Multiple sequence alignment - TraesCS5D01G295100

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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 TraesCS5D01G295100 chr5D 100.000 3230 0 0 1 3230 393038114 393041343 0.000000e+00 5965.0
1 TraesCS5D01G295100 chr5D 98.969 291 3 0 2940 3230 167878574 167878284 3.690000e-144 521.0
2 TraesCS5D01G295100 chr5D 97.667 300 6 1 2932 3230 27268755 27268456 6.180000e-142 514.0
3 TraesCS5D01G295100 chr5D 97.651 298 7 0 2933 3230 83322506 83322803 2.220000e-141 512.0
4 TraesCS5D01G295100 chr5D 85.806 465 46 13 1639 2090 393039701 393040158 2.920000e-130 475.0
5 TraesCS5D01G295100 chr5D 85.806 465 46 13 1588 2045 393039752 393040203 2.920000e-130 475.0
6 TraesCS5D01G295100 chr5D 86.799 303 22 6 1803 2099 393039832 393040122 4.020000e-84 322.0
7 TraesCS5D01G295100 chr5D 86.799 303 22 6 1719 2009 393039916 393040212 4.020000e-84 322.0
8 TraesCS5D01G295100 chr5D 86.508 252 16 4 1842 2087 393039832 393040071 8.890000e-66 261.0
9 TraesCS5D01G295100 chr5D 86.508 252 16 4 1719 1958 393039955 393040200 8.890000e-66 261.0
10 TraesCS5D01G295100 chr5B 94.961 2302 84 12 659 2939 473111855 473114145 0.000000e+00 3579.0
11 TraesCS5D01G295100 chr5B 96.423 671 11 8 1 658 473111150 473111820 0.000000e+00 1094.0
12 TraesCS5D01G295100 chr5B 84.549 466 50 15 1639 2090 473112794 473113251 2.960000e-120 442.0
13 TraesCS5D01G295100 chr5B 83.906 466 53 14 1588 2045 473112845 473113296 2.980000e-115 425.0
14 TraesCS5D01G295100 chr5B 86.469 303 23 7 1803 2099 473112925 473113215 1.870000e-82 316.0
15 TraesCS5D01G295100 chr5B 84.158 303 30 6 1719 2009 473113009 473113305 8.830000e-71 278.0
16 TraesCS5D01G295100 chr5B 83.099 213 18 6 1881 2087 473112925 473113125 9.210000e-41 178.0
17 TraesCS5D01G295100 chr5B 100.000 35 0 0 2905 2939 681777684 681777718 7.480000e-07 65.8
18 TraesCS5D01G295100 chr5A 90.431 627 59 1 32 657 67915305 67915931 0.000000e+00 824.0
19 TraesCS5D01G295100 chr1A 89.518 477 49 1 32 507 253724183 253723707 1.280000e-168 603.0
20 TraesCS5D01G295100 chr1D 98.969 291 3 0 2940 3230 13761283 13761573 3.690000e-144 521.0
21 TraesCS5D01G295100 chr1D 98.305 295 4 1 2937 3230 139450239 139450533 1.720000e-142 516.0
22 TraesCS5D01G295100 chr1D 96.732 306 8 2 2927 3230 261540142 261539837 2.870000e-140 508.0
23 TraesCS5D01G295100 chr1D 89.091 55 4 2 2886 2938 91226544 91226490 2.080000e-07 67.6
24 TraesCS5D01G295100 chr1D 87.037 54 4 1 2886 2936 59822456 59822403 1.250000e-04 58.4
25 TraesCS5D01G295100 chr7D 97.659 299 6 1 2932 3230 148466872 148466575 2.220000e-141 512.0
26 TraesCS5D01G295100 chr7D 97.351 302 5 3 2932 3230 262100623 262100322 7.990000e-141 510.0
27 TraesCS5D01G295100 chr7D 97.297 37 0 1 2907 2942 382748214 382748178 9.680000e-06 62.1
28 TraesCS5D01G295100 chr2D 97.651 298 6 1 2933 3230 254921857 254921561 7.990000e-141 510.0
29 TraesCS5D01G295100 chr3D 88.945 398 44 0 32 429 577395785 577395388 2.900000e-135 492.0
30 TraesCS5D01G295100 chr2A 89.602 327 34 0 32 358 322544871 322545197 1.790000e-112 416.0
31 TraesCS5D01G295100 chr4A 89.937 318 32 0 32 349 583395727 583395410 8.340000e-111 411.0
32 TraesCS5D01G295100 chr7B 89.474 57 2 2 2886 2938 593056944 593057000 5.780000e-08 69.4
33 TraesCS5D01G295100 chr6B 95.238 42 1 1 2905 2946 681233026 681232986 7.480000e-07 65.8
34 TraesCS5D01G295100 chr4D 100.000 34 0 0 2907 2940 469613526 469613559 2.690000e-06 63.9


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 TraesCS5D01G295100 chr5D 393038114 393041343 3229 False 1154.428571 5965 88.318000 1 3230 7 chr5D.!!$F2 3229
1 TraesCS5D01G295100 chr5B 473111150 473114145 2995 False 901.714286 3579 87.652143 1 2939 7 chr5B.!!$F2 2938
2 TraesCS5D01G295100 chr5A 67915305 67915931 626 False 824.000000 824 90.431000 32 657 1 chr5A.!!$F1 625

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
121 122 1.208052 CTGAATCAGCCGAGGAAAGGA 59.792 52.381 0.0 0.0 0.00 3.36 F
1305 1387 0.249073 CGGACATGATCCTGGACGAC 60.249 60.000 0.0 0.0 46.69 4.34 F
1354 1436 0.742281 CAACCAGGAGCATGTCGAGG 60.742 60.000 0.0 0.0 0.00 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1334 1416 0.247460 CTCGACATGCTCCTGGTTGA 59.753 55.0 0.00 0.0 0.0 3.18 R
2218 2300 0.174389 CAGAGTACTCATGCTGCGGT 59.826 55.0 24.44 0.0 0.0 5.68 R
2950 3032 0.175760 ATCGGTGTGACTTGGGATCG 59.824 55.0 0.00 0.0 0.0 3.69 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
74 75 4.997395 TCTCTGTAGCCTGAACAAAACATC 59.003 41.667 0.00 0.00 0.00 3.06
121 122 1.208052 CTGAATCAGCCGAGGAAAGGA 59.792 52.381 0.00 0.00 0.00 3.36
260 261 3.834489 ATACATGTCCTTGAGCTCCAG 57.166 47.619 12.15 9.82 0.00 3.86
633 648 5.874810 GCACCACAAATCTCAGATACTACAA 59.125 40.000 0.00 0.00 0.00 2.41
755 804 2.450479 CTTGACGACCCCGCTTTCCT 62.450 60.000 0.00 0.00 39.95 3.36
821 873 3.008813 ACCGACTTCACACTAGTCCTAGA 59.991 47.826 8.29 0.00 39.03 2.43
837 891 4.840115 GTCCTAGACTCCTAGCTAGTCCTA 59.160 50.000 19.31 12.40 43.64 2.94
838 892 5.046807 GTCCTAGACTCCTAGCTAGTCCTAG 60.047 52.000 19.31 19.05 43.64 3.02
862 916 1.725557 GACTAGCACGGATCGGAGCA 61.726 60.000 21.26 9.16 35.24 4.26
863 917 1.299468 CTAGCACGGATCGGAGCAC 60.299 63.158 21.26 2.89 35.24 4.40
864 918 2.990674 CTAGCACGGATCGGAGCACG 62.991 65.000 21.26 10.06 46.11 5.34
866 920 4.794439 CACGGATCGGAGCACGCA 62.794 66.667 7.35 0.00 43.86 5.24
867 921 4.063967 ACGGATCGGAGCACGCAA 62.064 61.111 7.35 0.00 43.86 4.85
868 922 3.257561 CGGATCGGAGCACGCAAG 61.258 66.667 0.00 0.00 43.86 4.01
