Multiple sequence alignment - TraesCS6B01G376900

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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 TraesCS6B01G376900 chr6B 100.000 2459 0 0 1 2459 651989853 651992311 0.000000e+00 4542
1 TraesCS6B01G376900 chr6B 95.714 140 5 1 2321 2459 377824620 377824759 8.850000e-55 224
2 TraesCS6B01G376900 chr6D 88.257 1635 99 46 567 2162 431855947 431857527 0.000000e+00 1869
3 TraesCS6B01G376900 chr6D 82.593 563 86 9 29 586 431855381 431855936 1.020000e-133 486
4 TraesCS6B01G376900 chrUn 89.432 1268 75 31 749 1973 74601926 74603177 0.000000e+00 1544
5 TraesCS6B01G376900 chrUn 86.035 623 69 13 5 619 74601167 74601779 0.000000e+00 652
6 TraesCS6B01G376900 chrUn 89.286 168 17 1 2160 2326 74603472 74603639 2.480000e-50 209
7 TraesCS6B01G376900 chr1B 87.220 939 77 29 786 1708 641523818 641522907 0.000000e+00 1029
8 TraesCS6B01G376900 chr1B 89.819 717 51 12 845 1548 620551513 620552220 0.000000e+00 900
9 TraesCS6B01G376900 chr1B 88.026 760 63 20 991 1742 610558417 610559156 0.000000e+00 874
10 TraesCS6B01G376900 chr1B 91.785 633 38 7 845 1464 620129993 620129362 0.000000e+00 869
11 TraesCS6B01G376900 chr1B 95.139 144 5 2 2317 2459 24356508 24356366 2.460000e-55 226
12 TraesCS6B01G376900 chr1A 89.024 820 55 24 786 1581 557099862 557099054 0.000000e+00 983
13 TraesCS6B01G376900 chr1A 88.000 775 65 14 845 1601 546212257 546213021 0.000000e+00 891
14 TraesCS6B01G376900 chr1A 97.037 135 3 1 2326 2459 540335916 540335782 2.460000e-55 226
15 TraesCS6B01G376900 chr1D 85.518 946 81 32 786 1705 464802741 464801826 0.000000e+00 937
16 TraesCS6B01G376900 chr1D 88.015 776 62 22 845 1601 451524484 451525247 0.000000e+00 889
17 TraesCS6B01G376900 chr5D 97.059 136 3 1 2324 2459 58227912 58228046 6.840000e-56 228
18 TraesCS6B01G376900 chr5D 96.324 136 5 0 2324 2459 450406251 450406386 8.850000e-55 224
19 TraesCS6B01G376900 chr5A 97.037 135 3 1 2326 2459 228892254 228892388 2.460000e-55 226
20 TraesCS6B01G376900 chr2A 97.015 134 3 1 2327 2459 203721046 203721179 8.850000e-55 224
21 TraesCS6B01G376900 chr6A 95.070 142 5 2 2320 2459 452267802 452267943 3.180000e-54 222
22 TraesCS6B01G376900 chr4B 93.793 145 7 2 2316 2459 517442460 517442317 1.480000e-52 217


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 TraesCS6B01G376900 chr6B 651989853 651992311 2458 False 4542.000000 4542 100.000 1 2459 1 chr6B.!!$F2 2458
1 TraesCS6B01G376900 chr6D 431855381 431857527 2146 False 1177.500000 1869 85.425 29 2162 2 chr6D.!!$F1 2133
2 TraesCS6B01G376900 chrUn 74601167 74603639 2472 False 801.666667 1544 88.251 5 2326 3 chrUn.!!$F1 2321
3 TraesCS6B01G376900 chr1B 641522907 641523818 911 True 1029.000000 1029 87.220 786 1708 1 chr1B.!!$R3 922
4 TraesCS6B01G376900 chr1B 620551513 620552220 707 False 900.000000 900 89.819 845 1548 1 chr1B.!!$F2 703
5 TraesCS6B01G376900 chr1B 610558417 610559156 739 False 874.000000 874 88.026 991 1742 1 chr1B.!!$F1 751
6 TraesCS6B01G376900 chr1B 620129362 620129993 631 True 869.000000 869 91.785 845 1464 1 chr1B.!!$R2 619
7 TraesCS6B01G376900 chr1A 557099054 557099862 808 True 983.000000 983 89.024 786 1581 1 chr1A.!!$R2 795
8 TraesCS6B01G376900 chr1A 546212257 546213021 764 False 891.000000 891 88.000 845 1601 1 chr1A.!!$F1 756
9 TraesCS6B01G376900 chr1D 464801826 464802741 915 True 937.000000 937 85.518 786 1705 1 chr1D.!!$R1 919
10 TraesCS6B01G376900 chr1D 451524484 451525247 763 False 889.000000 889 88.015 845 1601 1 chr1D.!!$F1 756

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
586 598 0.044397 GGGAAGGGAGGGGAAGTACT 59.956 60.0 0.0 0.0 0.0 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2362 2770 0.035317 TCCGATCCTACATGGCATGC 59.965 55.0 26.7 9.9 35.26 4.06 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
27 28 1.098050 AATTGCTCCACTCAATCGCC 58.902 50.000 0.00 0.00 33.41 5.54
101 103 4.884668 ATCCGTGTTCTCCTCTTTAACA 57.115 40.909 0.00 0.00 0.00 2.41
102 104 4.884668 TCCGTGTTCTCCTCTTTAACAT 57.115 40.909 0.00 0.00 35.72 2.71
104 106 5.235516 TCCGTGTTCTCCTCTTTAACATTC 58.764 41.667 0.00 0.00 35.72 2.67
157 163 1.444212 CAATCAAAAGGGTGCGCGG 60.444 57.895 8.83 0.00 0.00 6.46
