Multiple sequence alignment - TraesCS4B01G068000

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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 TraesCS4B01G068000 chr4B 100.000 3673 0 0 1 3673 60425729 60429401 0.000000e+00 6783.0
1 TraesCS4B01G068000 chr4B 83.721 86 12 2 3044 3129 497488919 497489002 3.040000e-11 80.5
2 TraesCS4B01G068000 chr4B 92.500 40 2 1 3058 3097 3287548 3287510 5.120000e-04 56.5
3 TraesCS4B01G068000 chr4D 94.421 3083 126 22 1 3072 42097724 42100771 0.000000e+00 4698.0
4 TraesCS4B01G068000 chr4D 87.633 283 25 6 3286 3562 42101971 42102249 1.650000e-83 320.0
5 TraesCS4B01G068000 chr4D 95.455 110 5 0 3163 3272 42100766 42100875 3.770000e-40 176.0
6 TraesCS4B01G068000 chr4A 94.170 3036 113 29 1 2994 557871233 557868220 0.000000e+00 4567.0
7 TraesCS4B01G068000 chr4A 91.123 383 28 4 3156 3532 557868172 557867790 7.030000e-142 514.0
8 TraesCS4B01G068000 chr4A 85.000 80 10 1 3058 3137 211386979 211386902 3.040000e-11 80.5
9 TraesCS4B01G068000 chr4A 92.500 40 3 0 3055 3094 694283757 694283796 1.420000e-04 58.4
10 TraesCS4B01G068000 chr1B 89.598 1442 116 23 1319 2742 50399766 50398341 0.000000e+00 1801.0
11 TraesCS4B01G068000 chr1B 85.481 489 26 13 862 1318 50400326 50399851 5.550000e-128 468.0
12 TraesCS4B01G068000 chr1B 89.286 112 10 2 723 833 50400540 50400430 4.950000e-29 139.0
13 TraesCS4B01G068000 chr2D 94.444 72 4 0 3058 3129 44215573 44215644 1.080000e-20 111.0
14 TraesCS4B01G068000 chr1A 90.000 80 6 1 3058 3137 284332353 284332276 6.490000e-18 102.0
15 TraesCS4B01G068000 chr6B 92.500 40 3 0 3055 3094 574833205 574833244 1.420000e-04 58.4


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 TraesCS4B01G068000 chr4B 60425729 60429401 3672 False 6783.000000 6783 100.000000 1 3673 1 chr4B.!!$F1 3672
1 TraesCS4B01G068000 chr4D 42097724 42102249 4525 False 1731.333333 4698 92.503000 1 3562 3 chr4D.!!$F1 3561
2 TraesCS4B01G068000 chr4A 557867790 557871233 3443 True 2540.500000 4567 92.646500 1 3532 2 chr4A.!!$R2 3531
3 TraesCS4B01G068000 chr1B 50398341 50400540 2199 True 802.666667 1801 88.121667 723 2742 3 chr1B.!!$R1 2019

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
862 950 0.678048 GCACACTCCCACCTTCCATC 60.678 60.000 0.0 0.0 0.00 3.51 F
1666 1874 1.896465 AGTGTGAGCTAGACCTCAACC 59.104 52.381 0.0 0.0 42.98 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2606 2859 0.034896 TCTCTCCTGCGGTTTTGTCC 59.965 55.0 0.00 0.00 0.00 4.02 R
3546 4892 0.037232 GGGTTGACCTTCCTCGAGTG 60.037 60.0 12.31 3.02 35.85 3.51 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
272 275 1.672881 GCATGCCCATCAGTGAACTAC 59.327 52.381 6.36 0.00 0.00 2.73
276 279 1.555075 GCCCATCAGTGAACTACCTCA 59.445 52.381 0.00 0.00 0.00 3.86
286 289 5.010719 CAGTGAACTACCTCAACTAAGACCA 59.989 44.000 0.00 0.00 0.00 4.02
294 297 5.552178 ACCTCAACTAAGACCATCTTTGTC 58.448 41.667 6.20 0.00 40.53 3.18
520 524 9.813446 GCTGGTTGTTACAATAGTAGTATAGTT 57.187 33.333 0.00 0.00 0.00 2.24
545 549 5.717078 TCTACTGTTCTGTATCAAACGGT 57.283 39.130 5.20 5.20 44.81 4.83
571 575 3.650070 TTTTGGTGTGATGCGCAATTA 57.350 38.095 17.11 0.00 0.00 1.40
629 633 8.773645 TGCTTATTATCATGTTGAACTATTCCG 58.226 33.333 0.00 0.00 0.00 4.30
818 824 5.365025 AGATGCACTATTAGATGGTCTGTGT 59.635 40.000 0.00 0.00 0.00 3.72
819 825 4.758688 TGCACTATTAGATGGTCTGTGTG 58.241 43.478 0.00 0.00 0.00 3.82
824 830 4.890158 ATTAGATGGTCTGTGTGTGTCA 57.110 40.909 0.00 0.00 0.00 3.58
830 836 2.433970 TGGTCTGTGTGTGTCAGATTCA 59.566 45.455 0.00 0.00 42.63 2.57
860 948 2.829384 GGCACACTCCCACCTTCCA 61.829 63.158 0.00 0.00 0.00 3.53
861 949 1.380302 GCACACTCCCACCTTCCAT 59.620 57.895 0.00 0.00 0.00 3.41
862 950 0.678048 GCACACTCCCACCTTCCATC 60.678 60.000 0.00 0.00 0.00 3.51
886 974 5.964758 TCCCAAAATATGTGCATCTTTGTC 58.035 37.500 13.70 0.00 0.00 3.18
966 1061 3.408150 GCTTCGAATTGCTGTCTAAACG 58.592 45.455 0.00 0.00 0.00 3.60
1097 1207 4.640789 TTTGGTATGCACGTTTTTCAGT 57.359 36.364 0.00 0.00 0.00 3.41
1098 1208 3.889196 TGGTATGCACGTTTTTCAGTC 57.111 42.857 0.00 0.00 0.00 3.51
1173 1293 5.357314 AGCATAATGATGGAGCATAAGCATC 59.643 40.000 0.00 0.00 37.04 3.91
1179 1299 4.021280 TGATGGAGCATAAGCATCTCTCTC 60.021 45.833 0.00 0.00 45.49 3.20
1180 1300 3.574749 TGGAGCATAAGCATCTCTCTCT 58.425 45.455 0.00 0.00 45.49 3.10
1181 1301 3.966006 TGGAGCATAAGCATCTCTCTCTT 59.034 43.478 0.00 0.00 45.49 2.85
1280 1401 8.768955 GTTGCAACATGACATGGTAAATTAAAA 58.231 29.630 24.52 0.70 33.60 1.52
