Multiple sequence alignment - TraesCS7B01G354100

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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 TraesCS7B01G354100 chr7B 100.000 1461 0 0 1590 3050 611962158 611960698 0.000000e+00 2699.0
1 TraesCS7B01G354100 chr7B 100.000 1378 0 0 1 1378 611963747 611962370 0.000000e+00 2545.0
2 TraesCS7B01G354100 chr7B 97.978 742 10 3 1590 2329 611741848 611741110 0.000000e+00 1282.0
3 TraesCS7B01G354100 chr7B 87.664 762 58 18 631 1378 612256823 612256084 0.000000e+00 854.0
4 TraesCS7B01G354100 chr7B 92.600 500 26 5 886 1378 612007317 612006822 0.000000e+00 708.0
5 TraesCS7B01G354100 chr7B 90.728 453 38 3 918 1369 611731057 611730608 4.350000e-168 601.0
6 TraesCS7B01G354100 chr7B 91.940 335 23 2 494 828 612007645 612007315 1.660000e-127 466.0
7 TraesCS7B01G354100 chr7B 82.692 572 49 25 1778 2330 612006469 612005929 2.140000e-126 462.0
8 TraesCS7B01G354100 chr7B 86.528 386 46 4 2670 3050 611740252 611739868 1.310000e-113 420.0
9 TraesCS7B01G354100 chr7B 77.706 462 55 24 11 440 611743463 611743018 3.930000e-59 239.0
10 TraesCS7B01G354100 chr7B 90.090 111 11 0 2940 3050 612253927 612253817 8.810000e-31 145.0
11 TraesCS7B01G354100 chr7B 82.840 169 13 7 2164 2330 612255230 612255076 1.470000e-28 137.0
12 TraesCS7B01G354100 chr7D 91.871 898 52 11 494 1377 562424360 562425250 0.000000e+00 1234.0
13 TraesCS7B01G354100 chr7D 86.299 708 60 16 1699 2385 562389785 562390476 0.000000e+00 736.0
14 TraesCS7B01G354100 chr7D 91.134 485 42 1 1590 2073 562148729 562148245 0.000000e+00 656.0
15 TraesCS7B01G354100 chr7D 92.627 434 30 1 945 1378 562149240 562148809 9.290000e-175 623.0
16 TraesCS7B01G354100 chr7D 87.253 557 39 10 1793 2330 562425700 562426243 9.350000e-170 606.0
17 TraesCS7B01G354100 chr7D 89.809 471 45 3 909 1378 562401458 562401926 4.350000e-168 601.0
18 TraesCS7B01G354100 chr7D 88.912 487 53 1 1590 2075 562257248 562256762 1.560000e-167 599.0
19 TraesCS7B01G354100 chr7D 84.325 504 33 16 1 479 562423827 562424309 4.640000e-123 451.0
20 TraesCS7B01G354100 chr7D 87.376 404 19 8 2670 3050 562390918 562391312 4.670000e-118 435.0
21 TraesCS7B01G354100 chr7D 86.649 382 43 4 2672 3050 562255304 562254928 1.690000e-112 416.0
22 TraesCS7B01G354100 chr7D 84.375 384 35 8 2670 3050 562404844 562405205 1.350000e-93 353.0
23 TraesCS7B01G354100 chr7D 89.407 236 21 3 2817 3050 562427514 562427747 8.270000e-76 294.0
24 TraesCS7B01G354100 chr7D 81.703 317 28 12 2698 3011 562417707 562417996 1.410000e-58 237.0
25 TraesCS7B01G354100 chr7D 92.958 71 4 1 2741 2811 562427030 562427099 5.380000e-18 102.0
26 TraesCS7B01G354100 chr7D 83.168 101 10 4 38 138 562400209 562400302 5.420000e-13 86.1
27 TraesCS7B01G354100 chr7D 94.340 53 2 1 2771 2823 562427108 562427159 2.520000e-11 80.5
28 TraesCS7B01G354100 chr7A 89.297 626 39 10 1720 2330 647934158 647933546 0.000000e+00 760.0
29 TraesCS7B01G354100 chr7A 94.398 482 23 2 811 1291 647934850 647934372 0.000000e+00 737.0
30 TraesCS7B01G354100 chr7A 86.697 654 57 10 1694 2345 648041828 648041203 0.000000e+00 699.0
31 TraesCS7B01G354100 chr7A 91.393 488 40 2 1590 2075 647315606 647315119 0.000000e+00 667.0
32 TraesCS7B01G354100 chr7A 89.579 499 47 3 1590 2087 647917221 647916727 2.000000e-176 628.0
33 TraesCS7B01G354100 chr7A 91.429 455 37 1 923 1377 648042883 648042431 9.290000e-175 623.0
34 TraesCS7B01G354100 chr7A 90.414 459 42 1 915 1373 647307697 647307241 1.210000e-168 603.0
35 TraesCS7B01G354100 chr7A 87.360 356 41 3 2698 3050 647932731 647932377 3.660000e-109 405.0
36 TraesCS7B01G354100 chr7A 86.866 335 15 16 11 321 647935738 647935409 6.260000e-92 348.0
37 TraesCS7B01G354100 chr7A 84.502 271 21 4 2781 3050 648039160 648038910 6.530000e-62 248.0
38 TraesCS7B01G354100 chr7A 90.667 150 7 5 1 149 648043960 648043817 3.100000e-45 193.0
39 TraesCS7B01G354100 chr7A 83.908 174 9 2 306 479 647935393 647935239 6.810000e-32 148.0
40 TraesCS7B01G354100 chrUn 91.342 462 40 0 1590 2051 20705733 20706194 1.540000e-177 632.0
41 TraesCS7B01G354100 chr6A 90.065 463 42 4 1590 2050 107692720 107692260 5.630000e-167 597.0
42 TraesCS7B01G354100 chr6D 88.211 492 52 5 1590 2077 75372771 75373260 1.580000e-162 582.0


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 TraesCS7B01G354100 chr7B 611960698 611963747 3049 True 2622.000000 2699 100.000000 1 3050 2 chr7B.!!$R3 3049
1 TraesCS7B01G354100 chr7B 611739868 611743463 3595 True 647.000000 1282 87.404000 11 3050 3 chr7B.!!$R2 3039
2 TraesCS7B01G354100 chr7B 612005929 612007645 1716 True 545.333333 708 89.077333 494 2330 3 chr7B.!!$R4 1836
3 TraesCS7B01G354100 chr7B 612253817 612256823 3006 True 378.666667 854 86.864667 631 3050 3 chr7B.!!$R5 2419
4 TraesCS7B01G354100 chr7D 562148245 562149240 995 True 639.500000 656 91.880500 945 2073 2 chr7D.!!$R1 1128
