Multiple sequence alignment - TraesCS4B01G349500

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 TraesCS4B01G349500 chr4B 100.000 2613 0 0 1 2613 642702459 642699847 0.000000e+00 4826.0
1 TraesCS4B01G349500 chr4B 100.000 283 0 0 2949 3231 642699511 642699229 1.030000e-144 523.0
2 TraesCS4B01G349500 chr4D 91.736 1089 66 18 1306 2385 499619206 499618133 0.000000e+00 1491.0
3 TraesCS4B01G349500 chr4D 83.795 975 84 38 326 1274 499620364 499619438 0.000000e+00 857.0
4 TraesCS4B01G349500 chr4D 92.672 464 31 3 1918 2380 499616505 499616044 0.000000e+00 665.0
5 TraesCS4B01G349500 chr4D 87.421 318 26 9 12 329 499620732 499620429 1.430000e-93 353.0
6 TraesCS4B01G349500 chr4D 100.000 50 0 0 2411 2460 499618130 499618081 3.430000e-15 93.5
7 TraesCS4B01G349500 chr4D 97.727 44 1 0 2417 2460 499615903 499615860 3.460000e-10 76.8
8 TraesCS4B01G349500 chr5A 90.837 633 51 7 1742 2369 680619128 680618498 0.000000e+00 841.0
9 TraesCS4B01G349500 chr5A 81.110 937 86 50 326 1226 680620650 680619769 0.000000e+00 665.0
10 TraesCS4B01G349500 chr5A 95.930 344 13 1 1306 1649 680619502 680619160 1.010000e-154 556.0
11 TraesCS4B01G349500 chr5A 84.375 320 49 1 1884 2203 680615705 680616023 2.420000e-81 313.0
12 TraesCS4B01G349500 chr5A 94.578 166 9 0 3066 3231 430494973 430494808 1.150000e-64 257.0
13 TraesCS4B01G349500 chr5A 90.062 161 14 2 2455 2613 430501827 430501667 1.170000e-49 207.0
14 TraesCS4B01G349500 chr5A 81.429 210 21 6 2251 2460 680618371 680618180 4.320000e-34 156.0
15 TraesCS4B01G349500 chr5A 81.333 75 11 2 1667 1741 680615569 680615640 1.250000e-04 58.4
16 TraesCS4B01G349500 chr3D 95.376 173 7 1 3060 3231 710676 710848 1.140000e-69 274.0
17 TraesCS4B01G349500 chr3D 91.275 149 11 2 2461 2608 710301 710448 5.470000e-48 202.0
18 TraesCS4B01G349500 chr2A 95.808 167 7 0 3065 3231 36638066 36637900 1.480000e-68 270.0
19 TraesCS4B01G349500 chr1B 94.767 172 9 0 3060 3231 677532346 677532175 5.310000e-68 268.0
20 TraesCS4B01G349500 chr6B 93.605 172 11 0 3060 3231 15250210 15250381 1.150000e-64 257.0
21 TraesCS4B01G349500 chr6B 93.289 149 10 0 2459 2607 15249753 15249901 1.510000e-53 220.0
22 TraesCS4B01G349500 chr6B 79.870 154 26 4 2461 2613 132147324 132147473 1.230000e-19 108.0
23 TraesCS4B01G349500 chr5D 93.642 173 10 1 3060 3231 436608567 436608395 1.150000e-64 257.0
24 TraesCS4B01G349500 chr5D 87.578 161 11 2 2461 2613 436608968 436608809 9.210000e-41 178.0
25 TraesCS4B01G349500 chr6A 93.976 166 10 0 3066 3231 117096962 117096797 5.350000e-63 252.0
26 TraesCS4B01G349500 chr6A 84.071 113 16 1 2461 2573 73835119 73835229 1.230000e-19 108.0
27 TraesCS4B01G349500 chr7A 92.442 172 13 0 3060 3231 563849313 563849142 2.490000e-61 246.0
28 TraesCS4B01G349500 chr4A 92.727 165 12 0 3067 3231 168737727 168737891 4.170000e-59 239.0
29 TraesCS4B01G349500 chr4A 90.184 163 13 2 2452 2612 168737270 168737431 3.270000e-50 209.0
30 TraesCS4B01G349500 chr6D 81.410 156 23 5 2459 2613 122251665 122251815 4.380000e-24 122.0
31 TraesCS4B01G349500 chr3B 96.078 51 2 0 2461 2511 776952890 776952940 2.070000e-12 84.2
32 TraesCS4B01G349500 chr3A 90.000 60 4 2 2460 2518 666219641 666219699 3.460000e-10 76.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4B01G349500 chr4B 642699229 642702459 3230 True 2674.500000 4826 100.000000 1 3231 2 chr4B.!!$R1 3230
1 TraesCS4B01G349500 chr4D 499615860 499620732 4872 True 589.383333 1491 92.225167 12 2460 6 chr4D.!!$R1 2448
2 TraesCS4B01G349500 chr5A 680618180 680620650 2470 True 554.500000 841 87.326500 326 2460 4 chr5A.!!$R3 2134
3 TraesCS4B01G349500 chr3D 710301 710848 547 False 238.000000 274 93.325500 2461 3231 2 chr3D.!!$F1 770
4 TraesCS4B01G349500 chr6B 15249753 15250381 628 False 238.500000 257 93.447000 2459 3231 2 chr6B.!!$F2 772
5 TraesCS4B01G349500 chr5D 436608395 436608968 573 True 217.500000 257 90.610000 2461 3231 2 chr5D.!!$R1 770
