.00 0.00 4.61
2518 3249 2.997315 TCCTGTGCCTCTCCCACG 60.997 66.667 0.00 0.00 36.01 4.94
2519 3250 4.767255 CCTGTGCCTCTCCCACGC 62.767 72.222 0.00 0.00 36.01 5.34
2538 3269 4.457496 CCTCCGCGCATGAGGTGT 62.457 66.667 26.91 0.00 43.68 4.16
2539 3270 3.190849 CTCCGCGCATGAGGTGTG 61.191 66.667 8.75 0.00 41.32 3.82
2540 3271 3.939837 CTCCGCGCATGAGGTGTGT 62.940 63.158 8.75 0.00 40.50 3.72
2541 3272 3.490759 CCGCGCATGAGGTGTGTC 61.491 66.667 8.75 0.00 40.50 3.67
2542 3273 2.433145 CGCGCATGAGGTGTGTCT 60.433 61.111 8.75 0.00 40.50 3.41
2543 3274 2.029288 CGCGCATGAGGTGTGTCTT 61.029 57.895 8.75 0.00 40.50 3.01
2544 3275 1.790387 GCGCATGAGGTGTGTCTTC 59.210 57.895 0.30 0.00 40.50 2.87
2545 3276 0.671781 GCGCATGAGGTGTGTCTTCT 60.672 55.000 0.30 0.00 40.50 2.85
2546 3277 1.354040 CGCATGAGGTGTGTCTTCTC 58.646 55.000 0.00 0.00 33.61 2.87
2547 3278 1.731720 GCATGAGGTGTGTCTTCTCC 58.268 55.000 0.00 0.00 0.00 3.71
2548 3279 2.001812 CATGAGGTGTGTCTTCTCCG 57.998 55.000 0.00 0.00 0.00 4.63
2549 3280 0.898320 ATGAGGTGTGTCTTCTCCGG 59.102 55.000 0.00 0.00 0.00 5.14
2550 3281 1.079750 GAGGTGTGTCTTCTCCGGC 60.080 63.158 0.00 0.00 0.00 6.13
2551 3282 1.534235 AGGTGTGTCTTCTCCGGCT 60.534 57.895 0.00 0.00 0.00 5.52
2552 3283 1.079750 GGTGTGTCTTCTCCGGCTC 60.080 63.158 0.00 0.00 0.00 4.70
2553 3284 1.079750 GTGTGTCTTCTCCGGCTCC 60.080 63.158 0.00 0.00 0.00 4.70
2554 3285 2.182030 GTGTCTTCTCCGGCTCCG 59.818 66.667 0.00 0.48 39.44 4.63
2566 3297 3.499737 GCTCCGGCCATCGTGTTG 61.500 66.667 2.24 0.00 37.11 3.33
2567 3298 3.499737 CTCCGGCCATCGTGTTGC 61.500 66.667 2.24 0.00 37.11 4.17
2568 3299 3.958147 CTCCGGCCATCGTGTTGCT 62.958 63.158 2.24 0.00 37.11 3.91
2569 3300 3.055719 CCGGCCATCGTGTTGCTT 61.056 61.111 2.24 0.00 37.11 3.91
2570 3301 2.480555 CGGCCATCGTGTTGCTTC 59.519 61.111 2.24 0.00 0.00 3.86
2571 3302 2.034879 CGGCCATCGTGTTGCTTCT 61.035 57.895 2.24 0.00 0.00 2.85
2572 3303 1.796796 GGCCATCGTGTTGCTTCTC 59.203 57.895 0.00 0.00 0.00 2.87
2573 3304 0.674895 GGCCATCGTGTTGCTTCTCT 60.675 55.000 0.00 0.00 0.00 3.10
2574 3305 1.405526 GGCCATCGTGTTGCTTCTCTA 60.406 52.381 0.00 0.00 0.00 2.43
2575 3306 2.346803 GCCATCGTGTTGCTTCTCTAA 58.653 47.619 0.00 0.00 0.00 2.10
2576 3307 2.094417 GCCATCGTGTTGCTTCTCTAAC 59.906 50.000 0.00 0.00 0.00 2.34
2577 3308 2.673368 CCATCGTGTTGCTTCTCTAACC 59.327 50.000 0.00 0.00 0.00 2.85
2578 3309 3.325870 CATCGTGTTGCTTCTCTAACCA 58.674 45.455 0.00 0.00 0.00 3.67
2579 3310 2.750948 TCGTGTTGCTTCTCTAACCAC 58.249 47.619 0.00 0.00 0.00 4.16
2580 3311 1.798813 CGTGTTGCTTCTCTAACCACC 59.201 52.381 0.00 0.00 0.00 4.61
2581 3312 2.548067 CGTGTTGCTTCTCTAACCACCT 60.548 50.000 0.00 0.00 0.00 4.00
2582 3313 3.067833 GTGTTGCTTCTCTAACCACCTC 58.932 50.000 0.00 0.00 0.00 3.85
