Multiple sequence alignment - TraesCS4A01G226900

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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 TraesCS4A01G226900 chr4A 100.000 3480 0 0 1 3480 535244985 535241506 0.000000e+00 6427.0
1 TraesCS4A01G226900 chr4D 95.392 2691 88 19 1 2671 61958907 61956233 0.000000e+00 4250.0
2 TraesCS4A01G226900 chr4D 83.008 512 58 16 2665 3156 61956172 61955670 1.480000e-118 436.0
3 TraesCS4A01G226900 chr4D 95.652 115 5 0 3350 3464 61955570 61955456 5.930000e-43 185.0
4 TraesCS4A01G226900 chr4B 95.604 1433 47 6 1 1432 90726637 90728054 0.000000e+00 2283.0
5 TraesCS4A01G226900 chr4B 94.913 1258 42 10 1517 2760 90728061 90729310 0.000000e+00 1949.0
6 TraesCS4A01G226900 chr4B 89.573 211 18 3 2745 2951 90729329 90729539 7.410000e-67 265.0
7 TraesCS4A01G226900 chr4B 94.017 117 4 2 3350 3463 90751004 90751120 1.280000e-39 174.0
8 TraesCS4A01G226900 chr4B 92.079 101 8 0 2949 3049 90729616 90729716 3.620000e-30 143.0
9 TraesCS4A01G226900 chr6B 80.795 151 19 8 2253 2398 117802908 117803053 3.670000e-20 110.0
10 TraesCS4A01G226900 chr6B 88.000 50 5 1 3176 3224 52189840 52189791 1.350000e-04 58.4
11 TraesCS4A01G226900 chr6A 84.615 104 12 4 2297 2398 61401152 61401253 2.210000e-17 100.0
12 TraesCS4A01G226900 chr1D 93.182 44 1 2 3176 3218 33030403 33030445 2.900000e-06 63.9
13 TraesCS4A01G226900 chr5D 92.857 42 2 1 3176 3217 565789605 565789565 3.750000e-05 60.2
14 TraesCS4A01G226900 chr2D 100.000 30 0 0 3176 3205 580558817 580558846 4.850000e-04 56.5
15 TraesCS4A01G226900 chr1A 100.000 28 0 0 3176 3203 31948677 31948704 6.000000e-03 52.8


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 TraesCS4A01G226900 chr4A 535241506 535244985 3479 True 6427.000000 6427 100.000000 1 3480 1 chr4A.!!$R1 3479
1 TraesCS4A01G226900 chr4D 61955456 61958907 3451 True 1623.666667 4250 91.350667 1 3464 3 chr4D.!!$R1 3463
2 TraesCS4A01G226900 chr4B 90726637 90729716 3079 False 1160.000000 2283 93.042250 1 3049 4 chr4B.!!$F2 3048

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
786 788 1.003928 TCATCTGCCAAGTCAGCACAT 59.996 47.619 0.0 0.0 36.01 3.21 F
1763 1770 0.663688 TCTCGACTAAGCGATCCTGC 59.336 55.000 0.0 0.0 39.85 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1769 1776 0.035056 GGTACCTGCAGCATTGAGGT 60.035 55.0 8.66 8.95 38.01 3.85 R
3293 3521 0.106519 GTGTTAGAGGGCCCATGCAT 60.107 55.0 27.56 0.88 40.13 3.96 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
20 21 3.344904 CTGTGCAAGTTCTCTGTTTGG 57.655 47.619 0.00 0.00 0.00 3.28
59 60 9.251440 ACTAAGTATTATATCACCCTCGCATAA 57.749 33.333 0.00 0.00 0.00 1.90
361 362 6.550108 TGGTGATTAGTTGGATAGAGACTACC 59.450 42.308 0.00 0.00 0.00 3.18
440 441 5.248477 GGGTTCTGACATTATGCTATAGGGA 59.752 44.000 1.04 0.00 0.00 4.20
503 504 9.458374 GTTAAGAAAGAAAATTCAAACCGATGA 57.542 29.630 0.00 0.00 0.00 2.92
505 506 8.579682 AAGAAAGAAAATTCAAACCGATGAAG 57.420 30.769 4.92 0.00 42.21 3.02
506 507 7.940850 AGAAAGAAAATTCAAACCGATGAAGA 58.059 30.769 4.92 0.00 42.21 2.87
568 570 2.751259 TGGTTTTGCTCATCTCATCTGC 59.249 45.455 0.00 0.00 0.00 4.26
610 612 3.005684 GGTGCTGTCAAATTGTGATGGAA 59.994 43.478 0.00 0.00 38.90 3.53
615 617 5.618640 GCTGTCAAATTGTGATGGAACTCTC 60.619 44.000 0.00 0.00 38.90 3.20
733 735 4.855715 TGGCTCCTGATAAACGAGATAG 57.144 45.455 0.00 0.00 0.00 2.08
786 788 1.003928 TCATCTGCCAAGTCAGCACAT 59.996 47.619 0.00 0.00 36.01 3.21
787 789 2.236893 TCATCTGCCAAGTCAGCACATA 59.763 45.455 0.00 0.00 36.01 2.29
862 864 1.538666 CCCCCTTGGCCTATCCTTG 59.461 63.158 3.32 0.00 35.26 3.61
978 981 3.672295 CTGAGCACGCCCCTTCTCC 62.672 68.421 0.00 0.00 0.00 3.71
1235 1238 2.039084 ACAAAGAAATCTGACGGGCTCT 59.961 45.455 0.00 0.00 0.00 4.09
1260 1263 6.379417 TCAGCTGAGATTTCACTCTTATCAGA 59.621 38.462 13.74 0.00 37.73 3.27
1287 1290 7.121974 ACTTGTTCAGTTCTGAATATTCGTG 57.878 36.000 16.55 6.47 27.32 4.35
1309 1312 7.030165 CGTGTGTGTCTAAATCTGTCTTCTAT 58.970 38.462 0.00 0.00 0.00 1.98
1321 1324 8.697507 AATCTGTCTTCTATTTTGTTTCAGGT 57.302 30.769 0.00 0.00 0.00 4.00
1421 1424 3.567397 GGAGAGTAAGTCATAGGCCTCA 58.433 50.000 9.68 0.00 0.00 3.86
1422 1425 3.961408 GGAGAGTAAGTCATAGGCCTCAA 59.039 47.826 9.68 0.00 0.00 3.02