158 164 1.901464 AATCAAAAGGGTGCGCGGT 60.901 52.632 8.83 0.00 0.00 5.68
174 180 2.094575 CGCGGTCGATGTAAAAATTCCA 59.905 45.455 0.00 0.00 38.10 3.53
184 191 9.184523 TCGATGTAAAAATTCCAACAATCCTAT 57.815 29.630 0.00 0.00 0.00 2.57
186 193 9.533253 GATGTAAAAATTCCAACAATCCTATGG 57.467 33.333 0.00 0.00 35.49 2.74
203 210 7.907841 TCCTATGGCTACAACATAGAAACTA 57.092 36.000 12.60 0.00 46.77 2.24
239 246 9.453572 AACTAATGCAAATTTAGACTCATCAGA 57.546 29.630 11.59 0.00 32.25 3.27
240 247 9.624373 ACTAATGCAAATTTAGACTCATCAGAT 57.376 29.630 11.59 0.00 32.25 2.90
255 263 4.899239 GATGCGTGGGAGGCCTCG 62.899 72.222 26.36 16.71 0.00 4.63
294 303 0.739561 GTCACGACGATAGGAGCCTT 59.260 55.000 0.00 0.00 43.77 4.35
303 314 2.562973 ATAGGAGCCTTCCCCGGGTT 62.563 60.000 21.85 0.00 45.24 4.11
336 347 3.110705 ACCACTACTGGATTCATGCTCT 58.889 45.455 0.00 0.00 40.55 4.09
338 349 4.018960 ACCACTACTGGATTCATGCTCTTT 60.019 41.667 0.00 0.00 40.55 2.52
359 370 1.597742 ATGCATGGATGTAACCGAGC 58.402 50.000 0.00 0.00 34.49 5.03
371 382 4.033776 CCGAGCTTGAGGGCCCAA 62.034 66.667 27.56 9.85 0.00 4.12
373 384 2.759795 GAGCTTGAGGGCCCAAGT 59.240 61.111 27.56 1.91 43.96 3.16
374 385 1.075659 GAGCTTGAGGGCCCAAGTT 59.924 57.895 27.56 18.02 43.96 2.66
375 386 0.540597 GAGCTTGAGGGCCCAAGTTT 60.541 55.000 27.56 12.19 43.96 2.66
376 387 0.105504 AGCTTGAGGGCCCAAGTTTT 60.106 50.000 27.56 0.00 43.96 2.43
400 411 1.118965 TTGTCCCTCCTGAGCACGAA 61.119 55.000 0.00 0.00 0.00 3.85
401 412 1.079750 GTCCCTCCTGAGCACGAAC 60.080 63.158 0.00 0.00 0.00 3.95
426 437 0.824759 CGAGGGTCCCTTCGAAGATT 59.175 55.000 26.61 4.90 35.04 2.40
441 452 3.006537 CGAAGATTTCCTTAGCCCCGATA 59.993 47.826 0.00 0.00 34.68 2.92
452 463 0.321671 GCCCCGATAGCTGCAATCTA 59.678 55.000 1.02 0.00 0.00 1.98
471 482 2.215451 ATTCCAAGCGAGGCCCATGT 62.215 55.000 0.00 0.00 0.00 3.21
494 505 0.105778 TCGCAGAACACCATCACACA 59.894 50.000 0.00 0.00 0.00 3.72
497 508 1.532868 GCAGAACACCATCACACAGTC 59.467 52.381 0.00 0.00 0.00 3.51
500 511 1.532868 GAACACCATCACACAGTCTGC 59.467 52.381 0.00 0.00 0.00 4.26
511 522 1.737735 CAGTCTGCGGCGACATCAA 60.738 57.895 12.98 0.00 36.38 2.57
516 527 0.168788 CTGCGGCGACATCAAACAAT 59.831 50.000 12.98 0.00 0.00 2.71
521 532 2.253603 GGCGACATCAAACAATTGCTC 58.746 47.619 5.05 0.00 36.45 4.26
530 541 6.716628 ACATCAAACAATTGCTCTAGAGGAAA 59.283 34.615 27.64 12.01 41.99 3.13
543 554 2.787994 AGAGGAAACGTTCGAGGACTA 58.212 47.619 0.00 0.00 0.00 2.59
552 564 2.029649 CGTTCGAGGACTAAGAACCCAA 60.030 50.000 11.82 0.00 40.62 4.12
561 573 3.483421 ACTAAGAACCCAAAACCCGAAG 58.517 45.455 0.00 0.00 0.00 3.79
586 598 0.044397 GGGAAGGGAGGGGAAGTACT 59.956 60.000 0.00 0.00 0.00 2.73
602 644 4.002906 AGTACTTGAATCGAGGTTGCAA 57.997 40.909 0.00 0.00 0.00 4.08
648 697 2.303600 TCGGGCCACAAGTAACATAGTT 59.696 45.455 4.39 0.00 0.00 2.24
745 808 6.890814 TCCCAAAAAGACTACAAAAGGTGTAA 59.109 34.615 0.00 0.00 42.23 2.41
811 914 3.860930 AAATTCCCGCCAGCCACGT 62.861 57.895 0.00 0.00 0.00 4.49
818 921 1.231958 CCGCCAGCCACGTAGAAAAA 61.232 55.000 0.00 0.00 0.00 1.94
863 966 2.064723 CGTCATCGATCCGAGGCACT 62.065 60.000 8.00 0.00 39.91 4.40
951 1058 1.139498 TCTGCAATTCCCCACCTCCA 61.139 55.000 0.00 0.00 0.00 3.86
966 1079 0.955919 CTCCAAGCGAAACACCTCCC 60.956 60.000 0.00 0.00 0.00 4.30
967 1080 1.228124 CCAAGCGAAACACCTCCCA 60.228 57.895 0.00 0.00 0.00 4.37
1468 1612 3.888930 CACCTCCTCCTAGACTGAATCTC 59.111 52.174 0.00 0.00 39.04 2.75
1469 1613 3.791545 ACCTCCTCCTAGACTGAATCTCT 59.208 47.826 0.00 0.00 39.04 3.10
1472 1616 5.458069 CCTCCTCCTAGACTGAATCTCTGAT 60.458 48.000 0.00 0.00 39.04 2.90
1487 1635 0.453282 CTGATTGCGTCGCCTTGTTG 60.453 55.000 15.88 0.00 0.00 3.33
1488 1636 1.163420 TGATTGCGTCGCCTTGTTGT 61.163 50.000 15.88 0.00 0.00 3.32
1489 1637 0.040425 GATTGCGTCGCCTTGTTGTT 60.040 50.000 15.88 0.00 0.00 2.83
1490 1638 0.040425 ATTGCGTCGCCTTGTTGTTC 60.040 50.000 15.88 0.00 0.00 3.18
1491 1639 2.054140 TTGCGTCGCCTTGTTGTTCC 62.054 55.000 15.88 0.00 0.00 3.62
1492 1640 2.539338 GCGTCGCCTTGTTGTTCCA 61.539 57.895 5.75 0.00 0.00 3.53
1493 1641 2.018544 CGTCGCCTTGTTGTTCCAA 58.981 52.632 0.00 0.00 0.00 3.53
1494 1642 0.378962 CGTCGCCTTGTTGTTCCAAA 59.621 50.000 0.00 0.00 0.00 3.28
