Multiple sequence alignment - TraesCS6B01G085300

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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 TraesCS6B01G085300 chr6B 100.000 4218 0 0 1 4218 62124635 62128852 0.000000e+00 7790.0
1 TraesCS6B01G085300 chr6B 84.660 2751 318 47 989 3699 77764787 77762101 0.000000e+00 2647.0
2 TraesCS6B01G085300 chr6B 79.398 1330 227 28 979 2290 82004592 82005892 0.000000e+00 894.0
3 TraesCS6B01G085300 chr6B 78.311 1291 241 27 1008 2290 83200543 83201802 0.000000e+00 797.0
4 TraesCS6B01G085300 chr6B 78.083 1200 211 32 979 2158 82156662 82157829 0.000000e+00 712.0
5 TraesCS6B01G085300 chr6B 92.529 348 26 0 1 348 62113030 62113377 2.260000e-137 499.0
6 TraesCS6B01G085300 chr6B 78.539 219 38 7 2609 2825 62109362 62109573 7.360000e-28 135.0
7 TraesCS6B01G085300 chr6B 80.220 182 25 8 2655 2828 79848673 79848851 4.430000e-25 126.0
8 TraesCS6B01G085300 chr6B 80.000 190 19 7 4046 4218 77761853 77761666 5.730000e-24 122.0
9 TraesCS6B01G085300 chr6B 89.333 75 5 2 2744 2818 62121009 62120938 1.620000e-14 91.6
10 TraesCS6B01G085300 chr6D 91.782 2969 193 27 1 2926 28659337 28656377 0.000000e+00 4084.0
11 TraesCS6B01G085300 chr6D 86.785 734 60 16 2993 3699 28656379 28655656 0.000000e+00 784.0
12 TraesCS6B01G085300 chr6D 87.409 413 39 6 3813 4218 28655143 28654737 2.970000e-126 462.0
13 TraesCS6B01G085300 chr6D 78.000 500 82 14 232 708 409844383 409843889 5.340000e-74 289.0
14 TraesCS6B01G085300 chr6D 76.777 211 35 7 4007 4207 29247750 29247956 5.770000e-19 106.0
15 TraesCS6B01G085300 chr6D 79.775 89 17 1 2609 2696 27861530 27861618 3.520000e-06 63.9
16 TraesCS6B01G085300 chr6A 91.385 2252 145 24 714 2926 34028892 34031133 0.000000e+00 3038.0
17 TraesCS6B01G085300 chr6A 83.749 1163 167 12 989 2150 45066248 45065107 0.000000e+00 1081.0
18 TraesCS6B01G085300 chr6A 78.666 1364 253 26 978 2322 33255136 33256480 0.000000e+00 872.0
19 TraesCS6B01G085300 chr6A 87.483 719 64 12 2993 3699 34031131 34031835 0.000000e+00 806.0
20 TraesCS6B01G085300 chr6A 87.019 416 38 8 3813 4218 34032348 34032757 4.970000e-124 455.0
21 TraesCS6B01G085300 chr6A 85.086 409 61 0 1886 2294 47470129 47469721 6.520000e-113 418.0
22 TraesCS6B01G085300 chr6A 87.948 307 37 0 162 468 34014893 34015199 3.100000e-96 363.0
23 TraesCS6B01G085300 chr6A 82.326 430 45 16 2189 2608 45065106 45064698 1.120000e-90 344.0
24 TraesCS6B01G085300 chr6A 83.200 125 15 5 2711 2830 46715134 46715011 4.460000e-20 110.0
25 TraesCS6B01G085300 chr6A 89.333 75 5 2 2744 2818 34011252 34011181 1.620000e-14 91.6
26 TraesCS6B01G085300 chr6A 82.022 89 15 1 2609 2696 29968222 29968134 1.630000e-09 75.0
27 TraesCS6B01G085300 chr6A 78.899 109 19 3 2609 2715 29887250 29887144 2.100000e-08 71.3
28 TraesCS6B01G085300 chrUn 84.887 2746 327 48 986 3699 112648916 112651605 0.000000e+00 2691.0
29 TraesCS6B01G085300 chrUn 78.859 1315 240 28 992 2299 26705232 26703949 0.000000e+00 854.0
30 TraesCS6B01G085300 chrUn 78.221 1304 215 32 1027 2294 26970953 26969683 0.000000e+00 771.0
31 TraesCS6B01G085300 chrUn 74.198 1372 267 64 980 2322 112677008 112678321 3.790000e-135 492.0
32 TraesCS6B01G085300 chrUn 78.133 782 147 17 979 1743 27073072 27073846 3.820000e-130 475.0
33 TraesCS6B01G085300 chrUn 84.472 483 68 5 1814 2294 27073884 27074361 1.780000e-128 470.0
34 TraesCS6B01G085300 chrUn 81.250 176 21 10 716 885 112643776 112643945 9.520000e-27 132.0
35 TraesCS6B01G085300 chrUn 79.899 199 15 9 4044 4218 112651717 112651914 5.730000e-24 122.0
36 TraesCS6B01G085300 chrUn 79.808 104 17 3 2727 2830 76750291 76750192 5.850000e-09 73.1
37 TraesCS6B01G085300 chr2B 81.637 501 69 9 161 641 744061116 744060619 1.100000e-105 394.0
38 TraesCS6B01G085300 chr1A 80.561 499 73 13 161 638 518724893 518725388 3.100000e-96 363.0
39 TraesCS6B01G085300 chr1A 80.684 497 65 20 232 705 9471219 9471707 1.440000e-94 357.0
40 TraesCS6B01G085300 chr1A 81.592 402 52 13 232 612 567458526 567458126 3.170000e-81 313.0
41 TraesCS6B01G085300 chr3B 80.952 483 69 12 179 641 800989097 800988618 1.110000e-95 361.0
42 TraesCS6B01G085300 chr3B 78.400 500 80 15 232 708 377708805 377709299 2.470000e-77 300.0
43 TraesCS6B01G085300 chr7B 79.615 520 70 17 163 658 660234760 660235267 1.450000e-89 340.0
44 TraesCS6B01G085300 chr7B 78.000 500 82 15 232 708 684104105 684103611 5.340000e-74 289.0
