Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	KT2440	1,308,712	A→C	26.7%	T32P (ACG→CCG)	CJ019_01226 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	KT2440	1,308,712	0	A	C	26.7%	61.2 / 2.1	53	T32P (ACG→CCG)	CJ019_01226	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (24/13);  new base C (13/3);  total (37/16)
Fisher's exact test for biased strand distribution p-value = 3.33e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TGCGCCTGCCGATACAGGGGGCATAGGAGAACGTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGCGAGCAGGAACGCTACGAG  >  KT2440/1308583‑1308846                                                                                                                                  |                                                                                                                                       tGCGCCTGCCGATACAGGGGGCATAGGAGAACGTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGCCGCAg                                                                                                                                   >  5:365289/1‑135 (MQ=255)      cTGCCGATACAGGGGGCATAGGAGAACGTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCg                                                                                                                             >  7:338349/1‑136 (MQ=255)      cTGCCGATACAGGGAGCATAGGAGAACGTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGc                                                                                                                              >  4:285109/1‑135 (MQ=255)        gCCGATACAGGGGGCATAGGAGAACGTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCCGCCTGCGt                                                                                                                            >  6:9345/1‑135 (MQ=255)                aGGGGGCATAGGAGAACGTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGa                                                                                                                     >  7:299222/1‑134 (MQ=255)                     gCATAGGAGAACGTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGCCGCAGCCTGCGTCCGGCGAAAGTg                                                                                                                >  3:362683/1‑134 (MQ=255)                     gCATAGGAGAACGTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGCAAGTGc                                                                                                               >  2:394206/1‑135 (MQ=255)                                cGTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGTAAGTGCCATTGACCt                                                                                                      >  1:306336/1‑133 (MQ=255)                                 gTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGCCGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCaa                                                                                                   >  4:263909/1‑135 (MQ=255)                                 gTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCCAg                                                                                                  >  7:420958/1‑136 (MQ=255)                                 gTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGGCCGGCGAAAGTGCCCTTGACCTCAAg                                                                                                  >  8:276825/1‑136 (MQ=255)                                  tCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGCCGCCGCCTGCGTCCGGCGAAAGTGCCATTGGCCTCCAgc                                                                                                 >  7:385804/1‑136 (MQ=255)                                   ccATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGCCGCAGCCTGCGTCCGGCGAAAGTGCCATTGAACTCAAgcg                                                                                                >  7:389502/1‑136 (MQ=255)                                   ccATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGCAAGTGCCCTTGCCCTCAAgcg                                                                                                >  7:440735/1‑136 (MQ=255)                                      tgctgcCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCCAGCGcc                                                                                              >  4:288126/1‑135 (MQ=255)                                        ctgcCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGCCGCAGCCTGCGTCCGGCGAAAGTGCCATTGCCCTCAAGCGCCAg                                                                                            >  4:350236/1‑135 (MQ=255)                                        ctgcCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGCCGCAGCCTGCCTCCGGCGAAAGTGCCATTGACCTCAAGCCCCAg                                                                                            >  2:193076/1‑135 (MQ=255)                                              ccgATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCACGCGCCAGCGCGAc                                                                                      <  3:366438/135‑1 (MQ=255)                                              ccgATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGGCCGGCGAAAGAGCCAGTGGCCTCAAGCGCCAGCGCCAcc                                                                                     >  7:350447/1‑136 (MQ=255)                                                   cATTCCGCGCAGGGCCGCCCCGGTACCCTCCCACCAGCACCCGGTCAAGCCAACCCCCGACGTCACGCCGGTGGGGCCGACGCAGCCGGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAg                                                                                <  8:440254/136‑1 (MQ=255)                                                   cATGCCGCGCCGGGCCGCCCCGGTAACCGCGCAACAGGACCCGGTCAAGCCACCCCCCGAGGTCACGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTCACCTCAACCGCCAGCGCGACCCGCa                                                                                 <  8:350447/135‑1 (MQ=255)                                                      tCCGCTCTGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGAGGTCAAGCCGGTGGGGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTCACCTCAAGCGCCAGCGCGACCCGCAGGa                                                                              <  6:141515/135‑1 (MQ=255)                                                        cGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGCCGCCCCCAGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCCGCGCGCCCCGCATGa                                                                              >  5:165532/1‑133 (MQ=255)                                                                  ggccCCGGTACCCTCGCAACTGCACCCGGTCAAGCCAACCCCCGCCGGCACGCGGGGGGTGCCGACGCAGCCTGGGGCCGGCTATAGGGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTAttgtt                                                                  <  3:394936/134‑1 (MQ=255)                                                                  cgccCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCCGCCTGCGTCCGGCGCAAGTGCCATTGACCTCCAGCGCCAGCGCGCCCCGCAGGAGCAGGTAttgtt                                                                  >  1:30099/1‑135 (MQ=255)                                                                       cGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCCCCCTGCCTCCGGCGAAAGTGCCATTGACCTCAATCGCCAGCGCGACCCGCCGGAGCAGGTATTGTtgctgc                                                             >  6:292833/1‑135 (MQ=255)                                                                            aCCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGCCCCCCCATGCCACCGGCGAACGTGCCCTTGACCTCAACCGCCAGCGCGACCCGCAGGTGGAGGGATGTTtgctgctgtcg                                                        >  5:24796/1‑130 (MQ=255)                                                                            aCCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGAt                                                        >  7:205921/1‑135 (MQ=255)                                                                            aCCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGAACTCAAGCGCCAGCGCGACCCGCAGGAGCCTGTATTGTTGCTGCGCGa                                                         >  4:49864/1‑134 (MQ=255)                                                                                 gCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGCCGCACCCGGCGTCCGGCGAAACTGCCATTGACCTCAAGCGCCCGCGCGCCCCGCAGGAGCAGGTATTGTTGCTGCGCGGTGAACa                                                   >  5:246744/1‑135 (MQ=255)                                                                                  cAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAg                                                  >  6:124874/1‑135 (MQ=255)                                                                                    aCAGGACCCGGTCAAGCCAACCACCGACGTCAAGCCGGTGGTGCCGAAGCAGCAAGCGTCCCGCGAAAGTGCCATTGAACTCAATCGCCAGAGCGACCCGCAGGAGCAGTTATTGTTGCTGCGCGATTAACAgcg                                                >  6:203641/1‑135 (MQ=255)                                                                                     cAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAgcgc                                               >  1:128200/1‑135 (MQ=255)                                                                                           ccGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGACCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCcag                                         >  8:27387/1‑135 (MQ=255)                                                                                           ccGGGCAACCCACCCCCCGACGCCAAGCCGGGGGGGCCGCCGCAGCCTGCGTCCGGCGAAAGGGCCATTGACCTCACGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCcagc                                        <  7:389118/136‑1 (MQ=255)                                                                                            ggggcAAGCCAACCCCCGACGGCACGCCGGTGGGGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAACCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCcagc                                        <  4:277547/131‑1 (MQ=255)                                                                                                cAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGCCGCCCCCAGCGTCCGGCGAAACTGGCATTGCCCTCAACCGCCAGCGCGACCCGCACGAGCACGTATTGTTGCTGCGCGATGAACAGCGCCGCCagcagcc                                    >  4:127773/1‑134 (MQ=255)                                                                                                cAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCAGCGCGATGAACAGCGCCGCCAgcagca                                    >  4:51818/1‑135 (MQ=255)                                                                                                           ccGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAAcc                         >  3:277547/1‑134 (MQ=255)                                                                                                           ccGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACa                         >  5:435747/1‑135 (MQ=255)                                                                                                                gTCAAGCCGGTGGTGCCGCCGCCGCCTGCGTCCGGCGAAAGTGCCAATTTCCGCAAGCGCCAGCGCGACCCCCACGCGCAGGTATTTTTTCTGCGCGATGAACAGCGCCCCCAGCAGCCACGCCCGCACAACGGc                    >  6:4557/1‑135 (MQ=255)                                                                                                                gTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGc                    >  1:237910/1‑135 (MQ=255)                                                                                                                 tCAAGCCGGTGGTGCCGCCGCAGCCTGCTGCCGGCTAATGTGCATTTCACCCCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATTAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGCGa                  <  8:389502/136‑1 (MQ=255)                                                                                                                 tCAAGCCGGTGGTGCCGCCGCAGCCTGCGTCCGGCGCAAGTGCCATTTACCGCACGCGCCCGCGCGCCCCCCAGGAGCAGGTATTGTTGCTGCGCGAAGAACAGCGCCGCCCGCAGCAACGCCGGAACAAggg                     >  1:113722/1‑133 (MQ=255)                                                                                                                  cAAGCGGGGGGGGCCGACGCCGCGTCGGGCCGGCGAAAGGGCCATTCACCCCCAGCGCCACCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGCGa                  <  4:251572/135‑1 (MQ=255)                                                                                                                   aggcgggtggtGCGGACGCAGCCTGCGTCCGGCTAAAGGGCCAATCCCCTCAACCCCCTGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGCGAGc                <  8:399958/131‑1 (MQ=255)                                                                                                                    cgCCGGGGGTGCCGACGCCGCCTGCGTCCGGCGAACGTGCCATTGACCCCACGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGCGAGc                <  1:56671/134‑1 (MQ=255)                                                                                                                     gCCGGGGGTGCCCCCGCCGCGTGCGGCCGGCTAATGGCCCATTACCCTAACGCCCCACCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGCGAGCAg              <  7:300736/136‑1 (MQ=255)                                                                                                                      ccGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGCGAGCAg              >  8:324400/1‑135 (MQ=255)                                                                                                                           ggtgCCGACGCAGCCTGCGGCCGGCGAAAGTGCCTTTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGCGAGCAGGAACg         <  3:140708/135‑1 (MQ=255)                                                                                                                            gtgCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCACGCGCCAGCGCGACCCGCAGGAGCAGGAATTGTTGCTGCGCGATGAACAGCGCAGCCAGCAGCAACGCCGGAACAAGGGCGAGCAGGAACGCt       <  8:251142/136‑1 (MQ=255)                                                                                                                               ccGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGCGAGCAGGAACGCTACg    <  8:205921/136‑1 (MQ=255)                                                                                                                                cGACGCAGCCGGCGTCCGGCGAAAGGGCCATTGACCACAAGCGCCCGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGCGAGCAGGAACGCTACg    <  6:365289/135‑1 (MQ=255)                                                                                                                                  aCGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGCGAGCAGGAACGCTACGAg  >  6:217961/1‑135 (MQ=255)                                                                                                                                  |                                                                                                                                       TGCGCCTGCCGATACAGGGGGCATAGGAGAACGTCCATGCTGCCGCCGATCATTCCGCTCAGTGCCGCCCCGGTAACCTCGCAACAGGACCCGGTCAAGCCAACCCCCGACGTCAAGCCGGTGGTGCCGACGCAGCCTGCGTCCGGCGAAAGTGCCATTGACCTCAAGCGCCAGCGCGACCCGCAGGAGCAGGTATTGTTGCTGCGCGATGAACAGCGCCGCCAGCAGCAACGCCGGAACAAGGGCGAGCAGGAACGCTACGAG  >  KT2440/1308583‑1308846

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