Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	527,940	Δ1 bp	16.9%	noncoding (1175/2902 nt)	PP_23SC →	23S ribosomal RNA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	527,940	0	C	.	16.9%	136.3 / 31.2	59	noncoding (1175/2902 nt)	PP_23SC	23S ribosomal RNA
Reads supporting (aligned to +/- strand):  ref base C (20/28);  new base . (3/7);  total (23/36)
Fisher's exact test for biased strand distribution p-value = 7.25e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.17e-01

AGGAGGTTGGCTTAGAAGCAGCCACCCTTTAAAGAAAGCGTAATAGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATGAGTAACGACAATGCGAGTGAAAAACTCGCACGCCGAAAG  >  NC_002947/527810‑528058                                                                                                                                      |                                                                                                                       acgatgTTGGCTTAGAAGCAGCCACCCTTTAAAGAAAGCGTAATAGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCAACGGGTATCA‑TCTTA‑‑CGATGATGCGGTag                                                                                                                   >  1:460286/6‑136 (MQ=12)  ggatgTTGGCTTAGAAGCAGCCATCATTTAAAGAAAGCGTAATAGCTCACTGGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTaga                                                                                                                  >  1:642119/1‑136 (MQ=255)  ggatgTTGGCTTAGAAGCAGCCATCATTTAAAGAAAGCGTAATAGCTCACTGGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTaga                                                                                                                  >  1:627790/1‑136 (MQ=255)  ggatgTTGGCTTAGAAGCAGCCACCCTTTAAAGAAAGCGTAATAGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTaga                                                                                                                  >  1:163685/1‑136 (MQ=17)  ggatgTTGGCTTAGAAGCAGCCACCCTTTAAAGAAAGCGTAATAGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTaga                                                                                                                  >  1:226471/1‑136 (MQ=17)  ggaggTTGGCTTAGAAGCAGCCACCCTTTAAAGAAAGCGTAATAGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTaga                                                                                                                  >  1:562375/1‑136 (MQ=32)        tGGCTTAGAAGCAGCCATCATTTAAAGAAAGCGTAATAGCTCACTGGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCg                                                                                                            >  1:117511/1‑136 (MQ=12)            ttAGAAGCAGCCACCCTTTAAAGAAAGCGTAATAGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCt                                                                                                        >  1:135122/1‑136 (MQ=32)               taaGCAGCCACCCTTTAAAGAAAGCGTATTAGCTCACTAGTCGAGTCGGGCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTa                                                                                                     <  1:79475/135‑1 (MQ=12)                 agcagcCACCCTTTAAAGAAAGCGTAATAGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACAGGTATCA‑TCTTA‑‑CGATGATGCTGTACAGGATCGTTCTGTAAg                                                                                                   >  2:270513/1‑136 (MQ=255)                    agcCATCATTTAAAGAAAGCGTAATAGCTCACTGGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCt                                                                                                >  1:273469/1‑136 (MQ=12)                        aCCCTTTAAAGAAAGCGTAATAGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGa                                                                                            >  2:57000/1‑136 (MQ=32)                        aCCCTTTAAAGAAAGCGTAATAGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGa                                                                                            >  2:460001/1‑136 (MQ=32)                                   aaagCGTAATAGCTCACTGGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCT‑AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTG‑GGTAGGGGAGCGTTCTGTAAGCCTGCGAAGGTgtgctg                                                                                  >  1:303388/1‑131 (MQ=0)                                    aagCGTAATAGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAATAATGTGAAGGTGAGTTgag                                                                                <  1:135315/136‑1 (MQ=12)                                        gTAATAGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGc                                                                            >  1:281630/1‑136 (MQ=32)                                             aGCTCACTGGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCt                                                                       <  2:117511/136‑1 (MQ=17)                                             aGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCt                                                                       >  1:391247/1‑136 (MQ=32)                                             aGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCt                                                                       <  2:579762/136‑1 (MQ=32)                                                tCACTGGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCT‑AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTG‑GGTAGGGGAGCGTTCTGTAAGCCTGCGAAGGTGTGCTGTGAGGCATGCTgg                                                                     >  1:551397/1‑136 (MQ=0)                                                            tcgGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGt                                                        >  1:460044/1‑136 (MQ=32)                                                            tcgGCCTGCGCGGAAGATGTAACGGGGCT‑AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTG‑GGTAGGGGAGCGTTCTGTAAGCCTGCGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAg                                                         >  2:650262/1‑136 (MQ=0)                                                                 cTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGaa                                                   >  2:354611/1‑136 (MQ=32)                                                                      cgGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTg                                              <  1:140452/136‑1 (MQ=32)                                                                        gAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGAc                                            <  2:454076/136‑1 (MQ=32)                                                                        gAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGAc                                            <  2:661182/136‑1 (MQ=32)                                                                         aaGATGTAACGGGGCT‑AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTG‑GGTAGGGGAGCGTTCTGTAAGCCTGCGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGAc                                            <  2:30331/136‑1 (MQ=0)                                                                          tgATGTAACGGGGCTCAAACCTTGCTCCGAAGGTACGGGTATGA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACAt                                          <  2:627790/135‑1 (MQ=255)                                                                          aGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCT‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACAt                                          <  2:358307/136‑1 (MQ=17)                                                                          aGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACAt                                          <  2:511246/136‑1 (MQ=32)                                                                          aGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACAt                                          <  2:546473/136‑1 (MQ=32)                                                                          aGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACAt                                          <  2:416454/136‑1 (MQ=32)                                                                          aGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACAt                                          <  2:163685/136‑1 (MQ=32)                                                                          aGATGTAACGGGGCT‑AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTG‑GGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACa                                           <  2:544602/136‑1 (MQ=0)                                                                           gATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGTATGCTGACATg                                         <  2:415240/136‑1 (MQ=17)                                                                           gATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATg                                         <  2:226471/136‑1 (MQ=32)                                                                           gATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATg                                         <  2:562375/136‑1 (MQ=32)                                                                           gATGTAACGGGGCT‑AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTG‑GGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACAt                                          <  2:623273/136‑1 (MQ=0)                                                                           gATGTAACGGGGCT‑AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTG‑GGTAGGGGAGCGTTCTGTAAGCCTGCGAAGGTGTGCTGTGAGGCATGCTGGATGTATCAGAAGTGCGAATGCTGACAt                                          <  2:24214/136‑1 (MQ=0)                                                                           gATGTAACGGGGCT‑AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTG‑GGTAGGGGAGCGTTCTGTAAGCCTGCGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACAt                                          <  2:21523/136‑1 (MQ=0)                                                                           gATGTAACGGGGCT‑AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTG‑GGTAGGGGAGCGTTCTGTAAGCCTGCGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACAt                                          <  2:231097/136‑1 (MQ=0)                                                                            aTGTAACGGGGCT‑AAACCATGCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTG‑GGTAGGGGAGCGTTCTGTAAGCCTGCGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACAta                                         <  2:233666/136‑2 (MQ=0)                                                                                      gCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATGAGTAACGACaa                              <  2:339759/136‑1 (MQ=32)                                                                                        tCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATGAGTAACGACAATg                            >  1:262908/1‑136 (MQ=32)                                                                                         cAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATGAGTAACGACAATGc                           >  2:262715/1‑136 (MQ=32)                                                                                                   aCCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATGAGTAACGACAATGCGAGTGaaaaa                 >  1:480716/1‑136 (MQ=32)                                                                                                           tACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATGAGTAACGACAATGCGAGTGAAAAACTCGCACg         <  2:135122/136‑1 (MQ=32)                                                                                                                ttATCA‑TTTTA‑‑CGATTATGCGGTTGTGTAGGTTTCTTTAAGCCTGTTATGGTGTGTTTTGAAGCTTGCTGGTGTTATCAGAAGTGCGAATGCTGACATTTGTAACGACAATGCGTGTGAAAAACTCGCACGCCGaa    <  2:460286/135‑1 (MQ=2)                                                                                                                ttATCA‑TCTTA‑‑CTATTATGCGGTTGAGGAGGGTTCTGTATGCCTGTGAAGGTTTGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGGTGACATGAGTAACGACAATGCGAGTGAAAAACTCGCACGCCGaa    <  2:133794/135‑1 (MQ=11)                                                                                                                ttATCA‑TCTTA‑‑CGATGATGCGGTAGAGGTGCGTTCTGTAAGCCTGTGATGGTGTGTTGAGAAGCTTGCTGTAGGTATCTGATGTGCGAATGCTGACATGTGTAACGACAATGCGTGTGAAAAACTCGCACGCCGaa    <  2:642119/135‑1 (MQ=11)                                                                                                                gtttca‑tcTTA‑‑CGATGATGGGGTAGAGGAGGGTTGTGTAAGCCTGTGATGGTGTGTTGATAAGCTTGCTGGAGGTATCAGATGTGCTAATGCTGACATGAGTAACGACAATGCGTGTGAAAAACTCGCACGCCGaa    <  2:360482/133‑1 (MQ=11)                                                                                                                gtttca‑taTTA‑‑CGATTTTGCGTTAGAGGAGCGTTCTGTAAGCCTGTGATGGTGAGTTGAGATGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATGAGTAACGACAATGCGAGTGAAAAACTCGCACGCCGaa    <  2:486053/133‑1 (MQ=11)                                                                                                                gTATCT‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTTTGAAGGTGTGTTGAGATGCTTGCGGGAGGTATCAGAAGTGCGAATGCTGACATGATTAACGACAATGCGAGTGAAAAACTCGCACGCCGaa    <  2:455972/136‑1 (MQ=11)                                                                                                                gTATCA‑TCTTA‑‑CGATGTGGCGGTAGAGGAGCGTTCTGTAAGCCTGTGATGGTGAGTTGAGAAGCTTGCTGGAGTTATCAGAAGTGCTAATGCTGACATGAGTAACGACAATGCGAGTGAAAAACTCGCACGCCGaa    <  2:404425/136‑1 (MQ=11)                                                                                                                gTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATGAGTAACGACAATGCGAGTGAAAAACTCGCACGCCGaa    <  2:496150/136‑1 (MQ=32)                                                                                                                gTATCA‑TATTA‑‑CGTTTATGCGGTAGAGGAGCGTTCTTTAAGCCTGTTTAGGTTTGTTGATAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATGAGTAACGACAATGCGTGTGAAAACCTCGCACGCCGaa    <  2:130845/136‑1 (MQ=11)                                                                                                                  atca‑tcTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATGAGTAACGACAATGCGAGTGAAAAACTCGCACGCCGAAAg  <  2:435294/136‑1 (MQ=32)                                                                                                                              cGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACAt                                          >  1:647314/1‑87 (MQ=31)                                                                                                                              cGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACAt                                          <  2:647314/87‑1 (MQ=31)                                                                                                                                      |                                                                                                                       AGGAGGTTGGCTTAGAAGCAGCCACCCTTTAAAGAAAGCGTAATAGCTCACTAGTCGAGTCGGCCTGCGCGGAAGATGTAACGGGGCTCAAACCATGCACCGAAGCTACGGGTATCA‑TCTTA‑‑CGATGATGCGGTAGAGGAGCGTTCTGTAAGCCTGTGAAGGTGAGTTGAGAAGCTTGCTGGAGGTATCAGAAGTGCGAATGCTGACATGAGTAACGACAATGCGAGTGAAAAACTCGCACGCCGAAAG  >  NC_002947/527810‑528058

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