1495 1643 1.001815 CGTCGCCTTGTTGTTCCAAAT 60.002 47.619 0.00 0.00 0.00 2.32
1496 1644 2.393764 GTCGCCTTGTTGTTCCAAATG 58.606 47.619 0.00 0.00 0.00 2.32
1497 1645 2.028130 TCGCCTTGTTGTTCCAAATGT 58.972 42.857 0.00 0.00 0.00 2.71
1498 1646 3.003897 GTCGCCTTGTTGTTCCAAATGTA 59.996 43.478 0.00 0.00 0.00 2.29
1568 1801 0.099436 GTGGATGATTGCCAACGCTC 59.901 55.000 0.00 0.00 37.12 5.03
1662 1910 2.034305 AGTCGTGGTTCTATATCCGTGC 59.966 50.000 0.00 0.00 0.00 5.34
1697 1946 5.376625 TGACTGATGTTGGCTTTTCTACTT 58.623 37.500 0.00 0.00 0.00 2.24
1739 1989 2.300152 TGTCCGGCCAATTTGCATTTTA 59.700 40.909 2.24 0.00 0.00 1.52
1746 1996 2.033832 CCAATTTGCATTTTATCCGCGC 60.034 45.455 0.00 0.00 0.00 6.86
1747 1997 1.851658 ATTTGCATTTTATCCGCGCC 58.148 45.000 0.00 0.00 0.00 6.53
1748 1998 0.528017 TTTGCATTTTATCCGCGCCA 59.472 45.000 0.00 0.00 0.00 5.69
1789 2075 7.664082 ACTGAGATGCGATTTAGAATAATGG 57.336 36.000 0.00 0.00 0.00 3.16
1790 2076 6.148480 ACTGAGATGCGATTTAGAATAATGGC 59.852 38.462 0.00 0.00 39.01 4.40
1793 2079 2.096466 TGCGATTTAGAATAATGGCGCG 60.096 45.455 0.00 0.00 45.39 6.86
1806 2096 1.231296 TGGCGCGTTGATGCTGTTTA 61.231 50.000 8.43 0.00 0.00 2.01
1809 2099 1.813896 CGCGTTGATGCTGTTTATGG 58.186 50.000 0.00 0.00 0.00 2.74
1820 2110 6.939730 TGATGCTGTTTATGGTTTCTTCAGTA 59.060 34.615 0.00 0.00 0.00 2.74
1951 2246 1.126846 GTTCCGTTTCTGCACGAGATG 59.873 52.381 0.00 0.00 43.15 2.90
1965 2260 1.734465 CGAGATGGAGAAAACCAGTGC 59.266 52.381 0.00 0.00 43.49 4.40
1983 2325 0.242017 GCTCAGTGGAACATGGCAAC 59.758 55.000 0.00 0.00 44.52 4.17
1995 2337 0.813184 ATGGCAACGCAGAATTGAGG 59.187 50.000 0.00 0.00 42.51 3.86
2025 2367 6.040278 TGGCATGTCTTGTTCTTGTTTTATCA 59.960 34.615 0.00 0.00 0.00 2.15
2026 2368 6.363357 GGCATGTCTTGTTCTTGTTTTATCAC 59.637 38.462 0.00 0.00 0.00 3.06
2083 2450 6.000840 TGCAATTAGTGTCAGTCAATTGGTA 58.999 36.000 5.42 0.00 38.32 3.25
2084 2451 6.149308 TGCAATTAGTGTCAGTCAATTGGTAG 59.851 38.462 5.42 0.00 38.32 3.18
2085 2452 6.371548 GCAATTAGTGTCAGTCAATTGGTAGA 59.628 38.462 5.42 0.00 38.32 2.59
2086 2453 7.413438 GCAATTAGTGTCAGTCAATTGGTAGAG 60.413 40.741 5.42 0.00 38.32 2.43
2113 2480 0.179009 TCTGCAACAGCTTGGCTTCT 60.179 50.000 3.06 0.00 36.40 2.85
2120 2487 2.225467 ACAGCTTGGCTTCTCTGTTTC 58.775 47.619 0.00 0.00 36.40 2.78
2128 2495 2.560105 GGCTTCTCTGTTTCATTGCCTT 59.440 45.455 0.00 0.00 36.52 4.35
2198 2605 6.772716 TGGCTTTGTCTTTGAAGAGATACTTT 59.227 34.615 0.00 0.00 39.13 2.66
2203 2610 7.303182 TGTCTTTGAAGAGATACTTTGGAGA 57.697 36.000 0.00 0.00 39.13 3.71
2206 2613 7.494298 GTCTTTGAAGAGATACTTTGGAGATCC 59.506 40.741 0.00 0.00 39.13 3.36
2234 2641 3.486263 GGATCAACAACGGAGCCG 58.514 61.111 7.48 7.48 46.03 5.52
2238 2645 3.645975 CAACAACGGAGCCGCGTT 61.646 61.111 9.14 9.91 44.19 4.84
2249 2656 2.664851 CCGCGTTGAGCTTGGACA 60.665 61.111 4.92 0.00 45.59 4.02
2291 2699 1.600023 TACTTTGGTGACCGCTTTGG 58.400 50.000 0.00 0.00 46.41 3.28
2302 2710 1.358759 CGCTTTGGTGGTGTTGGAC 59.641 57.895 0.00 0.00 0.00 4.02
2307 2715 0.333312 TTGGTGGTGTTGGACAAGGT 59.667 50.000 0.00 0.00 0.00 3.50
2311 2719 2.306847 GTGGTGTTGGACAAGGTTGAT 58.693 47.619 0.00 0.00 0.00 2.57
2312 2720 2.034558 GTGGTGTTGGACAAGGTTGATG 59.965 50.000 0.00 0.00 0.00 3.07
2326 2734 1.404391 GTTGATGGAAGCTGGCATCAG 59.596 52.381 0.00 0.00 43.64 2.90
2327 2735 0.106868 TGATGGAAGCTGGCATCAGG 60.107 55.000 0.00 0.00 41.19 3.86
2328 2736 0.822532 GATGGAAGCTGGCATCAGGG 60.823 60.000 0.00 0.00 41.19 4.45
2329 2737 2.832201 GGAAGCTGGCATCAGGGC 60.832 66.667 0.00 0.00 41.19 5.19
2336 2744 4.984194 GGCATCAGGGCATGTACA 57.016 55.556 0.00 0.00 42.77 2.90
2337 2745 3.189568 GGCATCAGGGCATGTACAA 57.810 52.632 0.00 0.00 42.77 2.41
2338 2746 1.696063 GGCATCAGGGCATGTACAAT 58.304 50.000 0.00 0.00 42.77 2.71
2339 2747 1.338973 GGCATCAGGGCATGTACAATG 59.661 52.381 0.00 0.00 42.77 2.82
2340 2748 1.269413 GCATCAGGGCATGTACAATGC 60.269 52.381 17.01 17.01 43.85 3.56
2341 2749 2.025898 CATCAGGGCATGTACAATGCA 58.974 47.619 22.92 0.00 46.21 3.96
2342 2750 2.440517 TCAGGGCATGTACAATGCAT 57.559 45.000 22.92 13.25 46.21 3.96
2343 2751 3.574354 TCAGGGCATGTACAATGCATA 57.426 42.857 22.92 9.25 46.21 3.14
2344 2752 3.479489 TCAGGGCATGTACAATGCATAG 58.521 45.455 22.92 15.02 46.21 2.23