5 TraesCS7B01G354100 chr7D 562389785 562391312 1527 False 585.500000 736 86.837500 1699 3050 2 chr7D.!!$F2 1351
6 TraesCS7B01G354100 chr7D 562254928 562257248 2320 True 507.500000 599 87.780500 1590 3050 2 chr7D.!!$R2 1460
7 TraesCS7B01G354100 chr7D 562423827 562427747 3920 False 461.250000 1234 90.025667 1 3050 6 chr7D.!!$F4 3049
8 TraesCS7B01G354100 chr7D 562400209 562405205 4996 False 346.700000 601 85.784000 38 3050 3 chr7D.!!$F3 3012
9 TraesCS7B01G354100 chr7A 647932377 647935738 3361 True 479.600000 760 88.365800 11 3050 5 chr7A.!!$R4 3039
10 TraesCS7B01G354100 chr7A 648038910 648043960 5050 True 440.750000 699 88.323750 1 3050 4 chr7A.!!$R5 3049

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
30 31 0.404426 GCTATAAATTCCCCGCCCCT 59.596 55.0 0.0 0.0 0.00 4.79 F
1274 2545 0.036732 GGCAAGACCATCACACTGGA 59.963 55.0 0.0 0.0 39.73 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1301 2572 0.036010 CTGGATCTTGGCCTTCACGT 60.036 55.0 3.32 0.0 0.0 4.49 R
2401 8756 0.171455 GGGTCACGAGCTGTACTGAG 59.829 60.0 3.61 0.0 0.0 3.35 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
30 31 0.404426 GCTATAAATTCCCCGCCCCT 59.596 55.000 0.00 0.00 0.00 4.79
31 32 1.613520 GCTATAAATTCCCCGCCCCTC 60.614 57.143 0.00 0.00 0.00 4.30
42 43 2.364448 GCCCCTCCCGTCTTCTCT 60.364 66.667 0.00 0.00 0.00 3.10
45 47 1.308326 CCCTCCCGTCTTCTCTCCT 59.692 63.158 0.00 0.00 0.00 3.69
52 54 2.374184 CCGTCTTCTCTCCTCACATCT 58.626 52.381 0.00 0.00 0.00 2.90
59 71 3.564264 TCTCTCCTCACATCTGATCCAG 58.436 50.000 0.00 0.00 0.00 3.86
70 82 1.487976 TCTGATCCAGTCCAATCCAGC 59.512 52.381 0.00 0.00 32.61 4.85
139 468 2.184167 GCTCTCTCGTCCTCCTCCG 61.184 68.421 0.00 0.00 0.00 4.63
281 678 1.093972 TTGCCGTTGATCGATTGCAT 58.906 45.000 0.00 0.00 42.86 3.96
321 718 3.406764 GCTGATTAGGCCTGATTGTAGG 58.593 50.000 17.99 3.90 40.95 3.18
359 786 5.694231 TGATTATGCCATGATTTTCGAGG 57.306 39.130 0.00 0.00 0.00 4.63
375 802 3.951663 TCGAGGAGATCTGCCGATTATA 58.048 45.455 18.76 2.79 0.00 0.98
387 814 5.045942 TCTGCCGATTATAATGGGATTGCTA 60.046 40.000 25.79 5.76 36.49 3.49
406 833 1.492764 ATGGGGTCGGTTCGTCTTAT 58.507 50.000 0.00 0.00 0.00 1.73
411 838 2.948315 GGGTCGGTTCGTCTTATCTAGT 59.052 50.000 0.00 0.00 0.00 2.57
414 841 4.349501 GTCGGTTCGTCTTATCTAGTTGG 58.650 47.826 0.00 0.00 0.00 3.77
415 842 4.012374 TCGGTTCGTCTTATCTAGTTGGT 58.988 43.478 0.00 0.00 0.00 3.67
417 844 5.295292 TCGGTTCGTCTTATCTAGTTGGTAG 59.705 44.000 0.00 0.00 0.00 3.18
419 846 6.404074 CGGTTCGTCTTATCTAGTTGGTAGTT 60.404 42.308 0.00 0.00 0.00 2.24
420 847 6.750963 GGTTCGTCTTATCTAGTTGGTAGTTG 59.249 42.308 0.00 0.00 0.00 3.16
423 850 7.310664 TCGTCTTATCTAGTTGGTAGTTGTTG 58.689 38.462 0.00 0.00 0.00 3.33
514 1010 7.834881 ATAGTTGGTTCGGTTCATCTATCTA 57.165 36.000 0.00 0.00 0.00 1.98
545 1153 7.548967 AGACTTATAGTTGGCTAGTTTCTGAC 58.451 38.462 0.00 0.00 0.00 3.51
556 1164 3.857157 AGTTTCTGACTTTGTAGCCCA 57.143 42.857 0.00 0.00 33.92 5.36
558 1168 3.883489 AGTTTCTGACTTTGTAGCCCAAC 59.117 43.478 0.00 0.00 33.92 3.77
559 1169 3.857157 TTCTGACTTTGTAGCCCAACT 57.143 42.857 0.00 0.00 31.20 3.16
560 1170 3.857157 TCTGACTTTGTAGCCCAACTT 57.143 42.857 0.00 0.00 31.20 2.66
570 1180 1.692411 AGCCCAACTTTCTGTGGAAC 58.308 50.000 0.00 0.00 37.35 3.62
599 1209 6.884295 ACACCTGTGATTTGCTAGCTTAATAA 59.116 34.615 17.23 6.22 0.00 1.40
688 1577 3.488553 GGTTTGCCGATATTACTGTTGGC 60.489 47.826 1.50 1.50 42.11 4.52
758 1653 3.084039 CCCACTGAAGCTAAAGATTGCA 58.916 45.455 2.72 0.00 0.00 4.08
846 1930 1.081092 TTCTAGGGCCAGCTCCTGT 59.919 57.895 6.18 0.00 35.92 4.00
909 1993 6.768029 TGAAATTTCAACTTTGTAGCATGC 57.232 33.333 18.45 10.51 33.55 4.06
980 2251 4.130118 CAGCAACTTACTCTGGTTCTGTT 58.870 43.478 0.00 0.00 0.00 3.16
1167 2438 4.115199 GAGGATGGCCGCACCCTT 62.115 66.667 0.00 0.00 39.96 3.95
1168 2439 4.431131 AGGATGGCCGCACCCTTG 62.431 66.667 0.00 0.00 39.96 3.61
1177 2448 2.345991 GCACCCTTGCGGACTACA 59.654 61.111 0.00 0.00 39.50 2.74
1178 2449 1.302192 GCACCCTTGCGGACTACAA 60.302 57.895 0.00 0.00 39.50 2.41
1179 2450 1.574702 GCACCCTTGCGGACTACAAC 61.575 60.000 0.00 0.00 39.50 3.32
1180 2451 0.250124 CACCCTTGCGGACTACAACA 60.250 55.000 0.00 0.00 34.64 3.33
1181 2452 0.690762 ACCCTTGCGGACTACAACAT 59.309 50.000 0.00 0.00 34.64 2.71
1182 2453 1.338769 ACCCTTGCGGACTACAACATC 60.339 52.381 0.00 0.00 34.64 3.06
1183 2454 1.369625 CCTTGCGGACTACAACATCC 58.630 55.000 0.00 0.00 0.00 3.51
1184 2455 1.338674 CCTTGCGGACTACAACATCCA 60.339 52.381 0.00 0.00 34.35 3.41
1185 2456 2.002586 CTTGCGGACTACAACATCCAG 58.997 52.381 0.00 0.00 34.35 3.86
1186 2457 1.262417 TGCGGACTACAACATCCAGA 58.738 50.000 0.00 0.00 34.35 3.86
1187 2458 1.621317 TGCGGACTACAACATCCAGAA 59.379 47.619 0.00 0.00 34.35 3.02
1188 2459 2.271800 GCGGACTACAACATCCAGAAG 58.728 52.381 0.00 0.00 34.35 2.85
1189 2460 2.893637 CGGACTACAACATCCAGAAGG 58.106 52.381 0.00 0.00 34.35 3.46
