Multiple sequence alignment - TraesCS7D01G216500

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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 TraesCS7D01G216500 chr7D 100.000 8155 0 0 1 8155 176174509 176166355 0.000000e+00 15060.0
1 TraesCS7D01G216500 chr7D 95.833 96 4 0 2708 2803 167548418 167548513 1.100000e-33 156.0
2 TraesCS7D01G216500 chr7B 96.274 5663 166 22 1621 7265 141851124 141856759 0.000000e+00 9247.0
3 TraesCS7D01G216500 chr7B 93.390 817 37 6 731 1547 141850337 141851136 0.000000e+00 1194.0
4 TraesCS7D01G216500 chr7B 97.481 675 13 4 7483 8155 141864305 141864977 0.000000e+00 1149.0
5 TraesCS7D01G216500 chr7B 92.857 126 5 1 7248 7373 141863770 141863891 6.500000e-41 180.0
6 TraesCS7D01G216500 chr7B 95.556 90 4 0 2707 2796 639796196 639796285 2.370000e-30 145.0
7 TraesCS7D01G216500 chr7B 94.444 72 3 1 464 535 141849996 141850066 8.650000e-20 110.0
8 TraesCS7D01G216500 chr7A 95.609 3803 132 10 3573 7373 178291825 178295594 0.000000e+00 6065.0
9 TraesCS7D01G216500 chr7A 94.804 1097 51 5 1621 2713 178289996 178291090 0.000000e+00 1705.0
10 TraesCS7D01G216500 chr7A 92.705 987 49 12 569 1547 178289037 178290008 0.000000e+00 1402.0
11 TraesCS7D01G216500 chr7A 96.556 784 17 4 7375 8155 178295632 178296408 0.000000e+00 1290.0
12 TraesCS7D01G216500 chr7A 97.111 727 20 1 2791 3517 178291085 178291810 0.000000e+00 1225.0
13 TraesCS7D01G216500 chr7A 86.231 581 56 8 1 565 178288360 178288932 7.000000e-170 608.0
14 TraesCS7D01G216500 chr1D 80.978 552 60 27 5189 5708 455114995 455114457 5.930000e-106 396.0
15 TraesCS7D01G216500 chr1A 81.633 490 65 16 5240 5721 549048813 549048341 4.620000e-102 383.0
16 TraesCS7D01G216500 chr2A 77.030 505 82 26 7633 8125 570608882 570608400 8.120000e-65 259.0
17 TraesCS7D01G216500 chr2A 96.591 88 3 0 2709 2796 539325577 539325664 6.600000e-31 147.0
18 TraesCS7D01G216500 chr2A 97.647 85 2 0 2710 2794 745552847 745552763 6.600000e-31 147.0
19 TraesCS7D01G216500 chr2D 76.846 501 84 24 7633 8122 419364560 419365039 3.780000e-63 254.0
20 TraesCS7D01G216500 chr2D 92.593 54 2 2 1565 1616 522691074 522691021 8.780000e-10 76.8
21 TraesCS7D01G216500 chr6A 94.624 93 5 0 2702 2794 93285696 93285788 2.370000e-30 145.0
22 TraesCS7D01G216500 chr6A 94.915 59 2 1 1566 1624 602170296 602170239 3.130000e-14 91.6
23 TraesCS7D01G216500 chr6A 92.857 56 1 2 1565 1617 34679787 34679732 2.440000e-10 78.7
24 TraesCS7D01G216500 chr6B 92.784 97 7 0 2699 2795 705518244 705518148 3.070000e-29 141.0
25 TraesCS7D01G216500 chr6B 92.632 95 7 0 2702 2796 551951862 551951956 3.970000e-28 137.0
26 TraesCS7D01G216500 chr5A 91.176 102 8 1 2709 2810 578056662 578056762 3.970000e-28 137.0
27 TraesCS7D01G216500 chr5A 86.957 69 5 4 7842 7908 631330517 631330451 3.160000e-09 75.0
28 TraesCS7D01G216500 chr3D 94.828 58 1 2 1565 1621 600164623 600164679 1.130000e-13 89.8
29 TraesCS7D01G216500 chr3D 93.103 58 3 1 1565 1621 580334847 580334790 5.240000e-12 84.2
30 TraesCS7D01G216500 chr1B 96.226 53 1 1 1565 1616 554510507 554510455 1.460000e-12 86.1
31 TraesCS7D01G216500 chr5D 86.957 69 5 4 7842 7908 502596599 502596533 3.160000e-09 75.0
32 TraesCS7D01G216500 chr5B 86.957 69 5 4 7842 7908 626338352 626338286 3.160000e-09 75.0
33 TraesCS7D01G216500 chr5B 86.957 69 5 4 7842 7908 631464774 631464708 3.160000e-09 75.0


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 TraesCS7D01G216500 chr7D 176166355 176174509 8154 True 15060.000000 15060 100.000000 1 8155 1 chr7D.!!$R1 8154
1 TraesCS7D01G216500 chr7B 141849996 141856759 6763 False 3517.000000 9247 94.702667 464 7265 3 chr7B.!!$F2 6801
2 TraesCS7D01G216500 chr7B 141863770 141864977 1207 False 664.500000 1149 95.169000 7248 8155 2 chr7B.!!$F3 907
