Multiple sequence alignment - TraesCS4A01G373600

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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 TraesCS4A01G373600 chr4A 100.000 3992 0 0 1 3992 648879642 648883633 0.000000e+00 7372.0
1 TraesCS4A01G373600 chr7D 94.488 1288 62 5 848 2129 41692913 41694197 0.000000e+00 1977.0
2 TraesCS4A01G373600 chr7D 83.068 1193 74 42 2548 3618 41694523 41695709 0.000000e+00 966.0
3 TraesCS4A01G373600 chr7D 94.737 228 11 1 1 227 41691800 41692027 1.760000e-93 353.0
4 TraesCS4A01G373600 chr7D 89.349 169 12 2 3618 3785 41695766 41695929 1.450000e-49 207.0
5 TraesCS4A01G373600 chr7D 83.784 148 20 3 1997 2144 596015562 596015705 1.930000e-28 137.0
6 TraesCS4A01G373600 chr7D 85.075 67 5 4 3359 3423 596083119 596083182 3.330000e-06 63.9
7 TraesCS4A01G373600 chr7D 82.258 62 10 1 3357 3417 596016677 596016738 7.000000e-03 52.8
8 TraesCS4A01G373600 chr7A 89.706 816 50 18 874 1688 41420578 41421360 0.000000e+00 1011.0
9 TraesCS4A01G373600 chr7A 92.067 416 32 1 1723 2137 41421356 41421771 5.750000e-163 584.0
10 TraesCS4A01G373600 chr7A 84.278 547 44 17 2509 3036 41422583 41423106 2.770000e-136 496.0
11 TraesCS4A01G373600 chr7A 86.383 470 37 12 3128 3577 41423252 41423714 4.640000e-134 488.0
12 TraesCS4A01G373600 chr7A 93.833 227 14 0 1 227 41419880 41420106 3.820000e-90 342.0
13 TraesCS4A01G373600 chr7A 91.824 159 8 1 3627 3785 41423844 41423997 2.420000e-52 217.0
14 TraesCS4A01G373600 chr7A 86.260 131 11 5 3863 3992 41423992 41424116 6.960000e-28 135.0
15 TraesCS4A01G373600 chr7A 82.418 91 8 3 2136 2226 41422135 41422217 5.530000e-09 73.1
16 TraesCS4A01G373600 chr7A 85.075 67 10 0 3357 3423 688991510 688991576 7.160000e-08 69.4
17 TraesCS4A01G373600 chr7A 82.258 62 10 1 3357 3417 688972202 688972263 7.000000e-03 52.8
18 TraesCS4A01G373600 chr4B 90.490 694 34 14 2100 2777 613850938 613851615 0.000000e+00 887.0
19 TraesCS4A01G373600 chr4B 90.385 624 45 10 222 836 510832697 510833314 0.000000e+00 806.0
20 TraesCS4A01G373600 chr4B 88.791 339 31 7 222 557 117071862 117072196 3.710000e-110 409.0
21 TraesCS4A01G373600 chr4B 88.791 339 31 7 222 557 117092953 117093287 3.710000e-110 409.0
22 TraesCS4A01G373600 chr4B 88.791 339 31 7 222 557 117093718 117094052 3.710000e-110 409.0
23 TraesCS4A01G373600 chr6B 86.720 625 39 17 226 838 404422999 404423591 0.000000e+00 654.0
24 TraesCS4A01G373600 chr6B 92.368 380 13 5 2414 2777 716938268 716938647 9.830000e-146 527.0
25 TraesCS4A01G373600 chr6B 95.745 94 4 0 2684 2777 48047100 48047007 6.910000e-33 152.0
26 TraesCS4A01G373600 chr6B 98.485 66 0 1 2474 2538 48047160 48047095 9.070000e-22 115.0
27 TraesCS4A01G373600 chr2B 85.423 638 52 19 222 838 94810815 94811432 3.390000e-175 625.0
28 TraesCS4A01G373600 chr2B 85.455 550 57 16 303 838 263733290 263732750 5.830000e-153 551.0
29 TraesCS4A01G373600 chr2B 79.346 673 109 20 949 1612 55855925 55855274 2.830000e-121 446.0
30 TraesCS4A01G373600 chr2B 78.784 707 100 27 888 1571 55210409 55209730 2.850000e-116 429.0
31 TraesCS4A01G373600 chr2B 77.808 739 113 35 888 1612 55227648 55226947 3.710000e-110 409.0
32 TraesCS4A01G373600 chr2B 83.979 387 45 14 465 838 212176423 212176805 4.910000e-94 355.0
33 TraesCS4A01G373600 chr2B 77.156 429 62 22 2617 3035 55224626 55224224 2.420000e-52 217.0
34 TraesCS4A01G373600 chr2B 77.994 359 50 17 2617 2969 55854208 55853873 8.750000e-47 198.0
35 TraesCS4A01G373600 chr2B 76.257 358 57 18 2617 2969 55225939 55225605 8.880000e-37 165.0
36 TraesCS4A01G373600 chr2B 85.714 98 12 2 2002 2098 54887039 54886943 7.060000e-18 102.0
37 TraesCS4A01G373600 chr1B 92.838 377 14 5 2414 2777 639176921 639176545 5.870000e-148 534.0
38 TraesCS4A01G373600 chr1B 89.583 336 25 10 225 556 319470434 319470763 6.170000e-113 418.0
39 TraesCS4A01G373600 chr1B 81.737 449 49 25 403 832 146777450 146777016 1.060000e-90 344.0
40 TraesCS4A01G373600 chr1B 94.186 86 5 0 3780 3865 350393343 350393258 9.000000e-27 132.0
41 TraesCS4A01G373600 chrUn 88.596 342 32 7 225 563 301231793 301231456 3.710000e-110 409.0
42 TraesCS4A01G373600 chrUn 74.514 514 88 34 1011 1515 84528829 84529308 2.450000e-42 183.0
43 TraesCS4A01G373600 chr2D 78.712 559 103 10 1059 1612 33581073 33580526 3.790000e-95 359.0
