Multiple sequence alignment - TraesCS2D01G212900

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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 TraesCS2D01G212900 chr2D 100.000 7317 0 0 1 7317 172822520 172815204 0.000000e+00 13513.0
1 TraesCS2D01G212900 chr2A 94.949 3207 104 29 3417 6604 177014472 177017639 0.000000e+00 4972.0
2 TraesCS2D01G212900 chr2A 93.868 2707 84 25 688 3362 177009362 177012018 0.000000e+00 4004.0
3 TraesCS2D01G212900 chr2A 96.364 660 15 6 1 653 177008631 177009288 0.000000e+00 1077.0
4 TraesCS2D01G212900 chr2A 91.963 647 46 3 6677 7317 177055927 177056573 0.000000e+00 902.0
5 TraesCS2D01G212900 chr2A 91.480 223 16 3 6343 6563 203721043 203721264 3.320000e-78 303.0
6 TraesCS2D01G212900 chr2A 91.613 155 12 1 6522 6675 177017597 177017751 5.750000e-51 213.0
7 TraesCS2D01G212900 chr2B 90.330 3640 155 61 649 4240 225432508 225435998 0.000000e+00 4590.0
8 TraesCS2D01G212900 chr2B 89.801 1755 148 18 4522 6261 225436444 225438182 0.000000e+00 2220.0
9 TraesCS2D01G212900 chr2B 97.810 548 12 0 1 548 225362237 225362784 0.000000e+00 946.0
10 TraesCS2D01G212900 chr2B 87.903 248 22 5 4235 4480 225436080 225436321 1.200000e-72 285.0
11 TraesCS2D01G212900 chr2B 91.525 59 3 1 608 666 225432406 225432462 6.090000e-11 80.5
12 TraesCS2D01G212900 chr6A 91.793 987 54 13 2985 3952 80477024 80476046 0.000000e+00 1349.0
13 TraesCS2D01G212900 chr6A 88.411 837 56 19 2155 2986 80477885 80477085 0.000000e+00 970.0
14 TraesCS2D01G212900 chr6A 96.341 82 3 0 1540 1621 88856193 88856274 1.280000e-27 135.0
15 TraesCS2D01G212900 chr6A 94.643 56 2 1 4008 4062 80476025 80475970 1.310000e-12 86.1
16 TraesCS2D01G212900 chr6D 87.415 588 56 6 1716 2288 2368832 2369416 0.000000e+00 660.0
17 TraesCS2D01G212900 chr3A 86.207 580 63 5 1716 2281 712303231 712303807 4.850000e-171 612.0
18 TraesCS2D01G212900 chr7B 91.111 225 18 2 6341 6563 680209998 680209774 3.320000e-78 303.0
19 TraesCS2D01G212900 chr7B 91.071 224 17 3 6342 6563 435675958 435675736 4.290000e-77 300.0
20 TraesCS2D01G212900 chr7B 91.031 223 18 2 6343 6563 594019346 594019568 4.290000e-77 300.0
21 TraesCS2D01G212900 chr7B 89.726 146 13 1 6562 6705 671195155 671195010 1.250000e-42 185.0
22 TraesCS2D01G212900 chr7B 89.583 144 13 1 6562 6703 671089288 671089145 1.620000e-41 182.0
23 TraesCS2D01G212900 chr7B 89.041 146 14 1 6562 6705 671012238 671012093 5.830000e-41 180.0
24 TraesCS2D01G212900 chr5D 91.480 223 16 3 6343 6563 441220541 441220762 3.320000e-78 303.0
25 TraesCS2D01G212900 chr5B 91.441 222 17 2 6344 6563 478698821 478699042 3.320000e-78 303.0
26 TraesCS2D01G212900 chr3B 91.441 222 17 2 6344 6563 447290045 447290266 3.320000e-78 303.0
27 TraesCS2D01G212900 chr5A 91.031 223 18 2 6343 6563 228892251 228892473 4.290000e-77 300.0
28 TraesCS2D01G212900 chr5A 95.402 87 3 1 1540 1625 141878789 141878875 3.560000e-28 137.0
29 TraesCS2D01G212900 chr3D 90.541 148 12 1 6562 6707 454500073 454499926 2.080000e-45 195.0
30 TraesCS2D01G212900 chrUn 89.726 146 13 1 6562 6705 147247836 147247691 1.250000e-42 185.0
31 TraesCS2D01G212900 chrUn 89.726 146 13 1 6562 6705 279384489 279384344 1.250000e-42 185.0
32 TraesCS2D01G212900 chr6B 89.262 149 14 1 6562 6708 543237444 543237592 1.250000e-42 185.0
33 TraesCS2D01G212900 chr6B 89.726 146 13 1 6562 6705 599801345 599801490 1.250000e-42 185.0
34 TraesCS2D01G212900 chr6B 94.382 89 3 2 1533 1621 276499213 276499299 1.280000e-27 135.0
35 TraesCS2D01G212900 chr7A 94.505 91 3 2 1540 1630 542815897 542815809 9.900000e-29 139.0
36 TraesCS2D01G212900 chr7D 95.402 87 3 1 1540 1626 238998590 238998505 3.560000e-28 137.0
37 TraesCS2D01G212900 chr7D 95.402 87 3 1 1540 1626 239380307 239380222 3.560000e-28 137.0
38 TraesCS2D01G212900 chr7D 92.708 96 3 4 1533 1627 263975153 263975245 1.280000e-27 135.0


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 TraesCS2D01G212900 chr2D 172815204 172822520 7316 True 13513.000 13513 100.000000 1 7317 1 chr2D.!!$R1 7316
1 TraesCS2D01G212900 chr2A 177008631 177017751 9120 False 2566.500 4972 94.198500 1 6675 4 chr2A.!!$F3 6674