1198 2469 4.561155 TCCAGAAGGAGTCCACCC 57.439 61.111 12.86 0.00 39.61 4.61
1199 2470 1.868810 TCCAGAAGGAGTCCACCCT 59.131 57.895 12.86 1.91 39.61 4.34
1200 2471 0.252284 TCCAGAAGGAGTCCACCCTC 60.252 60.000 12.86 2.26 39.61 4.30
1206 2477 3.393360 GAGTCCACCCTCCACCTG 58.607 66.667 0.00 0.00 0.00 4.00
1207 2478 2.203998 AGTCCACCCTCCACCTGG 60.204 66.667 0.00 0.00 0.00 4.45
1208 2479 2.529389 GTCCACCCTCCACCTGGT 60.529 66.667 0.00 0.00 36.34 4.00
1211 2482 3.252284 CACCCTCCACCTGGTGCT 61.252 66.667 21.47 0.00 44.98 4.40
1212 2483 2.930562 ACCCTCCACCTGGTGCTC 60.931 66.667 21.47 0.00 36.34 4.26
1213 2484 2.930019 CCCTCCACCTGGTGCTCA 60.930 66.667 21.47 6.27 36.34 4.26
1214 2485 2.667418 CCTCCACCTGGTGCTCAG 59.333 66.667 21.47 14.91 43.00 3.35
1223 2494 4.767255 GGTGCTCAGGCTCCGTGG 62.767 72.222 0.00 0.00 41.35 4.94
1224 2495 4.008933 GTGCTCAGGCTCCGTGGT 62.009 66.667 0.00 0.00 39.59 4.16
1225 2496 4.007644 TGCTCAGGCTCCGTGGTG 62.008 66.667 0.00 0.00 39.59 4.17
1226 2497 4.767255 GCTCAGGCTCCGTGGTGG 62.767 72.222 0.00 0.00 40.09 4.61
1227 2498 4.767255 CTCAGGCTCCGTGGTGGC 62.767 72.222 6.42 6.42 37.80 5.01
1229 2500 4.415150 CAGGCTCCGTGGTGGCAT 62.415 66.667 15.60 3.15 37.80 4.40
1230 2501 4.415150 AGGCTCCGTGGTGGCATG 62.415 66.667 15.60 0.00 37.80 4.06
1233 2504 3.129502 CTCCGTGGTGGCATGCAG 61.130 66.667 21.36 1.02 37.80 4.41
1234 2505 3.610619 CTCCGTGGTGGCATGCAGA 62.611 63.158 21.36 1.62 37.80 4.26
1235 2506 2.438975 CCGTGGTGGCATGCAGAT 60.439 61.111 21.36 0.00 0.00 2.90
1236 2507 2.475466 CCGTGGTGGCATGCAGATC 61.475 63.158 21.36 6.12 0.00 2.75
1237 2508 1.450848 CGTGGTGGCATGCAGATCT 60.451 57.895 21.36 0.00 0.00 2.75
1238 2509 1.028330 CGTGGTGGCATGCAGATCTT 61.028 55.000 21.36 0.00 0.00 2.40
1239 2510 0.737219 GTGGTGGCATGCAGATCTTC 59.263 55.000 21.36 0.00 0.00 2.87
1240 2511 0.745486 TGGTGGCATGCAGATCTTCG 60.745 55.000 21.36 0.00 0.00 3.79
1241 2512 0.745845 GGTGGCATGCAGATCTTCGT 60.746 55.000 21.36 0.00 0.00 3.85
1242 2513 0.654683 GTGGCATGCAGATCTTCGTC 59.345 55.000 21.36 0.00 0.00 4.20
1243 2514 0.249955 TGGCATGCAGATCTTCGTCA 59.750 50.000 21.36 0.48 0.00 4.35
1244 2515 1.338960 TGGCATGCAGATCTTCGTCAA 60.339 47.619 21.36 0.00 0.00 3.18
1245 2516 1.329906 GGCATGCAGATCTTCGTCAAG 59.670 52.381 21.36 0.00 0.00 3.02
1246 2517 2.274437 GCATGCAGATCTTCGTCAAGA 58.726 47.619 14.21 0.00 43.06 3.02
1247 2518 2.030213 GCATGCAGATCTTCGTCAAGAC 59.970 50.000 14.21 0.00 41.64 3.01
1248 2519 2.370281 TGCAGATCTTCGTCAAGACC 57.630 50.000 0.00 0.00 41.64 3.85
1249 2520 1.066858 TGCAGATCTTCGTCAAGACCC 60.067 52.381 0.00 0.00 41.64 4.46
1250 2521 1.205893 GCAGATCTTCGTCAAGACCCT 59.794 52.381 0.00 0.00 41.64 4.34
1251 2522 2.737039 GCAGATCTTCGTCAAGACCCTC 60.737 54.545 0.00 0.00 41.64 4.30
1252 2523 2.493675 CAGATCTTCGTCAAGACCCTCA 59.506 50.000 0.00 0.00 41.64 3.86
1253 2524 2.494073 AGATCTTCGTCAAGACCCTCAC 59.506 50.000 0.00 0.00 41.64 3.51
1254 2525 0.596577 TCTTCGTCAAGACCCTCACG 59.403 55.000 0.00 0.00 33.38 4.35
1255 2526 0.388649 CTTCGTCAAGACCCTCACGG 60.389 60.000 0.00 0.00 33.02 4.94
1264 2535 3.636231 CCCTCACGGGCAAGACCA 61.636 66.667 0.00 0.00 45.33 4.02
1265 2536 2.671070 CCTCACGGGCAAGACCAT 59.329 61.111 0.00 0.00 42.05 3.55
1266 2537 1.450312 CCTCACGGGCAAGACCATC 60.450 63.158 0.00 0.00 42.05 3.51
1267 2538 1.296392 CTCACGGGCAAGACCATCA 59.704 57.895 0.00 0.00 42.05 3.07
1268 2539 1.003839 TCACGGGCAAGACCATCAC 60.004 57.895 0.00 0.00 42.05 3.06
1269 2540 1.302431 CACGGGCAAGACCATCACA 60.302 57.895 0.00 0.00 42.05 3.58
1270 2541 1.302511 ACGGGCAAGACCATCACAC 60.303 57.895 0.00 0.00 42.05 3.82
1271 2542 1.003355 CGGGCAAGACCATCACACT 60.003 57.895 0.00 0.00 42.05 3.55
1272 2543 1.300971 CGGGCAAGACCATCACACTG 61.301 60.000 0.00 0.00 42.05 3.66
1273 2544 0.962356 GGGCAAGACCATCACACTGG 60.962 60.000 0.00 0.00 42.05 4.00
1274 2545 0.036732 GGCAAGACCATCACACTGGA 59.963 55.000 0.00 0.00 39.73 3.86
1275 2546 1.446907 GCAAGACCATCACACTGGAG 58.553 55.000 0.00 0.00 39.73 3.86
1276 2547 1.947678 GCAAGACCATCACACTGGAGG 60.948 57.143 0.00 0.00 39.73 4.30
1277 2548 1.349026 CAAGACCATCACACTGGAGGT 59.651 52.381 0.00 0.00 39.73 3.85
1278 2549 1.734655 AGACCATCACACTGGAGGTT 58.265 50.000 0.00 0.00 39.73 3.50
1279 2550 1.349026 AGACCATCACACTGGAGGTTG 59.651 52.381 0.00 0.00 39.73 3.77
1280 2551 1.347707 GACCATCACACTGGAGGTTGA 59.652 52.381 0.00 0.00 39.73 3.18
1281 2552 1.349026 ACCATCACACTGGAGGTTGAG 59.651 52.381 0.00 0.00 39.73 3.02
1282 2553 1.349026 CCATCACACTGGAGGTTGAGT 59.651 52.381 0.00 0.00 38.69 3.41
1283 2554 2.613977 CCATCACACTGGAGGTTGAGTC 60.614 54.545 0.00 0.00 38.69 3.36
1284 2555 1.048601 TCACACTGGAGGTTGAGTCC 58.951 55.000 0.00 0.00 34.31 3.85
1285 2556 1.051812 CACACTGGAGGTTGAGTCCT 58.948 55.000 0.00 0.00 40.97 3.85
1291 2562 2.654802 GAGGTTGAGTCCTCGGACA 58.345 57.895 17.68 0.00 46.76 4.02
1292 2563 0.244178 GAGGTTGAGTCCTCGGACAC 59.756 60.000 17.68 12.09 46.76 3.67