44 TraesCS4A01G373600 chr2D 82.701 422 50 17 429 838 548262179 548262589 1.760000e-93 353.0
45 TraesCS4A01G373600 chr2D 77.098 703 98 36 945 1607 33315480 33314801 8.210000e-92 348.0
46 TraesCS4A01G373600 chr2D 78.878 303 37 11 946 1245 33049678 33049400 3.170000e-41 180.0
47 TraesCS4A01G373600 chr5B 83.171 410 44 18 444 838 584609592 584609193 6.350000e-93 351.0
48 TraesCS4A01G373600 chr5B 80.973 452 57 23 405 838 54155128 54155568 8.270000e-87 331.0
49 TraesCS4A01G373600 chr5B 94.681 94 5 0 2684 2777 95839475 95839382 3.210000e-31 147.0
50 TraesCS4A01G373600 chr5B 97.101 69 1 1 2471 2538 95839538 95839470 9.070000e-22 115.0
51 TraesCS4A01G373600 chr7B 80.189 424 74 8 2617 3034 16734156 16734575 3.870000e-80 309.0
52 TraesCS4A01G373600 chr7B 78.174 449 59 24 2616 3045 674145400 674145828 2.380000e-62 250.0
53 TraesCS4A01G373600 chr7B 97.059 34 1 0 3390 3423 674170270 674170303 1.550000e-04 58.4
54 TraesCS4A01G373600 chr2A 74.104 753 116 51 2617 3346 79344673 79345369 1.850000e-58 237.0
55 TraesCS4A01G373600 chr2A 79.470 302 48 7 946 1245 36203202 36202913 6.760000e-48 202.0
56 TraesCS4A01G373600 chr2A 81.119 143 25 2 2002 2143 36201967 36201826 3.260000e-21 113.0
57 TraesCS4A01G373600 chr6D 93.407 91 6 0 3781 3871 16703055 16703145 6.960000e-28 135.0
58 TraesCS4A01G373600 chr6D 93.258 89 6 0 3781 3869 65497086 65497174 9.000000e-27 132.0
59 TraesCS4A01G373600 chr3B 93.182 88 6 0 3778 3865 550573799 550573886 3.240000e-26 130.0
60 TraesCS4A01G373600 chr3B 92.222 90 7 0 3781 3870 215606934 215607023 1.160000e-25 128.0
61 TraesCS4A01G373600 chr3B 91.398 93 8 0 3774 3866 246109074 246108982 1.160000e-25 128.0
62 TraesCS4A01G373600 chr3D 92.222 90 7 0 3781 3870 583869073 583868984 1.160000e-25 128.0
63 TraesCS4A01G373600 chr1A 92.222 90 7 0 3780 3869 522970086 522969997 1.160000e-25 128.0
64 TraesCS4A01G373600 chr6A 92.135 89 7 0 3777 3865 603184756 603184844 4.190000e-25 126.0


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 TraesCS4A01G373600 chr4A 648879642 648883633 3991 False 7372.000000 7372 100.000000 1 3992 1 chr4A.!!$F1 3991
1 TraesCS4A01G373600 chr7D 41691800 41695929 4129 False 875.750000 1977 90.410500 1 3785 4 chr7D.!!$F2 3784
2 TraesCS4A01G373600 chr7A 41419880 41424116 4236 False 418.262500 1011 88.346125 1 3992 8 chr7A.!!$F3 3991
3 TraesCS4A01G373600 chr4B 613850938 613851615 677 False 887.000000 887 90.490000 2100 2777 1 chr4B.!!$F3 677
4 TraesCS4A01G373600 chr4B 510832697 510833314 617 False 806.000000 806 90.385000 222 836 1 chr4B.!!$F2 614
5 TraesCS4A01G373600 chr4B 117092953 117094052 1099 False 409.000000 409 88.791000 222 557 2 chr4B.!!$F4 335
6 TraesCS4A01G373600 chr6B 404422999 404423591 592 False 654.000000 654 86.720000 226 838 1 chr6B.!!$F1 612
7 TraesCS4A01G373600 chr2B 94810815 94811432 617 False 625.000000 625 85.423000 222 838 1 chr2B.!!$F1 616
8 TraesCS4A01G373600 chr2B 263732750 263733290 540 True 551.000000 551 85.455000 303 838 1 chr2B.!!$R3 535
9 TraesCS4A01G373600 chr2B 55209730 55210409 679 True 429.000000 429 78.784000 888 1571 1 chr2B.!!$R2 683
10 TraesCS4A01G373600 chr2B 55853873 55855925 2052 True 322.000000 446 78.670000 949 2969 2 chr2B.!!$R5 2020
11 TraesCS4A01G373600 chr2B 55224224 55227648 3424 True 263.666667 409 77.073667 888 3035 3 chr2B.!!$R4 2147
12 TraesCS4A01G373600 chr2D 33580526 33581073 547 True 359.000000 359 78.712000 1059 1612 1 chr2D.!!$R3 553
13 TraesCS4A01G373600 chr2D 33314801 33315480 679 True 348.000000 348 77.098000 945 1607 1 chr2D.!!$R2 662
14 TraesCS4A01G373600 chr2A 79344673 79345369 696 False 237.000000 237 74.104000 2617 3346 1 chr2A.!!$F1 729

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
846 1480 0.676466 TAGGAAATGCCGCACACCAG 60.676 55.0 0.00 0.0 43.43 4.00 F
867 1501 0.739813 GTAGCAAGCGGTACCACTGG 60.740 60.0 13.54 6.3 39.69 4.00 F
1664 2375 1.037030 ATTGCAATTCCCGGTCGCAT 61.037 50.0 5.99 0.0 31.67 4.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1815 2527 0.320421 CTGGGAAAAGCCGTTCTCGA 60.320 55.0 0.00 0.00 39.71 4.04 R
2854 4485 0.919873 CTCTACGTGCGTCGACATCG 60.920 60.0 17.16 17.54 42.86 3.84 R
3089 4764 0.467384 AGAGTGACACTGCAGCAACT 59.533 50.0 14.14 12.09 0.00 3.16 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
166 168 1.334960 CCAATTCGCGCAGAAACAACT 60.335 47.619 16.29 0.31 42.91 3.16