869 923 2.892425 GGATCGGAGCACGCAAGG 60.892 66.667 0.00 0.00 43.86 3.61
870 924 3.567797 GATCGGAGCACGCAAGGC 61.568 66.667 0.00 0.00 43.86 4.35
951 1023 3.533079 TAGAGGACCACCGCCACCA 62.533 63.158 0.00 0.00 41.83 4.17
1063 1142 4.493747 CCGTCCGCCTCTTCGTCC 62.494 72.222 0.00 0.00 0.00 4.79
1074 1153 4.323477 TTCGTCCAGGCCAACGGG 62.323 66.667 20.63 10.26 39.31 5.28
1090 1169 2.183555 GGCGGGTCCACTTCTACG 59.816 66.667 0.00 0.00 34.01 3.51
1134 1213 4.467084 GTGAGGGATGCGCGGGAA 62.467 66.667 8.83 0.00 0.00 3.97
1220 1302 3.854669 CGAAGATGGGGCGAGGCT 61.855 66.667 0.00 0.00 0.00 4.58
1229 1311 1.596477 GGGCGAGGCTGATCATCAC 60.596 63.158 0.00 0.00 0.00 3.06
1232 1314 0.462581 GCGAGGCTGATCATCACCAA 60.463 55.000 11.04 0.00 0.00 3.67
1284 1366 2.191641 GGCCTCATGCTGGAGTCC 59.808 66.667 0.73 0.73 40.92 3.85
1305 1387 0.249073 CGGACATGATCCTGGACGAC 60.249 60.000 0.00 0.00 46.69 4.34
1312 1394 2.022240 GATCCTGGACGACCTGCTCC 62.022 65.000 0.00 0.00 37.04 4.70
1313 1395 4.135153 CCTGGACGACCTGCTCCG 62.135 72.222 5.33 0.00 37.04 4.63
1337 1419 3.095278 GAACGAGCGACGCGTCAA 61.095 61.111 35.71 0.00 46.94 3.18
1338 1420 3.317695 GAACGAGCGACGCGTCAAC 62.318 63.158 35.71 27.00 46.94 3.18
1347 1429 2.434884 CGCGTCAACCAGGAGCAT 60.435 61.111 0.00 0.00 0.00 3.79
1351 1433 1.354337 CGTCAACCAGGAGCATGTCG 61.354 60.000 0.00 0.00 0.00 4.35
1354 1436 0.742281 CAACCAGGAGCATGTCGAGG 60.742 60.000 0.00 0.00 0.00 4.63
1384 1466 1.794800 GCAACGCGCAATTCATCATCA 60.795 47.619 5.73 0.00 41.79 3.07
1386 1468 2.178474 ACGCGCAATTCATCATCAAC 57.822 45.000 5.73 0.00 0.00 3.18
1387 1469 1.468127 ACGCGCAATTCATCATCAACA 59.532 42.857 5.73 0.00 0.00 3.33
1388 1470 2.106418 CGCGCAATTCATCATCAACAG 58.894 47.619 8.75 0.00 0.00 3.16
1451 1533 2.587194 CGCCAAGGAGATGCTCGG 60.587 66.667 0.00 0.00 0.00 4.63
1527 1609 2.266055 CAGACCCTCAAGGCGACC 59.734 66.667 0.00 0.00 40.58 4.79
1673 1755 2.280389 CGTGATCCTGGCCATCGG 60.280 66.667 5.51 4.96 0.00 4.18
1789 1871 2.444706 TGGATGAGGAGGAGGCGG 60.445 66.667 0.00 0.00 0.00 6.13
2218 2300 2.867855 GCCGGCGTGGAGGATGATA 61.868 63.158 12.58 0.00 42.00 2.15
2226 2308 1.048160 TGGAGGATGATACCGCAGCA 61.048 55.000 0.00 0.00 34.73 4.41
2258 2340 2.227089 GATGGGAGGCGAGAACACGT 62.227 60.000 0.00 0.00 35.59 4.49
2323 2405 4.808414 AGGATGTCGAGATTGAAACTCA 57.192 40.909 0.00 0.00 34.47 3.41
2430 2512 5.147330 TGGTCGTTCTTCTTGTGTGATAT 57.853 39.130 0.00 0.00 0.00 1.63
2660 2742 4.345271 TCAACTTGCATGATGATTGACG 57.655 40.909 8.26 0.00 0.00 4.35
2874 2956 3.498774 AACTTCAGCCTCAGTGACAAT 57.501 42.857 0.00 0.00 0.00 2.71
2888 2970 7.651304 CCTCAGTGACAATATTGATAGACACTC 59.349 40.741 22.16 6.93 35.62 3.51
2939 3021 2.587060 TGGGATGGAGGGAGTACATT 57.413 50.000 0.00 0.00 0.00 2.71
2940 3022 2.126882 TGGGATGGAGGGAGTACATTG 58.873 52.381 0.00 0.00 0.00 2.82
2941 3023 2.127708 GGGATGGAGGGAGTACATTGT 58.872 52.381 0.00 0.00 0.00 2.71
2942 3024 2.104963 GGGATGGAGGGAGTACATTGTC 59.895 54.545 0.00 0.00 0.00 3.18
2943 3025 2.771943 GGATGGAGGGAGTACATTGTCA 59.228 50.000 0.00 0.00 0.00 3.58
2944 3026 3.181461 GGATGGAGGGAGTACATTGTCAG 60.181 52.174 0.00 0.00 0.00 3.51
2945 3027 2.187958 TGGAGGGAGTACATTGTCAGG 58.812 52.381 0.00 0.00 0.00 3.86
2946 3028 2.225522 TGGAGGGAGTACATTGTCAGGA 60.226 50.000 0.00 0.00 0.00 3.86
2947 3029 3.041946 GGAGGGAGTACATTGTCAGGAT 58.958 50.000 0.00 0.00 0.00 3.24
2948 3030 3.070302 GGAGGGAGTACATTGTCAGGATC 59.930 52.174 0.00 0.00 0.00 3.36
2949 3031 3.041946 AGGGAGTACATTGTCAGGATCC 58.958 50.000 2.48 2.48 0.00 3.36
2950 3032 2.104963 GGGAGTACATTGTCAGGATCCC 59.895 54.545 8.55 1.09 38.51 3.85
2951 3033 2.224066 GGAGTACATTGTCAGGATCCCG 60.224 54.545 8.55 0.00 0.00 5.14
2952 3034 2.693591 GAGTACATTGTCAGGATCCCGA 59.306 50.000 8.55 0.00 0.00 5.14
2953 3035 3.309296 AGTACATTGTCAGGATCCCGAT 58.691 45.455 8.55 0.00 0.00 4.18
2954 3036 2.918712 ACATTGTCAGGATCCCGATC 57.081 50.000 8.55 0.00 37.11 3.69
2963 3045 3.688553 GATCCCGATCCCAAGTCAC 57.311 57.895 0.00 0.00 31.76 3.67
2964 3046 0.830648 GATCCCGATCCCAAGTCACA 59.169 55.000 0.00 0.00 31.76 3.58
2965 3047 0.541863 ATCCCGATCCCAAGTCACAC 59.458 55.000 0.00 0.00 0.00 3.82
2966 3048 1.078426 CCCGATCCCAAGTCACACC 60.078 63.158 0.00 0.00 0.00 4.16
2967 3049 1.447838 CCGATCCCAAGTCACACCG 60.448 63.158 0.00 0.00 0.00 4.94
2968 3050 1.589630 CGATCCCAAGTCACACCGA 59.410 57.895 0.00 0.00 0.00 4.69
2969 3051 0.175760 CGATCCCAAGTCACACCGAT 59.824 55.000 0.00 0.00 0.00 4.18
2970 3052 1.802880 CGATCCCAAGTCACACCGATC 60.803 57.143 0.00 0.00 0.00 3.69
2971 3053 1.482593 GATCCCAAGTCACACCGATCT 59.517 52.381 0.00 0.00 0.00 2.75
2972 3054 2.225382 TCCCAAGTCACACCGATCTA 57.775 50.000 0.00 0.00 0.00 1.98
2973 3055 2.100197 TCCCAAGTCACACCGATCTAG 58.900 52.381 0.00 0.00 0.00 2.43
2974 3056 1.471676 CCCAAGTCACACCGATCTAGC 60.472 57.143 0.00 0.00 0.00 3.42
2975 3057 1.471676 CCAAGTCACACCGATCTAGCC 60.472 57.143 0.00 0.00 0.00 3.93
2976 3058 1.478510 CAAGTCACACCGATCTAGCCT 59.521 52.381 0.00 0.00 0.00 4.58
2977 3059 1.107114 AGTCACACCGATCTAGCCTG 58.893 55.000 0.00 0.00 0.00 4.85
2978 3060 0.818296 GTCACACCGATCTAGCCTGT 59.182 55.000 0.00 0.00 0.00 4.00
2979 3061 2.022195 GTCACACCGATCTAGCCTGTA 58.978 52.381 0.00 0.00 0.00 2.74
2980 3062 2.426024 GTCACACCGATCTAGCCTGTAA 59.574 50.000 0.00 0.00 0.00 2.41
2981 3063 2.426024 TCACACCGATCTAGCCTGTAAC 59.574 50.000 0.00 0.00 0.00 2.50
2982 3064 2.165641 CACACCGATCTAGCCTGTAACA 59.834 50.000 0.00 0.00 0.00 2.41
