Multiple sequence alignment - TraesCS4A01G335100

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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 TraesCS4A01G335100 chr4A 100.000 3251 0 0 1 3251 617933013 617929763 0.000000e+00 6004.0
1 TraesCS4A01G335100 chr4A 97.344 2937 71 5 1 2934 621426049 621423117 0.000000e+00 4985.0
2 TraesCS4A01G335100 chr4A 86.471 340 37 6 2599 2936 685740791 685741123 6.630000e-97 364.0
3 TraesCS4A01G335100 chr4A 97.156 211 6 0 3003 3213 617279526 617279316 1.110000e-94 357.0
4 TraesCS4A01G335100 chr7B 95.439 2938 127 6 1 2935 37118439 37115506 0.000000e+00 4676.0
5 TraesCS4A01G335100 chr7B 97.044 2131 60 3 806 2935 23301890 23304018 0.000000e+00 3583.0
6 TraesCS4A01G335100 chr7B 95.939 197 8 0 3016 3212 634230580 634230776 1.460000e-83 320.0
7 TraesCS4A01G335100 chr7B 94.444 198 11 0 3016 3213 634140714 634140911 4.080000e-79 305.0
8 TraesCS4A01G335100 chr2B 96.106 1695 60 5 1 1691 34337069 34338761 0.000000e+00 2760.0
9 TraesCS4A01G335100 chr2B 93.286 283 16 2 2933 3213 631218017 631218298 6.490000e-112 414.0
10 TraesCS4A01G335100 chr2B 87.121 264 30 2 55 317 123450661 123450921 2.450000e-76 296.0
11 TraesCS4A01G335100 chr3B 83.850 2260 344 20 431 2680 782021611 782023859 0.000000e+00 2132.0
12 TraesCS4A01G335100 chr5A 83.775 2262 343 22 431 2680 315534549 315536798 0.000000e+00 2122.0
13 TraesCS4A01G335100 chr5A 95.357 280 11 1 2933 3210 568131716 568131995 8.280000e-121 444.0
14 TraesCS4A01G335100 chr5A 86.982 338 35 7 2599 2934 146499563 146499893 3.960000e-99 372.0
15 TraesCS4A01G335100 chr5A 86.391 338 37 7 2599 2934 94097069 94096739 8.570000e-96 361.0
16 TraesCS4A01G335100 chr2D 83.731 2262 340 23 431 2680 355481316 355483561 0.000000e+00 2113.0
17 TraesCS4A01G335100 chr2D 89.753 283 14 2 2933 3213 649512643 649512912 6.680000e-92 348.0
18 TraesCS4A01G335100 chr2D 92.500 40 3 0 2941 2980 536537777 536537738 1.260000e-04 58.4
19 TraesCS4A01G335100 chr7D 83.261 2306 361 23 384 2676 23562107 23564400 0.000000e+00 2097.0
20 TraesCS4A01G335100 chr7D 83.225 2307 360 25 384 2676 14171986 14169693 0.000000e+00 2091.0
21 TraesCS4A01G335100 chr7D 86.438 553 55 11 1 545 20261071 20260531 3.610000e-164 588.0
22 TraesCS4A01G335100 chr7D 92.014 288 16 4 2933 3213 550236530 550236243 6.540000e-107 398.0
23 TraesCS4A01G335100 chr1A 93.552 1008 42 4 3 999 555695222 555696217 0.000000e+00 1480.0
24 TraesCS4A01G335100 chrUn 86.799 553 53 11 1 545 28691209 28690669 1.670000e-167 599.0
25 TraesCS4A01G335100 chr3D 86.823 554 52 12 1 545 124503634 124503093 1.670000e-167 599.0
26 TraesCS4A01G335100 chr6A 86.618 553 54 11 1 545 20866729 20867269 7.770000e-166 593.0
27 TraesCS4A01G335100 chr6A 86.527 334 39 3 2599 2931 20867272 20867600 2.380000e-96 363.0
28 TraesCS4A01G335100 chr5B 85.199 554 61 12 1 545 655857404 655856863 1.710000e-152 549.0
29 TraesCS4A01G335100 chr5B 92.994 157 11 0 3057 3213 14502929 14502773 2.520000e-56 230.0
30 TraesCS4A01G335100 chr5B 93.333 75 5 0 2933 3007 14503017 14502943 9.530000e-21 111.0
31 TraesCS4A01G335100 chr4B 91.549 284 21 2 2933 3213 615567823 615568106 3.930000e-104 388.0
32 TraesCS4A01G335100 chr3A 87.613 331 32 6 2606 2934 11024113 11024436 3.060000e-100 375.0
33 TraesCS4A01G335100 chr3A 89.895 287 14 2 2933 3217 644786032 644785759 3.990000e-94 355.0
34 TraesCS4A01G335100 chr7A 86.431 339 34 8 2599 2934 193382122 193381793 8.570000e-96 361.0


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 TraesCS4A01G335100 chr4A 617929763 617933013 3250 True 6004 6004 100.0000 1 3251 1 chr4A.!!$R2 3250
1 TraesCS4A01G335100 chr4A 621423117 621426049 2932 True 4985 4985 97.3440 1 2934 1 chr4A.!!$R3 2933
2 TraesCS4A01G335100 chr7B 37115506 37118439 2933 True 4676 4676 95.4390 1 2935 1 chr7B.!!$R1 2934
3 TraesCS4A01G335100 chr7B 23301890 23304018 2128 False 3583 3583 97.0440 806 2935 1 chr7B.!!$F1 2129
4 TraesCS4A01G335100 chr2B 34337069 34338761 1692 False 2760 2760 96.1060 1 1691 1 chr2B.!!$F1 1690
5 TraesCS4A01G335100 chr3B 782021611 782023859 2248 False 2132 2132 83.8500 431 2680 1 chr3B.!!$F1 2249
6 TraesCS4A01G335100 chr5A 315534549 315536798 2249 False 2122 2122 83.7750 431 2680 1 chr5A.!!$F2 2249
7 TraesCS4A01G335100 chr2D 355481316 355483561 2245 False 2113 2113 83.7310 431 2680 1 chr2D.!!$F1 2249
8 TraesCS4A01G335100 chr7D 23562107 23564400 2293 False 2097 2097 83.2610 384 2676 1 chr7D.!!$F1 2292
9 TraesCS4A01G335100 chr7D 14169693 14171986 2293 True 2091 2091 83.2250 384 2676 1 chr7D.!!$R1 2292
10 TraesCS4A01G335100 chr7D 20260531 20261071 540 True 588 588 86.4380 1 545 1 chr7D.!!$R2 544
11 TraesCS4A01G335100 chr1A 555695222 555696217 995 False 1480 1480 93.5520 3 999 1 chr1A.!!$F1 996
12 TraesCS4A01G335100 chrUn 28690669 28691209 540 True 599 599 86.7990 1 545 1 chrUn.!!$R1 544
