Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	581,913	(A)6→7	pseudogene (254/438 nt)	tfaD →	pseudogene, DLP12 prophage; tail fiber assembly protein family;Phage or Prophage Related

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	581,907	1	.	A	97.1%	135.7 / ‑3.5	35	pseudogene (248/438 nt)	tfaD	pseudogene, DLP12 prophage; tail fiber assembly protein family;Phage or Prophage Related
Reads supporting (aligned to +/- strand):  ref base . (1/0);  new base A (15/19);  total (16/19)
Fisher's exact test for biased strand distribution p-value = 4.57e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GGACGCGTTATTTATTTCTGAACTCGGTCCGTTACCGGAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAAC‑AAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTGGAAGCCTGGAAAAAATATCGGGTGTTGCTGAACCGTGTTGAT  >  NC_000913/581758‑582046                                                                                                                                                       |                                                                                                                                             ggACGCGTTATTTATTTCTGAACTCGGTCCGTTACCGGAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAAC‑a                                                                                                                                             <  1:399173/151‑1 (MQ=40)     gcgTTATTTATTTCTGAACTCGGTCCGTTACCGGAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAAC‑aaaa                                                                                                                                          >  2:225510/1‑150 (MQ=40)       gTTATTTATTTCTGAACTCGGTCCGTTACCGGAAGATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAAC‑aaaaa‑a                                                                                                                                       >  2:601372/1‑150 (MQ=255)              atttCTGAACTCGGTCCGTTACCGGAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTg                                                                                                                                <  1:558827/151‑1 (MQ=255)                  cTGAACTCGGTCCGTTACCGGAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGc                                                                                                                            >  2:391115/1‑151 (MQ=255)                    gAACTCGGTCCGTTACCGGAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCa                                                                                                                           <  1:83605/150‑1 (MQ=255)                    gAACTCGGTCCGTTACCGGAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAg                                                                                                                          <  2:586982/151‑1 (MQ=255)                     aaCTCGGTCCGTTACCGGAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAgg                                                                                                                         >  2:377459/1‑151 (MQ=255)                      aCTCGGTCCGTTACCGGAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGt                                                                                                                        <  1:499/151‑1 (MQ=255)                              cGTTATCGGTAAATGTTACCTGGTTATCGCCGGGAGGGGAGATCCAGAAGTGGAACGGTACAGCCTGGGTGCACGATATAAAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGTCAT‑AAAAAGACAGAATGATGCAGGTAGCCAGTg                                                                                                                >  2:342118/1‑151 (MQ=11)                                  aCCGGAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGc                                                                                                             <  1:443737/150‑1 (MQ=255)                                  aCCGGAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCa                                                                                                            <  1:318673/151‑1 (MQ=255)                                      gAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATAtt                                                                                                        >  2:401532/1‑151 (MQ=255)                                       aaaaTGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTg                                                                                                       >  1:586194/1‑151 (MQ=255)                                         aaTGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTgcg                                                                                                     <  2:559366/151‑1 (MQ=255)                                           tGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGcc                                                                                                   >  2:286310/1‑151 (MQ=255)                                                ccTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTc                                                                                              >  2:430467/1‑151 (MQ=255)                                                   ggTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAg                                                                                            <  1:78934/150‑1 (MQ=255)                                                                       tttCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATc                                                                       >  1:507007/1‑151 (MQ=255)                                                                           aGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCa                                                                    >  1:142240/1‑150 (MQ=255)                                                                                 ggAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACggag                                                              <  2:525620/150‑1 (MQ=255)                                                                                    aCGGTACAGCCTGGGTGAAAGAGGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACggagg                                                             >  2:296629/1‑148 (MQ=255)                                                                                     cGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGgaaga                                                         <  1:461400/151‑1 (MQ=255)                                                                                       gTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGaaa                                                       <  2:547631/151‑1 (MQ=255)                                                                                          cAGCCTGGGTGAGAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCt                                                    <  1:466874/151‑1 (MQ=255)                                                                                           aGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCt                                                    <  2:529925/150‑1 (MQ=255)                                                                                                gggTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGc                                              >  1:619243/1‑151 (MQ=255)                                                                                                    gAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTgg                                           <  1:189298/150‑1 (MQ=255)                                                                                                    gAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTgg                                           <  1:8329/150‑1 (MQ=255)                                                                                                    gAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTGGa                                          <  2:461237/151‑1 (MQ=255)                                                                                                      aaGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTGGa                                          >  1:421908/1‑149 (MQ=255)                                                                                                                      aaaaCTGTTCCGGATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTGGAAGCCTGGAAAAAATATCg                        <  2:116246/151‑1 (MQ=255)                                                                                                                                 ggATTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTGGAAGCCTGGAAAAAATATCGGGTGTTGCTGa             <  1:629479/151‑1 (MQ=255)                                                                                                                                   aTTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATTGCAACGGAGGAAGAAACCTCATTGCTGGAAGCCTGGAAAAAATATCGGGTGTTGCTGAAc           <  2:62090/151‑1 (MQ=255)                                                                                                                                   aTTCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTGGAAGCCTGGAAAAAATATCGGGTGTTGCTGAAc           >  1:202425/1‑151 (MQ=255)                                                                                                                                    ttCGGGAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTGGAAGCCTGGAAAAAATATCGGGTGTTGCTGAAcc          >  1:211484/1‑151 (MQ=255)                                                                                                                                        ggAGGCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTGGAAGCCTGGAAAAAATATCGGGTGTTGCTGAACCgtgt      >  2:538296/1‑151 (MQ=255)                                                                                                                                            gCGGAAGAAACAAAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTGGAAGCCTGGAAAAAATATCGGGTGTTGCTGAACCGTGTTGAt  >  1:324145/1‑151 (MQ=255)                                                                                                                                                       |                                                                                                                                             GGACGCGTTATTTATTTCTGAACTCGGTCCGTTACCGGAAAATGTTACCTGGTTATCGCCGGAAGGGGAGTTTCAGAAGTGGAACGGTACAGCCTGGGTGAAAGATGCAGAAGCAGAAAAACTGTTCCGGATTCGGGAGGCGGAAGAAAC‑AAAAA‑ACAGCCTGATGCAGGTAGCCAGTGAGCATATTGCGCCACTTCAGGATGCTGTAGATCTGGAAATCGCAACGGAGGAAGAAACCTCATTGCTGGAAGCCTGGAAAAAATATCGGGTGTTGCTGAACCGTGTTGAT  >  NC_000913/581758‑582046

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