Multiple sequence alignment - TraesCS7B01G008000

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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 TraesCS7B01G008000 chr7B 100.000 3406 0 0 1 3406 4899258 4895853 0.000000e+00 6290
1 TraesCS7B01G008000 chr7B 85.165 182 16 6 1608 1786 4897508 4897335 3.490000e-40 176
2 TraesCS7B01G008000 chr7B 85.165 182 16 6 1751 1924 4897651 4897473 3.490000e-40 176
3 TraesCS7B01G008000 chr7D 91.247 1668 107 19 1751 3406 63932469 63930829 0.000000e+00 2235
4 TraesCS7B01G008000 chr7D 87.095 1821 144 40 1 1786 63934058 63932294 0.000000e+00 1977
5 TraesCS7B01G008000 chr7A 90.047 1688 95 30 1737 3406 67573214 67571582 0.000000e+00 2119
6 TraesCS7B01G008000 chr7A 87.079 1602 133 28 222 1786 67574592 67573028 0.000000e+00 1744
7 TraesCS7B01G008000 chr7A 82.732 1442 156 46 383 1786 67512712 67511326 0.000000e+00 1197
8 TraesCS7B01G008000 chr7A 91.854 577 43 2 2151 2723 67510661 67510085 0.000000e+00 802
9 TraesCS7B01G008000 chr7A 91.691 349 23 4 2806 3149 67510085 67509738 2.380000e-131 479
10 TraesCS7B01G008000 chr7A 91.176 306 20 5 1751 2054 67511496 67511196 3.160000e-110 409
11 TraesCS7B01G008000 chr7A 92.913 254 18 0 3153 3406 67509639 67509386 1.490000e-98 370
12 TraesCS7B01G008000 chr7A 90.222 225 19 3 1 225 67575648 67575427 1.200000e-74 291
13 TraesCS7B01G008000 chr7A 83.582 201 24 5 3164 3357 67460506 67460308 2.700000e-41 180


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 TraesCS7B01G008000 chr7B 4895853 4899258 3405 True 2214.000000 6290 90.1100 1 3406 3 chr7B.!!$R1 3405
1 TraesCS7B01G008000 chr7D 63930829 63934058 3229 True 2106.000000 2235 89.1710 1 3406 2 chr7D.!!$R1 3405
2 TraesCS7B01G008000 chr7A 67571582 67575648 4066 True 1384.666667 2119 89.1160 1 3406 3 chr7A.!!$R3 3405
3 TraesCS7B01G008000 chr7A 67509386 67512712 3326 True 651.400000 1197 90.0732 383 3406 5 chr7A.!!$R2 3023

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
24 25 1.529010 TGATTGGGCATGCGATCCC 60.529 57.895 12.44 7.73 42.93 3.85 F
1691 2604 0.182775 GGGGATGCGGTGAAGGTTAT 59.817 55.000 0.00 0.00 0.00 1.89 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1791 2704 0.107017 CTCAAGGGGCCGTCATTCAT 60.107 55.0 0.0 0.0 0.00 2.57 R
2815 4204 0.252012 AGTCTGTGAGAGGGTCAGGG 60.252 60.0 0.0 0.0 35.13 4.45 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 1.529010 TGATTGGGCATGCGATCCC 60.529 57.895 12.44 7.73 42.93 3.85
123 124 2.892425 CGGCTCCGCATCCTTGTC 60.892 66.667 0.00 0.00 0.00 3.18
124 125 2.514824 GGCTCCGCATCCTTGTCC 60.515 66.667 0.00 0.00 0.00 4.02
125 126 2.892425 GCTCCGCATCCTTGTCCG 60.892 66.667 0.00 0.00 0.00 4.79
130 131 3.195698 GCATCCTTGTCCGCGGAC 61.196 66.667 43.88 43.88 44.77 4.79
151 152 2.165030 CGGATGCTGGAGAAAATTTGCT 59.835 45.455 0.00 0.00 0.00 3.91
157 158 4.122046 GCTGGAGAAAATTTGCTTGTTGT 58.878 39.130 0.00 0.00 0.00 3.32
162 163 5.812127 GGAGAAAATTTGCTTGTTGTTGTCT 59.188 36.000 0.00 0.00 0.00 3.41
276 1119 8.469200 AGATATTCTTTTGATGATTTTTCGGCA 58.531 29.630 0.00 0.00 0.00 5.69
277 1120 9.086336 GATATTCTTTTGATGATTTTTCGGCAA 57.914 29.630 0.00 0.00 0.00 4.52
356 1204 3.054728 CCCTTTTCTCTTCTTCTCCCTCC 60.055 52.174 0.00 0.00 0.00 4.30
357 1205 3.054728 CCTTTTCTCTTCTTCTCCCTCCC 60.055 52.174 0.00 0.00 0.00 4.30
374 1222 4.379243 CTCCCTGAGCGCAACCGT 62.379 66.667 11.47 0.00 36.67 4.83
408 1256 4.052229 CTCGCCAGGACGAACCGT 62.052 66.667 7.30 0.00 45.10 4.83
1033 1940 2.614013 GGAAGGGGAAGGGCAGGA 60.614 66.667 0.00 0.00 0.00 3.86
1266 2179 1.083806 CCGCTGCTATTGCTCACGAA 61.084 55.000 0.00 0.00 40.48 3.85
1281 2194 3.476552 TCACGAAGCAAAGGTTTCTCAT 58.523 40.909 0.00 0.00 32.64 2.90
1305 2218 4.081030 CGTTGCTGCAGGTCGCTG 62.081 66.667 17.12 0.00 43.06 5.18
1325 2238 1.535896 GACTGACGAGACTGTGTGCTA 59.464 52.381 0.00 0.00 0.00 3.49
1326 2239 1.537638 ACTGACGAGACTGTGTGCTAG 59.462 52.381 0.00 0.00 0.00 3.42
1327 2240 1.537638 CTGACGAGACTGTGTGCTAGT 59.462 52.381 0.00 0.00 0.00 2.57
1328 2241 1.266989 TGACGAGACTGTGTGCTAGTG 59.733 52.381 0.00 0.00 0.00 2.74
1332 2245 2.333014 GAGACTGTGTGCTAGTGCTTC 58.667 52.381 0.00 0.00 40.48 3.86
1334 2247 0.319900 ACTGTGTGCTAGTGCTTCGG 60.320 55.000 0.00 0.00 40.48 4.30
