Multiple sequence alignment - TraesCS7A01G347000

Loading Multiple Alignment...

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 TraesCS7A01G347000 chr7A 100.000 2075 0 0 1 2075 509816041 509813967 0.000000e+00 3832.0
1 TraesCS7A01G347000 chr7A 92.459 305 23 0 1259 1563 509760227 509759923 1.080000e-118 436.0
2 TraesCS7A01G347000 chr7A 87.749 351 40 2 1213 1563 509724650 509724303 8.430000e-110 407.0
3 TraesCS7A01G347000 chr7A 84.034 357 47 9 1712 2063 36547410 36547761 4.030000e-88 335.0
4 TraesCS7A01G347000 chr7A 100.000 174 0 0 2358 2531 509813684 509813511 3.140000e-84 322.0
5 TraesCS7A01G347000 chr7B 91.830 967 67 7 681 1642 440199870 440200829 0.000000e+00 1338.0
6 TraesCS7A01G347000 chr7B 89.655 348 36 0 1213 1560 440242581 440242928 6.420000e-121 444.0
7 TraesCS7A01G347000 chr7B 93.214 280 19 0 1259 1538 440215344 440215623 1.810000e-111 412.0
8 TraesCS7A01G347000 chr7B 90.559 286 27 0 1245 1530 440332359 440332644 1.840000e-101 379.0
9 TraesCS7A01G347000 chr7B 83.777 376 50 7 1696 2067 440201372 440201740 1.860000e-91 346.0
10 TraesCS7A01G347000 chr7B 84.071 226 31 5 716 940 440214697 440214918 1.970000e-51 213.0
11 TraesCS7A01G347000 chr7B 81.955 133 21 3 439 569 709551185 709551316 2.660000e-20 110.0
12 TraesCS7A01G347000 chr7D 93.435 853 50 5 681 1530 423344010 423344859 0.000000e+00 1260.0
13 TraesCS7A01G347000 chr7D 92.169 332 26 0 1213 1544 423412448 423412779 1.060000e-128 470.0
14 TraesCS7A01G347000 chr7D 91.697 277 20 3 1261 1537 423404527 423404800 5.110000e-102 381.0
15 TraesCS7A01G347000 chr7D 83.540 322 36 11 1712 2028 381390861 381390552 4.120000e-73 285.0
16 TraesCS7A01G347000 chr7D 81.858 226 36 5 716 940 423403881 423404102 4.300000e-43 185.0
17 TraesCS7A01G347000 chr1D 87.637 364 35 8 1712 2067 10942346 10942707 5.040000e-112 414.0
18 TraesCS7A01G347000 chr1A 87.637 364 36 6 1712 2067 22683137 22682775 5.040000e-112 414.0
19 TraesCS7A01G347000 chr1A 79.592 196 35 5 378 571 584959764 584959572 4.390000e-28 135.0
20 TraesCS7A01G347000 chr3B 83.372 433 56 10 143 574 696562545 696562128 1.100000e-103 387.0
21 TraesCS7A01G347000 chr3D 86.646 322 38 4 1712 2028 303582602 303582281 4.010000e-93 351.0
22 TraesCS7A01G347000 chr3D 89.615 260 25 2 318 577 566424454 566424197 1.880000e-86 329.0
23 TraesCS7A01G347000 chr3D 92.241 232 11 1 1 225 566425353 566425122 3.140000e-84 322.0
24 TraesCS7A01G347000 chr3D 84.722 72 11 0 2457 2528 608516888 608516959 3.490000e-09 73.1
25 TraesCS7A01G347000 chr6A 84.814 349 48 3 1712 2058 71060516 71060171 1.860000e-91 346.0
26 TraesCS7A01G347000 chr5A 82.173 359 43 11 1712 2067 546786640 546786300 3.190000e-74 289.0
27 TraesCS7A01G347000 chr5A 82.828 99 10 5 1975 2067 459480281 459480184 5.800000e-12 82.4
28 TraesCS7A01G347000 chr5A 100.000 34 0 0 2030 2063 459480146 459480113 2.100000e-06 63.9
29 TraesCS7A01G347000 chr6B 83.505 291 37 7 1712 1992 38005019 38004730 6.940000e-66 261.0
30 TraesCS7A01G347000 chr5D 84.091 264 35 5 1712 1970 8544554 8544815 5.410000e-62 248.0
31 TraesCS7A01G347000 chr5D 90.909 77 6 1 2456 2531 8545257 8545333 4.450000e-18 102.0
32 TraesCS7A01G347000 chr2D 84.519 239 31 3 1831 2067 114648159 114648393 5.450000e-57 231.0
33 TraesCS7A01G347000 chr5B 81.944 216 34 4 359 571 704116139 704115926 7.190000e-41 178.0
34 TraesCS7A01G347000 chr1B 90.164 61 6 0 2458 2518 99627248 99627188 2.090000e-11 80.5
35 TraesCS7A01G347000 chr1B 79.646 113 19 4 459 569 440745266 440745376 7.510000e-11 78.7
36 TraesCS7A01G347000 chr1B 78.070 114 21 4 458 569 435801659 435801770 4.520000e-08 69.4
37 TraesCS7A01G347000 chr1B 92.683 41 3 0 543 583 640604596 640604636 2.720000e-05 60.2
38 TraesCS7A01G347000 chr4B 78.049 123 23 4 458 578 65593731 65593611 9.710000e-10 75.0
39 TraesCS7A01G347000 chr2A 82.278 79 13 1 497 575 29366546 29366469 1.620000e-07 67.6
40 TraesCS7A01G347000 chr4A 78.889 90 14 4 2401 2486 584010353 584010265 3.520000e-04 56.5


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 TraesCS7A01G347000 chr7A 509813511 509816041 2530 True 2077.0 3832 100.0000 1 2531 2 chr7A.!!$R3 2530
1 TraesCS7A01G347000 chr7B 440199870 440201740 1870 False 842.0 1338 87.8035 681 2067 2 chr7B.!!$F4 1386
2 TraesCS7A01G347000 chr7B 440214697 440215623 926 False 312.5 412 88.6425 716 1538 2 chr7B.!!$F5 822
3 TraesCS7A01G347000 chr7D 423344010 423344859 849 False 1260.0 1260 93.4350 681 1530 1 chr7D.!!$F1 849
4 TraesCS7A01G347000 chr7D 423403881 423404800 919 False 283.0 381 86.7775 716 1537 2 chr7D.!!$F3 821
5 TraesCS7A01G347000 chr3D 566424197 566425353 1156 True 325.5 329 90.9280 1 577 2 chr3D.!!$R2 576

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
314 926 0.029567 CGACGACCAGGAGACATAGC 59.97 60.0 0.0 0.0 0.0 2.97 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1867 3133 0.108138 AGGTCGAGATGGAAAAGGCG 60.108 55.0 0.0 0.0 0.0 5.52 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
92 93 4.421479 CGTGCCTCGTCCGAGCTT 62.421 66.667 11.11 0.00 40.69 3.74
201 209 3.318191 CCTCCAGGGAAGCAGAGG 58.682 66.667 0.00 0.00 40.00 3.69
270 882 3.447944 GGACTCCATCCTCGTTAAGTCTT 59.552 47.826 0.00 0.00 45.22 3.01
280 892 1.461127 CGTTAAGTCTTGCACTGGAGC 59.539 52.381 0.00 0.00 34.56 4.70
