Multiple sequence alignment - TraesCS3D01G422100

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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 TraesCS3D01G422100 chr3D 100.000 4268 0 0 1 4268 534114329 534118596 0.000000e+00 7882
1 TraesCS3D01G422100 chr3D 93.567 1943 109 8 1002 2935 533960386 533958451 0.000000e+00 2881
2 TraesCS3D01G422100 chr3D 86.928 1836 194 35 1053 2856 535399725 535401546 0.000000e+00 2019
3 TraesCS3D01G422100 chr3D 94.010 818 31 6 1 802 307932485 307933300 0.000000e+00 1223
4 TraesCS3D01G422100 chr3D 91.556 675 48 4 2544 3210 534762950 534763623 0.000000e+00 922
5 TraesCS3D01G422100 chr3D 86.946 429 52 4 3541 3968 534763504 534763929 2.990000e-131 479
6 TraesCS3D01G422100 chr3D 87.075 147 18 1 4068 4214 534765730 534765875 9.490000e-37 165
7 TraesCS3D01G422100 chr3D 86.111 144 16 4 3230 3371 533958087 533957946 7.390000e-33 152
8 TraesCS3D01G422100 chr3B 92.891 2715 113 34 915 3603 706182514 706185174 0.000000e+00 3871
9 TraesCS3D01G422100 chr3B 92.067 2017 133 10 931 2935 706029252 706027251 0.000000e+00 2813
10 TraesCS3D01G422100 chr3B 91.717 1992 118 20 1643 3624 706711683 706713637 0.000000e+00 2721
11 TraesCS3D01G422100 chr3B 87.656 1604 158 23 1283 2856 706754685 706756278 0.000000e+00 1829
12 TraesCS3D01G422100 chr3B 84.307 1096 135 21 1788 2856 706185586 706186671 0.000000e+00 1037
13 TraesCS3D01G422100 chr3B 92.399 671 46 2 2544 3210 706560939 706561608 0.000000e+00 952
14 TraesCS3D01G422100 chr3B 91.356 671 52 3 2545 3210 706603935 706604604 0.000000e+00 913
15 TraesCS3D01G422100 chr3B 91.011 445 35 4 3560 3999 706185083 706185527 2.840000e-166 595
16 TraesCS3D01G422100 chr3B 86.946 429 52 4 3541 3968 706604485 706604910 2.990000e-131 479
17 TraesCS3D01G422100 chr3B 87.143 420 49 5 3550 3968 706561499 706561914 5.000000e-129 472
18 TraesCS3D01G422100 chr3B 83.709 399 52 9 3540 3928 706027025 706026630 8.720000e-97 364
19 TraesCS3D01G422100 chr3B 90.323 186 16 1 3686 3869 706722822 706723007 4.260000e-60 243
20 TraesCS3D01G422100 chr3B 92.593 81 6 0 4188 4268 647906936 647907016 2.700000e-22 117
21 TraesCS3D01G422100 chr3B 84.800 125 8 4 3541 3665 706184679 706184792 9.700000e-22 115
22 TraesCS3D01G422100 chr3B 89.535 86 5 3 3560 3641 706713522 706713607 5.840000e-19 106
23 TraesCS3D01G422100 chr1D 94.010 818 33 7 1 802 418220856 418221673 0.000000e+00 1225
24 TraesCS3D01G422100 chr1D 96.212 132 4 1 785 916 418221698 418221828 9.290000e-52 215
25 TraesCS3D01G422100 chr1D 92.405 79 6 0 4190 4268 246649981 246650059 3.490000e-21 113
26 TraesCS3D01G422100 chr7D 93.811 824 28 7 1 802 112245211 112244389 0.000000e+00 1218
27 TraesCS3D01G422100 chr7D 92.840 824 33 10 1 802 80983628 80982809 0.000000e+00 1171
28 TraesCS3D01G422100 chr7D 92.054 818 39 9 1 802 595982006 595981199 0.000000e+00 1127
29 TraesCS3D01G422100 chr7D 96.241 133 4 1 785 917 175571513 175571382 2.580000e-52 217
30 TraesCS3D01G422100 chr2D 93.627 816 32 6 1 800 507061596 507062407 0.000000e+00 1201
31 TraesCS3D01G422100 chr2D 94.118 136 6 2 785 920 607982392 607982525 5.590000e-49 206
32 TraesCS3D01G422100 chr2D 93.431 137 7 2 785 921 592040402 592040268 7.240000e-48 202
33 TraesCS3D01G422100 chr2D 92.500 80 6 0 4189 4268 79056166 79056245 9.700000e-22 115
34 TraesCS3D01G422100 chr6D 93.399 818 38 8 1 802 398168842 398169659 0.000000e+00 1197
35 TraesCS3D01G422100 chr6D 93.581 701 23 6 1 679 436794822 436795522 0.000000e+00 1026
36 TraesCS3D01G422100 chr6D 93.455 657 30 6 156 802 29753817 29754470 0.000000e+00 963
37 TraesCS3D01G422100 chr6D 94.697 132 6 1 785 916 29754495 29754625 2.010000e-48 204
38 TraesCS3D01G422100 chr4D 81.383 1461 217 43 1254 2682 98015643 98014206 0.000000e+00 1140
39 TraesCS3D01G422100 chr4D 80.201 1394 240 20 1301 2687 435198936 435197572 0.000000e+00 1013
40 TraesCS3D01G422100 chr4D 77.984 1458 232 51 1272 2687 505358900 505357490 0.000000e+00 832
41 TraesCS3D01G422100 chr4B 81.267 1468 214 44 1254 2682 139593885 139592440 0.000000e+00 1131
