Multiple sequence alignment - TraesCS2A01G581800

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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 TraesCS2A01G581800 chr2A 100.000 2602 0 0 1 2602 774371346 774368745 0.000000e+00 4806.0
1 TraesCS2A01G581800 chr2A 99.142 1982 17 0 319 2300 774432929 774430948 0.000000e+00 3567.0
2 TraesCS2A01G581800 chr2A 84.164 562 44 24 1598 2133 774429586 774429044 1.070000e-138 503.0
3 TraesCS2A01G581800 chr2A 83.540 565 44 26 1598 2132 774309836 774309291 1.400000e-132 483.0
4 TraesCS2A01G581800 chr2A 82.989 435 47 17 1094 1517 774310284 774309866 4.090000e-98 368.0
5 TraesCS2A01G581800 chr2A 92.553 188 14 0 132 319 774435437 774435250 1.190000e-68 270.0
6 TraesCS2A01G581800 chr2D 93.038 2054 94 20 148 2163 650357470 650359512 0.000000e+00 2955.0
7 TraesCS2A01G581800 chr2D 81.437 668 54 32 1598 2235 650363618 650364245 1.400000e-132 483.0
8 TraesCS2A01G581800 chr2D 80.735 680 69 26 871 1517 650362938 650363588 8.430000e-130 473.0
9 TraesCS2A01G581800 chr2D 93.069 303 20 1 2300 2602 617670813 617671114 2.380000e-120 442.0
10 TraesCS2A01G581800 chr2B 87.150 856 66 16 701 1547 786465302 786466122 0.000000e+00 931.0
11 TraesCS2A01G581800 chr2B 80.048 832 94 27 872 1650 786677639 786678451 3.780000e-153 551.0
12 TraesCS2A01G581800 chr2B 87.097 496 33 10 1819 2292 786625886 786626372 1.370000e-147 532.0
13 TraesCS2A01G581800 chr2B 79.472 833 103 24 871 1650 786733174 786733991 1.770000e-146 529.0
14 TraesCS2A01G581800 chr2B 79.472 833 92 30 871 1650 786627361 786628167 3.840000e-143 518.0
15 TraesCS2A01G581800 chr2B 85.398 452 21 11 1581 2006 786466122 786466554 6.650000e-116 427.0
16 TraesCS2A01G581800 chr2B 78.453 724 74 29 805 1479 786281850 786282540 5.220000e-107 398.0
17 TraesCS2A01G581800 chr2B 78.453 724 73 32 805 1479 786262466 786263155 1.880000e-106 396.0
18 TraesCS2A01G581800 chr2B 78.177 724 76 31 805 1479 786276694 786277384 1.130000e-103 387.0
19 TraesCS2A01G581800 chr2B 78.177 724 75 30 805 1479 786271790 786272479 4.060000e-103 385.0
20 TraesCS2A01G581800 chr2B 78.641 412 50 22 1590 1991 786277463 786277846 3.350000e-59 239.0
21 TraesCS2A01G581800 chr2B 78.589 411 50 19 1590 1990 786270720 786271102 1.200000e-58 237.0
22 TraesCS2A01G581800 chr2B 78.398 412 51 19 1590 1991 786263234 786263617 1.560000e-57 233.0
23 TraesCS2A01G581800 chr2B 78.102 411 52 19 1590 1990 786272558 786272940 2.610000e-55 226.0
24 TraesCS2A01G581800 chr7A 93.046 302 21 0 2301 2602 103412701 103412400 2.380000e-120 442.0
25 TraesCS2A01G581800 chr7A 97.744 133 3 0 1 133 65245835 65245967 2.010000e-56 230.0
26 TraesCS2A01G581800 chr7A 96.970 132 4 0 1 132 613395314 613395183 3.370000e-54 222.0
27 TraesCS2A01G581800 chr5A 93.046 302 21 0 2301 2602 702187152 702186851 2.380000e-120 442.0
28 TraesCS2A01G581800 chr5A 91.503 306 26 0 2297 2602 52325425 52325120 3.100000e-114 422.0
29 TraesCS2A01G581800 chr5A 96.269 134 5 0 1 134 665370723 665370856 1.210000e-53 220.0
30 TraesCS2A01G581800 chr7D 92.079 303 23 1 2301 2602 558152450 558152148 2.390000e-115 425.0
31 TraesCS2A01G581800 chr4D 92.053 302 24 0 2301 2602 486511028 486511329 2.390000e-115 425.0
32 TraesCS2A01G581800 chr4D 80.460 435 57 17 1101 1507 293860786 293860352 9.050000e-80 307.0
33 TraesCS2A01G581800 chr4D 100.000 38 0 0 1527 1564 293860229 293860192 1.290000e-08 71.3
34 TraesCS2A01G581800 chr3D 91.558 308 26 0 2295 2602 572288120 572287813 2.390000e-115 425.0
35 TraesCS2A01G581800 chr3D 92.053 302 24 0 2301 2602 604349660 604349359 2.390000e-115 425.0
36 TraesCS2A01G581800 chr3D 95.652 46 1 1 2238 2282 13293573 13293618 3.590000e-09 73.1
37 TraesCS2A01G581800 chr5D 91.803 305 24 1 2299 2602 2994986 2994682 8.610000e-115 424.0
38 TraesCS2A01G581800 chr3A 96.970 132 4 0 1 132 29051511 29051380 3.370000e-54 222.0
39 TraesCS2A01G581800 chr3A 96.296 135 5 0 1 135 685280016 685280150 3.370000e-54 222.0
40 TraesCS2A01G581800 chr3A 96.269 134 5 0 1 134 2162655 2162788 1.210000e-53 220.0
41 TraesCS2A01G581800 chr3A 96.269 134 5 0 1 134 2629204 2629337 1.210000e-53 220.0
42 TraesCS2A01G581800 chr3A 96.269 134 5 0 1 134 5647487 5647620 1.210000e-53 220.0
43 TraesCS2A01G581800 chr1A 96.970 132 4 0 1 132 435834523 435834392 3.370000e-54 222.0


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 TraesCS2A01G581800 chr2A 774368745 774371346 2601 True 4806.000000 4806 100.0000 1 2602 1 chr2A.!!$R1 2601
