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
A2 F13 I0 R1	203	85.6	3649704	98.8%	3605907	146.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947_CJ‑RC	2,863,829	T→G	28.2%	S297A (TCG→GCG)	gllR →	HTH‑type transcriptional regulator GalR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947_CJ‑RC	2,863,829	0	T	G	28.2%	45.4 / 7.9	49	S297A (TCG→GCG)	gllR	HTH‑type transcriptional regulator GalR
Reads supporting (aligned to +/- strand): ref base T (7/28); new base G (12/2); total (19/30)
Fisher's exact test for biased strand distribution p-value = 3.37e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCTCACGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACCAGTTGGC  >  NC_002947_CJ‑RC/2863682‑2863977

ccTCACGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTc                                                                                                                                                     <  4:250334/149‑1 (MQ=255)

     cGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCgg                                                                                                                                                <  6:81374/149‑1 (MQ=255)

             ccAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCTCGCCGGCCCGGCAg                                                                                                                                        >  1:303595/1‑149 (MQ=255)

             ccAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAg                                                                                                                                        <  5:94706/149‑1 (MQ=255)

              cAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGGGCGcccgcccggccgc                                                                                                                                       >  2:117459/1‑144 (MQ=255)

              cAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCGGGCCGGCCCggccgc                                                                                                                                       >  6:437284/1‑144 (MQ=255)

              cAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCGCGCCCGCCCGTCAg                                                                                                                                        >  8:10306/1‑148 (MQ=255)

                   aCCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTc                                                                                                                                  <  3:225913/149‑1 (MQ=255)

                        gtggGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGGGCGCCGGCCCGGCCGCGGCGCGGCaa                                                                                                                             >  4:161868/1‑149 (MQ=255)

                               tgCCGCTCATCAAGGAGGAAATGGGGGTGCGGGCCGGTGGGGGGCACCCGCTGTTGCACACTCACCTCACGCTCACGGGCGTGCACCTGGGGCGCGGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTc                                                                                                                      <  4:212226/148‑1 (MQ=255)

                               aGCCGCTATTAAACGAGTAATTGGGGGTGCTGGCCGGGGGGGGGCACCCGCTGTTGCAAACTCACCTGACGCTCATGGGGGTGCACCTGGCGCGGTGGGTGTTGCGGCGGGCCGGGTGGCGGGCCGGTCAGCTGCTCGACAACTGCTTc                                                                                                                      <  4:233178/149‑1 (MQ=255)

                                gCCGCGCTTCACCGAGTAAATGGGGGGGCTGGCCCGTCGGGGGCACCCGCTTTTGCACACTCACCTGCCGCTCAAGGGCGTGCACCAGGCGCGCGGGGTTTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTcg                                                                                                                     <  8:247358/149‑1 (MQ=255)

                                 ccGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTGGCACACTCACCTGACGCTCACGGGCGTGCACCAGGCGCGCTGGGTGTGGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTcg                                                                                                                     <  8:254058/148‑1 (MQ=255)

                                         caACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGGGCGCCGGCCCCGCCGCGGGGCGCCAACGGCATcgcccccgccg                                                                                                            >  1:389704/1‑147 (MQ=255)

                                           aCGAGTAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGc                                                                                                          <  8:89482/149‑1 (MQ=255)

                                                      ggggtgCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGcc                                                                                               <  4:197956/147‑1 (MQ=255)

                                                        ggagCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGt                                                                                             <  4:242468/146‑1 (MQ=255)

                                                             tGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCGCGCCGGCCCGGCCGCGGCGCGCCAACGGCTTCGCCGCCGCGGGCCGGACAGCGCCGTGGCCg                                                                                        >  7:243847/1‑149 (MQ=255)

                                                                 ccGTCGGGGGCACCCGGTGTTGCACACTCACCTGACGATCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGGGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCggtgg                                                                                    <  6:48062/149‑1 (MQ=255)

                                                                  cggcGGGGGCACCCGCTTTTCCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCGGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCggtggt                                                                                   <  2:433969/146‑1 (MQ=255)

                                                                  cGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCTCGCCGGCCCGGCCCCGGCGCGCCAACAGCGTCGCCGCCCCGGGCCGGACCGCGCcgggggcgggggg                                                                                   >  6:10830/1‑148 (MQ=255)

                                                                  cGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCGGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCggtggt                                                                                   <  2:161137/149‑1 (MQ=255)

                                                                             cccGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCCGCCCGGCAGCTGCTCGACAACAGCATAGCCCCCCCCGGCCGGACAGCGCCGAGGCCGGTGGGGGAAAgcggg                                                                         >  6:451651/1‑146 (MQ=255)

                                                                                  tGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCGCGCCGGCCCCGCCGCAGCTCGACAACAGCGTAGCCGCCGCGGGCCGGCCAGCGCCGGGGCCGGGGGGGGAAAGCGCGGATCTg                                                                   >  2:92382/1‑149 (MQ=255)