13 TraesCS4A01G335100 chr3D 124503093 124503634 541 True 599 599 86.8230 1 545 1 chr3D.!!$R1 544
14 TraesCS4A01G335100 chr6A 20866729 20867600 871 False 478 593 86.5725 1 2931 2 chr6A.!!$F1 2930
15 TraesCS4A01G335100 chr5B 655856863 655857404 541 True 549 549 85.1990 1 545 1 chr5B.!!$R1 544

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
349 369 2.194859 ACCTGCTGAGAATGAGACCAT 58.805 47.619 0.0 0.0 33.66 3.55 F
946 976 4.105486 GCATAATTTGGCTTTTCGAGGAC 58.895 43.478 0.0 0.0 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1855 1889 3.142174 ACTCAAGCTGCAACTTCTTACC 58.858 45.455 0.0 0.0 0.00 2.85 R
2939 2979 0.398381 GAGAGGAGCAGACCTGGGAT 60.398 60.000 0.0 0.0 40.73 3.85 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
37 41 4.707448 AGTAGAGTCCGATCTGTTGTTGAT 59.293 41.667 0.00 0.00 0.00 2.57
74 82 6.348868 GGACTTCTTGTTCCTTGATGATTGAC 60.349 42.308 0.00 0.00 0.00 3.18
272 292 5.591472 AGCTATGCATAAATTTGCTGTGAGA 59.409 36.000 14.60 0.00 43.18 3.27
349 369 2.194859 ACCTGCTGAGAATGAGACCAT 58.805 47.619 0.00 0.00 33.66 3.55
368 388 5.410067 ACCATAATTGAGGAAAACAATGCG 58.590 37.500 5.14 0.00 37.89 4.73
428 453 4.216257 CCTACAAGTGTTGATGAACAAGGG 59.784 45.833 0.00 0.00 43.77 3.95
456 481 7.546250 TCTCCTTTTGATATCTATGACCCTC 57.454 40.000 3.98 0.00 0.00 4.30
459 484 6.015350 TCCTTTTGATATCTATGACCCTCGAC 60.015 42.308 3.98 0.00 0.00 4.20
766 796 7.118971 AGCTCAAACTTCATGAGAATAGTGTTC 59.881 37.037 7.67 0.00 45.74 3.18
847 877 6.656270 TGTGACAATTGATAAAGATCTGCAGT 59.344 34.615 14.67 0.42 32.79 4.40
861 891 6.985117 AGATCTGCAGTAAGAAATTGCAAAA 58.015 32.000 14.67 0.00 46.08 2.44
946 976 4.105486 GCATAATTTGGCTTTTCGAGGAC 58.895 43.478 0.00 0.00 0.00 3.85
1176 1207 8.034313 AGGATGCCAAGTATTTCTCTGTTATA 57.966 34.615 0.00 0.00 0.00 0.98
1870 1904 0.796927 GGTCGGTAAGAAGTTGCAGC 59.203 55.000 0.00 0.00 0.00 5.25
1871 1905 1.608283 GGTCGGTAAGAAGTTGCAGCT 60.608 52.381 0.00 0.00 0.00 4.24
1961 1996 4.155826 CAGAAATGACGGCTTTACATCCAA 59.844 41.667 0.00 0.00 0.00 3.53
2008 2043 5.658634 GCATCTGACATGGATATAGACCCTA 59.341 44.000 0.00 0.00 0.00 3.53
2442 2477 3.818210 TGCTATCCAAACGTGTCAATTGT 59.182 39.130 5.13 0.00 0.00 2.71
2485 2520 0.807667 CTGTGACGGTAGCATCAGCC 60.808 60.000 0.00 0.00 43.56 4.85
2576 2612 5.662456 TGAATGGATTGGCAATATGTTGTG 58.338 37.500 13.65 0.00 37.65 3.33
2668 2708 2.636830 AGGAGCCGTTTCTCATGATTG 58.363 47.619 0.00 0.00 34.84 2.67
2953 2993 3.318191 AGCATCCCAGGTCTGCTC 58.682 61.111 7.10 0.00 42.35 4.26
2954 2994 2.191641 GCATCCCAGGTCTGCTCC 59.808 66.667 3.67 0.00 33.15 4.70
2955 2995 2.373707 GCATCCCAGGTCTGCTCCT 61.374 63.158 3.67 0.00 38.51 3.69
2956 2996 1.828768 CATCCCAGGTCTGCTCCTC 59.171 63.158 0.00 0.00 35.37 3.71
2957 2997 0.690411 CATCCCAGGTCTGCTCCTCT 60.690 60.000 0.00 0.00 35.37 3.69
2958 2998 0.398381 ATCCCAGGTCTGCTCCTCTC 60.398 60.000 0.00 0.00 35.37 3.20
2959 2999 1.305633 CCCAGGTCTGCTCCTCTCA 60.306 63.158 0.00 0.00 35.37 3.27
2960 3000 0.690411 CCCAGGTCTGCTCCTCTCAT 60.690 60.000 0.00 0.00 35.37 2.90
2961 3001 1.412217 CCCAGGTCTGCTCCTCTCATA 60.412 57.143 0.00 0.00 35.37 2.15
2962 3002 1.962807 CCAGGTCTGCTCCTCTCATAG 59.037 57.143 0.00 0.00 35.37 2.23
2963 3003 1.340889 CAGGTCTGCTCCTCTCATAGC 59.659 57.143 0.00 0.00 39.25 2.97
2964 3004 1.063341 AGGTCTGCTCCTCTCATAGCA 60.063 52.381 0.00 0.00 46.11 3.49
2968 3008 1.028130 TGCTCCTCTCATAGCAGTCG 58.972 55.000 0.00 0.00 43.56 4.18
2969 3009 1.028905 GCTCCTCTCATAGCAGTCGT 58.971 55.000 0.00 0.00 38.63 4.34
2970 3010 1.268999 GCTCCTCTCATAGCAGTCGTG 60.269 57.143 0.00 0.00 38.63 4.35
2971 3011 1.336440 CTCCTCTCATAGCAGTCGTGG 59.664 57.143 0.00 0.00 0.00 4.94
2972 3012 0.249238 CCTCTCATAGCAGTCGTGGC 60.249 60.000 0.00 0.00 0.00 5.01
2973 3013 0.743688 CTCTCATAGCAGTCGTGGCT 59.256 55.000 0.00 0.00 45.18 4.75
2974 3014 1.135915 CTCTCATAGCAGTCGTGGCTT 59.864 52.381 3.82 0.00 42.62 4.35
2975 3015 1.135139 TCTCATAGCAGTCGTGGCTTC 59.865 52.381 3.82 0.00 42.62 3.86
2976 3016 1.135915 CTCATAGCAGTCGTGGCTTCT 59.864 52.381 3.82 0.00 42.62 2.85
2977 3017 1.550524 TCATAGCAGTCGTGGCTTCTT 59.449 47.619 3.82 0.00 42.62 2.52
2978 3018 1.929836 CATAGCAGTCGTGGCTTCTTC 59.070 52.381 3.82 0.00 42.62 2.87
2979 3019 1.257743 TAGCAGTCGTGGCTTCTTCT 58.742 50.000 3.82 0.00 42.62 2.85
2980 3020 0.037790 AGCAGTCGTGGCTTCTTCTC 60.038 55.000 0.00 0.00 38.81 2.87
2981 3021 0.037790 GCAGTCGTGGCTTCTTCTCT 60.038 55.000 0.00 0.00 0.00 3.10
2982 3022 1.989430 CAGTCGTGGCTTCTTCTCTC 58.011 55.000 0.00 0.00 0.00 3.20
2983 3023 0.892063 AGTCGTGGCTTCTTCTCTCC 59.108 55.000 0.00 0.00 0.00 3.71
2984 3024 0.456995 GTCGTGGCTTCTTCTCTCCG 60.457 60.000 0.00 0.00 0.00 4.63
2985 3025 1.153745 CGTGGCTTCTTCTCTCCGG 60.154 63.158 0.00 0.00 0.00 5.14
2986 3026 1.448717 GTGGCTTCTTCTCTCCGGC 60.449 63.158 0.00 0.00 0.00 6.13
2987 3027 1.913262 TGGCTTCTTCTCTCCGGCA 60.913 57.895 0.00 0.00 0.00 5.69
2988 3028 1.296715 GGCTTCTTCTCTCCGGCAA 59.703 57.895 0.00 0.00 0.00 4.52
