Multiple sequence alignment - TraesCS7D01G267900

Loading Multiple Alignment...

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 TraesCS7D01G267900 chr7D 100.000 5801 0 0 1 5801 251505210 251511010 0.000000e+00 10713
1 TraesCS7D01G267900 chr7D 90.402 2761 187 34 2209 4916 252028483 252031218 0.000000e+00 3559
2 TraesCS7D01G267900 chr7D 99.058 637 6 0 5165 5801 288270099 288270735 0.000000e+00 1144
3 TraesCS7D01G267900 chr7D 94.324 599 28 5 1612 2209 252027549 252028142 0.000000e+00 913
4 TraesCS7D01G267900 chr7D 86.726 791 42 21 873 1608 252026728 252027510 0.000000e+00 821
5 TraesCS7D01G267900 chr7D 97.610 251 5 1 4914 5164 251515709 251515958 4.150000e-116 429
6 TraesCS7D01G267900 chr7A 94.746 2417 101 7 1 2404 269965968 269963565 0.000000e+00 3736
7 TraesCS7D01G267900 chr7A 95.789 1781 44 9 3158 4916 269960323 269958552 0.000000e+00 2844
8 TraesCS7D01G267900 chr7A 88.251 2315 152 54 876 3096 269283369 269281081 0.000000e+00 2658
9 TraesCS7D01G267900 chr7A 90.914 1882 109 25 3077 4916 269280776 269278915 0.000000e+00 2471
10 TraesCS7D01G267900 chr7A 97.775 764 15 1 2400 3161 269961188 269960425 0.000000e+00 1315
11 TraesCS7D01G267900 chr7B 92.311 2614 104 36 2378 4916 228390931 228393522 0.000000e+00 3624
12 TraesCS7D01G267900 chr7B 89.348 2760 195 38 2209 4916 228783857 228786569 0.000000e+00 3376
13 TraesCS7D01G267900 chr7B 89.885 1740 112 21 69 1772 228387462 228389173 0.000000e+00 2180
14 TraesCS7D01G267900 chr7B 97.097 620 15 2 1763 2382 228390236 228390852 0.000000e+00 1042
15 TraesCS7D01G267900 chr7B 94.491 599 25 6 1612 2209 228782926 228783517 0.000000e+00 917
16 TraesCS7D01G267900 chr7B 92.115 520 32 7 1093 1608 228782373 228782887 0.000000e+00 725
17 TraesCS7D01G267900 chr7B 82.310 277 13 13 873 1116 228782090 228782363 2.120000e-49 207
18 TraesCS7D01G267900 chr6D 99.058 637 6 0 5165 5801 374511479 374510843 0.000000e+00 1144
19 TraesCS7D01G267900 chr6D 97.581 248 5 1 4917 5164 177872539 177872293 1.930000e-114 424
20 TraesCS7D01G267900 chr6D 97.177 248 6 1 4917 5164 169362797 169362551 8.990000e-113 418
21 TraesCS7D01G267900 chr5D 99.058 637 6 0 5165 5801 29953629 29952993 0.000000e+00 1144
22 TraesCS7D01G267900 chr5D 96.774 248 7 1 4917 5164 70024758 70024512 4.180000e-111 412
23 TraesCS7D01G267900 chr5D 90.530 264 25 0 485 748 369105924 369106187 3.330000e-92 350
24 TraesCS7D01G267900 chr3D 99.058 637 6 0 5165 5801 61214166 61214802 0.000000e+00 1144
25 TraesCS7D01G267900 chr3D 99.058 637 6 0 5165 5801 270445480 270444844 0.000000e+00 1144
26 TraesCS7D01G267900 chr3D 95.652 253 9 2 4912 5164 67593219 67592969 7.000000e-109 405
27 TraesCS7D01G267900 chr1D 99.058 637 5 1 5165 5801 368568833 368569468 0.000000e+00 1142
28 TraesCS7D01G267900 chr1D 98.752 641 7 1 5161 5801 219913178 219912539 0.000000e+00 1138
29 TraesCS7D01G267900 chr4D 98.901 637 7 0 5165 5801 415694328 415694964 0.000000e+00 1138
30 TraesCS7D01G267900 chr4D 99.054 634 6 0 5165 5798 434713523 434714156 0.000000e+00 1138
31 TraesCS7D01G267900 chr2D 97.984 248 4 1 4917 5164 592737840 592738086 4.150000e-116 429
32 TraesCS7D01G267900 chr2D 97.610 251 5 1 4914 5164 592748009 592748258 4.150000e-116 429
33 TraesCS7D01G267900 chr2D 97.590 249 5 1 4916 5164 571970143 571970390 5.370000e-115 425
34 TraesCS7D01G267900 chr2D 96.825 252 5 3 4914 5164 571982428 571982677 8.990000e-113 418
35 TraesCS7D01G267900 chr5A 91.489 282 21 2 485 765 471305849 471305570 9.120000e-103 385
36 TraesCS7D01G267900 chr2B 92.748 262 19 0 496 757 731334117 731334378 4.240000e-101 379
37 TraesCS7D01G267900 chrUn 89.931 288 27 2 485 770 98340468 98340181 2.550000e-98 370
38 TraesCS7D01G267900 chrUn 86.594 276 35 1 485 760 1070462 1070189 2.630000e-78 303
39 TraesCS7D01G267900 chrUn 87.452 263 33 0 485 747 300086111 300086373 2.630000e-78 303
40 TraesCS7D01G267900 chrUn 86.594 276 35 1 485 760 304177479 304177206 2.630000e-78 303


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 TraesCS7D01G267900 chr7D 251505210 251511010 5800 False 10713.000000 10713 100.000000 1 5801 1 chr7D.!!$F1 5800
1 TraesCS7D01G267900 chr7D 252026728 252031218 4490 False 1764.333333 3559 90.484000 873 4916 3 chr7D.!!$F4 4043
2 TraesCS7D01G267900 chr7D 288270099 288270735 636 False 1144.000000 1144 99.058000 5165 5801 1 chr7D.!!$F3 636
3 TraesCS7D01G267900 chr7A 269958552 269965968 7416 True 2631.666667 3736 96.103333 1 4916 3 chr7A.!!$R2 4915
4 TraesCS7D01G267900 chr7A 269278915 269283369 4454 True 2564.500000 2658 89.582500 876 4916 2 chr7A.!!$R1 4040
