Multiple sequence alignment - TraesCS4A01G423700

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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 TraesCS4A01G423700 chr4A 100.000 2237 0 0 1 2237 693565421 693567657 0.000000e+00 4132.0
1 TraesCS4A01G423700 chr4A 96.728 703 17 3 1540 2237 724382725 724383426 0.000000e+00 1166.0
2 TraesCS4A01G423700 chr4A 97.143 140 4 0 645 784 693565932 693566071 1.030000e-58 237.0
3 TraesCS4A01G423700 chr4A 97.143 140 4 0 512 651 693566065 693566204 1.030000e-58 237.0
4 TraesCS4A01G423700 chr2B 97.557 696 9 4 1546 2237 103406269 103405578 0.000000e+00 1184.0
5 TraesCS4A01G423700 chr2B 91.525 59 3 2 1272 1329 749043086 749043029 1.840000e-11 80.5
6 TraesCS4A01G423700 chr7B 97.266 695 17 2 1545 2237 721934129 721934823 0.000000e+00 1177.0
7 TraesCS4A01G423700 chr7B 96.359 714 19 5 1530 2237 598049678 598050390 0.000000e+00 1168.0
8 TraesCS4A01G423700 chr6B 97.004 701 15 3 1542 2237 684472014 684471315 0.000000e+00 1173.0
9 TraesCS4A01G423700 chr6B 97.126 696 15 2 1547 2237 47997079 47997774 0.000000e+00 1170.0
10 TraesCS4A01G423700 chr4B 97.000 700 18 2 1541 2237 417701756 417701057 0.000000e+00 1173.0
11 TraesCS4A01G423700 chr1B 97.122 695 18 2 1545 2237 321018434 321017740 0.000000e+00 1171.0
12 TraesCS4A01G423700 chr3B 96.853 699 18 2 1543 2237 15492900 15493598 0.000000e+00 1166.0
13 TraesCS4A01G423700 chr2A 91.202 682 59 1 645 1326 771684368 771683688 0.000000e+00 926.0
14 TraesCS4A01G423700 chr2A 90.078 383 34 3 273 651 771684611 771684229 5.550000e-136 494.0
15 TraesCS4A01G423700 chr5A 90.029 682 67 1 645 1326 321006366 321005686 0.000000e+00 881.0
16 TraesCS4A01G423700 chr5A 91.818 220 15 2 435 651 321006446 321006227 1.000000e-78 303.0
17 TraesCS4A01G423700 chr5A 89.091 55 3 3 1273 1326 552305278 552305330 5.160000e-07 65.8
18 TraesCS4A01G423700 chr5B 89.862 651 61 4 1 647 598090972 598091621 0.000000e+00 832.0
19 TraesCS4A01G423700 chr5B 88.021 192 15 4 645 830 598091486 598091675 1.040000e-53 220.0
20 TraesCS4A01G423700 chr7A 89.154 544 52 7 645 1186 560413592 560413054 0.000000e+00 671.0
21 TraesCS4A01G423700 chr7A 90.169 356 34 1 66 420 560423463 560423108 1.570000e-126 462.0
22 TraesCS4A01G423700 chr1A 89.583 48 3 1 1279 1326 443032990 443032945 2.400000e-05 60.2


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 TraesCS4A01G423700 chr4A 693565421 693567657 2236 False 1535.333333 4132 98.095333 1 2237 3 chr4A.!!$F2 2236
1 TraesCS4A01G423700 chr4A 724382725 724383426 701 False 1166.000000 1166 96.728000 1540 2237 1 chr4A.!!$F1 697
2 TraesCS4A01G423700 chr2B 103405578 103406269 691 True 1184.000000 1184 97.557000 1546 2237 1 chr2B.!!$R1 691
3 TraesCS4A01G423700 chr7B 721934129 721934823 694 False 1177.000000 1177 97.266000 1545 2237 1 chr7B.!!$F2 692
4 TraesCS4A01G423700 chr7B 598049678 598050390 712 False 1168.000000 1168 96.359000 1530 2237 1 chr7B.!!$F1 707
5 TraesCS4A01G423700 chr6B 684471315 684472014 699 True 1173.000000 1173 97.004000 1542 2237 1 chr6B.!!$R1 695
6 TraesCS4A01G423700 chr6B 47997079 47997774 695 False 1170.000000 1170 97.126000 1547 2237 1 chr6B.!!$F1 690
7 TraesCS4A01G423700 chr4B 417701057 417701756 699 True 1173.000000 1173 97.000000 1541 2237 1 chr4B.!!$R1 696
8 TraesCS4A01G423700 chr1B 321017740 321018434 694 True 1171.000000 1171 97.122000 1545 2237 1 chr1B.!!$R1 692
9 TraesCS4A01G423700 chr3B 15492900 15493598 698 False 1166.000000 1166 96.853000 1543 2237 1 chr3B.!!$F1 694
10 TraesCS4A01G423700 chr2A 771683688 771684611 923 True 710.000000 926 90.640000 273 1326 2 chr2A.!!$R1 1053
11 TraesCS4A01G423700 chr5A 321005686 321006446 760 True 592.000000 881 90.923500 435 1326 2 chr5A.!!$R1 891
12 TraesCS4A01G423700 chr5B 598090972 598091675 703 False 526.000000 832 88.941500 1 830 2 chr5B.!!$F1 829
13 TraesCS4A01G423700 chr7A 560413054 560413592 538 True 671.000000 671 89.154000 645 1186 1 chr7A.!!$R1 541

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
213 214 0.035056 CTGACTAAGCCTTGGGTGGG 60.035 60.0 0.0 0.0 0.0 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1330 1340 0.033601 GGGTTGTCATGGTGCCCATA 60.034 55.0 6.42 0.0 43.15 2.74 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
60 61 1.453928 GGGCTGGGTGTGATAAGGC 60.454 63.158 0.00 0.00 34.65 4.35
63 64 1.379642 GCTGGGTGTGATAAGGCAGC 61.380 60.000 0.00 0.00 0.00 5.25
87 88 4.676546 GGAGGCAAGTGCAAGATTAATTC 58.323 43.478 5.52 0.00 44.36 2.17