2989 3029 1.021920 GGCTTCTTCTCTCCGGCAAC 61.022 60.000 0.00 0.00 0.00 4.17
2990 3030 0.320771 GCTTCTTCTCTCCGGCAACA 60.321 55.000 0.00 0.00 0.00 3.33
2991 3031 1.719600 CTTCTTCTCTCCGGCAACAG 58.280 55.000 0.00 0.00 0.00 3.16
2992 3032 1.001406 CTTCTTCTCTCCGGCAACAGT 59.999 52.381 0.00 0.00 0.00 3.55
2993 3033 0.318441 TCTTCTCTCCGGCAACAGTG 59.682 55.000 0.00 0.00 0.00 3.66
2994 3034 0.671781 CTTCTCTCCGGCAACAGTGG 60.672 60.000 0.00 0.00 0.00 4.00
2995 3035 2.046892 CTCTCCGGCAACAGTGGG 60.047 66.667 0.00 0.00 0.00 4.61
2996 3036 2.847234 TCTCCGGCAACAGTGGGT 60.847 61.111 0.00 0.00 0.00 4.51
2997 3037 2.113139 CTCCGGCAACAGTGGGTT 59.887 61.111 0.00 0.00 41.47 4.11
2998 3038 1.966451 CTCCGGCAACAGTGGGTTC 60.966 63.158 0.00 0.00 37.72 3.62
2999 3039 2.203280 CCGGCAACAGTGGGTTCA 60.203 61.111 0.00 0.00 37.72 3.18
3000 3040 1.603455 CCGGCAACAGTGGGTTCAT 60.603 57.895 0.00 0.00 37.72 2.57
3001 3041 1.586154 CCGGCAACAGTGGGTTCATC 61.586 60.000 0.00 0.00 37.72 2.92
3002 3042 0.606401 CGGCAACAGTGGGTTCATCT 60.606 55.000 0.00 0.00 37.72 2.90
3003 3043 0.883833 GGCAACAGTGGGTTCATCTG 59.116 55.000 0.00 0.00 37.72 2.90
3004 3044 1.609208 GCAACAGTGGGTTCATCTGT 58.391 50.000 0.00 0.00 43.04 3.41
3005 3045 1.267806 GCAACAGTGGGTTCATCTGTG 59.732 52.381 0.00 0.00 41.37 3.66
3006 3046 2.575532 CAACAGTGGGTTCATCTGTGT 58.424 47.619 0.00 0.00 41.37 3.72
3007 3047 3.738982 CAACAGTGGGTTCATCTGTGTA 58.261 45.455 0.00 0.00 41.37 2.90
3008 3048 4.326826 CAACAGTGGGTTCATCTGTGTAT 58.673 43.478 0.00 0.00 41.37 2.29
3009 3049 3.942829 ACAGTGGGTTCATCTGTGTATG 58.057 45.455 0.00 0.00 40.29 2.39
3010 3050 3.273434 CAGTGGGTTCATCTGTGTATGG 58.727 50.000 0.00 0.00 0.00 2.74
3011 3051 2.017049 GTGGGTTCATCTGTGTATGGC 58.983 52.381 0.00 0.00 0.00 4.40
3012 3052 1.632920 TGGGTTCATCTGTGTATGGCA 59.367 47.619 0.00 0.00 0.00 4.92
3013 3053 2.241941 TGGGTTCATCTGTGTATGGCAT 59.758 45.455 4.88 4.88 0.00 4.40
3014 3054 3.290710 GGGTTCATCTGTGTATGGCATT 58.709 45.455 4.78 0.00 0.00 3.56
3015 3055 4.080072 TGGGTTCATCTGTGTATGGCATTA 60.080 41.667 4.78 0.00 0.00 1.90
3016 3056 4.516698 GGGTTCATCTGTGTATGGCATTAG 59.483 45.833 4.78 0.00 0.00 1.73
3017 3057 5.126067 GGTTCATCTGTGTATGGCATTAGT 58.874 41.667 4.78 0.00 0.00 2.24
3018 3058 6.288294 GGTTCATCTGTGTATGGCATTAGTA 58.712 40.000 4.78 0.00 0.00 1.82
3019 3059 6.936900 GGTTCATCTGTGTATGGCATTAGTAT 59.063 38.462 4.78 0.00 0.00 2.12
3020 3060 7.095060 GGTTCATCTGTGTATGGCATTAGTATG 60.095 40.741 4.78 3.35 34.76 2.39
3042 3082 2.589798 CCAATGATGGTTGTGGCATC 57.410 50.000 0.00 0.00 42.18 3.91
3043 3083 1.202325 CCAATGATGGTTGTGGCATCG 60.202 52.381 0.00 0.00 42.18 3.84
3044 3084 1.473677 CAATGATGGTTGTGGCATCGT 59.526 47.619 0.00 0.00 0.00 3.73
3045 3085 1.838112 ATGATGGTTGTGGCATCGTT 58.162 45.000 0.00 0.00 0.00 3.85
3046 3086 0.880441 TGATGGTTGTGGCATCGTTG 59.120 50.000 0.00 0.00 0.00 4.10
3047 3087 0.171007 GATGGTTGTGGCATCGTTGG 59.829 55.000 0.00 0.00 0.00 3.77
3055 3095 4.539152 GCATCGTTGGCAAGTGTG 57.461 55.556 0.00 0.46 0.00 3.82
3056 3096 1.081242 GCATCGTTGGCAAGTGTGG 60.081 57.895 0.00 0.00 0.00 4.17
3057 3097 1.795170 GCATCGTTGGCAAGTGTGGT 61.795 55.000 0.00 0.00 0.00 4.16
3058 3098 0.040157 CATCGTTGGCAAGTGTGGTG 60.040 55.000 0.00 0.00 0.00 4.17
3059 3099 0.465460 ATCGTTGGCAAGTGTGGTGT 60.465 50.000 0.00 0.00 0.00 4.16
3060 3100 1.063972 CGTTGGCAAGTGTGGTGTG 59.936 57.895 0.00 0.00 0.00 3.82
3061 3101 1.437160 GTTGGCAAGTGTGGTGTGG 59.563 57.895 0.00 0.00 0.00 4.17
3062 3102 2.422231 TTGGCAAGTGTGGTGTGGC 61.422 57.895 0.00 0.00 38.26 5.01
3063 3103 3.605664 GGCAAGTGTGGTGTGGCC 61.606 66.667 0.00 0.00 37.90 5.36
3064 3104 2.519302 GCAAGTGTGGTGTGGCCT 60.519 61.111 3.32 0.00 38.35 5.19
3065 3105 2.127232 GCAAGTGTGGTGTGGCCTT 61.127 57.895 3.32 0.00 38.35 4.35
3066 3106 1.735360 CAAGTGTGGTGTGGCCTTG 59.265 57.895 3.32 0.00 38.35 3.61
3067 3107 1.037030 CAAGTGTGGTGTGGCCTTGT 61.037 55.000 3.32 0.00 38.35 3.16
3068 3108 1.037030 AAGTGTGGTGTGGCCTTGTG 61.037 55.000 3.32 0.00 38.35 3.33
3069 3109 2.123939 TGTGGTGTGGCCTTGTGG 60.124 61.111 3.32 0.00 38.35 4.17
3070 3110 2.123897 GTGGTGTGGCCTTGTGGT 60.124 61.111 3.32 0.00 38.35 4.16
3071 3111 2.123939 TGGTGTGGCCTTGTGGTG 60.124 61.111 3.32 0.00 38.35 4.17
3072 3112 2.123897 GGTGTGGCCTTGTGGTGT 60.124 61.111 3.32 0.00 35.27 4.16
3073 3113 2.489275 GGTGTGGCCTTGTGGTGTG 61.489 63.158 3.32 0.00 35.27 3.82
3074 3114 2.123939 TGTGGCCTTGTGGTGTGG 60.124 61.111 3.32 0.00 35.27 4.17
3075 3115 3.605664 GTGGCCTTGTGGTGTGGC 61.606 66.667 3.32 0.00 45.42 5.01
3077 3117 4.947147 GGCCTTGTGGTGTGGCGA 62.947 66.667 0.00 0.00 46.97 5.54
3078 3118 2.672996 GCCTTGTGGTGTGGCGAT 60.673 61.111 0.00 0.00 37.11 4.58
3079 3119 2.268076 GCCTTGTGGTGTGGCGATT 61.268 57.895 0.00 0.00 37.11 3.34
3080 3120 1.805428 GCCTTGTGGTGTGGCGATTT 61.805 55.000 0.00 0.00 37.11 2.17
3081 3121 0.039256 CCTTGTGGTGTGGCGATTTG 60.039 55.000 0.00 0.00 0.00 2.32