5 TraesCS7D01G267900 chr7B 228387462 228393522 6060 False 2282.000000 3624 93.097667 69 4916 3 chr7B.!!$F1 4847
6 TraesCS7D01G267900 chr7B 228782090 228786569 4479 False 1306.250000 3376 89.566000 873 4916 4 chr7B.!!$F2 4043
7 TraesCS7D01G267900 chr6D 374510843 374511479 636 True 1144.000000 1144 99.058000 5165 5801 1 chr6D.!!$R3 636
8 TraesCS7D01G267900 chr5D 29952993 29953629 636 True 1144.000000 1144 99.058000 5165 5801 1 chr5D.!!$R1 636
9 TraesCS7D01G267900 chr3D 61214166 61214802 636 False 1144.000000 1144 99.058000 5165 5801 1 chr3D.!!$F1 636
10 TraesCS7D01G267900 chr3D 270444844 270445480 636 True 1144.000000 1144 99.058000 5165 5801 1 chr3D.!!$R2 636
11 TraesCS7D01G267900 chr1D 368568833 368569468 635 False 1142.000000 1142 99.058000 5165 5801 1 chr1D.!!$F1 636
12 TraesCS7D01G267900 chr1D 219912539 219913178 639 True 1138.000000 1138 98.752000 5161 5801 1 chr1D.!!$R1 640
13 TraesCS7D01G267900 chr4D 415694328 415694964 636 False 1138.000000 1138 98.901000 5165 5801 1 chr4D.!!$F1 636
14 TraesCS7D01G267900 chr4D 434713523 434714156 633 False 1138.000000 1138 99.054000 5165 5798 1 chr4D.!!$F2 633

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
280 281 0.315251 CAGATGCGAGCCGATCCTAA 59.685 55.000 0.00 0.0 0.0 2.69 F
538 539 0.463833 CTTGGTATGAAGGCGGTCCC 60.464 60.000 0.00 0.0 0.0 4.46 F
549 550 1.379146 GCGGTCCCCCTCTTTCTTT 59.621 57.895 0.00 0.0 0.0 2.52 F
1239 1320 1.674057 CACTCCGTGGCCTCTCTTT 59.326 57.895 3.32 0.0 0.0 2.52 F
2767 6799 1.678360 CAGCGATGAAGTTTGTGTGC 58.322 50.000 0.00 0.0 0.0 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1386 1473 0.537143 TCATCAAACAGCTTGGGCGT 60.537 50.000 0.00 0.00 44.37 5.68 R
2535 6538 1.638529 AGCAGAAGACCAGCTACAGT 58.361 50.000 0.00 0.00 36.73 3.55 R
2610 6617 4.816392 TGTACATGTCACCTGTGATGTAC 58.184 43.478 24.17 24.17 46.19 2.90 R
3046 7080 0.540365 AACCGGTCGGACAGGACTAA 60.540 55.000 29.93 0.00 36.90 2.24 R
4814 9348 0.324943 TCTGGGTAAGAGGCAAGTGC 59.675 55.000 0.00 0.00 41.14 4.40 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
21 22 2.397252 GCAACGAGCGAGCATGAC 59.603 61.111 0.00 0.00 0.00 3.06
24 25 2.989881 AACGAGCGAGCATGACCGA 61.990 57.895 10.68 0.00 0.00 4.69
40 41 0.606604 CCGACGAAGAAGAAAGGGGA 59.393 55.000 0.00 0.00 0.00 4.81
58 59 3.307059 GGGGATCGAGATTTGGTAGATGG 60.307 52.174 0.00 0.00 0.00 3.51
106 107 4.281657 AGAGGAGGATTAATTGGTTTGCC 58.718 43.478 0.00 0.00 0.00 4.52
109 110 1.134175 AGGATTAATTGGTTTGCCGCG 59.866 47.619 0.00 0.00 37.67 6.46
119 120 0.454452 GTTTGCCGCGTTGAGATTCC 60.454 55.000 4.92 0.00 0.00 3.01
222 223 8.235359 TCATCATCATATTATTGTTGTTGGCA 57.765 30.769 0.00 0.00 0.00 4.92
227 228 0.670706 TTATTGTTGTTGGCAGCGCA 59.329 45.000 11.47 0.00 0.00 6.09
280 281 0.315251 CAGATGCGAGCCGATCCTAA 59.685 55.000 0.00 0.00 0.00 2.69
347 348 5.670485 TCGTGCTGGATAAACATTATCAGT 58.330 37.500 11.13 0.00 0.00 3.41
392 393 4.862350 TCATGAACATTGTGTTTGCTCTG 58.138 39.130 0.00 0.00 41.28 3.35
440 441 2.664916 CAAGGCACGAACAAATTCCTG 58.335 47.619 0.00 0.00 0.00 3.86
464 465 6.544197 TGGTAAATTTAAATGAGCCTATGCGA 59.456 34.615 0.39 0.00 44.33 5.10
538 539 0.463833 CTTGGTATGAAGGCGGTCCC 60.464 60.000 0.00 0.00 0.00 4.46
546 547 2.538512 GAAGGCGGTCCCCCTCTTTC 62.539 65.000 0.00 0.00 0.00 2.62
549 550 1.379146 GCGGTCCCCCTCTTTCTTT 59.621 57.895 0.00 0.00 0.00 2.52
577 578 3.385384 CAGCAGCGGAGGAGGACA 61.385 66.667 0.00 0.00 0.00 4.02
619 620 2.844946 TGGCACAAGATTCTGTCGAAA 58.155 42.857 0.00 0.00 31.92 3.46
700 701 6.163476 TGTATGTCTTCTGTAATGACCACAC 58.837 40.000 0.00 0.00 0.00 3.82
712 713 4.859304 ATGACCACACGTGTACTCTTTA 57.141 40.909 22.90 4.80 0.00 1.85
715 716 6.519679 TGACCACACGTGTACTCTTTATAT 57.480 37.500 22.90 0.00 0.00 0.86
1238 1319 3.382111 CACTCCGTGGCCTCTCTT 58.618 61.111 3.32 0.00 0.00 2.85
1239 1320 1.674057 CACTCCGTGGCCTCTCTTT 59.326 57.895 3.32 0.00 0.00 2.52
1340 1421 3.461831 CCTGGGACTGGGATGGTTTATAA 59.538 47.826 0.00 0.00 44.20 0.98
1364 1451 6.503944 AGGACTAGGATTCTTAGTTGAAGGA 58.496 40.000 9.56 0.00 35.67 3.36
1985 3181 9.547753 GATCAACCAATCTTAGCTGATAACTTA 57.452 33.333 0.00 0.00 0.00 2.24
2210 3748 9.121517 CACATGACTTTCAACTTCAATGTTATC 57.878 33.333 0.00 0.00 0.00 1.75
2535 6538 7.504238 ACCATATAAGAACCGAATGCCAATTAA 59.496 33.333 0.00 0.00 0.00 1.40
2610 6617 7.796838 TCTGACGTTCATTTGTTAGAAATCAG 58.203 34.615 0.00 0.00 38.89 2.90
2767 6799 1.678360 CAGCGATGAAGTTTGTGTGC 58.322 50.000 0.00 0.00 0.00 4.57
3070 7104 0.248289 CCTGTCCGACCGGTTATTGT 59.752 55.000 9.42 0.00 36.47 2.71
3172 7636 6.500751 AGTCTAAAGAAGTAGGATTTGGTGGA 59.499 38.462 0.00 0.00 0.00 4.02