42 TraesCS3D01G422100 chr4B 93.671 79 5 0 4190 4268 438375181 438375259 7.500000e-23 119
43 TraesCS3D01G422100 chr3A 85.980 1077 118 24 1798 2856 670545627 670546688 0.000000e+00 1122
44 TraesCS3D01G422100 chr6B 91.728 810 52 8 1 802 1944394 1945196 0.000000e+00 1110
45 TraesCS3D01G422100 chr6B 91.224 809 58 6 1 802 696514348 696513546 0.000000e+00 1088
46 TraesCS3D01G422100 chr6B 92.593 81 6 0 4188 4268 537553839 537553919 2.700000e-22 117
47 TraesCS3D01G422100 chr2B 90.512 801 68 6 6 802 506217199 506216403 0.000000e+00 1051
48 TraesCS3D01G422100 chr2B 92.500 80 6 0 4189 4268 712828558 712828479 9.700000e-22 115
49 TraesCS3D01G422100 chr7A 88.614 808 52 22 6 800 24470513 24469733 0.000000e+00 946
50 TraesCS3D01G422100 chr7A 85.520 442 58 5 1272 1707 66251408 66251849 1.400000e-124 457
51 TraesCS3D01G422100 chr7A 92.361 144 7 4 785 925 24469706 24469564 7.240000e-48 202
52 TraesCS3D01G422100 chr5D 96.850 127 3 1 790 916 420995078 420995203 1.200000e-50 211
53 TraesCS3D01G422100 chr5D 92.254 142 9 2 785 926 375860929 375861068 2.600000e-47 200
54 TraesCS3D01G422100 chr1B 94.737 133 6 1 785 917 688073036 688072905 5.590000e-49 206
55 TraesCS3D01G422100 chr2A 93.671 79 5 0 4190 4268 141506470 141506392 7.500000e-23 119
56 TraesCS3D01G422100 chr4A 93.590 78 5 0 4190 4267 703266008 703265931 2.700000e-22 117
57 TraesCS3D01G422100 chr5A 92.405 79 6 0 4190 4268 382069964 382070042 3.490000e-21 113


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 TraesCS3D01G422100 chr3D 534114329 534118596 4267 False 7882.0 7882 100.000000 1 4268 1 chr3D.!!$F2 4267
1 TraesCS3D01G422100 chr3D 535399725 535401546 1821 False 2019.0 2019 86.928000 1053 2856 1 chr3D.!!$F3 1803
2 TraesCS3D01G422100 chr3D 533957946 533960386 2440 True 1516.5 2881 89.839000 1002 3371 2 chr3D.!!$R1 2369
3 TraesCS3D01G422100 chr3D 307932485 307933300 815 False 1223.0 1223 94.010000 1 802 1 chr3D.!!$F1 801
4 TraesCS3D01G422100 chr3D 534762950 534765875 2925 False 522.0 922 88.525667 2544 4214 3 chr3D.!!$F4 1670
5 TraesCS3D01G422100 chr3B 706754685 706756278 1593 False 1829.0 1829 87.656000 1283 2856 1 chr3B.!!$F3 1573
6 TraesCS3D01G422100 chr3B 706026630 706029252 2622 True 1588.5 2813 87.888000 931 3928 2 chr3B.!!$R1 2997
7 TraesCS3D01G422100 chr3B 706711683 706713637 1954 False 1413.5 2721 90.626000 1643 3641 2 chr3B.!!$F7 1998
8 TraesCS3D01G422100 chr3B 706182514 706186671 4157 False 1404.5 3871 88.252250 915 3999 4 chr3B.!!$F4 3084
9 TraesCS3D01G422100 chr3B 706560939 706561914 975 False 712.0 952 89.771000 2544 3968 2 chr3B.!!$F5 1424
10 TraesCS3D01G422100 chr3B 706603935 706604910 975 False 696.0 913 89.151000 2545 3968 2 chr3B.!!$F6 1423
11 TraesCS3D01G422100 chr1D 418220856 418221828 972 False 720.0 1225 95.111000 1 916 2 chr1D.!!$F2 915
12 TraesCS3D01G422100 chr7D 112244389 112245211 822 True 1218.0 1218 93.811000 1 802 1 chr7D.!!$R2 801
13 TraesCS3D01G422100 chr7D 80982809 80983628 819 True 1171.0 1171 92.840000 1 802 1 chr7D.!!$R1 801
14 TraesCS3D01G422100 chr7D 595981199 595982006 807 True 1127.0 1127 92.054000 1 802 1 chr7D.!!$R4 801
15 TraesCS3D01G422100 chr2D 507061596 507062407 811 False 1201.0 1201 93.627000 1 800 1 chr2D.!!$F2 799
16 TraesCS3D01G422100 chr6D 398168842 398169659 817 False 1197.0 1197 93.399000 1 802 1 chr6D.!!$F1 801
17 TraesCS3D01G422100 chr6D 436794822 436795522 700 False 1026.0 1026 93.581000 1 679 1 chr6D.!!$F2 678
18 TraesCS3D01G422100 chr6D 29753817 29754625 808 False 583.5 963 94.076000 156 916 2 chr6D.!!$F3 760
19 TraesCS3D01G422100 chr4D 98014206 98015643 1437 True 1140.0 1140 81.383000 1254 2682 1 chr4D.!!$R1 1428
20 TraesCS3D01G422100 chr4D 435197572 435198936 1364 True 1013.0 1013 80.201000 1301 2687 1 chr4D.!!$R2 1386
21 TraesCS3D01G422100 chr4D 505357490 505358900 1410 True 832.0 832 77.984000 1272 2687 1 chr4D.!!$R3 1415
22 TraesCS3D01G422100 chr4B 139592440 139593885 1445 True 1131.0 1131 81.267000 1254 2682 1 chr4B.!!$R1 1428