1342 2255 1.740025 GCTAGTGCTTCGGCTGATTTT 59.260 47.619 0.00 0.00 42.37 1.82
1383 2296 0.396139 TTGATGCTGGGGAGAATGGC 60.396 55.000 0.00 0.00 0.00 4.40
1421 2334 1.018910 GTGTGCACCTTGTTACGGTT 58.981 50.000 15.69 0.00 30.82 4.44
1430 2343 4.276431 CACCTTGTTACGGTTAAATGGTGT 59.724 41.667 12.01 0.00 38.01 4.16
1460 2373 2.229792 GTTGGTGAGATTGCTGGTCAA 58.770 47.619 0.00 0.00 39.32 3.18
1473 2386 5.389859 TGCTGGTCAATTAATCTGGTTTG 57.610 39.130 0.00 0.00 0.00 2.93
1500 2413 3.955471 TGATTTCAGGAGGATGTTGGTC 58.045 45.455 0.00 0.00 0.00 4.02
1511 2424 3.848975 AGGATGTTGGTCTGGAGAAGAAT 59.151 43.478 0.00 0.00 36.40 2.40
1529 2442 4.863548 AGAATGGCTCCTTGAATGATGAA 58.136 39.130 0.00 0.00 0.00 2.57
1541 2454 6.434028 CCTTGAATGATGAAAGGAAGGTAACA 59.566 38.462 1.18 0.00 42.65 2.41
1546 2459 5.640147 TGATGAAAGGAAGGTAACAATGGT 58.360 37.500 0.00 0.00 41.41 3.55
1559 2472 2.891112 ACAATGGTGTGCAAAGTTGTG 58.109 42.857 0.00 0.00 36.31 3.33
1568 2481 2.923020 GTGCAAAGTTGTGGAGTGTTTG 59.077 45.455 0.00 0.00 0.00 2.93
1571 2484 3.367630 GCAAAGTTGTGGAGTGTTTGTTG 59.632 43.478 0.00 0.00 31.96 3.33
1580 2493 4.516698 GTGGAGTGTTTGTTGATCACTGAT 59.483 41.667 0.00 0.00 41.58 2.90
1592 2505 3.317430 TGATCACTGATGAGATCACGAGG 59.683 47.826 0.00 0.00 42.45 4.63
1595 2508 1.408340 ACTGATGAGATCACGAGGCTG 59.592 52.381 0.00 0.00 35.06 4.85
1605 2518 0.317269 CACGAGGCTGCTGTTTGTTG 60.317 55.000 0.00 0.00 0.00 3.33
1663 2576 3.613559 AGTATAATGAATGAGGGCCCCT 58.386 45.455 21.43 0.00 36.03 4.79
1664 2577 3.990245 AGTATAATGAATGAGGGCCCCTT 59.010 43.478 21.43 10.25 31.76 3.95
1665 2578 2.754012 TAATGAATGAGGGCCCCTTG 57.246 50.000 21.43 0.00 31.76 3.61
1666 2579 1.009997 AATGAATGAGGGCCCCTTGA 58.990 50.000 21.43 4.31 31.76 3.02
1667 2580 0.554792 ATGAATGAGGGCCCCTTGAG 59.445 55.000 21.43 0.00 31.76 3.02
1668 2581 0.846427 TGAATGAGGGCCCCTTGAGT 60.846 55.000 21.43 0.00 31.76 3.41
1669 2582 0.394899 GAATGAGGGCCCCTTGAGTG 60.395 60.000 21.43 0.00 31.76 3.51
1670 2583 0.846427 AATGAGGGCCCCTTGAGTGA 60.846 55.000 21.43 0.00 31.76 3.41
1671 2584 0.625683 ATGAGGGCCCCTTGAGTGAT 60.626 55.000 21.43 0.00 31.76 3.06
1672 2585 1.225704 GAGGGCCCCTTGAGTGATG 59.774 63.158 21.43 0.00 31.76 3.07
1673 2586 2.276309 GAGGGCCCCTTGAGTGATGG 62.276 65.000 21.43 0.00 31.76 3.51
1674 2587 2.276740 GGCCCCTTGAGTGATGGG 59.723 66.667 0.00 0.00 41.23 4.00
1678 2591 3.815133 CCCTTGAGTGATGGGGATG 57.185 57.895 0.00 0.00 41.25 3.51
1679 2592 0.466922 CCCTTGAGTGATGGGGATGC 60.467 60.000 0.00 0.00 41.25 3.91
1680 2593 0.816825 CCTTGAGTGATGGGGATGCG 60.817 60.000 0.00 0.00 0.00 4.73
1681 2594 0.816825 CTTGAGTGATGGGGATGCGG 60.817 60.000 0.00 0.00 0.00 5.69
1682 2595 1.561769 TTGAGTGATGGGGATGCGGT 61.562 55.000 0.00 0.00 0.00 5.68
1683 2596 1.524621 GAGTGATGGGGATGCGGTG 60.525 63.158 0.00 0.00 0.00 4.94
1684 2597 1.971505 GAGTGATGGGGATGCGGTGA 61.972 60.000 0.00 0.00 0.00 4.02
1685 2598 1.077787 GTGATGGGGATGCGGTGAA 60.078 57.895 0.00 0.00 0.00 3.18
1686 2599 1.097547 GTGATGGGGATGCGGTGAAG 61.098 60.000 0.00 0.00 0.00 3.02
1687 2600 1.526917 GATGGGGATGCGGTGAAGG 60.527 63.158 0.00 0.00 0.00 3.46
1688 2601 2.270874 GATGGGGATGCGGTGAAGGT 62.271 60.000 0.00 0.00 0.00 3.50
1689 2602 1.863155 ATGGGGATGCGGTGAAGGTT 61.863 55.000 0.00 0.00 0.00 3.50
1690 2603 1.202099 TGGGGATGCGGTGAAGGTTA 61.202 55.000 0.00 0.00 0.00 2.85
1691 2604 0.182775 GGGGATGCGGTGAAGGTTAT 59.817 55.000 0.00 0.00 0.00 1.89
1692 2605 1.308998 GGGATGCGGTGAAGGTTATG 58.691 55.000 0.00 0.00 0.00 1.90
1693 2606 1.134220 GGGATGCGGTGAAGGTTATGA 60.134 52.381 0.00 0.00 0.00 2.15
1694 2607 2.487265 GGGATGCGGTGAAGGTTATGAT 60.487 50.000 0.00 0.00 0.00 2.45
1695 2608 2.808543 GGATGCGGTGAAGGTTATGATC 59.191 50.000 0.00 0.00 0.00 2.92
1696 2609 3.495100 GGATGCGGTGAAGGTTATGATCT 60.495 47.826 0.00 0.00 0.00 2.75
1697 2610 4.262463 GGATGCGGTGAAGGTTATGATCTA 60.262 45.833 0.00 0.00 0.00 1.98
1698 2611 4.746535 TGCGGTGAAGGTTATGATCTAA 57.253 40.909 0.00 0.00 0.00 2.10
1699 2612 5.290493 TGCGGTGAAGGTTATGATCTAAT 57.710 39.130 0.00 0.00 0.00 1.73
1700 2613 5.680619 TGCGGTGAAGGTTATGATCTAATT 58.319 37.500 0.00 0.00 0.00 1.40
1701 2614 5.527214 TGCGGTGAAGGTTATGATCTAATTG 59.473 40.000 0.00 0.00 0.00 2.32