6 TraesCS4B01G349500 chr4A 168737270 168737891 621 False 224.000000 239 91.455500 2452 3231 2 chr4A.!!$F1 779

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
451 522 0.182061 ACATGGTGGCATCAGCTAGG 59.818 55.0 6.59 0.0 41.59 3.02 F
610 695 0.251832 AGAGGCCTCTGGTCGAGAAA 60.252 55.0 34.74 0.0 42.62 2.52 F
1295 1424 0.107081 TCGTTCCCAAATCACGGTGT 59.893 50.0 8.17 0.0 34.61 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1280 1409 0.250989 GGGAACACCGTGATTTGGGA 60.251 55.0 5.28 0.0 0.00 4.37 R
2212 4647 0.905357 TCTAGAAGTCCCAGCCAAGC 59.095 55.0 0.00 0.0 0.00 4.01 R
3168 6123 0.038599 TTCCAGCATGCATCACCACT 59.961 50.0 21.98 0.0 31.97 4.00 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
20 21 0.469917 CTATGCGGAGGGACCATTGT 59.530 55.000 0.00 0.00 38.90 2.71
22 23 1.561769 ATGCGGAGGGACCATTGTCA 61.562 55.000 0.00 0.00 43.65 3.58
31 32 3.264574 ACCATTGTCATTGGTCCCG 57.735 52.632 12.69 0.00 44.15 5.14
83 84 3.013921 AGTTTCAAAGCTTGTTCCACGA 58.986 40.909 0.00 0.00 0.00 4.35
85 86 2.613026 TCAAAGCTTGTTCCACGAGA 57.387 45.000 0.00 0.00 31.05 4.04
99 100 6.934645 TGTTCCACGAGAAAAACATCTCTAAT 59.065 34.615 0.00 0.00 43.00 1.73
100 101 7.444183 TGTTCCACGAGAAAAACATCTCTAATT 59.556 33.333 0.00 0.00 43.00 1.40
108 109 6.922957 AGAAAAACATCTCTAATTTTGCGCAA 59.077 30.769 21.02 21.02 0.00 4.85
114 115 5.369685 TCTCTAATTTTGCGCAAATGTCA 57.630 34.783 33.94 20.75 35.09 3.58
120 121 0.871057 TTGCGCAAATGTCATCGTCA 59.129 45.000 22.78 0.00 0.00 4.35
167 168 3.384146 TGGCACTTGACATCACAAAACAT 59.616 39.130 0.00 0.00 0.00 2.71
174 175 6.772716 ACTTGACATCACAAAACATACCTCTT 59.227 34.615 0.00 0.00 0.00 2.85
195 196 1.593196 CTTCAGCAAACGGAGGTTGA 58.407 50.000 1.56 0.00 36.25 3.18
202 203 4.003648 AGCAAACGGAGGTTGATAAGAAG 58.996 43.478 1.56 0.00 36.25 2.85
203 204 4.000988 GCAAACGGAGGTTGATAAGAAGA 58.999 43.478 1.56 0.00 36.25 2.87
204 205 4.454504 GCAAACGGAGGTTGATAAGAAGAA 59.545 41.667 1.56 0.00 36.25 2.52
205 206 5.123979 GCAAACGGAGGTTGATAAGAAGAAT 59.876 40.000 1.56 0.00 36.25 2.40
249 250 9.838339 AGAGGAAATCTACATTAATTGTACCAG 57.162 33.333 0.00 0.00 39.87 4.00
250 251 9.614792 GAGGAAATCTACATTAATTGTACCAGT 57.385 33.333 0.00 0.00 39.87 4.00
259 260 6.374333 ACATTAATTGTACCAGTAAGGCAGTG 59.626 38.462 0.00 0.00 43.14 3.66
263 264 1.066358 GTACCAGTAAGGCAGTGACCC 60.066 57.143 0.00 0.00 43.14 4.46
275 276 2.545106 GCAGTGACCCAAAGCATTTTTG 59.455 45.455 0.00 0.00 35.03 2.44
276 277 3.795877 CAGTGACCCAAAGCATTTTTGT 58.204 40.909 0.00 0.00 35.03 2.83
279 280 5.123661 CAGTGACCCAAAGCATTTTTGTTTT 59.876 36.000 0.00 0.00 35.03 2.43
280 281 5.123661 AGTGACCCAAAGCATTTTTGTTTTG 59.876 36.000 7.93 7.93 35.03 2.44
283 284 6.015940 TGACCCAAAGCATTTTTGTTTTGTTT 60.016 30.769 12.26 1.82 35.03 2.83
284 285 6.753180 ACCCAAAGCATTTTTGTTTTGTTTT 58.247 28.000 12.26 0.00 35.03 2.43
363 433 1.665735 CGGCAAAAGCGCAAGTTGTAT 60.666 47.619 11.47 0.00 41.68 2.29
365 435 2.606795 GGCAAAAGCGCAAGTTGTATGA 60.607 45.455 11.47 0.00 41.68 2.15
394 465 0.794981 CTCTCACTCGAAAGCGACCG 60.795 60.000 0.00 0.00 42.51 4.79
399 470 1.123756 CACTCGAAAGCGACCGTAAAC 59.876 52.381 0.00 0.00 42.51 2.01
403 474 3.236816 TCGAAAGCGACCGTAAACTAAG 58.763 45.455 0.00 0.00 42.51 2.18
428 499 7.908601 AGATTGTTTTTATTTTCTCCGCGATAC 59.091 33.333 8.23 0.00 0.00 2.24
430 501 6.900189 TGTTTTTATTTTCTCCGCGATACAA 58.100 32.000 8.23 0.00 0.00 2.41
451 522 0.182061 ACATGGTGGCATCAGCTAGG 59.818 55.000 6.59 0.00 41.59 3.02
452 523 0.471191 CATGGTGGCATCAGCTAGGA 59.529 55.000 6.59 0.00 41.59 2.94
457 528 2.216898 GTGGCATCAGCTAGGATGTTC 58.783 52.381 13.80 8.46 45.11 3.18
465 536 3.135348 TCAGCTAGGATGTTCCCATTGAG 59.865 47.826 0.00 0.00 37.19 3.02
466 537 3.135348 CAGCTAGGATGTTCCCATTGAGA 59.865 47.826 0.00 0.00 37.19 3.27
467 538 3.782523 AGCTAGGATGTTCCCATTGAGAA 59.217 43.478 0.00 0.00 37.19 2.87
468 539 4.133078 GCTAGGATGTTCCCATTGAGAAG 58.867 47.826 0.00 0.00 37.19 2.85