1 TraesCS2A01G581800 chr2A 774429044 774435437 6393 True 1446.666667 3567 91.9530 132 2300 3 chr2A.!!$R3 2168
2 TraesCS2A01G581800 chr2A 774309291 774310284 993 True 425.500000 483 83.2645 1094 2132 2 chr2A.!!$R2 1038
3 TraesCS2A01G581800 chr2D 650357470 650364245 6775 False 1303.666667 2955 85.0700 148 2235 3 chr2D.!!$F2 2087
4 TraesCS2A01G581800 chr2B 786465302 786466554 1252 False 679.000000 931 86.2740 701 2006 2 chr2B.!!$F6 1305
5 TraesCS2A01G581800 chr2B 786677639 786678451 812 False 551.000000 551 80.0480 872 1650 1 chr2B.!!$F2 778
6 TraesCS2A01G581800 chr2B 786733174 786733991 817 False 529.000000 529 79.4720 871 1650 1 chr2B.!!$F3 779
7 TraesCS2A01G581800 chr2B 786625886 786628167 2281 False 525.000000 532 83.2845 871 2292 2 chr2B.!!$F7 1421
8 TraesCS2A01G581800 chr2B 786281850 786282540 690 False 398.000000 398 78.4530 805 1479 1 chr2B.!!$F1 674
9 TraesCS2A01G581800 chr2B 786262466 786263617 1151 False 314.500000 396 78.4255 805 1991 2 chr2B.!!$F4 1186
10 TraesCS2A01G581800 chr2B 786270720 786277846 7126 False 294.800000 387 78.3372 805 1991 5 chr2B.!!$F5 1186

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
100 101 0.03716 GGGACAAAAGGCCCTTACGA 59.963 55.0 0.0 0.0 41.31 3.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2165 9528 4.916983 TTGCAAAACATCTTAGCACAGT 57.083 36.364 0.0 0.0 34.56 3.55 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
17 18 4.941609 CCATCTGTCCCGGTTCTG 57.058 61.111 0.00 0.00 0.00 3.02
18 19 1.221840 CCATCTGTCCCGGTTCTGG 59.778 63.158 0.00 0.00 0.00 3.86
20 21 0.833287 CATCTGTCCCGGTTCTGGAT 59.167 55.000 0.00 0.00 33.65 3.41
25 26 1.271163 TGTCCCGGTTCTGGATTGAAC 60.271 52.381 0.00 0.00 43.88 3.18
31 32 1.450025 GTTCTGGATTGAACCGGGAC 58.550 55.000 6.32 0.00 40.10 4.46
32 33 1.003233 GTTCTGGATTGAACCGGGACT 59.997 52.381 6.32 0.00 40.62 3.85
33 34 2.235402 GTTCTGGATTGAACCGGGACTA 59.765 50.000 6.32 0.00 40.62 2.59
34 35 2.542550 TCTGGATTGAACCGGGACTAA 58.457 47.619 6.32 0.00 36.97 2.24
35 36 2.907696 TCTGGATTGAACCGGGACTAAA 59.092 45.455 6.32 0.00 36.97 1.85
38 39 2.640184 GATTGAACCGGGACTAAAGGG 58.360 52.381 6.32 0.00 0.00 3.95
39 40 1.732117 TTGAACCGGGACTAAAGGGA 58.268 50.000 6.32 0.00 0.00 4.20
41 42 0.978907 GAACCGGGACTAAAGGGACA 59.021 55.000 6.32 0.00 0.00 4.02
42 43 0.981943 AACCGGGACTAAAGGGACAG 59.018 55.000 6.32 0.00 0.00 3.51
43 44 0.908180 ACCGGGACTAAAGGGACAGG 60.908 60.000 6.32 0.00 0.00 4.00
44 45 1.623542 CCGGGACTAAAGGGACAGGG 61.624 65.000 0.00 0.00 0.00 4.45
45 46 1.608154 GGGACTAAAGGGACAGGGC 59.392 63.158 0.00 0.00 0.00 5.19
48 49 1.285078 GGACTAAAGGGACAGGGCATT 59.715 52.381 0.00 0.00 0.00 3.56
49 50 2.508300 GGACTAAAGGGACAGGGCATTA 59.492 50.000 0.00 0.00 0.00 1.90
50 51 3.433740 GGACTAAAGGGACAGGGCATTAG 60.434 52.174 0.00 0.00 0.00 1.73
51 52 3.190439 ACTAAAGGGACAGGGCATTAGT 58.810 45.455 0.00 0.00 0.00 2.24
53 54 3.646736 AAAGGGACAGGGCATTAGTAC 57.353 47.619 0.00 0.00 0.00 2.73
54 55 1.508256 AGGGACAGGGCATTAGTACC 58.492 55.000 0.00 0.00 36.47 3.34
57 58 1.202498 GGACAGGGCATTAGTACCGAC 60.202 57.143 0.00 0.00 0.00 4.79
58 59 0.828677 ACAGGGCATTAGTACCGACC 59.171 55.000 0.00 0.00 0.00 4.79
60 61 1.416401 CAGGGCATTAGTACCGACCAT 59.584 52.381 0.00 0.00 0.00 3.55
61 62 2.124411 AGGGCATTAGTACCGACCATT 58.876 47.619 0.00 0.00 0.00 3.16
64 65 4.062991 GGGCATTAGTACCGACCATTTAG 58.937 47.826 0.00 0.00 0.00 1.85
65 66 4.443881 GGGCATTAGTACCGACCATTTAGT 60.444 45.833 0.00 0.00 0.00 2.24
67 68 4.748600 GCATTAGTACCGACCATTTAGTCC 59.251 45.833 0.00 0.00 32.91 3.85
68 69 5.295152 CATTAGTACCGACCATTTAGTCCC 58.705 45.833 0.00 0.00 32.91 4.46
70 71 1.113788 TACCGACCATTTAGTCCCGG 58.886 55.000 0.00 0.00 42.30 5.73
73 74 1.648504 CGACCATTTAGTCCCGGTTC 58.351 55.000 0.00 0.00 32.91 3.62
74 75 1.741394 CGACCATTTAGTCCCGGTTCC 60.741 57.143 0.00 0.00 32.91 3.62
75 76 1.279846 GACCATTTAGTCCCGGTTCCA 59.720 52.381 0.00 0.00 0.00 3.53
78 79 2.420129 CCATTTAGTCCCGGTTCCAGAG 60.420 54.545 0.00 0.00 0.00 3.35
79 80 0.611714 TTTAGTCCCGGTTCCAGAGC 59.388 55.000 0.00 0.00 0.00 4.09
87 88 2.747686 GTTCCAGAGCCGGGACAA 59.252 61.111 2.18 0.00 33.18 3.18
95 96 4.678743 GCCGGGACAAAAGGCCCT 62.679 66.667 2.18 0.00 44.80 5.19
98 99 0.963856 CCGGGACAAAAGGCCCTTAC 60.964 60.000 4.64 0.00 42.40 2.34
99 100 1.303091 CGGGACAAAAGGCCCTTACG 61.303 60.000 4.64 0.00 42.40 3.18
