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 F1 I0 R1	4577	57.4	3436498	77.7%	2670158	63.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	617,166	T→C	42.0%	S68S (AGT→AGC)	ycaL →	predicted peptidase with chaperone function

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	617,166	0	T	C	42.0%	34.5 / 81.0	107	S68S (AGT→AGC)	ycaL	predicted peptidase with chaperone function
Reads supporting (aligned to +/- strand): ref base T (23/39); new base C (20/25); total (43/64)
Fisher's exact test for biased strand distribution p-value = 5.49e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.37e-01

Only 100 of 108 total aligned reads displayed.

ATGCCGATGCAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATATT  >  minE/617099‑617226

atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGt                                                              >  1:1094688/1‑68 (MQ=255)

atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:842147/1‑69 (MQ=255)

atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:837714/1‑69 (MQ=255)

atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:703561/1‑69 (MQ=255)

atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:621951/1‑69 (MQ=255)

atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:2416231/1‑69 (MQ=255)

atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:355874/1‑69 (MQ=255)

atgccgatgcAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTa                                                             >  1:3059249/1‑69 (MQ=255)

           aaaGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAg                                                  <  1:1911010/69‑1 (MQ=255)

                  ttGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTa                                           <  1:2086742/69‑1 (MQ=255)

                  ttGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTa                                           <  1:2439693/69‑1 (MQ=255)

                          cAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCt                                    >  1:926612/1‑68 (MQ=255)

                          cAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCt                                    >  1:1598806/1‑68 (MQ=255)

                          cAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCt                                    >  1:1546802/1‑68 (MQ=255)

                          cAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCt                                    >  1:2756439/1‑68 (MQ=255)

                          cAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCt                                    >  1:609569/1‑68 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:2959851/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:3014848/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:2736500/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:3425725/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:488109/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:724470/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:2142873/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:877319/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:2354925/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:190949/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1014010/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1088220/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1157910/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1288150/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1309342/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:132166/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1778318/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1366708/69‑1 (MQ=255)

                             ggCTGTGTCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1618834/69‑1 (MQ=255)

                              gCTGTGTCCAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:2123430/68‑1 (MQ=255)

                                tgtgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCaaaa                             <  1:2827955/69‑1 (MQ=255)

                                tgtgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCaaaa                             <  1:3190178/69‑1 (MQ=255)

                                tgtgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCaaaa                             <  1:293428/69‑1 (MQ=255)

                                tgtgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCaaaa                             <  1:2221051/69‑1 (MQ=255)

                                tgtgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCaaaa                             <  1:2074820/69‑1 (MQ=255)

                                 gtgtCGAAATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:1628310/65‑1 (MQ=255)

                                  tgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAATTACGGTAAACGTCTGGCaaaa                             >  1:2646844/1‑67 (MQ=255)

                                  tgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCaaaatt                           >  1:2481873/1‑67 (MQ=255)

                                  tgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAAt                           >  1:3181157/1‑69 (MQ=255)

                                  tgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAAt                           >  1:2606061/1‑69 (MQ=255)

                                  tgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAAt                           >  1:16725/1‑69 (MQ=255)

                                  tgCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAAt                           >  1:901180/1‑69 (MQ=255)

                                    tcGATATGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCa                                <  1:891201/61‑1 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAATCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:252159/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACg                                              >  1:2275917/1‑44 (MQ=38)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTgg                                  >  1:2272110/1‑56 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:815124/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:354971/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2182558/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:3131665/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:3078932/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:1082924/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2024753/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2995445/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:297827/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:1781174/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2294459/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2108146/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2226952/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:2773926/1‑69 (MQ=255)

                                        aaTGGACAGCGGCAATAAAGTGGCAAGCAAATCCAGCAAGTACGGGAAACGTCTGGCAAAAATCGCCaa                     >  1:1346211/1‑69 (MQ=255)

                                           ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCaaaa                             <  1:3391805/58‑1 (MQ=255)

                                           ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:2045515/69‑1 (MQ=255)

                                           ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:302321/69‑1 (MQ=255)

                                           ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:3038985/69‑1 (MQ=255)

                                           ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:2445483/69‑1 (MQ=255)

                                           ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:1106539/69‑1 (MQ=255)

                                           ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:1145775/69‑1 (MQ=255)

                                           ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:1011112/69‑1 (MQ=255)

                                           ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:523912/69‑1 (MQ=255)

                                           ggACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGc                  <  1:1193835/69‑1 (MQ=255)

                                                       tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:2084587/69‑1 (MQ=255)

                                                       tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:2205516/69‑1 (MQ=255)

                                                       tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:2063861/69‑1 (MQ=255)

                                                       tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:1025832/69‑1 (MQ=255)

                                                       tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:2259864/69‑1 (MQ=255)

                                                       tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:2278056/69‑1 (MQ=255)

                                                       tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:1319462/69‑1 (MQ=255)

                                                       tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:3352461/69‑1 (MQ=255)

                                                       tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:1190221/69‑1 (MQ=255)

                                                       tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:2671760/69‑1 (MQ=255)

                                                       tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      <  1:1403169/69‑1 (MQ=255)

                                                       tCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCACCAAAGCATTGGGTAACaa      <  1:655635/69‑1 (MQ=255)

                                                        cAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      >  1:1962751/1‑68 (MQ=255)

                                                        cAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      >  1:75086/1‑68 (MQ=255)

                                                        cAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACaa      >  1:1811227/1‑68 (MQ=255)

                                                          aGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAata    >  1:1166095/1‑68 (MQ=255)

                                                           gTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATAtt  <  1:805149/69‑1 (MQ=255)

                                                           gTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATAtt  <  1:2773910/69‑1 (MQ=255)

                                                           gTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATAtt  <  1:3092075/69‑1 (MQ=255)

                                                           gTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATAtt  <  1:83300/69‑1 (MQ=255)

                                                           gTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATAtt  <  1:1580644/69‑1 (MQ=255)

                                                           gTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATAtt  <  1:295779/69‑1 (MQ=255)

                                                            tCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATAtt  <  1:1757289/68‑1 (MQ=255)

ATGCCGATGCAAAAGCGATTGCCAATCAGGGCTGTGCCGAAATGGACAGCGGCAATCAAGTCGCAAGTAAATCCAGCAAGTACGGTAAACGTCTGGCAAAAATCGCCAAAGCATTGGGTAACAATATT  >  minE/617099‑617226

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A