Multiple sequence alignment - TraesCS4B01G346300

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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 TraesCS4B01G346300 chr4B 100.000 3685 0 0 1 3685 640020631 640016947 0.000000e+00 6806.0
1 TraesCS4B01G346300 chr4D 93.636 1430 82 8 1566 2992 498047385 498045962 0.000000e+00 2128.0
2 TraesCS4B01G346300 chr4D 90.084 1432 87 28 1 1400 498048807 498047399 0.000000e+00 1807.0
3 TraesCS4B01G346300 chr4D 95.789 665 28 0 3021 3685 498045522 498044858 0.000000e+00 1074.0
4 TraesCS4B01G346300 chr4D 92.086 139 8 3 1404 1542 165913222 165913357 3.760000e-45 193.0
5 TraesCS4B01G346300 chr4D 92.233 103 7 1 3259 3360 113929678 113929780 1.070000e-30 145.0
6 TraesCS4B01G346300 chr4D 100.000 29 0 0 2987 3015 498045875 498045847 2.000000e-03 54.7
7 TraesCS4B01G346300 chr5A 90.152 1249 92 18 1788 3012 678573825 678572584 0.000000e+00 1596.0
8 TraesCS4B01G346300 chr5A 92.049 566 26 9 844 1401 678574817 678574263 0.000000e+00 778.0
9 TraesCS4B01G346300 chr7D 95.276 127 6 0 1416 1542 194601662 194601788 6.240000e-48 202.0
10 TraesCS4B01G346300 chr5B 94.615 130 7 0 1413 1542 411518798 411518927 6.240000e-48 202.0
11 TraesCS4B01G346300 chr5B 92.701 137 8 2 1406 1542 96878935 96879069 2.900000e-46 196.0
12 TraesCS4B01G346300 chr4A 92.701 137 10 0 1414 1550 698264157 698264293 8.070000e-47 198.0
13 TraesCS4B01G346300 chr2A 91.608 143 10 2 1415 1557 2370573 2370713 2.900000e-46 196.0
14 TraesCS4B01G346300 chr2A 93.684 95 6 0 3266 3360 694455293 694455387 3.840000e-30 143.0
15 TraesCS4B01G346300 chr3B 91.549 142 10 2 1413 1554 48860814 48860675 1.040000e-45 195.0
16 TraesCS4B01G346300 chr3B 88.889 108 10 2 3254 3360 485691383 485691489 8.300000e-27 132.0
17 TraesCS4B01G346300 chr7B 90.845 142 13 0 1405 1546 38563771 38563912 1.350000e-44 191.0
18 TraesCS4B01G346300 chr7B 85.882 170 22 2 1384 1552 383855091 383854923 2.920000e-41 180.0
19 TraesCS4B01G346300 chr7B 89.908 109 11 0 3266 3374 639796290 639796182 1.380000e-29 141.0
20 TraesCS4B01G346300 chr2B 94.737 95 5 0 3265 3359 448906776 448906682 8.250000e-32 148.0
21 TraesCS4B01G346300 chr7A 92.784 97 7 0 3270 3366 692919276 692919180 1.380000e-29 141.0
22 TraesCS4B01G346300 chr6B 89.908 109 10 1 3253 3361 299618369 299618476 4.960000e-29 139.0
23 TraesCS4B01G346300 chr6A 88.991 109 11 1 3253 3361 222678960 222678853 2.310000e-27 134.0


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 TraesCS4B01G346300 chr4B 640016947 640020631 3684 True 6806.000 6806 100.00000 1 3685 1 chr4B.!!$R1 3684
1 TraesCS4B01G346300 chr4D 498044858 498048807 3949 True 1265.925 2128 94.87725 1 3685 4 chr4D.!!$R1 3684
2 TraesCS4B01G346300 chr5A 678572584 678574817 2233 True 1187.000 1596 91.10050 844 3012 2 chr5A.!!$R1 2168

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
484 516 0.107456 CTTCATGGCCAGCGGTCTAT 59.893 55.0 13.05 0.0 0.00 1.98 F
1434 1490 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.0 5.23 0.0 44.66 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1597 1656 0.463654 ACAAACGAGCAACTGCCAGA 60.464 50.000 0.0 0.0 43.38 3.86 R
3205 3865 1.340017 GGTCTCCAATGCACTTGCCTA 60.340 52.381 0.0 0.0 41.18 3.93 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
103 105 9.176181 TGCAACACGAGAATATTTCTTTAAAAC 57.824 29.630 0.00 0.00 40.87 2.43
104 106 8.355806 GCAACACGAGAATATTTCTTTAAAACG 58.644 33.333 0.00 0.00 40.87 3.60
105 107 8.355806 CAACACGAGAATATTTCTTTAAAACGC 58.644 33.333 0.00 0.00 40.87 4.84
107 109 7.018826 CACGAGAATATTTCTTTAAAACGCCA 58.981 34.615 0.00 0.00 40.87 5.69
110 112 7.908082 CGAGAATATTTCTTTAAAACGCCATGA 59.092 33.333 0.00 0.00 40.87 3.07
128 130 6.811170 CGCCATGAACACTTTTTAATGGTAAT 59.189 34.615 0.00 0.00 37.48 1.89
184 186 6.531240 ACACATGTTTCAGAATTTTCACACAC 59.469 34.615 0.00 0.00 0.00 3.82
186 188 7.223193 CACATGTTTCAGAATTTTCACACACAT 59.777 33.333 0.00 0.00 0.00 3.21