45 TraesCS6B01G085300 chr5B 78.715 498 81 12 232 708 697441871 697441378 4.100000e-80 309.0
46 TraesCS6B01G085300 chr5B 78.452 478 77 17 252 708 698476908 698477380 5.340000e-74 289.0
47 TraesCS6B01G085300 chr5B 77.362 508 78 19 229 708 27441957 27442455 2.500000e-67 267.0
48 TraesCS6B01G085300 chr5D 78.112 498 82 16 232 707 125782754 125783246 1.480000e-74 291.0
49 TraesCS6B01G085300 chr2A 77.291 502 89 11 229 708 45159865 45159367 5.370000e-69 272.0


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 TraesCS6B01G085300 chr6B 62124635 62128852 4217 False 7790.000000 7790 100.000000 1 4218 1 chr6B.!!$F1 4217
1 TraesCS6B01G085300 chr6B 77761666 77764787 3121 True 1384.500000 2647 82.330000 989 4218 2 chr6B.!!$R2 3229
2 TraesCS6B01G085300 chr6B 82004592 82005892 1300 False 894.000000 894 79.398000 979 2290 1 chr6B.!!$F3 1311
3 TraesCS6B01G085300 chr6B 83200543 83201802 1259 False 797.000000 797 78.311000 1008 2290 1 chr6B.!!$F5 1282
4 TraesCS6B01G085300 chr6B 82156662 82157829 1167 False 712.000000 712 78.083000 979 2158 1 chr6B.!!$F4 1179
5 TraesCS6B01G085300 chr6B 62109362 62113377 4015 False 317.000000 499 85.534000 1 2825 2 chr6B.!!$F6 2824
6 TraesCS6B01G085300 chr6D 28654737 28659337 4600 True 1776.666667 4084 88.658667 1 4218 3 chr6D.!!$R2 4217
7 TraesCS6B01G085300 chr6A 34028892 34032757 3865 False 1433.000000 3038 88.629000 714 4218 3 chr6A.!!$F3 3504
8 TraesCS6B01G085300 chr6A 33255136 33256480 1344 False 872.000000 872 78.666000 978 2322 1 chr6A.!!$F1 1344
9 TraesCS6B01G085300 chr6A 45064698 45066248 1550 True 712.500000 1081 83.037500 989 2608 2 chr6A.!!$R6 1619
10 TraesCS6B01G085300 chrUn 112648916 112651914 2998 False 1406.500000 2691 82.393000 986 4218 2 chrUn.!!$F4 3232
11 TraesCS6B01G085300 chrUn 26703949 26705232 1283 True 854.000000 854 78.859000 992 2299 1 chrUn.!!$R1 1307
12 TraesCS6B01G085300 chrUn 26969683 26970953 1270 True 771.000000 771 78.221000 1027 2294 1 chrUn.!!$R2 1267
13 TraesCS6B01G085300 chrUn 112677008 112678321 1313 False 492.000000 492 74.198000 980 2322 1 chrUn.!!$F2 1342
14 TraesCS6B01G085300 chrUn 27073072 27074361 1289 False 472.500000 475 81.302500 979 2294 2 chrUn.!!$F3 1315
15 TraesCS6B01G085300 chr7B 660234760 660235267 507 False 340.000000 340 79.615000 163 658 1 chr7B.!!$F1 495

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
713 738 0.115745 TTACCTCTTCTCCCCCGTGT 59.884 55.0 0.0 0.0 0.00 4.49 F
1614 1677 0.382515 GGGGAAGTCTCATCTCGACG 59.617 60.0 0.0 0.0 36.53 5.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1861 1954 1.586541 CGGTGCAGCAGTCTGAGTA 59.413 57.895 17.33 0.0 42.95 2.59 R
3576 3988 0.181587 TGGACGGAACTGAAAAGGCA 59.818 50.000 0.00 0.0 0.00 4.75 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
62 63 6.021596 GGTGAACACAAACGATTATCATCAC 58.978 40.000 7.25 0.00 34.29 3.06
91 92 5.885912 TCTTTTCTTTTGGAGGGGATTATCG 59.114 40.000 0.00 0.00 0.00 2.92
94 95 5.228945 TCTTTTGGAGGGGATTATCGATC 57.771 43.478 0.00 0.00 0.00 3.69
145 146 2.217038 ATCAGCCACACTCCACCGT 61.217 57.895 0.00 0.00 0.00 4.83
153 154 0.243907 ACACTCCACCGTCATCTTCG 59.756 55.000 0.00 0.00 0.00 3.79
206 207 3.691342 CTGGCTTGGGGTCGACGA 61.691 66.667 9.92 0.00 0.00 4.20
222 223 2.411547 CGACGATGGTTTTTGTGCTCTC 60.412 50.000 0.00 0.00 0.00 3.20
227 228 3.011566 TGGTTTTTGTGCTCTCCTTCA 57.988 42.857 0.00 0.00 0.00 3.02
251 252 0.529773 TGTTCGTGCTCGAGTGCTTT 60.530 50.000 15.13 0.00 46.81 3.51
258 259 0.661483 GCTCGAGTGCTTTTTGGTGC 60.661 55.000 15.13 0.00 0.00 5.01
287 288 1.447643 GGCGATGCCCTGTGACTAT 59.552 57.895 0.00 0.00 44.06 2.12
289 290 0.179073 GCGATGCCCTGTGACTATGT 60.179 55.000 0.00 0.00 0.00 2.29
300 301 0.901827 TGACTATGTCGGTGGCACAT 59.098 50.000 20.82 6.76 36.40 3.21
302 303 2.698274 TGACTATGTCGGTGGCACATAT 59.302 45.455 20.82 9.78 36.39 1.78
315 316 2.586425 GCACATATGTACCCTGGCATT 58.414 47.619 8.32 0.00 0.00 3.56
320 321 4.079787 ACATATGTACCCTGGCATTGTCTT 60.080 41.667 6.56 0.00 0.00 3.01
328 329 0.608856 TGGCATTGTCTTGGCATCGT 60.609 50.000 0.00 0.00 46.02 3.73
343 344 2.159627 GCATCGTGTGTCCTTTCGAATT 59.840 45.455 0.00 0.00 35.99 2.17
359 360 2.501261 GAATTTACCCCCGACATAGGC 58.499 52.381 0.00 0.00 0.00 3.93
389 390 2.346766 TGTTGTGCAGTCTTGGATGT 57.653 45.000 0.00 0.00 0.00 3.06
546 566 1.253100 TGTGCAGTCTCGGATGTGTA 58.747 50.000 0.00 0.00 0.00 2.90
564 584 6.380095 TGTGTAAAGCCTTTCAATTACGTT 57.620 33.333 0.00 0.00 32.29 3.99