2583 3314 2.288825 TGTTGCTTCTCTAACCACCTCG 60.289 50.000 0.00 0.00 0.00 4.63
2584 3315 0.246635 TGCTTCTCTAACCACCTCGC 59.753 55.000 0.00 0.00 0.00 5.03
2585 3316 0.460459 GCTTCTCTAACCACCTCGCC 60.460 60.000 0.00 0.00 0.00 5.54
2586 3317 0.179134 CTTCTCTAACCACCTCGCCG 60.179 60.000 0.00 0.00 0.00 6.46
2587 3318 0.609957 TTCTCTAACCACCTCGCCGA 60.610 55.000 0.00 0.00 0.00 5.54
2588 3319 1.139095 CTCTAACCACCTCGCCGAC 59.861 63.158 0.00 0.00 0.00 4.79
2589 3320 1.592400 CTCTAACCACCTCGCCGACA 61.592 60.000 0.00 0.00 0.00 4.35
2590 3321 0.968901 TCTAACCACCTCGCCGACAT 60.969 55.000 0.00 0.00 0.00 3.06
2591 3322 0.527817 CTAACCACCTCGCCGACATC 60.528 60.000 0.00 0.00 0.00 3.06
2592 3323 0.968901 TAACCACCTCGCCGACATCT 60.969 55.000 0.00 0.00 0.00 2.90
2593 3324 1.827399 AACCACCTCGCCGACATCTT 61.827 55.000 0.00 0.00 0.00 2.40
2594 3325 1.811266 CCACCTCGCCGACATCTTG 60.811 63.158 0.00 0.00 0.00 3.02
2595 3326 1.811266 CACCTCGCCGACATCTTGG 60.811 63.158 0.00 0.00 0.00 3.61
2596 3327 2.202932 CCTCGCCGACATCTTGGG 60.203 66.667 0.00 0.00 0.00 4.12
2597 3328 2.892425 CTCGCCGACATCTTGGGC 60.892 66.667 0.00 0.00 43.42 5.36
2598 3329 4.467084 TCGCCGACATCTTGGGCC 62.467 66.667 0.00 0.00 43.99 5.80
2600 3331 4.424711 GCCGACATCTTGGGCCCA 62.425 66.667 24.45 24.45 41.01 5.36
2601 3332 2.438434 CCGACATCTTGGGCCCAC 60.438 66.667 28.70 11.44 0.00 4.61
2602 3333 2.350895 CGACATCTTGGGCCCACA 59.649 61.111 28.70 15.66 0.00 4.17
2603 3334 1.077501 CGACATCTTGGGCCCACAT 60.078 57.895 28.70 17.53 0.00 3.21
2604 3335 1.378882 CGACATCTTGGGCCCACATG 61.379 60.000 30.11 30.11 0.00 3.21
2605 3336 1.000739 ACATCTTGGGCCCACATGG 59.999 57.895 32.83 23.07 37.09 3.66
2606 3337 1.000739 CATCTTGGGCCCACATGGT 59.999 57.895 28.70 11.72 36.04 3.55
2607 3338 1.000739 ATCTTGGGCCCACATGGTG 59.999 57.895 28.70 10.78 36.04 4.17
2608 3339 1.803453 ATCTTGGGCCCACATGGTGT 61.803 55.000 28.70 3.28 36.04 4.16
2609 3340 1.978617 CTTGGGCCCACATGGTGTC 60.979 63.158 28.70 0.00 36.04 3.67
2610 3341 2.711883 CTTGGGCCCACATGGTGTCA 62.712 60.000 28.70 5.17 36.04 3.58
2611 3342 2.091640 TTGGGCCCACATGGTGTCAT 62.092 55.000 28.70 0.00 36.04 3.06
2618 3349 2.045045 CATGGTGTCATGGCCGGT 60.045 61.111 1.90 0.00 45.19 5.28
2619 3350 1.678635 CATGGTGTCATGGCCGGTT 60.679 57.895 1.90 0.00 45.19 4.44
2620 3351 1.076549 ATGGTGTCATGGCCGGTTT 59.923 52.632 1.90 0.00 31.34 3.27
2621 3352 0.541764 ATGGTGTCATGGCCGGTTTT 60.542 50.000 1.90 0.00 31.34 2.43
2622 3353 1.175983 TGGTGTCATGGCCGGTTTTC 61.176 55.000 1.90 0.00 0.00 2.29
2623 3354 1.584495 GTGTCATGGCCGGTTTTCC 59.416 57.895 1.90 0.00 0.00 3.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 51 2.107953 GTGATGCTCCTCCGCCTC 59.892 66.667 0.00 0.00 0.00 4.70
69 70 4.271049 CCGAACATATTAGCCAACAGACAG 59.729 45.833 0.00 0.00 0.00 3.51