171 173 1.576421 GCGCAGAAACAACTGGAGG 59.424 57.895 0.30 0.00 38.22 4.30
185 187 3.596101 ACTGGAGGGCATGAGAGAATAT 58.404 45.455 0.00 0.00 0.00 1.28
189 191 4.907269 TGGAGGGCATGAGAGAATATAACA 59.093 41.667 0.00 0.00 0.00 2.41
211 213 6.397272 ACATTGTTGAAACTCTGCAGAAAAA 58.603 32.000 18.85 3.26 0.00 1.94
793 1427 2.677003 CCACAGGCGCCACTTAACG 61.677 63.158 31.54 9.83 0.00 3.18
843 1477 2.529151 CAAATAGGAAATGCCGCACAC 58.471 47.619 0.00 0.00 43.43 3.82
844 1478 1.102978 AATAGGAAATGCCGCACACC 58.897 50.000 0.00 0.00 43.43 4.16
846 1480 0.676466 TAGGAAATGCCGCACACCAG 60.676 55.000 0.00 0.00 43.43 4.00
859 1493 2.928396 ACCAGGGTAGCAAGCGGT 60.928 61.111 0.00 0.00 0.00 5.68
861 1495 1.153429 CCAGGGTAGCAAGCGGTAC 60.153 63.158 0.00 0.00 43.89 3.34
866 1500 2.750815 GTAGCAAGCGGTACCACTG 58.249 57.895 13.54 6.61 39.69 3.66
867 1501 0.739813 GTAGCAAGCGGTACCACTGG 60.740 60.000 13.54 6.30 39.69 4.00
909 1543 2.522193 GGTTGGGCCGGGAAAACA 60.522 61.111 2.18 0.00 0.00 2.83
965 1613 2.004583 CGACCTTGAAATACCTCGCA 57.995 50.000 0.00 0.00 0.00 5.10
1003 1651 1.856265 GCCTCAACCAACAGCTTCCG 61.856 60.000 0.00 0.00 0.00 4.30
1041 1695 1.413118 CCCTGCAAACCAAGAACCTT 58.587 50.000 0.00 0.00 0.00 3.50
1088 1743 2.612115 CCCACCTCCTCTGCCCTT 60.612 66.667 0.00 0.00 0.00 3.95
1091 1746 1.277580 CCACCTCCTCTGCCCTTCAT 61.278 60.000 0.00 0.00 0.00 2.57
1448 2150 3.545481 GACGTCATGCTCCGCACG 61.545 66.667 11.55 1.27 43.04 5.34
1496 2198 3.771160 AGGTACCGCCGCTGGAAG 61.771 66.667 6.18 0.00 43.70 3.46
1498 2203 2.263540 GTACCGCCGCTGGAAGAA 59.736 61.111 8.04 0.00 34.07 2.52
1644 2355 1.747924 CATGACTCTTCTCGCCTCTCA 59.252 52.381 0.00 0.00 0.00 3.27
1664 2375 1.037030 ATTGCAATTCCCGGTCGCAT 61.037 50.000 5.99 0.00 31.67 4.73
1862 2586 4.680237 CGGAGAACGGCTGGCACA 62.680 66.667 1.08 0.00 39.42 4.57
1864 2588 2.617274 GGAGAACGGCTGGCACAAC 61.617 63.158 1.08 0.00 38.70 3.32
1922 2646 1.696832 GGAACTCAGCATTCGCGTCC 61.697 60.000 5.77 0.00 45.49 4.79
1972 2696 2.981977 TTCGTCACGTGGTGCCTTCC 62.982 60.000 17.00 0.00 32.98 3.46
2062 2786 3.733960 CTCGTCGTCGACCTGCCA 61.734 66.667 19.29 0.00 41.35 4.92
2140 2865 2.439837 GAGCCTCCCTCTCTCCATG 58.560 63.158 0.00 0.00 37.60 3.66
2154 2879 2.104622 TCTCCATGTCACAACTTCTGCA 59.895 45.455 0.00 0.00 0.00 4.41
2155 2880 2.221169 TCCATGTCACAACTTCTGCAC 58.779 47.619 0.00 0.00 0.00 4.57
2157 2882 2.555325 CCATGTCACAACTTCTGCACAT 59.445 45.455 0.00 0.00 33.86 3.21
2158 2883 3.561503 CATGTCACAACTTCTGCACATG 58.438 45.455 0.00 0.00 40.56 3.21
2171 3259 3.687698 TCTGCACATGACATTCAGATGTG 59.312 43.478 0.00 0.00 46.27 3.21
2172 3260 2.750712 TGCACATGACATTCAGATGTGG 59.249 45.455 12.04 0.00 46.27 4.17
2173 3261 3.011818 GCACATGACATTCAGATGTGGA 58.988 45.455 12.04 0.00 46.27 4.02
2174 3262 3.441222 GCACATGACATTCAGATGTGGAA 59.559 43.478 12.04 0.00 46.27 3.53
2175 3263 4.082625 GCACATGACATTCAGATGTGGAAA 60.083 41.667 12.04 0.00 46.27 3.13
2176 3264 5.393787 GCACATGACATTCAGATGTGGAAAT 60.394 40.000 12.04 0.00 46.27 2.17
2177 3265 6.033966 CACATGACATTCAGATGTGGAAATG 58.966 40.000 0.00 3.53 46.27 2.32
2181 3269 5.953548 TGACATTCAGATGTGGAAATGGAAT 59.046 36.000 8.54 0.00 46.27 3.01
2281 3586 7.787028 AGATAGTTGATGTTCTTCCTAGTTCC 58.213 38.462 0.00 0.00 0.00 3.62
2282 3587 7.621683 AGATAGTTGATGTTCTTCCTAGTTCCT 59.378 37.037 0.00 0.00 0.00 3.36
2283 3588 8.840200 ATAGTTGATGTTCTTCCTAGTTCCTA 57.160 34.615 0.00 0.00 0.00 2.94
2284 3589 6.937392 AGTTGATGTTCTTCCTAGTTCCTAC 58.063 40.000 0.00 0.00 0.00 3.18
2305 3610 6.155393 CCTACTTCCTACTGATCTTCTTTGGT 59.845 42.308 0.00 0.00 0.00 3.67
2321 3626 5.559770 TCTTTGGTGAGAAATGCACAGATA 58.440 37.500 0.00 0.00 37.99 1.98
2445 3781 3.774734 AGGTTTTGTTAGGATTGGGACC 58.225 45.455 0.00 0.00 0.00 4.46
2573 4037 8.993121 TCCTTTTATCGATTCAGATAATTCAGC 58.007 33.333 1.71 0.00 41.19 4.26
2614 4236 8.212259 AGATAGTACTAATCTGAAATGCCCAT 57.788 34.615 6.70 0.00 0.00 4.00
2839 4470 4.662468 TTCTGCTGATCCAGTCTATCAC 57.338 45.455 0.00 0.00 33.43 3.06
2940 4573 3.032609 GCCTCGGATGCGATGACG 61.033 66.667 15.61 1.35 42.93 4.35
2969 4602 1.940613 GGACGCCTACTTTTGCCTATG 59.059 52.381 0.00 0.00 0.00 2.23
2972 4605 1.134220 CGCCTACTTTTGCCTATGGGA 60.134 52.381 0.00 0.00 33.58 4.37
3036 4684 5.183140 TGCTAGTTAAATTTGCTCTGTTCCC 59.817 40.000 0.00 0.00 0.00 3.97
