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
A14 F56 I20 R2	1958	92.1	3575798	91.1%	3257551	126.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP006881	3,743,140	T→C	intergenic (+1059/+510)	U712_19290 → / ← U712_19300	Uncharacterized protein ywcB/Uncharacterized protein ywbO

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006881	3,743,140	0	T	C	95.8%	140.3 / ‑3.5	49	intergenic (+1059/+510)	U712_19290/U712_19300	Uncharacterized protein ywcB/Uncharacterized protein ywbO
Reads supporting (aligned to +/- strand): ref base T (1/1); new base C (33/13); total (34/15)
Fisher's exact test for biased strand distribution p-value = 5.03e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCGCTTTTAGCAAAAGCGCTCGGAGGAGACTTTCTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCTAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGCACAATCCTTAAATGTGGCGTTCCTTGTT  >  CP006881/3743005‑3743271

ccGCTTTTAGCAAAAGCGCGCGGAGGAGACTTTCTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGGCTGTCGTGCCAGGGTTGGTGCTGTCTGCCGGCTCAGGATTTGCCCATGATTATTACAGCCAgg                                                                                                                                  >  8:162571/1‑138 (MQ=255)

  gCTTTTAGCAAAAGCGCTCGGAGGAGACTTTCTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGGGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGatc                                                                                                                                <  8:4053/139‑1 (MQ=255)

        aGCAAAAGCGCTCGGAGGAGACTTTCTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAg                                                                                                                           <  5:73521/138‑1 (MQ=255)

        aGCAAAAGCGCTCGGAGGAGACTTTCTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGa                                                                                                                          <  8:103424/139‑1 (MQ=255)

        aGCAAAAGCGCTCGGAGGAGACTTTCTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGGCTGCCGCCTCAGCATTTGCCCATGATATTTACGGCCAGATCATCAg                                                                                                                           >  7:315503/1‑138 (MQ=255)

         gCAAAAGCGCTCGGAGGAGACTTTCTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGTCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGa                                                                                                                          <  8:368730/138‑1 (MQ=255)

                          agaCTTTCTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGa                                                                                                         >  1:194262/1‑138 (MQ=255)

                          agaCTTTCTGTTCGCGTTTGTATCAGCCATCGCCTTTGACACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATAATCAGAAAGGGAGAAGCAAATGa                                                                                                         >  3:168590/1‑138 (MQ=255)

                            aCTTTCTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGaaa                                                                                                       >  4:417609/1‑138 (MQ=255)

                                 cTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGaaa                                                                                                       >  4:387215/1‑133 (MQ=255)

                                 cTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGaaa                                                                                                       <  3:387215/133‑1 (MQ=255)

                                 cTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGaa                                                                                                  >  7:113262/1‑138 (MQ=255)

                                                        cGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCt                                                                          >  1:426896/1‑139 (MQ=255)

                                                        cGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCt                                                                          >  2:312868/1‑139 (MQ=255)

                                                        cGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCt                                                                          >  3:288431/1‑139 (MQ=255)

                                                              tGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCCGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTc                                                                    >  8:387824/1‑139 (MQ=255)

                                                              tGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCTAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTc                                                                    >  1:28659/1‑139 (MQ=255)

                                                              tGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGAAGGGCTTCTGTc                                                                    >  1:371618/1‑139 (MQ=255)

                                                                   ccaTTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAACAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCgt                                                               >  2:95855/1‑139 (MQ=255)

                                                                    caTTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCgtg                                                              >  7:275772/1‑139 (MQ=255)

                                                                     aTTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATTAAAGCGGCCAGATGGGCTTCTGTCGCCgtgt                                                             >  6:276947/1‑139 (MQ=255)

                                                                            cTGTCGTGACTGGGTTGGGGCTGTCTGCCGCCGCAGCATTTGCCCATGATATTTACCGCCAGATCAGCACAAAGGGAGAACCAACTGAAAAACAACAAATGAACGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGct                                                      <  8:275772/139‑1 (MQ=255)

                                                                              gTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCCGTGctct                                                    >  4:176631/1‑139 (MQ=255)

                                                                               tCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCtctc                                                   >  5:439517/1‑139 (MQ=255)

                                                                                         gTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGTCTTCTGTCGCCGTGTGAGTGGTCTCGATTGTCCtt                                         >  7:422503/1‑139 (MQ=255)

                                                                                         gTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGGTTCTCCtt                                         >  4:40962/1‑139 (MQ=255)