1377 1582 8.256356 ACTGATAGAGCTAATATGTCAAAGGT 57.744 34.615 0.00 0.00 0.00 3.50
1502 1709 6.270927 AGGCCTAGCTATTGATTTCTACATGA 59.729 38.462 1.29 0.00 0.00 3.07
1505 1712 9.007901 GCCTAGCTATTGATTTCTACATGAATT 57.992 33.333 0.00 0.00 34.24 2.17
1666 1874 1.896465 AGTGTGAGCTAGACCTCAACC 59.104 52.381 0.00 0.00 42.98 3.77
1784 1992 3.616956 CCAGTGAGGCAGAAGATAACA 57.383 47.619 0.00 0.00 0.00 2.41
2230 2441 4.997395 TCAGCTTTCTGTAATGAAGTCCAC 59.003 41.667 0.00 0.00 41.10 4.02
2319 2542 9.498176 TTTGTAACTCTTTCTAAGTTGGTATCC 57.502 33.333 0.00 0.00 37.52 2.59
2418 2642 3.370104 CTTACCATCTGAGTCCAGGACT 58.630 50.000 23.18 23.18 46.42 3.85
2428 2652 5.488919 TCTGAGTCCAGGACTTTATTGGAAT 59.511 40.000 23.78 0.00 43.53 3.01
2606 2859 0.111089 GAGCTGCAAACAACGTCGAG 60.111 55.000 1.02 0.00 0.00 4.04
2695 2948 2.034558 CCGCAAAGTGAATTCTGTGGTT 59.965 45.455 14.02 0.00 35.22 3.67
2885 3140 7.762588 TTCTAGTTGAACTAGCTACTTCACT 57.237 36.000 23.92 14.61 45.93 3.41
2888 3143 9.293404 TCTAGTTGAACTAGCTACTTCACTTTA 57.707 33.333 23.92 3.03 45.93 1.85
2972 3227 5.744171 ACAACCCTTGAGCAATTTTTCTTT 58.256 33.333 0.00 0.00 0.00 2.52
2977 3232 5.816777 CCCTTGAGCAATTTTTCTTTGTGAA 59.183 36.000 0.00 0.00 0.00 3.18
2995 3250 6.182039 TGTGAAATCATGCTTTACTGCTAC 57.818 37.500 0.00 0.00 0.00 3.58
2999 3254 8.616076 GTGAAATCATGCTTTACTGCTACTATT 58.384 33.333 0.00 0.00 0.00 1.73
3000 3255 9.830975 TGAAATCATGCTTTACTGCTACTATTA 57.169 29.630 0.00 0.00 0.00 0.98
3030 3285 6.430308 GCTGATTATTGTGGATCTGTGATGAT 59.570 38.462 0.00 0.00 0.00 2.45
3032 3287 7.511268 TGATTATTGTGGATCTGTGATGATCA 58.489 34.615 0.00 0.00 43.27 2.92
3033 3288 8.161425 TGATTATTGTGGATCTGTGATGATCAT 58.839 33.333 8.25 8.25 43.27 2.45
3062 3318 9.662947 ACAATTATTACACAAGTAAGGTACTCC 57.337 33.333 0.00 0.00 43.02 3.85
3065 3321 5.990120 TTACACAAGTAAGGTACTCCCTC 57.010 43.478 0.00 0.00 45.47 4.30
3066 3322 3.171528 ACACAAGTAAGGTACTCCCTCC 58.828 50.000 0.00 0.00 45.47 4.30
3067 3323 3.170717 CACAAGTAAGGTACTCCCTCCA 58.829 50.000 0.00 0.00 45.47 3.86
3068 3324 3.775316 CACAAGTAAGGTACTCCCTCCAT 59.225 47.826 0.00 0.00 45.47 3.41
3069 3325 4.225267 CACAAGTAAGGTACTCCCTCCATT 59.775 45.833 0.00 0.00 45.47 3.16
3070 3326 4.470304 ACAAGTAAGGTACTCCCTCCATTC 59.530 45.833 0.00 0.00 45.47 2.67
3071 3327 4.348020 AGTAAGGTACTCCCTCCATTCA 57.652 45.455 0.00 0.00 45.47 2.57
3072 3328 4.031611 AGTAAGGTACTCCCTCCATTCAC 58.968 47.826 0.00 0.00 45.47 3.18
3073 3329 2.950990 AGGTACTCCCTCCATTCACT 57.049 50.000 0.00 0.00 40.71 3.41
3074 3330 3.207044 AGGTACTCCCTCCATTCACTT 57.793 47.619 0.00 0.00 40.71 3.16
3075 3331 3.532102 AGGTACTCCCTCCATTCACTTT 58.468 45.455 0.00 0.00 40.71 2.66
3076 3332 3.916989 AGGTACTCCCTCCATTCACTTTT 59.083 43.478 0.00 0.00 40.71 2.27
3077 3333 4.010349 GGTACTCCCTCCATTCACTTTTG 58.990 47.826 0.00 0.00 0.00 2.44
3078 3334 3.884037 ACTCCCTCCATTCACTTTTGT 57.116 42.857 0.00 0.00 0.00 2.83
3079 3335 4.993705 ACTCCCTCCATTCACTTTTGTA 57.006 40.909 0.00 0.00 0.00 2.41
3080 3336 5.319043 ACTCCCTCCATTCACTTTTGTAA 57.681 39.130 0.00 0.00 0.00 2.41
3081 3337 5.316987 ACTCCCTCCATTCACTTTTGTAAG 58.683 41.667 0.00 0.00 37.40 2.34
3082 3338 5.073144 ACTCCCTCCATTCACTTTTGTAAGA 59.927 40.000 0.00 0.00 35.30 2.10
3083 3339 6.139679 TCCCTCCATTCACTTTTGTAAGAT 57.860 37.500 0.00 0.00 35.30 2.40
3084 3340 5.945784 TCCCTCCATTCACTTTTGTAAGATG 59.054 40.000 0.00 0.00 35.30 2.90
3085 3341 5.711976 CCCTCCATTCACTTTTGTAAGATGT 59.288 40.000 0.00 0.00 35.30 3.06
3086 3342 6.209391 CCCTCCATTCACTTTTGTAAGATGTT 59.791 38.462 0.00 0.00 35.30 2.71
3087 3343 7.255942 CCCTCCATTCACTTTTGTAAGATGTTT 60.256 37.037 0.00 0.00 35.30 2.83
3088 3344 8.143835 CCTCCATTCACTTTTGTAAGATGTTTT 58.856 33.333 0.00 0.00 35.30 2.43
3107 3363 6.791303 TGTTTTAGACATTTGAGACAACACC 58.209 36.000 0.00 0.00 32.00 4.16
3108 3364 6.601613 TGTTTTAGACATTTGAGACAACACCT 59.398 34.615 0.00 0.00 32.00 4.00
3109 3365 7.771361 TGTTTTAGACATTTGAGACAACACCTA 59.229 33.333 0.00 0.00 32.00 3.08
3110 3366 8.617809 GTTTTAGACATTTGAGACAACACCTAA 58.382 33.333 0.00 0.00 0.00 2.69
3111 3367 8.740123 TTTAGACATTTGAGACAACACCTAAA 57.260 30.769 0.00 0.00 0.00 1.85
3112 3368 8.740123 TTAGACATTTGAGACAACACCTAAAA 57.260 30.769 0.00 0.00 0.00 1.52
3113 3369 7.027778 AGACATTTGAGACAACACCTAAAAC 57.972 36.000 0.00 0.00 0.00 2.43
3114 3370 6.601613 AGACATTTGAGACAACACCTAAAACA 59.398 34.615 0.00 0.00 0.00 2.83
3115 3371 6.560711 ACATTTGAGACAACACCTAAAACAC 58.439 36.000 0.00 0.00 0.00 3.32