1447 1450 6.439375 ACTCCATTTACTCTACACACCATACA 59.561 38.462 0.00 0.00 0.00 2.29
1448 1451 6.636705 TCCATTTACTCTACACACCATACAC 58.363 40.000 0.00 0.00 0.00 2.90
1449 1452 6.211785 TCCATTTACTCTACACACCATACACA 59.788 38.462 0.00 0.00 0.00 3.72
1450 1453 7.047891 CCATTTACTCTACACACCATACACAT 58.952 38.462 0.00 0.00 0.00 3.21
1451 1454 7.224753 CCATTTACTCTACACACCATACACATC 59.775 40.741 0.00 0.00 0.00 3.06
1513 1516 2.821969 ACTGTTTCCTTTAGCAGCATGG 59.178 45.455 0.00 0.00 35.86 3.66
1536 1539 6.210584 TGGAGTACATCACAAGTTCTCACATA 59.789 38.462 0.00 0.00 35.77 2.29
1605 1608 1.331214 TGCTTGCTTTCCCTTTGGAG 58.669 50.000 0.00 0.00 43.07 3.86
1633 1636 1.680338 ACGGCTATGATCCTTTTGGC 58.320 50.000 0.00 0.00 40.12 4.52
1673 1676 3.057033 GGACTTCGCCAAGTAAGTACAGA 60.057 47.826 0.00 0.00 43.37 3.41
1674 1677 3.910648 ACTTCGCCAAGTAAGTACAGAC 58.089 45.455 0.00 0.00 41.39 3.51
1675 1678 3.319972 ACTTCGCCAAGTAAGTACAGACA 59.680 43.478 0.00 0.00 41.39 3.41
1676 1679 3.570926 TCGCCAAGTAAGTACAGACAG 57.429 47.619 0.00 0.00 0.00 3.51
1756 1763 5.623264 CAGAACATATTCTCTCGACTAAGCG 59.377 44.000 0.00 0.00 43.69 4.68
1763 1770 0.663688 TCTCGACTAAGCGATCCTGC 59.336 55.000 0.00 0.00 39.85 4.85
1767 1774 1.874231 CGACTAAGCGATCCTGCTCTA 59.126 52.381 0.00 0.00 46.60 2.43
1768 1775 2.350007 CGACTAAGCGATCCTGCTCTAC 60.350 54.545 0.00 0.00 46.60 2.59
1769 1776 2.619177 GACTAAGCGATCCTGCTCTACA 59.381 50.000 0.00 0.00 46.60 2.74
1770 1777 2.359531 ACTAAGCGATCCTGCTCTACAC 59.640 50.000 0.00 0.00 46.60 2.90
1771 1778 0.461961 AAGCGATCCTGCTCTACACC 59.538 55.000 0.00 0.00 46.60 4.16
1777 1788 3.726607 GATCCTGCTCTACACCTCAATG 58.273 50.000 0.00 0.00 0.00 2.82
1932 1946 3.615614 GCTGAATGCAGATCGTCATTTC 58.384 45.455 4.31 9.47 45.17 2.17
1990 2004 3.676093 TCACGGTGCCATAAACAACATA 58.324 40.909 2.51 0.00 0.00 2.29
1991 2005 3.437395 TCACGGTGCCATAAACAACATAC 59.563 43.478 2.51 0.00 0.00 2.39
1992 2006 3.189495 CACGGTGCCATAAACAACATACA 59.811 43.478 0.00 0.00 0.00 2.29
1993 2007 4.013728 ACGGTGCCATAAACAACATACAT 58.986 39.130 0.00 0.00 0.00 2.29
2024 2038 4.785453 GCCCTGCTCCTTGACGGG 62.785 72.222 0.00 0.00 37.97 5.28
2066 2080 0.257039 ACAGCATCCCCATCAACCTC 59.743 55.000 0.00 0.00 0.00 3.85
2132 2146 0.902531 ACTACAGGATCACCAACGGG 59.097 55.000 0.00 0.00 38.94 5.28
2187 2206 1.448540 CAGCCAGGCGTCCTTGTAG 60.449 63.158 5.55 0.00 0.00 2.74
2201 2220 2.289547 CCTTGTAGTGACCAACGGTTTG 59.710 50.000 0.00 0.00 35.25 2.93
2490 2509 2.281761 CCTGTGAGCTGGCCGTTT 60.282 61.111 0.00 0.00 0.00 3.60
2574 2599 2.156098 GCTGTGTGAATTTTACCGGGA 58.844 47.619 6.32 0.00 0.00 5.14
2578 2603 5.189659 TGTGTGAATTTTACCGGGAAAAG 57.810 39.130 27.76 0.00 32.06 2.27
2579 2604 4.645588 TGTGTGAATTTTACCGGGAAAAGT 59.354 37.500 27.76 26.05 32.06 2.66
2759 2890 8.995027 TTGATTGGTTAAGTCCTTGCATATAT 57.005 30.769 0.00 0.00 0.00 0.86
2770 2901 7.852263 AGTCCTTGCATATATATAGTGAACCC 58.148 38.462 0.00 0.00 0.00 4.11
2776 2907 9.811995 TTGCATATATATAGTGAACCCGTTATC 57.188 33.333 0.00 0.00 0.00 1.75
2785 2918 5.825507 AGTGAACCCGTTATCGATTAGTAC 58.174 41.667 1.71 0.00 39.71 2.73
2789 2922 6.698329 TGAACCCGTTATCGATTAGTACATTG 59.302 38.462 1.71 0.00 39.71 2.82
3095 3321 9.525409 AAATTTGCTACTATTGAGATCAAATGC 57.475 29.630 0.00 1.61 39.55 3.56
3097 3323 4.212004 TGCTACTATTGAGATCAAATGCGC 59.788 41.667 0.00 0.00 39.55 6.09
3106 3332 6.112994 TGAGATCAAATGCGCGTATTTTTA 57.887 33.333 28.84 20.82 0.00 1.52
3107 3333 6.191661 TGAGATCAAATGCGCGTATTTTTAG 58.808 36.000 28.84 19.17 0.00 1.85
3114 3342 4.330740 TGCGCGTATTTTTAGTTTCTCC 57.669 40.909 8.43 0.00 0.00 3.71
3116 3344 4.393680 TGCGCGTATTTTTAGTTTCTCCAT 59.606 37.500 8.43 0.00 0.00 3.41
3117 3345 5.106475 TGCGCGTATTTTTAGTTTCTCCATT 60.106 36.000 8.43 0.00 0.00 3.16
3137 3365 9.154847 CTCCATTTTTGGATTAAAGTTTGATCC 57.845 33.333 25.39 25.39 39.81 3.36
3156 3384 7.039784 TTTGATCCAAAAAGTTAGATGGGACAG 60.040 37.037 0.00 0.00 33.59 3.51
3168 3396 2.142356 TGGGACAGGGTAAATGCATG 57.858 50.000 0.00 0.00 0.00 4.06
3169 3397 0.746659 GGGACAGGGTAAATGCATGC 59.253 55.000 11.82 11.82 0.00 4.06
3170 3398 1.473258 GGACAGGGTAAATGCATGCA 58.527 50.000 25.04 25.04 0.00 3.96