502 573 4.481930 TGAAATGCGTGGACAGTAAAAG 57.518 40.909 0.00 0.00 0.00 2.27
510 581 1.215673 TGGACAGTAAAAGCCACCCAA 59.784 47.619 0.00 0.00 0.00 4.12
515 586 2.035832 CAGTAAAAGCCACCCAACCAAG 59.964 50.000 0.00 0.00 0.00 3.61
568 653 1.209128 CCGTACGTCTGGAATGATGC 58.791 55.000 15.21 0.00 0.00 3.91
589 674 1.066286 GCAGCTGGAAGTCTGAGTCAT 60.066 52.381 17.12 0.00 39.43 3.06
590 675 2.891112 CAGCTGGAAGTCTGAGTCATC 58.109 52.381 5.57 0.00 39.43 2.92
608 693 3.091694 AGAGGCCTCTGGTCGAGA 58.908 61.111 34.74 0.00 42.62 4.04
609 694 1.384583 AGAGGCCTCTGGTCGAGAA 59.615 57.895 34.74 0.00 42.62 2.87
610 695 0.251832 AGAGGCCTCTGGTCGAGAAA 60.252 55.000 34.74 0.00 42.62 2.52
611 696 0.608640 GAGGCCTCTGGTCGAGAAAA 59.391 55.000 26.25 0.00 42.62 2.29
612 697 0.610687 AGGCCTCTGGTCGAGAAAAG 59.389 55.000 0.00 0.00 42.62 2.27
613 698 0.321996 GGCCTCTGGTCGAGAAAAGT 59.678 55.000 0.00 0.00 42.62 2.66
614 699 1.673329 GGCCTCTGGTCGAGAAAAGTC 60.673 57.143 0.00 0.00 42.62 3.01
615 700 1.273886 GCCTCTGGTCGAGAAAAGTCT 59.726 52.381 0.00 0.00 42.62 3.24
616 701 2.928731 GCCTCTGGTCGAGAAAAGTCTG 60.929 54.545 0.00 0.00 42.62 3.51
617 702 2.353208 CCTCTGGTCGAGAAAAGTCTGG 60.353 54.545 0.00 0.00 42.62 3.86
618 703 1.618837 TCTGGTCGAGAAAAGTCTGGG 59.381 52.381 0.00 0.00 32.80 4.45
619 704 1.344763 CTGGTCGAGAAAAGTCTGGGT 59.655 52.381 0.00 0.00 32.80 4.51
620 705 1.343465 TGGTCGAGAAAAGTCTGGGTC 59.657 52.381 0.00 0.00 32.80 4.46
621 706 1.343465 GGTCGAGAAAAGTCTGGGTCA 59.657 52.381 0.00 0.00 32.80 4.02
622 707 2.610727 GGTCGAGAAAAGTCTGGGTCAG 60.611 54.545 0.00 0.00 32.80 3.51
623 708 2.036089 GTCGAGAAAAGTCTGGGTCAGT 59.964 50.000 0.00 0.00 32.80 3.41
644 729 4.759205 GGTCCCACCCATGGCCAC 62.759 72.222 8.16 0.00 45.76 5.01
688 773 1.537776 CGCTCACAGGTCATCCTCATC 60.538 57.143 0.00 0.00 43.07 2.92
689 774 1.537776 GCTCACAGGTCATCCTCATCG 60.538 57.143 0.00 0.00 43.07 3.84
690 775 1.753649 CTCACAGGTCATCCTCATCGT 59.246 52.381 0.00 0.00 43.07 3.73
718 804 2.269241 CTCCCCCGCACTTTCTCC 59.731 66.667 0.00 0.00 0.00 3.71
728 814 2.308039 ACTTTCTCCGCGCACGTTC 61.308 57.895 8.75 0.00 37.70 3.95
729 815 3.011760 CTTTCTCCGCGCACGTTCC 62.012 63.158 8.75 0.00 37.70 3.62
814 900 4.815108 CCCAGTAAAGCCCGCCCC 62.815 72.222 0.00 0.00 0.00 5.80
816 902 2.438434 CAGTAAAGCCCGCCCCAG 60.438 66.667 0.00 0.00 0.00 4.45
834 920 0.687354 AGACCCATTTCGCAGACAGT 59.313 50.000 0.00 0.00 34.32 3.55
838 924 1.667724 CCCATTTCGCAGACAGTGATC 59.332 52.381 0.00 0.00 36.47 2.92
840 926 2.625737 CATTTCGCAGACAGTGATCCT 58.374 47.619 0.00 0.00 36.47 3.24
841 927 3.430790 CCATTTCGCAGACAGTGATCCTA 60.431 47.826 0.00 0.00 36.47 2.94
849 935 3.511540 CAGACAGTGATCCTACTCCACAA 59.488 47.826 0.00 0.00 33.53 3.33
854 940 0.530870 GATCCTACTCCACAAGCGCC 60.531 60.000 2.29 0.00 0.00 6.53
855 941 0.978146 ATCCTACTCCACAAGCGCCT 60.978 55.000 2.29 0.00 0.00 5.52
881 984 4.083537 TGTTTGCTGCTCTATAAAACACCG 60.084 41.667 8.93 0.00 36.20 4.94
951 1057 0.320073 TTTTACCTCGGAGCCACACG 60.320 55.000 0.00 0.00 0.00 4.49
953 1059 3.572447 TACCTCGGAGCCACACGGA 62.572 63.158 0.00 0.00 0.00 4.69
954 1060 4.436998 CCTCGGAGCCACACGGAC 62.437 72.222 0.00 0.00 0.00 4.79
955 1061 3.374402 CTCGGAGCCACACGGACT 61.374 66.667 0.00 0.00 0.00 3.85
977 1083 2.304180 ACTCTCACCACATCCCAAGAAG 59.696 50.000 0.00 0.00 0.00 2.85
985 1091 1.074405 ACATCCCAAGAAGCAGAGCAA 59.926 47.619 0.00 0.00 0.00 3.91
1029 1147 2.987593 CACGCGGATTCGTTCGAG 59.012 61.111 12.47 0.00 41.21 4.04
1184 1305 6.659824 TCTCCCTTAATCCTCCAATTGTTAC 58.340 40.000 4.43 0.00 0.00 2.50
1187 1308 5.828328 CCCTTAATCCTCCAATTGTTACTCC 59.172 44.000 4.43 0.00 0.00 3.85
1199 1320 0.320160 GTTACTCCGCCTGGTTCGTT 60.320 55.000 0.00 0.00 36.30 3.85
1267 1396 1.601419 GGTGATTCCGTCGTCTGGGA 61.601 60.000 0.00 0.00 0.00 4.37
1268 1397 0.460311 GTGATTCCGTCGTCTGGGAT 59.540 55.000 0.00 0.00 31.11 3.85
1270 1399 0.744874 GATTCCGTCGTCTGGGATCA 59.255 55.000 0.00 0.00 40.67 2.92
