Multiple sequence alignment - TraesCS6B01G246000

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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 TraesCS6B01G246000 chr6B 100.000 3948 0 0 1 3948 438631911 438627964 0.000000e+00 7291
1 TraesCS6B01G246000 chr6B 92.955 511 36 0 1 511 117496567 117496057 0.000000e+00 745
2 TraesCS6B01G246000 chr6D 94.857 1614 54 12 839 2430 276887267 276885661 0.000000e+00 2494
3 TraesCS6B01G246000 chr6D 95.370 540 16 4 2522 3057 276885664 276885130 0.000000e+00 850
4 TraesCS6B01G246000 chr6D 94.074 405 12 5 3555 3948 276884804 276884401 4.360000e-169 604
5 TraesCS6B01G246000 chr6D 89.521 334 20 1 3147 3480 276885129 276884811 3.670000e-110 409
6 TraesCS6B01G246000 chr6A 90.800 1826 65 31 665 2430 399208519 399210301 0.000000e+00 2346
7 TraesCS6B01G246000 chr6A 91.299 793 40 17 2557 3341 399210494 399211265 0.000000e+00 1055
8 TraesCS6B01G246000 chr6A 96.446 619 16 5 3333 3948 399212027 399212642 0.000000e+00 1016
9 TraesCS6B01G246000 chr6A 97.990 199 4 0 2522 2720 399210298 399210496 2.920000e-91 346
10 TraesCS6B01G246000 chr6A 96.296 162 5 1 3787 3948 393031005 393030845 8.410000e-67 265
11 TraesCS6B01G246000 chr6A 84.091 132 11 3 524 646 399207833 399207963 6.930000e-23 119
12 TraesCS6B01G246000 chr3B 91.618 513 42 1 1 512 590295918 590295406 0.000000e+00 708
13 TraesCS6B01G246000 chr3B 92.174 115 8 1 2413 2526 5951444 5951330 1.140000e-35 161
14 TraesCS6B01G246000 chr3B 92.241 116 6 3 2411 2526 560117286 560117398 1.140000e-35 161
15 TraesCS6B01G246000 chr5B 91.296 517 44 1 1 516 315913345 315912829 0.000000e+00 704
16 TraesCS6B01G246000 chr5B 97.000 100 3 0 2429 2528 455737601 455737502 6.780000e-38 169
17 TraesCS6B01G246000 chr5B 92.920 113 6 2 2429 2540 14166887 14166776 3.160000e-36 163
18 TraesCS6B01G246000 chr3D 91.194 511 44 1 1 511 113467469 113467978 0.000000e+00 693
19 TraesCS6B01G246000 chr1B 91.016 512 46 0 1 512 420586829 420587340 0.000000e+00 691
20 TraesCS6B01G246000 chr4B 90.856 514 47 0 1 514 302839437 302838924 0.000000e+00 689
21 TraesCS6B01G246000 chr4B 90.625 512 48 0 1 512 105327428 105327939 0.000000e+00 680
22 TraesCS6B01G246000 chr4B 90.038 532 43 7 1 530 650192774 650192251 0.000000e+00 680
23 TraesCS6B01G246000 chr4B 97.000 100 3 0 2429 2528 186741767 186741668 6.780000e-38 169
24 TraesCS6B01G246000 chr4B 95.238 105 5 0 2422 2526 498378616 498378512 2.440000e-37 167
25 TraesCS6B01G246000 chr4B 92.857 112 8 0 2428 2539 538218749 538218860 3.160000e-36 163
26 TraesCS6B01G246000 chr2B 90.820 512 47 0 1 512 385529972 385529461 0.000000e+00 686
27 TraesCS6B01G246000 chr7A 93.805 113 3 4 2418 2527 626880546 626880657 2.440000e-37 167
28 TraesCS6B01G246000 chr2A 93.694 111 6 1 2417 2526 619208141 619208031 8.780000e-37 165


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 TraesCS6B01G246000 chr6B 438627964 438631911 3947 True 7291.00 7291 100.0000 1 3948 1 chr6B.!!$R2 3947
1 TraesCS6B01G246000 chr6B 117496057 117496567 510 True 745.00 745 92.9550 1 511 1 chr6B.!!$R1 510
2 TraesCS6B01G246000 chr6D 276884401 276887267 2866 True 1089.25 2494 93.4555 839 3948 4 chr6D.!!$R1 3109
3 TraesCS6B01G246000 chr6A 399207833 399212642 4809 False 976.40 2346 92.1252 524 3948 5 chr6A.!!$F1 3424
4 TraesCS6B01G246000 chr3B 590295406 590295918 512 True 708.00 708 91.6180 1 512 1 chr3B.!!$R2 511
5 TraesCS6B01G246000 chr5B 315912829 315913345 516 True 704.00 704 91.2960 1 516 1 chr5B.!!$R2 515
6 TraesCS6B01G246000 chr3D 113467469 113467978 509 False 693.00 693 91.1940 1 511 1 chr3D.!!$F1 510
7 TraesCS6B01G246000 chr1B 420586829 420587340 511 False 691.00 691 91.0160 1 512 1 chr1B.!!$F1 511
8 TraesCS6B01G246000 chr4B 302838924 302839437 513 True 689.00 689 90.8560 1 514 1 chr4B.!!$R2 513
9 TraesCS6B01G246000 chr4B 105327428 105327939 511 False 680.00 680 90.6250 1 512 1 chr4B.!!$F1 511
10 TraesCS6B01G246000 chr4B 650192251 650192774 523 True 680.00 680 90.0380 1 530 1 chr4B.!!$R4 529
11 TraesCS6B01G246000 chr2B 385529461 385529972 511 True 686.00 686 90.8200 1 512 1 chr2B.!!$R1 511

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
910 1490 0.036010 ATGGTGCCAGTCGAGAAAGG 60.036 55.0 0.00 0.0 0.00 3.11 F