92 93 4.142600 GCAAGTGCAAGATTAATTCGGACT 60.143 41.667 0.00 0.00 41.59 3.85
97 98 7.553334 AGTGCAAGATTAATTCGGACTAAGTA 58.447 34.615 0.00 0.00 0.00 2.24
100 101 7.441157 TGCAAGATTAATTCGGACTAAGTATGG 59.559 37.037 0.00 0.00 0.00 2.74
106 107 8.583810 TTAATTCGGACTAAGTATGGAAATCG 57.416 34.615 0.00 0.00 0.00 3.34
123 124 2.060980 CGAAGCTACAGGGAGGCCT 61.061 63.158 3.86 3.86 0.00 5.19
139 140 4.200092 GAGGCCTTGGTATCTTAAACCTG 58.800 47.826 6.77 0.00 37.91 4.00
153 154 6.337356 TCTTAAACCTGAAAAAGTTTGCTGG 58.663 36.000 6.21 6.21 39.86 4.85
168 169 0.872021 GCTGGTGCTCTCCGTATTCG 60.872 60.000 0.00 0.00 36.03 3.34
171 172 0.872021 GGTGCTCTCCGTATTCGCTG 60.872 60.000 0.00 0.00 35.54 5.18
173 174 1.320344 TGCTCTCCGTATTCGCTGGT 61.320 55.000 0.00 0.00 35.54 4.00
182 183 1.127951 GTATTCGCTGGTTGTGGTTCG 59.872 52.381 0.00 0.00 0.00 3.95
193 194 2.107950 TGTGGTTCGAATGGATGGAC 57.892 50.000 0.00 0.00 0.00 4.02
195 196 1.065418 GTGGTTCGAATGGATGGACCT 60.065 52.381 0.00 0.00 39.86 3.85
196 197 1.065491 TGGTTCGAATGGATGGACCTG 60.065 52.381 0.00 0.00 39.86 4.00
213 214 0.035056 CTGACTAAGCCTTGGGTGGG 60.035 60.000 0.00 0.00 0.00 4.61
216 217 1.303282 CTAAGCCTTGGGTGGGTCC 59.697 63.158 0.00 0.00 36.74 4.46
242 243 1.271054 ACCCTTGTGACAGTGCTGATC 60.271 52.381 6.17 1.28 0.00 2.92
297 300 0.753111 GGAGATGGCATTCGGGCTTT 60.753 55.000 0.00 0.00 43.83 3.51
330 333 0.613012 GCTTGGCTTGAGGGGTTGAT 60.613 55.000 0.00 0.00 0.00 2.57
334 337 0.919710 GGCTTGAGGGGTTGATACCT 59.080 55.000 0.00 0.00 44.38 3.08
335 338 1.285078 GGCTTGAGGGGTTGATACCTT 59.715 52.381 0.00 0.00 44.38 3.50
337 340 3.138468 GGCTTGAGGGGTTGATACCTTAT 59.862 47.826 0.00 0.00 44.38 1.73
350 353 7.398024 GTTGATACCTTATGATATTGCTCCCT 58.602 38.462 0.00 0.00 0.00 4.20
405 411 2.816672 TGTCCATAAAGCGATGCACAAA 59.183 40.909 0.00 0.00 24.22 2.83
411 417 7.062839 GTCCATAAAGCGATGCACAAAAATTTA 59.937 33.333 0.00 0.00 0.00 1.40
420 426 6.610075 ATGCACAAAAATTTATGGGTCTCT 57.390 33.333 0.00 0.00 0.00 3.10
457 463 0.179000 GGGCATCTCCGTTGATCACT 59.821 55.000 0.00 0.00 34.94 3.41
480 486 0.249868 CCGAGTTTGTCAGCCTGTGA 60.250 55.000 0.00 0.00 0.00 3.58
562 571 2.224281 TGATGGATGGTCATTACTCGGC 60.224 50.000 0.00 0.00 0.00 5.54
564 573 1.412710 TGGATGGTCATTACTCGGCTC 59.587 52.381 0.00 0.00 0.00 4.70
565 574 1.689273 GGATGGTCATTACTCGGCTCT 59.311 52.381 0.00 0.00 0.00 4.09
566 575 2.546795 GGATGGTCATTACTCGGCTCTG 60.547 54.545 0.00 0.00 0.00 3.35
588 597 1.664873 GGCCTACGAGGTTCAATTCC 58.335 55.000 0.00 0.00 37.80 3.01
596 605 0.996583 AGGTTCAATTCCGGGGCTTA 59.003 50.000 0.00 0.00 0.00 3.09
599 608 1.743394 GTTCAATTCCGGGGCTTAGTG 59.257 52.381 0.00 0.00 0.00 2.74
604 613 0.912487 TTCCGGGGCTTAGTGGACAT 60.912 55.000 0.00 0.00 0.00 3.06
605 614 1.153168 CCGGGGCTTAGTGGACATG 60.153 63.158 0.00 0.00 0.00 3.21
612 621 2.504175 GGCTTAGTGGACATGGACCTTA 59.496 50.000 11.44 3.49 0.00 2.69
623 632 4.202441 ACATGGACCTTATGCAGAATGTC 58.798 43.478 17.88 17.88 39.31 3.06
697 706 1.412710 TGGATGGTCATTACTCGGCTC 59.587 52.381 0.00 0.00 0.00 4.70
698 707 1.689273 GGATGGTCATTACTCGGCTCT 59.311 52.381 0.00 0.00 0.00 4.09
722 731 1.065709 GGCCTACGAGGTTCAATTCCA 60.066 52.381 0.00 0.00 37.80 3.53
737 746 1.668826 TTCCAGGGCTTAGTGGACAT 58.331 50.000 0.00 0.00 42.75 3.06
758 767 2.637382 TGGACCTTGTGCAGAATGTCTA 59.363 45.455 24.27 18.81 39.31 2.59
771 780 4.578105 CAGAATGTCTAGAAGATTTGGGCC 59.422 45.833 0.00 0.00 0.00 5.80
791 800 2.962421 CCCCTCCAAAGTGCAAGTTTTA 59.038 45.455 0.00 0.00 37.37 1.52
792 801 3.243737 CCCCTCCAAAGTGCAAGTTTTAC 60.244 47.826 0.00 0.00 37.37 2.01
797 806 2.378507 AAGTGCAAGTTTTACGCGTC 57.621 45.000 18.63 0.00 0.00 5.19
830 839 3.624777 ACAATAGGATTTGGACAGCTGG 58.375 45.455 19.93 0.00 0.00 4.85
864 873 1.043022 GGGGATGGCCTAATTGCAAG 58.957 55.000 3.32 0.00 0.00 4.01
898 907 4.316205 TGTAAGCAAGTTCAAGAGACGA 57.684 40.909 0.00 0.00 0.00 4.20
931 940 3.449018 ACTCTTCCGATGCAGATACACTT 59.551 43.478 0.00 0.00 0.00 3.16
941 950 7.852945 CCGATGCAGATACACTTTTAGAATTTC 59.147 37.037 0.00 0.00 0.00 2.17
944 953 6.876789 TGCAGATACACTTTTAGAATTTCGGA 59.123 34.615 0.00 0.00 0.00 4.55
1009 1018 3.338250 GGGGCCACATGGACTCCA 61.338 66.667 4.39 0.00 44.77 3.86
1038 1047 1.302993 GTGGGGCCACAACACGTAT 60.303 57.895 10.80 0.00 45.53 3.06
1041 1050 0.463116 GGGGCCACAACACGTATAGG 60.463 60.000 4.39 0.00 0.00 2.57
1113 1123 3.328050 GGGAGATATGGAAGGAACGGAAT 59.672 47.826 0.00 0.00 0.00 3.01
