Multiple sequence alignment - TraesCS7A01G505700

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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 TraesCS7A01G505700 chr7A 100.000 3218 0 0 1 3218 693399964 693396747 0.000000e+00 5943.0
1 TraesCS7A01G505700 chr7A 74.156 1273 272 38 980 2218 693492718 693493967 2.900000e-130 475.0
2 TraesCS7A01G505700 chr7A 73.401 1282 284 37 957 2206 694097475 694096219 2.970000e-115 425.0
3 TraesCS7A01G505700 chr7A 79.821 223 40 3 975 1194 693406658 693406438 1.200000e-34 158.0
4 TraesCS7A01G505700 chr7A 74.065 401 83 9 1443 1825 667937529 667937926 9.300000e-31 145.0
5 TraesCS7A01G505700 chr7A 79.808 104 11 7 67 165 48480707 48480805 2.070000e-07 67.6
6 TraesCS7A01G505700 chr7D 93.269 2377 91 31 642 2970 601787409 601785054 0.000000e+00 3439.0
7 TraesCS7A01G505700 chr7D 89.361 2284 193 23 712 2972 601700065 601697809 0.000000e+00 2826.0
8 TraesCS7A01G505700 chr7D 84.220 564 44 17 83 633 601787990 601787459 1.030000e-139 507.0
9 TraesCS7A01G505700 chr7D 78.130 599 119 10 996 1588 601914896 601915488 1.410000e-98 370.0
10 TraesCS7A01G505700 chr7D 77.258 598 120 14 979 1568 601584175 601583586 1.430000e-88 337.0
11 TraesCS7A01G505700 chr7D 78.125 544 101 13 959 1487 601590422 601589882 2.390000e-86 329.0
12 TraesCS7A01G505700 chr7D 84.279 229 29 6 91 314 601700721 601700495 1.940000e-52 217.0
13 TraesCS7A01G505700 chr7D 85.065 154 9 3 489 633 601700362 601700214 9.300000e-31 145.0
14 TraesCS7A01G505700 chr7D 78.027 223 44 3 975 1194 601843126 601842906 5.600000e-28 135.0
15 TraesCS7A01G505700 chr7D 95.312 64 3 0 57 120 601700820 601700757 5.680000e-18 102.0
16 TraesCS7A01G505700 chr7D 88.095 84 10 0 319 402 601700515 601700432 2.040000e-17 100.0
17 TraesCS7A01G505700 chr7D 95.455 44 2 0 640 683 601700164 601700121 1.600000e-08 71.3
18 TraesCS7A01G505700 chr7B 90.351 2052 155 16 237 2261 680855220 680853185 0.000000e+00 2652.0
19 TraesCS7A01G505700 chr7B 89.655 696 53 12 2291 2972 680853185 680852495 0.000000e+00 869.0
20 TraesCS7A01G505700 chr7B 76.752 942 157 27 1318 2243 732713330 732712435 1.350000e-128 470.0
21 TraesCS7A01G505700 chr7B 73.006 1304 283 45 957 2220 682927497 682926223 8.370000e-106 394.0
22 TraesCS7A01G505700 chr7B 72.324 1308 294 48 957 2220 682967620 682966337 6.610000e-92 348.0
23 TraesCS7A01G505700 chr7B 76.282 468 95 14 969 1428 680692079 680691620 5.370000e-58 235.0
24 TraesCS7A01G505700 chr7B 92.523 107 6 2 1 106 680855310 680855205 5.560000e-33 152.0
25 TraesCS7A01G505700 chr7B 100.000 37 0 0 352 388 680658253 680658217 5.760000e-08 69.4
26 TraesCS7A01G505700 chr1B 79.692 1300 228 21 959 2243 560020316 560019038 0.000000e+00 905.0
27 TraesCS7A01G505700 chr1D 79.457 1290 232 17 959 2235 414568436 414567167 0.000000e+00 883.0
28 TraesCS7A01G505700 chr2D 77.293 1559 278 54 969 2494 33340667 33342182 0.000000e+00 848.0
29 TraesCS7A01G505700 chr2D 93.878 49 2 1 83 130 413271836 413271884 4.450000e-09 73.1
30 TraesCS7A01G505700 chr3A 76.484 1280 244 35 993 2242 731787401 731786149 0.000000e+00 643.0
31 TraesCS7A01G505700 chrUn 74.230 1494 311 56 972 2421 60949841 60948378 2.800000e-155 558.0
32 TraesCS7A01G505700 chr4A 75.291 1287 256 46 993 2243 601183327 601182067 2.800000e-155 558.0
33 TraesCS7A01G505700 chr6B 74.042 1279 274 41 995 2242 2809018 2807767 1.350000e-128 470.0
34 TraesCS7A01G505700 chr2B 73.988 865 182 30 991 1825 801177598 801178449 8.670000e-81 311.0
35 TraesCS7A01G505700 chr5D 86.000 100 6 7 82 174 410079890 410079988 2.040000e-17 100.0
36 TraesCS7A01G505700 chr5D 89.474 57 4 2 87 143 410245614 410245668 1.600000e-08 71.3
37 TraesCS7A01G505700 chr2A 81.176 85 8 7 85 164 523459882 523459801 9.640000e-06 62.1


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 TraesCS7A01G505700 chr7A 693396747 693399964 3217 True 5943.000000 5943 100.0000 1 3218 1 chr7A.!!$R1 3217
1 TraesCS7A01G505700 chr7A 693492718 693493967 1249 False 475.000000 475 74.1560 980 2218 1 chr7A.!!$F3 1238
2 TraesCS7A01G505700 chr7A 694096219 694097475 1256 True 425.000000 425 73.4010 957 2206 1 chr7A.!!$R3 1249
3 TraesCS7A01G505700 chr7D 601785054 601787990 2936 True 1973.000000 3439 88.7445 83 2970 2 chr7D.!!$R5 2887
4 TraesCS7A01G505700 chr7D 601697809 601700820 3011 True 576.883333 2826 89.5945 57 2972 6 chr7D.!!$R4 2915
5 TraesCS7A01G505700 chr7D 601914896 601915488 592 False 370.000000 370 78.1300 996 1588 1 chr7D.!!$F1 592
6 TraesCS7A01G505700 chr7D 601583586 601584175 589 True 337.000000 337 77.2580 979 1568 1 chr7D.!!$R1 589
7 TraesCS7A01G505700 chr7D 601589882 601590422 540 True 329.000000 329 78.1250 959 1487 1 chr7D.!!$R2 528
8 TraesCS7A01G505700 chr7B 680852495 680855310 2815 True 1224.333333 2652 90.8430 1 2972 3 chr7B.!!$R6 2971
9 TraesCS7A01G505700 chr7B 732712435 732713330 895 True 470.000000 470 76.7520 1318 2243 1 chr7B.!!$R5 925
10 TraesCS7A01G505700 chr7B 682926223 682927497 1274 True 394.000000 394 73.0060 957 2220 1 chr7B.!!$R3 1263
