Multiple sequence alignment - TraesCS4B01G074800

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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 TraesCS4B01G074800 chr4B 100.000 6310 0 0 1 6310 70566362 70572671 0.000000e+00 11653.0
1 TraesCS4B01G074800 chr4B 98.630 146 1 1 5947 6092 28163501 28163357 2.260000e-64 257.0
2 TraesCS4B01G074800 chr4A 92.070 3947 209 35 2027 5931 549806563 549802679 0.000000e+00 5459.0
3 TraesCS4B01G074800 chr4A 91.405 954 45 18 876 1802 549807537 549806594 0.000000e+00 1273.0
4 TraesCS4B01G074800 chr4A 99.306 144 1 0 5949 6092 660438835 660438692 1.740000e-65 261.0
5 TraesCS4B01G074800 chr6D 89.017 3123 232 55 876 3955 433897720 433900774 0.000000e+00 3764.0
6 TraesCS4B01G074800 chr6D 83.787 771 81 19 4825 5553 433901793 433902561 0.000000e+00 691.0
7 TraesCS4B01G074800 chr6D 84.615 624 46 17 4231 4827 433901112 433901712 5.490000e-160 575.0
8 TraesCS4B01G074800 chr6A 90.219 2096 150 25 876 2962 580156582 580158631 0.000000e+00 2684.0
9 TraesCS4B01G074800 chr6A 90.513 917 72 6 3054 3955 580158735 580159651 0.000000e+00 1197.0
10 TraesCS4B01G074800 chr6A 82.327 894 104 24 3962 4827 580159735 580160602 0.000000e+00 726.0
11 TraesCS4B01G074800 chr6A 89.567 508 47 2 4829 5332 580160687 580161192 1.920000e-179 640.0
12 TraesCS4B01G074800 chr6A 83.158 190 23 6 5639 5826 448649190 448649008 1.410000e-36 165.0
13 TraesCS4B01G074800 chr6A 82.840 169 21 6 5659 5827 59672656 59672816 1.830000e-30 145.0
14 TraesCS4B01G074800 chr4D 91.675 1946 98 18 4039 5962 47984342 47986245 0.000000e+00 2638.0
15 TraesCS4B01G074800 chr4D 94.641 1586 62 7 2392 3962 47982723 47984300 0.000000e+00 2436.0
16 TraesCS4B01G074800 chr4D 94.045 1545 54 16 845 2388 47980294 47981801 0.000000e+00 2309.0
17 TraesCS4B01G074800 chr4D 95.119 840 41 0 1 840 26148655 26147816 0.000000e+00 1325.0
18 TraesCS4B01G074800 chr4D 92.308 234 7 2 6088 6310 47986229 47986462 7.890000e-84 322.0
19 TraesCS4B01G074800 chr6B 88.997 2163 174 35 910 3055 656165677 656167792 0.000000e+00 2617.0
20 TraesCS4B01G074800 chr6B 90.659 835 49 6 3136 3955 656168325 656169145 0.000000e+00 1083.0
21 TraesCS4B01G074800 chr6B 84.316 899 80 25 3962 4827 656169247 656170117 0.000000e+00 822.0
22 TraesCS4B01G074800 chr6B 82.298 531 56 18 5064 5556 656170557 656171087 5.850000e-115 425.0
23 TraesCS4B01G074800 chr6B 93.243 148 9 1 5945 6092 703479903 703479757 3.830000e-52 217.0
24 TraesCS4B01G074800 chr6B 91.781 146 11 1 5947 6092 653762597 653762453 1.070000e-47 202.0
25 TraesCS4B01G074800 chr6B 89.362 94 8 1 3054 3145 656167817 656167910 4.000000e-22 117.0
26 TraesCS4B01G074800 chr3A 99.406 842 5 0 1 842 469671967 469671126 0.000000e+00 1528.0
27 TraesCS4B01G074800 chr7D 95.943 838 34 0 3 840 141644704 141645541 0.000000e+00 1360.0
28 TraesCS4B01G074800 chr7D 93.478 46 3 0 3 48 141641139 141641184 1.140000e-07 69.4
29 TraesCS4B01G074800 chr7D 93.478 46 3 0 3 48 141642924 141642969 1.140000e-07 69.4
30 TraesCS4B01G074800 chrUn 94.643 840 44 1 1 840 16522645 16523483 0.000000e+00 1301.0
31 TraesCS4B01G074800 chrUn 100.000 425 0 0 220 644 476575640 476576064 0.000000e+00 785.0
32 TraesCS4B01G074800 chr2A 100.000 145 0 0 5947 6091 689165166 689165022 1.040000e-67 268.0
33 TraesCS4B01G074800 chr2A 82.540 189 28 4 5639 5827 36808597 36808414 1.820000e-35 161.0
34 TraesCS4B01G074800 chr7B 97.260 146 4 0 5945 6090 7245641 7245496 1.360000e-61 248.0
35 TraesCS4B01G074800 chr2B 94.667 150 4 1 5945 6090 40526950 40526801 4.920000e-56 230.0
36 TraesCS4B01G074800 chr2B 93.706 143 9 0 5945 6087 790791172 790791314 1.380000e-51 215.0
37 TraesCS4B01G074800 chr1B 92.857 140 10 0 5949 6088 685245255 685245394 2.980000e-48 204.0
38 TraesCS4B01G074800 chr3D 85.567 194 20 6 5636 5827 132567628 132567815 4.990000e-46 196.0
39 TraesCS4B01G074800 chr5D 92.969 128 7 2 1133 1258 529452470 529452597 1.080000e-42 185.0
40 TraesCS4B01G074800 chr5D 84.431 167 18 7 5659 5822 233038348 233038187 2.350000e-34 158.0
41 TraesCS4B01G074800 chr5B 85.455 165 19 4 5659 5822 271950203 271950363 3.910000e-37 167.0