281 893 2.494059 GTTAAGTCTTGCACTGGAGCA 58.506 47.619 0.00 0.00 43.99 4.26
282 894 2.169832 TAAGTCTTGCACTGGAGCAC 57.830 50.000 0.00 0.00 45.61 4.40
283 895 0.536006 AAGTCTTGCACTGGAGCACC 60.536 55.000 0.00 0.00 45.61 5.01
284 896 1.227943 GTCTTGCACTGGAGCACCA 60.228 57.895 1.91 1.91 45.61 4.17
286 898 0.607217 TCTTGCACTGGAGCACCATG 60.607 55.000 2.38 5.85 45.61 3.66
287 899 2.209064 CTTGCACTGGAGCACCATGC 62.209 60.000 21.67 21.67 45.61 4.06
296 908 3.749981 GCACCATGCTTATCCCCG 58.250 61.111 0.00 0.00 40.96 5.73
297 909 1.148273 GCACCATGCTTATCCCCGA 59.852 57.895 0.00 0.00 40.96 5.14
298 910 1.166531 GCACCATGCTTATCCCCGAC 61.167 60.000 0.00 0.00 40.96 4.79
299 911 0.880278 CACCATGCTTATCCCCGACG 60.880 60.000 0.00 0.00 0.00 5.12
300 912 1.046472 ACCATGCTTATCCCCGACGA 61.046 55.000 0.00 0.00 0.00 4.20
301 913 0.600255 CCATGCTTATCCCCGACGAC 60.600 60.000 0.00 0.00 0.00 4.34
302 914 0.600255 CATGCTTATCCCCGACGACC 60.600 60.000 0.00 0.00 0.00 4.79
303 915 1.046472 ATGCTTATCCCCGACGACCA 61.046 55.000 0.00 0.00 0.00 4.02
304 916 1.067582 GCTTATCCCCGACGACCAG 59.932 63.158 0.00 0.00 0.00 4.00
305 917 1.740285 CTTATCCCCGACGACCAGG 59.260 63.158 0.00 0.00 0.00 4.45
306 918 0.754217 CTTATCCCCGACGACCAGGA 60.754 60.000 0.00 0.00 0.00 3.86
307 919 0.754217 TTATCCCCGACGACCAGGAG 60.754 60.000 0.00 0.00 0.00 3.69
308 920 1.638679 TATCCCCGACGACCAGGAGA 61.639 60.000 0.00 0.00 0.00 3.71
309 921 3.450115 CCCCGACGACCAGGAGAC 61.450 72.222 0.00 0.00 0.00 3.36
310 922 2.675423 CCCGACGACCAGGAGACA 60.675 66.667 0.00 0.00 0.00 3.41
311 923 2.052690 CCCGACGACCAGGAGACAT 61.053 63.158 0.00 0.00 0.00 3.06
312 924 0.750546 CCCGACGACCAGGAGACATA 60.751 60.000 0.00 0.00 0.00 2.29
313 925 0.663688 CCGACGACCAGGAGACATAG 59.336 60.000 0.00 0.00 0.00 2.23
314 926 0.029567 CGACGACCAGGAGACATAGC 59.970 60.000 0.00 0.00 0.00 2.97
315 927 1.394618 GACGACCAGGAGACATAGCT 58.605 55.000 0.00 0.00 0.00 3.32
316 928 1.335496 GACGACCAGGAGACATAGCTC 59.665 57.143 0.00 0.00 0.00 4.09
317 929 1.064314 ACGACCAGGAGACATAGCTCT 60.064 52.381 0.00 0.00 35.26 4.09
318 930 1.336440 CGACCAGGAGACATAGCTCTG 59.664 57.143 0.00 0.00 35.26 3.35
319 931 1.068434 GACCAGGAGACATAGCTCTGC 59.932 57.143 0.00 0.00 35.26 4.26
320 932 1.117994 CCAGGAGACATAGCTCTGCA 58.882 55.000 0.00 0.00 35.26 4.41
321 933 1.202510 CCAGGAGACATAGCTCTGCAC 60.203 57.143 0.00 0.00 35.26 4.57
322 934 1.755959 CAGGAGACATAGCTCTGCACT 59.244 52.381 0.00 0.00 35.26 4.40
338 950 0.798776 CACTTTGCACGATGAGGGAC 59.201 55.000 0.00 0.00 0.00 4.46
368 980 4.049186 TCGTTAAGTCTTGCACTGAAGTC 58.951 43.478 0.00 0.00 34.56 3.01
376 988 1.738099 GCACTGAAGTCGCGGTGAT 60.738 57.895 13.90 0.00 45.80 3.06
395 1007 0.257328 TGTGGCAGTCAAACCCAGAA 59.743 50.000 0.00 0.00 0.00 3.02
399 1011 1.476833 GGCAGTCAAACCCAGAAGACA 60.477 52.381 0.00 0.00 33.56 3.41
403 1015 3.885297 CAGTCAAACCCAGAAGACATGTT 59.115 43.478 0.00 0.00 33.56 2.71
446 1058 2.162208 CCACATCAGATGAAAACCACCG 59.838 50.000 17.81 0.00 0.00 4.94
456 1068 0.886043 AAAACCACCGGAAGCGGTAC 60.886 55.000 9.46 0.00 40.77 3.34
515 1127 6.041511 GGACTAAGTTTTGCCGGTTTTAAAA 58.958 36.000 1.90 0.00 0.00 1.52
518 1130 9.247126 GACTAAGTTTTGCCGGTTTTAAAATTA 57.753 29.630 1.90 7.68 0.00 1.40
524 1136 9.938670 GTTTTGCCGGTTTTAAAATTAAAAGAT 57.061 25.926 1.90 0.00 41.66 2.40
596 1208 9.549509 TTTCTATACAAAATAACATGTGTTCGC 57.450 29.630 0.00 0.00 39.31 4.70
597 1209 8.257830 TCTATACAAAATAACATGTGTTCGCA 57.742 30.769 0.00 0.00 39.31 5.10
598 1210 8.387354 TCTATACAAAATAACATGTGTTCGCAG 58.613 33.333 0.00 0.00 39.31 5.18
599 1211 5.431420 ACAAAATAACATGTGTTCGCAGA 57.569 34.783 0.00 0.00 39.31 4.26
600 1212 5.212194 ACAAAATAACATGTGTTCGCAGAC 58.788 37.500 0.00 0.00 39.31 3.51
601 1213 5.008613 ACAAAATAACATGTGTTCGCAGACT 59.991 36.000 0.00 0.00 39.31 3.24
602 1214 4.668576 AATAACATGTGTTCGCAGACTG 57.331 40.909 0.00 0.00 39.31 3.51
603 1215 1.229428 AACATGTGTTCGCAGACTGG 58.771 50.000 0.00 0.00 34.32 4.00
604 1216 0.106708 ACATGTGTTCGCAGACTGGT 59.893 50.000 4.26 0.00 34.32 4.00
605 1217 0.792640 CATGTGTTCGCAGACTGGTC 59.207 55.000 4.26 0.00 34.32 4.02
606 1218 0.681733 ATGTGTTCGCAGACTGGTCT 59.318 50.000 4.26 0.00 41.37 3.85
607 1219 1.324383 TGTGTTCGCAGACTGGTCTA 58.676 50.000 4.26 0.00 37.98 2.59
608 1220 1.893137 TGTGTTCGCAGACTGGTCTAT 59.107 47.619 4.26 0.00 37.98 1.98
609 1221 2.299013 TGTGTTCGCAGACTGGTCTATT 59.701 45.455 4.26 0.00 37.98 1.73
610 1222 2.668457 GTGTTCGCAGACTGGTCTATTG 59.332 50.000 4.26 0.00 37.98 1.90
611 1223 2.299013 TGTTCGCAGACTGGTCTATTGT 59.701 45.455 4.26 0.00 37.98 2.71
612 1224 2.924290 GTTCGCAGACTGGTCTATTGTC 59.076 50.000 4.26 0.00 37.98 3.18
613 1225 2.447443 TCGCAGACTGGTCTATTGTCT 58.553 47.619 4.26 0.00 41.15 3.41
614 1226 2.423892 TCGCAGACTGGTCTATTGTCTC 59.576 50.000 4.26 0.00 38.80 3.36
615 1227 2.425312 CGCAGACTGGTCTATTGTCTCT 59.575 50.000 4.26 0.00 38.80 3.10
616 1228 3.733380 CGCAGACTGGTCTATTGTCTCTG 60.733 52.174 4.26 0.00 38.80 3.35
617 1229 3.194542 GCAGACTGGTCTATTGTCTCTGT 59.805 47.826 4.26 0.00 38.80 3.41
618 1230 4.322349 GCAGACTGGTCTATTGTCTCTGTT 60.322 45.833 4.26 0.00 38.80 3.16
619 1231 5.167121 CAGACTGGTCTATTGTCTCTGTTG 58.833 45.833 2.75 0.00 38.80 3.33
620 1232 4.835615 AGACTGGTCTATTGTCTCTGTTGT 59.164 41.667 0.95 0.00 38.35 3.32
