Multiple sequence alignment - TraesCS6B01G027600

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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 TraesCS6B01G027600 chr6B 100.000 3305 0 0 1 3305 16427857 16431161 0.000000e+00 6104.0
1 TraesCS6B01G027600 chr6B 94.203 1725 94 4 1135 2853 52568259 52566535 0.000000e+00 2627.0
2 TraesCS6B01G027600 chr6B 92.654 1198 77 7 1850 3045 52987888 52986700 0.000000e+00 1714.0
3 TraesCS6B01G027600 chr6B 87.676 1063 130 1 1245 2307 15225632 15224571 0.000000e+00 1236.0
4 TraesCS6B01G027600 chr6B 91.347 913 63 15 3 904 15228435 15227528 0.000000e+00 1234.0
5 TraesCS6B01G027600 chr6B 88.441 917 87 13 3 906 16271783 16272693 0.000000e+00 1088.0
6 TraesCS6B01G027600 chr6B 95.146 206 9 1 3035 3240 661669662 661669866 1.140000e-84 324.0
7 TraesCS6B01G027600 chr6B 94.175 206 11 1 3035 3240 661814573 661814777 2.480000e-81 313.0
8 TraesCS6B01G027600 chr6B 98.571 140 2 0 2906 3045 52566541 52566402 7.080000e-62 248.0
9 TraesCS6B01G027600 chr6B 96.721 61 2 0 3245 3305 52566416 52566356 5.830000e-18 102.0
10 TraesCS6B01G027600 chr6B 94.915 59 3 0 3247 3305 52986712 52986654 3.510000e-15 93.5
11 TraesCS6B01G027600 chr6B 88.710 62 2 2 2977 3038 15749300 15749244 1.650000e-08 71.3
12 TraesCS6B01G027600 chr6D 91.127 2006 151 16 1051 3045 8397251 8395262 0.000000e+00 2693.0
13 TraesCS6B01G027600 chr6D 90.412 1627 120 10 1060 2685 8899440 8901031 0.000000e+00 2108.0
14 TraesCS6B01G027600 chr6D 81.017 1180 214 10 1131 2306 8967566 8968739 0.000000e+00 929.0
15 TraesCS6B01G027600 chr6D 88.525 366 23 2 2680 3045 8901109 8901455 3.050000e-115 425.0
16 TraesCS6B01G027600 chr6D 96.721 61 2 0 3245 3305 8901441 8901501 5.830000e-18 102.0
17 TraesCS6B01G027600 chr6D 95.082 61 3 0 3245 3305 8395276 8395216 2.710000e-16 97.1
18 TraesCS6B01G027600 chr6D 91.667 48 4 0 2962 3009 8918524 8918571 2.130000e-07 67.6
19 TraesCS6B01G027600 chr6A 87.232 1261 133 18 1517 2770 8804182 8802943 0.000000e+00 1411.0
20 TraesCS6B01G027600 chr5B 90.326 920 58 21 3 911 556553764 556552865 0.000000e+00 1177.0
21 TraesCS6B01G027600 chr3A 82.598 1178 197 6 1135 2306 45937989 45936814 0.000000e+00 1033.0
22 TraesCS6B01G027600 chr3D 82.192 1168 199 7 1144 2305 33330498 33329334 0.000000e+00 996.0
23 TraesCS6B01G027600 chr3D 95.939 197 8 0 3042 3238 540258175 540258371 1.480000e-83 320.0
24 TraesCS6B01G027600 chr7B 81.049 1182 210 13 1129 2306 123655554 123656725 0.000000e+00 929.0
25 TraesCS6B01G027600 chr7B 89.859 355 32 3 561 911 443747157 443747511 1.400000e-123 453.0
26 TraesCS6B01G027600 chr7B 96.172 209 7 1 3035 3243 11024654 11024447 1.140000e-89 340.0
27 TraesCS6B01G027600 chr7B 94.175 206 12 0 3042 3247 548474673 548474878 6.880000e-82 315.0
28 TraesCS6B01G027600 chr7B 94.975 199 10 0 3042 3240 458993556 458993754 2.480000e-81 313.0
29 TraesCS6B01G027600 chr7D 80.864 1181 211 14 1132 2306 161390634 161391805 0.000000e+00 915.0
30 TraesCS6B01G027600 chr7A 90.756 357 29 3 559 911 688197120 688196764 1.070000e-129 473.0
31 TraesCS6B01G027600 chr4D 90.055 362 30 5 555 911 270375041 270375401 6.460000e-127 464.0
32 TraesCS6B01G027600 chr4A 90.141 355 30 4 561 911 547195522 547195875 1.080000e-124 457.0
33 TraesCS6B01G027600 chr1A 89.859 355 32 3 561 911 227305817 227305463 1.400000e-123 453.0
34 TraesCS6B01G027600 chr3B 89.577 355 33 3 561 911 215574810 215574456 6.510000e-122 448.0
35 TraesCS6B01G027600 chr3B 94.608 204 11 0 3042 3245 5743640 5743437 1.910000e-82 316.0
36 TraesCS6B01G027600 chr2B 94.686 207 10 1 3035 3241 768082105 768081900 1.480000e-83 320.0
37 TraesCS6B01G027600 chr2B 87.500 72 4 2 2962 3033 373066914 373066848 9.830000e-11 78.7
38 TraesCS6B01G027600 chrUn 94.608 204 11 0 3042 3245 295608504 295608301 1.910000e-82 316.0
39 TraesCS6B01G027600 chr1D 91.765 85 6 1 2958 3042 416354728 416354645 2.080000e-22 117.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G027600 chr6B 16427857 16431161 3304 False 6104.000000 6104 100.000000 1 3305 1 chr6B.!!$F2 3304
1 TraesCS6B01G027600 chr6B 15224571 15228435 3864 True 1235.000000 1236 89.511500 3 2307 2 chr6B.!!$R2 2304
2 TraesCS6B01G027600 chr6B 16271783 16272693 910 False 1088.000000 1088 88.441000 3 906 1 chr6B.!!$F1 903
3 TraesCS6B01G027600 chr6B 52566356 52568259 1903 True 992.333333 2627 96.498333 1135 3305 3 chr6B.!!$R3 2170