1293 2564 1.186267 AGGTTGAGTCCTCGGACACC 61.186 60.000 17.68 15.34 46.76 4.16
1294 2565 1.469335 GGTTGAGTCCTCGGACACCA 61.469 60.000 17.68 11.84 46.76 4.17
1295 2566 0.608640 GTTGAGTCCTCGGACACCAT 59.391 55.000 17.68 0.00 46.76 3.55
1296 2567 0.895530 TTGAGTCCTCGGACACCATC 59.104 55.000 17.68 7.37 46.76 3.51
1297 2568 1.313091 TGAGTCCTCGGACACCATCG 61.313 60.000 17.68 0.00 46.76 3.84
1298 2569 1.001269 AGTCCTCGGACACCATCGA 60.001 57.895 17.68 0.00 46.76 3.59
1299 2570 0.395862 AGTCCTCGGACACCATCGAT 60.396 55.000 17.68 0.00 46.76 3.59
1300 2571 1.133884 AGTCCTCGGACACCATCGATA 60.134 52.381 17.68 0.00 46.76 2.92
1301 2572 1.679680 GTCCTCGGACACCATCGATAA 59.320 52.381 11.12 0.00 44.02 1.75
1302 2573 1.679680 TCCTCGGACACCATCGATAAC 59.320 52.381 0.00 0.00 34.77 1.89
1303 2574 1.599667 CCTCGGACACCATCGATAACG 60.600 57.143 0.00 0.00 41.26 3.18
1304 2575 1.065102 CTCGGACACCATCGATAACGT 59.935 52.381 0.00 0.00 40.69 3.99
1305 2576 1.197055 CGGACACCATCGATAACGTG 58.803 55.000 14.57 14.57 40.69 4.49
1306 2577 1.202211 CGGACACCATCGATAACGTGA 60.202 52.381 20.27 0.00 40.69 4.35
1307 2578 2.732912 CGGACACCATCGATAACGTGAA 60.733 50.000 20.27 0.00 40.69 3.18
1308 2579 2.858344 GGACACCATCGATAACGTGAAG 59.142 50.000 20.27 0.00 40.69 3.02
1309 2580 2.858344 GACACCATCGATAACGTGAAGG 59.142 50.000 20.27 8.95 40.69 3.46
1310 2581 1.593006 CACCATCGATAACGTGAAGGC 59.407 52.381 11.96 0.00 40.69 4.35
1311 2582 1.217882 CCATCGATAACGTGAAGGCC 58.782 55.000 0.00 0.00 40.69 5.19
1312 2583 1.472552 CCATCGATAACGTGAAGGCCA 60.473 52.381 5.01 0.00 40.69 5.36
1313 2584 2.276201 CATCGATAACGTGAAGGCCAA 58.724 47.619 5.01 0.00 40.69 4.52
1314 2585 2.004583 TCGATAACGTGAAGGCCAAG 57.995 50.000 5.01 0.00 40.69 3.61
1315 2586 1.546923 TCGATAACGTGAAGGCCAAGA 59.453 47.619 5.01 0.00 40.69 3.02
1316 2587 2.167693 TCGATAACGTGAAGGCCAAGAT 59.832 45.455 5.01 0.00 40.69 2.40
1317 2588 2.540101 CGATAACGTGAAGGCCAAGATC 59.460 50.000 5.01 0.00 34.56 2.75
1318 2589 2.396590 TAACGTGAAGGCCAAGATCC 57.603 50.000 5.01 0.00 0.00 3.36
1319 2590 0.400213 AACGTGAAGGCCAAGATCCA 59.600 50.000 5.01 0.00 0.00 3.41
1320 2591 0.036010 ACGTGAAGGCCAAGATCCAG 60.036 55.000 5.01 0.00 0.00 3.86
1321 2592 0.745845 CGTGAAGGCCAAGATCCAGG 60.746 60.000 5.01 0.00 0.00 4.45
1322 2593 0.620556 GTGAAGGCCAAGATCCAGGA 59.379 55.000 5.01 0.00 0.00 3.86
1323 2594 0.620556 TGAAGGCCAAGATCCAGGAC 59.379 55.000 5.01 1.96 0.00 3.85
1324 2595 0.620556 GAAGGCCAAGATCCAGGACA 59.379 55.000 5.01 0.00 34.45 4.02
1325 2596 1.004745 GAAGGCCAAGATCCAGGACAA 59.995 52.381 5.01 0.00 34.45 3.18
1326 2597 0.622665 AGGCCAAGATCCAGGACAAG 59.377 55.000 5.01 0.00 34.45 3.16
1327 2598 0.394899 GGCCAAGATCCAGGACAAGG 60.395 60.000 0.00 0.00 31.39 3.61
1328 2599 0.620556 GCCAAGATCCAGGACAAGGA 59.379 55.000 5.26 0.00 39.97 3.36
1329 2600 1.407989 GCCAAGATCCAGGACAAGGAG 60.408 57.143 5.26 0.00 38.83 3.69
1330 2601 1.211457 CCAAGATCCAGGACAAGGAGG 59.789 57.143 0.00 0.00 38.83 4.30
1331 2602 1.211457 CAAGATCCAGGACAAGGAGGG 59.789 57.143 0.00 0.00 38.83 4.30
1332 2603 0.985490 AGATCCAGGACAAGGAGGGC 60.985 60.000 0.00 0.00 38.83 5.19
1333 2604 1.229951 ATCCAGGACAAGGAGGGCA 60.230 57.895 0.00 0.00 38.83 5.36
1334 2605 0.625683 ATCCAGGACAAGGAGGGCAT 60.626 55.000 0.00 0.00 38.83 4.40
1335 2606 1.225704 CCAGGACAAGGAGGGCATC 59.774 63.158 0.00 0.00 0.00 3.91
1347 2618 3.866582 GGCATCCCTCCGGACCAG 61.867 72.222 0.00 0.00 42.48 4.00
1348 2619 4.554036 GCATCCCTCCGGACCAGC 62.554 72.222 0.00 0.00 42.48 4.85
1349 2620 3.083349 CATCCCTCCGGACCAGCA 61.083 66.667 0.00 0.00 42.48 4.41
1350 2621 2.765807 ATCCCTCCGGACCAGCAG 60.766 66.667 0.00 0.00 42.48 4.24
1358 2629 4.479993 GGACCAGCAGCGCCTGAT 62.480 66.667 14.35 3.64 34.77 2.90
1359 2630 2.894387 GACCAGCAGCGCCTGATC 60.894 66.667 14.35 3.82 34.77 2.92
1360 2631 3.382803 GACCAGCAGCGCCTGATCT 62.383 63.158 14.35 0.00 34.77 2.75
1361 2632 2.124819 CCAGCAGCGCCTGATCTT 60.125 61.111 14.35 0.00 34.77 2.40
1362 2633 1.748122 CCAGCAGCGCCTGATCTTT 60.748 57.895 14.35 0.00 34.77 2.52
1363 2634 1.428219 CAGCAGCGCCTGATCTTTG 59.572 57.895 2.29 0.00 34.77 2.77
1364 2635 2.101770 GCAGCGCCTGATCTTTGC 59.898 61.111 2.29 0.00 32.44 3.68
1365 2636 2.404995 GCAGCGCCTGATCTTTGCT 61.405 57.895 2.29 0.00 36.05 3.91
1366 2637 1.428219 CAGCGCCTGATCTTTGCTG 59.572 57.895 2.29 12.84 45.88 4.41
1367 2638 1.748122 AGCGCCTGATCTTTGCTGG 60.748 57.895 2.29 0.00 33.99 4.85
1368 2639 2.796651 CGCCTGATCTTTGCTGGC 59.203 61.111 0.00 0.00 44.15 4.85
1369 2640 2.042259 CGCCTGATCTTTGCTGGCA 61.042 57.895 11.18 0.00 46.85 4.92
1370 2641 1.588824 CGCCTGATCTTTGCTGGCAA 61.589 55.000 3.72 3.72 46.85 4.52
1371 2642 0.172803 GCCTGATCTTTGCTGGCAAG 59.827 55.000 8.04 3.85 46.08 4.01
1611 2882 3.318839 TGCAGATTTTTGTCAAGACCCTG 59.681 43.478 0.00 0.00 0.00 4.45
1629 2900 1.745489 GACCGGCAAGACCATCACC 60.745 63.158 0.00 0.00 39.03 4.02