11 TraesCS7A01G505700 chr7B 682966337 682967620 1283 True 348.000000 348 72.3240 957 2220 1 chr7B.!!$R4 1263
12 TraesCS7A01G505700 chr1B 560019038 560020316 1278 True 905.000000 905 79.6920 959 2243 1 chr1B.!!$R1 1284
13 TraesCS7A01G505700 chr1D 414567167 414568436 1269 True 883.000000 883 79.4570 959 2235 1 chr1D.!!$R1 1276
14 TraesCS7A01G505700 chr2D 33340667 33342182 1515 False 848.000000 848 77.2930 969 2494 1 chr2D.!!$F1 1525
15 TraesCS7A01G505700 chr3A 731786149 731787401 1252 True 643.000000 643 76.4840 993 2242 1 chr3A.!!$R1 1249
16 TraesCS7A01G505700 chrUn 60948378 60949841 1463 True 558.000000 558 74.2300 972 2421 1 chrUn.!!$R1 1449
17 TraesCS7A01G505700 chr4A 601182067 601183327 1260 True 558.000000 558 75.2910 993 2243 1 chr4A.!!$R1 1250
18 TraesCS7A01G505700 chr6B 2807767 2809018 1251 True 470.000000 470 74.0420 995 2242 1 chr6B.!!$R1 1247
19 TraesCS7A01G505700 chr2B 801177598 801178449 851 False 311.000000 311 73.9880 991 1825 1 chr2B.!!$F1 834

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
433 657 0.678048 AAAAGACTCTGCCGCATCCC 60.678 55.000 0.0 0.0 0.0 3.85 F
480 706 2.281070 CCCATCCCCATTCGAGCG 60.281 66.667 0.0 0.0 0.0 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1652 2057 0.043334 AGGATACCAGTGGAGGCTGT 59.957 55.000 18.4 0.0 34.84 4.40 R
2311 2786 2.094078 CCATCCAAAATGGCATGTTCGT 60.094 45.455 0.0 0.0 37.47 3.85 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
34 35 8.293114 ACAAAATTTGGAAATTATGTCACGTC 57.707 30.769 10.71 0.00 37.62 4.34
47 48 3.619729 TGTCACGTCGCAATTTTAAACC 58.380 40.909 0.00 0.00 0.00 3.27
50 51 4.736307 GTCACGTCGCAATTTTAAACCTTT 59.264 37.500 0.00 0.00 0.00 3.11
53 54 5.893726 CACGTCGCAATTTTAAACCTTTTTG 59.106 36.000 0.00 0.00 0.00 2.44
193 195 9.759259 GGCATTTTTAAGAGATTGCATTTTTAC 57.241 29.630 0.00 0.00 0.00 2.01
209 211 8.555361 TGCATTTTTACAAAAATTAACAGAGGC 58.445 29.630 9.41 8.25 43.91 4.70
210 212 8.555361 GCATTTTTACAAAAATTAACAGAGGCA 58.445 29.630 9.41 0.00 43.91 4.75
214 216 9.660180 TTTTACAAAAATTAACAGAGGCAAAGT 57.340 25.926 0.00 0.00 0.00 2.66
215 217 9.660180 TTTACAAAAATTAACAGAGGCAAAGTT 57.340 25.926 0.00 0.00 0.00 2.66
218 220 9.830975 ACAAAAATTAACAGAGGCAAAGTTATT 57.169 25.926 0.00 0.00 0.00 1.40
236 238 9.857957 AAAGTTATTTCTTTGTTTTTACCGACA 57.142 25.926 0.00 0.00 36.46 4.35
238 240 9.458374 AGTTATTTCTTTGTTTTTACCGACATG 57.542 29.630 0.00 0.00 0.00 3.21
345 560 4.442073 GCATTCTTGTAAAATAGCATGGCG 59.558 41.667 0.00 0.00 0.00 5.69
428 652 3.003793 AGAAAAAGAAAAGACTCTGCCGC 59.996 43.478 0.00 0.00 0.00 6.53
429 653 1.967319 AAAGAAAAGACTCTGCCGCA 58.033 45.000 0.00 0.00 0.00 5.69
432 656 0.729690 GAAAAGACTCTGCCGCATCC 59.270 55.000 0.00 0.00 0.00 3.51
433 657 0.678048 AAAAGACTCTGCCGCATCCC 60.678 55.000 0.00 0.00 0.00 3.85
434 658 2.543067 AAAGACTCTGCCGCATCCCC 62.543 60.000 0.00 0.00 0.00 4.81
435 659 3.785859 GACTCTGCCGCATCCCCA 61.786 66.667 0.00 0.00 0.00 4.96
449 675 2.723530 TCCCCATTCCTCTATCCTCC 57.276 55.000 0.00 0.00 0.00 4.30
480 706 2.281070 CCCATCCCCATTCGAGCG 60.281 66.667 0.00 0.00 0.00 5.03
912 1232 7.610305 CCTCCTTCCTGTATTTTACTTGCTTTA 59.390 37.037 0.00 0.00 0.00 1.85
988 1315 4.698575 GTCTTTTCAGTTCACTGGACTCT 58.301 43.478 7.11 0.00 43.91 3.24
1652 2057 0.756070 TCACCTGTACACCACCGTGA 60.756 55.000 0.00 0.00 43.14 4.35
2310 2785 3.283751 AGTACTAGCAGACCAGCAGTAG 58.716 50.000 0.00 0.00 36.85 2.57
2311 2786 2.516227 ACTAGCAGACCAGCAGTAGA 57.484 50.000 0.00 0.00 36.85 2.59
2312 2787 2.096248 ACTAGCAGACCAGCAGTAGAC 58.904 52.381 0.00 0.00 36.85 2.59
2398 2877 9.679661 TGTGCTGAATATCCTTTTAATGTTCTA 57.320 29.630 0.00 0.00 0.00 2.10
2472 2952 2.308570 TGCCTCCCAAATCTGCTTTAGA 59.691 45.455 0.00 0.00 40.37 2.10
2481 2961 2.647529 TCTGCTTTAGATTCGTCGCA 57.352 45.000 0.00 0.00 0.00 5.10
2548 3028 7.172361 GTCTTTCTTTTACTGCAAGATGAGACT 59.828 37.037 15.35 0.00 38.80 3.24
2721 3207 8.511321 TGTGTGTCAACATGTTTTATTAGGATC 58.489 33.333 8.77 0.79 38.92 3.36
2730 3216 8.343974 CATGTTTTATTAGGATCACAACATGC 57.656 34.615 8.68 0.00 41.61 4.06
2735 3221 9.549078 TTTTATTAGGATCACAACATGCGTATA 57.451 29.630 0.00 0.00 0.00 1.47
2754 3241 6.599437 CGTATAATGGCCTTAATTAGCACAC 58.401 40.000 3.32 0.00 0.00 3.82
2813 3300 0.825010 AGAGCCTTGGTGCTTTGGTG 60.825 55.000 0.00 0.00 42.95 4.17
2822 3310 1.272212 GGTGCTTTGGTGGTATGTTGG 59.728 52.381 0.00 0.00 0.00 3.77
2956 3462 3.749226 CCTCTTCTTGGTTCAGCTTTCT 58.251 45.455 0.00 0.00 0.00 2.52
2958 3464 4.504689 CCTCTTCTTGGTTCAGCTTTCTCT 60.505 45.833 0.00 0.00 0.00 3.10
2972 3478 6.820656 TCAGCTTTCTCTGGATAAAACATCTC 59.179 38.462 0.00 0.00 34.91 2.75
2973 3479 6.822676 CAGCTTTCTCTGGATAAAACATCTCT 59.177 38.462 0.00 0.00 0.00 3.10
2974 3480 7.336427 CAGCTTTCTCTGGATAAAACATCTCTT 59.664 37.037 0.00 0.00 0.00 2.85
2975 3481 7.887495 AGCTTTCTCTGGATAAAACATCTCTTT 59.113 33.333 0.00 0.00 0.00 2.52
2976 3482 8.518702 GCTTTCTCTGGATAAAACATCTCTTTT 58.481 33.333 0.00 0.00 0.00 2.27
2978 3484 9.799106 TTTCTCTGGATAAAACATCTCTTTTCT 57.201 29.630 0.00 0.00 0.00 2.52
2979 3485 9.442047 TTCTCTGGATAAAACATCTCTTTTCTC 57.558 33.333 0.00 0.00 0.00 2.87