618 638 1.282817 CCGATGCCGTTCGATTACAA 58.717 50.000 2.75 0.00 41.62 2.41
623 643 2.004017 TGCCGTTCGATTACAATGGTC 58.996 47.619 0.00 0.00 33.05 4.02
713 738 0.115745 TTACCTCTTCTCCCCCGTGT 59.884 55.000 0.00 0.00 0.00 4.49
911 949 2.457366 GGTTCTCACCACGTTCTGAT 57.543 50.000 0.00 0.00 43.61 2.90
912 950 2.767505 GGTTCTCACCACGTTCTGATT 58.232 47.619 0.00 0.00 43.61 2.57
913 951 2.737252 GGTTCTCACCACGTTCTGATTC 59.263 50.000 0.00 0.00 43.61 2.52
914 952 2.347697 TCTCACCACGTTCTGATTCG 57.652 50.000 0.00 2.21 0.00 3.34
915 953 1.883926 TCTCACCACGTTCTGATTCGA 59.116 47.619 9.12 0.00 0.00 3.71
916 954 2.095212 TCTCACCACGTTCTGATTCGAG 60.095 50.000 9.12 2.63 0.00 4.04
917 955 1.611977 TCACCACGTTCTGATTCGAGT 59.388 47.619 9.12 0.00 0.00 4.18
918 956 1.986378 CACCACGTTCTGATTCGAGTC 59.014 52.381 0.13 0.13 0.00 3.36
919 957 1.067776 ACCACGTTCTGATTCGAGTCC 60.068 52.381 5.38 0.00 0.00 3.85
920 958 1.067846 CCACGTTCTGATTCGAGTCCA 60.068 52.381 5.38 0.00 0.00 4.02
934 977 0.691078 AGTCCACCACAGTCCACACT 60.691 55.000 0.00 0.00 0.00 3.55
1012 1057 4.166888 GCGAGATGAGCAGCCCCA 62.167 66.667 0.00 0.00 34.19 4.96
1084 1135 0.467106 CCTGCTCTCCGAGATCCTGA 60.467 60.000 0.00 0.00 0.00 3.86
1248 1299 1.777101 GATTCGATCGCCTCTCCTTG 58.223 55.000 11.09 0.00 0.00 3.61
1282 1333 4.796231 CGCCCGACCGTCTTCCTG 62.796 72.222 0.00 0.00 0.00 3.86
1368 1428 3.647636 CCTCCTACTCATCTTCCTTCCA 58.352 50.000 0.00 0.00 0.00 3.53
1373 1433 2.921221 ACTCATCTTCCTTCCAGGGAA 58.079 47.619 0.09 0.09 42.39 3.97
1532 1595 3.050275 GGTCTTGGCGGTGACAGC 61.050 66.667 0.00 0.00 35.11 4.40
1614 1677 0.382515 GGGGAAGTCTCATCTCGACG 59.617 60.000 0.00 0.00 36.53 5.12
1620 1683 0.596083 GTCTCATCTCGACGCCCATG 60.596 60.000 0.00 0.00 0.00 3.66
1754 1847 5.473162 TCGAATTTGATTTGGAGAAGCAGAA 59.527 36.000 0.00 0.00 0.00 3.02
1848 1941 0.850784 AGGGTGGTGTGCTAGGTTTT 59.149 50.000 0.00 0.00 0.00 2.43
1861 1954 6.043411 GTGCTAGGTTTTCTCTTCATATCGT 58.957 40.000 0.00 0.00 0.00 3.73
2300 2418 2.943199 GCTGCTTCATGGCCTCTTTAGT 60.943 50.000 3.32 0.00 0.00 2.24
2306 2424 5.467063 GCTTCATGGCCTCTTTAGTGTATAC 59.533 44.000 3.32 0.00 0.00 1.47
2307 2425 6.553953 TTCATGGCCTCTTTAGTGTATACA 57.446 37.500 3.32 0.08 0.00 2.29
2351 2469 4.561326 GCTCATGTGGGTGCTTTTTATGTT 60.561 41.667 0.00 0.00 0.00 2.71
2444 2570 2.168313 CACCAATTTGGCTTCCATACCC 59.832 50.000 15.49 0.00 42.67 3.69
2469 2598 4.223700 GGTGATGGGCTGTCATAGATGATA 59.776 45.833 0.00 0.00 39.30 2.15
2472 2601 3.496331 TGGGCTGTCATAGATGATACGA 58.504 45.455 0.00 0.00 39.30 3.43
2473 2602 4.089361 TGGGCTGTCATAGATGATACGAT 58.911 43.478 0.00 0.00 39.30 3.73
2474 2603 4.082026 TGGGCTGTCATAGATGATACGATG 60.082 45.833 0.00 0.00 39.30 3.84
2475 2604 4.158579 GGGCTGTCATAGATGATACGATGA 59.841 45.833 0.00 0.00 39.30 2.92
2476 2605 5.163468 GGGCTGTCATAGATGATACGATGAT 60.163 44.000 0.00 0.00 39.30 2.45
2477 2606 5.747675 GGCTGTCATAGATGATACGATGATG 59.252 44.000 0.00 0.00 39.30 3.07
2478 2607 5.231779 GCTGTCATAGATGATACGATGATGC 59.768 44.000 0.00 0.00 39.30 3.91
2479 2608 6.271488 TGTCATAGATGATACGATGATGCA 57.729 37.500 0.00 0.00 39.30 3.96
2480 2609 6.327934 TGTCATAGATGATACGATGATGCAG 58.672 40.000 0.00 0.00 39.30 4.41
2482 2611 6.471841 GTCATAGATGATACGATGATGCAGTC 59.528 42.308 0.00 0.00 39.30 3.51
2696 2862 6.473397 ACTGCGAAGTTTTTCTCAAGATAG 57.527 37.500 0.00 0.00 28.42 2.08
2723 2889 5.799213 ACCTATCAGTTGGAAGTTGAAGAG 58.201 41.667 0.00 0.00 0.00 2.85
2776 2943 7.122501 TGAAATGTCAAATAGGCAGCTCAATAA 59.877 33.333 0.00 0.00 33.74 1.40
2930 3111 2.036475 AGAGTCTGTTGCGAGTGACAAT 59.964 45.455 0.00 0.00 32.41 2.71
2952 3140 5.782893 TTCCATTTGTACTGGGAAAACTG 57.217 39.130 0.16 0.00 36.53 3.16
2964 3152 9.758651 GTACTGGGAAAACTGATAAATTTGTTT 57.241 29.630 0.00 0.00 34.59 2.83
2995 3183 7.455641 TTTTTGAGGCTTAATTTATCCGTGA 57.544 32.000 0.00 0.00 0.00 4.35
3000 3188 8.149973 TGAGGCTTAATTTATCCGTGAATAAC 57.850 34.615 0.00 0.00 0.00 1.89
3120 3499 2.856222 CCTCCTCATATCTGTTTGGCC 58.144 52.381 0.00 0.00 0.00 5.36
3173 3552 1.368641 TATGCTTGCAGTAACAGGCG 58.631 50.000 0.87 0.00 44.97 5.52
3307 3686 5.408299 TGTATGTTGACTTGTTGAGGAATCG 59.592 40.000 0.00 0.00 0.00 3.34
3349 3730 1.623811 ACCGATTTCCTGTGTACTGCT 59.376 47.619 0.00 0.00 0.00 4.24
3357 3738 7.360861 CGATTTCCTGTGTACTGCTATTTCAAA 60.361 37.037 0.00 0.00 0.00 2.69
3377 3758 5.774690 TCAAATACCAAATTGCAAGAGAGGT 59.225 36.000 16.54 16.54 0.00 3.85