2983 3065 2.165845 ACACCGATCTAGCCTGTAACAC 59.834 50.000 0.00 0.00 0.00 3.32
2984 3066 1.755380 ACCGATCTAGCCTGTAACACC 59.245 52.381 0.00 0.00 0.00 4.16
2985 3067 2.032620 CCGATCTAGCCTGTAACACCT 58.967 52.381 0.00 0.00 0.00 4.00
2986 3068 2.034812 CCGATCTAGCCTGTAACACCTC 59.965 54.545 0.00 0.00 0.00 3.85
2987 3069 2.688446 CGATCTAGCCTGTAACACCTCA 59.312 50.000 0.00 0.00 0.00 3.86
2988 3070 3.319405 CGATCTAGCCTGTAACACCTCAT 59.681 47.826 0.00 0.00 0.00 2.90
2989 3071 4.519350 CGATCTAGCCTGTAACACCTCATA 59.481 45.833 0.00 0.00 0.00 2.15
2990 3072 5.184096 CGATCTAGCCTGTAACACCTCATAT 59.816 44.000 0.00 0.00 0.00 1.78
2991 3073 6.597832 ATCTAGCCTGTAACACCTCATATC 57.402 41.667 0.00 0.00 0.00 1.63
2992 3074 5.454966 TCTAGCCTGTAACACCTCATATCA 58.545 41.667 0.00 0.00 0.00 2.15
2993 3075 4.408182 AGCCTGTAACACCTCATATCAC 57.592 45.455 0.00 0.00 0.00 3.06
2994 3076 3.774766 AGCCTGTAACACCTCATATCACA 59.225 43.478 0.00 0.00 0.00 3.58
2995 3077 4.410228 AGCCTGTAACACCTCATATCACAT 59.590 41.667 0.00 0.00 0.00 3.21
2996 3078 5.104360 AGCCTGTAACACCTCATATCACATT 60.104 40.000 0.00 0.00 0.00 2.71
2997 3079 5.008019 GCCTGTAACACCTCATATCACATTG 59.992 44.000 0.00 0.00 0.00 2.82
2998 3080 5.008019 CCTGTAACACCTCATATCACATTGC 59.992 44.000 0.00 0.00 0.00 3.56
2999 3081 4.570369 TGTAACACCTCATATCACATTGCG 59.430 41.667 0.00 0.00 0.00 4.85
3000 3082 2.564771 ACACCTCATATCACATTGCGG 58.435 47.619 0.00 0.00 0.00 5.69
3001 3083 1.265095 CACCTCATATCACATTGCGGC 59.735 52.381 0.00 0.00 0.00 6.53
3002 3084 0.877071 CCTCATATCACATTGCGGCC 59.123 55.000 0.00 0.00 0.00 6.13
3003 3085 1.544093 CCTCATATCACATTGCGGCCT 60.544 52.381 0.00 0.00 0.00 5.19
3004 3086 1.802960 CTCATATCACATTGCGGCCTC 59.197 52.381 0.00 0.00 0.00 4.70
3005 3087 1.140652 TCATATCACATTGCGGCCTCA 59.859 47.619 0.00 0.00 0.00 3.86
3006 3088 1.265095 CATATCACATTGCGGCCTCAC 59.735 52.381 0.00 0.00 0.00 3.51
3007 3089 0.809636 TATCACATTGCGGCCTCACG 60.810 55.000 0.00 0.00 0.00 4.35
3016 3098 4.681978 GGCCTCACGCACGGAACT 62.682 66.667 0.00 0.00 40.31 3.01
3017 3099 3.112709 GCCTCACGCACGGAACTC 61.113 66.667 0.00 0.00 37.47 3.01
3018 3100 2.432628 CCTCACGCACGGAACTCC 60.433 66.667 0.00 0.00 0.00 3.85
3019 3101 2.432628 CTCACGCACGGAACTCCC 60.433 66.667 0.00 0.00 0.00 4.30
3020 3102 3.220999 CTCACGCACGGAACTCCCA 62.221 63.158 0.00 0.00 34.14 4.37
3021 3103 3.041940 CACGCACGGAACTCCCAC 61.042 66.667 0.00 0.00 34.14 4.61
3022 3104 4.657824 ACGCACGGAACTCCCACG 62.658 66.667 0.00 0.00 34.14 4.94
3025 3107 3.622826 CACGGAACTCCCACGGGT 61.623 66.667 1.07 0.00 36.47 5.28
3026 3108 3.622826 ACGGAACTCCCACGGGTG 61.623 66.667 1.07 1.88 36.47 4.61
3027 3109 3.622826 CGGAACTCCCACGGGTGT 61.623 66.667 3.94 3.94 42.95 4.16
3028 3110 2.346365 GGAACTCCCACGGGTGTC 59.654 66.667 10.16 4.70 40.61 3.67
3029 3111 2.048503 GAACTCCCACGGGTGTCG 60.049 66.667 10.16 0.00 40.61 4.35
3030 3112 4.309950 AACTCCCACGGGTGTCGC 62.310 66.667 10.16 0.00 40.61 5.19
3034 3116 3.697747 CCCACGGGTGTCGCCTTA 61.698 66.667 1.66 0.00 43.89 2.69
3035 3117 2.433664 CCACGGGTGTCGCCTTAC 60.434 66.667 1.66 0.00 43.89 2.34
3036 3118 2.433664 CACGGGTGTCGCCTTACC 60.434 66.667 1.66 0.00 43.89 2.85
3037 3119 2.918802 ACGGGTGTCGCCTTACCA 60.919 61.111 1.66 0.00 43.89 3.25
3038 3120 2.288025 ACGGGTGTCGCCTTACCAT 61.288 57.895 1.66 0.00 43.89 3.55
3039 3121 1.813753 CGGGTGTCGCCTTACCATG 60.814 63.158 1.66 0.00 38.74 3.66
3040 3122 1.451387 GGGTGTCGCCTTACCATGG 60.451 63.158 11.19 11.19 38.74 3.66
3041 3123 2.112815 GGTGTCGCCTTACCATGGC 61.113 63.158 13.04 0.00 46.42 4.40
3046 3128 4.894896 GCCTTACCATGGCCCGGG 62.895 72.222 19.09 19.09 44.32 5.73
3047 3129 3.093835 CCTTACCATGGCCCGGGA 61.094 66.667 29.31 3.75 0.00 5.14
3048 3130 2.192175 CTTACCATGGCCCGGGAC 59.808 66.667 29.31 26.59 0.00 4.46
3049 3131 3.413300 TTACCATGGCCCGGGACC 61.413 66.667 27.91 24.83 0.00 4.46
3053 3135 4.733542 CATGGCCCGGGACCGTTT 62.734 66.667 27.91 10.67 37.81 3.60
3054 3136 4.733542 ATGGCCCGGGACCGTTTG 62.734 66.667 27.91 0.00 37.81 2.93
3061 3143 3.292159 GGGACCGTTTGCGCCTTT 61.292 61.111 4.18 0.00 36.67 3.11
3062 3144 2.725641 GGACCGTTTGCGCCTTTT 59.274 55.556 4.18 0.00 36.67 2.27
3063 3145 1.660264 GGACCGTTTGCGCCTTTTG 60.660 57.895 4.18 0.00 36.67 2.44
3064 3146 1.660264 GACCGTTTGCGCCTTTTGG 60.660 57.895 4.18 2.72 44.18 3.28
3078 3160 4.795970 CCTTTTGGCTCACGTATATGAC 57.204 45.455 0.00 0.00 0.00 3.06
3079 3161 4.188462 CCTTTTGGCTCACGTATATGACA 58.812 43.478 0.00 0.00 0.00 3.58
3080 3162 4.634004 CCTTTTGGCTCACGTATATGACAA 59.366 41.667 0.00 0.00 0.00 3.18
3081 3163 5.296780 CCTTTTGGCTCACGTATATGACAAT 59.703 40.000 0.00 0.00 0.00 2.71
3082 3164 5.733226 TTTGGCTCACGTATATGACAATG 57.267 39.130 0.00 0.00 0.00 2.82
3083 3165 4.400529 TGGCTCACGTATATGACAATGT 57.599 40.909 0.00 0.00 0.00 2.71
3084 3166 4.368315 TGGCTCACGTATATGACAATGTC 58.632 43.478 6.41 6.41 0.00 3.06
3085 3167 3.425525 GGCTCACGTATATGACAATGTCG 59.574 47.826 9.00 0.00 34.95 4.35
3086 3168 3.121328 GCTCACGTATATGACAATGTCGC 60.121 47.826 9.00 0.00 34.95 5.19
3087 3169 4.290969 CTCACGTATATGACAATGTCGCT 58.709 43.478 9.00 1.34 34.95 4.93
3088 3170 5.427036 TCACGTATATGACAATGTCGCTA 57.573 39.130 9.00 3.62 34.95 4.26
3089 3171 5.449304 TCACGTATATGACAATGTCGCTAG 58.551 41.667 9.00 0.99 34.95 3.42
3090 3172 4.088638 CACGTATATGACAATGTCGCTAGC 59.911 45.833 9.00 4.06 34.95 3.42
3091 3173 4.226761 CGTATATGACAATGTCGCTAGCA 58.773 43.478 16.45 0.00 34.95 3.49
3092 3174 4.859245 CGTATATGACAATGTCGCTAGCAT 59.141 41.667 16.45 0.00 34.95 3.79