912 1492 0.390472 GGTGCCAGTCGAGAAAGGAG 60.390 60.0 0.00 0.0 0.00 3.69 F
1975 2586 0.957395 CAATGAGGCGCAAGGACTGT 60.957 55.0 10.83 0.0 29.96 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2008 2619 0.958091 CGCTGAAAACATTGGACCCA 59.042 50.0 0.00 0.00 0.00 4.51 R
2426 3038 2.019807 TTTGGGACGGAGGAAGTACT 57.980 50.0 0.00 0.00 0.00 2.73 R
3057 3816 0.464373 AACAGTGTCTGTGCACAGGG 60.464 55.0 39.04 26.31 44.62 4.45 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
28 29 5.419542 AGTGACATCGTATAGCAACAACAT 58.580 37.500 0.00 0.00 0.00 2.71
150 151 3.135712 TGTCAAAGTGGAAGGTGCTAAGA 59.864 43.478 0.00 0.00 0.00 2.10
250 251 5.612725 TGATGTGCTAGGTGTGATCATTA 57.387 39.130 0.00 0.00 0.00 1.90
263 265 6.000219 GTGTGATCATTATGGGTAAGCTCAT 59.000 40.000 0.00 0.00 39.53 2.90
271 273 6.808321 TTATGGGTAAGCTCATCAACTAGT 57.192 37.500 0.00 0.00 37.03 2.57
297 300 5.070001 ACAAGGTAAGCACAACATGTATGT 58.930 37.500 0.00 3.23 44.20 2.29
310 313 5.239359 ACATGTATGTTGTATGCAAGCAG 57.761 39.130 0.00 0.00 37.90 4.24
334 337 1.133598 CCGTGTTCATGTACCGCTAGA 59.866 52.381 0.00 0.00 0.00 2.43
344 347 0.758734 TACCGCTAGAGCCAATGCAT 59.241 50.000 0.00 0.00 41.13 3.96
374 378 7.040961 ACCAAACAAAGTGCACTTACGTATTAT 60.041 33.333 31.31 11.33 34.61 1.28
384 388 7.169308 GTGCACTTACGTATTATCTAATGCAGT 59.831 37.037 10.32 0.00 0.00 4.40
417 421 1.277557 AGGCAACCAAACAACTTGCAA 59.722 42.857 0.00 0.00 41.77 4.08
432 436 1.832883 TGCAAATGACGCATTAGGGT 58.167 45.000 5.67 0.00 44.44 4.34
452 456 3.319122 GGTCTGTTTTTGCTCAATCAGGT 59.681 43.478 6.66 0.00 0.00 4.00
458 462 1.909700 TTGCTCAATCAGGTTGGGTC 58.090 50.000 0.00 0.00 40.60 4.46
516 520 1.815757 ACCAAACACACCCTAGGAGT 58.184 50.000 11.48 5.60 0.00 3.85
517 521 2.980548 ACCAAACACACCCTAGGAGTA 58.019 47.619 11.48 0.00 0.00 2.59
518 522 2.904434 ACCAAACACACCCTAGGAGTAG 59.096 50.000 11.48 5.55 0.00 2.57
519 523 3.170717 CCAAACACACCCTAGGAGTAGA 58.829 50.000 11.48 0.00 0.00 2.59
520 524 3.195825 CCAAACACACCCTAGGAGTAGAG 59.804 52.174 11.48 0.00 0.00 2.43
521 525 4.087182 CAAACACACCCTAGGAGTAGAGA 58.913 47.826 11.48 0.00 0.00 3.10
522 526 4.611564 AACACACCCTAGGAGTAGAGAT 57.388 45.455 11.48 0.00 0.00 2.75
528 532 5.141182 CACCCTAGGAGTAGAGATAAAGCA 58.859 45.833 11.48 0.00 0.00 3.91
538 542 0.103208 AGATAAAGCAGAGCGTCCCG 59.897 55.000 0.00 0.00 0.00 5.14
541 545 1.248785 TAAAGCAGAGCGTCCCGAGT 61.249 55.000 0.00 0.00 0.00 4.18
551 555 1.699343 CGTCCCGAGTGTCTTTTCTC 58.301 55.000 0.00 0.00 0.00 2.87
552 556 1.269998 CGTCCCGAGTGTCTTTTCTCT 59.730 52.381 0.00 0.00 0.00 3.10
554 558 3.057736 CGTCCCGAGTGTCTTTTCTCTAA 60.058 47.826 0.00 0.00 0.00 2.10
556 560 4.924462 GTCCCGAGTGTCTTTTCTCTAAAG 59.076 45.833 0.00 0.00 43.82 1.85
609 613 2.541383 CGTTCATGTGTTTTGCTCAGCA 60.541 45.455 0.00 0.00 36.47 4.41
641 654 3.737172 GCGCCGTGCAACCAATCT 61.737 61.111 0.00 0.00 45.45 2.40
642 655 2.176546 CGCCGTGCAACCAATCTG 59.823 61.111 0.00 0.00 0.00 2.90
643 656 2.324330 CGCCGTGCAACCAATCTGA 61.324 57.895 0.00 0.00 0.00 3.27
644 657 1.210155 GCCGTGCAACCAATCTGAC 59.790 57.895 0.00 0.00 0.00 3.51
645 658 1.514678 GCCGTGCAACCAATCTGACA 61.515 55.000 0.00 0.00 0.00 3.58
646 659 0.950836 CCGTGCAACCAATCTGACAA 59.049 50.000 0.00 0.00 0.00 3.18
647 660 1.541147 CCGTGCAACCAATCTGACAAT 59.459 47.619 0.00 0.00 0.00 2.71
648 661 2.746904 CCGTGCAACCAATCTGACAATA 59.253 45.455 0.00 0.00 0.00 1.90
649 662 3.426159 CCGTGCAACCAATCTGACAATAC 60.426 47.826 0.00 0.00 0.00 1.89
650 663 3.724716 CGTGCAACCAATCTGACAATACG 60.725 47.826 0.00 0.00 0.00 3.06
651 664 3.188460 GTGCAACCAATCTGACAATACGT 59.812 43.478 0.00 0.00 0.00 3.57
653 666 4.158384 GCAACCAATCTGACAATACGTTG 58.842 43.478 0.00 0.00 41.20 4.10
654 667 4.722194 CAACCAATCTGACAATACGTTGG 58.278 43.478 0.00 0.00 41.33 3.77
657 670 4.000325 CCAATCTGACAATACGTTGGTCA 59.000 43.478 13.60 13.60 39.70 4.02
658 671 4.142902 CCAATCTGACAATACGTTGGTCAC 60.143 45.833 11.17 0.00 39.70 3.67
659 672 3.737032 TCTGACAATACGTTGGTCACA 57.263 42.857 11.17 1.46 39.70 3.58
660 673 4.061357 TCTGACAATACGTTGGTCACAA 57.939 40.909 11.17 2.80 39.70 3.33
661 674 4.443621 TCTGACAATACGTTGGTCACAAA 58.556 39.130 11.17 0.91 39.70 2.83