1122 1132 0.988832 AGGAACGGAATGCAAGGGTA 59.011 50.000 0.00 0.00 0.00 3.69
1160 1170 1.472728 GCCGGTCGGAGTTATTGTCAT 60.473 52.381 14.15 0.00 37.50 3.06
1233 1243 2.285950 GCGTAAATTAATGCCGCGAGAA 60.286 45.455 8.23 0.00 34.66 2.87
1246 1256 4.754618 TGCCGCGAGAATGATATTTTGTAT 59.245 37.500 8.23 0.00 0.00 2.29
1257 1267 8.918202 AATGATATTTTGTATTTCGGCCTCTA 57.082 30.769 0.00 0.00 0.00 2.43
1281 1291 5.592054 GCCACAAGCTTTAAACTTTCTTCT 58.408 37.500 0.00 0.00 38.99 2.85
1351 1361 4.440145 GGCACCATGACAACCCAT 57.560 55.556 0.00 0.00 0.00 4.00
1352 1362 2.192605 GGCACCATGACAACCCATC 58.807 57.895 0.00 0.00 0.00 3.51
1353 1363 0.323725 GGCACCATGACAACCCATCT 60.324 55.000 0.00 0.00 0.00 2.90
1354 1364 1.549203 GCACCATGACAACCCATCTT 58.451 50.000 0.00 0.00 0.00 2.40
1355 1365 1.203052 GCACCATGACAACCCATCTTG 59.797 52.381 0.00 0.00 0.00 3.02
1356 1366 1.820519 CACCATGACAACCCATCTTGG 59.179 52.381 0.00 5.60 43.66 3.61
1374 1384 9.610705 CCATCTTGGGTATCATATGAAATAGAG 57.389 37.037 9.99 4.54 32.67 2.43
1380 1390 9.695155 TGGGTATCATATGAAATAGAGATACGA 57.305 33.333 9.99 0.00 43.91 3.43
1389 1399 7.745620 TGAAATAGAGATACGATGCTACTGA 57.254 36.000 0.00 0.00 0.00 3.41
1390 1400 8.166422 TGAAATAGAGATACGATGCTACTGAA 57.834 34.615 0.00 0.00 0.00 3.02
1391 1401 8.630037 TGAAATAGAGATACGATGCTACTGAAA 58.370 33.333 0.00 0.00 0.00 2.69
1392 1402 9.123709 GAAATAGAGATACGATGCTACTGAAAG 57.876 37.037 0.00 0.00 42.29 2.62
1393 1403 7.987750 ATAGAGATACGATGCTACTGAAAGA 57.012 36.000 0.00 0.00 37.43 2.52
1394 1404 6.312399 AGAGATACGATGCTACTGAAAGAG 57.688 41.667 0.00 0.00 37.43 2.85
1395 1405 4.865776 AGATACGATGCTACTGAAAGAGC 58.134 43.478 0.00 0.00 37.53 4.09
1396 1406 4.339530 AGATACGATGCTACTGAAAGAGCA 59.660 41.667 0.00 0.00 45.95 4.26
1397 1407 2.611518 ACGATGCTACTGAAAGAGCAC 58.388 47.619 0.00 0.00 45.18 4.40
1398 1408 2.029020 ACGATGCTACTGAAAGAGCACA 60.029 45.455 0.00 0.00 45.18 4.57
1399 1409 2.995939 CGATGCTACTGAAAGAGCACAA 59.004 45.455 0.00 0.00 45.18 3.33
1400 1410 3.181526 CGATGCTACTGAAAGAGCACAAC 60.182 47.826 0.00 0.00 45.18 3.32
1401 1411 3.192541 TGCTACTGAAAGAGCACAACA 57.807 42.857 0.00 0.00 40.45 3.33
1402 1412 2.872245 TGCTACTGAAAGAGCACAACAC 59.128 45.455 0.00 0.00 40.45 3.32
1403 1413 2.224314 GCTACTGAAAGAGCACAACACC 59.776 50.000 0.00 0.00 37.17 4.16
1404 1414 2.418368 ACTGAAAGAGCACAACACCA 57.582 45.000 0.00 0.00 37.43 4.17
1405 1415 2.292267 ACTGAAAGAGCACAACACCAG 58.708 47.619 0.00 0.00 37.43 4.00
1406 1416 1.605710 CTGAAAGAGCACAACACCAGG 59.394 52.381 0.00 0.00 34.07 4.45
1407 1417 1.064758 TGAAAGAGCACAACACCAGGT 60.065 47.619 0.00 0.00 0.00 4.00
1408 1418 1.334869 GAAAGAGCACAACACCAGGTG 59.665 52.381 18.93 18.93 39.75 4.00
1412 1422 3.917058 CACAACACCAGGTGCACA 58.083 55.556 20.48 0.00 36.98 4.57
1413 1423 1.433064 CACAACACCAGGTGCACAC 59.567 57.895 20.48 8.23 36.98 3.82
1414 1424 1.031571 CACAACACCAGGTGCACACT 61.032 55.000 20.48 10.61 36.98 3.55
1415 1425 1.031571 ACAACACCAGGTGCACACTG 61.032 55.000 20.48 21.16 36.98 3.66
1416 1426 0.747644 CAACACCAGGTGCACACTGA 60.748 55.000 27.05 0.00 38.20 3.41
1417 1427 0.034574 AACACCAGGTGCACACTGAA 60.035 50.000 27.05 0.00 38.20 3.02
1418 1428 0.748005 ACACCAGGTGCACACTGAAC 60.748 55.000 27.05 8.36 38.20 3.18
1419 1429 0.747644 CACCAGGTGCACACTGAACA 60.748 55.000 27.05 0.00 38.20 3.18
1420 1430 0.183492 ACCAGGTGCACACTGAACAT 59.817 50.000 27.05 12.90 38.20 2.71
1421 1431 0.594602 CCAGGTGCACACTGAACATG 59.405 55.000 27.05 12.71 38.20 3.21
1422 1432 1.596603 CAGGTGCACACTGAACATGA 58.403 50.000 23.25 0.00 38.20 3.07
1423 1433 1.534163 CAGGTGCACACTGAACATGAG 59.466 52.381 23.25 0.00 38.20 2.90
1424 1434 1.417517 AGGTGCACACTGAACATGAGA 59.582 47.619 20.43 0.00 0.00 3.27
1425 1435 1.802960 GGTGCACACTGAACATGAGAG 59.197 52.381 20.43 0.00 0.00 3.20
1426 1436 2.487934 GTGCACACTGAACATGAGAGT 58.512 47.619 13.17 0.00 0.00 3.24
1427 1437 2.222678 GTGCACACTGAACATGAGAGTG 59.777 50.000 13.17 16.70 42.39 3.51
1428 1438 2.102925 TGCACACTGAACATGAGAGTGA 59.897 45.455 21.98 5.44 39.64 3.41
1429 1439 3.244318 TGCACACTGAACATGAGAGTGAT 60.244 43.478 21.98 9.78 39.64 3.06
1430 1440 3.124806 GCACACTGAACATGAGAGTGATG 59.875 47.826 21.98 17.59 39.64 3.07
1431 1441 4.313282 CACACTGAACATGAGAGTGATGT 58.687 43.478 21.98 7.07 39.64 3.06
1432 1442 4.151867 CACACTGAACATGAGAGTGATGTG 59.848 45.833 21.98 13.34 39.64 3.21
1433 1443 3.683340 CACTGAACATGAGAGTGATGTGG 59.317 47.826 14.45 0.00 39.64 4.17
1434 1444 3.580022 ACTGAACATGAGAGTGATGTGGA 59.420 43.478 0.00 0.00 34.22 4.02