100 101 0.037160 GGGACAAAAGGCCCTTACGA 59.963 55.000 0.00 0.00 41.31 3.43
101 102 1.546099 GGGACAAAAGGCCCTTACGAA 60.546 52.381 0.00 0.00 41.31 3.85
102 103 1.538512 GGACAAAAGGCCCTTACGAAC 59.461 52.381 0.00 0.00 0.00 3.95
103 104 1.538512 GACAAAAGGCCCTTACGAACC 59.461 52.381 0.00 0.00 0.00 3.62
105 106 0.607217 AAAAGGCCCTTACGAACCGG 60.607 55.000 0.00 0.00 0.00 5.28
106 107 2.473891 AAAGGCCCTTACGAACCGGG 62.474 60.000 6.32 0.00 41.06 5.73
107 108 3.393106 GGCCCTTACGAACCGGGA 61.393 66.667 6.32 0.00 40.55 5.14
112 113 1.481772 CCCTTACGAACCGGGATTACA 59.518 52.381 6.32 0.00 40.55 2.41
113 114 2.093553 CCCTTACGAACCGGGATTACAA 60.094 50.000 6.32 0.00 40.55 2.41
115 116 2.298411 TACGAACCGGGATTACAAGC 57.702 50.000 6.32 0.00 0.00 4.01
116 117 0.392060 ACGAACCGGGATTACAAGCC 60.392 55.000 6.32 0.00 0.00 4.35
127 128 5.578005 GGATTACAAGCCCTTTTTCTACC 57.422 43.478 0.00 0.00 0.00 3.18
128 129 5.014202 GGATTACAAGCCCTTTTTCTACCA 58.986 41.667 0.00 0.00 0.00 3.25
211 212 2.499205 CAACTGCCGGGCTCGATA 59.501 61.111 21.46 0.00 39.00 2.92
251 252 3.522731 CGGAGTCAGAGGAGGGCG 61.523 72.222 0.00 0.00 0.00 6.13
368 2692 9.564041 GTTCGAGTATAATTACAAATTAGTGCG 57.436 33.333 0.00 0.00 0.00 5.34
2165 9528 2.181954 TGCATCATGTACTGCACACA 57.818 45.000 13.67 0.00 43.11 3.72
2237 9600 7.953005 TTGAATAATTTGGATAGAGGCACAA 57.047 32.000 0.00 0.00 0.00 3.33
2286 9649 2.428544 ACCCAGCGGCATTATGTTTA 57.571 45.000 1.45 0.00 0.00 2.01
2319 14522 5.163237 TGTTTCACTAGTAGAAAACAGGGCT 60.163 40.000 21.23 0.00 36.80 5.19
2320 14523 5.562298 TTCACTAGTAGAAAACAGGGCTT 57.438 39.130 3.59 0.00 0.00 4.35
2322 14525 5.305585 TCACTAGTAGAAAACAGGGCTTTG 58.694 41.667 3.59 0.00 0.00 2.77
2323 14526 4.455877 CACTAGTAGAAAACAGGGCTTTGG 59.544 45.833 3.59 0.00 0.00 3.28
2324 14527 3.595190 AGTAGAAAACAGGGCTTTGGT 57.405 42.857 0.00 0.00 0.00 3.67
2325 14528 3.910989 AGTAGAAAACAGGGCTTTGGTT 58.089 40.909 0.00 0.00 0.00 3.67
2326 14529 4.286707 AGTAGAAAACAGGGCTTTGGTTT 58.713 39.130 5.48 5.48 40.51 3.27
2328 14531 2.170397 AGAAAACAGGGCTTTGGTTTGG 59.830 45.455 9.64 0.00 38.06 3.28
2329 14532 0.836606 AAACAGGGCTTTGGTTTGGG 59.163 50.000 0.00 0.00 33.78 4.12
2330 14533 1.695114 AACAGGGCTTTGGTTTGGGC 61.695 55.000 0.00 0.00 0.00 5.36
2331 14534 2.526624 AGGGCTTTGGTTTGGGCC 60.527 61.111 0.00 0.00 44.57 5.80
2333 14536 2.743060 GGCTTTGGTTTGGGCCTG 59.257 61.111 4.53 0.00 41.20 4.85
2336 14539 2.049435 CTTTGGTTTGGGCCTGTCC 58.951 57.895 4.53 4.76 0.00 4.02
2337 14540 0.758685 CTTTGGTTTGGGCCTGTCCA 60.759 55.000 4.53 7.58 36.21 4.02
2339 14542 2.991540 GGTTTGGGCCTGTCCAGC 60.992 66.667 4.53 0.00 38.17 4.85
2345 14548 3.006677 GGCCTGTCCAGCCCATTA 58.993 61.111 0.00 0.00 45.16 1.90
2346 14549 1.152881 GGCCTGTCCAGCCCATTAG 60.153 63.158 0.00 0.00 45.16 1.73
2347 14550 1.609783 GCCTGTCCAGCCCATTAGT 59.390 57.895 0.00 0.00 0.00 2.24
2348 14551 0.464554 GCCTGTCCAGCCCATTAGTC 60.465 60.000 0.00 0.00 0.00 2.59
2350 14553 0.181350 CTGTCCAGCCCATTAGTCCC 59.819 60.000 0.00 0.00 0.00 4.46
2352 14555 2.070039 TCCAGCCCATTAGTCCCGG 61.070 63.158 0.00 0.00 0.00 5.73
2353 14556 2.375345 CCAGCCCATTAGTCCCGGT 61.375 63.158 0.00 0.00 0.00 5.28
2354 14557 1.607612 CAGCCCATTAGTCCCGGTT 59.392 57.895 0.00 0.00 0.00 4.44
2357 14560 0.463833 GCCCATTAGTCCCGGTTCAG 60.464 60.000 0.00 0.00 0.00 3.02
2360 14563 0.251916 CATTAGTCCCGGTTCAGCCA 59.748 55.000 0.00 0.00 36.97 4.75
2361 14564 0.252197 ATTAGTCCCGGTTCAGCCAC 59.748 55.000 0.00 0.00 36.97 5.01
2363 14566 3.998672 GTCCCGGTTCAGCCACGA 61.999 66.667 0.00 0.00 36.97 4.35
2369 14572 4.771127 GTTCAGCCACGAACCAGA 57.229 55.556 0.00 0.00 39.52 3.86
2371 14574 0.586802 GTTCAGCCACGAACCAGAAC 59.413 55.000 0.00 0.00 39.52 3.01
2372 14575 0.468226 TTCAGCCACGAACCAGAACT 59.532 50.000 0.00 0.00 0.00 3.01
2373 14576 0.033504 TCAGCCACGAACCAGAACTC 59.966 55.000 0.00 0.00 0.00 3.01
2374 14577 0.249868 CAGCCACGAACCAGAACTCA 60.250 55.000 0.00 0.00 0.00 3.41
2375 14578 0.687354 AGCCACGAACCAGAACTCAT 59.313 50.000 0.00 0.00 0.00 2.90
2376 14579 0.798776 GCCACGAACCAGAACTCATG 59.201 55.000 0.00 0.00 0.00 3.07
2383 14586 3.583054 CCAGAACTCATGGTGGCAT 57.417 52.632 0.00 0.00 32.85 4.40
2384 14587 2.715749 CCAGAACTCATGGTGGCATA 57.284 50.000 0.00 0.00 32.85 3.14
2386 14589 1.935873 CAGAACTCATGGTGGCATACG 59.064 52.381 0.00 0.00 0.00 3.06
2390 14593 0.532862 CTCATGGTGGCATACGTCCC 60.533 60.000 0.00 0.00 0.00 4.46