3082 3122 0.950836 CTTGTGGTGTGGCGATTTGA 59.049 50.000 0.00 0.00 0.00 2.69
3083 3123 0.950836 TTGTGGTGTGGCGATTTGAG 59.049 50.000 0.00 0.00 0.00 3.02
3084 3124 0.179032 TGTGGTGTGGCGATTTGAGT 60.179 50.000 0.00 0.00 0.00 3.41
3085 3125 0.951558 GTGGTGTGGCGATTTGAGTT 59.048 50.000 0.00 0.00 0.00 3.01
3086 3126 0.950836 TGGTGTGGCGATTTGAGTTG 59.049 50.000 0.00 0.00 0.00 3.16
3087 3127 0.240945 GGTGTGGCGATTTGAGTTGG 59.759 55.000 0.00 0.00 0.00 3.77
3088 3128 0.387239 GTGTGGCGATTTGAGTTGGC 60.387 55.000 0.00 0.00 0.00 4.52
3089 3129 0.537143 TGTGGCGATTTGAGTTGGCT 60.537 50.000 0.00 0.00 0.00 4.75
3090 3130 0.598065 GTGGCGATTTGAGTTGGCTT 59.402 50.000 0.00 0.00 0.00 4.35
3091 3131 0.597568 TGGCGATTTGAGTTGGCTTG 59.402 50.000 0.00 0.00 0.00 4.01
3092 3132 0.109132 GGCGATTTGAGTTGGCTTGG 60.109 55.000 0.00 0.00 0.00 3.61
3093 3133 0.733909 GCGATTTGAGTTGGCTTGGC 60.734 55.000 0.00 0.00 0.00 4.52
3111 3151 4.415150 CATGTGGCGAGTGGGGCT 62.415 66.667 0.00 0.00 0.00 5.19
3112 3152 3.650950 ATGTGGCGAGTGGGGCTT 61.651 61.111 0.00 0.00 0.00 4.35
3113 3153 3.925630 ATGTGGCGAGTGGGGCTTG 62.926 63.158 0.00 0.00 0.00 4.01
3125 3165 4.511838 GGCTTGGCCCTGTTTGTA 57.488 55.556 0.00 0.00 44.06 2.41
3126 3166 2.976099 GGCTTGGCCCTGTTTGTAT 58.024 52.632 0.00 0.00 44.06 2.29
3127 3167 0.817654 GGCTTGGCCCTGTTTGTATC 59.182 55.000 0.00 0.00 44.06 2.24
3128 3168 0.451783 GCTTGGCCCTGTTTGTATCG 59.548 55.000 0.00 0.00 0.00 2.92
3129 3169 1.094785 CTTGGCCCTGTTTGTATCGG 58.905 55.000 0.00 0.00 0.00 4.18
3130 3170 0.402504 TTGGCCCTGTTTGTATCGGT 59.597 50.000 0.00 0.00 0.00 4.69
3131 3171 0.402504 TGGCCCTGTTTGTATCGGTT 59.597 50.000 0.00 0.00 0.00 4.44
3132 3172 1.202952 TGGCCCTGTTTGTATCGGTTT 60.203 47.619 0.00 0.00 0.00 3.27
3133 3173 1.890489 GGCCCTGTTTGTATCGGTTTT 59.110 47.619 0.00 0.00 0.00 2.43
3134 3174 2.094906 GGCCCTGTTTGTATCGGTTTTC 60.095 50.000 0.00 0.00 0.00 2.29
3135 3175 2.413634 GCCCTGTTTGTATCGGTTTTCG 60.414 50.000 0.00 0.00 40.90 3.46
3136 3176 2.413634 CCCTGTTTGTATCGGTTTTCGC 60.414 50.000 0.00 0.00 39.05 4.70
3137 3177 2.413634 CCTGTTTGTATCGGTTTTCGCC 60.414 50.000 0.00 0.00 39.05 5.54
3138 3178 1.536331 TGTTTGTATCGGTTTTCGCCC 59.464 47.619 0.00 0.00 39.05 6.13
3139 3179 0.797542 TTTGTATCGGTTTTCGCCCG 59.202 50.000 0.00 0.00 46.83 6.13
3140 3180 1.020333 TTGTATCGGTTTTCGCCCGG 61.020 55.000 0.00 0.00 45.51 5.73
3141 3181 1.448365 GTATCGGTTTTCGCCCGGT 60.448 57.895 0.00 0.00 45.51 5.28
3142 3182 1.020861 GTATCGGTTTTCGCCCGGTT 61.021 55.000 0.00 0.00 45.51 4.44
3143 3183 0.321475 TATCGGTTTTCGCCCGGTTT 60.321 50.000 0.00 0.00 45.51 3.27
3144 3184 1.174078 ATCGGTTTTCGCCCGGTTTT 61.174 50.000 0.00 0.00 45.51 2.43
3145 3185 1.370778 CGGTTTTCGCCCGGTTTTC 60.371 57.895 0.00 0.00 41.78 2.29
3146 3186 1.007038 GGTTTTCGCCCGGTTTTCC 60.007 57.895 0.00 0.00 0.00 3.13
3160 3200 4.100707 GGTTTTCCGTTATTAACTGGGC 57.899 45.455 13.68 0.00 0.00 5.36
3161 3201 3.506844 GGTTTTCCGTTATTAACTGGGCA 59.493 43.478 13.68 3.56 0.00 5.36
3162 3202 4.022155 GGTTTTCCGTTATTAACTGGGCAA 60.022 41.667 13.68 7.60 0.00 4.52
3163 3203 4.769859 TTTCCGTTATTAACTGGGCAAC 57.230 40.909 13.68 0.00 0.00 4.17
3184 3224 9.140286 GGCAACCTTCTTCTTAATTAATGAAAC 57.860 33.333 0.00 0.00 0.00 2.78
3185 3225 8.850452 GCAACCTTCTTCTTAATTAATGAAACG 58.150 33.333 0.00 0.00 0.00 3.60
3186 3226 9.341899 CAACCTTCTTCTTAATTAATGAAACGG 57.658 33.333 0.00 5.74 0.00 4.44
3187 3227 8.051901 ACCTTCTTCTTAATTAATGAAACGGG 57.948 34.615 0.00 8.54 0.00 5.28
3188 3228 6.972901 CCTTCTTCTTAATTAATGAAACGGGC 59.027 38.462 0.00 0.00 0.00 6.13
3189 3229 7.362574 CCTTCTTCTTAATTAATGAAACGGGCA 60.363 37.037 0.00 0.00 0.00 5.36
3190 3230 7.455641 TCTTCTTAATTAATGAAACGGGCAA 57.544 32.000 0.00 0.00 0.00 4.52
3191 3231 7.887381 TCTTCTTAATTAATGAAACGGGCAAA 58.113 30.769 0.00 0.00 0.00 3.68
3192 3232 8.026607 TCTTCTTAATTAATGAAACGGGCAAAG 58.973 33.333 0.00 0.00 0.00 2.77
3193 3233 6.096695 TCTTAATTAATGAAACGGGCAAAGC 58.903 36.000 0.00 0.00 0.00 3.51
3194 3234 4.535526 AATTAATGAAACGGGCAAAGCT 57.464 36.364 0.00 0.00 0.00 3.74
3195 3235 4.535526 ATTAATGAAACGGGCAAAGCTT 57.464 36.364 0.00 0.00 0.00 3.74
3196 3236 2.908688 AATGAAACGGGCAAAGCTTT 57.091 40.000 5.69 5.69 0.00 3.51
3197 3237 2.908688 ATGAAACGGGCAAAGCTTTT 57.091 40.000 9.53 0.00 0.00 2.27
3198 3238 1.933247 TGAAACGGGCAAAGCTTTTG 58.067 45.000 9.53 6.62 0.00 2.44
3210 3250 2.783440 GCTTTTGCCTCGTGTTTCG 58.217 52.632 0.00 0.00 40.15 3.46
3211 3251 0.306533 GCTTTTGCCTCGTGTTTCGA 59.693 50.000 0.00 0.00 42.29 3.71
3212 3252 1.268335 GCTTTTGCCTCGTGTTTCGAA 60.268 47.619 0.00 0.00 41.88 3.71
3213 3253 2.604614 GCTTTTGCCTCGTGTTTCGAAT 60.605 45.455 0.00 0.00 41.88 3.34
3214 3254 4.684120 GCTTTTGCCTCGTGTTTCGAATG 61.684 47.826 0.00 0.00 41.88 2.67
3215 3255 6.830613 GCTTTTGCCTCGTGTTTCGAATGA 62.831 45.833 0.00 0.00 41.88 2.57
3220 3260 2.941891 TCGTGTTTCGAATGAACTGC 57.058 45.000 0.00 0.00 45.98 4.40