3116 3372 6.377146 ACATTTGAGACAACACCTAAAACACT 59.623 34.615 0.00 0.00 0.00 3.55
3117 3373 6.827586 TTTGAGACAACACCTAAAACACTT 57.172 33.333 0.00 0.00 0.00 3.16
3118 3374 6.431198 TTGAGACAACACCTAAAACACTTC 57.569 37.500 0.00 0.00 0.00 3.01
3119 3375 5.492895 TGAGACAACACCTAAAACACTTCA 58.507 37.500 0.00 0.00 0.00 3.02
3120 3376 5.941058 TGAGACAACACCTAAAACACTTCAA 59.059 36.000 0.00 0.00 0.00 2.69
3121 3377 6.601613 TGAGACAACACCTAAAACACTTCAAT 59.398 34.615 0.00 0.00 0.00 2.57
3122 3378 7.122055 TGAGACAACACCTAAAACACTTCAATT 59.878 33.333 0.00 0.00 0.00 2.32
3123 3379 7.836842 AGACAACACCTAAAACACTTCAATTT 58.163 30.769 0.00 0.00 0.00 1.82
3124 3380 8.311109 AGACAACACCTAAAACACTTCAATTTT 58.689 29.630 0.00 0.00 32.85 1.82
3125 3381 9.575783 GACAACACCTAAAACACTTCAATTTTA 57.424 29.630 0.00 0.00 30.80 1.52
3126 3382 9.581099 ACAACACCTAAAACACTTCAATTTTAG 57.419 29.630 8.76 8.76 43.44 1.85
3127 3383 8.539674 CAACACCTAAAACACTTCAATTTTAGC 58.460 33.333 9.84 0.00 42.89 3.09
3128 3384 8.007405 ACACCTAAAACACTTCAATTTTAGCT 57.993 30.769 9.84 0.00 42.89 3.32
3129 3385 8.135529 ACACCTAAAACACTTCAATTTTAGCTC 58.864 33.333 9.84 0.00 42.89 4.09
3130 3386 7.595130 CACCTAAAACACTTCAATTTTAGCTCC 59.405 37.037 9.84 0.00 42.89 4.70
3131 3387 6.801862 CCTAAAACACTTCAATTTTAGCTCCG 59.198 38.462 9.84 0.00 42.89 4.63
3132 3388 5.767816 AAACACTTCAATTTTAGCTCCGT 57.232 34.783 0.00 0.00 0.00 4.69
3133 3389 5.358298 AACACTTCAATTTTAGCTCCGTC 57.642 39.130 0.00 0.00 0.00 4.79
3134 3390 4.642429 ACACTTCAATTTTAGCTCCGTCT 58.358 39.130 0.00 0.00 0.00 4.18
3135 3391 5.063880 ACACTTCAATTTTAGCTCCGTCTT 58.936 37.500 0.00 0.00 0.00 3.01
3136 3392 6.228258 ACACTTCAATTTTAGCTCCGTCTTA 58.772 36.000 0.00 0.00 0.00 2.10
3137 3393 6.147328 ACACTTCAATTTTAGCTCCGTCTTAC 59.853 38.462 0.00 0.00 0.00 2.34
3138 3394 6.147164 CACTTCAATTTTAGCTCCGTCTTACA 59.853 38.462 0.00 0.00 0.00 2.41
3139 3395 6.708949 ACTTCAATTTTAGCTCCGTCTTACAA 59.291 34.615 0.00 0.00 0.00 2.41
3140 3396 6.721571 TCAATTTTAGCTCCGTCTTACAAG 57.278 37.500 0.00 0.00 0.00 3.16
3141 3397 6.460781 TCAATTTTAGCTCCGTCTTACAAGA 58.539 36.000 0.00 0.00 0.00 3.02
3142 3398 6.932400 TCAATTTTAGCTCCGTCTTACAAGAA 59.068 34.615 0.00 0.00 36.68 2.52
3143 3399 7.606456 TCAATTTTAGCTCCGTCTTACAAGAAT 59.394 33.333 0.00 0.00 36.68 2.40
3144 3400 6.721571 TTTTAGCTCCGTCTTACAAGAATG 57.278 37.500 0.00 0.00 36.68 2.67
3145 3401 5.654603 TTAGCTCCGTCTTACAAGAATGA 57.345 39.130 0.00 0.00 36.68 2.57
3146 3402 4.537135 AGCTCCGTCTTACAAGAATGAA 57.463 40.909 0.00 0.00 36.68 2.57
3147 3403 4.246458 AGCTCCGTCTTACAAGAATGAAC 58.754 43.478 0.00 0.00 36.68 3.18
3148 3404 3.994392 GCTCCGTCTTACAAGAATGAACA 59.006 43.478 0.00 0.00 36.68 3.18
3149 3405 4.092091 GCTCCGTCTTACAAGAATGAACAG 59.908 45.833 0.00 0.00 36.68 3.16
3150 3406 5.462530 TCCGTCTTACAAGAATGAACAGA 57.537 39.130 0.00 0.00 36.68 3.41
3151 3407 5.470368 TCCGTCTTACAAGAATGAACAGAG 58.530 41.667 0.00 0.00 36.68 3.35
3152 3408 4.627467 CCGTCTTACAAGAATGAACAGAGG 59.373 45.833 0.00 0.00 36.68 3.69
3153 3409 4.627467 CGTCTTACAAGAATGAACAGAGGG 59.373 45.833 0.00 0.00 36.68 4.30
3154 3410 4.393371 GTCTTACAAGAATGAACAGAGGGC 59.607 45.833 0.00 0.00 36.68 5.19
3161 3417 3.941483 AGAATGAACAGAGGGCGTATTTG 59.059 43.478 0.00 0.00 0.00 2.32
3175 3431 4.089923 GGCGTATTTGCTTTCATTGTTCAC 59.910 41.667 0.00 0.00 34.52 3.18
3231 3487 7.712639 TGGAAACAGCTTATGAGAATATGAGAC 59.287 37.037 0.00 0.00 35.01 3.36
3298 4636 5.827797 TCGCTAGGATTTAATGCCAAAAGAT 59.172 36.000 0.00 0.00 0.00 2.40
3365 4703 4.189639 AGTGTTTAGTAGAAAGCTCGGG 57.810 45.455 0.00 0.00 0.00 5.14
3499 4843 0.325577 AAATTGGTGGATGGAGGCCC 60.326 55.000 0.00 0.00 0.00 5.80
3528 4872 2.423185 GCGTCAATGATTGGTGGATTGA 59.577 45.455 5.20 0.00 34.47 2.57
3562 4908 2.287977 TCTCACTCGAGGAAGGTCAA 57.712 50.000 18.41 0.00 39.95 3.18
3563 4909 1.887198 TCTCACTCGAGGAAGGTCAAC 59.113 52.381 18.41 0.00 39.95 3.18
3564 4910 0.966920 TCACTCGAGGAAGGTCAACC 59.033 55.000 18.41 0.00 0.00 3.77
3565 4911 0.037232 CACTCGAGGAAGGTCAACCC 60.037 60.000 18.41 0.00 36.42 4.11
3566 4912 1.192803 ACTCGAGGAAGGTCAACCCC 61.193 60.000 18.41 0.00 36.42 4.95
3567 4913 1.152204 TCGAGGAAGGTCAACCCCA 60.152 57.895 0.00 0.00 36.42 4.96
3568 4914 0.546747 TCGAGGAAGGTCAACCCCAT 60.547 55.000 0.00 0.00 36.42 4.00
3569 4915 0.328258 CGAGGAAGGTCAACCCCATT 59.672 55.000 0.00 0.00 36.42 3.16
3570 4916 1.271926 CGAGGAAGGTCAACCCCATTT 60.272 52.381 0.00 0.00 36.42 2.32