2391 14594 1.887242 CATGGTGGCATACGTCCCG 60.887 63.158 0.00 0.00 0.00 5.14
2393 14596 3.777910 GGTGGCATACGTCCCGGT 61.778 66.667 0.00 0.00 0.00 5.28
2394 14597 2.266689 GTGGCATACGTCCCGGTT 59.733 61.111 0.00 0.00 0.00 4.44
2395 14598 1.812507 GTGGCATACGTCCCGGTTC 60.813 63.158 0.00 0.00 0.00 3.62
2397 14600 1.145377 GGCATACGTCCCGGTTCAT 59.855 57.895 0.00 0.00 0.00 2.57
2398 14601 1.157870 GGCATACGTCCCGGTTCATG 61.158 60.000 0.00 0.00 0.00 3.07
2401 14604 1.931172 CATACGTCCCGGTTCATGAAC 59.069 52.381 27.16 27.16 40.45 3.18
2438 14641 2.438434 CTCGTGGGCATTGGTCCC 60.438 66.667 0.00 0.00 44.17 4.46
2439 14642 4.402528 TCGTGGGCATTGGTCCCG 62.403 66.667 0.00 0.00 46.92 5.14
2443 14646 2.754254 GGGCATTGGTCCCGGTTC 60.754 66.667 0.00 0.00 33.43 3.62
2444 14647 3.131478 GGCATTGGTCCCGGTTCG 61.131 66.667 0.00 0.00 0.00 3.95
2445 14648 2.359478 GCATTGGTCCCGGTTCGT 60.359 61.111 0.00 0.00 0.00 3.85
2446 14649 2.396157 GCATTGGTCCCGGTTCGTC 61.396 63.158 0.00 0.00 0.00 4.20
2448 14667 1.019278 CATTGGTCCCGGTTCGTCTG 61.019 60.000 0.00 0.00 0.00 3.51
2450 14669 2.993264 GGTCCCGGTTCGTCTGGA 60.993 66.667 0.00 0.00 45.09 3.86
2453 14672 2.056223 TCCCGGTTCGTCTGGATCC 61.056 63.158 4.20 4.20 45.09 3.36
2456 14675 0.178068 CCGGTTCGTCTGGATCCATT 59.822 55.000 16.63 0.00 45.09 3.16
2460 14679 2.678336 GGTTCGTCTGGATCCATTTGTC 59.322 50.000 16.63 4.79 35.04 3.18
2465 14684 0.255890 CTGGATCCATTTGTCCCGGT 59.744 55.000 16.63 0.00 33.45 5.28
2468 14687 1.389555 GATCCATTTGTCCCGGTTCC 58.610 55.000 0.00 0.00 0.00 3.62
2469 14688 0.999712 ATCCATTTGTCCCGGTTCCT 59.000 50.000 0.00 0.00 0.00 3.36
2473 14692 2.075355 ATTTGTCCCGGTTCCTGGCA 62.075 55.000 0.00 0.00 0.00 4.92
2477 14696 4.323477 CCCGGTTCCTGGCACGAA 62.323 66.667 0.00 0.00 0.00 3.85
2478 14697 3.047877 CCGGTTCCTGGCACGAAC 61.048 66.667 17.61 17.61 39.12 3.95
2481 14700 3.047877 GTTCCTGGCACGAACCGG 61.048 66.667 15.72 0.00 34.75 5.28
2490 14709 2.038269 CACGAACCGGGACCAATGG 61.038 63.158 6.32 0.00 28.17 3.16
2491 14710 2.437716 CGAACCGGGACCAATGGG 60.438 66.667 6.32 0.00 41.29 4.00
2492 14711 2.754254 GAACCGGGACCAATGGGC 60.754 66.667 6.32 0.00 37.90 5.36
2499 14718 2.044946 GACCAATGGGCCTCGCTT 60.045 61.111 4.53 0.00 37.90 4.68
2500 14719 2.044946 ACCAATGGGCCTCGCTTC 60.045 61.111 4.53 0.00 37.90 3.86
2501 14720 2.273449 CCAATGGGCCTCGCTTCT 59.727 61.111 4.53 0.00 0.00 2.85
2502 14721 2.117156 CCAATGGGCCTCGCTTCTG 61.117 63.158 4.53 0.00 0.00 3.02
2509 14728 4.020617 CCTCGCTTCTGGCCCACA 62.021 66.667 0.00 0.00 37.74 4.17
2510 14729 2.270205 CTCGCTTCTGGCCCACAT 59.730 61.111 0.00 0.00 37.74 3.21
2511 14730 1.522092 CTCGCTTCTGGCCCACATA 59.478 57.895 0.00 0.00 37.74 2.29
2512 14731 0.107456 CTCGCTTCTGGCCCACATAT 59.893 55.000 0.00 0.00 37.74 1.78
2513 14732 1.344438 CTCGCTTCTGGCCCACATATA 59.656 52.381 0.00 0.00 37.74 0.86
2514 14733 1.977854 TCGCTTCTGGCCCACATATAT 59.022 47.619 0.00 0.00 37.74 0.86
2516 14735 2.485426 CGCTTCTGGCCCACATATATTG 59.515 50.000 0.00 0.00 37.74 1.90
2517 14736 2.821969 GCTTCTGGCCCACATATATTGG 59.178 50.000 0.00 6.86 34.27 3.16
2519 14738 3.788227 TCTGGCCCACATATATTGGTC 57.212 47.619 0.00 2.98 31.46 4.02
2520 14739 2.375174 TCTGGCCCACATATATTGGTCC 59.625 50.000 0.00 8.98 31.46 4.46
2523 14742 1.349688 GCCCACATATATTGGTCCCGA 59.650 52.381 10.92 0.00 31.46 5.14
2524 14743 2.026262 GCCCACATATATTGGTCCCGAT 60.026 50.000 10.92 0.00 31.46 4.18
2525 14744 3.561313 GCCCACATATATTGGTCCCGATT 60.561 47.826 10.92 0.00 31.46 3.34
2526 14745 4.261801 CCCACATATATTGGTCCCGATTC 58.738 47.826 10.92 0.00 31.46 2.52
2527 14746 3.932710 CCACATATATTGGTCCCGATTCG 59.067 47.826 0.00 0.00 0.00 3.34
2531 14750 0.179067 TATTGGTCCCGATTCGTGGC 60.179 55.000 5.20 0.00 0.00 5.01
2533 14752 2.046700 GGTCCCGATTCGTGGCAA 60.047 61.111 5.20 0.00 0.00 4.52
2534 14753 2.106683 GGTCCCGATTCGTGGCAAG 61.107 63.158 5.20 0.00 0.00 4.01
2535 14754 1.079405 GTCCCGATTCGTGGCAAGA 60.079 57.895 5.20 0.00 0.00 3.02
2537 14756 0.672401 TCCCGATTCGTGGCAAGAAC 60.672 55.000 17.89 10.88 0.00 3.01
2539 14758 1.419922 CGATTCGTGGCAAGAACCG 59.580 57.895 15.24 15.24 0.00 4.44
2540 14759 1.794222 GATTCGTGGCAAGAACCGG 59.206 57.895 17.89 0.00 0.00 5.28
2542 14761 2.119484 ATTCGTGGCAAGAACCGGGA 62.119 55.000 17.89 0.00 0.00 5.14
2543 14762 2.999739 TTCGTGGCAAGAACCGGGAC 63.000 60.000 11.88 0.00 0.00 4.46
2545 14764 1.527380 GTGGCAAGAACCGGGACAA 60.527 57.895 6.32 0.00 0.00 3.18
