Multiple sequence alignment - TraesCS6D01G272000

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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 TraesCS6D01G272000 chr6D 100.000 3470 0 0 1 3470 380801814 380798345 0.000000e+00 6408
1 TraesCS6D01G272000 chr6D 93.194 382 25 1 3090 3470 331816223 331815842 8.410000e-156 560
2 TraesCS6D01G272000 chr6D 85.769 260 35 2 3090 3347 429907248 429906989 1.230000e-69 274
3 TraesCS6D01G272000 chr6B 93.981 2891 101 36 135 2990 568259990 568257138 0.000000e+00 4307
4 TraesCS6D01G272000 chr6B 91.011 89 8 0 61 149 568260319 568260231 1.690000e-23 121
5 TraesCS6D01G272000 chr6B 95.652 69 3 0 1 69 568260405 568260337 1.020000e-20 111
6 TraesCS6D01G272000 chr6A 94.435 1761 63 13 1249 2990 522227314 522225570 0.000000e+00 2676
7 TraesCS6D01G272000 chr6A 94.450 1009 37 11 213 1216 522228308 522227314 0.000000e+00 1535
8 TraesCS6D01G272000 chr2B 83.125 320 51 3 3095 3412 654548256 654548574 4.380000e-74 289
9 TraesCS6D01G272000 chr7D 86.400 250 33 1 3096 3344 2533064 2533313 4.410000e-69 272
10 TraesCS6D01G272000 chr7D 87.069 232 24 3 3090 3320 430227466 430227692 1.240000e-64 257
11 TraesCS6D01G272000 chr7D 87.500 120 13 1 3341 3458 28863512 28863393 1.680000e-28 137
12 TraesCS6D01G272000 chr2D 85.000 260 37 2 3090 3347 360554262 360554521 2.660000e-66 263
13 TraesCS6D01G272000 chr2D 84.615 260 38 2 3090 3347 618072778 618073037 1.240000e-64 257
14 TraesCS6D01G272000 chr2D 84.231 260 39 2 3090 3347 574116448 574116707 5.750000e-63 252
15 TraesCS6D01G272000 chr3A 85.514 214 30 1 3096 3308 437664377 437664590 4.510000e-54 222
16 TraesCS6D01G272000 chr4D 83.495 206 32 2 1535 1739 457075140 457075344 1.270000e-44 191
17 TraesCS6D01G272000 chr4D 79.167 216 39 5 1535 1747 471961691 471961903 1.000000e-30 145
18 TraesCS6D01G272000 chr4B 83.495 206 32 2 1535 1739 571049182 571048978 1.270000e-44 191
19 TraesCS6D01G272000 chr4B 80.093 216 37 5 1535 1747 593422904 593423116 4.640000e-34 156
20 TraesCS6D01G272000 chr4A 83.495 206 32 2 1535 1739 11297792 11297996 1.270000e-44 191
21 TraesCS6D01G272000 chr4A 79.724 217 36 7 1535 1747 678872435 678872647 2.160000e-32 150
22 TraesCS6D01G272000 chr2A 85.430 151 19 2 3323 3470 32402889 32402739 1.670000e-33 154
23 TraesCS6D01G272000 chr5B 84.416 154 18 5 3310 3459 446033136 446033287 2.790000e-31 147


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 TraesCS6D01G272000 chr6D 380798345 380801814 3469 True 6408.0 6408 100.0000 1 3470 1 chr6D.!!$R2 3469
1 TraesCS6D01G272000 chr6B 568257138 568260405 3267 True 1513.0 4307 93.5480 1 2990 3 chr6B.!!$R1 2989
2 TraesCS6D01G272000 chr6A 522225570 522228308 2738 True 2105.5 2676 94.4425 213 2990 2 chr6A.!!$R1 2777

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
116 143 0.103572 ATTTGATTCGCTGGCATGCC 59.896 50.0 30.54 30.54 0.0 4.4 F
1771 2075 0.252197 GGCTCCGGTCACAGGTAAAT 59.748 55.0 0.00 0.00 0.0 1.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1861 2165 0.032403 TCAACGTTACCACCTGACGG 59.968 55.0 0.00 0.0 40.82 4.79 R
2994 3336 0.037447 GGAGGAGGAGCTGCTTGTTT 59.963 55.0 9.91 0.0 30.82 2.83 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
36 37 2.951642 CGTAGGTCTAACATTACCCGGA 59.048 50.000 0.73 0.00 36.34 5.14
112 139 2.594321 CGAAAATTTGATTCGCTGGCA 58.406 42.857 0.00 0.00 42.52 4.92
116 143 0.103572 ATTTGATTCGCTGGCATGCC 59.896 50.000 30.54 30.54 0.00 4.40
124 151 1.512996 CGCTGGCATGCCTCTATTGG 61.513 60.000 35.53 17.30 36.94 3.16
128 155 1.312815 GGCATGCCTCTATTGGTGAC 58.687 55.000 29.98 0.00 0.00 3.67
537 824 1.668151 CCCGGCGCCTATAAGAAGC 60.668 63.158 26.68 0.00 0.00 3.86
573 860 6.032956 TCTTCAAACTTTAGCCGATCAGTA 57.967 37.500 0.00 0.00 0.00 2.74
688 977 0.478507 CCTTCCACCACCAACCTCTT 59.521 55.000 0.00 0.00 0.00 2.85
740 1030 2.047443 GTCTTCTCCGGCGAGAGGT 61.047 63.158 20.15 0.00 45.86 3.85
1019 1310 0.437295 CGTTCGATCGACAACCAACC 59.563 55.000 19.26 0.00 0.00 3.77
1020 1311 1.504359 GTTCGATCGACAACCAACCA 58.496 50.000 19.26 0.00 0.00 3.67