23 TraesCS3D01G422100 chr3A 670545627 670546688 1061 False 1122.0 1122 85.980000 1798 2856 1 chr3A.!!$F1 1058
24 TraesCS3D01G422100 chr6B 1944394 1945196 802 False 1110.0 1110 91.728000 1 802 1 chr6B.!!$F1 801
25 TraesCS3D01G422100 chr6B 696513546 696514348 802 True 1088.0 1088 91.224000 1 802 1 chr6B.!!$R1 801
26 TraesCS3D01G422100 chr2B 506216403 506217199 796 True 1051.0 1051 90.512000 6 802 1 chr2B.!!$R1 796
27 TraesCS3D01G422100 chr7A 24469564 24470513 949 True 574.0 946 90.487500 6 925 2 chr7A.!!$R1 919

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
575 616 1.368950 GGATGCTGGAGATGCGCTA 59.631 57.895 9.73 0.00 0.00 4.26 F
1220 1324 0.237761 ACAACGAGAACGAGTCGGAG 59.762 55.000 18.30 5.54 41.88 4.63 F
2433 2613 0.454957 GCACGCTAGCAACATGTTGG 60.455 55.000 33.56 21.36 40.74 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1904 2028 0.525455 CGATGATCTTCACGCACCGA 60.525 55.0 9.10 0.00 0.00 4.69 R
3027 3309 0.110056 CATGGCTGCAACAGAACGTC 60.110 55.0 0.50 0.00 32.44 4.34 R
3834 4186 0.242017 GTGGCTCACAATTGTGCTCC 59.758 55.0 29.84 28.59 45.25 4.70 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
250 251 3.071206 GGAGCAGAGGACGAGCCA 61.071 66.667 0.00 0.00 40.02 4.75
251 252 2.430610 GGAGCAGAGGACGAGCCAT 61.431 63.158 0.00 0.00 40.02 4.40
575 616 1.368950 GGATGCTGGAGATGCGCTA 59.631 57.895 9.73 0.00 0.00 4.26
686 727 2.426023 GAGCGGTGGGAACAGTGT 59.574 61.111 0.00 0.00 44.46 3.55
844 929 2.282391 TCAAACCGCATGCAGCCT 60.282 55.556 19.57 0.00 41.38 4.58
927 1012 6.181908 ACCAAACACGCCCTATAAAATTCTA 58.818 36.000 0.00 0.00 0.00 2.10
945 1030 4.415224 TCTAGGACCCTAGGACAAGTTT 57.585 45.455 19.81 0.00 44.45 2.66
949 1034 3.078612 AGGACCCTAGGACAAGTTTAGGA 59.921 47.826 11.48 0.00 36.83 2.94
960 1045 6.881602 AGGACAAGTTTAGGAGCTAATTTGAG 59.118 38.462 8.64 0.00 31.48 3.02
990 1075 6.353404 TCCAGAAATAAACATTTTCACCCC 57.647 37.500 0.00 0.00 35.90 4.95
991 1076 6.081356 TCCAGAAATAAACATTTTCACCCCT 58.919 36.000 0.00 0.00 35.90 4.79
992 1077 6.556874 TCCAGAAATAAACATTTTCACCCCTT 59.443 34.615 0.00 0.00 35.90 3.95
993 1078 7.071824 TCCAGAAATAAACATTTTCACCCCTTT 59.928 33.333 0.00 0.00 35.90 3.11
994 1079 7.387673 CCAGAAATAAACATTTTCACCCCTTTC 59.612 37.037 0.00 0.00 35.90 2.62
995 1080 7.930865 CAGAAATAAACATTTTCACCCCTTTCA 59.069 33.333 0.00 0.00 35.90 2.69
996 1081 8.659527 AGAAATAAACATTTTCACCCCTTTCAT 58.340 29.630 0.00 0.00 35.90 2.57
997 1082 9.283768 GAAATAAACATTTTCACCCCTTTCATT 57.716 29.630 0.00 0.00 34.07 2.57
998 1083 9.639563 AAATAAACATTTTCACCCCTTTCATTT 57.360 25.926 0.00 0.00 0.00 2.32
999 1084 8.846943 ATAAACATTTTCACCCCTTTCATTTC 57.153 30.769 0.00 0.00 0.00 2.17
1000 1085 5.885449 ACATTTTCACCCCTTTCATTTCA 57.115 34.783 0.00 0.00 0.00 2.69
1220 1324 0.237761 ACAACGAGAACGAGTCGGAG 59.762 55.000 18.30 5.54 41.88 4.63
1370 1482 2.202362 CTCCTCTGCGACGTCGTG 60.202 66.667 35.48 27.58 42.22 4.35
1795 1919 2.358737 CCTCCACAACGTCCTGGC 60.359 66.667 6.59 0.00 0.00 4.85
1796 1920 2.425592 CTCCACAACGTCCTGGCA 59.574 61.111 6.59 0.00 0.00 4.92
1805 1929 0.540830 ACGTCCTGGCAGAGAGAAGT 60.541 55.000 17.94 10.37 0.00 3.01
1904 2028 1.968540 GCTCGTCAGCCAAAGCCTT 60.969 57.895 0.00 0.00 40.14 4.35
2068 2192 2.158534 TGCACTTGTTGGGATACTTGGT 60.159 45.455 0.00 0.00 0.00 3.67
2132 2256 6.769341 CCATCATCAAGGTGTCTCATATTTCA 59.231 38.462 0.00 0.00 0.00 2.69
2164 2302 2.028112 TCAATCCCACACTACACAGCTC 60.028 50.000 0.00 0.00 0.00 4.09
2168 2307 1.337260 CCCACACTACACAGCTCTGTC 60.337 57.143 0.00 0.00 42.83 3.51
2217 2366 3.928375 GGGTGCATTGTGAATTTGTGATC 59.072 43.478 0.00 0.00 0.00 2.92
2276 2437 4.522405 CCATGTTACCAGGTGTGAAAATCA 59.478 41.667 0.76 0.00 0.00 2.57
2334 2495 0.833287 AAGATGATCCCCAGTGTCCG 59.167 55.000 0.00 0.00 0.00 4.79
2433 2613 0.454957 GCACGCTAGCAACATGTTGG 60.455 55.000 33.56 21.36 40.74 3.77
2757 2970 1.600916 GGCCAGTGAAGCGTCCTTT 60.601 57.895 0.00 0.00 0.00 3.11
2803 3016 2.047179 GGCTTCCTTCGGAGCGTT 60.047 61.111 0.00 0.00 31.21 4.84
2999 3277 6.183360 CCTGATTAGCTTAAGTGTCAAAGTCG 60.183 42.308 4.02 0.00 0.00 4.18
3020 3298 3.876914 CGGTACTACCATTGTTGATGCAT 59.123 43.478 0.00 0.00 38.47 3.96