                                                                                            gctGCGGTCTGCCTCCTCTCCATTGGCGCCTGATATTACCATCCAGAACACCATATAGGTACAACCAACTGAATATCCTAATTTGAAAGGGGCCAGATGGGCTTCTGTCGCCGTGTCAGAGCTCTCGATTCTCCTTGc                                       <  6:350406/136‑1 (MQ=255)

                                                                                             gTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGa                                     >  1:82891/1‑139 (MQ=255)

                                                                                              tGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGAt                                    >  6:301389/1‑139 (MQ=255)

                                                                                                  gTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGAttttt                                >  2:270234/1‑139 (MQ=255)

                                                                                                  gTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGAttttt                                >  3:238261/1‑139 (MQ=255)

                                                                                                  gTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGAttttt                                >  2:80411/1‑139 (MQ=255)

                                                                                                  gTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTACTTGCGAttttt                                >  7:22863/1‑139 (MQ=255)

                                                                                                   tCTGCCGCCTCAGCATTTGCCCATGATATTTACAGTCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTg                               >  4:305952/1‑139 (MQ=255)

                                                                                                   tCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTg                               >  3:33466/1‑139 (MQ=255)

                                                                                                    cTGCCGCTTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTACTTGCGATTTTTg                               >  7:342584/1‑138 (MQ=255)

                                                                                                     tGCCTCATCAGCATTTCCCCATGATATTTACAGCCATATCATCACAAAGGGTGAACAAACTTAAAAAGAACAAATTAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGca                             <  5:157900/139‑1 (MQ=255)

                                                                                                     tGCCGCCTCAGCATTTGCCAATTATATTTACAGCCCTATCAGCAGAAAGGGAGAAGCATCTGAAAAAGAACAAATCACTGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGca                             <  3:417609/139‑1 (MQ=255)

                                                                                                       ccgccTCAGCTTTTCCCCATTATATTAACACCCAGATCATCAGAACGGGACACGCAACTCAAAAACAAAAAATGAACGCGGCCAGATGGGCGTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGcaca                           <  3:153785/139‑1 (MQ=255)

                                                                                                       ccgccTCAGCATTTGCCCATGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGca                             <  8:113262/137‑1 (MQ=255)

                                                                                                       ccgccTCACAATTTGCCCATGATATTAACACCCAGATCATCAGAATGGGAGAACAAACTCAAAACTAAAAAATCAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGca                             <  3:176631/137‑1 (MQ=255)

                                                                                                       ccgccTCACAATTTGACAATTATTTTAACCCCCATATCATCCTAACGGGATAACCAAATTAAAAATAAAAAATCAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGcaca                           <  2:371618/139‑1 (MQ=255)

                                                                                                              ctcATTTGCCAATGATATTAACACCACGAACATACCAATGGCACAACAAACTAAAAAAGAACAAATCACCGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGCACAATCCt                      <  5:276947/135‑1 (MQ=255)

                                                                                                                          tGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGCACAATCCTTAAATGTGGCGTTc        >  2:1609/1‑139 (MQ=255)

                                                                                                                          tGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGCACAATCCTTAAATGTGGCGTTc        >  7:17615/1‑139 (MQ=255)

                                                                                                                          tGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGCACAATCCTTAAATGTGGCGTTc        >  7:164771/1‑139 (MQ=255)

                                                                                                                          tGATATTTACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCGCGAGTGGCCTTGCGCGTTTTGGGCAATCGTGTAATGTGGGGttg        >  2:189496/1‑138 (MQ=255)

                                                                                                                               ttaaCAGTTAGAAAATCAGAATGGTAGAAGAAACTTAAAAAAAAAAAATTAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGCACAATCCTTAAATGTGGCGTTCCttg    <  2:28659/135‑1 (MQ=255)

                                                                                                                                ttACAGCCAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGCACAATCCTTAAATGTGGCGTTCCttgtt  >  1:250360/1‑139 (MQ=255)

CCGCTTTTAGCAAAAGCGCTCGGAGGAGACTTTCTGTTCGCGTTTGTATCAGCCATCGCCTTTGCCACCATTTTGGCTGTCGTGACAGGGTTGGTGCTGTCTGCCGCCTCAGCATTTGCCCATGATATTTACAGCTAGATCATCAGAAAGGGAGAAGCAACTGAAAAAGAACAAATGAAAGCGGCCAGATGGGCTTCTGTCGCCGTGTCAGTGCTCTCGATTCTCCTTGCGATTTTTGCACAATCCTTAAATGTGGCGTTCCTTGTT  >  CP006881/3743005‑3743271

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