3 TraesCS7D01G216500 chr7A 178288360 178296408 8048 False 2049.166667 6065 93.836000 1 8155 6 chr7A.!!$F1 8154
4 TraesCS7D01G216500 chr1D 455114457 455114995 538 True 396.000000 396 80.978000 5189 5708 1 chr1D.!!$R1 519

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
398 414 0.036306 CCGTTTGGAGTTGGCCTAGT 59.964 55.000 3.32 0.00 37.49 2.57 F
1360 1489 1.002011 GGGGGAGGCTGTTTCTGTC 60.002 63.158 0.00 0.00 0.00 3.51 F
2212 2350 0.035534 TGCCTCCACGTGCACATAAT 60.036 50.000 18.64 0.00 31.31 1.28 F
4047 4195 2.236395 ACAAGGGCACTACCATGTAGTC 59.764 50.000 3.99 0.98 42.05 2.59 F
4687 4835 3.394606 ACTAGAAGGTTTGCCTCCTTTGA 59.605 43.478 0.00 0.00 46.33 2.69 F
5136 5289 0.771755 GTGGGGTTTTGGAGAGAGGT 59.228 55.000 0.00 0.00 0.00 3.85 F
6389 6597 0.034337 GGTCGGTGTGCTCCAGTTTA 59.966 55.000 0.00 0.00 0.00 2.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1551 1684 0.532115 GGGGCAATTTGCGTCTCAAT 59.468 50.000 14.83 0.0 46.21 2.57 R
2704 2851 4.038271 TCTTTACGGAGGGAGTACTTCA 57.962 45.455 2.92 0.0 0.00 3.02 R
4128 4276 2.301577 AGATCACCTCGTTGCTTAGC 57.698 50.000 0.00 0.0 0.00 3.09 R
5114 5267 0.402861 TCTCTCCAAAACCCCACCCT 60.403 55.000 0.00 0.0 0.00 4.34 R
6330 6538 0.390492 TCATGGCAGGAGCATAGTCG 59.610 55.000 0.00 0.0 44.61 4.18 R
6993 7202 1.264020 CGCACGTGGATGATTATTGGG 59.736 52.381 18.88 0.0 0.00 4.12 R
8032 8549 0.948623 TCAAGGCGTCCAACATCGTG 60.949 55.000 0.00 0.0 0.00 4.35 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
21 22 2.738846 ACTTTCGCATGCAGACAACTAG 59.261 45.455 19.57 9.76 0.00 2.57
22 23 1.725641 TTCGCATGCAGACAACTAGG 58.274 50.000 19.57 0.00 0.00 3.02
30 31 0.984230 CAGACAACTAGGCCCTCCAA 59.016 55.000 0.00 0.00 33.74 3.53
32 33 0.253327 GACAACTAGGCCCTCCAAGG 59.747 60.000 0.00 0.00 34.30 3.61
78 80 4.016706 CTCCCGACACACCCCACC 62.017 72.222 0.00 0.00 0.00 4.61
87 89 3.020647 CACCCCACCCCTATGGCA 61.021 66.667 0.00 0.00 38.55 4.92
94 96 4.189580 CCCCTATGGCACCACCGG 62.190 72.222 0.00 0.00 43.94 5.28
109 111 4.435436 CGGCTACCGTGCAGAGCA 62.435 66.667 10.86 0.00 42.73 4.26
110 112 2.047274 GGCTACCGTGCAGAGCAA 60.047 61.111 10.86 0.00 41.47 3.91
114 116 0.244994 CTACCGTGCAGAGCAACTCT 59.755 55.000 0.00 0.00 41.47 3.24
119 121 2.431601 GCAGAGCAACTCTCGCGT 60.432 61.111 5.77 0.00 46.44 6.01
120 122 2.440569 GCAGAGCAACTCTCGCGTC 61.441 63.158 5.77 0.00 46.44 5.19
127 129 1.667467 GCAACTCTCGCGTCTTCTTCT 60.667 52.381 5.77 0.00 0.00 2.85
187 189 0.868406 CTCAACCGAGCAGAACCAAC 59.132 55.000 0.00 0.00 31.00 3.77
211 213 1.096386 GGTACCACAAACACGGTGCA 61.096 55.000 7.15 0.00 39.43 4.57
232 234 2.729491 CTGCGTGCTCGTCGTTGA 60.729 61.111 10.18 0.00 39.49 3.18
233 235 2.049526 TGCGTGCTCGTCGTTGAT 60.050 55.556 10.18 0.00 39.49 2.57
234 236 2.271024 CTGCGTGCTCGTCGTTGATG 62.271 60.000 10.18 0.00 39.49 3.07
235 237 2.391821 CGTGCTCGTCGTTGATGC 59.608 61.111 0.00 0.00 0.00 3.91
236 238 2.778679 GTGCTCGTCGTTGATGCC 59.221 61.111 0.00 0.00 0.00 4.40
237 239 2.809174 TGCTCGTCGTTGATGCCG 60.809 61.111 0.00 0.00 0.00 5.69
238 240 3.554692 GCTCGTCGTTGATGCCGG 61.555 66.667 0.00 0.00 0.00 6.13
239 241 3.554692 CTCGTCGTTGATGCCGGC 61.555 66.667 22.73 22.73 0.00 6.13
240 242 4.365505 TCGTCGTTGATGCCGGCA 62.366 61.111 34.80 34.80 0.00 5.69
273 275 5.120399 TCTGTTAGGTGTTTGACGAAATGT 58.880 37.500 0.00 0.00 0.00 2.71
274 276 9.359217 CCTCTGTTAGGTGTTTGACGAAATGTC 62.359 44.444 0.00 0.00 43.38 3.06
308 310 1.153524 ACCAAATGAGGCAGCACCA 59.846 52.632 0.00 0.00 43.14 4.17
374 390 6.824553 TGATCAAATTTCATGTTGGTTTGGA 58.175 32.000 0.00 0.00 32.26 3.53
397 413 0.676782 CCCGTTTGGAGTTGGCCTAG 60.677 60.000 3.32 0.00 37.49 3.02
398 414 0.036306 CCGTTTGGAGTTGGCCTAGT 59.964 55.000 3.32 0.00 37.49 2.57
432 448 3.062361 GCTCTTGCTTGACACTCAGTGT 61.062 50.000 11.22 11.22 42.04 3.55