3221 3261 2.479837 TCGTGTTTCGAATGAACTGCT 58.520 42.857 0.00 0.00 45.98 4.24
3222 3262 2.220824 TCGTGTTTCGAATGAACTGCTG 59.779 45.455 0.00 0.00 45.98 4.41
3223 3263 2.310577 GTGTTTCGAATGAACTGCTGC 58.689 47.619 0.00 0.00 32.71 5.25
3224 3264 1.946081 TGTTTCGAATGAACTGCTGCA 59.054 42.857 0.88 0.88 32.71 4.41
3225 3265 2.031769 TGTTTCGAATGAACTGCTGCAG 60.032 45.455 27.02 27.02 37.52 4.41
3226 3266 2.168326 TTCGAATGAACTGCTGCAGA 57.832 45.000 34.28 14.20 35.18 4.26
3227 3267 2.391616 TCGAATGAACTGCTGCAGAT 57.608 45.000 34.28 24.19 35.18 2.90
3228 3268 2.274437 TCGAATGAACTGCTGCAGATC 58.726 47.619 34.28 30.32 34.54 2.75
3229 3269 2.004733 CGAATGAACTGCTGCAGATCA 58.995 47.619 34.48 34.48 44.79 2.92
3230 3270 2.417586 CGAATGAACTGCTGCAGATCAA 59.582 45.455 35.47 23.28 44.12 2.57
3231 3271 3.727079 CGAATGAACTGCTGCAGATCAAC 60.727 47.826 35.47 29.54 44.12 3.18
3232 3272 2.556144 TGAACTGCTGCAGATCAACT 57.444 45.000 31.92 10.80 39.62 3.16
3233 3273 2.420642 TGAACTGCTGCAGATCAACTC 58.579 47.619 31.92 19.06 39.62 3.01
3234 3274 2.038164 TGAACTGCTGCAGATCAACTCT 59.962 45.455 31.92 9.41 39.62 3.24
3248 3288 8.140677 CAGATCAACTCTGGTCTTAATGAATC 57.859 38.462 0.00 0.00 40.31 2.52
3249 3289 7.986320 CAGATCAACTCTGGTCTTAATGAATCT 59.014 37.037 0.00 0.00 40.31 2.40
3250 3290 8.547173 AGATCAACTCTGGTCTTAATGAATCTT 58.453 33.333 0.00 0.00 40.31 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 3.125829 CCAAGTCATCAACAACAGATCGG 59.874 47.826 0.00 0.00 0.00 4.18
37 41 2.103153 AGAAGTCCAGGACCAAGTCA 57.897 50.000 16.72 0.00 33.68 3.41
74 82 3.758755 TCAGGCTGCAACTATCCATAG 57.241 47.619 10.34 0.00 36.46 2.23
230 250 2.646798 AGCTCCCTTCTGAGTTCCAATT 59.353 45.455 0.00 0.00 34.74 2.32
349 369 4.511617 TGCGCATTGTTTTCCTCAATTA 57.488 36.364 5.66 0.00 33.92 1.40
368 388 7.041508 CCACTCAAATTTATAGGAGTCTCATGC 60.042 40.741 6.05 0.00 38.48 4.06
428 453 7.875554 GGGTCATAGATATCAAAAGGAGAAGAC 59.124 40.741 5.32 0.00 0.00 3.01
456 481 1.734477 CAAGAGCGTCCCAGTGTCG 60.734 63.158 0.00 0.00 0.00 4.35
459 484 0.249868 TTGTCAAGAGCGTCCCAGTG 60.250 55.000 0.00 0.00 0.00 3.66
660 688 3.054878 CAGACTTGAACAATTTGCAGCC 58.945 45.455 0.00 0.00 0.00 4.85
766 796 8.501580 CCAAGTATTCATGTTAGTGATATGCTG 58.498 37.037 0.00 0.00 0.00 4.41
847 877 6.857964 CGCTCTTTCTCTTTTGCAATTTCTTA 59.142 34.615 0.00 0.00 0.00 2.10
861 891 2.451490 TGTCTCCATCGCTCTTTCTCT 58.549 47.619 0.00 0.00 0.00 3.10
946 976 8.398665 GCTAACTTGGTATAGTTTCTCATTTGG 58.601 37.037 0.00 0.00 39.08 3.28
1105 1136 0.036022 ACACTCTGAGCAAGAAGGCC 59.964 55.000 4.19 0.00 33.37 5.19
1176 1207 5.191727 TCACATCAGGGGTACAATCAAAT 57.808 39.130 0.00 0.00 0.00 2.32
1855 1889 3.142174 ACTCAAGCTGCAACTTCTTACC 58.858 45.455 0.00 0.00 0.00 2.85
1870 1904 7.485913 GGTAACATCAATGCACATAAACTCAAG 59.514 37.037 0.00 0.00 0.00 3.02
1871 1905 7.312154 GGTAACATCAATGCACATAAACTCAA 58.688 34.615 0.00 0.00 0.00 3.02
2141 2176 7.231317 TCAGGGAATTAATTGCAACATCTATCC 59.769 37.037 19.71 5.88 0.00 2.59
2442 2477 7.494625 CAGGCATAGTTAAGAGAATTCGGTAAA 59.505 37.037 0.00 0.00 0.00 2.01
2485 2520 6.252655 ACTTCAATTTTGAAAAACTCCGTTCG 59.747 34.615 7.13 0.00 45.61 3.95
2555 2590 5.680594 ACACAACATATTGCCAATCCATT 57.319 34.783 0.00 0.00 39.66 3.16
2576 2612 5.705441 TGTTATCCAACACATCCTTCTCAAC 59.295 40.000 0.00 0.00 39.75 3.18
2668 2708 1.377856 GAACCTCCAAGCCTCCAGC 60.378 63.158 0.00 0.00 44.25 4.85
2937 2977 2.191641 GGAGCAGACCTGGGATGC 59.808 66.667 15.26 15.26 40.29 3.91
2938 2978 0.690411 AGAGGAGCAGACCTGGGATG 60.690 60.000 0.00 0.00 40.73 3.51
2939 2979 0.398381 GAGAGGAGCAGACCTGGGAT 60.398 60.000 0.00 0.00 40.73 3.85
2940 2980 1.000993 GAGAGGAGCAGACCTGGGA 59.999 63.158 0.00 0.00 40.73 4.37
2941 2981 0.690411 ATGAGAGGAGCAGACCTGGG 60.690 60.000 0.00 0.00 40.73 4.45
2942 2982 1.962807 CTATGAGAGGAGCAGACCTGG 59.037 57.143 1.98 0.00 40.73 4.45
2943 2983 1.340889 GCTATGAGAGGAGCAGACCTG 59.659 57.143 1.98 0.00 40.73 4.00
2944 2984 1.063341 TGCTATGAGAGGAGCAGACCT 60.063 52.381 0.00 0.00 43.64 3.85
2945 2985 1.407936 TGCTATGAGAGGAGCAGACC 58.592 55.000 0.00 0.00 43.64 3.85
2952 2992 1.393603 CCACGACTGCTATGAGAGGA 58.606 55.000 0.00 0.00 0.00 3.71
2953 2993 0.249238 GCCACGACTGCTATGAGAGG 60.249 60.000 0.00 0.00 0.00 3.69
2954 2994 0.743688 AGCCACGACTGCTATGAGAG 59.256 55.000 0.00 0.00 37.28 3.20
2955 2995 1.135139 GAAGCCACGACTGCTATGAGA 59.865 52.381 0.00 0.00 38.34 3.27
2956 2996 1.135915 AGAAGCCACGACTGCTATGAG 59.864 52.381 0.00 0.00 38.34 2.90
2957 2997 1.186200 AGAAGCCACGACTGCTATGA 58.814 50.000 0.00 0.00 38.34 2.15
2958 2998 1.929836 GAAGAAGCCACGACTGCTATG 59.070 52.381 0.00 0.00 38.34 2.23
2959 2999 1.827969 AGAAGAAGCCACGACTGCTAT 59.172 47.619 0.00 0.00 38.34 2.97
2960 3000 1.202582 GAGAAGAAGCCACGACTGCTA 59.797 52.381 0.00 0.00 38.34 3.49
2961 3001 0.037790 GAGAAGAAGCCACGACTGCT 60.038 55.000 0.00 0.00 41.89 4.24
2962 3002 0.037790 AGAGAAGAAGCCACGACTGC 60.038 55.000 0.00 0.00 0.00 4.40
