Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	3,707,484	+GA :: IS3 (+) +4 bp	coding (219‑222/1608 nt)	dppA ←	dipeptide ABC transporter periplasmic binding protein

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	315229 =	NA (NA)	29 (0.960) +TC	27/482	0.2	100%	noncoding (1/1255 nt)	IS3	repeat region
	?	NC_000913	= 3707487	0 (0.000)					coding (219/1608 nt)	dppA	dipeptide ABC transporter periplasmic binding protein
*	?	NC_000913	= 2171428	NA (NA)	24 (0.790)	23/486	0.3	100%	noncoding (1258/1258 nt)	IS3	repeat region
	?	NC_000913	3707484 =	0 (0.000)					coding (222/1608 nt)	dppA	dipeptide ABC transporter periplasmic binding protein

AAGGTTGCTGCTACGATAATGCCTGCGTGGAAAGCTTCTTTCATTCGCTGAAAGTGGAATGTATCCATGGAGAACACTTTATCAGCCGGGAAATAATGCGGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2171193‑2171428 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGCCTGAACACTTGCTGCGACGGTCATAGCCACCAGGCTGAGACCAAGCTTCAGCATCCCTGACTTTTTCAAGGAAATACGCATTATTCTGCTCCAATTGTGATGTT  >  NC_000913/3707484‑3707728                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    aaggtgggtgcgaaGATAATGCCCGCGTGGAAAGCTGCTTTCAGGCGCGGAAAGTGGAAAGTATCCATGGAGAACACTTTATCAGCGGGGAAAGAATGCGGGCAACGGTGGTTAATTATATCGAATGTGATTACAAGCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTTAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGGCCATATTACGTGGGTAGTATCACACTTCGGTGGTGCC                                                                                                                                                                                                                                         <  2:293500/237‑1                           GTGGAAAGCTTCTTTCATTCGCTGAAAGTGGAATGTATCCATGGAGAACACTTTATCAGCCGGGAAATAATGCGGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTT                                                                                                                                                                                                                 >  1:113733/1‑249                           GTGGAAAGCTTCTTTCATTCGCTGAAAGTGGAATGTATCCATGGAGAACACTTTATCAGCCGGGAAATAATGCGGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTT                                                                                                                                                                                                                 <  2:113733/249‑1                                                     AGTGGAATGTATCCATGGAGAACACTTTATCAGCCGGGAACTAATGCGGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGAACACACTTCGGTGGTGACGATTTTCAATTCAACCAGACGGTTATAAAGCGGGTCGGAAGAGGCGTCAa                                                                                                                                                                                       >  1:156627/1‑248                                                                                    AGCCGGGAAATAATGCGGGCACCGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGGCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGAAGGTTATAAAGCGGGACGGAAGAGGCGGCATCGGTGGTGCCGGAGGTAAACAGCTCCGGGTTA                                                                                                                                                       >  2:273552/1‑250                                                                                       CGGGAAATAATGCGGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGGGCCGATTTTAAATTCAACCAGACGGGTATAAAGCGGGACGGAAGAGGCGTCATAGGGGGTGCCGGAGGTAAACAGCTGCGGGTTAAACC                                                                                                                                                   >  2:218386/1‑251                                                                                                          CGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGCAAACAAGAACCTCGCTTTGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTTAATTCAACCAGCAGGTTATAAAGCGGGACGGGAGAGGCGGCATAGGGGGTGCCGGAGGTACACAGCTGCGGGTTAAACACTTCCGGAGTACCTTCTGg                                                                                                                                >  2:148224/1‑250                                                                                                                     TATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCTGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACC                                                                                                                      <  1:209022/250‑1                                                                                                                            AATGTGATTACAATCGGTGGCGGCGGCCCAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTT                                                                                                             >  1:261305/1‑251                                                                                                                               GTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGC                                                                                                          <  2:127450/251‑1                                                                                                                                 GATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGGAAACAAGAACCTCGCTTAGGCCTGTGGCCCTATTACGGGGGTAGGGTCACACTTCGGTGGTGACGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGGCCTAGGTGGTGCCGGAGGGAAACAGATGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑CAGTTTTAGCCc                                                                                                        >  2:18571/1‑250                                                                                                                                 GATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGCC                                                                                                         <  1:231661/250‑1                                                                                                                                     ACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAATAACCTCGCTTAGGCCTGAGTCCATATTACGTGGGTAGGATCACACGTCGGTGGTGGCGATGGTAAATTCAACCAGACGGTTATAAAGCGGGACGGAATAGGCGGCATAGGTGGTGCCTGTGGTTTACAGCTGCGGTTTAAGCCCTTCCGGATGTCCTTCTGAGCAATAAACCA‑GAGTTTTAGCCTGAAC                                                                                                    <  1:25661/251‑1                                                                                                                                     ACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCCTATTACGTGGGTAGGATCACAATTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCCTAGGTGGGGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAACTCCTTCTGGGCACTAAACCAAGAGTTTT‑GCCTGgac                                                                                                    >  2:241993/1‑248                                                                                                                                                           TTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGCCTGAACACTTGCTGCGACGGTCATAGCC                                                                              >  1:70801/1‑251                                                                                                                                                                   GCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGCCTGAACACTTGCTGCGACGGTCATAGCCACCAGGCT                                                                      <  2:70801/251‑1                                                                                                                                                                      GCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGCCTGAACACTTGCTGCGACGGTCATAGCCACCAGGCTGAG                                                                   <  1:67840/251‑1                                                                                                                                                                                                  GAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGCCTGAACACTTGCTGCGACGGTCATAGCCACCAGGCTGAGACCAAGCTTCAGCATCCCTGACTTTTTC                                       <  1:218386/251‑1                                                                                                                                                                                                                   GTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGC                                                                                                          <  1:83590/167‑1                                                                                                                                                                                                                   GTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGC                                                                                                          >  2:83590/1‑167                                                                                                                                                                                                                       aCATATGACGTGGGTGGGATCACACTTCGGTGGTGCCGAATTTAAATTCAACCAGACTGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTTCCGGAAGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATACTTCTGAGCAATAAACCA‑GAGTTTTAGCCTGAACACTTGCTGCGACGGTCATAGCCACCACGCTGAGTCAAATCGTCAGGATCCCTGACTTTTTCAAGGAAATACGCATTATTCT                   <  2:75627/249‑1                                                                                                                                                                                                                         ATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGCCTGAACACTTGCTGCGACGGTCATAGCCACCAGGCTGAGACCAAGCTTCAGCATCCCTGACTTTTTCAAGGAAATACGCATTATTCTGCT                <  2:69686/251‑1                                                                                                                                                                                                                                       GGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGCCTGAACACTTGCTGCGACGGTCATAGCCACCAGGCTGAGACCAAGCTTCAGCATCCCTGACTTTTTCAAGGAAATACGCATTATTCTGCTCCAATTGTGATGTT  >  2:39533/1‑251                                                                                                                                                                                                                                       GGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGAAGGAAGAGGCGGCATAGGTGGTGCCGGAGGTAAACAGCAGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGCCTGAACACTTGCTGCGACGGTCATAGCCACCAGGCTGAGACCAAGCTTCAGCATCCCTGACTTTTTCAAGGAAATACGCATTATTCTGCTCCAATTGTGATGTT  <  2:212434/251‑1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    AAGGTTGCTGCTACGATAATGCCTGCGTGGAAAGCTTCTTTCATTCGCTGAAAGTGGAATGTATCCATGGAGAACACTTTATCAGCCGGGAAATAATGCGGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/2171193‑2171428 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGTGGTGCCGGAGGTAAACAGCTGCGGGTTAAACCCTTCCGGAGATCCTTCTGAGCAATAAACCA‑GAGTTTTAGCCTGAACACTTGCTGCGACGGTCATAGCCACCAGGCTGAGACCAAGCTTCAGCATCCCTGACTTTTTCAAGGAAATACGCATTATTCTGCTCCAATTGTGATGTT  >  NC_000913/3707484‑3707728

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.