2549 14768 0.313987 GCAAGAACCGGGACAAAAGG 59.686 55.000 6.32 0.00 0.00 3.11
2550 14769 0.958822 CAAGAACCGGGACAAAAGGG 59.041 55.000 6.32 0.00 0.00 3.95
2551 14770 0.178973 AAGAACCGGGACAAAAGGGG 60.179 55.000 6.32 0.00 0.00 4.79
2552 14771 1.605451 GAACCGGGACAAAAGGGGG 60.605 63.158 6.32 0.00 0.00 5.40
2554 14773 2.076597 AACCGGGACAAAAGGGGGAG 62.077 60.000 6.32 0.00 0.00 4.30
2555 14774 2.361230 CGGGACAAAAGGGGGAGC 60.361 66.667 0.00 0.00 0.00 4.70
2557 14776 1.465172 GGGACAAAAGGGGGAGCTT 59.535 57.895 0.00 0.00 0.00 3.74
2558 14777 0.178932 GGGACAAAAGGGGGAGCTTT 60.179 55.000 0.00 0.00 0.00 3.51
2559 14778 1.076513 GGGACAAAAGGGGGAGCTTTA 59.923 52.381 0.00 0.00 0.00 1.85
2560 14779 2.447443 GGACAAAAGGGGGAGCTTTAG 58.553 52.381 0.00 0.00 0.00 1.85
2562 14781 3.082548 GACAAAAGGGGGAGCTTTAGTC 58.917 50.000 0.00 0.00 0.00 2.59
2563 14782 2.225041 ACAAAAGGGGGAGCTTTAGTCC 60.225 50.000 0.00 0.00 0.00 3.85
2567 14786 3.723245 GGGAGCTTTAGTCCCGGT 58.277 61.111 0.00 0.00 44.54 5.28
2568 14787 1.988817 GGGAGCTTTAGTCCCGGTT 59.011 57.895 0.00 0.00 44.54 4.44
2569 14788 0.107800 GGGAGCTTTAGTCCCGGTTC 60.108 60.000 0.00 0.00 44.54 3.62
2570 14789 0.903236 GGAGCTTTAGTCCCGGTTCT 59.097 55.000 0.00 0.15 0.00 3.01
2571 14790 2.105766 GGAGCTTTAGTCCCGGTTCTA 58.894 52.381 0.00 0.00 0.00 2.10
2573 14792 1.481363 AGCTTTAGTCCCGGTTCTAGC 59.519 52.381 0.00 5.33 0.00 3.42
2576 14795 1.188863 TTAGTCCCGGTTCTAGCCAC 58.811 55.000 0.00 0.00 0.00 5.01
2579 14798 1.607178 TCCCGGTTCTAGCCACGAA 60.607 57.895 0.00 0.00 0.00 3.85
2580 14799 1.447314 CCCGGTTCTAGCCACGAAC 60.447 63.158 0.00 0.00 39.92 3.95
2581 14800 1.590147 CCGGTTCTAGCCACGAACT 59.410 57.895 0.00 0.00 40.37 3.01
2582 14801 0.736325 CCGGTTCTAGCCACGAACTG 60.736 60.000 10.59 10.59 43.85 3.16
2583 14802 0.736325 CGGTTCTAGCCACGAACTGG 60.736 60.000 9.97 0.00 41.70 4.00
2584 14803 0.391263 GGTTCTAGCCACGAACTGGG 60.391 60.000 9.36 0.00 41.02 4.45
2585 14804 0.606604 GTTCTAGCCACGAACTGGGA 59.393 55.000 0.00 0.00 41.02 4.37
2586 14805 0.606604 TTCTAGCCACGAACTGGGAC 59.393 55.000 0.00 0.00 41.02 4.46
2587 14806 0.541063 TCTAGCCACGAACTGGGACA 60.541 55.000 0.00 0.00 41.02 4.02
2588 14807 0.320374 CTAGCCACGAACTGGGACAA 59.680 55.000 0.00 0.00 41.02 3.18
2589 14808 0.759959 TAGCCACGAACTGGGACAAA 59.240 50.000 0.00 0.00 41.02 2.83
2591 14810 0.240945 GCCACGAACTGGGACAAATG 59.759 55.000 0.00 0.00 41.02 2.32
2592 14811 1.890876 CCACGAACTGGGACAAATGA 58.109 50.000 0.00 0.00 38.70 2.57
2594 14813 2.494059 CACGAACTGGGACAAATGAGT 58.506 47.619 0.00 0.00 38.70 3.41
2597 14816 2.350772 CGAACTGGGACAAATGAGTTGC 60.351 50.000 0.00 0.00 41.31 4.17
2598 14817 1.620822 ACTGGGACAAATGAGTTGCC 58.379 50.000 0.00 0.00 41.31 4.52
2600 14819 2.375174 ACTGGGACAAATGAGTTGCCTA 59.625 45.455 0.00 0.00 41.31 3.93
2601 14820 3.010584 ACTGGGACAAATGAGTTGCCTAT 59.989 43.478 0.00 0.00 41.31 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 0.613260 CAATCCAGAACCGGGACAGA 59.387 55.000 6.32 0.92 37.23 3.41
7 8 3.948735 GTTCAATCCAGAACCGGGA 57.051 52.632 6.32 0.00 41.52 5.14
12 13 1.003233 AGTCCCGGTTCAATCCAGAAC 59.997 52.381 0.00 0.00 45.50 3.01
13 14 1.358152 AGTCCCGGTTCAATCCAGAA 58.642 50.000 0.00 0.00 0.00 3.02
15 16 3.270877 CTTTAGTCCCGGTTCAATCCAG 58.729 50.000 0.00 0.00 0.00 3.86
16 17 2.026636 CCTTTAGTCCCGGTTCAATCCA 60.027 50.000 0.00 0.00 0.00 3.41
17 18 2.640184 CCTTTAGTCCCGGTTCAATCC 58.360 52.381 0.00 0.00 0.00 3.01
18 19 2.237893 TCCCTTTAGTCCCGGTTCAATC 59.762 50.000 0.00 0.00 0.00 2.67
20 21 1.348696 GTCCCTTTAGTCCCGGTTCAA 59.651 52.381 0.00 0.00 0.00 2.69
25 26 1.623542 CCCTGTCCCTTTAGTCCCGG 61.624 65.000 0.00 0.00 0.00 5.73
26 27 1.905512 CCCTGTCCCTTTAGTCCCG 59.094 63.158 0.00 0.00 0.00 5.14
27 28 1.205460 TGCCCTGTCCCTTTAGTCCC 61.205 60.000 0.00 0.00 0.00 4.46
29 30 2.808906 AATGCCCTGTCCCTTTAGTC 57.191 50.000 0.00 0.00 0.00 2.59
31 32 3.933861 ACTAATGCCCTGTCCCTTTAG 57.066 47.619 0.00 0.00 0.00 1.85
32 33 3.457012 GGTACTAATGCCCTGTCCCTTTA 59.543 47.826 0.00 0.00 0.00 1.85
33 34 2.241430 GGTACTAATGCCCTGTCCCTTT 59.759 50.000 0.00 0.00 0.00 3.11
34 35 1.844497 GGTACTAATGCCCTGTCCCTT 59.156 52.381 0.00 0.00 0.00 3.95
35 36 1.508256 GGTACTAATGCCCTGTCCCT 58.492 55.000 0.00 0.00 0.00 4.20
38 39 1.202498 GGTCGGTACTAATGCCCTGTC 60.202 57.143 0.00 0.00 0.00 3.51
39 40 0.828677 GGTCGGTACTAATGCCCTGT 59.171 55.000 0.00 0.00 0.00 4.00
41 42 1.802553 ATGGTCGGTACTAATGCCCT 58.197 50.000 0.00 0.00 0.00 5.19