201 203 4.325741 CACACACATCTTTTTGAAACGCAA 59.674 37.500 0.00 0.00 33.88 4.85
206 208 5.288232 CACATCTTTTTGAAACGCAAGAACA 59.712 36.000 0.00 0.00 37.87 3.18
208 210 5.947503 TCTTTTTGAAACGCAAGAACATG 57.052 34.783 0.00 0.00 37.87 3.21
217 219 3.641648 ACGCAAGAACATGTTTCATTGG 58.358 40.909 22.75 17.63 43.62 3.16
221 223 0.984109 GAACATGTTTCATTGGCGCG 59.016 50.000 13.36 0.00 0.00 6.86
240 242 3.601360 CGCGAACATTGTTTTTGAAAGCC 60.601 43.478 0.00 0.00 0.00 4.35
246 248 6.362210 ACATTGTTTTTGAAAGCCATCAAC 57.638 33.333 1.51 0.00 38.95 3.18
277 281 6.892658 AGTTGTGCTAACATTATTTCACCA 57.107 33.333 7.08 0.00 35.83 4.17
368 372 7.559335 AAAGAAAAAGGAAATTAGGGCATCT 57.441 32.000 0.00 0.00 0.00 2.90
370 374 8.844865 AAGAAAAAGGAAATTAGGGCATCTAT 57.155 30.769 0.00 0.00 0.00 1.98
371 375 8.242729 AGAAAAAGGAAATTAGGGCATCTATG 57.757 34.615 0.00 0.00 0.00 2.23
425 457 1.202770 GGCCAACCATATAAGCGAGGT 60.203 52.381 0.00 0.00 35.26 3.85
451 483 2.908940 GCGGGCCCATCTGATTGG 60.909 66.667 24.92 2.32 36.46 3.16
454 486 1.530183 GGGCCCATCTGATTGGAGC 60.530 63.158 19.95 10.09 39.25 4.70
463 495 4.518211 CCATCTGATTGGAGCAGTATTTCC 59.482 45.833 0.00 0.00 39.25 3.13
466 498 4.718774 TCTGATTGGAGCAGTATTTCCTCT 59.281 41.667 0.00 0.00 34.98 3.69
467 499 5.190528 TCTGATTGGAGCAGTATTTCCTCTT 59.809 40.000 0.00 0.00 34.98 2.85
468 500 5.431765 TGATTGGAGCAGTATTTCCTCTTC 58.568 41.667 0.00 0.00 34.48 2.87
470 502 5.441718 TTGGAGCAGTATTTCCTCTTCAT 57.558 39.130 0.00 0.00 34.48 2.57
472 504 4.133078 GGAGCAGTATTTCCTCTTCATGG 58.867 47.826 0.00 0.00 0.00 3.66
473 505 3.549794 AGCAGTATTTCCTCTTCATGGC 58.450 45.455 0.00 0.00 0.00 4.40
474 506 2.620585 GCAGTATTTCCTCTTCATGGCC 59.379 50.000 0.00 0.00 0.00 5.36
475 507 3.889815 CAGTATTTCCTCTTCATGGCCA 58.110 45.455 8.56 8.56 0.00 5.36
476 508 3.881688 CAGTATTTCCTCTTCATGGCCAG 59.118 47.826 13.05 3.43 0.00 4.85
477 509 1.772836 ATTTCCTCTTCATGGCCAGC 58.227 50.000 13.05 0.00 0.00 4.85
478 510 0.677731 TTTCCTCTTCATGGCCAGCG 60.678 55.000 13.05 4.86 0.00 5.18
479 511 2.515523 CCTCTTCATGGCCAGCGG 60.516 66.667 13.05 3.15 0.00 5.52
480 512 2.270205 CTCTTCATGGCCAGCGGT 59.730 61.111 13.05 0.00 0.00 5.68
481 513 1.817099 CTCTTCATGGCCAGCGGTC 60.817 63.158 13.05 0.00 0.00 4.79
482 514 2.249413 CTCTTCATGGCCAGCGGTCT 62.249 60.000 13.05 0.00 0.00 3.85
483 515 0.975556 TCTTCATGGCCAGCGGTCTA 60.976 55.000 13.05 0.00 0.00 2.59
484 516 0.107456 CTTCATGGCCAGCGGTCTAT 59.893 55.000 13.05 0.00 0.00 1.98
521 560 0.906775 TGACCCCGTTGACCCTAATC 59.093 55.000 0.00 0.00 0.00 1.75
526 565 1.002659 CCCGTTGACCCTAATCACACA 59.997 52.381 0.00 0.00 0.00 3.72
534 573 4.780554 TGACCCTAATCACACATGAGGTAA 59.219 41.667 0.00 0.00 38.57 2.85
539 578 6.462207 CCCTAATCACACATGAGGTAAGAGAG 60.462 46.154 0.00 0.00 38.57 3.20
540 579 6.322456 CCTAATCACACATGAGGTAAGAGAGA 59.678 42.308 0.00 0.00 38.57 3.10
541 580 5.850557 ATCACACATGAGGTAAGAGAGAG 57.149 43.478 0.00 0.00 38.57 3.20
577 616 8.668510 ATGCTTAATGAAACACTAGACCATAG 57.331 34.615 0.00 0.00 0.00 2.23
654 693 5.714806 ACCGATAACATTCAGGAAACCATTT 59.285 36.000 0.00 0.00 0.00 2.32
682 721 3.476295 AACTTGTATGCTGCAATGTCG 57.524 42.857 6.36 0.00 0.00 4.35
684 723 2.009051 CTTGTATGCTGCAATGTCGGA 58.991 47.619 6.36 0.00 0.00 4.55
685 724 2.330440 TGTATGCTGCAATGTCGGAT 57.670 45.000 6.36 0.00 0.00 4.18
689 728 1.246649 TGCTGCAATGTCGGATGTTT 58.753 45.000 0.00 0.00 0.00 2.83
699 738 6.017605 GCAATGTCGGATGTTTGAGATCTTAT 60.018 38.462 0.00 0.00 0.00 1.73
764 803 6.920758 CCATAAATTTGGTCAAACGTGAGAAA 59.079 34.615 0.00 0.00 33.27 2.52
799 838 4.423732 GCAAGCCGAACATGTTAATGAAT 58.576 39.130 11.95 0.00 37.24 2.57
810 849 8.964420 AACATGTTAATGAATTGAAGTTACCG 57.036 30.769 9.97 0.00 37.24 4.02
878 917 9.608617 GATTGTTTTAGTTAGACAGCTTAAACC 57.391 33.333 0.00 0.00 35.13 3.27
886 925 7.331791 AGTTAGACAGCTTAAACCCAATAGAG 58.668 38.462 0.00 0.00 0.00 2.43