42 TraesCS4B01G074800 chr7A 82.530 166 25 2 5639 5804 481088255 481088094 6.590000e-30 143.0


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 TraesCS4B01G074800 chr4B 70566362 70572671 6309 False 11653.000000 11653 100.000000 1 6310 1 chr4B.!!$F1 6309
1 TraesCS4B01G074800 chr4A 549802679 549807537 4858 True 3366.000000 5459 91.737500 876 5931 2 chr4A.!!$R2 5055
2 TraesCS4B01G074800 chr6D 433897720 433902561 4841 False 1676.666667 3764 85.806333 876 5553 3 chr6D.!!$F1 4677
3 TraesCS4B01G074800 chr6A 580156582 580161192 4610 False 1311.750000 2684 88.156500 876 5332 4 chr6A.!!$F2 4456
4 TraesCS4B01G074800 chr4D 47980294 47986462 6168 False 1926.250000 2638 93.167250 845 6310 4 chr4D.!!$F1 5465
5 TraesCS4B01G074800 chr4D 26147816 26148655 839 True 1325.000000 1325 95.119000 1 840 1 chr4D.!!$R1 839
6 TraesCS4B01G074800 chr6B 656165677 656171087 5410 False 1012.800000 2617 87.126400 910 5556 5 chr6B.!!$F1 4646
7 TraesCS4B01G074800 chr3A 469671126 469671967 841 True 1528.000000 1528 99.406000 1 842 1 chr3A.!!$R1 841
8 TraesCS4B01G074800 chr7D 141641139 141645541 4402 False 499.600000 1360 94.299667 3 840 3 chr7D.!!$F1 837
9 TraesCS4B01G074800 chrUn 16522645 16523483 838 False 1301.000000 1301 94.643000 1 840 1 chrUn.!!$F1 839

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
979 4569 2.445654 CTGAGGAGAGGAGGGGCC 60.446 72.222 0.00 0.00 0.00 5.80 F
2037 5648 0.193574 TGGGAGGAGAGGGTTGTCTT 59.806 55.000 0.00 0.00 0.00 3.01 F
3145 8156 4.398358 GGGTTAATAGCAGGGTTGAAGTTC 59.602 45.833 0.00 0.00 0.00 3.01 F
4058 9204 2.896801 CTGTTCACTGTGCGGGCAC 61.897 63.158 16.52 16.52 46.33 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2924 7467 0.626382 TCCACCCCTTGTGTGAACAA 59.374 50.0 0.00 0.00 43.85 2.83 R
3440 8480 2.062971 ATAAGAAGCAGGCATGGGTG 57.937 50.0 0.00 0.00 0.00 4.61 R
4179 9328 0.107361 AGTGGTAATAACTGGGCGCC 60.107 55.0 21.18 21.18 0.00 6.53 R
5335 10737 0.179145 GTCGACGGTACATGTGGGAG 60.179 60.0 9.11 0.00 0.00 4.30 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
218 3784 7.091443 CCAGACTCGATAACAAACTAGACTTT 58.909 38.462 0.00 0.00 0.00 2.66
842 4408 6.128499 CCCAGATTCTATACTAGTCGTTCTCG 60.128 46.154 0.00 0.00 38.55 4.04
843 4409 6.128499 CCAGATTCTATACTAGTCGTTCTCGG 60.128 46.154 0.00 0.00 37.69 4.63
979 4569 2.445654 CTGAGGAGAGGAGGGGCC 60.446 72.222 0.00 0.00 0.00 5.80
1086 4680 0.545309 ACTCCCTGTCCTTGCAGCTA 60.545 55.000 0.00 0.00 35.28 3.32
1344 4944 4.423625 AAACGAAGATGGGATCCTAAGG 57.576 45.455 12.58 0.00 0.00 2.69
1349 4949 4.042187 CGAAGATGGGATCCTAAGGGAAAT 59.958 45.833 12.58 0.00 45.78 2.17
1355 4955 4.911522 TGGGATCCTAAGGGAAATATTCGT 59.088 41.667 12.58 0.00 45.78 3.85
1358 4958 5.938710 GGATCCTAAGGGAAATATTCGTTCC 59.061 44.000 3.84 0.00 45.78 3.62
1608 5209 2.995939 TCTGTTCGATGTGACATTCAGC 59.004 45.455 0.00 0.00 0.00 4.26
1859 5469 2.835764 AGCTGGCAATTCATGTTTCCAT 59.164 40.909 0.00 0.00 0.00 3.41
1884 5494 1.304509 GCAGCAGTTTCTCTGGCCTC 61.305 60.000 3.32 0.00 43.78 4.70
1913 5523 3.561725 GGAATCCATTAGTGCTGCAGTAC 59.438 47.826 25.52 25.52 0.00 2.73
2037 5648 0.193574 TGGGAGGAGAGGGTTGTCTT 59.806 55.000 0.00 0.00 0.00 3.01
2206 5827 7.664758 AGGATGGAATTTTGAGCTTATTATGC 58.335 34.615 0.00 0.00 0.00 3.14
2404 6947 7.773224 TGGAAAGTCCCATAGTTGTATGTAATG 59.227 37.037 0.00 0.00 35.03 1.90
2412 6955 8.993121 CCCATAGTTGTATGTAATGTGATTCTC 58.007 37.037 0.00 0.00 35.15 2.87
2491 7034 9.362151 AGATTTAACTTTCACCCACAGAAATTA 57.638 29.630 0.00 0.00 34.75 1.40
2722 7265 7.490725 CAGTACTTCTCATTGTCTATGGACTTG 59.509 40.741 10.82 8.31 42.54 3.16
2727 7270 6.542821 TCTCATTGTCTATGGACTTGGTTTT 58.457 36.000 10.82 0.00 42.54 2.43
2728 7271 7.685481 TCTCATTGTCTATGGACTTGGTTTTA 58.315 34.615 10.82 0.00 42.54 1.52
2729 7272 7.824289 TCTCATTGTCTATGGACTTGGTTTTAG 59.176 37.037 10.82 2.52 42.54 1.85
2924 7467 9.109246 TCATGGAGGATGAATAATGTAAGATCT 57.891 33.333 0.00 0.00 38.19 2.75
2990 7533 6.438763 AGTGCTACTCTTTACAAATGTTTGC 58.561 36.000 5.44 0.00 41.79 3.68
2991 7534 6.039270 AGTGCTACTCTTTACAAATGTTTGCA 59.961 34.615 5.44 0.00 41.79 4.08
2992 7535 6.142320 GTGCTACTCTTTACAAATGTTTGCAC 59.858 38.462 5.44 0.00 41.79 4.57