3399 3788 4.750098 GTCTCTACAACTGTTTGCTTAGCA 59.250 41.667 1.39 1.39 36.00 3.49
3435 3824 1.340017 TGGTCACCTCCTATGCTTTGC 60.340 52.381 0.00 0.00 0.00 3.68
3436 3825 1.340017 GGTCACCTCCTATGCTTTGCA 60.340 52.381 0.00 0.00 44.86 4.08
3453 3842 4.430137 TTGCACTGCATCTTGAATCTTC 57.570 40.909 4.10 0.00 38.76 2.87
3484 3884 3.265791 CTTGTTTCCTCATCCTTCCTCG 58.734 50.000 0.00 0.00 0.00 4.63
3505 3905 1.550072 GCAGCTCTCTGTTCTCTTCCT 59.450 52.381 0.00 0.00 42.29 3.36
3513 3913 2.301296 TCTGTTCTCTTCCTCTTGCCTG 59.699 50.000 0.00 0.00 0.00 4.85
3532 3944 1.953686 TGCACCTGCCTTCAGTTTTAC 59.046 47.619 0.00 0.00 41.18 2.01
3576 3988 3.498774 ACTGGATGTGCTCTTTCACTT 57.501 42.857 0.00 0.00 37.81 3.16
3582 3994 2.378038 TGTGCTCTTTCACTTGCCTTT 58.622 42.857 0.00 0.00 37.81 3.11
3583 3995 2.760092 TGTGCTCTTTCACTTGCCTTTT 59.240 40.909 0.00 0.00 37.81 2.27
3611 4023 0.251474 TCCAGCTGCCTTGCTTTCAT 60.251 50.000 8.66 0.00 41.98 2.57
3626 4038 5.136828 TGCTTTCATTTCACCTCCTTGTAA 58.863 37.500 0.00 0.00 0.00 2.41
3627 4039 5.774690 TGCTTTCATTTCACCTCCTTGTAAT 59.225 36.000 0.00 0.00 0.00 1.89
3628 4040 6.267471 TGCTTTCATTTCACCTCCTTGTAATT 59.733 34.615 0.00 0.00 0.00 1.40
3629 4041 6.587608 GCTTTCATTTCACCTCCTTGTAATTG 59.412 38.462 0.00 0.00 0.00 2.32
3630 4042 7.595819 TTTCATTTCACCTCCTTGTAATTGT 57.404 32.000 0.00 0.00 0.00 2.71
3631 4043 8.698973 TTTCATTTCACCTCCTTGTAATTGTA 57.301 30.769 0.00 0.00 0.00 2.41
3675 4088 0.685660 GTGTCGGGTTCTTCTCCCTT 59.314 55.000 0.00 0.00 42.56 3.95
3682 4095 1.633945 GGTTCTTCTCCCTTTAGCCCA 59.366 52.381 0.00 0.00 0.00 5.36
3707 4120 8.716674 ATGCAATGACTGATAAATTCCCTATT 57.283 30.769 0.00 0.00 0.00 1.73
3708 4121 8.537728 TGCAATGACTGATAAATTCCCTATTT 57.462 30.769 0.00 0.00 39.69 1.40
3709 4122 9.639563 TGCAATGACTGATAAATTCCCTATTTA 57.360 29.630 0.00 0.00 41.61 1.40
3713 4126 9.812347 ATGACTGATAAATTCCCTATTTATGCA 57.188 29.630 7.31 0.00 45.22 3.96
3714 4127 9.812347 TGACTGATAAATTCCCTATTTATGCAT 57.188 29.630 3.79 3.79 45.22 3.96
3722 4135 8.426569 AATTCCCTATTTATGCATATGCTTGT 57.573 30.769 27.13 15.75 42.66 3.16
3723 4136 6.822667 TCCCTATTTATGCATATGCTTGTG 57.177 37.500 27.13 11.22 42.66 3.33
3724 4137 5.183713 TCCCTATTTATGCATATGCTTGTGC 59.816 40.000 27.13 13.47 42.66 4.57
3725 4138 5.404946 CCTATTTATGCATATGCTTGTGCC 58.595 41.667 27.13 0.00 39.07 5.01
3726 4139 3.731652 TTTATGCATATGCTTGTGCCC 57.268 42.857 27.13 0.00 39.07 5.36
3727 4140 2.662535 TATGCATATGCTTGTGCCCT 57.337 45.000 27.13 8.33 39.07 5.19
3728 4141 1.784358 ATGCATATGCTTGTGCCCTT 58.216 45.000 27.13 1.75 39.07 3.95
3729 4142 1.105457 TGCATATGCTTGTGCCCTTC 58.895 50.000 27.13 0.00 39.07 3.46
3730 4143 1.341285 TGCATATGCTTGTGCCCTTCT 60.341 47.619 27.13 0.00 39.07 2.85
3731 4144 1.336125 GCATATGCTTGTGCCCTTCTC 59.664 52.381 20.64 0.00 38.71 2.87
3732 4145 2.646930 CATATGCTTGTGCCCTTCTCA 58.353 47.619 0.00 0.00 38.71 3.27
3733 4146 2.408271 TATGCTTGTGCCCTTCTCAG 57.592 50.000 0.00 0.00 38.71 3.35
3734 4147 0.694771 ATGCTTGTGCCCTTCTCAGA 59.305 50.000 0.00 0.00 38.71 3.27
3735 4148 0.035881 TGCTTGTGCCCTTCTCAGAG 59.964 55.000 0.00 0.00 38.71 3.35
3736 4149 0.322975 GCTTGTGCCCTTCTCAGAGA 59.677 55.000 0.00 0.00 0.00 3.10
3737 4150 1.065564 GCTTGTGCCCTTCTCAGAGAT 60.066 52.381 0.00 0.00 0.00 2.75
3738 4151 2.630158 CTTGTGCCCTTCTCAGAGATG 58.370 52.381 0.00 3.51 0.00 2.90
3739 4152 0.907486 TGTGCCCTTCTCAGAGATGG 59.093 55.000 21.06 21.06 38.78 3.51
3740 4153 0.908198 GTGCCCTTCTCAGAGATGGT 59.092 55.000 24.34 0.00 37.73 3.55
3741 4154 2.111384 GTGCCCTTCTCAGAGATGGTA 58.889 52.381 24.34 14.72 37.73 3.25
3742 4155 2.102252 GTGCCCTTCTCAGAGATGGTAG 59.898 54.545 24.34 14.68 37.73 3.18
3743 4156 2.292521 TGCCCTTCTCAGAGATGGTAGT 60.293 50.000 24.34 0.00 37.73 2.73
3744 4157 3.052869 TGCCCTTCTCAGAGATGGTAGTA 60.053 47.826 24.34 11.58 37.73 1.82
3745 4158 3.572255 GCCCTTCTCAGAGATGGTAGTAG 59.428 52.174 24.34 13.56 37.73 2.57
3746 4159 3.572255 CCCTTCTCAGAGATGGTAGTAGC 59.428 52.174 24.34 0.00 37.73 3.58
3747 4160 4.469657 CCTTCTCAGAGATGGTAGTAGCT 58.530 47.826 20.10 0.00 35.47 3.32
3748 4161 5.456907 CCCTTCTCAGAGATGGTAGTAGCTA 60.457 48.000 24.34 0.00 37.73 3.32
3749 4162 6.065374 CCTTCTCAGAGATGGTAGTAGCTAA 58.935 44.000 20.10 0.00 35.47 3.09
3750 4163 6.719370 CCTTCTCAGAGATGGTAGTAGCTAAT 59.281 42.308 20.10 0.00 35.47 1.73
3751 4164 7.309133 CCTTCTCAGAGATGGTAGTAGCTAATG 60.309 44.444 20.10 0.00 35.47 1.90