1272 1401 0.611062 TTCCGTCGTCTGGGATCAGT 60.611 55.000 0.00 0.00 41.59 3.41
1277 1406 2.796383 CGTCGTCTGGGATCAGTGAATC 60.796 54.545 0.00 0.00 41.59 2.52
1279 1408 1.135139 CGTCTGGGATCAGTGAATCGT 59.865 52.381 0.00 0.00 41.59 3.73
1280 1409 2.417379 CGTCTGGGATCAGTGAATCGTT 60.417 50.000 0.00 0.00 41.59 3.85
1281 1410 3.190874 GTCTGGGATCAGTGAATCGTTC 58.809 50.000 0.00 0.00 41.59 3.95
1282 1411 2.168521 TCTGGGATCAGTGAATCGTTCC 59.831 50.000 0.00 0.00 41.59 3.62
1283 1412 1.209504 TGGGATCAGTGAATCGTTCCC 59.790 52.381 18.38 18.38 42.64 3.97
1284 1413 1.209504 GGGATCAGTGAATCGTTCCCA 59.790 52.381 19.76 0.00 42.03 4.37
1285 1414 2.355716 GGGATCAGTGAATCGTTCCCAA 60.356 50.000 19.76 0.00 42.03 4.12
1286 1415 3.343617 GGATCAGTGAATCGTTCCCAAA 58.656 45.455 0.00 0.00 0.00 3.28
1287 1416 3.947834 GGATCAGTGAATCGTTCCCAAAT 59.052 43.478 0.00 0.00 0.00 2.32
1288 1417 4.035675 GGATCAGTGAATCGTTCCCAAATC 59.964 45.833 0.00 0.00 0.00 2.17
1289 1418 4.014569 TCAGTGAATCGTTCCCAAATCA 57.985 40.909 0.00 0.00 0.00 2.57
1290 1419 3.751175 TCAGTGAATCGTTCCCAAATCAC 59.249 43.478 0.00 0.00 37.91 3.06
1291 1420 2.742053 AGTGAATCGTTCCCAAATCACG 59.258 45.455 0.00 0.00 41.43 4.35
1293 1422 2.081462 GAATCGTTCCCAAATCACGGT 58.919 47.619 0.00 0.00 34.61 4.83
1294 1423 1.448985 ATCGTTCCCAAATCACGGTG 58.551 50.000 0.56 0.56 34.61 4.94
1295 1424 0.107081 TCGTTCCCAAATCACGGTGT 59.893 50.000 8.17 0.00 34.61 4.16
1296 1425 0.948678 CGTTCCCAAATCACGGTGTT 59.051 50.000 8.17 0.00 0.00 3.32
1297 1426 1.069500 CGTTCCCAAATCACGGTGTTC 60.069 52.381 8.17 0.00 0.00 3.18
1298 1427 1.268625 GTTCCCAAATCACGGTGTTCC 59.731 52.381 8.17 0.00 0.00 3.62
1299 1428 0.250989 TCCCAAATCACGGTGTTCCC 60.251 55.000 8.17 0.00 0.00 3.97
1300 1429 0.538516 CCCAAATCACGGTGTTCCCA 60.539 55.000 8.17 0.00 0.00 4.37
1301 1430 1.323412 CCAAATCACGGTGTTCCCAA 58.677 50.000 8.17 0.00 0.00 4.12
1302 1431 1.683917 CCAAATCACGGTGTTCCCAAA 59.316 47.619 8.17 0.00 0.00 3.28
1303 1432 2.298729 CCAAATCACGGTGTTCCCAAAT 59.701 45.455 8.17 0.00 0.00 2.32
1304 1433 3.574614 CAAATCACGGTGTTCCCAAATC 58.425 45.455 8.17 0.00 0.00 2.17
1308 1644 2.369203 TCACGGTGTTCCCAAATCACTA 59.631 45.455 8.17 0.00 33.30 2.74
1337 1673 0.894835 CCGCTTAATTTGCAGGGGTT 59.105 50.000 6.83 0.00 38.14 4.11
1636 1972 2.486191 GCCATAGCTATGTGTTCTGCCT 60.486 50.000 27.75 0.00 35.50 4.75
1639 1975 0.617413 AGCTATGTGTTCTGCCTGCT 59.383 50.000 0.00 0.00 0.00 4.24
1642 1978 2.159043 GCTATGTGTTCTGCCTGCTCTA 60.159 50.000 0.00 0.00 0.00 2.43
1644 1980 1.342074 TGTGTTCTGCCTGCTCTAGT 58.658 50.000 0.00 0.00 0.00 2.57
1645 1981 2.525368 TGTGTTCTGCCTGCTCTAGTA 58.475 47.619 0.00 0.00 0.00 1.82
1646 1982 2.897326 TGTGTTCTGCCTGCTCTAGTAA 59.103 45.455 0.00 0.00 0.00 2.24
1647 1983 3.515502 TGTGTTCTGCCTGCTCTAGTAAT 59.484 43.478 0.00 0.00 0.00 1.89
1654 1990 7.124573 TCTGCCTGCTCTAGTAATTAATTGA 57.875 36.000 11.05 0.00 0.00 2.57
1678 2014 7.978975 TGAATTGTCCTTTTAAAAGTGGAACAG 59.021 33.333 23.04 8.93 41.80 3.16
1691 2027 3.788227 TGGAACAGCCAAATCACTACT 57.212 42.857 0.00 0.00 45.87 2.57
1692 2028 3.411446 TGGAACAGCCAAATCACTACTG 58.589 45.455 0.00 0.00 45.87 2.74
1693 2029 2.162408 GGAACAGCCAAATCACTACTGC 59.838 50.000 0.00 0.00 36.34 4.40
1694 2030 2.566833 ACAGCCAAATCACTACTGCA 57.433 45.000 0.00 0.00 31.46 4.41
1695 2031 2.154462 ACAGCCAAATCACTACTGCAC 58.846 47.619 0.00 0.00 31.46 4.57
1698 2034 1.394917 GCCAAATCACTACTGCACTCG 59.605 52.381 0.00 0.00 0.00 4.18
1699 2035 2.688507 CCAAATCACTACTGCACTCGT 58.311 47.619 0.00 0.00 0.00 4.18
1703 2039 4.720649 AATCACTACTGCACTCGTACAT 57.279 40.909 0.00 0.00 0.00 2.29
1711 2047 7.059602 CACTACTGCACTCGTACATATAAATCG 59.940 40.741 0.00 0.00 0.00 3.34
1718 2054 7.409449 GCACTCGTACATATAAATCGCACTAAG 60.409 40.741 0.00 0.00 0.00 2.18
1719 2055 7.801783 CACTCGTACATATAAATCGCACTAAGA 59.198 37.037 0.00 0.00 0.00 2.10
1720 2056 8.347771 ACTCGTACATATAAATCGCACTAAGAA 58.652 33.333 0.00 0.00 0.00 2.52