80 81 6.936279 AGGATATGACACCCGAACATATTAG 58.064 40.000 0.00 0.00 37.35 1.73
89 90 2.628178 GTGATGAGGATATGACACCCGA 59.372 50.000 0.00 0.00 0.00 5.14
103 104 4.036027 GGACCAATGCTTACATGTGATGAG 59.964 45.833 9.11 2.46 36.36 2.90
126 127 4.147321 CAGATCCAAACATATTCCCTGGG 58.853 47.826 6.33 6.33 0.00 4.45
146 147 0.252479 AGAGATGACAGCTTGGCCAG 59.748 55.000 5.11 1.08 0.00 4.85
153 154 2.158928 GGATTCAGCAGAGATGACAGCT 60.159 50.000 0.00 0.00 37.95 4.24
156 157 3.710165 AGATGGATTCAGCAGAGATGACA 59.290 43.478 0.00 0.00 0.00 3.58
188 189 0.108281 GACTAAGAACCACGAGGGCC 60.108 60.000 3.29 0.00 42.05 5.80
195 196 3.251004 CCTGCAAACTGACTAAGAACCAC 59.749 47.826 0.00 0.00 0.00 4.16
200 201 4.286032 ACCATACCTGCAAACTGACTAAGA 59.714 41.667 0.00 0.00 0.00 2.10
204 205 2.290323 GGACCATACCTGCAAACTGACT 60.290 50.000 0.00 0.00 0.00 3.41
205 206 2.084546 GGACCATACCTGCAAACTGAC 58.915 52.381 0.00 0.00 0.00 3.51
208 209 4.526970 CATAAGGACCATACCTGCAAACT 58.473 43.478 0.00 0.00 40.49 2.66
215 216 5.420215 AGTAGACCATAAGGACCATACCT 57.580 43.478 0.00 0.00 42.69 3.08
231 232 6.197842 TCGTCGACAAAGAAAAAGAAGTAGAC 59.802 38.462 17.16 0.00 0.00 2.59
236 237 5.974300 TCATCGTCGACAAAGAAAAAGAAG 58.026 37.500 17.16 0.00 0.00 2.85
239 240 4.144555 GCTCATCGTCGACAAAGAAAAAG 58.855 43.478 17.16 5.53 0.00 2.27
256 257 1.305623 CCCCAAAGAGCTGGCTCAT 59.694 57.895 22.21 9.70 44.99 2.90
266 267 3.073798 TCATTGTGCTAAGACCCCAAAGA 59.926 43.478 0.00 0.00 0.00 2.52
267 268 3.191371 GTCATTGTGCTAAGACCCCAAAG 59.809 47.826 0.00 0.00 0.00 2.77
282 284 1.876416 CGACGGTTGGGAAGTCATTGT 60.876 52.381 0.00 0.00 34.80 2.71
298 300 6.360681 CGGGTAAACCTTATTTATAGTCGACG 59.639 42.308 10.46 0.00 36.97 5.12
302 304 9.605275 AAAGTCGGGTAAACCTTATTTATAGTC 57.395 33.333 0.00 0.00 36.97 2.59
316 318 5.472137 CCTTTTCTCATCAAAGTCGGGTAAA 59.528 40.000 0.00 0.00 30.40 2.01
319 321 3.412386 CCTTTTCTCATCAAAGTCGGGT 58.588 45.455 0.00 0.00 30.40 5.28
320 322 2.749621 CCCTTTTCTCATCAAAGTCGGG 59.250 50.000 0.00 0.00 30.40 5.14
323 325 3.074412 TCGCCCTTTTCTCATCAAAGTC 58.926 45.455 0.00 0.00 30.40 3.01
341 343 1.132588 GTGCTTCCGTCTATCATCGC 58.867 55.000 0.00 0.00 0.00 4.58
348 350 1.270625 CCCAAGTTGTGCTTCCGTCTA 60.271 52.381 1.45 0.00 34.69 2.59
362 364 1.284198 AGCATGAGAATGAGCCCAAGT 59.716 47.619 0.00 0.00 0.00 3.16
394 396 1.507141 GAACCACCCAACGCAGACTG 61.507 60.000 0.00 0.00 0.00 3.51
399 401 0.466372 TTCATGAACCACCCAACGCA 60.466 50.000 3.38 0.00 0.00 5.24
413 416 9.507280 GTGACAAATATTACAATCAGGTTCATG 57.493 33.333 0.00 0.00 0.00 3.07
419 422 7.770433 TCAGAGGTGACAAATATTACAATCAGG 59.230 37.037 0.00 0.00 0.00 3.86
440 443 3.402110 TGCAACAACACTACCATCAGAG 58.598 45.455 0.00 0.00 0.00 3.35