621 1233 5.047660 AGACTGGTCTATTGTCTCTGTTGTC 60.048 44.000 0.95 0.00 38.35 3.18
622 1234 4.835615 ACTGGTCTATTGTCTCTGTTGTCT 59.164 41.667 0.00 0.00 0.00 3.41
623 1235 5.047660 ACTGGTCTATTGTCTCTGTTGTCTC 60.048 44.000 0.00 0.00 0.00 3.36
624 1236 4.220821 TGGTCTATTGTCTCTGTTGTCTCC 59.779 45.833 0.00 0.00 0.00 3.71
625 1237 4.416620 GTCTATTGTCTCTGTTGTCTCCG 58.583 47.826 0.00 0.00 0.00 4.63
626 1238 4.156190 GTCTATTGTCTCTGTTGTCTCCGA 59.844 45.833 0.00 0.00 0.00 4.55
627 1239 4.765339 TCTATTGTCTCTGTTGTCTCCGAA 59.235 41.667 0.00 0.00 0.00 4.30
628 1240 2.795175 TGTCTCTGTTGTCTCCGAAC 57.205 50.000 0.00 0.00 0.00 3.95
629 1241 2.028876 TGTCTCTGTTGTCTCCGAACA 58.971 47.619 0.00 0.00 0.00 3.18
630 1242 2.628178 TGTCTCTGTTGTCTCCGAACAT 59.372 45.455 0.00 0.00 32.96 2.71
631 1243 3.824443 TGTCTCTGTTGTCTCCGAACATA 59.176 43.478 0.00 0.00 32.96 2.29
632 1244 4.462834 TGTCTCTGTTGTCTCCGAACATAT 59.537 41.667 0.00 0.00 32.96 1.78
633 1245 5.650703 TGTCTCTGTTGTCTCCGAACATATA 59.349 40.000 0.00 0.00 32.96 0.86
634 1246 5.972382 GTCTCTGTTGTCTCCGAACATATAC 59.028 44.000 0.00 0.00 32.96 1.47
635 1247 4.916870 TCTGTTGTCTCCGAACATATACG 58.083 43.478 0.00 0.00 32.96 3.06
646 1258 6.613755 CCGAACATATACGGGAGAAAATTT 57.386 37.500 0.00 0.00 44.59 1.82
647 1259 7.718272 CCGAACATATACGGGAGAAAATTTA 57.282 36.000 0.00 0.00 44.59 1.40
648 1260 7.570161 CCGAACATATACGGGAGAAAATTTAC 58.430 38.462 0.00 0.00 44.59 2.01
649 1261 7.278629 CGAACATATACGGGAGAAAATTTACG 58.721 38.462 0.00 0.00 0.00 3.18
650 1262 7.486802 AACATATACGGGAGAAAATTTACGG 57.513 36.000 0.00 0.00 0.00 4.02
651 1263 5.993441 ACATATACGGGAGAAAATTTACGGG 59.007 40.000 0.00 0.00 0.00 5.28
652 1264 2.865119 ACGGGAGAAAATTTACGGGT 57.135 45.000 0.00 0.00 0.00 5.28
653 1265 2.703416 ACGGGAGAAAATTTACGGGTC 58.297 47.619 0.00 0.00 0.00 4.46
654 1266 2.038820 ACGGGAGAAAATTTACGGGTCA 59.961 45.455 0.00 0.00 0.00 4.02
655 1267 2.676342 CGGGAGAAAATTTACGGGTCAG 59.324 50.000 0.00 0.00 0.00 3.51
656 1268 2.422479 GGGAGAAAATTTACGGGTCAGC 59.578 50.000 0.00 0.00 0.00 4.26
657 1269 3.344515 GGAGAAAATTTACGGGTCAGCT 58.655 45.455 0.00 0.00 0.00 4.24
658 1270 3.756963 GGAGAAAATTTACGGGTCAGCTT 59.243 43.478 0.00 0.00 0.00 3.74
659 1271 4.379499 GGAGAAAATTTACGGGTCAGCTTG 60.379 45.833 0.00 0.00 0.00 4.01
660 1272 4.394729 AGAAAATTTACGGGTCAGCTTGA 58.605 39.130 0.00 0.00 0.00 3.02
661 1273 4.825085 AGAAAATTTACGGGTCAGCTTGAA 59.175 37.500 0.00 0.00 0.00 2.69
662 1274 5.300792 AGAAAATTTACGGGTCAGCTTGAAA 59.699 36.000 0.00 0.00 0.00 2.69
663 1275 5.523438 AAATTTACGGGTCAGCTTGAAAA 57.477 34.783 0.00 0.00 0.00 2.29
664 1276 5.722021 AATTTACGGGTCAGCTTGAAAAT 57.278 34.783 0.00 0.00 0.00 1.82
665 1277 6.827586 AATTTACGGGTCAGCTTGAAAATA 57.172 33.333 0.00 0.00 0.00 1.40
666 1278 5.616488 TTTACGGGTCAGCTTGAAAATAC 57.384 39.130 0.00 0.00 0.00 1.89
667 1279 2.433436 ACGGGTCAGCTTGAAAATACC 58.567 47.619 0.00 0.00 0.00 2.73
668 1280 1.743394 CGGGTCAGCTTGAAAATACCC 59.257 52.381 0.00 0.00 42.64 3.69
669 1281 2.618045 CGGGTCAGCTTGAAAATACCCT 60.618 50.000 6.76 0.00 43.67 4.34
670 1282 3.431415 GGGTCAGCTTGAAAATACCCTT 58.569 45.455 0.00 0.00 42.74 3.95
671 1283 4.595986 GGGTCAGCTTGAAAATACCCTTA 58.404 43.478 0.00 0.00 42.74 2.69
672 1284 4.640647 GGGTCAGCTTGAAAATACCCTTAG 59.359 45.833 0.00 0.00 42.74 2.18
673 1285 5.254115 GGTCAGCTTGAAAATACCCTTAGT 58.746 41.667 0.00 0.00 0.00 2.24
674 1286 5.710567 GGTCAGCTTGAAAATACCCTTAGTT 59.289 40.000 0.00 0.00 0.00 2.24
675 1287 6.349363 GGTCAGCTTGAAAATACCCTTAGTTG 60.349 42.308 0.00 0.00 0.00 3.16
676 1288 6.206829 GTCAGCTTGAAAATACCCTTAGTTGT 59.793 38.462 0.00 0.00 0.00 3.32
677 1289 6.430000 TCAGCTTGAAAATACCCTTAGTTGTC 59.570 38.462 0.00 0.00 0.00 3.18
678 1290 6.206634 CAGCTTGAAAATACCCTTAGTTGTCA 59.793 38.462 0.00 0.00 0.00 3.58
679 1291 6.775629 AGCTTGAAAATACCCTTAGTTGTCAA 59.224 34.615 0.00 0.00 0.00 3.18
689 1301 5.707298 ACCCTTAGTTGTCAATTGTCATCTG 59.293 40.000 19.91 10.10 0.00 2.90
690 1302 5.707298 CCCTTAGTTGTCAATTGTCATCTGT 59.293 40.000 19.91 4.49 0.00 3.41
691 1303 6.348786 CCCTTAGTTGTCAATTGTCATCTGTG 60.349 42.308 19.91 13.94 0.00 3.66
704 1316 1.007336 ATCTGTGACGTTCCGTTCGC 61.007 55.000 0.00 0.00 41.37 4.70
732 1344 0.958822 GAAACGACCCTGGCAATGTT 59.041 50.000 0.00 0.00 0.00 2.71
743 1355 2.878406 CTGGCAATGTTAATCCTACCGG 59.122 50.000 0.00 0.00 0.00 5.28
750 1362 1.125633 TTAATCCTACCGGTGGGAGC 58.874 55.000 38.30 0.00 43.65 4.70
800 1415 2.029288 CGTGCATGCTCCGTCACTT 61.029 57.895 20.33 0.00 0.00 3.16
801 1416 1.790387 GTGCATGCTCCGTCACTTC 59.210 57.895 20.33 0.00 0.00 3.01
845 1463 3.316029 TGGCAATAAATCAGCAATCGAGG 59.684 43.478 0.00 0.00 0.00 4.63
865 1483 1.066430 GTTAACCATCTCGCCCACAGA 60.066 52.381 0.00 0.00 0.00 3.41
912 1530 2.921754 GACCCACGTACAAATTCTCTCG 59.078 50.000 0.00 0.00 0.00 4.04
1027 1654 3.080765 ATCCACCATCGCCGGACA 61.081 61.111 5.05 0.00 0.00 4.02
1111 1843 1.067846 TGCTCGCATGTCTCGTTAAGT 60.068 47.619 0.00 0.00 0.00 2.24
1312 2086 1.516161 GTTCAAGTACAACCGGTCCC 58.484 55.000 8.04 0.00 0.00 4.46
1334 2108 2.862674 AAGCACAACGTGACGGGTGT 62.863 55.000 25.02 18.55 38.10 4.16
1589 2363 4.076394 TGTGCTAGGGTAAACATTTGGTC 58.924 43.478 0.00 0.00 0.00 4.02
1662 2467 9.979578 AAAGTTACTCACATGCATTTATTTTGA 57.020 25.926 0.00 0.00 0.00 2.69