941 984 1.202770 ACACTACCCTGTCCAGCAAAC 60.203 52.381 0.00 0.00 0.00 2.93
948 991 0.317269 CTGTCCAGCAAACGCACTTG 60.317 55.000 0.00 0.00 0.00 3.16
1086 1132 0.895559 CCAAGAAGGACAAGTGGGGC 60.896 60.000 0.00 0.00 41.22 5.80
1165 1211 2.359169 CCTGAGGAGCCTGCCGTAA 61.359 63.158 0.00 0.00 0.00 3.18
1166 1212 1.153549 CTGAGGAGCCTGCCGTAAC 60.154 63.158 0.00 0.00 0.00 2.50
1167 1213 2.202756 GAGGAGCCTGCCGTAACG 60.203 66.667 0.00 0.00 0.00 3.18
1286 1332 4.796231 CCGGGAGCTGTTCGACCG 62.796 72.222 0.00 1.67 43.89 4.79
1412 1468 6.857956 TGCTATTTTGTTTGTTATATGCCGT 58.142 32.000 0.00 0.00 0.00 5.68
1413 1469 7.986562 TGCTATTTTGTTTGTTATATGCCGTA 58.013 30.769 0.00 0.00 0.00 4.02
1418 1474 8.550710 TTTTGTTTGTTATATGCCGTAGTACT 57.449 30.769 0.00 0.00 0.00 2.73
1419 1475 7.760131 TTGTTTGTTATATGCCGTAGTACTC 57.240 36.000 0.00 0.00 0.00 2.59
1420 1476 6.275335 TGTTTGTTATATGCCGTAGTACTCC 58.725 40.000 0.00 0.00 0.00 3.85
1421 1477 5.458041 TTGTTATATGCCGTAGTACTCCC 57.542 43.478 0.00 0.00 0.00 4.30
1422 1478 4.733165 TGTTATATGCCGTAGTACTCCCT 58.267 43.478 0.00 0.00 0.00 4.20
1423 1479 4.763793 TGTTATATGCCGTAGTACTCCCTC 59.236 45.833 0.00 0.00 0.00 4.30
1424 1480 2.283145 TATGCCGTAGTACTCCCTCC 57.717 55.000 0.00 0.00 0.00 4.30
1425 1481 0.822532 ATGCCGTAGTACTCCCTCCG 60.823 60.000 0.00 0.00 0.00 4.63
1426 1482 1.452833 GCCGTAGTACTCCCTCCGT 60.453 63.158 0.00 0.00 0.00 4.69
1427 1483 1.443322 GCCGTAGTACTCCCTCCGTC 61.443 65.000 0.00 0.00 0.00 4.79
1428 1484 0.817229 CCGTAGTACTCCCTCCGTCC 60.817 65.000 0.00 0.00 0.00 4.79
1429 1485 1.156645 CGTAGTACTCCCTCCGTCCG 61.157 65.000 0.00 0.00 0.00 4.79
1430 1486 0.817229 GTAGTACTCCCTCCGTCCGG 60.817 65.000 0.00 0.00 0.00 5.14
1431 1487 0.982852 TAGTACTCCCTCCGTCCGGA 60.983 60.000 0.00 0.00 42.90 5.14
1432 1488 1.379044 GTACTCCCTCCGTCCGGAA 60.379 63.158 5.23 0.00 44.66 4.30
1433 1489 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
1434 1490 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
1435 1491 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
1436 1492 1.117150 CTCCCTCCGTCCGGAAATAA 58.883 55.000 5.23 0.00 44.66 1.40
1437 1493 1.692519 CTCCCTCCGTCCGGAAATAAT 59.307 52.381 5.23 0.00 44.66 1.28
1438 1494 2.104281 CTCCCTCCGTCCGGAAATAATT 59.896 50.000 5.23 0.00 44.66 1.40
1439 1495 3.307506 TCCCTCCGTCCGGAAATAATTA 58.692 45.455 5.23 0.00 44.66 1.40
1440 1496 3.905591 TCCCTCCGTCCGGAAATAATTAT 59.094 43.478 5.23 0.00 44.66 1.28
1441 1497 4.020839 TCCCTCCGTCCGGAAATAATTATC 60.021 45.833 5.23 0.00 44.66 1.75
1442 1498 4.262721 CCCTCCGTCCGGAAATAATTATCA 60.263 45.833 5.23 0.00 44.66 2.15
1443 1499 5.488341 CCTCCGTCCGGAAATAATTATCAT 58.512 41.667 5.23 0.00 44.66 2.45
1444 1500 5.581085 CCTCCGTCCGGAAATAATTATCATC 59.419 44.000 5.23 1.00 44.66 2.92
1445 1501 6.104146 TCCGTCCGGAAATAATTATCATCA 57.896 37.500 5.23 0.00 42.05 3.07
1446 1502 6.526526 TCCGTCCGGAAATAATTATCATCAA 58.473 36.000 5.23 0.00 42.05 2.57
1447 1503 6.993308 TCCGTCCGGAAATAATTATCATCAAA 59.007 34.615 5.23 0.00 42.05 2.69
1448 1504 7.499563 TCCGTCCGGAAATAATTATCATCAAAA 59.500 33.333 5.23 0.00 42.05 2.44
1449 1505 8.296713 CCGTCCGGAAATAATTATCATCAAAAT 58.703 33.333 5.23 0.00 37.50 1.82
1513 1569 9.265862 ACATACATCCCTTTTTATCCATTTTGA 57.734 29.630 0.00 0.00 0.00 2.69
1516 1572 8.378115 ACATCCCTTTTTATCCATTTTGATGA 57.622 30.769 0.00 0.00 32.39 2.92
1517 1573 8.260114 ACATCCCTTTTTATCCATTTTGATGAC 58.740 33.333 0.00 0.00 32.39 3.06
1518 1574 7.789202 TCCCTTTTTATCCATTTTGATGACA 57.211 32.000 0.00 0.00 0.00 3.58
1519 1575 8.200024 TCCCTTTTTATCCATTTTGATGACAA 57.800 30.769 0.00 0.00 0.00 3.18
1520 1576 8.313292 TCCCTTTTTATCCATTTTGATGACAAG 58.687 33.333 0.00 0.00 37.32 3.16
1521 1577 8.096414 CCCTTTTTATCCATTTTGATGACAAGT 58.904 33.333 0.00 0.00 37.32 3.16
1528 1584 8.915871 ATCCATTTTGATGACAAGTATTTTCG 57.084 30.769 0.00 0.00 37.32 3.46
1529 1585 7.312154 TCCATTTTGATGACAAGTATTTTCGG 58.688 34.615 0.00 0.00 37.32 4.30