443 446 3.550820 ACTTGCAACAACACTACCATCA 58.449 40.909 0.00 0.00 0.00 3.07
452 461 3.133721 AGCCCAAATAACTTGCAACAACA 59.866 39.130 0.00 0.00 33.27 3.33
459 468 2.295909 TGTGACAGCCCAAATAACTTGC 59.704 45.455 0.00 0.00 33.27 4.01
463 472 2.884639 ACACTGTGACAGCCCAAATAAC 59.115 45.455 15.86 0.00 34.37 1.89
468 477 2.294074 GTAAACACTGTGACAGCCCAA 58.706 47.619 15.86 0.00 34.37 4.12
470 479 1.873591 CTGTAAACACTGTGACAGCCC 59.126 52.381 15.86 0.00 34.37 5.19
471 480 2.544267 GTCTGTAAACACTGTGACAGCC 59.456 50.000 15.86 4.16 39.33 4.85
472 481 2.218759 CGTCTGTAAACACTGTGACAGC 59.781 50.000 15.86 11.97 39.33 4.40
490 499 6.166279 TCAGCCCAATGATTCTATATTCGTC 58.834 40.000 0.00 0.00 0.00 4.20
531 540 4.246458 CGCTTTATTCCTAGATACTGGCC 58.754 47.826 0.00 0.00 0.00 5.36
532 541 4.686554 CACGCTTTATTCCTAGATACTGGC 59.313 45.833 0.00 0.00 0.00 4.85
533 542 4.686554 GCACGCTTTATTCCTAGATACTGG 59.313 45.833 0.00 0.00 0.00 4.00
556 565 0.946221 AGGCTCACAAACTCGCGAAG 60.946 55.000 11.33 7.16 0.00 3.79
589 598 0.825425 TCATTTGTTGGCCGCCTTGA 60.825 50.000 11.61 1.79 0.00 3.02
593 602 0.249657 TGTTTCATTTGTTGGCCGCC 60.250 50.000 1.04 1.04 0.00 6.13
624 633 4.376146 AGAGAGAGAGTCAAACAACAAGC 58.624 43.478 0.00 0.00 0.00 4.01
675 684 3.543460 CCGTCCGATTAAAATGCGAAGAC 60.543 47.826 0.00 0.00 0.00 3.01
691 700 4.838152 CATGCCCCTGACCGTCCG 62.838 72.222 0.00 0.00 0.00 4.79
706 715 7.416964 TGAAAAATAAATCGGTCCCATTCAT 57.583 32.000 0.00 0.00 0.00 2.57
712 721 4.983671 AGCTGAAAAATAAATCGGTCCC 57.016 40.909 0.00 0.00 0.00 4.46
753 1064 9.858247 TCGTATTTTTAGCTTATTAAATGAGCG 57.142 29.630 0.00 1.77 45.53 5.03
766 1283 7.985184 TCAGGATTACACATCGTATTTTTAGCT 59.015 33.333 0.00 0.00 0.00 3.32
812 1329 9.783081 ACATATGCAATCATAGTACTTCATTGA 57.217 29.630 18.44 10.77 38.46 2.57
1562 2103 2.337879 AAAGCTGCACCCCTTCGACA 62.338 55.000 1.02 0.00 0.00 4.35
1792 2340 5.624715 TTTTGTCACTAAACACGTAGACG 57.375 39.130 0.00 0.00 46.33 4.18
1813 2465 7.995463 ATAAAGCACGTATTTGTTGTTGTTT 57.005 28.000 7.90 0.00 0.00 2.83
1819 2471 6.664128 GCGTCAAATAAAGCACGTATTTGTTG 60.664 38.462 16.36 14.27 44.17 3.33
1820 2472 5.341196 GCGTCAAATAAAGCACGTATTTGTT 59.659 36.000 16.36 9.89 44.17 2.83
1832 2484 2.096496 CCAGCCTGAGCGTCAAATAAAG 59.904 50.000 0.00 0.00 46.67 1.85
1925 2603 2.681344 GCCGAAATTTTGTATCCCGACT 59.319 45.455 4.72 0.00 0.00 4.18
2087 2779 4.208686 GTCGCGCGGGAGAAGGAT 62.209 66.667 31.69 0.00 0.00 3.24
2243 2938 3.311110 TGGGGCGTGACTGTCTCC 61.311 66.667 9.51 7.44 0.00 3.71
2271 2968 6.381133 GGGTCAAACTGGATGATTAAAAGGAT 59.619 38.462 0.00 0.00 0.00 3.24
2288 3019 3.547413 GCGCCTTAATTATCGGGTCAAAC 60.547 47.826 0.00 0.00 0.00 2.93
2291 3022 1.541670 GGCGCCTTAATTATCGGGTCA 60.542 52.381 22.15 0.00 0.00 4.02
2294 3025 1.804748 GAAGGCGCCTTAATTATCGGG 59.195 52.381 40.30 0.94 36.26 5.14