1668 2473 6.397272 TCACATGCATTTATTTTGAACTCCC 58.603 36.000 0.00 0.00 0.00 4.30
1670 2475 6.311935 CACATGCATTTATTTTGAACTCCCTG 59.688 38.462 0.00 0.00 0.00 4.45
1678 2483 7.921786 TTATTTTGAACTCCCTGTGACTATG 57.078 36.000 0.00 0.00 0.00 2.23
1679 2484 3.981071 TTGAACTCCCTGTGACTATGG 57.019 47.619 0.00 0.00 0.00 2.74
1683 2730 3.983044 ACTCCCTGTGACTATGGTTTC 57.017 47.619 0.00 0.00 0.00 2.78
1686 2733 2.571653 TCCCTGTGACTATGGTTTCCAG 59.428 50.000 0.00 0.00 36.75 3.86
1699 2963 9.533831 ACTATGGTTTCCAGATGATTTAACTTT 57.466 29.630 0.00 0.00 36.75 2.66
1704 2968 7.814587 GGTTTCCAGATGATTTAACTTTTCAGG 59.185 37.037 0.00 0.00 0.00 3.86
1708 2972 7.607991 TCCAGATGATTTAACTTTTCAGGAGTC 59.392 37.037 0.00 0.00 0.00 3.36
1709 2973 7.391554 CCAGATGATTTAACTTTTCAGGAGTCA 59.608 37.037 0.00 0.00 0.00 3.41
1710 2974 8.954350 CAGATGATTTAACTTTTCAGGAGTCAT 58.046 33.333 0.00 0.00 0.00 3.06
1724 2988 4.081406 AGGAGTCATAGCATCTCTAGCAG 58.919 47.826 0.00 0.00 0.00 4.24
1729 2993 2.002505 TAGCATCTCTAGCAGACCCC 57.997 55.000 0.00 0.00 32.26 4.95
1745 3009 1.303091 CCCCTTAAAACTGCGACCCG 61.303 60.000 0.00 0.00 0.00 5.28
1748 3012 2.624636 CCTTAAAACTGCGACCCGTAT 58.375 47.619 0.00 0.00 0.00 3.06
1751 3015 4.630940 CCTTAAAACTGCGACCCGTATAAA 59.369 41.667 0.00 0.00 0.00 1.40
1753 3017 6.479660 CCTTAAAACTGCGACCCGTATAAATA 59.520 38.462 0.00 0.00 0.00 1.40
1760 3024 6.144402 ACTGCGACCCGTATAAATATTTTACG 59.856 38.462 22.35 22.35 38.67 3.18
1773 3037 6.459670 AATATTTTACGGGCCGAGAAAAAT 57.540 33.333 32.14 32.14 34.60 1.82
1774 3038 3.562567 TTTTACGGGCCGAGAAAAATG 57.437 42.857 35.78 0.00 0.00 2.32
1783 3047 5.596845 GGGCCGAGAAAAATGCATTATAAA 58.403 37.500 13.39 0.00 0.00 1.40
1785 3049 5.691754 GGCCGAGAAAAATGCATTATAAAGG 59.308 40.000 13.39 12.84 0.00 3.11
1786 3050 5.175673 GCCGAGAAAAATGCATTATAAAGGC 59.824 40.000 13.39 18.21 0.00 4.35
1787 3051 6.507023 CCGAGAAAAATGCATTATAAAGGCT 58.493 36.000 13.39 3.70 0.00 4.58
1798 3062 9.754382 ATGCATTATAAAGGCTGATTTTAGTTG 57.246 29.630 12.11 0.00 0.00 3.16
1801 3065 5.897377 ATAAAGGCTGATTTTAGTTGCGT 57.103 34.783 0.00 0.00 0.00 5.24
1803 3067 3.059352 AGGCTGATTTTAGTTGCGTCT 57.941 42.857 0.00 0.00 0.00 4.18
1805 3069 2.742053 GGCTGATTTTAGTTGCGTCTGA 59.258 45.455 0.00 0.00 0.00 3.27
1809 3073 5.342806 TGATTTTAGTTGCGTCTGAACAG 57.657 39.130 0.00 0.00 0.00 3.16
1868 3134 9.542462 TTTAAATATACCATCTTCTTCCTCACG 57.458 33.333 0.00 0.00 0.00 4.35
1869 3135 2.961526 TACCATCTTCTTCCTCACGC 57.038 50.000 0.00 0.00 0.00 5.34
1872 3138 1.065854 CCATCTTCTTCCTCACGCCTT 60.066 52.381 0.00 0.00 0.00 4.35
1873 3139 2.616510 CCATCTTCTTCCTCACGCCTTT 60.617 50.000 0.00 0.00 0.00 3.11
1888 3154 2.010497 GCCTTTTCCATCTCGACCTTC 58.990 52.381 0.00 0.00 0.00 3.46
1889 3155 2.615493 GCCTTTTCCATCTCGACCTTCA 60.615 50.000 0.00 0.00 0.00 3.02
1919 3185 1.078918 TGTGCTGATTCTGCCTCCG 60.079 57.895 12.33 0.00 0.00 4.63
1920 3186 2.124983 TGCTGATTCTGCCTCCGC 60.125 61.111 12.33 0.00 0.00 5.54
1932 3198 2.100603 CTCCGCGACCGTCTTCTC 59.899 66.667 8.23 0.00 0.00 2.87
2029 3295 1.443702 CGTGTCCGACTCGCATGAA 60.444 57.895 9.81 0.00 35.63 2.57
2030 3296 1.406219 CGTGTCCGACTCGCATGAAG 61.406 60.000 9.81 0.00 35.63 3.02
2031 3297 1.446099 TGTCCGACTCGCATGAAGC 60.446 57.895 0.00 0.00 40.87 3.86
2032 3298 1.153745 GTCCGACTCGCATGAAGCT 60.154 57.895 0.00 0.00 42.61 3.74
2063 3329 2.622903 TAGCAATTCGAGCGGACGGG 62.623 60.000 0.00 0.00 37.01 5.28
2064 3330 2.183300 CAATTCGAGCGGACGGGA 59.817 61.111 0.00 0.00 0.00 5.14
2065 3331 1.878522 CAATTCGAGCGGACGGGAG 60.879 63.158 0.00 0.00 0.00 4.30
2066 3332 3.718210 AATTCGAGCGGACGGGAGC 62.718 63.158 0.00 0.00 0.00 4.70
2070 3336 4.500116 GAGCGGACGGGAGCAGAC 62.500 72.222 0.00 0.00 35.48 3.51
2072 3338 4.803426 GCGGACGGGAGCAGACAG 62.803 72.222 0.00 0.00 0.00 3.51
2073 3339 3.062466 CGGACGGGAGCAGACAGA 61.062 66.667 0.00 0.00 0.00 3.41
2074 3340 2.888863 GGACGGGAGCAGACAGAG 59.111 66.667 0.00 0.00 0.00 3.35
2450 3716 4.241555 GAGCACGATGGCCGGGAT 62.242 66.667 2.18 0.00 46.39 3.85
2451 3717 4.552365 AGCACGATGGCCGGGATG 62.552 66.667 2.18 0.00 46.66 3.51
2452 3718 4.545706 GCACGATGGCCGGGATGA 62.546 66.667 2.18 0.00 46.66 2.92
2453 3719 2.588877 CACGATGGCCGGGATGAC 60.589 66.667 2.18 0.00 46.66 3.06
2454 3720 3.861797 ACGATGGCCGGGATGACC 61.862 66.667 2.18 0.00 43.93 4.02
2491 3757 4.467084 GCGGACGGGAGCCATTCA 62.467 66.667 0.00 0.00 0.00 2.57
2492 3758 2.505982 CGGACGGGAGCCATTCAT 59.494 61.111 0.00 0.00 0.00 2.57
2493 3759 1.745890 CGGACGGGAGCCATTCATA 59.254 57.895 0.00 0.00 0.00 2.15
2494 3760 0.105964 CGGACGGGAGCCATTCATAA 59.894 55.000 0.00 0.00 0.00 1.90
2495 3761 1.474320 CGGACGGGAGCCATTCATAAA 60.474 52.381 0.00 0.00 0.00 1.40
2496 3762 2.222027 GGACGGGAGCCATTCATAAAG 58.778 52.381 0.00 0.00 0.00 1.85
2497 3763 2.222027 GACGGGAGCCATTCATAAAGG 58.778 52.381 0.00 0.00 0.00 3.11
2498 3764 1.564348 ACGGGAGCCATTCATAAAGGT 59.436 47.619 0.00 0.00 0.00 3.50
2499 3765 2.025321 ACGGGAGCCATTCATAAAGGTT 60.025 45.455 0.00 0.00 0.00 3.50
2500 3766 2.618709 CGGGAGCCATTCATAAAGGTTC 59.381 50.000 0.00 0.00 32.58 3.62
2502 3768 2.618709 GGAGCCATTCATAAAGGTTCCG 59.381 50.000 1.81 0.00 41.87 4.30
2503 3769 3.541632 GAGCCATTCATAAAGGTTCCGA 58.458 45.455 0.00 0.00 0.00 4.55