3007 7563 5.812652 TGTTTGCACGTCCTTTTTACTTAG 58.187 37.500 0.00 0.00 0.00 2.18
3012 7568 7.733402 TGCACGTCCTTTTTACTTAGTAAAT 57.267 32.000 16.93 0.00 37.74 1.40
3094 7681 6.904626 AGCTTTGTTCACTTCATATATCCCT 58.095 36.000 0.00 0.00 0.00 4.20
3097 7684 8.470002 GCTTTGTTCACTTCATATATCCCTTTT 58.530 33.333 0.00 0.00 0.00 2.27
3145 8156 4.398358 GGGTTAATAGCAGGGTTGAAGTTC 59.602 45.833 0.00 0.00 0.00 3.01
3440 8480 6.049790 GGTACCTCATACAACATTTCTCCTC 58.950 44.000 4.06 0.00 35.23 3.71
3905 8951 5.227569 TGCCTTTGAATCTCTAGTTGTGA 57.772 39.130 0.00 0.00 0.00 3.58
3947 8993 6.013812 ACTTCTAGGCAATCCTTGATATCTCC 60.014 42.308 3.98 0.00 42.37 3.71
3983 9125 5.636543 ACTAGGTTATGTCAAGTTTGTACGC 59.363 40.000 0.00 0.00 0.00 4.42
3998 9140 8.056710 AGTTTGTACGCATTGTCAATTAAAAC 57.943 30.769 0.00 2.00 0.00 2.43
4058 9204 2.896801 CTGTTCACTGTGCGGGCAC 61.897 63.158 16.52 16.52 46.33 5.01
4110 9256 6.920210 GCACCTGGAAGAATAAAATAGCAATC 59.080 38.462 0.00 0.00 34.07 2.67
4158 9305 5.890110 ACTTGCATACGAAATAGATGTCG 57.110 39.130 0.45 0.45 42.91 4.35
4171 9320 9.970095 CGAAATAGATGTCGTACGTAAATAAAG 57.030 33.333 16.05 0.00 32.61 1.85
4179 9328 7.272951 TGTCGTACGTAAATAAAGTTCAAACG 58.727 34.615 16.05 0.00 35.17 3.60
4193 9342 1.088306 CAAACGGCGCCCAGTTATTA 58.912 50.000 23.46 0.00 0.00 0.98
4199 9350 1.296727 GCGCCCAGTTATTACCACTC 58.703 55.000 0.00 0.00 0.00 3.51
4208 9359 5.467399 CCAGTTATTACCACTCAACGTTTCA 59.533 40.000 0.00 0.00 0.00 2.69
4210 9361 7.308348 CCAGTTATTACCACTCAACGTTTCAAT 60.308 37.037 0.00 0.00 0.00 2.57
4217 9368 5.977129 ACCACTCAACGTTTCAATGAAATTC 59.023 36.000 11.87 0.00 31.22 2.17
4221 9372 6.142818 TCAACGTTTCAATGAAATTCCTGT 57.857 33.333 11.87 3.72 31.22 4.00
4225 9376 6.805713 ACGTTTCAATGAAATTCCTGTTTCT 58.194 32.000 11.87 0.00 38.58 2.52
4227 9378 7.763985 ACGTTTCAATGAAATTCCTGTTTCTTT 59.236 29.630 11.87 0.00 38.58 2.52
4252 9403 1.000843 GGTTGCTTGACATGGGGAAAC 59.999 52.381 0.00 0.00 0.00 2.78
4272 9423 8.489990 GGAAACCTTTAGTTCCTAATGTAGAC 57.510 38.462 0.00 0.00 37.88 2.59
4325 9489 8.810990 TTACCTTATGTCCCACGAATTAAATT 57.189 30.769 0.00 0.00 0.00 1.82
4331 9495 7.931578 ATGTCCCACGAATTAAATTCTGTAA 57.068 32.000 0.00 0.00 37.13 2.41
4346 9510 6.683974 ATTCTGTAATGATTTTCTCCGTGG 57.316 37.500 0.00 0.00 0.00 4.94
4356 9520 2.825861 TTCTCCGTGGAGTGTTTACC 57.174 50.000 15.28 0.00 42.49 2.85
4362 9526 3.878699 TCCGTGGAGTGTTTACCTTTTTC 59.121 43.478 0.00 0.00 0.00 2.29
4380 9544 5.488645 TTTTCGTGTAACCAGAGGTTTTC 57.511 39.130 6.76 2.40 44.33 2.29
4381 9545 4.411256 TTCGTGTAACCAGAGGTTTTCT 57.589 40.909 6.76 0.00 44.33 2.52
4382 9546 5.534207 TTCGTGTAACCAGAGGTTTTCTA 57.466 39.130 6.76 0.00 44.33 2.10
4383 9547 5.733620 TCGTGTAACCAGAGGTTTTCTAT 57.266 39.130 6.76 0.00 44.33 1.98
4384 9548 5.717119 TCGTGTAACCAGAGGTTTTCTATC 58.283 41.667 6.76 0.00 44.33 2.08
4385 9549 5.479375 TCGTGTAACCAGAGGTTTTCTATCT 59.521 40.000 6.76 0.00 44.33 1.98
4387 9551 7.341256 TCGTGTAACCAGAGGTTTTCTATCTAT 59.659 37.037 6.76 0.00 44.33 1.98
4388 9552 7.648510 CGTGTAACCAGAGGTTTTCTATCTATC 59.351 40.741 6.76 0.00 44.33 2.08
4510 9677 8.255394 TCACATCACACTGTATTATGAAGTTG 57.745 34.615 5.69 0.00 0.00 3.16
4643 9817 5.288543 ACTAAAATCTTTCTGCTTCTGCG 57.711 39.130 0.00 0.00 43.34 5.18
4690 9883 4.453819 GCCAAGATACTACATTCCTGATGC 59.546 45.833 0.00 0.00 39.47 3.91
4710 9904 4.870363 TGCTAAAATTGACCTTGCAGTTC 58.130 39.130 0.00 0.00 0.00 3.01
4894 10171 7.761409 TCATTGTTAAACAGCAATATCTGGTC 58.239 34.615 0.00 0.00 38.36 4.02
5014 10297 6.995686 TGAATTCCAGCAACTTACTTTCACTA 59.004 34.615 2.27 0.00 0.00 2.74
5335 10737 5.159209 CAGGAACAACATGAATTCTTCTGC 58.841 41.667 7.05 0.00 31.40 4.26
5376 10798 2.483013 CGGTGTCCTTCAAGACTGTTCA 60.483 50.000 0.00 0.00 37.66 3.18
5420 10864 8.077991 TGAAAATTGCTGATTAATGGATCGATC 58.922 33.333 17.36 17.36 0.00 3.69
5430 10874 4.478206 AATGGATCGATCTGTTGTCTGT 57.522 40.909 23.96 0.00 0.00 3.41
5441 10885 8.343366 TCGATCTGTTGTCTGTATGTAGTATTC 58.657 37.037 0.00 0.00 0.00 1.75
5446 10890 7.094631 TGTTGTCTGTATGTAGTATTCGCTTT 58.905 34.615 0.00 0.00 0.00 3.51
5473 10917 3.772522 GCGAATAGCGAACTGGTAATC 57.227 47.619 0.00 0.00 44.57 1.75