3052 4727 2.673523 CCCTGACAGGCCTCCAAG 59.326 66.667 16.72 0.00 32.73 3.61
3089 4764 7.833285 TTGTAGTGATGCTGGTCATACTATA 57.167 36.000 0.00 0.00 35.05 1.31
3092 4767 6.985653 AGTGATGCTGGTCATACTATAGTT 57.014 37.500 11.40 0.00 35.05 2.24
3104 4782 3.961480 ACTATAGTTGCTGCAGTGTCA 57.039 42.857 16.64 1.46 0.00 3.58
3122 4800 4.488879 TGTCACTCTTCTGACATTCATCG 58.511 43.478 0.00 0.00 44.54 3.84
3144 4846 3.485633 CTGTGATGCGATTTTCACTGTG 58.514 45.455 0.17 0.17 42.17 3.66
3145 4847 2.877786 TGTGATGCGATTTTCACTGTGT 59.122 40.909 7.79 0.00 42.17 3.72
3166 4877 4.009675 GTGGTTCCTGCAATGAGTTGATA 58.990 43.478 0.00 0.00 37.53 2.15
3229 4990 5.841810 TGGAAAATGTAGAGGTTTTTGCAG 58.158 37.500 0.00 0.00 36.28 4.41
3252 5025 1.442526 GCTGATGGTCCTGCATTCCG 61.443 60.000 0.00 0.00 0.00 4.30
3303 5120 0.963962 AACGCGGTCTGTTCTTCCTA 59.036 50.000 12.47 0.00 0.00 2.94
3312 5129 5.563867 CGGTCTGTTCTTCCTATGAGCTATC 60.564 48.000 0.00 0.00 0.00 2.08
3320 5137 2.493675 TCCTATGAGCTATCGATGGTGC 59.506 50.000 8.54 9.77 0.00 5.01
3346 5171 4.568152 AGTTATGCTGTTTTGTGTGTCC 57.432 40.909 0.00 0.00 0.00 4.02
3422 5259 3.386078 CCAGGAGCTCTACATGAAAGCTA 59.614 47.826 14.64 0.00 46.01 3.32
3423 5260 4.367450 CAGGAGCTCTACATGAAAGCTAC 58.633 47.826 14.64 17.63 46.01 3.58
3425 5262 4.616953 GGAGCTCTACATGAAAGCTACTC 58.383 47.826 14.64 12.26 46.01 2.59
3426 5263 4.500716 GGAGCTCTACATGAAAGCTACTCC 60.501 50.000 14.64 15.65 46.01 3.85
3455 5296 6.659745 ATACTGTACACACTACACCTTCAA 57.340 37.500 0.00 0.00 0.00 2.69
3474 5315 3.253188 TCAAGTTTTGTACATCAGCTGCC 59.747 43.478 9.47 0.00 0.00 4.85
3535 5919 6.353323 TGTTGAGAATTCAGAACAACACCTA 58.647 36.000 23.16 10.88 43.31 3.08
3562 5946 0.882042 AGCAGCTCGTGTGTTTCAGG 60.882 55.000 0.00 0.00 0.00 3.86
3601 6188 1.199327 GCCCTTGCGGTTCTAAACTTC 59.801 52.381 0.00 0.00 0.00 3.01
3605 6192 3.813166 CCTTGCGGTTCTAAACTTCAGAA 59.187 43.478 0.00 0.00 0.00 3.02
3622 6266 0.947244 GAACCTGTGTGAACAGCTGG 59.053 55.000 19.93 0.00 36.46 4.85
3623 6267 0.466189 AACCTGTGTGAACAGCTGGG 60.466 55.000 19.93 9.25 36.46 4.45
3625 6269 0.466189 CCTGTGTGAACAGCTGGGTT 60.466 55.000 19.93 3.59 36.46 4.11
3659 6304 8.773033 ATGAAGCATCTTTTAATATCAACCCT 57.227 30.769 0.00 0.00 0.00 4.34
3732 6377 3.491447 GCTGTCATTTGGTTGTTCTTGCT 60.491 43.478 0.00 0.00 0.00 3.91
3733 6378 4.044336 TGTCATTTGGTTGTTCTTGCTG 57.956 40.909 0.00 0.00 0.00 4.41
3734 6379 2.796593 GTCATTTGGTTGTTCTTGCTGC 59.203 45.455 0.00 0.00 0.00 5.25
3735 6380 1.788308 CATTTGGTTGTTCTTGCTGCG 59.212 47.619 0.00 0.00 0.00 5.18
3736 6381 0.814457 TTTGGTTGTTCTTGCTGCGT 59.186 45.000 0.00 0.00 0.00 5.24
3751 6396 2.544267 GCTGCGTTGTGTTCTCTTTAGT 59.456 45.455 0.00 0.00 0.00 2.24
3766 6411 7.813852 TCTCTTTAGTAATTCACTCTTTCGC 57.186 36.000 0.00 0.00 38.80 4.70
3767 6412 6.527023 TCTCTTTAGTAATTCACTCTTTCGCG 59.473 38.462 0.00 0.00 38.80 5.87
3776 6421 0.888619 ACTCTTTCGCGTGAGATCCA 59.111 50.000 24.35 0.00 34.65 3.41
3783 6428 0.308068 CGCGTGAGATCCATCGTACT 59.692 55.000 0.00 0.00 0.00 2.73
3784 6429 1.268589 CGCGTGAGATCCATCGTACTT 60.269 52.381 0.00 0.00 0.00 2.24
3785 6430 2.386249 GCGTGAGATCCATCGTACTTC 58.614 52.381 0.00 0.00 0.00 3.01
3786 6431 2.859032 GCGTGAGATCCATCGTACTTCC 60.859 54.545 0.00 0.00 0.00 3.46
3787 6432 2.619177 CGTGAGATCCATCGTACTTCCT 59.381 50.000 0.00 0.00 0.00 3.36
3788 6433 3.304123 CGTGAGATCCATCGTACTTCCTC 60.304 52.174 0.00 0.00 0.00 3.71
3789 6434 3.886505 GTGAGATCCATCGTACTTCCTCT 59.113 47.826 0.00 0.00 0.00 3.69
3790 6435 3.885901 TGAGATCCATCGTACTTCCTCTG 59.114 47.826 0.00 0.00 0.00 3.35
3791 6436 3.886505 GAGATCCATCGTACTTCCTCTGT 59.113 47.826 0.00 0.00 0.00 3.41
3792 6437 3.886505 AGATCCATCGTACTTCCTCTGTC 59.113 47.826 0.00 0.00 0.00 3.51
3793 6438 2.376109 TCCATCGTACTTCCTCTGTCC 58.624 52.381 0.00 0.00 0.00 4.02
3794 6439 1.409427 CCATCGTACTTCCTCTGTCCC 59.591 57.143 0.00 0.00 0.00 4.46
3795 6440 2.100197 CATCGTACTTCCTCTGTCCCA 58.900 52.381 0.00 0.00 0.00 4.37
3796 6441 2.297698 TCGTACTTCCTCTGTCCCAA 57.702 50.000 0.00 0.00 0.00 4.12
3797 6442 2.600790 TCGTACTTCCTCTGTCCCAAA 58.399 47.619 0.00 0.00 0.00 3.28
3798 6443 2.967201 TCGTACTTCCTCTGTCCCAAAA 59.033 45.455 0.00 0.00 0.00 2.44
3799 6444 3.581332 TCGTACTTCCTCTGTCCCAAAAT 59.419 43.478 0.00 0.00 0.00 1.82
3800 6445 4.773674 TCGTACTTCCTCTGTCCCAAAATA 59.226 41.667 0.00 0.00 0.00 1.40