662 675 4.876679 TCTGACAATACGTTGGTCACAAAA 59.123 37.500 11.17 0.00 39.70 2.44
663 676 5.007234 TCTGACAATACGTTGGTCACAAAAG 59.993 40.000 11.17 4.13 39.70 2.27
678 1227 6.976349 GGTCACAAAAGTAAACCTAAACTTGG 59.024 38.462 0.00 0.00 36.12 3.61
680 1229 5.457473 CACAAAAGTAAACCTAAACTTGGCG 59.543 40.000 0.00 0.00 36.12 5.69
685 1234 1.223187 AACCTAAACTTGGCGTGTCG 58.777 50.000 0.00 0.00 0.00 4.35
689 1238 2.333926 CTAAACTTGGCGTGTCGATCA 58.666 47.619 0.00 0.00 0.00 2.92
726 1275 1.153939 CGCCTTCTCACTCACTCCG 60.154 63.158 0.00 0.00 0.00 4.63
732 1281 0.894184 TCTCACTCACTCCGACCACC 60.894 60.000 0.00 0.00 0.00 4.61
733 1282 1.878656 CTCACTCACTCCGACCACCC 61.879 65.000 0.00 0.00 0.00 4.61
734 1283 2.603776 ACTCACTCCGACCACCCC 60.604 66.667 0.00 0.00 0.00 4.95
735 1284 2.283966 CTCACTCCGACCACCCCT 60.284 66.667 0.00 0.00 0.00 4.79
736 1285 1.913762 CTCACTCCGACCACCCCTT 60.914 63.158 0.00 0.00 0.00 3.95
737 1286 2.172483 CTCACTCCGACCACCCCTTG 62.172 65.000 0.00 0.00 0.00 3.61
738 1287 3.637273 ACTCCGACCACCCCTTGC 61.637 66.667 0.00 0.00 0.00 4.01
755 1304 1.819632 GCCCTTGATGTAGGCCGTG 60.820 63.158 0.00 0.00 41.00 4.94
758 1307 1.613255 CCCTTGATGTAGGCCGTGTTT 60.613 52.381 0.00 0.00 33.73 2.83
759 1308 2.159382 CCTTGATGTAGGCCGTGTTTT 58.841 47.619 0.00 0.00 0.00 2.43
760 1309 2.161609 CCTTGATGTAGGCCGTGTTTTC 59.838 50.000 0.00 0.00 0.00 2.29
761 1310 1.816074 TGATGTAGGCCGTGTTTTCC 58.184 50.000 0.00 0.00 0.00 3.13
762 1311 1.092348 GATGTAGGCCGTGTTTTCCC 58.908 55.000 0.00 0.00 0.00 3.97
763 1312 0.323087 ATGTAGGCCGTGTTTTCCCC 60.323 55.000 0.00 0.00 0.00 4.81
764 1313 1.073548 GTAGGCCGTGTTTTCCCCA 59.926 57.895 0.00 0.00 0.00 4.96
765 1314 0.537828 GTAGGCCGTGTTTTCCCCAA 60.538 55.000 0.00 0.00 0.00 4.12
766 1315 0.250989 TAGGCCGTGTTTTCCCCAAG 60.251 55.000 0.00 0.00 0.00 3.61
828 1407 7.148171 GGACGAATGAATTTCCTTCTCATCTTT 60.148 37.037 11.17 0.00 34.75 2.52
829 1408 8.115490 ACGAATGAATTTCCTTCTCATCTTTT 57.885 30.769 11.17 0.00 34.75 2.27
830 1409 8.025445 ACGAATGAATTTCCTTCTCATCTTTTG 58.975 33.333 11.17 0.00 34.75 2.44
831 1410 7.487189 CGAATGAATTTCCTTCTCATCTTTTGG 59.513 37.037 11.17 0.00 34.75 3.28
833 1412 6.077322 TGAATTTCCTTCTCATCTTTTGGGT 58.923 36.000 0.00 0.00 34.75 4.51
834 1413 5.990120 ATTTCCTTCTCATCTTTTGGGTG 57.010 39.130 0.00 0.00 0.00 4.61
835 1414 4.453480 TTCCTTCTCATCTTTTGGGTGT 57.547 40.909 0.00 0.00 0.00 4.16
859 1439 3.736433 CGTTTGACCAAGTTTGCCAATCA 60.736 43.478 0.00 0.00 0.00 2.57
873 1453 2.066999 AATCAGGGTCCCGCCTCTC 61.067 63.158 0.99 0.00 37.43 3.20
874 1454 2.822643 AATCAGGGTCCCGCCTCTCA 62.823 60.000 0.99 0.00 37.43 3.27
883 1463 4.452733 CGCCTCTCACCGGGGTTC 62.453 72.222 2.12 0.00 0.00 3.62
910 1490 0.036010 ATGGTGCCAGTCGAGAAAGG 60.036 55.000 0.00 0.00 0.00 3.11
911 1491 1.118965 TGGTGCCAGTCGAGAAAGGA 61.119 55.000 0.00 0.00 0.00 3.36
912 1492 0.390472 GGTGCCAGTCGAGAAAGGAG 60.390 60.000 0.00 0.00 0.00 3.69
942 1525 2.488820 GGGGCTCGTGACGACTAC 59.511 66.667 2.39 0.00 0.00 2.73
1016 1599 2.354729 CATGGGGTCCGAAGCCAA 59.645 61.111 0.00 0.00 45.35 4.52
1197 1780 6.398918 TCCTCTGCTCTGTTTTTGAGTATAC 58.601 40.000 0.00 0.00 34.30 1.47
1199 1782 6.312426 CCTCTGCTCTGTTTTTGAGTATACTG 59.688 42.308 10.90 0.00 34.30 2.74
1204 1791 6.128526 GCTCTGTTTTTGAGTATACTGGTGAC 60.129 42.308 10.90 3.43 34.30 3.67
1240 1827 2.279784 GATCGGCTCTTGCGGGAG 60.280 66.667 1.93 1.93 40.82 4.30
1266 1858 4.854924 TCCGGTGGATGCATGCCG 62.855 66.667 16.68 18.87 43.40 5.69
1355 1947 1.603236 CTCTCGCAGCTTCCTCCTGT 61.603 60.000 0.00 0.00 32.93 4.00
1358 1950 1.188219 TCGCAGCTTCCTCCTGTCTT 61.188 55.000 0.00 0.00 32.93 3.01
1392 1984 5.734720 TCTTGTTGTTCTCTTCTTGTCACT 58.265 37.500 0.00 0.00 0.00 3.41
1414 2006 3.324099 TTCTCGCTCCGTCTCGTGC 62.324 63.158 0.00 0.00 0.00 5.34
1510 2108 8.565896 TCAATCTGCATGAAGTATTACTTGTT 57.434 30.769 13.69 0.00 38.80 2.83
1511 2109 9.013229 TCAATCTGCATGAAGTATTACTTGTTT 57.987 29.630 13.69 0.00 38.80 2.83
1743 2349 5.300792 TGTTCCAGGTTACTCCACATTTTTC 59.699 40.000 0.00 0.00 39.02 2.29
1744 2350 5.319043 TCCAGGTTACTCCACATTTTTCT 57.681 39.130 0.00 0.00 39.02 2.52
1819 2428 6.494491 ACTGATTCTTTCATGTTGAATTGGGA 59.506 34.615 10.23 0.00 36.11 4.37