2980 3486 8.043710 TCTCTGGATAAAACATCTCTTTTCTCC 58.956 37.037 0.00 0.00 37.11 3.71
2981 3487 7.112779 TCTGGATAAAACATCTCTTTTCTCCC 58.887 38.462 6.43 0.00 36.34 4.30
2982 3488 6.187682 TGGATAAAACATCTCTTTTCTCCCC 58.812 40.000 6.43 0.00 36.34 4.81
2983 3489 6.011628 TGGATAAAACATCTCTTTTCTCCCCT 60.012 38.462 6.43 0.00 36.34 4.79
2984 3490 6.544197 GGATAAAACATCTCTTTTCTCCCCTC 59.456 42.308 0.00 0.00 33.36 4.30
2985 3491 5.324832 AAAACATCTCTTTTCTCCCCTCA 57.675 39.130 0.00 0.00 0.00 3.86
2986 3492 5.324832 AAACATCTCTTTTCTCCCCTCAA 57.675 39.130 0.00 0.00 0.00 3.02
2987 3493 4.293662 ACATCTCTTTTCTCCCCTCAAC 57.706 45.455 0.00 0.00 0.00 3.18
2988 3494 3.913163 ACATCTCTTTTCTCCCCTCAACT 59.087 43.478 0.00 0.00 0.00 3.16
2989 3495 4.260170 CATCTCTTTTCTCCCCTCAACTG 58.740 47.826 0.00 0.00 0.00 3.16
2990 3496 3.587498 TCTCTTTTCTCCCCTCAACTGA 58.413 45.455 0.00 0.00 0.00 3.41
2991 3497 3.580458 TCTCTTTTCTCCCCTCAACTGAG 59.420 47.826 0.00 0.00 41.71 3.35
2992 3498 3.580458 CTCTTTTCTCCCCTCAACTGAGA 59.420 47.826 8.33 0.00 44.74 3.27
2993 3499 3.325135 TCTTTTCTCCCCTCAACTGAGAC 59.675 47.826 8.33 0.00 44.74 3.36
2994 3500 1.257743 TTCTCCCCTCAACTGAGACG 58.742 55.000 8.33 0.00 44.74 4.18
2995 3501 1.216710 CTCCCCTCAACTGAGACGC 59.783 63.158 8.33 0.00 44.74 5.19
2996 3502 2.232298 CTCCCCTCAACTGAGACGCC 62.232 65.000 8.33 0.00 44.74 5.68
2997 3503 2.125912 CCCTCAACTGAGACGCCG 60.126 66.667 8.33 0.00 44.74 6.46
2998 3504 2.125912 CCTCAACTGAGACGCCGG 60.126 66.667 8.33 0.00 44.74 6.13
2999 3505 2.636412 CCTCAACTGAGACGCCGGA 61.636 63.158 5.05 0.00 44.74 5.14
3000 3506 1.444553 CTCAACTGAGACGCCGGAC 60.445 63.158 5.05 0.00 44.74 4.79
3001 3507 1.867919 CTCAACTGAGACGCCGGACT 61.868 60.000 5.05 0.00 44.74 3.85
3002 3508 1.734477 CAACTGAGACGCCGGACTG 60.734 63.158 5.05 0.00 0.00 3.51
3003 3509 1.901948 AACTGAGACGCCGGACTGA 60.902 57.895 5.05 0.00 0.00 3.41
3004 3510 1.461091 AACTGAGACGCCGGACTGAA 61.461 55.000 5.05 0.00 0.00 3.02
3005 3511 1.444553 CTGAGACGCCGGACTGAAC 60.445 63.158 5.05 0.00 0.00 3.18
3006 3512 2.142357 CTGAGACGCCGGACTGAACA 62.142 60.000 5.05 0.00 0.00 3.18
3007 3513 1.006571 GAGACGCCGGACTGAACAA 60.007 57.895 5.05 0.00 0.00 2.83
3008 3514 0.389948 GAGACGCCGGACTGAACAAT 60.390 55.000 5.05 0.00 0.00 2.71
3009 3515 0.034896 AGACGCCGGACTGAACAATT 59.965 50.000 5.05 0.00 0.00 2.32
3010 3516 1.274167 AGACGCCGGACTGAACAATTA 59.726 47.619 5.05 0.00 0.00 1.40
3011 3517 1.659098 GACGCCGGACTGAACAATTAG 59.341 52.381 5.05 0.00 0.00 1.73
3012 3518 0.373716 CGCCGGACTGAACAATTAGC 59.626 55.000 5.05 0.00 0.00 3.09
3013 3519 1.448985 GCCGGACTGAACAATTAGCA 58.551 50.000 5.05 0.00 0.00 3.49
3014 3520 1.130561 GCCGGACTGAACAATTAGCAC 59.869 52.381 5.05 0.00 0.00 4.40
3015 3521 2.699954 CCGGACTGAACAATTAGCACT 58.300 47.619 0.00 0.00 0.00 4.40
3016 3522 3.857052 CCGGACTGAACAATTAGCACTA 58.143 45.455 0.00 0.00 0.00 2.74
3017 3523 3.865745 CCGGACTGAACAATTAGCACTAG 59.134 47.826 0.00 0.00 0.00 2.57
3018 3524 4.381612 CCGGACTGAACAATTAGCACTAGA 60.382 45.833 0.00 0.00 0.00 2.43
3019 3525 5.168569 CGGACTGAACAATTAGCACTAGAA 58.831 41.667 0.00 0.00 0.00 2.10
3020 3526 5.062308 CGGACTGAACAATTAGCACTAGAAC 59.938 44.000 0.00 0.00 0.00 3.01
3021 3527 5.062308 GGACTGAACAATTAGCACTAGAACG 59.938 44.000 0.00 0.00 0.00 3.95
3022 3528 5.779922 ACTGAACAATTAGCACTAGAACGA 58.220 37.500 0.00 0.00 0.00 3.85
3023 3529 6.398918 ACTGAACAATTAGCACTAGAACGAT 58.601 36.000 0.00 0.00 0.00 3.73
3024 3530 7.544622 ACTGAACAATTAGCACTAGAACGATA 58.455 34.615 0.00 0.00 0.00 2.92
3025 3531 8.198109 ACTGAACAATTAGCACTAGAACGATAT 58.802 33.333 0.00 0.00 0.00 1.63
3026 3532 8.575565 TGAACAATTAGCACTAGAACGATATC 57.424 34.615 0.00 0.00 0.00 1.63
3027 3533 7.378728 TGAACAATTAGCACTAGAACGATATCG 59.621 37.037 23.18 23.18 46.33 2.92
3028 3534 6.967135 ACAATTAGCACTAGAACGATATCGA 58.033 36.000 30.75 8.08 43.02 3.59
3029 3535 7.423199 ACAATTAGCACTAGAACGATATCGAA 58.577 34.615 30.75 11.12 43.02 3.71
3030 3536 7.378995 ACAATTAGCACTAGAACGATATCGAAC 59.621 37.037 30.75 21.42 43.02 3.95
3031 3537 4.895224 AGCACTAGAACGATATCGAACA 57.105 40.909 30.75 11.76 43.02 3.18
3032 3538 4.849883 AGCACTAGAACGATATCGAACAG 58.150 43.478 30.75 21.03 43.02 3.16
3033 3539 4.575236 AGCACTAGAACGATATCGAACAGA 59.425 41.667 30.75 13.88 43.02 3.41
3034 3540 5.066117 AGCACTAGAACGATATCGAACAGAA 59.934 40.000 30.75 10.12 43.02 3.02
3035 3541 5.396947 GCACTAGAACGATATCGAACAGAAG 59.603 44.000 30.75 19.49 43.02 2.85
3036 3542 6.716438 CACTAGAACGATATCGAACAGAAGA 58.284 40.000 30.75 7.05 43.02 2.87
3037 3543 6.629649 CACTAGAACGATATCGAACAGAAGAC 59.370 42.308 30.75 10.45 43.02 3.01
3038 3544 4.589252 AGAACGATATCGAACAGAAGACG 58.411 43.478 30.75 1.18 43.02 4.18
3039 3545 4.331992 AGAACGATATCGAACAGAAGACGA 59.668 41.667 30.75 0.00 43.02 4.20
3040 3546 3.937874 ACGATATCGAACAGAAGACGAC 58.062 45.455 30.75 0.00 43.02 4.34
3041 3547 3.242673 ACGATATCGAACAGAAGACGACC 60.243 47.826 30.75 0.00 43.02 4.79
3042 3548 3.002451 CGATATCGAACAGAAGACGACCT 59.998 47.826 20.50 0.00 43.02 3.85
3043 3549 4.496010 CGATATCGAACAGAAGACGACCTT 60.496 45.833 20.50 0.00 43.02 3.50