1435 1445 4.040829 ACTGAACATGAGAGTGATGTGGAA 59.959 41.667 0.00 0.00 34.22 3.53
1436 1446 4.318332 TGAACATGAGAGTGATGTGGAAC 58.682 43.478 0.00 0.00 34.22 3.62
1448 1458 2.936919 TGTGGAACAGAATGCAGAGT 57.063 45.000 0.00 0.00 45.67 3.24
1449 1459 2.497138 TGTGGAACAGAATGCAGAGTG 58.503 47.619 0.00 0.00 45.67 3.51
1450 1460 2.104622 TGTGGAACAGAATGCAGAGTGA 59.895 45.455 0.00 0.00 45.67 3.41
1451 1461 2.481952 GTGGAACAGAATGCAGAGTGAC 59.518 50.000 0.00 0.00 41.80 3.67
1452 1462 2.104622 TGGAACAGAATGCAGAGTGACA 59.895 45.455 0.00 0.00 42.53 3.58
1453 1463 3.244665 TGGAACAGAATGCAGAGTGACAT 60.245 43.478 0.00 0.00 42.53 3.06
1454 1464 3.126514 GGAACAGAATGCAGAGTGACATG 59.873 47.826 0.00 0.00 42.53 3.21
1455 1465 3.690475 ACAGAATGCAGAGTGACATGA 57.310 42.857 0.00 0.00 42.53 3.07
1456 1466 4.217836 ACAGAATGCAGAGTGACATGAT 57.782 40.909 0.00 0.00 42.53 2.45
1457 1467 4.190001 ACAGAATGCAGAGTGACATGATC 58.810 43.478 0.00 0.00 42.53 2.92
1458 1468 3.560481 CAGAATGCAGAGTGACATGATCC 59.440 47.826 0.00 0.00 0.00 3.36
1459 1469 3.455177 AGAATGCAGAGTGACATGATCCT 59.545 43.478 0.00 0.00 0.00 3.24
1460 1470 3.928005 ATGCAGAGTGACATGATCCTT 57.072 42.857 0.00 0.00 0.00 3.36
1461 1471 3.708403 TGCAGAGTGACATGATCCTTT 57.292 42.857 0.00 0.00 0.00 3.11
1462 1472 3.603532 TGCAGAGTGACATGATCCTTTC 58.396 45.455 0.00 0.00 0.00 2.62
1463 1473 3.262660 TGCAGAGTGACATGATCCTTTCT 59.737 43.478 0.00 0.00 0.00 2.52
1464 1474 3.622163 GCAGAGTGACATGATCCTTTCTG 59.378 47.826 0.00 6.08 34.01 3.02
1465 1475 4.829968 CAGAGTGACATGATCCTTTCTGT 58.170 43.478 0.00 0.00 0.00 3.41
1466 1476 4.630505 CAGAGTGACATGATCCTTTCTGTG 59.369 45.833 0.00 0.00 0.00 3.66
1467 1477 3.937706 GAGTGACATGATCCTTTCTGTGG 59.062 47.826 0.00 0.00 0.00 4.17
1468 1478 3.584406 AGTGACATGATCCTTTCTGTGGA 59.416 43.478 0.00 0.00 38.06 4.02
1469 1479 4.226846 AGTGACATGATCCTTTCTGTGGAT 59.773 41.667 0.00 0.00 46.05 3.41
1470 1480 5.426509 AGTGACATGATCCTTTCTGTGGATA 59.573 40.000 0.00 0.00 43.68 2.59
1471 1481 6.070021 AGTGACATGATCCTTTCTGTGGATAA 60.070 38.462 0.00 0.00 43.68 1.75
1472 1482 6.259608 GTGACATGATCCTTTCTGTGGATAAG 59.740 42.308 0.00 0.00 43.68 1.73
1473 1483 5.128919 ACATGATCCTTTCTGTGGATAAGC 58.871 41.667 0.00 0.00 43.68 3.09
1474 1484 5.104193 ACATGATCCTTTCTGTGGATAAGCT 60.104 40.000 0.00 0.00 43.68 3.74
1475 1485 4.774124 TGATCCTTTCTGTGGATAAGCTG 58.226 43.478 0.00 0.00 43.68 4.24
1476 1486 3.634397 TCCTTTCTGTGGATAAGCTGG 57.366 47.619 0.00 0.00 0.00 4.85
1477 1487 2.912956 TCCTTTCTGTGGATAAGCTGGT 59.087 45.455 0.00 0.00 0.00 4.00
1478 1488 3.055094 TCCTTTCTGTGGATAAGCTGGTC 60.055 47.826 0.00 0.00 0.00 4.02
1479 1489 2.672961 TTCTGTGGATAAGCTGGTCG 57.327 50.000 0.00 0.00 0.00 4.79
1480 1490 0.175760 TCTGTGGATAAGCTGGTCGC 59.824 55.000 0.00 0.00 39.57 5.19
1481 1491 0.108186 CTGTGGATAAGCTGGTCGCA 60.108 55.000 0.00 0.00 42.61 5.10
1482 1492 0.541392 TGTGGATAAGCTGGTCGCAT 59.459 50.000 0.00 0.00 42.61 4.73
1483 1493 1.065491 TGTGGATAAGCTGGTCGCATT 60.065 47.619 0.00 0.00 42.61 3.56
1484 1494 1.331756 GTGGATAAGCTGGTCGCATTG 59.668 52.381 0.00 0.00 42.61 2.82
1485 1495 1.209261 TGGATAAGCTGGTCGCATTGA 59.791 47.619 0.00 0.00 42.61 2.57
1486 1496 2.158769 TGGATAAGCTGGTCGCATTGAT 60.159 45.455 0.00 0.00 42.61 2.57
1487 1497 2.225019 GGATAAGCTGGTCGCATTGATG 59.775 50.000 0.00 0.00 42.61 3.07
1488 1498 2.689553 TAAGCTGGTCGCATTGATGA 57.310 45.000 0.00 0.00 42.61 2.92
1489 1499 1.825090 AAGCTGGTCGCATTGATGAA 58.175 45.000 0.00 0.00 42.61 2.57
1490 1500 1.376543 AGCTGGTCGCATTGATGAAG 58.623 50.000 0.00 0.00 42.61 3.02
1491 1501 1.065926 AGCTGGTCGCATTGATGAAGA 60.066 47.619 0.00 0.00 42.61 2.87
1492 1502 1.329906 GCTGGTCGCATTGATGAAGAG 59.670 52.381 0.00 0.00 38.92 2.85
1493 1503 1.938577 CTGGTCGCATTGATGAAGAGG 59.061 52.381 0.00 0.00 0.00 3.69
1494 1504 1.278985 TGGTCGCATTGATGAAGAGGT 59.721 47.619 0.00 0.00 0.00 3.85
1495 1505 1.667724 GGTCGCATTGATGAAGAGGTG 59.332 52.381 0.00 0.00 0.00 4.00
1496 1506 1.063174 GTCGCATTGATGAAGAGGTGC 59.937 52.381 0.00 0.00 0.00 5.01
1497 1507 1.089112 CGCATTGATGAAGAGGTGCA 58.911 50.000 0.00 0.00 33.09 4.57
1498 1508 1.674441 CGCATTGATGAAGAGGTGCAT 59.326 47.619 0.00 0.00 33.09 3.96
1499 1509 2.286831 CGCATTGATGAAGAGGTGCATC 60.287 50.000 0.00 0.00 40.92 3.91
1500 1510 2.686405 GCATTGATGAAGAGGTGCATCA 59.314 45.455 0.00 0.00 46.50 3.07
1502 1512 2.014335 TGATGAAGAGGTGCATCACG 57.986 50.000 0.00 0.00 44.17 4.35