1820 2429 7.179694 ACTGATTCTTTCATGTTGAATTGGGAT 59.820 33.333 10.23 0.00 36.11 3.85
1975 2586 0.957395 CAATGAGGCGCAAGGACTGT 60.957 55.000 10.83 0.00 29.96 3.55
2008 2619 7.067981 GGTTATCTTGCTTCATTTGAGAAGGAT 59.932 37.037 5.92 3.47 43.90 3.24
2115 2727 6.753107 AAAAGTGTGATCCCCGTTTATAAG 57.247 37.500 0.00 0.00 0.00 1.73
2149 2761 2.070262 GCTTGATGCAGGTTTTGGTC 57.930 50.000 0.00 0.00 42.31 4.02
2333 2945 1.144057 GCCCATCCACAGGTACTCG 59.856 63.158 0.00 0.00 34.60 4.18
2426 3038 9.273016 GTATTCTGGAGCATGTAATTTTAGCTA 57.727 33.333 0.00 0.00 35.36 3.32
2427 3039 7.792374 TTCTGGAGCATGTAATTTTAGCTAG 57.208 36.000 0.00 0.00 35.36 3.42
2428 3040 6.889198 TCTGGAGCATGTAATTTTAGCTAGT 58.111 36.000 0.00 0.00 35.36 2.57
2429 3041 8.018537 TCTGGAGCATGTAATTTTAGCTAGTA 57.981 34.615 0.00 0.00 35.36 1.82
2430 3042 7.926555 TCTGGAGCATGTAATTTTAGCTAGTAC 59.073 37.037 0.00 0.00 35.36 2.73
2431 3043 7.792032 TGGAGCATGTAATTTTAGCTAGTACT 58.208 34.615 0.00 0.00 35.36 2.73
2432 3044 8.265055 TGGAGCATGTAATTTTAGCTAGTACTT 58.735 33.333 0.00 0.00 35.36 2.24
2433 3045 8.766151 GGAGCATGTAATTTTAGCTAGTACTTC 58.234 37.037 0.00 0.00 35.36 3.01
2434 3046 8.664211 AGCATGTAATTTTAGCTAGTACTTCC 57.336 34.615 0.00 0.00 33.06 3.46
2435 3047 8.487028 AGCATGTAATTTTAGCTAGTACTTCCT 58.513 33.333 0.00 0.08 33.06 3.36
2436 3048 8.766151 GCATGTAATTTTAGCTAGTACTTCCTC 58.234 37.037 0.00 0.00 0.00 3.71
2437 3049 9.262358 CATGTAATTTTAGCTAGTACTTCCTCC 57.738 37.037 0.00 0.00 0.00 4.30
2438 3050 7.486647 TGTAATTTTAGCTAGTACTTCCTCCG 58.513 38.462 0.00 0.00 0.00 4.63
2439 3051 6.541934 AATTTTAGCTAGTACTTCCTCCGT 57.458 37.500 0.00 0.00 0.00 4.69
2440 3052 5.573337 TTTTAGCTAGTACTTCCTCCGTC 57.427 43.478 0.00 0.00 0.00 4.79
2441 3053 2.055684 AGCTAGTACTTCCTCCGTCC 57.944 55.000 0.00 0.00 0.00 4.79
2442 3054 1.031235 GCTAGTACTTCCTCCGTCCC 58.969 60.000 0.00 0.00 0.00 4.46
2443 3055 1.684248 GCTAGTACTTCCTCCGTCCCA 60.684 57.143 0.00 0.00 0.00 4.37
2444 3056 2.731572 CTAGTACTTCCTCCGTCCCAA 58.268 52.381 0.00 0.00 0.00 4.12
2445 3057 2.019807 AGTACTTCCTCCGTCCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
2446 3058 2.332117 AGTACTTCCTCCGTCCCAAAA 58.668 47.619 0.00 0.00 0.00 2.44
2447 3059 2.910977 AGTACTTCCTCCGTCCCAAAAT 59.089 45.455 0.00 0.00 0.00 1.82
2448 3060 4.098894 AGTACTTCCTCCGTCCCAAAATA 58.901 43.478 0.00 0.00 0.00 1.40
2449 3061 4.533311 AGTACTTCCTCCGTCCCAAAATAA 59.467 41.667 0.00 0.00 0.00 1.40
2450 3062 3.951663 ACTTCCTCCGTCCCAAAATAAG 58.048 45.455 0.00 0.00 0.00 1.73
2451 3063 3.329814 ACTTCCTCCGTCCCAAAATAAGT 59.670 43.478 0.00 0.00 0.00 2.24
2452 3064 3.343941 TCCTCCGTCCCAAAATAAGTG 57.656 47.619 0.00 0.00 0.00 3.16
2453 3065 2.640826 TCCTCCGTCCCAAAATAAGTGT 59.359 45.455 0.00 0.00 0.00 3.55
2454 3066 3.007635 CCTCCGTCCCAAAATAAGTGTC 58.992 50.000 0.00 0.00 0.00 3.67
2455 3067 3.307480 CCTCCGTCCCAAAATAAGTGTCT 60.307 47.826 0.00 0.00 0.00 3.41
2456 3068 4.324267 CTCCGTCCCAAAATAAGTGTCTT 58.676 43.478 0.00 0.00 0.00 3.01
2457 3069 5.484715 CTCCGTCCCAAAATAAGTGTCTTA 58.515 41.667 0.00 0.00 0.00 2.10
2458 3070 5.867330 TCCGTCCCAAAATAAGTGTCTTAA 58.133 37.500 0.00 0.00 0.00 1.85
2459 3071 5.702209 TCCGTCCCAAAATAAGTGTCTTAAC 59.298 40.000 0.00 0.00 0.00 2.01
2460 3072 5.704053 CCGTCCCAAAATAAGTGTCTTAACT 59.296 40.000 0.00 0.00 0.00 2.24
2461 3073 6.206048 CCGTCCCAAAATAAGTGTCTTAACTT 59.794 38.462 0.00 0.00 42.89 2.66
2462 3074 7.255346 CCGTCCCAAAATAAGTGTCTTAACTTT 60.255 37.037 0.00 0.00 40.77 2.66
2463 3075 7.589954 CGTCCCAAAATAAGTGTCTTAACTTTG 59.410 37.037 14.00 14.00 40.77 2.77
2464 3076 8.410912 GTCCCAAAATAAGTGTCTTAACTTTGT 58.589 33.333 16.72 0.00 40.77 2.83
2465 3077 9.629878 TCCCAAAATAAGTGTCTTAACTTTGTA 57.370 29.630 16.72 8.94 40.77 2.41
2466 3078 9.673454 CCCAAAATAAGTGTCTTAACTTTGTAC 57.327 33.333 16.72 0.00 40.77 2.90
2472 3084 9.857957 ATAAGTGTCTTAACTTTGTACTAGCTC 57.142 33.333 0.00 0.00 40.77 4.09
2473 3085 7.527568 AGTGTCTTAACTTTGTACTAGCTCT 57.472 36.000 0.00 0.00 0.00 4.09
2474 3086 8.632906 AGTGTCTTAACTTTGTACTAGCTCTA 57.367 34.615 0.00 0.00 0.00 2.43
2475 3087 8.732531 AGTGTCTTAACTTTGTACTAGCTCTAG 58.267 37.037 0.00 2.55 39.04 2.43
2477 3089 9.730705 TGTCTTAACTTTGTACTAGCTCTAGTA 57.269 33.333 11.59 11.59 43.98 1.82