3044 3550 3.662247 ATCGAACAGAAGACGACCTTT 57.338 42.857 0.00 0.00 38.79 3.11
3045 3551 3.447918 TCGAACAGAAGACGACCTTTT 57.552 42.857 0.00 0.00 34.68 2.27
3046 3552 3.378339 TCGAACAGAAGACGACCTTTTC 58.622 45.455 0.00 0.00 34.68 2.29
3047 3553 3.120792 CGAACAGAAGACGACCTTTTCA 58.879 45.455 0.00 0.00 34.68 2.69
3048 3554 3.182572 CGAACAGAAGACGACCTTTTCAG 59.817 47.826 0.00 0.00 34.68 3.02
3050 3556 2.698797 ACAGAAGACGACCTTTTCAGGA 59.301 45.455 0.00 0.00 44.19 3.86
3051 3557 3.134081 ACAGAAGACGACCTTTTCAGGAA 59.866 43.478 0.00 0.00 44.19 3.36
3052 3558 4.202367 ACAGAAGACGACCTTTTCAGGAAT 60.202 41.667 0.00 0.00 44.19 3.01
3053 3559 4.153117 CAGAAGACGACCTTTTCAGGAATG 59.847 45.833 0.00 0.00 44.19 2.67
3054 3560 3.771577 AGACGACCTTTTCAGGAATGT 57.228 42.857 0.00 0.00 44.19 2.71
3055 3561 4.086706 AGACGACCTTTTCAGGAATGTT 57.913 40.909 0.00 0.00 44.19 2.71
3056 3562 4.461198 AGACGACCTTTTCAGGAATGTTT 58.539 39.130 0.00 0.00 44.19 2.83
3057 3563 4.887655 AGACGACCTTTTCAGGAATGTTTT 59.112 37.500 0.00 0.00 44.19 2.43
3058 3564 5.359860 AGACGACCTTTTCAGGAATGTTTTT 59.640 36.000 0.00 0.00 44.19 1.94
3075 3581 1.616159 TTTTTGCTGAGTGGGCCTAC 58.384 50.000 12.09 12.09 0.00 3.18
3076 3582 0.605319 TTTTGCTGAGTGGGCCTACG 60.605 55.000 14.26 0.51 0.00 3.51
3077 3583 1.764571 TTTGCTGAGTGGGCCTACGT 61.765 55.000 14.26 2.03 0.00 3.57
3078 3584 1.764571 TTGCTGAGTGGGCCTACGTT 61.765 55.000 14.26 0.00 0.00 3.99
3079 3585 1.741770 GCTGAGTGGGCCTACGTTG 60.742 63.158 14.26 8.65 0.00 4.10
3080 3586 1.079127 CTGAGTGGGCCTACGTTGG 60.079 63.158 14.26 12.02 0.00 3.77
3081 3587 1.534476 TGAGTGGGCCTACGTTGGA 60.534 57.895 20.66 0.00 0.00 3.53
3082 3588 0.907704 TGAGTGGGCCTACGTTGGAT 60.908 55.000 20.66 0.00 0.00 3.41
3083 3589 0.252197 GAGTGGGCCTACGTTGGATT 59.748 55.000 20.66 0.00 0.00 3.01
3084 3590 1.483415 GAGTGGGCCTACGTTGGATTA 59.517 52.381 20.66 1.43 0.00 1.75
3085 3591 2.104281 GAGTGGGCCTACGTTGGATTAT 59.896 50.000 20.66 0.66 0.00 1.28
3086 3592 3.311091 AGTGGGCCTACGTTGGATTATA 58.689 45.455 20.66 0.00 0.00 0.98
3087 3593 3.908103 AGTGGGCCTACGTTGGATTATAT 59.092 43.478 20.66 0.00 0.00 0.86
3088 3594 5.088730 AGTGGGCCTACGTTGGATTATATA 58.911 41.667 20.66 0.00 0.00 0.86
3089 3595 5.187186 AGTGGGCCTACGTTGGATTATATAG 59.813 44.000 20.66 0.00 0.00 1.31
3090 3596 5.186409 GTGGGCCTACGTTGGATTATATAGA 59.814 44.000 20.66 0.00 0.00 1.98
3091 3597 5.781306 TGGGCCTACGTTGGATTATATAGAA 59.219 40.000 20.66 0.00 0.00 2.10
3092 3598 6.270463 TGGGCCTACGTTGGATTATATAGAAA 59.730 38.462 20.66 0.00 0.00 2.52
3093 3599 6.592994 GGGCCTACGTTGGATTATATAGAAAC 59.407 42.308 20.66 0.00 0.00 2.78
3094 3600 6.309737 GGCCTACGTTGGATTATATAGAAACG 59.690 42.308 20.66 14.49 44.28 3.60
3099 3605 7.703298 CGTTGGATTATATAGAAACGTTGGA 57.297 36.000 0.00 0.00 36.54 3.53
3100 3606 8.306680 CGTTGGATTATATAGAAACGTTGGAT 57.693 34.615 0.00 0.00 36.54 3.41
3101 3607 8.770828 CGTTGGATTATATAGAAACGTTGGATT 58.229 33.333 0.00 0.00 36.54 3.01
3118 3624 9.698309 ACGTTGGATTATATAGATGAGAAACAG 57.302 33.333 0.00 0.00 0.00 3.16
3119 3625 9.914131 CGTTGGATTATATAGATGAGAAACAGA 57.086 33.333 0.00 0.00 0.00 3.41
3131 3637 7.664082 GATGAGAAACAGAGTTCATCTTTCA 57.336 36.000 6.17 0.00 41.55 2.69
3132 3638 8.092521 GATGAGAAACAGAGTTCATCTTTCAA 57.907 34.615 6.17 0.00 41.55 2.69
3133 3639 7.864108 TGAGAAACAGAGTTCATCTTTCAAA 57.136 32.000 0.00 0.00 35.47 2.69
3134 3640 7.923888 TGAGAAACAGAGTTCATCTTTCAAAG 58.076 34.615 0.00 0.00 35.47 2.77
3135 3641 7.770433 TGAGAAACAGAGTTCATCTTTCAAAGA 59.230 33.333 1.30 1.30 42.69 2.52
3136 3642 8.511604 AGAAACAGAGTTCATCTTTCAAAGAA 57.488 30.769 3.35 0.00 41.63 2.52
3137 3643 8.401709 AGAAACAGAGTTCATCTTTCAAAGAAC 58.598 33.333 3.35 0.00 41.63 3.01
3144 3650 7.639945 AGTTCATCTTTCAAAGAACTTTACGG 58.360 34.615 3.35 0.00 46.02 4.02
3145 3651 7.497909 AGTTCATCTTTCAAAGAACTTTACGGA 59.502 33.333 3.35 0.00 46.02 4.69
3146 3652 7.795482 TCATCTTTCAAAGAACTTTACGGAA 57.205 32.000 3.35 0.00 41.63 4.30
3147 3653 8.391075 TCATCTTTCAAAGAACTTTACGGAAT 57.609 30.769 3.35 0.00 41.63 3.01
3148 3654 8.504005 TCATCTTTCAAAGAACTTTACGGAATC 58.496 33.333 3.35 0.00 41.63 2.52
3149 3655 7.795482 TCTTTCAAAGAACTTTACGGAATCA 57.205 32.000 0.00 0.00 33.83 2.57
3150 3656 7.636326 TCTTTCAAAGAACTTTACGGAATCAC 58.364 34.615 0.00 0.00 33.83 3.06
3151 3657 5.934935 TCAAAGAACTTTACGGAATCACC 57.065 39.130 0.00 0.00 0.00 4.02
3152 3658 5.617252 TCAAAGAACTTTACGGAATCACCT 58.383 37.500 0.00 0.00 36.31 4.00
3153 3659 6.059484 TCAAAGAACTTTACGGAATCACCTT 58.941 36.000 0.00 0.00 36.31 3.50
3154 3660 5.941948 AAGAACTTTACGGAATCACCTTG 57.058 39.130 0.00 0.00 36.31 3.61
3155 3661 3.751698 AGAACTTTACGGAATCACCTTGC 59.248 43.478 0.00 0.00 36.31 4.01
3156 3662 2.433436 ACTTTACGGAATCACCTTGCC 58.567 47.619 0.00 0.00 36.31 4.52
3157 3663 1.743394 CTTTACGGAATCACCTTGCCC 59.257 52.381 0.00 0.00 36.31 5.36
3158 3664 0.693622 TTACGGAATCACCTTGCCCA 59.306 50.000 0.00 0.00 36.31 5.36
3159 3665 0.693622 TACGGAATCACCTTGCCCAA 59.306 50.000 0.00 0.00 36.31 4.12
3160 3666 0.609131 ACGGAATCACCTTGCCCAAG 60.609 55.000 1.05 1.05 38.14 3.61