1021 1312 1.868498 GTTCGATCGACAACCAACCAA 59.132 47.619 19.26 0.00 0.00 3.67
1022 1313 1.790755 TCGATCGACAACCAACCAAG 58.209 50.000 15.15 0.00 0.00 3.61
1164 1455 2.806745 CGGCATGTTCCATCGAGGTATT 60.807 50.000 0.00 0.00 39.02 1.89
1216 1507 1.941975 CCGGTTGTTTGGTTCGTTAGT 59.058 47.619 0.00 0.00 0.00 2.24
1217 1508 3.129871 CCGGTTGTTTGGTTCGTTAGTA 58.870 45.455 0.00 0.00 0.00 1.82
1218 1509 3.184986 CCGGTTGTTTGGTTCGTTAGTAG 59.815 47.826 0.00 0.00 0.00 2.57
1219 1510 3.184986 CGGTTGTTTGGTTCGTTAGTAGG 59.815 47.826 0.00 0.00 0.00 3.18
1220 1511 4.129380 GGTTGTTTGGTTCGTTAGTAGGT 58.871 43.478 0.00 0.00 0.00 3.08
1221 1512 4.212004 GGTTGTTTGGTTCGTTAGTAGGTC 59.788 45.833 0.00 0.00 0.00 3.85
1222 1513 4.942761 TGTTTGGTTCGTTAGTAGGTCT 57.057 40.909 0.00 0.00 0.00 3.85
1223 1514 4.874970 TGTTTGGTTCGTTAGTAGGTCTC 58.125 43.478 0.00 0.00 0.00 3.36
1225 1516 1.470098 TGGTTCGTTAGTAGGTCTCGC 59.530 52.381 0.00 0.00 0.00 5.03
1226 1517 1.202234 GGTTCGTTAGTAGGTCTCGCC 60.202 57.143 0.00 0.00 37.58 5.54
1245 1536 2.746362 GCCTTCTTGATTGTGTGGAGAG 59.254 50.000 0.00 0.00 0.00 3.20
1447 1738 1.796796 GGAGCAGGTGACAATTCGC 59.203 57.895 0.00 0.00 0.00 4.70
1457 1751 2.068519 TGACAATTCGCTGCTACAGTG 58.931 47.619 1.73 1.73 42.60 3.66
1495 1799 7.041508 GCTCTGTTCATCCGAATTAATTCTGAT 60.042 37.037 22.36 22.36 40.05 2.90
1561 1865 1.063266 AGGAGCTTCGAGGAGGAGAAT 60.063 52.381 0.00 0.00 0.00 2.40
1770 2074 1.675219 GGCTCCGGTCACAGGTAAA 59.325 57.895 0.00 0.00 0.00 2.01
1771 2075 0.252197 GGCTCCGGTCACAGGTAAAT 59.748 55.000 0.00 0.00 0.00 1.40
1774 2078 3.433173 GGCTCCGGTCACAGGTAAATAAT 60.433 47.826 0.00 0.00 0.00 1.28
1775 2079 3.808174 GCTCCGGTCACAGGTAAATAATC 59.192 47.826 0.00 0.00 0.00 1.75
1776 2080 4.049186 CTCCGGTCACAGGTAAATAATCG 58.951 47.826 0.00 0.00 0.00 3.34
1777 2081 3.700539 TCCGGTCACAGGTAAATAATCGA 59.299 43.478 0.00 0.00 0.00 3.59
1778 2082 4.160065 TCCGGTCACAGGTAAATAATCGAA 59.840 41.667 0.00 0.00 0.00 3.71
1779 2083 4.506654 CCGGTCACAGGTAAATAATCGAAG 59.493 45.833 0.00 0.00 0.00 3.79
1780 2084 5.107133 CGGTCACAGGTAAATAATCGAAGT 58.893 41.667 0.00 0.00 0.00 3.01
1781 2085 5.231568 CGGTCACAGGTAAATAATCGAAGTC 59.768 44.000 0.00 0.00 0.00 3.01
1782 2086 6.103997 GGTCACAGGTAAATAATCGAAGTCA 58.896 40.000 0.00 0.00 0.00 3.41
1783 2087 6.592607 GGTCACAGGTAAATAATCGAAGTCAA 59.407 38.462 0.00 0.00 0.00 3.18
1797 2101 1.967319 AGTCAACAACCACGCTTCAT 58.033 45.000 0.00 0.00 0.00 2.57
1850 2154 5.195940 TGAGTTTGATTTGGGAGATCCATC 58.804 41.667 0.47 0.00 46.52 3.51
1851 2155 4.540715 AGTTTGATTTGGGAGATCCATCC 58.459 43.478 0.47 0.00 46.52 3.51
1852 2156 4.017222 AGTTTGATTTGGGAGATCCATCCA 60.017 41.667 0.47 0.00 46.52 3.41
1861 2165 2.883386 GGAGATCCATCCATCTTTGTGC 59.117 50.000 0.00 0.00 39.34 4.57
1999 2309 2.746277 GCCAACGCCGAGGAACAT 60.746 61.111 4.63 0.00 0.00 2.71
2519 2843 2.833794 TGTATGCTTCCCGCTGTAATC 58.166 47.619 0.00 0.00 40.11 1.75
2581 2908 7.592903 GCATTGTACTACGAGTTAGGGTAATAC 59.407 40.741 0.00 0.00 31.13 1.89
2632 2959 3.933332 GGGAAATAAGTGAACGGAGTCAG 59.067 47.826 0.00 0.00 45.00 3.51
2642 2969 0.820871 ACGGAGTCAGAGCCTCATTC 59.179 55.000 0.00 0.00 29.74 2.67
2700 3037 7.930513 TTAATCATCTACTGCTAATGTCGTG 57.069 36.000 0.00 0.00 0.00 4.35
2710 3047 3.226347 GCTAATGTCGTGTGAGTTTTGC 58.774 45.455 0.00 0.00 0.00 3.68
2719 3056 4.095632 TCGTGTGAGTTTTGCAAGATCAAA 59.904 37.500 10.69 4.64 34.47 2.69
2720 3057 4.797868 CGTGTGAGTTTTGCAAGATCAAAA 59.202 37.500 10.69 0.00 41.87 2.44
2723 3060 5.045872 GTGAGTTTTGCAAGATCAAAAGCT 58.954 37.500 10.69 0.00 43.88 3.74
2730 3067 0.967380 AAGATCAAAAGCTGGCCCCG 60.967 55.000 0.00 0.00 0.00 5.73
2736 3073 2.351924 AAAAGCTGGCCCCGTTCTCA 62.352 55.000 0.00 0.00 0.00 3.27
2763 3100 1.069500 GTACGTGCGCTCATGGTTTTT 60.069 47.619 9.73 0.00 33.54 1.94
2846 3187 4.520179 GGTTCTATACCATTTCCCACGTT 58.480 43.478 0.00 0.00 46.92 3.99
2916 3258 2.549926 CCAAACCTTGGCACTGTTTTC 58.450 47.619 10.03 0.00 45.17 2.29