2504 3770 4.137543 GAGCCATTCATAAAGGTTCCGAT 58.862 43.478 0.00 0.00 0.00 4.18
2505 3771 3.885297 AGCCATTCATAAAGGTTCCGATG 59.115 43.478 0.00 0.00 0.00 3.84
2506 3772 3.004734 GCCATTCATAAAGGTTCCGATGG 59.995 47.826 0.00 0.00 0.00 3.51
2507 3773 3.004734 CCATTCATAAAGGTTCCGATGGC 59.995 47.826 0.00 0.00 0.00 4.40
2508 3774 3.358111 TTCATAAAGGTTCCGATGGCA 57.642 42.857 0.00 0.00 0.00 4.92
2509 3775 3.358111 TCATAAAGGTTCCGATGGCAA 57.642 42.857 0.00 0.00 0.00 4.52
2510 3776 3.897239 TCATAAAGGTTCCGATGGCAAT 58.103 40.909 0.00 0.00 0.00 3.56
2511 3777 4.277476 TCATAAAGGTTCCGATGGCAATT 58.723 39.130 0.00 0.00 0.00 2.32
2512 3778 4.097741 TCATAAAGGTTCCGATGGCAATTG 59.902 41.667 0.00 0.00 0.00 2.32
2513 3779 1.185315 AAGGTTCCGATGGCAATTGG 58.815 50.000 7.72 0.00 38.59 3.16
2514 3780 0.331278 AGGTTCCGATGGCAATTGGA 59.669 50.000 5.87 5.87 43.63 3.53
2515 3781 1.063717 AGGTTCCGATGGCAATTGGAT 60.064 47.619 11.17 0.00 44.53 3.41
2516 3782 1.756538 GGTTCCGATGGCAATTGGATT 59.243 47.619 11.17 0.00 44.53 3.01
2517 3783 2.223805 GGTTCCGATGGCAATTGGATTC 60.224 50.000 11.17 7.56 44.53 2.52
2518 3784 2.689983 GTTCCGATGGCAATTGGATTCT 59.310 45.455 11.17 0.00 44.53 2.40
2519 3785 2.575532 TCCGATGGCAATTGGATTCTC 58.424 47.619 5.87 0.00 40.90 2.87
2520 3786 1.610522 CCGATGGCAATTGGATTCTCC 59.389 52.381 0.09 0.00 39.52 3.71
2521 3787 1.610522 CGATGGCAATTGGATTCTCCC 59.389 52.381 7.72 0.00 35.03 4.30
2522 3788 1.966354 GATGGCAATTGGATTCTCCCC 59.034 52.381 7.72 0.00 35.03 4.81
2523 3789 0.395586 TGGCAATTGGATTCTCCCCG 60.396 55.000 7.72 0.00 35.03 5.73
2524 3790 0.106719 GGCAATTGGATTCTCCCCGA 60.107 55.000 7.72 0.00 35.03 5.14
2525 3791 1.025041 GCAATTGGATTCTCCCCGAC 58.975 55.000 7.72 0.00 35.03 4.79
2526 3792 1.299541 CAATTGGATTCTCCCCGACG 58.700 55.000 0.00 0.00 35.03 5.12
2527 3793 0.180406 AATTGGATTCTCCCCGACGG 59.820 55.000 6.99 6.99 35.03 4.79
2528 3794 0.981277 ATTGGATTCTCCCCGACGGT 60.981 55.000 13.94 0.00 35.03 4.83
2529 3795 1.610554 TTGGATTCTCCCCGACGGTC 61.611 60.000 13.94 2.02 35.03 4.79
2530 3796 1.757340 GGATTCTCCCCGACGGTCT 60.757 63.158 13.94 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 3.117812 CACCAGCACGCACGCATA 61.118 61.111 0.00 0.00 0.00 3.14
82 83 2.811317 GCACCTCAAGCTCGGACG 60.811 66.667 3.90 0.00 0.00 4.79
118 119 1.003355 AATGGTGTGTGGCTCCTCG 60.003 57.895 0.00 0.00 0.00 4.63
122 123 1.462731 TTGGCAATGGTGTGTGGCTC 61.463 55.000 0.00 0.00 40.76 4.70
126 127 0.038892 GAGCTTGGCAATGGTGTGTG 60.039 55.000 0.00 0.00 0.00 3.82
201 209 1.376683 TGGACGTTGGTAGCCATGC 60.377 57.895 0.00 0.00 31.53 4.06
258 870 2.989840 CTCCAGTGCAAGACTTAACGAG 59.010 50.000 0.00 0.00 29.75 4.18
280 892 0.880278 CGTCGGGGATAAGCATGGTG 60.880 60.000 0.00 0.00 0.00 4.17
281 893 1.046472 TCGTCGGGGATAAGCATGGT 61.046 55.000 0.00 0.00 0.00 3.55
282 894 0.600255 GTCGTCGGGGATAAGCATGG 60.600 60.000 0.00 0.00 0.00 3.66
283 895 0.600255 GGTCGTCGGGGATAAGCATG 60.600 60.000 0.00 0.00 0.00 4.06
284 896 1.046472 TGGTCGTCGGGGATAAGCAT 61.046 55.000 0.00 0.00 0.00 3.79
286 898 1.067582 CTGGTCGTCGGGGATAAGC 59.932 63.158 0.00 0.00 0.00 3.09
287 899 0.754217 TCCTGGTCGTCGGGGATAAG 60.754 60.000 0.00 0.00 42.31 1.73
289 901 1.152819 CTCCTGGTCGTCGGGGATA 60.153 63.158 0.00 0.00 42.31 2.59
290 902 2.442272 CTCCTGGTCGTCGGGGAT 60.442 66.667 0.00 0.00 42.31 3.85
291 903 3.654143 TCTCCTGGTCGTCGGGGA 61.654 66.667 0.00 0.00 42.31 4.81
293 905 0.750546 TATGTCTCCTGGTCGTCGGG 60.751 60.000 0.00 0.91 43.43 5.14
294 906 0.663688 CTATGTCTCCTGGTCGTCGG 59.336 60.000 0.00 0.00 0.00 4.79
295 907 0.029567 GCTATGTCTCCTGGTCGTCG 59.970 60.000 0.00 0.00 0.00 5.12
296 908 1.335496 GAGCTATGTCTCCTGGTCGTC 59.665 57.143 0.00 0.00 0.00 4.20
297 909 1.064314 AGAGCTATGTCTCCTGGTCGT 60.064 52.381 0.00 0.00 33.66 4.34
298 910 1.336440 CAGAGCTATGTCTCCTGGTCG 59.664 57.143 0.00 0.00 33.66 4.79
299 911 1.068434 GCAGAGCTATGTCTCCTGGTC 59.932 57.143 10.55 0.00 33.66 4.02
300 912 1.118838 GCAGAGCTATGTCTCCTGGT 58.881 55.000 10.55 0.00 33.66 4.00
301 913 1.117994 TGCAGAGCTATGTCTCCTGG 58.882 55.000 10.55 0.00 33.66 4.45
302 914 1.755959 AGTGCAGAGCTATGTCTCCTG 59.244 52.381 10.55 0.89 33.66 3.86
303 915 2.157640 AGTGCAGAGCTATGTCTCCT 57.842 50.000 10.55 0.00 33.66 3.69
304 916 2.935201 CAAAGTGCAGAGCTATGTCTCC 59.065 50.000 10.55 0.00 33.66 3.71
305 917 2.351111 GCAAAGTGCAGAGCTATGTCTC 59.649 50.000 10.55 3.77 44.26 3.36
306 918 2.354259 GCAAAGTGCAGAGCTATGTCT 58.646 47.619 10.55 6.31 44.26 3.41
307 919 2.821307 GCAAAGTGCAGAGCTATGTC 57.179 50.000 10.55 3.08 44.26 3.06
318 930 0.955428 TCCCTCATCGTGCAAAGTGC 60.955 55.000 0.00 0.00 45.29 4.40
319 931 0.798776 GTCCCTCATCGTGCAAAGTG 59.201 55.000 0.00 0.00 0.00 3.16
320 932 0.670546 CGTCCCTCATCGTGCAAAGT 60.671 55.000 0.00 0.00 0.00 2.66
321 933 1.970917 GCGTCCCTCATCGTGCAAAG 61.971 60.000 0.00 0.00 0.00 2.77
322 934 2.032634 GCGTCCCTCATCGTGCAAA 61.033 57.895 0.00 0.00 0.00 3.68
338 950 1.320555 CAAGACTTAACGACGATGGCG 59.679 52.381 0.00 0.00 44.79 5.69
345 957 3.802685 ACTTCAGTGCAAGACTTAACGAC 59.197 43.478 8.67 0.00 29.75 4.34
368 980 3.490759 GACTGCCACATCACCGCG 61.491 66.667 0.00 0.00 0.00 6.46
376 988 0.257328 TTCTGGGTTTGACTGCCACA 59.743 50.000 0.00 0.00 0.00 4.17
419 1031 6.150976 GTGGTTTTCATCTGATGTGGACATAA 59.849 38.462 16.66 0.07 36.57 1.90