449 465 1.195448 GTGTGTCAAGTCCAGCAATCG 59.805 52.381 0.00 0.00 0.00 3.34
453 469 3.932710 GTGTCAAGTCCAGCAATCGAATA 59.067 43.478 0.00 0.00 0.00 1.75
457 473 3.131709 AGTCCAGCAATCGAATATGGG 57.868 47.619 8.81 0.52 0.00 4.00
560 577 6.688073 TCTTCCCTTGTTCTGATTTCTAGT 57.312 37.500 0.00 0.00 0.00 2.57
561 578 6.467677 TCTTCCCTTGTTCTGATTTCTAGTG 58.532 40.000 0.00 0.00 0.00 2.74
565 582 6.710744 TCCCTTGTTCTGATTTCTAGTGTTTC 59.289 38.462 0.00 0.00 0.00 2.78
591 711 8.858186 CACGTTTATGATTATTTGAACAATGCA 58.142 29.630 0.00 0.00 0.00 3.96
780 905 3.181491 CCGTGAAAAGAAAGGAGCAAACA 60.181 43.478 0.00 0.00 0.00 2.83
823 948 2.689034 CACTCCCCCTCCCAGGAC 60.689 72.222 0.00 0.00 37.67 3.85
867 992 2.372690 CGAAACTCACTCGGCCACG 61.373 63.158 2.24 0.00 42.74 4.94
921 1046 1.219935 CCTAAACCTAACGGCGGCT 59.780 57.895 13.24 0.00 0.00 5.52
1075 1203 2.268280 CCTCCTCAGGTGCTGCTG 59.732 66.667 0.00 0.00 34.60 4.41
1076 1204 2.268280 CTCCTCAGGTGCTGCTGG 59.732 66.667 0.00 0.00 0.00 4.85
1122 1250 5.541101 TGCCGCCCTCTTATTTAATAGAGTA 59.459 40.000 0.00 0.00 0.00 2.59
1199 1328 3.706373 TGGAGCGGAGGAGGTTGC 61.706 66.667 0.00 0.00 0.00 4.17
1266 1395 1.381191 GAAATCCCCCGCCACCAAT 60.381 57.895 0.00 0.00 0.00 3.16
1356 1485 2.656002 GATTAAGGGGGAGGCTGTTTC 58.344 52.381 0.00 0.00 0.00 2.78
1360 1489 1.002011 GGGGGAGGCTGTTTCTGTC 60.002 63.158 0.00 0.00 0.00 3.51
1397 1527 7.667043 AGCGATGTTCTAATGTGTTTCTTTA 57.333 32.000 0.00 0.00 0.00 1.85
1398 1528 7.519002 AGCGATGTTCTAATGTGTTTCTTTAC 58.481 34.615 0.00 0.00 0.00 2.01
1399 1529 7.387948 AGCGATGTTCTAATGTGTTTCTTTACT 59.612 33.333 0.00 0.00 0.00 2.24
1400 1530 8.653338 GCGATGTTCTAATGTGTTTCTTTACTA 58.347 33.333 0.00 0.00 0.00 1.82
1401 1531 9.953825 CGATGTTCTAATGTGTTTCTTTACTAC 57.046 33.333 0.00 0.00 0.00 2.73
1428 1561 8.114359 ACAAGATTATCGTTGTTTTGTGTTTG 57.886 30.769 4.89 0.00 32.93 2.93
1478 1611 8.162878 TCTCCCGTATTAAGATAGTTGTACAG 57.837 38.462 0.00 0.00 0.00 2.74
1505 1638 9.286946 CATTCAGATTAAATGAGCTGAAACTTC 57.713 33.333 9.47 0.00 46.60 3.01
1560 1693 7.739295 TGTCTACTGAAAATTAATTGAGACGC 58.261 34.615 0.39 0.00 34.80 5.19
1561 1694 7.386573 TGTCTACTGAAAATTAATTGAGACGCA 59.613 33.333 0.39 0.00 34.80 5.24
1562 1695 8.227791 GTCTACTGAAAATTAATTGAGACGCAA 58.772 33.333 0.39 0.00 41.53 4.85
1563 1696 8.779303 TCTACTGAAAATTAATTGAGACGCAAA 58.221 29.630 0.39 0.00 40.48 3.68
1564 1697 9.559958 CTACTGAAAATTAATTGAGACGCAAAT 57.440 29.630 0.39 0.00 40.48 2.32
1565 1698 8.816640 ACTGAAAATTAATTGAGACGCAAATT 57.183 26.923 0.39 0.00 40.48 1.82
1566 1699 8.702438 ACTGAAAATTAATTGAGACGCAAATTG 58.298 29.630 0.39 0.00 40.48 2.32
1567 1700 7.508965 TGAAAATTAATTGAGACGCAAATTGC 58.491 30.769 8.09 8.09 40.48 3.56
1568 1701 6.407475 AAATTAATTGAGACGCAAATTGCC 57.593 33.333 12.80 0.00 41.12 4.52
1569 1702 2.368655 AATTGAGACGCAAATTGCCC 57.631 45.000 12.80 4.69 41.12 5.36
1570 1703 0.532115 ATTGAGACGCAAATTGCCCC 59.468 50.000 12.80 4.32 41.12 5.80
1571 1704 1.861542 TTGAGACGCAAATTGCCCCG 61.862 55.000 12.80 0.92 41.12 5.73
1572 1705 2.282180 AGACGCAAATTGCCCCGT 60.282 55.556 12.80 4.48 41.12 5.28
1573 1706 1.862602 GAGACGCAAATTGCCCCGTT 61.863 55.000 12.80 0.00 41.12 4.44
1574 1707 1.006688 GACGCAAATTGCCCCGTTT 60.007 52.632 12.80 0.00 41.12 3.60
1575 1708 0.598942 GACGCAAATTGCCCCGTTTT 60.599 50.000 12.80 0.00 41.12 2.43
1576 1709 0.674534 ACGCAAATTGCCCCGTTTTA 59.325 45.000 12.80 0.00 41.12 1.52
1577 1710 1.068741 ACGCAAATTGCCCCGTTTTAA 59.931 42.857 12.80 0.00 41.12 1.52
1578 1711 2.289133 ACGCAAATTGCCCCGTTTTAAT 60.289 40.909 12.80 0.00 41.12 1.40
1579 1712 3.056749 ACGCAAATTGCCCCGTTTTAATA 60.057 39.130 12.80 0.00 41.12 0.98
1580 1713 3.927142 CGCAAATTGCCCCGTTTTAATAA 59.073 39.130 12.80 0.00 41.12 1.40
1581 1714 4.389077 CGCAAATTGCCCCGTTTTAATAAA 59.611 37.500 12.80 0.00 41.12 1.40
