Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_007779	3,746,911	Δ1,199 bp		insH	insH

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_007779	3746911–3748105	3748109	5–1199	49 [0]	[0] 48	insH	insH

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_007779	= 3746910	0 (0.000)	46 (1.030)	37/192	0.2	100%	intergenic (‑508/‑69)	mdtL/insH	multidrug efflux system protein/IS5 element protein
	?	NC_007779	3748110 =	0 (0.000)					intergenic (+151/+961)	insH/tnaA	IS5 element protein/tryptophanase/L‑cysteine desulfhydrase, PLP‑dependent

AAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCT  >  NC_007779/3748013‑3748208                                                                                                  |                                                                                                   cgcccgccgtgggagttatcaatcttaaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGaa                                                                                                 >  1:1023730‑M2/98‑101 (MQ=255)      gccgtgggagttntnnnnnttnaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACca                                                                                            >  4:102225‑M2/93‑101 (MQ=255)       ccgtgggagttatcaatcttaaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACcag                                                                                           <  1:31805‑M2/10‑1 (MQ=255)       ccgtgggagttatcaatcttaaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACcag                                                                                           <  1:887484‑M2/10‑1 (MQ=255)         gtgggagttatcaatcttaaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACcagca                                                                                         >  1:568212‑M2/90‑101 (MQ=255)         gtgggagttatcaatcttaaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACcagca                                                                                         >  1:302025‑M2/90‑101 (MQ=255)          tgggagttatcaatcttaaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACcagcag                                                                                        <  2:35577‑M2/13‑1 (MQ=255)           gggagttatcaatcttaaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAgg                                                                                       <  1:536882‑M2/14‑1 (MQ=255)               gttatcaatcttaaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCaaa                                                                                   >  3:363712‑M2/84‑101 (MQ=255)               gttatcaatcttaaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCaaa                                                                                   >  3:409424‑M2/84‑101 (MQ=255)                     aatcttaaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGa                                                                             <  3:594148‑M2/24‑1 (MQ=255)                     aatcttaaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGa                                                                             >  1:1394063‑M2/78‑101 (MQ=255)                           aaacaggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGc                                                                       >  3:1000395‑M2/72‑101 (MQ=255)                              caggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGt                                                                    >  3:607139‑M2/69‑101 (MQ=255)                               aggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTg                                                                   <  1:145672‑M2/34‑1 (MQ=255)                               aggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTg                                                                   <  1:605513‑M2/34‑1 (MQ=255)                               aggtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGAGAATTCCGTg                                                                   <  4:22191‑M2/34‑1 (MQ=255)                                 gtccgccagataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCt                                                                 >  3:1415461‑M2/66‑101 (MQ=255)                                        agataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGt                                                          <  1:1435838‑M2/43‑1 (MQ=255)                                          ataatcgaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGc                                                        >  3:1520922‑M2/57‑101 (MQ=255)                                                gaacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGa                                                  >  1:1318584‑M2/51‑101 (MQ=255)                                                 aacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGaa                                                 >  3:378245‑M2/50‑101 (MQ=255)                                                 aacaaccccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGaa                                                 >  3:414011‑M2/50‑101 (MQ=255)                                                     accccagcgcgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGAt                                             >  4:60264‑M2/46‑101 (MQ=255)                                                       cccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGAttt                                           <  2:135890‑M2/58‑1 (MQ=255)                                                       cccagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGAttt                                           <  2:135829‑M2/58‑1 (MQ=255)                                                         cagcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCa                                         >  3:425853‑M2/42‑101 (MQ=255)                                                          agcgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCAc                                        <  3:1033530‑M2/61‑1 (MQ=255)                                                            cgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCa                                      <  4:62155‑M2/63‑1 (MQ=255)                                                            cgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCa                                      >  2:111474‑M2/39‑101 (MQ=255)                                                            cgtgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCa                                      <  3:1546217‑M2/63‑1 (MQ=255)                                                              tgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGc                                    <  2:47899‑M2/65‑1 (MQ=255)                                                              tgacaccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGc                                    >  1:1303918‑M2/37‑101 (MQ=255)                                                               gacaacaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCg                                   <  3:254321‑M2/66‑1 (MQ=255)                                                                 caccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGaa                                 >  3:1386715‑M2/34‑101 (MQ=255)                                                                 caccaaagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGaa                                 <  1:19415‑M2/68‑1 (MQ=255)                                                                      aagaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAAc                            >  1:716858‑M2/29‑101 (MQ=255)                                                                        gaacgaactggcaacagctaagttagAGAACACCAGCGGGCAAAACTCGATAATGCCNTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGANTCAACGt                          <  3:815943‑M2/75‑1 (MQ=255)                                                                        gaacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCAGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGt                          >  1:510039‑M2/27‑101 (MQ=255)                                                                         aacgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGtt                         <  1:1291749‑M2/76‑1 (MQ=255)                                                                          acgaactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTg                        <  2:102332‑M2/77‑1 (MQ=255)                                                                             aactggcaacagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTgccg                     >  1:9221‑M2/22‑101 (MQ=255)                                                                                     acagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACAGAACCGCCAgagga             <  4:149554‑M2/88‑1 (MQ=255)                                                                                     acagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAAGCAACGTTGCCGCCggagga             <  4:110805‑M2/88‑1 (MQ=255)                                                                                      cagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTgaggag            <  1:97824‑M2/89‑1 (MQ=255)                                                                                      cagctaagttagAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTgaggag            >  3:1202899‑M2/13‑101 (MQ=255)                                                                                                agAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCt  <  1:612806‑M2/99‑1 (MQ=255)                                                                                                agAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCt  >  3:1240091‑M2/3‑101 (MQ=255)                                                                                                  |                                                                                                   AAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGAGAACACCAGCAGGCAAAACTCGATAATGCCGTGCTGTTTGGTGCCGAGGAACGATTTCACCAGCGAATCAACGTTGCCGCCTGAGGAGATAATCGCCT  >  NC_007779/3748013‑3748208

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