3161 3667 1.893062 GGAATCACCTTGCCCAAGC 59.107 57.895 2.51 0.00 37.11 4.01
3170 3676 2.516405 TGCCCAAGCACCCGTTTA 59.484 55.556 0.00 0.00 46.52 2.01
3171 3677 1.602323 TGCCCAAGCACCCGTTTAG 60.602 57.895 0.00 0.00 46.52 1.85
3172 3678 2.989881 GCCCAAGCACCCGTTTAGC 61.990 63.158 0.00 0.00 39.53 3.09
3173 3679 1.602323 CCCAAGCACCCGTTTAGCA 60.602 57.895 0.00 0.00 0.00 3.49
3174 3680 0.965363 CCCAAGCACCCGTTTAGCAT 60.965 55.000 0.00 0.00 0.00 3.79
3175 3681 0.887933 CCAAGCACCCGTTTAGCATT 59.112 50.000 0.00 0.00 0.00 3.56
3176 3682 2.088423 CCAAGCACCCGTTTAGCATTA 58.912 47.619 0.00 0.00 0.00 1.90
3177 3683 2.159435 CCAAGCACCCGTTTAGCATTAC 60.159 50.000 0.00 0.00 0.00 1.89
3178 3684 2.747446 CAAGCACCCGTTTAGCATTACT 59.253 45.455 0.00 0.00 0.00 2.24
3179 3685 3.067684 AGCACCCGTTTAGCATTACTT 57.932 42.857 0.00 0.00 0.00 2.24
3180 3686 2.747446 AGCACCCGTTTAGCATTACTTG 59.253 45.455 0.00 0.00 0.00 3.16
3181 3687 2.745281 GCACCCGTTTAGCATTACTTGA 59.255 45.455 0.00 0.00 0.00 3.02
3182 3688 3.181510 GCACCCGTTTAGCATTACTTGAG 60.182 47.826 0.00 0.00 0.00 3.02
3183 3689 4.000988 CACCCGTTTAGCATTACTTGAGT 58.999 43.478 0.00 0.00 0.00 3.41
3184 3690 4.454504 CACCCGTTTAGCATTACTTGAGTT 59.545 41.667 0.00 0.00 0.00 3.01
3185 3691 5.048991 CACCCGTTTAGCATTACTTGAGTTT 60.049 40.000 0.00 0.00 0.00 2.66
3186 3692 5.048991 ACCCGTTTAGCATTACTTGAGTTTG 60.049 40.000 0.00 0.00 0.00 2.93
3187 3693 5.048991 CCCGTTTAGCATTACTTGAGTTTGT 60.049 40.000 0.00 0.00 0.00 2.83
3188 3694 6.077838 CCGTTTAGCATTACTTGAGTTTGTC 58.922 40.000 0.00 0.00 0.00 3.18
3189 3695 6.077838 CGTTTAGCATTACTTGAGTTTGTCC 58.922 40.000 0.00 0.00 0.00 4.02
3190 3696 6.293190 CGTTTAGCATTACTTGAGTTTGTCCA 60.293 38.462 0.00 0.00 0.00 4.02
3191 3697 6.801539 TTAGCATTACTTGAGTTTGTCCAG 57.198 37.500 0.00 0.00 0.00 3.86
3192 3698 4.718961 AGCATTACTTGAGTTTGTCCAGT 58.281 39.130 0.00 0.00 35.37 4.00
3193 3699 5.133221 AGCATTACTTGAGTTTGTCCAGTT 58.867 37.500 0.00 0.00 33.28 3.16
3194 3700 5.594317 AGCATTACTTGAGTTTGTCCAGTTT 59.406 36.000 0.00 0.00 33.28 2.66
3195 3701 6.096846 AGCATTACTTGAGTTTGTCCAGTTTT 59.903 34.615 0.00 0.00 33.28 2.43
3196 3702 6.756542 GCATTACTTGAGTTTGTCCAGTTTTT 59.243 34.615 0.00 0.00 33.28 1.94
3197 3703 7.918562 GCATTACTTGAGTTTGTCCAGTTTTTA 59.081 33.333 0.00 0.00 33.28 1.52
3198 3704 9.796120 CATTACTTGAGTTTGTCCAGTTTTTAA 57.204 29.630 0.00 0.00 33.28 1.52
3200 3706 6.330278 ACTTGAGTTTGTCCAGTTTTTAAGC 58.670 36.000 0.00 0.00 26.10 3.09
3201 3707 6.152831 ACTTGAGTTTGTCCAGTTTTTAAGCT 59.847 34.615 0.00 0.00 26.10 3.74
3202 3708 6.131544 TGAGTTTGTCCAGTTTTTAAGCTC 57.868 37.500 0.00 0.00 31.78 4.09
3203 3709 5.885912 TGAGTTTGTCCAGTTTTTAAGCTCT 59.114 36.000 0.00 0.00 32.21 4.09
3204 3710 6.038271 TGAGTTTGTCCAGTTTTTAAGCTCTC 59.962 38.462 0.00 0.00 32.21 3.20
3205 3711 5.299531 AGTTTGTCCAGTTTTTAAGCTCTCC 59.700 40.000 0.00 0.00 0.00 3.71
3206 3712 3.751518 TGTCCAGTTTTTAAGCTCTCCC 58.248 45.455 0.00 0.00 0.00 4.30
3207 3713 3.137544 TGTCCAGTTTTTAAGCTCTCCCA 59.862 43.478 0.00 0.00 0.00 4.37
3208 3714 4.142038 GTCCAGTTTTTAAGCTCTCCCAA 58.858 43.478 0.00 0.00 0.00 4.12
3209 3715 4.583073 GTCCAGTTTTTAAGCTCTCCCAAA 59.417 41.667 0.00 0.00 0.00 3.28
3210 3716 5.243954 GTCCAGTTTTTAAGCTCTCCCAAAT 59.756 40.000 0.00 0.00 0.00 2.32
3211 3717 5.476945 TCCAGTTTTTAAGCTCTCCCAAATC 59.523 40.000 0.00 0.00 0.00 2.17
3212 3718 5.478332 CCAGTTTTTAAGCTCTCCCAAATCT 59.522 40.000 0.00 0.00 0.00 2.40
3213 3719 6.659242 CCAGTTTTTAAGCTCTCCCAAATCTA 59.341 38.462 0.00 0.00 0.00 1.98
3214 3720 7.148171 CCAGTTTTTAAGCTCTCCCAAATCTAG 60.148 40.741 0.00 0.00 0.00 2.43
3215 3721 7.391833 CAGTTTTTAAGCTCTCCCAAATCTAGT 59.608 37.037 0.00 0.00 0.00 2.57
3216 3722 7.945109 AGTTTTTAAGCTCTCCCAAATCTAGTT 59.055 33.333 0.00 0.00 0.00 2.24
3217 3723 7.687941 TTTTAAGCTCTCCCAAATCTAGTTG 57.312 36.000 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
198 200 9.696917 CAAAGAAATAACTTTGCCTCTGTTAAT 57.303 29.630 0.00 0.00 46.05 1.40
210 212 9.857957 TGTCGGTAAAAACAAAGAAATAACTTT 57.142 25.926 0.00 0.00 40.16 2.66
212 214 9.458374 CATGTCGGTAAAAACAAAGAAATAACT 57.542 29.630 0.00 0.00 0.00 2.24
213 215 8.696175 CCATGTCGGTAAAAACAAAGAAATAAC 58.304 33.333 0.00 0.00 0.00 1.89
214 216 7.382759 GCCATGTCGGTAAAAACAAAGAAATAA 59.617 33.333 0.00 0.00 36.97 1.40
215 217 6.864165 GCCATGTCGGTAAAAACAAAGAAATA 59.136 34.615 0.00 0.00 36.97 1.40
216 218 5.694458 GCCATGTCGGTAAAAACAAAGAAAT 59.306 36.000 0.00 0.00 36.97 2.17
217 219 5.044558 GCCATGTCGGTAAAAACAAAGAAA 58.955 37.500 0.00 0.00 36.97 2.52
218 220 4.098044 TGCCATGTCGGTAAAAACAAAGAA 59.902 37.500 0.00 0.00 36.97 2.52
219 221 3.632604 TGCCATGTCGGTAAAAACAAAGA 59.367 39.130 0.00 0.00 36.97 2.52
220 222 3.971150 TGCCATGTCGGTAAAAACAAAG 58.029 40.909 0.00 0.00 36.97 2.77
221 223 4.592485 ATGCCATGTCGGTAAAAACAAA 57.408 36.364 0.00 0.00 36.97 2.83
222 224 4.592485 AATGCCATGTCGGTAAAAACAA 57.408 36.364 0.00 0.00 36.97 2.83
223 225 4.592485 AAATGCCATGTCGGTAAAAACA 57.408 36.364 0.00 0.00 36.97 2.83