4 TraesCS6B01G027600 chr6B 52986654 52987888 1234 True 903.750000 1714 93.784500 1850 3305 2 chr6B.!!$R4 1455
5 TraesCS6B01G027600 chr6D 8395216 8397251 2035 True 1395.050000 2693 93.104500 1051 3305 2 chr6D.!!$R1 2254
6 TraesCS6B01G027600 chr6D 8967566 8968739 1173 False 929.000000 929 81.017000 1131 2306 1 chr6D.!!$F2 1175
7 TraesCS6B01G027600 chr6D 8899440 8901501 2061 False 878.333333 2108 91.886000 1060 3305 3 chr6D.!!$F3 2245
8 TraesCS6B01G027600 chr6A 8802943 8804182 1239 True 1411.000000 1411 87.232000 1517 2770 1 chr6A.!!$R1 1253
9 TraesCS6B01G027600 chr5B 556552865 556553764 899 True 1177.000000 1177 90.326000 3 911 1 chr5B.!!$R1 908
10 TraesCS6B01G027600 chr3A 45936814 45937989 1175 True 1033.000000 1033 82.598000 1135 2306 1 chr3A.!!$R1 1171
11 TraesCS6B01G027600 chr3D 33329334 33330498 1164 True 996.000000 996 82.192000 1144 2305 1 chr3D.!!$R1 1161
12 TraesCS6B01G027600 chr7B 123655554 123656725 1171 False 929.000000 929 81.049000 1129 2306 1 chr7B.!!$F1 1177
13 TraesCS6B01G027600 chr7D 161390634 161391805 1171 False 915.000000 915 80.864000 1132 2306 1 chr7D.!!$F1 1174

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
825 844 0.473755 TGTCAGCATCACACCCAAGT 59.526 50.0 0.0 0.0 0.0 3.16 F
1481 3062 0.035458 AGCGTGGAGAAAACCCTGAG 59.965 55.0 0.0 0.0 0.0 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1627 3209 0.106469 TACCTGAGAGCAGCGAGGAT 60.106 55.0 9.16 0.0 40.91 3.24 R
3079 4772 0.107410 GCCCACCCATATCGACAACA 60.107 55.0 0.00 0.0 0.00 3.33 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
153 154 6.210796 TGCAAATGTTCAAGAATGTGAAGAG 58.789 36.000 0.00 0.00 38.17 2.85
187 188 5.816919 TCTCGGACTTCAAAAATTGTTCAC 58.183 37.500 0.00 0.00 0.00 3.18
369 381 5.694674 TGTTCGTGAGTTTGCAAAATTTC 57.305 34.783 14.67 12.31 0.00 2.17
401 416 9.753674 ATGTTCAGACCTTAAAAGAATATTCCA 57.246 29.630 11.92 0.00 0.00 3.53
587 602 2.109774 CTCAGCCTCTCTCCTGTCAAT 58.890 52.381 0.00 0.00 0.00 2.57
596 611 6.575254 GCCTCTCTCCTGTCAATTTTTCTCTA 60.575 42.308 0.00 0.00 0.00 2.43
636 651 5.039920 TGGGGTTGATGACATTCTCATAG 57.960 43.478 0.00 0.00 39.96 2.23
637 652 4.141413 TGGGGTTGATGACATTCTCATAGG 60.141 45.833 0.00 0.00 39.96 2.57
708 725 1.888018 CTTAGGCTCCGGTCGTTGA 59.112 57.895 0.00 0.00 0.00 3.18
738 755 7.440198 TCATTATCGCTGAAGATTGATCTCTT 58.560 34.615 0.00 0.00 38.18 2.85
825 844 0.473755 TGTCAGCATCACACCCAAGT 59.526 50.000 0.00 0.00 0.00 3.16
911 930 2.889045 CTGCATAGCCACATTGCCTAAT 59.111 45.455 0.00 0.00 35.51 1.73
920 2148 3.119029 CCACATTGCCTAATGAAACCCTG 60.119 47.826 6.98 0.00 45.21 4.45
921 2149 2.497273 ACATTGCCTAATGAAACCCTGC 59.503 45.455 6.98 0.00 45.21 4.85
939 2167 1.988015 CCGCTAACCCCTTTCTCCA 59.012 57.895 0.00 0.00 0.00 3.86
943 2171 2.434702 CGCTAACCCCTTTCTCCATAGT 59.565 50.000 0.00 0.00 0.00 2.12
944 2172 3.118371 CGCTAACCCCTTTCTCCATAGTT 60.118 47.826 0.00 0.00 0.00 2.24
945 2173 4.200092 GCTAACCCCTTTCTCCATAGTTG 58.800 47.826 0.00 0.00 0.00 3.16
946 2174 3.739401 AACCCCTTTCTCCATAGTTGG 57.261 47.619 0.00 0.00 45.15 3.77
959 2190 2.963599 TAGTTGGACCTTCAAACCCC 57.036 50.000 0.00 0.00 0.00 4.95
961 2192 1.133482 AGTTGGACCTTCAAACCCCTG 60.133 52.381 0.00 0.00 0.00 4.45
969 2200 0.897863 TTCAAACCCCTGGATTGCGG 60.898 55.000 0.00 0.00 35.79 5.69
996 2227 1.208535 ACGATTGACTATGGGCGGAAA 59.791 47.619 0.00 0.00 0.00 3.13
1013 2244 5.694458 GGCGGAAACACATGAATAAAAGTTT 59.306 36.000 0.00 0.00 32.48 2.66
1040 2271 3.070429 GCGGAGGCACATGAATAAAAG 57.930 47.619 0.00 0.00 39.62 2.27
1041 2272 2.682856 GCGGAGGCACATGAATAAAAGA 59.317 45.455 0.00 0.00 39.62 2.52
1042 2273 3.128589 GCGGAGGCACATGAATAAAAGAA 59.871 43.478 0.00 0.00 39.62 2.52
1043 2274 4.380444 GCGGAGGCACATGAATAAAAGAAA 60.380 41.667 0.00 0.00 39.62 2.52
1044 2275 5.708948 CGGAGGCACATGAATAAAAGAAAA 58.291 37.500 0.00 0.00 0.00 2.29
1133 2564 2.196229 CCCCGTCGAGATCCTCCT 59.804 66.667 0.00 0.00 0.00 3.69
1232 2674 4.154347 CCACCTCAGCCGCCTCTC 62.154 72.222 0.00 0.00 0.00 3.20
1356 2937 0.401738 CCAAGCTCTCCCACCTCAAA 59.598 55.000 0.00 0.00 0.00 2.69
1458 3039 0.104409 AGGACCCCAAGTTCCTCTGT 60.104 55.000 0.00 0.00 0.00 3.41
1472 3053 2.031012 CTGTGCCAGCGTGGAGAA 59.969 61.111 8.04 0.00 40.96 2.87
1480 3061 0.250295 CAGCGTGGAGAAAACCCTGA 60.250 55.000 0.00 0.00 0.00 3.86