3027 3309 3.069016 ACCATTGTTGATGCATATGGCTG 59.931 43.478 20.64 6.52 45.15 4.85
3028 3310 3.319689 CCATTGTTGATGCATATGGCTGA 59.680 43.478 11.55 0.00 45.15 4.26
3127 3438 3.460857 TTGCACGGTTTTGGCTAAAAT 57.539 38.095 11.38 0.00 38.01 1.82
3139 3451 7.301789 GTTTTGGCTAAAATGTGTTTGTTGTT 58.698 30.769 11.38 0.00 38.01 2.83
3174 3487 7.042119 GCTACATTGCACAGTTTTGGTTAAAAT 60.042 33.333 0.00 0.00 38.01 1.82
3175 3488 7.014092 ACATTGCACAGTTTTGGTTAAAATG 57.986 32.000 0.00 0.00 44.97 2.32
3200 3513 6.483640 GGTCTGTTATGACATTGTCTTATCCC 59.516 42.308 17.26 8.01 38.61 3.85
3213 3526 7.870509 TTGTCTTATCCCTGATCAGATTTTG 57.129 36.000 24.62 6.62 27.32 2.44
3215 3528 7.050377 TGTCTTATCCCTGATCAGATTTTGTC 58.950 38.462 24.62 8.44 27.32 3.18
3226 3540 3.740321 TCAGATTTTGTCCATTTTTGCGC 59.260 39.130 0.00 0.00 0.00 6.09
3246 3560 2.029728 GCGGTTGATCAGATTGTCTTCG 59.970 50.000 0.00 0.00 0.00 3.79
3274 3588 7.254761 GCTTTGTTTCTTCTTTTAAACATGGGG 60.255 37.037 0.00 0.00 43.14 4.96
3341 3655 6.403866 ACATGAATTACAAAGCCTCAAACA 57.596 33.333 0.00 0.00 0.00 2.83
3343 3657 6.040842 ACATGAATTACAAAGCCTCAAACAGT 59.959 34.615 0.00 0.00 0.00 3.55
3350 3664 8.630054 TTACAAAGCCTCAAACAGTACATTAT 57.370 30.769 0.00 0.00 0.00 1.28
3365 3679 8.131100 ACAGTACATTATGAAGCAATTGCATAC 58.869 33.333 30.89 20.50 45.16 2.39
3370 3684 6.772360 TTATGAAGCAATTGCATACTTGGA 57.228 33.333 30.89 8.07 45.16 3.53
3397 3711 3.808726 GGTTTGATCTATGAGCTGAGCTG 59.191 47.826 13.71 0.00 39.88 4.24
3419 3733 6.019156 GCTGACACATCTAAAAGCAGATCTAC 60.019 42.308 0.00 0.00 32.83 2.59
3470 3785 3.871006 CACCGCATTGCTATCTCTTGTAA 59.129 43.478 7.12 0.00 0.00 2.41
3474 3789 6.095440 ACCGCATTGCTATCTCTTGTAATTTT 59.905 34.615 7.12 0.00 0.00 1.82
3475 3790 6.415867 CCGCATTGCTATCTCTTGTAATTTTG 59.584 38.462 7.12 0.00 0.00 2.44
3476 3791 7.188834 CGCATTGCTATCTCTTGTAATTTTGA 58.811 34.615 7.12 0.00 0.00 2.69
3477 3792 7.375280 CGCATTGCTATCTCTTGTAATTTTGAG 59.625 37.037 7.12 0.00 0.00 3.02
3478 3793 7.167136 GCATTGCTATCTCTTGTAATTTTGAGC 59.833 37.037 0.16 0.00 0.00 4.26
3479 3794 6.683974 TGCTATCTCTTGTAATTTTGAGCC 57.316 37.500 0.00 0.00 0.00 4.70
3480 3795 6.179756 TGCTATCTCTTGTAATTTTGAGCCA 58.820 36.000 0.00 0.00 0.00 4.75
3481 3796 6.094048 TGCTATCTCTTGTAATTTTGAGCCAC 59.906 38.462 0.00 0.00 0.00 5.01
3482 3797 5.904362 ATCTCTTGTAATTTTGAGCCACC 57.096 39.130 0.00 0.00 0.00 4.61
3484 3799 2.227865 TCTTGTAATTTTGAGCCACCGC 59.772 45.455 0.00 0.00 0.00 5.68
3485 3800 1.610363 TGTAATTTTGAGCCACCGCA 58.390 45.000 0.00 0.00 37.52 5.69
3487 3802 2.560542 TGTAATTTTGAGCCACCGCATT 59.439 40.909 0.00 0.00 37.52 3.56
3488 3803 2.083167 AATTTTGAGCCACCGCATTG 57.917 45.000 0.00 0.00 37.52 2.82
3489 3804 0.390209 ATTTTGAGCCACCGCATTGC 60.390 50.000 0.00 0.00 37.52 3.56
3490 3805 2.433231 TTTTGAGCCACCGCATTGCC 62.433 55.000 2.41 0.00 37.52 4.52
3491 3806 4.657408 TGAGCCACCGCATTGCCA 62.657 61.111 2.41 0.00 37.52 4.92
3492 3807 4.120331 GAGCCACCGCATTGCCAC 62.120 66.667 2.41 0.00 37.52 5.01
3493 3808 4.972733 AGCCACCGCATTGCCACA 62.973 61.111 2.41 0.00 37.52 4.17
3494 3809 3.988525 GCCACCGCATTGCCACAA 61.989 61.111 2.41 0.00 34.03 3.33
3495 3810 2.972267 CCACCGCATTGCCACAAT 59.028 55.556 2.41 0.00 0.00 2.71
3521 3836 1.139256 TGACAGACACGGTTTTGGCTA 59.861 47.619 0.00 0.00 30.77 3.93
3522 3837 2.215196 GACAGACACGGTTTTGGCTAA 58.785 47.619 0.00 0.00 30.77 3.09
3523 3838 2.614983 GACAGACACGGTTTTGGCTAAA 59.385 45.455 0.00 0.00 30.77 1.85
3524 3839 3.018149 ACAGACACGGTTTTGGCTAAAA 58.982 40.909 3.56 3.56 30.77 1.52
3525 3840 3.444388 ACAGACACGGTTTTGGCTAAAAA 59.556 39.130 9.77 1.76 37.51 1.94
3526 3841 4.098807 ACAGACACGGTTTTGGCTAAAAAT 59.901 37.500 9.77 0.00 39.86 1.82
3527 3842 5.299782 ACAGACACGGTTTTGGCTAAAAATA 59.700 36.000 9.77 0.00 39.86 1.40
3528 3843 6.015772 ACAGACACGGTTTTGGCTAAAAATAT 60.016 34.615 9.77 0.00 39.86 1.28
3529 3844 6.307800 CAGACACGGTTTTGGCTAAAAATATG 59.692 38.462 9.77 10.20 39.86 1.78
3530 3845 5.474825 ACACGGTTTTGGCTAAAAATATGG 58.525 37.500 9.77 2.25 39.86 2.74