224 226 5.915812 AAAAATGCCATGTCGGTAAAAAC 57.084 34.783 0.00 0.00 36.97 2.43
315 530 8.060931 TGCTATTTTACAAGAATGCCATGTTA 57.939 30.769 0.00 0.00 0.00 2.41
316 531 6.934056 TGCTATTTTACAAGAATGCCATGTT 58.066 32.000 0.00 0.00 0.00 2.71
345 560 5.631929 CCCGGTTTACTGCTTTATTCAAAAC 59.368 40.000 0.00 0.00 0.00 2.43
414 632 0.678048 GGGATGCGGCAGAGTCTTTT 60.678 55.000 9.25 0.00 0.00 2.27
428 652 2.843113 GGAGGATAGAGGAATGGGGATG 59.157 54.545 0.00 0.00 0.00 3.51
429 653 2.460293 TGGAGGATAGAGGAATGGGGAT 59.540 50.000 0.00 0.00 0.00 3.85
432 656 2.264455 CCTGGAGGATAGAGGAATGGG 58.736 57.143 0.00 0.00 37.39 4.00
433 657 2.636893 CACCTGGAGGATAGAGGAATGG 59.363 54.545 0.00 0.00 38.94 3.16
434 658 3.581101 TCACCTGGAGGATAGAGGAATG 58.419 50.000 0.00 0.00 38.94 2.67
435 659 4.286813 TTCACCTGGAGGATAGAGGAAT 57.713 45.455 0.00 0.00 38.94 3.01
563 799 1.227497 GGAGGAGGCAAGCGAGATG 60.227 63.158 0.00 0.00 0.00 2.90
988 1315 3.610619 CTGGCATGGTGCTCCGTCA 62.611 63.158 0.00 0.00 44.28 4.35
1652 2057 0.043334 AGGATACCAGTGGAGGCTGT 59.957 55.000 18.40 0.00 34.84 4.40
2310 2785 3.181397 CATCCAAAATGGCATGTTCGTC 58.819 45.455 0.00 0.00 37.47 4.20
2311 2786 2.094078 CCATCCAAAATGGCATGTTCGT 60.094 45.455 0.00 0.00 37.47 3.85
2312 2787 2.094078 ACCATCCAAAATGGCATGTTCG 60.094 45.455 0.00 0.00 42.82 3.95
2472 2952 2.348666 GTGCATCTTAACTGCGACGAAT 59.651 45.455 0.00 0.00 42.62 3.34
2481 2961 1.067846 TGTCGCTCGTGCATCTTAACT 60.068 47.619 10.43 0.00 39.64 2.24
2548 3028 0.391661 GAGCATGACCAGGAGCGAAA 60.392 55.000 0.00 0.00 0.00 3.46
2670 3156 4.072131 GCATCTGTTAACCTCCTGAAACA 58.928 43.478 2.48 0.00 0.00 2.83
2721 3207 2.618241 AGGCCATTATACGCATGTTGTG 59.382 45.455 5.01 0.00 0.00 3.33
2730 3216 6.426937 AGTGTGCTAATTAAGGCCATTATACG 59.573 38.462 5.01 0.00 0.00 3.06
2735 3221 6.165577 CAAAAGTGTGCTAATTAAGGCCATT 58.834 36.000 5.01 0.00 0.00 3.16
2754 3241 9.962759 GCAGCATTAATCTATCAAAAACAAAAG 57.037 29.630 0.00 0.00 0.00 2.27
2813 3300 3.705072 ACTAGCAGTACTCCCAACATACC 59.295 47.826 0.00 0.00 0.00 2.73
2900 3388 2.818132 GGAGAGCACATCCTCCGG 59.182 66.667 0.00 0.00 39.49 5.14
2972 3478 3.669536 GTCTCAGTTGAGGGGAGAAAAG 58.330 50.000 9.13 0.00 42.30 2.27
2973 3479 2.037251 CGTCTCAGTTGAGGGGAGAAAA 59.963 50.000 9.13 0.00 42.30 2.29
2974 3480 1.618837 CGTCTCAGTTGAGGGGAGAAA 59.381 52.381 9.13 0.00 42.30 2.52
2975 3481 1.257743 CGTCTCAGTTGAGGGGAGAA 58.742 55.000 9.13 0.00 42.30 2.87
2976 3482 1.251527 GCGTCTCAGTTGAGGGGAGA 61.252 60.000 9.13 0.00 42.30 3.71
2977 3483 1.216710 GCGTCTCAGTTGAGGGGAG 59.783 63.158 9.13 0.00 42.30 4.30
2978 3484 2.283529 GGCGTCTCAGTTGAGGGGA 61.284 63.158 9.13 0.00 42.30 4.81
2979 3485 2.266055 GGCGTCTCAGTTGAGGGG 59.734 66.667 9.13 3.28 42.30 4.79
2980 3486 2.125912 CGGCGTCTCAGTTGAGGG 60.126 66.667 9.13 3.59 42.30 4.30
2981 3487 2.125912 CCGGCGTCTCAGTTGAGG 60.126 66.667 6.01 0.00 42.30 3.86
2982 3488 1.444553 GTCCGGCGTCTCAGTTGAG 60.445 63.158 6.01 2.69 43.36 3.02
2983 3489 1.901948 AGTCCGGCGTCTCAGTTGA 60.902 57.895 6.01 0.00 0.00 3.18
2984 3490 1.734477 CAGTCCGGCGTCTCAGTTG 60.734 63.158 6.01 0.00 0.00 3.16
2985 3491 1.461091 TTCAGTCCGGCGTCTCAGTT 61.461 55.000 6.01 0.00 0.00 3.16
2986 3492 1.901948 TTCAGTCCGGCGTCTCAGT 60.902 57.895 6.01 0.00 0.00 3.41
2987 3493 1.444553 GTTCAGTCCGGCGTCTCAG 60.445 63.158 6.01 0.00 0.00 3.35
2988 3494 1.740332 TTGTTCAGTCCGGCGTCTCA 61.740 55.000 6.01 0.00 0.00 3.27
2989 3495 0.389948 ATTGTTCAGTCCGGCGTCTC 60.390 55.000 6.01 0.00 0.00 3.36
2990 3496 0.034896 AATTGTTCAGTCCGGCGTCT 59.965 50.000 6.01 0.44 0.00 4.18
2991 3497 1.659098 CTAATTGTTCAGTCCGGCGTC 59.341 52.381 6.01 0.00 0.00 5.19
2992 3498 1.722011 CTAATTGTTCAGTCCGGCGT 58.278 50.000 6.01 0.00 0.00 5.68
2993 3499 0.373716 GCTAATTGTTCAGTCCGGCG 59.626 55.000 0.00 0.00 0.00 6.46
2994 3500 1.130561 GTGCTAATTGTTCAGTCCGGC 59.869 52.381 0.00 0.00 0.00 6.13
2995 3501 2.699954 AGTGCTAATTGTTCAGTCCGG 58.300 47.619 0.00 0.00 0.00 5.14
2996 3502 4.744570 TCTAGTGCTAATTGTTCAGTCCG 58.255 43.478 0.00 0.00 0.00 4.79
2997 3503 5.062308 CGTTCTAGTGCTAATTGTTCAGTCC 59.938 44.000 0.00 0.00 0.00 3.85
2998 3504 5.862323 TCGTTCTAGTGCTAATTGTTCAGTC 59.138 40.000 0.00 0.00 0.00 3.51
2999 3505 5.779922 TCGTTCTAGTGCTAATTGTTCAGT 58.220 37.500 0.00 0.00 0.00 3.41
3000 3506 6.893958 ATCGTTCTAGTGCTAATTGTTCAG 57.106 37.500 0.00 0.00 0.00 3.02
3001 3507 7.378728 CGATATCGTTCTAGTGCTAATTGTTCA 59.621 37.037 17.06 0.00 34.11 3.18
3002 3508 7.590322 TCGATATCGTTCTAGTGCTAATTGTTC 59.410 37.037 23.61 0.00 40.80 3.18
3003 3509 7.423199 TCGATATCGTTCTAGTGCTAATTGTT 58.577 34.615 23.61 0.00 40.80 2.83
3004 3510 6.967135 TCGATATCGTTCTAGTGCTAATTGT 58.033 36.000 23.61 0.00 40.80 2.71
3005 3511 7.378728 TGTTCGATATCGTTCTAGTGCTAATTG 59.621 37.037 23.61 0.00 40.80 2.32
3006 3512 7.423199 TGTTCGATATCGTTCTAGTGCTAATT 58.577 34.615 23.61 0.00 40.80 1.40
3007 3513 6.967135 TGTTCGATATCGTTCTAGTGCTAAT 58.033 36.000 23.61 0.00 40.80 1.73
3008 3514 6.259387 TCTGTTCGATATCGTTCTAGTGCTAA 59.741 38.462 23.61 4.87 40.80 3.09
3009 3515 5.756833 TCTGTTCGATATCGTTCTAGTGCTA 59.243 40.000 23.61 0.00 40.80 3.49