2345 2753 2.030540 CAGGGCATGTACAATGCATAGC 60.031 50.000 22.92 11.42 46.21 2.97
2346 2754 1.270550 GGGCATGTACAATGCATAGCC 59.729 52.381 22.92 16.30 46.21 3.93
2347 2755 2.233271 GGCATGTACAATGCATAGCCT 58.767 47.619 22.92 0.00 46.21 4.58
2348 2756 2.227388 GGCATGTACAATGCATAGCCTC 59.773 50.000 22.92 7.94 46.21 4.70
2349 2757 2.880268 GCATGTACAATGCATAGCCTCA 59.120 45.455 19.12 0.00 44.00 3.86
2350 2758 3.316029 GCATGTACAATGCATAGCCTCAA 59.684 43.478 19.12 0.00 44.00 3.02
2351 2759 4.556104 GCATGTACAATGCATAGCCTCAAG 60.556 45.833 19.12 0.00 44.00 3.02
2352 2760 3.544684 TGTACAATGCATAGCCTCAAGG 58.455 45.455 0.00 0.00 38.53 3.61
2353 2761 2.814805 ACAATGCATAGCCTCAAGGT 57.185 45.000 0.00 0.00 37.57 3.50
2354 2762 2.372264 ACAATGCATAGCCTCAAGGTG 58.628 47.619 0.00 0.00 37.57 4.00
2355 2763 2.025981 ACAATGCATAGCCTCAAGGTGA 60.026 45.455 0.00 0.00 37.57 4.02
2356 2764 3.220110 CAATGCATAGCCTCAAGGTGAT 58.780 45.455 0.00 0.00 37.57 3.06
2357 2765 2.336945 TGCATAGCCTCAAGGTGATG 57.663 50.000 0.00 3.41 37.57 3.07
2358 2766 0.950116 GCATAGCCTCAAGGTGATGC 59.050 55.000 16.47 16.47 43.18 3.91
2359 2767 1.602311 CATAGCCTCAAGGTGATGCC 58.398 55.000 0.00 0.00 38.54 4.40
2373 2781 2.588989 TGCCTCGCATGCCATGTA 59.411 55.556 13.15 0.00 31.71 2.29
2374 2782 1.524393 TGCCTCGCATGCCATGTAG 60.524 57.895 13.15 4.55 31.71 2.74
2375 2783 2.256591 GCCTCGCATGCCATGTAGG 61.257 63.158 18.53 18.53 38.09 3.18
2376 2784 1.447217 CCTCGCATGCCATGTAGGA 59.553 57.895 18.19 8.22 41.22 2.94
2377 2785 0.035881 CCTCGCATGCCATGTAGGAT 59.964 55.000 18.19 0.00 41.22 3.24
2378 2786 1.436600 CTCGCATGCCATGTAGGATC 58.563 55.000 13.15 0.00 41.22 3.36
2379 2787 0.319813 TCGCATGCCATGTAGGATCG 60.320 55.000 13.15 0.23 41.22 3.69
2380 2788 1.293963 CGCATGCCATGTAGGATCGG 61.294 60.000 13.15 0.00 41.22 4.18
2381 2789 0.035317 GCATGCCATGTAGGATCGGA 59.965 55.000 6.36 0.00 41.22 4.55
2382 2790 1.339438 GCATGCCATGTAGGATCGGAT 60.339 52.381 6.36 0.00 41.22 4.18
2383 2791 2.093500 GCATGCCATGTAGGATCGGATA 60.093 50.000 6.36 0.00 41.22 2.59
2384 2792 3.432749 GCATGCCATGTAGGATCGGATAT 60.433 47.826 6.36 0.00 41.22 1.63
2385 2793 3.893326 TGCCATGTAGGATCGGATATG 57.107 47.619 0.00 0.00 41.22 1.78
2386 2794 3.440127 TGCCATGTAGGATCGGATATGA 58.560 45.455 0.00 0.00 41.22 2.15
2387 2795 3.195610 TGCCATGTAGGATCGGATATGAC 59.804 47.826 0.00 0.00 41.22 3.06
2388 2796 3.735208 GCCATGTAGGATCGGATATGACG 60.735 52.174 0.00 0.00 41.22 4.35
2389 2797 3.444034 CCATGTAGGATCGGATATGACGT 59.556 47.826 0.00 0.00 41.22 4.34
2390 2798 4.638865 CCATGTAGGATCGGATATGACGTA 59.361 45.833 0.00 0.00 41.22 3.57
2391 2799 5.124936 CCATGTAGGATCGGATATGACGTAA 59.875 44.000 0.00 0.00 41.22 3.18
2392 2800 6.349860 CCATGTAGGATCGGATATGACGTAAA 60.350 42.308 0.00 0.00 41.22 2.01
2393 2801 6.250344 TGTAGGATCGGATATGACGTAAAG 57.750 41.667 0.00 0.00 0.00 1.85
2394 2802 5.766670 TGTAGGATCGGATATGACGTAAAGT 59.233 40.000 0.00 0.00 0.00 2.66
2395 2803 6.936335 TGTAGGATCGGATATGACGTAAAGTA 59.064 38.462 0.00 0.00 0.00 2.24
2396 2804 6.497785 AGGATCGGATATGACGTAAAGTAG 57.502 41.667 0.00 0.00 0.00 2.57
2397 2805 5.415077 AGGATCGGATATGACGTAAAGTAGG 59.585 44.000 0.00 0.00 0.00 3.18
2398 2806 5.182760 GGATCGGATATGACGTAAAGTAGGT 59.817 44.000 0.00 0.00 0.00 3.08
2399 2807 6.294397 GGATCGGATATGACGTAAAGTAGGTT 60.294 42.308 0.00 0.00 0.00 3.50
2400 2808 6.064846 TCGGATATGACGTAAAGTAGGTTC 57.935 41.667 0.00 0.00 0.00 3.62
2401 2809 5.589855 TCGGATATGACGTAAAGTAGGTTCA 59.410 40.000 0.00 0.00 0.00 3.18
2402 2810 5.913514 CGGATATGACGTAAAGTAGGTTCAG 59.086 44.000 0.00 0.00 0.00 3.02
2403 2811 6.238566 CGGATATGACGTAAAGTAGGTTCAGA 60.239 42.308 0.00 0.00 0.00 3.27
2404 2812 7.521748 CGGATATGACGTAAAGTAGGTTCAGAT 60.522 40.741 0.00 0.00 0.00 2.90
2405 2813 8.790718 GGATATGACGTAAAGTAGGTTCAGATA 58.209 37.037 0.00 0.00 0.00 1.98
2408 2816 6.860080 TGACGTAAAGTAGGTTCAGATAAGG 58.140 40.000 0.00 0.00 0.00 2.69
2409 2817 6.660521 TGACGTAAAGTAGGTTCAGATAAGGA 59.339 38.462 0.00 0.00 0.00 3.36
2410 2818 7.177216 TGACGTAAAGTAGGTTCAGATAAGGAA 59.823 37.037 0.00 0.00 0.00 3.36
2411 2819 7.545489 ACGTAAAGTAGGTTCAGATAAGGAAG 58.455 38.462 0.00 0.00 0.00 3.46
2412 2820 6.476053 CGTAAAGTAGGTTCAGATAAGGAAGC 59.524 42.308 0.00 0.00 41.72 3.86