1632 2903 1.746615 CGGCAAGACCATCACCCTG 60.747 63.158 0.00 0.00 39.03 4.45
1647 2918 1.377463 CCTGGAGGTCGAGTCGTCT 60.377 63.158 13.12 11.32 0.00 4.18
1662 2933 3.067106 GTCGTCTGACACCATTGACAAT 58.933 45.455 8.73 0.00 44.82 2.71
1665 2936 3.364267 CGTCTGACACCATTGACAATGTG 60.364 47.826 23.27 21.43 37.18 3.21
1692 2963 0.985490 AGATCCAGGACAAGGAGGGC 60.985 60.000 0.00 0.00 38.83 5.19
1695 2966 0.846427 TCCAGGACAAGGAGGGCATT 60.846 55.000 0.00 0.00 0.00 3.56
1722 4521 0.108424 ACCAGCAGCGTCTCATCTTC 60.108 55.000 0.00 0.00 0.00 2.87
2125 6652 0.529773 GGTCTGTGTCTGTCGTTGCA 60.530 55.000 0.00 0.00 0.00 4.08
2144 6680 6.494842 GTTGCATGAACTGTCTTTGTTTCTA 58.505 36.000 0.00 0.00 0.00 2.10
2145 6681 6.882610 TGCATGAACTGTCTTTGTTTCTAT 57.117 33.333 0.00 0.00 0.00 1.98
2146 6682 7.977789 TGCATGAACTGTCTTTGTTTCTATA 57.022 32.000 0.00 0.00 0.00 1.31
2147 6683 8.565896 TGCATGAACTGTCTTTGTTTCTATAT 57.434 30.769 0.00 0.00 0.00 0.86
2148 6684 9.665719 TGCATGAACTGTCTTTGTTTCTATATA 57.334 29.630 0.00 0.00 0.00 0.86
2226 6762 2.030540 TGCAGCAGCTTTGATGAACTTC 60.031 45.455 1.76 0.00 42.74 3.01
2268 6805 7.608376 TGAATTCGGTCCATAATTCTGTTTGTA 59.392 33.333 19.85 3.80 40.92 2.41
2293 6835 3.243367 GCCTGATGTTTGCTGTTGTGTTA 60.243 43.478 0.00 0.00 0.00 2.41
2347 6990 0.387239 GACGGCACATGTTTTCTGGC 60.387 55.000 0.00 0.00 0.00 4.85
2356 6999 5.622914 GCACATGTTTTCTGGCTGATGTAAT 60.623 40.000 0.00 0.00 0.00 1.89
2384 8739 5.000012 ACTTCTATGCTCTGTCCTTTACG 58.000 43.478 0.00 0.00 0.00 3.18
2401 8756 2.510768 ACGGAGAATAGGATCGCAAC 57.489 50.000 0.00 0.00 0.00 4.17
2402 8757 2.032620 ACGGAGAATAGGATCGCAACT 58.967 47.619 0.00 0.00 0.00 3.16
2406 8761 3.068873 GGAGAATAGGATCGCAACTCAGT 59.931 47.826 0.00 0.00 0.00 3.41
2409 8764 4.645136 AGAATAGGATCGCAACTCAGTACA 59.355 41.667 0.00 0.00 0.00 2.90
2435 8790 1.078426 ACCCGGCTGATCTTTTCCG 60.078 57.895 0.00 1.61 41.41 4.30
2437 8792 0.179045 CCCGGCTGATCTTTTCCGAT 60.179 55.000 14.04 0.00 44.23 4.18
2499 8884 4.219033 GTTCACATGATGGTTTCGTTGTC 58.781 43.478 0.00 0.00 0.00 3.18
2500 8885 2.811431 TCACATGATGGTTTCGTTGTCC 59.189 45.455 0.00 0.00 0.00 4.02
2501 8886 2.095263 CACATGATGGTTTCGTTGTCCC 60.095 50.000 0.00 0.00 0.00 4.46
2502 8887 2.158559 CATGATGGTTTCGTTGTCCCA 58.841 47.619 0.00 0.00 0.00 4.37
2503 8888 2.350057 TGATGGTTTCGTTGTCCCAA 57.650 45.000 0.00 0.00 0.00 4.12
2507 8912 2.563702 TGGTTTCGTTGTCCCAAGTAC 58.436 47.619 0.00 0.00 0.00 2.73
2545 8953 7.671495 AATTTTTCACAAGTGCAAAACTTCT 57.329 28.000 11.76 0.00 46.60 2.85
2588 8997 0.544833 AAATCAGGGCCATGCAACCA 60.545 50.000 13.87 0.00 0.00 3.67
2596 9006 2.620242 GGCCATGCAACCATGTAAAAG 58.380 47.619 0.00 0.00 45.90 2.27
2621 9031 1.539157 TTGCGCAACCCATATGTCAA 58.461 45.000 21.02 0.00 0.00 3.18
2658 9151 9.844790 GTATCAACATGATCTGAATTTGTTCAA 57.155 29.630 0.00 0.00 38.26 2.69
2660 9153 9.767228 ATCAACATGATCTGAATTTGTTCAAAA 57.233 25.926 0.00 0.00 29.59 2.44
2661 9154 9.597170 TCAACATGATCTGAATTTGTTCAAAAA 57.403 25.926 0.00 0.00 0.00 1.94
2811 10463 5.346281 GGTTGACGAGATAGTGAGTGAAAAG 59.654 44.000 0.00 0.00 0.00 2.27
2908 10971 6.879458 GGTAAGGGAGGCTGTATAAATATGTG 59.121 42.308 0.00 0.00 0.00 3.21
2976 11059 3.091545 GGCATGGAGAATTTGAGACCAA 58.908 45.455 0.00 0.00 34.28 3.67
2979 11062 4.219288 GCATGGAGAATTTGAGACCAAAGT 59.781 41.667 0.00 0.00 44.53 2.66
3011 11094 6.868339 GCAATGTTAGGTGCAAAGAGTTAATT 59.132 34.615 0.00 0.00 40.58 1.40
3016 11099 3.751698 AGGTGCAAAGAGTTAATTCCGTC 59.248 43.478 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 0.404426 GGGCGGGGAATTTATAGCCT 59.596 55.000 13.17 0.00 43.68 4.58
30 31 0.404426 TGTGAGGAGAGAAGACGGGA 59.596 55.000 0.00 0.00 0.00 5.14
31 32 1.407258 GATGTGAGGAGAGAAGACGGG 59.593 57.143 0.00 0.00 0.00 5.28
34 35 4.037923 GGATCAGATGTGAGGAGAGAAGAC 59.962 50.000 0.00 0.00 35.66 3.01
35 36 4.214310 GGATCAGATGTGAGGAGAGAAGA 58.786 47.826 0.00 0.00 35.66 2.87
36 37 3.959449 TGGATCAGATGTGAGGAGAGAAG 59.041 47.826 0.00 0.00 35.66 2.85
37 38 3.959449 CTGGATCAGATGTGAGGAGAGAA 59.041 47.826 0.00 0.00 35.66 2.87
40 41 3.295093 GACTGGATCAGATGTGAGGAGA 58.705 50.000 0.00 0.00 35.66 3.71
42 43 2.292455 TGGACTGGATCAGATGTGAGGA 60.292 50.000 0.00 0.00 35.66 3.71
45 47 3.135348 GGATTGGACTGGATCAGATGTGA 59.865 47.826 0.00 0.00 37.02 3.58
52 54 0.548031 GGCTGGATTGGACTGGATCA 59.452 55.000 0.00 0.00 0.00 2.92
201 560 2.107141 CAGGAATCGAGGGCGGTC 59.893 66.667 0.00 0.00 38.28 4.79
281 678 0.518636 CCACGACTAACCGAACGAGA 59.481 55.000 0.00 0.00 0.00 4.04
321 718 6.128063 GGCATAATCAAGAGAGATGGTATTGC 60.128 42.308 0.00 0.00 0.00 3.56
359 786 5.344743 TCCCATTATAATCGGCAGATCTC 57.655 43.478 4.33 0.00 35.74 2.75
375 802 1.202927 CGACCCCATAGCAATCCCATT 60.203 52.381 0.00 0.00 0.00 3.16
387 814 1.411612 GATAAGACGAACCGACCCCAT 59.588 52.381 0.00 0.00 0.00 4.00
406 833 5.607477 CAGAACCAACAACTACCAACTAGA 58.393 41.667 0.00 0.00 0.00 2.43