3801 6446 5.424252 TCGTACTTCCTCTGTCCCAAAATAT 59.576 40.000 0.00 0.00 0.00 1.28
3802 6447 6.608405 TCGTACTTCCTCTGTCCCAAAATATA 59.392 38.462 0.00 0.00 0.00 0.86
3803 6448 7.124599 TCGTACTTCCTCTGTCCCAAAATATAA 59.875 37.037 0.00 0.00 0.00 0.98
3804 6449 7.438459 CGTACTTCCTCTGTCCCAAAATATAAG 59.562 40.741 0.00 0.00 0.00 1.73
3805 6450 7.510675 ACTTCCTCTGTCCCAAAATATAAGA 57.489 36.000 0.00 0.00 0.00 2.10
3806 6451 7.928873 ACTTCCTCTGTCCCAAAATATAAGAA 58.071 34.615 0.00 0.00 0.00 2.52
3807 6452 7.829706 ACTTCCTCTGTCCCAAAATATAAGAAC 59.170 37.037 0.00 0.00 0.00 3.01
3808 6453 6.346096 TCCTCTGTCCCAAAATATAAGAACG 58.654 40.000 0.00 0.00 0.00 3.95
3809 6454 6.070424 TCCTCTGTCCCAAAATATAAGAACGT 60.070 38.462 0.00 0.00 0.00 3.99
3810 6455 6.598064 CCTCTGTCCCAAAATATAAGAACGTT 59.402 38.462 0.00 0.00 0.00 3.99
3811 6456 7.120726 CCTCTGTCCCAAAATATAAGAACGTTT 59.879 37.037 0.46 0.00 0.00 3.60
3812 6457 8.398878 TCTGTCCCAAAATATAAGAACGTTTT 57.601 30.769 0.46 0.00 0.00 2.43
3813 6458 8.852135 TCTGTCCCAAAATATAAGAACGTTTTT 58.148 29.630 9.22 9.22 0.00 1.94
3814 6459 8.804688 TGTCCCAAAATATAAGAACGTTTTTG 57.195 30.769 13.87 12.16 37.14 2.44
3815 6460 8.630917 TGTCCCAAAATATAAGAACGTTTTTGA 58.369 29.630 13.87 2.81 38.79 2.69
3816 6461 8.908678 GTCCCAAAATATAAGAACGTTTTTGAC 58.091 33.333 13.87 5.89 38.79 3.18
3817 6462 8.630917 TCCCAAAATATAAGAACGTTTTTGACA 58.369 29.630 13.87 0.01 38.79 3.58
3818 6463 8.696175 CCCAAAATATAAGAACGTTTTTGACAC 58.304 33.333 13.87 0.00 38.79 3.67
3819 6464 9.458374 CCAAAATATAAGAACGTTTTTGACACT 57.542 29.630 13.87 0.00 38.79 3.55
3825 6470 8.876275 ATAAGAACGTTTTTGACACTAGTGTA 57.124 30.769 27.98 11.50 45.05 2.90
3826 6471 6.823678 AGAACGTTTTTGACACTAGTGTAG 57.176 37.500 27.98 14.79 45.05 2.74
3827 6472 6.335777 AGAACGTTTTTGACACTAGTGTAGT 58.664 36.000 27.98 15.35 45.05 2.73
3828 6473 6.815142 AGAACGTTTTTGACACTAGTGTAGTT 59.185 34.615 27.98 21.29 45.05 2.24
3829 6474 6.973229 ACGTTTTTGACACTAGTGTAGTTT 57.027 33.333 27.98 5.50 45.05 2.66
3830 6475 6.997222 ACGTTTTTGACACTAGTGTAGTTTC 58.003 36.000 27.98 15.61 45.05 2.78
3831 6476 6.591062 ACGTTTTTGACACTAGTGTAGTTTCA 59.409 34.615 27.98 17.99 45.05 2.69
3832 6477 7.117454 CGTTTTTGACACTAGTGTAGTTTCAG 58.883 38.462 27.98 13.85 43.80 3.02
3833 6478 7.009815 CGTTTTTGACACTAGTGTAGTTTCAGA 59.990 37.037 27.98 13.63 43.80 3.27
3834 6479 8.662141 GTTTTTGACACTAGTGTAGTTTCAGAA 58.338 33.333 27.98 18.22 43.80 3.02
3835 6480 8.780846 TTTTGACACTAGTGTAGTTTCAGAAA 57.219 30.769 27.98 17.92 43.80 2.52
3836 6481 7.766219 TTGACACTAGTGTAGTTTCAGAAAC 57.234 36.000 27.98 17.11 43.80 2.78
3837 6482 5.975344 TGACACTAGTGTAGTTTCAGAAACG 59.025 40.000 27.98 6.80 45.05 3.60
3838 6483 5.899299 ACACTAGTGTAGTTTCAGAAACGT 58.101 37.500 26.91 10.67 42.90 3.99
3839 6484 6.335777 ACACTAGTGTAGTTTCAGAAACGTT 58.664 36.000 26.91 6.69 42.90 3.99
3840 6485 6.474751 ACACTAGTGTAGTTTCAGAAACGTTC 59.525 38.462 26.91 13.39 42.90 3.95
3841 6486 6.696148 CACTAGTGTAGTTTCAGAAACGTTCT 59.304 38.462 18.43 16.42 45.88 3.01
3842 6487 7.222224 CACTAGTGTAGTTTCAGAAACGTTCTT 59.778 37.037 18.43 9.59 45.88 2.52
3843 6488 8.408601 ACTAGTGTAGTTTCAGAAACGTTCTTA 58.591 33.333 18.43 10.11 45.88 2.10
3844 6489 9.408069 CTAGTGTAGTTTCAGAAACGTTCTTAT 57.592 33.333 18.43 4.06 45.88 1.73
3846 6491 9.924650 AGTGTAGTTTCAGAAACGTTCTTATAT 57.075 29.630 18.43 2.76 45.88 0.86
3852 6497 9.931210 GTTTCAGAAACGTTCTTATATTATGGG 57.069 33.333 10.30 0.00 38.11 4.00
3853 6498 9.893634 TTTCAGAAACGTTCTTATATTATGGGA 57.106 29.630 0.00 0.00 38.11 4.37
3859 6504 8.848474 AACGTTCTTATATTATGGGATTGAGG 57.152 34.615 0.00 0.00 0.00 3.86
3860 6505 7.394816 ACGTTCTTATATTATGGGATTGAGGG 58.605 38.462 0.00 0.00 0.00 4.30
3861 6506 7.236847 ACGTTCTTATATTATGGGATTGAGGGA 59.763 37.037 0.00 0.00 0.00 4.20
3862 6507 7.766278 CGTTCTTATATTATGGGATTGAGGGAG 59.234 40.741 0.00 0.00 0.00 4.30
3863 6508 8.606830 GTTCTTATATTATGGGATTGAGGGAGT 58.393 37.037 0.00 0.00 0.00 3.85
3864 6509 9.852784 TTCTTATATTATGGGATTGAGGGAGTA 57.147 33.333 0.00 0.00 0.00 2.59
3880 6525 4.102681 AGGGAGTATTTGATAGGGGTTTCG 59.897 45.833 0.00 0.00 0.00 3.46
3897 6542 4.405196 GTTTCGTGAAAAAGAAACGGTCA 58.595 39.130 5.49 0.00 44.15 4.02
3906 6551 6.702282 TGAAAAAGAAACGGTCACAAGTTTTT 59.298 30.769 2.70 0.00 40.24 1.94