1530 1586 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
1531 1587 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
1532 1588 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
1533 1589 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
1534 1590 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
1535 1591 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
1536 1592 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
1537 1593 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
1538 1594 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
1539 1595 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
1540 1596 1.479730 GTATTTTCGGACGGAGGGAGT 59.520 52.381 0.00 0.00 0.00 3.85
1541 1597 1.856629 ATTTTCGGACGGAGGGAGTA 58.143 50.000 0.00 0.00 0.00 2.59
1542 1598 1.631405 TTTTCGGACGGAGGGAGTAA 58.369 50.000 0.00 0.00 0.00 2.24
1543 1599 1.856629 TTTCGGACGGAGGGAGTAAT 58.143 50.000 0.00 0.00 0.00 1.89
1544 1600 2.734755 TTCGGACGGAGGGAGTAATA 57.265 50.000 0.00 0.00 0.00 0.98
1545 1601 2.267174 TCGGACGGAGGGAGTAATAG 57.733 55.000 0.00 0.00 0.00 1.73
1546 1602 1.492176 TCGGACGGAGGGAGTAATAGT 59.508 52.381 0.00 0.00 0.00 2.12
1547 1603 2.092212 TCGGACGGAGGGAGTAATAGTT 60.092 50.000 0.00 0.00 0.00 2.24
1548 1604 2.692041 CGGACGGAGGGAGTAATAGTTT 59.308 50.000 0.00 0.00 0.00 2.66
1569 1628 4.989279 TTTTAGCATCCAAATCCTCTGC 57.011 40.909 0.00 0.00 0.00 4.26
1581 1640 2.291209 TCCTCTGCATTTGCTCCAAA 57.709 45.000 3.94 0.00 42.66 3.28
1585 1644 3.488047 CCTCTGCATTTGCTCCAAATACG 60.488 47.826 3.94 0.00 41.40 3.06
1606 1665 2.303311 GGAGGTTAAGAGTCTGGCAGTT 59.697 50.000 15.27 3.76 0.00 3.16
1625 1684 5.562113 GCAGTTGCTCGTTTGTACCTTAATT 60.562 40.000 0.00 0.00 38.21 1.40
1626 1685 5.851177 CAGTTGCTCGTTTGTACCTTAATTG 59.149 40.000 0.00 0.00 0.00 2.32
1635 1694 6.087555 CGTTTGTACCTTAATTGACATGTTGC 59.912 38.462 0.00 0.00 0.00 4.17
1652 1717 6.814644 ACATGTTGCAAGACAAATTGGATATG 59.185 34.615 0.00 0.00 40.82 1.78
1653 1718 5.170021 TGTTGCAAGACAAATTGGATATGC 58.830 37.500 0.00 3.44 40.82 3.14
1654 1719 5.170021 GTTGCAAGACAAATTGGATATGCA 58.830 37.500 0.00 11.78 40.82 3.96
1655 1720 4.746729 TGCAAGACAAATTGGATATGCAC 58.253 39.130 11.78 0.00 37.61 4.57
1656 1721 4.463539 TGCAAGACAAATTGGATATGCACT 59.536 37.500 11.78 0.00 37.61 4.40
1657 1722 5.047164 TGCAAGACAAATTGGATATGCACTT 60.047 36.000 11.78 0.00 37.61 3.16
1658 1723 5.290158 GCAAGACAAATTGGATATGCACTTG 59.710 40.000 14.67 14.67 36.16 3.16
1661 1726 6.624423 AGACAAATTGGATATGCACTTGTTC 58.376 36.000 18.95 13.91 0.00 3.18
1664 1729 7.092716 ACAAATTGGATATGCACTTGTTCTTC 58.907 34.615 14.59 0.00 0.00 2.87
1665 1730 6.839124 AATTGGATATGCACTTGTTCTTCA 57.161 33.333 0.00 0.00 0.00 3.02
1666 1731 5.885230 TTGGATATGCACTTGTTCTTCAG 57.115 39.130 0.00 0.00 0.00 3.02
1671 1736 6.989169 GGATATGCACTTGTTCTTCAGACTAT 59.011 38.462 0.00 0.00 0.00 2.12
1673 1738 5.474578 TGCACTTGTTCTTCAGACTATCT 57.525 39.130 0.00 0.00 0.00 1.98
1676 1741 5.698545 GCACTTGTTCTTCAGACTATCTTGT 59.301 40.000 0.00 0.00 0.00 3.16
1683 1748 7.656137 TGTTCTTCAGACTATCTTGTTAACCAC 59.344 37.037 2.48 0.00 0.00 4.16
1689 1754 8.644216 TCAGACTATCTTGTTAACCACTTTGTA 58.356 33.333 2.48 0.00 0.00 2.41
1709 1774 5.478407 TGTATATGTCACACTGTCACCTTG 58.522 41.667 0.00 0.00 0.00 3.61
1753 1818 4.570772 GGCTATGTACAATACAGTGGTGTG 59.429 45.833 0.00 0.00 42.77 3.82
1782 1848 1.757118 GTCCTGTTCGATCCCTGATCA 59.243 52.381 0.00 0.00 38.84 2.92
1785 1851 2.608998 CCTGTTCGATCCCTGATCATCG 60.609 54.545 9.63 9.63 42.72 3.84
1874 2101 9.522804 GGTAATCATTTGACGGCATTTAAAATA 57.477 29.630 0.00 0.00 0.00 1.40
1918 2145 9.784531 ATACAAGTGATATTCCCTTATCTTGTG 57.215 33.333 14.60 1.93 33.06 3.33
1920 2147 7.770897 ACAAGTGATATTCCCTTATCTTGTGAC 59.229 37.037 0.00 0.00 31.25 3.67
2057 2285 9.553064 AATTCACTCTATTATGTCATTCAGTCC 57.447 33.333 0.00 0.00 0.00 3.85