3093 3175 5.003872 CGTATATGACAATGTCGCTAGCATC 59.996 44.000 16.45 7.35 34.95 3.91
3094 3176 1.939974 TGACAATGTCGCTAGCATCC 58.060 50.000 16.45 1.76 34.95 3.51
3095 3177 1.206849 TGACAATGTCGCTAGCATCCA 59.793 47.619 16.45 7.97 34.95 3.41
3096 3178 2.158914 TGACAATGTCGCTAGCATCCAT 60.159 45.455 16.45 10.01 34.95 3.41
3097 3179 3.069443 TGACAATGTCGCTAGCATCCATA 59.931 43.478 16.45 0.00 34.95 2.74
3098 3180 4.248859 GACAATGTCGCTAGCATCCATAT 58.751 43.478 16.45 5.31 0.00 1.78
3099 3181 3.999001 ACAATGTCGCTAGCATCCATATG 59.001 43.478 16.45 14.09 36.09 1.78
3100 3182 4.248058 CAATGTCGCTAGCATCCATATGA 58.752 43.478 16.45 0.00 34.84 2.15
3101 3183 3.303881 TGTCGCTAGCATCCATATGAC 57.696 47.619 16.45 11.40 34.84 3.06
3102 3184 2.627699 TGTCGCTAGCATCCATATGACA 59.372 45.455 16.45 13.85 34.84 3.58
3103 3185 3.249091 GTCGCTAGCATCCATATGACAG 58.751 50.000 16.45 0.00 34.84 3.51
3104 3186 3.057245 GTCGCTAGCATCCATATGACAGA 60.057 47.826 16.45 0.00 34.84 3.41
3105 3187 3.192212 TCGCTAGCATCCATATGACAGAG 59.808 47.826 16.45 0.00 34.84 3.35
3106 3188 3.192212 CGCTAGCATCCATATGACAGAGA 59.808 47.826 16.45 0.00 34.84 3.10
3107 3189 4.321527 CGCTAGCATCCATATGACAGAGAA 60.322 45.833 16.45 0.00 34.84 2.87
3108 3190 4.928615 GCTAGCATCCATATGACAGAGAAC 59.071 45.833 10.63 0.00 34.84 3.01
3109 3191 4.348863 AGCATCCATATGACAGAGAACC 57.651 45.455 3.65 0.00 34.84 3.62
3110 3192 3.072184 AGCATCCATATGACAGAGAACCC 59.928 47.826 3.65 0.00 34.84 4.11
3111 3193 3.657634 CATCCATATGACAGAGAACCCG 58.342 50.000 3.65 0.00 34.84 5.28
3112 3194 2.039418 TCCATATGACAGAGAACCCGG 58.961 52.381 3.65 0.00 0.00 5.73
3113 3195 1.070758 CCATATGACAGAGAACCCGGG 59.929 57.143 22.25 22.25 0.00 5.73
3114 3196 0.759346 ATATGACAGAGAACCCGGGC 59.241 55.000 24.08 4.85 0.00 6.13
3115 3197 1.335132 TATGACAGAGAACCCGGGCC 61.335 60.000 24.08 13.60 0.00 5.80
3116 3198 4.452733 GACAGAGAACCCGGGCCG 62.453 72.222 24.08 21.46 0.00 6.13
3118 3200 4.452733 CAGAGAACCCGGGCCGAC 62.453 72.222 30.79 15.36 0.00 4.79
3120 3202 3.782443 GAGAACCCGGGCCGACAT 61.782 66.667 30.79 12.71 0.00 3.06
3121 3203 4.096003 AGAACCCGGGCCGACATG 62.096 66.667 30.79 15.10 0.00 3.21
3135 3217 1.641577 GACATGGCTAGTCGTGAACC 58.358 55.000 23.11 7.88 0.00 3.62
3136 3218 0.249398 ACATGGCTAGTCGTGAACCC 59.751 55.000 23.11 0.00 0.00 4.11
3137 3219 0.249120 CATGGCTAGTCGTGAACCCA 59.751 55.000 11.26 0.00 0.00 4.51
3138 3220 0.981183 ATGGCTAGTCGTGAACCCAA 59.019 50.000 0.00 0.00 0.00 4.12
3139 3221 0.759959 TGGCTAGTCGTGAACCCAAA 59.240 50.000 0.00 0.00 0.00 3.28
3140 3222 1.270625 TGGCTAGTCGTGAACCCAAAG 60.271 52.381 0.00 0.00 0.00 2.77
3141 3223 0.796927 GCTAGTCGTGAACCCAAAGC 59.203 55.000 0.00 0.00 0.00 3.51
3142 3224 1.068474 CTAGTCGTGAACCCAAAGCG 58.932 55.000 0.00 0.00 0.00 4.68
3143 3225 0.320073 TAGTCGTGAACCCAAAGCGG 60.320 55.000 0.00 0.00 0.00 5.52
3144 3226 2.975799 TCGTGAACCCAAAGCGGC 60.976 61.111 0.00 0.00 0.00 6.53
3145 3227 3.283684 CGTGAACCCAAAGCGGCA 61.284 61.111 1.45 0.00 0.00 5.69
3146 3228 2.335011 GTGAACCCAAAGCGGCAC 59.665 61.111 1.45 0.00 0.00 5.01
3147 3229 2.193536 GTGAACCCAAAGCGGCACT 61.194 57.895 1.45 0.00 0.00 4.40
3148 3230 0.887387 GTGAACCCAAAGCGGCACTA 60.887 55.000 1.45 0.00 0.00 2.74
3149 3231 0.179015 TGAACCCAAAGCGGCACTAA 60.179 50.000 1.45 0.00 0.00 2.24
3150 3232 0.240145 GAACCCAAAGCGGCACTAAC 59.760 55.000 1.45 0.00 0.00 2.34
3151 3233 1.512156 AACCCAAAGCGGCACTAACG 61.512 55.000 1.45 0.00 0.00 3.18
3152 3234 1.964373 CCCAAAGCGGCACTAACGT 60.964 57.895 1.45 0.00 0.00 3.99
3153 3235 0.671163 CCCAAAGCGGCACTAACGTA 60.671 55.000 1.45 0.00 0.00 3.57
3154 3236 1.365699 CCAAAGCGGCACTAACGTAT 58.634 50.000 1.45 0.00 0.00 3.06
3155 3237 1.062002 CCAAAGCGGCACTAACGTATG 59.938 52.381 1.45 0.00 0.00 2.39
3156 3238 1.062002 CAAAGCGGCACTAACGTATGG 59.938 52.381 1.45 0.00 0.00 2.74
3157 3239 0.461339 AAGCGGCACTAACGTATGGG 60.461 55.000 1.45 0.00 0.00 4.00
3158 3240 1.885850 GCGGCACTAACGTATGGGG 60.886 63.158 0.00 0.00 0.00 4.96
3159 3241 1.817881 CGGCACTAACGTATGGGGA 59.182 57.895 0.00 0.00 0.00 4.81
3160 3242 0.529119 CGGCACTAACGTATGGGGAC 60.529 60.000 0.00 0.00 0.00 4.46
3172 3254 3.019816 TGGGGACAGGCATACATGA 57.980 52.632 0.00 0.00 35.01 3.07
3173 3255 1.294041 TGGGGACAGGCATACATGAA 58.706 50.000 0.00 0.00 35.01 2.57
3174 3256 1.852309 TGGGGACAGGCATACATGAAT 59.148 47.619 0.00 0.00 35.01 2.57
3175 3257 2.158623 TGGGGACAGGCATACATGAATC 60.159 50.000 0.00 0.00 35.01 2.52
3176 3258 2.158623 GGGGACAGGCATACATGAATCA 60.159 50.000 0.00 0.00 0.00 2.57
3177 3259 3.554934 GGGACAGGCATACATGAATCAA 58.445 45.455 0.00 0.00 0.00 2.57
3178 3260 4.147321 GGGACAGGCATACATGAATCAAT 58.853 43.478 0.00 0.00 0.00 2.57
3179 3261 5.316167 GGGACAGGCATACATGAATCAATA 58.684 41.667 0.00 0.00 0.00 1.90
3180 3262 5.948162 GGGACAGGCATACATGAATCAATAT 59.052 40.000 0.00 0.00 0.00 1.28
3181 3263 6.094603 GGGACAGGCATACATGAATCAATATC 59.905 42.308 0.00 0.00 0.00 1.63
3182 3264 6.183360 GGACAGGCATACATGAATCAATATCG 60.183 42.308 0.00 0.00 0.00 2.92
3183 3265 6.466812 ACAGGCATACATGAATCAATATCGA 58.533 36.000 0.00 0.00 0.00 3.59
3184 3266 6.936335 ACAGGCATACATGAATCAATATCGAA 59.064 34.615 0.00 0.00 0.00 3.71
3185 3267 7.095060 ACAGGCATACATGAATCAATATCGAAC 60.095 37.037 0.00 0.00 0.00 3.95
3186 3268 6.091305 AGGCATACATGAATCAATATCGAACG 59.909 38.462 0.00 0.00 0.00 3.95
3187 3269 6.128553 GGCATACATGAATCAATATCGAACGT 60.129 38.462 0.00 0.00 0.00 3.99
3188 3270 6.733725 GCATACATGAATCAATATCGAACGTG 59.266 38.462 0.00 0.00 0.00 4.49
3189 3271 7.569408 GCATACATGAATCAATATCGAACGTGT 60.569 37.037 0.00 0.00 33.40 4.49