1702 2615 5.049405 GCGGTGAAGGTTATGATCTAATTGG 60.049 44.000 0.00 0.00 0.00 3.16
1703 2616 6.055588 CGGTGAAGGTTATGATCTAATTGGT 58.944 40.000 0.00 0.00 0.00 3.67
1704 2617 6.017934 CGGTGAAGGTTATGATCTAATTGGTG 60.018 42.308 0.00 0.00 0.00 4.17
1705 2618 6.263168 GGTGAAGGTTATGATCTAATTGGTGG 59.737 42.308 0.00 0.00 0.00 4.61
1706 2619 6.828785 GTGAAGGTTATGATCTAATTGGTGGT 59.171 38.462 0.00 0.00 0.00 4.16
1707 2620 7.339466 GTGAAGGTTATGATCTAATTGGTGGTT 59.661 37.037 0.00 0.00 0.00 3.67
1708 2621 8.553153 TGAAGGTTATGATCTAATTGGTGGTTA 58.447 33.333 0.00 0.00 0.00 2.85
1709 2622 9.403583 GAAGGTTATGATCTAATTGGTGGTTAA 57.596 33.333 0.00 0.00 0.00 2.01
1710 2623 9.762381 AAGGTTATGATCTAATTGGTGGTTAAA 57.238 29.630 0.00 0.00 0.00 1.52
1711 2624 9.936329 AGGTTATGATCTAATTGGTGGTTAAAT 57.064 29.630 0.00 0.00 0.00 1.40
1712 2625 9.965824 GGTTATGATCTAATTGGTGGTTAAATG 57.034 33.333 0.00 0.00 0.00 2.32
1720 2633 9.967451 TCTAATTGGTGGTTAAATGATTACAGA 57.033 29.630 0.00 0.00 0.00 3.41
1723 2636 9.874205 AATTGGTGGTTAAATGATTACAGATTG 57.126 29.630 0.00 0.00 0.00 2.67
1724 2637 8.642935 TTGGTGGTTAAATGATTACAGATTGA 57.357 30.769 0.00 0.00 0.00 2.57
1725 2638 8.821686 TGGTGGTTAAATGATTACAGATTGAT 57.178 30.769 0.00 0.00 0.00 2.57
1726 2639 8.685427 TGGTGGTTAAATGATTACAGATTGATG 58.315 33.333 0.00 0.00 0.00 3.07
1727 2640 8.902806 GGTGGTTAAATGATTACAGATTGATGA 58.097 33.333 0.00 0.00 0.00 2.92
1736 2649 9.692749 ATGATTACAGATTGATGATGAAATTGC 57.307 29.630 0.00 0.00 0.00 3.56
1737 2650 8.909923 TGATTACAGATTGATGATGAAATTGCT 58.090 29.630 0.00 0.00 0.00 3.91
1738 2651 9.181805 GATTACAGATTGATGATGAAATTGCTG 57.818 33.333 0.00 0.00 0.00 4.41
1739 2652 5.348986 ACAGATTGATGATGAAATTGCTGC 58.651 37.500 0.00 0.00 0.00 5.25
1740 2653 5.127194 ACAGATTGATGATGAAATTGCTGCT 59.873 36.000 0.00 0.00 0.00 4.24
1741 2654 5.460091 CAGATTGATGATGAAATTGCTGCTG 59.540 40.000 0.00 0.00 0.00 4.41
1742 2655 3.793797 TGATGATGAAATTGCTGCTGG 57.206 42.857 0.00 0.00 0.00 4.85
1743 2656 3.358118 TGATGATGAAATTGCTGCTGGA 58.642 40.909 0.00 0.00 0.00 3.86
1744 2657 3.958147 TGATGATGAAATTGCTGCTGGAT 59.042 39.130 0.00 0.00 0.00 3.41
1745 2658 4.404394 TGATGATGAAATTGCTGCTGGATT 59.596 37.500 0.00 0.00 0.00 3.01
1746 2659 5.595133 TGATGATGAAATTGCTGCTGGATTA 59.405 36.000 0.00 0.00 0.00 1.75
1747 2660 6.266786 TGATGATGAAATTGCTGCTGGATTAT 59.733 34.615 0.00 0.00 0.00 1.28
1748 2661 5.838529 TGATGAAATTGCTGCTGGATTATG 58.161 37.500 0.00 0.00 0.00 1.90
1749 2662 5.595133 TGATGAAATTGCTGCTGGATTATGA 59.405 36.000 0.00 0.00 0.00 2.15
1750 2663 6.266786 TGATGAAATTGCTGCTGGATTATGAT 59.733 34.615 0.00 0.00 0.00 2.45
1751 2664 6.080648 TGAAATTGCTGCTGGATTATGATC 57.919 37.500 0.00 0.00 0.00 2.92
1752 2665 5.831525 TGAAATTGCTGCTGGATTATGATCT 59.168 36.000 0.00 0.00 32.66 2.75
1753 2666 6.999871 TGAAATTGCTGCTGGATTATGATCTA 59.000 34.615 0.00 0.00 32.66 1.98
1754 2667 7.503230 TGAAATTGCTGCTGGATTATGATCTAA 59.497 33.333 0.00 0.00 32.66 2.10
1755 2668 8.418597 AAATTGCTGCTGGATTATGATCTAAT 57.581 30.769 0.00 0.00 32.66 1.73
1756 2669 8.418597 AATTGCTGCTGGATTATGATCTAATT 57.581 30.769 0.00 0.00 32.66 1.40
1757 2670 7.828508 TTGCTGCTGGATTATGATCTAATTT 57.171 32.000 0.00 0.00 32.66 1.82
1758 2671 7.210718 TGCTGCTGGATTATGATCTAATTTG 57.789 36.000 0.00 0.00 32.66 2.32
1759 2672 6.208007 TGCTGCTGGATTATGATCTAATTTGG 59.792 38.462 0.00 0.00 32.66 3.28
1760 2673 6.208204 GCTGCTGGATTATGATCTAATTTGGT 59.792 38.462 0.00 0.00 32.66 3.67
1761 2674 7.255730 GCTGCTGGATTATGATCTAATTTGGTT 60.256 37.037 0.00 0.00 32.66 3.67
1762 2675 7.944061 TGCTGGATTATGATCTAATTTGGTTG 58.056 34.615 0.00 0.00 32.66 3.77
1763 2676 7.560991 TGCTGGATTATGATCTAATTTGGTTGT 59.439 33.333 0.00 0.00 32.66 3.32
1764 2677 7.864379 GCTGGATTATGATCTAATTTGGTTGTG 59.136 37.037 0.00 0.00 32.66 3.33
1765 2678 9.123902 CTGGATTATGATCTAATTTGGTTGTGA 57.876 33.333 0.00 0.00 32.66 3.58
1766 2679 8.902806 TGGATTATGATCTAATTTGGTTGTGAC 58.097 33.333 0.00 0.00 32.66 3.67
1767 2680 9.125026 GGATTATGATCTAATTTGGTTGTGACT 57.875 33.333 0.00 0.00 32.66 3.41
1771 2684 7.815840 TGATCTAATTTGGTTGTGACTTTCA 57.184 32.000 0.00 0.00 0.00 2.69
1772 2685 7.874940 TGATCTAATTTGGTTGTGACTTTCAG 58.125 34.615 0.00 0.00 0.00 3.02