1751 2087 5.250235 ACACTATGAGAAGGACACGTATG 57.750 43.478 0.00 0.00 0.00 2.39
1795 2132 8.404889 TGGTTTAATTATCAATTGATTGCACG 57.595 30.769 25.26 0.00 37.68 5.34
1796 2133 8.031864 TGGTTTAATTATCAATTGATTGCACGT 58.968 29.630 25.26 3.49 37.68 4.49
1797 2134 8.531530 GGTTTAATTATCAATTGATTGCACGTC 58.468 33.333 25.26 11.74 37.68 4.34
1798 2135 9.071221 GTTTAATTATCAATTGATTGCACGTCA 57.929 29.630 25.26 2.75 37.68 4.35
1829 2168 7.703058 ATCGTTCCCAAATCTAAACATTCTT 57.297 32.000 0.00 0.00 0.00 2.52
1867 2206 2.656069 GCAGGCTACTCCGGTTCCA 61.656 63.158 0.00 0.00 40.77 3.53
1972 2311 2.815308 GCGACCATCATCGACCCT 59.185 61.111 0.00 0.00 45.13 4.34
2041 2380 2.988684 GCCAACACCATTGCCGGA 60.989 61.111 5.05 0.00 0.00 5.14
2059 2398 4.180496 GGTAACTTCTCCGGTGCG 57.820 61.111 0.00 0.00 0.00 5.34
2083 2422 0.838987 TGAACCCCGCTAGGTCCTTT 60.839 55.000 0.00 0.00 40.05 3.11
2086 2425 2.298661 CCCCGCTAGGTCCTTTGGT 61.299 63.158 0.00 0.00 35.12 3.67
2137 2476 1.305046 CTGGGTCTACTGGGTCGGT 60.305 63.158 0.00 0.00 0.00 4.69
2203 4638 1.795768 TCATGGTGAAGAAGACGCAC 58.204 50.000 0.00 0.00 0.00 5.34
2212 4647 1.803519 GAAGACGCACGAGCCTCTG 60.804 63.158 7.07 0.00 36.46 3.35
2227 4662 0.676151 CTCTGCTTGGCTGGGACTTC 60.676 60.000 0.00 0.00 29.21 3.01
2321 5001 2.446435 TGCTGGTAGATTTTTCAGGCC 58.554 47.619 0.00 0.00 0.00 5.19
2344 5024 3.982516 AGTGATTCTAGCTAGGGTGTCA 58.017 45.455 20.58 15.19 0.00 3.58
2369 5049 3.091545 TGGTTTGTAGGGAGGTACTACG 58.908 50.000 0.00 0.00 43.09 3.51
2370 5050 2.428530 GGTTTGTAGGGAGGTACTACGG 59.571 54.545 0.00 0.00 43.09 4.02
2374 5054 1.212935 GTAGGGAGGTACTACGGTGGA 59.787 57.143 0.00 0.00 43.09 4.02
2398 5078 1.865106 TTTTTCTTGGGGGAGGGGG 59.135 57.895 0.00 0.00 0.00 5.40
2531 5317 0.320683 CAGCCGCCCGATATCATGAA 60.321 55.000 0.00 0.00 0.00 2.57
2579 5374 0.178944 TTCGTCCTCCTCCTGGTTGA 60.179 55.000 0.00 0.00 34.23 3.18
2608 5403 1.994779 GATCAAAATTGCAACAGCCCG 59.005 47.619 0.00 0.00 0.00 6.13
3034 5833 2.851102 CCTCATCCCCGGCTCCAT 60.851 66.667 0.00 0.00 0.00 3.41
3068 6022 0.934496 CACTCTCCTCTCGCTACTCG 59.066 60.000 0.00 0.00 40.15 4.18
3168 6123 4.409218 GACGGCTACCACGCGACA 62.409 66.667 15.93 0.00 34.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 0.469917 ACAATGGTCCCTCCGCATAG 59.530 55.000 0.00 0.00 39.52 2.23
2 3 0.468226 GACAATGGTCCCTCCGCATA 59.532 55.000 0.00 0.00 38.12 3.14
3 4 1.224592 GACAATGGTCCCTCCGCAT 59.775 57.895 0.00 0.00 38.12 4.73
4 5 1.561769 ATGACAATGGTCCCTCCGCA 61.562 55.000 0.00 0.00 43.65 5.69
6 7 1.382522 CAATGACAATGGTCCCTCCG 58.617 55.000 0.00 0.00 43.65 4.63
7 8 1.767759 CCAATGACAATGGTCCCTCC 58.232 55.000 0.93 0.00 43.65 4.30
14 15 1.472480 GTTCGGGACCAATGACAATGG 59.528 52.381 8.06 8.06 43.84 3.16
15 16 1.130373 CGTTCGGGACCAATGACAATG 59.870 52.381 0.00 0.00 0.00 2.82
16 17 1.271163 ACGTTCGGGACCAATGACAAT 60.271 47.619 0.00 0.00 0.00 2.71
20 21 1.004320 CCACGTTCGGGACCAATGA 60.004 57.895 0.00 0.00 0.00 2.57
22 23 2.359478 GCCACGTTCGGGACCAAT 60.359 61.111 0.00 0.00 0.00 3.16
55 56 4.311816 ACAAGCTTTGAAACTGGTCATG 57.688 40.909 0.00 0.00 0.00 3.07
57 58 3.130340 GGAACAAGCTTTGAAACTGGTCA 59.870 43.478 0.00 0.00 0.00 4.02
83 84 6.446318 TGCGCAAAATTAGAGATGTTTTTCT 58.554 32.000 8.16 0.00 0.00 2.52
85 86 7.475771 TTTGCGCAAAATTAGAGATGTTTTT 57.524 28.000 31.98 0.00 0.00 1.94
99 100 2.287248 TGACGATGACATTTGCGCAAAA 60.287 40.909 36.42 22.12 33.56 2.44
100 101 1.265365 TGACGATGACATTTGCGCAAA 59.735 42.857 35.19 35.19 34.46 3.68
108 109 4.023193 GTGGTTTCCTTTGACGATGACATT 60.023 41.667 0.00 0.00 0.00 2.71
114 115 2.884639 CCAAGTGGTTTCCTTTGACGAT 59.115 45.455 0.00 0.00 0.00 3.73
120 121 1.484653 GTTGGCCAAGTGGTTTCCTTT 59.515 47.619 21.21 0.00 37.57 3.11
232 233 7.769044 ACTGCCTTACTGGTACAATTAATGTAG 59.231 37.037 0.00 0.00 45.00 2.74
238 239 5.484715 GTCACTGCCTTACTGGTACAATTA 58.515 41.667 0.00 0.00 38.70 1.40