42 43 2.632987 AATGGTCGGTACTAATGCCC 57.367 50.000 0.00 0.00 0.00 5.36
43 44 4.700700 ACTAAATGGTCGGTACTAATGCC 58.299 43.478 0.00 0.00 0.00 4.40
44 45 4.748600 GGACTAAATGGTCGGTACTAATGC 59.251 45.833 0.00 0.00 37.12 3.56
45 46 5.295152 GGGACTAAATGGTCGGTACTAATG 58.705 45.833 0.00 0.00 37.12 1.90
48 49 2.951642 CGGGACTAAATGGTCGGTACTA 59.048 50.000 0.00 0.00 37.12 1.82
49 50 1.753073 CGGGACTAAATGGTCGGTACT 59.247 52.381 0.00 0.00 37.12 2.73
50 51 1.202452 CCGGGACTAAATGGTCGGTAC 60.202 57.143 0.00 0.00 37.12 3.34
51 52 1.113788 CCGGGACTAAATGGTCGGTA 58.886 55.000 0.00 0.00 37.12 4.02
53 54 0.251073 AACCGGGACTAAATGGTCGG 59.749 55.000 6.32 0.00 42.69 4.79
54 55 1.648504 GAACCGGGACTAAATGGTCG 58.351 55.000 6.32 0.00 37.12 4.79
57 58 1.557832 TCTGGAACCGGGACTAAATGG 59.442 52.381 6.32 0.00 0.00 3.16
58 59 2.906354 CTCTGGAACCGGGACTAAATG 58.094 52.381 6.32 0.00 0.00 2.32
60 61 0.611714 GCTCTGGAACCGGGACTAAA 59.388 55.000 6.32 0.00 0.00 1.85
61 62 1.262640 GGCTCTGGAACCGGGACTAA 61.263 60.000 6.32 0.00 0.00 2.24
64 65 4.452733 CGGCTCTGGAACCGGGAC 62.453 72.222 6.32 0.00 45.74 4.46
70 71 0.536460 TTTTGTCCCGGCTCTGGAAC 60.536 55.000 0.00 0.00 32.59 3.62
73 74 1.675641 CCTTTTGTCCCGGCTCTGG 60.676 63.158 0.00 0.00 0.00 3.86
74 75 2.335712 GCCTTTTGTCCCGGCTCTG 61.336 63.158 0.00 0.00 40.62 3.35
75 76 2.034221 GCCTTTTGTCCCGGCTCT 59.966 61.111 0.00 0.00 40.62 4.09
81 82 0.037160 TCGTAAGGGCCTTTTGTCCC 59.963 55.000 26.29 5.03 42.94 4.46
84 85 1.612676 GGTTCGTAAGGGCCTTTTGT 58.387 50.000 26.29 1.50 38.47 2.83
85 86 0.519961 CGGTTCGTAAGGGCCTTTTG 59.480 55.000 26.29 17.07 38.47 2.44
87 88 1.002990 CCGGTTCGTAAGGGCCTTT 60.003 57.895 26.29 5.08 38.47 3.11
92 93 1.481772 TGTAATCCCGGTTCGTAAGGG 59.518 52.381 0.00 0.00 46.40 3.95
93 94 2.965572 TGTAATCCCGGTTCGTAAGG 57.034 50.000 0.00 0.00 38.47 2.69
95 96 2.620242 GCTTGTAATCCCGGTTCGTAA 58.380 47.619 0.00 0.00 0.00 3.18
98 99 1.093496 GGGCTTGTAATCCCGGTTCG 61.093 60.000 0.00 0.00 32.00 3.95
99 100 2.789842 GGGCTTGTAATCCCGGTTC 58.210 57.895 0.00 0.00 32.00 3.62
105 106 5.014202 TGGTAGAAAAAGGGCTTGTAATCC 58.986 41.667 0.00 0.00 0.00 3.01
106 107 5.710567 ACTGGTAGAAAAAGGGCTTGTAATC 59.289 40.000 0.00 0.00 0.00 1.75
107 108 5.476945 CACTGGTAGAAAAAGGGCTTGTAAT 59.523 40.000 0.00 0.00 0.00 1.89
112 113 3.222603 CACACTGGTAGAAAAAGGGCTT 58.777 45.455 0.00 0.00 0.00 4.35
113 114 2.489073 CCACACTGGTAGAAAAAGGGCT 60.489 50.000 0.00 0.00 31.35 5.19
115 116 3.412386 CTCCACACTGGTAGAAAAAGGG 58.588 50.000 0.00 0.00 39.03 3.95
116 117 3.412386 CCTCCACACTGGTAGAAAAAGG 58.588 50.000 0.00 0.00 39.03 3.11
120 121 0.690762 GGCCTCCACACTGGTAGAAA 59.309 55.000 0.00 0.00 39.03 2.52
121 122 0.472925 TGGCCTCCACACTGGTAGAA 60.473 55.000 3.32 0.00 39.03 2.10
211 212 2.439883 GGTACGCCCCTCTCTCGT 60.440 66.667 0.00 0.00 39.88 4.18
216 217 1.464376 CGATGATGGTACGCCCCTCT 61.464 60.000 0.00 0.00 0.00 3.69
306 309 9.908152 CCTAGAAAACAAAATGGTTAACTAAGG 57.092 33.333 5.42 0.00 0.00 2.69
368 2692 4.025061 GCTACATCTCTGTTCACATGCATC 60.025 45.833 0.00 0.00 36.79 3.91
2165 9528 4.916983 TTGCAAAACATCTTAGCACAGT 57.083 36.364 0.00 0.00 34.56 3.55
2216 9579 8.537728 TTCATTGTGCCTCTATCCAAATTATT 57.462 30.769 0.00 0.00 0.00 1.40
2270 9633 5.679734 ATCTCTTAAACATAATGCCGCTG 57.320 39.130 0.00 0.00 0.00 5.18
2300 9663 4.455877 CCAAAGCCCTGTTTTCTACTAGTG 59.544 45.833 5.39 0.00 0.00 2.74
2302 9665 4.652822 ACCAAAGCCCTGTTTTCTACTAG 58.347 43.478 0.00 0.00 0.00 2.57
2303 9666 4.717279 ACCAAAGCCCTGTTTTCTACTA 57.283 40.909 0.00 0.00 0.00 1.82
2306 14488 3.386402 CCAAACCAAAGCCCTGTTTTCTA 59.614 43.478 0.00 0.00 30.19 2.10
2313 14516 2.743060 GCCCAAACCAAAGCCCTG 59.257 61.111 0.00 0.00 0.00 4.45
2319 14522 0.758685 CTGGACAGGCCCAAACCAAA 60.759 55.000 0.00 0.00 35.47 3.28
2320 14523 1.152567 CTGGACAGGCCCAAACCAA 60.153 57.895 0.00 0.00 35.47 3.67
2322 14525 2.991540 GCTGGACAGGCCCAAACC 60.992 66.667 0.00 0.00 35.47 3.27
2323 14526 2.991540 GGCTGGACAGGCCCAAAC 60.992 66.667 14.28 0.00 46.99 2.93
2330 14533 0.181350 GGACTAATGGGCTGGACAGG 59.819 60.000 1.01 0.00 0.00 4.00
2331 14534 0.181350 GGGACTAATGGGCTGGACAG 59.819 60.000 0.00 0.00 0.00 3.51
2333 14536 1.146263 CGGGACTAATGGGCTGGAC 59.854 63.158 0.00 0.00 0.00 4.02
2336 14539 0.463833 GAACCGGGACTAATGGGCTG 60.464 60.000 6.32 0.00 0.00 4.85
2337 14540 0.912487 TGAACCGGGACTAATGGGCT 60.912 55.000 6.32 0.00 0.00 5.19
2339 14542 0.463833 GCTGAACCGGGACTAATGGG 60.464 60.000 6.32 0.00 0.00 4.00