411 838 3.290948 AGCAGAACCAACAACTACCAA 57.709 42.857 0.00 0.00 0.00 3.67
414 841 2.949644 ACCAAGCAGAACCAACAACTAC 59.050 45.455 0.00 0.00 0.00 2.73
415 842 3.290948 ACCAAGCAGAACCAACAACTA 57.709 42.857 0.00 0.00 0.00 2.24
417 844 2.094234 ACAACCAAGCAGAACCAACAAC 60.094 45.455 0.00 0.00 0.00 3.32
419 846 1.846007 ACAACCAAGCAGAACCAACA 58.154 45.000 0.00 0.00 0.00 3.33
420 847 2.959507 AACAACCAAGCAGAACCAAC 57.040 45.000 0.00 0.00 0.00 3.77
423 850 4.298332 CACAATAACAACCAAGCAGAACC 58.702 43.478 0.00 0.00 0.00 3.62
490 986 6.732896 AGATAGATGAACCGAACCAACTAT 57.267 37.500 0.00 0.00 33.12 2.12
492 988 5.657302 ACTAGATAGATGAACCGAACCAACT 59.343 40.000 0.00 0.00 0.00 3.16
527 1127 5.925509 ACAAAGTCAGAAACTAGCCAACTA 58.074 37.500 0.00 0.00 37.17 2.24
528 1128 4.781934 ACAAAGTCAGAAACTAGCCAACT 58.218 39.130 0.00 0.00 37.17 3.16
545 1153 3.004734 CCACAGAAAGTTGGGCTACAAAG 59.995 47.826 0.00 0.00 41.58 2.77
556 1164 4.062991 GGTGTATCGTTCCACAGAAAGTT 58.937 43.478 0.00 0.00 33.69 2.66
558 1168 3.679980 CAGGTGTATCGTTCCACAGAAAG 59.320 47.826 0.00 0.00 32.58 2.62
559 1169 3.070446 ACAGGTGTATCGTTCCACAGAAA 59.930 43.478 0.00 0.00 32.58 2.52
560 1170 2.631062 ACAGGTGTATCGTTCCACAGAA 59.369 45.455 0.00 0.00 33.19 3.02
570 1180 3.246226 GCTAGCAAATCACAGGTGTATCG 59.754 47.826 10.63 0.00 0.00 2.92
599 1209 6.348868 GCTAGAAGCAACTACAAAAGCTGAAT 60.349 38.462 0.00 0.00 41.89 2.57
909 1993 3.784511 ATAGATGAACCAGATGGCCAG 57.215 47.619 13.05 0.00 39.32 4.85
980 2251 8.955388 TCTGCATCTGTAAATAATACAAAGCAA 58.045 29.630 0.00 2.17 32.37 3.91
1167 2438 1.262417 TCTGGATGTTGTAGTCCGCA 58.738 50.000 0.00 0.00 37.32 5.69
1168 2439 2.271800 CTTCTGGATGTTGTAGTCCGC 58.728 52.381 0.00 0.00 37.32 5.54
1169 2440 2.496070 TCCTTCTGGATGTTGTAGTCCG 59.504 50.000 0.00 0.00 37.46 4.79
1170 2441 3.515901 ACTCCTTCTGGATGTTGTAGTCC 59.484 47.826 0.00 0.00 42.29 3.85
1171 2442 4.382147 GGACTCCTTCTGGATGTTGTAGTC 60.382 50.000 0.00 0.00 42.29 2.59
1172 2443 3.515901 GGACTCCTTCTGGATGTTGTAGT 59.484 47.826 0.00 0.00 42.29 2.73
1173 2444 3.515502 TGGACTCCTTCTGGATGTTGTAG 59.484 47.826 0.00 0.00 42.29 2.74
1174 2445 3.260884 GTGGACTCCTTCTGGATGTTGTA 59.739 47.826 0.00 0.00 42.29 2.41
1175 2446 2.039084 GTGGACTCCTTCTGGATGTTGT 59.961 50.000 0.00 0.00 42.29 3.32
1176 2447 2.616510 GGTGGACTCCTTCTGGATGTTG 60.617 54.545 0.00 0.00 42.29 3.33
1177 2448 1.630878 GGTGGACTCCTTCTGGATGTT 59.369 52.381 0.00 0.00 42.29 2.71
1178 2449 1.280457 GGTGGACTCCTTCTGGATGT 58.720 55.000 0.00 0.00 42.29 3.06
1179 2450 0.543749 GGGTGGACTCCTTCTGGATG 59.456 60.000 0.00 0.00 42.29 3.51
1180 2451 0.419459 AGGGTGGACTCCTTCTGGAT 59.581 55.000 0.00 0.00 42.29 3.41
1181 2452 0.252284 GAGGGTGGACTCCTTCTGGA 60.252 60.000 0.00 0.00 40.69 3.86
1182 2453 2.291856 GAGGGTGGACTCCTTCTGG 58.708 63.158 0.00 0.00 34.21 3.86
1189 2460 2.294078 CCAGGTGGAGGGTGGACTC 61.294 68.421 0.00 0.00 37.39 3.36
1190 2461 2.203998 CCAGGTGGAGGGTGGACT 60.204 66.667 0.00 0.00 37.39 3.85
1191 2462 2.529389 ACCAGGTGGAGGGTGGAC 60.529 66.667 2.10 0.00 35.67 4.02
1195 2466 2.930562 GAGCACCAGGTGGAGGGT 60.931 66.667 21.77 0.00 38.94 4.34
1196 2467 2.930019 TGAGCACCAGGTGGAGGG 60.930 66.667 21.77 0.00 38.94 4.30
1197 2468 2.667418 CTGAGCACCAGGTGGAGG 59.333 66.667 21.77 0.00 39.23 4.30
1206 2477 4.767255 CCACGGAGCCTGAGCACC 62.767 72.222 0.00 0.00 45.50 5.01
1207 2478 4.008933 ACCACGGAGCCTGAGCAC 62.009 66.667 0.00 0.00 43.56 4.40
1208 2479 4.007644 CACCACGGAGCCTGAGCA 62.008 66.667 0.00 0.00 43.56 4.26
1209 2480 4.767255 CCACCACGGAGCCTGAGC 62.767 72.222 0.00 0.00 36.56 4.26
1210 2481 4.767255 GCCACCACGGAGCCTGAG 62.767 72.222 0.00 0.00 36.56 3.35
1212 2483 4.415150 ATGCCACCACGGAGCCTG 62.415 66.667 0.00 0.00 36.56 4.85
1213 2484 4.415150 CATGCCACCACGGAGCCT 62.415 66.667 0.00 0.00 36.56 4.58
1216 2487 2.881539 ATCTGCATGCCACCACGGAG 62.882 60.000 16.68 2.89 36.56 4.63
1217 2488 2.874648 GATCTGCATGCCACCACGGA 62.875 60.000 16.68 0.00 36.56 4.69
1218 2489 2.438975 ATCTGCATGCCACCACGG 60.439 61.111 16.68 0.00 38.11 4.94
1219 2490 1.028330 AAGATCTGCATGCCACCACG 61.028 55.000 16.68 0.00 0.00 4.94
1220 2491 0.737219 GAAGATCTGCATGCCACCAC 59.263 55.000 16.68 3.10 0.00 4.16
1221 2492 0.745486 CGAAGATCTGCATGCCACCA 60.745 55.000 16.68 0.00 0.00 4.17
1222 2493 0.745845 ACGAAGATCTGCATGCCACC 60.746 55.000 16.68 1.66 0.00 4.61
1223 2494 0.654683 GACGAAGATCTGCATGCCAC 59.345 55.000 16.68 3.85 0.00 5.01
1224 2495 0.249955 TGACGAAGATCTGCATGCCA 59.750 50.000 16.68 1.32 0.00 4.92
1225 2496 1.329906 CTTGACGAAGATCTGCATGCC 59.670 52.381 16.68 0.00 0.00 4.40
1226 2497 2.030213 GTCTTGACGAAGATCTGCATGC 59.970 50.000 11.82 11.82 40.40 4.06
1227 2498 2.606725 GGTCTTGACGAAGATCTGCATG 59.393 50.000 0.51 0.00 40.40 4.06
1228 2499 2.419297 GGGTCTTGACGAAGATCTGCAT 60.419 50.000 0.51 0.00 40.40 3.96
1229 2500 1.066858 GGGTCTTGACGAAGATCTGCA 60.067 52.381 0.51 0.00 40.40 4.41