245 246 0.766674 TGGGTCACTGCCTTACTGGT 60.767 55.000 0.00 0.00 38.35 4.00
247 248 2.154462 CTTTGGGTCACTGCCTTACTG 58.846 52.381 0.00 0.00 0.00 2.74
248 249 1.545651 GCTTTGGGTCACTGCCTTACT 60.546 52.381 0.00 0.00 0.00 2.24
249 250 0.881796 GCTTTGGGTCACTGCCTTAC 59.118 55.000 0.00 0.00 0.00 2.34
250 251 0.476338 TGCTTTGGGTCACTGCCTTA 59.524 50.000 0.00 0.00 0.00 2.69
251 252 0.178953 ATGCTTTGGGTCACTGCCTT 60.179 50.000 0.00 0.00 0.00 4.35
252 253 0.178953 AATGCTTTGGGTCACTGCCT 60.179 50.000 0.00 0.00 0.00 4.75
253 254 0.681175 AAATGCTTTGGGTCACTGCC 59.319 50.000 0.00 0.00 0.00 4.85
254 255 2.531522 AAAATGCTTTGGGTCACTGC 57.468 45.000 0.00 0.00 0.00 4.40
259 260 5.559427 ACAAAACAAAAATGCTTTGGGTC 57.441 34.783 8.89 0.00 33.92 4.46
363 433 4.278310 TCGAGTGAGAGGTAATTCCATCA 58.722 43.478 0.00 0.00 39.02 3.07
365 435 5.665459 CTTTCGAGTGAGAGGTAATTCCAT 58.335 41.667 0.00 0.00 39.02 3.41
399 470 7.960738 TCGCGGAGAAAATAAAAACAATCTTAG 59.039 33.333 6.13 0.00 0.00 2.18
403 474 7.694784 TGTATCGCGGAGAAAATAAAAACAATC 59.305 33.333 6.13 0.00 0.00 2.67
421 492 0.373370 CCACCATGTGTTGTATCGCG 59.627 55.000 0.00 0.00 0.00 5.87
428 499 0.108992 GCTGATGCCACCATGTGTTG 60.109 55.000 0.00 0.00 0.00 3.33
430 501 0.620030 TAGCTGATGCCACCATGTGT 59.380 50.000 0.00 0.00 40.80 3.72
457 528 3.319137 TCGTTCTCACTTCTCAATGGG 57.681 47.619 0.00 0.00 0.00 4.00
465 536 5.058492 CGCATTTCATTTTCGTTCTCACTTC 59.942 40.000 0.00 0.00 0.00 3.01
466 537 4.911610 CGCATTTCATTTTCGTTCTCACTT 59.088 37.500 0.00 0.00 0.00 3.16
467 538 4.024048 ACGCATTTCATTTTCGTTCTCACT 60.024 37.500 0.00 0.00 0.00 3.41
468 539 4.087085 CACGCATTTCATTTTCGTTCTCAC 59.913 41.667 0.00 0.00 0.00 3.51
502 573 2.112297 TCGTCTTGGTTGGGTGGC 59.888 61.111 0.00 0.00 0.00 5.01
510 581 0.746063 TTGGTACACGTCGTCTTGGT 59.254 50.000 0.00 0.00 39.29 3.67
515 586 2.645411 CCGATTGGTACACGTCGTC 58.355 57.895 0.00 0.00 42.63 4.20
540 611 4.814294 GACGTACGGCCTGCCTGG 62.814 72.222 21.06 0.00 39.35 4.45
545 616 0.806102 CATTCCAGACGTACGGCCTG 60.806 60.000 19.62 22.51 0.00 4.85
551 622 0.577269 GCGCATCATTCCAGACGTAC 59.423 55.000 0.30 0.00 0.00 3.67
553 624 1.079197 TGCGCATCATTCCAGACGT 60.079 52.632 5.66 0.00 0.00 4.34
555 626 1.094073 AGCTGCGCATCATTCCAGAC 61.094 55.000 12.24 0.00 0.00 3.51
568 653 0.735632 GACTCAGACTTCCAGCTGCG 60.736 60.000 8.66 1.56 32.27 5.18
593 678 0.610687 CTTTTCTCGACCAGAGGCCT 59.389 55.000 3.86 3.86 46.82 5.19
594 679 0.321996 ACTTTTCTCGACCAGAGGCC 59.678 55.000 0.00 0.00 46.82 5.19
595 680 1.273886 AGACTTTTCTCGACCAGAGGC 59.726 52.381 0.00 0.00 46.82 4.70
598 683 1.618837 CCCAGACTTTTCTCGACCAGA 59.381 52.381 0.00 0.00 0.00 3.86
599 684 1.344763 ACCCAGACTTTTCTCGACCAG 59.655 52.381 0.00 0.00 0.00 4.00
600 685 1.343465 GACCCAGACTTTTCTCGACCA 59.657 52.381 0.00 0.00 0.00 4.02
601 686 1.343465 TGACCCAGACTTTTCTCGACC 59.657 52.381 0.00 0.00 0.00 4.79
602 687 2.036089 ACTGACCCAGACTTTTCTCGAC 59.964 50.000 0.45 0.00 35.18 4.20
603 688 2.296471 GACTGACCCAGACTTTTCTCGA 59.704 50.000 0.45 0.00 35.18 4.04
604 689 2.035961 TGACTGACCCAGACTTTTCTCG 59.964 50.000 0.45 0.00 35.18 4.04
605 690 3.556004 CCTGACTGACCCAGACTTTTCTC 60.556 52.174 0.45 0.00 35.18 2.87
606 691 2.370189 CCTGACTGACCCAGACTTTTCT 59.630 50.000 0.45 0.00 35.18 2.52
607 692 2.551071 CCCTGACTGACCCAGACTTTTC 60.551 54.545 0.45 0.00 35.18 2.29
608 693 1.421646 CCCTGACTGACCCAGACTTTT 59.578 52.381 0.45 0.00 35.18 2.27
609 694 1.059913 CCCTGACTGACCCAGACTTT 58.940 55.000 0.45 0.00 35.18 2.66
610 695 0.104934 ACCCTGACTGACCCAGACTT 60.105 55.000 0.45 0.00 35.18 3.01
611 696 0.543174 GACCCTGACTGACCCAGACT 60.543 60.000 0.45 0.00 35.18 3.24
612 697 1.545706 GGACCCTGACTGACCCAGAC 61.546 65.000 0.45 0.00 35.18 3.51
613 698 1.229209 GGACCCTGACTGACCCAGA 60.229 63.158 0.45 0.00 35.18 3.86
614 699 2.294078 GGGACCCTGACTGACCCAG 61.294 68.421 2.09 0.00 40.20 4.45
615 700 2.203938 GGGACCCTGACTGACCCA 60.204 66.667 2.09 0.00 40.20 4.51