3190 3272 6.274001 ACATGAATCAATATCGAACGTGTC 57.726 37.500 0.00 0.00 0.00 3.67
3198 3280 2.354188 CGAACGTGTCGGTCAGCA 60.354 61.111 7.89 0.00 44.54 4.41
3199 3281 2.365068 CGAACGTGTCGGTCAGCAG 61.365 63.158 7.89 0.00 44.54 4.24
3200 3282 2.658707 GAACGTGTCGGTCAGCAGC 61.659 63.158 2.27 0.00 43.67 5.25
3203 3285 3.406361 GTGTCGGTCAGCAGCGTG 61.406 66.667 0.00 0.00 44.16 5.34
3204 3286 3.911698 TGTCGGTCAGCAGCGTGT 61.912 61.111 0.00 0.00 44.16 4.49
3205 3287 3.406361 GTCGGTCAGCAGCGTGTG 61.406 66.667 0.00 0.00 44.16 3.82
3206 3288 3.601685 TCGGTCAGCAGCGTGTGA 61.602 61.111 0.00 0.00 44.16 3.58
3207 3289 2.661537 CGGTCAGCAGCGTGTGAA 60.662 61.111 0.00 0.00 38.76 3.18
3208 3290 2.029288 CGGTCAGCAGCGTGTGAAT 61.029 57.895 0.00 0.00 38.76 2.57
3209 3291 1.790387 GGTCAGCAGCGTGTGAATC 59.210 57.895 0.00 0.00 0.00 2.52
3210 3292 1.639298 GGTCAGCAGCGTGTGAATCC 61.639 60.000 0.00 0.00 0.00 3.01
3211 3293 1.737735 TCAGCAGCGTGTGAATCCG 60.738 57.895 0.00 0.00 0.00 4.18
3212 3294 2.434884 AGCAGCGTGTGAATCCGG 60.435 61.111 0.00 0.00 0.00 5.14
3213 3295 3.499737 GCAGCGTGTGAATCCGGG 61.500 66.667 0.00 0.00 0.00 5.73
3214 3296 3.499737 CAGCGTGTGAATCCGGGC 61.500 66.667 0.00 0.00 0.00 6.13
3215 3297 3.706373 AGCGTGTGAATCCGGGCT 61.706 61.111 0.00 0.00 0.00 5.19
3216 3298 3.499737 GCGTGTGAATCCGGGCTG 61.500 66.667 0.00 0.00 0.00 4.85
3217 3299 2.047274 CGTGTGAATCCGGGCTGT 60.047 61.111 0.00 0.00 0.00 4.40
3218 3300 1.216977 CGTGTGAATCCGGGCTGTA 59.783 57.895 0.00 0.00 0.00 2.74
3219 3301 0.806102 CGTGTGAATCCGGGCTGTAG 60.806 60.000 0.00 0.00 0.00 2.74
3220 3302 1.090052 GTGTGAATCCGGGCTGTAGC 61.090 60.000 0.00 0.00 41.14 3.58
3221 3303 1.220749 GTGAATCCGGGCTGTAGCA 59.779 57.895 0.00 0.00 44.36 3.49
3222 3304 1.090052 GTGAATCCGGGCTGTAGCAC 61.090 60.000 0.00 0.38 44.36 4.40
3223 3305 1.264749 TGAATCCGGGCTGTAGCACT 61.265 55.000 0.00 0.00 43.67 4.40
3224 3306 0.811616 GAATCCGGGCTGTAGCACTG 60.812 60.000 0.00 0.00 43.67 3.66
3225 3307 2.257409 AATCCGGGCTGTAGCACTGG 62.257 60.000 0.00 7.49 43.67 4.00
3226 3308 4.473520 CCGGGCTGTAGCACTGGG 62.474 72.222 4.43 0.00 43.67 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 48 6.321181 TGTTTTGTTCAGGCTACAGAGAAAAT 59.679 34.615 0.00 0.00 0.00 1.82
74 75 0.037326 TCCGCTCCTGCTTACAAGTG 60.037 55.000 0.00 0.00 36.97 3.16
121 122 2.375174 TCCCCAATGCTCTGTTACAAGT 59.625 45.455 0.00 0.00 0.00 3.16
195 196 5.178061 TGGAGTAATGAGCAACTACACATG 58.822 41.667 0.00 0.00 31.50 3.21
260 261 5.574443 GCATTCAGAAACTTTATGAACTGGC 59.426 40.000 12.62 12.51 35.89 4.85
839 893 0.875728 CCGATCCGTGCTAGTCCTAG 59.124 60.000 0.00 0.00 36.29 3.02
840 894 0.471191 TCCGATCCGTGCTAGTCCTA 59.529 55.000 0.00 0.00 0.00 2.94
864 918 4.389576 CACTTGGACGCGCCTTGC 62.390 66.667 18.14 0.00 41.47 4.01
865 919 4.389576 GCACTTGGACGCGCCTTG 62.390 66.667 18.14 13.56 37.63 3.61
872 926 2.202690 TATCGCCGCACTTGGACG 60.203 61.111 0.00 0.00 0.00 4.79
873 927 2.514013 CGTATCGCCGCACTTGGAC 61.514 63.158 0.00 0.00 0.00 4.02
874 928 2.202690 CGTATCGCCGCACTTGGA 60.203 61.111 0.00 0.00 0.00 3.53
951 1023 1.383386 GGGGGTTTGGGTTTGTGGT 60.383 57.895 0.00 0.00 0.00 4.16
986 1058 3.124270 CCATTGCTGGTGCGCGTA 61.124 61.111 8.43 0.00 43.34 4.42
1074 1153 1.153881 GTCGTAGAAGTGGACCCGC 60.154 63.158 0.00 0.00 39.69 6.13
1111 1190 2.512286 CGCATCCCTCACACGCAT 60.512 61.111 0.00 0.00 0.00 4.73
1203 1285 3.854669 AGCCTCGCCCCATCTTCG 61.855 66.667 0.00 0.00 0.00 3.79
1211 1293 1.596477 GTGATGATCAGCCTCGCCC 60.596 63.158 8.78 0.00 0.00 6.13
1214 1296 1.293924 GTTGGTGATGATCAGCCTCG 58.706 55.000 20.51 0.00 43.72 4.63
1220 1302 1.164411 GCGGTTGTTGGTGATGATCA 58.836 50.000 0.00 0.00 0.00 2.92
1279 1361 3.669354 GGATCATGTCCGTGGACTC 57.331 57.895 19.17 8.71 44.80 3.36
1305 1387 1.216710 GTTCACCTCTCGGAGCAGG 59.783 63.158 16.89 16.89 35.69 4.85
1312 1394 1.512310 GTCGCTCGTTCACCTCTCG 60.512 63.158 0.00 0.00 0.00 4.04
1313 1395 1.512310 CGTCGCTCGTTCACCTCTC 60.512 63.158 0.00 0.00 34.52 3.20
1334 1416 0.247460 CTCGACATGCTCCTGGTTGA 59.753 55.000 0.00 0.00 0.00 3.18
1337 1419 2.362369 CCCTCGACATGCTCCTGGT 61.362 63.158 0.00 0.00 0.00 4.00
1338 1420 2.503061 CCCTCGACATGCTCCTGG 59.497 66.667 0.00 0.00 0.00 4.45
1372 1454 3.181517 ACGACGCTGTTGATGATGAATTG 60.182 43.478 0.00 0.00 0.00 2.32
1374 1456 2.604914 GACGACGCTGTTGATGATGAAT 59.395 45.455 0.00 0.00 0.00 2.57
1375 1457 1.992667 GACGACGCTGTTGATGATGAA 59.007 47.619 0.00 0.00 0.00 2.57
1384 1466 2.651361 CTGGAGGACGACGCTGTT 59.349 61.111 0.00 0.00 0.00 3.16
1386 1468 3.062466 TCCTGGAGGACGACGCTG 61.062 66.667 0.00 0.00 39.78 5.18
1431 1513 1.219124 GAGCATCTCCTTGGCGACA 59.781 57.895 0.00 0.00 39.83 4.35
1527 1609 2.799502 TCTCGAAGCGCGTTCACG 60.800 61.111 8.43 11.93 41.80 4.35
1888 1970 4.168291 CGCCTTCTCCTCCAGGGC 62.168 72.222 0.00 0.00 39.43 5.19
1927 2009 4.168291 CGCCTTCTCCTCCAGGGC 62.168 72.222 0.00 0.00 39.43 5.19
2034 2116 1.073768 GCGACTTCTGCTTCTCCGAC 61.074 60.000 0.00 0.00 0.00 4.79
2218 2300 0.174389 CAGAGTACTCATGCTGCGGT 59.826 55.000 24.44 0.00 0.00 5.68
2226 2308 1.959985 CTCCCATCGCAGAGTACTCAT 59.040 52.381 24.44 6.63 43.63 2.90
2258 2340 4.424626 CTCGAATTGAGTTCCAATCTCGA 58.575 43.478 16.16 16.16 44.28 4.04
2323 2405 6.793505 ATACTACCTCGAATTGGAGAAACT 57.206 37.500 18.10 1.91 36.08 2.66
2430 2512 7.503566 AGTTGAAAAACTTCCATTCTGATCAGA 59.496 33.333 21.67 21.67 35.27 3.27
2818 2900 2.276732 ACAACTATGCTGCTTGGTGT 57.723 45.000 5.34 5.33 0.00 4.16