2 TraesCS2D01G212900 chr2A 177055927 177056573 646 False 902.000 902 91.963000 6677 7317 1 chr2A.!!$F1 640
3 TraesCS2D01G212900 chr2B 225432406 225438182 5776 False 1793.875 4590 89.889750 608 6261 4 chr2B.!!$F2 5653
4 TraesCS2D01G212900 chr2B 225362237 225362784 547 False 946.000 946 97.810000 1 548 1 chr2B.!!$F1 547
5 TraesCS2D01G212900 chr6A 80475970 80477885 1915 True 801.700 1349 91.615667 2155 4062 3 chr6A.!!$R1 1907
6 TraesCS2D01G212900 chr6D 2368832 2369416 584 False 660.000 660 87.415000 1716 2288 1 chr6D.!!$F1 572
7 TraesCS2D01G212900 chr3A 712303231 712303807 576 False 612.000 612 86.207000 1716 2281 1 chr3A.!!$F1 565

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
25 26 0.322008 CAAGGGAGACTGGAAGCACC 60.322 60.000 0.00 0.00 37.60 5.01 F
1469 1599 0.114560 TGAGGGGTCGGTCTCTTTCT 59.885 55.000 0.00 0.00 0.00 2.52 F
2080 2241 0.965866 ATTCTGCTCGAGGGACGACA 60.966 55.000 15.58 1.03 46.45 4.35 F
2306 2471 1.381327 CCGGGACTGGGAGAGCTAA 60.381 63.158 0.00 0.00 0.00 3.09 F
2821 2986 2.618053 CACTACGATGGGAAGGTCAAC 58.382 52.381 0.00 0.00 0.00 3.18 F
3928 6581 4.101448 GTCGAGGGCATGGCACCT 62.101 66.667 22.06 9.78 40.54 4.00 F
4519 7357 2.438021 ACAATAGGGGCATACGACATGT 59.562 45.455 0.00 0.00 0.00 3.21 F
5755 8603 0.249405 GCAATCCGAGAGCTCAGGAG 60.249 60.000 27.36 19.09 36.37 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1656 1789 0.181114 TTCCATTCCATCCTGAGGCG 59.819 55.000 0.00 0.0 0.00 5.52 R
2306 2471 0.473755 TCTGTGTGACACCTTGGCAT 59.526 50.000 13.85 0.0 37.93 4.40 R
3799 6452 1.540267 AGTGTGCTACAGTCTACACCG 59.460 52.381 9.91 0.0 43.23 4.94 R
4081 6734 1.261238 CCGAAGTCCCTGGCTTCTCT 61.261 60.000 6.85 0.0 39.94 3.10 R
4402 7151 1.771854 TGTCAGGGAGTTACCAGCAAA 59.228 47.619 0.00 0.0 41.20 3.68 R
4936 7776 0.597568 TGTCAATGCCTTCGCTTTGG 59.402 50.000 9.87 0.0 45.55 3.28 R
6271 9127 0.310854 CAGAGTGGCCGAAACAAACC 59.689 55.000 0.00 0.0 0.00 3.27 R
7243 10146 0.106419 GACCCACCCACAACCTGAAA 60.106 55.000 0.00 0.0 0.00 2.69 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
25 26 0.322008 CAAGGGAGACTGGAAGCACC 60.322 60.000 0.00 0.00 37.60 5.01
97 98 3.567478 ACAGCTGAGGAAGAAACTGTT 57.433 42.857 23.35 0.00 34.89 3.16
223 224 0.536687 AGAGGAGTCGACGGTGACAA 60.537 55.000 10.46 0.00 41.41 3.18
574 575 8.188139 TCTGTAAGAGTCATTTGTTTTTGGTTC 58.812 33.333 0.00 0.00 38.67 3.62
605 606 5.221722 TGGAGCAAGATTGTCAAGAGTAGTT 60.222 40.000 0.00 0.00 0.00 2.24
606 607 5.121454 GGAGCAAGATTGTCAAGAGTAGTTG 59.879 44.000 0.00 0.00 0.00 3.16
693 813 8.399425 TCAAGACTCGAGAGTAGTATTGAAATC 58.601 37.037 21.68 0.22 46.52 2.17
987 1112 1.446272 CCTTCCTCTGAACGTCGCC 60.446 63.158 0.00 0.00 0.00 5.54
988 1113 1.446272 CTTCCTCTGAACGTCGCCC 60.446 63.158 0.00 0.00 0.00 6.13
989 1114 3.277211 TTCCTCTGAACGTCGCCCG 62.277 63.158 0.00 0.00 44.03 6.13
1065 1194 2.168521 CGTGCCTTTCCCAATCTCTCTA 59.831 50.000 0.00 0.00 0.00 2.43
1075 1204 4.718774 TCCCAATCTCTCTACAGAGCATTT 59.281 41.667 1.12 0.00 45.46 2.32
1076 1205 5.055812 CCCAATCTCTCTACAGAGCATTTC 58.944 45.833 1.12 0.00 45.46 2.17
1077 1206 5.055812 CCAATCTCTCTACAGAGCATTTCC 58.944 45.833 1.12 0.00 45.46 3.13
1084 1213 0.915364 ACAGAGCATTTCCTCCTCCC 59.085 55.000 0.00 0.00 32.17 4.30
1190 1320 2.838225 CCTCCGCGGTATGTCCCT 60.838 66.667 27.15 0.00 0.00 4.20
1200 1330 3.292460 CGGTATGTCCCTTCTCTTCTCT 58.708 50.000 0.00 0.00 0.00 3.10
1208 1338 2.416701 CCCTTCTCTTCTCTTCGTGCTC 60.417 54.545 0.00 0.00 0.00 4.26
1237 1367 5.309543 TCTCCGTATATTGATTGATTGGGGT 59.690 40.000 0.00 0.00 0.00 4.95
1303 1433 2.778299 CGTTTCCAAATCCCACAGAGA 58.222 47.619 0.00 0.00 0.00 3.10
1365 1495 2.568090 CCCGCAGCCATGAAACAC 59.432 61.111 0.00 0.00 0.00 3.32
1464 1594 0.902531 TTCATTGAGGGGTCGGTCTC 59.097 55.000 0.00 0.00 0.00 3.36
1469 1599 0.114560 TGAGGGGTCGGTCTCTTTCT 59.885 55.000 0.00 0.00 0.00 2.52
1538 1668 3.985279 CGAATGTCGTTGTTCCTCTGTTA 59.015 43.478 0.00 0.00 34.72 2.41
1656 1789 5.622770 ACGTCCATCCAAATTCAAGTAAC 57.377 39.130 0.00 0.00 0.00 2.50
1665 1798 3.695830 AATTCAAGTAACGCCTCAGGA 57.304 42.857 0.00 0.00 0.00 3.86