2340 14543 0.463833 GGCTGAACCGGGACTAATGG 60.464 60.000 6.32 0.00 0.00 3.16
2341 14544 0.251916 TGGCTGAACCGGGACTAATG 59.748 55.000 6.32 0.00 43.94 1.90
2342 14545 0.252197 GTGGCTGAACCGGGACTAAT 59.748 55.000 6.32 0.00 43.94 1.73
2343 14546 1.675219 GTGGCTGAACCGGGACTAA 59.325 57.895 6.32 0.00 43.94 2.24
2345 14548 4.003788 CGTGGCTGAACCGGGACT 62.004 66.667 6.32 0.00 43.94 3.85
2346 14549 3.524648 TTCGTGGCTGAACCGGGAC 62.525 63.158 6.32 0.00 43.94 4.46
2347 14550 3.235481 TTCGTGGCTGAACCGGGA 61.235 61.111 6.32 0.00 43.94 5.14
2348 14551 3.047877 GTTCGTGGCTGAACCGGG 61.048 66.667 6.32 0.00 43.94 5.73
2352 14555 0.586802 GTTCTGGTTCGTGGCTGAAC 59.413 55.000 12.74 12.74 45.91 3.18
2353 14556 0.468226 AGTTCTGGTTCGTGGCTGAA 59.532 50.000 0.00 0.00 0.00 3.02
2354 14557 0.033504 GAGTTCTGGTTCGTGGCTGA 59.966 55.000 0.00 0.00 0.00 4.26
2357 14560 0.798776 CATGAGTTCTGGTTCGTGGC 59.201 55.000 0.00 0.00 0.00 5.01
2360 14563 1.270839 CCACCATGAGTTCTGGTTCGT 60.271 52.381 0.00 0.00 44.67 3.85
2361 14564 1.442769 CCACCATGAGTTCTGGTTCG 58.557 55.000 0.00 0.00 44.67 3.95
2363 14566 0.478072 TGCCACCATGAGTTCTGGTT 59.522 50.000 0.00 0.00 44.67 3.67
2366 14569 1.935873 CGTATGCCACCATGAGTTCTG 59.064 52.381 0.00 0.00 32.85 3.02
2368 14571 1.933853 GACGTATGCCACCATGAGTTC 59.066 52.381 0.00 0.00 32.85 3.01
2369 14572 1.406887 GGACGTATGCCACCATGAGTT 60.407 52.381 0.00 0.00 32.85 3.01
2371 14574 0.532862 GGGACGTATGCCACCATGAG 60.533 60.000 0.00 0.00 36.03 2.90
2372 14575 1.524961 GGGACGTATGCCACCATGA 59.475 57.895 0.00 0.00 36.03 3.07
2373 14576 4.141144 GGGACGTATGCCACCATG 57.859 61.111 0.00 0.00 36.03 3.66
2421 14624 2.438434 GGGACCAATGCCCACGAG 60.438 66.667 0.00 0.00 45.31 4.18
2422 14625 4.402528 CGGGACCAATGCCCACGA 62.403 66.667 0.00 0.00 46.36 4.35
2424 14627 3.879180 AACCGGGACCAATGCCCAC 62.879 63.158 6.32 0.00 46.36 4.61
2425 14628 3.577334 GAACCGGGACCAATGCCCA 62.577 63.158 6.32 0.00 46.36 5.36
2426 14629 2.754254 GAACCGGGACCAATGCCC 60.754 66.667 6.32 0.00 42.41 5.36
2427 14630 3.131478 CGAACCGGGACCAATGCC 61.131 66.667 6.32 0.00 0.00 4.40
2428 14631 2.359478 ACGAACCGGGACCAATGC 60.359 61.111 6.32 0.00 0.00 3.56
2429 14632 1.019278 CAGACGAACCGGGACCAATG 61.019 60.000 6.32 0.00 0.00 2.82
2432 14635 3.307906 CCAGACGAACCGGGACCA 61.308 66.667 6.32 0.00 0.00 4.02
2434 14637 1.141234 GATCCAGACGAACCGGGAC 59.859 63.158 6.32 0.00 31.04 4.46
2438 14641 1.665679 CAAATGGATCCAGACGAACCG 59.334 52.381 21.33 0.00 36.19 4.44
2439 14642 2.678336 GACAAATGGATCCAGACGAACC 59.322 50.000 21.33 2.33 33.99 3.62
2440 14643 2.678336 GGACAAATGGATCCAGACGAAC 59.322 50.000 21.33 9.45 34.87 3.95
2443 14646 1.668419 GGGACAAATGGATCCAGACG 58.332 55.000 21.33 12.60 36.65 4.18
2444 14647 1.668419 CGGGACAAATGGATCCAGAC 58.332 55.000 21.33 6.98 36.65 3.51
2445 14648 0.546122 CCGGGACAAATGGATCCAGA 59.454 55.000 21.33 0.00 36.65 3.86
2446 14649 0.255890 ACCGGGACAAATGGATCCAG 59.744 55.000 21.33 9.32 36.65 3.86
2448 14667 1.389555 GAACCGGGACAAATGGATCC 58.610 55.000 6.32 4.20 0.00 3.36
2450 14669 0.999712 AGGAACCGGGACAAATGGAT 59.000 50.000 6.32 0.00 0.00 3.41
2453 14672 1.595093 GCCAGGAACCGGGACAAATG 61.595 60.000 13.80 0.00 32.98 2.32
2456 14675 3.172106 TGCCAGGAACCGGGACAA 61.172 61.111 13.80 0.00 32.98 3.18
2460 14679 4.323477 TTCGTGCCAGGAACCGGG 62.323 66.667 6.32 5.68 0.00 5.73
2465 14684 4.323477 CCCGGTTCGTGCCAGGAA 62.323 66.667 0.00 0.00 0.00 3.36
2473 14692 2.349755 CCATTGGTCCCGGTTCGT 59.650 61.111 0.00 0.00 0.00 3.85
2475 14694 2.754254 GCCCATTGGTCCCGGTTC 60.754 66.667 0.00 0.00 0.00 3.62
2476 14695 4.376170 GGCCCATTGGTCCCGGTT 62.376 66.667 0.00 0.00 0.00 4.44
2478 14697 4.506255 GAGGCCCATTGGTCCCGG 62.506 72.222 0.00 0.00 36.69 5.73
2479 14698 4.856801 CGAGGCCCATTGGTCCCG 62.857 72.222 0.00 0.00 36.69 5.14
2481 14700 3.645268 AAGCGAGGCCCATTGGTCC 62.645 63.158 0.00 0.00 36.69 4.46
2482 14701 2.044946 AAGCGAGGCCCATTGGTC 60.045 61.111 0.00 0.00 36.05 4.02
2483 14702 2.044946 GAAGCGAGGCCCATTGGT 60.045 61.111 0.00 0.00 0.00 3.67
2484 14703 2.117156 CAGAAGCGAGGCCCATTGG 61.117 63.158 0.00 0.00 0.00 3.16
2485 14704 2.117156 CCAGAAGCGAGGCCCATTG 61.117 63.158 0.00 0.00 0.00 2.82
2492 14711 1.971505 TATGTGGGCCAGAAGCGAGG 61.972 60.000 6.40 0.00 45.17 4.63
2493 14712 0.107456 ATATGTGGGCCAGAAGCGAG 59.893 55.000 6.40 0.00 45.17 5.03
2494 14713 1.419381 TATATGTGGGCCAGAAGCGA 58.581 50.000 6.40 0.00 45.17 4.93