616 701 2.203938 TGGGACCCTGACTGACCC 60.204 66.667 13.00 0.00 40.79 4.46
617 702 2.593956 GGTGGGACCCTGACTGACC 61.594 68.421 13.00 5.85 30.04 4.02
618 703 3.069778 GGTGGGACCCTGACTGAC 58.930 66.667 13.00 0.00 30.04 3.51
644 729 4.272018 CACCAAGATATTTCTCTTCGCCTG 59.728 45.833 0.00 0.00 33.18 4.85
790 876 1.682344 GGCTTTACTGGGCCAAGGG 60.682 63.158 13.11 0.00 46.84 3.95
800 886 2.609610 TCTGGGGCGGGCTTTACT 60.610 61.111 0.26 0.00 0.00 2.24
802 888 3.723922 GGTCTGGGGCGGGCTTTA 61.724 66.667 0.26 0.00 0.00 1.85
812 898 1.026718 GTCTGCGAAATGGGTCTGGG 61.027 60.000 0.00 0.00 0.00 4.45
814 900 1.081892 CTGTCTGCGAAATGGGTCTG 58.918 55.000 0.00 0.00 0.00 3.51
816 902 0.798776 CACTGTCTGCGAAATGGGTC 59.201 55.000 0.00 0.00 0.00 4.46
834 920 0.175760 GCGCTTGTGGAGTAGGATCA 59.824 55.000 0.00 0.00 0.00 2.92
838 924 1.153549 GAGGCGCTTGTGGAGTAGG 60.154 63.158 7.64 0.00 0.00 3.18
840 926 0.108186 CATGAGGCGCTTGTGGAGTA 60.108 55.000 7.64 0.00 0.00 2.59
841 927 1.376424 CATGAGGCGCTTGTGGAGT 60.376 57.895 7.64 0.00 0.00 3.85
849 935 2.986306 GCAGCAAACATGAGGCGCT 61.986 57.895 7.64 0.00 0.00 5.92
854 940 6.744537 GTGTTTTATAGAGCAGCAAACATGAG 59.255 38.462 0.00 0.00 39.03 2.90
855 941 6.349280 GGTGTTTTATAGAGCAGCAAACATGA 60.349 38.462 0.00 0.00 39.03 3.07
896 1001 2.361610 ATCTTGCTTGGTGGCCGG 60.362 61.111 0.00 0.00 0.00 6.13
951 1057 1.757699 GGGATGTGGTGAGAGTAGTCC 59.242 57.143 0.00 0.00 0.00 3.85
953 1059 2.623418 TGGGATGTGGTGAGAGTAGT 57.377 50.000 0.00 0.00 0.00 2.73
954 1060 3.099905 TCTTGGGATGTGGTGAGAGTAG 58.900 50.000 0.00 0.00 0.00 2.57
955 1061 3.184382 TCTTGGGATGTGGTGAGAGTA 57.816 47.619 0.00 0.00 0.00 2.59
977 1083 0.670546 TACAAGGCTCGTTGCTCTGC 60.671 55.000 2.61 0.00 42.39 4.26
985 1091 0.613260 TCCATGCTTACAAGGCTCGT 59.387 50.000 0.00 0.00 34.53 4.18
1014 1132 1.939785 CTCCTCGAACGAATCCGCG 60.940 63.158 0.00 0.00 39.95 6.46
1184 1305 3.423154 GCAACGAACCAGGCGGAG 61.423 66.667 2.43 0.00 35.59 4.63
1199 1320 2.771639 CGGAGATTCTCGACCCGCA 61.772 63.158 7.57 0.00 33.47 5.69
1267 1396 4.396166 GTGATTTGGGAACGATTCACTGAT 59.604 41.667 0.00 0.00 45.42 2.90
1268 1397 3.751175 GTGATTTGGGAACGATTCACTGA 59.249 43.478 0.00 0.00 45.42 3.41
1270 1399 2.742053 CGTGATTTGGGAACGATTCACT 59.258 45.455 0.00 0.00 46.13 3.41
1272 1401 2.080693 CCGTGATTTGGGAACGATTCA 58.919 47.619 0.00 0.00 39.64 2.57
1277 1406 0.948678 AACACCGTGATTTGGGAACG 59.051 50.000 5.28 0.00 37.07 3.95
1279 1408 1.611519 GGAACACCGTGATTTGGGAA 58.388 50.000 5.28 0.00 0.00 3.97
1280 1409 0.250989 GGGAACACCGTGATTTGGGA 60.251 55.000 5.28 0.00 0.00 4.37
1281 1410 0.538516 TGGGAACACCGTGATTTGGG 60.539 55.000 5.28 0.00 44.64 4.12
1282 1411 1.323412 TTGGGAACACCGTGATTTGG 58.677 50.000 5.28 0.00 44.64 3.28
1283 1412 3.005261 TGATTTGGGAACACCGTGATTTG 59.995 43.478 5.28 0.00 44.64 2.32
1284 1413 3.005367 GTGATTTGGGAACACCGTGATTT 59.995 43.478 5.28 0.00 44.64 2.17
1285 1414 2.556622 GTGATTTGGGAACACCGTGATT 59.443 45.455 5.28 0.00 44.64 2.57
1286 1415 2.159382 GTGATTTGGGAACACCGTGAT 58.841 47.619 5.28 0.00 44.64 3.06
1287 1416 1.142060 AGTGATTTGGGAACACCGTGA 59.858 47.619 5.28 0.00 44.64 4.35
1288 1417 1.604604 AGTGATTTGGGAACACCGTG 58.395 50.000 0.00 0.00 44.64 4.94
1289 1418 3.495434 TTAGTGATTTGGGAACACCGT 57.505 42.857 0.00 0.00 44.64 4.83
1290 1419 4.006989 TCATTAGTGATTTGGGAACACCG 58.993 43.478 0.00 0.00 44.64 4.94
1302 1431 3.845781 AGCGGACCAATCATTAGTGAT 57.154 42.857 0.00 0.00 46.91 3.06
1303 1432 3.627395 AAGCGGACCAATCATTAGTGA 57.373 42.857 0.00 0.00 39.04 3.41
1304 1433 6.377327 AATTAAGCGGACCAATCATTAGTG 57.623 37.500 0.00 0.00 0.00 2.74
1308 1644 4.081752 TGCAAATTAAGCGGACCAATCATT 60.082 37.500 0.00 0.00 33.85 2.57
1316 1652 0.455815 CCCCTGCAAATTAAGCGGAC 59.544 55.000 11.97 0.00 40.83 4.79
1318 1654 0.894835 AACCCCTGCAAATTAAGCGG 59.105 50.000 4.97 4.97 38.10 5.52
1321 1657 1.476488 CCGGAACCCCTGCAAATTAAG 59.524 52.381 0.00 0.00 0.00 1.85