2963 3003 1.403514 GGAGAGAAGAAGCCACGACTG 60.404 57.143 0.00 0.00 0.00 3.51
2964 3004 0.892063 GGAGAGAAGAAGCCACGACT 59.108 55.000 0.00 0.00 0.00 4.18
2965 3005 0.456995 CGGAGAGAAGAAGCCACGAC 60.457 60.000 0.00 0.00 0.00 4.34
2966 3006 1.595993 CCGGAGAGAAGAAGCCACGA 61.596 60.000 0.00 0.00 0.00 4.35
2967 3007 1.153745 CCGGAGAGAAGAAGCCACG 60.154 63.158 0.00 0.00 0.00 4.94
2968 3008 1.448717 GCCGGAGAGAAGAAGCCAC 60.449 63.158 5.05 0.00 0.00 5.01
2969 3009 1.480212 TTGCCGGAGAGAAGAAGCCA 61.480 55.000 5.05 0.00 0.00 4.75
2970 3010 1.021920 GTTGCCGGAGAGAAGAAGCC 61.022 60.000 5.05 0.00 0.00 4.35
2971 3011 0.320771 TGTTGCCGGAGAGAAGAAGC 60.321 55.000 5.05 0.00 0.00 3.86
2972 3012 1.001406 ACTGTTGCCGGAGAGAAGAAG 59.999 52.381 5.05 0.00 0.00 2.85
2973 3013 1.048601 ACTGTTGCCGGAGAGAAGAA 58.951 50.000 5.05 0.00 0.00 2.52
2974 3014 0.318441 CACTGTTGCCGGAGAGAAGA 59.682 55.000 5.05 0.00 0.00 2.87
2975 3015 0.671781 CCACTGTTGCCGGAGAGAAG 60.672 60.000 5.05 0.00 0.00 2.85
2976 3016 1.371183 CCACTGTTGCCGGAGAGAA 59.629 57.895 5.05 0.00 0.00 2.87
2977 3017 2.583441 CCCACTGTTGCCGGAGAGA 61.583 63.158 5.05 0.00 0.00 3.10
2978 3018 2.046892 CCCACTGTTGCCGGAGAG 60.047 66.667 5.05 0.00 0.00 3.20
2979 3019 2.391724 GAACCCACTGTTGCCGGAGA 62.392 60.000 5.05 0.00 37.29 3.71
2980 3020 1.966451 GAACCCACTGTTGCCGGAG 60.966 63.158 5.05 0.00 37.29 4.63
2981 3021 2.063015 ATGAACCCACTGTTGCCGGA 62.063 55.000 5.05 0.00 37.29 5.14
2982 3022 1.586154 GATGAACCCACTGTTGCCGG 61.586 60.000 0.00 0.00 37.29 6.13
2983 3023 0.606401 AGATGAACCCACTGTTGCCG 60.606 55.000 0.00 0.00 37.29 5.69
2984 3024 0.883833 CAGATGAACCCACTGTTGCC 59.116 55.000 0.00 0.00 37.29 4.52
2985 3025 1.267806 CACAGATGAACCCACTGTTGC 59.732 52.381 0.00 0.00 41.93 4.17
2986 3026 2.575532 ACACAGATGAACCCACTGTTG 58.424 47.619 0.00 0.00 41.93 3.33
2987 3027 4.326826 CATACACAGATGAACCCACTGTT 58.673 43.478 0.00 0.00 41.93 3.16
2988 3028 3.307691 CCATACACAGATGAACCCACTGT 60.308 47.826 0.00 0.00 44.15 3.55
2989 3029 3.273434 CCATACACAGATGAACCCACTG 58.727 50.000 0.00 0.00 37.62 3.66
2990 3030 2.356125 GCCATACACAGATGAACCCACT 60.356 50.000 0.00 0.00 0.00 4.00
2991 3031 2.017049 GCCATACACAGATGAACCCAC 58.983 52.381 0.00 0.00 0.00 4.61
2992 3032 1.632920 TGCCATACACAGATGAACCCA 59.367 47.619 0.00 0.00 0.00 4.51
2993 3033 2.418368 TGCCATACACAGATGAACCC 57.582 50.000 0.00 0.00 0.00 4.11
2994 3034 5.126067 ACTAATGCCATACACAGATGAACC 58.874 41.667 0.00 0.00 0.00 3.62
2995 3035 7.800767 CATACTAATGCCATACACAGATGAAC 58.199 38.462 0.00 0.00 0.00 3.18
2996 3036 7.967890 CATACTAATGCCATACACAGATGAA 57.032 36.000 0.00 0.00 0.00 2.57
3011 3051 6.263842 ACAACCATCATTGGAGCATACTAATG 59.736 38.462 0.00 0.00 46.92 1.90
3012 3052 6.263842 CACAACCATCATTGGAGCATACTAAT 59.736 38.462 0.00 0.00 46.92 1.73
3013 3053 5.589855 CACAACCATCATTGGAGCATACTAA 59.410 40.000 0.00 0.00 46.92 2.24
3014 3054 5.125356 CACAACCATCATTGGAGCATACTA 58.875 41.667 0.00 0.00 46.92 1.82
3015 3055 3.949754 CACAACCATCATTGGAGCATACT 59.050 43.478 0.00 0.00 46.92 2.12
3016 3056 3.067180 CCACAACCATCATTGGAGCATAC 59.933 47.826 0.00 0.00 46.92 2.39
3017 3057 3.289836 CCACAACCATCATTGGAGCATA 58.710 45.455 0.00 0.00 46.92 3.14
3018 3058 2.104967 CCACAACCATCATTGGAGCAT 58.895 47.619 0.00 0.00 46.92 3.79
3019 3059 1.548081 CCACAACCATCATTGGAGCA 58.452 50.000 0.00 0.00 46.92 4.26
3020 3060 0.174162 GCCACAACCATCATTGGAGC 59.826 55.000 0.00 0.00 46.92 4.70
3021 3061 1.548081 TGCCACAACCATCATTGGAG 58.452 50.000 0.00 0.00 46.92 3.86
3022 3062 2.101783 GATGCCACAACCATCATTGGA 58.898 47.619 0.00 0.00 46.92 3.53
3024 3064 1.473677 ACGATGCCACAACCATCATTG 59.526 47.619 0.00 0.00 39.17 2.82
3025 3065 1.838112 ACGATGCCACAACCATCATT 58.162 45.000 0.00 0.00 39.17 2.57
3026 3066 1.473677 CAACGATGCCACAACCATCAT 59.526 47.619 0.00 0.00 39.17 2.45
3027 3067 0.880441 CAACGATGCCACAACCATCA 59.120 50.000 0.00 0.00 39.17 3.07
3028 3068 0.171007 CCAACGATGCCACAACCATC 59.829 55.000 0.00 0.00 36.58 3.51
3029 3069 1.876497 GCCAACGATGCCACAACCAT 61.876 55.000 0.00 0.00 0.00 3.55
3030 3070 2.560119 GCCAACGATGCCACAACCA 61.560 57.895 0.00 0.00 0.00 3.67
3031 3071 2.081425 TTGCCAACGATGCCACAACC 62.081 55.000 0.00 0.00 0.00 3.77
3032 3072 0.664166 CTTGCCAACGATGCCACAAC 60.664 55.000 0.00 0.00 0.00 3.32
3033 3073 1.106351 ACTTGCCAACGATGCCACAA 61.106 50.000 0.00 0.00 0.00 3.33
3034 3074 1.528076 ACTTGCCAACGATGCCACA 60.528 52.632 0.00 0.00 0.00 4.17
3035 3075 1.081242 CACTTGCCAACGATGCCAC 60.081 57.895 0.00 0.00 0.00 5.01
3036 3076 1.528076 ACACTTGCCAACGATGCCA 60.528 52.632 0.00 0.00 0.00 4.92
3037 3077 1.081242 CACACTTGCCAACGATGCC 60.081 57.895 0.00 0.00 0.00 4.40
3038 3078 1.081242 CCACACTTGCCAACGATGC 60.081 57.895 0.00 0.00 0.00 3.91
3039 3079 0.040157 CACCACACTTGCCAACGATG 60.040 55.000 0.00 0.00 0.00 3.84
3040 3080 0.465460 ACACCACACTTGCCAACGAT 60.465 50.000 0.00 0.00 0.00 3.73