3171 3399 1.406539 GGACAGGGTAAATGCATGCAG 59.593 52.381 26.69 11.97 0.00 4.41
3173 3401 2.094675 ACAGGGTAAATGCATGCAGTC 58.905 47.619 26.69 12.32 0.00 3.51
3174 3402 1.064505 CAGGGTAAATGCATGCAGTCG 59.935 52.381 26.69 5.04 0.00 4.18
3175 3403 1.094785 GGGTAAATGCATGCAGTCGT 58.905 50.000 26.69 12.07 0.00 4.34
3176 3404 1.202177 GGGTAAATGCATGCAGTCGTG 60.202 52.381 26.69 0.00 0.00 4.35
3177 3405 1.737236 GGTAAATGCATGCAGTCGTGA 59.263 47.619 26.69 7.19 0.00 4.35
3178 3406 2.355756 GGTAAATGCATGCAGTCGTGAT 59.644 45.455 26.69 10.52 0.00 3.06
3179 3407 3.181497 GGTAAATGCATGCAGTCGTGATT 60.181 43.478 26.69 10.59 0.00 2.57
3180 3408 2.554806 AATGCATGCAGTCGTGATTG 57.445 45.000 26.69 0.00 0.00 2.67
3181 3409 1.741528 ATGCATGCAGTCGTGATTGA 58.258 45.000 26.69 0.00 0.00 2.57
3182 3410 1.521580 TGCATGCAGTCGTGATTGAA 58.478 45.000 18.46 0.00 0.00 2.69
3183 3411 1.465777 TGCATGCAGTCGTGATTGAAG 59.534 47.619 18.46 0.00 0.00 3.02
3184 3412 1.733912 GCATGCAGTCGTGATTGAAGA 59.266 47.619 14.21 0.00 0.00 2.87
3185 3413 2.353889 GCATGCAGTCGTGATTGAAGAT 59.646 45.455 14.21 0.00 0.00 2.40
3186 3414 3.787805 GCATGCAGTCGTGATTGAAGATG 60.788 47.826 14.21 0.00 0.00 2.90
3187 3415 3.317603 TGCAGTCGTGATTGAAGATGA 57.682 42.857 0.00 0.00 0.00 2.92
3188 3416 3.663025 TGCAGTCGTGATTGAAGATGAA 58.337 40.909 0.00 0.00 0.00 2.57
3189 3417 4.256110 TGCAGTCGTGATTGAAGATGAAT 58.744 39.130 0.00 0.00 0.00 2.57
3190 3418 5.418676 TGCAGTCGTGATTGAAGATGAATA 58.581 37.500 0.00 0.00 0.00 1.75
3191 3419 5.291858 TGCAGTCGTGATTGAAGATGAATAC 59.708 40.000 0.00 0.00 0.00 1.89
3192 3420 5.291858 GCAGTCGTGATTGAAGATGAATACA 59.708 40.000 0.00 0.00 0.00 2.29
3193 3421 6.018425 GCAGTCGTGATTGAAGATGAATACAT 60.018 38.462 0.00 0.00 39.67 2.29
3194 3422 7.466455 GCAGTCGTGATTGAAGATGAATACATT 60.466 37.037 0.00 0.00 36.82 2.71
3195 3423 7.849515 CAGTCGTGATTGAAGATGAATACATTG 59.150 37.037 0.00 0.00 36.82 2.82
3196 3424 7.011763 AGTCGTGATTGAAGATGAATACATTGG 59.988 37.037 0.00 0.00 36.82 3.16
3197 3425 7.011389 GTCGTGATTGAAGATGAATACATTGGA 59.989 37.037 0.00 0.00 36.82 3.53
3198 3426 7.552330 TCGTGATTGAAGATGAATACATTGGAA 59.448 33.333 0.00 0.00 36.82 3.53
3199 3427 7.854422 CGTGATTGAAGATGAATACATTGGAAG 59.146 37.037 0.00 0.00 36.82 3.46
3200 3428 8.680903 GTGATTGAAGATGAATACATTGGAAGT 58.319 33.333 0.00 0.00 36.82 3.01
3201 3429 9.246670 TGATTGAAGATGAATACATTGGAAGTT 57.753 29.630 0.00 0.00 36.82 2.66
3204 3432 9.912634 TTGAAGATGAATACATTGGAAGTTTTC 57.087 29.630 0.00 0.00 36.82 2.29
3205 3433 9.076781 TGAAGATGAATACATTGGAAGTTTTCA 57.923 29.630 0.00 0.00 39.83 2.69
3207 3435 9.865321 AAGATGAATACATTGGAAGTTTTCATG 57.135 29.630 13.84 0.00 43.11 3.07
3208 3436 7.977853 AGATGAATACATTGGAAGTTTTCATGC 59.022 33.333 13.84 7.96 43.11 4.06
3209 3437 6.990798 TGAATACATTGGAAGTTTTCATGCA 58.009 32.000 0.00 0.00 33.87 3.96
3210 3438 7.440198 TGAATACATTGGAAGTTTTCATGCAA 58.560 30.769 0.00 0.00 33.87 4.08
3211 3439 7.930325 TGAATACATTGGAAGTTTTCATGCAAA 59.070 29.630 0.00 0.00 33.87 3.68
3212 3440 7.894376 ATACATTGGAAGTTTTCATGCAAAG 57.106 32.000 0.00 0.00 33.20 2.77
3213 3441 5.916318 ACATTGGAAGTTTTCATGCAAAGA 58.084 33.333 0.00 0.00 33.20 2.52
3214 3442 6.347696 ACATTGGAAGTTTTCATGCAAAGAA 58.652 32.000 0.00 0.00 33.20 2.52
3215 3443 6.822676 ACATTGGAAGTTTTCATGCAAAGAAA 59.177 30.769 12.14 12.14 33.20 2.52
3216 3444 7.336427 ACATTGGAAGTTTTCATGCAAAGAAAA 59.664 29.630 20.15 20.15 41.27 2.29
3217 3445 7.678947 TTGGAAGTTTTCATGCAAAGAAAAA 57.321 28.000 23.61 11.52 43.98 1.94
3218 3446 7.306205 TGGAAGTTTTCATGCAAAGAAAAAG 57.694 32.000 23.61 0.00 43.98 2.27
3219 3447 7.102346 TGGAAGTTTTCATGCAAAGAAAAAGA 58.898 30.769 23.61 7.54 43.98 2.52
3220 3448 7.605691 TGGAAGTTTTCATGCAAAGAAAAAGAA 59.394 29.630 23.61 11.17 43.98 2.52
3221 3449 8.450180 GGAAGTTTTCATGCAAAGAAAAAGAAA 58.550 29.630 23.61 6.98 43.98 2.52
3222 3450 9.824534 GAAGTTTTCATGCAAAGAAAAAGAAAA 57.175 25.926 23.61 12.64 43.98 2.29
3224 3452 9.777575 AGTTTTCATGCAAAGAAAAAGAAAATG 57.222 25.926 23.61 0.74 43.98 2.32
3225 3453 8.525876 GTTTTCATGCAAAGAAAAAGAAAATGC 58.474 29.630 23.61 11.10 43.98 3.56
3226 3454 6.922247 TCATGCAAAGAAAAAGAAAATGCA 57.078 29.167 0.00 0.00 45.16 3.96
3229 3457 5.512473 TGCAAAGAAAAAGAAAATGCATGC 58.488 33.333 11.82 11.82 37.40 4.06