1773 2686 6.633500 TCTAATTTGGTTGTGACTTTCAGG 57.367 37.500 0.00 0.00 0.00 3.86
1774 2687 6.361433 TCTAATTTGGTTGTGACTTTCAGGA 58.639 36.000 0.00 0.00 0.00 3.86
1775 2688 5.520376 AATTTGGTTGTGACTTTCAGGAG 57.480 39.130 0.00 0.00 0.00 3.69
1776 2689 2.638480 TGGTTGTGACTTTCAGGAGG 57.362 50.000 0.00 0.00 0.00 4.30
1777 2690 2.123589 TGGTTGTGACTTTCAGGAGGA 58.876 47.619 0.00 0.00 0.00 3.71
1778 2691 2.711009 TGGTTGTGACTTTCAGGAGGAT 59.289 45.455 0.00 0.00 0.00 3.24
1779 2692 3.077359 GGTTGTGACTTTCAGGAGGATG 58.923 50.000 0.00 0.00 0.00 3.51
1780 2693 3.496870 GGTTGTGACTTTCAGGAGGATGT 60.497 47.826 0.00 0.00 0.00 3.06
1781 2694 4.137543 GTTGTGACTTTCAGGAGGATGTT 58.862 43.478 0.00 0.00 0.00 2.71
1782 2695 3.743521 TGTGACTTTCAGGAGGATGTTG 58.256 45.455 0.00 0.00 0.00 3.33
1783 2696 3.390967 TGTGACTTTCAGGAGGATGTTGA 59.609 43.478 0.00 0.00 0.00 3.18
1784 2697 4.042062 TGTGACTTTCAGGAGGATGTTGAT 59.958 41.667 0.00 0.00 0.00 2.57
1785 2698 5.248248 TGTGACTTTCAGGAGGATGTTGATA 59.752 40.000 0.00 0.00 0.00 2.15
1786 2699 5.814705 GTGACTTTCAGGAGGATGTTGATAG 59.185 44.000 0.00 0.00 0.00 2.08
1787 2700 5.485353 TGACTTTCAGGAGGATGTTGATAGT 59.515 40.000 0.00 0.00 36.35 2.12
1788 2701 6.667848 TGACTTTCAGGAGGATGTTGATAGTA 59.332 38.462 0.00 0.00 34.66 1.82
1789 2702 7.345653 TGACTTTCAGGAGGATGTTGATAGTAT 59.654 37.037 0.00 0.00 34.66 2.12
1790 2703 8.783660 ACTTTCAGGAGGATGTTGATAGTATA 57.216 34.615 0.00 0.00 33.39 1.47
1791 2704 9.213777 ACTTTCAGGAGGATGTTGATAGTATAA 57.786 33.333 0.00 0.00 33.39 0.98
1794 2707 8.956446 TCAGGAGGATGTTGATAGTATAATGA 57.044 34.615 0.00 0.00 0.00 2.57
1795 2708 9.379770 TCAGGAGGATGTTGATAGTATAATGAA 57.620 33.333 0.00 0.00 0.00 2.57
1800 2713 9.645059 AGGATGTTGATAGTATAATGAATGACG 57.355 33.333 0.00 0.00 0.00 4.35
1801 2714 8.873830 GGATGTTGATAGTATAATGAATGACGG 58.126 37.037 0.00 0.00 0.00 4.79
1802 2715 7.652300 TGTTGATAGTATAATGAATGACGGC 57.348 36.000 0.00 0.00 0.00 5.68
1803 2716 6.649141 TGTTGATAGTATAATGAATGACGGCC 59.351 38.462 0.00 0.00 0.00 6.13
1804 2717 5.730550 TGATAGTATAATGAATGACGGCCC 58.269 41.667 0.00 0.00 0.00 5.80
1805 2718 3.418684 AGTATAATGAATGACGGCCCC 57.581 47.619 0.00 0.00 0.00 5.80
1824 2737 1.341285 CCTTGAGTGATGGGGATGCAA 60.341 52.381 0.00 0.00 0.00 4.08
1841 2754 2.361757 TGCAACAAAGGTCTGGAACATG 59.638 45.455 0.00 0.00 38.20 3.21
1854 2771 7.888021 AGGTCTGGAACATGTTAAATGATTACA 59.112 33.333 11.95 0.00 38.20 2.41
1890 2807 8.243426 TGAAATTGTTGCTTGGTTATGATCTAC 58.757 33.333 0.00 0.00 0.00 2.59
1891 2808 7.701539 AATTGTTGCTTGGTTATGATCTACA 57.298 32.000 0.00 0.00 0.00 2.74
1899 2816 7.831690 TGCTTGGTTATGATCTACAATTTGGTA 59.168 33.333 0.78 0.00 0.00 3.25
1913 2830 6.126409 ACAATTTGGTAGTGACTTTCAGGAA 58.874 36.000 0.78 0.00 0.00 3.36
1936 2853 7.557719 GGAAGATGTTGATAAAGGGAAGATTGA 59.442 37.037 0.00 0.00 0.00 2.57
1960 2877 6.969043 ACCCTCCAAGTAATAACAATGATGA 58.031 36.000 0.00 0.00 0.00 2.92
2012 2929 4.762251 GGAACTGCTGAAAAGGTCTGTATT 59.238 41.667 0.00 0.00 31.69 1.89
2106 3486 8.334263 TGTTCAGTATTTTCTTATCACATGCA 57.666 30.769 0.00 0.00 0.00 3.96
2134 3514 6.893958 AATGCTTTCTTACACTATCTGACG 57.106 37.500 0.00 0.00 0.00 4.35
2245 3625 7.351414 TGTCAGACTAGAAAACAATTCATCG 57.649 36.000 1.31 0.00 0.00 3.84
2445 3833 5.614923 TTGTCTCTCTCTCTTAACTCGTG 57.385 43.478 0.00 0.00 0.00 4.35
2452 3840 5.594725 TCTCTCTCTTAACTCGTGGCATATT 59.405 40.000 0.00 0.00 0.00 1.28
2454 3842 7.448777 TCTCTCTCTTAACTCGTGGCATATTAT 59.551 37.037 0.00 0.00 0.00 1.28
2512 3900 3.334691 TGTGTGCAATCACTACCTTAGC 58.665 45.455 8.70 0.00 43.49 3.09
2588 3976 0.304705 GCCACTCACTGAACGTGTTG 59.695 55.000 0.00 0.00 44.16 3.33
2647 4035 2.665519 CGCTCTCATCCAACCAAAAACG 60.666 50.000 0.00 0.00 0.00 3.60
2681 4069 1.971167 GCAGGGCCAACGATGAACA 60.971 57.895 6.18 0.00 0.00 3.18
2682 4070 1.875963 CAGGGCCAACGATGAACAC 59.124 57.895 6.18 0.00 0.00 3.32
2704 4092 3.191581 CCCGTAATGCCACAACAATAACA 59.808 43.478 0.00 0.00 0.00 2.41
2709 4097 1.338337 TGCCACAACAATAACAACGGG 59.662 47.619 0.00 0.00 0.00 5.28
2746 4135 4.362476 CAAGCCTTGCCCGCAACC 62.362 66.667 0.00 0.00 0.00 3.77
2811 4200 1.221840 CCAACCTCACCGGATCAGG 59.778 63.158 9.46 10.69 36.31 3.86
2812 4201 1.450312 CAACCTCACCGGATCAGGC 60.450 63.158 9.46 0.00 36.31 4.85