3571 4917 2.171003 GAGGAAGGTCAACCCCATTTG 58.829 52.381 0.00 0.00 36.42 2.32
3572 4918 1.503347 AGGAAGGTCAACCCCATTTGT 59.497 47.619 0.00 0.00 36.42 2.83
3573 4919 1.893137 GGAAGGTCAACCCCATTTGTC 59.107 52.381 0.00 0.00 36.42 3.18
3574 4920 2.490902 GGAAGGTCAACCCCATTTGTCT 60.491 50.000 0.00 0.00 36.42 3.41
3575 4921 2.292828 AGGTCAACCCCATTTGTCTG 57.707 50.000 0.00 0.00 36.42 3.51
3576 4922 1.499007 AGGTCAACCCCATTTGTCTGT 59.501 47.619 0.00 0.00 36.42 3.41
3577 4923 1.886542 GGTCAACCCCATTTGTCTGTC 59.113 52.381 0.00 0.00 0.00 3.51
3578 4924 2.582052 GTCAACCCCATTTGTCTGTCA 58.418 47.619 0.00 0.00 0.00 3.58
3579 4925 3.157087 GTCAACCCCATTTGTCTGTCAT 58.843 45.455 0.00 0.00 0.00 3.06
3580 4926 3.573967 GTCAACCCCATTTGTCTGTCATT 59.426 43.478 0.00 0.00 0.00 2.57
3581 4927 3.573538 TCAACCCCATTTGTCTGTCATTG 59.426 43.478 0.00 0.00 0.00 2.82
3582 4928 2.528564 ACCCCATTTGTCTGTCATTGG 58.471 47.619 0.00 0.00 32.70 3.16
3583 4929 2.109834 ACCCCATTTGTCTGTCATTGGA 59.890 45.455 6.14 0.00 33.93 3.53
3584 4930 3.164268 CCCCATTTGTCTGTCATTGGAA 58.836 45.455 6.14 0.00 33.93 3.53
3585 4931 3.770933 CCCCATTTGTCTGTCATTGGAAT 59.229 43.478 6.14 0.00 33.93 3.01
3586 4932 4.955450 CCCCATTTGTCTGTCATTGGAATA 59.045 41.667 6.14 0.00 33.93 1.75
3587 4933 5.599656 CCCCATTTGTCTGTCATTGGAATAT 59.400 40.000 6.14 0.00 33.93 1.28
3588 4934 6.461927 CCCCATTTGTCTGTCATTGGAATATG 60.462 42.308 6.14 0.00 33.93 1.78
3589 4935 6.461927 CCCATTTGTCTGTCATTGGAATATGG 60.462 42.308 0.00 0.00 33.93 2.74
3590 4936 6.461927 CCATTTGTCTGTCATTGGAATATGGG 60.462 42.308 0.00 0.00 33.93 4.00
3591 4937 3.554934 TGTCTGTCATTGGAATATGGGC 58.445 45.455 0.00 0.00 0.00 5.36
3592 4938 3.202818 TGTCTGTCATTGGAATATGGGCT 59.797 43.478 0.00 0.00 0.00 5.19
3593 4939 4.210331 GTCTGTCATTGGAATATGGGCTT 58.790 43.478 0.00 0.00 0.00 4.35
3594 4940 4.276926 GTCTGTCATTGGAATATGGGCTTC 59.723 45.833 0.00 0.00 0.00 3.86
3595 4941 4.166725 TCTGTCATTGGAATATGGGCTTCT 59.833 41.667 0.00 0.00 0.00 2.85
3596 4942 4.870636 TGTCATTGGAATATGGGCTTCTT 58.129 39.130 0.00 0.00 0.00 2.52
3597 4943 5.271598 TGTCATTGGAATATGGGCTTCTTT 58.728 37.500 0.00 0.00 0.00 2.52
3598 4944 6.430864 TGTCATTGGAATATGGGCTTCTTTA 58.569 36.000 0.00 0.00 0.00 1.85
3599 4945 6.547141 TGTCATTGGAATATGGGCTTCTTTAG 59.453 38.462 0.00 0.00 0.00 1.85
3600 4946 6.015940 GTCATTGGAATATGGGCTTCTTTAGG 60.016 42.308 0.00 0.00 0.00 2.69
3601 4947 4.453480 TGGAATATGGGCTTCTTTAGGG 57.547 45.455 0.00 0.00 0.00 3.53
3602 4948 3.791545 TGGAATATGGGCTTCTTTAGGGT 59.208 43.478 0.00 0.00 0.00 4.34
3603 4949 4.141251 TGGAATATGGGCTTCTTTAGGGTC 60.141 45.833 0.00 0.00 0.00 4.46
3604 4950 4.141251 GGAATATGGGCTTCTTTAGGGTCA 60.141 45.833 0.00 0.00 0.00 4.02
3605 4951 5.445964 GAATATGGGCTTCTTTAGGGTCAA 58.554 41.667 0.00 0.00 0.00 3.18
3606 4952 2.579410 TGGGCTTCTTTAGGGTCAAC 57.421 50.000 0.00 0.00 0.00 3.18
3607 4953 1.074889 TGGGCTTCTTTAGGGTCAACC 59.925 52.381 0.00 0.00 40.67 3.77
3619 4965 1.995376 GGTCAACCCCATTTGTCTGT 58.005 50.000 0.00 0.00 0.00 3.41
3620 4966 1.886542 GGTCAACCCCATTTGTCTGTC 59.113 52.381 0.00 0.00 0.00 3.51
3621 4967 2.582052 GTCAACCCCATTTGTCTGTCA 58.418 47.619 0.00 0.00 0.00 3.58
3622 4968 3.157087 GTCAACCCCATTTGTCTGTCAT 58.843 45.455 0.00 0.00 0.00 3.06
3623 4969 3.573967 GTCAACCCCATTTGTCTGTCATT 59.426 43.478 0.00 0.00 0.00 2.57
3624 4970 3.573538 TCAACCCCATTTGTCTGTCATTG 59.426 43.478 0.00 0.00 0.00 2.82
3625 4971 1.895131 ACCCCATTTGTCTGTCATTGC 59.105 47.619 0.00 0.00 0.00 3.56
3626 4972 1.894466 CCCCATTTGTCTGTCATTGCA 59.106 47.619 0.00 0.00 0.00 4.08
3627 4973 2.299582 CCCCATTTGTCTGTCATTGCAA 59.700 45.455 0.00 0.00 0.00 4.08
3628 4974 3.055675 CCCCATTTGTCTGTCATTGCAAT 60.056 43.478 5.99 5.99 0.00 3.56
3629 4975 4.178540 CCCATTTGTCTGTCATTGCAATC 58.821 43.478 9.53 0.00 0.00 2.67
3630 4976 4.322123 CCCATTTGTCTGTCATTGCAATCA 60.322 41.667 9.53 4.75 0.00 2.57
3631 4977 4.624024 CCATTTGTCTGTCATTGCAATCAC 59.376 41.667 9.53 7.93 0.00 3.06
3632 4978 4.915158 TTTGTCTGTCATTGCAATCACA 57.085 36.364 15.73 15.73 0.00 3.58
3633 4979 5.456548 TTTGTCTGTCATTGCAATCACAT 57.543 34.783 16.91 0.00 0.00 3.21
3634 4980 4.690184 TGTCTGTCATTGCAATCACATC 57.310 40.909 16.91 12.96 0.00 3.06
3635 4981 3.441222 TGTCTGTCATTGCAATCACATCC 59.559 43.478 16.91 10.52 0.00 3.51
3636 4982 3.018856 TCTGTCATTGCAATCACATCCC 58.981 45.455 16.91 0.00 0.00 3.85
3637 4983 2.100252 CTGTCATTGCAATCACATCCCC 59.900 50.000 16.91 0.00 0.00 4.81
3638 4984 1.410153 GTCATTGCAATCACATCCCCC 59.590 52.381 9.53 0.00 0.00 5.40