2069 2297 5.704978 TGTCATTCAGTCCGATGAAATGAAA 59.295 36.000 0.00 0.00 42.21 2.69
2073 2301 5.565592 TCAGTCCGATGAAATGAAATTGG 57.434 39.130 0.00 0.00 36.10 3.16
2163 2393 3.926616 TGGCTTTTTGGTTCGTTTGAAA 58.073 36.364 0.00 0.00 35.46 2.69
2191 2421 8.040132 AGGCTGATTCATTCTACTCTATTATGC 58.960 37.037 0.00 0.00 0.00 3.14
2260 2490 4.864704 TCCAAAATGTAAGTTTCAGCCC 57.135 40.909 0.00 0.00 27.89 5.19
2299 2529 0.742281 ACTCATGTCATCGCACAGGC 60.742 55.000 0.00 0.00 0.00 4.85
2333 2563 5.171476 GTCACTGACACATATACTGCTTGT 58.829 41.667 4.17 0.00 32.09 3.16
2466 2696 1.524355 CAGCTTATGTCGGCAATCTCG 59.476 52.381 0.00 0.00 0.00 4.04
2615 2845 1.586123 GAATCGCTCGAGAAAGCTGTC 59.414 52.381 18.75 0.00 40.23 3.51
2660 2890 2.501723 GGGAAGACCTGTGAAGATAGCA 59.498 50.000 0.00 0.00 35.85 3.49
2913 3162 4.549458 CACAGTTTCAATGGCTTTGTAGG 58.451 43.478 12.22 3.30 36.65 3.18
3015 3356 1.489481 CAGGGGATGTCTGTAGAGCA 58.511 55.000 0.00 0.00 0.00 4.26
3017 3358 0.755686 GGGGATGTCTGTAGAGCAGG 59.244 60.000 0.00 0.00 45.08 4.85
3018 3359 0.755686 GGGATGTCTGTAGAGCAGGG 59.244 60.000 0.00 0.00 45.08 4.45
3049 3709 7.789273 TGTTTTTCGGTTATTGTTGAGAGTA 57.211 32.000 0.00 0.00 0.00 2.59
3097 3757 7.092623 ACAATACCTGTAACCATTCATGTAGGA 60.093 37.037 7.63 0.00 36.10 2.94
3121 3781 4.496341 GGCATATCGTGTCAACAAGGATTG 60.496 45.833 4.03 0.00 41.79 2.67
3181 3841 7.393234 TGTTGGTTATGCTATATTTATCCTGGC 59.607 37.037 0.00 0.00 0.00 4.85
3191 3851 1.410004 TTATCCTGGCGGTCCTAGTG 58.590 55.000 0.00 0.00 0.00 2.74
3232 3892 0.320683 TGCATTGGAGACCACTGTCG 60.321 55.000 9.24 0.00 46.51 4.35
3354 4014 7.596995 CGCTCTTATATTTCTTTACAGAGGGAG 59.403 40.741 4.76 0.00 40.49 4.30
3397 4057 2.973224 CAGTTTGCGTGTTATTGTGAGC 59.027 45.455 0.00 0.00 0.00 4.26
3436 4096 4.102524 TGACTAAAAAGGAAGAGGTGCTCA 59.897 41.667 0.00 0.00 32.06 4.26
3439 4099 0.767375 AAAGGAAGAGGTGCTCAGCA 59.233 50.000 0.00 0.00 35.60 4.41
3479 4139 8.855261 GCTACGGAGCTTCAGTATTCTGACTC 62.855 50.000 13.91 6.50 43.46 3.36
3513 4173 4.489771 CCCCCTCCACGGTGATGC 62.490 72.222 10.28 0.00 0.00 3.91
3570 4230 6.454795 ACAATTGGTGGCTACATTTTTACAG 58.545 36.000 10.83 0.00 0.00 2.74
3581 4241 7.201705 GGCTACATTTTTACAGGTCTATCAACC 60.202 40.741 0.00 0.00 39.80 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 70 2.080693 TCTCGTGTTGCACAAAACAGT 58.919 42.857 4.66 0.00 40.60 3.55
69 71 2.823196 TCTCGTGTTGCACAAAACAG 57.177 45.000 4.66 1.85 40.60 3.16
103 105 4.555262 ACCATTAAAAAGTGTTCATGGCG 58.445 39.130 4.67 0.00 35.52 5.69
104 106 9.646427 TTATTACCATTAAAAAGTGTTCATGGC 57.354 29.630 4.67 0.00 35.52 4.40
174 176 6.400515 GCGTTTCAAAAAGATGTGTGTGAAAA 60.401 34.615 0.00 0.00 36.90 2.29
184 186 5.947503 TGTTCTTGCGTTTCAAAAAGATG 57.052 34.783 0.00 0.00 33.65 2.90
186 188 5.406649 ACATGTTCTTGCGTTTCAAAAAGA 58.593 33.333 0.00 0.00 33.65 2.52
201 203 1.401409 CGCGCCAATGAAACATGTTCT 60.401 47.619 12.39 2.19 0.00 3.01
206 208 0.595588 TGTTCGCGCCAATGAAACAT 59.404 45.000 0.00 0.00 0.00 2.71
208 210 1.386412 CAATGTTCGCGCCAATGAAAC 59.614 47.619 0.00 0.00 0.00 2.78
217 219 3.521406 CTTTCAAAAACAATGTTCGCGC 58.479 40.909 0.00 0.00 0.00 6.86
221 223 6.601741 TGATGGCTTTCAAAAACAATGTTC 57.398 33.333 0.00 0.00 0.00 3.18
269 273 9.612066 ACTTTGAAAATGTTAACATGGTGAAAT 57.388 25.926 21.46 1.35 36.56 2.17
273 277 8.489559 CATGACTTTGAAAATGTTAACATGGTG 58.510 33.333 21.46 10.14 33.72 4.17
277 281 9.612066 AAACCATGACTTTGAAAATGTTAACAT 57.388 25.926 15.47 15.47 34.00 2.71
341 345 9.719355 GATGCCCTAATTTCCTTTTTCTTTTTA 57.281 29.630 0.00 0.00 0.00 1.52
346 350 7.841222 ACATAGATGCCCTAATTTCCTTTTTCT 59.159 33.333 0.00 0.00 0.00 2.52
347 351 7.922811 CACATAGATGCCCTAATTTCCTTTTTC 59.077 37.037 0.00 0.00 0.00 2.29
352 356 5.132648 TGACACATAGATGCCCTAATTTCCT 59.867 40.000 0.00 0.00 0.00 3.36
353 357 5.376625 TGACACATAGATGCCCTAATTTCC 58.623 41.667 0.00 0.00 0.00 3.13
354 358 6.712095 TGATGACACATAGATGCCCTAATTTC 59.288 38.462 0.00 0.00 0.00 2.17