3236 7700 4.083324 ACGCCTTCATGTGTACAAATTCAG 60.083 41.667 0.00 0.00 0.00 3.02
3477 7945 3.942115 TCGGAATGTTTGTGTGTTCTTGA 59.058 39.130 0.00 0.00 0.00 3.02
4074 8564 3.864789 TGTCTTCTTTCCTCTGGCTTT 57.135 42.857 0.00 0.00 0.00 3.51
4150 8640 7.699391 TCGTATAGGAAAAACAGATTAGTGTCG 59.301 37.037 0.00 0.00 0.00 4.35
4222 8727 6.134061 GGTGTAGTTTCAACTTTAAAGCTCG 58.866 40.000 15.24 4.14 40.37 5.03
4643 9161 1.284982 GGTGCGTGCTATATCGGCAG 61.285 60.000 3.89 0.00 40.54 4.85
4647 9165 1.901538 CGTGCTATATCGGCAGCTAG 58.098 55.000 3.89 0.00 40.54 3.42
4668 9202 6.072452 GCTAGTGCTATGTTCTTTTCCAGTTT 60.072 38.462 0.00 0.00 36.03 2.66
4672 9206 6.430000 GTGCTATGTTCTTTTCCAGTTTCCTA 59.570 38.462 0.00 0.00 0.00 2.94
4727 9261 1.834263 GCAGGTAGGATTCAGGTCAGT 59.166 52.381 0.00 0.00 0.00 3.41
4814 9348 5.128171 ACCACAAATGATGGAATGAGATTGG 59.872 40.000 0.00 0.00 39.87 3.16
4934 9468 9.784531 ACAAATATTGTTGAGGATATAGACCTG 57.215 33.333 6.07 0.00 42.22 4.00
4935 9469 9.224267 CAAATATTGTTGAGGATATAGACCTGG 57.776 37.037 6.07 0.00 37.93 4.45
4936 9470 5.832539 ATTGTTGAGGATATAGACCTGGG 57.167 43.478 6.07 0.00 37.93 4.45
4937 9471 4.552883 TGTTGAGGATATAGACCTGGGA 57.447 45.455 6.07 0.00 37.93 4.37
4938 9472 4.483950 TGTTGAGGATATAGACCTGGGAG 58.516 47.826 6.07 0.00 37.93 4.30
4939 9473 4.078571 TGTTGAGGATATAGACCTGGGAGT 60.079 45.833 6.07 0.00 37.93 3.85
4940 9474 4.390129 TGAGGATATAGACCTGGGAGTC 57.610 50.000 6.07 0.00 37.93 3.36
4941 9475 3.727391 TGAGGATATAGACCTGGGAGTCA 59.273 47.826 6.07 0.00 39.34 3.41
4942 9476 4.083565 GAGGATATAGACCTGGGAGTCAC 58.916 52.174 6.07 0.00 39.34 3.67
4943 9477 3.166679 GGATATAGACCTGGGAGTCACC 58.833 54.545 0.00 0.00 39.34 4.02
4952 9486 3.775654 GGAGTCACCCGCCAGGAG 61.776 72.222 0.00 0.00 41.02 3.69
4953 9487 3.775654 GAGTCACCCGCCAGGAGG 61.776 72.222 1.14 1.14 41.02 4.30
4963 9497 2.829592 CCAGGAGGGCCGGATTAC 59.170 66.667 5.05 0.00 39.96 1.89
4964 9498 2.070039 CCAGGAGGGCCGGATTACA 61.070 63.158 5.05 0.00 39.96 2.41
4965 9499 1.146263 CAGGAGGGCCGGATTACAC 59.854 63.158 5.05 0.00 39.96 2.90
4966 9500 1.003051 AGGAGGGCCGGATTACACT 59.997 57.895 5.05 0.00 39.96 3.55
4967 9501 0.263765 AGGAGGGCCGGATTACACTA 59.736 55.000 5.05 0.00 39.96 2.74
4968 9502 1.125633 GGAGGGCCGGATTACACTAA 58.874 55.000 5.05 0.00 0.00 2.24
4969 9503 1.070289 GGAGGGCCGGATTACACTAAG 59.930 57.143 5.05 0.00 0.00 2.18
4970 9504 1.070289 GAGGGCCGGATTACACTAAGG 59.930 57.143 5.05 0.00 0.00 2.69
4971 9505 0.108019 GGGCCGGATTACACTAAGGG 59.892 60.000 5.05 0.00 0.00 3.95
4972 9506 0.835276 GGCCGGATTACACTAAGGGT 59.165 55.000 5.05 0.00 0.00 4.34
4973 9507 1.202615 GGCCGGATTACACTAAGGGTC 60.203 57.143 5.05 0.00 0.00 4.46
4974 9508 1.483415 GCCGGATTACACTAAGGGTCA 59.517 52.381 5.05 0.00 0.00 4.02
4975 9509 2.104281 GCCGGATTACACTAAGGGTCAT 59.896 50.000 5.05 0.00 0.00 3.06
4976 9510 3.433173 GCCGGATTACACTAAGGGTCATT 60.433 47.826 5.05 0.00 0.00 2.57
4977 9511 4.127171 CCGGATTACACTAAGGGTCATTG 58.873 47.826 0.00 0.00 0.00 2.82
4978 9512 3.560068 CGGATTACACTAAGGGTCATTGC 59.440 47.826 0.00 0.00 0.00 3.56
4979 9513 3.883489 GGATTACACTAAGGGTCATTGCC 59.117 47.826 0.00 0.00 0.00 4.52
4980 9514 4.523083 GATTACACTAAGGGTCATTGCCA 58.477 43.478 0.00 0.00 0.00 4.92
4981 9515 2.496899 ACACTAAGGGTCATTGCCAG 57.503 50.000 0.00 0.00 0.00 4.85
4982 9516 1.985159 ACACTAAGGGTCATTGCCAGA 59.015 47.619 0.00 0.00 0.00 3.86
4983 9517 2.375174 ACACTAAGGGTCATTGCCAGAA 59.625 45.455 0.00 0.00 0.00 3.02
4984 9518 3.181434 ACACTAAGGGTCATTGCCAGAAA 60.181 43.478 0.00 0.00 0.00 2.52
4985 9519 3.191371 CACTAAGGGTCATTGCCAGAAAC 59.809 47.826 0.00 0.00 0.00 2.78
4986 9520 1.632589 AAGGGTCATTGCCAGAAACC 58.367 50.000 0.00 0.00 0.00 3.27
4987 9521 2.276869 GGGTCATTGCCAGAAACCC 58.723 57.895 0.00 0.00 42.62 4.11
4988 9522 1.595093 GGGTCATTGCCAGAAACCCG 61.595 60.000 0.00 0.00 40.19 5.28
4989 9523 1.595093 GGTCATTGCCAGAAACCCGG 61.595 60.000 0.00 0.00 0.00 5.73
4990 9524 0.608035 GTCATTGCCAGAAACCCGGA 60.608 55.000 0.73 0.00 0.00 5.14
4991 9525 0.322456 TCATTGCCAGAAACCCGGAG 60.322 55.000 0.73 0.00 0.00 4.63
4992 9526 1.678970 ATTGCCAGAAACCCGGAGC 60.679 57.895 0.73 0.00 0.00 4.70
4993 9527 2.142292 ATTGCCAGAAACCCGGAGCT 62.142 55.000 0.73 0.00 0.00 4.09
4994 9528 1.485294 TTGCCAGAAACCCGGAGCTA 61.485 55.000 0.73 0.00 0.00 3.32
4995 9529 1.298667 GCCAGAAACCCGGAGCTAA 59.701 57.895 0.73 0.00 0.00 3.09
4996 9530 0.744771 GCCAGAAACCCGGAGCTAAG 60.745 60.000 0.73 0.00 0.00 2.18
4997 9531 0.613777 CCAGAAACCCGGAGCTAAGT 59.386 55.000 0.73 0.00 0.00 2.24
4998 9532 1.003233 CCAGAAACCCGGAGCTAAGTT 59.997 52.381 0.73 0.00 0.00 2.66