1582 1715 5.107065 CGCAAATTGCCCCGTTTTAATAAAA 60.107 36.000 12.80 0.00 41.12 1.52
1583 1716 6.565999 CGCAAATTGCCCCGTTTTAATAAAAA 60.566 34.615 12.80 0.00 41.12 1.94
1584 1717 7.309177 GCAAATTGCCCCGTTTTAATAAAAAT 58.691 30.769 6.72 0.00 37.42 1.82
1585 1718 7.272299 GCAAATTGCCCCGTTTTAATAAAAATG 59.728 33.333 6.72 0.00 38.00 2.32
1593 1726 5.179533 CGTTTTAATAAAAATGGGGTGGGG 58.820 41.667 0.00 0.00 37.75 4.96
1594 1727 5.502079 GTTTTAATAAAAATGGGGTGGGGG 58.498 41.667 0.00 0.00 36.96 5.40
1648 1781 3.848726 CTGAAAGTGTGCCAGTTTTTGT 58.151 40.909 8.72 0.00 37.16 2.83
1655 1788 3.317993 GTGTGCCAGTTTTTGTATGACCT 59.682 43.478 0.00 0.00 0.00 3.85
1731 1867 6.540914 ACCTTCGTGTTCAGTTCTGAAAATAA 59.459 34.615 15.44 9.10 0.00 1.40
1763 1900 2.442236 TCGTAGGAGGGAAATACGGT 57.558 50.000 4.39 0.00 41.88 4.83
1779 1916 8.522003 GGAAATACGGTTTAGGGTCAATTTTAA 58.478 33.333 0.00 0.00 0.00 1.52
1853 1990 3.334881 ACTTCAGGTGGAATTGGAATCCT 59.665 43.478 0.00 0.00 37.85 3.24
1993 2130 4.220724 AGGCAATTGGTGATAATGATGCT 58.779 39.130 7.72 0.00 33.29 3.79
2157 2294 6.547510 ACTGCTGAAGAGAAGGTAAAACATTT 59.452 34.615 0.00 0.00 0.00 2.32
2166 2304 5.298276 AGAAGGTAAAACATTTTCACGAGCA 59.702 36.000 0.00 0.00 0.00 4.26
2212 2350 0.035534 TGCCTCCACGTGCACATAAT 60.036 50.000 18.64 0.00 31.31 1.28
2420 2564 7.702348 GCATCAGTTCCCATTTCTTTGTATTAC 59.298 37.037 0.00 0.00 0.00 1.89
2590 2735 5.104402 TGCAATGATCCTCTTATTCAGGTGA 60.104 40.000 0.00 0.00 32.20 4.02
2704 2851 4.468153 GGTGACTGGAGGTATCTTTCTTCT 59.532 45.833 0.00 0.00 0.00 2.85
2719 2866 2.724454 TCTTCTGAAGTACTCCCTCCG 58.276 52.381 16.43 0.00 0.00 4.63
2737 2884 6.325545 TCCCTCCGTAAAGAAATATAAGAGCA 59.674 38.462 0.00 0.00 0.00 4.26
2740 2887 9.057089 CCTCCGTAAAGAAATATAAGAGCATTT 57.943 33.333 0.00 0.00 0.00 2.32
2940 3087 8.800972 CGCTAATAAATTACGTAGTCTTGTGAA 58.199 33.333 0.00 0.00 43.93 3.18
3439 3587 4.081420 ACTCAACTTGACAGCTAGGTATGG 60.081 45.833 0.00 0.00 0.00 2.74
4047 4195 2.236395 ACAAGGGCACTACCATGTAGTC 59.764 50.000 3.99 0.98 42.05 2.59
4118 4266 9.888878 CGATTAGAAGTTAATACGGAACATAGA 57.111 33.333 0.00 0.00 0.00 1.98
4128 4276 4.939052 ACGGAACATAGATTCAGTAGGG 57.061 45.455 0.00 0.00 35.58 3.53
4366 4514 4.461781 CACTGGAGCTGAAATTCAGGAAAT 59.538 41.667 22.73 0.00 44.43 2.17
4411 4559 5.665812 AGTCAATTGGCACCCTACTAGATTA 59.334 40.000 13.47 0.00 0.00 1.75
4419 4567 4.617762 GCACCCTACTAGATTATACACCGC 60.618 50.000 0.00 0.00 0.00 5.68
4687 4835 3.394606 ACTAGAAGGTTTGCCTCCTTTGA 59.605 43.478 0.00 0.00 46.33 2.69
4741 4889 8.750298 ACAGCGATATATACTAGTTATGCCTTT 58.250 33.333 0.00 0.00 0.00 3.11
4940 5089 8.842358 TCAGTAATTCTACGATTTTTCCAACT 57.158 30.769 0.00 0.00 32.87 3.16
4941 5090 9.280174 TCAGTAATTCTACGATTTTTCCAACTT 57.720 29.630 0.00 0.00 32.87 2.66
5028 5178 7.719633 CCAAGGTAGTAATATTTGTGCACCTAT 59.280 37.037 15.69 10.08 34.10 2.57
5058 5208 5.882557 AGGCCTTCTGTACTATTTTCATGTG 59.117 40.000 0.00 0.00 0.00 3.21
5109 5262 6.080406 GCGTTCTTGACTAAGGAAATTCTTG 58.920 40.000 0.00 0.00 34.59 3.02
5110 5263 6.293462 GCGTTCTTGACTAAGGAAATTCTTGT 60.293 38.462 0.00 0.00 34.59 3.16
5111 5264 7.639945 CGTTCTTGACTAAGGAAATTCTTGTT 58.360 34.615 0.00 0.00 34.59 2.83
5119 5272 9.110502 GACTAAGGAAATTCTTGTTATAGGGTG 57.889 37.037 0.00 0.00 0.00 4.61
5136 5289 0.771755 GTGGGGTTTTGGAGAGAGGT 59.228 55.000 0.00 0.00 0.00 3.85
5142 5295 2.026169 GGTTTTGGAGAGAGGTAAGGGG 60.026 54.545 0.00 0.00 0.00 4.79
5143 5296 1.286248 TTTGGAGAGAGGTAAGGGGC 58.714 55.000 0.00 0.00 0.00 5.80
5145 5298 1.381463 GGAGAGAGGTAAGGGGCGT 60.381 63.158 0.00 0.00 0.00 5.68
5175 5328 1.555075 TGTGAGGCAAGGTAGATGGAC 59.445 52.381 0.00 0.00 0.00 4.02
5180 5333 5.304614 GTGAGGCAAGGTAGATGGACTATTA 59.695 44.000 0.00 0.00 33.39 0.98