2874 2956 4.654262 GGTTGGAGGGAGTGTCTATCAATA 59.346 45.833 0.00 0.00 0.00 1.90
2888 2970 3.211045 CGTTATATTGTGGGTTGGAGGG 58.789 50.000 0.00 0.00 0.00 4.30
2925 3007 2.187958 CCTGACAATGTACTCCCTCCA 58.812 52.381 0.00 0.00 0.00 3.86
2945 3027 0.830648 TGTGACTTGGGATCGGGATC 59.169 55.000 0.00 0.00 37.11 3.36
2946 3028 0.541863 GTGTGACTTGGGATCGGGAT 59.458 55.000 0.00 0.00 0.00 3.85
2947 3029 1.550130 GGTGTGACTTGGGATCGGGA 61.550 60.000 0.00 0.00 0.00 5.14
2948 3030 1.078426 GGTGTGACTTGGGATCGGG 60.078 63.158 0.00 0.00 0.00 5.14
2949 3031 1.447838 CGGTGTGACTTGGGATCGG 60.448 63.158 0.00 0.00 0.00 4.18
2950 3032 0.175760 ATCGGTGTGACTTGGGATCG 59.824 55.000 0.00 0.00 0.00 3.69
2951 3033 1.482593 AGATCGGTGTGACTTGGGATC 59.517 52.381 0.00 0.00 0.00 3.36
2952 3034 1.573108 AGATCGGTGTGACTTGGGAT 58.427 50.000 0.00 0.00 0.00 3.85
2953 3035 2.100197 CTAGATCGGTGTGACTTGGGA 58.900 52.381 0.00 0.00 0.00 4.37
2954 3036 1.471676 GCTAGATCGGTGTGACTTGGG 60.472 57.143 0.00 0.00 0.00 4.12
2955 3037 1.471676 GGCTAGATCGGTGTGACTTGG 60.472 57.143 0.00 0.00 0.00 3.61
2956 3038 1.478510 AGGCTAGATCGGTGTGACTTG 59.521 52.381 0.00 0.00 0.00 3.16
2957 3039 1.478510 CAGGCTAGATCGGTGTGACTT 59.521 52.381 0.00 0.00 0.00 3.01
2958 3040 1.107114 CAGGCTAGATCGGTGTGACT 58.893 55.000 0.00 0.00 0.00 3.41
2959 3041 0.818296 ACAGGCTAGATCGGTGTGAC 59.182 55.000 0.00 0.00 0.00 3.67
2960 3042 2.426024 GTTACAGGCTAGATCGGTGTGA 59.574 50.000 0.00 0.00 0.00 3.58
2961 3043 2.165641 TGTTACAGGCTAGATCGGTGTG 59.834 50.000 0.00 0.00 0.00 3.82
2962 3044 2.165845 GTGTTACAGGCTAGATCGGTGT 59.834 50.000 0.00 0.00 0.00 4.16
2963 3045 2.481449 GGTGTTACAGGCTAGATCGGTG 60.481 54.545 0.00 0.00 0.00 4.94
2964 3046 1.755380 GGTGTTACAGGCTAGATCGGT 59.245 52.381 0.00 0.00 0.00 4.69
2965 3047 2.032620 AGGTGTTACAGGCTAGATCGG 58.967 52.381 0.00 0.00 0.00 4.18
2966 3048 2.688446 TGAGGTGTTACAGGCTAGATCG 59.312 50.000 0.00 0.00 0.00 3.69
2967 3049 4.946478 ATGAGGTGTTACAGGCTAGATC 57.054 45.455 0.00 0.00 0.00 2.75
2968 3050 6.015010 GTGATATGAGGTGTTACAGGCTAGAT 60.015 42.308 0.00 0.00 0.00 1.98
2969 3051 5.302059 GTGATATGAGGTGTTACAGGCTAGA 59.698 44.000 0.00 0.00 0.00 2.43
2970 3052 5.069119 TGTGATATGAGGTGTTACAGGCTAG 59.931 44.000 0.00 0.00 0.00 3.42
2971 3053 4.959839 TGTGATATGAGGTGTTACAGGCTA 59.040 41.667 0.00 0.00 0.00 3.93
2972 3054 3.774766 TGTGATATGAGGTGTTACAGGCT 59.225 43.478 0.00 0.00 0.00 4.58
2973 3055 4.137116 TGTGATATGAGGTGTTACAGGC 57.863 45.455 0.00 0.00 0.00 4.85
2974 3056 5.008019 GCAATGTGATATGAGGTGTTACAGG 59.992 44.000 0.00 0.00 0.00 4.00
2975 3057 5.277011 CGCAATGTGATATGAGGTGTTACAG 60.277 44.000 0.00 0.00 0.00 2.74
2976 3058 4.570369 CGCAATGTGATATGAGGTGTTACA 59.430 41.667 0.00 0.00 0.00 2.41
2977 3059 4.024893 CCGCAATGTGATATGAGGTGTTAC 60.025 45.833 0.00 0.00 32.55 2.50
2978 3060 4.126437 CCGCAATGTGATATGAGGTGTTA 58.874 43.478 0.00 0.00 32.55 2.41
2979 3061 2.945008 CCGCAATGTGATATGAGGTGTT 59.055 45.455 0.00 0.00 32.55 3.32
2980 3062 2.564771 CCGCAATGTGATATGAGGTGT 58.435 47.619 0.00 0.00 32.55 4.16
2981 3063 1.265095 GCCGCAATGTGATATGAGGTG 59.735 52.381 0.00 0.00 38.58 4.00
2982 3064 1.597742 GCCGCAATGTGATATGAGGT 58.402 50.000 0.00 0.00 38.58 3.85
2983 3065 0.877071 GGCCGCAATGTGATATGAGG 59.123 55.000 0.00 0.00 39.25 3.86
2984 3066 1.802960 GAGGCCGCAATGTGATATGAG 59.197 52.381 0.00 0.00 0.00 2.90
2985 3067 1.140652 TGAGGCCGCAATGTGATATGA 59.859 47.619 6.75 0.00 0.00 2.15
2986 3068 1.265095 GTGAGGCCGCAATGTGATATG 59.735 52.381 12.05 0.00 0.00 1.78
2987 3069 1.597742 GTGAGGCCGCAATGTGATAT 58.402 50.000 12.05 0.00 0.00 1.63
2988 3070 0.809636 CGTGAGGCCGCAATGTGATA 60.810 55.000 12.05 0.00 0.00 2.15
2989 3071 2.108514 CGTGAGGCCGCAATGTGAT 61.109 57.895 12.05 0.00 0.00 3.06
2990 3072 2.741985 CGTGAGGCCGCAATGTGA 60.742 61.111 12.05 0.00 0.00 3.58
2999 3081 4.681978 AGTTCCGTGCGTGAGGCC 62.682 66.667 0.00 0.00 42.61 5.19
3000 3082 3.112709 GAGTTCCGTGCGTGAGGC 61.113 66.667 0.00 0.00 43.96 4.70
3001 3083 2.432628 GGAGTTCCGTGCGTGAGG 60.433 66.667 0.00 0.00 0.00 3.86
3002 3084 2.432628 GGGAGTTCCGTGCGTGAG 60.433 66.667 0.00 0.00 36.71 3.51
3003 3085 3.228017 TGGGAGTTCCGTGCGTGA 61.228 61.111 0.00 0.00 38.76 4.35
3004 3086 3.041940 GTGGGAGTTCCGTGCGTG 61.042 66.667 0.00 0.00 38.76 5.34
3005 3087 4.657824 CGTGGGAGTTCCGTGCGT 62.658 66.667 0.00 0.00 38.76 5.24
3008 3090 3.622826 ACCCGTGGGAGTTCCGTG 61.623 66.667 13.01 0.00 38.76 4.94
3009 3091 3.622826 CACCCGTGGGAGTTCCGT 61.623 66.667 13.01 0.00 38.76 4.69
3010 3092 3.584868 GACACCCGTGGGAGTTCCG 62.585 68.421 13.01 0.00 39.14 4.30
3011 3093 2.346365 GACACCCGTGGGAGTTCC 59.654 66.667 13.01 0.00 39.14 3.62
3012 3094 2.048503 CGACACCCGTGGGAGTTC 60.049 66.667 13.01 3.69 39.14 3.01
3013 3095 4.309950 GCGACACCCGTGGGAGTT 62.310 66.667 13.01 0.00 39.14 3.01
3017 3099 3.697747 TAAGGCGACACCCGTGGG 61.698 66.667 2.58 2.58 40.58 4.61
3018 3100 2.433664 GTAAGGCGACACCCGTGG 60.434 66.667 0.00 0.00 40.58 4.94
3019 3101 2.433664 GGTAAGGCGACACCCGTG 60.434 66.667 0.00 0.00 40.58 4.94
3020 3102 2.288025 ATGGTAAGGCGACACCCGT 61.288 57.895 0.00 0.00 40.58 5.28
3021 3103 1.813753 CATGGTAAGGCGACACCCG 60.814 63.158 0.00 0.00 40.58 5.28
3022 3104 1.451387 CCATGGTAAGGCGACACCC 60.451 63.158 2.57 0.00 40.58 4.61
3023 3105 2.112815 GCCATGGTAAGGCGACACC 61.113 63.158 14.67 0.00 43.15 4.16
3024 3106 3.497879 GCCATGGTAAGGCGACAC 58.502 61.111 14.67 0.00 43.15 3.67
3030 3112 3.093835 TCCCGGGCCATGGTAAGG 61.094 66.667 18.49 13.45 0.00 2.69
3031 3113 2.192175 GTCCCGGGCCATGGTAAG 59.808 66.667 18.49 4.56 0.00 2.34