5486 10930 5.746990 ACTGGTAATCTGTAAGTTCAGCT 57.253 39.130 0.00 0.00 35.63 4.24
5525 10969 5.581126 TTTGAATAAGCTAGTGGCAATGG 57.419 39.130 0.00 0.00 44.79 3.16
5531 10975 3.205784 AGCTAGTGGCAATGGAGATTC 57.794 47.619 1.43 0.00 44.79 2.52
5598 11044 4.069232 CGACAGCAGCCTTCGGGA 62.069 66.667 5.50 0.00 37.25 5.14
5617 11063 2.497770 GCTTGGGGCATGCATGTC 59.502 61.111 26.79 25.10 41.35 3.06
5618 11064 2.056223 GCTTGGGGCATGCATGTCT 61.056 57.895 29.02 0.00 41.35 3.41
5619 11065 1.610554 GCTTGGGGCATGCATGTCTT 61.611 55.000 29.02 0.00 41.35 3.01
5620 11066 0.174845 CTTGGGGCATGCATGTCTTG 59.825 55.000 29.02 13.63 31.84 3.02
5945 11391 2.603247 TTGTGCACACCATCGCGAC 61.603 57.895 21.56 0.00 0.00 5.19
5946 11392 2.738521 GTGCACACCATCGCGACT 60.739 61.111 12.93 0.00 0.00 4.18
5947 11393 1.445410 GTGCACACCATCGCGACTA 60.445 57.895 12.93 0.00 0.00 2.59
5948 11394 1.011968 GTGCACACCATCGCGACTAA 61.012 55.000 12.93 0.00 0.00 2.24
5949 11395 0.735978 TGCACACCATCGCGACTAAG 60.736 55.000 12.93 4.75 0.00 2.18
5950 11396 1.421410 GCACACCATCGCGACTAAGG 61.421 60.000 12.93 14.14 0.00 2.69
5951 11397 0.806102 CACACCATCGCGACTAAGGG 60.806 60.000 12.93 11.02 0.00 3.95
5952 11398 1.227263 CACCATCGCGACTAAGGGG 60.227 63.158 12.93 8.96 0.00 4.79
5953 11399 1.684734 ACCATCGCGACTAAGGGGT 60.685 57.895 12.93 9.77 0.00 4.95
5954 11400 1.067582 CCATCGCGACTAAGGGGTC 59.932 63.158 12.93 0.00 0.00 4.46
5961 11407 2.270959 GACTAAGGGGTCGTTCGGT 58.729 57.895 0.00 0.00 0.00 4.69
5962 11408 1.463674 GACTAAGGGGTCGTTCGGTA 58.536 55.000 0.00 0.00 0.00 4.02
5963 11409 1.403323 GACTAAGGGGTCGTTCGGTAG 59.597 57.143 0.00 0.00 0.00 3.18
5964 11410 1.272147 ACTAAGGGGTCGTTCGGTAGT 60.272 52.381 0.00 0.00 0.00 2.73
5965 11411 1.403323 CTAAGGGGTCGTTCGGTAGTC 59.597 57.143 0.00 0.00 0.00 2.59
5966 11412 1.253593 AAGGGGTCGTTCGGTAGTCC 61.254 60.000 0.00 0.00 0.00 3.85
5967 11413 1.978617 GGGGTCGTTCGGTAGTCCA 60.979 63.158 0.00 0.00 0.00 4.02
5968 11414 1.213799 GGGTCGTTCGGTAGTCCAC 59.786 63.158 0.00 0.00 0.00 4.02
5969 11415 1.213799 GGTCGTTCGGTAGTCCACC 59.786 63.158 0.00 0.00 44.75 4.61
5970 11416 1.213799 GTCGTTCGGTAGTCCACCC 59.786 63.158 0.00 0.00 45.52 4.61
5971 11417 2.180017 CGTTCGGTAGTCCACCCG 59.820 66.667 0.00 0.00 45.52 5.28
5972 11418 2.125793 GTTCGGTAGTCCACCCGC 60.126 66.667 0.00 0.00 45.52 6.13
5973 11419 2.283388 TTCGGTAGTCCACCCGCT 60.283 61.111 0.00 0.00 45.52 5.52
5974 11420 2.345760 TTCGGTAGTCCACCCGCTC 61.346 63.158 0.00 0.00 45.52 5.03
5975 11421 3.834799 CGGTAGTCCACCCGCTCC 61.835 72.222 0.00 0.00 45.52 4.70
5976 11422 3.834799 GGTAGTCCACCCGCTCCG 61.835 72.222 0.00 0.00 42.07 4.63
5977 11423 4.509737 GTAGTCCACCCGCTCCGC 62.510 72.222 0.00 0.00 0.00 5.54
5982 11428 3.849951 CCACCCGCTCCGCAGTAT 61.850 66.667 0.00 0.00 0.00 2.12
5983 11429 2.186903 CACCCGCTCCGCAGTATT 59.813 61.111 0.00 0.00 0.00 1.89
5984 11430 1.449601 CACCCGCTCCGCAGTATTT 60.450 57.895 0.00 0.00 0.00 1.40
5985 11431 1.024579 CACCCGCTCCGCAGTATTTT 61.025 55.000 0.00 0.00 0.00 1.82
5986 11432 0.538118 ACCCGCTCCGCAGTATTTTA 59.462 50.000 0.00 0.00 0.00 1.52
5987 11433 1.217882 CCCGCTCCGCAGTATTTTAG 58.782 55.000 0.00 0.00 0.00 1.85
5988 11434 1.202486 CCCGCTCCGCAGTATTTTAGA 60.202 52.381 0.00 0.00 0.00 2.10
5989 11435 2.546778 CCGCTCCGCAGTATTTTAGAA 58.453 47.619 0.00 0.00 0.00 2.10
5990 11436 3.131396 CCGCTCCGCAGTATTTTAGAAT 58.869 45.455 0.00 0.00 0.00 2.40
5991 11437 3.184581 CCGCTCCGCAGTATTTTAGAATC 59.815 47.826 0.00 0.00 0.00 2.52
5992 11438 4.051922 CGCTCCGCAGTATTTTAGAATCT 58.948 43.478 0.00 0.00 0.00 2.40
5993 11439 4.084849 CGCTCCGCAGTATTTTAGAATCTG 60.085 45.833 0.00 0.00 0.00 2.90
5994 11440 4.319118 GCTCCGCAGTATTTTAGAATCTGC 60.319 45.833 14.77 14.77 39.87 4.26
5995 11441 4.765273 TCCGCAGTATTTTAGAATCTGCA 58.235 39.130 20.12 0.00 41.39 4.41
5996 11442 4.811024 TCCGCAGTATTTTAGAATCTGCAG 59.189 41.667 20.12 7.63 41.39 4.41
5997 11443 4.811024 CCGCAGTATTTTAGAATCTGCAGA 59.189 41.667 20.79 20.79 41.39 4.26
5998 11444 5.050499 CCGCAGTATTTTAGAATCTGCAGAG 60.050 44.000 22.96 4.50 41.39 3.35
5999 11445 5.521735 CGCAGTATTTTAGAATCTGCAGAGT 59.478 40.000 22.96 20.63 41.39 3.24
6000 11446 6.697455 CGCAGTATTTTAGAATCTGCAGAGTA 59.303 38.462 22.96 10.55 41.39 2.59