1775 1909 1.734465 CAGGGTTTCATGAAGAGCGAC 59.266 52.381 8.41 3.50 0.00 5.19
1814 1948 4.678743 GGTGGGTTCCCCTGTGCC 62.679 72.222 5.34 0.00 45.70 5.01
1840 1974 8.177013 CCCTTTAATTAATGCTTCATTTGTTGC 58.823 33.333 0.00 0.00 35.54 4.17
1845 1979 6.542574 TTAATGCTTCATTTGTTGCCAAAG 57.457 33.333 0.00 0.00 43.45 2.77
1865 1999 2.660553 CTACAGCCGCTCAGCTCTCG 62.661 65.000 0.00 0.00 42.61 4.04
1939 2082 4.523943 AGCTATCACTGCTCTAAGATGAGG 59.476 45.833 0.00 0.00 35.67 3.86
2059 2220 4.226113 TCGTTTGTAAAATTCCCCGTTG 57.774 40.909 0.00 0.00 0.00 4.10
2073 2234 1.560923 CCGTTGTATTCTGCTCGAGG 58.439 55.000 15.58 0.00 0.00 4.63
2080 2241 0.965866 ATTCTGCTCGAGGGACGACA 60.966 55.000 15.58 1.03 46.45 4.35
2096 2257 4.363138 GACGACACTCATCTGATTATGCA 58.637 43.478 0.00 0.00 0.00 3.96
2306 2471 1.381327 CCGGGACTGGGAGAGCTAA 60.381 63.158 0.00 0.00 0.00 3.09
2458 2623 6.202570 CAGTTGAGCTATTCTGCCTAAGATTC 59.797 42.308 0.00 0.00 33.93 2.52
2482 2647 7.816640 TCTTGGTTTCAGTACAATATTTCTGC 58.183 34.615 0.00 0.00 0.00 4.26
2493 2658 8.100791 AGTACAATATTTCTGCTGGTTTCAGTA 58.899 33.333 0.00 0.00 42.78 2.74
2494 2659 7.145932 ACAATATTTCTGCTGGTTTCAGTAC 57.854 36.000 0.00 0.00 42.78 2.73
2495 2660 6.714810 ACAATATTTCTGCTGGTTTCAGTACA 59.285 34.615 0.00 0.00 42.78 2.90
2496 2661 7.230510 ACAATATTTCTGCTGGTTTCAGTACAA 59.769 33.333 0.00 0.00 42.78 2.41
2497 2662 7.944729 ATATTTCTGCTGGTTTCAGTACAAT 57.055 32.000 0.00 0.00 42.78 2.71
2499 2664 7.944729 ATTTCTGCTGGTTTCAGTACAATAT 57.055 32.000 0.00 0.00 42.78 1.28
2500 2665 7.759489 TTTCTGCTGGTTTCAGTACAATATT 57.241 32.000 0.00 0.00 42.78 1.28
2501 2666 6.985188 TCTGCTGGTTTCAGTACAATATTC 57.015 37.500 0.00 0.00 42.78 1.75
2502 2667 5.880332 TCTGCTGGTTTCAGTACAATATTCC 59.120 40.000 0.00 0.00 42.78 3.01
2503 2668 5.815581 TGCTGGTTTCAGTACAATATTCCT 58.184 37.500 0.00 0.00 42.78 3.36
2504 2669 5.647658 TGCTGGTTTCAGTACAATATTCCTG 59.352 40.000 0.00 0.00 42.78 3.86
2506 2671 6.151144 GCTGGTTTCAGTACAATATTCCTGTT 59.849 38.462 0.00 0.00 42.78 3.16
2507 2672 7.447374 TGGTTTCAGTACAATATTCCTGTTG 57.553 36.000 0.00 0.00 0.00 3.33
2508 2673 6.432783 TGGTTTCAGTACAATATTCCTGTTGG 59.567 38.462 0.00 0.00 0.00 3.77
2509 2674 6.433093 GGTTTCAGTACAATATTCCTGTTGGT 59.567 38.462 0.00 0.00 34.23 3.67
2510 2675 7.039993 GGTTTCAGTACAATATTCCTGTTGGTT 60.040 37.037 0.00 0.00 34.23 3.67
2511 2676 8.357402 GTTTCAGTACAATATTCCTGTTGGTTT 58.643 33.333 0.00 0.00 34.23 3.27
2512 2677 7.681939 TCAGTACAATATTCCTGTTGGTTTC 57.318 36.000 0.00 0.00 34.23 2.78
2513 2678 7.227873 TCAGTACAATATTCCTGTTGGTTTCA 58.772 34.615 0.00 0.00 34.23 2.69
2514 2679 7.390440 TCAGTACAATATTCCTGTTGGTTTCAG 59.610 37.037 0.00 0.00 34.23 3.02
2515 2680 7.174946 CAGTACAATATTCCTGTTGGTTTCAGT 59.825 37.037 0.00 0.00 34.23 3.41
2523 2688 3.488553 CCTGTTGGTTTCAGTTTCCGAAC 60.489 47.826 0.00 0.00 35.97 3.95
2532 2697 6.859508 GGTTTCAGTTTCCGAACGAATTTAAT 59.140 34.615 0.00 0.00 40.75 1.40
2538 2703 9.155053 CAGTTTCCGAACGAATTTAATAATAGC 57.845 33.333 0.00 0.00 40.75 2.97
2539 2704 8.340443 AGTTTCCGAACGAATTTAATAATAGCC 58.660 33.333 0.00 0.00 40.75 3.93
2540 2705 8.340443 GTTTCCGAACGAATTTAATAATAGCCT 58.660 33.333 0.00 0.00 0.00 4.58
2541 2706 8.441312 TTCCGAACGAATTTAATAATAGCCTT 57.559 30.769 0.00 0.00 0.00 4.35
2542 2707 8.441312 TCCGAACGAATTTAATAATAGCCTTT 57.559 30.769 0.00 0.00 0.00 3.11
2628 2793 3.445008 TCAGCAGGAGTCTAACCAGAAT 58.555 45.455 0.00 0.00 30.85 2.40
2676 2841 5.124457 TGCTGGTATCAATCAGAAGAAAAGC 59.876 40.000 0.00 0.00 33.11 3.51
2821 2986 2.618053 CACTACGATGGGAAGGTCAAC 58.382 52.381 0.00 0.00 0.00 3.18
2978 3143 9.482627 GATCTGGTATCATTTAACTTCGAGATT 57.517 33.333 0.00 0.00 0.00 2.40
3205 3449 5.343307 TCAGAGTGCAATGTATTCAGCTA 57.657 39.130 0.00 0.00 0.00 3.32
3439 6091 6.012658 TGTTGATTCTCTGTACCAATTTGC 57.987 37.500 0.00 0.00 0.00 3.68
3558 6210 6.566141 TCATCATCCGATAACTGTTCGTAAA 58.434 36.000 0.00 0.00 34.85 2.01
3604 6256 6.435430 AGATTTTATGTAATGCAACGCTCA 57.565 33.333 0.00 0.00 0.00 4.26
3778 6431 9.515226 AACATCTGCTTTCCTTGTTAACTAATA 57.485 29.630 7.22 0.00 0.00 0.98