3041 3081 1.078072 ACACCACACTTGCCAACGA 60.078 52.632 0.00 0.00 0.00 3.85
3042 3082 1.063972 CACACCACACTTGCCAACG 59.936 57.895 0.00 0.00 0.00 4.10
3043 3083 1.437160 CCACACCACACTTGCCAAC 59.563 57.895 0.00 0.00 0.00 3.77
3044 3084 2.422231 GCCACACCACACTTGCCAA 61.422 57.895 0.00 0.00 0.00 4.52
3045 3085 2.832661 GCCACACCACACTTGCCA 60.833 61.111 0.00 0.00 0.00 4.92
3046 3086 3.605664 GGCCACACCACACTTGCC 61.606 66.667 0.00 0.00 38.86 4.52
3047 3087 2.127232 AAGGCCACACCACACTTGC 61.127 57.895 5.01 0.00 43.14 4.01
3048 3088 1.037030 ACAAGGCCACACCACACTTG 61.037 55.000 5.01 0.00 43.14 3.16
3049 3089 1.037030 CACAAGGCCACACCACACTT 61.037 55.000 5.01 0.00 43.14 3.16
3050 3090 1.453745 CACAAGGCCACACCACACT 60.454 57.895 5.01 0.00 43.14 3.55
3051 3091 2.489275 CCACAAGGCCACACCACAC 61.489 63.158 5.01 0.00 43.14 3.82
3052 3092 2.123939 CCACAAGGCCACACCACA 60.124 61.111 5.01 0.00 43.14 4.17
3053 3093 2.123897 ACCACAAGGCCACACCAC 60.124 61.111 5.01 0.00 43.14 4.16
3054 3094 2.123939 CACCACAAGGCCACACCA 60.124 61.111 5.01 0.00 43.14 4.17
3055 3095 2.123897 ACACCACAAGGCCACACC 60.124 61.111 5.01 0.00 39.06 4.16
3056 3096 2.489275 CCACACCACAAGGCCACAC 61.489 63.158 5.01 0.00 39.06 3.82
3057 3097 2.123939 CCACACCACAAGGCCACA 60.124 61.111 5.01 0.00 39.06 4.17
3058 3098 3.605664 GCCACACCACAAGGCCAC 61.606 66.667 5.01 0.00 42.58 5.01
3060 3100 4.947147 TCGCCACACCACAAGGCC 62.947 66.667 0.00 0.00 45.56 5.19
3061 3101 1.805428 AAATCGCCACACCACAAGGC 61.805 55.000 0.00 0.00 44.89 4.35
3062 3102 0.039256 CAAATCGCCACACCACAAGG 60.039 55.000 0.00 0.00 42.21 3.61
3063 3103 0.950836 TCAAATCGCCACACCACAAG 59.049 50.000 0.00 0.00 0.00 3.16
3064 3104 0.950836 CTCAAATCGCCACACCACAA 59.049 50.000 0.00 0.00 0.00 3.33
3065 3105 0.179032 ACTCAAATCGCCACACCACA 60.179 50.000 0.00 0.00 0.00 4.17
3066 3106 0.951558 AACTCAAATCGCCACACCAC 59.048 50.000 0.00 0.00 0.00 4.16
3067 3107 0.950836 CAACTCAAATCGCCACACCA 59.049 50.000 0.00 0.00 0.00 4.17
3068 3108 0.240945 CCAACTCAAATCGCCACACC 59.759 55.000 0.00 0.00 0.00 4.16
3069 3109 0.387239 GCCAACTCAAATCGCCACAC 60.387 55.000 0.00 0.00 0.00 3.82
3070 3110 0.537143 AGCCAACTCAAATCGCCACA 60.537 50.000 0.00 0.00 0.00 4.17
3071 3111 0.598065 AAGCCAACTCAAATCGCCAC 59.402 50.000 0.00 0.00 0.00 5.01
3072 3112 0.597568 CAAGCCAACTCAAATCGCCA 59.402 50.000 0.00 0.00 0.00 5.69
3073 3113 0.109132 CCAAGCCAACTCAAATCGCC 60.109 55.000 0.00 0.00 0.00 5.54
3074 3114 0.733909 GCCAAGCCAACTCAAATCGC 60.734 55.000 0.00 0.00 0.00 4.58
3075 3115 3.406682 GCCAAGCCAACTCAAATCG 57.593 52.632 0.00 0.00 0.00 3.34
3094 3134 3.925630 AAGCCCCACTCGCCACATG 62.926 63.158 0.00 0.00 0.00 3.21
3095 3135 3.650950 AAGCCCCACTCGCCACAT 61.651 61.111 0.00 0.00 0.00 3.21
3096 3136 4.641645 CAAGCCCCACTCGCCACA 62.642 66.667 0.00 0.00 0.00 4.17
3109 3149 0.451783 CGATACAAACAGGGCCAAGC 59.548 55.000 6.18 0.00 0.00 4.01
3110 3150 1.094785 CCGATACAAACAGGGCCAAG 58.905 55.000 6.18 0.00 0.00 3.61
3111 3151 0.402504 ACCGATACAAACAGGGCCAA 59.597 50.000 6.18 0.00 0.00 4.52
3112 3152 0.402504 AACCGATACAAACAGGGCCA 59.597 50.000 6.18 0.00 0.00 5.36
3113 3153 1.541379 AAACCGATACAAACAGGGCC 58.459 50.000 0.00 0.00 0.00 5.80
3114 3154 2.413634 CGAAAACCGATACAAACAGGGC 60.414 50.000 0.00 0.00 41.76 5.19
3115 3155 2.413634 GCGAAAACCGATACAAACAGGG 60.414 50.000 0.00 0.00 41.76 4.45
3116 3156 2.413634 GGCGAAAACCGATACAAACAGG 60.414 50.000 0.00 0.00 41.76 4.00
3117 3157 2.413634 GGGCGAAAACCGATACAAACAG 60.414 50.000 0.00 0.00 41.76 3.16
3118 3158 1.536331 GGGCGAAAACCGATACAAACA 59.464 47.619 0.00 0.00 41.76 2.83
3119 3159 2.251869 GGGCGAAAACCGATACAAAC 57.748 50.000 0.00 0.00 41.76 2.93
3128 3168 1.007038 GGAAAACCGGGCGAAAACC 60.007 57.895 6.32 0.00 0.00 3.27
3129 3169 1.370778 CGGAAAACCGGGCGAAAAC 60.371 57.895 6.32 0.00 0.00 2.43
3130 3170 1.382692 AACGGAAAACCGGGCGAAAA 61.383 50.000 6.32 0.00 37.53 2.29
3131 3171 0.533755 TAACGGAAAACCGGGCGAAA 60.534 50.000 6.32 0.00 37.53 3.46
3132 3172 0.321475 ATAACGGAAAACCGGGCGAA 60.321 50.000 6.32 0.00 37.53 4.70
3133 3173 0.321475 AATAACGGAAAACCGGGCGA 60.321 50.000 6.32 0.00 37.53 5.54
3134 3174 1.367659 TAATAACGGAAAACCGGGCG 58.632 50.000 6.32 0.00 37.53 6.13
3135 3175 2.749076 AGTTAATAACGGAAAACCGGGC 59.251 45.455 6.32 0.00 37.53 6.13
3136 3176 3.127376 CCAGTTAATAACGGAAAACCGGG 59.873 47.826 6.32 0.00 37.53 5.73
3137 3177 3.127376 CCCAGTTAATAACGGAAAACCGG 59.873 47.826 13.05 0.00 37.53 5.28
3138 3178 3.426560 GCCCAGTTAATAACGGAAAACCG 60.427 47.826 13.03 7.12 36.23 4.44
3139 3179 3.506844 TGCCCAGTTAATAACGGAAAACC 59.493 43.478 13.03 0.00 36.23 3.27
3140 3180 4.769859 TGCCCAGTTAATAACGGAAAAC 57.230 40.909 13.03 3.94 36.23 2.43
3141 3181 4.022155 GGTTGCCCAGTTAATAACGGAAAA 60.022 41.667 13.03 6.49 36.23 2.29
3142 3182 3.506844 GGTTGCCCAGTTAATAACGGAAA 59.493 43.478 13.03 2.10 36.23 3.13
3143 3183 3.083293 GGTTGCCCAGTTAATAACGGAA 58.917 45.455 13.03 0.00 36.23 4.30