3230 3458 5.066117 TGCAAAGAAAAAGAAAATGCATGCA 59.934 32.000 25.04 25.04 37.40 3.96
3231 3459 5.623673 GCAAAGAAAAAGAAAATGCATGCAG 59.376 36.000 26.69 7.28 32.80 4.41
3232 3460 6.721321 CAAAGAAAAAGAAAATGCATGCAGT 58.279 32.000 26.69 21.79 0.00 4.40
3233 3461 7.518689 GCAAAGAAAAAGAAAATGCATGCAGTA 60.519 33.333 26.69 1.91 32.80 2.74
3234 3462 8.500773 CAAAGAAAAAGAAAATGCATGCAGTAT 58.499 29.630 26.69 13.83 0.00 2.12
3235 3463 7.823149 AGAAAAAGAAAATGCATGCAGTATC 57.177 32.000 26.69 21.10 0.00 2.24
3236 3464 7.380536 AGAAAAAGAAAATGCATGCAGTATCA 58.619 30.769 26.69 0.16 0.00 2.15
3237 3465 7.544566 AGAAAAAGAAAATGCATGCAGTATCAG 59.455 33.333 26.69 0.00 0.00 2.90
3238 3466 5.909621 AAGAAAATGCATGCAGTATCAGT 57.090 34.783 26.69 4.84 0.00 3.41
3239 3467 5.244785 AGAAAATGCATGCAGTATCAGTG 57.755 39.130 26.69 0.00 0.00 3.66
3240 3468 3.431922 AAATGCATGCAGTATCAGTGC 57.568 42.857 26.69 0.00 44.57 4.40
3241 3469 2.343484 ATGCATGCAGTATCAGTGCT 57.657 45.000 26.69 1.43 44.61 4.40
3242 3470 2.118313 TGCATGCAGTATCAGTGCTT 57.882 45.000 18.46 0.00 44.61 3.91
3243 3471 2.011947 TGCATGCAGTATCAGTGCTTC 58.988 47.619 18.46 0.00 44.61 3.86
3244 3472 1.332997 GCATGCAGTATCAGTGCTTCC 59.667 52.381 14.21 0.00 44.61 3.46
3245 3473 2.915349 CATGCAGTATCAGTGCTTCCT 58.085 47.619 7.44 0.00 44.61 3.36
3246 3474 3.742327 GCATGCAGTATCAGTGCTTCCTA 60.742 47.826 14.21 0.00 44.61 2.94
3247 3475 4.445453 CATGCAGTATCAGTGCTTCCTAA 58.555 43.478 7.44 0.00 44.61 2.69
3248 3476 4.760530 TGCAGTATCAGTGCTTCCTAAT 57.239 40.909 7.44 0.00 44.61 1.73
3249 3477 5.102953 TGCAGTATCAGTGCTTCCTAATT 57.897 39.130 7.44 0.00 44.61 1.40
3250 3478 5.500234 TGCAGTATCAGTGCTTCCTAATTT 58.500 37.500 7.44 0.00 44.61 1.82
3251 3479 5.945784 TGCAGTATCAGTGCTTCCTAATTTT 59.054 36.000 7.44 0.00 44.61 1.82
3252 3480 7.109501 TGCAGTATCAGTGCTTCCTAATTTTA 58.890 34.615 7.44 0.00 44.61 1.52
3253 3481 7.775093 TGCAGTATCAGTGCTTCCTAATTTTAT 59.225 33.333 7.44 0.00 44.61 1.40
3254 3482 8.624776 GCAGTATCAGTGCTTCCTAATTTTATT 58.375 33.333 0.00 0.00 41.22 1.40
3281 3509 9.860898 AAAGTTTTTCATGATTAATAGAGGTGC 57.139 29.630 0.00 0.00 0.00 5.01
3282 3510 8.814038 AGTTTTTCATGATTAATAGAGGTGCT 57.186 30.769 0.00 0.00 0.00 4.40
3283 3511 9.905713 AGTTTTTCATGATTAATAGAGGTGCTA 57.094 29.630 0.00 0.00 0.00 3.49
3284 3512 9.937175 GTTTTTCATGATTAATAGAGGTGCTAC 57.063 33.333 0.00 0.00 0.00 3.58
3285 3513 9.905713 TTTTTCATGATTAATAGAGGTGCTACT 57.094 29.630 0.00 0.00 0.00 2.57
3290 3518 9.988815 CATGATTAATAGAGGTGCTACTAAAGT 57.011 33.333 0.00 0.00 26.09 2.66
3295 3523 9.817809 TTAATAGAGGTGCTACTAAAGTTCATG 57.182 33.333 0.00 0.00 0.00 3.07
3296 3524 4.508662 AGAGGTGCTACTAAAGTTCATGC 58.491 43.478 0.00 0.00 0.00 4.06
3297 3525 4.020218 AGAGGTGCTACTAAAGTTCATGCA 60.020 41.667 0.00 0.00 0.00 3.96
3298 3526 4.848357 AGGTGCTACTAAAGTTCATGCAT 58.152 39.130 0.00 0.00 0.00 3.96
3299 3527 4.637534 AGGTGCTACTAAAGTTCATGCATG 59.362 41.667 21.07 21.07 0.00 4.06
3300 3528 4.201950 GGTGCTACTAAAGTTCATGCATGG 60.202 45.833 25.97 10.76 0.00 3.66
3301 3529 3.947196 TGCTACTAAAGTTCATGCATGGG 59.053 43.478 25.97 1.85 0.00 4.00
3302 3530 3.243201 GCTACTAAAGTTCATGCATGGGC 60.243 47.826 25.97 18.01 41.68 5.36
3303 3531 2.102578 ACTAAAGTTCATGCATGGGCC 58.897 47.619 25.97 13.83 40.13 5.80
3304 3532 1.410153 CTAAAGTTCATGCATGGGCCC 59.590 52.381 25.97 17.59 40.13 5.80
3318 3546 0.400594 GGGCCCTCTAACACACTTGT 59.599 55.000 17.04 0.00 37.67 3.16
3319 3547 1.626825 GGGCCCTCTAACACACTTGTA 59.373 52.381 17.04 0.00 33.55 2.41
3320 3548 2.238898 GGGCCCTCTAACACACTTGTAT 59.761 50.000 17.04 0.00 33.55 2.29
3321 3549 3.270877 GGCCCTCTAACACACTTGTATG 58.729 50.000 0.00 0.00 33.55 2.39
3323 3551 4.081309 GGCCCTCTAACACACTTGTATGTA 60.081 45.833 0.00 0.00 33.55 2.29
3324 3552 5.484715 GCCCTCTAACACACTTGTATGTAA 58.515 41.667 0.00 0.00 33.55 2.41
3325 3553 5.581085 GCCCTCTAACACACTTGTATGTAAG 59.419 44.000 0.00 0.00 33.55 2.34
3326 3554 6.106673 CCCTCTAACACACTTGTATGTAAGG 58.893 44.000 0.00 0.00 33.55 2.69
3327 3555 6.295688 CCCTCTAACACACTTGTATGTAAGGT 60.296 42.308 7.13 0.00 33.55 3.50
3328 3556 6.590292 CCTCTAACACACTTGTATGTAAGGTG 59.410 42.308 0.00 0.00 33.55 4.00