3928 6581 4.101448 GTCGAGGGCATGGCACCT 62.101 66.667 22.06 9.78 40.54 4.00
4312 7061 6.992715 ACACAAAGCAGTAGAACATTTACTCT 59.007 34.615 0.00 0.00 0.00 3.24
4313 7062 7.171678 ACACAAAGCAGTAGAACATTTACTCTC 59.828 37.037 0.00 0.00 0.00 3.20
4314 7063 7.386299 CACAAAGCAGTAGAACATTTACTCTCT 59.614 37.037 0.00 0.00 0.00 3.10
4385 7134 4.283363 ACTTCTGAGATTCATGTGCAGT 57.717 40.909 0.00 0.00 0.00 4.40
4402 7151 3.132925 GCAGTGTTTGTTTGGATGCATT 58.867 40.909 0.00 0.00 32.58 3.56
4490 7328 4.813027 TGTCAGGAACTAATTCGTGGTAC 58.187 43.478 6.76 0.27 46.26 3.34
4507 7345 4.945543 GTGGTACCTGTTAAACAATAGGGG 59.054 45.833 14.36 0.00 35.60 4.79
4512 7350 5.198207 ACCTGTTAAACAATAGGGGCATAC 58.802 41.667 5.34 0.00 35.60 2.39
4513 7351 4.274950 CCTGTTAAACAATAGGGGCATACG 59.725 45.833 0.00 0.00 0.00 3.06
4514 7352 5.100344 TGTTAAACAATAGGGGCATACGA 57.900 39.130 0.00 0.00 0.00 3.43
4515 7353 4.877251 TGTTAAACAATAGGGGCATACGAC 59.123 41.667 0.00 0.00 0.00 4.34
4516 7354 3.637911 AAACAATAGGGGCATACGACA 57.362 42.857 0.00 0.00 0.00 4.35
4517 7355 3.857157 AACAATAGGGGCATACGACAT 57.143 42.857 0.00 0.00 0.00 3.06
4518 7356 3.126001 ACAATAGGGGCATACGACATG 57.874 47.619 0.00 0.00 0.00 3.21
4519 7357 2.438021 ACAATAGGGGCATACGACATGT 59.562 45.455 0.00 0.00 0.00 3.21
4600 7438 6.537301 CCGTATAACCTTGCATTAAGAAGTCA 59.463 38.462 0.00 0.00 38.76 3.41
4611 7449 6.316140 TGCATTAAGAAGTCAATAACGAGCAT 59.684 34.615 0.00 0.00 0.00 3.79
4756 7595 6.143438 CGTTTGTGTCACTTTACGATTAGACT 59.857 38.462 15.32 0.00 0.00 3.24
4936 7776 9.495754 CTGTAGCATGCTTTAGATTTAAAGTTC 57.504 33.333 28.02 3.03 44.92 3.01
4938 7778 7.466746 AGCATGCTTTAGATTTAAAGTTCCA 57.533 32.000 16.30 7.14 44.92 3.53
4941 7781 8.650714 GCATGCTTTAGATTTAAAGTTCCAAAG 58.349 33.333 11.37 5.75 44.92 2.77
4942 7782 8.650714 CATGCTTTAGATTTAAAGTTCCAAAGC 58.349 33.333 19.33 19.33 44.92 3.51
4943 7783 6.861055 TGCTTTAGATTTAAAGTTCCAAAGCG 59.139 34.615 20.09 0.57 45.91 4.68
4957 7799 2.422276 AAAGCGAAGGCATTGACAAC 57.578 45.000 0.00 0.00 43.41 3.32
5011 7858 9.973661 TTGAGGTAATTTGAATTAGAGGAATGA 57.026 29.630 0.00 0.00 31.94 2.57
5039 7886 6.309737 GCTTTTCTGGATTGCTTATGTTCTTG 59.690 38.462 0.00 0.00 0.00 3.02
5062 7909 7.737972 TGTTTAGATTCTTTTCGGATTGACA 57.262 32.000 0.00 0.00 0.00 3.58
5298 8146 1.825090 GTCCTGTCAATGTGATGGCA 58.175 50.000 0.00 0.00 33.13 4.92
5347 8195 6.603201 ACAGGTGGAAACTGTATGAATTATGG 59.397 38.462 0.00 0.00 46.62 2.74
5563 8411 5.127194 ACGAGAGTATGTCTTTGCCTGAATA 59.873 40.000 0.00 0.00 46.88 1.75
5655 8503 3.655211 CAGGGGAAGGCAGCAGGT 61.655 66.667 0.00 0.00 0.00 4.00
5728 8576 5.954150 ACTGCCACATGATTCCTTTCTTAAT 59.046 36.000 0.00 0.00 0.00 1.40
5740 8588 9.736023 GATTCCTTTCTTAATAATCGTTGCAAT 57.264 29.630 0.59 0.00 0.00 3.56
5755 8603 0.249405 GCAATCCGAGAGCTCAGGAG 60.249 60.000 27.36 19.09 36.37 3.69
5843 8697 3.222603 AGGAATATCGGGGCAAACATTC 58.777 45.455 0.00 0.00 0.00 2.67
5844 8698 3.117512 AGGAATATCGGGGCAAACATTCT 60.118 43.478 0.00 0.00 0.00 2.40
5845 8699 4.104102 AGGAATATCGGGGCAAACATTCTA 59.896 41.667 0.00 0.00 0.00 2.10
5846 8700 4.825085 GGAATATCGGGGCAAACATTCTAA 59.175 41.667 0.00 0.00 0.00 2.10
5847 8701 5.048713 GGAATATCGGGGCAAACATTCTAAG 60.049 44.000 0.00 0.00 0.00 2.18
5859 8713 7.148069 GGCAAACATTCTAAGTAGGCAGTTAAT 60.148 37.037 0.00 0.00 0.00 1.40
6169 9023 2.554893 GCAAAATCTTGTGAACCCCGTA 59.445 45.455 0.00 0.00 34.79 4.02
6210 9064 9.160496 GTTTTCCATGCCTATATGAGAAGATAG 57.840 37.037 0.00 0.00 0.00 2.08
6238 9092 6.758416 CAGATTCGAATGGAAAGTGTCTCATA 59.242 38.462 16.96 0.00 38.36 2.15
6271 9127 0.852136 CCTTTTTCTTTTGCCGCACG 59.148 50.000 0.00 0.00 0.00 5.34
6306 9162 4.248859 CACTCTGAACTGAAATCGGTCAT 58.751 43.478 0.00 0.00 33.61 3.06
6355 9211 3.467803 CCTGCTTACTTAGGGCATGTAC 58.532 50.000 0.00 0.00 35.37 2.90
6367 9223 2.233271 GGCATGTACAATGCATAGCCT 58.767 47.619 22.92 0.00 46.21 4.58
6376 9232 0.471617 ATGCATAGCCTCAGGGTGAC 59.528 55.000 5.37 0.00 34.28 3.67
6379 9235 2.435693 ATAGCCTCAGGGTGACGCC 61.436 63.158 5.37 0.00 34.28 5.68
6380 9236 2.880629 ATAGCCTCAGGGTGACGCCT 62.881 60.000 5.37 0.00 37.43 5.52