5315 5469 5.830457 GGCCCAAAGCTAAAAGATATCTTCT 59.170 40.000 18.19 7.51 43.05 2.85
5687 5893 8.506437 CCCTTTTGCTTCTTCCAAAATTAATTC 58.494 33.333 0.10 0.00 40.26 2.17
5739 5946 3.430929 CCATGTAGGCTTACAGAGACCAC 60.431 52.174 14.47 0.00 42.72 4.16
5778 5985 0.820891 AGTGGCTGCACAAGAACCAG 60.821 55.000 0.50 0.00 0.00 4.00
5933 6140 2.880890 CTGCAAAGGTAACAGAAGCACT 59.119 45.455 0.00 0.00 41.41 4.40
5952 6159 4.094146 GCACTGGCTTATCTTGTTTCTCTC 59.906 45.833 0.00 0.00 36.96 3.20
5974 6181 3.493503 CGTCTTTTCACAGGTGGAGTAAC 59.506 47.826 0.00 0.00 0.00 2.50
6050 6257 2.287915 GTCGCGTGAATCCAATAGCAAT 59.712 45.455 5.77 0.00 0.00 3.56
6099 6306 7.040755 CGGAATTATATGGTAAATGGCAACTCA 60.041 37.037 0.00 0.00 37.61 3.41
6107 6314 2.990740 AATGGCAACTCAAACCCCTA 57.009 45.000 0.00 0.00 37.61 3.53
6137 6344 2.632028 TGGTGCTGTAAATGGCATTGTT 59.368 40.909 14.47 1.12 40.66 2.83
6140 6347 3.056607 GTGCTGTAAATGGCATTGTTCCT 60.057 43.478 14.47 0.00 40.66 3.36
6330 6538 2.353109 GGTTGCAAAGAGGCTTGGAATC 60.353 50.000 0.00 0.00 38.63 2.52
6389 6597 0.034337 GGTCGGTGTGCTCCAGTTTA 59.966 55.000 0.00 0.00 0.00 2.01
6534 6742 9.095065 GATCGTTGATACAACCTAGTAATGTTT 57.905 33.333 8.67 0.00 0.00 2.83
6700 6908 2.186076 CCTTTCGTCATCGTAGTGAGC 58.814 52.381 0.00 0.00 38.33 4.26
6756 6965 6.502652 TGTGACATGTTTGTAATCTTGGTTG 58.497 36.000 0.00 0.00 35.79 3.77
6768 6977 0.954452 CTTGGTTGACACTTCCTGGC 59.046 55.000 0.00 0.00 0.00 4.85
7003 7212 3.073086 CGACCACGCCCAATAATCA 57.927 52.632 0.00 0.00 0.00 2.57
7010 7219 1.134220 ACGCCCAATAATCATCCACGT 60.134 47.619 0.00 0.00 0.00 4.49
7133 7342 1.362355 CTGCCCGTGTGGTTTTTCC 59.638 57.895 0.00 0.00 36.04 3.13
7134 7343 1.076632 TGCCCGTGTGGTTTTTCCT 60.077 52.632 0.00 0.00 37.07 3.36
7155 7364 5.073144 TCCTTCCAAGTTGAGGAATTGTAGT 59.927 40.000 10.19 0.00 43.74 2.73
7195 7404 4.571372 AGTACTAATTCGACTGCCTAGC 57.429 45.455 0.00 0.00 0.00 3.42
7330 7539 4.436584 GCAGCAGACATGAAACATGAGTAC 60.437 45.833 16.86 5.48 0.00 2.73
7353 7562 3.694043 TGCAACCAGTATGAGTAGCAA 57.306 42.857 0.00 0.00 39.69 3.91
7373 7582 5.120519 AGCAACAACAACAACAAATGACAAG 59.879 36.000 0.00 0.00 0.00 3.16
7402 7649 6.455360 CATCATAGTTATGCAAACCCTTGT 57.545 37.500 0.00 0.00 34.79 3.16
7413 7660 3.509575 GCAAACCCTTGTGATTGTATCCA 59.490 43.478 0.00 0.00 34.79 3.41
7435 7683 6.071952 TCCAACTTATGAGTCAAATGAAAGCC 60.072 38.462 0.00 0.00 34.21 4.35
7639 8156 4.115199 GCCTCCACCTCGGCCATT 62.115 66.667 2.24 0.00 40.43 3.16
7894 8411 2.092882 GCCGAAGCTGTACACGTCC 61.093 63.158 0.00 0.00 35.50 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 1.725641 CCTAGTTGTCTGCATGCGAA 58.274 50.000 14.09 0.00 0.00 4.70
12 13 1.280457 CTTGGAGGGCCTAGTTGTCT 58.720 55.000 5.73 0.00 33.09 3.41
36 37 4.803426 CCACTCCCACTCTCGCGC 62.803 72.222 0.00 0.00 0.00 6.86
43 44 3.971702 GCCCTTGCCACTCCCACT 61.972 66.667 0.00 0.00 0.00 4.00
74 76 2.275418 GTGGTGCCATAGGGGTGG 59.725 66.667 0.00 0.00 42.35 4.61
78 80 4.875713 GCCGGTGGTGCCATAGGG 62.876 72.222 1.90 0.00 36.97 3.53
94 96 1.355066 GAGTTGCTCTGCACGGTAGC 61.355 60.000 0.00 0.00 38.71 3.58
100 102 2.724708 CGCGAGAGTTGCTCTGCAC 61.725 63.158 0.00 0.00 41.35 4.57
109 111 1.200484 GGAGAAGAAGACGCGAGAGTT 59.800 52.381 15.93 0.00 0.00 3.01
110 112 0.806241 GGAGAAGAAGACGCGAGAGT 59.194 55.000 15.93 0.00 0.00 3.24
114 116 1.794864 CTCGGAGAAGAAGACGCGA 59.205 57.895 15.93 0.00 34.09 5.87
119 121 1.673400 CTCGATGCTCGGAGAAGAAGA 59.327 52.381 9.69 0.00 40.88 2.87
120 122 1.673400 TCTCGATGCTCGGAGAAGAAG 59.327 52.381 9.69 0.00 40.88 2.85
127 129 1.515954 GGGTTTCTCGATGCTCGGA 59.484 57.895 5.87 0.94 40.88 4.55
141 143 1.990614 GGAGAGGAGGAAGCGGGTT 60.991 63.158 0.00 0.00 0.00 4.11
146 148 1.072015 CATGGATGGAGAGGAGGAAGC 59.928 57.143 0.00 0.00 0.00 3.86
180 182 1.451072 TGGTACCCCACGTTGGTTC 59.549 57.895 10.07 6.92 37.31 3.62