363 367 3.558829 CCACACTGATGACACATAGATGC 59.441 47.826 0.00 0.00 0.00 3.91
365 369 4.033009 TCCCACACTGATGACACATAGAT 58.967 43.478 0.00 0.00 0.00 1.98
368 372 3.195610 GTCTCCCACACTGATGACACATA 59.804 47.826 0.00 0.00 0.00 2.29
370 374 1.344438 GTCTCCCACACTGATGACACA 59.656 52.381 0.00 0.00 0.00 3.72
371 375 1.338200 GGTCTCCCACACTGATGACAC 60.338 57.143 0.00 0.00 0.00 3.67
392 396 1.463674 GTTGGCCCAGTAGGAATGTG 58.536 55.000 0.00 0.00 38.24 3.21
393 397 0.331616 GGTTGGCCCAGTAGGAATGT 59.668 55.000 0.00 0.00 38.24 2.71
394 398 0.331278 TGGTTGGCCCAGTAGGAATG 59.669 55.000 0.00 0.00 38.72 2.67
395 399 2.799576 TGGTTGGCCCAGTAGGAAT 58.200 52.632 0.00 0.00 38.72 3.01
396 400 4.341199 TGGTTGGCCCAGTAGGAA 57.659 55.556 0.00 0.00 38.72 3.36
413 417 2.033049 CGCGCCTATACCTCGCTTATAT 59.967 50.000 0.00 0.00 45.87 0.86
449 481 4.384537 CCATGAAGAGGAAATACTGCTCCA 60.385 45.833 0.00 0.00 43.37 3.86
451 483 3.563390 GCCATGAAGAGGAAATACTGCTC 59.437 47.826 0.00 0.00 42.69 4.26
454 486 3.881688 CTGGCCATGAAGAGGAAATACTG 59.118 47.826 5.51 0.00 0.00 2.74
463 495 1.817099 GACCGCTGGCCATGAAGAG 60.817 63.158 5.51 0.00 0.00 2.85
466 498 0.546122 AATAGACCGCTGGCCATGAA 59.454 50.000 5.51 0.00 0.00 2.57
467 499 0.106708 GAATAGACCGCTGGCCATGA 59.893 55.000 5.51 0.00 0.00 3.07
468 500 0.886490 GGAATAGACCGCTGGCCATG 60.886 60.000 5.51 1.03 0.00 3.66
470 502 1.686325 GAGGAATAGACCGCTGGCCA 61.686 60.000 4.71 4.71 34.73 5.36
472 504 1.069935 GGAGGAATAGACCGCTGGC 59.930 63.158 0.00 0.00 34.73 4.85
473 505 0.676736 GAGGAGGAATAGACCGCTGG 59.323 60.000 0.00 0.00 34.73 4.85
474 506 1.403814 TGAGGAGGAATAGACCGCTG 58.596 55.000 0.00 0.00 34.73 5.18
475 507 1.967066 CATGAGGAGGAATAGACCGCT 59.033 52.381 0.00 0.00 34.73 5.52
476 508 1.606737 GCATGAGGAGGAATAGACCGC 60.607 57.143 0.00 0.00 34.73 5.68
477 509 1.001406 GGCATGAGGAGGAATAGACCG 59.999 57.143 0.00 0.00 34.73 4.79
478 510 1.349357 GGGCATGAGGAGGAATAGACC 59.651 57.143 0.00 0.00 0.00 3.85
479 511 2.050144 TGGGCATGAGGAGGAATAGAC 58.950 52.381 0.00 0.00 0.00 2.59
480 512 2.494888 TGGGCATGAGGAGGAATAGA 57.505 50.000 0.00 0.00 0.00 1.98
481 513 2.374504 ACATGGGCATGAGGAGGAATAG 59.625 50.000 0.00 0.00 41.20 1.73
482 514 2.107031 CACATGGGCATGAGGAGGAATA 59.893 50.000 0.00 0.00 41.20 1.75
483 515 1.133575 CACATGGGCATGAGGAGGAAT 60.134 52.381 0.00 0.00 41.20 3.01
484 516 0.256752 CACATGGGCATGAGGAGGAA 59.743 55.000 0.00 0.00 41.20 3.36
521 560 5.651387 TTCTCTCTCTTACCTCATGTGTG 57.349 43.478 0.00 0.00 0.00 3.82
568 607 2.775960 TCTCGGACACTCCTATGGTCTA 59.224 50.000 0.00 0.00 33.30 2.59
577 616 3.587797 TGTAACATTCTCGGACACTCC 57.412 47.619 0.00 0.00 0.00 3.85
654 693 3.009723 GCAGCATACAAGTTTCCTGCTA 58.990 45.455 0.00 0.00 41.01 3.49
699 738 9.468532 CATTCATCGTCTGATCTTATTTAGACA 57.531 33.333 8.75 0.00 39.52 3.41
708 747 8.899427 AATATCAACATTCATCGTCTGATCTT 57.101 30.769 0.00 0.00 32.72 2.40
739 778 6.007936 TCTCACGTTTGACCAAATTTATGG 57.992 37.500 0.00 0.00 46.38 2.74
740 779 7.647715 ACTTTCTCACGTTTGACCAAATTTATG 59.352 33.333 0.00 0.00 32.36 1.90
764 803 1.244816 GGCTTGCCTTCCGTTAAACT 58.755 50.000 4.11 0.00 0.00 2.66
787 826 9.702726 CTACGGTAACTTCAATTCATTAACATG 57.297 33.333 0.00 0.00 0.00 3.21
799 838 6.207221 TGACACTATCACTACGGTAACTTCAA 59.793 38.462 0.00 0.00 29.99 2.69
839 878 4.685169 AAAACAATCACTATCACTGCGG 57.315 40.909 0.00 0.00 0.00 5.69
878 917 4.778213 TGAAATCTCCACCCTCTATTGG 57.222 45.455 0.00 0.00 0.00 3.16
971 1017 1.486726 CCCTAATTCTTCCGGCTCTGT 59.513 52.381 0.00 0.00 0.00 3.41
1386 1432 6.972328 CGGCATATAACAAACAAAATAGCAGT 59.028 34.615 0.00 0.00 0.00 4.40
1394 1440 7.278424 GGAGTACTACGGCATATAACAAACAAA 59.722 37.037 0.00 0.00 0.00 2.83
1404 1460 2.805194 GGAGGGAGTACTACGGCATAT 58.195 52.381 0.00 0.00 0.00 1.78
1412 1468 0.982852 TCCGGACGGAGGGAGTACTA 60.983 60.000 9.76 0.00 39.76 1.82
1413 1469 1.856539 TTCCGGACGGAGGGAGTACT 61.857 60.000 13.64 0.00 46.06 2.73