6382 9238 2.997315 CCTCAGGGTGACGCCTCA 60.997 66.667 4.75 0.00 37.43 3.86
6383 9239 2.262915 CTCAGGGTGACGCCTCAC 59.737 66.667 4.75 7.25 45.54 3.51
6416 9272 7.610692 TGTAGGATCGGATATCAGGTAAAGTAG 59.389 40.741 4.83 0.00 0.00 2.57
6427 9283 4.891756 TCAGGTAAAGTAGGTTCGGATAGG 59.108 45.833 0.00 0.00 0.00 2.57
6434 9290 1.069258 GGTTCGGATAGGGAAGCGG 59.931 63.158 0.00 0.00 32.96 5.52
6439 9295 0.900647 CGGATAGGGAAGCGGGATCT 60.901 60.000 0.00 0.00 0.00 2.75
6441 9297 1.276705 GGATAGGGAAGCGGGATCTTC 59.723 57.143 0.00 0.00 41.21 2.87
6447 9303 0.813210 GAAGCGGGATCTTCTGCAGG 60.813 60.000 15.13 0.00 41.26 4.85
6451 9307 1.148048 GGGATCTTCTGCAGGAGGC 59.852 63.158 22.20 13.87 45.13 4.70
6497 9354 4.011023 TCCGGTGTCAAAAGTTGAAAAGA 58.989 39.130 0.00 0.00 42.15 2.52
6510 9367 5.976458 AGTTGAAAAGATTGGAGTGCAAAA 58.024 33.333 0.00 0.00 0.00 2.44
6527 9384 6.122850 TGCAAAATAGAGATGCATGTGTAC 57.877 37.500 2.46 0.00 44.52 2.90
6529 9386 6.183360 TGCAAAATAGAGATGCATGTGTACTG 60.183 38.462 2.46 3.25 44.52 2.74
6531 9388 5.620738 AATAGAGATGCATGTGTACTGGT 57.379 39.130 2.46 0.00 0.00 4.00
6574 9470 1.831106 TGAGGCCCATGTGTACTAGTG 59.169 52.381 5.39 0.00 0.00 2.74
6617 9513 1.486726 GGCCCACTAGTGATAGCTTGT 59.513 52.381 24.68 0.00 0.00 3.16
6620 9516 4.202367 GGCCCACTAGTGATAGCTTGTATT 60.202 45.833 24.68 0.00 0.00 1.89
6624 9520 5.300752 CACTAGTGATAGCTTGTATTGGGG 58.699 45.833 18.45 0.00 0.00 4.96
6625 9521 5.070446 CACTAGTGATAGCTTGTATTGGGGA 59.930 44.000 18.45 0.00 0.00 4.81
6626 9522 4.696479 AGTGATAGCTTGTATTGGGGAG 57.304 45.455 0.00 0.00 0.00 4.30
6628 9524 4.346418 AGTGATAGCTTGTATTGGGGAGAG 59.654 45.833 0.00 0.00 0.00 3.20
6669 9566 5.534654 TCTCAAACTACTTTTTGTCATGGGG 59.465 40.000 0.00 0.00 37.66 4.96
6675 9572 4.046286 ACTTTTTGTCATGGGGCATCTA 57.954 40.909 0.00 0.00 0.00 1.98
6697 9594 8.250143 TCTATATCCATATGCCGTCATTGTAT 57.750 34.615 0.00 0.00 34.22 2.29
6785 9682 1.060308 CCATCGTGGCGTTAAAGCG 59.940 57.895 7.30 0.00 38.18 4.68
6855 9752 0.603569 AAAGTGCGTGTCTCGGAGAT 59.396 50.000 11.46 0.00 41.14 2.75
6856 9753 0.109086 AAGTGCGTGTCTCGGAGATG 60.109 55.000 11.46 5.81 41.14 2.90
6857 9754 1.517257 GTGCGTGTCTCGGAGATGG 60.517 63.158 11.46 4.92 41.14 3.51
6858 9755 2.583593 GCGTGTCTCGGAGATGGC 60.584 66.667 11.46 10.96 40.26 4.40
6859 9756 2.278206 CGTGTCTCGGAGATGGCG 60.278 66.667 11.46 11.78 33.89 5.69
6948 9845 0.889306 AGTACAGAAGCACGAGGTCC 59.111 55.000 0.00 0.00 0.00 4.46
6956 9853 0.613292 AGCACGAGGTCCAGATCACT 60.613 55.000 0.00 0.00 0.00 3.41
6958 9855 2.001812 CACGAGGTCCAGATCACTTG 57.998 55.000 0.00 0.00 0.00 3.16
6960 9857 0.247460 CGAGGTCCAGATCACTTGCA 59.753 55.000 0.00 0.00 0.00 4.08
6966 9863 3.285484 GTCCAGATCACTTGCATGGATT 58.715 45.455 6.25 0.00 41.81 3.01
6970 9867 3.066342 CAGATCACTTGCATGGATTGGTC 59.934 47.826 4.44 0.00 0.00 4.02
6983 9880 1.000955 GATTGGTCGAGGCGGACATAT 59.999 52.381 12.59 6.00 38.70 1.78
7007 9904 1.813753 ATGACCATTTCGCCCGACG 60.814 57.895 0.00 0.00 45.62 5.12
7051 9951 3.017323 CAACGATGATGCCGAGCC 58.983 61.111 0.00 0.00 0.00 4.70
7062 9962 3.204827 CCGAGCCTGGAAATGCGG 61.205 66.667 0.00 0.00 0.00 5.69
7082 9982 4.489771 ATAGCCGGCACCACCAGC 62.490 66.667 31.54 0.00 42.77 4.85
7100 10000 2.666190 GCGAGCTCAGTGGTGCAA 60.666 61.111 15.40 0.00 36.01 4.08
7119 10019 0.984230 ACCATGGAGAACACCGTGAT 59.016 50.000 21.47 0.00 46.43 3.06
7176 10076 3.349006 CCGCATCTACGCATGCCC 61.349 66.667 13.15 0.00 45.59 5.36
7198 10098 2.148916 TGCCACTCTTGTAACAGTCG 57.851 50.000 0.00 0.00 0.00 4.18
7232 10135 6.073276 GGTGGAAATTTTGCATAAAGGTTGAC 60.073 38.462 6.61 0.00 32.24 3.18
7243 10146 5.625197 GCATAAAGGTTGACTGCCATTGATT 60.625 40.000 0.00 0.00 0.00 2.57
7251 10154 3.896888 TGACTGCCATTGATTTTCAGGTT 59.103 39.130 0.00 0.00 0.00 3.50
7262 10165 0.106419 TTTCAGGTTGTGGGTGGGTC 60.106 55.000 0.00 0.00 0.00 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 1.214062 GCTCTCACCCTGACTGACG 59.786 63.158 0.00 0.00 0.00 4.35
97 98 2.047844 GCTGGCGCACTTCTCTCA 60.048 61.111 10.83 0.00 35.78 3.27
571 572 1.376037 CTTGCTCCAGTCCCCGAAC 60.376 63.158 0.00 0.00 0.00 3.95