2922 3264 5.043737 ACCTTGGCACTGTTTTCTAAGTA 57.956 39.130 0.00 0.00 0.00 2.24
2990 3332 6.015519 TGTTTATGGAGAATTGTGAACCTTGG 60.016 38.462 0.00 0.00 0.00 3.61
2991 3333 2.875296 TGGAGAATTGTGAACCTTGGG 58.125 47.619 0.00 0.00 0.00 4.12
2992 3334 2.171003 GGAGAATTGTGAACCTTGGGG 58.829 52.381 0.00 0.00 38.88 4.96
2993 3335 1.546029 GAGAATTGTGAACCTTGGGGC 59.454 52.381 0.00 0.00 35.63 5.80
2994 3336 1.133199 AGAATTGTGAACCTTGGGGCA 60.133 47.619 0.00 0.00 35.63 5.36
2995 3337 1.691434 GAATTGTGAACCTTGGGGCAA 59.309 47.619 0.00 0.00 35.63 4.52
2996 3338 1.799933 ATTGTGAACCTTGGGGCAAA 58.200 45.000 0.00 0.00 35.63 3.68
2997 3339 0.827368 TTGTGAACCTTGGGGCAAAC 59.173 50.000 0.00 0.00 35.63 2.93
2998 3340 0.324738 TGTGAACCTTGGGGCAAACA 60.325 50.000 0.00 0.00 35.63 2.83
2999 3341 0.827368 GTGAACCTTGGGGCAAACAA 59.173 50.000 0.00 0.00 35.63 2.83
3000 3342 1.118838 TGAACCTTGGGGCAAACAAG 58.881 50.000 8.34 8.34 43.73 3.16
3001 3343 0.249868 GAACCTTGGGGCAAACAAGC 60.250 55.000 9.46 0.00 42.98 4.01
3002 3344 0.980231 AACCTTGGGGCAAACAAGCA 60.980 50.000 9.46 0.00 42.98 3.91
3003 3345 1.368579 CCTTGGGGCAAACAAGCAG 59.631 57.895 9.46 0.00 42.98 4.24
3004 3346 1.301165 CTTGGGGCAAACAAGCAGC 60.301 57.895 3.48 0.00 38.89 5.25
3005 3347 1.751349 CTTGGGGCAAACAAGCAGCT 61.751 55.000 0.00 0.00 38.89 4.24
3006 3348 1.747325 TTGGGGCAAACAAGCAGCTC 61.747 55.000 0.00 0.00 35.83 4.09
3007 3349 2.653115 GGGCAAACAAGCAGCTCC 59.347 61.111 0.00 0.00 35.83 4.70
3008 3350 1.905354 GGGCAAACAAGCAGCTCCT 60.905 57.895 0.00 0.00 35.83 3.69
3009 3351 1.583477 GGCAAACAAGCAGCTCCTC 59.417 57.895 0.00 0.00 35.83 3.71
3010 3352 1.583477 GCAAACAAGCAGCTCCTCC 59.417 57.895 0.00 0.00 0.00 4.30
3011 3353 0.892814 GCAAACAAGCAGCTCCTCCT 60.893 55.000 0.00 0.00 0.00 3.69
3012 3354 1.163554 CAAACAAGCAGCTCCTCCTC 58.836 55.000 0.00 0.00 0.00 3.71
3013 3355 0.037447 AAACAAGCAGCTCCTCCTCC 59.963 55.000 0.00 0.00 0.00 4.30
3014 3356 2.177594 AACAAGCAGCTCCTCCTCCG 62.178 60.000 0.00 0.00 0.00 4.63
3015 3357 3.780173 AAGCAGCTCCTCCTCCGC 61.780 66.667 0.00 0.00 0.00 5.54
3018 3360 4.200283 CAGCTCCTCCTCCGCGTC 62.200 72.222 4.92 0.00 0.00 5.19
3021 3363 3.878519 CTCCTCCTCCGCGTCGTC 61.879 72.222 4.92 0.00 0.00 4.20
3022 3364 4.405671 TCCTCCTCCGCGTCGTCT 62.406 66.667 4.92 0.00 0.00 4.18
3023 3365 3.878519 CCTCCTCCGCGTCGTCTC 61.879 72.222 4.92 0.00 0.00 3.36
3024 3366 3.878519 CTCCTCCGCGTCGTCTCC 61.879 72.222 4.92 0.00 0.00 3.71
3054 3396 4.256278 CGGAGGCCCCCTATCCCT 62.256 72.222 0.11 0.00 31.76 4.20
3055 3397 2.204013 GGAGGCCCCCTATCCCTC 60.204 72.222 0.00 0.00 43.48 4.30
3056 3398 2.604991 GAGGCCCCCTATCCCTCG 60.605 72.222 0.00 0.00 36.17 4.63
3057 3399 4.964241 AGGCCCCCTATCCCTCGC 62.964 72.222 0.00 0.00 28.47 5.03
3082 3424 4.890306 GCCCCCTCCTCCTCCCTC 62.890 77.778 0.00 0.00 0.00 4.30
3083 3425 4.548513 CCCCCTCCTCCTCCCTCG 62.549 77.778 0.00 0.00 0.00 4.63
3087 3429 4.824515 CTCCTCCTCCCTCGCCGT 62.825 72.222 0.00 0.00 0.00 5.68
3088 3430 4.816984 TCCTCCTCCCTCGCCGTC 62.817 72.222 0.00 0.00 0.00 4.79
3121 3463 4.479993 GGCTGCAGGTGATCGCCT 62.480 66.667 22.49 22.49 39.99 5.52
3122 3464 2.894387 GCTGCAGGTGATCGCCTC 60.894 66.667 25.22 18.74 36.58 4.70
3123 3465 2.898738 CTGCAGGTGATCGCCTCT 59.101 61.111 25.22 2.63 36.58 3.69
3124 3466 1.521010 CTGCAGGTGATCGCCTCTG 60.521 63.158 25.22 16.68 36.58 3.35
3125 3467 2.894387 GCAGGTGATCGCCTCTGC 60.894 66.667 25.22 22.27 44.34 4.26
3126 3468 2.202987 CAGGTGATCGCCTCTGCC 60.203 66.667 25.22 0.00 36.58 4.85
3127 3469 2.685017 AGGTGATCGCCTCTGCCA 60.685 61.111 22.49 0.00 32.39 4.92
3128 3470 2.068821 AGGTGATCGCCTCTGCCAT 61.069 57.895 22.49 0.00 32.39 4.40
3129 3471 1.890979 GGTGATCGCCTCTGCCATG 60.891 63.158 18.40 0.00 0.00 3.66
3130 3472 1.890979 GTGATCGCCTCTGCCATGG 60.891 63.158 7.63 7.63 0.00 3.66
3131 3473 2.976903 GATCGCCTCTGCCATGGC 60.977 66.667 30.54 30.54 45.25 4.40
3132 3474 3.472943 GATCGCCTCTGCCATGGCT 62.473 63.158 35.53 14.60 46.42 4.75
3133 3475 3.769369 ATCGCCTCTGCCATGGCTG 62.769 63.158 35.53 33.57 46.42 4.85