2813 4202 2.670148 AACCTCACCGGATCAGGCC 61.670 63.158 9.46 0.00 36.31 5.19
2814 4203 3.083349 CCTCACCGGATCAGGCCA 61.083 66.667 9.46 0.00 33.16 5.36
2815 4204 2.187946 CTCACCGGATCAGGCCAC 59.812 66.667 9.46 0.00 33.69 5.01
2816 4205 3.391665 CTCACCGGATCAGGCCACC 62.392 68.421 9.46 1.45 33.69 4.61
2817 4206 4.489771 CACCGGATCAGGCCACCC 62.490 72.222 9.46 0.00 33.69 4.61
2832 4221 0.542938 CACCCTGACCCTCTCACAGA 60.543 60.000 0.00 0.00 34.07 3.41
2958 4347 5.393352 GCATCTGCATTTCAAGGATTACACA 60.393 40.000 0.00 0.00 41.59 3.72
3013 4423 9.632638 AGACCTCATGTATATTTTTGTTATGCT 57.367 29.630 0.00 0.00 0.00 3.79
3054 4464 6.599356 TGCTGAGACACTGTTTAGGTAATA 57.401 37.500 0.00 0.00 0.00 0.98
3072 4483 3.963428 ATAGAAGCAACACTCTTCCGT 57.037 42.857 0.00 0.00 40.48 4.69
3074 4485 0.784778 GAAGCAACACTCTTCCGTCG 59.215 55.000 0.00 0.00 35.19 5.12
3149 4564 7.938563 TTGCATTTTTGTACTGGTTGTAATC 57.061 32.000 0.00 0.00 32.25 1.75
3151 4661 5.571357 GCATTTTTGTACTGGTTGTAATCGG 59.429 40.000 0.00 0.00 32.25 4.18
3183 4693 9.781834 TTGTTGAAAAAGTAGTATGTCAAACAG 57.218 29.630 0.00 0.00 0.00 3.16
3201 4711 5.385509 AACAGTATATTTGTGGGTTGCAC 57.614 39.130 0.00 0.00 0.00 4.57
3205 4715 2.373335 TATTTGTGGGTTGCACTGGT 57.627 45.000 0.00 0.00 0.00 4.00
3316 4827 0.534873 GAGGAAGTGAGTCTCAGCCC 59.465 60.000 1.75 4.99 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 1.761244 TTTGATCCATACAGCGCGCG 61.761 55.000 28.44 28.44 0.00 6.86
125 126 2.852495 TTTCTCCAGCATCCGTCCGC 62.852 60.000 0.00 0.00 0.00 5.54
130 131 2.165030 AGCAAATTTTCTCCAGCATCCG 59.835 45.455 0.00 0.00 0.00 4.18
132 133 4.563061 ACAAGCAAATTTTCTCCAGCATC 58.437 39.130 0.00 0.00 0.00 3.91
137 138 5.486526 ACAACAACAAGCAAATTTTCTCCA 58.513 33.333 0.00 0.00 0.00 3.86
151 152 6.939730 TCTTATGGCATCTTAGACAACAACAA 59.060 34.615 1.65 0.00 0.00 2.83
157 158 9.466497 AAAAATCTCTTATGGCATCTTAGACAA 57.534 29.630 1.65 0.00 0.00 3.18
218 224 9.838339 AAAGATATTCCCATACAACTTAGACTG 57.162 33.333 0.00 0.00 0.00 3.51
337 1185 3.841255 GAGGGAGGGAGAAGAAGAGAAAA 59.159 47.826 0.00 0.00 0.00 2.29
357 1205 4.379243 ACGGTTGCGCTCAGGGAG 62.379 66.667 9.73 0.00 0.00 4.30
374 1222 4.055227 GCGGGGGATTTGGGTGGA 62.055 66.667 0.00 0.00 0.00 4.02
524 1393 0.399233 GCCAGAGGGAGTGGAGGTAT 60.399 60.000 0.00 0.00 37.23 2.73
1033 1940 3.334054 GAACCTCCTGGCCTGGCT 61.334 66.667 23.46 7.84 36.63 4.75
1266 2179 2.978156 TGGGATGAGAAACCTTTGCT 57.022 45.000 0.00 0.00 0.00 3.91
1281 2194 1.675310 CCTGCAGCAACGAATGGGA 60.675 57.895 8.66 0.00 0.00 4.37
1305 2218 0.312416 AGCACACAGTCTCGTCAGTC 59.688 55.000 0.00 0.00 0.00 3.51
1325 2238 3.758554 ACAATAAAATCAGCCGAAGCACT 59.241 39.130 0.00 0.00 43.56 4.40
1326 2239 4.096732 ACAATAAAATCAGCCGAAGCAC 57.903 40.909 0.00 0.00 43.56 4.40
1327 2240 4.217334 TCAACAATAAAATCAGCCGAAGCA 59.783 37.500 0.00 0.00 43.56 3.91
1328 2241 4.732784 TCAACAATAAAATCAGCCGAAGC 58.267 39.130 0.00 0.00 40.32 3.86
1332 2245 4.863689 TGCAATCAACAATAAAATCAGCCG 59.136 37.500 0.00 0.00 0.00 5.52
1334 2247 6.035327 GTCCTGCAATCAACAATAAAATCAGC 59.965 38.462 0.00 0.00 0.00 4.26
1342 2255 5.981088 ACATTGTCCTGCAATCAACAATA 57.019 34.783 12.53 0.00 45.33 1.90
1383 2296 1.651240 CCTTCGCTGCATCCTTGTGG 61.651 60.000 0.00 0.00 0.00 4.17
1419 2332 6.018343 CCAACCATCAACAAACACCATTTAAC 60.018 38.462 0.00 0.00 0.00 2.01
1421 2334 5.129485 ACCAACCATCAACAAACACCATTTA 59.871 36.000 0.00 0.00 0.00 1.40
1430 2343 4.501229 GCAATCTCACCAACCATCAACAAA 60.501 41.667 0.00 0.00 0.00 2.83
1473 2386 6.183360 CCAACATCCTCCTGAAATCAATAACC 60.183 42.308 0.00 0.00 0.00 2.85
1511 2424 3.010472 TCCTTTCATCATTCAAGGAGCCA 59.990 43.478 0.00 0.00 41.02 4.75
1529 2442 2.890945 GCACACCATTGTTACCTTCCTT 59.109 45.455 0.00 0.00 31.66 3.36
1541 2454 2.101249 CTCCACAACTTTGCACACCATT 59.899 45.455 0.00 0.00 0.00 3.16
1546 2459 1.832883 ACACTCCACAACTTTGCACA 58.167 45.000 0.00 0.00 0.00 4.57
1559 2472 4.756642 TCATCAGTGATCAACAAACACTCC 59.243 41.667 1.56 0.00 41.93 3.85
1571 2484 3.856638 GCCTCGTGATCTCATCAGTGATC 60.857 52.174 1.56 0.00 42.36 2.92
1580 2493 1.253593 ACAGCAGCCTCGTGATCTCA 61.254 55.000 0.00 0.00 0.00 3.27
1592 2505 2.849880 TCAGAACAACAAACAGCAGC 57.150 45.000 0.00 0.00 0.00 5.25