240 242 4.148825 CTAACAGAGGCGGCCGCT 62.149 66.667 45.23 32.34 41.60 5.52
251 253 5.418310 ACATTTCGTCAAACACCTAACAG 57.582 39.130 0.00 0.00 0.00 3.16
263 265 3.866327 TGTCTGTTTTCGACATTTCGTCA 59.134 39.130 0.54 0.00 45.70 4.35
273 275 3.744238 TGGTGAGATGTCTGTTTTCGA 57.256 42.857 0.00 0.00 0.00 3.71
274 276 4.811555 TTTGGTGAGATGTCTGTTTTCG 57.188 40.909 0.00 0.00 0.00 3.46
291 293 0.899720 AATGGTGCTGCCTCATTTGG 59.100 50.000 10.42 0.00 38.35 3.28
308 310 0.467290 AAACGGACAGTGCACCCAAT 60.467 50.000 14.63 0.00 0.00 3.16
350 366 6.824553 TCCAAACCAACATGAAATTTGATCA 58.175 32.000 0.00 0.00 33.08 2.92
397 413 2.919807 GCAAGAGCTACTGCAAAAGCAC 60.920 50.000 19.07 13.91 41.32 4.40
398 414 1.267806 GCAAGAGCTACTGCAAAAGCA 59.732 47.619 19.07 0.00 41.32 3.91
428 444 2.498167 GATTGCTGGACTTGACACACT 58.502 47.619 0.00 0.00 0.00 3.55
432 448 2.542020 TTCGATTGCTGGACTTGACA 57.458 45.000 0.00 0.00 0.00 3.58
438 454 1.537202 GCCCATATTCGATTGCTGGAC 59.463 52.381 10.59 0.00 0.00 4.02
441 457 1.195448 GTCGCCCATATTCGATTGCTG 59.805 52.381 0.00 0.00 37.06 4.41
449 465 2.061773 CACTCGATGTCGCCCATATTC 58.938 52.381 0.00 0.00 39.60 1.75
453 469 2.501128 CCACTCGATGTCGCCCAT 59.499 61.111 0.00 0.00 39.60 4.00
457 473 2.887568 CAGCCCACTCGATGTCGC 60.888 66.667 0.00 0.00 39.60 5.19
486 502 2.995939 CACTCACTCGCTTGCTAATCAA 59.004 45.455 0.00 0.00 0.00 2.57
535 552 7.118971 CACTAGAAATCAGAACAAGGGAAGAAG 59.881 40.741 0.00 0.00 0.00 2.85
560 577 9.952188 TGTTCAAATAATCATAAACGTGAAACA 57.048 25.926 0.00 0.00 35.74 2.83
565 582 8.858186 TGCATTGTTCAAATAATCATAAACGTG 58.142 29.630 0.00 0.00 0.00 4.49
607 727 9.476202 GGAAATGGCATAAAAAGGTTCATATAC 57.524 33.333 0.00 0.00 0.00 1.47
608 728 9.432982 AGGAAATGGCATAAAAAGGTTCATATA 57.567 29.630 0.00 0.00 0.00 0.86
609 729 8.322905 AGGAAATGGCATAAAAAGGTTCATAT 57.677 30.769 0.00 0.00 0.00 1.78
614 734 5.782845 TGGTAGGAAATGGCATAAAAAGGTT 59.217 36.000 0.00 0.00 0.00 3.50
617 739 8.791327 AAAATGGTAGGAAATGGCATAAAAAG 57.209 30.769 0.00 0.00 0.00 2.27
723 848 0.112412 AAGCCGGTGATCCCTGTTTT 59.888 50.000 1.90 0.00 0.00 2.43
724 849 0.609131 CAAGCCGGTGATCCCTGTTT 60.609 55.000 1.90 0.00 0.00 2.83
823 948 4.436998 GAGGCGTCGTGGGACCAG 62.437 72.222 0.00 0.00 40.17 4.00
1075 1203 4.754667 GGCCGGACGGAGACAACC 62.755 72.222 15.99 0.71 37.50 3.77
1076 1204 4.754667 GGGCCGGACGGAGACAAC 62.755 72.222 15.99 0.00 37.50 3.32
1122 1250 7.061326 GCGAAAACACACGATGGTAAATAAATT 59.939 33.333 0.00 0.00 0.00 1.82
1266 1395 2.679934 CGGCATTTGCAGTCTCGCA 61.680 57.895 4.74 0.00 44.36 5.10
1356 1485 2.226674 TCGCTAGCTCCATTATCGACAG 59.773 50.000 13.93 0.00 0.00 3.51
1360 1489 3.223423 ACATCGCTAGCTCCATTATCG 57.777 47.619 13.93 0.00 0.00 2.92
1397 1527 9.485206 ACAAAACAACGATAATCTTGTAGTAGT 57.515 29.630 0.00 0.00 30.26 2.73
1398 1528 9.741168 CACAAAACAACGATAATCTTGTAGTAG 57.259 33.333 0.00 0.00 30.26 2.57
1399 1529 9.263538 ACACAAAACAACGATAATCTTGTAGTA 57.736 29.630 0.00 0.00 30.26 1.82
1400 1530 8.149973 ACACAAAACAACGATAATCTTGTAGT 57.850 30.769 0.00 0.00 30.26 2.73
1401 1531 9.445786 AAACACAAAACAACGATAATCTTGTAG 57.554 29.630 0.00 0.00 30.26 2.74
1402 1532 9.227490 CAAACACAAAACAACGATAATCTTGTA 57.773 29.630 0.00 0.00 30.26 2.41
1440 1573 8.537728 TTAATACGGGAGAAGGAATACAAGTA 57.462 34.615 0.00 0.00 0.00 2.24
1443 1576 7.664552 TCTTAATACGGGAGAAGGAATACAA 57.335 36.000 0.00 0.00 0.00 2.41
1478 1611 7.256286 AGTTTCAGCTCATTTAATCTGAATGC 58.744 34.615 7.92 5.65 42.79 3.56
1505 1638 5.122239 TGTCCTCTCAATTAATTTGCGTCTG 59.878 40.000 0.00 0.00 35.16 3.51
1509 1642 6.122850 TCATGTCCTCTCAATTAATTTGCG 57.877 37.500 0.00 0.00 35.16 4.85
1547 1680 4.432712 GGGCAATTTGCGTCTCAATTAAT 58.567 39.130 14.83 0.00 46.21 1.40
1548 1681 3.367910 GGGGCAATTTGCGTCTCAATTAA 60.368 43.478 14.83 0.00 46.21 1.40