1481 3062 0.035458 AGCGTGGAGAAAACCCTGAG 59.965 55.000 0.00 0.00 0.00 3.35
1486 3067 1.767692 GAGAAAACCCTGAGCCCCA 59.232 57.895 0.00 0.00 0.00 4.96
1533 3114 1.514228 GTCGCGTTCTGAGATCGCA 60.514 57.895 29.80 17.93 46.76 5.10
1539 3120 1.153765 TTCTGAGATCGCACGCCTG 60.154 57.895 0.00 0.00 0.00 4.85
1627 3209 2.232452 CTCTTCGGCTCCTTTGAGAAGA 59.768 50.000 6.13 6.13 43.19 2.87
1633 3215 2.482839 GGCTCCTTTGAGAAGATCCTCG 60.483 54.545 0.00 0.00 41.42 4.63
2109 3691 4.699522 GGCCGGATCATACCCCGC 62.700 72.222 5.05 0.00 44.07 6.13
2329 3911 0.785979 GGTAACAGTACGGCACAACG 59.214 55.000 0.00 0.00 40.31 4.10
2332 3914 2.728690 AACAGTACGGCACAACGATA 57.271 45.000 0.00 0.00 37.61 2.92
2475 4064 6.072783 GCTAGTCTAGGATGAAATTGGCAATC 60.073 42.308 14.04 3.32 0.00 2.67
2513 4102 7.500720 TTGGTATGCTCATTATGACATTCAG 57.499 36.000 12.73 0.00 0.00 3.02
2531 4120 7.164122 ACATTCAGTTAGAGAAGAAAGCATCA 58.836 34.615 0.00 0.00 0.00 3.07
2546 4156 4.743057 AGCATCATACTACTGCTTGTGA 57.257 40.909 0.00 0.00 43.44 3.58
2547 4157 5.089970 AGCATCATACTACTGCTTGTGAA 57.910 39.130 0.00 0.00 43.44 3.18
2548 4158 4.872691 AGCATCATACTACTGCTTGTGAAC 59.127 41.667 0.00 0.00 43.44 3.18
2549 4159 4.872691 GCATCATACTACTGCTTGTGAACT 59.127 41.667 0.00 0.00 33.15 3.01
2550 4160 5.006165 GCATCATACTACTGCTTGTGAACTC 59.994 44.000 0.00 0.00 33.15 3.01
2551 4161 5.984695 TCATACTACTGCTTGTGAACTCT 57.015 39.130 0.00 0.00 0.00 3.24
2552 4162 7.484140 CATCATACTACTGCTTGTGAACTCTA 58.516 38.462 0.00 0.00 0.00 2.43
2553 4163 7.462571 TCATACTACTGCTTGTGAACTCTAA 57.537 36.000 0.00 0.00 0.00 2.10
2554 4164 7.539436 TCATACTACTGCTTGTGAACTCTAAG 58.461 38.462 0.00 0.00 0.00 2.18
2555 4165 5.140747 ACTACTGCTTGTGAACTCTAAGG 57.859 43.478 0.00 0.00 0.00 2.69
2556 4166 4.589374 ACTACTGCTTGTGAACTCTAAGGT 59.411 41.667 0.00 0.00 0.00 3.50
2557 4167 3.996480 ACTGCTTGTGAACTCTAAGGTC 58.004 45.455 0.00 0.00 31.00 3.85
2558 4168 3.388024 ACTGCTTGTGAACTCTAAGGTCA 59.612 43.478 0.00 0.00 40.14 4.02
2713 4406 4.040047 TCTCTGACACATATCCCCACAAT 58.960 43.478 0.00 0.00 0.00 2.71
2887 4580 2.189594 TTCAGGTGCACCTCAATCTG 57.810 50.000 35.79 23.38 46.65 2.90
2889 4582 2.256306 TCAGGTGCACCTCAATCTGTA 58.744 47.619 35.79 11.26 46.65 2.74
2942 4635 5.278169 CCAAAGATGACACAGACTTCCAAAG 60.278 44.000 0.00 0.00 0.00 2.77
3050 4743 7.978982 AGATGAAAATCTTTGTTCATAGTCGG 58.021 34.615 0.00 0.00 42.98 4.79
3051 4744 7.824289 AGATGAAAATCTTTGTTCATAGTCGGA 59.176 33.333 0.00 0.00 42.98 4.55
3052 4745 7.364522 TGAAAATCTTTGTTCATAGTCGGAG 57.635 36.000 0.00 0.00 0.00 4.63
3053 4746 5.803020 AAATCTTTGTTCATAGTCGGAGC 57.197 39.130 0.00 0.00 0.00 4.70
3054 4747 4.744795 ATCTTTGTTCATAGTCGGAGCT 57.255 40.909 0.00 0.00 0.00 4.09
3055 4748 3.849911 TCTTTGTTCATAGTCGGAGCTG 58.150 45.455 0.00 0.00 0.00 4.24
3056 4749 2.010145 TTGTTCATAGTCGGAGCTGC 57.990 50.000 0.00 0.00 0.00 5.25
3057 4750 0.179137 TGTTCATAGTCGGAGCTGCG 60.179 55.000 22.84 22.84 0.00 5.18
3058 4751 0.179134 GTTCATAGTCGGAGCTGCGT 60.179 55.000 27.20 11.84 0.00 5.24
3059 4752 0.530744 TTCATAGTCGGAGCTGCGTT 59.469 50.000 27.20 18.35 0.00 4.84
3060 4753 0.179137 TCATAGTCGGAGCTGCGTTG 60.179 55.000 27.20 18.88 0.00 4.10
3061 4754 0.458543 CATAGTCGGAGCTGCGTTGT 60.459 55.000 27.20 14.87 0.00 3.32
3062 4755 0.246635 ATAGTCGGAGCTGCGTTGTT 59.753 50.000 27.20 13.24 0.00 2.83
3063 4756 0.032952 TAGTCGGAGCTGCGTTGTTT 59.967 50.000 27.20 11.56 0.00 2.83
3064 4757 1.082756 GTCGGAGCTGCGTTGTTTG 60.083 57.895 27.20 0.00 0.00 2.93
3065 4758 2.250939 TCGGAGCTGCGTTGTTTGG 61.251 57.895 27.20 0.00 0.00 3.28
3066 4759 2.050077 GGAGCTGCGTTGTTTGGC 60.050 61.111 0.00 0.00 0.00 4.52
3067 4760 2.050077 GAGCTGCGTTGTTTGGCC 60.050 61.111 0.00 0.00 0.00 5.36
3068 4761 3.879351 GAGCTGCGTTGTTTGGCCG 62.879 63.158 0.00 0.00 0.00 6.13
3084 4777 3.951332 CGCAGGTCGACATGTTGT 58.049 55.556 28.62 0.00 41.67 3.32
3085 4778 1.781555 CGCAGGTCGACATGTTGTC 59.218 57.895 28.62 12.91 43.65 3.18
3096 4789 2.872245 GACATGTTGTCGATATGGGTGG 59.128 50.000 0.00 0.00 37.67 4.61
3097 4790 2.221169 CATGTTGTCGATATGGGTGGG 58.779 52.381 0.00 0.00 0.00 4.61
3098 4791 0.107410 TGTTGTCGATATGGGTGGGC 60.107 55.000 0.00 0.00 0.00 5.36
3099 4792 0.180406 GTTGTCGATATGGGTGGGCT 59.820 55.000 0.00 0.00 0.00 5.19
3100 4793 0.916086 TTGTCGATATGGGTGGGCTT 59.084 50.000 0.00 0.00 0.00 4.35
3101 4794 0.916086 TGTCGATATGGGTGGGCTTT 59.084 50.000 0.00 0.00 0.00 3.51