3330 3558 7.149973 TCTAACACACTTGTATGTAAGGTGTC 58.850 38.462 13.22 0.00 39.21 3.67
3331 3559 5.546621 ACACACTTGTATGTAAGGTGTCT 57.453 39.130 0.00 0.00 37.43 3.41
3332 3560 5.925509 ACACACTTGTATGTAAGGTGTCTT 58.074 37.500 0.00 0.00 37.43 3.01
3333 3561 5.758296 ACACACTTGTATGTAAGGTGTCTTG 59.242 40.000 0.00 0.00 37.43 3.02
3334 3562 4.755123 ACACTTGTATGTAAGGTGTCTTGC 59.245 41.667 0.00 0.00 36.36 4.01
3364 3623 3.972638 ACCAATGGCCCATGCAAATAATA 59.027 39.130 0.00 0.00 40.13 0.98
3368 3627 6.469410 CAATGGCCCATGCAAATAATATCTT 58.531 36.000 0.00 0.00 40.13 2.40
3429 3688 1.610554 ATGCAATGGGCCAAGCTGAC 61.611 55.000 27.51 14.69 43.89 3.51
3453 3712 1.406903 CCCATCAGAAGGCCCAAATC 58.593 55.000 0.00 0.00 0.00 2.17
3456 3715 2.626743 CCATCAGAAGGCCCAAATCATC 59.373 50.000 0.00 0.00 0.00 2.92
3464 3723 0.107268 GCCCAAATCATCCATTGCCC 59.893 55.000 0.00 0.00 0.00 5.36
3465 3724 1.797320 CCCAAATCATCCATTGCCCT 58.203 50.000 0.00 0.00 0.00 5.19
3466 3725 2.121129 CCCAAATCATCCATTGCCCTT 58.879 47.619 0.00 0.00 0.00 3.95
3467 3726 2.506644 CCCAAATCATCCATTGCCCTTT 59.493 45.455 0.00 0.00 0.00 3.11
3468 3727 3.537580 CCAAATCATCCATTGCCCTTTG 58.462 45.455 0.00 0.00 0.00 2.77
3469 3728 3.198200 CCAAATCATCCATTGCCCTTTGA 59.802 43.478 0.00 0.00 0.00 2.69
3470 3729 4.141574 CCAAATCATCCATTGCCCTTTGAT 60.142 41.667 0.00 0.00 0.00 2.57
3471 3730 4.950205 AATCATCCATTGCCCTTTGATC 57.050 40.909 0.00 0.00 0.00 2.92
3472 3731 3.385314 TCATCCATTGCCCTTTGATCA 57.615 42.857 0.00 0.00 0.00 2.92
3473 3732 3.918566 TCATCCATTGCCCTTTGATCAT 58.081 40.909 0.00 0.00 0.00 2.45
3474 3733 4.291792 TCATCCATTGCCCTTTGATCATT 58.708 39.130 0.00 0.00 0.00 2.57
3475 3734 4.717778 TCATCCATTGCCCTTTGATCATTT 59.282 37.500 0.00 0.00 0.00 2.32
3476 3735 5.190132 TCATCCATTGCCCTTTGATCATTTT 59.810 36.000 0.00 0.00 0.00 1.82
3477 3736 5.502089 TCCATTGCCCTTTGATCATTTTT 57.498 34.783 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 46 5.552870 AGATTAAGTTATGCGAGGGTGAT 57.447 39.130 0.00 0.00 0.00 3.06
59 60 8.463930 TCAACCATGAGAAACAAAGATTAAGT 57.536 30.769 0.00 0.00 0.00 2.24
124 125 6.101332 TGCATGCAAATTGAAGTTATCTTCC 58.899 36.000 20.30 0.00 46.66 3.46
361 362 7.702386 TCAAAATGGGATATTAATGTGACACG 58.298 34.615 0.22 0.00 0.00 4.49
440 441 8.961294 TCAACATTTCCAGAATTTCAAACAAT 57.039 26.923 0.00 0.00 0.00 2.71
494 495 7.985476 ACGATCATAAAAATCTTCATCGGTTT 58.015 30.769 0.00 0.00 36.76 3.27
503 504 9.988350 GACATGTACAACGATCATAAAAATCTT 57.012 29.630 0.00 0.00 0.00 2.40
505 506 7.582679 CCGACATGTACAACGATCATAAAAATC 59.417 37.037 17.50 0.00 0.00 2.17
506 507 7.406553 CCGACATGTACAACGATCATAAAAAT 58.593 34.615 17.50 0.00 0.00 1.82
568 570 5.464168 CACCAAATCAGGCTCAAGTTTTAG 58.536 41.667 0.00 0.00 0.00 1.85
610 612 2.122989 ACACACACCCCCGAGAGT 60.123 61.111 0.00 0.00 0.00 3.24
615 617 3.556306 AGACCACACACACCCCCG 61.556 66.667 0.00 0.00 0.00 5.73
733 735 2.440247 ACCATTAGGGCCGCTTGC 60.440 61.111 0.00 0.00 42.05 4.01
862 864 0.753111 GAGGATGTTGTGGGCCCATC 60.753 60.000 31.45 21.16 35.37 3.51
978 981 0.674895 CCTCGAGCCCAAAGTTGAGG 60.675 60.000 6.99 0.00 37.29 3.86
1176 1179 4.194720 AGCTCGTCGTCGATGCCC 62.195 66.667 9.67 3.20 45.21 5.36
1217 1220 1.902508 TGAGAGCCCGTCAGATTTCTT 59.097 47.619 0.00 0.00 0.00 2.52
1235 1238 6.379417 TCTGATAAGAGTGAAATCTCAGCTGA 59.621 38.462 17.19 17.19 36.97 4.26
1247 1250 8.807118 ACTGAACAAGTTATCTGATAAGAGTGA 58.193 33.333 10.26 1.42 34.57 3.41
1309 1312 3.053991 TCCTGTCAGGACCTGAAACAAAA 60.054 43.478 25.93 9.04 42.46 2.44
1421 1424 5.818678 TGGTGTGTAGAGTAAATGGAGTT 57.181 39.130 0.00 0.00 0.00 3.01
1422 1425 6.439375 TGTATGGTGTGTAGAGTAAATGGAGT 59.561 38.462 0.00 0.00 0.00 3.85
1447 1450 4.334759 GCTATGACAAAGCATGACTGATGT 59.665 41.667 0.00 2.99 39.83 3.06
1448 1451 4.575236 AGCTATGACAAAGCATGACTGATG 59.425 41.667 0.00 0.00 42.62 3.07
1449 1452 4.778579 AGCTATGACAAAGCATGACTGAT 58.221 39.130 0.00 0.00 42.62 2.90
1450 1453 4.081254 AGAGCTATGACAAAGCATGACTGA 60.081 41.667 0.00 0.00 42.62 3.41
1451 1454 4.034163 CAGAGCTATGACAAAGCATGACTG 59.966 45.833 0.88 0.00 42.62 3.51
1490 1493 4.641989 CCATGCTGCTAAAGGAAACAGTAT 59.358 41.667 0.00 0.00 36.13 2.12
1513 1516 7.815068 AGTTATGTGAGAACTTGTGATGTACTC 59.185 37.037 0.00 0.00 33.25 2.59