3134 3476 4.790962 CGCCTCTGCCATGGCTGT 62.791 66.667 35.53 0.00 46.42 4.40
3135 3477 3.138798 GCCTCTGCCATGGCTGTG 61.139 66.667 35.53 31.74 45.26 3.66
3136 3478 2.439701 CCTCTGCCATGGCTGTGG 60.440 66.667 35.56 35.56 43.41 4.17
3142 3484 2.753043 CCATGGCTGTGGCAGGTC 60.753 66.667 0.00 0.00 42.43 3.85
3143 3485 3.129502 CATGGCTGTGGCAGGTCG 61.130 66.667 0.00 0.00 42.43 4.79
3144 3486 3.640407 ATGGCTGTGGCAGGTCGT 61.640 61.111 0.00 0.00 42.43 4.34
3145 3487 3.907260 ATGGCTGTGGCAGGTCGTG 62.907 63.158 0.00 0.00 42.43 4.35
3147 3489 4.626081 GCTGTGGCAGGTCGTGGT 62.626 66.667 0.00 0.00 38.54 4.16
3148 3490 2.666190 CTGTGGCAGGTCGTGGTG 60.666 66.667 0.00 0.00 0.00 4.17
3149 3491 4.248842 TGTGGCAGGTCGTGGTGG 62.249 66.667 0.00 0.00 0.00 4.61
3152 3494 4.722700 GGCAGGTCGTGGTGGCAT 62.723 66.667 0.00 0.00 39.03 4.40
3153 3495 3.127533 GCAGGTCGTGGTGGCATC 61.128 66.667 0.00 0.00 0.00 3.91
3154 3496 2.815211 CAGGTCGTGGTGGCATCG 60.815 66.667 0.00 0.00 0.00 3.84
3155 3497 3.311110 AGGTCGTGGTGGCATCGT 61.311 61.111 0.00 0.00 0.00 3.73
3156 3498 3.118454 GGTCGTGGTGGCATCGTG 61.118 66.667 0.00 0.00 0.00 4.35
3157 3499 3.118454 GTCGTGGTGGCATCGTGG 61.118 66.667 0.00 0.00 0.00 4.94
3165 3507 2.584608 GGCATCGTGGCAGTAGGT 59.415 61.111 6.67 0.00 43.14 3.08
3166 3508 1.815421 GGCATCGTGGCAGTAGGTG 60.815 63.158 6.67 0.00 43.14 4.00
3167 3509 1.815421 GCATCGTGGCAGTAGGTGG 60.815 63.158 0.00 0.00 0.00 4.61
3168 3510 1.596934 CATCGTGGCAGTAGGTGGT 59.403 57.895 0.00 0.00 0.00 4.16
3169 3511 0.460284 CATCGTGGCAGTAGGTGGTC 60.460 60.000 0.00 0.00 0.00 4.02
3170 3512 1.945354 ATCGTGGCAGTAGGTGGTCG 61.945 60.000 0.00 0.00 0.00 4.79
3171 3513 2.927580 CGTGGCAGTAGGTGGTCGT 61.928 63.158 0.00 0.00 0.00 4.34
3172 3514 1.374252 GTGGCAGTAGGTGGTCGTG 60.374 63.158 0.00 0.00 0.00 4.35
3173 3515 2.264794 GGCAGTAGGTGGTCGTGG 59.735 66.667 0.00 0.00 0.00 4.94
3174 3516 2.580601 GGCAGTAGGTGGTCGTGGT 61.581 63.158 0.00 0.00 0.00 4.16
3175 3517 1.374252 GCAGTAGGTGGTCGTGGTG 60.374 63.158 0.00 0.00 0.00 4.17
3176 3518 1.374252 CAGTAGGTGGTCGTGGTGC 60.374 63.158 0.00 0.00 0.00 5.01
3177 3519 2.431942 GTAGGTGGTCGTGGTGCG 60.432 66.667 0.00 0.00 43.01 5.34
3178 3520 4.367023 TAGGTGGTCGTGGTGCGC 62.367 66.667 0.00 0.00 41.07 6.09
3193 3535 4.069232 CGCGCCTGAGGTTGGAGA 62.069 66.667 0.00 0.00 0.00 3.71
3194 3536 2.435059 GCGCCTGAGGTTGGAGAC 60.435 66.667 0.00 0.00 0.00 3.36
3195 3537 2.125912 CGCCTGAGGTTGGAGACG 60.126 66.667 0.00 0.00 0.00 4.18
3196 3538 2.266055 GCCTGAGGTTGGAGACGG 59.734 66.667 0.00 0.00 0.00 4.79
3197 3539 2.266055 CCTGAGGTTGGAGACGGC 59.734 66.667 0.00 0.00 0.00 5.68
3198 3540 2.125912 CTGAGGTTGGAGACGGCG 60.126 66.667 4.80 4.80 0.00 6.46
3199 3541 3.649277 CTGAGGTTGGAGACGGCGG 62.649 68.421 13.24 0.00 0.00 6.13
3220 3562 3.854669 CGGCGGCTCCTCCTGATT 61.855 66.667 7.61 0.00 0.00 2.57
3221 3563 2.592308 GGCGGCTCCTCCTGATTT 59.408 61.111 0.00 0.00 0.00 2.17
3222 3564 1.821332 GGCGGCTCCTCCTGATTTG 60.821 63.158 0.00 0.00 0.00 2.32
3223 3565 1.221840 GCGGCTCCTCCTGATTTGA 59.778 57.895 0.00 0.00 0.00 2.69
3224 3566 1.092345 GCGGCTCCTCCTGATTTGAC 61.092 60.000 0.00 0.00 0.00 3.18
3225 3567 0.462759 CGGCTCCTCCTGATTTGACC 60.463 60.000 0.00 0.00 0.00 4.02
3226 3568 0.915364 GGCTCCTCCTGATTTGACCT 59.085 55.000 0.00 0.00 0.00 3.85
3227 3569 1.134250 GGCTCCTCCTGATTTGACCTC 60.134 57.143 0.00 0.00 0.00 3.85
3228 3570 1.472376 GCTCCTCCTGATTTGACCTCG 60.472 57.143 0.00 0.00 0.00 4.63
3229 3571 0.537188 TCCTCCTGATTTGACCTCGC 59.463 55.000 0.00 0.00 0.00 5.03
3230 3572 0.807667 CCTCCTGATTTGACCTCGCG 60.808 60.000 0.00 0.00 0.00 5.87
3231 3573 0.807667 CTCCTGATTTGACCTCGCGG 60.808 60.000 6.13 0.00 0.00 6.46
3232 3574 2.464459 CCTGATTTGACCTCGCGGC 61.464 63.158 6.13 0.00 0.00 6.53
3233 3575 2.802667 CTGATTTGACCTCGCGGCG 61.803 63.158 17.70 17.70 0.00 6.46
3234 3576 3.564027 GATTTGACCTCGCGGCGG 61.564 66.667 23.46 12.92 0.00 6.13
3258 3600 3.114616 CTGCGACGACTTGGGCTG 61.115 66.667 0.00 0.00 0.00 4.85