4999 9533 2.347731 CAGAAACCCGGAGCTAAGTTC 58.652 52.381 0.73 0.00 0.00 3.01
5000 9534 1.278413 AGAAACCCGGAGCTAAGTTCC 59.722 52.381 0.73 0.00 0.00 3.62
5001 9535 1.002773 GAAACCCGGAGCTAAGTTCCA 59.997 52.381 0.73 0.00 32.31 3.53
5002 9536 1.061546 AACCCGGAGCTAAGTTCCAA 58.938 50.000 0.73 0.00 32.31 3.53
5003 9537 0.613777 ACCCGGAGCTAAGTTCCAAG 59.386 55.000 0.73 0.00 32.31 3.61
5004 9538 0.902531 CCCGGAGCTAAGTTCCAAGA 59.097 55.000 0.73 0.00 32.31 3.02
5005 9539 1.486726 CCCGGAGCTAAGTTCCAAGAT 59.513 52.381 0.73 0.00 32.31 2.40
5006 9540 2.698797 CCCGGAGCTAAGTTCCAAGATA 59.301 50.000 0.73 0.00 32.31 1.98
5007 9541 3.134081 CCCGGAGCTAAGTTCCAAGATAA 59.866 47.826 0.73 0.00 32.31 1.75
5008 9542 4.202367 CCCGGAGCTAAGTTCCAAGATAAT 60.202 45.833 0.73 0.00 32.31 1.28
5009 9543 4.752101 CCGGAGCTAAGTTCCAAGATAATG 59.248 45.833 0.00 0.00 32.31 1.90
5010 9544 4.752101 CGGAGCTAAGTTCCAAGATAATGG 59.248 45.833 0.00 0.00 42.12 3.16
5011 9545 5.066593 GGAGCTAAGTTCCAAGATAATGGG 58.933 45.833 0.00 0.00 41.05 4.00
5012 9546 4.464947 AGCTAAGTTCCAAGATAATGGGC 58.535 43.478 0.00 0.00 41.05 5.36
5013 9547 3.570125 GCTAAGTTCCAAGATAATGGGCC 59.430 47.826 0.00 0.00 41.05 5.80
5014 9548 3.756082 AAGTTCCAAGATAATGGGCCA 57.244 42.857 9.61 9.61 41.05 5.36
5015 9549 3.303351 AGTTCCAAGATAATGGGCCAG 57.697 47.619 13.78 0.00 41.05 4.85
5016 9550 2.852449 AGTTCCAAGATAATGGGCCAGA 59.148 45.455 13.78 2.18 41.05 3.86
5017 9551 3.117738 AGTTCCAAGATAATGGGCCAGAG 60.118 47.826 13.78 0.00 41.05 3.35
5018 9552 2.775418 TCCAAGATAATGGGCCAGAGA 58.225 47.619 13.78 0.00 41.05 3.10
5019 9553 3.330198 TCCAAGATAATGGGCCAGAGAT 58.670 45.455 13.78 4.68 41.05 2.75
5020 9554 3.073503 TCCAAGATAATGGGCCAGAGATG 59.926 47.826 13.78 6.12 41.05 2.90
5021 9555 3.418995 CAAGATAATGGGCCAGAGATGG 58.581 50.000 13.78 0.00 0.00 3.51
5022 9556 1.991070 AGATAATGGGCCAGAGATGGG 59.009 52.381 13.78 0.00 0.00 4.00
5030 9564 1.828768 CCAGAGATGGGCTGAGACC 59.171 63.158 0.00 0.00 35.39 3.85
5037 9571 4.217112 GGGCTGAGACCCGGATAT 57.783 61.111 0.73 0.00 40.98 1.63
5038 9572 1.674057 GGGCTGAGACCCGGATATG 59.326 63.158 0.73 0.00 40.98 1.78
5039 9573 1.674057 GGCTGAGACCCGGATATGG 59.326 63.158 0.73 0.00 0.00 2.74
5040 9574 1.004440 GCTGAGACCCGGATATGGC 60.004 63.158 0.73 0.00 0.00 4.40
5041 9575 1.476007 GCTGAGACCCGGATATGGCT 61.476 60.000 0.73 0.00 0.00 4.75
5042 9576 1.051812 CTGAGACCCGGATATGGCTT 58.948 55.000 0.73 0.00 0.00 4.35
5043 9577 2.248248 CTGAGACCCGGATATGGCTTA 58.752 52.381 0.73 0.00 0.00 3.09
5044 9578 2.632996 CTGAGACCCGGATATGGCTTAA 59.367 50.000 0.73 0.00 0.00 1.85
5045 9579 3.042682 TGAGACCCGGATATGGCTTAAA 58.957 45.455 0.73 0.00 0.00 1.52
5046 9580 3.071023 TGAGACCCGGATATGGCTTAAAG 59.929 47.826 0.73 0.00 0.00 1.85
5047 9581 2.152016 GACCCGGATATGGCTTAAAGC 58.848 52.381 0.73 0.00 41.46 3.51
5048 9582 1.774856 ACCCGGATATGGCTTAAAGCT 59.225 47.619 0.73 0.00 41.99 3.74
5049 9583 2.224548 ACCCGGATATGGCTTAAAGCTC 60.225 50.000 0.73 0.00 41.99 4.09
5050 9584 2.069273 CCGGATATGGCTTAAAGCTCG 58.931 52.381 0.00 0.00 41.99 5.03
5051 9585 2.548067 CCGGATATGGCTTAAAGCTCGT 60.548 50.000 0.00 0.00 41.99 4.18
5052 9586 3.305813 CCGGATATGGCTTAAAGCTCGTA 60.306 47.826 0.00 0.00 41.99 3.43
5053 9587 3.921021 CGGATATGGCTTAAAGCTCGTAG 59.079 47.826 0.00 0.00 41.99 3.51
5054 9588 4.558898 CGGATATGGCTTAAAGCTCGTAGT 60.559 45.833 0.00 0.00 41.99 2.73
5055 9589 5.335426 CGGATATGGCTTAAAGCTCGTAGTA 60.335 44.000 0.00 0.00 41.99 1.82
5056 9590 5.862860 GGATATGGCTTAAAGCTCGTAGTAC 59.137 44.000 0.00 0.00 41.99 2.73
5057 9591 4.730949 ATGGCTTAAAGCTCGTAGTACA 57.269 40.909 0.38 0.00 41.99 2.90
5058 9592 4.524316 TGGCTTAAAGCTCGTAGTACAA 57.476 40.909 0.38 0.00 41.99 2.41
5059 9593 5.080969 TGGCTTAAAGCTCGTAGTACAAT 57.919 39.130 0.38 0.00 41.99 2.71
5060 9594 5.107133 TGGCTTAAAGCTCGTAGTACAATC 58.893 41.667 0.38 0.00 41.99 2.67
5061 9595 5.105473 TGGCTTAAAGCTCGTAGTACAATCT 60.105 40.000 0.38 0.00 41.99 2.40
5062 9596 5.811100 GGCTTAAAGCTCGTAGTACAATCTT 59.189 40.000 0.38 0.00 41.99 2.40
5063 9597 6.313164 GGCTTAAAGCTCGTAGTACAATCTTT 59.687 38.462 0.38 8.12 41.99 2.52
5064 9598 7.490402 GGCTTAAAGCTCGTAGTACAATCTTTA 59.510 37.037 0.38 7.27 41.99 1.85
5065 9599 9.032420 GCTTAAAGCTCGTAGTACAATCTTTAT 57.968 33.333 13.78 0.21 38.45 1.40
5115 9649 5.704217 CAAGTATTGTTTAGAGTCCGAGC 57.296 43.478 0.00 0.00 42.34 5.03
5116 9650 4.388378 AGTATTGTTTAGAGTCCGAGCC 57.612 45.455 0.00 0.00 0.00 4.70
5117 9651 2.295253 ATTGTTTAGAGTCCGAGCCG 57.705 50.000 0.00 0.00 0.00 5.52
5129 9663 3.258225 CGAGCCGGACACTCTTATG 57.742 57.895 5.05 0.00 31.71 1.90