3639 4985 1.006878 TCATTGCAATCACATCCCCCA 59.993 47.619 9.53 0.00 0.00 4.96
3640 4986 2.043992 CATTGCAATCACATCCCCCAT 58.956 47.619 9.53 0.00 0.00 4.00
3641 4987 2.250921 TTGCAATCACATCCCCCATT 57.749 45.000 0.00 0.00 0.00 3.16
3642 4988 2.250921 TGCAATCACATCCCCCATTT 57.749 45.000 0.00 0.00 0.00 2.32
3643 4989 1.832366 TGCAATCACATCCCCCATTTG 59.168 47.619 0.00 0.00 0.00 2.32
3644 4990 1.473788 GCAATCACATCCCCCATTTGC 60.474 52.381 0.00 0.00 0.00 3.68
3645 4991 1.832366 CAATCACATCCCCCATTTGCA 59.168 47.619 0.00 0.00 0.00 4.08
3646 4992 2.236644 CAATCACATCCCCCATTTGCAA 59.763 45.455 0.00 0.00 0.00 4.08
3647 4993 2.021262 TCACATCCCCCATTTGCAAA 57.979 45.000 15.44 15.44 0.00 3.68
3648 4994 1.622811 TCACATCCCCCATTTGCAAAC 59.377 47.619 15.41 0.00 0.00 2.93
3649 4995 0.983467 ACATCCCCCATTTGCAAACC 59.017 50.000 15.41 0.00 0.00 3.27
3650 4996 0.252761 CATCCCCCATTTGCAAACCC 59.747 55.000 15.41 0.00 0.00 4.11
3651 4997 0.913934 ATCCCCCATTTGCAAACCCC 60.914 55.000 15.41 0.00 0.00 4.95
3652 4998 1.538629 CCCCCATTTGCAAACCCCT 60.539 57.895 15.41 0.00 0.00 4.79
3653 4999 0.252467 CCCCCATTTGCAAACCCCTA 60.252 55.000 15.41 0.00 0.00 3.53
3654 5000 1.624949 CCCCCATTTGCAAACCCCTAT 60.625 52.381 15.41 0.00 0.00 2.57
3655 5001 2.195727 CCCCATTTGCAAACCCCTATT 58.804 47.619 15.41 0.00 0.00 1.73
3656 5002 2.575735 CCCCATTTGCAAACCCCTATTT 59.424 45.455 15.41 0.00 0.00 1.40
3657 5003 3.608796 CCCATTTGCAAACCCCTATTTG 58.391 45.455 15.41 6.10 41.62 2.32
3668 5014 6.981722 CAAACCCCTATTTGCATACTAATCC 58.018 40.000 0.00 0.00 33.07 3.01
3669 5015 5.256806 ACCCCTATTTGCATACTAATCCC 57.743 43.478 0.00 0.00 0.00 3.85
3670 5016 4.920129 ACCCCTATTTGCATACTAATCCCT 59.080 41.667 0.00 0.00 0.00 4.20
3671 5017 5.222130 ACCCCTATTTGCATACTAATCCCTG 60.222 44.000 0.00 0.00 0.00 4.45
3672 5018 4.702131 CCCTATTTGCATACTAATCCCTGC 59.298 45.833 0.00 0.00 35.21 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
272 275 4.627467 CGACAAAGATGGTCTTAGTTGAGG 59.373 45.833 0.00 0.00 35.27 3.86
276 279 5.465724 GTGTTCGACAAAGATGGTCTTAGTT 59.534 40.000 0.00 0.00 35.27 2.24
286 289 3.738982 TGATGGTGTGTTCGACAAAGAT 58.261 40.909 0.00 0.00 35.91 2.40
294 297 0.448990 CAGCCATGATGGTGTGTTCG 59.551 55.000 13.84 0.00 40.46 3.95
373 376 2.555757 ACTGCTGCACAATTTCTCTTCC 59.444 45.455 0.00 0.00 0.00 3.46
520 524 7.833786 ACCGTTTGATACAGAACAGTAGAATA 58.166 34.615 0.00 0.00 0.00 1.75
532 536 5.153513 CAAAATGGTGACCGTTTGATACAG 58.846 41.667 21.50 5.43 41.31 2.74
565 569 5.739959 ACATTGTAAAATGGGGGTAATTGC 58.260 37.500 10.41 0.00 34.56 3.56
571 575 3.850752 TGTGACATTGTAAAATGGGGGT 58.149 40.909 10.41 0.00 34.56 4.95
614 618 8.956426 ACAAATTGATACGGAATAGTTCAACAT 58.044 29.630 0.00 0.00 30.36 2.71
818 824 4.584743 ACTGTGACTACTGAATCTGACACA 59.415 41.667 0.00 0.00 36.03 3.72
819 825 4.920340 CACTGTGACTACTGAATCTGACAC 59.080 45.833 0.32 0.00 0.00 3.67
824 830 2.899900 TGCCACTGTGACTACTGAATCT 59.100 45.455 9.86 0.00 0.00 2.40
830 836 1.341531 GAGTGTGCCACTGTGACTACT 59.658 52.381 9.86 6.82 45.44 2.57
860 948 6.381994 ACAAAGATGCACATATTTTGGGAGAT 59.618 34.615 17.41 2.21 30.64 2.75
861 949 5.716228 ACAAAGATGCACATATTTTGGGAGA 59.284 36.000 17.41 0.00 30.64 3.71
862 950 5.969423 ACAAAGATGCACATATTTTGGGAG 58.031 37.500 17.41 5.01 30.64 4.30
966 1061 7.664082 TTCTGATGAGTGAAGATCAAGAAAC 57.336 36.000 0.00 0.00 0.00 2.78
1049 1159 7.649370 AAGTCAGTATGCATCATATCTTTCG 57.351 36.000 0.19 0.00 34.76 3.46
1280 1401 9.654663 GGATTAAGTTAAAGACTGTCTACACAT 57.345 33.333 11.30 4.18 39.00 3.21
1345 1550 6.439058 ACATATTAGCTCTATCAGTCCTTCCC 59.561 42.308 0.00 0.00 0.00 3.97
1389 1594 9.153721 TGCAAAAGCCAAATAAAGAATCTTATG 57.846 29.630 0.00 0.00 0.00 1.90
1400 1605 7.992754 ACCATAAAATGCAAAAGCCAAATAA 57.007 28.000 0.00 0.00 0.00 1.40
1452 1657 2.618241 TGTGTTTAAGCAGGCAACAGAG 59.382 45.455 0.00 0.00 41.41 3.35
1603 1811 7.568349 TGTTTTCATTAGCTCTGGATCATAGT 58.432 34.615 0.00 0.00 0.00 2.12
1666 1874 7.605410 AAATAATGGAAGCAAAATCAAGCAG 57.395 32.000 0.00 0.00 0.00 4.24
1784 1992 0.824759 GATACGGTGTCTTGGGCTCT 59.175 55.000 0.00 0.00 0.00 4.09
2230 2441 8.633561 TGAGTAGTCATATAGTTGGATCACTTG 58.366 37.037 0.00 0.00 0.00 3.16
2351 2574 8.785329 TGATAATGAAGTATACACTTGTGCAA 57.215 30.769 5.50 0.00 45.18 4.08
2418 2642 8.995027 AACATATCACTGCCTATTCCAATAAA 57.005 30.769 0.00 0.00 0.00 1.40
2428 2652 4.568072 ACACCAAACATATCACTGCCTA 57.432 40.909 0.00 0.00 0.00 3.93
