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 1,766,035 T→C 58.1% L275L (CTA→CTG)  clpB ← protein disaggregation chaperone

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,766,0350TC58.1% 39.2 / 72.2 100L275L (CTA→CTG) clpBprotein disaggregation chaperone
Reads supporting (aligned to +/- strand):  ref base T (30/12);  new base C (29/29);  total (59/41)
Fisher's exact test for biased strand distribution p-value = 4.00e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.06e-01

GTTTCCGGCGTCCATTGCGCCATCGGCTTTACCCGCGCCGACCATGGTATGTAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCAAACTC  >  minE/1765969‑1766100
                                                                  |                                                                 
gTTTCCGGCGTCCATTGCGCCATCGGCTTTACCCGCGCCGACCATGGTATGTAATTCGTCGATAAATAg                                                                 <  1:3114935/69‑1 (MQ=255)
 tttCCGGCGTCCATTGCGCCATCGGCTTTACCCGCGCCGACCATGGTATGTAATTCGTCGATAAATAg                                                                 >  1:1139186/1‑68 (MQ=255)
       gCGTCCATTGCGCCATCGGCTTTACCCGCGCCGACCATGGTATGTAATTCGTCGATAAATAGGATGAc                                                           <  1:2113079/68‑1 (MQ=255)
         gTCCATTGCGCCATCGGCTTTACCCGCGCCGACCATGGTATGTAATTCGTCGATAAATAGGATGACGtt                                                        <  1:863308/69‑1 (MQ=255)
         gTCCATTGCGCCATCGGCTTTACCCGCGCCGACCATGGTATGTAATTCGTCGATAAATAGGATGACGtt                                                        <  1:1682243/69‑1 (MQ=255)
         gTCCATTGCGCCATCGGCTTTACCCGCGCCGACCATGGTATGTAATTCGTCGATAAATAGGATGACGtt                                                        <  1:31858/69‑1 (MQ=255)
         gTCCATTGCGCCATCGGCTTTACCCGCGCCGACCATGGTATGTAATTCGTCGATAAATAGGATGACGtt                                                        <  1:135350/69‑1 (MQ=255)
         gTCCATTGCGCCATCGGCTTTACCCGCGCCGACCATGGTATGTAATTCGTCGATAAATAGGATGACGtt                                                        <  1:3017676/69‑1 (MQ=255)
                                          cATTGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:799273/1‑45 (MQ=38)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGcctgcctg                                               >  1:1685435/1‑45 (MQ=38)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCt                                                >  1:48434/1‑44 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:3227461/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:1929160/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:3013947/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:2995104/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:3303212/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:1786611/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:1933261/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:2996076/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:3374876/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:2092503/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:2132301/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:2882155/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:2355723/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:2574188/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:2461997/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:2441343/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:500507/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:103913/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:1199733/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:1374401/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:1755312/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:1461967/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:1476489/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:1522108/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:420669/1‑45 (MQ=255)
                                          cATGGTATGTAATTCGTCGATAAACAGGATGACGTTGCCTTCCTg                                               >  1:407288/1‑45 (MQ=255)
                                                 tGTAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTaaa                >  1:430537/1‑69 (MQ=255)
                                                 tGTAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTaaa                >  1:422188/1‑69 (MQ=255)
                                                 tGTAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTaaa                >  1:1801326/1‑69 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAg                             >  1:1580401/1‑54 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAg                             >  1:3208737/1‑54 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAg                             >  1:1353953/1‑54 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAg                             >  1:562491/1‑54 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAg                             >  1:2294978/1‑54 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAg                             >  1:705508/1‑54 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAg                             >  1:873150/1‑54 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAAc               >  1:2644834/1‑68 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACg              >  1:2922476/1‑69 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACg              >  1:765419/1‑69 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACg              >  1:959023/1‑69 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACg              >  1:1449332/1‑69 (MQ=255)
                                                   tAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACg              >  1:1129844/1‑69 (MQ=255)
                                                     aTTCGTCTATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:754771/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:720401/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:129601/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:748019/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:582742/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:1303343/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:1100077/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:497407/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:146203/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:1554447/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:1555438/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:2376244/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:758760/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:336433/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:743794/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:2056949/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:1048695/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:2590726/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:2324769/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:2654575/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:270418/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:2305755/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:902699/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:1065718/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:842619/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:1991153/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:1887245/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGTTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:1870051/69‑1 (MQ=255)
                                                     aTTCGTCGATAAACAGGATGACGGTGCCTTCCTGTTTAGCAAGATCGTTAAGTACGCCTTTTAAACGtt            <  1:192246/69‑1 (MQ=255)
                                                           cgATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCa       <  1:1087633/68‑1 (MQ=255)
                                                           cgATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCa       <  1:2785277/68‑1 (MQ=255)
                                                           cgATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCa       <  1:1883192/68‑1 (MQ=255)
                                                           cgATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGCTAAGCACGCCTTTTAAACGTTCTTCa       <  1:418941/68‑1 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaaa     >  1:762122/1‑69 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaaa     >  1:1620231/1‑69 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaaa     >  1:724875/1‑69 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaaa     >  1:698008/1‑69 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaaa     >  1:1665402/1‑69 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaaa     >  1:1786673/1‑69 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaaa     >  1:3259443/1‑69 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaaa     >  1:1805162/1‑69 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaaa     >  1:1887813/1‑69 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaaa     >  1:2356312/1‑69 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaa      >  1:546415/1‑68 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaa      >  1:1706425/1‑68 (MQ=255)
                                                            gATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCaa      >  1:2127379/1‑68 (MQ=255)
                                                               aaaTAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCAAACTc  <  1:2925690/69‑1 (MQ=255)
                                                                  |                                                                 
GTTTCCGGCGTCCATTGCGCCATCGGCTTTACCCGCGCCGACCATGGTATGTAATTCGTCGATAAATAGGATGACGTTGCCTTCCTGTTTGGCAAGATCGTTAAGCACGCCTTTTAAACGTTCTTCAAACTC  >  minE/1765969‑1766100

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