3032 3114 3.413300 GGTCCCGGGCCATGGTAA 61.413 66.667 24.17 0.00 0.00 2.85
3036 3118 4.733542 AAACGGTCCCGGGCCATG 62.734 66.667 27.00 17.10 44.69 3.66
3037 3119 4.733542 CAAACGGTCCCGGGCCAT 62.734 66.667 27.00 14.50 44.69 4.40
3044 3126 2.852180 AAAAGGCGCAAACGGTCCC 61.852 57.895 10.83 0.00 40.57 4.46
3045 3127 1.660264 CAAAAGGCGCAAACGGTCC 60.660 57.895 10.83 0.00 40.57 4.46
3046 3128 1.660264 CCAAAAGGCGCAAACGGTC 60.660 57.895 10.83 0.00 40.57 4.79
3047 3129 2.415426 CCAAAAGGCGCAAACGGT 59.585 55.556 10.83 0.00 40.57 4.83
3048 3130 3.035503 GCCAAAAGGCGCAAACGG 61.036 61.111 10.83 3.45 40.57 4.44
3049 3131 2.016165 GAGCCAAAAGGCGCAAACG 61.016 57.895 10.83 0.00 44.07 3.60
3050 3132 1.067250 TGAGCCAAAAGGCGCAAAC 59.933 52.632 10.83 0.00 41.28 2.93
3051 3133 1.067250 GTGAGCCAAAAGGCGCAAA 59.933 52.632 14.31 0.00 45.17 3.68
3052 3134 2.727544 GTGAGCCAAAAGGCGCAA 59.272 55.556 14.31 0.00 45.17 4.85
3053 3135 2.997952 TACGTGAGCCAAAAGGCGCA 62.998 55.000 10.83 8.86 41.90 6.09
3054 3136 1.644786 ATACGTGAGCCAAAAGGCGC 61.645 55.000 0.00 0.00 40.23 6.53
3055 3137 1.647346 TATACGTGAGCCAAAAGGCG 58.353 50.000 0.00 0.00 40.23 5.52
3056 3138 3.002348 GTCATATACGTGAGCCAAAAGGC 59.998 47.826 0.00 0.00 0.00 4.35
3057 3139 4.188462 TGTCATATACGTGAGCCAAAAGG 58.812 43.478 0.00 0.00 0.00 3.11
3058 3140 5.794687 TTGTCATATACGTGAGCCAAAAG 57.205 39.130 0.00 0.00 0.00 2.27
3059 3141 5.645929 ACATTGTCATATACGTGAGCCAAAA 59.354 36.000 0.00 0.00 0.00 2.44
3060 3142 5.182487 ACATTGTCATATACGTGAGCCAAA 58.818 37.500 0.00 0.00 0.00 3.28
3061 3143 4.765273 ACATTGTCATATACGTGAGCCAA 58.235 39.130 0.00 0.00 0.00 4.52
3062 3144 4.368315 GACATTGTCATATACGTGAGCCA 58.632 43.478 11.93 0.00 32.09 4.75
3063 3145 3.425525 CGACATTGTCATATACGTGAGCC 59.574 47.826 16.61 0.00 32.09 4.70
3064 3146 3.121328 GCGACATTGTCATATACGTGAGC 60.121 47.826 16.61 4.27 32.09 4.26
3065 3147 4.290969 AGCGACATTGTCATATACGTGAG 58.709 43.478 16.61 0.00 32.09 3.51
3066 3148 4.301637 AGCGACATTGTCATATACGTGA 57.698 40.909 16.61 0.00 32.09 4.35
3067 3149 4.088638 GCTAGCGACATTGTCATATACGTG 59.911 45.833 16.61 0.00 32.09 4.49
3068 3150 4.227538 GCTAGCGACATTGTCATATACGT 58.772 43.478 16.61 0.00 32.09 3.57
3069 3151 4.226761 TGCTAGCGACATTGTCATATACG 58.773 43.478 16.61 3.53 32.09 3.06
3070 3152 5.289675 GGATGCTAGCGACATTGTCATATAC 59.710 44.000 16.61 3.84 32.09 1.47
3071 3153 5.047377 TGGATGCTAGCGACATTGTCATATA 60.047 40.000 16.61 5.30 32.09 0.86
3072 3154 4.248859 GGATGCTAGCGACATTGTCATAT 58.751 43.478 16.61 4.44 32.09 1.78
3073 3155 3.069443 TGGATGCTAGCGACATTGTCATA 59.931 43.478 16.61 7.84 32.09 2.15
3074 3156 2.158914 TGGATGCTAGCGACATTGTCAT 60.159 45.455 16.61 7.11 32.09 3.06
3075 3157 1.206849 TGGATGCTAGCGACATTGTCA 59.793 47.619 16.61 0.00 32.09 3.58
3076 3158 1.939974 TGGATGCTAGCGACATTGTC 58.060 50.000 10.77 6.73 0.00 3.18
3077 3159 2.627515 ATGGATGCTAGCGACATTGT 57.372 45.000 10.77 0.00 0.00 2.71
3078 3160 4.092529 GTCATATGGATGCTAGCGACATTG 59.907 45.833 19.32 16.52 32.62 2.82
3079 3161 4.248859 GTCATATGGATGCTAGCGACATT 58.751 43.478 19.32 4.63 32.62 2.71
3080 3162 3.259123 TGTCATATGGATGCTAGCGACAT 59.741 43.478 18.49 18.49 32.62 3.06
3081 3163 2.627699 TGTCATATGGATGCTAGCGACA 59.372 45.455 10.77 11.54 32.62 4.35
3082 3164 3.057245 TCTGTCATATGGATGCTAGCGAC 60.057 47.826 10.77 9.02 32.62 5.19
3083 3165 3.157087 TCTGTCATATGGATGCTAGCGA 58.843 45.455 10.77 0.00 32.62 4.93
3084 3166 3.192212 TCTCTGTCATATGGATGCTAGCG 59.808 47.826 10.77 0.00 32.62 4.26
3085 3167 4.797800 TCTCTGTCATATGGATGCTAGC 57.202 45.455 8.10 8.10 32.62 3.42
3086 3168 5.477510 GGTTCTCTGTCATATGGATGCTAG 58.522 45.833 2.13 0.00 32.62 3.42
3087 3169 4.284490 GGGTTCTCTGTCATATGGATGCTA 59.716 45.833 2.13 0.00 32.62 3.49
3088 3170 3.072184 GGGTTCTCTGTCATATGGATGCT 59.928 47.826 2.13 0.00 32.62 3.79
3089 3171 3.406764 GGGTTCTCTGTCATATGGATGC 58.593 50.000 2.13 0.00 32.62 3.91
3090 3172 3.555795 CCGGGTTCTCTGTCATATGGATG 60.556 52.174 2.13 0.00 0.00 3.51
3091 3173 2.634940 CCGGGTTCTCTGTCATATGGAT 59.365 50.000 2.13 0.00 0.00 3.41
3092 3174 2.039418 CCGGGTTCTCTGTCATATGGA 58.961 52.381 2.13 0.00 0.00 3.41
3093 3175 1.070758 CCCGGGTTCTCTGTCATATGG 59.929 57.143 14.18 0.00 0.00 2.74
3094 3176 1.541233 GCCCGGGTTCTCTGTCATATG 60.541 57.143 24.63 0.00 0.00 1.78
3095 3177 0.759346 GCCCGGGTTCTCTGTCATAT 59.241 55.000 24.63 0.00 0.00 1.78
3096 3178 1.335132 GGCCCGGGTTCTCTGTCATA 61.335 60.000 24.63 0.00 0.00 2.15
3097 3179 2.670148 GGCCCGGGTTCTCTGTCAT 61.670 63.158 24.63 0.00 0.00 3.06
3098 3180 3.319198 GGCCCGGGTTCTCTGTCA 61.319 66.667 24.63 0.00 0.00 3.58
3099 3181 4.452733 CGGCCCGGGTTCTCTGTC 62.453 72.222 24.63 1.42 0.00 3.51
3101 3183 4.452733 GTCGGCCCGGGTTCTCTG 62.453 72.222 24.63 10.59 0.00 3.35
3103 3185 3.782443 ATGTCGGCCCGGGTTCTC 61.782 66.667 24.63 11.43 0.00 2.87
3104 3186 4.096003 CATGTCGGCCCGGGTTCT 62.096 66.667 24.63 0.00 0.00 3.01
3116 3198 1.641577 GGTTCACGACTAGCCATGTC 58.358 55.000 0.00 0.00 0.00 3.06
3117 3199 0.249398 GGGTTCACGACTAGCCATGT 59.751 55.000 0.00 0.00 32.24 3.21
3118 3200 0.249120 TGGGTTCACGACTAGCCATG 59.751 55.000 0.00 0.00 37.03 3.66
3119 3201 0.981183 TTGGGTTCACGACTAGCCAT 59.019 50.000 7.05 0.00 41.19 4.40
3120 3202 0.759959 TTTGGGTTCACGACTAGCCA 59.240 50.000 0.00 0.00 39.97 4.75
3121 3203 1.439679 CTTTGGGTTCACGACTAGCC 58.560 55.000 0.00 0.00 0.00 3.93
3122 3204 0.796927 GCTTTGGGTTCACGACTAGC 59.203 55.000 0.00 0.00 0.00 3.42
3123 3205 1.068474 CGCTTTGGGTTCACGACTAG 58.932 55.000 0.00 0.00 0.00 2.57