1595 2508 4.432712 ACCAAATCAGAACAACAAACAGC 58.567 39.130 0.00 0.00 0.00 4.40
1605 2518 5.049167 TGCAATCAACAACCAAATCAGAAC 58.951 37.500 0.00 0.00 0.00 3.01
1663 2576 1.224315 CCGCATCCCCATCACTCAA 59.776 57.895 0.00 0.00 0.00 3.02
1664 2577 1.995066 ACCGCATCCCCATCACTCA 60.995 57.895 0.00 0.00 0.00 3.41
1665 2578 1.524621 CACCGCATCCCCATCACTC 60.525 63.158 0.00 0.00 0.00 3.51
1666 2579 1.561769 TTCACCGCATCCCCATCACT 61.562 55.000 0.00 0.00 0.00 3.41
1667 2580 1.077787 TTCACCGCATCCCCATCAC 60.078 57.895 0.00 0.00 0.00 3.06
1668 2581 1.224315 CTTCACCGCATCCCCATCA 59.776 57.895 0.00 0.00 0.00 3.07
1669 2582 1.526917 CCTTCACCGCATCCCCATC 60.527 63.158 0.00 0.00 0.00 3.51
1670 2583 1.863155 AACCTTCACCGCATCCCCAT 61.863 55.000 0.00 0.00 0.00 4.00
1671 2584 1.202099 TAACCTTCACCGCATCCCCA 61.202 55.000 0.00 0.00 0.00 4.96
1672 2585 0.182775 ATAACCTTCACCGCATCCCC 59.817 55.000 0.00 0.00 0.00 4.81
1673 2586 1.134220 TCATAACCTTCACCGCATCCC 60.134 52.381 0.00 0.00 0.00 3.85
1674 2587 2.325583 TCATAACCTTCACCGCATCC 57.674 50.000 0.00 0.00 0.00 3.51
1675 2588 3.733337 AGATCATAACCTTCACCGCATC 58.267 45.455 0.00 0.00 0.00 3.91
1676 2589 3.845781 AGATCATAACCTTCACCGCAT 57.154 42.857 0.00 0.00 0.00 4.73
1677 2590 4.746535 TTAGATCATAACCTTCACCGCA 57.253 40.909 0.00 0.00 0.00 5.69
1678 2591 5.049405 CCAATTAGATCATAACCTTCACCGC 60.049 44.000 0.00 0.00 0.00 5.68
1679 2592 6.017934 CACCAATTAGATCATAACCTTCACCG 60.018 42.308 0.00 0.00 0.00 4.94
1680 2593 6.263168 CCACCAATTAGATCATAACCTTCACC 59.737 42.308 0.00 0.00 0.00 4.02
1681 2594 6.828785 ACCACCAATTAGATCATAACCTTCAC 59.171 38.462 0.00 0.00 0.00 3.18
1682 2595 6.969043 ACCACCAATTAGATCATAACCTTCA 58.031 36.000 0.00 0.00 0.00 3.02
1683 2596 7.881775 AACCACCAATTAGATCATAACCTTC 57.118 36.000 0.00 0.00 0.00 3.46
1684 2597 9.762381 TTTAACCACCAATTAGATCATAACCTT 57.238 29.630 0.00 0.00 0.00 3.50
1685 2598 9.936329 ATTTAACCACCAATTAGATCATAACCT 57.064 29.630 0.00 0.00 0.00 3.50
1686 2599 9.965824 CATTTAACCACCAATTAGATCATAACC 57.034 33.333 0.00 0.00 0.00 2.85
1694 2607 9.967451 TCTGTAATCATTTAACCACCAATTAGA 57.033 29.630 0.00 0.00 0.00 2.10
1697 2610 9.874205 CAATCTGTAATCATTTAACCACCAATT 57.126 29.630 0.00 0.00 0.00 2.32
1698 2611 9.253832 TCAATCTGTAATCATTTAACCACCAAT 57.746 29.630 0.00 0.00 0.00 3.16
1699 2612 8.642935 TCAATCTGTAATCATTTAACCACCAA 57.357 30.769 0.00 0.00 0.00 3.67
1700 2613 8.685427 CATCAATCTGTAATCATTTAACCACCA 58.315 33.333 0.00 0.00 0.00 4.17
1701 2614 8.902806 TCATCAATCTGTAATCATTTAACCACC 58.097 33.333 0.00 0.00 0.00 4.61
1710 2623 9.692749 GCAATTTCATCATCAATCTGTAATCAT 57.307 29.630 0.00 0.00 0.00 2.45
1711 2624 8.909923 AGCAATTTCATCATCAATCTGTAATCA 58.090 29.630 0.00 0.00 0.00 2.57
1712 2625 9.181805 CAGCAATTTCATCATCAATCTGTAATC 57.818 33.333 0.00 0.00 0.00 1.75
1713 2626 7.652105 GCAGCAATTTCATCATCAATCTGTAAT 59.348 33.333 0.00 0.00 0.00 1.89
1714 2627 6.976349 GCAGCAATTTCATCATCAATCTGTAA 59.024 34.615 0.00 0.00 0.00 2.41
1715 2628 6.320418 AGCAGCAATTTCATCATCAATCTGTA 59.680 34.615 0.00 0.00 0.00 2.74
1716 2629 5.127194 AGCAGCAATTTCATCATCAATCTGT 59.873 36.000 0.00 0.00 0.00 3.41
1717 2630 5.460091 CAGCAGCAATTTCATCATCAATCTG 59.540 40.000 0.00 0.00 0.00 2.90
1718 2631 5.451937 CCAGCAGCAATTTCATCATCAATCT 60.452 40.000 0.00 0.00 0.00 2.40
1719 2632 4.745125 CCAGCAGCAATTTCATCATCAATC 59.255 41.667 0.00 0.00 0.00 2.67
1720 2633 4.404394 TCCAGCAGCAATTTCATCATCAAT 59.596 37.500 0.00 0.00 0.00 2.57
1721 2634 3.764972 TCCAGCAGCAATTTCATCATCAA 59.235 39.130 0.00 0.00 0.00 2.57
1722 2635 3.358118 TCCAGCAGCAATTTCATCATCA 58.642 40.909 0.00 0.00 0.00 3.07
1723 2636 4.585955 ATCCAGCAGCAATTTCATCATC 57.414 40.909 0.00 0.00 0.00 2.92
1724 2637 6.266786 TCATAATCCAGCAGCAATTTCATCAT 59.733 34.615 0.00 0.00 0.00 2.45
1725 2638 5.595133 TCATAATCCAGCAGCAATTTCATCA 59.405 36.000 0.00 0.00 0.00 3.07
1726 2639 6.080648 TCATAATCCAGCAGCAATTTCATC 57.919 37.500 0.00 0.00 0.00 2.92
1727 2640 6.493802 AGATCATAATCCAGCAGCAATTTCAT 59.506 34.615 0.00 0.00 31.78 2.57
1728 2641 5.831525 AGATCATAATCCAGCAGCAATTTCA 59.168 36.000 0.00 0.00 31.78 2.69
1729 2642 6.328641 AGATCATAATCCAGCAGCAATTTC 57.671 37.500 0.00 0.00 31.78 2.17
1730 2643 7.828508 TTAGATCATAATCCAGCAGCAATTT 57.171 32.000 0.00 0.00 31.78 1.82