1503 1513 1.293924 GATGAAGAGGTGCATCACGG 58.706 55.000 0.00 0.00 40.39 4.94
1504 1514 0.745845 ATGAAGAGGTGCATCACGGC 60.746 55.000 0.00 0.00 34.83 5.68
1505 1515 1.078848 GAAGAGGTGCATCACGGCT 60.079 57.895 0.00 0.00 34.83 5.52
1506 1516 1.078848 AAGAGGTGCATCACGGCTC 60.079 57.895 0.00 0.00 34.83 4.70
1507 1517 2.842394 AAGAGGTGCATCACGGCTCG 62.842 60.000 0.00 0.00 34.83 5.03
1520 1530 2.744709 GCTCGCCGCAAAACCCTA 60.745 61.111 0.00 0.00 38.92 3.53
1521 1531 2.329614 GCTCGCCGCAAAACCCTAA 61.330 57.895 0.00 0.00 38.92 2.69
1522 1532 1.794222 CTCGCCGCAAAACCCTAAG 59.206 57.895 0.00 0.00 0.00 2.18
1523 1533 0.953960 CTCGCCGCAAAACCCTAAGT 60.954 55.000 0.00 0.00 0.00 2.24
1524 1534 1.209127 CGCCGCAAAACCCTAAGTG 59.791 57.895 0.00 0.00 0.00 3.16
1525 1535 1.584495 GCCGCAAAACCCTAAGTGG 59.416 57.895 0.00 0.00 34.83 4.00
1526 1536 1.176619 GCCGCAAAACCCTAAGTGGT 61.177 55.000 0.00 0.00 41.55 4.16
2093 2114 6.958778 ACATGATCATCAGTATCAGGTAGGAT 59.041 38.462 4.86 0.00 44.13 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 3.494251 GCCGAAGTGCATCAATTTTGTTT 59.506 39.130 0.00 0.00 0.00 2.83
34 35 0.609131 CACACCCAGCCCAAAGGTAG 60.609 60.000 0.00 0.00 34.57 3.18
63 64 0.962356 AATCTTGCACTTGCCTCCGG 60.962 55.000 0.00 0.00 41.18 5.14
87 88 4.444720 GCTTCGATTTCCATACTTAGTCCG 59.555 45.833 0.00 0.00 0.00 4.79
92 93 6.462487 CCCTGTAGCTTCGATTTCCATACTTA 60.462 42.308 0.00 0.00 0.00 2.24
97 98 2.771943 TCCCTGTAGCTTCGATTTCCAT 59.228 45.455 0.00 0.00 0.00 3.41
100 101 2.827652 CCTCCCTGTAGCTTCGATTTC 58.172 52.381 0.00 0.00 0.00 2.17
106 107 0.107459 CAAGGCCTCCCTGTAGCTTC 60.107 60.000 5.23 0.00 41.90 3.86
123 124 9.810545 CAAACTTTTTCAGGTTTAAGATACCAA 57.189 29.630 0.00 0.00 38.16 3.67
139 140 3.375642 GAGAGCACCAGCAAACTTTTTC 58.624 45.455 0.00 0.00 45.49 2.29
153 154 0.872021 CCAGCGAATACGGAGAGCAC 60.872 60.000 0.00 0.00 40.15 4.40
168 169 0.240945 CCATTCGAACCACAACCAGC 59.759 55.000 0.00 0.00 0.00 4.85
171 172 1.472480 CCATCCATTCGAACCACAACC 59.528 52.381 0.00 0.00 0.00 3.77
173 174 2.432444 GTCCATCCATTCGAACCACAA 58.568 47.619 0.00 0.00 0.00 3.33
182 183 3.471680 GCTTAGTCAGGTCCATCCATTC 58.528 50.000 0.00 0.00 39.02 2.67
193 194 0.035056 CCACCCAAGGCTTAGTCAGG 60.035 60.000 0.00 0.00 0.00 3.86
195 196 0.770557 ACCCACCCAAGGCTTAGTCA 60.771 55.000 0.00 0.00 0.00 3.41
196 197 0.035343 GACCCACCCAAGGCTTAGTC 60.035 60.000 0.00 0.00 0.00 2.59
256 257 1.745489 CTCAACCTTGGTAGCGGCC 60.745 63.158 0.00 0.00 0.00 6.13
271 272 2.486013 CCGAATGCCATCTCCAATCTCA 60.486 50.000 0.00 0.00 0.00 3.27
297 300 1.819305 GCCAAGCAGACTCCCAGAAAA 60.819 52.381 0.00 0.00 0.00 2.29
330 333 5.165961 GCAGGGAGCAATATCATAAGGTA 57.834 43.478 0.00 0.00 44.79 3.08
350 353 8.805175 TCTTTCTTTTGGATAGATCAAAATGCA 58.195 29.630 0.00 0.00 41.41 3.96
411 417 5.591877 GCTGATGTTAATTTGAGAGACCCAT 59.408 40.000 0.00 0.00 0.00 4.00
420 426 2.682856 GCCCTCGCTGATGTTAATTTGA 59.317 45.455 0.00 0.00 0.00 2.69
457 463 2.301870 ACAGGCTGACAAACTCGGATAA 59.698 45.455 23.66 0.00 0.00 1.75
480 486 2.520069 TGGACGAGAGAGAGCTTTTCT 58.480 47.619 1.68 1.68 39.43 2.52
541 550 2.224281 GCCGAGTAATGACCATCCATCA 60.224 50.000 0.00 0.00 0.00 3.07
562 571 1.313812 AACCTCGTAGGCCGACAGAG 61.314 60.000 21.83 21.83 41.60 3.35
564 573 1.139095 GAACCTCGTAGGCCGACAG 59.861 63.158 16.75 11.70 41.60 3.51
565 574 1.180456 TTGAACCTCGTAGGCCGACA 61.180 55.000 16.75 2.64 41.60 4.35
566 575 0.175073 ATTGAACCTCGTAGGCCGAC 59.825 55.000 5.82 5.82 41.60 4.79
578 587 1.340697 ACTAAGCCCCGGAATTGAACC 60.341 52.381 0.73 0.00 0.00 3.62
588 597 1.153168 CCATGTCCACTAAGCCCCG 60.153 63.158 0.00 0.00 0.00 5.73
596 605 1.915489 TGCATAAGGTCCATGTCCACT 59.085 47.619 6.89 0.00 0.00 4.00
599 608 3.281727 TTCTGCATAAGGTCCATGTCC 57.718 47.619 0.00 0.00 0.00 4.02
604 613 3.370846 CCAGACATTCTGCATAAGGTCCA 60.371 47.826 21.43 0.00 42.98 4.02
605 614 3.118261 TCCAGACATTCTGCATAAGGTCC 60.118 47.826 21.43 8.02 42.98 4.46
612 621 4.401519 CCAAATCTTCCAGACATTCTGCAT 59.598 41.667 0.00 0.00 42.98 3.96
623 632 0.396278 GAGGGGCCCAAATCTTCCAG 60.396 60.000 27.72 0.00 0.00 3.86
674 683 2.224281 GCCGAGTAATGACCATCCATCA 60.224 50.000 0.00 0.00 0.00 3.07
697 706 1.139095 GAACCTCGTAGGCCGACAG 59.861 63.158 16.75 11.70 41.60 3.51
698 707 1.180456 TTGAACCTCGTAGGCCGACA 61.180 55.000 16.75 2.64 41.60 4.35
722 731 0.912486 GTCCATGTCCACTAAGCCCT 59.088 55.000 0.00 0.00 0.00 5.19
737 746 1.421268 AGACATTCTGCACAAGGTCCA 59.579 47.619 14.60 0.00 37.72 4.02