3300 3642 3.528370 CCTCGGCTAGTCGGGGTG 61.528 72.222 27.86 2.50 45.18 4.61
3301 3643 3.528370 CTCGGCTAGTCGGGGTGG 61.528 72.222 18.05 0.00 0.00 4.61
3320 3662 4.760047 GGCGCAGTGACGGTGGAT 62.760 66.667 10.83 0.00 0.00 3.41
3321 3663 3.490759 GCGCAGTGACGGTGGATG 61.491 66.667 0.30 0.00 0.00 3.51
3322 3664 3.490759 CGCAGTGACGGTGGATGC 61.491 66.667 0.00 0.00 0.00 3.91
3323 3665 3.490759 GCAGTGACGGTGGATGCG 61.491 66.667 0.00 0.00 0.00 4.73
3324 3666 3.490759 CAGTGACGGTGGATGCGC 61.491 66.667 0.00 0.00 0.00 6.09
3356 3698 3.181967 CGGCTCCGACGCTTTGAG 61.182 66.667 1.35 0.00 42.83 3.02
3358 3700 2.433318 GCTCCGACGCTTTGAGCT 60.433 61.111 14.22 0.00 46.19 4.09
3359 3701 2.448705 GCTCCGACGCTTTGAGCTC 61.449 63.158 6.82 6.82 46.19 4.09
3360 3702 2.126463 TCCGACGCTTTGAGCTCG 60.126 61.111 9.64 0.00 39.60 5.03
3361 3703 3.843240 CCGACGCTTTGAGCTCGC 61.843 66.667 9.64 5.59 39.60 5.03
3362 3704 2.807045 CGACGCTTTGAGCTCGCT 60.807 61.111 9.64 0.00 39.60 4.93
3363 3705 2.774774 GACGCTTTGAGCTCGCTG 59.225 61.111 9.64 5.92 39.60 5.18
3364 3706 2.734673 GACGCTTTGAGCTCGCTGG 61.735 63.158 9.64 0.39 39.60 4.85
3365 3707 3.494336 CGCTTTGAGCTCGCTGGG 61.494 66.667 9.64 5.84 39.60 4.45
3366 3708 3.808656 GCTTTGAGCTCGCTGGGC 61.809 66.667 9.64 5.31 38.45 5.36
3391 3733 4.643387 GTTGGGCAGTGGCTCGGT 62.643 66.667 17.16 0.00 46.33 4.69
3392 3734 4.641645 TTGGGCAGTGGCTCGGTG 62.642 66.667 17.16 0.00 46.33 4.94
3413 3755 4.575973 GCTGCCTCGGCCATGGAT 62.576 66.667 18.40 0.00 41.09 3.41
3414 3756 2.593725 CTGCCTCGGCCATGGATG 60.594 66.667 18.40 6.62 41.09 3.51
3427 3769 3.530067 GGATGGTTCCATGGCAGC 58.470 61.111 6.96 6.78 42.12 5.25
3428 3770 1.076485 GGATGGTTCCATGGCAGCT 60.076 57.895 14.68 0.55 42.12 4.24
3429 3771 1.389609 GGATGGTTCCATGGCAGCTG 61.390 60.000 14.68 10.11 42.12 4.24
3430 3772 1.380785 ATGGTTCCATGGCAGCTGG 60.381 57.895 17.12 0.45 34.93 4.85
3431 3773 2.757099 GGTTCCATGGCAGCTGGG 60.757 66.667 17.12 8.20 34.36 4.45
3432 3774 3.455469 GTTCCATGGCAGCTGGGC 61.455 66.667 17.12 9.25 43.73 5.36
3441 3783 3.699894 CAGCTGGGCAGGTCGACT 61.700 66.667 16.46 0.00 36.98 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 5.010012 CCGGGTAATGTTAGACCTACGTAAT 59.990 44.000 0.00 0.00 35.91 1.89
25 26 3.243975 GGTCGTATTCATCCGGGTAATGT 60.244 47.826 0.00 0.00 0.00 2.71
36 37 2.435805 ACCAGCATGAGGTCGTATTCAT 59.564 45.455 0.00 0.00 39.69 2.57
107 134 1.134007 TCACCAATAGAGGCATGCCAG 60.134 52.381 37.18 18.59 38.92 4.85
110 137 1.945394 CAGTCACCAATAGAGGCATGC 59.055 52.381 9.90 9.90 0.00 4.06
112 139 2.092753 CCACAGTCACCAATAGAGGCAT 60.093 50.000 0.00 0.00 0.00 4.40
116 143 2.936993 GCACCCACAGTCACCAATAGAG 60.937 54.545 0.00 0.00 0.00 2.43
209 491 4.653341 TCTTTTGTGGATGGAACCATGTTT 59.347 37.500 11.27 0.00 42.17 2.83
328 612 9.581099 GAATTACAAGGTGTTTTTCTCTTTTCA 57.419 29.630 0.00 0.00 0.00 2.69
537 824 3.092301 GTTTGAAGAAATGGGGAGGAGG 58.908 50.000 0.00 0.00 0.00 4.30
601 889 5.239525 AGGGATCACTATTTTTCTATTGCGC 59.760 40.000 0.00 0.00 0.00 6.09
602 890 6.483307 TGAGGGATCACTATTTTTCTATTGCG 59.517 38.462 0.00 0.00 0.00 4.85
740 1030 0.537188 GAGCAGGCAACCTAGCTACA 59.463 55.000 9.55 0.00 37.83 2.74
1019 1310 3.722728 AAGCTTCAAGAAGTTGCCTTG 57.277 42.857 11.14 0.00 41.63 3.61
1020 1311 3.956848 AGAAAGCTTCAAGAAGTTGCCTT 59.043 39.130 11.14 3.75 40.45 4.35
1021 1312 3.560105 AGAAAGCTTCAAGAAGTTGCCT 58.440 40.909 11.14 4.10 40.45 4.75
1022 1313 3.567585 AGAGAAAGCTTCAAGAAGTTGCC 59.432 43.478 11.14 2.12 40.45 4.52
1218 1509 1.734465 CACAATCAAGAAGGCGAGACC 59.266 52.381 0.00 0.00 39.61 3.85
1219 1510 2.158449 CACACAATCAAGAAGGCGAGAC 59.842 50.000 0.00 0.00 0.00 3.36
1220 1511 2.416747 CACACAATCAAGAAGGCGAGA 58.583 47.619 0.00 0.00 0.00 4.04
1221 1512 1.466167 CCACACAATCAAGAAGGCGAG 59.534 52.381 0.00 0.00 0.00 5.03
1222 1513 1.071542 TCCACACAATCAAGAAGGCGA 59.928 47.619 0.00 0.00 0.00 5.54
1223 1514 1.466167 CTCCACACAATCAAGAAGGCG 59.534 52.381 0.00 0.00 0.00 5.52
1225 1516 3.750130 CACTCTCCACACAATCAAGAAGG 59.250 47.826 0.00 0.00 0.00 3.46