2413 2821 4.657436 AGTAGGTTCAGATAAGGAAGCG 57.343 45.455 0.00 0.00 44.97 4.68
2414 2822 2.990066 AGGTTCAGATAAGGAAGCGG 57.010 50.000 0.00 0.00 44.97 5.52
2415 2823 1.486726 AGGTTCAGATAAGGAAGCGGG 59.513 52.381 0.00 0.00 44.97 6.13
2416 2824 1.485066 GGTTCAGATAAGGAAGCGGGA 59.515 52.381 0.00 0.00 33.69 5.14
2417 2825 2.104963 GGTTCAGATAAGGAAGCGGGAT 59.895 50.000 0.00 0.00 33.69 3.85
2418 2826 3.394719 GTTCAGATAAGGAAGCGGGATC 58.605 50.000 0.00 0.00 0.00 3.36
2419 2827 1.971357 TCAGATAAGGAAGCGGGATCC 59.029 52.381 1.92 1.92 37.22 3.36
2421 2829 2.028567 CAGATAAGGAAGCGGGATCCTC 60.029 54.545 12.58 4.01 46.65 3.71
2422 2830 2.158234 AGATAAGGAAGCGGGATCCTCT 60.158 50.000 12.58 6.48 46.65 3.69
2423 2831 2.176247 TAAGGAAGCGGGATCCTCTT 57.824 50.000 12.58 14.81 46.65 2.85
2424 2832 1.290134 AAGGAAGCGGGATCCTCTTT 58.710 50.000 12.58 0.75 46.65 2.52
2425 2833 2.176247 AGGAAGCGGGATCCTCTTTA 57.824 50.000 12.58 0.00 44.01 1.85
2426 2834 2.043227 AGGAAGCGGGATCCTCTTTAG 58.957 52.381 12.58 0.00 44.01 1.85
2427 2835 1.070914 GGAAGCGGGATCCTCTTTAGG 59.929 57.143 12.58 0.00 45.21 2.69
2437 2845 1.153349 CTCTTTAGGAGGCGGGTGC 60.153 63.158 0.00 0.00 38.35 5.01
2438 2846 1.612442 TCTTTAGGAGGCGGGTGCT 60.612 57.895 0.00 0.00 42.25 4.40
2439 2847 1.198759 TCTTTAGGAGGCGGGTGCTT 61.199 55.000 0.00 0.00 42.25 3.91
2440 2848 1.002624 TTTAGGAGGCGGGTGCTTG 60.003 57.895 0.00 0.00 42.25 4.01
2441 2849 1.485294 TTTAGGAGGCGGGTGCTTGA 61.485 55.000 0.00 0.00 42.25 3.02
2442 2850 1.485294 TTAGGAGGCGGGTGCTTGAA 61.485 55.000 0.00 0.00 42.25 2.69
2443 2851 1.485294 TAGGAGGCGGGTGCTTGAAA 61.485 55.000 0.00 0.00 42.25 2.69
2444 2852 2.335712 GGAGGCGGGTGCTTGAAAG 61.336 63.158 0.00 0.00 42.25 2.62
2445 2853 1.302511 GAGGCGGGTGCTTGAAAGA 60.303 57.895 0.00 0.00 42.25 2.52
2446 2854 0.889186 GAGGCGGGTGCTTGAAAGAA 60.889 55.000 0.00 0.00 42.25 2.52
2447 2855 0.467290 AGGCGGGTGCTTGAAAGAAA 60.467 50.000 0.00 0.00 42.25 2.52
2448 2856 0.387565 GGCGGGTGCTTGAAAGAAAA 59.612 50.000 0.00 0.00 42.25 2.29
2449 2857 1.202475 GGCGGGTGCTTGAAAGAAAAA 60.202 47.619 0.00 0.00 42.25 1.94
2450 2858 2.127251 GCGGGTGCTTGAAAGAAAAAG 58.873 47.619 0.00 0.00 38.39 2.27
2451 2859 2.481276 GCGGGTGCTTGAAAGAAAAAGT 60.481 45.455 0.00 0.00 38.39 2.66
2452 2860 3.115554 CGGGTGCTTGAAAGAAAAAGTG 58.884 45.455 0.00 0.00 0.00 3.16
2453 2861 3.428862 CGGGTGCTTGAAAGAAAAAGTGT 60.429 43.478 0.00 0.00 0.00 3.55
2454 2862 3.865164 GGGTGCTTGAAAGAAAAAGTGTG 59.135 43.478 0.00 0.00 0.00 3.82
2455 2863 3.865164 GGTGCTTGAAAGAAAAAGTGTGG 59.135 43.478 0.00 0.00 0.00 4.17
2456 2864 4.494484 GTGCTTGAAAGAAAAAGTGTGGT 58.506 39.130 0.00 0.00 0.00 4.16
2457 2865 4.562789 GTGCTTGAAAGAAAAAGTGTGGTC 59.437 41.667 0.00 0.00 0.00 4.02
2458 2866 4.112634 GCTTGAAAGAAAAAGTGTGGTCC 58.887 43.478 0.00 0.00 0.00 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 7.383572 CGTGATGGAAACCTATCATAAAGAGAG 59.616 40.741 0.00 0.00 35.91 3.20
157 163 7.312899 AGGATTGTTGGAATTTTTACATCGAC 58.687 34.615 0.00 0.00 0.00 4.20
158 164 7.461182 AGGATTGTTGGAATTTTTACATCGA 57.539 32.000 0.00 0.00 0.00 3.59
174 180 7.136822 TCTATGTTGTAGCCATAGGATTGTT 57.863 36.000 7.39 0.00 41.29 2.83
184 191 7.228590 ACCTTTTAGTTTCTATGTTGTAGCCA 58.771 34.615 0.00 0.00 0.00 4.75
255 263 2.743928 CTCAGTTGGGGAGCGTGC 60.744 66.667 0.00 0.00 0.00 5.34
303 314 3.533079 TAGTGGTGTCCCCTCGGCA 62.533 63.158 0.00 0.00 0.00 5.69
315 326 3.110705 AGAGCATGAATCCAGTAGTGGT 58.889 45.455 16.36 0.00 45.28 4.16
336 347 4.036262 GCTCGGTTACATCCATGCATAAAA 59.964 41.667 0.00 0.00 0.00 1.52
338 349 3.138304 GCTCGGTTACATCCATGCATAA 58.862 45.455 0.00 0.00 0.00 1.90
351 362 2.666098 GGGCCCTCAAGCTCGGTTA 61.666 63.158 17.04 0.00 0.00 2.85
378 389 1.813862 CGTGCTCAGGAGGGACAAAAA 60.814 52.381 0.00 0.00 0.00 1.94
379 390 0.250295 CGTGCTCAGGAGGGACAAAA 60.250 55.000 0.00 0.00 0.00 2.44
380 391 1.118965 TCGTGCTCAGGAGGGACAAA 61.119 55.000 0.00 0.00 0.00 2.83
381 392 1.118965 TTCGTGCTCAGGAGGGACAA 61.119 55.000 0.00 0.00 0.00 3.18
388 399 4.373116 GGCGGTTCGTGCTCAGGA 62.373 66.667 0.00 0.00 0.00 3.86
420 431 3.493767 ATCGGGGCTAAGGAAATCTTC 57.506 47.619 0.00 0.00 36.93 2.87
426 437 1.048601 CAGCTATCGGGGCTAAGGAA 58.951 55.000 0.00 0.00 38.03 3.36