3102 4795 1.308998 GTCGATATGGGTGGGCTTTG 58.691 55.000 0.00 0.00 0.00 2.77
3103 4796 0.465460 TCGATATGGGTGGGCTTTGC 60.465 55.000 0.00 0.00 0.00 3.68
3113 4806 3.042560 GGCTTTGCCCTGTGTGTC 58.957 61.111 0.00 0.00 44.06 3.67
3114 4807 1.529244 GGCTTTGCCCTGTGTGTCT 60.529 57.895 0.00 0.00 44.06 3.41
3115 4808 1.518903 GGCTTTGCCCTGTGTGTCTC 61.519 60.000 0.00 0.00 44.06 3.36
3116 4809 0.819259 GCTTTGCCCTGTGTGTCTCA 60.819 55.000 0.00 0.00 0.00 3.27
3117 4810 1.233019 CTTTGCCCTGTGTGTCTCAG 58.767 55.000 0.00 0.00 0.00 3.35
3118 4811 0.546122 TTTGCCCTGTGTGTCTCAGT 59.454 50.000 0.00 0.00 0.00 3.41
3119 4812 0.546122 TTGCCCTGTGTGTCTCAGTT 59.454 50.000 0.00 0.00 0.00 3.16
3120 4813 0.546122 TGCCCTGTGTGTCTCAGTTT 59.454 50.000 0.00 0.00 0.00 2.66
3121 4814 1.765904 TGCCCTGTGTGTCTCAGTTTA 59.234 47.619 0.00 0.00 0.00 2.01
3122 4815 2.371841 TGCCCTGTGTGTCTCAGTTTAT 59.628 45.455 0.00 0.00 0.00 1.40
3123 4816 2.744202 GCCCTGTGTGTCTCAGTTTATG 59.256 50.000 0.00 0.00 0.00 1.90
3124 4817 3.338249 CCCTGTGTGTCTCAGTTTATGG 58.662 50.000 0.00 0.00 0.00 2.74
3125 4818 3.338249 CCTGTGTGTCTCAGTTTATGGG 58.662 50.000 0.00 0.00 0.00 4.00
3126 4819 3.007940 CCTGTGTGTCTCAGTTTATGGGA 59.992 47.826 0.00 0.00 35.43 4.37
3127 4820 4.248859 CTGTGTGTCTCAGTTTATGGGAG 58.751 47.826 0.00 0.00 39.81 4.30
3128 4821 3.646162 TGTGTGTCTCAGTTTATGGGAGT 59.354 43.478 0.00 0.00 39.81 3.85
3129 4822 3.997021 GTGTGTCTCAGTTTATGGGAGTG 59.003 47.826 0.00 0.00 39.81 3.51
3130 4823 3.007940 TGTGTCTCAGTTTATGGGAGTGG 59.992 47.826 0.00 0.00 39.81 4.00
3131 4824 2.571653 TGTCTCAGTTTATGGGAGTGGG 59.428 50.000 0.00 0.00 39.81 4.61
3132 4825 1.559682 TCTCAGTTTATGGGAGTGGGC 59.440 52.381 0.00 0.00 31.63 5.36
3133 4826 1.561542 CTCAGTTTATGGGAGTGGGCT 59.438 52.381 0.00 0.00 0.00 5.19
3134 4827 1.992557 TCAGTTTATGGGAGTGGGCTT 59.007 47.619 0.00 0.00 0.00 4.35
3135 4828 2.094675 CAGTTTATGGGAGTGGGCTTG 58.905 52.381 0.00 0.00 0.00 4.01
3136 4829 1.005924 AGTTTATGGGAGTGGGCTTGG 59.994 52.381 0.00 0.00 0.00 3.61
3137 4830 0.324275 TTTATGGGAGTGGGCTTGGC 60.324 55.000 0.00 0.00 0.00 4.52
3147 4840 3.549730 GGCTTGGCCCTTGTTGTT 58.450 55.556 0.00 0.00 44.06 2.83
3148 4841 1.367471 GGCTTGGCCCTTGTTGTTC 59.633 57.895 0.00 0.00 44.06 3.18
3149 4842 1.367471 GCTTGGCCCTTGTTGTTCC 59.633 57.895 0.00 0.00 0.00 3.62
3150 4843 1.659794 CTTGGCCCTTGTTGTTCCG 59.340 57.895 0.00 0.00 0.00 4.30
3151 4844 1.805428 CTTGGCCCTTGTTGTTCCGG 61.805 60.000 0.00 0.00 0.00 5.14
3152 4845 2.203437 GGCCCTTGTTGTTCCGGT 60.203 61.111 0.00 0.00 0.00 5.28
3153 4846 1.830847 GGCCCTTGTTGTTCCGGTT 60.831 57.895 0.00 0.00 0.00 4.44
3154 4847 1.396607 GGCCCTTGTTGTTCCGGTTT 61.397 55.000 0.00 0.00 0.00 3.27
3155 4848 0.462375 GCCCTTGTTGTTCCGGTTTT 59.538 50.000 0.00 0.00 0.00 2.43
3156 4849 1.134640 GCCCTTGTTGTTCCGGTTTTT 60.135 47.619 0.00 0.00 0.00 1.94
3157 4850 2.545731 CCCTTGTTGTTCCGGTTTTTG 58.454 47.619 0.00 0.00 0.00 2.44
3158 4851 2.093921 CCCTTGTTGTTCCGGTTTTTGT 60.094 45.455 0.00 0.00 0.00 2.83
3159 4852 3.183754 CCTTGTTGTTCCGGTTTTTGTC 58.816 45.455 0.00 0.00 0.00 3.18
3160 4853 2.943449 TGTTGTTCCGGTTTTTGTCC 57.057 45.000 0.00 0.00 0.00 4.02
3161 4854 1.132643 TGTTGTTCCGGTTTTTGTCCG 59.867 47.619 0.00 0.00 46.49 4.79
3168 4861 1.842720 CGGTTTTTGTCCGGTTTTCC 58.157 50.000 0.00 0.00 43.68 3.13
3182 4875 4.100707 GGTTTTCCGTAATTAACTGGGC 57.899 45.455 0.00 0.00 0.00 5.36
3183 4876 3.506844 GGTTTTCCGTAATTAACTGGGCA 59.493 43.478 0.00 0.00 0.00 5.36
3184 4877 4.022155 GGTTTTCCGTAATTAACTGGGCAA 60.022 41.667 0.00 0.00 0.00 4.52
3185 4878 5.336929 GGTTTTCCGTAATTAACTGGGCAAT 60.337 40.000 0.00 0.00 0.00 3.56
3186 4879 5.986501 TTTCCGTAATTAACTGGGCAATT 57.013 34.783 0.00 0.00 0.00 2.32
3187 4880 5.570234 TTCCGTAATTAACTGGGCAATTC 57.430 39.130 0.00 0.00 0.00 2.17
3188 4881 4.850680 TCCGTAATTAACTGGGCAATTCT 58.149 39.130 0.00 0.00 0.00 2.40
3189 4882 4.879545 TCCGTAATTAACTGGGCAATTCTC 59.120 41.667 0.00 0.00 0.00 2.87
3190 4883 4.881850 CCGTAATTAACTGGGCAATTCTCT 59.118 41.667 0.00 0.00 0.00 3.10
3191 4884 5.357032 CCGTAATTAACTGGGCAATTCTCTT 59.643 40.000 0.00 0.00 0.00 2.85
3192 4885 6.458342 CCGTAATTAACTGGGCAATTCTCTTC 60.458 42.308 0.00 0.00 0.00 2.87
3193 4886 6.316390 CGTAATTAACTGGGCAATTCTCTTCT 59.684 38.462 0.00 0.00 0.00 2.85
3194 4887 6.521151 AATTAACTGGGCAATTCTCTTCTG 57.479 37.500 0.00 0.00 0.00 3.02