3144 3184 2.306512 AGGTTGCCCAGTTAATAACGGA 59.693 45.455 13.03 0.00 36.23 4.69
3145 3185 2.718563 AGGTTGCCCAGTTAATAACGG 58.281 47.619 0.00 2.81 36.23 4.44
3146 3186 4.007659 AGAAGGTTGCCCAGTTAATAACG 58.992 43.478 0.00 0.00 36.23 3.18
3147 3187 5.710567 AGAAGAAGGTTGCCCAGTTAATAAC 59.289 40.000 0.00 0.00 0.00 1.89
3148 3188 5.887754 AGAAGAAGGTTGCCCAGTTAATAA 58.112 37.500 0.00 0.00 0.00 1.40
3149 3189 5.514500 AGAAGAAGGTTGCCCAGTTAATA 57.486 39.130 0.00 0.00 0.00 0.98
3150 3190 4.388577 AGAAGAAGGTTGCCCAGTTAAT 57.611 40.909 0.00 0.00 0.00 1.40
3151 3191 3.876309 AGAAGAAGGTTGCCCAGTTAA 57.124 42.857 0.00 0.00 0.00 2.01
3152 3192 3.876309 AAGAAGAAGGTTGCCCAGTTA 57.124 42.857 0.00 0.00 0.00 2.24
3153 3193 2.755952 AAGAAGAAGGTTGCCCAGTT 57.244 45.000 0.00 0.00 0.00 3.16
3154 3194 3.876309 TTAAGAAGAAGGTTGCCCAGT 57.124 42.857 0.00 0.00 0.00 4.00
3155 3195 6.834168 TTAATTAAGAAGAAGGTTGCCCAG 57.166 37.500 0.00 0.00 0.00 4.45
3156 3196 6.951198 TCATTAATTAAGAAGAAGGTTGCCCA 59.049 34.615 3.94 0.00 0.00 5.36
3157 3197 7.404671 TCATTAATTAAGAAGAAGGTTGCCC 57.595 36.000 3.94 0.00 0.00 5.36
3158 3198 9.140286 GTTTCATTAATTAAGAAGAAGGTTGCC 57.860 33.333 3.94 0.00 0.00 4.52
3159 3199 8.850452 CGTTTCATTAATTAAGAAGAAGGTTGC 58.150 33.333 3.94 0.00 0.00 4.17
3160 3200 9.341899 CCGTTTCATTAATTAAGAAGAAGGTTG 57.658 33.333 3.94 0.00 0.00 3.77
3161 3201 8.520351 CCCGTTTCATTAATTAAGAAGAAGGTT 58.480 33.333 3.94 0.00 0.00 3.50
3162 3202 7.362660 GCCCGTTTCATTAATTAAGAAGAAGGT 60.363 37.037 3.94 0.00 0.00 3.50
3163 3203 6.972901 GCCCGTTTCATTAATTAAGAAGAAGG 59.027 38.462 3.94 10.41 0.00 3.46
3164 3204 7.535139 TGCCCGTTTCATTAATTAAGAAGAAG 58.465 34.615 3.94 4.10 0.00 2.85
3165 3205 7.455641 TGCCCGTTTCATTAATTAAGAAGAA 57.544 32.000 3.94 5.46 0.00 2.52
3166 3206 7.455641 TTGCCCGTTTCATTAATTAAGAAGA 57.544 32.000 3.94 0.00 0.00 2.87
3167 3207 7.201435 GCTTTGCCCGTTTCATTAATTAAGAAG 60.201 37.037 3.94 0.00 0.00 2.85
3168 3208 6.588373 GCTTTGCCCGTTTCATTAATTAAGAA 59.412 34.615 3.94 5.30 0.00 2.52
3169 3209 6.071616 AGCTTTGCCCGTTTCATTAATTAAGA 60.072 34.615 3.94 0.00 0.00 2.10
3170 3210 6.099341 AGCTTTGCCCGTTTCATTAATTAAG 58.901 36.000 3.94 0.00 0.00 1.85
3171 3211 6.031751 AGCTTTGCCCGTTTCATTAATTAA 57.968 33.333 0.00 0.00 0.00 1.40
3172 3212 5.652994 AGCTTTGCCCGTTTCATTAATTA 57.347 34.783 0.00 0.00 0.00 1.40
3173 3213 4.535526 AGCTTTGCCCGTTTCATTAATT 57.464 36.364 0.00 0.00 0.00 1.40
3174 3214 4.535526 AAGCTTTGCCCGTTTCATTAAT 57.464 36.364 0.00 0.00 0.00 1.40
3175 3215 4.329462 AAAGCTTTGCCCGTTTCATTAA 57.671 36.364 11.80 0.00 0.00 1.40
3176 3216 4.054671 CAAAAGCTTTGCCCGTTTCATTA 58.945 39.130 13.54 0.00 0.00 1.90
3177 3217 2.871633 CAAAAGCTTTGCCCGTTTCATT 59.128 40.909 13.54 0.00 0.00 2.57
3178 3218 2.482864 CAAAAGCTTTGCCCGTTTCAT 58.517 42.857 13.54 0.00 0.00 2.57
3179 3219 1.933247 CAAAAGCTTTGCCCGTTTCA 58.067 45.000 13.54 0.00 0.00 2.69
3180 3220 0.581529 GCAAAAGCTTTGCCCGTTTC 59.418 50.000 13.54 0.00 39.38 2.78
3181 3221 2.689083 GCAAAAGCTTTGCCCGTTT 58.311 47.368 13.54 0.00 39.38 3.60
3182 3222 4.436515 GCAAAAGCTTTGCCCGTT 57.563 50.000 13.54 0.00 39.38 4.44
3187 3227 0.249031 ACACGAGGCAAAAGCTTTGC 60.249 50.000 13.54 17.13 44.22 3.68
3188 3228 2.208326 AACACGAGGCAAAAGCTTTG 57.792 45.000 13.54 8.26 0.00 2.77
3189 3229 2.794631 CGAAACACGAGGCAAAAGCTTT 60.795 45.455 5.69 5.69 45.77 3.51
3190 3230 1.268539 CGAAACACGAGGCAAAAGCTT 60.269 47.619 0.00 0.00 45.77 3.74
3191 3231 0.307760 CGAAACACGAGGCAAAAGCT 59.692 50.000 0.00 0.00 45.77 3.74
3192 3232 0.306533 TCGAAACACGAGGCAAAAGC 59.693 50.000 0.00 0.00 46.45 3.51
3202 3242 2.563976 CAGCAGTTCATTCGAAACACG 58.436 47.619 0.00 0.00 44.09 4.49
3203 3243 2.286950 TGCAGCAGTTCATTCGAAACAC 60.287 45.455 0.00 0.00 31.43 3.32
3204 3244 1.946081 TGCAGCAGTTCATTCGAAACA 59.054 42.857 0.00 0.00 31.43 2.83
3205 3245 2.224079 TCTGCAGCAGTTCATTCGAAAC 59.776 45.455 22.10 0.00 31.43 2.78
3206 3246 2.493035 TCTGCAGCAGTTCATTCGAAA 58.507 42.857 22.10 0.00 31.43 3.46
3207 3247 2.168326 TCTGCAGCAGTTCATTCGAA 57.832 45.000 22.10 0.00 32.61 3.71
3208 3248 2.274437 GATCTGCAGCAGTTCATTCGA 58.726 47.619 23.38 4.12 32.36 3.71
3209 3249 2.004733 TGATCTGCAGCAGTTCATTCG 58.995 47.619 26.03 0.14 35.92 3.34
3210 3250 3.439476 AGTTGATCTGCAGCAGTTCATTC 59.561 43.478 28.85 23.98 39.12 2.67
3211 3251 3.418995 AGTTGATCTGCAGCAGTTCATT 58.581 40.909 28.85 20.01 39.12 2.57
3212 3252 3.008330 GAGTTGATCTGCAGCAGTTCAT 58.992 45.455 28.85 19.05 39.12 2.57
3213 3253 2.038164 AGAGTTGATCTGCAGCAGTTCA 59.962 45.455 26.03 26.03 38.10 3.18
3214 3254 2.697654 AGAGTTGATCTGCAGCAGTTC 58.302 47.619 22.10 22.08 36.69 3.01
3215 3255 2.855209 AGAGTTGATCTGCAGCAGTT 57.145 45.000 22.10 14.20 36.69 3.16
3224 3264 8.088463 AGATTCATTAAGACCAGAGTTGATCT 57.912 34.615 0.00 0.00 39.56 2.75
3225 3265 8.729805 AAGATTCATTAAGACCAGAGTTGATC 57.270 34.615 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.