3758 4171 8.441572 AGAGATGGTAGTAGCTAATGAACTAGA 58.558 37.037 3.45 0.00 0.00 2.43
3809 4788 2.242043 CTTCACTGTGCTTTGGGGATT 58.758 47.619 2.12 0.00 0.00 3.01
3810 4789 3.420893 CTTCACTGTGCTTTGGGGATTA 58.579 45.455 2.12 0.00 0.00 1.75
3842 4901 8.915871 TTACTTTTACTAATTGCTACGTCGAT 57.084 30.769 0.00 0.00 0.00 3.59
3845 4904 6.801367 TTTACTAATTGCTACGTCGATGTC 57.199 37.500 14.83 1.11 0.00 3.06
3853 4913 3.183574 TGCTACGTCGATGTCAACTTTTG 59.816 43.478 14.83 0.00 0.00 2.44
3882 4942 4.398358 GGTTAAGGGCCTATCAAGTCAAAC 59.602 45.833 6.41 0.68 0.00 2.93
3893 4954 6.204688 CCTATCAAGTCAAACTGTAACTTGCA 59.795 38.462 18.38 11.76 45.99 4.08
3913 4974 3.181503 GCATGTTGTCCTGTCTATGCAAG 60.182 47.826 0.00 0.00 40.30 4.01
3933 5447 5.413499 CAAGTATGCCTGCAAGCTAAAAAT 58.587 37.500 9.08 0.00 0.00 1.82
3935 5449 2.634982 TGCCTGCAAGCTAAAAATCG 57.365 45.000 9.08 0.00 0.00 3.34
3961 5475 5.179555 ACGTTTCTGCTTTCTTACTCCATTC 59.820 40.000 0.00 0.00 0.00 2.67
3972 5486 2.196742 ACTCCATTCAGCCCCTCATA 57.803 50.000 0.00 0.00 0.00 2.15
3984 5498 1.496429 CCCCTCATATGCCCACTCTTT 59.504 52.381 0.00 0.00 0.00 2.52
3987 5501 4.392940 CCCTCATATGCCCACTCTTTTAG 58.607 47.826 0.00 0.00 0.00 1.85
3988 5502 3.817647 CCTCATATGCCCACTCTTTTAGC 59.182 47.826 0.00 0.00 0.00 3.09
3991 5505 2.426842 ATGCCCACTCTTTTAGCCTC 57.573 50.000 0.00 0.00 0.00 4.70
3992 5506 0.328258 TGCCCACTCTTTTAGCCTCC 59.672 55.000 0.00 0.00 0.00 4.30
3993 5507 0.328258 GCCCACTCTTTTAGCCTCCA 59.672 55.000 0.00 0.00 0.00 3.86
3994 5508 1.950954 GCCCACTCTTTTAGCCTCCAC 60.951 57.143 0.00 0.00 0.00 4.02
3995 5509 1.630878 CCCACTCTTTTAGCCTCCACT 59.369 52.381 0.00 0.00 0.00 4.00
3997 5511 2.611518 CACTCTTTTAGCCTCCACTCG 58.388 52.381 0.00 0.00 0.00 4.18
3998 5512 1.550976 ACTCTTTTAGCCTCCACTCGG 59.449 52.381 0.00 0.00 0.00 4.63
3999 5513 1.825474 CTCTTTTAGCCTCCACTCGGA 59.175 52.381 0.00 0.00 39.79 4.55
4000 5514 1.549170 TCTTTTAGCCTCCACTCGGAC 59.451 52.381 0.00 0.00 35.91 4.79
4001 5515 1.550976 CTTTTAGCCTCCACTCGGACT 59.449 52.381 0.00 0.00 35.91 3.85
4002 5516 2.519771 TTTAGCCTCCACTCGGACTA 57.480 50.000 0.00 0.00 35.91 2.59
4003 5517 2.054232 TTAGCCTCCACTCGGACTAG 57.946 55.000 0.00 0.00 35.91 2.57
4004 5518 0.183014 TAGCCTCCACTCGGACTAGG 59.817 60.000 0.00 0.00 35.91 3.02
4005 5519 1.380112 GCCTCCACTCGGACTAGGT 60.380 63.158 0.00 0.00 35.91 3.08
4012 5526 2.422235 CCACTCGGACTAGGTCTCAGAT 60.422 54.545 0.00 0.00 32.47 2.90
4077 5592 4.217550 GCCACTACACTGCAAATTTCCTAA 59.782 41.667 0.00 0.00 0.00 2.69
4185 5722 7.744715 GGAGATAATGTTTACTGTTTTGTGTCG 59.255 37.037 0.00 0.00 0.00 4.35
4214 5755 8.461222 CAAAATTATGAGAGTAACTGCAATGGA 58.539 33.333 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 4.394712 CACCCAGAGTCGCCACCC 62.395 72.222 0.00 0.00 0.00 4.61
62 63 4.042934 TCCCCTCCAAAAGAAAAGAGGTAG 59.957 45.833 4.34 0.00 43.73 3.18
77 78 1.203137 ACCGATCGATAATCCCCTCCA 60.203 52.381 18.66 0.00 0.00 3.86
91 92 6.560253 AATGGCAGTGATATTTTACCGATC 57.440 37.500 0.00 0.00 0.00 3.69
145 146 1.889170 ACACTCAGAGCACGAAGATGA 59.111 47.619 0.00 0.00 0.00 2.92
153 154 0.036577 ATCAGCCACACTCAGAGCAC 60.037 55.000 0.00 0.00 0.00 4.40
206 207 3.565307 TGAAGGAGAGCACAAAAACCAT 58.435 40.909 0.00 0.00 0.00 3.55
222 223 0.532862 AGCACGAACACCACTGAAGG 60.533 55.000 0.00 0.00 0.00 3.46
227 228 3.125607 TCGAGCACGAACACCACT 58.874 55.556 3.01 0.00 45.74 4.00
251 252 0.037326 CCTAGCAGAGACGCACCAAA 60.037 55.000 0.00 0.00 0.00 3.28
258 259 1.659954 GCATCGCCTAGCAGAGACG 60.660 63.158 0.00 0.00 0.00 4.18
281 282 0.901827 ATGTGCCACCGACATAGTCA 59.098 50.000 0.00 0.00 32.12 3.41
287 288 2.303163 GTACATATGTGCCACCGACA 57.697 50.000 18.81 0.00 0.00 4.35
300 301 3.371487 CCAAGACAATGCCAGGGTACATA 60.371 47.826 0.00 0.00 0.00 2.29
302 303 1.271871 CCAAGACAATGCCAGGGTACA 60.272 52.381 0.00 0.00 0.00 2.90
315 316 0.602638 GGACACACGATGCCAAGACA 60.603 55.000 0.00 0.00 0.00 3.41
320 321 0.948623 CGAAAGGACACACGATGCCA 60.949 55.000 0.00 0.00 0.00 4.92
324 325 4.390909 GGTAAATTCGAAAGGACACACGAT 59.609 41.667 0.00 0.00 34.85 3.73
328 329 3.414269 GGGGTAAATTCGAAAGGACACA 58.586 45.455 0.00 0.00 0.00 3.72
343 344 3.541072 CGCCTATGTCGGGGGTAA 58.459 61.111 0.00 0.00 33.67 2.85
359 360 2.469847 CACAACATCGCGACACCG 59.530 61.111 12.93 2.99 39.16 4.94
389 390 2.398554 GCAATCGAAAGGCGCCTCA 61.399 57.895 32.93 14.83 40.61 3.86
482 502 1.936547 GAGGCACATTCGAAGGATCAC 59.063 52.381 17.88 3.83 0.00 3.06