3010 3516 4.575236 TCTGTTCGATATCGTTCTAGTGCT 59.425 41.667 23.61 0.00 40.80 4.40
3011 3517 4.845387 TCTGTTCGATATCGTTCTAGTGC 58.155 43.478 23.61 7.71 40.80 4.40
3012 3518 6.629649 GTCTTCTGTTCGATATCGTTCTAGTG 59.370 42.308 23.61 11.27 40.80 2.74
3013 3519 6.509837 CGTCTTCTGTTCGATATCGTTCTAGT 60.510 42.308 23.61 0.00 40.80 2.57
3014 3520 5.841811 CGTCTTCTGTTCGATATCGTTCTAG 59.158 44.000 23.61 16.77 40.80 2.43
3015 3521 5.521372 TCGTCTTCTGTTCGATATCGTTCTA 59.479 40.000 23.61 2.44 40.80 2.10
3016 3522 4.331992 TCGTCTTCTGTTCGATATCGTTCT 59.668 41.667 23.61 0.00 40.80 3.01
3017 3523 4.433945 GTCGTCTTCTGTTCGATATCGTTC 59.566 45.833 23.61 17.29 40.80 3.95
3018 3524 4.341099 GTCGTCTTCTGTTCGATATCGTT 58.659 43.478 23.61 0.00 40.80 3.85
3019 3525 3.242673 GGTCGTCTTCTGTTCGATATCGT 60.243 47.826 23.61 0.00 40.80 3.73
3020 3526 3.002451 AGGTCGTCTTCTGTTCGATATCG 59.998 47.826 19.14 19.14 41.45 2.92
3021 3527 4.555348 AGGTCGTCTTCTGTTCGATATC 57.445 45.455 0.00 0.00 36.08 1.63
3022 3528 4.985538 AAGGTCGTCTTCTGTTCGATAT 57.014 40.909 0.00 0.00 36.08 1.63
3023 3529 4.778534 AAAGGTCGTCTTCTGTTCGATA 57.221 40.909 0.00 0.00 36.08 2.92
3024 3530 3.662247 AAAGGTCGTCTTCTGTTCGAT 57.338 42.857 0.00 0.00 36.08 3.59
3025 3531 3.181484 TGAAAAGGTCGTCTTCTGTTCGA 60.181 43.478 0.00 0.00 33.94 3.71
3026 3532 3.120792 TGAAAAGGTCGTCTTCTGTTCG 58.879 45.455 0.00 0.00 33.94 3.95
3027 3533 3.495001 CCTGAAAAGGTCGTCTTCTGTTC 59.505 47.826 0.00 0.00 33.94 3.18
3028 3534 3.134081 TCCTGAAAAGGTCGTCTTCTGTT 59.866 43.478 0.00 0.00 33.94 3.16
3029 3535 2.698797 TCCTGAAAAGGTCGTCTTCTGT 59.301 45.455 0.00 0.00 33.94 3.41
3030 3536 3.386768 TCCTGAAAAGGTCGTCTTCTG 57.613 47.619 0.00 0.00 33.94 3.02
3031 3537 4.202367 ACATTCCTGAAAAGGTCGTCTTCT 60.202 41.667 0.00 0.00 33.94 2.85
3032 3538 4.065789 ACATTCCTGAAAAGGTCGTCTTC 58.934 43.478 0.00 0.00 33.94 2.87
3033 3539 4.086706 ACATTCCTGAAAAGGTCGTCTT 57.913 40.909 0.00 0.00 37.28 3.01
3034 3540 3.771577 ACATTCCTGAAAAGGTCGTCT 57.228 42.857 0.00 0.00 0.00 4.18
3035 3541 4.830826 AAACATTCCTGAAAAGGTCGTC 57.169 40.909 0.00 0.00 0.00 4.20
3036 3542 5.592104 AAAAACATTCCTGAAAAGGTCGT 57.408 34.783 0.00 0.00 0.00 4.34
3056 3562 1.616159 GTAGGCCCACTCAGCAAAAA 58.384 50.000 0.00 0.00 0.00 1.94
3057 3563 0.605319 CGTAGGCCCACTCAGCAAAA 60.605 55.000 0.00 0.00 0.00 2.44
3058 3564 1.003839 CGTAGGCCCACTCAGCAAA 60.004 57.895 0.00 0.00 0.00 3.68
3059 3565 1.764571 AACGTAGGCCCACTCAGCAA 61.765 55.000 0.00 0.00 0.00 3.91
3060 3566 2.214216 AACGTAGGCCCACTCAGCA 61.214 57.895 0.00 0.00 0.00 4.41
3061 3567 1.741770 CAACGTAGGCCCACTCAGC 60.742 63.158 0.00 0.00 0.00 4.26
3062 3568 1.079127 CCAACGTAGGCCCACTCAG 60.079 63.158 0.00 0.00 0.00 3.35
3063 3569 0.907704 ATCCAACGTAGGCCCACTCA 60.908 55.000 0.00 0.00 0.00 3.41
3064 3570 0.252197 AATCCAACGTAGGCCCACTC 59.748 55.000 0.00 0.00 0.00 3.51
3065 3571 1.575419 TAATCCAACGTAGGCCCACT 58.425 50.000 0.00 0.00 0.00 4.00
3066 3572 2.632987 ATAATCCAACGTAGGCCCAC 57.367 50.000 0.00 0.00 0.00 4.61
3067 3573 5.335261 TCTATATAATCCAACGTAGGCCCA 58.665 41.667 0.00 0.00 0.00 5.36
3068 3574 5.927281 TCTATATAATCCAACGTAGGCCC 57.073 43.478 0.00 0.00 0.00 5.80
3069 3575 6.309737 CGTTTCTATATAATCCAACGTAGGCC 59.690 42.308 0.00 0.00 33.90 5.19
3070 3576 6.865205 ACGTTTCTATATAATCCAACGTAGGC 59.135 38.462 14.56 0.00 46.05 3.93
3071 3577 8.697067 CAACGTTTCTATATAATCCAACGTAGG 58.303 37.037 15.69 10.59 46.90 3.18
3072 3578 8.697067 CCAACGTTTCTATATAATCCAACGTAG 58.303 37.037 15.69 10.15 46.90 3.51
3073 3579 8.412456 TCCAACGTTTCTATATAATCCAACGTA 58.588 33.333 15.69 4.62 46.90 3.57
3075 3581 7.703298 TCCAACGTTTCTATATAATCCAACG 57.297 36.000 0.00 11.16 42.05 4.10
3092 3598 9.698309 CTGTTTCTCATCTATATAATCCAACGT 57.302 33.333 0.00 0.00 0.00 3.99
3093 3599 9.914131 TCTGTTTCTCATCTATATAATCCAACG 57.086 33.333 0.00 0.00 0.00 4.10
3107 3613 7.664082 TGAAAGATGAACTCTGTTTCTCATC 57.336 36.000 3.28 3.28 42.92 2.92
3108 3614 8.455903 TTTGAAAGATGAACTCTGTTTCTCAT 57.544 30.769 0.00 0.00 33.29 2.90
3109 3615 7.770433 TCTTTGAAAGATGAACTCTGTTTCTCA 59.230 33.333 3.02 0.00 33.29 3.27
3110 3616 8.147642 TCTTTGAAAGATGAACTCTGTTTCTC 57.852 34.615 3.02 0.00 33.29 2.87
3111 3617 8.401709 GTTCTTTGAAAGATGAACTCTGTTTCT 58.598 33.333 8.64 0.00 37.38 2.52
3112 3618 8.401709 AGTTCTTTGAAAGATGAACTCTGTTTC 58.598 33.333 8.64 0.00 43.61 2.78
3113 3619 8.286191 AGTTCTTTGAAAGATGAACTCTGTTT 57.714 30.769 8.64 0.00 43.61 2.83
3114 3620 7.872113 AGTTCTTTGAAAGATGAACTCTGTT 57.128 32.000 8.64 0.00 43.61 3.16
3115 3621 7.872113 AAGTTCTTTGAAAGATGAACTCTGT 57.128 32.000 8.64 0.00 45.45 3.41
3116 3622 9.657121 GTAAAGTTCTTTGAAAGATGAACTCTG 57.343 33.333 8.64 0.00 45.45 3.35
3117 3623 8.552034 CGTAAAGTTCTTTGAAAGATGAACTCT 58.448 33.333 8.64 0.00 45.45 3.24
3118 3624 7.798982 CCGTAAAGTTCTTTGAAAGATGAACTC 59.201 37.037 8.64 0.00 45.45 3.01
3120 3626 7.636326 TCCGTAAAGTTCTTTGAAAGATGAAC 58.364 34.615 8.64 4.39 37.38 3.18
3121 3627 7.795482 TCCGTAAAGTTCTTTGAAAGATGAA 57.205 32.000 8.64 0.00 37.38 2.57
3122 3628 7.795482 TTCCGTAAAGTTCTTTGAAAGATGA 57.205 32.000 8.64 0.00 37.38 2.92