3195 4888 1.831580 ACTGGGCAATTCTCTTCTGC 58.168 50.000 0.00 0.00 35.28 4.26
3196 4889 1.353694 ACTGGGCAATTCTCTTCTGCT 59.646 47.619 0.00 0.00 36.32 4.24
3197 4890 2.224967 ACTGGGCAATTCTCTTCTGCTT 60.225 45.455 0.00 0.00 36.32 3.91
3198 4891 3.009473 ACTGGGCAATTCTCTTCTGCTTA 59.991 43.478 0.00 0.00 36.32 3.09
3199 4892 4.205587 CTGGGCAATTCTCTTCTGCTTAT 58.794 43.478 0.00 0.00 36.32 1.73
3200 4893 4.603131 TGGGCAATTCTCTTCTGCTTATT 58.397 39.130 0.00 0.00 36.32 1.40
3201 4894 5.018809 TGGGCAATTCTCTTCTGCTTATTT 58.981 37.500 0.00 0.00 36.32 1.40
3202 4895 6.186957 TGGGCAATTCTCTTCTGCTTATTTA 58.813 36.000 0.00 0.00 36.32 1.40
3203 4896 6.663093 TGGGCAATTCTCTTCTGCTTATTTAA 59.337 34.615 0.00 0.00 36.32 1.52
3204 4897 7.342799 TGGGCAATTCTCTTCTGCTTATTTAAT 59.657 33.333 0.00 0.00 36.32 1.40
3205 4898 8.850156 GGGCAATTCTCTTCTGCTTATTTAATA 58.150 33.333 0.00 0.00 36.32 0.98
3206 4899 9.890352 GGCAATTCTCTTCTGCTTATTTAATAG 57.110 33.333 0.00 0.00 36.32 1.73
3213 4906 8.839310 TCTTCTGCTTATTTAATAGATGAGGC 57.161 34.615 0.00 0.00 0.00 4.70
3214 4907 8.432013 TCTTCTGCTTATTTAATAGATGAGGCA 58.568 33.333 0.00 0.00 0.00 4.75
3215 4908 8.978874 TTCTGCTTATTTAATAGATGAGGCAA 57.021 30.769 0.00 0.00 0.00 4.52
3216 4909 9.578576 TTCTGCTTATTTAATAGATGAGGCAAT 57.421 29.630 0.00 0.00 0.00 3.56
3217 4910 9.224267 TCTGCTTATTTAATAGATGAGGCAATC 57.776 33.333 0.00 0.00 0.00 2.67
3218 4911 9.228949 CTGCTTATTTAATAGATGAGGCAATCT 57.771 33.333 7.70 7.70 40.12 2.40
3219 4912 9.578576 TGCTTATTTAATAGATGAGGCAATCTT 57.421 29.630 7.86 0.00 37.98 2.40
3233 4926 3.641437 CAATCTTTGCCTCCGTTTCAA 57.359 42.857 0.00 0.00 0.00 2.69
3234 4927 3.976169 CAATCTTTGCCTCCGTTTCAAA 58.024 40.909 0.00 0.00 0.00 2.69
3235 4928 4.367450 CAATCTTTGCCTCCGTTTCAAAA 58.633 39.130 0.00 0.00 30.47 2.44
3236 4929 4.664150 ATCTTTGCCTCCGTTTCAAAAA 57.336 36.364 0.00 0.00 30.47 1.94
3289 4982 7.538678 CAGTAGCTTTGCTTATAAAACTGTTGG 59.461 37.037 0.00 0.00 40.44 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
187 188 9.210329 TGGAATCATGAACATTCTTCAAATTTG 57.790 29.630 12.15 12.15 31.82 2.32
342 353 3.398954 TGCAAACTCACGAACAACTTC 57.601 42.857 0.00 0.00 0.00 3.01
496 511 1.341089 CCAACTAGCTCCCCTTTTCCC 60.341 57.143 0.00 0.00 0.00 3.97
529 544 0.178981 AACTGTGGTGCTGCTCCATT 60.179 50.000 24.39 13.31 37.30 3.16
596 611 6.455690 ACCCCAAATAGAGAGAAGAACTTT 57.544 37.500 0.00 0.00 0.00 2.66
611 626 4.676109 TGAGAATGTCATCAACCCCAAAT 58.324 39.130 0.00 0.00 0.00 2.32
636 651 2.749800 GCCACTGGATATTCCACCTTCC 60.750 54.545 0.00 0.00 42.67 3.46
637 652 2.576615 GCCACTGGATATTCCACCTTC 58.423 52.381 0.00 0.00 42.67 3.46
700 717 5.452302 CAGCGATAATGAAATTTCAACGACC 59.548 40.000 23.91 14.07 41.13 4.79
708 725 9.674824 GATCAATCTTCAGCGATAATGAAATTT 57.325 29.630 0.00 0.00 37.87 1.82
825 844 3.394674 TTGTTTGATGGTCTGCGAGTA 57.605 42.857 0.00 0.00 0.00 2.59
911 930 1.302993 GGTTAGCGGCAGGGTTTCA 60.303 57.895 1.45 0.00 0.00 2.69
912 931 2.044555 GGGTTAGCGGCAGGGTTTC 61.045 63.158 1.45 0.00 0.00 2.78
920 2148 1.451567 GGAGAAAGGGGTTAGCGGC 60.452 63.158 0.00 0.00 0.00 6.53
921 2149 0.546598 ATGGAGAAAGGGGTTAGCGG 59.453 55.000 0.00 0.00 0.00 5.52
939 2167 2.993863 AGGGGTTTGAAGGTCCAACTAT 59.006 45.455 0.00 0.00 0.00 2.12
943 2171 0.187361 CCAGGGGTTTGAAGGTCCAA 59.813 55.000 0.00 0.00 0.00 3.53
944 2172 0.699577 TCCAGGGGTTTGAAGGTCCA 60.700 55.000 0.00 0.00 0.00 4.02
945 2173 0.704664 ATCCAGGGGTTTGAAGGTCC 59.295 55.000 0.00 0.00 0.00 4.46
946 2174 2.171003 CAATCCAGGGGTTTGAAGGTC 58.829 52.381 0.74 0.00 35.17 3.85
949 2180 0.527565 CGCAATCCAGGGGTTTGAAG 59.472 55.000 9.62 0.67 35.17 3.02
956 2187 1.601759 CATAGCCGCAATCCAGGGG 60.602 63.158 0.00 0.00 43.92 4.79
959 2190 1.224069 CGTCCATAGCCGCAATCCAG 61.224 60.000 0.00 0.00 0.00 3.86
961 2192 0.320771 ATCGTCCATAGCCGCAATCC 60.321 55.000 0.00 0.00 0.00 3.01
969 2200 3.589988 CCCATAGTCAATCGTCCATAGC 58.410 50.000 0.00 0.00 0.00 2.97
978 2209 2.354821 GTGTTTCCGCCCATAGTCAATC 59.645 50.000 0.00 0.00 0.00 2.67
979 2210 2.290641 TGTGTTTCCGCCCATAGTCAAT 60.291 45.455 0.00 0.00 0.00 2.57
981 2212 0.687920 TGTGTTTCCGCCCATAGTCA 59.312 50.000 0.00 0.00 0.00 3.41
983 2214 1.280710 TCATGTGTTTCCGCCCATAGT 59.719 47.619 0.00 0.00 0.00 2.12
987 2218 2.498644 TATTCATGTGTTTCCGCCCA 57.501 45.000 0.00 0.00 0.00 5.36
996 2227 9.515020 CGCCATAATAAACTTTTATTCATGTGT 57.485 29.630 9.69 0.00 41.17 3.72