1230 2501 1.205893 AGGGTCTTGACGAAGATCTGC 59.794 52.381 0.00 0.00 40.40 4.26
1231 2502 2.493675 TGAGGGTCTTGACGAAGATCTG 59.506 50.000 0.00 0.00 40.40 2.90
1232 2503 2.494073 GTGAGGGTCTTGACGAAGATCT 59.506 50.000 0.00 0.00 40.40 2.75
1233 2504 2.732597 CGTGAGGGTCTTGACGAAGATC 60.733 54.545 0.00 0.00 40.40 2.75
1234 2505 1.202582 CGTGAGGGTCTTGACGAAGAT 59.797 52.381 0.00 0.00 40.40 2.40
1235 2506 0.596577 CGTGAGGGTCTTGACGAAGA 59.403 55.000 0.00 0.00 35.75 2.87
1236 2507 3.108521 CGTGAGGGTCTTGACGAAG 57.891 57.895 0.00 0.00 33.64 3.79
1249 2520 1.021390 GTGATGGTCTTGCCCGTGAG 61.021 60.000 0.00 0.00 36.04 3.51
1250 2521 1.003839 GTGATGGTCTTGCCCGTGA 60.004 57.895 0.00 0.00 36.04 4.35
1251 2522 1.302431 TGTGATGGTCTTGCCCGTG 60.302 57.895 0.00 0.00 36.04 4.94
1252 2523 1.302511 GTGTGATGGTCTTGCCCGT 60.303 57.895 0.00 0.00 36.04 5.28
1253 2524 1.003355 AGTGTGATGGTCTTGCCCG 60.003 57.895 0.00 0.00 36.04 6.13
1254 2525 0.962356 CCAGTGTGATGGTCTTGCCC 60.962 60.000 0.00 0.00 35.47 5.36
1255 2526 0.036732 TCCAGTGTGATGGTCTTGCC 59.963 55.000 0.00 0.00 41.43 4.52
1256 2527 1.446907 CTCCAGTGTGATGGTCTTGC 58.553 55.000 0.00 0.00 41.43 4.01
1257 2528 1.349026 ACCTCCAGTGTGATGGTCTTG 59.651 52.381 0.00 0.00 41.43 3.02
1258 2529 1.734655 ACCTCCAGTGTGATGGTCTT 58.265 50.000 0.00 0.00 41.43 3.01
1259 2530 1.349026 CAACCTCCAGTGTGATGGTCT 59.651 52.381 0.00 0.00 41.43 3.85
1260 2531 1.347707 TCAACCTCCAGTGTGATGGTC 59.652 52.381 0.00 0.00 41.43 4.02
1261 2532 1.349026 CTCAACCTCCAGTGTGATGGT 59.651 52.381 0.00 0.00 41.43 3.55
1262 2533 1.349026 ACTCAACCTCCAGTGTGATGG 59.651 52.381 0.00 0.00 42.11 3.51
1263 2534 2.613977 GGACTCAACCTCCAGTGTGATG 60.614 54.545 0.00 0.00 0.00 3.07
1264 2535 1.625818 GGACTCAACCTCCAGTGTGAT 59.374 52.381 0.00 0.00 0.00 3.06
1265 2536 1.048601 GGACTCAACCTCCAGTGTGA 58.951 55.000 0.00 0.00 0.00 3.58
1266 2537 1.051812 AGGACTCAACCTCCAGTGTG 58.948 55.000 0.00 0.00 34.98 3.82
1267 2538 3.560226 AGGACTCAACCTCCAGTGT 57.440 52.632 0.00 0.00 34.98 3.55
1274 2545 1.186267 GGTGTCCGAGGACTCAACCT 61.186 60.000 21.35 0.00 44.80 3.50
1275 2546 1.292541 GGTGTCCGAGGACTCAACC 59.707 63.158 21.35 16.68 44.80 3.77
1276 2547 0.608640 ATGGTGTCCGAGGACTCAAC 59.391 55.000 21.35 12.12 44.80 3.18
1277 2548 0.895530 GATGGTGTCCGAGGACTCAA 59.104 55.000 21.35 12.99 44.80 3.02
1278 2549 1.313091 CGATGGTGTCCGAGGACTCA 61.313 60.000 21.35 18.55 44.80 3.41
1279 2550 1.030488 TCGATGGTGTCCGAGGACTC 61.030 60.000 21.35 17.63 44.80 3.36
1280 2551 0.395862 ATCGATGGTGTCCGAGGACT 60.396 55.000 21.35 2.80 44.80 3.85
1281 2552 1.315690 TATCGATGGTGTCCGAGGAC 58.684 55.000 14.98 14.98 44.77 3.85
1282 2553 1.679680 GTTATCGATGGTGTCCGAGGA 59.320 52.381 8.54 0.00 38.25 3.71
1283 2554 1.599667 CGTTATCGATGGTGTCCGAGG 60.600 57.143 8.54 0.00 38.25 4.63
1284 2555 1.065102 ACGTTATCGATGGTGTCCGAG 59.935 52.381 8.54 0.00 38.25 4.63
1285 2556 1.097232 ACGTTATCGATGGTGTCCGA 58.903 50.000 8.54 0.00 40.62 4.55
1286 2557 1.197055 CACGTTATCGATGGTGTCCG 58.803 55.000 8.54 3.68 40.62 4.79
1287 2558 2.572191 TCACGTTATCGATGGTGTCC 57.428 50.000 19.06 0.00 40.62 4.02
1288 2559 2.858344 CCTTCACGTTATCGATGGTGTC 59.142 50.000 19.06 2.90 40.62 3.67
1289 2560 2.888594 CCTTCACGTTATCGATGGTGT 58.111 47.619 19.06 8.56 40.62 4.16
1290 2561 1.593006 GCCTTCACGTTATCGATGGTG 59.407 52.381 8.54 13.13 40.62 4.17
1291 2562 1.472728 GGCCTTCACGTTATCGATGGT 60.473 52.381 8.54 0.16 40.62 3.55
1292 2563 1.217882 GGCCTTCACGTTATCGATGG 58.782 55.000 8.54 0.00 40.62 3.51
1293 2564 1.934589 TGGCCTTCACGTTATCGATG 58.065 50.000 8.54 0.00 40.62 3.84
1294 2565 2.167693 TCTTGGCCTTCACGTTATCGAT 59.832 45.455 3.32 2.16 40.62 3.59
1295 2566 1.546923 TCTTGGCCTTCACGTTATCGA 59.453 47.619 3.32 0.00 40.62 3.59
1296 2567 2.004583 TCTTGGCCTTCACGTTATCG 57.995 50.000 3.32 0.00 43.34 2.92
1297 2568 2.872858 GGATCTTGGCCTTCACGTTATC 59.127 50.000 3.32 0.00 0.00 1.75
1298 2569 2.238646 TGGATCTTGGCCTTCACGTTAT 59.761 45.455 3.32 0.00 0.00 1.89
1299 2570 1.626321 TGGATCTTGGCCTTCACGTTA 59.374 47.619 3.32 0.00 0.00 3.18
1300 2571 0.400213 TGGATCTTGGCCTTCACGTT 59.600 50.000 3.32 0.00 0.00 3.99
1301 2572 0.036010 CTGGATCTTGGCCTTCACGT 60.036 55.000 3.32 0.00 0.00 4.49
1302 2573 0.745845 CCTGGATCTTGGCCTTCACG 60.746 60.000 3.32 0.00 0.00 4.35
1303 2574 0.620556 TCCTGGATCTTGGCCTTCAC 59.379 55.000 3.32 0.00 0.00 3.18
1304 2575 0.620556 GTCCTGGATCTTGGCCTTCA 59.379 55.000 3.32 0.00 0.00 3.02
1305 2576 0.620556 TGTCCTGGATCTTGGCCTTC 59.379 55.000 3.32 0.00 0.00 3.46
1306 2577 1.005215 CTTGTCCTGGATCTTGGCCTT 59.995 52.381 3.32 0.00 0.00 4.35
1307 2578 0.622665 CTTGTCCTGGATCTTGGCCT 59.377 55.000 3.32 0.00 0.00 5.19
1308 2579 0.394899 CCTTGTCCTGGATCTTGGCC 60.395 60.000 0.00 0.00 0.00 5.36
1309 2580 0.620556 TCCTTGTCCTGGATCTTGGC 59.379 55.000 0.00 0.00 0.00 4.52
1310 2581 1.211457 CCTCCTTGTCCTGGATCTTGG 59.789 57.143 0.00 0.70 32.56 3.61