2503 3115 9.726438 ACAAATTTATACTAAGCTCAAGACACT 57.274 29.630 3.19 0.00 0.00 3.55
2511 3123 9.944376 ATACTAAGCTCAAGACACTTATTTTGA 57.056 29.630 3.19 0.00 0.00 2.69
2512 3124 8.316640 ACTAAGCTCAAGACACTTATTTTGAG 57.683 34.615 8.33 8.33 45.75 3.02
2513 3125 8.150945 ACTAAGCTCAAGACACTTATTTTGAGA 58.849 33.333 15.10 0.00 45.82 3.27
2514 3126 6.793492 AGCTCAAGACACTTATTTTGAGAC 57.207 37.500 15.10 7.85 45.82 3.36
2515 3127 5.406780 AGCTCAAGACACTTATTTTGAGACG 59.593 40.000 15.10 0.00 45.82 4.18
2516 3128 5.389935 GCTCAAGACACTTATTTTGAGACGG 60.390 44.000 15.10 0.00 45.82 4.79
2517 3129 5.849510 TCAAGACACTTATTTTGAGACGGA 58.150 37.500 0.00 0.00 0.00 4.69
2518 3130 5.926542 TCAAGACACTTATTTTGAGACGGAG 59.073 40.000 0.00 0.00 0.00 4.63
2519 3131 4.822026 AGACACTTATTTTGAGACGGAGG 58.178 43.478 0.00 0.00 0.00 4.30
2520 3132 3.933332 GACACTTATTTTGAGACGGAGGG 59.067 47.826 0.00 0.00 0.00 4.30
2576 3188 1.280421 AGTTCCCAGCATCCAGAGTTC 59.720 52.381 0.00 0.00 0.00 3.01
2738 3493 5.680229 CGAAGTATTTACGCGTAGAGTTCAT 59.320 40.000 27.17 15.92 37.08 2.57
2831 3586 6.212955 CGTTCCCTTGCTCATTAAAAGAAAA 58.787 36.000 0.00 0.00 0.00 2.29
3067 3826 1.922881 TATCTGCCCCCTGTGCACA 60.923 57.895 20.37 20.37 34.46 4.57
3082 3846 2.738846 GTGCACAGACACTGTTCTATGG 59.261 50.000 13.17 0.00 42.59 2.74
3113 3877 7.040478 TGCATGGTTATCTGTAATTATCCAAGC 60.040 37.037 0.00 0.00 38.39 4.01
3117 3881 8.710239 TGGTTATCTGTAATTATCCAAGCAGTA 58.290 33.333 0.00 0.00 0.00 2.74
3193 3957 0.308376 TTTTGGTGCCGCGTAGTTTC 59.692 50.000 4.92 0.00 0.00 2.78
3293 4057 0.338814 ATTGGACCGGGTAGTCTCCT 59.661 55.000 6.32 0.00 36.95 3.69
3393 4928 1.603739 GCTGACGGAAAAAGGGCCT 60.604 57.895 0.00 0.00 0.00 5.19
3446 4982 3.587061 TCAAACAGGATCCTTTAGCTCCA 59.413 43.478 13.00 0.00 0.00 3.86
3451 4987 3.117738 CAGGATCCTTTAGCTCCACCATT 60.118 47.826 13.00 0.00 0.00 3.16
3472 5008 0.318955 GAGCAAAGCAAACGCCACAT 60.319 50.000 0.00 0.00 0.00 3.21
3481 5017 0.313672 AAACGCCACATCGCACAAAT 59.686 45.000 0.00 0.00 0.00 2.32
3524 5060 8.042515 CCACCAAGGATTCATAAACAAAATCAT 58.957 33.333 0.00 0.00 41.22 2.45
3544 5080 1.370900 GGAGCAAACAAGCGTGCAG 60.371 57.895 0.00 0.00 43.42 4.41
3548 5084 0.801836 GCAAACAAGCGTGCAGTTGT 60.802 50.000 0.00 3.69 40.58 3.32
3605 5144 6.918022 CAGGGAAATCTTTTGTGTTCAACTAC 59.082 38.462 0.00 0.00 32.93 2.73
3737 5284 0.986527 ACAGGTCAGTCCATGCATCA 59.013 50.000 0.00 0.00 39.02 3.07
3863 5410 2.519377 TAACAGACAACCAGGACACG 57.481 50.000 0.00 0.00 0.00 4.49
3880 5427 5.701290 AGGACACGAAAAATTCTACCTCTTG 59.299 40.000 0.00 0.00 0.00 3.02
3930 5477 5.894393 CAGAGTCTTCTATTTCCACCCTCTA 59.106 44.000 0.00 0.00 30.73 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 5.962031 TGCCTAGTCTTGAACCCTCTATAAA 59.038 40.000 0.00 0.00 0.00 1.40
150 151 0.620556 AGCCCAAACTGACGATCCAT 59.379 50.000 0.00 0.00 0.00 3.41
191 192 0.034198 TGACGATGAACTGGGCGAAA 59.966 50.000 0.00 0.00 0.00 3.46
250 251 4.471386 ACACTAGTTGATGAGCTTACCCAT 59.529 41.667 0.00 0.00 0.00 4.00
263 265 5.069383 TGTGCTTACCTTGTACACTAGTTGA 59.931 40.000 0.00 0.00 32.49 3.18
271 273 4.456535 ACATGTTGTGCTTACCTTGTACA 58.543 39.130 0.00 0.00 0.00 2.90
297 300 1.634757 CGGCGTCTGCTTGCATACAA 61.635 55.000 0.00 0.00 42.25 2.41
307 310 1.011968 TACATGAACACGGCGTCTGC 61.012 55.000 10.85 0.00 41.71 4.26
310 313 1.680105 CGGTACATGAACACGGCGTC 61.680 60.000 10.85 0.00 0.00 5.19
334 337 0.397187 TTTGGTTGCATGCATTGGCT 59.603 45.000 23.37 0.00 41.91 4.75
344 347 1.274728 AGTGCACTTTGTTTGGTTGCA 59.725 42.857 15.25 0.00 0.00 4.08
374 378 4.160252 TGCATCTAGTGTCACTGCATTAGA 59.840 41.667 16.03 10.03 40.35 2.10
384 388 1.339055 GGTTGCCTGCATCTAGTGTCA 60.339 52.381 0.00 0.00 0.00 3.58
417 421 3.350219 AACAGACCCTAATGCGTCATT 57.650 42.857 9.46 9.46 37.80 2.57
432 436 4.202141 CCAACCTGATTGAGCAAAAACAGA 60.202 41.667 9.36 0.00 41.23 3.41
452 456 1.403647 CGCATACACTTCTCGACCCAA 60.404 52.381 0.00 0.00 0.00 4.12
458 462 1.520174 CTGCATCGCATACACTTCTCG 59.480 52.381 0.00 0.00 38.13 4.04
516 520 2.623889 GGGACGCTCTGCTTTATCTCTA 59.376 50.000 0.00 0.00 0.00 2.43
517 521 1.410882 GGGACGCTCTGCTTTATCTCT 59.589 52.381 0.00 0.00 0.00 3.10
518 522 1.859383 GGGACGCTCTGCTTTATCTC 58.141 55.000 0.00 0.00 0.00 2.75