6001 11447 7.306283 CGCAGTATTTTAGAATCTGCAGAGTAC 60.306 40.741 22.96 12.30 41.39 2.73
6002 11448 7.042389 GCAGTATTTTAGAATCTGCAGAGTACC 60.042 40.741 22.96 8.67 41.21 3.34
6003 11449 7.168302 CAGTATTTTAGAATCTGCAGAGTACCG 59.832 40.741 22.96 1.31 0.00 4.02
6004 11450 5.401531 TTTTAGAATCTGCAGAGTACCGT 57.598 39.130 22.96 7.70 0.00 4.83
6005 11451 5.401531 TTTAGAATCTGCAGAGTACCGTT 57.598 39.130 22.96 10.19 0.00 4.44
6006 11452 3.963428 AGAATCTGCAGAGTACCGTTT 57.037 42.857 22.96 9.41 0.00 3.60
6007 11453 3.851098 AGAATCTGCAGAGTACCGTTTC 58.149 45.455 22.96 17.58 0.00 2.78
6008 11454 3.511934 AGAATCTGCAGAGTACCGTTTCT 59.488 43.478 22.96 19.45 0.00 2.52
6009 11455 3.512033 ATCTGCAGAGTACCGTTTCTC 57.488 47.619 22.96 0.00 0.00 2.87
6010 11456 2.515854 TCTGCAGAGTACCGTTTCTCT 58.484 47.619 13.74 0.00 41.04 3.10
6011 11457 2.488545 TCTGCAGAGTACCGTTTCTCTC 59.511 50.000 13.74 0.00 38.74 3.20
6012 11458 1.199327 TGCAGAGTACCGTTTCTCTCG 59.801 52.381 0.00 0.00 38.74 4.04
6013 11459 1.897641 CAGAGTACCGTTTCTCTCGC 58.102 55.000 0.00 0.00 38.74 5.03
6014 11460 1.469308 CAGAGTACCGTTTCTCTCGCT 59.531 52.381 0.00 0.00 38.74 4.93
6015 11461 1.738908 AGAGTACCGTTTCTCTCGCTC 59.261 52.381 0.00 0.00 36.45 5.03
6016 11462 0.810016 AGTACCGTTTCTCTCGCTCC 59.190 55.000 0.00 0.00 0.00 4.70
6017 11463 0.522915 GTACCGTTTCTCTCGCTCCG 60.523 60.000 0.00 0.00 0.00 4.63
6018 11464 0.957395 TACCGTTTCTCTCGCTCCGT 60.957 55.000 0.00 0.00 0.00 4.69
6019 11465 0.957395 ACCGTTTCTCTCGCTCCGTA 60.957 55.000 0.00 0.00 0.00 4.02
6020 11466 0.522915 CCGTTTCTCTCGCTCCGTAC 60.523 60.000 0.00 0.00 0.00 3.67
6021 11467 0.447011 CGTTTCTCTCGCTCCGTACT 59.553 55.000 0.00 0.00 0.00 2.73
6022 11468 1.135746 CGTTTCTCTCGCTCCGTACTT 60.136 52.381 0.00 0.00 0.00 2.24
6023 11469 2.667724 CGTTTCTCTCGCTCCGTACTTT 60.668 50.000 0.00 0.00 0.00 2.66
6024 11470 3.315418 GTTTCTCTCGCTCCGTACTTTT 58.685 45.455 0.00 0.00 0.00 2.27
6025 11471 3.655276 TTCTCTCGCTCCGTACTTTTT 57.345 42.857 0.00 0.00 0.00 1.94
6026 11472 4.771590 TTCTCTCGCTCCGTACTTTTTA 57.228 40.909 0.00 0.00 0.00 1.52
6027 11473 4.771590 TCTCTCGCTCCGTACTTTTTAA 57.228 40.909 0.00 0.00 0.00 1.52
6028 11474 4.479619 TCTCTCGCTCCGTACTTTTTAAC 58.520 43.478 0.00 0.00 0.00 2.01
6029 11475 4.217118 TCTCTCGCTCCGTACTTTTTAACT 59.783 41.667 0.00 0.00 0.00 2.24
6030 11476 5.412594 TCTCTCGCTCCGTACTTTTTAACTA 59.587 40.000 0.00 0.00 0.00 2.24
6031 11477 5.393962 TCTCGCTCCGTACTTTTTAACTAC 58.606 41.667 0.00 0.00 0.00 2.73
6032 11478 5.048782 TCTCGCTCCGTACTTTTTAACTACA 60.049 40.000 0.00 0.00 0.00 2.74
6033 11479 5.527951 TCGCTCCGTACTTTTTAACTACAA 58.472 37.500 0.00 0.00 0.00 2.41
6034 11480 5.402270 TCGCTCCGTACTTTTTAACTACAAC 59.598 40.000 0.00 0.00 0.00 3.32
6035 11481 5.403466 CGCTCCGTACTTTTTAACTACAACT 59.597 40.000 0.00 0.00 0.00 3.16
6036 11482 6.399354 CGCTCCGTACTTTTTAACTACAACTC 60.399 42.308 0.00 0.00 0.00 3.01
6037 11483 6.128715 GCTCCGTACTTTTTAACTACAACTCC 60.129 42.308 0.00 0.00 0.00 3.85
6038 11484 6.223120 TCCGTACTTTTTAACTACAACTCCC 58.777 40.000 0.00 0.00 0.00 4.30
6039 11485 5.119125 CCGTACTTTTTAACTACAACTCCCG 59.881 44.000 0.00 0.00 0.00 5.14
6040 11486 5.691754 CGTACTTTTTAACTACAACTCCCGT 59.308 40.000 0.00 0.00 0.00 5.28
6041 11487 6.129088 CGTACTTTTTAACTACAACTCCCGTC 60.129 42.308 0.00 0.00 0.00 4.79
6042 11488 4.746611 ACTTTTTAACTACAACTCCCGTCG 59.253 41.667 0.00 0.00 0.00 5.12
6043 11489 4.582701 TTTTAACTACAACTCCCGTCGA 57.417 40.909 0.00 0.00 0.00 4.20
6044 11490 3.559238 TTAACTACAACTCCCGTCGAC 57.441 47.619 5.18 5.18 0.00 4.20
6045 11491 1.613836 AACTACAACTCCCGTCGACT 58.386 50.000 14.70 0.00 0.00 4.18
6046 11492 1.163554 ACTACAACTCCCGTCGACTC 58.836 55.000 14.70 0.00 0.00 3.36
6047 11493 0.450983 CTACAACTCCCGTCGACTCC 59.549 60.000 14.70 0.00 0.00 3.85
6048 11494 1.300971 TACAACTCCCGTCGACTCCG 61.301 60.000 14.70 0.00 37.07 4.63
6049 11495 3.060615 AACTCCCGTCGACTCCGG 61.061 66.667 14.70 10.07 45.07 5.14
6084 11530 3.787001 GGAGGCCCTCCGAACAGG 61.787 72.222 15.55 0.00 41.08 4.00
6085 11531 4.475135 GAGGCCCTCCGAACAGGC 62.475 72.222 0.00 0.00 46.37 4.85
6098 11544 2.044946 CAGGCCCTAAGGGTGTGC 60.045 66.667 0.00 0.00 46.51 4.57