3531 3846 5.011227 ACACGGTTTTGGCTAAAAATATGGT 59.989 36.000 9.77 2.84 39.86 3.55
3532 3847 5.929415 CACGGTTTTGGCTAAAAATATGGTT 59.071 36.000 9.77 0.00 39.86 3.67
3533 3848 6.425417 CACGGTTTTGGCTAAAAATATGGTTT 59.575 34.615 9.77 0.00 39.86 3.27
3534 3849 6.993308 ACGGTTTTGGCTAAAAATATGGTTTT 59.007 30.769 9.77 0.00 39.86 2.43
3535 3850 7.499563 ACGGTTTTGGCTAAAAATATGGTTTTT 59.500 29.630 9.77 8.02 39.86 1.94
3536 3851 7.800847 CGGTTTTGGCTAAAAATATGGTTTTTG 59.199 33.333 9.77 4.17 39.86 2.44
3537 3852 8.625651 GGTTTTGGCTAAAAATATGGTTTTTGT 58.374 29.630 9.77 0.00 39.86 2.83
3540 3855 8.738645 TTGGCTAAAAATATGGTTTTTGTTGT 57.261 26.923 11.45 0.00 34.01 3.32
3541 3856 8.147642 TGGCTAAAAATATGGTTTTTGTTGTG 57.852 30.769 11.45 2.25 34.01 3.33
3542 3857 7.987458 TGGCTAAAAATATGGTTTTTGTTGTGA 59.013 29.630 11.45 0.00 34.01 3.58
3543 3858 8.279800 GGCTAAAAATATGGTTTTTGTTGTGAC 58.720 33.333 11.45 0.00 34.01 3.67
3544 3859 8.821894 GCTAAAAATATGGTTTTTGTTGTGACA 58.178 29.630 11.45 0.00 34.01 3.58
3548 3863 7.727331 AATATGGTTTTTGTTGTGACAATGG 57.273 32.000 0.00 0.00 44.71 3.16
3549 3864 4.543590 TGGTTTTTGTTGTGACAATGGT 57.456 36.364 0.00 0.00 44.71 3.55
3550 3865 4.248859 TGGTTTTTGTTGTGACAATGGTG 58.751 39.130 0.00 0.00 44.71 4.17
3551 3866 4.249661 GGTTTTTGTTGTGACAATGGTGT 58.750 39.130 0.00 0.00 44.71 4.16
3552 3867 4.693095 GGTTTTTGTTGTGACAATGGTGTT 59.307 37.500 0.00 0.00 44.71 3.32
3553 3868 5.869888 GGTTTTTGTTGTGACAATGGTGTTA 59.130 36.000 0.00 0.00 44.71 2.41
3554 3869 6.183360 GGTTTTTGTTGTGACAATGGTGTTAC 60.183 38.462 0.00 0.00 44.71 2.50
3561 3876 6.307031 TGTGACAATGGTGTTACATTACAC 57.693 37.500 15.01 15.01 46.13 2.90
3562 3877 5.050023 TGTGACAATGGTGTTACATTACACG 60.050 40.000 15.93 0.00 46.13 4.49
3563 3878 7.942375 TGTGACAATGGTGTTACATTACACGG 61.942 42.308 15.93 0.00 46.13 4.94
3570 3885 3.976306 GTGTTACATTACACGGTTTTGGC 59.024 43.478 0.00 0.00 39.05 4.52
3571 3886 3.884091 TGTTACATTACACGGTTTTGGCT 59.116 39.130 0.00 0.00 0.00 4.75
3585 3900 6.425417 ACGGTTTTGGCTAAAAATATGGTTTG 59.575 34.615 9.77 0.00 39.86 2.93
3620 3936 0.315568 TACATTGCACGGTTTTGGCC 59.684 50.000 0.00 0.00 0.00 5.36
3671 3987 9.170734 CTTATCCTTGATCAGATTTTCTTCACA 57.829 33.333 3.05 0.00 0.00 3.58
3680 3997 6.486248 TCAGATTTTCTTCACACTTCGTTTG 58.514 36.000 0.00 0.00 0.00 2.93
3735 4058 6.704493 ACTTTATTTCAGCTCGTGTACAAAGA 59.296 34.615 10.03 6.44 0.00 2.52
3834 4186 7.873719 TCTGAAGATCTAGTAAGAACCTGAG 57.126 40.000 0.00 0.00 34.73 3.35
3900 4252 5.306419 TGATAGACAGAATGGATAAGCTGCT 59.694 40.000 0.00 0.00 43.62 4.24
3947 4301 4.163427 GGGATGACATTCTGAGATCCCTA 58.837 47.826 8.90 0.00 41.48 3.53
3999 6058 3.190744 GTGAGTGAGATAGGAACGTGACA 59.809 47.826 0.00 0.00 0.00 3.58
4000 6059 3.440522 TGAGTGAGATAGGAACGTGACAG 59.559 47.826 0.00 0.00 0.00 3.51
4001 6060 3.687125 AGTGAGATAGGAACGTGACAGA 58.313 45.455 0.00 0.00 0.00 3.41
4002 6061 3.692101 AGTGAGATAGGAACGTGACAGAG 59.308 47.826 0.00 0.00 0.00 3.35
4004 6063 2.423892 GAGATAGGAACGTGACAGAGCA 59.576 50.000 0.00 0.00 0.00 4.26
4005 6064 2.164624 AGATAGGAACGTGACAGAGCAC 59.835 50.000 0.00 0.00 35.46 4.40
4030 6089 3.340814 TTCACCAAGAAGAGGAGATGC 57.659 47.619 0.00 0.00 0.00 3.91
4031 6090 2.259917 TCACCAAGAAGAGGAGATGCA 58.740 47.619 0.00 0.00 0.00 3.96
4032 6091 2.235650 TCACCAAGAAGAGGAGATGCAG 59.764 50.000 0.00 0.00 0.00 4.41
4035 6094 2.630158 CAAGAAGAGGAGATGCAGTGG 58.370 52.381 0.00 0.00 0.00 4.00
4036 6095 1.949799 AGAAGAGGAGATGCAGTGGT 58.050 50.000 0.00 0.00 0.00 4.16
4038 6097 2.027377 AGAAGAGGAGATGCAGTGGTTG 60.027 50.000 0.00 0.00 0.00 3.77
4048 6107 1.673665 CAGTGGTTGCTGGAGAGGC 60.674 63.158 0.00 0.00 33.11 4.70
4050 6109 2.530151 TGGTTGCTGGAGAGGCCT 60.530 61.111 3.86 3.86 37.63 5.19
4051 6110 2.045536 GGTTGCTGGAGAGGCCTG 60.046 66.667 12.00 0.00 37.63 4.85
4052 6111 2.753029 GTTGCTGGAGAGGCCTGT 59.247 61.111 12.00 5.74 37.86 4.00
4053 6112 1.553690 GGTTGCTGGAGAGGCCTGTA 61.554 60.000 12.00 0.00 37.86 2.74
4054 6113 0.391793 GTTGCTGGAGAGGCCTGTAC 60.392 60.000 12.00 7.99 37.86 2.90