420 1032 5.647658 GTGGTTTTCATCTGATGTGGACATA 59.352 40.000 16.66 5.33 36.57 2.29
446 1058 2.493501 GTCCCTCGTACCGCTTCC 59.506 66.667 0.00 0.00 0.00 3.46
456 1068 1.540363 CCGGATATGTTTGGTCCCTCG 60.540 57.143 0.00 0.00 0.00 4.63
459 1071 2.425668 CAAACCGGATATGTTTGGTCCC 59.574 50.000 9.46 0.00 45.50 4.46
468 1080 5.065218 CCTTCAACTCTTCAAACCGGATATG 59.935 44.000 9.46 3.70 0.00 1.78
572 1184 8.257830 TGCGAACACATGTTATTTTGTATAGA 57.742 30.769 0.00 0.00 38.56 1.98
574 1186 8.172484 GTCTGCGAACACATGTTATTTTGTATA 58.828 33.333 0.00 0.00 38.56 1.47
575 1187 7.021196 GTCTGCGAACACATGTTATTTTGTAT 58.979 34.615 0.00 0.00 38.56 2.29
576 1188 6.203915 AGTCTGCGAACACATGTTATTTTGTA 59.796 34.615 0.00 0.00 38.56 2.41
577 1189 5.008613 AGTCTGCGAACACATGTTATTTTGT 59.991 36.000 0.00 0.00 38.56 2.83
578 1190 5.340403 CAGTCTGCGAACACATGTTATTTTG 59.660 40.000 0.00 0.00 38.56 2.44
579 1191 5.451908 CAGTCTGCGAACACATGTTATTTT 58.548 37.500 0.00 0.00 38.56 1.82
580 1192 4.083324 CCAGTCTGCGAACACATGTTATTT 60.083 41.667 0.00 0.00 38.56 1.40
581 1193 3.436704 CCAGTCTGCGAACACATGTTATT 59.563 43.478 0.00 0.00 38.56 1.40
582 1194 3.002791 CCAGTCTGCGAACACATGTTAT 58.997 45.455 0.00 0.00 38.56 1.89
583 1195 2.224185 ACCAGTCTGCGAACACATGTTA 60.224 45.455 0.00 0.00 38.56 2.41
584 1196 1.229428 CCAGTCTGCGAACACATGTT 58.771 50.000 0.00 0.00 41.64 2.71
585 1197 0.106708 ACCAGTCTGCGAACACATGT 59.893 50.000 0.00 0.00 0.00 3.21
586 1198 0.792640 GACCAGTCTGCGAACACATG 59.207 55.000 0.00 0.00 0.00 3.21
587 1199 0.681733 AGACCAGTCTGCGAACACAT 59.318 50.000 0.00 0.00 38.75 3.21
588 1200 1.324383 TAGACCAGTCTGCGAACACA 58.676 50.000 10.59 0.00 40.71 3.72
589 1201 2.656560 ATAGACCAGTCTGCGAACAC 57.343 50.000 10.59 0.00 40.71 3.32
590 1202 2.299013 ACAATAGACCAGTCTGCGAACA 59.701 45.455 10.59 0.00 40.71 3.18
591 1203 2.924290 GACAATAGACCAGTCTGCGAAC 59.076 50.000 10.59 0.00 40.71 3.95
592 1204 2.826128 AGACAATAGACCAGTCTGCGAA 59.174 45.455 10.59 0.00 40.83 4.70
593 1205 2.423892 GAGACAATAGACCAGTCTGCGA 59.576 50.000 10.59 0.00 42.29 5.10
594 1206 2.425312 AGAGACAATAGACCAGTCTGCG 59.575 50.000 10.59 1.62 42.29 5.18
595 1207 3.194542 ACAGAGACAATAGACCAGTCTGC 59.805 47.826 10.59 0.00 42.29 4.26
596 1208 5.167121 CAACAGAGACAATAGACCAGTCTG 58.833 45.833 10.59 0.00 42.29 3.51
597 1209 4.835615 ACAACAGAGACAATAGACCAGTCT 59.164 41.667 5.50 5.50 44.71 3.24
598 1210 5.047660 AGACAACAGAGACAATAGACCAGTC 60.048 44.000 0.00 0.00 0.00 3.51
599 1211 4.835615 AGACAACAGAGACAATAGACCAGT 59.164 41.667 0.00 0.00 0.00 4.00
600 1212 5.398603 AGACAACAGAGACAATAGACCAG 57.601 43.478 0.00 0.00 0.00 4.00
601 1213 4.220821 GGAGACAACAGAGACAATAGACCA 59.779 45.833 0.00 0.00 0.00 4.02
602 1214 4.675671 CGGAGACAACAGAGACAATAGACC 60.676 50.000 0.00 0.00 0.00 3.85
603 1215 4.156190 TCGGAGACAACAGAGACAATAGAC 59.844 45.833 0.00 0.00 0.00 2.59
604 1216 4.332828 TCGGAGACAACAGAGACAATAGA 58.667 43.478 0.00 0.00 0.00 1.98
605 1217 4.703645 TCGGAGACAACAGAGACAATAG 57.296 45.455 0.00 0.00 0.00 1.73
606 1218 4.279922 TGTTCGGAGACAACAGAGACAATA 59.720 41.667 0.00 0.00 34.32 1.90
607 1219 3.069586 TGTTCGGAGACAACAGAGACAAT 59.930 43.478 0.00 0.00 34.32 2.71
608 1220 2.429250 TGTTCGGAGACAACAGAGACAA 59.571 45.455 0.00 0.00 34.32 3.18
609 1221 2.028876 TGTTCGGAGACAACAGAGACA 58.971 47.619 0.00 0.00 34.32 3.41
610 1222 2.795175 TGTTCGGAGACAACAGAGAC 57.205 50.000 0.00 0.00 34.32 3.36
611 1223 5.220796 CGTATATGTTCGGAGACAACAGAGA 60.221 44.000 0.00 0.00 35.73 3.10
612 1224 4.970611 CGTATATGTTCGGAGACAACAGAG 59.029 45.833 0.00 0.00 35.73 3.35
613 1225 4.916870 CGTATATGTTCGGAGACAACAGA 58.083 43.478 0.00 0.00 35.73 3.41
623 1235 6.613755 AAATTTTCTCCCGTATATGTTCGG 57.386 37.500 0.31 0.31 45.42 4.30
624 1236 7.278629 CGTAAATTTTCTCCCGTATATGTTCG 58.721 38.462 0.00 0.00 0.00 3.95
625 1237 7.307573 CCCGTAAATTTTCTCCCGTATATGTTC 60.308 40.741 0.00 0.00 0.00 3.18
626 1238 6.484308 CCCGTAAATTTTCTCCCGTATATGTT 59.516 38.462 0.00 0.00 0.00 2.71
627 1239 5.993441 CCCGTAAATTTTCTCCCGTATATGT 59.007 40.000 0.00 0.00 0.00 2.29
628 1240 5.993441 ACCCGTAAATTTTCTCCCGTATATG 59.007 40.000 0.00 0.00 0.00 1.78
629 1241 6.178607 ACCCGTAAATTTTCTCCCGTATAT 57.821 37.500 0.00 0.00 0.00 0.86
630 1242 5.128499 TGACCCGTAAATTTTCTCCCGTATA 59.872 40.000 0.00 0.00 0.00 1.47
631 1243 4.080975 TGACCCGTAAATTTTCTCCCGTAT 60.081 41.667 0.00 0.00 0.00 3.06
632 1244 3.260380 TGACCCGTAAATTTTCTCCCGTA 59.740 43.478 0.00 0.00 0.00 4.02
633 1245 2.038820 TGACCCGTAAATTTTCTCCCGT 59.961 45.455 0.00 0.00 0.00 5.28
634 1246 2.676342 CTGACCCGTAAATTTTCTCCCG 59.324 50.000 0.00 0.00 0.00 5.14
635 1247 2.422479 GCTGACCCGTAAATTTTCTCCC 59.578 50.000 0.00 0.00 0.00 4.30
636 1248 3.344515 AGCTGACCCGTAAATTTTCTCC 58.655 45.455 0.00 0.00 0.00 3.71
637 1249 4.454504 TCAAGCTGACCCGTAAATTTTCTC 59.545 41.667 0.00 0.00 0.00 2.87
638 1250 4.394729 TCAAGCTGACCCGTAAATTTTCT 58.605 39.130 0.00 0.00 0.00 2.52
639 1251 4.759516 TCAAGCTGACCCGTAAATTTTC 57.240 40.909 0.00 0.00 0.00 2.29
640 1252 5.523438 TTTCAAGCTGACCCGTAAATTTT 57.477 34.783 0.00 0.00 0.00 1.82
641 1253 5.523438 TTTTCAAGCTGACCCGTAAATTT 57.477 34.783 0.00 0.00 0.00 1.82
642 1254 5.722021 ATTTTCAAGCTGACCCGTAAATT 57.278 34.783 0.00 0.00 0.00 1.82
643 1255 5.124936 GGTATTTTCAAGCTGACCCGTAAAT 59.875 40.000 0.00 0.00 0.00 1.40