441 452 1.945394 CGCTTGGAATAGATTGCAGCT 59.055 47.619 12.57 0.00 39.29 4.24
452 463 1.454479 CATGGGCCTCGCTTGGAAT 60.454 57.895 4.53 0.00 0.00 3.01
471 482 0.032815 TGATGGTGTTCTGCGACGAA 59.967 50.000 0.00 0.00 0.00 3.85
494 505 1.005037 TTTGATGTCGCCGCAGACT 60.005 52.632 13.80 3.37 41.47 3.24
497 508 0.168788 ATTGTTTGATGTCGCCGCAG 59.831 50.000 0.00 0.00 0.00 5.18
500 511 0.984109 GCAATTGTTTGATGTCGCCG 59.016 50.000 7.40 0.00 34.60 6.46
511 522 4.642429 ACGTTTCCTCTAGAGCAATTGTT 58.358 39.130 14.73 0.00 0.00 2.83
516 527 2.555325 TCGAACGTTTCCTCTAGAGCAA 59.445 45.455 14.73 2.50 0.00 3.91
521 532 2.748532 AGTCCTCGAACGTTTCCTCTAG 59.251 50.000 0.46 0.00 0.00 2.43
530 541 1.543358 GGGTTCTTAGTCCTCGAACGT 59.457 52.381 0.00 0.00 38.27 3.99
543 554 1.699730 CCTTCGGGTTTTGGGTTCTT 58.300 50.000 0.00 0.00 0.00 2.52
561 573 2.764547 CCCTCCCTTCCCTCGACC 60.765 72.222 0.00 0.00 0.00 4.79
563 575 2.531483 CTTCCCCTCCCTTCCCTCGA 62.531 65.000 0.00 0.00 0.00 4.04
586 598 4.130857 TGTACTTTGCAACCTCGATTCAA 58.869 39.130 0.00 0.00 0.00 2.69
602 644 1.000955 CGAGAGGCCACAGTTGTACTT 59.999 52.381 5.01 0.00 0.00 2.24
624 666 0.320374 TGTTACTTGTGGCCCGAGAG 59.680 55.000 13.69 3.70 0.00 3.20
625 667 0.981183 ATGTTACTTGTGGCCCGAGA 59.019 50.000 13.69 0.00 0.00 4.04
627 669 1.903860 ACTATGTTACTTGTGGCCCGA 59.096 47.619 0.00 0.00 0.00 5.14
629 671 6.769134 AAATAACTATGTTACTTGTGGCCC 57.231 37.500 0.00 0.00 0.00 5.80
658 707 3.119245 ACAATATGTTACTCGTGCGACCT 60.119 43.478 0.00 0.00 0.00 3.85
704 760 8.004215 TCTTTTTGGGATGCAACACCTATATAT 58.996 33.333 0.00 0.00 0.00 0.86
713 770 4.211125 TGTAGTCTTTTTGGGATGCAACA 58.789 39.130 0.00 0.00 0.00 3.33
750 813 9.574516 AGAAACACAATTTAGAAACATACTCCT 57.425 29.630 0.00 0.00 0.00 3.69
811 914 3.576550 GGTGGGCAACAGGAATTTTTCTA 59.423 43.478 0.00 0.00 39.74 2.10
818 921 0.706433 AGATGGTGGGCAACAGGAAT 59.294 50.000 0.00 0.00 39.74 3.01
863 966 1.993653 CTGATTGGTGGAGAGGCCA 59.006 57.895 5.01 0.00 46.96 5.36
951 1058 0.250338 GAGTGGGAGGTGTTTCGCTT 60.250 55.000 0.00 0.00 0.00 4.68
966 1079 1.687493 GGAGGTGGGAGAGGGAGTG 60.687 68.421 0.00 0.00 0.00 3.51
967 1080 2.781406 GGAGGTGGGAGAGGGAGT 59.219 66.667 0.00 0.00 0.00 3.85
1468 1612 0.453282 CAACAAGGCGACGCAATCAG 60.453 55.000 23.09 8.68 0.00 2.90
1469 1613 1.163420 ACAACAAGGCGACGCAATCA 61.163 50.000 23.09 0.00 0.00 2.57
1472 1616 1.353804 GAACAACAAGGCGACGCAA 59.646 52.632 23.09 0.00 0.00 4.85
1487 1635 4.379499 GCAGCCAACTACTACATTTGGAAC 60.379 45.833 3.75 0.00 42.17 3.62
1488 1636 3.756434 GCAGCCAACTACTACATTTGGAA 59.244 43.478 3.75 0.00 42.17 3.53
1489 1637 3.009033 AGCAGCCAACTACTACATTTGGA 59.991 43.478 3.75 0.00 42.17 3.53
1490 1638 3.127548 CAGCAGCCAACTACTACATTTGG 59.872 47.826 0.00 0.00 42.43 3.28
1491 1639 3.426695 GCAGCAGCCAACTACTACATTTG 60.427 47.826 0.00 0.00 33.58 2.32
1492 1640 2.749621 GCAGCAGCCAACTACTACATTT 59.250 45.455 0.00 0.00 33.58 2.32
1493 1641 2.026822 AGCAGCAGCCAACTACTACATT 60.027 45.455 0.00 0.00 43.56 2.71
1494 1642 1.556911 AGCAGCAGCCAACTACTACAT 59.443 47.619 0.00 0.00 43.56 2.29
1495 1643 0.976641 AGCAGCAGCCAACTACTACA 59.023 50.000 0.00 0.00 43.56 2.74
1496 1644 1.066858 TCAGCAGCAGCCAACTACTAC 60.067 52.381 0.00 0.00 43.56 2.73
1497 1645 1.066858 GTCAGCAGCAGCCAACTACTA 60.067 52.381 0.00 0.00 43.56 1.82
1498 1646 0.321122 GTCAGCAGCAGCCAACTACT 60.321 55.000 0.00 0.00 43.56 2.57
1568 1801 1.402787 AACAACCAAGGAGCCAACAG 58.597 50.000 0.00 0.00 0.00 3.16
1623 1863 3.423123 CGACTGCAACGTTTTCTGGATAC 60.423 47.826 0.00 0.00 0.00 2.24
1628 1868 1.594518 CCACGACTGCAACGTTTTCTG 60.595 52.381 14.39 0.24 42.07 3.02
1662 1910 5.392703 CCAACATCAGTCAAATCATCACTGG 60.393 44.000 0.00 0.00 38.48 4.00
1697 1946 2.997980 TGGCTGTGTTCAGTTCAGAAA 58.002 42.857 0.00 0.00 43.05 2.52
1739 1989 2.666190 CGATCCATTGGCGCGGAT 60.666 61.111 13.55 13.55 44.89 4.18
1746 1996 2.428171 AGTTTGCATTCCGATCCATTGG 59.572 45.455 0.00 0.00 0.00 3.16
1747 1997 3.129113 TCAGTTTGCATTCCGATCCATTG 59.871 43.478 0.00 0.00 0.00 2.82
1748 1998 3.355378 TCAGTTTGCATTCCGATCCATT 58.645 40.909 0.00 0.00 0.00 3.16
1789 2075 1.182673 CATAAACAGCATCAACGCGC 58.817 50.000 5.73 0.00 36.85 6.86
1790 2076 1.130373 ACCATAAACAGCATCAACGCG 59.870 47.619 3.53 3.53 36.85 6.01
