Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A13 F69 I0 R1	1426	148.0	5875178	97.4%	5722423	123.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	4,409,157	G→C	9.8%	intergenic (+62/‑118)	rnr → / → rlmB	exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,409,157	0	G	C	9.8%	206.4 / 11.1	61	intergenic (+62/‑118)	rnr/rlmB	exoribonuclease R, RNase R/23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent
Reads supporting (aligned to +/- strand): ref base G (27/28); new base C (3/3); total (30/31)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01

AAAAAGCCATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGCGAAATGATTTACGGCATCCAC  >  NC_000913/4409015‑4409301

aaaaaGCCATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATgcgg                                                                                                                                            >  2:8057/1‑149 (MQ=255)

aaaaaGCCATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATgcgg                                                                                                                                            >  3:1269891/1‑149 (MQ=255)

aaaaaGCCATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATgcgg                                                                                                                                            >  4:1065846/1‑149 (MQ=255)

aaaaaGCCATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATgcgg                                                                                                                                            >  3:435996/1‑149 (MQ=255)

  aaaGCCATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATgcggcg                                                                                                                                          >  4:334785/1‑149 (MQ=255)

   aaGCCATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGt                                                                                                                                         <  3:334785/149‑1 (MQ=255)

      ccATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGaa                                                                                                                                      <  1:864405/149‑1 (MQ=255)

       cATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATAAGGCGttcac                                                                                                                                     >  1:120609/1‑145 (MQ=255)

           ggCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCt                                                                                                                                 <  1:768971/149‑1 (MQ=255)

             cGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTa                                                                                                                               <  1:48506/149‑1 (MQ=255)

                 aaCGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCg                                                                                                                           <  4:1269891/149‑1 (MQ=255)

                 aaCGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCg                                                                                                                           <  4:435996/149‑1 (MQ=255)

                  aCGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCgg                                                                                                                          <  3:1065846/149‑1 (MQ=255)

                                         cAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCaa                                                                                                   >  1:796869/1‑149 (MQ=255)

                                           aagcgaagcgTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCACGCCGCATCCGGCATGaa                                                                                                                                      <  4:1188897/112‑1 (MQ=255)

                                           aagcgaagcgTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCACGCCGCATCCGGCATGaa                                                                                                                                      >  3:1188897/1‑112 (MQ=255)

                                             gcgaagcgTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCACGCCGCATCCGGCATGa                                                                                                                                       <  4:636379/109‑1 (MQ=255)

                                             gcgaagcgTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCACGCCGCATCCGGCATGa                                                                                                                                       >  3:636379/1‑109 (MQ=255)

                                                 agcgTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGc                                                                                           >  1:12772/1‑149 (MQ=255)

                                                      gcggcgAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAgaga                                                                                      <  2:12772/149‑1 (MQ=255)

                                                              gaaAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAg                                                                              >  4:1450091/1‑149 (MQ=255)

                                                                 aaaaGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGcc                                                                           <  1:8057/149‑1 (MQ=255)

                                                                 aaaaGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGcc                                                                           <  3:1450091/149‑1 (MQ=255)

                                                                 aaaaGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGcc                                                                           >  3:73225/1‑149 (MQ=255)

                                                                        gCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAAt                                                                                                       >  4:1057153/1‑114 (MQ=255)

                                                                        gCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAAt                                                                                                       <  3:1057153/114‑1 (MQ=255)

                                                                         cAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATaa                                                                                                                 <  2:1119407/103‑1 (MQ=255)

                                                                         cAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATaa                                                                                                                 >  1:1119407/1‑103 (MQ=255)

                                                                          agagTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGa                                                                        <  3:765355/143‑1 (MQ=255)

                                                                          agagTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGa                                                                        >  4:765355/1‑143 (MQ=255)

                                                                          agagTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCACGCCGCATCCGGCATGaa                                                                                                                                      >  2:380477/1‑81 (MQ=38)

                                                                          agagTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCACGCCGCATCCGGCATGaa                                                                                                                                      <  1:380477/81‑1 (MQ=38)

                                                                            agTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTa                                                                <  4:73225/149‑1 (MQ=255)

                                                                                aTCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCaa                                                                                                   >  2:1332368/1‑110 (MQ=255)

                                                                                aTCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCaa                                                                                                   <  1:1332368/110‑1 (MQ=255)

                                                                                 tCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAata                                                                                                 <  4:201854/111‑1 (MQ=255)

                                                                                 tCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAata                                                                                                 >  3:201854/1‑111 (MQ=255)

                                                                                   aaTACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAgaga                                                                                      <  4:592213/120‑1 (MQ=255)

                                                                                   aaTACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAgaga                                                                                      >  3:592213/1‑120 (MQ=255)

                                                                                    aTACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTa                                                                                                                      <  2:392826/87‑1 (MQ=255)

                                                                                    aTACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTa                                                                                                                      >  1:392826/1‑87 (MQ=255)

                                                                                        ccTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGTACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCa                                                    >  4:848851/1‑149 (MQ=255)

                                                                                        ccTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCaa                                                                                                   <  3:730074/102‑1 (MQ=255)

                                                                                        ccTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCaa                                                                                                   >  4:730074/1‑102 (MQ=255)

                                                                                         ctctTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATAtt                                                                                             >  4:737114/1‑107 (MQ=255)

                                                                                         ctcgTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATAtt                                                                                             <  3:737114/107‑1 (MQ=255)

                                                                                                 aagaagAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAgg                                                      >  3:599597/1‑138 (MQ=255)

                                                                                                 aagaagAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAgg                                                      <  4:599597/138‑1 (MQ=255)

                                                                                                      gagGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCa                                                                                          >  1:151406/1‑97 (MQ=255)

                                                                                                      gagGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCa                                                                                          <  2:151406/97‑1 (MQ=255)

                                                                                                             aGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCAt                                                                                  >  1:1157195/1‑98 (MQ=255)

                                                                                                             aGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCAt                                                                                  <  2:1157195/98‑1 (MQ=255)

                                                                                                                         aaaTGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGCGaaa                   >  2:582185/1‑149 (MQ=255)

                                                                                                                            tGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCaa                                                                                                   >  1:823711/1‑66 (MQ=255)

                                                                                                                            tGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCaa                                                                                                   <  2:823711/66‑1 (MQ=255)

                                                                                                                                cTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGCGAAATGATTTa            <  3:848851/149‑1 (MQ=255)

                                                                                                                                        aTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGt                                                                 >  4:702887/1‑88 (MQ=255)

                                                                                                                                        aTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGt                                                                 <  3:702887/88‑1 (MQ=255)

                                                                                                                                          gCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCATTATATTGCAGAGATCATGTAGGcc                                                                           <  1:419928/76‑1 (MQ=255)

                                                                                                                                          gCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGcc                                                                           >  2:419928/1‑76 (MQ=255)

                                                                                                                                          gCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGCGAAATGATTTACGGCATCCAc  <  2:796869/149‑1 (MQ=255)

AAAAAGCCATCGGCGAAAACGCAGAAAATAGCTGCAGCGACCAAAGCGAAGCGTGCGGCGAAGAAAAAAGTGGCAGAGTGATCAATACCCTCTTTAAAAGAAGAGGGTTAGATTGCTGACAAAATGCGCTTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACATAATCACGCAAATTCAATATATTGCAGAGATCATGTAGGCCGGATAAACGTAGTGCATCAGGCAAAACGTAAACAACGAGTACATTAATGAGCGAAATGATTTACGGCATCCAC  >  NC_000913/4409015‑4409301

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A