2606 2859 0.034896 TCTCTCCTGCGGTTTTGTCC 59.965 55.000 0.00 0.00 0.00 4.02
2662 2915 2.483877 CACTTTGCGGCTCATACTTGAA 59.516 45.455 0.00 0.00 0.00 2.69
2695 2948 2.546899 TGAACTTCCCTAGGCTTAGCA 58.453 47.619 6.53 0.00 0.00 3.49
2885 3140 5.648092 GCAAATTCTAGCCTCCTGACTTAAA 59.352 40.000 0.00 0.00 0.00 1.52
2888 3143 3.615155 GCAAATTCTAGCCTCCTGACTT 58.385 45.455 0.00 0.00 0.00 3.01
2913 3168 7.065324 TCAGTTCCAGTATTATAAAAAGCGGTG 59.935 37.037 0.00 0.00 0.00 4.94
2914 3169 7.107542 TCAGTTCCAGTATTATAAAAAGCGGT 58.892 34.615 0.00 0.00 0.00 5.68
2972 3227 5.939883 AGTAGCAGTAAAGCATGATTTCACA 59.060 36.000 13.05 0.00 36.85 3.58
2999 3254 7.443272 CACAGATCCACAATAATCAGCAATCTA 59.557 37.037 0.00 0.00 0.00 1.98
3000 3255 6.262496 CACAGATCCACAATAATCAGCAATCT 59.738 38.462 0.00 0.00 0.00 2.40
3001 3256 6.261603 TCACAGATCCACAATAATCAGCAATC 59.738 38.462 0.00 0.00 0.00 2.67
3002 3257 6.124340 TCACAGATCCACAATAATCAGCAAT 58.876 36.000 0.00 0.00 0.00 3.56
3003 3258 5.499313 TCACAGATCCACAATAATCAGCAA 58.501 37.500 0.00 0.00 0.00 3.91
3059 3315 5.560724 TCTTACAAAAGTGAATGGAGGGAG 58.439 41.667 0.00 0.00 34.13 4.30
3062 3318 6.824305 ACATCTTACAAAAGTGAATGGAGG 57.176 37.500 0.00 0.00 34.13 4.30
3083 3339 6.601613 AGGTGTTGTCTCAAATGTCTAAAACA 59.398 34.615 0.00 0.00 43.51 2.83
3084 3340 7.027778 AGGTGTTGTCTCAAATGTCTAAAAC 57.972 36.000 0.00 0.00 0.00 2.43
3085 3341 8.740123 TTAGGTGTTGTCTCAAATGTCTAAAA 57.260 30.769 0.00 0.00 0.00 1.52
3086 3342 8.740123 TTTAGGTGTTGTCTCAAATGTCTAAA 57.260 30.769 0.00 0.00 0.00 1.85
3087 3343 8.617809 GTTTTAGGTGTTGTCTCAAATGTCTAA 58.382 33.333 0.00 0.00 0.00 2.10
3088 3344 7.771361 TGTTTTAGGTGTTGTCTCAAATGTCTA 59.229 33.333 0.00 0.00 0.00 2.59
3089 3345 6.601613 TGTTTTAGGTGTTGTCTCAAATGTCT 59.398 34.615 0.00 0.00 0.00 3.41
3090 3346 6.691388 GTGTTTTAGGTGTTGTCTCAAATGTC 59.309 38.462 0.00 0.00 0.00 3.06
3091 3347 6.377146 AGTGTTTTAGGTGTTGTCTCAAATGT 59.623 34.615 0.00 0.00 0.00 2.71
3092 3348 6.795399 AGTGTTTTAGGTGTTGTCTCAAATG 58.205 36.000 0.00 0.00 0.00 2.32
3093 3349 7.122055 TGAAGTGTTTTAGGTGTTGTCTCAAAT 59.878 33.333 0.00 0.00 0.00 2.32
3094 3350 6.431543 TGAAGTGTTTTAGGTGTTGTCTCAAA 59.568 34.615 0.00 0.00 0.00 2.69
3095 3351 5.941058 TGAAGTGTTTTAGGTGTTGTCTCAA 59.059 36.000 0.00 0.00 0.00 3.02
3096 3352 5.492895 TGAAGTGTTTTAGGTGTTGTCTCA 58.507 37.500 0.00 0.00 0.00 3.27
3097 3353 6.431198 TTGAAGTGTTTTAGGTGTTGTCTC 57.569 37.500 0.00 0.00 0.00 3.36
3098 3354 7.404671 AATTGAAGTGTTTTAGGTGTTGTCT 57.595 32.000 0.00 0.00 0.00 3.41
3099 3355 8.474006 AAAATTGAAGTGTTTTAGGTGTTGTC 57.526 30.769 0.00 0.00 0.00 3.18
3100 3356 9.581099 CTAAAATTGAAGTGTTTTAGGTGTTGT 57.419 29.630 8.86 0.00 41.12 3.32
3101 3357 8.539674 GCTAAAATTGAAGTGTTTTAGGTGTTG 58.460 33.333 15.36 0.00 43.26 3.33
3102 3358 8.642908 GCTAAAATTGAAGTGTTTTAGGTGTT 57.357 30.769 15.36 0.00 43.26 3.32
3106 3362 6.801862 CGGAGCTAAAATTGAAGTGTTTTAGG 59.198 38.462 15.36 0.96 43.26 2.69
3107 3363 7.360361 ACGGAGCTAAAATTGAAGTGTTTTAG 58.640 34.615 11.33 11.33 44.68 1.85
3108 3364 7.227910 AGACGGAGCTAAAATTGAAGTGTTTTA 59.772 33.333 0.00 0.00 0.00 1.52
3109 3365 6.039382 AGACGGAGCTAAAATTGAAGTGTTTT 59.961 34.615 0.00 0.00 0.00 2.43
3110 3366 5.531287 AGACGGAGCTAAAATTGAAGTGTTT 59.469 36.000 0.00 0.00 0.00 2.83
3111 3367 5.063880 AGACGGAGCTAAAATTGAAGTGTT 58.936 37.500 0.00 0.00 0.00 3.32
3112 3368 4.642429 AGACGGAGCTAAAATTGAAGTGT 58.358 39.130 0.00 0.00 0.00 3.55
3113 3369 5.613358 AAGACGGAGCTAAAATTGAAGTG 57.387 39.130 0.00 0.00 0.00 3.16
3114 3370 6.228258 TGTAAGACGGAGCTAAAATTGAAGT 58.772 36.000 0.00 0.00 0.00 3.01
3115 3371 6.721571 TGTAAGACGGAGCTAAAATTGAAG 57.278 37.500 0.00 0.00 0.00 3.02
3116 3372 6.932400 TCTTGTAAGACGGAGCTAAAATTGAA 59.068 34.615 0.00 0.00 0.00 2.69
3117 3373 6.460781 TCTTGTAAGACGGAGCTAAAATTGA 58.539 36.000 0.00 0.00 0.00 2.57
3118 3374 6.721571 TCTTGTAAGACGGAGCTAAAATTG 57.278 37.500 0.00 0.00 0.00 2.32
3119 3375 7.606456 TCATTCTTGTAAGACGGAGCTAAAATT 59.394 33.333 0.00 0.00 34.13 1.82
3120 3376 7.103641 TCATTCTTGTAAGACGGAGCTAAAAT 58.896 34.615 0.00 0.00 34.13 1.82
3121 3377 6.460781 TCATTCTTGTAAGACGGAGCTAAAA 58.539 36.000 0.00 0.00 34.13 1.52
3122 3378 6.032956 TCATTCTTGTAAGACGGAGCTAAA 57.967 37.500 0.00 0.00 34.13 1.85
3123 3379 5.654603 TCATTCTTGTAAGACGGAGCTAA 57.345 39.130 0.00 0.00 34.13 3.09
3124 3380 5.047590 TGTTCATTCTTGTAAGACGGAGCTA 60.048 40.000 0.00 0.00 34.13 3.32
3125 3381 4.246458 GTTCATTCTTGTAAGACGGAGCT 58.754 43.478 0.00 0.00 34.13 4.09