4059 6118 0.042581 TGGAGAGGCCTGTACCATGA 59.957 55.000 12.00 0.00 37.63 3.07
4064 6123 2.042464 GAGGCCTGTACCATGATCTGA 58.958 52.381 12.00 0.00 0.00 3.27
4065 6124 2.036992 GAGGCCTGTACCATGATCTGAG 59.963 54.545 12.00 0.00 0.00 3.35
4066 6125 1.542108 GGCCTGTACCATGATCTGAGC 60.542 57.143 0.00 0.00 0.00 4.26
4069 6128 2.036992 CCTGTACCATGATCTGAGCTCC 59.963 54.545 12.15 0.00 0.00 4.70
4121 6180 4.698575 CCTCTTCACTAGTAATTCTGGGC 58.301 47.826 0.00 0.00 0.00 5.36
4138 6197 3.239449 TGGGCTCTTCTTCTGTTACTGA 58.761 45.455 0.00 0.00 0.00 3.41
4169 6228 5.458452 CACAACGTGCATTATTTTTCACAGT 59.542 36.000 0.00 0.00 0.00 3.55
4203 6262 2.176889 CGGAAGTACTCCCTCCTTTCA 58.823 52.381 9.82 0.00 41.87 2.69
4214 6273 7.510675 ACTCCCTCCTTTCACAAATATAAGA 57.489 36.000 0.00 0.00 0.00 2.10
4216 6275 7.995488 ACTCCCTCCTTTCACAAATATAAGATG 59.005 37.037 0.00 0.00 0.00 2.90
4217 6276 7.872138 TCCCTCCTTTCACAAATATAAGATGT 58.128 34.615 0.00 0.00 0.00 3.06
4219 6278 8.624776 CCCTCCTTTCACAAATATAAGATGTTC 58.375 37.037 0.00 0.00 0.00 3.18
4255 6314 8.723365 TCCAAATTGGATGTATATAGACACCTT 58.277 33.333 11.23 0.00 42.67 3.50
4256 6315 9.354673 CCAAATTGGATGTATATAGACACCTTT 57.645 33.333 6.04 2.53 40.96 3.11
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
250 251 4.575973 GGGCCGATGCTGCAGGAT 62.576 66.667 21.83 21.83 37.74 3.24
625 666 0.552848 CCTCTCCTCTCCTCTGCTCT 59.447 60.000 0.00 0.00 0.00 4.09
844 929 1.602323 CGGCCTGTTTGGTTGGCTA 60.602 57.895 0.00 0.00 45.45 3.93
927 1012 3.078612 TCCTAAACTTGTCCTAGGGTCCT 59.921 47.826 9.46 0.00 34.16 3.85
945 1030 8.727100 TGGATAGAATCTCAAATTAGCTCCTA 57.273 34.615 0.00 0.00 0.00 2.94
990 1075 6.652062 CCCAAGGAAAGGAAATGAAATGAAAG 59.348 38.462 0.00 0.00 0.00 2.62
991 1076 6.532826 CCCAAGGAAAGGAAATGAAATGAAA 58.467 36.000 0.00 0.00 0.00 2.69
992 1077 5.512921 GCCCAAGGAAAGGAAATGAAATGAA 60.513 40.000 0.00 0.00 0.00 2.57
993 1078 4.020307 GCCCAAGGAAAGGAAATGAAATGA 60.020 41.667 0.00 0.00 0.00 2.57
994 1079 4.256110 GCCCAAGGAAAGGAAATGAAATG 58.744 43.478 0.00 0.00 0.00 2.32
995 1080 3.264193 GGCCCAAGGAAAGGAAATGAAAT 59.736 43.478 0.00 0.00 0.00 2.17
996 1081 2.637382 GGCCCAAGGAAAGGAAATGAAA 59.363 45.455 0.00 0.00 0.00 2.69
997 1082 2.256306 GGCCCAAGGAAAGGAAATGAA 58.744 47.619 0.00 0.00 0.00 2.57
998 1083 1.890573 CGGCCCAAGGAAAGGAAATGA 60.891 52.381 0.00 0.00 0.00 2.57
999 1084 0.532115 CGGCCCAAGGAAAGGAAATG 59.468 55.000 0.00 0.00 0.00 2.32
1000 1085 0.114364 ACGGCCCAAGGAAAGGAAAT 59.886 50.000 0.00 0.00 0.00 2.17
1024 1109 1.265095 GCTGTGTGTGTGAAGTGGATG 59.735 52.381 0.00 0.00 0.00 3.51
1125 1229 1.433879 CTAGGCACTCGAACTCCGG 59.566 63.158 0.00 0.00 41.75 5.14
1795 1919 4.462132 TGAAGTCCAGATCACTTCTCTCTG 59.538 45.833 19.50 0.00 46.81 3.35
1796 1920 4.671831 TGAAGTCCAGATCACTTCTCTCT 58.328 43.478 19.50 0.00 46.81 3.10
1904 2028 0.525455 CGATGATCTTCACGCACCGA 60.525 55.000 9.10 0.00 0.00 4.69
1991 2115 2.837291 TTGCCAACAGGGTGCCAC 60.837 61.111 0.00 0.00 39.65 5.01
2080 2204 2.947652 CCCACATCTAGGACATGCTTTG 59.052 50.000 0.00 0.00 0.00 2.77
2132 2256 6.834168 AGTGTGGGATTGAACGAATTAAAT 57.166 33.333 0.00 0.00 0.00 1.40
2150 2274 2.800881 TGACAGAGCTGTGTAGTGTG 57.199 50.000 17.62 0.00 45.05 3.82
2217 2366 1.102809 TATCCCAGCCTGCAATTGCG 61.103 55.000 24.58 18.29 45.83 4.85
2276 2437 0.827507 AAACGCACCTCCAAAGCCAT 60.828 50.000 0.00 0.00 0.00 4.40
2334 2495 2.162208 TCAACATTCGGAAAGCATCTGC 59.838 45.455 0.00 0.00 42.49 4.26
2757 2970 0.764890 AGACTTGCTTGCCCACAGTA 59.235 50.000 0.00 0.00 0.00 2.74
2803 3016 3.387374 GGGAGAAATCAGATGCTCTCTCA 59.613 47.826 16.92 0.00 35.78 3.27
2999 3277 6.072508 CCATATGCATCAACAATGGTAGTACC 60.073 42.308 12.80 12.80 39.22 3.34
3020 3298 1.270571 TGCAACAGAACGTCAGCCATA 60.271 47.619 0.00 0.00 0.00 2.74
3027 3309 0.110056 CATGGCTGCAACAGAACGTC 60.110 55.000 0.50 0.00 32.44 4.34
3028 3310 1.518056 CCATGGCTGCAACAGAACGT 61.518 55.000 0.00 0.00 32.44 3.99
3098 3409 4.617298 GCCAAAACCGTGCAATATAACACT 60.617 41.667 0.00 0.00 34.58 3.55
3127 3438 4.081972 AGCACCATTGTAACAACAAACACA 60.082 37.500 0.00 0.00 32.94 3.72