644 1256 4.456566 GGTATTTTCAAGCTGACCCGTAAA 59.543 41.667 0.00 0.00 0.00 2.01
645 1257 4.004982 GGTATTTTCAAGCTGACCCGTAA 58.995 43.478 0.00 0.00 0.00 3.18
646 1258 3.602483 GGTATTTTCAAGCTGACCCGTA 58.398 45.455 0.00 0.00 0.00 4.02
647 1259 2.433436 GGTATTTTCAAGCTGACCCGT 58.567 47.619 0.00 0.00 0.00 5.28
648 1260 1.743394 GGGTATTTTCAAGCTGACCCG 59.257 52.381 0.00 0.00 37.38 5.28
649 1261 3.087370 AGGGTATTTTCAAGCTGACCC 57.913 47.619 0.00 0.00 45.87 4.46
650 1262 5.254115 ACTAAGGGTATTTTCAAGCTGACC 58.746 41.667 0.00 0.00 0.00 4.02
651 1263 6.206829 ACAACTAAGGGTATTTTCAAGCTGAC 59.793 38.462 0.00 0.00 0.00 3.51
652 1264 6.303839 ACAACTAAGGGTATTTTCAAGCTGA 58.696 36.000 0.00 0.00 0.00 4.26
653 1265 6.206634 TGACAACTAAGGGTATTTTCAAGCTG 59.793 38.462 0.00 0.00 0.00 4.24
654 1266 6.303839 TGACAACTAAGGGTATTTTCAAGCT 58.696 36.000 0.00 0.00 0.00 3.74
655 1267 6.569179 TGACAACTAAGGGTATTTTCAAGC 57.431 37.500 0.00 0.00 0.00 4.01
656 1268 9.410556 CAATTGACAACTAAGGGTATTTTCAAG 57.589 33.333 0.00 0.00 0.00 3.02
657 1269 8.919145 ACAATTGACAACTAAGGGTATTTTCAA 58.081 29.630 13.59 0.00 0.00 2.69
658 1270 8.472007 ACAATTGACAACTAAGGGTATTTTCA 57.528 30.769 13.59 0.00 0.00 2.69
659 1271 8.573035 TGACAATTGACAACTAAGGGTATTTTC 58.427 33.333 13.59 0.00 0.00 2.29
660 1272 8.472007 TGACAATTGACAACTAAGGGTATTTT 57.528 30.769 13.59 0.00 0.00 1.82
661 1273 8.650143 ATGACAATTGACAACTAAGGGTATTT 57.350 30.769 13.59 0.00 0.00 1.40
662 1274 8.109634 AGATGACAATTGACAACTAAGGGTATT 58.890 33.333 16.57 0.00 0.00 1.89
663 1275 7.554118 CAGATGACAATTGACAACTAAGGGTAT 59.446 37.037 17.38 0.00 0.00 2.73
664 1276 6.878923 CAGATGACAATTGACAACTAAGGGTA 59.121 38.462 17.38 0.00 0.00 3.69
665 1277 5.707298 CAGATGACAATTGACAACTAAGGGT 59.293 40.000 17.38 0.00 0.00 4.34
666 1278 5.707298 ACAGATGACAATTGACAACTAAGGG 59.293 40.000 17.38 9.84 0.00 3.95
667 1279 6.427853 TCACAGATGACAATTGACAACTAAGG 59.572 38.462 17.38 10.12 0.00 2.69
668 1280 7.425577 TCACAGATGACAATTGACAACTAAG 57.574 36.000 17.38 13.46 0.00 2.18
699 1311 1.485943 GTTTCTCGTCCGTGCGAAC 59.514 57.895 0.00 0.00 40.57 3.95
704 1316 1.731969 GGGTCGTTTCTCGTCCGTG 60.732 63.158 0.00 0.00 45.77 4.94
714 1326 2.279935 TAACATTGCCAGGGTCGTTT 57.720 45.000 0.00 0.00 0.00 3.60
732 1344 1.111116 CGCTCCCACCGGTAGGATTA 61.111 60.000 22.68 0.00 41.02 1.75
743 1355 1.092348 GATAAACAACCCGCTCCCAC 58.908 55.000 0.00 0.00 0.00 4.61
750 1362 0.931702 TATGCGCGATAAACAACCCG 59.068 50.000 12.10 0.00 0.00 5.28
800 1415 7.147312 CCAAATGCATTAGTGAAGACAAAAGA 58.853 34.615 13.39 0.00 0.00 2.52
801 1416 6.128742 GCCAAATGCATTAGTGAAGACAAAAG 60.129 38.462 13.39 0.00 40.77 2.27
845 1463 1.066430 TCTGTGGGCGAGATGGTTAAC 60.066 52.381 0.00 0.00 0.00 2.01
865 1483 3.596362 GCTACCAAGAAGCCCCATT 57.404 52.632 0.00 0.00 33.73 3.16
888 1506 4.906618 AGAGAATTTGTACGTGGGTCAAT 58.093 39.130 0.00 0.00 0.00 2.57
1027 1654 1.807742 CAGAGAAGAAGAGTCGTCGGT 59.192 52.381 0.15 0.00 37.35 4.69
1111 1843 3.663176 GCGCCTCTTGCAGCAACA 61.663 61.111 2.83 0.00 41.33 3.33
1150 1882 4.527583 CTCCTCTGCCTCTGCCGC 62.528 72.222 0.00 0.00 36.33 6.53
1151 1883 3.847602 CCTCCTCTGCCTCTGCCG 61.848 72.222 0.00 0.00 36.33 5.69
1152 1884 4.173924 GCCTCCTCTGCCTCTGCC 62.174 72.222 0.00 0.00 36.33 4.85
1153 1885 4.173924 GGCCTCCTCTGCCTCTGC 62.174 72.222 0.00 0.00 45.70 4.26
1312 2086 1.564622 CCGTCACGTTGTGCTTCAG 59.435 57.895 0.00 0.00 32.98 3.02
1334 2108 2.119655 GTCGCCGCTTCCTCTCCTA 61.120 63.158 0.00 0.00 0.00 2.94
1553 2327 2.297625 GCACACTATGCGCGTATGT 58.702 52.632 20.45 13.17 46.55 2.29
1589 2363 4.210724 TGAATTTTACCCTCCCTACACG 57.789 45.455 0.00 0.00 0.00 4.49
1642 2417 7.092716 GGAGTTCAAAATAAATGCATGTGAGT 58.907 34.615 0.00 0.00 0.00 3.41
1662 2467 3.009143 GGAAACCATAGTCACAGGGAGTT 59.991 47.826 0.00 0.00 0.00 3.01
1668 2473 5.089970 TCATCTGGAAACCATAGTCACAG 57.910 43.478 0.00 0.00 30.82 3.66
1670 2475 8.398665 GTTAAATCATCTGGAAACCATAGTCAC 58.601 37.037 0.00 0.00 30.82 3.67
1678 2483 7.814587 CCTGAAAAGTTAAATCATCTGGAAACC 59.185 37.037 7.58 0.00 0.00 3.27
1679 2484 8.576442 TCCTGAAAAGTTAAATCATCTGGAAAC 58.424 33.333 11.49 0.00 33.67 2.78
1683 2730 7.391554 TGACTCCTGAAAAGTTAAATCATCTGG 59.608 37.037 7.21 7.21 0.00 3.86
1699 2963 4.522405 GCTAGAGATGCTATGACTCCTGAA 59.478 45.833 0.00 0.00 0.00 3.02
1704 2968 4.082787 GGTCTGCTAGAGATGCTATGACTC 60.083 50.000 0.00 0.00 31.63 3.36
1708 2972 2.233431 GGGGTCTGCTAGAGATGCTATG 59.767 54.545 0.00 0.00 31.63 2.23
1709 2973 2.111613 AGGGGTCTGCTAGAGATGCTAT 59.888 50.000 0.00 0.00 31.63 2.97
1710 2974 1.501170 AGGGGTCTGCTAGAGATGCTA 59.499 52.381 0.00 0.00 31.63 3.49
1724 2988 1.162698 GGTCGCAGTTTTAAGGGGTC 58.837 55.000 0.00 0.00 0.00 4.46
1729 2993 5.783100 TTTATACGGGTCGCAGTTTTAAG 57.217 39.130 0.00 0.00 0.00 1.85
1745 3009 7.656707 TTCTCGGCCCGTAAAATATTTATAC 57.343 36.000 1.63 5.94 0.00 1.47
1748 3012 6.998968 TTTTCTCGGCCCGTAAAATATTTA 57.001 33.333 1.63 0.00 0.00 1.40
1751 3015 5.735070 GCATTTTTCTCGGCCCGTAAAATAT 60.735 40.000 18.45 11.72 30.15 1.28
1753 3017 3.674955 GCATTTTTCTCGGCCCGTAAAAT 60.675 43.478 15.98 15.66 30.72 1.82
1760 3024 3.733443 ATAATGCATTTTTCTCGGCCC 57.267 42.857 18.75 0.00 0.00 5.80
1762 3026 5.175673 GCCTTTATAATGCATTTTTCTCGGC 59.824 40.000 18.75 17.54 0.00 5.54