1536 1539 6.375174 TGCTTACATACATGAGCATTTCAGTT 59.625 34.615 0.00 0.00 39.68 3.16
1572 1575 4.978083 AGCAAGCAATTAGTTCAGATGG 57.022 40.909 0.00 0.00 0.00 3.51
1756 1763 3.726607 CATTGAGGTGTAGAGCAGGATC 58.273 50.000 0.00 0.00 0.00 3.36
1769 1776 0.035056 GGTACCTGCAGCATTGAGGT 60.035 55.000 8.66 8.95 38.01 3.85
1770 1777 0.035152 TGGTACCTGCAGCATTGAGG 60.035 55.000 14.36 0.00 0.00 3.86
1771 1778 1.376543 CTGGTACCTGCAGCATTGAG 58.623 55.000 14.36 0.00 0.00 3.02
1777 1788 2.771328 AAAGGCCTGGTACCTGCAGC 62.771 60.000 22.87 16.83 37.67 5.25
1892 1903 4.892934 TCAGCAATTACCTTGAACCAAACT 59.107 37.500 0.00 0.00 36.97 2.66
1920 1934 1.478510 AGCCGTGAGAAATGACGATCT 59.521 47.619 0.00 0.00 37.81 2.75
1929 1943 3.006859 TCTGAATCTGAAGCCGTGAGAAA 59.993 43.478 0.00 0.00 0.00 2.52
1932 1946 2.662006 TCTGAATCTGAAGCCGTGAG 57.338 50.000 0.00 0.00 0.00 3.51
1967 1981 0.878416 TTGTTTATGGCACCGTGAGC 59.122 50.000 1.65 0.00 0.00 4.26
1990 2004 4.457496 CGCCGGTCTGCAGGATGT 62.457 66.667 15.13 0.00 39.31 3.06
2012 2026 1.671379 GGTGTTCCCGTCAAGGAGC 60.671 63.158 0.00 0.00 45.00 4.70
2024 2038 2.685100 CCGAAGTAGTTGAGGGTGTTC 58.315 52.381 0.00 0.00 0.00 3.18
2201 2220 1.376037 CCTGCCGGAGAAGTTGACC 60.376 63.158 5.05 0.00 0.00 4.02
2227 2246 4.760047 CCGGGGTGGAGCTTGTCG 62.760 72.222 0.00 0.00 42.00 4.35
2516 2535 1.642215 GCACGCAGCTGATCATCAG 59.358 57.895 20.43 10.64 46.90 2.90
2548 2573 3.674753 GGTAAAATTCACACAGCACATGC 59.325 43.478 0.00 0.00 42.49 4.06
2574 2599 5.277828 GGCACATTCGTACTCTCAAACTTTT 60.278 40.000 0.00 0.00 0.00 2.27
2578 2603 2.092211 CGGCACATTCGTACTCTCAAAC 59.908 50.000 0.00 0.00 0.00 2.93
2579 2604 2.288579 ACGGCACATTCGTACTCTCAAA 60.289 45.455 0.00 0.00 39.22 2.69
2759 2890 7.750229 ACTAATCGATAACGGGTTCACTATA 57.250 36.000 0.00 0.00 40.21 1.31
2765 2896 6.698766 ACAATGTACTAATCGATAACGGGTTC 59.301 38.462 0.00 0.00 40.21 3.62
2770 2901 8.222984 TGCATACAATGTACTAATCGATAACG 57.777 34.615 0.00 0.00 41.26 3.18
2823 2957 6.757897 TTTGGTATAATTCCAGCACTTCAG 57.242 37.500 0.00 0.00 36.28 3.02
2942 3079 9.855021 TTCGGTCTATATGATACATACATGTTG 57.145 33.333 2.30 5.06 41.97 3.33
3012 3229 9.750125 ACCATTCAAAGAAGTATTTTTGAGTTC 57.250 29.630 0.73 0.00 42.35 3.01
3078 3304 3.198068 ACGCGCATTTGATCTCAATAGT 58.802 40.909 5.73 0.00 35.55 2.12
3080 3306 5.922739 AATACGCGCATTTGATCTCAATA 57.077 34.783 5.73 0.00 35.55 1.90
3091 3317 5.106475 TGGAGAAACTAAAAATACGCGCATT 60.106 36.000 5.73 0.85 0.00 3.56
3094 3320 4.330740 TGGAGAAACTAAAAATACGCGC 57.669 40.909 5.73 0.00 0.00 6.86
3095 3321 7.790861 AAAATGGAGAAACTAAAAATACGCG 57.209 32.000 3.53 3.53 0.00 6.01
3097 3323 9.685828 TCCAAAAATGGAGAAACTAAAAATACG 57.314 29.630 0.00 0.00 33.38 3.06
3134 3362 5.264395 CCTGTCCCATCTAACTTTTTGGAT 58.736 41.667 0.00 0.00 33.37 3.41
3137 3365 4.407365 ACCCTGTCCCATCTAACTTTTTG 58.593 43.478 0.00 0.00 0.00 2.44
3143 3371 3.883489 GCATTTACCCTGTCCCATCTAAC 59.117 47.826 0.00 0.00 0.00 2.34
3156 3384 1.094785 ACGACTGCATGCATTTACCC 58.905 50.000 22.97 2.49 0.00 3.69
3158 3386 3.680642 ATCACGACTGCATGCATTTAC 57.319 42.857 22.97 11.59 0.00 2.01
3159 3387 3.688673 TCAATCACGACTGCATGCATTTA 59.311 39.130 22.97 4.33 0.00 1.40
3161 3389 2.086094 TCAATCACGACTGCATGCATT 58.914 42.857 22.97 16.79 0.00 3.56
3162 3390 1.741528 TCAATCACGACTGCATGCAT 58.258 45.000 22.97 11.62 0.00 3.96
3163 3391 1.465777 CTTCAATCACGACTGCATGCA 59.534 47.619 21.29 21.29 0.00 3.96
3165 3393 3.619929 TCATCTTCAATCACGACTGCATG 59.380 43.478 0.00 0.00 0.00 4.06
3166 3394 3.865446 TCATCTTCAATCACGACTGCAT 58.135 40.909 0.00 0.00 0.00 3.96
3168 3396 4.871993 ATTCATCTTCAATCACGACTGC 57.128 40.909 0.00 0.00 0.00 4.40
3169 3397 6.892310 TGTATTCATCTTCAATCACGACTG 57.108 37.500 0.00 0.00 0.00 3.51
3170 3398 7.011763 CCAATGTATTCATCTTCAATCACGACT 59.988 37.037 0.00 0.00 32.56 4.18
3171 3399 7.011389 TCCAATGTATTCATCTTCAATCACGAC 59.989 37.037 0.00 0.00 32.56 4.34
3173 3401 7.250445 TCCAATGTATTCATCTTCAATCACG 57.750 36.000 0.00 0.00 32.56 4.35
3174 3402 8.680903 ACTTCCAATGTATTCATCTTCAATCAC 58.319 33.333 0.00 0.00 32.56 3.06
3175 3403 8.812513 ACTTCCAATGTATTCATCTTCAATCA 57.187 30.769 0.00 0.00 32.56 2.57
3178 3406 9.912634 GAAAACTTCCAATGTATTCATCTTCAA 57.087 29.630 0.00 0.00 32.56 2.69