3174 3487 7.047891 GGATAAGACAATGTCATAACAGACCA 58.952 38.462 16.38 0.00 39.20 4.02
3175 3488 6.483640 GGGATAAGACAATGTCATAACAGACC 59.516 42.308 16.38 7.97 39.20 3.85
3200 3513 6.183360 CGCAAAAATGGACAAAATCTGATCAG 60.183 38.462 17.07 17.07 0.00 2.90
3213 3526 0.318275 TCAACCGCGCAAAAATGGAC 60.318 50.000 8.75 0.00 0.00 4.02
3215 3528 0.991344 GATCAACCGCGCAAAAATGG 59.009 50.000 8.75 0.77 0.00 3.16
3226 3540 3.061295 CACGAAGACAATCTGATCAACCG 59.939 47.826 0.00 0.00 0.00 4.44
3246 3560 8.116136 CCATGTTTAAAAGAAGAAACAAAGCAC 58.884 33.333 4.47 0.00 45.78 4.40
3274 3588 0.375106 GAAATCTGCAGCGTGCCTAC 59.625 55.000 9.47 0.00 44.23 3.18
3294 3608 5.804639 TGTACTTTGTACATGAGCTGGAAT 58.195 37.500 0.00 0.00 0.00 3.01
3341 3655 8.455903 AGTATGCAATTGCTTCATAATGTACT 57.544 30.769 29.37 17.29 42.66 2.73
3343 3657 8.136800 CCAAGTATGCAATTGCTTCATAATGTA 58.863 33.333 29.37 7.09 42.66 2.29
3350 3664 6.183360 CCTTATCCAAGTATGCAATTGCTTCA 60.183 38.462 29.37 11.63 42.66 3.02
3365 3679 6.429385 GCTCATAGATCAAACCCTTATCCAAG 59.571 42.308 0.00 0.00 0.00 3.61
3370 3684 6.743773 GCTCAGCTCATAGATCAAACCCTTAT 60.744 42.308 0.00 0.00 0.00 1.73
3397 3711 6.266323 TCGTAGATCTGCTTTTAGATGTGTC 58.734 40.000 5.18 0.00 37.53 3.67
3419 3733 2.084610 TGTGCTCATCAGGTTCTTCG 57.915 50.000 0.00 0.00 0.00 3.79
3470 3785 0.390209 GCAATGCGGTGGCTCAAAAT 60.390 50.000 0.00 0.00 40.82 1.82
3474 3789 4.657408 TGGCAATGCGGTGGCTCA 62.657 61.111 13.14 0.00 44.15 4.26
3475 3790 4.120331 GTGGCAATGCGGTGGCTC 62.120 66.667 13.14 6.88 44.15 4.70
3476 3791 4.972733 TGTGGCAATGCGGTGGCT 62.973 61.111 13.14 0.00 44.15 4.75
3477 3792 2.784889 AATTGTGGCAATGCGGTGGC 62.785 55.000 0.00 6.10 44.09 5.01
3478 3793 0.737019 GAATTGTGGCAATGCGGTGG 60.737 55.000 0.00 0.00 0.00 4.61
3479 3794 0.244450 AGAATTGTGGCAATGCGGTG 59.756 50.000 0.00 0.00 0.00 4.94
3480 3795 0.244450 CAGAATTGTGGCAATGCGGT 59.756 50.000 0.00 0.00 0.00 5.68
3481 3796 0.527113 TCAGAATTGTGGCAATGCGG 59.473 50.000 2.33 0.00 0.00 5.69
3482 3797 2.159352 TCATCAGAATTGTGGCAATGCG 60.159 45.455 2.33 0.00 0.00 4.73
3484 3799 4.157105 TCTGTCATCAGAATTGTGGCAATG 59.843 41.667 2.33 0.00 46.17 2.82
3485 3800 4.338012 TCTGTCATCAGAATTGTGGCAAT 58.662 39.130 2.33 0.00 46.17 3.56
3487 3802 3.421919 TCTGTCATCAGAATTGTGGCA 57.578 42.857 2.33 0.00 46.17 4.92
3507 3822 5.011227 ACCATATTTTTAGCCAAAACCGTGT 59.989 36.000 0.00 0.00 37.18 4.49
3510 3825 7.428282 AAAACCATATTTTTAGCCAAAACCG 57.572 32.000 0.00 0.00 37.18 4.44
3535 3850 5.843673 AATGTAACACCATTGTCACAACA 57.156 34.783 0.00 0.00 33.55 3.33
3536 3851 6.635239 GTGTAATGTAACACCATTGTCACAAC 59.365 38.462 0.00 0.00 43.23 3.32
3537 3852 6.511929 CGTGTAATGTAACACCATTGTCACAA 60.512 38.462 0.00 0.00 45.66 3.33
3538 3853 5.050023 CGTGTAATGTAACACCATTGTCACA 60.050 40.000 16.26 0.00 45.66 3.58
3539 3854 5.379003 CGTGTAATGTAACACCATTGTCAC 58.621 41.667 1.82 0.00 45.66 3.67
3540 3855 4.452795 CCGTGTAATGTAACACCATTGTCA 59.547 41.667 1.82 0.00 45.66 3.58
3541 3856 4.453136 ACCGTGTAATGTAACACCATTGTC 59.547 41.667 1.82 0.00 45.66 3.18
3542 3857 4.391155 ACCGTGTAATGTAACACCATTGT 58.609 39.130 1.82 0.00 45.66 2.71
3543 3858 5.365403 AACCGTGTAATGTAACACCATTG 57.635 39.130 1.82 0.00 45.66 2.82
3544 3859 6.210078 CAAAACCGTGTAATGTAACACCATT 58.790 36.000 1.82 0.00 45.66 3.16
3545 3860 5.278561 CCAAAACCGTGTAATGTAACACCAT 60.279 40.000 1.82 0.00 45.66 3.55
3546 3861 4.036498 CCAAAACCGTGTAATGTAACACCA 59.964 41.667 1.82 0.00 45.66 4.17
3547 3862 4.538917 CCAAAACCGTGTAATGTAACACC 58.461 43.478 1.82 0.00 45.66 4.16
3548 3863 3.976306 GCCAAAACCGTGTAATGTAACAC 59.024 43.478 0.00 0.00 45.10 3.32
3549 3864 3.884091 AGCCAAAACCGTGTAATGTAACA 59.116 39.130 0.00 0.00 0.00 2.41
3550 3865 4.492791 AGCCAAAACCGTGTAATGTAAC 57.507 40.909 0.00 0.00 0.00 2.50
3551 3866 6.630444 TTTAGCCAAAACCGTGTAATGTAA 57.370 33.333 0.00 0.00 0.00 2.41
3552 3867 6.630444 TTTTAGCCAAAACCGTGTAATGTA 57.370 33.333 0.00 0.00 0.00 2.29
3553 3868 5.517322 TTTTAGCCAAAACCGTGTAATGT 57.483 34.783 0.00 0.00 0.00 2.71
3554 3869 8.591312 CATATTTTTAGCCAAAACCGTGTAATG 58.409 33.333 0.00 0.00 37.18 1.90