758 767 0.850883 TGGAGGGGCCCAAATCTTCT 60.851 55.000 27.72 9.52 34.97 2.85
771 780 3.550030 CGTAAAACTTGCACTTTGGAGGG 60.550 47.826 0.00 0.00 0.00 4.30
791 800 0.909843 GTTAATAACGAGCGACGCGT 59.090 50.000 13.85 13.85 46.94 6.01
792 801 0.909174 TGTTAATAACGAGCGACGCG 59.091 50.000 15.18 3.53 46.94 6.01
797 806 7.042321 TCCAAATCCTATTGTTAATAACGAGCG 60.042 37.037 0.00 0.00 0.00 5.03
830 839 3.741476 CCCGCTCTTGCAGCCAAC 61.741 66.667 0.00 0.00 46.74 3.77
841 850 0.890996 CAATTAGGCCATCCCCGCTC 60.891 60.000 5.01 0.00 0.00 5.03
864 873 2.452505 TGCTTACAAAGGGGGCATAAC 58.547 47.619 0.00 0.00 0.00 1.89
898 907 1.437986 GGAAGAGTAGATGCGCCGT 59.562 57.895 4.18 0.00 0.00 5.68
941 950 5.180117 CCAAGCCAGACTTTTATCATATCCG 59.820 44.000 0.00 0.00 36.04 4.18
1033 1042 2.029290 GGGATTGCGTCATCCTATACGT 60.029 50.000 12.98 0.00 41.10 3.57
1038 1047 1.068588 CTTCGGGATTGCGTCATCCTA 59.931 52.381 12.98 2.19 37.15 2.94
1041 1050 0.462047 ACCTTCGGGATTGCGTCATC 60.462 55.000 0.00 0.00 38.77 2.92
1060 1069 0.758310 AGCATGAGGGAGATGAGCGA 60.758 55.000 0.00 0.00 0.00 4.93
1113 1123 2.016604 GCATCGTGGAATACCCTTGCA 61.017 52.381 0.00 0.00 35.38 4.08
1122 1132 2.108514 CACCGCAGCATCGTGGAAT 61.109 57.895 7.32 0.00 38.98 3.01
1160 1170 9.310449 ACAGACTACACTCCTCTTTTATCTTTA 57.690 33.333 0.00 0.00 0.00 1.85
1218 1228 6.500684 AAATATCATTCTCGCGGCATTAAT 57.499 33.333 6.13 0.00 0.00 1.40
1222 1232 3.565482 ACAAAATATCATTCTCGCGGCAT 59.435 39.130 6.13 0.00 0.00 4.40
1233 1243 7.119846 GCTAGAGGCCGAAATACAAAATATCAT 59.880 37.037 0.00 0.00 34.27 2.45
1325 1335 3.168035 TGTCATGGTGCCCATAGTTTT 57.832 42.857 6.42 0.00 43.15 2.43
1326 1336 2.825532 GTTGTCATGGTGCCCATAGTTT 59.174 45.455 6.42 0.00 43.15 2.66
1327 1337 2.446435 GTTGTCATGGTGCCCATAGTT 58.554 47.619 6.42 0.00 43.15 2.24
1328 1338 1.340991 GGTTGTCATGGTGCCCATAGT 60.341 52.381 6.42 0.00 43.15 2.12
1329 1339 1.392589 GGTTGTCATGGTGCCCATAG 58.607 55.000 6.42 2.99 43.15 2.23
1330 1340 0.033601 GGGTTGTCATGGTGCCCATA 60.034 55.000 6.42 0.00 43.15 2.74
1331 1341 1.305213 GGGTTGTCATGGTGCCCAT 60.305 57.895 9.59 1.21 46.37 4.00
1332 1342 2.117206 GGGTTGTCATGGTGCCCA 59.883 61.111 9.59 0.00 39.13 5.36
1333 1343 1.305213 ATGGGTTGTCATGGTGCCC 60.305 57.895 8.10 8.10 39.73 5.36
1334 1344 0.323725 AGATGGGTTGTCATGGTGCC 60.324 55.000 0.00 0.00 0.00 5.01
1335 1345 1.203052 CAAGATGGGTTGTCATGGTGC 59.797 52.381 0.00 0.00 0.00 5.01
1336 1346 1.820519 CCAAGATGGGTTGTCATGGTG 59.179 52.381 0.00 0.00 32.67 4.17
1337 1347 2.220653 CCAAGATGGGTTGTCATGGT 57.779 50.000 0.00 0.00 32.67 3.55
1348 1358 9.610705 CTCTATTTCATATGATACCCAAGATGG 57.389 37.037 6.17 0.00 37.25 3.51
1354 1364 9.695155 TCGTATCTCTATTTCATATGATACCCA 57.305 33.333 6.17 0.00 35.31 4.51
1363 1373 9.449719 TCAGTAGCATCGTATCTCTATTTCATA 57.550 33.333 0.00 0.00 0.00 2.15
1364 1374 8.341892 TCAGTAGCATCGTATCTCTATTTCAT 57.658 34.615 0.00 0.00 0.00 2.57
1365 1375 7.745620 TCAGTAGCATCGTATCTCTATTTCA 57.254 36.000 0.00 0.00 0.00 2.69
1366 1376 9.123709 CTTTCAGTAGCATCGTATCTCTATTTC 57.876 37.037 0.00 0.00 0.00 2.17
1367 1377 8.851145 TCTTTCAGTAGCATCGTATCTCTATTT 58.149 33.333 0.00 0.00 0.00 1.40
1368 1378 8.397575 TCTTTCAGTAGCATCGTATCTCTATT 57.602 34.615 0.00 0.00 0.00 1.73
1369 1379 7.361713 GCTCTTTCAGTAGCATCGTATCTCTAT 60.362 40.741 0.00 0.00 38.63 1.98
1370 1380 6.072948 GCTCTTTCAGTAGCATCGTATCTCTA 60.073 42.308 0.00 0.00 38.63 2.43
1371 1381 5.278266 GCTCTTTCAGTAGCATCGTATCTCT 60.278 44.000 0.00 0.00 38.63 3.10
1372 1382 4.915085 GCTCTTTCAGTAGCATCGTATCTC 59.085 45.833 0.00 0.00 38.63 2.75
1373 1383 4.339530 TGCTCTTTCAGTAGCATCGTATCT 59.660 41.667 0.00 0.00 43.56 1.98
1374 1384 4.611943 TGCTCTTTCAGTAGCATCGTATC 58.388 43.478 0.00 0.00 43.56 2.24
1375 1385 4.655762 TGCTCTTTCAGTAGCATCGTAT 57.344 40.909 0.00 0.00 43.56 3.06
1381 1391 2.872245 GTGTTGTGCTCTTTCAGTAGCA 59.128 45.455 0.00 0.00 46.11 3.49
1382 1392 2.224314 GGTGTTGTGCTCTTTCAGTAGC 59.776 50.000 0.00 0.00 39.25 3.58
1383 1393 3.466836 TGGTGTTGTGCTCTTTCAGTAG 58.533 45.455 0.00 0.00 0.00 2.57
1384 1394 3.466836 CTGGTGTTGTGCTCTTTCAGTA 58.533 45.455 0.00 0.00 0.00 2.74
1385 1395 2.292267 CTGGTGTTGTGCTCTTTCAGT 58.708 47.619 0.00 0.00 0.00 3.41
1386 1396 1.605710 CCTGGTGTTGTGCTCTTTCAG 59.394 52.381 0.00 0.00 0.00 3.02
1387 1397 1.064758 ACCTGGTGTTGTGCTCTTTCA 60.065 47.619 0.00 0.00 0.00 2.69
1388 1398 1.334869 CACCTGGTGTTGTGCTCTTTC 59.665 52.381 18.76 0.00 0.00 2.62
1389 1399 1.392589 CACCTGGTGTTGTGCTCTTT 58.607 50.000 18.76 0.00 0.00 2.52