1013 2244 1.696884 TCATGTGCCTCCGCCATAATA 59.303 47.619 0.00 0.00 0.00 0.98
1046 2277 4.020218 TGATCTGATCTGGTTCGACCTTTT 60.020 41.667 17.82 0.00 39.58 2.27
1047 2278 3.515502 TGATCTGATCTGGTTCGACCTTT 59.484 43.478 17.82 0.00 39.58 3.11
1048 2279 3.099905 TGATCTGATCTGGTTCGACCTT 58.900 45.455 17.82 0.00 39.58 3.50
1049 2280 2.692557 CTGATCTGATCTGGTTCGACCT 59.307 50.000 17.82 0.00 39.58 3.85
1115 2546 3.607661 GGAGGATCTCGACGGGGC 61.608 72.222 0.00 0.00 33.73 5.80
1116 2547 1.899534 GAGGAGGATCTCGACGGGG 60.900 68.421 0.00 0.00 33.73 5.73
1117 2548 1.899534 GGAGGAGGATCTCGACGGG 60.900 68.421 0.00 0.00 34.74 5.28
1280 2861 3.129502 TGGCGACGAGGTAGTCCG 61.130 66.667 0.00 0.00 37.85 4.79
1356 2937 2.286121 TCGGGCTTGGAAGGGGAT 60.286 61.111 0.00 0.00 0.00 3.85
1377 2958 3.760035 GCGAGGAAGGCGAGGACA 61.760 66.667 0.00 0.00 0.00 4.02
1458 3039 1.896660 GGTTTTCTCCACGCTGGCA 60.897 57.895 0.00 0.00 37.47 4.92
1472 3053 2.198304 GACGATGGGGCTCAGGGTTT 62.198 60.000 0.00 0.00 0.00 3.27
1486 3067 3.823330 GGTGAGCCCGACGACGAT 61.823 66.667 9.28 0.00 42.66 3.73
1509 3090 3.573772 CTCAGAACGCGACAGGCCA 62.574 63.158 15.93 0.00 38.94 5.36
1533 3114 3.753434 CTGAGCGAGACCAGGCGT 61.753 66.667 0.00 0.00 0.00 5.68
1627 3209 0.106469 TACCTGAGAGCAGCGAGGAT 60.106 55.000 9.16 0.00 40.91 3.24
1633 3215 2.202810 GCCGTACCTGAGAGCAGC 60.203 66.667 0.00 0.00 40.91 5.25
1817 3399 2.872408 CCACAGGGCACACCAATAG 58.128 57.895 0.00 0.00 43.89 1.73
1911 3493 4.137543 ACCACCTGAACATCTTCTTCAAC 58.862 43.478 0.00 0.00 0.00 3.18
2109 3691 9.706691 TCCTTGAGAAACTTTACAACATAGTAG 57.293 33.333 0.00 0.00 0.00 2.57
2428 4014 4.345288 CACCATCAAATCAGCATGTAACG 58.655 43.478 0.00 0.00 37.40 3.18
2475 4064 6.988580 TGAGCATACCAATACTCTCAAATCAG 59.011 38.462 0.00 0.00 0.00 2.90
2513 4102 9.243637 CAGTAGTATGATGCTTTCTTCTCTAAC 57.756 37.037 0.00 0.00 0.00 2.34
2531 4120 6.437793 ACCTTAGAGTTCACAAGCAGTAGTAT 59.562 38.462 0.00 0.00 0.00 2.12
2543 4153 4.202121 TGTCAGTGTGACCTTAGAGTTCAC 60.202 45.833 4.65 0.00 46.40 3.18
2544 4154 3.958147 TGTCAGTGTGACCTTAGAGTTCA 59.042 43.478 4.65 0.00 46.40 3.18
2545 4155 4.585955 TGTCAGTGTGACCTTAGAGTTC 57.414 45.455 4.65 0.00 46.40 3.01
2546 4156 5.538813 TGTATGTCAGTGTGACCTTAGAGTT 59.461 40.000 4.65 0.00 46.40 3.01
2547 4157 5.077564 TGTATGTCAGTGTGACCTTAGAGT 58.922 41.667 4.65 0.00 46.40 3.24
2548 4158 5.644977 TGTATGTCAGTGTGACCTTAGAG 57.355 43.478 4.65 0.00 46.40 2.43
2549 4159 7.898014 ATATGTATGTCAGTGTGACCTTAGA 57.102 36.000 4.65 0.00 46.40 2.10
2550 4160 7.439356 CCAATATGTATGTCAGTGTGACCTTAG 59.561 40.741 4.65 0.00 46.40 2.18
2551 4161 7.125053 TCCAATATGTATGTCAGTGTGACCTTA 59.875 37.037 4.65 0.00 46.40 2.69
2552 4162 6.070251 TCCAATATGTATGTCAGTGTGACCTT 60.070 38.462 4.65 0.00 46.40 3.50
2553 4163 5.425217 TCCAATATGTATGTCAGTGTGACCT 59.575 40.000 4.65 0.00 46.40 3.85
2554 4164 5.670485 TCCAATATGTATGTCAGTGTGACC 58.330 41.667 4.65 0.00 46.40 4.02
2556 4166 9.325198 GTAAATCCAATATGTATGTCAGTGTGA 57.675 33.333 0.00 0.00 0.00 3.58
2557 4167 8.275632 CGTAAATCCAATATGTATGTCAGTGTG 58.724 37.037 0.00 0.00 0.00 3.82
2558 4168 7.441157 CCGTAAATCCAATATGTATGTCAGTGT 59.559 37.037 0.00 0.00 0.00 3.55
2559 4169 7.095229 CCCGTAAATCCAATATGTATGTCAGTG 60.095 40.741 0.00 0.00 0.00 3.66
2560 4170 6.934645 CCCGTAAATCCAATATGTATGTCAGT 59.065 38.462 0.00 0.00 0.00 3.41
2561 4171 7.158697 TCCCGTAAATCCAATATGTATGTCAG 58.841 38.462 0.00 0.00 0.00 3.51
2713 4406 4.636648 ACGCCATCCATTTCAAACGTAATA 59.363 37.500 0.00 0.00 0.00 0.98
2748 4441 2.787473 TAGCTCCATGAAACCACTGG 57.213 50.000 0.00 0.00 0.00 4.00
2787 4480 6.820656 TGCTCTCACTCTCTTTAATTCCATTC 59.179 38.462 0.00 0.00 0.00 2.67
2942 4635 8.738645 ATAAACATACTTCCATCCAGAGAAAC 57.261 34.615 0.00 0.00 0.00 2.78
3038 4731 0.179137 CGCAGCTCCGACTATGAACA 60.179 55.000 0.00 0.00 0.00 3.18
3045 4738 1.227556 AAACAACGCAGCTCCGACT 60.228 52.632 2.80 0.00 0.00 4.18
3046 4739 1.082756 CAAACAACGCAGCTCCGAC 60.083 57.895 2.80 0.00 0.00 4.79
3047 4740 2.250939 CCAAACAACGCAGCTCCGA 61.251 57.895 2.80 0.00 0.00 4.55
3048 4741 2.252260 CCAAACAACGCAGCTCCG 59.748 61.111 0.00 0.00 0.00 4.63
3049 4742 2.050077 GCCAAACAACGCAGCTCC 60.050 61.111 0.00 0.00 0.00 4.70
3050 4743 2.050077 GGCCAAACAACGCAGCTC 60.050 61.111 0.00 0.00 0.00 4.09
3051 4744 3.964875 CGGCCAAACAACGCAGCT 61.965 61.111 2.24 0.00 0.00 4.24