5130 9664 0.738975 CGAGCCGGACACTCTTATGA 59.261 55.000 5.05 0.00 31.71 2.15
5131 9665 1.268794 CGAGCCGGACACTCTTATGAG 60.269 57.143 5.05 4.14 45.43 2.90
5132 9666 0.461961 AGCCGGACACTCTTATGAGC 59.538 55.000 5.05 0.00 43.85 4.26
5133 9667 0.530870 GCCGGACACTCTTATGAGCC 60.531 60.000 5.05 0.00 43.85 4.70
5134 9668 0.249073 CCGGACACTCTTATGAGCCG 60.249 60.000 0.00 13.06 43.85 5.52
5135 9669 0.249073 CGGACACTCTTATGAGCCGG 60.249 60.000 12.49 0.00 43.85 6.13
5136 9670 0.530870 GGACACTCTTATGAGCCGGC 60.531 60.000 21.89 21.89 43.85 6.13
5137 9671 0.530870 GACACTCTTATGAGCCGGCC 60.531 60.000 26.15 15.80 43.85 6.13
5138 9672 1.592669 CACTCTTATGAGCCGGCCG 60.593 63.158 26.15 21.04 43.85 6.13
5139 9673 2.029666 CTCTTATGAGCCGGCCGG 59.970 66.667 40.26 40.26 33.12 6.13
5140 9674 3.521529 CTCTTATGAGCCGGCCGGG 62.522 68.421 43.31 25.74 39.58 5.73
5141 9675 3.546543 CTTATGAGCCGGCCGGGA 61.547 66.667 43.31 10.93 38.47 5.14
5142 9676 3.809374 CTTATGAGCCGGCCGGGAC 62.809 68.421 43.31 28.68 38.47 4.46
5143 9677 4.853142 TATGAGCCGGCCGGGACT 62.853 66.667 43.31 32.89 38.47 3.85
5147 9681 4.772231 AGCCGGCCGGGACTCTAA 62.772 66.667 43.31 0.00 38.47 2.10
5148 9682 4.222847 GCCGGCCGGGACTCTAAG 62.223 72.222 43.31 17.04 38.47 2.18
5149 9683 3.537874 CCGGCCGGGACTCTAAGG 61.538 72.222 37.42 6.27 38.47 2.69
5150 9684 3.537874 CGGCCGGGACTCTAAGGG 61.538 72.222 20.10 0.00 0.00 3.95
5151 9685 3.862991 GGCCGGGACTCTAAGGGC 61.863 72.222 2.18 0.00 43.01 5.19
5152 9686 3.862991 GCCGGGACTCTAAGGGCC 61.863 72.222 2.18 0.00 37.82 5.80
5153 9687 3.537874 CCGGGACTCTAAGGGCCG 61.538 72.222 0.00 0.00 0.00 6.13
5154 9688 4.222847 CGGGACTCTAAGGGCCGC 62.223 72.222 0.00 0.00 0.00 6.53
5155 9689 3.862991 GGGACTCTAAGGGCCGCC 61.863 72.222 0.00 0.00 0.00 6.13
5156 9690 4.222847 GGACTCTAAGGGCCGCCG 62.223 72.222 2.55 0.00 0.00 6.46
5157 9691 4.222847 GACTCTAAGGGCCGCCGG 62.223 72.222 0.00 0.00 0.00 6.13
5470 10004 3.261818 AGTGTAACCCCTCTGAGAACT 57.738 47.619 6.17 0.00 37.80 3.01
5546 10080 1.337167 GCTTCCTGTTCAAACATGGGC 60.337 52.381 0.00 0.12 38.41 5.36
5731 10265 7.436376 TCGCAAATTCTACTCTGATTATGACAG 59.564 37.037 0.00 0.00 36.80 3.51
5774 10308 3.305744 GCTTGACCGGCTTAATTTTGGAA 60.306 43.478 0.00 0.00 0.00 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 0.606604 TCCCCTTTCTTCTTCGTCGG 59.393 55.000 0.00 0.00 0.00 4.79
24 25 2.166664 CTCGATCCCCTTTCTTCTTCGT 59.833 50.000 0.00 0.00 0.00 3.85
40 41 3.325135 GTCCCCATCTACCAAATCTCGAT 59.675 47.826 0.00 0.00 0.00 3.59
58 59 2.000447 CAGTAACAAAGCGCTAGTCCC 59.000 52.381 12.05 6.98 0.00 4.46
103 104 1.741401 CAGGAATCTCAACGCGGCA 60.741 57.895 12.47 0.00 0.00 5.69
106 107 1.725931 GCAAACAGGAATCTCAACGCG 60.726 52.381 3.53 3.53 0.00 6.01
109 110 3.319122 ACTTGGCAAACAGGAATCTCAAC 59.681 43.478 0.00 0.00 0.00 3.18
119 120 0.385390 GGTGGACACTTGGCAAACAG 59.615 55.000 0.00 0.00 0.00 3.16
222 223 3.315142 ATGGATCACGGTGTGCGCT 62.315 57.895 9.73 0.00 32.98 5.92
227 228 1.134401 GGATGACATGGATCACGGTGT 60.134 52.381 8.17 0.00 0.00 4.16
280 281 3.679980 GTGCACGACAATGATACACTCTT 59.320 43.478 0.00 0.00 0.00 2.85
347 348 7.374272 TGAATCAAGATCGTTTAATTTGCCAA 58.626 30.769 0.00 0.00 0.00 4.52
392 393 2.095372 GCAACGGGACATACTTTGCTAC 59.905 50.000 0.00 0.00 0.00 3.58
440 441 6.966021 TCGCATAGGCTCATTTAAATTTACC 58.034 36.000 0.00 0.24 38.10 2.85
464 465 6.490040 TGCTTTGCACTATTTCTTTAGGAACT 59.510 34.615 0.00 0.00 36.39 3.01
510 511 4.520874 CGCCTTCATACCAAGATCTAGAGA 59.479 45.833 0.00 0.00 0.00 3.10
538 539 1.266989 GGCAACGTCAAAGAAAGAGGG 59.733 52.381 0.00 0.00 0.00 4.30
546 547 2.320215 TGCTGAGGCAACGTCAAAG 58.680 52.632 0.00 0.00 46.36 2.77
564 565 1.613630 ACCATTGTCCTCCTCCGCT 60.614 57.895 0.00 0.00 0.00 5.52
568 569 1.077429 GCCCACCATTGTCCTCCTC 60.077 63.158 0.00 0.00 0.00 3.71
577 578 2.265182 CCAAACGTCGCCCACCATT 61.265 57.895 0.00 0.00 0.00 3.16
598 599 2.768253 TCGACAGAATCTTGTGCCAT 57.232 45.000 0.00 0.00 0.00 4.40
700 701 9.282247 AGACAAACGTAATATAAAGAGTACACG 57.718 33.333 0.00 0.00 0.00 4.49
760 766 2.431782 AGGCATGTGCACTGTTTCTTTT 59.568 40.909 19.41 0.00 44.36 2.27
761 767 2.034124 AGGCATGTGCACTGTTTCTTT 58.966 42.857 19.41 0.00 44.36 2.52
762 768 1.696063 AGGCATGTGCACTGTTTCTT 58.304 45.000 19.41 0.00 44.36 2.52
860 866 4.041075 AGACTTGAGGAGAAAAGGAGGAAC 59.959 45.833 0.00 0.00 0.00 3.62
1238 1319 5.007823 ACAATGACGATTCACCGTTTGTTAA 59.992 36.000 0.00 0.00 43.49 2.01
1239 1320 4.512198 ACAATGACGATTCACCGTTTGTTA 59.488 37.500 0.00 0.00 43.49 2.41
1340 1421 6.503944 TCCTTCAACTAAGAATCCTAGTCCT 58.496 40.000 0.00 0.00 37.38 3.85
1362 1449 2.087646 CTAAGCAAAAGCTCCACCTCC 58.912 52.381 0.00 0.00 0.00 4.30