3555 3870 7.762159 CCATATTTTTAGCCAAAACCGTGTAAT 59.238 33.333 0.00 0.00 37.18 1.89
3556 3871 7.091443 CCATATTTTTAGCCAAAACCGTGTAA 58.909 34.615 0.00 0.00 37.18 2.41
3557 3872 6.208994 ACCATATTTTTAGCCAAAACCGTGTA 59.791 34.615 0.00 0.00 37.18 2.90
3558 3873 5.011227 ACCATATTTTTAGCCAAAACCGTGT 59.989 36.000 0.00 0.00 37.18 4.49
3559 3874 5.474825 ACCATATTTTTAGCCAAAACCGTG 58.525 37.500 0.00 0.00 37.18 4.94
3560 3875 5.731957 ACCATATTTTTAGCCAAAACCGT 57.268 34.783 0.00 0.00 37.18 4.83
3561 3876 6.425417 ACAAACCATATTTTTAGCCAAAACCG 59.575 34.615 0.00 0.00 37.18 4.44
3562 3877 7.737972 ACAAACCATATTTTTAGCCAAAACC 57.262 32.000 0.00 0.00 37.18 3.27
3563 3878 8.616942 ACAACAAACCATATTTTTAGCCAAAAC 58.383 29.630 0.00 0.00 37.18 2.43
3564 3879 8.616076 CACAACAAACCATATTTTTAGCCAAAA 58.384 29.630 0.00 0.00 38.76 2.44
3565 3880 7.987458 TCACAACAAACCATATTTTTAGCCAAA 59.013 29.630 0.00 0.00 0.00 3.28
3566 3881 7.439655 GTCACAACAAACCATATTTTTAGCCAA 59.560 33.333 0.00 0.00 0.00 4.52
3567 3882 6.926272 GTCACAACAAACCATATTTTTAGCCA 59.074 34.615 0.00 0.00 0.00 4.75
3568 3883 6.926272 TGTCACAACAAACCATATTTTTAGCC 59.074 34.615 0.00 0.00 30.70 3.93
3569 3884 7.938563 TGTCACAACAAACCATATTTTTAGC 57.061 32.000 0.00 0.00 30.70 3.09
3620 3936 7.173907 AGACAATGTCATAACAGACCTTCTTTG 59.826 37.037 16.38 0.00 39.20 2.77
3735 4058 7.716799 TGAGGGCTTTGTAATTCATAATGTT 57.283 32.000 0.00 0.00 0.00 2.71
3834 4186 0.242017 GTGGCTCACAATTGTGCTCC 59.758 55.000 29.84 28.59 45.25 4.70
3900 4252 7.121168 CCTCAGCAATTTCTTACAGAAACCATA 59.879 37.037 1.02 0.00 45.83 2.74
3968 6027 2.732412 ATCTCACTCACAACCTGACG 57.268 50.000 0.00 0.00 0.00 4.35
4010 6069 2.639347 TGCATCTCCTCTTCTTGGTGAA 59.361 45.455 0.00 0.00 31.96 3.18
4011 6070 2.235650 CTGCATCTCCTCTTCTTGGTGA 59.764 50.000 0.00 0.00 0.00 4.02
4013 6072 2.027377 CACTGCATCTCCTCTTCTTGGT 60.027 50.000 0.00 0.00 0.00 3.67
4014 6073 2.630158 CACTGCATCTCCTCTTCTTGG 58.370 52.381 0.00 0.00 0.00 3.61
4015 6074 2.027377 ACCACTGCATCTCCTCTTCTTG 60.027 50.000 0.00 0.00 0.00 3.02
4017 6076 1.949799 ACCACTGCATCTCCTCTTCT 58.050 50.000 0.00 0.00 0.00 2.85
4018 6077 2.354259 CAACCACTGCATCTCCTCTTC 58.646 52.381 0.00 0.00 0.00 2.87
4019 6078 2.486472 CAACCACTGCATCTCCTCTT 57.514 50.000 0.00 0.00 0.00 2.85
4030 6089 1.673665 GCCTCTCCAGCAACCACTG 60.674 63.158 0.00 0.00 37.42 3.66
4031 6090 2.753029 GCCTCTCCAGCAACCACT 59.247 61.111 0.00 0.00 0.00 4.00
4032 6091 2.360475 GGCCTCTCCAGCAACCAC 60.360 66.667 0.00 0.00 34.01 4.16
4035 6094 0.391793 GTACAGGCCTCTCCAGCAAC 60.392 60.000 0.00 0.00 37.29 4.17
4036 6095 1.553690 GGTACAGGCCTCTCCAGCAA 61.554 60.000 0.00 0.00 37.29 3.91
4038 6097 1.990060 TGGTACAGGCCTCTCCAGC 60.990 63.158 0.00 0.00 37.29 4.85
4039 6098 4.461119 TGGTACAGGCCTCTCCAG 57.539 61.111 0.00 0.00 37.29 3.86
4051 6110 2.697751 ACAGGAGCTCAGATCATGGTAC 59.302 50.000 17.19 0.00 32.91 3.34
4052 6111 2.697229 CACAGGAGCTCAGATCATGGTA 59.303 50.000 17.19 0.00 32.91 3.25
4053 6112 1.485480 CACAGGAGCTCAGATCATGGT 59.515 52.381 17.19 0.00 32.91 3.55
4054 6113 1.485480 ACACAGGAGCTCAGATCATGG 59.515 52.381 17.19 0.69 32.91 3.66
4059 6118 1.346062 ACACACACAGGAGCTCAGAT 58.654 50.000 17.19 0.00 0.00 2.90
4064 6123 4.357918 AGAAAATACACACACAGGAGCT 57.642 40.909 0.00 0.00 0.00 4.09
4065 6124 4.515191 TGAAGAAAATACACACACAGGAGC 59.485 41.667 0.00 0.00 0.00 4.70
4066 6125 6.605849 CATGAAGAAAATACACACACAGGAG 58.394 40.000 0.00 0.00 0.00 3.69
4069 6128 6.005583 AGCATGAAGAAAATACACACACAG 57.994 37.500 0.00 0.00 0.00 3.66
4109 6168 4.534103 ACAGAAGAAGAGCCCAGAATTACT 59.466 41.667 0.00 0.00 0.00 2.24
4121 6180 4.686554 CCCGTTTCAGTAACAGAAGAAGAG 59.313 45.833 0.00 0.00 36.50 2.85
4163 6222 3.004419 CCGTTCTGTCTCTGTAACTGTGA 59.996 47.826 0.00 0.00 0.00 3.58
4164 6223 3.004419 TCCGTTCTGTCTCTGTAACTGTG 59.996 47.826 0.00 0.00 0.00 3.66
4165 6224 3.220110 TCCGTTCTGTCTCTGTAACTGT 58.780 45.455 0.00 0.00 0.00 3.55
4169 6228 5.068636 AGTACTTCCGTTCTGTCTCTGTAA 58.931 41.667 0.00 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.