3056 4749 3.536498 GACCTGCGGCCAAACAACG 62.536 63.158 2.24 0.00 0.00 4.10
3057 4750 2.335011 GACCTGCGGCCAAACAAC 59.665 61.111 2.24 0.00 0.00 3.32
3058 4751 3.283684 CGACCTGCGGCCAAACAA 61.284 61.111 2.24 0.00 36.03 2.83
3059 4752 4.243008 TCGACCTGCGGCCAAACA 62.243 61.111 2.24 0.00 41.33 2.83
3060 4753 3.723348 GTCGACCTGCGGCCAAAC 61.723 66.667 3.51 0.00 39.08 2.93
3061 4754 3.545124 ATGTCGACCTGCGGCCAAA 62.545 57.895 14.12 0.00 45.94 3.28
3062 4755 4.015406 ATGTCGACCTGCGGCCAA 62.015 61.111 14.12 0.00 45.94 4.52
3063 4756 4.758251 CATGTCGACCTGCGGCCA 62.758 66.667 14.12 0.00 45.94 5.36
3064 4757 4.760047 ACATGTCGACCTGCGGCC 62.760 66.667 19.18 0.00 45.94 6.13
3065 4758 2.742372 AACATGTCGACCTGCGGC 60.742 61.111 19.18 0.00 46.88 6.53
3066 4759 1.626654 GACAACATGTCGACCTGCGG 61.627 60.000 19.18 13.95 37.67 5.69
3067 4760 1.781555 GACAACATGTCGACCTGCG 59.218 57.895 19.18 13.45 37.67 5.18
3075 4768 2.872245 CCACCCATATCGACAACATGTC 59.128 50.000 0.00 0.39 43.65 3.06
3076 4769 2.421388 CCCACCCATATCGACAACATGT 60.421 50.000 0.00 0.00 0.00 3.21
3077 4770 2.221169 CCCACCCATATCGACAACATG 58.779 52.381 0.00 0.00 0.00 3.21
3078 4771 1.476833 GCCCACCCATATCGACAACAT 60.477 52.381 0.00 0.00 0.00 2.71
3079 4772 0.107410 GCCCACCCATATCGACAACA 60.107 55.000 0.00 0.00 0.00 3.33
3080 4773 0.180406 AGCCCACCCATATCGACAAC 59.820 55.000 0.00 0.00 0.00 3.32
3081 4774 0.916086 AAGCCCACCCATATCGACAA 59.084 50.000 0.00 0.00 0.00 3.18
3082 4775 0.916086 AAAGCCCACCCATATCGACA 59.084 50.000 0.00 0.00 0.00 4.35
3083 4776 1.308998 CAAAGCCCACCCATATCGAC 58.691 55.000 0.00 0.00 0.00 4.20
3084 4777 0.465460 GCAAAGCCCACCCATATCGA 60.465 55.000 0.00 0.00 0.00 3.59
3085 4778 1.455383 GGCAAAGCCCACCCATATCG 61.455 60.000 0.00 0.00 44.06 2.92
3086 4779 2.429927 GGCAAAGCCCACCCATATC 58.570 57.895 0.00 0.00 44.06 1.63
3087 4780 4.705482 GGCAAAGCCCACCCATAT 57.295 55.556 0.00 0.00 44.06 1.78
3097 4790 0.819259 TGAGACACACAGGGCAAAGC 60.819 55.000 0.00 0.00 0.00 3.51
3098 4791 1.233019 CTGAGACACACAGGGCAAAG 58.767 55.000 0.00 0.00 0.00 2.77
3099 4792 0.546122 ACTGAGACACACAGGGCAAA 59.454 50.000 0.00 0.00 39.38 3.68
3100 4793 0.546122 AACTGAGACACACAGGGCAA 59.454 50.000 0.00 0.00 39.38 4.52
3101 4794 0.546122 AAACTGAGACACACAGGGCA 59.454 50.000 0.00 0.00 39.38 5.36
3102 4795 2.543777 TAAACTGAGACACACAGGGC 57.456 50.000 0.00 0.00 39.38 5.19
3103 4796 3.338249 CCATAAACTGAGACACACAGGG 58.662 50.000 0.00 0.00 39.38 4.45
3104 4797 3.007940 TCCCATAAACTGAGACACACAGG 59.992 47.826 0.00 0.00 39.38 4.00
3105 4798 4.248859 CTCCCATAAACTGAGACACACAG 58.751 47.826 0.00 0.00 40.68 3.66
3106 4799 3.646162 ACTCCCATAAACTGAGACACACA 59.354 43.478 0.00 0.00 0.00 3.72
3107 4800 3.997021 CACTCCCATAAACTGAGACACAC 59.003 47.826 0.00 0.00 0.00 3.82
3108 4801 3.007940 CCACTCCCATAAACTGAGACACA 59.992 47.826 0.00 0.00 0.00 3.72
3109 4802 3.600388 CCACTCCCATAAACTGAGACAC 58.400 50.000 0.00 0.00 0.00 3.67
3110 4803 2.571653 CCCACTCCCATAAACTGAGACA 59.428 50.000 0.00 0.00 0.00 3.41
3111 4804 2.681097 GCCCACTCCCATAAACTGAGAC 60.681 54.545 0.00 0.00 0.00 3.36
3112 4805 1.559682 GCCCACTCCCATAAACTGAGA 59.440 52.381 0.00 0.00 0.00 3.27
3113 4806 1.561542 AGCCCACTCCCATAAACTGAG 59.438 52.381 0.00 0.00 0.00 3.35
3114 4807 1.668826 AGCCCACTCCCATAAACTGA 58.331 50.000 0.00 0.00 0.00 3.41
3115 4808 2.094675 CAAGCCCACTCCCATAAACTG 58.905 52.381 0.00 0.00 0.00 3.16
3116 4809 1.005924 CCAAGCCCACTCCCATAAACT 59.994 52.381 0.00 0.00 0.00 2.66
3117 4810 1.474330 CCAAGCCCACTCCCATAAAC 58.526 55.000 0.00 0.00 0.00 2.01
3118 4811 0.324275 GCCAAGCCCACTCCCATAAA 60.324 55.000 0.00 0.00 0.00 1.40
3119 4812 1.306296 GCCAAGCCCACTCCCATAA 59.694 57.895 0.00 0.00 0.00 1.90
3120 4813 2.689691 GGCCAAGCCCACTCCCATA 61.690 63.158 0.00 0.00 44.06 2.74
3121 4814 4.066139 GGCCAAGCCCACTCCCAT 62.066 66.667 0.00 0.00 44.06 4.00
3131 4824 1.367471 GGAACAACAAGGGCCAAGC 59.633 57.895 6.18 0.00 0.00 4.01
3132 4825 1.659794 CGGAACAACAAGGGCCAAG 59.340 57.895 6.18 0.00 0.00 3.61
3133 4826 1.830408 CCGGAACAACAAGGGCCAA 60.830 57.895 6.18 0.00 0.00 4.52
3134 4827 2.203422 CCGGAACAACAAGGGCCA 60.203 61.111 6.18 0.00 0.00 5.36
3135 4828 1.396607 AAACCGGAACAACAAGGGCC 61.397 55.000 9.46 0.00 0.00 5.80
3136 4829 0.462375 AAAACCGGAACAACAAGGGC 59.538 50.000 9.46 0.00 0.00 5.19
3137 4830 2.093921 ACAAAAACCGGAACAACAAGGG 60.094 45.455 9.46 0.00 0.00 3.95