618 638 1.603802 CACAACAAAGAGCACGACCAT 59.396 47.619 0.00 0.00 0.00 3.55
623 643 2.450160 GGAAACACAACAAAGAGCACG 58.550 47.619 0.00 0.00 0.00 5.34
911 949 0.757561 TGGACTGTGGTGGACTCGAA 60.758 55.000 0.00 0.00 0.00 3.71
912 950 1.152631 TGGACTGTGGTGGACTCGA 60.153 57.895 0.00 0.00 0.00 4.04
913 951 1.006102 GTGGACTGTGGTGGACTCG 60.006 63.158 0.00 0.00 0.00 4.18
914 952 0.249911 GTGTGGACTGTGGTGGACTC 60.250 60.000 0.00 0.00 0.00 3.36
915 953 0.691078 AGTGTGGACTGTGGTGGACT 60.691 55.000 0.00 0.00 0.00 3.85
916 954 1.045407 TAGTGTGGACTGTGGTGGAC 58.955 55.000 0.00 0.00 33.21 4.02
917 955 1.045407 GTAGTGTGGACTGTGGTGGA 58.955 55.000 0.00 0.00 33.21 4.02
918 956 0.756294 TGTAGTGTGGACTGTGGTGG 59.244 55.000 0.00 0.00 33.21 4.61
919 957 1.540363 GGTGTAGTGTGGACTGTGGTG 60.540 57.143 0.00 0.00 33.21 4.17
920 958 0.756903 GGTGTAGTGTGGACTGTGGT 59.243 55.000 0.00 0.00 33.21 4.16
934 977 1.195442 TGGAAGATGGTGCGGGTGTA 61.195 55.000 0.00 0.00 0.00 2.90
1266 1317 3.644399 GACAGGAAGACGGTCGGGC 62.644 68.421 1.89 0.00 34.68 6.13
1276 1327 2.269241 GAAGGGCCCGACAGGAAG 59.731 66.667 18.44 0.00 41.02 3.46
1368 1428 1.273324 ACAAGGACCTCGAGATTCCCT 60.273 52.381 22.67 15.73 0.00 4.20
1373 1433 0.898320 CCACACAAGGACCTCGAGAT 59.102 55.000 15.71 0.00 0.00 2.75
1620 1683 2.044806 ATCCATCAGCCTGGTACGGC 62.045 60.000 3.74 3.74 45.54 5.68
1754 1847 1.990060 ACCCGTATCACAGCCAGCT 60.990 57.895 0.00 0.00 0.00 4.24
1758 1851 2.513897 GGCACCCGTATCACAGCC 60.514 66.667 0.00 0.00 34.71 4.85
1848 1941 5.237561 GCAGTCTGAGTACGATATGAAGAGA 59.762 44.000 3.32 0.00 0.00 3.10
1861 1954 1.586541 CGGTGCAGCAGTCTGAGTA 59.413 57.895 17.33 0.00 42.95 2.59
2195 2307 9.415544 GAACATAATTTCATCAGCCAATTATCC 57.584 33.333 0.00 0.00 32.93 2.59
2306 2424 8.403236 TGAGCATCATAACAGAATCAAAATCTG 58.597 33.333 2.17 2.17 42.56 2.90
2307 2425 8.515695 TGAGCATCATAACAGAATCAAAATCT 57.484 30.769 0.00 0.00 42.56 2.40
2417 2542 3.509575 TGGAAGCCAAATTGGTGACATAC 59.490 43.478 14.17 0.00 40.46 2.39
2444 2570 1.764723 TCTATGACAGCCCATCACCTG 59.235 52.381 0.00 0.00 35.26 4.00
2514 2643 9.832445 CTACTTGTAACTGGAACCACATTATAT 57.168 33.333 0.00 0.00 0.00 0.86
2574 2733 8.856153 TGCCATTCTTAGTGTTCTTTTGTATA 57.144 30.769 0.00 0.00 0.00 1.47
2578 2737 7.951530 ATTTGCCATTCTTAGTGTTCTTTTG 57.048 32.000 0.00 0.00 0.00 2.44
2581 2740 7.014615 AGTGAATTTGCCATTCTTAGTGTTCTT 59.985 33.333 7.14 0.00 0.00 2.52
2589 2748 8.250332 GGTGAAATAGTGAATTTGCCATTCTTA 58.750 33.333 7.14 2.00 37.93 2.10
2594 2753 4.462483 ACGGTGAAATAGTGAATTTGCCAT 59.538 37.500 0.00 0.00 37.93 4.40
2668 2834 5.403897 TGAGAAAAACTTCGCAGTAGTTG 57.596 39.130 0.00 0.00 36.06 3.16
2673 2839 6.223852 TCTATCTTGAGAAAAACTTCGCAGT 58.776 36.000 0.00 0.00 32.61 4.40
2696 2862 8.041323 TCTTCAACTTCCAACTGATAGGTATTC 58.959 37.037 0.00 0.00 0.00 1.75
2723 2889 6.503524 TGGTTCAAGCTAGTTTTTCATGTTC 58.496 36.000 0.00 0.00 0.00 3.18
2776 2943 6.715347 AAGTTTGAAGCTTCCAAATGTACT 57.285 33.333 23.42 9.66 36.14 2.73
2835 3002 9.971922 ATTGATTTAAGATTATTGCAAGGCTAC 57.028 29.630 4.94 0.00 0.00 3.58
2893 3074 7.926674 ACAGACTCTTCTAAGTAGTAAGACC 57.073 40.000 0.00 0.00 0.00 3.85
2894 3075 7.751793 GCAACAGACTCTTCTAAGTAGTAAGAC 59.248 40.741 0.00 0.00 0.00 3.01
2895 3076 7.361031 CGCAACAGACTCTTCTAAGTAGTAAGA 60.361 40.741 0.00 0.00 0.00 2.10
2896 3077 6.743627 CGCAACAGACTCTTCTAAGTAGTAAG 59.256 42.308 0.00 0.00 0.00 2.34
2898 3079 5.936372 TCGCAACAGACTCTTCTAAGTAGTA 59.064 40.000 0.00 0.00 0.00 1.82
2901 3082 4.760715 ACTCGCAACAGACTCTTCTAAGTA 59.239 41.667 0.00 0.00 0.00 2.24
2930 3111 5.450453 TCAGTTTTCCCAGTACAAATGGAA 58.550 37.500 1.26 1.92 40.51 3.53
2969 3157 8.527810 TCACGGATAAATTAAGCCTCAAAAATT 58.472 29.630 0.00 0.00 0.00 1.82
2976 3164 7.444487 AGGTTATTCACGGATAAATTAAGCCTC 59.556 37.037 0.00 0.00 0.00 4.70
2990 3178 8.888579 ACTATTCAGATTTAGGTTATTCACGG 57.111 34.615 0.00 0.00 0.00 4.94
2991 3179 9.529325 TGACTATTCAGATTTAGGTTATTCACG 57.471 33.333 0.00 0.00 0.00 4.35
2995 3183 9.530633 GACGTGACTATTCAGATTTAGGTTATT 57.469 33.333 0.00 0.00 30.10 1.40
3000 3188 6.565234 AGTGACGTGACTATTCAGATTTAGG 58.435 40.000 5.66 0.00 30.10 2.69
3120 3499 5.816777 ACAACCAATGTCATTCCAACAAAAG 59.183 36.000 0.00 0.00 37.96 2.27
3173 3552 2.710377 TGCATCATGTCTACCACCAAC 58.290 47.619 0.00 0.00 0.00 3.77
3330 3711 2.386661 AGCAGTACACAGGAAATCGG 57.613 50.000 0.00 0.00 0.00 4.18