1364 1451 1.705186 TCCTAAGCAAAAGCTCCACCT 59.295 47.619 0.00 0.00 0.00 4.00
1386 1473 0.537143 TCATCAAACAGCTTGGGCGT 60.537 50.000 0.00 0.00 44.37 5.68
1880 3076 9.956720 GACCAATTAAATGTCCAATCTAATGAG 57.043 33.333 0.00 0.00 0.00 2.90
2210 3748 4.690748 TCTGGTAATTCAAGAACAGAAGCG 59.309 41.667 0.00 0.00 32.60 4.68
2398 4019 9.378551 GTCTCAACCATATTACAAGTGACAATA 57.621 33.333 0.00 0.00 0.00 1.90
2500 6503 5.662208 TCGGTTCTTATATGGTCAAGGGTTA 59.338 40.000 0.00 0.00 0.00 2.85
2535 6538 1.638529 AGCAGAAGACCAGCTACAGT 58.361 50.000 0.00 0.00 36.73 3.55
2610 6617 4.816392 TGTACATGTCACCTGTGATGTAC 58.184 43.478 24.17 24.17 46.19 2.90
2767 6799 1.089920 CAACTCCAAGGATGCTTCGG 58.910 55.000 0.00 2.86 0.00 4.30
2986 7020 3.441572 AGCATTAATGTTCTCAGCACACC 59.558 43.478 16.61 0.00 0.00 4.16
3046 7080 0.540365 AACCGGTCGGACAGGACTAA 60.540 55.000 29.93 0.00 36.90 2.24
3056 7090 3.258872 TGGGATATACAATAACCGGTCGG 59.741 47.826 8.04 7.97 42.03 4.79
3070 7104 5.661312 ACTAACAACACTGAGCTGGGATATA 59.339 40.000 0.00 0.00 0.00 0.86
3182 7646 7.911651 TCACCAAGGATTTTATGCCATTTAAA 58.088 30.769 0.00 0.00 0.00 1.52
3236 7700 8.779354 AGGTTCAGTTATCAATAGAGAAACAC 57.221 34.615 0.00 0.00 0.00 3.32
3877 8367 5.772825 ACTGCAAGAGAACAAAAGCATAA 57.227 34.783 0.00 0.00 37.43 1.90
3878 8368 5.772825 AACTGCAAGAGAACAAAAGCATA 57.227 34.783 0.00 0.00 37.43 3.14
4074 8564 1.216678 TCCCTCCCTGCAAAACAAGAA 59.783 47.619 0.00 0.00 0.00 2.52
4150 8640 4.775236 AGCATCAGTCAGAAATTACCTCC 58.225 43.478 0.00 0.00 0.00 4.30
4222 8727 1.202818 AGGCCTTCACAAACAGAGTCC 60.203 52.381 0.00 0.00 0.00 3.85
4643 9161 4.938226 ACTGGAAAAGAACATAGCACTAGC 59.062 41.667 0.00 0.00 42.56 3.42
4647 9165 5.241728 AGGAAACTGGAAAAGAACATAGCAC 59.758 40.000 0.00 0.00 41.13 4.40
4668 9202 4.948341 TTACAACAACTCTGCTGTAGGA 57.052 40.909 0.00 0.00 35.93 2.94
4672 9206 3.616219 TGGTTTACAACAACTCTGCTGT 58.384 40.909 0.00 0.00 35.96 4.40
4814 9348 0.324943 TCTGGGTAAGAGGCAAGTGC 59.675 55.000 0.00 0.00 41.14 4.40
4827 9361 0.545171 CATCACATGAGCCTCTGGGT 59.455 55.000 0.00 0.00 35.46 4.51
4916 9450 4.078571 ACTCCCAGGTCTATATCCTCAACA 60.079 45.833 0.00 0.00 32.37 3.33
4917 9451 4.484912 ACTCCCAGGTCTATATCCTCAAC 58.515 47.826 0.00 0.00 32.37 3.18
4918 9452 4.170053 TGACTCCCAGGTCTATATCCTCAA 59.830 45.833 0.00 0.00 37.16 3.02
4919 9453 3.727391 TGACTCCCAGGTCTATATCCTCA 59.273 47.826 0.00 0.00 37.16 3.86
4920 9454 4.083565 GTGACTCCCAGGTCTATATCCTC 58.916 52.174 0.00 0.00 37.16 3.71
4921 9455 3.181416 GGTGACTCCCAGGTCTATATCCT 60.181 52.174 0.00 0.00 37.16 3.24
4922 9456 3.166679 GGTGACTCCCAGGTCTATATCC 58.833 54.545 0.00 0.00 37.16 2.59
4935 9469 3.775654 CTCCTGGCGGGTGACTCC 61.776 72.222 13.14 0.00 36.25 3.85
4936 9470 3.775654 CCTCCTGGCGGGTGACTC 61.776 72.222 15.89 0.00 36.25 3.36
4946 9480 2.070039 TGTAATCCGGCCCTCCTGG 61.070 63.158 0.00 0.00 37.09 4.45
4947 9481 1.146263 GTGTAATCCGGCCCTCCTG 59.854 63.158 0.00 0.00 0.00 3.86
4948 9482 0.263765 TAGTGTAATCCGGCCCTCCT 59.736 55.000 0.00 0.00 0.00 3.69
4949 9483 1.070289 CTTAGTGTAATCCGGCCCTCC 59.930 57.143 0.00 0.00 0.00 4.30
4950 9484 1.070289 CCTTAGTGTAATCCGGCCCTC 59.930 57.143 0.00 0.00 0.00 4.30
4951 9485 1.129058 CCTTAGTGTAATCCGGCCCT 58.871 55.000 0.00 0.00 0.00 5.19
4952 9486 0.108019 CCCTTAGTGTAATCCGGCCC 59.892 60.000 0.00 0.00 0.00 5.80
4953 9487 0.835276 ACCCTTAGTGTAATCCGGCC 59.165 55.000 0.00 0.00 0.00 6.13
4954 9488 1.483415 TGACCCTTAGTGTAATCCGGC 59.517 52.381 0.00 0.00 0.00 6.13
4955 9489 4.127171 CAATGACCCTTAGTGTAATCCGG 58.873 47.826 0.00 0.00 0.00 5.14
4956 9490 3.560068 GCAATGACCCTTAGTGTAATCCG 59.440 47.826 0.00 0.00 0.00 4.18
4957 9491 3.883489 GGCAATGACCCTTAGTGTAATCC 59.117 47.826 0.00 0.00 0.00 3.01
4958 9492 4.523083 TGGCAATGACCCTTAGTGTAATC 58.477 43.478 0.00 0.00 0.00 1.75
4959 9493 4.227300 TCTGGCAATGACCCTTAGTGTAAT 59.773 41.667 0.00 0.00 0.00 1.89
4960 9494 3.585289 TCTGGCAATGACCCTTAGTGTAA 59.415 43.478 0.00 0.00 0.00 2.41
4961 9495 3.178046 TCTGGCAATGACCCTTAGTGTA 58.822 45.455 0.00 0.00 0.00 2.90
4962 9496 1.985159 TCTGGCAATGACCCTTAGTGT 59.015 47.619 0.00 0.00 0.00 3.55
4963 9497 2.787473 TCTGGCAATGACCCTTAGTG 57.213 50.000 0.00 0.00 0.00 2.74
4964 9498 3.421844 GTTTCTGGCAATGACCCTTAGT 58.578 45.455 0.00 0.00 0.00 2.24
4965 9499 2.755103 GGTTTCTGGCAATGACCCTTAG 59.245 50.000 0.00 0.00 0.00 2.18
4966 9500 2.556559 GGGTTTCTGGCAATGACCCTTA 60.557 50.000 19.23 0.00 45.20 2.69
4967 9501 1.632589 GGTTTCTGGCAATGACCCTT 58.367 50.000 0.00 0.00 0.00 3.95
4968 9502 0.251787 GGGTTTCTGGCAATGACCCT 60.252 55.000 19.23 0.00 45.20 4.34