3123 3629 8.289618 TGATTCCGTAAAGTTCTTTGAAAGATG 58.710 33.333 8.64 0.00 37.38 2.90
3124 3630 8.290325 GTGATTCCGTAAAGTTCTTTGAAAGAT 58.710 33.333 8.64 0.00 37.38 2.40
3125 3631 7.255001 GGTGATTCCGTAAAGTTCTTTGAAAGA 60.255 37.037 3.02 3.02 35.26 2.52
3126 3632 6.856426 GGTGATTCCGTAAAGTTCTTTGAAAG 59.144 38.462 7.90 0.00 0.00 2.62
3127 3633 6.544564 AGGTGATTCCGTAAAGTTCTTTGAAA 59.455 34.615 7.90 0.00 41.99 2.69
3128 3634 6.059484 AGGTGATTCCGTAAAGTTCTTTGAA 58.941 36.000 7.90 4.17 41.99 2.69
3129 3635 5.617252 AGGTGATTCCGTAAAGTTCTTTGA 58.383 37.500 7.90 0.00 41.99 2.69
3130 3636 5.941948 AGGTGATTCCGTAAAGTTCTTTG 57.058 39.130 7.90 0.00 41.99 2.77
3131 3637 5.278315 GCAAGGTGATTCCGTAAAGTTCTTT 60.278 40.000 3.33 3.33 41.99 2.52
3132 3638 4.215613 GCAAGGTGATTCCGTAAAGTTCTT 59.784 41.667 0.00 0.00 41.99 2.52
3133 3639 3.751698 GCAAGGTGATTCCGTAAAGTTCT 59.248 43.478 0.00 0.00 41.99 3.01
3134 3640 3.119955 GGCAAGGTGATTCCGTAAAGTTC 60.120 47.826 0.00 0.00 41.99 3.01
3135 3641 2.817844 GGCAAGGTGATTCCGTAAAGTT 59.182 45.455 0.00 0.00 41.99 2.66
3136 3642 2.433436 GGCAAGGTGATTCCGTAAAGT 58.567 47.619 0.00 0.00 41.99 2.66
3137 3643 1.743394 GGGCAAGGTGATTCCGTAAAG 59.257 52.381 0.00 0.00 41.99 1.85
3138 3644 1.074084 TGGGCAAGGTGATTCCGTAAA 59.926 47.619 0.00 0.00 41.99 2.01
3139 3645 0.693622 TGGGCAAGGTGATTCCGTAA 59.306 50.000 0.00 0.00 41.99 3.18
3140 3646 0.693622 TTGGGCAAGGTGATTCCGTA 59.306 50.000 0.00 0.00 41.99 4.02
3141 3647 0.609131 CTTGGGCAAGGTGATTCCGT 60.609 55.000 0.00 0.00 41.99 4.69
3142 3648 1.937546 GCTTGGGCAAGGTGATTCCG 61.938 60.000 0.00 0.00 38.80 4.30
3143 3649 0.899717 TGCTTGGGCAAGGTGATTCC 60.900 55.000 0.00 0.00 46.36 3.01
3144 3650 2.657297 TGCTTGGGCAAGGTGATTC 58.343 52.632 0.00 0.00 46.36 2.52
3145 3651 4.950200 TGCTTGGGCAAGGTGATT 57.050 50.000 0.00 0.00 46.36 2.57
3154 3660 2.989881 GCTAAACGGGTGCTTGGGC 61.990 63.158 0.00 0.00 39.26 5.36
3155 3661 0.965363 ATGCTAAACGGGTGCTTGGG 60.965 55.000 0.00 0.00 0.00 4.12
3156 3662 0.887933 AATGCTAAACGGGTGCTTGG 59.112 50.000 0.00 0.00 0.00 3.61
3157 3663 2.747446 AGTAATGCTAAACGGGTGCTTG 59.253 45.455 0.00 0.00 0.00 4.01
3158 3664 3.067684 AGTAATGCTAAACGGGTGCTT 57.932 42.857 0.00 0.00 0.00 3.91
3159 3665 2.747446 CAAGTAATGCTAAACGGGTGCT 59.253 45.455 0.00 0.00 0.00 4.40
3160 3666 2.745281 TCAAGTAATGCTAAACGGGTGC 59.255 45.455 0.00 0.00 0.00 5.01
3161 3667 4.000988 ACTCAAGTAATGCTAAACGGGTG 58.999 43.478 0.00 0.00 0.00 4.61
3162 3668 4.281898 ACTCAAGTAATGCTAAACGGGT 57.718 40.909 0.00 0.00 0.00 5.28
3163 3669 5.048991 ACAAACTCAAGTAATGCTAAACGGG 60.049 40.000 0.00 0.00 0.00 5.28
3164 3670 5.997385 ACAAACTCAAGTAATGCTAAACGG 58.003 37.500 0.00 0.00 0.00 4.44
3165 3671 6.077838 GGACAAACTCAAGTAATGCTAAACG 58.922 40.000 0.00 0.00 0.00 3.60
3166 3672 6.966021 TGGACAAACTCAAGTAATGCTAAAC 58.034 36.000 0.00 0.00 0.00 2.01
3167 3673 6.770785 ACTGGACAAACTCAAGTAATGCTAAA 59.229 34.615 0.00 0.00 0.00 1.85
3168 3674 6.296026 ACTGGACAAACTCAAGTAATGCTAA 58.704 36.000 0.00 0.00 0.00 3.09
3169 3675 5.865085 ACTGGACAAACTCAAGTAATGCTA 58.135 37.500 0.00 0.00 0.00 3.49
3170 3676 4.718961 ACTGGACAAACTCAAGTAATGCT 58.281 39.130 0.00 0.00 0.00 3.79
3171 3677 5.438761 AACTGGACAAACTCAAGTAATGC 57.561 39.130 0.00 0.00 0.00 3.56
3172 3678 9.796120 TTAAAAACTGGACAAACTCAAGTAATG 57.204 29.630 0.00 0.00 0.00 1.90
3174 3680 7.971722 GCTTAAAAACTGGACAAACTCAAGTAA 59.028 33.333 0.00 0.00 0.00 2.24
3175 3681 7.338449 AGCTTAAAAACTGGACAAACTCAAGTA 59.662 33.333 0.00 0.00 0.00 2.24
3176 3682 6.152831 AGCTTAAAAACTGGACAAACTCAAGT 59.847 34.615 0.00 0.00 0.00 3.16
3177 3683 6.564328 AGCTTAAAAACTGGACAAACTCAAG 58.436 36.000 0.00 0.00 0.00 3.02
3178 3684 6.377146 AGAGCTTAAAAACTGGACAAACTCAA 59.623 34.615 0.00 0.00 0.00 3.02
3179 3685 5.885912 AGAGCTTAAAAACTGGACAAACTCA 59.114 36.000 0.00 0.00 0.00 3.41
3180 3686 6.378710 AGAGCTTAAAAACTGGACAAACTC 57.621 37.500 0.00 0.00 0.00 3.01
3181 3687 5.299531 GGAGAGCTTAAAAACTGGACAAACT 59.700 40.000 0.00 0.00 0.00 2.66
3182 3688 5.507482 GGGAGAGCTTAAAAACTGGACAAAC 60.507 44.000 0.00 0.00 0.00 2.93
3183 3689 4.583073 GGGAGAGCTTAAAAACTGGACAAA 59.417 41.667 0.00 0.00 0.00 2.83
3184 3690 4.142038 GGGAGAGCTTAAAAACTGGACAA 58.858 43.478 0.00 0.00 0.00 3.18
3185 3691 3.137544 TGGGAGAGCTTAAAAACTGGACA 59.862 43.478 0.00 0.00 0.00 4.02
3186 3692 3.751518 TGGGAGAGCTTAAAAACTGGAC 58.248 45.455 0.00 0.00 0.00 4.02
3187 3693 4.447138 TTGGGAGAGCTTAAAAACTGGA 57.553 40.909 0.00 0.00 0.00 3.86
3188 3694 5.478332 AGATTTGGGAGAGCTTAAAAACTGG 59.522 40.000 0.00 0.00 0.00 4.00
3189 3695 6.581171 AGATTTGGGAGAGCTTAAAAACTG 57.419 37.500 0.00 0.00 0.00 3.16
3190 3696 7.462590 ACTAGATTTGGGAGAGCTTAAAAACT 58.537 34.615 0.00 0.00 0.00 2.66
3191 3697 7.689446 ACTAGATTTGGGAGAGCTTAAAAAC 57.311 36.000 0.00 0.00 0.00 2.43
3192 3698 8.110860 CAACTAGATTTGGGAGAGCTTAAAAA 57.889 34.615 0.00 0.00 0.00 1.94
3193 3699 7.687941 CAACTAGATTTGGGAGAGCTTAAAA 57.312 36.000 0.00 0.00 0.00 1.52


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

AutoCloner maintained by Alex Coulton.