3943 6588 4.155644 CCAAACTGAATTTGCTCCTCTCTC 59.844 45.833 0.00 0.00 45.53 3.20
3944 6589 4.906747 AACTGAATTTGCTCCTCTCTCT 57.093 40.909 0.00 0.00 0.00 3.10
3945 6590 4.906747 ACTGAATTTGCTCCTCTCTCTT 57.093 40.909 0.00 0.00 0.00 2.85
3946 6591 6.365970 AACTGAATTTGCTCCTCTCTCTTA 57.634 37.500 0.00 0.00 0.00 2.10
3947 6592 5.729510 ACTGAATTTGCTCCTCTCTCTTAC 58.270 41.667 0.00 0.00 0.00 2.34
3948 6593 5.483583 ACTGAATTTGCTCCTCTCTCTTACT 59.516 40.000 0.00 0.00 0.00 2.24
3949 6594 6.665680 ACTGAATTTGCTCCTCTCTCTTACTA 59.334 38.462 0.00 0.00 0.00 1.82
3962 6607 8.219178 CCTCTCTCTTACTACTACTATTGGGAA 58.781 40.741 0.00 0.00 0.00 3.97
3972 6617 5.516044 ACTACTATTGGGAAATTTGACCCC 58.484 41.667 11.48 9.05 45.01 4.95
3977 6622 1.505538 TGGGAAATTTGACCCCCTCAA 59.494 47.619 11.48 0.00 45.01 3.02
3987 6632 2.919602 TGACCCCCTCAAGCTTAAGAAT 59.080 45.455 6.67 0.00 0.00 2.40
3988 6633 3.282885 GACCCCCTCAAGCTTAAGAATG 58.717 50.000 6.67 4.13 0.00 2.67
3989 6634 2.649816 ACCCCCTCAAGCTTAAGAATGT 59.350 45.455 6.67 0.00 0.00 2.71
3990 6635 3.282885 CCCCCTCAAGCTTAAGAATGTC 58.717 50.000 6.67 0.00 0.00 3.06
3991 6636 3.054065 CCCCCTCAAGCTTAAGAATGTCT 60.054 47.826 6.67 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
151 153 1.221466 CTCCAGTTGTTTCTGCGCGA 61.221 55.000 12.10 0.00 34.47 5.87
166 168 4.907269 TGTTATATTCTCTCATGCCCTCCA 59.093 41.667 0.00 0.00 0.00 3.86
171 173 8.158169 TCAACAATGTTATATTCTCTCATGCC 57.842 34.615 0.00 0.00 0.00 4.40
185 187 6.691754 TTCTGCAGAGTTTCAACAATGTTA 57.308 33.333 17.43 0.00 0.00 2.41
793 1427 1.602191 CGCCAGTTAACGTGCATTTC 58.398 50.000 18.33 0.00 0.00 2.17
843 1477 1.153429 GTACCGCTTGCTACCCTGG 60.153 63.158 0.00 0.00 0.00 4.45
844 1478 1.153429 GGTACCGCTTGCTACCCTG 60.153 63.158 0.00 0.00 0.00 4.45
846 1480 1.449070 GTGGTACCGCTTGCTACCC 60.449 63.158 18.49 0.00 32.68 3.69
863 1497 4.626081 GCGCCAGTCACCACCAGT 62.626 66.667 0.00 0.00 0.00 4.00
894 1528 2.915137 GCTGTTTTCCCGGCCCAA 60.915 61.111 0.00 0.00 0.00 4.12
1025 1679 3.069443 GGATGAAAGGTTCTTGGTTTGCA 59.931 43.478 0.00 0.00 0.00 4.08
1041 1695 3.407967 GAGGGCGGTGGGGATGAA 61.408 66.667 0.00 0.00 0.00 2.57
1358 2057 3.125573 TCGTAGTCGCGCTGCTCT 61.126 61.111 5.56 0.64 36.96 4.09
1644 2355 1.247419 TGCGACCGGGAATTGCAATT 61.247 50.000 24.33 24.33 33.40 2.32
1664 2375 4.717877 TGAGGAGATCAAAGAAGCACAAA 58.282 39.130 0.00 0.00 34.02 2.83
1815 2527 0.320421 CTGGGAAAAGCCGTTCTCGA 60.320 55.000 0.00 0.00 39.71 4.04
1972 2696 2.756283 AGGTCCGCCTCTCCGAAG 60.756 66.667 0.00 0.00 42.67 3.79
2140 2865 2.613595 TGTCATGTGCAGAAGTTGTGAC 59.386 45.455 3.80 7.41 36.09 3.67
2154 2879 5.126545 CCATTTCCACATCTGAATGTCATGT 59.873 40.000 0.00 0.00 44.41 3.21
2155 2880 5.358725 TCCATTTCCACATCTGAATGTCATG 59.641 40.000 0.00 0.00 44.41 3.07
2157 2882 4.920999 TCCATTTCCACATCTGAATGTCA 58.079 39.130 0.00 0.00 44.41 3.58
2158 2883 5.902613 TTCCATTTCCACATCTGAATGTC 57.097 39.130 0.00 0.00 44.41 3.06
2171 3259 4.917415 CAGAAACGAACACATTCCATTTCC 59.083 41.667 0.00 0.00 37.25 3.13
2172 3260 4.382754 GCAGAAACGAACACATTCCATTTC 59.617 41.667 0.00 0.00 37.03 2.17
2173 3261 4.202101 TGCAGAAACGAACACATTCCATTT 60.202 37.500 0.00 0.00 0.00 2.32
2174 3262 3.317711 TGCAGAAACGAACACATTCCATT 59.682 39.130 0.00 0.00 0.00 3.16
2175 3263 2.884012 TGCAGAAACGAACACATTCCAT 59.116 40.909 0.00 0.00 0.00 3.41
2176 3264 2.032799 GTGCAGAAACGAACACATTCCA 59.967 45.455 0.00 0.00 33.23 3.53
2177 3265 2.032799 TGTGCAGAAACGAACACATTCC 59.967 45.455 0.00 0.00 38.07 3.01
2181 3269 2.284190 TCATGTGCAGAAACGAACACA 58.716 42.857 0.00 0.00 46.16 3.72
2269 3574 6.217074 TCAGTAGGAAGTAGGAACTAGGAAGA 59.783 42.308 0.00 0.00 44.14 2.87
2278 3583 7.093289 CCAAAGAAGATCAGTAGGAAGTAGGAA 60.093 40.741 0.00 0.00 0.00 3.36
2279 3584 6.381420 CCAAAGAAGATCAGTAGGAAGTAGGA 59.619 42.308 0.00 0.00 0.00 2.94
2280 3585 6.155393 ACCAAAGAAGATCAGTAGGAAGTAGG 59.845 42.308 0.00 0.00 0.00 3.18
2281 3586 7.038659 CACCAAAGAAGATCAGTAGGAAGTAG 58.961 42.308 0.00 0.00 0.00 2.57
2282 3587 6.724441 TCACCAAAGAAGATCAGTAGGAAGTA 59.276 38.462 0.00 0.00 0.00 2.24
2283 3588 5.544176 TCACCAAAGAAGATCAGTAGGAAGT 59.456 40.000 0.00 0.00 0.00 3.01
2284 3589 6.042638 TCACCAAAGAAGATCAGTAGGAAG 57.957 41.667 0.00 0.00 0.00 3.46
2305 3610 5.255687 ACACCAATATCTGTGCATTTCTCA 58.744 37.500 0.00 0.00 35.90 3.27