1549 1682 2.165437 GGGGCAATTTGCGTCTCAATTA 59.835 45.455 14.83 0.00 46.21 1.40
1550 1683 1.066929 GGGGCAATTTGCGTCTCAATT 60.067 47.619 14.83 0.00 46.21 2.32
1551 1684 0.532115 GGGGCAATTTGCGTCTCAAT 59.468 50.000 14.83 0.00 46.21 2.57
1552 1685 1.861542 CGGGGCAATTTGCGTCTCAA 61.862 55.000 14.83 0.00 46.21 3.02
1553 1686 2.331893 CGGGGCAATTTGCGTCTCA 61.332 57.895 14.83 0.00 46.21 3.27
1554 1687 1.862602 AACGGGGCAATTTGCGTCTC 61.863 55.000 14.83 1.63 46.21 3.36
1555 1688 1.460273 AAACGGGGCAATTTGCGTCT 61.460 50.000 14.83 0.00 46.21 4.18
1556 1689 0.598942 AAAACGGGGCAATTTGCGTC 60.599 50.000 14.83 9.55 46.21 5.19
1557 1690 0.674534 TAAAACGGGGCAATTTGCGT 59.325 45.000 14.83 5.06 46.21 5.24
1558 1691 1.784525 TTAAAACGGGGCAATTTGCG 58.215 45.000 14.83 4.44 46.21 4.85
1559 1692 5.864628 TTTATTAAAACGGGGCAATTTGC 57.135 34.783 13.04 13.04 44.08 3.68
1560 1693 7.752686 CCATTTTTATTAAAACGGGGCAATTTG 59.247 33.333 1.06 0.00 33.92 2.32
1561 1694 7.821652 CCATTTTTATTAAAACGGGGCAATTT 58.178 30.769 1.06 0.00 33.92 1.82
1562 1695 7.384439 CCATTTTTATTAAAACGGGGCAATT 57.616 32.000 1.06 0.00 33.92 2.32
1563 1696 6.993786 CCATTTTTATTAAAACGGGGCAAT 57.006 33.333 1.06 0.00 33.92 3.56
1569 1702 5.179533 CCCACCCCATTTTTATTAAAACGG 58.820 41.667 1.06 5.58 36.57 4.44
1570 1703 5.179533 CCCCACCCCATTTTTATTAAAACG 58.820 41.667 1.06 0.00 36.15 3.60
1571 1704 5.502079 CCCCCACCCCATTTTTATTAAAAC 58.498 41.667 1.06 0.00 36.15 2.43
1572 1705 5.780958 CCCCCACCCCATTTTTATTAAAA 57.219 39.130 0.00 0.00 37.62 1.52
1615 1748 6.127479 TGGCACACTTTCAGTAGACAATTTTT 60.127 34.615 0.00 0.00 0.00 1.94
1616 1749 5.359576 TGGCACACTTTCAGTAGACAATTTT 59.640 36.000 0.00 0.00 0.00 1.82
1617 1750 4.887071 TGGCACACTTTCAGTAGACAATTT 59.113 37.500 0.00 0.00 0.00 1.82
1618 1751 4.460263 TGGCACACTTTCAGTAGACAATT 58.540 39.130 0.00 0.00 0.00 2.32
1619 1752 4.067896 CTGGCACACTTTCAGTAGACAAT 58.932 43.478 0.00 0.00 0.00 2.71
1620 1753 3.118408 ACTGGCACACTTTCAGTAGACAA 60.118 43.478 0.00 0.00 39.63 3.18
1621 1754 2.434336 ACTGGCACACTTTCAGTAGACA 59.566 45.455 0.00 0.00 39.63 3.41
1622 1755 3.113260 ACTGGCACACTTTCAGTAGAC 57.887 47.619 0.00 0.00 39.63 2.59
1623 1756 3.838244 AACTGGCACACTTTCAGTAGA 57.162 42.857 0.00 0.00 40.41 2.59
1624 1757 4.900635 AAAACTGGCACACTTTCAGTAG 57.099 40.909 0.00 0.00 40.41 2.57
1625 1758 4.461081 ACAAAAACTGGCACACTTTCAGTA 59.539 37.500 0.00 0.00 40.41 2.74
1626 1759 3.258123 ACAAAAACTGGCACACTTTCAGT 59.742 39.130 0.00 0.00 42.77 3.41
1627 1760 3.848726 ACAAAAACTGGCACACTTTCAG 58.151 40.909 0.00 0.00 34.91 3.02
1628 1761 3.951775 ACAAAAACTGGCACACTTTCA 57.048 38.095 0.00 0.00 0.00 2.69
1629 1762 5.458779 GTCATACAAAAACTGGCACACTTTC 59.541 40.000 0.00 0.00 0.00 2.62
1630 1763 5.348164 GTCATACAAAAACTGGCACACTTT 58.652 37.500 0.00 0.00 0.00 2.66
1631 1764 4.202111 GGTCATACAAAAACTGGCACACTT 60.202 41.667 0.00 0.00 0.00 3.16
1632 1765 3.317993 GGTCATACAAAAACTGGCACACT 59.682 43.478 0.00 0.00 0.00 3.55
1637 1770 6.509418 TTCATAGGTCATACAAAAACTGGC 57.491 37.500 0.00 0.00 0.00 4.85
1705 1841 3.093717 TCAGAACTGAACACGAAGGTC 57.906 47.619 1.79 0.00 36.53 3.85
1731 1867 4.532521 CCCTCCTACGATGGAAATAGGAAT 59.467 45.833 0.00 0.00 43.06 3.01
1763 1900 8.757877 CCTTCCATGATTAAAATTGACCCTAAA 58.242 33.333 0.00 0.00 0.00 1.85
1779 1916 7.014615 GGAATACATAAGTTTGCCTTCCATGAT 59.985 37.037 0.00 0.00 33.69 2.45
1853 1990 1.916506 TTGCGTTTGATCCCCAATGA 58.083 45.000 0.00 0.00 34.23 2.57
1993 2130 1.076559 CTCCCATTCCATGCCAGCA 60.077 57.895 0.00 0.00 0.00 4.41
2212 2350 6.434028 ACAGGTTAGAAGCTAAATGCAAATGA 59.566 34.615 0.00 0.00 45.94 2.57
2665 2812 6.072175 TCCAGTCACCAACATTAGCATAAAAC 60.072 38.462 0.00 0.00 0.00 2.43
2704 2851 4.038271 TCTTTACGGAGGGAGTACTTCA 57.962 45.455 2.92 0.00 0.00 3.02