1417 1473 1.117150 TTATTTCCGGACGGAGGGAG 58.883 55.000 13.64 0.00 46.06 4.30
1418 1474 1.797320 ATTATTTCCGGACGGAGGGA 58.203 50.000 13.64 4.95 46.06 4.20
1419 1475 2.632987 AATTATTTCCGGACGGAGGG 57.367 50.000 13.64 0.00 46.06 4.30
1420 1476 4.890088 TGATAATTATTTCCGGACGGAGG 58.110 43.478 13.64 0.00 46.06 4.30
1421 1477 6.163476 TGATGATAATTATTTCCGGACGGAG 58.837 40.000 13.64 0.00 46.06 4.63
1422 1478 6.104146 TGATGATAATTATTTCCGGACGGA 57.896 37.500 1.83 9.76 43.52 4.69
1423 1479 6.795098 TTGATGATAATTATTTCCGGACGG 57.205 37.500 1.83 3.96 0.00 4.79
1487 1543 9.265862 TCAAAATGGATAAAAAGGGATGTATGT 57.734 29.630 0.00 0.00 0.00 2.29
1490 1546 9.486123 TCATCAAAATGGATAAAAAGGGATGTA 57.514 29.630 0.00 0.00 33.42 2.29
1491 1547 8.260114 GTCATCAAAATGGATAAAAAGGGATGT 58.740 33.333 0.00 0.00 33.42 3.06
1492 1548 8.259411 TGTCATCAAAATGGATAAAAAGGGATG 58.741 33.333 0.00 0.00 33.42 3.51
1493 1549 8.378115 TGTCATCAAAATGGATAAAAAGGGAT 57.622 30.769 0.00 0.00 33.42 3.85
1494 1550 7.789202 TGTCATCAAAATGGATAAAAAGGGA 57.211 32.000 0.00 0.00 33.42 4.20
1495 1551 8.096414 ACTTGTCATCAAAATGGATAAAAAGGG 58.904 33.333 0.00 0.00 33.42 3.95
1503 1559 7.975616 CCGAAAATACTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 33.42 3.41
1504 1560 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
1505 1561 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
1506 1562 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
1507 1563 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
1508 1564 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
1509 1565 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
1510 1566 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
1511 1567 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
1512 1568 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
1513 1569 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
1514 1570 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
1515 1571 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
1516 1572 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
1517 1573 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
1518 1574 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
1519 1575 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
1520 1576 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
1521 1577 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
1522 1578 1.856629 TACTCCCTCCGTCCGAAAAT 58.143 50.000 0.00 0.00 0.00 1.82
1523 1579 1.631405 TTACTCCCTCCGTCCGAAAA 58.369 50.000 0.00 0.00 0.00 2.29
1524 1580 1.856629 ATTACTCCCTCCGTCCGAAA 58.143 50.000 0.00 0.00 0.00 3.46
1525 1581 2.092212 ACTATTACTCCCTCCGTCCGAA 60.092 50.000 0.00 0.00 0.00 4.30
1526 1582 1.492176 ACTATTACTCCCTCCGTCCGA 59.508 52.381 0.00 0.00 0.00 4.55
1527 1583 1.978454 ACTATTACTCCCTCCGTCCG 58.022 55.000 0.00 0.00 0.00 4.79
1528 1584 4.750021 AAAACTATTACTCCCTCCGTCC 57.250 45.455 0.00 0.00 0.00 4.79
1547 1603 4.771577 TGCAGAGGATTTGGATGCTAAAAA 59.228 37.500 0.00 0.00 37.76 1.94
1548 1604 4.343231 TGCAGAGGATTTGGATGCTAAAA 58.657 39.130 0.00 0.00 37.76 1.52
1581 1640 2.694109 GCCAGACTCTTAACCTCCGTAT 59.306 50.000 0.00 0.00 0.00 3.06
1585 1644 1.903183 ACTGCCAGACTCTTAACCTCC 59.097 52.381 0.00 0.00 0.00 4.30
1597 1656 0.463654 ACAAACGAGCAACTGCCAGA 60.464 50.000 0.00 0.00 43.38 3.86
1606 1665 5.057819 TGTCAATTAAGGTACAAACGAGCA 58.942 37.500 0.00 0.00 0.00 4.26
1625 1684 4.099113 TCCAATTTGTCTTGCAACATGTCA 59.901 37.500 0.00 0.00 36.72 3.58
1626 1685 4.619973 TCCAATTTGTCTTGCAACATGTC 58.380 39.130 0.00 0.00 36.72 3.06
1635 1694 6.392354 ACAAGTGCATATCCAATTTGTCTTG 58.608 36.000 0.00 0.00 34.87 3.02
1652 1717 5.698545 ACAAGATAGTCTGAAGAACAAGTGC 59.301 40.000 0.00 0.00 0.00 4.40
1653 1718 7.721286 AACAAGATAGTCTGAAGAACAAGTG 57.279 36.000 0.00 0.00 0.00 3.16