2445 3781 9.388506 ACTATATCCATTCAAAGTTTCAGACAG 57.611 33.333 0.00 0.00 0.00 3.51
2554 3972 5.862845 ACCAGCTGAATTATCTGAATCGAT 58.137 37.500 17.39 0.00 0.00 3.59
2573 4037 7.607250 AGTACTATCTTCAAAGTTCAGACCAG 58.393 38.462 0.00 0.00 0.00 4.00
2601 4223 2.905415 ACTTGGATGGGCATTTCAGA 57.095 45.000 0.00 0.00 0.00 3.27
2614 4236 4.286808 TGGAATGAGATGACTGAACTTGGA 59.713 41.667 0.00 0.00 0.00 3.53
2662 4287 6.006449 AGCTGAATTTTGTTCACTGGATAGT 58.994 36.000 0.00 0.00 37.75 2.12
2854 4485 0.919873 CTCTACGTGCGTCGACATCG 60.920 60.000 17.16 17.54 42.86 3.84
2969 4602 5.758784 CCGAGTTTTCTCAACCTATATTCCC 59.241 44.000 0.00 0.00 46.47 3.97
2972 4605 5.741011 TGCCGAGTTTTCTCAACCTATATT 58.259 37.500 0.00 0.00 46.47 1.28
3036 4684 2.673523 CCTTGGAGGCCTGTCAGG 59.326 66.667 12.00 15.15 38.80 3.86
3052 4727 4.846779 TCACTACAAAATTGTTCAGCCC 57.153 40.909 3.85 0.00 42.35 5.19
3089 4764 0.467384 AGAGTGACACTGCAGCAACT 59.533 50.000 14.14 12.09 0.00 3.16
3092 4767 0.755079 AGAAGAGTGACACTGCAGCA 59.245 50.000 14.14 0.06 0.00 4.41
3104 4782 3.056250 ACAGCGATGAATGTCAGAAGAGT 60.056 43.478 8.12 0.00 0.00 3.24
3122 4800 2.095567 ACAGTGAAAATCGCATCACAGC 60.096 45.455 0.00 0.00 46.55 4.40
3131 4809 2.878406 AGGAACCACACAGTGAAAATCG 59.122 45.455 7.81 0.00 35.23 3.34
3144 4846 2.229792 TCAACTCATTGCAGGAACCAC 58.770 47.619 0.00 0.00 35.63 4.16
3145 4847 2.655090 TCAACTCATTGCAGGAACCA 57.345 45.000 0.00 0.00 35.63 3.67
3166 4877 7.330208 GCATGATCTACAAAAAGTTGCAGAATT 59.670 33.333 0.00 0.00 39.93 2.17
3229 4990 2.894387 GCAGGACCATCAGCTCGC 60.894 66.667 0.00 0.00 0.00 5.03
3252 5025 4.201685 ACACGCGAAATGCATAGTCTAAAC 60.202 41.667 15.93 0.00 46.97 2.01
3303 5120 3.482156 AAAGCACCATCGATAGCTCAT 57.518 42.857 16.44 8.57 36.07 2.90
3312 5129 4.094887 ACAGCATAACTAAAAGCACCATCG 59.905 41.667 0.00 0.00 0.00 3.84
3320 5137 7.167468 GGACACACAAAACAGCATAACTAAAAG 59.833 37.037 0.00 0.00 0.00 2.27
3444 5281 7.490962 TGATGTACAAAACTTGAAGGTGTAG 57.509 36.000 0.00 0.00 0.00 2.74
3455 5296 3.077359 GAGGCAGCTGATGTACAAAACT 58.923 45.455 20.43 0.00 0.00 2.66
3474 5315 9.586435 AAAACAAGACATTAAAAGACAAAGGAG 57.414 29.630 0.00 0.00 0.00 3.69
3535 5919 0.751643 ACACGAGCTGCTGGGTTTTT 60.752 50.000 16.10 0.00 0.00 1.94
3657 6302 1.004044 AGCAAGAACCACCAGATCAGG 59.996 52.381 1.93 1.93 0.00 3.86
3659 6304 1.421268 ACAGCAAGAACCACCAGATCA 59.579 47.619 0.00 0.00 0.00 2.92
3732 6377 6.480651 TGAATTACTAAAGAGAACACAACGCA 59.519 34.615 0.00 0.00 0.00 5.24
3733 6378 6.790825 GTGAATTACTAAAGAGAACACAACGC 59.209 38.462 0.00 0.00 0.00 4.84
3734 6379 8.073355 AGTGAATTACTAAAGAGAACACAACG 57.927 34.615 0.00 0.00 38.04 4.10
3735 6380 9.262358 AGAGTGAATTACTAAAGAGAACACAAC 57.738 33.333 0.00 0.00 40.53 3.32
3736 6381 9.832445 AAGAGTGAATTACTAAAGAGAACACAA 57.168 29.630 0.00 0.00 40.53 3.33
3766 6411 2.619177 AGGAAGTACGATGGATCTCACG 59.381 50.000 0.00 0.00 0.00 4.35
3767 6412 3.886505 AGAGGAAGTACGATGGATCTCAC 59.113 47.826 0.00 0.00 0.00 3.51
3776 6421 2.526888 TGGGACAGAGGAAGTACGAT 57.473 50.000 0.00 0.00 0.00 3.73
3783 6428 6.821665 CGTTCTTATATTTTGGGACAGAGGAA 59.178 38.462 0.00 0.00 42.39 3.36
3784 6429 6.070424 ACGTTCTTATATTTTGGGACAGAGGA 60.070 38.462 0.00 0.00 42.39 3.71
3785 6430 6.113411 ACGTTCTTATATTTTGGGACAGAGG 58.887 40.000 0.00 0.00 42.39 3.69
3786 6431 7.611213 AACGTTCTTATATTTTGGGACAGAG 57.389 36.000 0.00 0.00 42.39 3.35
3787 6432 7.989416 AAACGTTCTTATATTTTGGGACAGA 57.011 32.000 0.00 0.00 42.39 3.41
3788 6433 8.911662 CAAAAACGTTCTTATATTTTGGGACAG 58.088 33.333 0.00 0.00 42.39 3.51
3789 6434 8.630917 TCAAAAACGTTCTTATATTTTGGGACA 58.369 29.630 15.53 0.00 39.94 4.02
3790 6435 8.908678 GTCAAAAACGTTCTTATATTTTGGGAC 58.091 33.333 15.53 7.20 39.94 4.46
3791 6436 8.630917 TGTCAAAAACGTTCTTATATTTTGGGA 58.369 29.630 15.53 4.35 39.94 4.37
3792 6437 8.696175 GTGTCAAAAACGTTCTTATATTTTGGG 58.304 33.333 15.53 0.00 39.94 4.12
3793 6438 9.458374 AGTGTCAAAAACGTTCTTATATTTTGG 57.542 29.630 15.53 0.00 39.94 3.28
3798 6443 9.485206 ACACTAGTGTCAAAAACGTTCTTATAT 57.515 29.630 22.95 0.00 40.24 0.86
3799 6444 8.876275 ACACTAGTGTCAAAAACGTTCTTATA 57.124 30.769 22.95 0.00 40.24 0.98
3800 6445 7.781548 ACACTAGTGTCAAAAACGTTCTTAT 57.218 32.000 22.95 0.00 40.24 1.73
3801 6446 7.975616 ACTACACTAGTGTCAAAAACGTTCTTA 59.024 33.333 31.11 8.36 43.74 2.10
3802 6447 6.815142 ACTACACTAGTGTCAAAAACGTTCTT 59.185 34.615 31.11 4.99 43.74 2.52
