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
A3 F14 I0 R1	206	76.7	3255580	98.8%	3216513	146.3

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	40.3%	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	40.3%	28.1 / 12.9	37	S297A (TCG→GCG)	gllR	HTH‑type transcriptional regulator GalR
Reads supporting (aligned to +/- strand): ref base T (3/19); new base G (11/4); total (14/23)
Fisher's exact test for biased strand distribution p-value = 4.14e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCTCACGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACCAGT  >  NC_002947_CJ‑RC/2863682‑2863973

ccTCACGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCt                                                                                                                                                  <  8:226147/148‑1 (MQ=255)

    aCGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGcc                                                                                                                                              <  4:126446/148‑1 (MQ=255)

    aCGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGc                                                                                                                                               <  6:360083/147‑1 (MQ=255)

    aCGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCGCGCCg                                                                                                                                             >  4:146858/1‑149 (MQ=255)

     cGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCgg                                                                                                                                            <  4:389018/149‑1 (MQ=255)

             ccAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCGCGCCGGCCCGTccg                                                                                                                                    >  4:204943/1‑147 (MQ=255)

             ccAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTc                                                                                                                                      <  5:153255/147‑1 (MQ=255)

                   aCCTGGGGGGCGAGCCGCTAATCAACGAGTAATGGGTGGGGCTGGCCCGTGGGGGGCACCCGGTGTTGCACACTCACCTGACGCTCACGGGCGTGCACCAGGCGGGCTGGGTGTTGCCGCGGGCCGGCTCGCGGGCCGGTCAgctgct                                                                                                                               <  6:230863/148‑1 (MQ=255)

                      tggtggGCGAGCGGCTCATCACGGTGGATATGGTGTTGCTGGCCCGTCGGGGGCACCGGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCTGGCGGGCTGGGTTTTGCGGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGa                                                                                                                            <  8:348790/148‑1 (MQ=255)

                        gtggGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGa                                                                                                                            <  5:113365/146‑1 (MQ=255)

                         tggGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACaa                                                                                                                         >  7:308277/1‑148 (MQ=255)

                         tggGCGAGCCGCTCATCAACGAGCAATTGGTGGGGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCATGGGCGTGCACCTGGCGCGGTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACaa                                                                                                                         <  6:229270/148‑1 (MQ=255)

                          gggCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGTTCGCCGGCCCGTCAGCTGCTCGACAAc                                                                                                                        <  5:135611/148‑1 (MQ=255)

                                   gCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCGCGCCGGCCCGGCAGCTGCTCGACAACAGCTTcgcc                                                                                                               >  6:177032/1‑148 (MQ=255)

                                       atcaACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCGCGCCGGCCCGGCAGCGGCGCGACAACAGCATcgccgccg                                                                                                           >  8:374697/1‑148 (MQ=255)

                                        tcaACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGTCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTACGACGCcgcg                                                                                                         >  1:209032/1‑149 (MQ=255)

                                        tcaACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCGCGCCGGCCCGGCAGCGGCTGGACGACAGCGTcgccgccgc                                                                                                          >  5:188392/1‑148 (MQ=255)

                                           aCGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGCGTTGCCGCGGGCCGGCGCGCCGGCCCCGCCGCGGCGGGGCAACTGCTTAGCCGCCCCggg                                                                                                       >  5:319455/1‑148 (MQ=255)

                                              aGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGGGCGCGGGCCCCGCAGCAGCGCGGCCACGTCGTCGGCGCCCCggggcg                                                                                                    >  7:153870/1‑145 (MQ=255)

                                                 aaaTGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGGGCGCCGGCCCGGCCGCGGCGCGCGAGCGGCGTCGCCGCCGCGGGccgggc                                                                                                 >  5:409848/1‑144 (MQ=255)

                                                                   gTCGGGGGCACCCGCTGTTGCACACTCACCTGCCGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCGCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCggtggt                                                                               <  7:312337/148‑1 (MQ=255)

                                                                        gggCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCCGCGCCCCCGCCCCGCACCGGCGCGACAACAACTTCACCGCCCCCGGCCAGCCAGCCCCCTGGCCGGGGGGGGaa                                                                           >  8:371261/1‑147 (MQ=255)

                                                                           cACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAgcgc                                                                      <  1:1380/149‑1 (MQ=255)

                                                                                  tGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCGCGCCCGCCCGGCAGCTGCGCGACCACAGCATAGCCGCCGCGGGCCGGCCAGCGCCGGGGCCGGGGGGGGAAAGCGCTGCTCTg                                                               >  4:377383/1‑149 (MQ=255)

                                                                                      gCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGc                                                             <  5:189462/147‑1 (MQ=255)

                                                                                       cacaCTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCGCGCCGGCCCGTCCGCTGCGCGACAACAGCTTCGCCGCCGCGGGCCAGACCGCGCCCGGGCCGGGGGTGGAAAGCGCGGATCTGGCgg                                                           >  6:371702/1‑148 (MQ=255)

                                                                                              aCCTGCCGCTCAAGGGCGTGCACCTGGCGCGCGGGGTGTTGCCGCGGGCGGGCTCGCGGGCCGGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGt                                                   <  3:204943/149‑1 (MQ=255)

                                                                                              aCCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCGGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCg                                                    <  8:267420/148‑1 (MQ=255)

                                                                                               ccTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGt                                                   <  7:374697/148‑1 (MQ=255)

                                                                                                         aaGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTgg                                         <  8:308277/148‑1 (MQ=255)

                                                                                                         aaGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCAGCACGACAACAGCGTAGCCGCCCCCGGCCAGACAGCGCCCGGGGCGGTGGGGGGAAGCGCTGAAAAGGCGGTTATACGTGGCCTAATGGt                                        >  2:77181/1‑149 (MQ=255)

                                                                                                           gggCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTg                                       <  5:177032/148‑1 (MQ=255)

                                                                                                               gTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGtt                                   <  6:188392/148‑1 (MQ=255)

                                                                                                                tGCACCAGGCGCGCTGGGTGTTGCCGCGGTCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTAACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCg                                 <  2:209032/149‑1 (MQ=255)

                                                                                                                                 gtgtTGCGGCGGGCCGGCGCGCGGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGcggcgg                 <  6:58082/148‑1 (MQ=255)

                                                                                                                                 gtgtGGCCGGGGGGGGGCGGGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGgt                <  1:352661/149‑1 (MQ=255)

                                                                                                                                    tggCCGCGGGCCGGCGCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGgtgt              <  3:146858/146‑1 (MQ=255)

                                                                                                                                                ggCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACCAGt  <  6:409848/148‑1 (MQ=255)

CCTCACGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACCAGT  >  NC_002947_CJ‑RC/2863682‑2863973

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