1793 2079 6.446318 TGAAGAAACCATAAACAGCATCAAC 58.554 36.000 0.00 0.00 0.00 3.18
1806 2096 8.585471 ATCAAATCACATACTGAAGAAACCAT 57.415 30.769 0.00 0.00 30.60 3.55
1820 2110 6.071784 TGCTGCTGTTCTAAATCAAATCACAT 60.072 34.615 0.00 0.00 0.00 3.21
1951 2246 1.876156 CACTGAGCACTGGTTTTCTCC 59.124 52.381 0.00 0.00 0.00 3.71
1965 2260 0.518636 CGTTGCCATGTTCCACTGAG 59.481 55.000 0.00 0.00 0.00 3.35
1983 2325 1.660560 CCAAGGCCCTCAATTCTGCG 61.661 60.000 0.00 0.00 0.00 5.18
1995 2337 0.244721 GAACAAGACATGCCAAGGCC 59.755 55.000 8.89 0.00 41.09 5.19
2025 2367 1.202770 GCGATGCTAATTACTGGGGGT 60.203 52.381 0.00 0.00 0.00 4.95
2026 2368 1.072331 AGCGATGCTAATTACTGGGGG 59.928 52.381 0.00 0.00 36.99 5.40
2083 2450 2.843701 CTGTTGCAGACTGGTTTCTCT 58.156 47.619 4.26 0.00 32.44 3.10
2084 2451 1.265365 GCTGTTGCAGACTGGTTTCTC 59.735 52.381 4.26 0.00 39.41 2.87
2085 2452 1.133976 AGCTGTTGCAGACTGGTTTCT 60.134 47.619 4.26 0.00 42.74 2.52
2086 2453 1.312815 AGCTGTTGCAGACTGGTTTC 58.687 50.000 4.26 0.00 42.74 2.78
2113 2480 2.867624 AGAGCAAGGCAATGAAACAGA 58.132 42.857 0.00 0.00 0.00 3.41
2120 2487 3.861276 TCAATGAAGAGCAAGGCAATG 57.139 42.857 0.00 0.00 0.00 2.82
2198 2605 1.438651 CGCAACTTTTCGGATCTCCA 58.561 50.000 0.00 0.00 35.14 3.86
2234 2641 0.944386 TCTTTGTCCAAGCTCAACGC 59.056 50.000 0.00 0.00 39.57 4.84
2238 2645 1.768275 TCACCTCTTTGTCCAAGCTCA 59.232 47.619 0.00 0.00 31.70 4.26
2262 2669 4.577283 CGGTCACCAAAGTAAAAAGAGGAA 59.423 41.667 0.00 0.00 0.00 3.36
2263 2670 4.131596 CGGTCACCAAAGTAAAAAGAGGA 58.868 43.478 0.00 0.00 0.00 3.71
2291 2699 1.757682 TCAACCTTGTCCAACACCAC 58.242 50.000 0.00 0.00 0.00 4.16
2298 2706 1.425066 AGCTTCCATCAACCTTGTCCA 59.575 47.619 0.00 0.00 0.00 4.02
2302 2710 0.529378 GCCAGCTTCCATCAACCTTG 59.471 55.000 0.00 0.00 0.00 3.61
2307 2715 1.683938 CCTGATGCCAGCTTCCATCAA 60.684 52.381 20.54 9.71 44.97 2.57
2311 2719 2.679092 CCCTGATGCCAGCTTCCA 59.321 61.111 3.38 0.00 39.07 3.53
2312 2720 2.832201 GCCCTGATGCCAGCTTCC 60.832 66.667 3.38 0.00 39.07 3.46
2326 2734 1.270550 GGCTATGCATTGTACATGCCC 59.729 52.381 20.37 13.59 43.94 5.36
2327 2735 2.227388 GAGGCTATGCATTGTACATGCC 59.773 50.000 20.37 7.92 43.94 4.40
2328 2736 2.880268 TGAGGCTATGCATTGTACATGC 59.120 45.455 3.54 17.91 44.76 4.06
2329 2737 4.023450 CCTTGAGGCTATGCATTGTACATG 60.023 45.833 3.54 7.24 0.00 3.21
2330 2738 4.139786 CCTTGAGGCTATGCATTGTACAT 58.860 43.478 3.54 0.00 0.00 2.29
2331 2739 3.054434 ACCTTGAGGCTATGCATTGTACA 60.054 43.478 3.54 2.41 39.32 2.90
2332 2740 3.313526 CACCTTGAGGCTATGCATTGTAC 59.686 47.826 3.54 0.42 39.32 2.90
2333 2741 3.199727 TCACCTTGAGGCTATGCATTGTA 59.800 43.478 3.54 0.00 39.32 2.41
2334 2742 2.025981 TCACCTTGAGGCTATGCATTGT 60.026 45.455 3.54 0.00 39.32 2.71
2335 2743 2.646930 TCACCTTGAGGCTATGCATTG 58.353 47.619 3.54 3.55 39.32 2.82
2336 2744 3.220110 CATCACCTTGAGGCTATGCATT 58.780 45.455 3.54 0.00 39.32 3.56
2337 2745 2.860009 CATCACCTTGAGGCTATGCAT 58.140 47.619 3.79 3.79 39.32 3.96
2338 2746 2.336945 CATCACCTTGAGGCTATGCA 57.663 50.000 0.00 0.00 39.32 3.96
2357 2765 2.256591 CCTACATGGCATGCGAGGC 61.257 63.158 26.96 0.00 32.09 4.70
2358 2766 0.035881 ATCCTACATGGCATGCGAGG 59.964 55.000 30.04 30.04 37.80 4.63
2359 2767 1.436600 GATCCTACATGGCATGCGAG 58.563 55.000 26.70 22.01 35.26 5.03
2360 2768 0.319813 CGATCCTACATGGCATGCGA 60.320 55.000 26.70 19.03 35.26 5.10
2361 2769 1.293963 CCGATCCTACATGGCATGCG 61.294 60.000 26.70 19.33 35.26 4.73
2362 2770 0.035317 TCCGATCCTACATGGCATGC 59.965 55.000 26.70 9.90 35.26 4.06
2363 2771 2.775911 ATCCGATCCTACATGGCATG 57.224 50.000 25.31 25.31 35.26 4.06
2364 2772 4.033009 TCATATCCGATCCTACATGGCAT 58.967 43.478 0.00 0.00 35.26 4.40
2365 2773 3.195610 GTCATATCCGATCCTACATGGCA 59.804 47.826 0.00 0.00 35.26 4.92
2366 2774 3.735208 CGTCATATCCGATCCTACATGGC 60.735 52.174 0.00 0.00 35.26 4.40
2367 2775 3.444034 ACGTCATATCCGATCCTACATGG 59.556 47.826 0.00 0.00 37.10 3.66
2368 2776 4.703645 ACGTCATATCCGATCCTACATG 57.296 45.455 0.00 0.00 0.00 3.21
2369 2777 6.433404 ACTTTACGTCATATCCGATCCTACAT 59.567 38.462 0.00 0.00 0.00 2.29
2370 2778 5.766670 ACTTTACGTCATATCCGATCCTACA 59.233 40.000 0.00 0.00 0.00 2.74
2371 2779 6.251655 ACTTTACGTCATATCCGATCCTAC 57.748 41.667 0.00 0.00 0.00 3.18