2351 3082 7.880713 TCCTAGTACTATTTTGTGCATGTTCAA 59.119 33.333 2.33 0.00 0.00 2.69
2352 3083 7.390823 TCCTAGTACTATTTTGTGCATGTTCA 58.609 34.615 2.33 0.00 0.00 3.18
2353 3084 7.843490 TCCTAGTACTATTTTGTGCATGTTC 57.157 36.000 2.33 0.00 0.00 3.18
2354 3085 7.148474 CGTTCCTAGTACTATTTTGTGCATGTT 60.148 37.037 2.33 0.00 0.00 2.71
2355 3086 6.312918 CGTTCCTAGTACTATTTTGTGCATGT 59.687 38.462 2.33 0.00 0.00 3.21
2356 3087 6.533723 TCGTTCCTAGTACTATTTTGTGCATG 59.466 38.462 2.33 0.00 0.00 4.06
2357 3088 6.636705 TCGTTCCTAGTACTATTTTGTGCAT 58.363 36.000 2.33 0.00 0.00 3.96
2358 3089 6.028146 TCGTTCCTAGTACTATTTTGTGCA 57.972 37.500 2.33 0.00 0.00 4.57
2359 3090 6.327934 TCTCGTTCCTAGTACTATTTTGTGC 58.672 40.000 2.33 0.00 0.00 4.57
2360 3091 8.752766 TTTCTCGTTCCTAGTACTATTTTGTG 57.247 34.615 2.33 0.00 0.00 3.33
2361 3092 9.768662 TTTTTCTCGTTCCTAGTACTATTTTGT 57.231 29.630 2.33 0.00 0.00 2.83
2386 3117 4.457603 TGATTGTCGGATCGAACCATTTTT 59.542 37.500 12.66 0.00 37.72 1.94
2387 3118 4.006989 TGATTGTCGGATCGAACCATTTT 58.993 39.130 12.66 0.00 37.72 1.82
2388 3119 3.605634 TGATTGTCGGATCGAACCATTT 58.394 40.909 12.66 0.00 37.72 2.32
2389 3120 3.260475 TGATTGTCGGATCGAACCATT 57.740 42.857 12.66 0.00 37.72 3.16
2390 3121 2.979814 TGATTGTCGGATCGAACCAT 57.020 45.000 12.66 0.00 37.72 3.55
2391 3122 2.549926 CATGATTGTCGGATCGAACCA 58.450 47.619 12.66 0.00 37.72 3.67
2392 3123 1.867233 CCATGATTGTCGGATCGAACC 59.133 52.381 0.70 0.70 37.72 3.62
2393 3124 2.285220 CACCATGATTGTCGGATCGAAC 59.715 50.000 0.00 0.00 37.72 3.95
2394 3125 2.093711 ACACCATGATTGTCGGATCGAA 60.094 45.455 0.00 0.00 37.72 3.71
2395 3126 1.480545 ACACCATGATTGTCGGATCGA 59.519 47.619 0.00 0.00 0.00 3.59
2396 3127 1.860950 GACACCATGATTGTCGGATCG 59.139 52.381 10.55 0.00 34.41 3.69
2397 3128 2.905075 TGACACCATGATTGTCGGATC 58.095 47.619 17.57 0.00 45.44 3.36
2398 3129 3.009723 GTTGACACCATGATTGTCGGAT 58.990 45.455 17.57 0.00 45.44 4.18
2399 3130 2.038426 AGTTGACACCATGATTGTCGGA 59.962 45.455 17.57 9.61 45.44 4.55
2400 3131 2.426522 AGTTGACACCATGATTGTCGG 58.573 47.619 17.57 0.00 45.44 4.79
2401 3132 3.498018 TGAAGTTGACACCATGATTGTCG 59.502 43.478 17.57 0.00 45.44 4.35
2402 3133 4.611355 CGTGAAGTTGACACCATGATTGTC 60.611 45.833 16.50 16.50 43.22 3.18
2403 3134 3.250762 CGTGAAGTTGACACCATGATTGT 59.749 43.478 0.00 0.00 35.17 2.71
2404 3135 3.813800 CGTGAAGTTGACACCATGATTG 58.186 45.455 0.00 0.00 35.17 2.67
2405 3136 2.226437 GCGTGAAGTTGACACCATGATT 59.774 45.455 0.00 0.00 35.17 2.57
2406 3137 1.806542 GCGTGAAGTTGACACCATGAT 59.193 47.619 0.00 0.00 35.17 2.45
2407 3138 1.225855 GCGTGAAGTTGACACCATGA 58.774 50.000 0.00 0.00 35.17 3.07
2408 3139 0.238289 GGCGTGAAGTTGACACCATG 59.762 55.000 0.00 0.00 35.17 3.66