3126 3382 3.994392 TGTTCATTCTTGTAAGACGGAGC 59.006 43.478 0.00 0.00 34.13 4.70
3127 3383 5.470368 TCTGTTCATTCTTGTAAGACGGAG 58.530 41.667 0.00 0.00 34.13 4.63
3128 3384 5.462530 TCTGTTCATTCTTGTAAGACGGA 57.537 39.130 0.00 0.00 34.13 4.69
3129 3385 4.627467 CCTCTGTTCATTCTTGTAAGACGG 59.373 45.833 0.00 0.00 34.13 4.79
3130 3386 4.627467 CCCTCTGTTCATTCTTGTAAGACG 59.373 45.833 0.00 0.00 34.13 4.18
3131 3387 4.393371 GCCCTCTGTTCATTCTTGTAAGAC 59.607 45.833 0.00 0.00 34.13 3.01
3132 3388 4.579869 GCCCTCTGTTCATTCTTGTAAGA 58.420 43.478 0.00 0.00 0.00 2.10
3133 3389 3.372206 CGCCCTCTGTTCATTCTTGTAAG 59.628 47.826 0.00 0.00 0.00 2.34
3134 3390 3.244422 ACGCCCTCTGTTCATTCTTGTAA 60.244 43.478 0.00 0.00 0.00 2.41
3135 3391 2.301870 ACGCCCTCTGTTCATTCTTGTA 59.698 45.455 0.00 0.00 0.00 2.41
3136 3392 1.072331 ACGCCCTCTGTTCATTCTTGT 59.928 47.619 0.00 0.00 0.00 3.16
3137 3393 1.813513 ACGCCCTCTGTTCATTCTTG 58.186 50.000 0.00 0.00 0.00 3.02
3138 3394 3.914426 ATACGCCCTCTGTTCATTCTT 57.086 42.857 0.00 0.00 0.00 2.52
3139 3395 3.914426 AATACGCCCTCTGTTCATTCT 57.086 42.857 0.00 0.00 0.00 2.40
3140 3396 3.487544 GCAAATACGCCCTCTGTTCATTC 60.488 47.826 0.00 0.00 0.00 2.67
3141 3397 2.423538 GCAAATACGCCCTCTGTTCATT 59.576 45.455 0.00 0.00 0.00 2.57
3142 3398 2.017049 GCAAATACGCCCTCTGTTCAT 58.983 47.619 0.00 0.00 0.00 2.57
3143 3399 1.003118 AGCAAATACGCCCTCTGTTCA 59.997 47.619 0.00 0.00 0.00 3.18
3144 3400 1.739067 AGCAAATACGCCCTCTGTTC 58.261 50.000 0.00 0.00 0.00 3.18
3145 3401 2.200373 AAGCAAATACGCCCTCTGTT 57.800 45.000 0.00 0.00 0.00 3.16
3146 3402 2.084546 GAAAGCAAATACGCCCTCTGT 58.915 47.619 0.00 0.00 0.00 3.41
3147 3403 2.083774 TGAAAGCAAATACGCCCTCTG 58.916 47.619 0.00 0.00 0.00 3.35
3148 3404 2.489938 TGAAAGCAAATACGCCCTCT 57.510 45.000 0.00 0.00 0.00 3.69
3149 3405 3.119495 ACAATGAAAGCAAATACGCCCTC 60.119 43.478 0.00 0.00 0.00 4.30
3150 3406 2.825532 ACAATGAAAGCAAATACGCCCT 59.174 40.909 0.00 0.00 0.00 5.19
3151 3407 3.230743 ACAATGAAAGCAAATACGCCC 57.769 42.857 0.00 0.00 0.00 6.13
3152 3408 4.089923 GTGAACAATGAAAGCAAATACGCC 59.910 41.667 0.00 0.00 0.00 5.68
3153 3409 4.917415 AGTGAACAATGAAAGCAAATACGC 59.083 37.500 0.00 0.00 0.00 4.42
3154 3410 6.636447 TGAAGTGAACAATGAAAGCAAATACG 59.364 34.615 0.00 0.00 0.00 3.06
3161 3417 6.305693 ACTACTGAAGTGAACAATGAAAGC 57.694 37.500 0.00 0.00 36.93 3.51
3175 3431 4.520492 AGGCAAACCAATGAACTACTGAAG 59.480 41.667 0.00 0.00 39.06 3.02
3231 3487 2.030805 GCCACAGTTTCCTGCTTTACAG 60.031 50.000 0.00 0.00 46.77 2.74
3298 4636 2.270275 CACAAGGTGTGCGTTGAAAA 57.730 45.000 6.97 0.00 41.89 2.29
3365 4703 2.853003 GTCGACATCTTCTAACTTCGCC 59.147 50.000 11.55 0.00 0.00 5.54
3375 4713 7.975866 AAATTGCATAATTGTCGACATCTTC 57.024 32.000 20.80 7.50 36.65 2.87
3477 4818 2.178580 GCCTCCATCCACCAATTTTCA 58.821 47.619 0.00 0.00 0.00 2.69
3478 4819 1.482182 GGCCTCCATCCACCAATTTTC 59.518 52.381 0.00 0.00 0.00 2.29
3499 4843 3.309682 ACCAATCATTGACGCTAATCACG 59.690 43.478 0.00 0.00 0.00 4.35
3528 4872 5.056480 CGAGTGAGATAGTCTGAGTGATCT 58.944 45.833 0.00 0.61 0.00 2.75
3538 4882 3.547746 ACCTTCCTCGAGTGAGATAGTC 58.452 50.000 12.31 0.00 45.57 2.59
3546 4892 0.037232 GGGTTGACCTTCCTCGAGTG 60.037 60.000 12.31 3.02 35.85 3.51
3562 4908 2.109834 TCCAATGACAGACAAATGGGGT 59.890 45.455 7.79 0.00 38.92 4.95
3563 4909 2.806434 TCCAATGACAGACAAATGGGG 58.194 47.619 7.79 0.00 38.92 4.96
3564 4910 6.461927 CCATATTCCAATGACAGACAAATGGG 60.462 42.308 7.79 0.00 38.92 4.00
3565 4911 6.461927 CCCATATTCCAATGACAGACAAATGG 60.462 42.308 0.00 0.00 39.41 3.16
3566 4912 6.509656 CCCATATTCCAATGACAGACAAATG 58.490 40.000 0.00 0.00 0.00 2.32
3567 4913 5.069516 GCCCATATTCCAATGACAGACAAAT 59.930 40.000 0.00 0.00 0.00 2.32
3568 4914 4.402155 GCCCATATTCCAATGACAGACAAA 59.598 41.667 0.00 0.00 0.00 2.83
3569 4915 3.953612 GCCCATATTCCAATGACAGACAA 59.046 43.478 0.00 0.00 0.00 3.18
3570 4916 3.202818 AGCCCATATTCCAATGACAGACA 59.797 43.478 0.00 0.00 0.00 3.41
3571 4917 3.825328 AGCCCATATTCCAATGACAGAC 58.175 45.455 0.00 0.00 0.00 3.51
3572 4918 4.166725 AGAAGCCCATATTCCAATGACAGA 59.833 41.667 0.00 0.00 0.00 3.41
3573 4919 4.467769 AGAAGCCCATATTCCAATGACAG 58.532 43.478 0.00 0.00 0.00 3.51
3574 4920 4.524802 AGAAGCCCATATTCCAATGACA 57.475 40.909 0.00 0.00 0.00 3.58
3575 4921 5.859205 AAAGAAGCCCATATTCCAATGAC 57.141 39.130 0.00 0.00 0.00 3.06
3576 4922 6.070656 CCTAAAGAAGCCCATATTCCAATGA 58.929 40.000 0.00 0.00 0.00 2.57
3577 4923 5.244626 CCCTAAAGAAGCCCATATTCCAATG 59.755 44.000 0.00 0.00 0.00 2.82