2372 2780 6.596888 CCTACTTTACGTCATATCCGATCCTA 59.403 42.308 0.00 0.00 0.00 2.94
2373 2781 5.415077 CCTACTTTACGTCATATCCGATCCT 59.585 44.000 0.00 0.00 0.00 3.24
2374 2782 5.182760 ACCTACTTTACGTCATATCCGATCC 59.817 44.000 0.00 0.00 0.00 3.36
2375 2783 6.251655 ACCTACTTTACGTCATATCCGATC 57.748 41.667 0.00 0.00 0.00 3.69
2376 2784 6.263842 TGAACCTACTTTACGTCATATCCGAT 59.736 38.462 0.00 0.00 0.00 4.18
2377 2785 5.589855 TGAACCTACTTTACGTCATATCCGA 59.410 40.000 0.00 0.00 0.00 4.55
2378 2786 5.824429 TGAACCTACTTTACGTCATATCCG 58.176 41.667 0.00 0.00 0.00 4.18
2379 2787 7.035840 TCTGAACCTACTTTACGTCATATCC 57.964 40.000 0.00 0.00 0.00 2.59
2382 2790 8.627403 CCTTATCTGAACCTACTTTACGTCATA 58.373 37.037 0.00 0.00 0.00 2.15
2383 2791 7.341256 TCCTTATCTGAACCTACTTTACGTCAT 59.659 37.037 0.00 0.00 0.00 3.06
2384 2792 6.660521 TCCTTATCTGAACCTACTTTACGTCA 59.339 38.462 0.00 0.00 0.00 4.35
2385 2793 7.093322 TCCTTATCTGAACCTACTTTACGTC 57.907 40.000 0.00 0.00 0.00 4.34
2386 2794 7.472334 TTCCTTATCTGAACCTACTTTACGT 57.528 36.000 0.00 0.00 0.00 3.57
2387 2795 6.476053 GCTTCCTTATCTGAACCTACTTTACG 59.524 42.308 0.00 0.00 0.00 3.18
2388 2796 6.476053 CGCTTCCTTATCTGAACCTACTTTAC 59.524 42.308 0.00 0.00 0.00 2.01
2389 2797 6.406624 CCGCTTCCTTATCTGAACCTACTTTA 60.407 42.308 0.00 0.00 0.00 1.85
2390 2798 5.420409 CGCTTCCTTATCTGAACCTACTTT 58.580 41.667 0.00 0.00 0.00 2.66
2391 2799 4.141914 CCGCTTCCTTATCTGAACCTACTT 60.142 45.833 0.00 0.00 0.00 2.24
2392 2800 3.385111 CCGCTTCCTTATCTGAACCTACT 59.615 47.826 0.00 0.00 0.00 2.57
2393 2801 3.492829 CCCGCTTCCTTATCTGAACCTAC 60.493 52.174 0.00 0.00 0.00 3.18
2394 2802 2.698797 CCCGCTTCCTTATCTGAACCTA 59.301 50.000 0.00 0.00 0.00 3.08
2395 2803 1.486726 CCCGCTTCCTTATCTGAACCT 59.513 52.381 0.00 0.00 0.00 3.50
2396 2804 1.485066 TCCCGCTTCCTTATCTGAACC 59.515 52.381 0.00 0.00 0.00 3.62
2397 2805 2.981859 TCCCGCTTCCTTATCTGAAC 57.018 50.000 0.00 0.00 0.00 3.18
2398 2806 2.368875 GGATCCCGCTTCCTTATCTGAA 59.631 50.000 0.00 0.00 0.00 3.02
2399 2807 1.971357 GGATCCCGCTTCCTTATCTGA 59.029 52.381 0.00 0.00 0.00 3.27
2400 2808 1.974236 AGGATCCCGCTTCCTTATCTG 59.026 52.381 8.55 0.00 40.84 2.90
2401 2809 2.158234 AGAGGATCCCGCTTCCTTATCT 60.158 50.000 8.55 0.00 43.75 1.98
2402 2810 2.252714 AGAGGATCCCGCTTCCTTATC 58.747 52.381 8.55 0.00 43.75 1.75
2403 2811 2.407340 AGAGGATCCCGCTTCCTTAT 57.593 50.000 8.55 0.00 43.75 1.73
2404 2812 2.176247 AAGAGGATCCCGCTTCCTTA 57.824 50.000 8.55 0.00 43.75 2.69
2405 2813 1.290134 AAAGAGGATCCCGCTTCCTT 58.710 50.000 15.60 5.04 42.54 3.36
2406 2814 2.043227 CTAAAGAGGATCCCGCTTCCT 58.957 52.381 15.60 6.26 42.54 3.36
2407 2815 2.535012 CTAAAGAGGATCCCGCTTCC 57.465 55.000 15.60 0.00 42.54 3.46
2419 2827 1.153349 GCACCCGCCTCCTAAAGAG 60.153 63.158 0.00 0.00 42.83 2.85
2420 2828 1.198759 AAGCACCCGCCTCCTAAAGA 61.199 55.000 0.00 0.00 39.83 2.52
2421 2829 1.026718 CAAGCACCCGCCTCCTAAAG 61.027 60.000 0.00 0.00 39.83 1.85
2422 2830 1.002624 CAAGCACCCGCCTCCTAAA 60.003 57.895 0.00 0.00 39.83 1.85
2423 2831 1.485294 TTCAAGCACCCGCCTCCTAA 61.485 55.000 0.00 0.00 39.83 2.69
2424 2832 1.485294 TTTCAAGCACCCGCCTCCTA 61.485 55.000 0.00 0.00 39.83 2.94
2425 2833 2.754664 CTTTCAAGCACCCGCCTCCT 62.755 60.000 0.00 0.00 39.83 3.69
2426 2834 2.282180 TTTCAAGCACCCGCCTCC 60.282 61.111 0.00 0.00 39.83 4.30
2427 2835 0.889186 TTCTTTCAAGCACCCGCCTC 60.889 55.000 0.00 0.00 39.83 4.70
2428 2836 0.467290 TTTCTTTCAAGCACCCGCCT 60.467 50.000 0.00 0.00 39.83 5.52
2429 2837 0.387565 TTTTCTTTCAAGCACCCGCC 59.612 50.000 0.00 0.00 39.83 6.13
2430 2838 2.127251 CTTTTTCTTTCAAGCACCCGC 58.873 47.619 0.00 0.00 38.99 6.13
2431 2839 3.115554 CACTTTTTCTTTCAAGCACCCG 58.884 45.455 0.00 0.00 0.00 5.28
2432 2840 3.865164 CACACTTTTTCTTTCAAGCACCC 59.135 43.478 0.00 0.00 0.00 4.61
2433 2841 3.865164 CCACACTTTTTCTTTCAAGCACC 59.135 43.478 0.00 0.00 0.00 5.01
2434 2842 4.494484 ACCACACTTTTTCTTTCAAGCAC 58.506 39.130 0.00 0.00 0.00 4.40
2435 2843 4.381505 GGACCACACTTTTTCTTTCAAGCA 60.382 41.667 0.00 0.00 0.00 3.91
2436 2844 4.112634 GGACCACACTTTTTCTTTCAAGC 58.887 43.478 0.00 0.00 0.00 4.01


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

AutoCloner maintained by Alex Coulton.