                                                                                    tggCACACTCACCTCCCCCTCATGGGCGTGCACCCGGGGCGCTGGGTGGGGCCGCGGCCGGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGc                                                                 <  3:16774/147‑1 (MQ=255)

                                                                                      gCACACTCACCTGACGCTCACGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCg                                                                <  5:437284/148‑1 (MQ=255)

                                                                                      gCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCGCGCCCGCCCCGCACCTGCTCGACAACAGCAAAGCCGCCCCCGGCCGGACAGCGCCCGGGCCGGGGGGGGGAAGCGCGGATCAGGCgg                                                               >  2:130248/1‑149 (MQ=255)

                                                                                         cacTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCGGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTa                                                            <  7:353833/149‑1 (MQ=255)

                                                                                         cacTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTgg                                                                  <  5:133763/143‑1 (MQ=255)

                                                                                         cacTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCCGCCCCGCACCAGCTCGCCAACAGCATAGCCGCCCCCGGCCGGACAGCCCCGTGGCCGGTGGGGGGAAGCGCAGATCTgg                                                                  >  6:133763/1‑143 (MQ=255)

                                                                                          acTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACCACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGGGGAAAGCGCTGATCTGGCGGGTAt                                                           >  7:299248/1‑149 (MQ=255)

                                                                                              aCCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCGCGCCGGCCCGGCCGCGGCGCGACAACAGCGTCGCCGCCGCGGGCCGGCCAGCGCCGGGGCCGGGGGGGGGAAGCGCGGATGTGGGGGGTTTCCGt                                                       >  8:148624/1‑149 (MQ=255)

                                                                                               ccTGACGCTCAAGGGCGTGCACCTGGCGCGCGGGGTGTGGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTg                                                      <  3:161868/149‑1 (MQ=255)

                                                                                               ccTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTg                                                      <  5:451651/149‑1 (MQ=255)

                                                                                                     gCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCGCGCCGGCCCGGCCGCGGGGCGACAACAGCTTAGCCGCCGCGGGCCTGGCAGCGCCGGGGCCGGGGGGGGGAAGCGCGGATATGGCGGTTATACGTGGCCTa                                                 >  8:441581/1‑148 (MQ=255)

                                                                                                     gCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCGCGCCGGCCCCGCAGCTGCTCGACAACAGCTTAGCCCCCCCCGGCCAGACAGCGCCGAGGCCGGGGGGGGAAAGCGCAGATCTGGCGGTTTTCCGTGGCCTa                                                 >  8:227396/1‑148 (MQ=255)

                                                                                                       tCACGGGGGTGAACCTGGCGCGCGGGGTGGGGGGGGGGGCGGGCGGGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTg                                              <  3:254758/149‑1 (MQ=255)

                                                                                                       tCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGGCAGCAGCTCGACAACTGCTTAGCCGCCGCGGGCCGGACAGCGCCGGGGCCGGGGGGGGGAAGCGCGGATCTGGGGGGTATCCGTGGCCTACTg                                              >  8:142031/1‑149 (MQ=255)

                                                                                                        cAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCGCGCCCCCCCGGCAGCAGCTCGACAACAGCATCGCCCCCGCGGGCCGGACACCGCCGGGGCCGGGGGGGGAAAGCGCAGCACTGGCGGGTATACGTGGCCAACAgg                                             >  6:435321/1‑149 (MQ=255)

                                                                                                         aaGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTg                                              <  8:20973/147‑1 (MQ=255)

                                                                                                                   aCCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGAc                                  <  6:46424/149‑1 (MQ=255)

                                                                                                                        ggggggtGGGTGTTCCCGGGGGCCGGGTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCt                             <  1:194179/143‑1 (MQ=255)

                                                                                                                               gggTGTTGCCGGGGGCGGGCTCGCGGGCCGGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGgcggcg                      <  2:389704/149‑1 (MQ=255)

                                                                                                                                 gggtTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGgt                    <  1:406397/147‑1 (MQ=255)

                                                                                                                                    ttGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGgtgt                  <  1:117459/148‑1 (MQ=255)

                                                                                                                                        cgcgGGCCGGCTCGCCGGCCCGTCAGCTGCTCGCCAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATACGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTgcg             >  3:96750/1‑149 (MQ=255)

                                                                                                                                               cGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACCAGt      <  1:447355/149‑1 (MQ=255)

                                                                                                                                               cGGCGCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACCAGt      <  5:10830/149‑1 (MQ=255)

                                                                                                                                                 gCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACCAGTTg    <  7:142031/149‑1 (MQ=255)

                                                                                                                                                   tCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGTGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACCAGTTGGc  >  4:237350/1‑149 (MQ=255)

CCTCACGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACCAGTTGGC  >  NC_002947_CJ‑RC/2863682‑2863977

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: `‑`

GATK/CNVnator alignment

N/A