3349 3730 9.859427 CTCTCTTGCAATTTGGTATTTGAAATA 57.141 29.630 0.00 0.00 0.00 1.40
3357 3738 5.184892 AGACCTCTCTTGCAATTTGGTAT 57.815 39.130 0.00 1.01 0.00 2.73
3377 3758 4.956085 TGCTAAGCAAACAGTTGTAGAGA 58.044 39.130 0.00 0.00 34.76 3.10
3435 3824 4.571580 GGAGAGAAGATTCAAGATGCAGTG 59.428 45.833 0.00 0.00 0.00 3.66
3436 3825 4.224594 TGGAGAGAAGATTCAAGATGCAGT 59.775 41.667 0.00 0.00 0.00 4.40
3453 3842 2.224621 TGAGGAAACAAGGCTTGGAGAG 60.225 50.000 29.26 6.08 34.12 3.20
3484 3884 1.405391 GGAAGAGAACAGAGAGCTGCC 60.405 57.143 0.00 0.00 46.26 4.85
3505 3905 3.137385 AAGGCAGGTGCAGGCAAGA 62.137 57.895 4.01 0.00 44.36 3.02
3513 3913 2.230660 AGTAAAACTGAAGGCAGGTGC 58.769 47.619 0.00 0.00 42.49 5.01
3532 3944 8.979534 AGTAGAGAGGGGTTAAATGTAAGTAAG 58.020 37.037 0.00 0.00 0.00 2.34
3576 3988 0.181587 TGGACGGAACTGAAAAGGCA 59.818 50.000 0.00 0.00 0.00 4.75
3582 3994 1.301716 GCAGCTGGACGGAACTGAA 60.302 57.895 17.12 0.00 31.67 3.02
3583 3995 2.343758 GCAGCTGGACGGAACTGA 59.656 61.111 17.12 0.00 31.67 3.41
3611 4023 8.434392 AGTACTTACAATTACAAGGAGGTGAAA 58.566 33.333 0.00 0.00 0.00 2.69
3626 4038 4.436079 AGAACTGGGGGAGTACTTACAAT 58.564 43.478 0.00 0.00 33.09 2.71
3627 4039 3.865571 AGAACTGGGGGAGTACTTACAA 58.134 45.455 0.00 0.00 33.09 2.41
3628 4040 3.555117 AGAACTGGGGGAGTACTTACA 57.445 47.619 0.00 0.00 33.09 2.41
3629 4041 4.081586 CAGAAGAACTGGGGGAGTACTTAC 60.082 50.000 0.00 0.00 42.39 2.34
3630 4042 4.094476 CAGAAGAACTGGGGGAGTACTTA 58.906 47.826 0.00 0.00 42.39 2.24
3631 4043 2.907042 CAGAAGAACTGGGGGAGTACTT 59.093 50.000 0.00 0.00 42.39 2.24
3675 4088 2.804986 TCAGTCATTGCATGGGCTAA 57.195 45.000 0.00 0.00 41.91 3.09
3682 4095 8.716674 AATAGGGAATTTATCAGTCATTGCAT 57.283 30.769 0.00 0.00 0.00 3.96
3697 4110 8.308931 CACAAGCATATGCATAAATAGGGAATT 58.691 33.333 28.62 7.26 45.16 2.17
3698 4111 7.578189 GCACAAGCATATGCATAAATAGGGAAT 60.578 37.037 28.62 0.81 45.16 3.01
3699 4112 6.294675 GCACAAGCATATGCATAAATAGGGAA 60.295 38.462 28.62 0.00 45.16 3.97
3700 4113 5.183713 GCACAAGCATATGCATAAATAGGGA 59.816 40.000 28.62 0.00 45.16 4.20
3701 4114 5.404946 GCACAAGCATATGCATAAATAGGG 58.595 41.667 28.62 12.03 45.16 3.53
3702 4115 5.404946 GGCACAAGCATATGCATAAATAGG 58.595 41.667 28.62 7.25 43.93 2.57
3703 4116 5.184479 AGGGCACAAGCATATGCATAAATAG 59.816 40.000 28.62 12.57 43.93 1.73
3704 4117 5.078949 AGGGCACAAGCATATGCATAAATA 58.921 37.500 28.62 0.00 43.93 1.40
3705 4118 3.899360 AGGGCACAAGCATATGCATAAAT 59.101 39.130 28.62 5.48 43.93 1.40
3706 4119 3.298619 AGGGCACAAGCATATGCATAAA 58.701 40.909 28.62 0.00 43.93 1.40
3707 4120 2.948115 AGGGCACAAGCATATGCATAA 58.052 42.857 28.62 0.00 43.93 1.90
3708 4121 2.662535 AGGGCACAAGCATATGCATA 57.337 45.000 28.62 9.27 43.93 3.14
3709 4122 1.684983 GAAGGGCACAAGCATATGCAT 59.315 47.619 28.62 15.43 43.93 3.96
3710 4123 1.105457 GAAGGGCACAAGCATATGCA 58.895 50.000 28.62 0.00 43.93 3.96
3711 4124 1.336125 GAGAAGGGCACAAGCATATGC 59.664 52.381 20.36 20.36 44.61 3.14
3712 4125 2.617308 CTGAGAAGGGCACAAGCATATG 59.383 50.000 0.00 0.00 44.61 1.78
3713 4126 2.507058 TCTGAGAAGGGCACAAGCATAT 59.493 45.455 0.00 0.00 44.61 1.78
3714 4127 1.908619 TCTGAGAAGGGCACAAGCATA 59.091 47.619 0.00 0.00 44.61 3.14
3715 4128 0.694771 TCTGAGAAGGGCACAAGCAT 59.305 50.000 0.00 0.00 44.61 3.79
3716 4129 0.035881 CTCTGAGAAGGGCACAAGCA 59.964 55.000 0.00 0.00 44.61 3.91
3717 4130 0.322975 TCTCTGAGAAGGGCACAAGC 59.677 55.000 4.57 0.00 41.10 4.01
3718 4131 2.630158 CATCTCTGAGAAGGGCACAAG 58.370 52.381 12.00 0.00 0.00 3.16
3719 4132 1.280133 CCATCTCTGAGAAGGGCACAA 59.720 52.381 18.83 0.00 29.80 3.33
3720 4133 0.907486 CCATCTCTGAGAAGGGCACA 59.093 55.000 18.83 0.00 29.80 4.57
3721 4134 0.908198 ACCATCTCTGAGAAGGGCAC 59.092 55.000 27.18 0.00 37.41 5.01
3722 4135 2.292521 ACTACCATCTCTGAGAAGGGCA 60.293 50.000 27.18 16.20 37.41 5.36
3723 4136 2.393646 ACTACCATCTCTGAGAAGGGC 58.606 52.381 27.18 0.00 37.41 5.19
3724 4137 3.572255 GCTACTACCATCTCTGAGAAGGG 59.428 52.174 27.18 23.84 37.41 3.95
3725 4138 4.469657 AGCTACTACCATCTCTGAGAAGG 58.530 47.826 23.49 23.49 38.94 3.46
3726 4139 7.446931 TCATTAGCTACTACCATCTCTGAGAAG 59.553 40.741 12.00 7.22 0.00 2.85
3727 4140 7.290813 TCATTAGCTACTACCATCTCTGAGAA 58.709 38.462 12.00 0.00 0.00 2.87
3728 4141 6.842676 TCATTAGCTACTACCATCTCTGAGA 58.157 40.000 10.23 10.23 0.00 3.27
3729 4142 7.230510 AGTTCATTAGCTACTACCATCTCTGAG 59.769 40.741 0.00 0.00 0.00 3.35