6168 11614 2.614581 GAATGCTCGAGCTCCATGG 58.385 57.895 35.27 4.97 42.66 3.66
6191 11637 1.668151 GAAAACGCGGAGTGGAGCT 60.668 57.895 12.47 0.00 45.78 4.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
218 3784 9.797732 TCACCCATATATTTCTATCTAATGGGA 57.202 33.333 21.22 0.37 46.80 4.37
842 4408 2.352805 CCCTGTTCTGTCTGGCCC 59.647 66.667 0.00 0.00 0.00 5.80
843 4409 2.352805 CCCCTGTTCTGTCTGGCC 59.647 66.667 0.00 0.00 0.00 5.36
1070 4664 0.179034 GGATAGCTGCAAGGACAGGG 60.179 60.000 1.02 0.00 38.16 4.45
1071 4665 0.531532 CGGATAGCTGCAAGGACAGG 60.532 60.000 1.02 0.00 38.16 4.00
1344 4944 6.451064 AATCACCAAGGAACGAATATTTCC 57.549 37.500 0.00 0.00 42.68 3.13
1349 4949 6.642707 AAACAAATCACCAAGGAACGAATA 57.357 33.333 0.00 0.00 0.00 1.75
1355 4955 5.596845 GCTACAAAACAAATCACCAAGGAA 58.403 37.500 0.00 0.00 0.00 3.36
1358 4958 4.854399 TCGCTACAAAACAAATCACCAAG 58.146 39.130 0.00 0.00 0.00 3.61
1535 5136 1.977293 GCCTAGAAGGAGGGTGCCAG 61.977 65.000 0.00 0.00 37.67 4.85
1608 5209 2.092914 GGACATGGTTACCCTCTGAAGG 60.093 54.545 0.00 0.00 42.95 3.46
1859 5469 2.093288 CCAGAGAAACTGCTGCTATGGA 60.093 50.000 0.00 0.00 42.17 3.41
1884 5494 4.019174 AGCACTAATGGATTCCTTTGTGG 58.981 43.478 21.48 12.81 37.10 4.17
1939 5550 6.540551 TCAGCATTTAATATTTGCGTACCTGA 59.459 34.615 5.23 1.65 41.22 3.86
1993 5604 3.563043 CCTGCTCTTCCATTTCTTTCCCT 60.563 47.826 0.00 0.00 0.00 4.20
2037 5648 0.694771 ATGGAGAAGCTGACTTGCCA 59.305 50.000 0.00 0.00 39.77 4.92
2404 6947 8.965819 TGAGCTAGATCCATATAAGAGAATCAC 58.034 37.037 5.36 0.00 37.82 3.06
2425 6968 9.905713 TTGTAGTGAAAAATATAATCCTGAGCT 57.094 29.630 0.00 0.00 0.00 4.09
2458 7001 7.227910 TGTGGGTGAAAGTTAAATCTGAGTAAC 59.772 37.037 6.10 6.10 0.00 2.50
2477 7020 5.912892 ACCACTTTTTAATTTCTGTGGGTG 58.087 37.500 13.44 0.00 46.37 4.61
2491 7034 7.227910 ACATCAACTGTTATACGACCACTTTTT 59.772 33.333 0.00 0.00 32.90 1.94
2542 7085 5.429957 AAAGCTTTCATGAGTGTCACTTC 57.570 39.130 5.69 1.47 0.00 3.01
2650 7193 8.502105 AGTTTAGCAACAAAGTAAGTACTGTT 57.498 30.769 0.00 0.00 34.29 3.16
2764 7307 4.854399 TCGTGGATTTAGCAAACAGTTTG 58.146 39.130 20.10 20.10 43.44 2.93
2924 7467 0.626382 TCCACCCCTTGTGTGAACAA 59.374 50.000 0.00 0.00 43.85 2.83
2939 7482 3.193479 GTGAAATTTCTCCACCCATCCAC 59.807 47.826 18.64 1.63 0.00 4.02
2989 7532 8.026341 AGATTTACTAAGTAAAAAGGACGTGC 57.974 34.615 0.00 0.00 40.62 5.34
3058 7643 7.934855 AGTGAACAAAGCTATGAAATGAGAT 57.065 32.000 0.00 0.00 0.00 2.75
3097 7684 8.906867 CCCTAATTTGCAGAAGAGAATTGATAA 58.093 33.333 2.72 0.00 0.00 1.75
3098 7685 7.503566 CCCCTAATTTGCAGAAGAGAATTGATA 59.496 37.037 2.72 0.00 0.00 2.15
3145 8156 7.065085 GCATATGGTACTCAACTAATATGCAGG 59.935 40.741 16.54 0.00 46.59 4.85
3294 8333 3.314693 ACAGAGTTACAACAGAAGGGGA 58.685 45.455 0.00 0.00 0.00 4.81
3295 8334 3.771577 ACAGAGTTACAACAGAAGGGG 57.228 47.619 0.00 0.00 0.00 4.79
3440 8480 2.062971 ATAAGAAGCAGGCATGGGTG 57.937 50.000 0.00 0.00 0.00 4.61
3652 8692 8.930846 AGACTGGGGAGAAAAATATCATAATG 57.069 34.615 0.00 0.00 0.00 1.90
3700 8741 4.257731 TGATGATTACCGCTGTTAGCAAA 58.742 39.130 1.45 0.00 42.58 3.68
3711 8752 6.738114 AGGCACAAAATATTGATGATTACCG 58.262 36.000 8.15 0.00 38.94 4.02
3905 8951 7.324178 CCTAGAAGTTCTTATACACAGTTGCT 58.676 38.462 11.40 0.00 0.00 3.91
3910 8956 7.439655 GGATTGCCTAGAAGTTCTTATACACAG 59.560 40.741 11.40 0.04 0.00 3.66
3969 9111 4.203950 TGACAATGCGTACAAACTTGAC 57.796 40.909 0.00 0.00 0.00 3.18
3998 9140 6.362551 GCATTGCACAAGCTATCTGATTTATG 59.637 38.462 3.15 0.00 42.74 1.90
4008 9151 2.749076 TCGAAAGCATTGCACAAGCTAT 59.251 40.909 11.91 0.00 42.74 2.97
4058 9204 3.618351 AGAATTGATTCCAGGCTCACAG 58.382 45.455 0.27 0.00 37.51 3.66
4150 9297 9.838975 TTGAACTTTATTTACGTACGACATCTA 57.161 29.630 24.41 0.00 0.00 1.98
4158 9305 5.500978 CGCCGTTTGAACTTTATTTACGTAC 59.499 40.000 0.00 0.00 0.00 3.67
4171 9320 1.508808 TAACTGGGCGCCGTTTGAAC 61.509 55.000 22.23 7.31 0.00 3.18
4179 9328 0.107361 AGTGGTAATAACTGGGCGCC 60.107 55.000 21.18 21.18 0.00 6.53
4193 9342 4.974368 TTTCATTGAAACGTTGAGTGGT 57.026 36.364 7.74 0.00 0.00 4.16
4199 9350 6.826893 AACAGGAATTTCATTGAAACGTTG 57.173 33.333 13.80 11.85 34.23 4.10