3578 4924 5.103086 ACCCTAAAGAAGCCCATATTCCAAT 60.103 40.000 0.00 0.00 0.00 3.16
3579 4925 4.231890 ACCCTAAAGAAGCCCATATTCCAA 59.768 41.667 0.00 0.00 0.00 3.53
3580 4926 3.791545 ACCCTAAAGAAGCCCATATTCCA 59.208 43.478 0.00 0.00 0.00 3.53
3581 4927 4.141251 TGACCCTAAAGAAGCCCATATTCC 60.141 45.833 0.00 0.00 0.00 3.01
3582 4928 5.048846 TGACCCTAAAGAAGCCCATATTC 57.951 43.478 0.00 0.00 0.00 1.75
3583 4929 5.201243 GTTGACCCTAAAGAAGCCCATATT 58.799 41.667 0.00 0.00 0.00 1.28
3584 4930 4.386424 GGTTGACCCTAAAGAAGCCCATAT 60.386 45.833 0.00 0.00 0.00 1.78
3585 4931 3.053917 GGTTGACCCTAAAGAAGCCCATA 60.054 47.826 0.00 0.00 0.00 2.74
3586 4932 2.291605 GGTTGACCCTAAAGAAGCCCAT 60.292 50.000 0.00 0.00 0.00 4.00
3587 4933 1.074889 GGTTGACCCTAAAGAAGCCCA 59.925 52.381 0.00 0.00 0.00 5.36
3588 4934 1.835494 GGTTGACCCTAAAGAAGCCC 58.165 55.000 0.00 0.00 0.00 5.19
3600 4946 1.886542 GACAGACAAATGGGGTTGACC 59.113 52.381 0.00 0.00 39.11 4.02
3601 4947 2.582052 TGACAGACAAATGGGGTTGAC 58.418 47.619 0.00 0.00 32.59 3.18
3602 4948 3.524095 ATGACAGACAAATGGGGTTGA 57.476 42.857 0.00 0.00 32.59 3.18
3603 4949 3.861886 GCAATGACAGACAAATGGGGTTG 60.862 47.826 0.00 0.00 34.52 3.77
3604 4950 2.299867 GCAATGACAGACAAATGGGGTT 59.700 45.455 0.00 0.00 0.00 4.11
3605 4951 1.895131 GCAATGACAGACAAATGGGGT 59.105 47.619 0.00 0.00 0.00 4.95
3606 4952 1.894466 TGCAATGACAGACAAATGGGG 59.106 47.619 0.00 0.00 0.00 4.96
3607 4953 3.663995 TTGCAATGACAGACAAATGGG 57.336 42.857 0.00 0.00 0.00 4.00
3608 4954 4.624024 GTGATTGCAATGACAGACAAATGG 59.376 41.667 22.08 0.00 0.00 3.16
3609 4955 5.224135 TGTGATTGCAATGACAGACAAATG 58.776 37.500 25.15 0.00 29.21 2.32
3610 4956 5.456548 TGTGATTGCAATGACAGACAAAT 57.543 34.783 25.15 0.00 29.21 2.32
3611 4957 4.915158 TGTGATTGCAATGACAGACAAA 57.085 36.364 25.15 5.07 29.21 2.83
3612 4958 4.082625 GGATGTGATTGCAATGACAGACAA 60.083 41.667 30.49 12.20 36.02 3.18
3613 4959 3.441222 GGATGTGATTGCAATGACAGACA 59.559 43.478 30.49 18.15 36.02 3.41
3614 4960 3.181493 GGGATGTGATTGCAATGACAGAC 60.181 47.826 30.49 25.38 36.02 3.51
3615 4961 3.018856 GGGATGTGATTGCAATGACAGA 58.981 45.455 30.49 16.85 36.02 3.41
3616 4962 2.100252 GGGGATGTGATTGCAATGACAG 59.900 50.000 30.49 0.00 36.02 3.51
3617 4963 2.101783 GGGGATGTGATTGCAATGACA 58.898 47.619 29.63 29.63 36.96 3.58
3618 4964 1.410153 GGGGGATGTGATTGCAATGAC 59.590 52.381 20.54 20.54 0.00 3.06
3619 4965 1.006878 TGGGGGATGTGATTGCAATGA 59.993 47.619 18.59 5.30 0.00 2.57
3620 4966 1.487300 TGGGGGATGTGATTGCAATG 58.513 50.000 18.59 0.00 0.00 2.82
3621 4967 2.482414 ATGGGGGATGTGATTGCAAT 57.518 45.000 12.83 12.83 0.00 3.56
3622 4968 2.236644 CAAATGGGGGATGTGATTGCAA 59.763 45.455 0.00 0.00 0.00 4.08
3623 4969 1.832366 CAAATGGGGGATGTGATTGCA 59.168 47.619 0.00 0.00 0.00 4.08
3624 4970 1.473788 GCAAATGGGGGATGTGATTGC 60.474 52.381 0.00 0.00 35.49 3.56
3625 4971 1.832366 TGCAAATGGGGGATGTGATTG 59.168 47.619 0.00 0.00 0.00 2.67
3626 4972 2.250921 TGCAAATGGGGGATGTGATT 57.749 45.000 0.00 0.00 0.00 2.57
3627 4973 2.236893 GTTTGCAAATGGGGGATGTGAT 59.763 45.455 16.21 0.00 0.00 3.06
3628 4974 1.622811 GTTTGCAAATGGGGGATGTGA 59.377 47.619 16.21 0.00 0.00 3.58
3629 4975 1.338960 GGTTTGCAAATGGGGGATGTG 60.339 52.381 16.21 0.00 0.00 3.21
3630 4976 0.983467 GGTTTGCAAATGGGGGATGT 59.017 50.000 16.21 0.00 0.00 3.06
3631 4977 0.252761 GGGTTTGCAAATGGGGGATG 59.747 55.000 16.21 0.00 0.00 3.51
3632 4978 0.913934 GGGGTTTGCAAATGGGGGAT 60.914 55.000 16.21 0.00 0.00 3.85
3633 4979 1.537643 GGGGTTTGCAAATGGGGGA 60.538 57.895 16.21 0.00 0.00 4.81
3634 4980 0.252467 TAGGGGTTTGCAAATGGGGG 60.252 55.000 16.21 0.00 0.00 5.40
3635 4981 1.878211 ATAGGGGTTTGCAAATGGGG 58.122 50.000 16.21 0.00 0.00 4.96
3636 4982 3.608796 CAAATAGGGGTTTGCAAATGGG 58.391 45.455 16.21 0.00 32.90 4.00
3644 4990 6.015434 GGGATTAGTATGCAAATAGGGGTTTG 60.015 42.308 0.00 0.00 41.02 2.93
3645 4991 6.075315 GGGATTAGTATGCAAATAGGGGTTT 58.925 40.000 0.00 0.00 0.00 3.27
3646 4992 5.375655 AGGGATTAGTATGCAAATAGGGGTT 59.624 40.000 0.00 0.00 0.00 4.11
3647 4993 4.920129 AGGGATTAGTATGCAAATAGGGGT 59.080 41.667 0.00 0.00 0.00 4.95
3648 4994 5.256474 CAGGGATTAGTATGCAAATAGGGG 58.744 45.833 0.00 0.00 0.00 4.79
3649 4995 4.702131 GCAGGGATTAGTATGCAAATAGGG 59.298 45.833 0.00 0.00 38.54 3.53
3650 4996 5.886960 GCAGGGATTAGTATGCAAATAGG 57.113 43.478 0.00 0.00 38.54 2.57


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

AutoCloner maintained by Alex Coulton.