574 575 0.745845 CAATCTTGCTCCAGTCCCCG 60.746 60.000 0.00 0.00 0.00 5.73
646 651 8.644216 TCTTGACAAAGTACATTACTCTTACCA 58.356 33.333 0.00 0.00 38.26 3.25
657 723 5.241949 ACTCTCGAGTCTTGACAAAGTACAT 59.758 40.000 13.13 0.00 36.92 2.29
693 813 2.317609 CGACCCACCAGTTGCTTCG 61.318 63.158 0.00 0.00 0.00 3.79
714 834 2.276740 GCCCAGGAATGTGGAGGG 59.723 66.667 0.00 0.00 40.44 4.30
744 868 0.473117 TTCTTGGTTCCCTCCCTCGT 60.473 55.000 0.00 0.00 0.00 4.18
1065 1194 0.915364 GGGAGGAGGAAATGCTCTGT 59.085 55.000 1.90 0.00 45.30 3.41
1075 1204 4.075793 CGTGGAGGGGGAGGAGGA 62.076 72.222 0.00 0.00 0.00 3.71
1076 1205 4.075793 TCGTGGAGGGGGAGGAGG 62.076 72.222 0.00 0.00 0.00 4.30
1077 1206 2.305314 ATCTCGTGGAGGGGGAGGAG 62.305 65.000 0.00 0.00 0.00 3.69
1084 1213 1.365633 GCTGCTATCTCGTGGAGGG 59.634 63.158 0.00 0.00 0.00 4.30
1208 1338 7.222805 CCAATCAATCAATATACGGAGATACGG 59.777 40.741 0.00 0.00 38.39 4.02
1237 1367 5.578005 ATCGGAGTGTAGAAATCTCGAAA 57.422 39.130 0.00 0.00 0.00 3.46
1365 1495 1.419922 CCGCGACGAAATTGTCCTG 59.580 57.895 8.23 0.00 35.40 3.86
1538 1668 8.037758 GCTAGCCAATCTACATATACACTTCAT 58.962 37.037 2.29 0.00 0.00 2.57
1656 1789 0.181114 TTCCATTCCATCCTGAGGCG 59.819 55.000 0.00 0.00 0.00 5.52
1665 1798 0.887933 GGTTGCACGTTCCATTCCAT 59.112 50.000 0.00 0.00 0.00 3.41
1775 1909 0.620556 ATCCCACTGGGCACTACTTG 59.379 55.000 9.60 0.00 43.94 3.16
1814 1948 8.177013 GCAACAAATGAAGCATTAATTAAAGGG 58.823 33.333 1.21 0.00 32.43 3.95
1840 1974 1.364626 CTGAGCGGCTGTAGCTTTGG 61.365 60.000 7.50 0.00 46.13 3.28
1845 1979 2.584694 GAGCTGAGCGGCTGTAGC 60.585 66.667 21.70 21.70 43.20 3.58
1865 1999 2.969990 AGTGTCATCAGCTCACACATC 58.030 47.619 14.19 0.00 42.48 3.06
2059 2220 1.022735 TCGTCCCTCGAGCAGAATAC 58.977 55.000 6.99 0.00 44.01 1.89
2073 2234 3.738282 GCATAATCAGATGAGTGTCGTCC 59.262 47.826 0.00 0.00 32.93 4.79
2080 2241 6.643388 TGTAACAGTGCATAATCAGATGAGT 58.357 36.000 0.00 0.00 0.00 3.41
2306 2471 0.473755 TCTGTGTGACACCTTGGCAT 59.526 50.000 13.85 0.00 37.93 4.40
2458 2623 7.752239 CAGCAGAAATATTGTACTGAAACCAAG 59.248 37.037 16.46 0.00 32.90 3.61
2482 2647 7.362056 CCAACAGGAATATTGTACTGAAACCAG 60.362 40.741 14.79 0.00 37.67 4.00
2493 2658 6.976934 AACTGAAACCAACAGGAATATTGT 57.023 33.333 0.00 0.00 39.38 2.71
2494 2659 6.868339 GGAAACTGAAACCAACAGGAATATTG 59.132 38.462 0.00 0.00 39.38 1.90
2495 2660 6.294508 CGGAAACTGAAACCAACAGGAATATT 60.295 38.462 0.00 0.00 39.38 1.28
2496 2661 5.183140 CGGAAACTGAAACCAACAGGAATAT 59.817 40.000 0.00 0.00 39.38 1.28
2497 2662 4.517453 CGGAAACTGAAACCAACAGGAATA 59.483 41.667 0.00 0.00 39.38 1.75
2499 2664 2.685897 CGGAAACTGAAACCAACAGGAA 59.314 45.455 0.00 0.00 39.38 3.36
2500 2665 2.092861 TCGGAAACTGAAACCAACAGGA 60.093 45.455 0.00 0.00 39.38 3.86
2501 2666 2.294074 TCGGAAACTGAAACCAACAGG 58.706 47.619 0.00 0.00 39.38 4.00
2502 2667 3.691498 GTTCGGAAACTGAAACCAACAG 58.309 45.455 0.00 0.00 40.68 3.16
2503 2668 2.096174 CGTTCGGAAACTGAAACCAACA 59.904 45.455 0.00 0.00 32.95 3.33
2504 2669 2.352342 TCGTTCGGAAACTGAAACCAAC 59.648 45.455 0.00 0.00 32.95 3.77
2506 2671 2.312722 TCGTTCGGAAACTGAAACCA 57.687 45.000 0.00 0.00 32.95 3.67
2507 2672 3.891056 ATTCGTTCGGAAACTGAAACC 57.109 42.857 0.00 0.00 38.36 3.27
2508 2673 7.847166 ATTAAATTCGTTCGGAAACTGAAAC 57.153 32.000 0.00 0.00 38.36 2.78
2512 2677 9.155053 GCTATTATTAAATTCGTTCGGAAACTG 57.845 33.333 0.00 0.00 38.36 3.16
2513 2678 8.340443 GGCTATTATTAAATTCGTTCGGAAACT 58.660 33.333 0.00 0.00 38.36 2.66
2514 2679 8.340443 AGGCTATTATTAAATTCGTTCGGAAAC 58.660 33.333 0.00 0.00 38.36 2.78
2515 2680 8.441312 AGGCTATTATTAAATTCGTTCGGAAA 57.559 30.769 0.00 0.00 38.36 3.13
2537 2702 3.376918 GGTGGGAGCAGCAAAGGC 61.377 66.667 0.00 0.00 41.61 4.35
2538 2703 1.228675 AAGGTGGGAGCAGCAAAGG 60.229 57.895 0.00 0.00 0.00 3.11
2539 2704 1.246737 GGAAGGTGGGAGCAGCAAAG 61.247 60.000 0.00 0.00 0.00 2.77
2540 2705 1.228552 GGAAGGTGGGAGCAGCAAA 60.229 57.895 0.00 0.00 0.00 3.68
2541 2706 2.156098 AGGAAGGTGGGAGCAGCAA 61.156 57.895 0.00 0.00 0.00 3.91
2542 2707 2.530151 AGGAAGGTGGGAGCAGCA 60.530 61.111 0.00 0.00 0.00 4.41