551 555 8.711457 CCCATTTGTGCTTTGTTATTTCTTTAG 58.289 33.333 0.00 0.00 0.00 1.85
552 556 8.207545 ACCCATTTGTGCTTTGTTATTTCTTTA 58.792 29.630 0.00 0.00 0.00 1.85
554 558 6.591001 ACCCATTTGTGCTTTGTTATTTCTT 58.409 32.000 0.00 0.00 0.00 2.52
556 560 7.816995 TCATACCCATTTGTGCTTTGTTATTTC 59.183 33.333 0.00 0.00 0.00 2.17
564 568 6.610075 AGATTTCATACCCATTTGTGCTTT 57.390 33.333 0.00 0.00 0.00 3.51
567 571 4.096382 ACGAGATTTCATACCCATTTGTGC 59.904 41.667 0.00 0.00 0.00 4.57
609 613 2.251075 CGCATCACGCCGTTGTTT 59.749 55.556 0.00 0.00 37.30 2.83
627 640 0.950836 TTGTCAGATTGGTTGCACGG 59.049 50.000 0.00 0.00 0.00 4.94
633 646 4.394729 ACCAACGTATTGTCAGATTGGTT 58.605 39.130 0.63 0.00 45.83 3.67
641 654 4.636648 ACTTTTGTGACCAACGTATTGTCA 59.363 37.500 9.79 9.79 33.60 3.58
642 655 5.164606 ACTTTTGTGACCAACGTATTGTC 57.835 39.130 0.00 0.00 33.60 3.18
643 656 6.680874 TTACTTTTGTGACCAACGTATTGT 57.319 33.333 0.00 0.00 33.60 2.71
644 657 6.415573 GGTTTACTTTTGTGACCAACGTATTG 59.584 38.462 0.00 0.00 38.78 1.90
645 658 6.319405 AGGTTTACTTTTGTGACCAACGTATT 59.681 34.615 0.00 0.00 40.30 1.89
646 659 5.824097 AGGTTTACTTTTGTGACCAACGTAT 59.176 36.000 0.00 0.00 40.30 3.06
647 660 5.184711 AGGTTTACTTTTGTGACCAACGTA 58.815 37.500 0.00 0.00 40.30 3.57
648 661 4.011698 AGGTTTACTTTTGTGACCAACGT 58.988 39.130 0.00 0.00 40.30 3.99
649 662 4.625972 AGGTTTACTTTTGTGACCAACG 57.374 40.909 0.00 0.00 40.30 4.10
650 663 7.541162 AGTTTAGGTTTACTTTTGTGACCAAC 58.459 34.615 0.00 0.00 40.30 3.77
651 664 7.706100 AGTTTAGGTTTACTTTTGTGACCAA 57.294 32.000 0.00 0.00 40.30 3.67
653 666 6.976349 CCAAGTTTAGGTTTACTTTTGTGACC 59.024 38.462 0.00 0.00 39.04 4.02
654 667 6.474427 GCCAAGTTTAGGTTTACTTTTGTGAC 59.526 38.462 0.00 0.00 32.50 3.67
657 670 5.125900 ACGCCAAGTTTAGGTTTACTTTTGT 59.874 36.000 0.00 0.00 32.50 2.83
658 671 5.457473 CACGCCAAGTTTAGGTTTACTTTTG 59.543 40.000 0.00 0.00 32.50 2.44
659 672 5.125900 ACACGCCAAGTTTAGGTTTACTTTT 59.874 36.000 0.00 0.00 32.50 2.27
660 673 4.641541 ACACGCCAAGTTTAGGTTTACTTT 59.358 37.500 0.00 0.00 32.50 2.66
661 674 4.201657 ACACGCCAAGTTTAGGTTTACTT 58.798 39.130 0.00 0.00 35.06 2.24
662 675 3.811497 GACACGCCAAGTTTAGGTTTACT 59.189 43.478 0.00 0.00 0.00 2.24
663 676 3.363280 CGACACGCCAAGTTTAGGTTTAC 60.363 47.826 0.00 0.00 0.00 2.01
685 1234 1.063174 GAGCTGATTTGCGGTGTGATC 59.937 52.381 0.00 0.00 38.13 2.92
689 1238 2.034879 CCGAGCTGATTTGCGGTGT 61.035 57.895 0.00 0.00 38.99 4.16
726 1275 2.155197 ATCAAGGGCAAGGGGTGGTC 62.155 60.000 0.00 0.00 0.00 4.02
732 1281 0.753111 GCCTACATCAAGGGCAAGGG 60.753 60.000 0.00 0.00 44.69 3.95
733 1282 2.799176 GCCTACATCAAGGGCAAGG 58.201 57.895 0.00 0.00 44.69 3.61
738 1287 0.035439 AACACGGCCTACATCAAGGG 60.035 55.000 0.00 0.00 37.11 3.95
755 1304 1.001706 GCGAACAGACTTGGGGAAAAC 60.002 52.381 0.00 0.00 0.00 2.43
758 1307 0.034896 GAGCGAACAGACTTGGGGAA 59.965 55.000 0.00 0.00 0.00 3.97
759 1308 1.118965 TGAGCGAACAGACTTGGGGA 61.119 55.000 0.00 0.00 0.00 4.81
760 1309 0.036010 ATGAGCGAACAGACTTGGGG 60.036 55.000 0.00 0.00 0.00 4.96
761 1310 2.672961 TATGAGCGAACAGACTTGGG 57.327 50.000 0.00 0.00 0.00 4.12
762 1311 3.126831 GGATATGAGCGAACAGACTTGG 58.873 50.000 0.00 0.00 0.00 3.61
763 1312 2.791560 CGGATATGAGCGAACAGACTTG 59.208 50.000 0.00 0.00 0.00 3.16
764 1313 2.799917 GCGGATATGAGCGAACAGACTT 60.800 50.000 0.00 0.00 0.00 3.01
765 1314 1.269309 GCGGATATGAGCGAACAGACT 60.269 52.381 0.00 0.00 0.00 3.24
766 1315 1.132588 GCGGATATGAGCGAACAGAC 58.867 55.000 0.00 0.00 0.00 3.51
796 1350 2.823154 GGAAATTCATTCGTCCACCCAA 59.177 45.455 0.00 0.00 39.05 4.12
798 1352 2.723273 AGGAAATTCATTCGTCCACCC 58.277 47.619 0.00 0.00 39.05 4.61
828 1407 1.746220 CTTGGTCAAACGAACACCCAA 59.254 47.619 0.00 0.00 26.97 4.12
829 1408 1.340211 ACTTGGTCAAACGAACACCCA 60.340 47.619 0.00 0.00 26.97 4.51
830 1409 1.385528 ACTTGGTCAAACGAACACCC 58.614 50.000 0.00 0.00 26.97 4.61
831 1410 3.175929 CAAACTTGGTCAAACGAACACC 58.824 45.455 0.00 0.00 26.97 4.16
833 1412 2.416162 GGCAAACTTGGTCAAACGAACA 60.416 45.455 0.00 0.00 0.00 3.18
834 1413 2.190161 GGCAAACTTGGTCAAACGAAC 58.810 47.619 0.00 0.00 0.00 3.95
835 1414 1.819288 TGGCAAACTTGGTCAAACGAA 59.181 42.857 0.00 0.00 0.00 3.85