3179 3407 9.076781 TGAAAACTTCCAATGTATTCATCTTCA 57.923 29.630 0.00 0.00 32.56 3.02
3181 3409 9.865321 CATGAAAACTTCCAATGTATTCATCTT 57.135 29.630 0.00 0.00 34.73 2.40
3182 3410 7.977853 GCATGAAAACTTCCAATGTATTCATCT 59.022 33.333 0.00 0.00 34.73 2.90
3183 3411 7.760794 TGCATGAAAACTTCCAATGTATTCATC 59.239 33.333 0.00 0.00 34.73 2.92
3184 3412 7.613585 TGCATGAAAACTTCCAATGTATTCAT 58.386 30.769 0.00 0.00 36.70 2.57
3185 3413 6.990798 TGCATGAAAACTTCCAATGTATTCA 58.009 32.000 0.00 0.00 0.00 2.57
3186 3414 7.887996 TTGCATGAAAACTTCCAATGTATTC 57.112 32.000 0.00 0.00 0.00 1.75
3187 3415 8.149647 TCTTTGCATGAAAACTTCCAATGTATT 58.850 29.630 0.00 0.00 0.00 1.89
3188 3416 7.669427 TCTTTGCATGAAAACTTCCAATGTAT 58.331 30.769 0.00 0.00 0.00 2.29
3189 3417 7.048629 TCTTTGCATGAAAACTTCCAATGTA 57.951 32.000 0.00 0.00 0.00 2.29
3190 3418 5.916318 TCTTTGCATGAAAACTTCCAATGT 58.084 33.333 0.00 0.00 0.00 2.71
3191 3419 6.847956 TTCTTTGCATGAAAACTTCCAATG 57.152 33.333 0.00 0.00 0.00 2.82
3192 3420 7.862512 TTTTCTTTGCATGAAAACTTCCAAT 57.137 28.000 18.25 0.00 38.15 3.16
3193 3421 7.605691 TCTTTTTCTTTGCATGAAAACTTCCAA 59.394 29.630 20.51 9.67 41.32 3.53
3194 3422 7.102346 TCTTTTTCTTTGCATGAAAACTTCCA 58.898 30.769 20.51 10.16 41.32 3.53
3195 3423 7.538303 TCTTTTTCTTTGCATGAAAACTTCC 57.462 32.000 20.51 0.00 41.32 3.46
3196 3424 9.824534 TTTTCTTTTTCTTTGCATGAAAACTTC 57.175 25.926 20.51 0.00 41.32 3.01
3198 3426 9.777575 CATTTTCTTTTTCTTTGCATGAAAACT 57.222 25.926 20.51 6.12 41.32 2.66
3199 3427 8.525876 GCATTTTCTTTTTCTTTGCATGAAAAC 58.474 29.630 20.51 8.88 41.32 2.43
3200 3428 8.242053 TGCATTTTCTTTTTCTTTGCATGAAAA 58.758 25.926 18.25 18.25 40.34 2.29
3201 3429 7.759465 TGCATTTTCTTTTTCTTTGCATGAAA 58.241 26.923 10.21 10.21 34.03 2.69
3202 3430 7.317842 TGCATTTTCTTTTTCTTTGCATGAA 57.682 28.000 0.00 0.00 34.03 2.57
3203 3431 6.922247 TGCATTTTCTTTTTCTTTGCATGA 57.078 29.167 0.00 0.00 34.03 3.07
3205 3433 6.146898 GCATGCATTTTCTTTTTCTTTGCAT 58.853 32.000 14.21 1.90 46.86 3.96
3206 3434 5.066117 TGCATGCATTTTCTTTTTCTTTGCA 59.934 32.000 18.46 0.00 42.15 4.08
3207 3435 5.512473 TGCATGCATTTTCTTTTTCTTTGC 58.488 33.333 18.46 0.00 0.00 3.68
3208 3436 6.721321 ACTGCATGCATTTTCTTTTTCTTTG 58.279 32.000 22.97 5.85 0.00 2.77
3209 3437 6.930667 ACTGCATGCATTTTCTTTTTCTTT 57.069 29.167 22.97 0.00 0.00 2.52
3210 3438 7.874016 TGATACTGCATGCATTTTCTTTTTCTT 59.126 29.630 22.97 0.00 0.00 2.52
3211 3439 7.380536 TGATACTGCATGCATTTTCTTTTTCT 58.619 30.769 22.97 0.00 0.00 2.52
3212 3440 7.330208 ACTGATACTGCATGCATTTTCTTTTTC 59.670 33.333 22.97 8.60 0.00 2.29
3213 3441 7.117236 CACTGATACTGCATGCATTTTCTTTTT 59.883 33.333 22.97 3.85 0.00 1.94
3214 3442 6.588756 CACTGATACTGCATGCATTTTCTTTT 59.411 34.615 22.97 6.12 0.00 2.27
3215 3443 6.097356 CACTGATACTGCATGCATTTTCTTT 58.903 36.000 22.97 8.44 0.00 2.52
3216 3444 5.647589 CACTGATACTGCATGCATTTTCTT 58.352 37.500 22.97 8.77 0.00 2.52
3217 3445 4.439700 GCACTGATACTGCATGCATTTTCT 60.440 41.667 22.97 4.42 36.30 2.52
3218 3446 3.795101 GCACTGATACTGCATGCATTTTC 59.205 43.478 22.97 19.74 36.30 2.29
3219 3447 3.446161 AGCACTGATACTGCATGCATTTT 59.554 39.130 22.97 11.07 38.79 1.82
3220 3448 3.021695 AGCACTGATACTGCATGCATTT 58.978 40.909 22.97 13.92 38.79 2.32
3221 3449 2.651455 AGCACTGATACTGCATGCATT 58.349 42.857 22.97 18.85 38.79 3.56
3222 3450 2.343484 AGCACTGATACTGCATGCAT 57.657 45.000 22.97 13.83 38.79 3.96
3223 3451 2.011947 GAAGCACTGATACTGCATGCA 58.988 47.619 21.29 21.29 38.79 3.96
3224 3452 1.332997 GGAAGCACTGATACTGCATGC 59.667 52.381 11.82 11.82 37.08 4.06
3225 3453 2.915349 AGGAAGCACTGATACTGCATG 58.085 47.619 0.00 0.00 37.08 4.06
3226 3454 4.760530 TTAGGAAGCACTGATACTGCAT 57.239 40.909 0.00 0.00 37.08 3.96
3227 3455 4.760530 ATTAGGAAGCACTGATACTGCA 57.239 40.909 0.00 0.00 37.08 4.41
3228 3456 6.442513 AAAATTAGGAAGCACTGATACTGC 57.557 37.500 0.00 0.00 34.63 4.40
3255 3483 9.860898 GCACCTCTATTAATCATGAAAAACTTT 57.139 29.630 0.00 0.00 0.00 2.66
3256 3484 9.247861 AGCACCTCTATTAATCATGAAAAACTT 57.752 29.630 0.00 0.00 0.00 2.66
3257 3485 8.814038 AGCACCTCTATTAATCATGAAAAACT 57.186 30.769 0.00 0.00 0.00 2.66
3258 3486 9.937175 GTAGCACCTCTATTAATCATGAAAAAC 57.063 33.333 0.00 0.00 0.00 2.43