2628 2793 2.857186 TAGCAATCAAGCACCTGTCA 57.143 45.000 0.00 0.00 36.85 3.58
2821 2986 3.321968 TCCATGGTAGATCATTCCACTCG 59.678 47.826 12.58 0.00 33.91 4.18
2978 3143 7.630082 AGCAAACCACCTAAAAGATAGATGTA 58.370 34.615 0.00 0.00 0.00 2.29
3235 3479 6.024049 GTCAGAACTGCATTGTTATACTTGC 58.976 40.000 0.00 0.00 35.67 4.01
3255 3499 5.924254 ACAACAATTGATTCTGCAATGTCAG 59.076 36.000 13.59 0.00 38.42 3.51
3439 6091 5.418840 ACCTGCTCCAAATTACAATGTTAGG 59.581 40.000 0.00 0.00 0.00 2.69
3558 6210 3.199727 ACCTGTGGAAATTGCCTGTTTTT 59.800 39.130 3.49 0.00 0.00 1.94
3604 6256 4.873827 TGTAAACTTCAAGTCGAGCAAACT 59.126 37.500 0.00 0.00 0.00 2.66
3654 6306 3.492656 CCCGACTGACTCTTCTGTCAAAA 60.493 47.826 10.94 0.00 46.17 2.44
3778 6431 5.163478 ACCGGATCAAATAGTAACTAACGCT 60.163 40.000 9.46 0.00 0.00 5.07
3799 6452 1.540267 AGTGTGCTACAGTCTACACCG 59.460 52.381 9.91 0.00 43.23 4.94
3928 6581 3.304659 GCCAAGCAGATTTCGAGAAAACA 60.305 43.478 2.17 0.00 33.56 2.83
4081 6734 1.261238 CCGAAGTCCCTGGCTTCTCT 61.261 60.000 6.85 0.00 39.94 3.10
4385 7134 4.548991 GCAAAATGCATCCAAACAAACA 57.451 36.364 0.00 0.00 44.26 2.83
4402 7151 1.771854 TGTCAGGGAGTTACCAGCAAA 59.228 47.619 0.00 0.00 41.20 3.68
4490 7328 4.274950 CGTATGCCCCTATTGTTTAACAGG 59.725 45.833 0.00 0.00 0.00 4.00
4507 7345 8.934316 ACATATCAATGTCGACATGTCGTATGC 61.934 40.741 38.72 27.87 42.92 3.14
4512 7350 6.747659 TTACATATCAATGTCGACATGTCG 57.252 37.500 36.47 36.47 42.92 4.35
4513 7351 9.191995 TGTATTACATATCAATGTCGACATGTC 57.808 33.333 30.57 16.21 42.92 3.06
4514 7352 9.196552 CTGTATTACATATCAATGTCGACATGT 57.803 33.333 30.57 24.79 42.92 3.21
4515 7353 9.410556 TCTGTATTACATATCAATGTCGACATG 57.589 33.333 30.57 22.63 42.92 3.21
4516 7354 9.981114 TTCTGTATTACATATCAATGTCGACAT 57.019 29.630 25.18 25.18 42.92 3.06
4517 7355 9.810545 TTTCTGTATTACATATCAATGTCGACA 57.189 29.630 22.48 22.48 42.92 4.35
4554 7392 2.615929 TTCCCCTTACCCCCTGCC 60.616 66.667 0.00 0.00 0.00 4.85
4581 7419 7.174253 TCGTTATTGACTTCTTAATGCAAGGTT 59.826 33.333 0.00 0.00 34.76 3.50
4653 7492 1.806623 CGGTTGGCTAGTGGTATGAGC 60.807 57.143 0.00 0.00 35.39 4.26
4777 7616 6.951198 TGGCTGGAATAGTCCTAAAAATCAAA 59.049 34.615 11.10 0.00 45.22 2.69
4936 7776 0.597568 TGTCAATGCCTTCGCTTTGG 59.402 50.000 9.87 0.00 45.55 3.28
4938 7778 1.334960 CGTTGTCAATGCCTTCGCTTT 60.335 47.619 0.00 0.00 35.36 3.51
4941 7781 0.793861 TACGTTGTCAATGCCTTCGC 59.206 50.000 4.63 0.00 0.00 4.70
4942 7782 2.066262 ACTACGTTGTCAATGCCTTCG 58.934 47.619 4.63 0.00 0.00 3.79
4943 7783 3.064207 TGACTACGTTGTCAATGCCTTC 58.936 45.455 26.72 2.00 43.08 3.46
4957 7799 4.166523 CAATAGTGTGGACAGTGACTACG 58.833 47.826 0.00 0.00 0.00 3.51
5011 7858 4.768968 ACATAAGCAATCCAGAAAAGCTGT 59.231 37.500 0.00 0.00 43.33 4.40
5062 7909 5.130975 TGAGGTCACCATACTGCTTGAATAT 59.869 40.000 0.00 0.00 0.00 1.28
5298 8146 2.024655 ACCAAGGCAATGGATCATGTCT 60.025 45.455 15.29 0.00 43.54 3.41
5347 8195 2.922740 TATTTCCATGGCCGTCTACC 57.077 50.000 6.96 0.00 0.00 3.18
5433 8281 1.918262 AGAGGAAACATCAGCATCCCA 59.082 47.619 0.00 0.00 32.15 4.37
5563 8411 5.865085 TGTAAACTAGAATGTGCCTTCTGT 58.135 37.500 0.00 0.00 36.21 3.41
5655 8503 3.390967 TCACCTTTGTCCTCATGTCAAGA 59.609 43.478 0.00 0.00 0.00 3.02
5716 8564 8.188139 GGATTGCAACGATTATTAAGAAAGGAA 58.812 33.333 0.00 0.00 0.00 3.36
5717 8565 7.466725 CGGATTGCAACGATTATTAAGAAAGGA 60.467 37.037 0.00 0.00 0.00 3.36
5728 8576 2.159099 AGCTCTCGGATTGCAACGATTA 60.159 45.455 11.94 4.17 38.56 1.75
5831 8685 2.688446 GCCTACTTAGAATGTTTGCCCC 59.312 50.000 0.00 0.00 0.00 5.80
5843 8697 7.307632 GCATGACATGATTAACTGCCTACTTAG 60.308 40.741 19.76 0.00 0.00 2.18
5844 8698 6.483307 GCATGACATGATTAACTGCCTACTTA 59.517 38.462 19.76 0.00 0.00 2.24
5845 8699 5.297776 GCATGACATGATTAACTGCCTACTT 59.702 40.000 19.76 0.00 0.00 2.24
5846 8700 4.818546 GCATGACATGATTAACTGCCTACT 59.181 41.667 19.76 0.00 0.00 2.57
5847 8701 4.576053 TGCATGACATGATTAACTGCCTAC 59.424 41.667 19.76 0.00 0.00 3.18
5859 8713 5.197682 TGTCAAAACATTGCATGACATGA 57.802 34.783 19.76 0.00 45.14 3.07
6000 8854 3.624777 AGTGAATGGATCAACCCATGTC 58.375 45.455 0.00 0.00 45.69 3.06