1654 1719 9.262358 GTTAACAAGATAGTCTGAAGAACAAGT 57.738 33.333 0.00 0.00 0.00 3.16
1655 1720 8.713271 GGTTAACAAGATAGTCTGAAGAACAAG 58.287 37.037 8.10 0.00 0.00 3.16
1656 1721 8.208224 TGGTTAACAAGATAGTCTGAAGAACAA 58.792 33.333 8.10 0.00 0.00 2.83
1657 1722 7.656137 GTGGTTAACAAGATAGTCTGAAGAACA 59.344 37.037 8.10 0.00 0.00 3.18
1658 1723 7.873505 AGTGGTTAACAAGATAGTCTGAAGAAC 59.126 37.037 8.10 0.00 0.00 3.01
1661 1726 8.499162 CAAAGTGGTTAACAAGATAGTCTGAAG 58.501 37.037 8.10 0.00 0.00 3.02
1664 1729 7.730364 ACAAAGTGGTTAACAAGATAGTCTG 57.270 36.000 8.10 0.00 0.00 3.51
1671 1736 8.995220 GTGACATATACAAAGTGGTTAACAAGA 58.005 33.333 8.10 0.00 0.00 3.02
1673 1738 8.561212 GTGTGACATATACAAAGTGGTTAACAA 58.439 33.333 8.10 0.00 0.00 2.83
1676 1741 7.934665 ACAGTGTGACATATACAAAGTGGTTAA 59.065 33.333 0.00 0.00 32.14 2.01
1683 1748 6.166279 AGGTGACAGTGTGACATATACAAAG 58.834 40.000 14.98 0.00 0.00 2.77
1689 1754 4.623932 ACAAGGTGACAGTGTGACATAT 57.376 40.909 14.98 0.00 30.55 1.78
1709 1774 4.610945 CCCATTCAACAAACTGACAGAAC 58.389 43.478 10.08 0.00 0.00 3.01
1753 1818 1.658994 TCGAACAGGACCAAACACAC 58.341 50.000 0.00 0.00 0.00 3.82
1782 1848 4.225267 AGGGAGTCCACAACTAAAATCGAT 59.775 41.667 12.30 0.00 38.74 3.59
1785 1851 5.564848 GCAAAGGGAGTCCACAACTAAAATC 60.565 44.000 12.30 0.00 38.74 2.17
1980 2207 7.041984 GCCAACTAGCTATATGTTCCAACTTAC 60.042 40.741 0.00 0.00 0.00 2.34
1981 2208 6.990349 GCCAACTAGCTATATGTTCCAACTTA 59.010 38.462 0.00 0.00 0.00 2.24
2057 2285 6.650239 TTTCATGCCAATTTCATTTCATCG 57.350 33.333 0.00 0.00 0.00 3.84
2069 2297 4.851843 TCTCACAGAGATTTCATGCCAAT 58.148 39.130 0.00 0.00 33.35 3.16
2119 2347 9.542462 GCCAAACAGTTATATGTATCTGACTTA 57.458 33.333 12.86 0.00 33.67 2.24
2128 2356 8.184304 ACCAAAAAGCCAAACAGTTATATGTA 57.816 30.769 0.00 0.00 31.70 2.29
2139 2367 3.680458 TCAAACGAACCAAAAAGCCAAAC 59.320 39.130 0.00 0.00 0.00 2.93
2151 2381 3.430333 TCAGCCTTTTTCAAACGAACC 57.570 42.857 0.00 0.00 0.00 3.62
2191 2421 4.380233 GGCAACTTCATCTGACTGAAATGG 60.380 45.833 0.00 2.21 34.86 3.16
2260 2490 7.812309 TGAGTAAGACACAAATCAATAGACG 57.188 36.000 0.00 0.00 0.00 4.18
2299 2529 2.480419 GTGTCAGTGACAAGGGAATTCG 59.520 50.000 27.03 0.00 44.49 3.34
2333 2563 6.469410 CCTCATAAACCTGTTACCACTGTAA 58.531 40.000 0.00 0.00 34.60 2.41
2466 2696 1.667724 CTTCTCGGTGATGTTCCATGC 59.332 52.381 0.00 0.00 0.00 4.06
2615 2845 3.003068 GCAGTTCAGATTGATTCATCCCG 59.997 47.826 0.00 0.00 0.00 5.14
2660 2890 3.590630 AGGCCCTGTTGATGATAGCATAT 59.409 43.478 0.00 0.00 34.11 1.78
2898 3147 4.202461 ACAACTCTCCTACAAAGCCATTGA 60.202 41.667 6.83 0.00 41.85 2.57
2913 3162 4.694339 ACAGACAGGTTTACACAACTCTC 58.306 43.478 0.00 0.00 0.00 3.20
3015 3356 3.732048 ACCGAAAAACATCATACCCCT 57.268 42.857 0.00 0.00 0.00 4.79
3017 3358 6.859017 ACAATAACCGAAAAACATCATACCC 58.141 36.000 0.00 0.00 0.00 3.69
3018 3359 8.024285 TCAACAATAACCGAAAAACATCATACC 58.976 33.333 0.00 0.00 0.00 2.73
3049 3709 5.129980 TGTCAAAGTGGAGCATCAGAGATAT 59.870 40.000 0.00 0.00 36.25 1.63
3097 3757 2.236146 TCCTTGTTGACACGATATGCCT 59.764 45.455 0.00 0.00 0.00 4.75
3157 3817 6.597672 CGCCAGGATAAATATAGCATAACCAA 59.402 38.462 0.00 0.00 0.00 3.67
3191 3851 6.093404 GCACTTGCCTAATTTTCTTTCCTAC 58.907 40.000 0.00 0.00 34.31 3.18
3205 3865 1.340017 GGTCTCCAATGCACTTGCCTA 60.340 52.381 0.00 0.00 41.18 3.93
3251 3911 7.372260 AGTAGTTCTTAGCTTCATGATCCAT 57.628 36.000 0.00 0.00 0.00 3.41
3259 3919 4.707448 CAGAGGGAGTAGTTCTTAGCTTCA 59.293 45.833 0.00 0.00 0.00 3.02
3329 3989 8.425703 ACTCCCTCTGTAAAGAAATATAAGAGC 58.574 37.037 0.00 0.00 0.00 4.09
3347 4007 6.732862 ACCTCAAATGCATATATACTCCCTCT 59.267 38.462 0.00 0.00 0.00 3.69
3354 4014 8.783833 ACTGATCACCTCAAATGCATATATAC 57.216 34.615 0.00 0.00 32.14 1.47
3570 4230 3.490078 CGAGCAGAGAAGGTTGATAGACC 60.490 52.174 0.00 0.00 40.11 3.85
3581 4241 1.710013 TTAAACGGCGAGCAGAGAAG 58.290 50.000 16.62 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.