2495 14714 2.479566 ATATATGTGGGCCAGAAGCG 57.520 50.000 6.40 0.00 45.17 4.68
2496 14715 2.821969 CCAATATATGTGGGCCAGAAGC 59.178 50.000 6.40 0.00 42.60 3.86
2497 14716 4.074970 GACCAATATATGTGGGCCAGAAG 58.925 47.826 6.40 0.00 38.35 2.85
2498 14717 4.098914 GACCAATATATGTGGGCCAGAA 57.901 45.455 6.40 0.00 38.35 3.02
2499 14718 3.788227 GACCAATATATGTGGGCCAGA 57.212 47.619 6.40 5.95 38.35 3.86
2504 14723 4.261801 GAATCGGGACCAATATATGTGGG 58.738 47.826 14.55 2.03 40.75 4.61
2505 14724 3.932710 CGAATCGGGACCAATATATGTGG 59.067 47.826 0.00 10.59 42.28 4.17
2508 14727 3.932710 CCACGAATCGGGACCAATATATG 59.067 47.826 6.42 0.00 28.17 1.78
2509 14728 3.618997 GCCACGAATCGGGACCAATATAT 60.619 47.826 6.42 0.00 28.17 0.86
2510 14729 2.289195 GCCACGAATCGGGACCAATATA 60.289 50.000 6.42 0.00 28.17 0.86
2511 14730 1.542547 GCCACGAATCGGGACCAATAT 60.543 52.381 6.42 0.00 28.17 1.28
2512 14731 0.179067 GCCACGAATCGGGACCAATA 60.179 55.000 6.42 0.00 28.17 1.90
2513 14732 1.451387 GCCACGAATCGGGACCAAT 60.451 57.895 6.42 0.00 28.17 3.16
2514 14733 2.046700 GCCACGAATCGGGACCAA 60.047 61.111 6.42 0.00 28.17 3.67
2516 14735 2.046700 TTGCCACGAATCGGGACC 60.047 61.111 6.42 0.00 28.17 4.46
2517 14736 0.672401 TTCTTGCCACGAATCGGGAC 60.672 55.000 6.42 0.00 28.17 4.46
2519 14738 1.644786 GGTTCTTGCCACGAATCGGG 61.645 60.000 7.80 1.60 0.00 5.14
2520 14739 1.794222 GGTTCTTGCCACGAATCGG 59.206 57.895 7.80 0.00 0.00 4.18
2523 14742 1.674322 CCCGGTTCTTGCCACGAAT 60.674 57.895 0.00 0.00 0.00 3.34
2524 14743 2.281208 CCCGGTTCTTGCCACGAA 60.281 61.111 0.00 0.00 0.00 3.85
2525 14744 3.235481 TCCCGGTTCTTGCCACGA 61.235 61.111 0.00 0.00 0.00 4.35
2526 14745 3.047877 GTCCCGGTTCTTGCCACG 61.048 66.667 0.00 0.00 0.00 4.94
2527 14746 1.104577 TTTGTCCCGGTTCTTGCCAC 61.105 55.000 0.00 0.00 0.00 5.01
2531 14750 0.958822 CCCTTTTGTCCCGGTTCTTG 59.041 55.000 0.00 0.00 0.00 3.02
2533 14752 1.458927 CCCCTTTTGTCCCGGTTCT 59.541 57.895 0.00 0.00 0.00 3.01
2534 14753 1.605451 CCCCCTTTTGTCCCGGTTC 60.605 63.158 0.00 0.00 0.00 3.62
2535 14754 2.076597 CTCCCCCTTTTGTCCCGGTT 62.077 60.000 0.00 0.00 0.00 4.44
2537 14756 2.355115 CTCCCCCTTTTGTCCCGG 59.645 66.667 0.00 0.00 0.00 5.73
2539 14758 0.178932 AAAGCTCCCCCTTTTGTCCC 60.179 55.000 0.00 0.00 31.25 4.46
2540 14759 2.225041 ACTAAAGCTCCCCCTTTTGTCC 60.225 50.000 0.00 0.00 36.52 4.02
2542 14761 2.225041 GGACTAAAGCTCCCCCTTTTGT 60.225 50.000 0.00 2.36 41.25 2.83
2543 14762 2.447443 GGACTAAAGCTCCCCCTTTTG 58.553 52.381 0.00 0.00 36.50 2.44
2545 14764 1.000496 GGGACTAAAGCTCCCCCTTT 59.000 55.000 0.00 0.00 41.70 3.11
2549 14768 1.559965 AACCGGGACTAAAGCTCCCC 61.560 60.000 6.32 0.99 44.40 4.81
2550 14769 0.107800 GAACCGGGACTAAAGCTCCC 60.108 60.000 6.32 0.00 43.86 4.30
2551 14770 0.903236 AGAACCGGGACTAAAGCTCC 59.097 55.000 6.32 0.00 0.00 4.70
2552 14771 2.481622 GCTAGAACCGGGACTAAAGCTC 60.482 54.545 6.32 0.00 0.00 4.09
2554 14773 1.472904 GGCTAGAACCGGGACTAAAGC 60.473 57.143 6.32 10.94 0.00 3.51
2555 14774 1.829222 TGGCTAGAACCGGGACTAAAG 59.171 52.381 6.32 1.06 0.00 1.85
2557 14776 1.188863 GTGGCTAGAACCGGGACTAA 58.811 55.000 6.32 0.00 0.00 2.24
2558 14777 1.033746 CGTGGCTAGAACCGGGACTA 61.034 60.000 6.32 8.06 0.00 2.59
2559 14778 2.348888 CGTGGCTAGAACCGGGACT 61.349 63.158 6.32 7.19 0.00 3.85
2560 14779 1.880819 TTCGTGGCTAGAACCGGGAC 61.881 60.000 6.32 0.00 0.00 4.46
2562 14781 1.447314 GTTCGTGGCTAGAACCGGG 60.447 63.158 6.32 0.00 41.38 5.73
2563 14782 0.736325 CAGTTCGTGGCTAGAACCGG 60.736 60.000 17.45 0.00 46.58 5.28
2564 14783 0.736325 CCAGTTCGTGGCTAGAACCG 60.736 60.000 17.45 10.46 46.58 4.44
2565 14784 0.391263 CCCAGTTCGTGGCTAGAACC 60.391 60.000 17.45 0.00 46.45 3.62
2566 14785 0.606604 TCCCAGTTCGTGGCTAGAAC 59.393 55.000 14.65 14.65 46.45 3.01
2567 14786 0.606604 GTCCCAGTTCGTGGCTAGAA 59.393 55.000 0.00 0.00 46.45 2.10
2568 14787 0.541063 TGTCCCAGTTCGTGGCTAGA 60.541 55.000 0.00 0.00 46.45 2.43
2569 14788 0.320374 TTGTCCCAGTTCGTGGCTAG 59.680 55.000 0.00 0.00 46.45 3.42
2570 14789 0.759959 TTTGTCCCAGTTCGTGGCTA 59.240 50.000 0.00 0.00 46.45 3.93
2571 14790 0.110486 ATTTGTCCCAGTTCGTGGCT 59.890 50.000 0.00 0.00 46.45 4.75
2576 14795 2.350772 GCAACTCATTTGTCCCAGTTCG 60.351 50.000 0.00 0.00 37.54 3.95
2579 14798 1.620822 GGCAACTCATTTGTCCCAGT 58.379 50.000 0.00 0.00 37.54 4.00


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

AutoCloner maintained by Alex Coulton.