1390 1400 3.100545 CACCTGGTGTTGTGCTCTT 57.899 52.632 18.76 0.00 0.00 2.85
1391 1401 4.885426 CACCTGGTGTTGTGCTCT 57.115 55.556 18.76 0.00 0.00 4.09
1395 1405 1.031571 AGTGTGCACCTGGTGTTGTG 61.032 55.000 26.48 2.70 35.75 3.33
1396 1406 1.031571 CAGTGTGCACCTGGTGTTGT 61.032 55.000 26.48 6.15 35.75 3.32
1397 1407 0.747644 TCAGTGTGCACCTGGTGTTG 60.748 55.000 26.48 16.62 35.75 3.33
1398 1408 0.034574 TTCAGTGTGCACCTGGTGTT 60.035 50.000 26.48 6.43 35.75 3.32
1399 1409 0.748005 GTTCAGTGTGCACCTGGTGT 60.748 55.000 26.48 4.86 35.75 4.16
1400 1410 0.747644 TGTTCAGTGTGCACCTGGTG 60.748 55.000 25.49 22.46 36.51 4.17
1401 1411 0.183492 ATGTTCAGTGTGCACCTGGT 59.817 50.000 25.49 12.89 0.00 4.00
1402 1412 0.594602 CATGTTCAGTGTGCACCTGG 59.405 55.000 25.49 12.31 0.00 4.45
1403 1413 1.534163 CTCATGTTCAGTGTGCACCTG 59.466 52.381 22.21 22.21 0.00 4.00
1404 1414 1.417517 TCTCATGTTCAGTGTGCACCT 59.582 47.619 15.69 8.25 0.00 4.00
1405 1415 1.802960 CTCTCATGTTCAGTGTGCACC 59.197 52.381 15.69 5.76 0.00 5.01
1406 1416 2.222678 CACTCTCATGTTCAGTGTGCAC 59.777 50.000 10.75 10.75 34.08 4.57
1407 1417 2.102925 TCACTCTCATGTTCAGTGTGCA 59.897 45.455 16.06 0.00 38.94 4.57
1408 1418 2.759191 TCACTCTCATGTTCAGTGTGC 58.241 47.619 16.06 0.00 38.94 4.57
1409 1419 4.151867 CACATCACTCTCATGTTCAGTGTG 59.848 45.833 16.06 12.36 38.94 3.82
1410 1420 4.313282 CACATCACTCTCATGTTCAGTGT 58.687 43.478 16.06 2.71 38.94 3.55
1411 1421 3.683340 CCACATCACTCTCATGTTCAGTG 59.317 47.826 12.48 12.48 39.18 3.66
1412 1422 3.580022 TCCACATCACTCTCATGTTCAGT 59.420 43.478 0.00 0.00 31.83 3.41
1413 1423 4.198028 TCCACATCACTCTCATGTTCAG 57.802 45.455 0.00 0.00 31.83 3.02
1414 1424 4.202346 TGTTCCACATCACTCTCATGTTCA 60.202 41.667 0.00 0.00 31.83 3.18
1415 1425 4.318332 TGTTCCACATCACTCTCATGTTC 58.682 43.478 0.00 0.00 31.83 3.18
1416 1426 4.040829 TCTGTTCCACATCACTCTCATGTT 59.959 41.667 0.00 0.00 31.83 2.71
1417 1427 3.580022 TCTGTTCCACATCACTCTCATGT 59.420 43.478 0.00 0.00 34.67 3.21
1418 1428 4.198028 TCTGTTCCACATCACTCTCATG 57.802 45.455 0.00 0.00 0.00 3.07
1419 1429 4.897509 TTCTGTTCCACATCACTCTCAT 57.102 40.909 0.00 0.00 0.00 2.90
1420 1430 4.572909 CATTCTGTTCCACATCACTCTCA 58.427 43.478 0.00 0.00 0.00 3.27
1421 1431 3.373439 GCATTCTGTTCCACATCACTCTC 59.627 47.826 0.00 0.00 0.00 3.20
1422 1432 3.244665 TGCATTCTGTTCCACATCACTCT 60.245 43.478 0.00 0.00 0.00 3.24
1423 1433 3.076621 TGCATTCTGTTCCACATCACTC 58.923 45.455 0.00 0.00 0.00 3.51
1424 1434 3.079578 CTGCATTCTGTTCCACATCACT 58.920 45.455 0.00 0.00 0.00 3.41
1425 1435 3.076621 TCTGCATTCTGTTCCACATCAC 58.923 45.455 0.00 0.00 0.00 3.06
1426 1436 3.244665 ACTCTGCATTCTGTTCCACATCA 60.245 43.478 0.00 0.00 0.00 3.07
1427 1437 3.126514 CACTCTGCATTCTGTTCCACATC 59.873 47.826 0.00 0.00 0.00 3.06
1428 1438 3.079578 CACTCTGCATTCTGTTCCACAT 58.920 45.455 0.00 0.00 0.00 3.21
1429 1439 2.104622 TCACTCTGCATTCTGTTCCACA 59.895 45.455 0.00 0.00 0.00 4.17
1430 1440 2.481952 GTCACTCTGCATTCTGTTCCAC 59.518 50.000 0.00 0.00 0.00 4.02
1431 1441 2.104622 TGTCACTCTGCATTCTGTTCCA 59.895 45.455 0.00 0.00 0.00 3.53
1432 1442 2.771089 TGTCACTCTGCATTCTGTTCC 58.229 47.619 0.00 0.00 0.00 3.62
1433 1443 3.999001 TCATGTCACTCTGCATTCTGTTC 59.001 43.478 0.00 0.00 0.00 3.18
1434 1444 4.011966 TCATGTCACTCTGCATTCTGTT 57.988 40.909 0.00 0.00 0.00 3.16
1435 1445 3.690475 TCATGTCACTCTGCATTCTGT 57.310 42.857 0.00 0.00 0.00 3.41
1436 1446 3.560481 GGATCATGTCACTCTGCATTCTG 59.440 47.826 0.00 0.00 0.00 3.02
1437 1447 3.455177 AGGATCATGTCACTCTGCATTCT 59.545 43.478 0.00 0.00 0.00 2.40
1438 1448 3.806380 AGGATCATGTCACTCTGCATTC 58.194 45.455 0.00 0.00 0.00 2.67
1439 1449 3.928005 AGGATCATGTCACTCTGCATT 57.072 42.857 0.00 0.00 0.00 3.56
1440 1450 3.928005 AAGGATCATGTCACTCTGCAT 57.072 42.857 0.00 0.00 0.00 3.96
1441 1451 3.262660 AGAAAGGATCATGTCACTCTGCA 59.737 43.478 0.00 0.00 0.00 4.41
1442 1452 3.622163 CAGAAAGGATCATGTCACTCTGC 59.378 47.826 0.00 0.00 0.00 4.26
1443 1453 4.630505 CACAGAAAGGATCATGTCACTCTG 59.369 45.833 0.00 2.03 35.81 3.35
1444 1454 4.323333 CCACAGAAAGGATCATGTCACTCT 60.323 45.833 0.00 0.00 0.00 3.24
1445 1455 3.937706 CCACAGAAAGGATCATGTCACTC 59.062 47.826 0.00 0.00 0.00 3.51
1446 1456 3.584406 TCCACAGAAAGGATCATGTCACT 59.416 43.478 0.00 0.00 0.00 3.41
1447 1457 3.942829 TCCACAGAAAGGATCATGTCAC 58.057 45.455 0.00 0.00 0.00 3.67
1448 1458 4.849813 ATCCACAGAAAGGATCATGTCA 57.150 40.909 0.00 0.00 42.07 3.58
1449 1459 5.238214 GCTTATCCACAGAAAGGATCATGTC 59.762 44.000 0.00 0.00 44.54 3.06