4227 9378 2.158842 CCCCATGTCAAGCAACCAAAAA 60.159 45.455 0.00 0.00 0.00 1.94
4286 9449 8.979574 GGACATAAGGTAAATGAATCTTAGTCG 58.020 37.037 0.00 0.00 0.00 4.18
4325 9489 5.046591 ACTCCACGGAGAAAATCATTACAGA 60.047 40.000 19.98 0.00 44.53 3.41
4331 9495 3.703001 ACACTCCACGGAGAAAATCAT 57.297 42.857 19.98 0.00 44.53 2.45
4346 9510 6.183360 TGGTTACACGAAAAAGGTAAACACTC 60.183 38.462 0.00 0.00 39.15 3.51
4356 9520 5.494632 AAACCTCTGGTTACACGAAAAAG 57.505 39.130 2.15 0.00 46.20 2.27
4362 9526 5.721232 AGATAGAAAACCTCTGGTTACACG 58.279 41.667 2.15 0.00 46.20 4.49
4380 9544 9.160496 GCATGGAGAAATAAACAGGATAGATAG 57.840 37.037 0.00 0.00 0.00 2.08
4381 9545 8.659527 TGCATGGAGAAATAAACAGGATAGATA 58.340 33.333 0.00 0.00 0.00 1.98
4382 9546 7.520798 TGCATGGAGAAATAAACAGGATAGAT 58.479 34.615 0.00 0.00 0.00 1.98
4383 9547 6.899089 TGCATGGAGAAATAAACAGGATAGA 58.101 36.000 0.00 0.00 0.00 1.98
4384 9548 7.446319 TGATGCATGGAGAAATAAACAGGATAG 59.554 37.037 2.46 0.00 0.00 2.08
4385 9549 7.289310 TGATGCATGGAGAAATAAACAGGATA 58.711 34.615 2.46 0.00 0.00 2.59
4387 9551 5.508567 TGATGCATGGAGAAATAAACAGGA 58.491 37.500 2.46 0.00 0.00 3.86
4388 9552 5.591472 TCTGATGCATGGAGAAATAAACAGG 59.409 40.000 2.46 0.00 0.00 4.00
4399 9564 5.241064 CCTTAGGAAATTCTGATGCATGGAG 59.759 44.000 2.46 0.00 0.00 3.86
4446 9613 4.262851 GCAACATGGGGGTAGAATGTTTTT 60.263 41.667 0.00 0.00 41.39 1.94
4510 9677 8.487313 TGACATAATGTGGTTGTCTATAACAC 57.513 34.615 4.19 0.00 40.29 3.32
4518 9685 9.075519 CACAAATAATGACATAATGTGGTTGTC 57.924 33.333 11.84 0.00 40.10 3.18
4643 9817 7.329471 GGCTTCATTCACAAATAGAAAAAGGAC 59.671 37.037 0.00 0.00 0.00 3.85
4998 10280 6.955963 CGATGATGTTAGTGAAAGTAAGTTGC 59.044 38.462 0.00 0.00 31.17 4.17
5014 10297 1.028330 CACCCAGCTGCGATGATGTT 61.028 55.000 8.66 0.00 0.00 2.71
5098 10498 7.173907 CGATCCTGAATGCCAAATAAGAGTAAT 59.826 37.037 0.00 0.00 0.00 1.89
5270 10672 0.974010 CATGGAACCATGCAAGCCCT 60.974 55.000 18.82 0.00 45.71 5.19
5335 10737 0.179145 GTCGACGGTACATGTGGGAG 60.179 60.000 9.11 0.00 0.00 4.30
5420 10864 6.266323 AGCGAATACTACATACAGACAACAG 58.734 40.000 0.00 0.00 0.00 3.16
5446 10890 1.734837 TTCGCTATTCGCACGCACA 60.735 52.632 0.00 0.00 39.08 4.57
5473 10917 7.064016 GGTTCTAAGATCAAGCTGAACTTACAG 59.936 40.741 8.61 0.00 39.65 2.74
5525 10969 4.932200 ACTTTCTGGTTGACATCGAATCTC 59.068 41.667 0.00 0.00 0.00 2.75
5531 10975 4.692625 AGAATCACTTTCTGGTTGACATCG 59.307 41.667 0.00 0.00 43.21 3.84
5613 11059 5.598830 ACCCGAGTATTAGACATCAAGACAT 59.401 40.000 0.00 0.00 0.00 3.06
5614 11060 4.954202 ACCCGAGTATTAGACATCAAGACA 59.046 41.667 0.00 0.00 0.00 3.41
5615 11061 5.299782 AGACCCGAGTATTAGACATCAAGAC 59.700 44.000 0.00 0.00 0.00 3.01
5616 11062 5.446860 AGACCCGAGTATTAGACATCAAGA 58.553 41.667 0.00 0.00 0.00 3.02
5617 11063 5.278561 GGAGACCCGAGTATTAGACATCAAG 60.279 48.000 0.00 0.00 0.00 3.02
5618 11064 4.583489 GGAGACCCGAGTATTAGACATCAA 59.417 45.833 0.00 0.00 0.00 2.57
5619 11065 4.141228 AGGAGACCCGAGTATTAGACATCA 60.141 45.833 0.00 0.00 37.58 3.07
5620 11066 4.400120 AGGAGACCCGAGTATTAGACATC 58.600 47.826 0.00 0.00 37.58 3.06
5931 11377 1.421410 CCTTAGTCGCGATGGTGTGC 61.421 60.000 14.06 0.00 0.00 4.57
5945 11391 1.403323 GACTACCGAACGACCCCTTAG 59.597 57.143 0.00 0.00 0.00 2.18
5946 11392 1.463674 GACTACCGAACGACCCCTTA 58.536 55.000 0.00 0.00 0.00 2.69
5947 11393 1.253593 GGACTACCGAACGACCCCTT 61.254 60.000 0.00 0.00 0.00 3.95
5948 11394 1.680314 GGACTACCGAACGACCCCT 60.680 63.158 0.00 0.00 0.00 4.79
5949 11395 1.978617 TGGACTACCGAACGACCCC 60.979 63.158 0.00 0.00 39.42 4.95
5950 11396 1.213799 GTGGACTACCGAACGACCC 59.786 63.158 0.00 0.00 39.42 4.46
5951 11397 1.213799 GGTGGACTACCGAACGACC 59.786 63.158 0.00 0.00 40.26 4.79
5952 11398 4.876652 GGTGGACTACCGAACGAC 57.123 61.111 0.00 0.00 40.26 4.34
5972 11418 5.335827 GCAGATTCTAAAATACTGCGGAG 57.664 43.478 0.85 0.85 42.92 4.63
5977 11423 7.168302 CGGTACTCTGCAGATTCTAAAATACTG 59.832 40.741 18.63 6.13 0.00 2.74
5978 11424 7.147880 ACGGTACTCTGCAGATTCTAAAATACT 60.148 37.037 18.63 0.00 0.00 2.12
5979 11425 6.979238 ACGGTACTCTGCAGATTCTAAAATAC 59.021 38.462 18.63 4.65 0.00 1.89