1226 1517 3.750130 CCACTCTCCACACAATCAAGAAG 59.250 47.826 0.00 0.00 0.00 2.85
1228 1519 2.972021 TCCACTCTCCACACAATCAAGA 59.028 45.455 0.00 0.00 0.00 3.02
1229 1520 3.007290 TCTCCACTCTCCACACAATCAAG 59.993 47.826 0.00 0.00 0.00 3.02
1230 1521 2.972021 TCTCCACTCTCCACACAATCAA 59.028 45.455 0.00 0.00 0.00 2.57
1232 1523 2.564947 ACTCTCCACTCTCCACACAATC 59.435 50.000 0.00 0.00 0.00 2.67
1233 1524 2.301296 CACTCTCCACTCTCCACACAAT 59.699 50.000 0.00 0.00 0.00 2.71
1245 1536 3.258372 TCAGTACACCAATCACTCTCCAC 59.742 47.826 0.00 0.00 0.00 4.02
1447 1738 3.599730 TCATCTTCACCACTGTAGCAG 57.400 47.619 0.00 0.00 37.52 4.24
1457 1751 3.603532 TGAACAGAGCATCATCTTCACC 58.396 45.455 0.00 0.00 37.82 4.02
1561 1865 1.758514 CCTCTCCGGCTCCAGCTTA 60.759 63.158 0.00 0.00 41.70 3.09
1770 2074 3.124636 GCGTGGTTGTTGACTTCGATTAT 59.875 43.478 0.00 0.00 0.00 1.28
1771 2075 2.477375 GCGTGGTTGTTGACTTCGATTA 59.523 45.455 0.00 0.00 0.00 1.75
1774 2078 0.179094 AGCGTGGTTGTTGACTTCGA 60.179 50.000 0.00 0.00 0.00 3.71
1775 2079 0.655733 AAGCGTGGTTGTTGACTTCG 59.344 50.000 0.00 0.00 0.00 3.79
1776 2080 1.668751 TGAAGCGTGGTTGTTGACTTC 59.331 47.619 0.00 0.00 35.28 3.01
1777 2081 1.745232 TGAAGCGTGGTTGTTGACTT 58.255 45.000 0.00 0.00 0.00 3.01
1778 2082 1.873591 GATGAAGCGTGGTTGTTGACT 59.126 47.619 0.00 0.00 0.00 3.41
1779 2083 1.601903 TGATGAAGCGTGGTTGTTGAC 59.398 47.619 0.00 0.00 0.00 3.18
1780 2084 1.601903 GTGATGAAGCGTGGTTGTTGA 59.398 47.619 0.00 0.00 0.00 3.18
1781 2085 1.334960 GGTGATGAAGCGTGGTTGTTG 60.335 52.381 0.00 0.00 0.00 3.33
1782 2086 0.951558 GGTGATGAAGCGTGGTTGTT 59.048 50.000 0.00 0.00 0.00 2.83
1783 2087 1.227999 CGGTGATGAAGCGTGGTTGT 61.228 55.000 0.00 0.00 44.71 3.32
1850 2154 0.606401 ACCTGACGGCACAAAGATGG 60.606 55.000 0.00 0.00 0.00 3.51
1851 2155 0.518636 CACCTGACGGCACAAAGATG 59.481 55.000 0.00 0.00 0.00 2.90
1852 2156 0.606401 CCACCTGACGGCACAAAGAT 60.606 55.000 0.00 0.00 0.00 2.40
1861 2165 0.032403 TCAACGTTACCACCTGACGG 59.968 55.000 0.00 0.00 40.82 4.79
1985 2295 2.746277 GGCATGTTCCTCGGCGTT 60.746 61.111 6.85 0.00 0.00 4.84
2359 2675 4.148825 ATCTGGCCGTCGTCCTGC 62.149 66.667 0.00 0.00 0.00 4.85
2471 2794 3.794564 AGAAAACAAAACGCCACGATTTC 59.205 39.130 0.00 0.00 30.05 2.17
2519 2843 1.202268 GGTCGATCGTAGTGACCCAAG 60.202 57.143 15.94 0.00 45.14 3.61
2563 2887 5.471456 ACCGATGTATTACCCTAACTCGTAG 59.529 44.000 0.00 0.00 0.00 3.51
2581 2908 3.062099 CACGACAGATTTTACCACCGATG 59.938 47.826 0.00 0.00 0.00 3.84
2622 2949 1.205893 GAATGAGGCTCTGACTCCGTT 59.794 52.381 16.72 0.00 36.76 4.44
2642 2969 5.118286 TGACATGATGTACTGTGCCATAAG 58.882 41.667 0.00 0.00 0.00 1.73
2693 3030 2.942376 TCTTGCAAAACTCACACGACAT 59.058 40.909 0.00 0.00 0.00 3.06
2700 3037 5.045872 AGCTTTTGATCTTGCAAAACTCAC 58.954 37.500 0.00 0.00 41.38 3.51
2710 3047 0.533951 GGGGCCAGCTTTTGATCTTG 59.466 55.000 4.39 0.00 0.00 3.02
2719 3056 2.829384 TTGAGAACGGGGCCAGCTT 61.829 57.895 4.39 0.00 0.00 3.74
2720 3057 3.249189 TTGAGAACGGGGCCAGCT 61.249 61.111 4.39 0.00 0.00 4.24
2723 3060 0.834687 AGTAGTTGAGAACGGGGCCA 60.835 55.000 4.39 0.00 36.23 5.36
2730 3067 2.655474 CGCACGTACAGTAGTTGAGAAC 59.345 50.000 0.00 0.00 0.00 3.01
2736 3073 0.594602 TGAGCGCACGTACAGTAGTT 59.405 50.000 11.47 0.00 0.00 2.24
2833 3174 7.488322 ACATAATTTATGAACGTGGGAAATGG 58.512 34.615 20.54 0.00 39.45 3.16
2909 3250 9.750125 AAAATGGAAAAGCTACTTAGAAAACAG 57.250 29.630 0.00 0.00 0.00 3.16
2916 3258 7.807680 ACTTCGAAAATGGAAAAGCTACTTAG 58.192 34.615 0.00 0.00 0.00 2.18
2922 3264 3.888930 TGGACTTCGAAAATGGAAAAGCT 59.111 39.130 0.00 0.00 0.00 3.74
2965 3307 6.015519 CCAAGGTTCACAATTCTCCATAAACA 60.016 38.462 0.00 0.00 0.00 2.83
2990 3332 1.871126 GAGGAGCTGCTTGTTTGCCC 61.871 60.000 9.91 0.00 0.00 5.36
2991 3333 1.583477 GAGGAGCTGCTTGTTTGCC 59.417 57.895 9.91 0.00 0.00 4.52
2992 3334 0.892814 AGGAGGAGCTGCTTGTTTGC 60.893 55.000 9.91 0.00 0.00 3.68
2993 3335 1.163554 GAGGAGGAGCTGCTTGTTTG 58.836 55.000 9.91 0.00 30.82 2.93
2994 3336 0.037447 GGAGGAGGAGCTGCTTGTTT 59.963 55.000 9.91 0.00 30.82 2.83