3259 3487 9.905713 AGTAGCACCTCTATTAATCATGAAAAA 57.094 29.630 0.00 0.00 0.00 1.94
3264 3492 9.988815 ACTTTAGTAGCACCTCTATTAATCATG 57.011 33.333 0.00 0.00 32.00 3.07
3269 3497 9.817809 CATGAACTTTAGTAGCACCTCTATTAA 57.182 33.333 0.00 0.00 30.54 1.40
3270 3498 7.926555 GCATGAACTTTAGTAGCACCTCTATTA 59.073 37.037 0.00 0.00 0.00 0.98
3271 3499 6.763610 GCATGAACTTTAGTAGCACCTCTATT 59.236 38.462 0.00 0.00 0.00 1.73
3272 3500 6.127054 TGCATGAACTTTAGTAGCACCTCTAT 60.127 38.462 0.00 0.00 0.00 1.98
3273 3501 5.186992 TGCATGAACTTTAGTAGCACCTCTA 59.813 40.000 0.00 0.00 0.00 2.43
3274 3502 4.020218 TGCATGAACTTTAGTAGCACCTCT 60.020 41.667 0.00 0.00 0.00 3.69
3275 3503 4.253685 TGCATGAACTTTAGTAGCACCTC 58.746 43.478 0.00 0.00 0.00 3.85
3276 3504 4.286297 TGCATGAACTTTAGTAGCACCT 57.714 40.909 0.00 0.00 0.00 4.00
3277 3505 4.201950 CCATGCATGAACTTTAGTAGCACC 60.202 45.833 28.31 0.00 32.92 5.01
3278 3506 4.201950 CCCATGCATGAACTTTAGTAGCAC 60.202 45.833 28.31 0.00 32.92 4.40
3279 3507 3.947196 CCCATGCATGAACTTTAGTAGCA 59.053 43.478 28.31 0.00 34.78 3.49
3280 3508 3.243201 GCCCATGCATGAACTTTAGTAGC 60.243 47.826 28.31 10.08 37.47 3.58
3281 3509 3.316308 GGCCCATGCATGAACTTTAGTAG 59.684 47.826 28.31 6.76 40.13 2.57
3282 3510 3.287222 GGCCCATGCATGAACTTTAGTA 58.713 45.455 28.31 0.00 40.13 1.82
3283 3511 2.102578 GGCCCATGCATGAACTTTAGT 58.897 47.619 28.31 0.00 40.13 2.24
3284 3512 1.410153 GGGCCCATGCATGAACTTTAG 59.590 52.381 28.31 8.99 40.13 1.85
3285 3513 1.006998 AGGGCCCATGCATGAACTTTA 59.993 47.619 28.31 0.00 40.13 1.85
3286 3514 0.252375 AGGGCCCATGCATGAACTTT 60.252 50.000 28.31 7.64 40.13 2.66
3287 3515 0.685458 GAGGGCCCATGCATGAACTT 60.685 55.000 28.31 13.21 40.13 2.66
3288 3516 1.076485 GAGGGCCCATGCATGAACT 60.076 57.895 28.31 18.16 40.13 3.01
3289 3517 0.183492 TAGAGGGCCCATGCATGAAC 59.817 55.000 28.31 18.01 40.13 3.18
3290 3518 0.925558 TTAGAGGGCCCATGCATGAA 59.074 50.000 28.31 8.63 40.13 2.57
3291 3519 0.183492 GTTAGAGGGCCCATGCATGA 59.817 55.000 28.31 1.96 40.13 3.07
3292 3520 0.106569 TGTTAGAGGGCCCATGCATG 60.107 55.000 27.56 20.19 40.13 4.06
3293 3521 0.106519 GTGTTAGAGGGCCCATGCAT 60.107 55.000 27.56 0.88 40.13 3.96
3294 3522 1.302949 GTGTTAGAGGGCCCATGCA 59.697 57.895 27.56 12.47 40.13 3.96
3295 3523 1.032114 GTGTGTTAGAGGGCCCATGC 61.032 60.000 27.56 13.29 0.00 4.06
3296 3524 0.620556 AGTGTGTTAGAGGGCCCATG 59.379 55.000 27.56 0.00 0.00 3.66
3297 3525 1.004745 CAAGTGTGTTAGAGGGCCCAT 59.995 52.381 27.56 15.35 0.00 4.00
3298 3526 0.400213 CAAGTGTGTTAGAGGGCCCA 59.600 55.000 27.56 0.00 0.00 5.36
3299 3527 0.400594 ACAAGTGTGTTAGAGGGCCC 59.599 55.000 16.46 16.46 32.58 5.80
3300 3528 3.270877 CATACAAGTGTGTTAGAGGGCC 58.729 50.000 0.00 0.00 39.30 5.80
3301 3529 3.939066 ACATACAAGTGTGTTAGAGGGC 58.061 45.455 0.00 0.00 39.30 5.19
3302 3530 6.106673 CCTTACATACAAGTGTGTTAGAGGG 58.893 44.000 14.79 2.54 39.30 4.30
3303 3531 6.590292 CACCTTACATACAAGTGTGTTAGAGG 59.410 42.308 14.79 16.10 39.30 3.69
3304 3532 7.152645 ACACCTTACATACAAGTGTGTTAGAG 58.847 38.462 14.79 10.39 36.97 2.43
3318 3546 5.482526 TGGTAGAAGCAAGACACCTTACATA 59.517 40.000 0.00 0.00 0.00 2.29
3319 3547 4.286032 TGGTAGAAGCAAGACACCTTACAT 59.714 41.667 0.00 0.00 0.00 2.29
3320 3548 3.644265 TGGTAGAAGCAAGACACCTTACA 59.356 43.478 0.00 0.00 0.00 2.41
3321 3549 3.995048 GTGGTAGAAGCAAGACACCTTAC 59.005 47.826 0.00 0.00 0.00 2.34
3323 3551 2.224548 GGTGGTAGAAGCAAGACACCTT 60.225 50.000 0.00 0.00 43.70 3.50
3324 3552 1.348036 GGTGGTAGAAGCAAGACACCT 59.652 52.381 0.00 0.00 43.70 4.00
3325 3553 1.071699 TGGTGGTAGAAGCAAGACACC 59.928 52.381 0.00 0.00 46.40 4.16
3326 3554 2.543777 TGGTGGTAGAAGCAAGACAC 57.456 50.000 0.00 0.00 0.00 3.67
3327 3555 3.411446 CATTGGTGGTAGAAGCAAGACA 58.589 45.455 0.00 0.00 40.58 3.41
3328 3556 2.749621 CCATTGGTGGTAGAAGCAAGAC 59.250 50.000 0.00 0.00 40.58 3.01
3364 3623 2.635915 TGGACCAAACTCACCGTAAGAT 59.364 45.455 0.00 0.00 43.02 2.40
3368 3627 1.002659 CCATGGACCAAACTCACCGTA 59.997 52.381 5.56 0.00 0.00 4.02
3429 3688 3.930504 GCCTTCTGATGGGCCAAG 58.069 61.111 11.89 4.15 42.30 3.61
3453 3712 4.682778 AATGATCAAAGGGCAATGGATG 57.317 40.909 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.