1731 2644 8.418597 AATTAGATCATAATCCAGCAGCAATT 57.581 30.769 0.00 0.00 31.78 2.32
1732 2645 8.304596 CAAATTAGATCATAATCCAGCAGCAAT 58.695 33.333 0.00 0.00 31.78 3.56
1733 2646 7.255695 CCAAATTAGATCATAATCCAGCAGCAA 60.256 37.037 0.00 0.00 31.78 3.91
1734 2647 6.208007 CCAAATTAGATCATAATCCAGCAGCA 59.792 38.462 0.00 0.00 31.78 4.41
1735 2648 6.208204 ACCAAATTAGATCATAATCCAGCAGC 59.792 38.462 0.00 0.00 31.78 5.25
1736 2649 7.756395 ACCAAATTAGATCATAATCCAGCAG 57.244 36.000 0.00 0.00 31.78 4.24
1737 2650 7.560991 ACAACCAAATTAGATCATAATCCAGCA 59.439 33.333 0.00 0.00 31.78 4.41
1738 2651 7.864379 CACAACCAAATTAGATCATAATCCAGC 59.136 37.037 0.00 0.00 31.78 4.85
1739 2652 9.123902 TCACAACCAAATTAGATCATAATCCAG 57.876 33.333 0.00 0.00 31.78 3.86
1740 2653 8.902806 GTCACAACCAAATTAGATCATAATCCA 58.097 33.333 0.00 0.00 31.78 3.41
1741 2654 9.125026 AGTCACAACCAAATTAGATCATAATCC 57.875 33.333 0.00 0.00 31.78 3.01
1745 2658 9.513906 TGAAAGTCACAACCAAATTAGATCATA 57.486 29.630 0.00 0.00 0.00 2.15
1746 2659 8.408043 TGAAAGTCACAACCAAATTAGATCAT 57.592 30.769 0.00 0.00 0.00 2.45
1747 2660 7.040478 CCTGAAAGTCACAACCAAATTAGATCA 60.040 37.037 0.00 0.00 0.00 2.92
1748 2661 7.174946 TCCTGAAAGTCACAACCAAATTAGATC 59.825 37.037 0.00 0.00 0.00 2.75
1749 2662 7.004086 TCCTGAAAGTCACAACCAAATTAGAT 58.996 34.615 0.00 0.00 0.00 1.98
1750 2663 6.361433 TCCTGAAAGTCACAACCAAATTAGA 58.639 36.000 0.00 0.00 0.00 2.10
1751 2664 6.294176 CCTCCTGAAAGTCACAACCAAATTAG 60.294 42.308 0.00 0.00 0.00 1.73
1752 2665 5.534654 CCTCCTGAAAGTCACAACCAAATTA 59.465 40.000 0.00 0.00 0.00 1.40
1753 2666 4.342092 CCTCCTGAAAGTCACAACCAAATT 59.658 41.667 0.00 0.00 0.00 1.82
1754 2667 3.891366 CCTCCTGAAAGTCACAACCAAAT 59.109 43.478 0.00 0.00 0.00 2.32
1755 2668 3.053991 TCCTCCTGAAAGTCACAACCAAA 60.054 43.478 0.00 0.00 0.00 3.28
1756 2669 2.507886 TCCTCCTGAAAGTCACAACCAA 59.492 45.455 0.00 0.00 0.00 3.67
1757 2670 2.123589 TCCTCCTGAAAGTCACAACCA 58.876 47.619 0.00 0.00 0.00 3.67
1758 2671 2.930826 TCCTCCTGAAAGTCACAACC 57.069 50.000 0.00 0.00 0.00 3.77
1759 2672 3.744660 ACATCCTCCTGAAAGTCACAAC 58.255 45.455 0.00 0.00 0.00 3.32
1760 2673 4.136796 CAACATCCTCCTGAAAGTCACAA 58.863 43.478 0.00 0.00 0.00 3.33
1761 2674 3.390967 TCAACATCCTCCTGAAAGTCACA 59.609 43.478 0.00 0.00 0.00 3.58
1762 2675 4.008074 TCAACATCCTCCTGAAAGTCAC 57.992 45.455 0.00 0.00 0.00 3.67
1763 2676 4.916041 ATCAACATCCTCCTGAAAGTCA 57.084 40.909 0.00 0.00 0.00 3.41
1764 2677 5.983540 ACTATCAACATCCTCCTGAAAGTC 58.016 41.667 0.00 0.00 0.00 3.01
1765 2678 7.682787 ATACTATCAACATCCTCCTGAAAGT 57.317 36.000 0.00 0.00 0.00 2.66
1768 2681 9.379770 TCATTATACTATCAACATCCTCCTGAA 57.620 33.333 0.00 0.00 0.00 3.02
1769 2682 8.956446 TCATTATACTATCAACATCCTCCTGA 57.044 34.615 0.00 0.00 0.00 3.86
1774 2687 9.645059 CGTCATTCATTATACTATCAACATCCT 57.355 33.333 0.00 0.00 0.00 3.24
1775 2688 8.873830 CCGTCATTCATTATACTATCAACATCC 58.126 37.037 0.00 0.00 0.00 3.51
1776 2689 8.383619 GCCGTCATTCATTATACTATCAACATC 58.616 37.037 0.00 0.00 0.00 3.06
1777 2690 7.334421 GGCCGTCATTCATTATACTATCAACAT 59.666 37.037 0.00 0.00 0.00 2.71
1778 2691 6.649141 GGCCGTCATTCATTATACTATCAACA 59.351 38.462 0.00 0.00 0.00 3.33
1779 2692 6.092259 GGGCCGTCATTCATTATACTATCAAC 59.908 42.308 0.00 0.00 0.00 3.18
1780 2693 6.170506 GGGCCGTCATTCATTATACTATCAA 58.829 40.000 0.00 0.00 0.00 2.57
1781 2694 5.338056 GGGGCCGTCATTCATTATACTATCA 60.338 44.000 0.00 0.00 0.00 2.15
1782 2695 5.104900 AGGGGCCGTCATTCATTATACTATC 60.105 44.000 0.00 0.00 0.00 2.08
1783 2696 4.783227 AGGGGCCGTCATTCATTATACTAT 59.217 41.667 0.00 0.00 0.00 2.12
1784 2697 4.164981 AGGGGCCGTCATTCATTATACTA 58.835 43.478 0.00 0.00 0.00 1.82
1785 2698 2.979678 AGGGGCCGTCATTCATTATACT 59.020 45.455 0.00 0.00 0.00 2.12
1786 2699 3.418684 AGGGGCCGTCATTCATTATAC 57.581 47.619 0.00 0.00 0.00 1.47
1787 2700 3.392947 TCAAGGGGCCGTCATTCATTATA 59.607 43.478 0.00 0.00 0.00 0.98
1788 2701 2.174639 TCAAGGGGCCGTCATTCATTAT 59.825 45.455 0.00 0.00 0.00 1.28
1789 2702 1.562008 TCAAGGGGCCGTCATTCATTA 59.438 47.619 0.00 0.00 0.00 1.90
1790 2703 0.331278 TCAAGGGGCCGTCATTCATT 59.669 50.000 0.00 0.00 0.00 2.57
1791 2704 0.107017 CTCAAGGGGCCGTCATTCAT 60.107 55.000 0.00 0.00 0.00 2.57