5980 11426 7.108841 ACGGTACTCTGCAGATTCTAAAATA 57.891 36.000 18.63 0.00 0.00 1.40
5981 11427 5.978814 ACGGTACTCTGCAGATTCTAAAAT 58.021 37.500 18.63 0.00 0.00 1.82
5982 11428 5.401531 ACGGTACTCTGCAGATTCTAAAA 57.598 39.130 18.63 0.00 0.00 1.52
5983 11429 5.401531 AACGGTACTCTGCAGATTCTAAA 57.598 39.130 18.63 0.00 0.00 1.85
5984 11430 5.185249 AGAAACGGTACTCTGCAGATTCTAA 59.815 40.000 18.63 0.00 0.00 2.10
5985 11431 4.705507 AGAAACGGTACTCTGCAGATTCTA 59.294 41.667 18.63 4.36 0.00 2.10
5986 11432 3.511934 AGAAACGGTACTCTGCAGATTCT 59.488 43.478 18.63 17.59 0.00 2.40
5987 11433 3.851098 AGAAACGGTACTCTGCAGATTC 58.149 45.455 18.63 15.58 0.00 2.52
5988 11434 3.511934 AGAGAAACGGTACTCTGCAGATT 59.488 43.478 18.63 14.83 41.19 2.40
5989 11435 3.093057 AGAGAAACGGTACTCTGCAGAT 58.907 45.455 18.63 10.18 41.19 2.90
5990 11436 2.488545 GAGAGAAACGGTACTCTGCAGA 59.511 50.000 17.19 17.19 42.51 4.26
5991 11437 2.729467 CGAGAGAAACGGTACTCTGCAG 60.729 54.545 17.99 7.63 42.51 4.41
5992 11438 1.199327 CGAGAGAAACGGTACTCTGCA 59.801 52.381 17.99 0.00 42.51 4.41
5993 11439 1.897641 CGAGAGAAACGGTACTCTGC 58.102 55.000 17.99 10.95 42.51 4.26
5994 11440 1.469308 AGCGAGAGAAACGGTACTCTG 59.531 52.381 17.99 12.68 42.51 3.35
5995 11441 1.738908 GAGCGAGAGAAACGGTACTCT 59.261 52.381 14.57 14.57 44.68 3.24
5996 11442 1.202166 GGAGCGAGAGAAACGGTACTC 60.202 57.143 0.00 7.02 41.38 2.59
5997 11443 0.810016 GGAGCGAGAGAAACGGTACT 59.190 55.000 0.00 0.00 41.38 2.73
5998 11444 0.522915 CGGAGCGAGAGAAACGGTAC 60.523 60.000 0.00 0.00 41.38 3.34
5999 11445 0.957395 ACGGAGCGAGAGAAACGGTA 60.957 55.000 0.00 0.00 41.38 4.02
6000 11446 0.957395 TACGGAGCGAGAGAAACGGT 60.957 55.000 0.00 0.00 43.87 4.83
6001 11447 0.522915 GTACGGAGCGAGAGAAACGG 60.523 60.000 0.00 0.00 0.00 4.44
6002 11448 0.447011 AGTACGGAGCGAGAGAAACG 59.553 55.000 0.00 0.00 0.00 3.60
6003 11449 2.633199 AAGTACGGAGCGAGAGAAAC 57.367 50.000 0.00 0.00 0.00 2.78
6004 11450 3.655276 AAAAGTACGGAGCGAGAGAAA 57.345 42.857 0.00 0.00 0.00 2.52
6005 11451 3.655276 AAAAAGTACGGAGCGAGAGAA 57.345 42.857 0.00 0.00 0.00 2.87
6006 11452 4.217118 AGTTAAAAAGTACGGAGCGAGAGA 59.783 41.667 0.00 0.00 0.00 3.10
6007 11453 4.483311 AGTTAAAAAGTACGGAGCGAGAG 58.517 43.478 0.00 0.00 0.00 3.20
6008 11454 4.510038 AGTTAAAAAGTACGGAGCGAGA 57.490 40.909 0.00 0.00 0.00 4.04
6009 11455 5.156355 TGTAGTTAAAAAGTACGGAGCGAG 58.844 41.667 0.00 0.00 39.62 5.03
6010 11456 5.119931 TGTAGTTAAAAAGTACGGAGCGA 57.880 39.130 0.00 0.00 39.62 4.93
6011 11457 5.403466 AGTTGTAGTTAAAAAGTACGGAGCG 59.597 40.000 0.00 0.00 39.62 5.03
6012 11458 6.128715 GGAGTTGTAGTTAAAAAGTACGGAGC 60.129 42.308 0.00 0.00 39.62 4.70
6013 11459 6.367149 GGGAGTTGTAGTTAAAAAGTACGGAG 59.633 42.308 0.00 0.00 39.62 4.63
6014 11460 6.223120 GGGAGTTGTAGTTAAAAAGTACGGA 58.777 40.000 0.00 0.00 39.62 4.69
6015 11461 5.119125 CGGGAGTTGTAGTTAAAAAGTACGG 59.881 44.000 0.00 0.00 39.62 4.02
6016 11462 5.691754 ACGGGAGTTGTAGTTAAAAAGTACG 59.308 40.000 0.00 0.00 43.33 3.67
6067 11513 3.787001 CCTGTTCGGAGGGCCTCC 61.787 72.222 38.08 38.08 46.44 4.30
6068 11514 4.475135 GCCTGTTCGGAGGGCCTC 62.475 72.222 25.80 25.80 39.96 4.70
6072 11518 1.972660 CTTAGGGCCTGTTCGGAGGG 61.973 65.000 18.53 0.00 33.17 4.30
6073 11519 1.522569 CTTAGGGCCTGTTCGGAGG 59.477 63.158 18.53 0.00 36.03 4.30
6074 11520 1.522569 CCTTAGGGCCTGTTCGGAG 59.477 63.158 18.53 4.24 33.16 4.63
6075 11521 1.993391 CCCTTAGGGCCTGTTCGGA 60.993 63.158 18.53 0.00 35.35 4.55
6076 11522 2.590092 CCCTTAGGGCCTGTTCGG 59.410 66.667 18.53 10.61 35.35 4.30
6086 11532 0.036306 AAACCGAGCACACCCTTAGG 59.964 55.000 0.00 0.00 40.04 2.69
6098 11544 1.134175 GAGGAGCAGAGAGAAACCGAG 59.866 57.143 0.00 0.00 0.00 4.63
6166 11612 1.667830 CTCCGCGTTTTCAGCTCCA 60.668 57.895 4.92 0.00 0.00 3.86
6168 11614 1.493311 CACTCCGCGTTTTCAGCTC 59.507 57.895 4.92 0.00 0.00 4.09
6191 11637 3.081061 CCACAAAACTACATAGCAGCCA 58.919 45.455 0.00 0.00 0.00 4.75
6202 11648 3.343941 AATAGCCGCTCCACAAAACTA 57.656 42.857 0.00 0.00 0.00 2.24
6287 11742 2.203139 CGTGTGGCCACTGAACCA 60.203 61.111 34.75 12.61 39.55 3.67


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

AutoCloner maintained by Alex Coulton.