6169 9023 4.406456 TGGAAAACATCACCTGTAAGCAT 58.594 39.130 0.00 0.00 36.98 3.79
6210 9064 2.098117 CACTTTCCATTCGAATCTGCCC 59.902 50.000 7.92 0.00 0.00 5.36
6238 9092 4.210331 AGAAAAAGGCACAACAGAGACAT 58.790 39.130 0.00 0.00 0.00 3.06
6271 9127 0.310854 CAGAGTGGCCGAAACAAACC 59.689 55.000 0.00 0.00 0.00 3.27
6306 9162 3.678289 CTCCATTGTGGTTCATGAGTCA 58.322 45.455 0.00 0.00 39.03 3.41
6355 9211 1.134007 TCACCCTGAGGCTATGCATTG 60.134 52.381 3.54 3.55 36.11 2.82
6376 9232 1.162181 CCTACATGGCATGTGAGGCG 61.162 60.000 36.61 20.73 44.60 5.52
6379 9235 2.410939 CGATCCTACATGGCATGTGAG 58.589 52.381 36.61 27.60 44.60 3.51
6380 9236 1.070601 CCGATCCTACATGGCATGTGA 59.929 52.381 36.61 27.62 44.60 3.58
6382 9238 1.423584 TCCGATCCTACATGGCATGT 58.576 50.000 33.18 33.18 46.92 3.21
6383 9239 2.775911 ATCCGATCCTACATGGCATG 57.224 50.000 25.31 25.31 35.26 4.06
6388 9244 6.775594 TTACCTGATATCCGATCCTACATG 57.224 41.667 0.00 0.00 0.00 3.21
6416 9272 1.069258 CCGCTTCCCTATCCGAACC 59.931 63.158 0.00 0.00 0.00 3.62
6427 9283 0.813210 CTGCAGAAGATCCCGCTTCC 60.813 60.000 8.42 0.00 44.14 3.46
6434 9290 1.227497 CGCCTCCTGCAGAAGATCC 60.227 63.158 17.39 0.00 41.33 3.36
6439 9295 4.020617 CACCCGCCTCCTGCAGAA 62.021 66.667 17.39 0.00 41.33 3.02
6447 9303 2.125350 CTCTCAAGCACCCGCCTC 60.125 66.667 0.00 0.00 39.83 4.70
6451 9307 1.532868 CACTTTTCTCTCAAGCACCCG 59.467 52.381 0.00 0.00 0.00 5.28
6497 9354 4.951715 TGCATCTCTATTTTGCACTCCAAT 59.048 37.500 0.00 0.00 41.18 3.16
6510 9367 4.406972 ACACCAGTACACATGCATCTCTAT 59.593 41.667 0.00 0.00 0.00 1.98
6645 9542 5.534654 CCCCATGACAAAAAGTAGTTTGAGA 59.465 40.000 4.76 0.00 40.29 3.27
6669 9566 4.948847 TGACGGCATATGGATATAGATGC 58.051 43.478 4.56 0.00 0.00 3.91
6675 9572 7.388776 GCATATACAATGACGGCATATGGATAT 59.611 37.037 18.19 18.19 33.79 1.63
6772 9669 0.179207 GCTAACCGCTTTAACGCCAC 60.179 55.000 0.00 0.00 35.14 5.01
6858 9755 3.274586 CATCATCCGCTGCCACCG 61.275 66.667 0.00 0.00 0.00 4.94
6859 9756 3.589881 GCATCATCCGCTGCCACC 61.590 66.667 0.00 0.00 32.15 4.61
6871 9768 2.747460 GCACCGCTTCCTGCATCA 60.747 61.111 0.00 0.00 43.06 3.07
6919 9816 0.528017 CTTCTGTACTCGAGCTGCCA 59.472 55.000 13.61 3.06 0.00 4.92
6948 9845 3.021695 ACCAATCCATGCAAGTGATCTG 58.978 45.455 0.00 0.00 0.00 2.90
6956 9853 1.031571 GCCTCGACCAATCCATGCAA 61.032 55.000 0.00 0.00 0.00 4.08
6958 9855 2.537560 CGCCTCGACCAATCCATGC 61.538 63.158 0.00 0.00 0.00 4.06
6960 9857 2.063979 TCCGCCTCGACCAATCCAT 61.064 57.895 0.00 0.00 0.00 3.41
6966 9863 1.544246 CATATATGTCCGCCTCGACCA 59.456 52.381 4.43 0.00 31.35 4.02
6983 9880 2.571212 GGGCGAAATGGTCATGACATA 58.429 47.619 26.47 15.39 0.00 2.29
7000 9897 4.803426 CAGAGGAGCACGTCGGGC 62.803 72.222 12.69 12.69 36.24 6.13
7007 9904 3.386237 AGTCGGCCAGAGGAGCAC 61.386 66.667 2.24 0.00 0.00 4.40
7033 9933 2.325857 GCTCGGCATCATCGTTGC 59.674 61.111 0.00 0.00 39.41 4.17
7045 9945 3.204827 CCGCATTTCCAGGCTCGG 61.205 66.667 0.00 0.00 0.00 4.63
7051 9951 1.656441 GCTATGGCCGCATTTCCAG 59.344 57.895 0.00 0.00 35.57 3.86
7084 9984 2.320587 GGTTGCACCACTGAGCTCG 61.321 63.158 9.64 6.63 38.42 5.03
7100 10000 0.984230 ATCACGGTGTTCTCCATGGT 59.016 50.000 12.58 0.00 0.00 3.55
7109 10009 3.408634 CCTTTTCCAGTATCACGGTGTT 58.591 45.455 8.17 2.24 0.00 3.32
7119 10019 0.334676 CCATGGCCCCTTTTCCAGTA 59.665 55.000 0.00 0.00 35.57 2.74
7148 10048 1.455383 TAGATGCGGCGCAGATCTCA 61.455 55.000 38.27 21.13 43.65 3.27
7176 10076 2.668457 GACTGTTACAAGAGTGGCATCG 59.332 50.000 0.00 0.00 32.03 3.84
7198 10098 4.578105 TGCAAAATTTCCACCCAAATCAAC 59.422 37.500 0.00 0.00 0.00 3.18
7232 10135 3.991773 CACAACCTGAAAATCAATGGCAG 59.008 43.478 0.00 0.00 0.00 4.85
7243 10146 0.106419 GACCCACCCACAACCTGAAA 60.106 55.000 0.00 0.00 0.00 2.69
7270 10173 2.382305 TCTAGGAGTCCCCAGAAGTCAA 59.618 50.000 5.25 0.00 37.41 3.18
7271 10174 2.000803 TCTAGGAGTCCCCAGAAGTCA 58.999 52.381 5.25 0.00 37.41 3.41
7274 10177 2.604139 GGATCTAGGAGTCCCCAGAAG 58.396 57.143 13.61 1.89 37.41 2.85


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

AutoCloner maintained by Alex Coulton.