4969 9503 1.595093 CGGGTTTCTGGCAATGACCC 61.595 60.000 17.46 17.46 45.19 4.46
4970 9504 1.595093 CCGGGTTTCTGGCAATGACC 61.595 60.000 0.00 4.69 31.78 4.02
4971 9505 0.608035 TCCGGGTTTCTGGCAATGAC 60.608 55.000 0.00 0.00 39.31 3.06
4972 9506 0.322456 CTCCGGGTTTCTGGCAATGA 60.322 55.000 0.00 0.00 39.31 2.57
4973 9507 1.937546 GCTCCGGGTTTCTGGCAATG 61.938 60.000 0.00 0.00 39.31 2.82
4974 9508 1.678970 GCTCCGGGTTTCTGGCAAT 60.679 57.895 0.00 0.00 39.31 3.56
4975 9509 1.485294 TAGCTCCGGGTTTCTGGCAA 61.485 55.000 0.00 0.00 39.31 4.52
4976 9510 1.485294 TTAGCTCCGGGTTTCTGGCA 61.485 55.000 0.00 0.00 39.31 4.92
4977 9511 0.744771 CTTAGCTCCGGGTTTCTGGC 60.745 60.000 0.00 0.00 39.31 4.85
4978 9512 0.613777 ACTTAGCTCCGGGTTTCTGG 59.386 55.000 0.00 0.00 40.84 3.86
4979 9513 2.347731 GAACTTAGCTCCGGGTTTCTG 58.652 52.381 0.00 0.00 0.00 3.02
4980 9514 1.278413 GGAACTTAGCTCCGGGTTTCT 59.722 52.381 0.00 0.00 0.00 2.52
4981 9515 1.002773 TGGAACTTAGCTCCGGGTTTC 59.997 52.381 0.00 0.00 35.55 2.78
4982 9516 1.061546 TGGAACTTAGCTCCGGGTTT 58.938 50.000 0.00 0.00 35.55 3.27
4983 9517 1.003233 CTTGGAACTTAGCTCCGGGTT 59.997 52.381 0.00 0.00 35.55 4.11
4984 9518 0.613777 CTTGGAACTTAGCTCCGGGT 59.386 55.000 0.00 0.00 35.55 5.28
4985 9519 0.902531 TCTTGGAACTTAGCTCCGGG 59.097 55.000 0.00 0.00 35.55 5.73
4986 9520 2.990066 ATCTTGGAACTTAGCTCCGG 57.010 50.000 0.00 0.00 35.55 5.14
4987 9521 4.752101 CCATTATCTTGGAACTTAGCTCCG 59.248 45.833 0.00 0.00 39.25 4.63
4988 9522 5.066593 CCCATTATCTTGGAACTTAGCTCC 58.933 45.833 0.00 0.00 39.25 4.70
4989 9523 4.517075 GCCCATTATCTTGGAACTTAGCTC 59.483 45.833 0.00 0.00 39.25 4.09
4990 9524 4.464947 GCCCATTATCTTGGAACTTAGCT 58.535 43.478 0.00 0.00 39.25 3.32
4991 9525 3.570125 GGCCCATTATCTTGGAACTTAGC 59.430 47.826 0.00 0.00 39.25 3.09
4992 9526 4.792068 TGGCCCATTATCTTGGAACTTAG 58.208 43.478 0.00 0.00 39.25 2.18
4993 9527 4.476846 TCTGGCCCATTATCTTGGAACTTA 59.523 41.667 0.00 0.00 39.25 2.24
4994 9528 3.269381 TCTGGCCCATTATCTTGGAACTT 59.731 43.478 0.00 0.00 39.25 2.66
4995 9529 2.852449 TCTGGCCCATTATCTTGGAACT 59.148 45.455 0.00 0.00 39.25 3.01
4996 9530 3.117888 TCTCTGGCCCATTATCTTGGAAC 60.118 47.826 0.00 0.00 39.25 3.62
4997 9531 3.122480 TCTCTGGCCCATTATCTTGGAA 58.878 45.455 0.00 0.00 39.25 3.53
4998 9532 2.775418 TCTCTGGCCCATTATCTTGGA 58.225 47.619 0.00 0.00 39.25 3.53
4999 9533 3.418995 CATCTCTGGCCCATTATCTTGG 58.581 50.000 0.00 0.00 36.46 3.61
5000 9534 3.418995 CCATCTCTGGCCCATTATCTTG 58.581 50.000 0.00 0.00 35.23 3.02
5001 9535 2.377869 CCCATCTCTGGCCCATTATCTT 59.622 50.000 0.00 0.00 41.64 2.40
5002 9536 1.991070 CCCATCTCTGGCCCATTATCT 59.009 52.381 0.00 0.00 41.64 1.98
5003 9537 1.615384 GCCCATCTCTGGCCCATTATC 60.615 57.143 0.00 0.00 43.33 1.75
5004 9538 0.407139 GCCCATCTCTGGCCCATTAT 59.593 55.000 0.00 0.00 43.33 1.28
5005 9539 1.846261 GCCCATCTCTGGCCCATTA 59.154 57.895 0.00 0.00 43.33 1.90
5006 9540 2.605299 GCCCATCTCTGGCCCATT 59.395 61.111 0.00 0.00 43.33 3.16
5012 9546 1.828768 GGTCTCAGCCCATCTCTGG 59.171 63.158 0.00 0.00 42.73 3.86
5020 9554 1.674057 CATATCCGGGTCTCAGCCC 59.326 63.158 0.00 0.00 45.21 5.19
5021 9555 1.674057 CCATATCCGGGTCTCAGCC 59.326 63.158 0.00 0.00 0.00 4.85
5022 9556 1.004440 GCCATATCCGGGTCTCAGC 60.004 63.158 0.00 0.00 0.00 4.26
5023 9557 1.051812 AAGCCATATCCGGGTCTCAG 58.948 55.000 0.00 0.00 35.11 3.35
5024 9558 2.391926 TAAGCCATATCCGGGTCTCA 57.608 50.000 0.00 0.00 35.11 3.27
5025 9559 3.665190 CTTTAAGCCATATCCGGGTCTC 58.335 50.000 0.00 0.00 35.11 3.36
5026 9560 2.224548 GCTTTAAGCCATATCCGGGTCT 60.225 50.000 5.52 0.00 35.11 3.85
5027 9561 2.152016 GCTTTAAGCCATATCCGGGTC 58.848 52.381 5.52 0.00 35.11 4.46
5028 9562 1.774856 AGCTTTAAGCCATATCCGGGT 59.225 47.619 13.84 0.00 43.77 5.28
5029 9563 2.427506 GAGCTTTAAGCCATATCCGGG 58.572 52.381 13.84 0.00 43.77 5.73
5030 9564 2.069273 CGAGCTTTAAGCCATATCCGG 58.931 52.381 13.84 0.00 43.77 5.14
5031 9565 2.755650 ACGAGCTTTAAGCCATATCCG 58.244 47.619 13.84 9.91 43.77 4.18
5032 9566 4.884247 ACTACGAGCTTTAAGCCATATCC 58.116 43.478 13.84 0.00 43.77 2.59
5033 9567 6.444633 TGTACTACGAGCTTTAAGCCATATC 58.555 40.000 13.84 3.66 43.77 1.63
5034 9568 6.401047 TGTACTACGAGCTTTAAGCCATAT 57.599 37.500 13.84 0.00 43.77 1.78
5035 9569 5.840243 TGTACTACGAGCTTTAAGCCATA 57.160 39.130 13.84 3.07 43.77 2.74
5036 9570 4.730949 TGTACTACGAGCTTTAAGCCAT 57.269 40.909 13.84 1.96 43.77 4.40
5037 9571 4.524316 TTGTACTACGAGCTTTAAGCCA 57.476 40.909 13.84 0.00 43.77 4.75
5038 9572 5.349809 AGATTGTACTACGAGCTTTAAGCC 58.650 41.667 13.84 4.45 43.77 4.35
5039 9573 6.889019 AAGATTGTACTACGAGCTTTAAGC 57.111 37.500 9.18 9.18 34.81 3.09