2995 3337 1.682257 GGAGGAGGAGCTGCTTGTT 59.318 57.895 9.91 0.00 30.82 2.83
2996 3338 2.654079 CGGAGGAGGAGCTGCTTGT 61.654 63.158 9.91 0.00 30.82 3.16
2997 3339 2.186384 CGGAGGAGGAGCTGCTTG 59.814 66.667 9.91 0.00 30.82 4.01
2998 3340 3.780173 GCGGAGGAGGAGCTGCTT 61.780 66.667 9.91 0.00 30.82 3.91
3001 3343 4.200283 GACGCGGAGGAGGAGCTG 62.200 72.222 12.47 0.00 0.00 4.24
3004 3346 3.878519 GACGACGCGGAGGAGGAG 61.879 72.222 12.47 0.00 0.00 3.69
3005 3347 4.405671 AGACGACGCGGAGGAGGA 62.406 66.667 12.47 0.00 0.00 3.71
3006 3348 3.878519 GAGACGACGCGGAGGAGG 61.879 72.222 12.47 0.00 0.00 4.30
3007 3349 3.878519 GGAGACGACGCGGAGGAG 61.879 72.222 12.47 0.00 0.00 3.69
3037 3379 4.256278 AGGGATAGGGGGCCTCCG 62.256 72.222 18.50 0.00 34.61 4.63
3038 3380 2.204013 GAGGGATAGGGGGCCTCC 60.204 72.222 16.49 16.49 34.61 4.30
3039 3381 2.604991 CGAGGGATAGGGGGCCTC 60.605 72.222 0.84 0.00 34.61 4.70
3040 3382 4.964241 GCGAGGGATAGGGGGCCT 62.964 72.222 0.84 0.00 37.71 5.19
3065 3407 4.890306 GAGGGAGGAGGAGGGGGC 62.890 77.778 0.00 0.00 0.00 5.80
3066 3408 4.548513 CGAGGGAGGAGGAGGGGG 62.549 77.778 0.00 0.00 0.00 5.40
3070 3412 4.824515 ACGGCGAGGGAGGAGGAG 62.825 72.222 16.62 0.00 0.00 3.69
3071 3413 4.816984 GACGGCGAGGGAGGAGGA 62.817 72.222 16.62 0.00 0.00 3.71
3105 3447 2.894387 GAGGCGATCACCTGCAGC 60.894 66.667 7.11 0.00 41.32 5.25
3106 3448 1.521010 CAGAGGCGATCACCTGCAG 60.521 63.158 7.11 6.78 41.32 4.41
3107 3449 2.580815 CAGAGGCGATCACCTGCA 59.419 61.111 7.11 0.00 41.32 4.41
3108 3450 2.894387 GCAGAGGCGATCACCTGC 60.894 66.667 7.11 8.29 41.32 4.85
3109 3451 2.202987 GGCAGAGGCGATCACCTG 60.203 66.667 7.11 1.84 41.32 4.00
3110 3452 2.068821 ATGGCAGAGGCGATCACCT 61.069 57.895 0.68 0.68 45.04 4.00
3111 3453 1.890979 CATGGCAGAGGCGATCACC 60.891 63.158 0.00 0.00 42.47 4.02
3112 3454 1.890979 CCATGGCAGAGGCGATCAC 60.891 63.158 0.00 0.00 42.47 3.06
3113 3455 2.507452 CCATGGCAGAGGCGATCA 59.493 61.111 0.00 0.00 42.47 2.92
3114 3456 2.976903 GCCATGGCAGAGGCGATC 60.977 66.667 32.08 0.00 41.70 3.69
3119 3461 2.439701 CCACAGCCATGGCAGAGG 60.440 66.667 37.18 31.58 44.88 3.69
3125 3467 2.753043 GACCTGCCACAGCCATGG 60.753 66.667 7.63 7.63 43.26 3.66
3126 3468 3.129502 CGACCTGCCACAGCCATG 61.130 66.667 0.00 0.00 38.69 3.66
3127 3469 3.640407 ACGACCTGCCACAGCCAT 61.640 61.111 0.00 0.00 38.69 4.40
3128 3470 4.624364 CACGACCTGCCACAGCCA 62.624 66.667 0.00 0.00 38.69 4.75
3130 3472 4.626081 ACCACGACCTGCCACAGC 62.626 66.667 0.00 0.00 40.48 4.40
3131 3473 2.666190 CACCACGACCTGCCACAG 60.666 66.667 0.00 0.00 0.00 3.66
3132 3474 4.248842 CCACCACGACCTGCCACA 62.249 66.667 0.00 0.00 0.00 4.17
3135 3477 4.722700 ATGCCACCACGACCTGCC 62.723 66.667 0.00 0.00 0.00 4.85
3136 3478 3.127533 GATGCCACCACGACCTGC 61.128 66.667 0.00 0.00 0.00 4.85
3137 3479 2.815211 CGATGCCACCACGACCTG 60.815 66.667 0.00 0.00 0.00 4.00
3138 3480 3.311110 ACGATGCCACCACGACCT 61.311 61.111 0.00 0.00 0.00 3.85
3139 3481 3.118454 CACGATGCCACCACGACC 61.118 66.667 0.00 0.00 0.00 4.79
3140 3482 3.118454 CCACGATGCCACCACGAC 61.118 66.667 0.00 0.00 0.00 4.34
3143 3485 2.796483 TACTGCCACGATGCCACCAC 62.796 60.000 0.00 0.00 0.00 4.16
3144 3486 2.520465 CTACTGCCACGATGCCACCA 62.520 60.000 0.00 0.00 0.00 4.17
3145 3487 1.815421 CTACTGCCACGATGCCACC 60.815 63.158 0.00 0.00 0.00 4.61
3146 3488 1.815421 CCTACTGCCACGATGCCAC 60.815 63.158 0.00 0.00 0.00 5.01
3147 3489 2.290287 ACCTACTGCCACGATGCCA 61.290 57.895 0.00 0.00 0.00 4.92
3148 3490 1.815421 CACCTACTGCCACGATGCC 60.815 63.158 0.00 0.00 0.00 4.40
3149 3491 1.815421 CCACCTACTGCCACGATGC 60.815 63.158 0.00 0.00 0.00 3.91
3150 3492 0.460284 GACCACCTACTGCCACGATG 60.460 60.000 0.00 0.00 0.00 3.84
3151 3493 1.898154 GACCACCTACTGCCACGAT 59.102 57.895 0.00 0.00 0.00 3.73
3152 3494 2.632544 CGACCACCTACTGCCACGA 61.633 63.158 0.00 0.00 0.00 4.35
3153 3495 2.126071 CGACCACCTACTGCCACG 60.126 66.667 0.00 0.00 0.00 4.94
3154 3496 1.374252 CACGACCACCTACTGCCAC 60.374 63.158 0.00 0.00 0.00 5.01