3124 3206 0.320073 CCGCTTTGGGTTCACGACTA 60.320 55.000 0.00 0.00 0.00 2.59
3125 3207 1.597027 CCGCTTTGGGTTCACGACT 60.597 57.895 0.00 0.00 0.00 4.18
3126 3208 2.943653 CCGCTTTGGGTTCACGAC 59.056 61.111 0.00 0.00 0.00 4.34
3127 3209 2.975799 GCCGCTTTGGGTTCACGA 60.976 61.111 0.00 0.00 38.63 4.35
3128 3210 3.283684 TGCCGCTTTGGGTTCACG 61.284 61.111 0.00 0.00 38.63 4.35
3129 3211 0.887387 TAGTGCCGCTTTGGGTTCAC 60.887 55.000 0.00 0.00 38.63 3.18
3130 3212 0.179015 TTAGTGCCGCTTTGGGTTCA 60.179 50.000 0.00 0.00 38.63 3.18
3131 3213 0.240145 GTTAGTGCCGCTTTGGGTTC 59.760 55.000 0.00 0.00 38.63 3.62
3132 3214 1.512156 CGTTAGTGCCGCTTTGGGTT 61.512 55.000 0.00 0.00 38.63 4.11
3133 3215 1.964373 CGTTAGTGCCGCTTTGGGT 60.964 57.895 0.00 0.00 38.63 4.51
3134 3216 0.671163 TACGTTAGTGCCGCTTTGGG 60.671 55.000 0.00 0.00 38.63 4.12
3135 3217 1.062002 CATACGTTAGTGCCGCTTTGG 59.938 52.381 0.00 0.00 42.50 3.28
3136 3218 1.062002 CCATACGTTAGTGCCGCTTTG 59.938 52.381 0.00 0.00 0.00 2.77
3137 3219 1.365699 CCATACGTTAGTGCCGCTTT 58.634 50.000 0.00 0.00 0.00 3.51
3138 3220 0.461339 CCCATACGTTAGTGCCGCTT 60.461 55.000 0.00 0.00 0.00 4.68
3139 3221 1.143183 CCCATACGTTAGTGCCGCT 59.857 57.895 0.00 0.00 0.00 5.52
3140 3222 1.885850 CCCCATACGTTAGTGCCGC 60.886 63.158 0.00 0.00 0.00 6.53
3141 3223 0.529119 GTCCCCATACGTTAGTGCCG 60.529 60.000 0.00 0.00 0.00 5.69
3142 3224 0.538118 TGTCCCCATACGTTAGTGCC 59.462 55.000 0.00 0.00 0.00 5.01
3143 3225 1.472728 CCTGTCCCCATACGTTAGTGC 60.473 57.143 0.00 0.00 0.00 4.40
3144 3226 1.472728 GCCTGTCCCCATACGTTAGTG 60.473 57.143 0.00 0.00 0.00 2.74
3145 3227 0.828677 GCCTGTCCCCATACGTTAGT 59.171 55.000 0.00 0.00 0.00 2.24
3146 3228 0.828022 TGCCTGTCCCCATACGTTAG 59.172 55.000 0.00 0.00 0.00 2.34
3147 3229 1.502690 ATGCCTGTCCCCATACGTTA 58.497 50.000 0.00 0.00 0.00 3.18
3148 3230 1.140252 GTATGCCTGTCCCCATACGTT 59.860 52.381 0.00 0.00 35.83 3.99
3149 3231 0.756903 GTATGCCTGTCCCCATACGT 59.243 55.000 0.00 0.00 35.83 3.57
3150 3232 0.756294 TGTATGCCTGTCCCCATACG 59.244 55.000 0.00 0.00 44.12 3.06
3151 3233 2.371841 TCATGTATGCCTGTCCCCATAC 59.628 50.000 0.00 0.00 42.46 2.39
3152 3234 2.700354 TCATGTATGCCTGTCCCCATA 58.300 47.619 0.00 0.00 0.00 2.74
3153 3235 1.521764 TCATGTATGCCTGTCCCCAT 58.478 50.000 0.00 0.00 0.00 4.00
3154 3236 1.294041 TTCATGTATGCCTGTCCCCA 58.706 50.000 0.00 0.00 0.00 4.96
3155 3237 2.158623 TGATTCATGTATGCCTGTCCCC 60.159 50.000 0.00 0.00 0.00 4.81
3156 3238 3.213206 TGATTCATGTATGCCTGTCCC 57.787 47.619 0.00 0.00 0.00 4.46
3157 3239 6.183360 CGATATTGATTCATGTATGCCTGTCC 60.183 42.308 0.00 0.00 0.00 4.02
3158 3240 6.591448 TCGATATTGATTCATGTATGCCTGTC 59.409 38.462 0.00 0.00 0.00 3.51
3159 3241 6.466812 TCGATATTGATTCATGTATGCCTGT 58.533 36.000 0.00 0.00 0.00 4.00
3160 3242 6.973229 TCGATATTGATTCATGTATGCCTG 57.027 37.500 0.00 0.00 0.00 4.85
3161 3243 6.091305 CGTTCGATATTGATTCATGTATGCCT 59.909 38.462 0.00 0.00 0.00 4.75
3162 3244 6.128553 ACGTTCGATATTGATTCATGTATGCC 60.129 38.462 0.00 0.00 0.00 4.40
3163 3245 6.733725 CACGTTCGATATTGATTCATGTATGC 59.266 38.462 0.00 0.00 0.00 3.14
3164 3246 7.787084 ACACGTTCGATATTGATTCATGTATG 58.213 34.615 0.00 0.00 0.00 2.39
3165 3247 7.946655 ACACGTTCGATATTGATTCATGTAT 57.053 32.000 0.00 0.00 0.00 2.29
3166 3248 7.389603 GACACGTTCGATATTGATTCATGTA 57.610 36.000 0.00 0.00 0.00 2.29
3167 3249 6.274001 GACACGTTCGATATTGATTCATGT 57.726 37.500 0.00 0.00 0.00 3.21
3182 3264 2.658707 GCTGCTGACCGACACGTTC 61.659 63.158 0.00 0.00 0.00 3.95
3183 3265 2.661866 GCTGCTGACCGACACGTT 60.662 61.111 0.00 0.00 0.00 3.99
3186 3268 3.406361 CACGCTGCTGACCGACAC 61.406 66.667 0.00 0.00 0.00 3.67
3187 3269 3.911698 ACACGCTGCTGACCGACA 61.912 61.111 0.00 0.00 0.00 4.35
3188 3270 3.406361 CACACGCTGCTGACCGAC 61.406 66.667 0.00 0.00 0.00 4.79
3189 3271 2.434658 ATTCACACGCTGCTGACCGA 62.435 55.000 0.00 0.00 0.00 4.69
3190 3272 1.959899 GATTCACACGCTGCTGACCG 61.960 60.000 0.00 0.00 0.00 4.79
3191 3273 1.639298 GGATTCACACGCTGCTGACC 61.639 60.000 0.00 0.00 0.00 4.02
3192 3274 1.790387 GGATTCACACGCTGCTGAC 59.210 57.895 0.00 0.00 0.00 3.51
3193 3275 1.737735 CGGATTCACACGCTGCTGA 60.738 57.895 0.00 0.00 0.00 4.26
3194 3276 2.743752 CCGGATTCACACGCTGCTG 61.744 63.158 0.00 0.00 0.00 4.41
3195 3277 2.434884 CCGGATTCACACGCTGCT 60.435 61.111 0.00 0.00 0.00 4.24
3196 3278 3.499737 CCCGGATTCACACGCTGC 61.500 66.667 0.73 0.00 0.00 5.25
3197 3279 3.499737 GCCCGGATTCACACGCTG 61.500 66.667 0.73 0.00 0.00 5.18
3198 3280 3.706373 AGCCCGGATTCACACGCT 61.706 61.111 0.73 0.00 0.00 5.07
3199 3281 2.845752 TACAGCCCGGATTCACACGC 62.846 60.000 0.73 0.00 0.00 5.34
3200 3282 0.806102 CTACAGCCCGGATTCACACG 60.806 60.000 0.73 0.00 0.00 4.49
3201 3283 1.090052 GCTACAGCCCGGATTCACAC 61.090 60.000 0.73 0.00 34.31 3.82
3202 3284 1.220749 GCTACAGCCCGGATTCACA 59.779 57.895 0.73 0.00 34.31 3.58
3203 3285 1.090052 GTGCTACAGCCCGGATTCAC 61.090 60.000 0.73 0.00 41.18 3.18
3204 3286 1.220749 GTGCTACAGCCCGGATTCA 59.779 57.895 0.73 0.00 41.18 2.57
3205 3287 0.811616 CAGTGCTACAGCCCGGATTC 60.812 60.000 0.73 0.00 41.18 2.52
3206 3288 1.221840 CAGTGCTACAGCCCGGATT 59.778 57.895 0.73 0.00 41.18 3.01
3207 3289 2.735772 CCAGTGCTACAGCCCGGAT 61.736 63.158 0.73 0.00 41.18 4.18
3208 3290 3.390521 CCAGTGCTACAGCCCGGA 61.391 66.667 0.73 0.00 41.18 5.14
3209 3291 4.473520 CCCAGTGCTACAGCCCGG 62.474 72.222 0.00 0.00 41.18 5.73


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

AutoCloner maintained by Alex Coulton.