3138 4831 3.183754 GACAAAAACCGGAACAACAAGG 58.816 45.455 9.46 0.00 0.00 3.61
3139 4832 3.183754 GGACAAAAACCGGAACAACAAG 58.816 45.455 9.46 0.00 0.00 3.16
3140 4833 2.415625 CGGACAAAAACCGGAACAACAA 60.416 45.455 9.46 0.00 45.65 2.83
3141 4834 1.132643 CGGACAAAAACCGGAACAACA 59.867 47.619 9.46 0.00 45.65 3.33
3142 4835 1.830086 CGGACAAAAACCGGAACAAC 58.170 50.000 9.46 0.00 45.65 3.32
3150 4843 1.134753 ACGGAAAACCGGACAAAAACC 59.865 47.619 9.46 0.90 37.53 3.27
3151 4844 2.565210 ACGGAAAACCGGACAAAAAC 57.435 45.000 9.46 0.00 37.53 2.43
3152 4845 4.915158 ATTACGGAAAACCGGACAAAAA 57.085 36.364 9.46 0.00 37.53 1.94
3153 4846 4.915158 AATTACGGAAAACCGGACAAAA 57.085 36.364 9.46 0.00 37.53 2.44
3154 4847 5.530543 AGTTAATTACGGAAAACCGGACAAA 59.469 36.000 9.46 2.84 37.53 2.83
3155 4848 5.049543 CAGTTAATTACGGAAAACCGGACAA 60.050 40.000 9.46 4.72 37.53 3.18
3156 4849 4.451774 CAGTTAATTACGGAAAACCGGACA 59.548 41.667 9.46 0.00 37.53 4.02
3157 4850 4.142838 CCAGTTAATTACGGAAAACCGGAC 60.143 45.833 9.46 0.00 37.53 4.79
3158 4851 4.002316 CCAGTTAATTACGGAAAACCGGA 58.998 43.478 9.46 1.13 37.53 5.14
3159 4852 3.127376 CCCAGTTAATTACGGAAAACCGG 59.873 47.826 13.05 0.00 37.53 5.28
3160 4853 3.426560 GCCCAGTTAATTACGGAAAACCG 60.427 47.826 7.12 7.12 39.31 4.44
3161 4854 3.506844 TGCCCAGTTAATTACGGAAAACC 59.493 43.478 0.00 0.00 0.00 3.27
3162 4855 4.769859 TGCCCAGTTAATTACGGAAAAC 57.230 40.909 0.00 0.00 0.00 2.43
3163 4856 5.986501 ATTGCCCAGTTAATTACGGAAAA 57.013 34.783 0.00 0.00 0.00 2.29
3164 4857 5.712917 AGAATTGCCCAGTTAATTACGGAAA 59.287 36.000 0.00 0.00 0.00 3.13
3165 4858 5.258051 AGAATTGCCCAGTTAATTACGGAA 58.742 37.500 0.00 0.00 0.00 4.30
3166 4859 4.850680 AGAATTGCCCAGTTAATTACGGA 58.149 39.130 0.00 0.00 0.00 4.69
3167 4860 4.881850 AGAGAATTGCCCAGTTAATTACGG 59.118 41.667 0.00 0.00 0.00 4.02
3168 4861 6.316390 AGAAGAGAATTGCCCAGTTAATTACG 59.684 38.462 0.00 0.00 0.00 3.18
3169 4862 7.475840 CAGAAGAGAATTGCCCAGTTAATTAC 58.524 38.462 0.00 0.00 0.00 1.89
3170 4863 6.095440 GCAGAAGAGAATTGCCCAGTTAATTA 59.905 38.462 0.00 0.00 31.79 1.40
3171 4864 5.105595 GCAGAAGAGAATTGCCCAGTTAATT 60.106 40.000 0.00 0.00 31.79 1.40
3172 4865 4.400567 GCAGAAGAGAATTGCCCAGTTAAT 59.599 41.667 0.00 0.00 31.79 1.40
3173 4866 3.758554 GCAGAAGAGAATTGCCCAGTTAA 59.241 43.478 0.00 0.00 31.79 2.01
3174 4867 3.009473 AGCAGAAGAGAATTGCCCAGTTA 59.991 43.478 0.00 0.00 38.58 2.24
3175 4868 2.165998 GCAGAAGAGAATTGCCCAGTT 58.834 47.619 0.00 0.00 31.79 3.16
3176 4869 1.353694 AGCAGAAGAGAATTGCCCAGT 59.646 47.619 0.00 0.00 38.58 4.00
3177 4870 2.125773 AGCAGAAGAGAATTGCCCAG 57.874 50.000 0.00 0.00 38.58 4.45
3178 4871 2.592102 AAGCAGAAGAGAATTGCCCA 57.408 45.000 0.00 0.00 38.58 5.36
3179 4872 5.588958 AAATAAGCAGAAGAGAATTGCCC 57.411 39.130 0.00 0.00 38.58 5.36
3180 4873 9.890352 CTATTAAATAAGCAGAAGAGAATTGCC 57.110 33.333 0.00 0.00 38.58 4.52
3187 4880 8.934825 GCCTCATCTATTAAATAAGCAGAAGAG 58.065 37.037 10.14 10.14 32.10 2.85
3188 4881 8.432013 TGCCTCATCTATTAAATAAGCAGAAGA 58.568 33.333 0.00 0.00 0.00 2.87
3189 4882 8.613060 TGCCTCATCTATTAAATAAGCAGAAG 57.387 34.615 0.00 0.00 0.00 2.85
3190 4883 8.978874 TTGCCTCATCTATTAAATAAGCAGAA 57.021 30.769 0.00 0.00 0.00 3.02
3191 4884 9.224267 GATTGCCTCATCTATTAAATAAGCAGA 57.776 33.333 0.00 0.00 0.00 4.26
3192 4885 9.228949 AGATTGCCTCATCTATTAAATAAGCAG 57.771 33.333 0.00 0.00 0.00 4.24
3193 4886 9.578576 AAGATTGCCTCATCTATTAAATAAGCA 57.421 29.630 0.00 0.00 0.00 3.91
3213 4906 3.641437 TTGAAACGGAGGCAAAGATTG 57.359 42.857 0.00 0.00 0.00 2.67
3214 4907 4.664150 TTTTGAAACGGAGGCAAAGATT 57.336 36.364 0.00 0.00 33.60 2.40
3215 4908 4.664150 TTTTTGAAACGGAGGCAAAGAT 57.336 36.364 0.00 0.00 33.60 2.40
3243 4936 6.165700 ACTGCTGGATGAACAAAGATTTTT 57.834 33.333 0.00 0.00 0.00 1.94
3244 4937 5.796424 ACTGCTGGATGAACAAAGATTTT 57.204 34.783 0.00 0.00 0.00 1.82
3245 4938 5.105997 GCTACTGCTGGATGAACAAAGATTT 60.106 40.000 0.00 0.00 36.03 2.17
3246 4939 4.397417 GCTACTGCTGGATGAACAAAGATT 59.603 41.667 0.00 0.00 36.03 2.40
3247 4940 3.944015 GCTACTGCTGGATGAACAAAGAT 59.056 43.478 0.00 0.00 36.03 2.40
3248 4941 3.338249 GCTACTGCTGGATGAACAAAGA 58.662 45.455 0.00 0.00 36.03 2.52
3249 4942 3.754188 GCTACTGCTGGATGAACAAAG 57.246 47.619 0.00 0.00 36.03 2.77


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

AutoCloner maintained by Alex Coulton.