1450 1460 5.104193 AGCTTATCCACAGAAAGGATCATGT 60.104 40.000 0.00 0.00 44.54 3.21
1451 1461 5.238868 CAGCTTATCCACAGAAAGGATCATG 59.761 44.000 0.00 0.00 44.54 3.07
1452 1462 5.374921 CAGCTTATCCACAGAAAGGATCAT 58.625 41.667 0.00 0.00 44.54 2.45
1453 1463 4.384537 CCAGCTTATCCACAGAAAGGATCA 60.385 45.833 0.00 0.00 44.54 2.92
1454 1464 4.133078 CCAGCTTATCCACAGAAAGGATC 58.867 47.826 0.00 0.00 44.54 3.36
1456 1466 2.912956 ACCAGCTTATCCACAGAAAGGA 59.087 45.455 0.00 0.00 39.97 3.36
1457 1467 3.274288 GACCAGCTTATCCACAGAAAGG 58.726 50.000 0.00 0.00 0.00 3.11
1458 1468 2.932614 CGACCAGCTTATCCACAGAAAG 59.067 50.000 0.00 0.00 0.00 2.62
1459 1469 2.935238 GCGACCAGCTTATCCACAGAAA 60.935 50.000 0.00 0.00 44.04 2.52
1460 1470 1.405526 GCGACCAGCTTATCCACAGAA 60.406 52.381 0.00 0.00 44.04 3.02
1461 1471 0.175760 GCGACCAGCTTATCCACAGA 59.824 55.000 0.00 0.00 44.04 3.41
1462 1472 2.682893 GCGACCAGCTTATCCACAG 58.317 57.895 0.00 0.00 44.04 3.66
1463 1473 4.932789 GCGACCAGCTTATCCACA 57.067 55.556 0.00 0.00 44.04 4.17
1473 1483 1.938577 CCTCTTCATCAATGCGACCAG 59.061 52.381 0.00 0.00 0.00 4.00
1474 1484 1.278985 ACCTCTTCATCAATGCGACCA 59.721 47.619 0.00 0.00 0.00 4.02
1475 1485 1.667724 CACCTCTTCATCAATGCGACC 59.332 52.381 0.00 0.00 0.00 4.79
1476 1486 1.063174 GCACCTCTTCATCAATGCGAC 59.937 52.381 0.00 0.00 0.00 5.19
1477 1487 1.338960 TGCACCTCTTCATCAATGCGA 60.339 47.619 0.00 0.00 35.83 5.10
1478 1488 1.089112 TGCACCTCTTCATCAATGCG 58.911 50.000 0.00 0.00 35.83 4.73
1479 1489 2.686405 TGATGCACCTCTTCATCAATGC 59.314 45.455 0.00 0.00 44.08 3.56
1483 1493 1.405933 CCGTGATGCACCTCTTCATCA 60.406 52.381 0.00 1.25 44.62 3.07
1484 1494 1.293924 CCGTGATGCACCTCTTCATC 58.706 55.000 0.00 0.00 39.49 2.92
1485 1495 0.745845 GCCGTGATGCACCTCTTCAT 60.746 55.000 0.00 0.00 32.43 2.57
1486 1496 1.375908 GCCGTGATGCACCTCTTCA 60.376 57.895 0.00 0.00 0.00 3.02
1487 1497 1.078848 AGCCGTGATGCACCTCTTC 60.079 57.895 0.00 0.00 0.00 2.87
1488 1498 1.078848 GAGCCGTGATGCACCTCTT 60.079 57.895 0.00 0.00 0.00 2.85
1489 1499 2.581354 GAGCCGTGATGCACCTCT 59.419 61.111 0.00 0.00 0.00 3.69
1490 1500 2.887568 CGAGCCGTGATGCACCTC 60.888 66.667 0.00 0.00 0.00 3.85
1504 1514 0.953960 ACTTAGGGTTTTGCGGCGAG 60.954 55.000 12.98 0.00 0.00 5.03
1505 1515 1.071814 ACTTAGGGTTTTGCGGCGA 59.928 52.632 12.98 0.00 0.00 5.54
1506 1516 1.209127 CACTTAGGGTTTTGCGGCG 59.791 57.895 0.51 0.51 0.00 6.46
1507 1517 1.176619 ACCACTTAGGGTTTTGCGGC 61.177 55.000 0.00 0.00 43.89 6.53
1508 1518 3.030415 ACCACTTAGGGTTTTGCGG 57.970 52.632 0.00 0.00 43.89 5.69
1515 1525 3.895704 ATCCAAACAACCACTTAGGGT 57.104 42.857 0.00 0.00 45.04 4.34
1516 1526 5.505780 TCATATCCAAACAACCACTTAGGG 58.494 41.667 0.00 0.00 43.89 3.53
1517 1527 6.404734 GCTTCATATCCAAACAACCACTTAGG 60.405 42.308 0.00 0.00 45.67 2.69
1518 1528 6.150976 TGCTTCATATCCAAACAACCACTTAG 59.849 38.462 0.00 0.00 0.00 2.18
1519 1529 6.007076 TGCTTCATATCCAAACAACCACTTA 58.993 36.000 0.00 0.00 0.00 2.24
1520 1530 4.832266 TGCTTCATATCCAAACAACCACTT 59.168 37.500 0.00 0.00 0.00 3.16
1521 1531 4.218417 GTGCTTCATATCCAAACAACCACT 59.782 41.667 0.00 0.00 0.00 4.00
1522 1532 4.218417 AGTGCTTCATATCCAAACAACCAC 59.782 41.667 0.00 0.00 0.00 4.16
1523 1533 4.406456 AGTGCTTCATATCCAAACAACCA 58.594 39.130 0.00 0.00 0.00 3.67
1524 1534 4.458989 TGAGTGCTTCATATCCAAACAACC 59.541 41.667 0.00 0.00 0.00 3.77
1525 1535 5.182001 AGTGAGTGCTTCATATCCAAACAAC 59.818 40.000 0.00 0.00 38.29 3.32
1526 1536 5.316167 AGTGAGTGCTTCATATCCAAACAA 58.684 37.500 0.00 0.00 38.29 2.83
1527 1537 4.910195 AGTGAGTGCTTCATATCCAAACA 58.090 39.130 0.00 0.00 38.29 2.83
1528 1538 6.109359 ACTAGTGAGTGCTTCATATCCAAAC 58.891 40.000 0.00 0.00 38.29 2.93
1529 1539 6.299805 ACTAGTGAGTGCTTCATATCCAAA 57.700 37.500 0.00 0.00 38.29 3.28
1530 1540 5.939764 ACTAGTGAGTGCTTCATATCCAA 57.060 39.130 0.00 0.00 38.29 3.53
1531 1541 6.365520 TCTACTAGTGAGTGCTTCATATCCA 58.634 40.000 5.39 0.00 38.29 3.41
1532 1542 6.885952 TCTACTAGTGAGTGCTTCATATCC 57.114 41.667 5.39 0.00 38.29 2.59
1533 1543 9.587772 TTTTTCTACTAGTGAGTGCTTCATATC 57.412 33.333 5.39 0.00 38.29 1.63
1821 1841 5.827797 AGAGGACACTTCTCTCTATTAGCTG 59.172 44.000 0.00 0.00 36.99 4.24
2016 2037 5.948162 TCGATGACTATGAGGATGATGATCA 59.052 40.000 0.00 0.00 0.00 2.92
2164 2185 4.023291 GGGCAAAAATTGGAGACAGGATA 58.977 43.478 0.00 0.00 44.54 2.59


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

AutoCloner maintained by Alex Coulton.