2409 3140 0.108585 AGGCGTGAAGTTGACACCAT 59.891 50.000 2.29 0.00 35.17 3.55
2410 3141 0.531974 GAGGCGTGAAGTTGACACCA 60.532 55.000 2.29 0.00 35.17 4.17
2411 3142 0.249911 AGAGGCGTGAAGTTGACACC 60.250 55.000 0.00 0.00 35.17 4.16
2412 3143 0.861837 CAGAGGCGTGAAGTTGACAC 59.138 55.000 0.00 0.00 35.26 3.67
2413 3144 0.880278 GCAGAGGCGTGAAGTTGACA 60.880 55.000 0.00 0.00 0.00 3.58
2414 3145 1.569479 GGCAGAGGCGTGAAGTTGAC 61.569 60.000 0.00 0.00 42.47 3.18
2415 3146 1.301716 GGCAGAGGCGTGAAGTTGA 60.302 57.895 0.00 0.00 42.47 3.18
2416 3147 1.294659 GAGGCAGAGGCGTGAAGTTG 61.295 60.000 0.00 0.00 42.47 3.16
2417 3148 1.004440 GAGGCAGAGGCGTGAAGTT 60.004 57.895 0.00 0.00 42.47 2.66
2418 3149 2.659610 GAGGCAGAGGCGTGAAGT 59.340 61.111 0.00 0.00 42.47 3.01
2419 3150 2.507992 CGAGGCAGAGGCGTGAAG 60.508 66.667 0.00 0.00 42.47 3.02
2420 3151 4.742201 GCGAGGCAGAGGCGTGAA 62.742 66.667 0.00 0.00 42.47 3.18
2457 3188 4.432741 GGGGAGAGGGGCAACAGC 62.433 72.222 0.00 0.00 39.74 4.40
2458 3189 2.612115 AGGGGAGAGGGGCAACAG 60.612 66.667 0.00 0.00 39.74 3.16
2459 3190 2.935481 CAGGGGAGAGGGGCAACA 60.935 66.667 0.00 0.00 39.74 3.33
2460 3191 2.936032 ACAGGGGAGAGGGGCAAC 60.936 66.667 0.00 0.00 0.00 4.17
2461 3192 2.935481 CACAGGGGAGAGGGGCAA 60.935 66.667 0.00 0.00 0.00 4.52
2462 3193 4.270153 ACACAGGGGAGAGGGGCA 62.270 66.667 0.00 0.00 0.00 5.36
2463 3194 3.721706 CACACAGGGGAGAGGGGC 61.722 72.222 0.00 0.00 0.00 5.80
2464 3195 3.011517 CCACACAGGGGAGAGGGG 61.012 72.222 0.00 0.00 0.00 4.79
2474 3205 4.935495 AGCGGCACACCCACACAG 62.935 66.667 1.45 0.00 0.00 3.66
2475 3206 4.927782 GAGCGGCACACCCACACA 62.928 66.667 1.45 0.00 0.00 3.72
2487 3218 4.150454 AGGAGAGGGAGGGAGCGG 62.150 72.222 0.00 0.00 0.00 5.52
2488 3219 2.837291 CAGGAGAGGGAGGGAGCG 60.837 72.222 0.00 0.00 0.00 5.03
2489 3220 2.063378 CACAGGAGAGGGAGGGAGC 61.063 68.421 0.00 0.00 0.00 4.70
2490 3221 2.063378 GCACAGGAGAGGGAGGGAG 61.063 68.421 0.00 0.00 0.00 4.30
2491 3222 2.039624 GCACAGGAGAGGGAGGGA 59.960 66.667 0.00 0.00 0.00 4.20
2492 3223 3.086600 GGCACAGGAGAGGGAGGG 61.087 72.222 0.00 0.00 0.00 4.30
2493 3224 2.040278 AGGCACAGGAGAGGGAGG 59.960 66.667 0.00 0.00 0.00 4.30
2494 3225 1.001503 AGAGGCACAGGAGAGGGAG 59.998 63.158 0.00 0.00 0.00 4.30
2495 3226 1.000993 GAGAGGCACAGGAGAGGGA 59.999 63.158 0.00 0.00 0.00 4.20
2496 3227 2.063378 GGAGAGGCACAGGAGAGGG 61.063 68.421 0.00 0.00 0.00 4.30
2497 3228 2.063378 GGGAGAGGCACAGGAGAGG 61.063 68.421 0.00 0.00 0.00 3.69
2498 3229 1.305633 TGGGAGAGGCACAGGAGAG 60.306 63.158 0.00 0.00 0.00 3.20
2499 3230 1.610673 GTGGGAGAGGCACAGGAGA 60.611 63.158 0.00 0.00 0.00 3.71
2500 3231 2.985456 GTGGGAGAGGCACAGGAG 59.015 66.667 0.00 0.00 0.00 3.69
2501 3232 2.997315 CGTGGGAGAGGCACAGGA 60.997 66.667 0.00 0.00 38.02 3.86