1792 2705 1.299648 CTCAAGGGGCCGTCATTCA 59.700 57.895 0.00 0.00 0.00 2.57
1793 2706 1.026718 CACTCAAGGGGCCGTCATTC 61.027 60.000 0.00 0.00 0.00 2.67
1794 2707 1.002134 CACTCAAGGGGCCGTCATT 60.002 57.895 0.00 0.00 0.00 2.57
1795 2708 1.274703 ATCACTCAAGGGGCCGTCAT 61.275 55.000 0.00 0.00 0.00 3.06
1796 2709 1.918293 ATCACTCAAGGGGCCGTCA 60.918 57.895 0.00 0.00 0.00 4.35
1797 2710 1.450312 CATCACTCAAGGGGCCGTC 60.450 63.158 0.00 0.00 0.00 4.79
1798 2711 2.671070 CATCACTCAAGGGGCCGT 59.329 61.111 0.00 0.00 0.00 5.68
1799 2712 2.124570 CCATCACTCAAGGGGCCG 60.125 66.667 0.00 0.00 0.00 6.13
1800 2713 2.276740 CCCATCACTCAAGGGGCC 59.723 66.667 0.00 0.00 38.98 5.80
1803 2716 0.466922 GCATCCCCATCACTCAAGGG 60.467 60.000 0.00 0.00 42.44 3.95
1804 2717 0.256752 TGCATCCCCATCACTCAAGG 59.743 55.000 0.00 0.00 0.00 3.61
1805 2718 1.747355 GTTGCATCCCCATCACTCAAG 59.253 52.381 0.00 0.00 0.00 3.02
1824 2737 6.549364 TCATTTAACATGTTCCAGACCTTTGT 59.451 34.615 15.85 0.00 0.00 2.83
1854 2771 6.816640 CCAAGCAACAATTTCATCATCAATCT 59.183 34.615 0.00 0.00 0.00 2.40
1890 2807 6.486657 TCTTCCTGAAAGTCACTACCAAATTG 59.513 38.462 0.00 0.00 36.31 2.32
1891 2808 6.601332 TCTTCCTGAAAGTCACTACCAAATT 58.399 36.000 0.00 0.00 36.31 1.82
1899 2816 5.296151 TCAACATCTTCCTGAAAGTCACT 57.704 39.130 0.00 0.00 36.31 3.41
1913 2830 6.830838 GGTCAATCTTCCCTTTATCAACATCT 59.169 38.462 0.00 0.00 0.00 2.90
1936 2853 6.969043 TCATCATTGTTATTACTTGGAGGGT 58.031 36.000 0.00 0.00 0.00 4.34
1960 2877 1.988107 TCCCTTGCTCATGAACCTCTT 59.012 47.619 0.00 0.00 0.00 2.85
2106 3486 9.944376 TCAGATAGTGTAAGAAAGCATTAAACT 57.056 29.630 0.00 0.00 35.39 2.66
2134 3514 3.052036 CTGCATGCCAAACAACAGTTAC 58.948 45.455 16.68 0.00 33.80 2.50
2195 3575 2.699160 AGTGCCCCTCATATCATCTGT 58.301 47.619 0.00 0.00 0.00 3.41
2245 3625 2.745515 AAGGTTAGAGACGCACCTTC 57.254 50.000 0.00 0.00 46.12 3.46
2467 3855 9.131791 ACAGTACATGGAGTTTAAAACAGATTT 57.868 29.630 0.00 0.00 34.92 2.17
2483 3871 3.476295 GTGATTGCACACAGTACATGG 57.524 47.619 0.00 0.00 44.51 3.66
2512 3900 2.254459 GTCATGAGTGCACGAGTACAG 58.746 52.381 12.01 0.00 32.20 2.74
2588 3976 2.125106 GATGGGCAGGTGGACGAC 60.125 66.667 0.00 0.00 0.00 4.34
2627 4015 2.293399 ACGTTTTTGGTTGGATGAGAGC 59.707 45.455 0.00 0.00 0.00 4.09
2681 4069 1.917872 ATTGTTGTGGCATTACGGGT 58.082 45.000 0.00 0.00 0.00 5.28
2682 4070 3.191581 TGTTATTGTTGTGGCATTACGGG 59.808 43.478 0.00 0.00 0.00 5.28
2709 4097 1.079612 GTTGGCAGGCAGAAATGGC 60.080 57.895 0.00 0.00 42.01 4.40
2811 4200 2.607750 TGAGAGGGTCAGGGTGGC 60.608 66.667 0.00 0.00 0.00 5.01
2812 4201 1.536418 TGTGAGAGGGTCAGGGTGG 60.536 63.158 0.00 0.00 35.13 4.61
2813 4202 0.542938 TCTGTGAGAGGGTCAGGGTG 60.543 60.000 0.00 0.00 35.13 4.61
2814 4203 0.543174 GTCTGTGAGAGGGTCAGGGT 60.543 60.000 0.00 0.00 35.13 4.34
2815 4204 0.252012 AGTCTGTGAGAGGGTCAGGG 60.252 60.000 0.00 0.00 35.13 4.45
2816 4205 0.894141 CAGTCTGTGAGAGGGTCAGG 59.106 60.000 0.00 0.00 35.13 3.86
2817 4206 1.916506 TCAGTCTGTGAGAGGGTCAG 58.083 55.000 0.00 0.00 35.13 3.51
2832 4221 1.478510 GAGTCATGTGACCGGATCAGT 59.521 52.381 9.46 0.00 45.85 3.41
2958 4347 3.307621 GCCAAAATGAATGGTGGGATTGT 60.308 43.478 0.00 0.00 40.23 2.71
2987 4397 9.632638 AGCATAACAAAAATATACATGAGGTCT 57.367 29.630 0.00 0.00 0.00 3.85
3013 4423 9.066892 GTCTCAGCAATATAATGTCCCAATTTA 57.933 33.333 0.00 0.00 0.00 1.40
3014 4424 7.560991 TGTCTCAGCAATATAATGTCCCAATTT 59.439 33.333 0.00 0.00 0.00 1.82
3015 4425 7.013655 GTGTCTCAGCAATATAATGTCCCAATT 59.986 37.037 0.00 0.00 0.00 2.32
3016 4426 6.488006 GTGTCTCAGCAATATAATGTCCCAAT 59.512 38.462 0.00 0.00 0.00 3.16
3054 4464 1.603172 CGACGGAAGAGTGTTGCTTCT 60.603 52.381 0.00 0.00 41.11 2.85
3072 4483 5.547465 ACATGTGTATCTTTTGAAGGACGA 58.453 37.500 0.00 0.00 0.00 4.20
3074 4485 6.863126 CCAAACATGTGTATCTTTTGAAGGAC 59.137 38.462 0.00 0.00 30.23 3.85
3122 4536 6.415798 ACAACCAGTACAAAAATGCAAAAC 57.584 33.333 0.00 0.00 0.00 2.43
3316 4827 3.501828 TCACGTCATTCCTCCACAAATTG 59.498 43.478 0.00 0.00 0.00 2.32
3329 4840 6.100004 CCACTTAGTATGTCTTCACGTCATT 58.900 40.000 0.00 0.00 0.00 2.57
3330 4841 5.651530 CCACTTAGTATGTCTTCACGTCAT 58.348 41.667 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.