1773 3037 7.706179 GCAACTAAAATCAGCCTTTATAATGCA 59.294 33.333 9.41 0.00 0.00 3.96
1774 3038 7.096477 CGCAACTAAAATCAGCCTTTATAATGC 60.096 37.037 0.43 0.43 0.00 3.56
1783 3047 2.744202 CAGACGCAACTAAAATCAGCCT 59.256 45.455 0.00 0.00 0.00 4.58
1785 3049 4.151798 GTTCAGACGCAACTAAAATCAGC 58.848 43.478 0.00 0.00 0.00 4.26
1786 3050 5.177511 TCTGTTCAGACGCAACTAAAATCAG 59.822 40.000 0.00 0.00 0.00 2.90
1787 3051 5.053811 TCTGTTCAGACGCAACTAAAATCA 58.946 37.500 0.00 0.00 0.00 2.57
1796 3060 1.301716 GGGCTCTGTTCAGACGCAA 60.302 57.895 18.21 0.00 0.00 4.85
1798 3062 2.209064 TACGGGCTCTGTTCAGACGC 62.209 60.000 9.91 11.21 0.00 5.19
1801 3065 3.958147 TGATTATACGGGCTCTGTTCAGA 59.042 43.478 2.49 2.49 0.00 3.27
1803 3067 4.439057 GTTGATTATACGGGCTCTGTTCA 58.561 43.478 0.00 0.00 0.00 3.18
1805 3069 3.433173 GGGTTGATTATACGGGCTCTGTT 60.433 47.826 0.00 0.00 0.00 3.16
1809 3073 1.069668 ACGGGTTGATTATACGGGCTC 59.930 52.381 0.00 0.00 0.00 4.70
1843 3109 7.656137 GCGTGAGGAAGAAGATGGTATATTTAA 59.344 37.037 0.00 0.00 0.00 1.52
1859 3125 1.740025 GATGGAAAAGGCGTGAGGAAG 59.260 52.381 0.00 0.00 0.00 3.46
1863 3129 1.002366 CGAGATGGAAAAGGCGTGAG 58.998 55.000 0.00 0.00 0.00 3.51
1864 3130 0.606096 TCGAGATGGAAAAGGCGTGA 59.394 50.000 0.00 0.00 0.00 4.35
1865 3131 0.721718 GTCGAGATGGAAAAGGCGTG 59.278 55.000 0.00 0.00 0.00 5.34
1866 3132 0.391263 GGTCGAGATGGAAAAGGCGT 60.391 55.000 0.00 0.00 0.00 5.68
1867 3133 0.108138 AGGTCGAGATGGAAAAGGCG 60.108 55.000 0.00 0.00 0.00 5.52
1868 3134 2.010497 GAAGGTCGAGATGGAAAAGGC 58.990 52.381 0.00 0.00 0.00 4.35
1869 3135 3.334583 TGAAGGTCGAGATGGAAAAGG 57.665 47.619 0.00 0.00 0.00 3.11
1872 3138 2.170607 GGGATGAAGGTCGAGATGGAAA 59.829 50.000 0.00 0.00 0.00 3.13
1873 3139 1.762957 GGGATGAAGGTCGAGATGGAA 59.237 52.381 0.00 0.00 0.00 3.53
1906 3172 2.184322 GTCGCGGAGGCAGAATCA 59.816 61.111 6.13 0.00 39.92 2.57
1907 3173 2.586357 GGTCGCGGAGGCAGAATC 60.586 66.667 6.13 0.00 39.92 2.52
1919 3185 3.173240 GCACGAGAAGACGGTCGC 61.173 66.667 1.89 0.00 39.89 5.19
1920 3186 1.512310 GAGCACGAGAAGACGGTCG 60.512 63.158 1.89 0.00 42.04 4.79
1926 3192 2.258591 GTGGCGAGCACGAGAAGA 59.741 61.111 8.01 0.00 42.66 2.87
2012 3278 1.687494 GCTTCATGCGAGTCGGACAC 61.687 60.000 15.52 2.93 0.00 3.67
2013 3279 1.446099 GCTTCATGCGAGTCGGACA 60.446 57.895 15.52 4.89 0.00 4.02
2056 3322 3.057547 CTCTGTCTGCTCCCGTCCG 62.058 68.421 0.00 0.00 0.00 4.79
2421 3687 4.736896 GTGCTCGTCCCGACCACC 62.737 72.222 1.61 0.00 36.74 4.61
2424 3690 3.823330 ATCGTGCTCGTCCCGACC 61.823 66.667 8.17 0.00 38.33 4.79
2425 3691 2.579787 CATCGTGCTCGTCCCGAC 60.580 66.667 8.17 0.00 38.33 4.79
2426 3692 3.822192 CCATCGTGCTCGTCCCGA 61.822 66.667 8.17 0.00 38.33 5.14
2433 3699 4.241555 ATCCCGGCCATCGTGCTC 62.242 66.667 2.24 0.00 37.11 4.26
2434 3700 4.552365 CATCCCGGCCATCGTGCT 62.552 66.667 2.24 0.00 37.11 4.40
2435 3701 4.545706 TCATCCCGGCCATCGTGC 62.546 66.667 2.24 0.00 37.11 5.34
2436 3702 2.588877 GTCATCCCGGCCATCGTG 60.589 66.667 2.24 0.00 37.11 4.35
2437 3703 3.861797 GGTCATCCCGGCCATCGT 61.862 66.667 2.24 0.00 37.11 3.73
2474 3740 2.377628 TATGAATGGCTCCCGTCCGC 62.378 60.000 0.00 0.00 0.00 5.54
2475 3741 0.105964 TTATGAATGGCTCCCGTCCG 59.894 55.000 0.00 0.00 0.00 4.79
2476 3742 2.222027 CTTTATGAATGGCTCCCGTCC 58.778 52.381 0.00 0.00 0.00 4.79
2477 3743 2.222027 CCTTTATGAATGGCTCCCGTC 58.778 52.381 0.00 0.00 0.00 4.79
2478 3744 1.564348 ACCTTTATGAATGGCTCCCGT 59.436 47.619 0.00 0.00 0.00 5.28
2479 3745 2.348411 ACCTTTATGAATGGCTCCCG 57.652 50.000 0.00 0.00 0.00 5.14
2480 3746 2.959030 GGAACCTTTATGAATGGCTCCC 59.041 50.000 3.32 0.00 35.81 4.30
2481 3747 2.618709 CGGAACCTTTATGAATGGCTCC 59.381 50.000 4.30 4.30 37.52 4.70
2482 3748 3.541632 TCGGAACCTTTATGAATGGCTC 58.458 45.455 0.00 0.00 0.00 4.70
2483 3749 3.644966 TCGGAACCTTTATGAATGGCT 57.355 42.857 0.00 0.00 0.00 4.75
2484 3750 3.004734 CCATCGGAACCTTTATGAATGGC 59.995 47.826 0.00 0.00 0.00 4.40
2485 3751 3.004734 GCCATCGGAACCTTTATGAATGG 59.995 47.826 0.00 0.00 0.00 3.16
2486 3752 3.631686 TGCCATCGGAACCTTTATGAATG 59.368 43.478 0.00 0.00 0.00 2.67
2487 3753 3.897239 TGCCATCGGAACCTTTATGAAT 58.103 40.909 0.00 0.00 0.00 2.57
2488 3754 3.358111 TGCCATCGGAACCTTTATGAA 57.642 42.857 0.00 0.00 0.00 2.57
2489 3755 3.358111 TTGCCATCGGAACCTTTATGA 57.642 42.857 0.00 0.00 0.00 2.15
2490 3756 4.362279 CAATTGCCATCGGAACCTTTATG 58.638 43.478 0.00 0.00 0.00 1.90
2491 3757 3.384467 CCAATTGCCATCGGAACCTTTAT 59.616 43.478 0.00 0.00 0.00 1.40
2492 3758 2.757868 CCAATTGCCATCGGAACCTTTA 59.242 45.455 0.00 0.00 0.00 1.85
2493 3759 1.550072 CCAATTGCCATCGGAACCTTT 59.450 47.619 0.00 0.00 0.00 3.11
2494 3760 1.185315 CCAATTGCCATCGGAACCTT 58.815 50.000 0.00 0.00 0.00 3.50
2495 3761 0.331278 TCCAATTGCCATCGGAACCT 59.669 50.000 0.00 0.00 0.00 3.50
2496 3762 1.402787 ATCCAATTGCCATCGGAACC 58.597 50.000 0.00 0.00 0.00 3.62
2497 3763 2.689983 AGAATCCAATTGCCATCGGAAC 59.310 45.455 0.00 0.00 0.00 3.62
2498 3764 2.951642 GAGAATCCAATTGCCATCGGAA 59.048 45.455 0.00 0.00 0.00 4.30
2499 3765 2.575532 GAGAATCCAATTGCCATCGGA 58.424 47.619 0.00 0.00 0.00 4.55
2513 3779 3.936535 AGACCGTCGGGGAGAATC 58.063 61.111 17.28 2.48 39.97 2.52


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

AutoCloner maintained by Alex Coulton.