1311 2582 1.211457 CCCTCCTTGTCCTGGATCTTG 59.789 57.143 0.00 0.00 32.56 3.02
1312 2583 1.589414 CCCTCCTTGTCCTGGATCTT 58.411 55.000 0.00 0.00 32.56 2.40
1313 2584 0.985490 GCCCTCCTTGTCCTGGATCT 60.985 60.000 0.00 0.00 32.56 2.75
1314 2585 1.274703 TGCCCTCCTTGTCCTGGATC 61.275 60.000 0.00 0.00 32.56 3.36
1315 2586 0.625683 ATGCCCTCCTTGTCCTGGAT 60.626 55.000 0.00 0.00 32.56 3.41
1316 2587 1.229951 ATGCCCTCCTTGTCCTGGA 60.230 57.895 0.00 0.00 0.00 3.86
1317 2588 1.225704 GATGCCCTCCTTGTCCTGG 59.774 63.158 0.00 0.00 0.00 4.45
1318 2589 1.225704 GGATGCCCTCCTTGTCCTG 59.774 63.158 0.00 0.00 41.29 3.86
1319 2590 2.003548 GGGATGCCCTCCTTGTCCT 61.004 63.158 0.00 0.00 44.28 3.85
1320 2591 2.597903 GGGATGCCCTCCTTGTCC 59.402 66.667 0.00 0.00 44.28 4.02
1341 2612 4.479993 ATCAGGCGCTGCTGGTCC 62.480 66.667 7.64 0.00 0.00 4.46
1342 2613 2.866085 AAGATCAGGCGCTGCTGGTC 62.866 60.000 16.45 16.45 0.00 4.02
1343 2614 2.475371 AAAGATCAGGCGCTGCTGGT 62.475 55.000 7.64 2.52 0.00 4.00
1344 2615 1.748122 AAAGATCAGGCGCTGCTGG 60.748 57.895 7.64 0.00 0.00 4.85
1345 2616 1.428219 CAAAGATCAGGCGCTGCTG 59.572 57.895 7.64 7.43 0.00 4.41
1346 2617 2.404995 GCAAAGATCAGGCGCTGCT 61.405 57.895 7.64 0.00 0.00 4.24
1347 2618 2.101770 GCAAAGATCAGGCGCTGC 59.898 61.111 7.64 2.13 0.00 5.25
1348 2619 1.428219 CAGCAAAGATCAGGCGCTG 59.572 57.895 7.64 10.68 43.55 5.18
1349 2620 1.748122 CCAGCAAAGATCAGGCGCT 60.748 57.895 7.64 0.00 0.00 5.92
1350 2621 2.796651 CCAGCAAAGATCAGGCGC 59.203 61.111 0.00 0.00 0.00 6.53
1351 2622 2.796651 GCCAGCAAAGATCAGGCG 59.203 61.111 0.00 0.00 35.42 5.52
1352 2623 0.172803 CTTGCCAGCAAAGATCAGGC 59.827 55.000 6.52 0.00 45.41 4.85
1353 2624 0.172803 GCTTGCCAGCAAAGATCAGG 59.827 55.000 4.63 0.00 46.49 3.86
1354 2625 3.715854 GCTTGCCAGCAAAGATCAG 57.284 52.632 4.63 0.00 46.49 2.90
1602 2873 1.672356 CTTGCCGGTCAGGGTCTTG 60.672 63.158 1.90 0.00 41.48 3.02
1611 2882 1.745489 GGTGATGGTCTTGCCGGTC 60.745 63.158 1.90 0.00 41.21 4.79
1629 2900 1.377463 AGACGACTCGACCTCCAGG 60.377 63.158 5.20 0.00 42.17 4.45
1632 2903 0.954449 TGTCAGACGACTCGACCTCC 60.954 60.000 5.20 0.00 43.06 4.30
1638 2909 1.068541 TCAATGGTGTCAGACGACTCG 60.069 52.381 0.00 0.00 43.06 4.18
1644 2915 3.814842 TCACATTGTCAATGGTGTCAGAC 59.185 43.478 25.59 0.00 43.21 3.51
1647 2918 3.569277 CCTTCACATTGTCAATGGTGTCA 59.431 43.478 25.59 12.98 43.21 3.58
1656 2927 2.655090 TCTTGGCCTTCACATTGTCA 57.345 45.000 3.32 0.00 0.00 3.58
1659 2930 2.426024 CTGGATCTTGGCCTTCACATTG 59.574 50.000 3.32 0.00 0.00 2.82
1662 2933 0.329261 CCTGGATCTTGGCCTTCACA 59.671 55.000 3.32 0.00 0.00 3.58
1665 2936 0.620556 TGTCCTGGATCTTGGCCTTC 59.379 55.000 3.32 0.00 0.00 3.46
1692 2963 3.704231 CTGCTGGTCCGGGGGAATG 62.704 68.421 0.00 0.00 31.38 2.67
2226 6762 4.272018 CGAATTCAGGGCTCACTTATTCTG 59.728 45.833 6.22 0.00 0.00 3.02
2268 6805 2.366266 ACAACAGCAAACATCAGGCAAT 59.634 40.909 0.00 0.00 0.00 3.56
2293 6835 4.755266 AGATAGCAAGAAACCACGGTAT 57.245 40.909 0.00 0.00 0.00 2.73
2356 6999 7.719871 AAGGACAGAGCATAGAAGTAAAGTA 57.280 36.000 0.00 0.00 0.00 2.24
2384 8739 3.068873 ACTGAGTTGCGATCCTATTCTCC 59.931 47.826 0.00 0.00 0.00 3.71
2401 8756 0.171455 GGGTCACGAGCTGTACTGAG 59.829 60.000 3.61 0.00 0.00 3.35
2402 8757 2.264124 GGGTCACGAGCTGTACTGA 58.736 57.895 3.61 0.00 0.00 3.41
2424 8779 4.877823 CCAACTGATCATCGGAAAAGATCA 59.122 41.667 15.61 15.61 44.11 2.92
2444 8799 2.736995 GTGCTACGCGTCAGCCAA 60.737 61.111 26.56 13.93 41.18 4.52
2499 8884 2.290071 ACAGTCCGAAATGGTACTTGGG 60.290 50.000 0.00 0.00 39.52 4.12
2500 8885 3.053831 ACAGTCCGAAATGGTACTTGG 57.946 47.619 0.00 0.00 39.52 3.61
2501 8886 6.737254 AATTACAGTCCGAAATGGTACTTG 57.263 37.500 0.00 0.00 39.52 3.16
2502 8887 7.754851 AAAATTACAGTCCGAAATGGTACTT 57.245 32.000 0.00 0.00 39.52 2.24
2503 8888 7.446013 TGAAAAATTACAGTCCGAAATGGTACT 59.554 33.333 0.00 0.00 39.52 2.73
2507 8912 6.442952 TGTGAAAAATTACAGTCCGAAATGG 58.557 36.000 0.00 0.00 40.09 3.16
2588 8997 3.913548 TGCGCAATGTGACTTTTACAT 57.086 38.095 8.16 0.00 40.30 2.29
2596 9006 0.808125 TATGGGTTGCGCAATGTGAC 59.192 50.000 27.79 13.74 0.00 3.67
2691 9184 7.665559 TCAAAAACAGCTTGTGGTAGAATAGAT 59.334 33.333 0.00 0.00 0.00 1.98
2692 9185 6.995686 TCAAAAACAGCTTGTGGTAGAATAGA 59.004 34.615 0.00 0.00 0.00 1.98
2695 9188 5.594317 ACTCAAAAACAGCTTGTGGTAGAAT 59.406 36.000 0.00 0.00 0.00 2.40
2696 9189 4.947388 ACTCAAAAACAGCTTGTGGTAGAA 59.053 37.500 0.00 0.00 0.00 2.10
2872 10933 3.120108 CCTCCCTTACCTTCCCATTGTA 58.880 50.000 0.00 0.00 0.00 2.41
2976 11059 3.003275 CACCTAACATTGCACGTGAACTT 59.997 43.478 22.23 2.47 0.00 2.66
2979 11062 1.265635 GCACCTAACATTGCACGTGAA 59.734 47.619 22.23 5.66 38.68 3.18
3011 11094 9.941664 CTACTATTAATTTTAGTCTTCGACGGA 57.058 33.333 0.00 0.00 37.67 4.69


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

AutoCloner maintained by Alex Coulton.