3803 6448 6.335777 ACTACACTAGTGTCAAAAACGTTCT 58.664 36.000 31.11 5.44 43.74 3.01
3804 6449 6.579491 ACTACACTAGTGTCAAAAACGTTC 57.421 37.500 31.11 0.00 43.74 3.95
3805 6450 6.973229 AACTACACTAGTGTCAAAAACGTT 57.027 33.333 31.11 18.57 43.74 3.99
3806 6451 6.973229 AAACTACACTAGTGTCAAAAACGT 57.027 33.333 31.11 14.47 43.74 3.99
3814 6459 5.975939 ACGTTTCTGAAACTACACTAGTGTC 59.024 40.000 31.11 17.07 42.26 3.67
3815 6460 5.899299 ACGTTTCTGAAACTACACTAGTGT 58.101 37.500 30.13 30.13 39.39 3.55
3816 6461 6.696148 AGAACGTTTCTGAAACTACACTAGTG 59.304 38.462 25.64 21.44 37.61 2.74
3817 6462 6.803642 AGAACGTTTCTGAAACTACACTAGT 58.196 36.000 25.64 14.29 38.91 2.57
3818 6463 7.695869 AAGAACGTTTCTGAAACTACACTAG 57.304 36.000 25.64 13.76 40.59 2.57
3820 6465 9.924650 ATATAAGAACGTTTCTGAAACTACACT 57.075 29.630 25.64 17.37 40.59 3.55
3826 6471 9.931210 CCCATAATATAAGAACGTTTCTGAAAC 57.069 33.333 20.54 20.54 40.59 2.78
3827 6472 9.893634 TCCCATAATATAAGAACGTTTCTGAAA 57.106 29.630 0.46 0.00 40.59 2.69
3833 6478 9.284968 CCTCAATCCCATAATATAAGAACGTTT 57.715 33.333 0.46 0.00 0.00 3.60
3834 6479 7.883311 CCCTCAATCCCATAATATAAGAACGTT 59.117 37.037 0.00 0.00 0.00 3.99
3835 6480 7.236847 TCCCTCAATCCCATAATATAAGAACGT 59.763 37.037 0.00 0.00 0.00 3.99
3836 6481 7.620880 TCCCTCAATCCCATAATATAAGAACG 58.379 38.462 0.00 0.00 0.00 3.95
3837 6482 8.606830 ACTCCCTCAATCCCATAATATAAGAAC 58.393 37.037 0.00 0.00 0.00 3.01
3838 6483 8.757307 ACTCCCTCAATCCCATAATATAAGAA 57.243 34.615 0.00 0.00 0.00 2.52
3843 6488 9.127560 TCAAATACTCCCTCAATCCCATAATAT 57.872 33.333 0.00 0.00 0.00 1.28
3844 6489 8.518720 TCAAATACTCCCTCAATCCCATAATA 57.481 34.615 0.00 0.00 0.00 0.98
3845 6490 7.406620 TCAAATACTCCCTCAATCCCATAAT 57.593 36.000 0.00 0.00 0.00 1.28
3846 6491 6.840090 TCAAATACTCCCTCAATCCCATAA 57.160 37.500 0.00 0.00 0.00 1.90
3847 6492 7.182749 CCTATCAAATACTCCCTCAATCCCATA 59.817 40.741 0.00 0.00 0.00 2.74
3848 6493 5.937492 ATCAAATACTCCCTCAATCCCAT 57.063 39.130 0.00 0.00 0.00 4.00
3849 6494 5.310594 CCTATCAAATACTCCCTCAATCCCA 59.689 44.000 0.00 0.00 0.00 4.37
3850 6495 5.280727 CCCTATCAAATACTCCCTCAATCCC 60.281 48.000 0.00 0.00 0.00 3.85
3851 6496 5.280727 CCCCTATCAAATACTCCCTCAATCC 60.281 48.000 0.00 0.00 0.00 3.01
3852 6497 5.310857 ACCCCTATCAAATACTCCCTCAATC 59.689 44.000 0.00 0.00 0.00 2.67
3853 6498 5.235534 ACCCCTATCAAATACTCCCTCAAT 58.764 41.667 0.00 0.00 0.00 2.57
3854 6499 4.641868 ACCCCTATCAAATACTCCCTCAA 58.358 43.478 0.00 0.00 0.00 3.02
3855 6500 4.295905 ACCCCTATCAAATACTCCCTCA 57.704 45.455 0.00 0.00 0.00 3.86
3856 6501 5.622180 GAAACCCCTATCAAATACTCCCTC 58.378 45.833 0.00 0.00 0.00 4.30
3857 6502 4.102681 CGAAACCCCTATCAAATACTCCCT 59.897 45.833 0.00 0.00 0.00 4.20
3858 6503 4.141551 ACGAAACCCCTATCAAATACTCCC 60.142 45.833 0.00 0.00 0.00 4.30
3859 6504 4.814771 CACGAAACCCCTATCAAATACTCC 59.185 45.833 0.00 0.00 0.00 3.85
3860 6505 5.667466 TCACGAAACCCCTATCAAATACTC 58.333 41.667 0.00 0.00 0.00 2.59
3861 6506 5.687166 TCACGAAACCCCTATCAAATACT 57.313 39.130 0.00 0.00 0.00 2.12
3862 6507 6.746745 TTTCACGAAACCCCTATCAAATAC 57.253 37.500 0.00 0.00 0.00 1.89
3863 6508 7.666388 TCTTTTTCACGAAACCCCTATCAAATA 59.334 33.333 0.00 0.00 0.00 1.40
3864 6509 6.492087 TCTTTTTCACGAAACCCCTATCAAAT 59.508 34.615 0.00 0.00 0.00 2.32
3865 6510 5.828859 TCTTTTTCACGAAACCCCTATCAAA 59.171 36.000 0.00 0.00 0.00 2.69
3880 6525 4.729595 ACTTGTGACCGTTTCTTTTTCAC 58.270 39.130 0.00 0.00 37.65 3.18
3944 6589 9.895138 GGTCAAATTTCCCAATAGTAGTAGTAA 57.105 33.333 0.00 0.00 0.00 2.24
3945 6590 8.488668 GGGTCAAATTTCCCAATAGTAGTAGTA 58.511 37.037 9.58 0.00 42.95 1.82
3946 6591 7.344134 GGGTCAAATTTCCCAATAGTAGTAGT 58.656 38.462 9.58 0.00 42.95 2.73
3947 6592 6.771267 GGGGTCAAATTTCCCAATAGTAGTAG 59.229 42.308 15.07 0.00 45.06 2.57
3948 6593 6.354126 GGGGGTCAAATTTCCCAATAGTAGTA 60.354 42.308 15.07 0.00 45.06 1.82
3949 6594 5.516044 GGGGTCAAATTTCCCAATAGTAGT 58.484 41.667 15.07 0.00 45.06 2.73
3962 6607 2.702270 AAGCTTGAGGGGGTCAAATT 57.298 45.000 0.00 0.00 44.83 1.82
3964 6609 2.714250 TCTTAAGCTTGAGGGGGTCAAA 59.286 45.455 17.36 0.00 44.83 2.69
3967 6612 3.282885 CATTCTTAAGCTTGAGGGGGTC 58.717 50.000 17.36 0.00 0.00 4.46


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

AutoCloner maintained by Alex Coulton.