3155 3497 2.579657 CCACGACCACCTACTGCCA 61.580 63.158 0.00 0.00 0.00 4.92
3156 3498 2.264794 CCACGACCACCTACTGCC 59.735 66.667 0.00 0.00 0.00 4.85
3157 3499 1.374252 CACCACGACCACCTACTGC 60.374 63.158 0.00 0.00 0.00 4.40
3158 3500 1.374252 GCACCACGACCACCTACTG 60.374 63.158 0.00 0.00 0.00 2.74
3159 3501 3.057337 GCACCACGACCACCTACT 58.943 61.111 0.00 0.00 0.00 2.57
3176 3518 4.069232 TCTCCAACCTCAGGCGCG 62.069 66.667 0.00 0.00 0.00 6.86
3177 3519 2.435059 GTCTCCAACCTCAGGCGC 60.435 66.667 0.00 0.00 0.00 6.53
3178 3520 2.125912 CGTCTCCAACCTCAGGCG 60.126 66.667 0.00 0.00 0.00 5.52
3179 3521 2.266055 CCGTCTCCAACCTCAGGC 59.734 66.667 0.00 0.00 0.00 4.85
3180 3522 2.266055 GCCGTCTCCAACCTCAGG 59.734 66.667 0.00 0.00 0.00 3.86
3181 3523 2.125912 CGCCGTCTCCAACCTCAG 60.126 66.667 0.00 0.00 0.00 3.35
3182 3524 3.691342 CCGCCGTCTCCAACCTCA 61.691 66.667 0.00 0.00 0.00 3.86
3203 3545 3.391665 AAATCAGGAGGAGCCGCCG 62.392 63.158 3.56 0.00 43.43 6.46
3204 3546 1.821332 CAAATCAGGAGGAGCCGCC 60.821 63.158 0.47 0.47 43.43 6.13
3205 3547 1.092345 GTCAAATCAGGAGGAGCCGC 61.092 60.000 0.00 0.00 43.43 6.53
3206 3548 0.462759 GGTCAAATCAGGAGGAGCCG 60.463 60.000 0.00 0.00 43.43 5.52
3207 3549 0.915364 AGGTCAAATCAGGAGGAGCC 59.085 55.000 0.00 0.00 0.00 4.70
3208 3550 1.472376 CGAGGTCAAATCAGGAGGAGC 60.472 57.143 0.00 0.00 0.00 4.70
3209 3551 1.472376 GCGAGGTCAAATCAGGAGGAG 60.472 57.143 0.00 0.00 0.00 3.69
3210 3552 0.537188 GCGAGGTCAAATCAGGAGGA 59.463 55.000 0.00 0.00 0.00 3.71
3211 3553 0.807667 CGCGAGGTCAAATCAGGAGG 60.808 60.000 0.00 0.00 0.00 4.30
3212 3554 2.670635 CGCGAGGTCAAATCAGGAG 58.329 57.895 0.00 0.00 0.00 3.69
3213 3555 4.910956 CGCGAGGTCAAATCAGGA 57.089 55.556 0.00 0.00 0.00 3.86
3241 3583 3.114616 CAGCCCAAGTCGTCGCAG 61.115 66.667 0.00 0.00 0.00 5.18
3282 3624 4.835891 ACCCCGACTAGCCGAGGG 62.836 72.222 18.78 18.78 42.15 4.30
3283 3625 3.528370 CACCCCGACTAGCCGAGG 61.528 72.222 0.00 0.00 33.38 4.63
3284 3626 3.528370 CCACCCCGACTAGCCGAG 61.528 72.222 0.00 0.00 0.00 4.63
3303 3645 4.760047 ATCCACCGTCACTGCGCC 62.760 66.667 4.18 0.00 0.00 6.53
3304 3646 3.490759 CATCCACCGTCACTGCGC 61.491 66.667 0.00 0.00 0.00 6.09
3305 3647 3.490759 GCATCCACCGTCACTGCG 61.491 66.667 0.00 0.00 0.00 5.18
3306 3648 3.490759 CGCATCCACCGTCACTGC 61.491 66.667 0.00 0.00 0.00 4.40
3307 3649 3.490759 GCGCATCCACCGTCACTG 61.491 66.667 0.30 0.00 0.00 3.66
3339 3681 3.181967 CTCAAAGCGTCGGAGCCG 61.182 66.667 1.74 1.74 38.01 5.52
3340 3682 3.491652 GCTCAAAGCGTCGGAGCC 61.492 66.667 12.99 0.00 46.35 4.70
3349 3691 3.808656 GCCCAGCGAGCTCAAAGC 61.809 66.667 15.40 9.32 42.84 3.51
3374 3716 4.643387 ACCGAGCCACTGCCCAAC 62.643 66.667 0.00 0.00 38.69 3.77
3375 3717 4.641645 CACCGAGCCACTGCCCAA 62.642 66.667 0.00 0.00 38.69 4.12
3396 3738 4.575973 ATCCATGGCCGAGGCAGC 62.576 66.667 16.65 0.00 42.43 5.25
3397 3739 2.593725 CATCCATGGCCGAGGCAG 60.594 66.667 16.65 5.06 42.43 4.85
3398 3740 4.193893 CCATCCATGGCCGAGGCA 62.194 66.667 16.65 3.33 41.75 4.75
3410 3752 1.076485 AGCTGCCATGGAACCATCC 60.076 57.895 18.40 0.00 46.76 3.51
3411 3753 1.389609 CCAGCTGCCATGGAACCATC 61.390 60.000 18.40 0.00 40.51 3.51
3412 3754 1.380785 CCAGCTGCCATGGAACCAT 60.381 57.895 18.40 0.00 40.51 3.55
3413 3755 2.036098 CCAGCTGCCATGGAACCA 59.964 61.111 18.40 2.70 40.51 3.67
3414 3756 2.757099 CCCAGCTGCCATGGAACC 60.757 66.667 18.40 0.00 40.51 3.62
3415 3757 3.455469 GCCCAGCTGCCATGGAAC 61.455 66.667 18.40 3.09 40.51 3.62
3416 3758 3.949885 CTGCCCAGCTGCCATGGAA 62.950 63.158 18.40 3.09 40.51 3.53
3417 3759 4.435970 CTGCCCAGCTGCCATGGA 62.436 66.667 18.40 0.00 40.51 3.41
3419 3761 4.753662 ACCTGCCCAGCTGCCATG 62.754 66.667 8.66 7.22 0.00 3.66
3420 3762 4.437587 GACCTGCCCAGCTGCCAT 62.438 66.667 8.66 0.00 0.00 4.40
3424 3766 3.699894 AGTCGACCTGCCCAGCTG 61.700 66.667 13.01 6.78 0.00 4.24
3425 3767 3.699894 CAGTCGACCTGCCCAGCT 61.700 66.667 13.01 0.00 33.59 4.24


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

AutoCloner maintained by Alex Coulton.