5084 9618 9.819267 GACTCTAAACAATACTTGCCTTATACT 57.181 33.333 0.00 0.00 0.00 2.12
5085 9619 9.043079 GGACTCTAAACAATACTTGCCTTATAC 57.957 37.037 0.00 0.00 0.00 1.47
5086 9620 7.924412 CGGACTCTAAACAATACTTGCCTTATA 59.076 37.037 0.00 0.00 0.00 0.98
5087 9621 6.761714 CGGACTCTAAACAATACTTGCCTTAT 59.238 38.462 0.00 0.00 0.00 1.73
5088 9622 6.071221 TCGGACTCTAAACAATACTTGCCTTA 60.071 38.462 0.00 0.00 0.00 2.69
5089 9623 4.935808 CGGACTCTAAACAATACTTGCCTT 59.064 41.667 0.00 0.00 0.00 4.35
5090 9624 4.222145 TCGGACTCTAAACAATACTTGCCT 59.778 41.667 0.00 0.00 0.00 4.75
5091 9625 4.501071 TCGGACTCTAAACAATACTTGCC 58.499 43.478 0.00 0.00 0.00 4.52
5092 9626 4.033014 GCTCGGACTCTAAACAATACTTGC 59.967 45.833 0.00 0.00 0.00 4.01
5093 9627 4.567159 GGCTCGGACTCTAAACAATACTTG 59.433 45.833 0.00 0.00 0.00 3.16
5094 9628 4.677250 CGGCTCGGACTCTAAACAATACTT 60.677 45.833 0.00 0.00 0.00 2.24
5095 9629 3.181489 CGGCTCGGACTCTAAACAATACT 60.181 47.826 0.00 0.00 0.00 2.12
5096 9630 3.114065 CGGCTCGGACTCTAAACAATAC 58.886 50.000 0.00 0.00 0.00 1.89
5097 9631 3.431922 CGGCTCGGACTCTAAACAATA 57.568 47.619 0.00 0.00 0.00 1.90
5098 9632 2.295253 CGGCTCGGACTCTAAACAAT 57.705 50.000 0.00 0.00 0.00 2.71
5099 9633 3.806591 CGGCTCGGACTCTAAACAA 57.193 52.632 0.00 0.00 0.00 2.83
5110 9644 4.462118 CTCATAAGAGTGTCCGGCTCGG 62.462 59.091 0.00 7.24 41.72 4.63
5111 9645 0.738975 TCATAAGAGTGTCCGGCTCG 59.261 55.000 0.00 0.00 37.99 5.03
5112 9646 1.537135 GCTCATAAGAGTGTCCGGCTC 60.537 57.143 0.00 0.00 44.00 4.70
5113 9647 0.461961 GCTCATAAGAGTGTCCGGCT 59.538 55.000 0.00 0.00 44.00 5.52
5114 9648 0.530870 GGCTCATAAGAGTGTCCGGC 60.531 60.000 0.00 0.00 44.00 6.13
5115 9649 0.249073 CGGCTCATAAGAGTGTCCGG 60.249 60.000 0.00 0.00 44.00 5.14
5116 9650 0.249073 CCGGCTCATAAGAGTGTCCG 60.249 60.000 5.77 5.77 44.00 4.79
5117 9651 0.530870 GCCGGCTCATAAGAGTGTCC 60.531 60.000 22.15 0.00 44.00 4.02
5118 9652 0.530870 GGCCGGCTCATAAGAGTGTC 60.531 60.000 28.56 0.00 44.00 3.67
5119 9653 1.522569 GGCCGGCTCATAAGAGTGT 59.477 57.895 28.56 0.00 44.00 3.55
5120 9654 1.592669 CGGCCGGCTCATAAGAGTG 60.593 63.158 28.56 0.00 44.00 3.51
5121 9655 2.797278 CCGGCCGGCTCATAAGAGT 61.797 63.158 34.96 0.00 44.00 3.24
5122 9656 2.029666 CCGGCCGGCTCATAAGAG 59.970 66.667 34.96 3.26 44.96 2.85
5123 9657 3.546543 CCCGGCCGGCTCATAAGA 61.547 66.667 39.46 0.00 0.00 2.10
5124 9658 3.546543 TCCCGGCCGGCTCATAAG 61.547 66.667 39.46 22.98 0.00 1.73
5125 9659 3.857038 GTCCCGGCCGGCTCATAA 61.857 66.667 39.46 15.60 0.00 1.90
5126 9660 4.853142 AGTCCCGGCCGGCTCATA 62.853 66.667 39.46 17.51 0.00 2.15
5130 9664 4.772231 TTAGAGTCCCGGCCGGCT 62.772 66.667 39.46 30.53 0.00 5.52
5131 9665 4.222847 CTTAGAGTCCCGGCCGGC 62.223 72.222 39.46 26.05 0.00 6.13
5132 9666 3.537874 CCTTAGAGTCCCGGCCGG 61.538 72.222 37.99 37.99 0.00 6.13
5133 9667 3.537874 CCCTTAGAGTCCCGGCCG 61.538 72.222 21.04 21.04 0.00 6.13
5134 9668 3.862991 GCCCTTAGAGTCCCGGCC 61.863 72.222 0.00 0.00 33.30 6.13
5135 9669 3.862991 GGCCCTTAGAGTCCCGGC 61.863 72.222 0.00 0.00 38.96 6.13
5136 9670 3.537874 CGGCCCTTAGAGTCCCGG 61.538 72.222 0.00 0.00 35.54 5.73
5137 9671 4.222847 GCGGCCCTTAGAGTCCCG 62.223 72.222 0.00 0.00 41.72 5.14
5138 9672 3.862991 GGCGGCCCTTAGAGTCCC 61.863 72.222 8.12 0.00 0.00 4.46
5139 9673 4.222847 CGGCGGCCCTTAGAGTCC 62.223 72.222 14.55 0.00 0.00 3.85
5140 9674 4.222847 CCGGCGGCCCTTAGAGTC 62.223 72.222 15.42 0.00 0.00 3.36
5152 9686 4.796231 CAAGAGGACGACCCGGCG 62.796 72.222 0.00 0.00 40.87 6.46
5153 9687 3.692406 ACAAGAGGACGACCCGGC 61.692 66.667 0.00 0.00 40.87 6.13
5154 9688 2.261671 CACAAGAGGACGACCCGG 59.738 66.667 0.00 0.00 40.87 5.73
5155 9689 2.261671 CCACAAGAGGACGACCCG 59.738 66.667 0.00 0.00 40.87 5.28
5156 9690 1.004918 CACCACAAGAGGACGACCC 60.005 63.158 0.00 0.00 36.73 4.46
5157 9691 0.963962 TACACCACAAGAGGACGACC 59.036 55.000 0.00 0.00 0.00 4.79
5158 9692 1.338973 TGTACACCACAAGAGGACGAC 59.661 52.381 0.00 0.00 32.95 4.34
5159 9693 1.694844 TGTACACCACAAGAGGACGA 58.305 50.000 0.00 0.00 32.95 4.20
5160 9694 2.743636 ATGTACACCACAAGAGGACG 57.256 50.000 0.00 0.00 41.55 4.79
5161 9695 8.204836 AGATAAATATGTACACCACAAGAGGAC 58.795 37.037 0.00 0.00 41.55 3.85
5162 9696 8.319057 AGATAAATATGTACACCACAAGAGGA 57.681 34.615 0.00 0.00 41.55 3.71
5163 9697 8.204160 TGAGATAAATATGTACACCACAAGAGG 58.796 37.037 0.00 0.00 41.55 3.69
5546 10080 2.928116 GTTCTCTTGGGTTCGAATACGG 59.072 50.000 0.00 0.00 40.21 4.02
5712 10246 5.125578 ACACGCTGTCATAATCAGAGTAGAA 59.874 40.000 2.52 0.00 42.19 2.10


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

AutoCloner maintained by Alex Coulton.