3730 4143 7.063593 AGTTCATTAGCTACTACCATCTCTGA 58.936 38.462 0.00 0.00 0.00 3.27
3731 4144 7.283625 AGTTCATTAGCTACTACCATCTCTG 57.716 40.000 0.00 0.00 0.00 3.35
3732 4145 8.441572 TCTAGTTCATTAGCTACTACCATCTCT 58.558 37.037 0.00 0.00 0.00 3.10
3733 4146 8.624367 TCTAGTTCATTAGCTACTACCATCTC 57.376 38.462 0.00 0.00 0.00 2.75
3734 4147 8.852135 GTTCTAGTTCATTAGCTACTACCATCT 58.148 37.037 0.00 0.00 0.00 2.90
3735 4148 8.083462 GGTTCTAGTTCATTAGCTACTACCATC 58.917 40.741 0.00 0.00 0.00 3.51
3736 4149 7.015389 GGGTTCTAGTTCATTAGCTACTACCAT 59.985 40.741 0.00 0.00 0.00 3.55
3737 4150 6.323225 GGGTTCTAGTTCATTAGCTACTACCA 59.677 42.308 0.00 0.00 0.00 3.25
3738 4151 6.550481 AGGGTTCTAGTTCATTAGCTACTACC 59.450 42.308 0.00 0.00 0.00 3.18
3739 4152 7.585579 AGGGTTCTAGTTCATTAGCTACTAC 57.414 40.000 0.00 0.00 0.00 2.73
3740 4153 7.287235 GGAAGGGTTCTAGTTCATTAGCTACTA 59.713 40.741 0.00 0.00 0.00 1.82
3741 4154 6.098552 GGAAGGGTTCTAGTTCATTAGCTACT 59.901 42.308 0.00 0.00 0.00 2.57
3742 4155 6.282167 GGAAGGGTTCTAGTTCATTAGCTAC 58.718 44.000 0.00 0.00 0.00 3.58
3743 4156 5.365895 GGGAAGGGTTCTAGTTCATTAGCTA 59.634 44.000 0.00 0.00 0.00 3.32
3744 4157 4.164413 GGGAAGGGTTCTAGTTCATTAGCT 59.836 45.833 0.00 0.00 0.00 3.32
3745 4158 4.452825 GGGAAGGGTTCTAGTTCATTAGC 58.547 47.826 0.00 0.00 0.00 3.09
3746 4159 4.473559 TGGGGAAGGGTTCTAGTTCATTAG 59.526 45.833 0.00 0.00 0.00 1.73
3747 4160 4.440808 TGGGGAAGGGTTCTAGTTCATTA 58.559 43.478 0.00 0.00 0.00 1.90
3748 4161 3.265489 TGGGGAAGGGTTCTAGTTCATT 58.735 45.455 0.00 0.00 0.00 2.57
3749 4162 2.929301 TGGGGAAGGGTTCTAGTTCAT 58.071 47.619 0.00 0.00 0.00 2.57
3750 4163 2.426431 TGGGGAAGGGTTCTAGTTCA 57.574 50.000 0.00 0.00 0.00 3.18
3751 4164 3.371702 GGAATGGGGAAGGGTTCTAGTTC 60.372 52.174 0.00 0.00 0.00 3.01
3758 4171 2.320613 ATAGGGAATGGGGAAGGGTT 57.679 50.000 0.00 0.00 0.00 4.11
3828 4887 3.585862 AGTTGACATCGACGTAGCAATT 58.414 40.909 0.00 0.00 35.42 2.32
3837 4896 5.049680 ACCACATACAAAAGTTGACATCGAC 60.050 40.000 0.00 0.00 0.00 4.20
3839 4898 5.356882 ACCACATACAAAAGTTGACATCG 57.643 39.130 0.00 0.00 0.00 3.84
3842 4901 6.039941 CCCTTAACCACATACAAAAGTTGACA 59.960 38.462 0.00 0.00 0.00 3.58
3845 4904 5.227152 GCCCTTAACCACATACAAAAGTTG 58.773 41.667 0.00 0.00 0.00 3.16
3853 4913 4.699925 TGATAGGCCCTTAACCACATAC 57.300 45.455 0.00 0.00 0.00 2.39
3882 4942 3.565482 ACAGGACAACATGCAAGTTACAG 59.435 43.478 7.05 0.00 0.00 2.74
3893 4954 4.292186 ACTTGCATAGACAGGACAACAT 57.708 40.909 0.00 0.00 0.00 2.71
3913 4974 4.037690 CGATTTTTAGCTTGCAGGCATAC 58.962 43.478 23.85 5.93 34.17 2.39
3923 4986 4.612939 GCAGAAACGTCCGATTTTTAGCTT 60.613 41.667 0.00 0.00 0.00 3.74
3929 5443 3.564225 AGAAAGCAGAAACGTCCGATTTT 59.436 39.130 0.00 0.00 0.00 1.82
3933 5447 2.234300 AAGAAAGCAGAAACGTCCGA 57.766 45.000 0.00 0.00 0.00 4.55
3935 5449 3.432592 GGAGTAAGAAAGCAGAAACGTCC 59.567 47.826 0.00 0.00 0.00 4.79
3961 5475 1.228367 GTGGGCATATGAGGGGCTG 60.228 63.158 6.97 0.00 0.00 4.85
3972 5486 1.064389 GGAGGCTAAAAGAGTGGGCAT 60.064 52.381 0.00 0.00 0.00 4.40
3991 5505 1.065345 TCTGAGACCTAGTCCGAGTGG 60.065 57.143 0.00 0.00 32.18 4.00
3992 5506 2.404923 TCTGAGACCTAGTCCGAGTG 57.595 55.000 0.00 0.00 32.18 3.51
3993 5507 2.506231 TGATCTGAGACCTAGTCCGAGT 59.494 50.000 0.00 0.00 32.18 4.18
3994 5508 3.201353 TGATCTGAGACCTAGTCCGAG 57.799 52.381 0.00 0.00 32.18 4.63
3995 5509 3.646736 TTGATCTGAGACCTAGTCCGA 57.353 47.619 0.00 0.00 32.18 4.55
3997 5511 6.096282 GGCTATATTGATCTGAGACCTAGTCC 59.904 46.154 0.00 0.00 32.18 3.85
3998 5512 6.661377 TGGCTATATTGATCTGAGACCTAGTC 59.339 42.308 0.00 0.00 0.00 2.59
3999 5513 6.556639 TGGCTATATTGATCTGAGACCTAGT 58.443 40.000 0.00 0.00 0.00 2.57
4000 5514 7.473735 TTGGCTATATTGATCTGAGACCTAG 57.526 40.000 0.00 0.00 0.00 3.02
4001 5515 7.855784 TTTGGCTATATTGATCTGAGACCTA 57.144 36.000 0.00 0.00 0.00 3.08
4002 5516 6.753913 TTTGGCTATATTGATCTGAGACCT 57.246 37.500 0.00 0.00 0.00 3.85
4003 5517 8.317679 AGTATTTGGCTATATTGATCTGAGACC 58.682 37.037 0.00 0.00 0.00 3.85
4004 5518 9.717942 AAGTATTTGGCTATATTGATCTGAGAC 57.282 33.333 0.00 0.00 0.00 3.36
4005 5519 9.935241 GAAGTATTTGGCTATATTGATCTGAGA 57.065 33.333 0.00 0.00 0.00 3.27
4077 5592 7.285401 ACCAACACTTGAAACAGAGAATAACAT 59.715 33.333 0.00 0.00 0.00 2.71
4163 5700 8.828644 TGTACGACACAAAACAGTAAACATTAT 58.171 29.630 0.00 0.00 32.95 1.28


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

AutoCloner maintained by Alex Coulton.