Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,652,331	T→C	intergenic (+2346/+397)	ydfD → / ← ynfP	lysis protein/protein YnfP

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,652,331	0	T	C	96.4%	93.2 / NA	28	intergenic (+2346/+397)	ydfD/ynfP	lysis protein/protein YnfP
Reads supporting (aligned to +/- strand):  ref base T (0/0);  major base C (10/17);  minor base A (1/0);  total (11/17)
Fisher's exact test for biased strand distribution p-value = 3.93e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.59e-01

GTGTTTCTGTTTATACTGGAGTTCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACTTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGCTGGTCGCTGACAGCTGGTGCTAACCCGGCATTTATAGCAAACCAGAT  >  NC_000913/1652092‑1652566                                                                                                                                                                                                                                                |                                                                                                                                                                                                                                            gtgtTTCTGTTTATACTGGAGTTCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTAt                                                                                                                                                                                                                                  <  1:155637/251‑1 (MQ=255) gtgtTTCTGTTTATACTGGAGTTCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTAt                                                                                                                                                                                                                                  <  1:256803/251‑1 (MQ=255)                   gAGTTCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGAGCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACaa                                                                                                                                                                                                                <  2:14391/251‑1 (MQ=255)                       tCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGACAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAAACCATCGGGTCCTTAATCTTATTAAGCCAGCAATCGACGCTCCCCGGAGGCAGATGACATTAACGAGACTGAGCAAAAAGCATATCATTTCTGTTCCCCTCAGAGAGTATGGCAGAACAGAAAAACaaaaa                                                                                                                                                                                                             >  1:276213/1‑250 (MQ=255)                       tCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACaaaaa                                                                                                                                                                                                             <  1:243364/250‑1 (MQ=255)                          cccTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGGGTCATTCATCTTATTAAGCCAGCAATCGACCCCCTCCGGAGGCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGCGAGTATGGCAGAACAGAAAAACAAAAATGc                                                                                                                                                                                                          >  2:272158/1‑250 (MQ=255)                              ggTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCAcc                                                                                                                                                                                                       <  2:226872/249‑1 (MQ=255)                                      gtgtgCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTc                                                                                                                                                                                             <  1:303322/251‑1 (MQ=255)                                                 gATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGGGGCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAAAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGACCCTTTGTTTTTCAAACTGAAgtg                                                                                                                                                                                  >  1:13039/1‑251 (MQ=255)                                                                  cTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAACAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGGGTCATTCATCTTATTAAGCCCGCAATCGCCGCCCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCCCCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTaaaaa                                                                                                                                                                  >  1:182431/1‑250 (MQ=255)                                                                    gAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCTCCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAAtt                                                                                                                                                               <  2:306146/251‑1 (MQ=255)                                                                                       atCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGTGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGGCTGAGCAAAGAGCATATCATTGAGGTTCAGCGCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTGTGCAACCTGAAGTTTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGt                                                                                                                                            <  1:281441/251‑1 (MQ=255)                                                                                                                  ttCACGGTACCAAAAACACAGGCGGGAACCAATCGGGTCATTTATCTTATTAAGCCAGCAATCTACGCTCTCCGGAGGCAGGTGACATTAACGAGACTGAGAAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCCCCTTTTTTTTTCAACCTGAAGTGTCAACGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGAATCAATAAGGCAGATGTGGGACGc                                                                                                                 >  1:14082/1‑251 (MQ=255)                                                                                                                        gTACCAAAAACACAGGCGGGAACCAATCGGGGCATTCCTCTTTTTTACCCAACAATCGACGCCCTCCCGAGTCCGATGACATTAACGCGACTGAGCAAAAAGCATATCATTGATGTTCACCTCCGAGAGTATGGCAGCACAGAAAAACAAAAAAGCACCTTTGTTTTTCAACCTGAAGTGTCCGCGAGAGTAAAAAATTATGGTGACCATTTTTCCGTTGTCTCAATAAGGCAGATGTGGGAAGCAGCGAt                                                                                                           >  2:128609/1‑251 (MQ=255)                                                                                                                                              ccAATCGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCGCCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCAt                                                                                     <  1:272673/251‑1 (MQ=255)                                                                                                                                               cAATCGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGCGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATACAACGTGCCGGACTCCGCCATc                                                                                    >  1:126808/1‑251 (MQ=255)                                                                                                                                                                      aGCCAGCAAGCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAATAGCATAGCATTGATGTTCACCTCAGAGAGTATGGCAGAACATAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACGCAATAAGGCAGATGTGGGACGCAGCTATAAAACGTGCCGGACTCCGCCCTCGAAAATCATATCAGTCGAGACAt                                                             <  1:292863/251‑1 (MQ=255)                                                                                                                                                                                cGACGCTCTCCGGAGTAAGATGACATTAACGAGACTGAGCAAAGAGCATAGCATTGATGTTCTCCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCGACTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCct                                                   <  2:131103/251‑1 (MQ=255)                                                                                                                                                                                         ccGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGCTGGTc                                            <  2:13039/249‑1 (MQ=255)                                                                                                                                                                                            gAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCACTGATGTTCATCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGAACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGACAGATGTGGGAAGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGCCATACTTATGCCTGCTGGTCGCTg                                        >  1:127625/1‑250 (MQ=255)                                                                                                                                                                                                cAGATCACATTAAAGGGACTGCGCAAAGAGAATATCATTGATGTTAACCTCAGAGAGTATGGCAGAGCAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGAAAAAAATTATGGTGACCATTTTACAGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGAGCCGGACTCCGCCCTCGAAAATCATATCAGTCGAGCCATACTTATGCCTGCTGGTCGCTGACAGc                                   >  2:265425/1‑251 (MQ=255)                                                                                                                                                                                                       cATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACATCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGATGGTCGCTGACAGCTGGAGCt                            >  1:207957/1‑251 (MQ=255)                                                                                                                                                                                                                  cTGAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGCTGGTCGCTGACAGCTGGTGCTAACCCGGCAtt                 >  1:104656/1‑251 (MQ=255)                                                                                                                                                                                                                    gAGCAAAGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACGCCGCCATCGAAAATCATATCAGTCGAGACATTCTTATGCCTGCGGGTCGCTTACAGCTGGTGCTAACCCGGCATTta               <  2:276213/251‑1 (MQ=255)                                                                                                                                                                                                                       cAAAGAGCATATCATTGATGTTCACCTCAGAGAGTAGGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTTCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGCTGGTCGCTGACAGCTGGTGCTAACCCGGCATTTATAg            <  1:265425/251‑1 (MQ=255)                                                                                                                                                                                                                       cAAAGAGCATATCATTGATGTTCACCGCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCATTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAGGGCAGAGGTGGGACTCAGCGATAAAACGTGCCGGTCTCCGTCAGTGAAAATCATATCAGTCGAGACATGCTGATGCCTGCTGGTCGCTGACAGCTGGTGTTAACCCGGCATTTATAg            <  1:144445/251‑1 (MQ=255)                                                                                                                                                                                                                        aaaGAGCATATCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGCTGGTCGCTGACAGCTGGTGCTAACCCGGCATTTATAGc           <  1:128609/251‑1 (MQ=255)                                                                                                                                                                                                                                 atCATTGATGTTCACCTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTGTTTCAACCTGAAGTGGCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGCTGGTCGCTGACAGCTGGTGCTAACCCGGCATTTATAGCAAACCAGAt  <  1:1816/251‑1 (MQ=255)                                                                                                                                                                                                                                                |                                                                                                                                                                                                                                            GTGTTTCTGTTTATACTGGAGTTCGCCCTGGTGAGCTGTGTGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGCAAAAGACCGTTTCACGGTACCAAAAACACAGGCGGGAACCAATCGGGTCATTCATCTTATTAAGCCAGCAATCGACGCTCTCCGGAGTCAGATGACATTAACGAGACTGAGCAAAGAGCATATCATTGATGTTCACTTCAGAGAGTATGGCAGAACAGAAAAACAAAAATGCACCTTTGTTTTTCAACCTGAAGTGTCAGCGAGAGTAAAAAATTATGGTGACCATTTTACCGTTGACTCAATAAGGCAGATGTGGGACGCAGCGATAAAACGTGCCGGACTCCGCCATCGAAAATCATATCAGTCGAGACATACTTATGCCTGCTGGTCGCTGACAGCTGGTGCTAACCCGGCATTTATAGCAAACCAGAT  >  NC_000913/1652092‑1652566

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