873 1453 2.282180 CCAGTTGGAACCCCGGTG 60.282 66.667 0.00 0.00 37.39 4.94
874 1454 2.448931 TCCAGTTGGAACCCCGGT 60.449 61.111 0.00 0.00 42.18 5.28
883 1463 4.007457 CTGGCACCATCCAGTTGG 57.993 61.111 1.80 0.00 46.59 3.77
910 1490 2.937149 GAGCCCCGTTTTGTCTAATCTC 59.063 50.000 0.00 0.00 0.00 2.75
911 1491 2.677037 CGAGCCCCGTTTTGTCTAATCT 60.677 50.000 0.00 0.00 0.00 2.40
912 1492 1.664151 CGAGCCCCGTTTTGTCTAATC 59.336 52.381 0.00 0.00 0.00 1.75
942 1525 2.076863 GTTTGACTGGTCCCGATCAAG 58.923 52.381 0.00 0.00 32.90 3.02
1266 1858 0.960364 TCCAACTCTTTCGGCATGGC 60.960 55.000 9.69 9.69 0.00 4.40
1355 1947 2.620115 CAACAAGAGCCAAGAAGCAAGA 59.380 45.455 0.00 0.00 34.23 3.02
1358 1950 2.057137 ACAACAAGAGCCAAGAAGCA 57.943 45.000 0.00 0.00 34.23 3.91
1392 1984 1.636570 CGAGACGGAGCGAGAAGTGA 61.637 60.000 0.00 0.00 0.00 3.41
1513 2111 9.477484 CAGACGCCAACTTTCTTATATATAAGT 57.523 33.333 25.05 11.35 40.41 2.24
1514 2112 8.436200 GCAGACGCCAACTTTCTTATATATAAG 58.564 37.037 21.80 21.80 40.79 1.73
1518 2116 5.666462 TGCAGACGCCAACTTTCTTATATA 58.334 37.500 0.00 0.00 37.32 0.86
1519 2117 4.513442 TGCAGACGCCAACTTTCTTATAT 58.487 39.130 0.00 0.00 37.32 0.86
1548 2146 0.800683 TCTGCTTATTCGGCGTGACG 60.801 55.000 6.85 0.00 0.00 4.35
1756 2362 2.035193 TGCTCTGCGATAGGCTTAAGAG 59.965 50.000 6.67 0.00 44.05 2.85
1767 2376 2.105006 AACTGAACATGCTCTGCGAT 57.895 45.000 3.17 0.00 0.00 4.58
1819 2428 5.301551 TGCCAAAACCATCGATTTAGCATAT 59.698 36.000 0.00 0.00 0.00 1.78
1820 2429 4.642437 TGCCAAAACCATCGATTTAGCATA 59.358 37.500 0.00 0.00 0.00 3.14
1914 2525 2.702478 AGCCACTCAAGAGCTGCATATA 59.298 45.455 1.02 0.00 34.99 0.86
1927 2538 1.487976 GGATCATTCTCCAGCCACTCA 59.512 52.381 0.00 0.00 35.24 3.41
1975 2586 9.187996 TCAAATGAAGCAAGATAACCATCAATA 57.812 29.630 0.00 0.00 33.21 1.90
2008 2619 0.958091 CGCTGAAAACATTGGACCCA 59.042 50.000 0.00 0.00 0.00 4.51
2107 2718 7.519002 AGCAAATTCACGAGTCACTTATAAAC 58.481 34.615 0.00 0.00 0.00 2.01
2108 2719 7.667043 AGCAAATTCACGAGTCACTTATAAA 57.333 32.000 0.00 0.00 0.00 1.40
2115 2727 3.878086 TCAAGCAAATTCACGAGTCAC 57.122 42.857 0.00 0.00 0.00 3.67
2149 2761 4.742167 CAGAAGTCAGTGCATATTCCTACG 59.258 45.833 0.00 0.00 0.00 3.51
2333 2945 4.402056 TGCATAGTAGAGTTTAGTGGCC 57.598 45.455 0.00 0.00 0.00 5.36
2426 3038 2.019807 TTTGGGACGGAGGAAGTACT 57.980 50.000 0.00 0.00 0.00 2.73
2427 3039 2.845363 TTTTGGGACGGAGGAAGTAC 57.155 50.000 0.00 0.00 0.00 2.73
2428 3040 4.533311 ACTTATTTTGGGACGGAGGAAGTA 59.467 41.667 0.00 0.00 0.00 2.24
2429 3041 3.329814 ACTTATTTTGGGACGGAGGAAGT 59.670 43.478 0.00 0.00 0.00 3.01
2430 3042 3.689649 CACTTATTTTGGGACGGAGGAAG 59.310 47.826 0.00 0.00 0.00 3.46
2431 3043 3.073356 ACACTTATTTTGGGACGGAGGAA 59.927 43.478 0.00 0.00 0.00 3.36
2432 3044 2.640826 ACACTTATTTTGGGACGGAGGA 59.359 45.455 0.00 0.00 0.00 3.71
2433 3045 3.007635 GACACTTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
2434 3046 3.939066 AGACACTTATTTTGGGACGGAG 58.061 45.455 0.00 0.00 0.00 4.63
2435 3047 4.360951 AAGACACTTATTTTGGGACGGA 57.639 40.909 0.00 0.00 0.00 4.69
2436 3048 5.704053 AGTTAAGACACTTATTTTGGGACGG 59.296 40.000 0.00 0.00 0.00 4.79
2437 3049 6.796705 AGTTAAGACACTTATTTTGGGACG 57.203 37.500 0.00 0.00 0.00 4.79
2438 3050 8.410912 ACAAAGTTAAGACACTTATTTTGGGAC 58.589 33.333 19.96 6.58 35.87 4.46
2439 3051 8.528044 ACAAAGTTAAGACACTTATTTTGGGA 57.472 30.769 19.96 0.00 35.87 4.37
2440 3052 9.673454 GTACAAAGTTAAGACACTTATTTTGGG 57.327 33.333 19.96 8.06 35.87 4.12
2446 3058 9.857957 GAGCTAGTACAAAGTTAAGACACTTAT 57.142 33.333 0.00 0.00 35.87 1.73
2447 3059 9.075678 AGAGCTAGTACAAAGTTAAGACACTTA 57.924 33.333 0.00 0.00 35.87 2.24
2448 3060 7.953752 AGAGCTAGTACAAAGTTAAGACACTT 58.046 34.615 0.00 0.00 38.74 3.16
2449 3061 7.527568 AGAGCTAGTACAAAGTTAAGACACT 57.472 36.000 0.00 0.00 0.00 3.55
2450 3062 8.513774 ACTAGAGCTAGTACAAAGTTAAGACAC 58.486 37.037 8.35 0.00 43.98 3.67
2451 3063 8.632906 ACTAGAGCTAGTACAAAGTTAAGACA 57.367 34.615 8.35 0.00 43.98 3.41
2477 3089 9.726438 AGTGTCTTGAGCTTAGTATAAATTTGT 57.274 29.630 0.00 0.00 0.00 2.83
2485 3097 9.944376 TCAAAATAAGTGTCTTGAGCTTAGTAT 57.056 29.630 0.00 0.00 0.00 2.12
2486 3098 9.424319 CTCAAAATAAGTGTCTTGAGCTTAGTA 57.576 33.333 0.00 0.00 38.63 1.82