2502 3233 4.767255 GCGTGGGAGAGGCACAGG 62.767 72.222 0.00 0.00 38.78 4.00
2522 3253 3.190849 CACACCTCATGCGCGGAG 61.191 66.667 18.85 18.85 0.00 4.63
2523 3254 3.932580 GACACACCTCATGCGCGGA 62.933 63.158 8.83 5.00 0.00 5.54
2524 3255 3.490759 GACACACCTCATGCGCGG 61.491 66.667 8.83 0.00 0.00 6.46
2525 3256 1.959899 GAAGACACACCTCATGCGCG 61.960 60.000 0.00 0.00 0.00 6.86
2526 3257 0.671781 AGAAGACACACCTCATGCGC 60.672 55.000 0.00 0.00 0.00 6.09
2527 3258 1.354040 GAGAAGACACACCTCATGCG 58.646 55.000 0.00 0.00 0.00 4.73
2528 3259 1.731720 GGAGAAGACACACCTCATGC 58.268 55.000 0.00 0.00 0.00 4.06
2529 3260 1.404717 CCGGAGAAGACACACCTCATG 60.405 57.143 0.00 0.00 0.00 3.07
2530 3261 0.898320 CCGGAGAAGACACACCTCAT 59.102 55.000 0.00 0.00 0.00 2.90
2531 3262 1.816863 GCCGGAGAAGACACACCTCA 61.817 60.000 5.05 0.00 0.00 3.86
2532 3263 1.079750 GCCGGAGAAGACACACCTC 60.080 63.158 5.05 0.00 0.00 3.85
2533 3264 1.534235 AGCCGGAGAAGACACACCT 60.534 57.895 5.05 0.00 0.00 4.00
2534 3265 1.079750 GAGCCGGAGAAGACACACC 60.080 63.158 5.05 0.00 0.00 4.16
2535 3266 1.079750 GGAGCCGGAGAAGACACAC 60.080 63.158 5.05 0.00 0.00 3.82
2536 3267 2.636412 CGGAGCCGGAGAAGACACA 61.636 63.158 5.05 0.00 35.56 3.72
2537 3268 2.182030 CGGAGCCGGAGAAGACAC 59.818 66.667 5.05 0.00 35.56 3.67
2549 3280 3.499737 CAACACGATGGCCGGAGC 61.500 66.667 5.05 0.00 43.93 4.70
2550 3281 3.499737 GCAACACGATGGCCGGAG 61.500 66.667 5.05 0.00 43.93 4.63
2551 3282 3.545124 AAGCAACACGATGGCCGGA 62.545 57.895 5.05 0.00 43.93 5.14
2552 3283 3.039202 GAAGCAACACGATGGCCGG 62.039 63.158 0.00 0.00 43.93 6.13
2553 3284 1.970917 GAGAAGCAACACGATGGCCG 61.971 60.000 0.00 0.00 45.44 6.13
2554 3285 0.674895 AGAGAAGCAACACGATGGCC 60.675 55.000 0.00 0.00 0.00 5.36
2555 3286 2.010145 TAGAGAAGCAACACGATGGC 57.990 50.000 0.00 0.00 0.00 4.40
2556 3287 2.673368 GGTTAGAGAAGCAACACGATGG 59.327 50.000 0.00 0.00 33.08 3.51
2557 3288 3.123621 GTGGTTAGAGAAGCAACACGATG 59.876 47.826 0.00 0.00 44.32 3.84
2558 3289 3.326747 GTGGTTAGAGAAGCAACACGAT 58.673 45.455 0.00 0.00 44.32 3.73
2559 3290 2.750948 GTGGTTAGAGAAGCAACACGA 58.249 47.619 0.00 0.00 44.32 4.35
2564 3295 1.337823 GCGAGGTGGTTAGAGAAGCAA 60.338 52.381 0.00 0.00 44.32 3.91
2565 3296 0.246635 GCGAGGTGGTTAGAGAAGCA 59.753 55.000 0.00 0.00 40.70 3.91
2566 3297 0.460459 GGCGAGGTGGTTAGAGAAGC 60.460 60.000 0.00 0.00 0.00 3.86
2567 3298 0.179134 CGGCGAGGTGGTTAGAGAAG 60.179 60.000 0.00 0.00 0.00 2.85
2568 3299 0.609957 TCGGCGAGGTGGTTAGAGAA 60.610 55.000 4.99 0.00 0.00 2.87
2569 3300 1.001764 TCGGCGAGGTGGTTAGAGA 60.002 57.895 4.99 0.00 0.00 3.10
2570 3301 1.139095 GTCGGCGAGGTGGTTAGAG 59.861 63.158 11.20 0.00 0.00 2.43
2571 3302 0.968901 ATGTCGGCGAGGTGGTTAGA 60.969 55.000 11.20 0.00 0.00 2.10