3439 3587 2.482721 ACAATTAGTTGCACGGTGCTAC 59.517 45.455 31.08 31.08 46.69 3.58
3701 3849 3.764466 AGCCGTTCTCCTGAGCCG 61.764 66.667 0.00 0.00 0.00 5.52
4118 4266 2.500098 TCGTTGCTTAGCCCTACTGAAT 59.500 45.455 0.29 0.00 0.00 2.57
4128 4276 2.301577 AGATCACCTCGTTGCTTAGC 57.698 50.000 0.00 0.00 0.00 3.09
4411 4559 4.501071 ACGTAATTTCTTCAGCGGTGTAT 58.499 39.130 15.22 0.00 0.00 2.29
4419 4567 8.948853 TCTGCATTTTTACGTAATTTCTTCAG 57.051 30.769 9.18 11.85 0.00 3.02
4687 4835 9.816354 ACAGCACATAGAAAAACTTGTAAATTT 57.184 25.926 0.00 0.00 0.00 1.82
4741 4889 6.932960 GCAAGTAGAAGGTCTAGTAAAAACCA 59.067 38.462 0.82 0.00 31.73 3.67
4948 5098 7.338449 GTCCCTGAACCTTAATAGCACAAATTA 59.662 37.037 0.00 0.00 0.00 1.40
5048 5198 8.774890 CTAGATATCTGCTAGCACATGAAAAT 57.225 34.615 14.93 8.15 0.00 1.82
5109 5262 3.267551 TCTCCAAAACCCCACCCTATAAC 59.732 47.826 0.00 0.00 0.00 1.89
5110 5263 3.526019 CTCTCCAAAACCCCACCCTATAA 59.474 47.826 0.00 0.00 0.00 0.98
5111 5264 3.120108 CTCTCCAAAACCCCACCCTATA 58.880 50.000 0.00 0.00 0.00 1.31
5114 5267 0.402861 TCTCTCCAAAACCCCACCCT 60.403 55.000 0.00 0.00 0.00 4.34
5119 5272 2.026169 CCTTACCTCTCTCCAAAACCCC 60.026 54.545 0.00 0.00 0.00 4.95
5136 5289 0.834687 AGGAGACAACACGCCCCTTA 60.835 55.000 0.00 0.00 0.00 2.69
5142 5295 0.946221 CCTCACAGGAGACAACACGC 60.946 60.000 0.00 0.00 44.26 5.34
5143 5296 0.946221 GCCTCACAGGAGACAACACG 60.946 60.000 0.00 0.00 44.26 4.49
5145 5298 0.836606 TTGCCTCACAGGAGACAACA 59.163 50.000 0.00 0.00 44.26 3.33
5662 5868 9.276590 AGAATTAATTTTGGAAGAAGCAAAAGG 57.723 29.630 1.43 0.00 32.36 3.11
5721 5928 2.094130 GTGGTGGTCTCTGTAAGCCTAC 60.094 54.545 0.00 0.00 0.00 3.18
5727 5934 4.344102 GCATATAGGTGGTGGTCTCTGTAA 59.656 45.833 0.00 0.00 0.00 2.41
5739 5946 5.295950 CACTTCTCAAGAGCATATAGGTGG 58.704 45.833 0.00 0.00 0.00 4.61
5778 5985 1.341089 GGACCCTTGGGATGAAGAACC 60.341 57.143 13.39 0.00 0.00 3.62
5933 6140 4.220821 AGACGAGAGAAACAAGATAAGCCA 59.779 41.667 0.00 0.00 0.00 4.75
5952 6159 2.240493 ACTCCACCTGTGAAAAGACG 57.760 50.000 0.00 0.00 0.00 4.18
5974 6181 8.773645 TGACAATCTACATACAACAGAAAACAG 58.226 33.333 0.00 0.00 0.00 3.16
6099 6306 2.141067 ACCAGGAAGTTGTAGGGGTTT 58.859 47.619 0.00 0.00 0.00 3.27
6107 6314 3.290948 TTTACAGCACCAGGAAGTTGT 57.709 42.857 10.07 10.07 33.68 3.32
6137 6344 5.674525 CAAGTGATGCTCATTACCTTAGGA 58.325 41.667 4.77 0.00 0.00 2.94
6173 6380 7.150783 AGGAAGCACAAAAGAAATACTGATC 57.849 36.000 0.00 0.00 0.00 2.92
6218 6426 1.098050 GCCACGCTCATTCTTTGGAT 58.902 50.000 0.00 0.00 0.00 3.41
6330 6538 0.390492 TCATGGCAGGAGCATAGTCG 59.610 55.000 0.00 0.00 44.61 4.18
6389 6597 3.128589 GGCACATACAACAATTCCGTCAT 59.871 43.478 0.00 0.00 0.00 3.06
6534 6742 9.130661 TCTTCAATGACTTTAATCTTGGTCAAA 57.869 29.630 0.00 0.00 41.14 2.69
6604 6812 7.513132 CCAATACATCTATGAAACATGCTACG 58.487 38.462 0.00 0.00 0.00 3.51
6756 6965 2.167398 TACGCCTGCCAGGAAGTGTC 62.167 60.000 16.85 0.00 37.67 3.67
6768 6977 2.996621 CCTCTTCTTCTTTGTACGCCTG 59.003 50.000 0.00 0.00 0.00 4.85
6993 7202 1.264020 CGCACGTGGATGATTATTGGG 59.736 52.381 18.88 0.00 0.00 4.12
7133 7342 7.661847 AGTTACTACAATTCCTCAACTTGGAAG 59.338 37.037 0.00 0.00 45.43 3.46
7134 7343 7.514721 AGTTACTACAATTCCTCAACTTGGAA 58.485 34.615 0.00 0.00 46.16 3.53
7195 7404 2.168521 TCAAATGAAGAGGCTCCCTACG 59.831 50.000 11.71 0.00 31.76 3.51
7330 7539 4.002982 TGCTACTCATACTGGTTGCAAAG 58.997 43.478 0.00 0.00 40.04 2.77
7353 7562 4.928615 CACCTTGTCATTTGTTGTTGTTGT 59.071 37.500 0.00 0.00 0.00 3.32
7413 7660 5.185828 GGGGCTTTCATTTGACTCATAAGTT 59.814 40.000 0.00 0.00 35.28 2.66
7510 8027 4.081697 CCGGCCATATTCTTTTTCAAGGTT 60.082 41.667 2.24 0.00 0.00 3.50
8032 8549 0.948623 TCAAGGCGTCCAACATCGTG 60.949 55.000 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.