2487 3099 8.150945 TCTCAAAATAAGTGTCTTGAGCTTAGT 58.849 33.333 5.91 0.00 42.87 2.24
2488 3100 8.439286 GTCTCAAAATAAGTGTCTTGAGCTTAG 58.561 37.037 5.91 0.00 42.87 2.18
2489 3101 7.116376 CGTCTCAAAATAAGTGTCTTGAGCTTA 59.884 37.037 5.91 0.00 42.87 3.09
2490 3102 6.073548 CGTCTCAAAATAAGTGTCTTGAGCTT 60.074 38.462 5.91 0.00 42.87 3.74
2491 3103 5.406780 CGTCTCAAAATAAGTGTCTTGAGCT 59.593 40.000 5.91 0.00 42.87 4.09
2492 3104 5.389935 CCGTCTCAAAATAAGTGTCTTGAGC 60.390 44.000 5.91 1.95 42.87 4.26
2493 3105 5.926542 TCCGTCTCAAAATAAGTGTCTTGAG 59.073 40.000 4.63 4.63 43.97 3.02
2494 3106 5.849510 TCCGTCTCAAAATAAGTGTCTTGA 58.150 37.500 0.00 0.00 0.00 3.02
2495 3107 5.120830 CCTCCGTCTCAAAATAAGTGTCTTG 59.879 44.000 0.00 0.00 0.00 3.02
2496 3108 5.238583 CCTCCGTCTCAAAATAAGTGTCTT 58.761 41.667 0.00 0.00 0.00 3.01
2497 3109 4.322801 CCCTCCGTCTCAAAATAAGTGTCT 60.323 45.833 0.00 0.00 0.00 3.41
2498 3110 3.933332 CCCTCCGTCTCAAAATAAGTGTC 59.067 47.826 0.00 0.00 0.00 3.67
2499 3111 3.581332 TCCCTCCGTCTCAAAATAAGTGT 59.419 43.478 0.00 0.00 0.00 3.55
2500 3112 4.184629 CTCCCTCCGTCTCAAAATAAGTG 58.815 47.826 0.00 0.00 0.00 3.16
2501 3113 3.838903 ACTCCCTCCGTCTCAAAATAAGT 59.161 43.478 0.00 0.00 0.00 2.24
2502 3114 4.473477 ACTCCCTCCGTCTCAAAATAAG 57.527 45.455 0.00 0.00 0.00 1.73
2503 3115 6.555463 AATACTCCCTCCGTCTCAAAATAA 57.445 37.500 0.00 0.00 0.00 1.40
2504 3116 6.267014 CCTAATACTCCCTCCGTCTCAAAATA 59.733 42.308 0.00 0.00 0.00 1.40
2505 3117 5.070580 CCTAATACTCCCTCCGTCTCAAAAT 59.929 44.000 0.00 0.00 0.00 1.82
2506 3118 4.404715 CCTAATACTCCCTCCGTCTCAAAA 59.595 45.833 0.00 0.00 0.00 2.44
2507 3119 3.958798 CCTAATACTCCCTCCGTCTCAAA 59.041 47.826 0.00 0.00 0.00 2.69
2508 3120 3.053095 ACCTAATACTCCCTCCGTCTCAA 60.053 47.826 0.00 0.00 0.00 3.02
2509 3121 2.512896 ACCTAATACTCCCTCCGTCTCA 59.487 50.000 0.00 0.00 0.00 3.27
2510 3122 3.226682 ACCTAATACTCCCTCCGTCTC 57.773 52.381 0.00 0.00 0.00 3.36
2511 3123 3.684408 AACCTAATACTCCCTCCGTCT 57.316 47.619 0.00 0.00 0.00 4.18
2512 3124 4.081254 ACAAAACCTAATACTCCCTCCGTC 60.081 45.833 0.00 0.00 0.00 4.79
2513 3125 3.842436 ACAAAACCTAATACTCCCTCCGT 59.158 43.478 0.00 0.00 0.00 4.69
2514 3126 4.482952 ACAAAACCTAATACTCCCTCCG 57.517 45.455 0.00 0.00 0.00 4.63
2515 3127 7.666804 TGTTTTACAAAACCTAATACTCCCTCC 59.333 37.037 13.49 0.00 45.82 4.30
2516 3128 8.625786 TGTTTTACAAAACCTAATACTCCCTC 57.374 34.615 13.49 0.00 45.82 4.30
2517 3129 8.442374 TCTGTTTTACAAAACCTAATACTCCCT 58.558 33.333 13.49 0.00 45.82 4.20
2518 3130 8.625786 TCTGTTTTACAAAACCTAATACTCCC 57.374 34.615 13.49 0.00 45.82 4.30
2544 3156 2.290577 GCTGGGAACTCCTTCAATGTCT 60.291 50.000 0.00 0.00 36.20 3.41
2576 3188 6.127366 GGCATGGGATTTTGGTATGGTATATG 60.127 42.308 0.00 0.00 0.00 1.78
2738 3493 4.384056 CTTTCAGGTCAAGAGAAAGCAGA 58.616 43.478 0.00 0.00 40.97 4.26
2831 3586 8.581253 AAAGCTTAGCTATAAGTCCATGTTTT 57.419 30.769 7.32 0.00 38.25 2.43
2852 3607 5.961396 AGATCCTGCATCATTATGAAAGC 57.039 39.130 13.61 13.61 34.84 3.51
3057 3816 0.464373 AACAGTGTCTGTGCACAGGG 60.464 55.000 39.04 26.31 44.62 4.45
3067 3826 1.656587 TGGCCCATAGAACAGTGTCT 58.343 50.000 0.00 0.00 0.00 3.41
3145 3909 7.664731 CAGATTGGAAATGGTATCTATTCTGCT 59.335 37.037 0.00 0.00 32.72 4.24
3193 3957 7.445402 CACAACCTTGGAACCCAGAATATATAG 59.555 40.741 0.00 0.00 33.81 1.31
3393 4928 7.220740 TGTAATTGTGAACTTACAGACCATGA 58.779 34.615 0.00 0.00 33.96 3.07
3446 4982 1.269726 CGTTTGCTTTGCTCCAATGGT 60.270 47.619 0.00 0.00 0.00 3.55
3451 4987 2.124060 TGGCGTTTGCTTTGCTCCA 61.124 52.632 0.00 0.00 42.25 3.86
3472 5008 3.858812 GCAATGATAAAGCATTTGTGCGA 59.141 39.130 0.00 0.00 39.63 5.10
3481 5017 3.768215 TGGTGGATTGCAATGATAAAGCA 59.232 39.130 18.59 9.96 36.32 3.91
3524 5060 1.065600 GCACGCTTGTTTGCTCCAA 59.934 52.632 0.00 0.00 35.74 3.53
3544 5080 8.499162 CAGCAATATAGGTATAGCAAGAACAAC 58.501 37.037 4.48 0.00 0.00 3.32
3548 5084 7.009179 AGCAGCAATATAGGTATAGCAAGAA 57.991 36.000 4.48 0.00 0.00 2.52
3737 5284 1.530323 GGTATTGACGGGTGTTTGCT 58.470 50.000 0.00 0.00 0.00 3.91
3863 5410 7.115520 GCAAAAGCTCAAGAGGTAGAATTTTTC 59.884 37.037 1.79 0.00 38.35 2.29


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

AutoCloner maintained by Alex Coulton.