2572 3303 0.527817 GATGTCGGCGAGGTGGTTAG 60.528 60.000 11.20 0.00 0.00 2.34
2573 3304 0.968901 AGATGTCGGCGAGGTGGTTA 60.969 55.000 11.20 0.00 0.00 2.85
2574 3305 1.827399 AAGATGTCGGCGAGGTGGTT 61.827 55.000 11.20 0.00 0.00 3.67
2575 3306 2.283529 AAGATGTCGGCGAGGTGGT 61.284 57.895 11.20 0.00 0.00 4.16
2576 3307 1.811266 CAAGATGTCGGCGAGGTGG 60.811 63.158 11.20 0.00 0.00 4.61
2577 3308 1.811266 CCAAGATGTCGGCGAGGTG 60.811 63.158 11.20 3.99 0.00 4.00
2578 3309 2.579201 CCAAGATGTCGGCGAGGT 59.421 61.111 11.20 0.55 0.00 3.85
2579 3310 2.202932 CCCAAGATGTCGGCGAGG 60.203 66.667 11.20 6.75 0.00 4.63
2580 3311 2.892425 GCCCAAGATGTCGGCGAG 60.892 66.667 11.20 0.00 31.92 5.03
2581 3312 4.467084 GGCCCAAGATGTCGGCGA 62.467 66.667 4.99 4.99 43.99 5.54
2583 3314 4.424711 TGGGCCCAAGATGTCGGC 62.425 66.667 26.33 0.00 42.23 5.54
2584 3315 2.438434 GTGGGCCCAAGATGTCGG 60.438 66.667 30.64 0.00 0.00 4.79
2585 3316 1.077501 ATGTGGGCCCAAGATGTCG 60.078 57.895 30.64 0.00 0.00 4.35
2586 3317 1.039233 CCATGTGGGCCCAAGATGTC 61.039 60.000 30.64 14.22 0.00 3.06
2587 3318 1.000739 CCATGTGGGCCCAAGATGT 59.999 57.895 30.64 8.03 0.00 3.06
2588 3319 1.000739 ACCATGTGGGCCCAAGATG 59.999 57.895 30.64 28.90 42.05 2.90
2589 3320 1.000739 CACCATGTGGGCCCAAGAT 59.999 57.895 30.64 19.40 42.05 2.40
2590 3321 2.424842 GACACCATGTGGGCCCAAGA 62.425 60.000 30.64 17.70 42.05 3.02
2591 3322 1.978617 GACACCATGTGGGCCCAAG 60.979 63.158 30.64 19.64 42.05 3.61
2592 3323 2.091640 ATGACACCATGTGGGCCCAA 62.092 55.000 30.64 17.87 42.05 4.12
2593 3324 2.546643 ATGACACCATGTGGGCCCA 61.547 57.895 24.45 24.45 42.05 5.36
2594 3325 2.053865 CATGACACCATGTGGGCCC 61.054 63.158 17.59 17.59 43.90 5.80
2595 3326 2.053865 CCATGACACCATGTGGGCC 61.054 63.158 0.00 0.00 46.68 5.80
2596 3327 2.713967 GCCATGACACCATGTGGGC 61.714 63.158 3.77 0.00 46.68 5.36
2597 3328 2.053865 GGCCATGACACCATGTGGG 61.054 63.158 0.00 0.00 46.68 4.61
2598 3329 2.409055 CGGCCATGACACCATGTGG 61.409 63.158 2.24 0.00 46.68 4.17
2599 3330 2.409055 CCGGCCATGACACCATGTG 61.409 63.158 2.24 0.00 46.68 3.21
2600 3331 2.045045 CCGGCCATGACACCATGT 60.045 61.111 2.24 0.00 46.68 3.21
2602 3333 0.541764 AAAACCGGCCATGACACCAT 60.542 50.000 0.00 0.00 0.00 3.55
2603 3334 1.152652 AAAACCGGCCATGACACCA 60.153 52.632 0.00 0.00 0.00 4.17
2604 3335 1.584495 GAAAACCGGCCATGACACC 59.416 57.895 0.00 0.00 0.00 4.16
2605 3336 1.584495 GGAAAACCGGCCATGACAC 59.416 57.895 0.00 0.00 0.00 3.67
2606 3337 1.969064 CGGAAAACCGGCCATGACA 60.969 57.895 0.00 0.00 0.00 3.58
2607 3338 2.696759 CCGGAAAACCGGCCATGAC 61.697 63.158 14.59 0.00 46.47 3.06
2608 3339 2.360600 CCGGAAAACCGGCCATGA 60.361 61.111 14.59 0.00 46.47 3.07


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

AutoCloner maintained by Alex Coulton.