1636 1972 9.905713 AGGACAATTCAATTAATTACTAGAGCA 57.094 29.630 0.00 0.00 35.54 4.26
1654 1990 6.761242 GCTGTTCCACTTTTAAAAGGACAATT 59.239 34.615 27.23 6.76 40.31 2.32
1671 2007 3.411446 CAGTAGTGATTTGGCTGTTCCA 58.589 45.455 0.00 0.00 44.85 3.53
1678 2014 1.394917 CGAGTGCAGTAGTGATTTGGC 59.605 52.381 0.42 0.00 0.00 4.52
1688 2024 5.854866 GCGATTTATATGTACGAGTGCAGTA 59.145 40.000 0.00 0.00 0.00 2.74
1689 2025 4.680110 GCGATTTATATGTACGAGTGCAGT 59.320 41.667 0.00 0.00 0.00 4.40
1690 2026 4.679654 TGCGATTTATATGTACGAGTGCAG 59.320 41.667 0.13 0.00 0.00 4.41
1691 2027 4.443063 GTGCGATTTATATGTACGAGTGCA 59.557 41.667 0.00 0.00 0.00 4.57
1692 2028 4.680110 AGTGCGATTTATATGTACGAGTGC 59.320 41.667 0.00 0.00 0.00 4.40
1693 2029 7.801783 TCTTAGTGCGATTTATATGTACGAGTG 59.198 37.037 0.00 0.00 0.00 3.51
1694 2030 7.868775 TCTTAGTGCGATTTATATGTACGAGT 58.131 34.615 0.00 0.00 0.00 4.18
1695 2031 8.723777 TTCTTAGTGCGATTTATATGTACGAG 57.276 34.615 0.00 0.00 0.00 4.18
1726 2062 4.957296 ACGTGTCCTTCTCATAGTGTTTT 58.043 39.130 0.00 0.00 0.00 2.43
1734 2070 4.021229 TGTACCATACGTGTCCTTCTCAT 58.979 43.478 0.00 0.00 0.00 2.90
1772 2108 9.071221 TGACGTGCAATCAATTGATAATTAAAC 57.929 29.630 21.00 12.22 40.14 2.01
1793 2130 1.604693 GGGAACGATTCACTGTGACGT 60.605 52.381 17.39 17.39 38.81 4.34
1794 2131 1.068474 GGGAACGATTCACTGTGACG 58.932 55.000 10.56 14.01 0.00 4.35
1795 2132 2.163818 TGGGAACGATTCACTGTGAC 57.836 50.000 10.56 0.00 33.11 3.67
1796 2133 2.920724 TTGGGAACGATTCACTGTGA 57.079 45.000 6.36 6.36 33.11 3.58
1797 2134 3.753272 AGATTTGGGAACGATTCACTGTG 59.247 43.478 0.17 0.17 33.11 3.66
1798 2135 4.021102 AGATTTGGGAACGATTCACTGT 57.979 40.909 0.00 0.00 33.11 3.55
1829 2168 7.825270 AGCCTGCATCAATTATTTCAAATTTGA 59.175 29.630 16.91 16.91 34.92 2.69
1842 2181 1.475751 CCGGAGTAGCCTGCATCAATT 60.476 52.381 0.00 0.00 0.00 2.32
2041 2380 1.183676 ACGCACCGGAGAAGTTACCT 61.184 55.000 9.46 0.00 0.00 3.08
2044 2383 1.180456 TGGACGCACCGGAGAAGTTA 61.180 55.000 9.46 0.00 42.61 2.24
2059 2398 1.146263 CCTAGCGGGGTTCATGGAC 59.854 63.158 0.00 0.00 0.00 4.02
2100 2439 1.694525 TGGTTGGTCCACACTCCCA 60.695 57.895 0.00 0.00 41.93 4.37
2101 2440 3.246687 TGGTTGGTCCACACTCCC 58.753 61.111 0.00 0.00 41.93 4.30
2212 4647 0.905357 TCTAGAAGTCCCAGCCAAGC 59.095 55.000 0.00 0.00 0.00 4.01
2218 4653 4.625607 ACCTGTTTTCTAGAAGTCCCAG 57.374 45.455 5.12 9.74 0.00 4.45
2227 4662 2.143122 TGCGAGCAACCTGTTTTCTAG 58.857 47.619 0.00 0.00 0.00 2.43
2321 5001 4.160439 TGACACCCTAGCTAGAATCACTTG 59.840 45.833 22.70 9.74 0.00 3.16
2344 5024 5.594199 AGTACCTCCCTACAAACCATTTT 57.406 39.130 0.00 0.00 0.00 1.82
2396 5076 5.105473 GCTTTTAACAAAACCTATCTCCCCC 60.105 44.000 0.00 0.00 0.00 5.40
2397 5077 5.715279 AGCTTTTAACAAAACCTATCTCCCC 59.285 40.000 0.00 0.00 0.00 4.81
2398 5078 6.835819 AGCTTTTAACAAAACCTATCTCCC 57.164 37.500 0.00 0.00 0.00 4.30
2399 5079 8.357402 TCAAAGCTTTTAACAAAACCTATCTCC 58.643 33.333 9.53 0.00 0.00 3.71
2400 5080 9.914131 ATCAAAGCTTTTAACAAAACCTATCTC 57.086 29.630 9.53 0.00 0.00 2.75
2408 5088 9.995957 GCCTTTTAATCAAAGCTTTTAACAAAA 57.004 25.926 9.53 12.27 40.75 2.44
2409 5089 9.389755 AGCCTTTTAATCAAAGCTTTTAACAAA 57.610 25.926 9.53 5.44 40.75 2.83
2410 5090 8.956533 AGCCTTTTAATCAAAGCTTTTAACAA 57.043 26.923 9.53 0.00 40.75 2.83
2446 5230 4.742438 AAGCGCCCAATATATTTACACG 57.258 40.909 2.29 0.00 0.00 4.49
2525 5311 4.586421 AGATCTGACGGCTCTTATTCATGA 59.414 41.667 0.00 0.00 0.00 3.07
2579 5374 2.310538 GCAATTTTGATCGGAGGGGAT 58.689 47.619 0.00 0.00 0.00 3.85
3021 5816 2.121781 ATGGATGGAGCCGGGGAT 60.122 61.111 2.18 0.00 0.00 3.85
3050 5849 0.812412 GCGAGTAGCGAGAGGAGAGT 60.812 60.000 0.00 0.00 44.57 3.24
3168 6123 0.038599 TTCCAGCATGCATCACCACT 59.961 50.000 21.98 0.00 31.97 4.00
3173 6128 0.107066 ATCGGTTCCAGCATGCATCA 60.107 50.000 21.98 0.00 31.97 3.07


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

AutoCloner maintained by Alex Coulton.