Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_00091329,4860CA47.8% 16.4 / 17.0 23intergenic (+291/‑165)dapB/carA4‑hydroxy‑tetrahydrodipicolinate reductase/carbamoyl‑phosphate synthetase small subunit
Reads supporting (aligned to +/- strand):  ref base C (12/0);  new base A (1/10);  total (13/10)
Fisher's exact test for biased strand distribution p-value = 9.61e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

GCCCTTTTATTTTTGGTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTG‑CTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAA‑CAGGTTA‑GATGATCTTTTTGTCGCTTAATGCCTG‑TAAAACATGCATGAGCCACAAAATAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACGGAACCCAGTTTCACGGTCGGGCCATAGGGGCAACAGGT  >  NC_000913/29266‑29722
                                                                                                                                                                                                                                |                                                                                                                                                                                                                                             
gCCCTTTTATTTTTGGTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTG‑CTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAA‑CAGGTTA‑GATGATCTTTTTGTCGCTTAATGCCTG‑TAAAACATGCATGAGCCACAAAATAATATAAAAAATCCC‑GCCATTAAGt                                                                                                                                                                                                                >  1:334243/1‑251 (MQ=255)
       tATTTTTGGTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACCTGTTTTGTCTTCTGTTTTTGTTGTTTTAATGTAAATTTTGACAATTTGGTCCACTTTTTTCTG‑CTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAA‑CAGGTTA‑GATGCTCTTTTTGTCGCTTAATGCCTG‑AAAAACATGCATGAGCCACAAAATCATATAAAAAATCCC‑GCCATTAAGTTGACttt                                                                                                                                                                                                         >  2:90682/1‑251 (MQ=255)
            ttGGTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTCCATGTTTTGTCTTCTGTTTTTGTTGTTTTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTG‑CTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAA‑CAGGTTA‑GATGATCTTTTTGTCGCTTAATGCCTG‑TAAAACATGCATGAGCCACAAAATAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAgc                                                                                                                                                                                                     >  2:140485/1‑250 (MQ=255)
                     tttttttaaatgttttttaattgtaaaaaaTTTCTTGTTTTGTTTTTTTTTTTTGTTTTTTTAATGTAATTTTTGACCTTTTGGTCCCTTTTTTTCTC‑CTATTTTTTTTTTCATGCAATCTTCTTGCGGCGCAGGCTTTTCCCAGAA‑ATTGTTA‑TAGAATTTTTTTTTTGTTTAATCACTG‑TAAAACAGGAATGGGCCAAAAAATAATAAAAAAAACCCC‑GCCATTAAGTTGACTTTTAGCGCCCATAtc                                                                                                                                                                                            <  1:385507/225‑1 (MQ=255)
                                     ataAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTG‑CTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAA‑CAGGTTA‑GATGATCTTTTTGTCGCTTAATGCCTG‑TAAAACATGCATGAGCCACAAAATAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGtt                                                                                                                                                                           >  1:314683/1‑251 (MQ=255)
                                        agtgaaaaaatTTACTTGTTTTGTCTTTTTTTTTTTTTGTTTTAATGTAATTTTTGTTTTTTTGGTCCTTTTTTTTTTG‑CTCTTTTTTTTTTCATGCATTCTTCTTTTGGCGCATGCTTTTCCCAGAA‑CAGGTTA‑GATGTTTTTTTTGTCGCTTAATGCTTT‑AAAAACATGCATGACCCAAAAAATAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGc                                                                                                                                                                        <  1:361752/245‑1 (MQ=255)
                                           gCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTG‑CTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAA‑CAGGTTA‑GATGATCTTTTTGTCGCTTAATGCCTG‑TAAAACATGCATGAGCCACAAAATAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGcc                                                                                                                                                                       >  1:208923/1‑249 (MQ=255)
                                                 aattctttgttttttttttttttttttttGTTTTAATGTAATTTTTGCCTTTTTGGTCCATTTTTTTCTG‑CTCTTTTTTATTTCATGCAACCTTCTTGCGGGGCAAGCTTTTCCCAGAA‑CAGTTTA‑GATGTTTTTTTTGTCGTTTAATCCCGG‑AAAAACATGCTTGAGCAAAAAAATAATAAAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATtc                                                                                                                                                               <  1:158564/230‑1 (MQ=255)
                                                     actttttttGTCTTTTTTTTTTTTTGTTTTATTTTAAATTTTGACCATTTGGTCTCTTTTTTTCTG‑CTCTTTTTTTTTTCAGCCAATCTTTTTGCTGCGCATGC‑TTTTCCAAAAACAGTTTA‑ATTGTTTTTTTTGTCTTTTAATGCTTG‑TAAAACTTGCATGACCCAAAAAATAATAAAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATtcgtc                                                                                                                                                            <  1:67123/245‑1 (MQ=255)
                                                               tcttttGTTTTTTTTGTTTTAATTAAAATTTTGACCTTTTGGTCC‑TTTTTTTCTTTCTCTTTTTTATTTCATCCAATCTTTTTGCGGCGCACGCTTTTTCAAGAA‑AAGGAAA‑AATGATTTTTTAGCCGTTTAA‑GGCTGATAAAAAATGCAGGAGCAAAAAAATAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGa                                                                                                                                                  <  1:276442/250‑1 (MQ=255)
                                                                    tGTTTTTGTTGTTTTAATGTAATTTTTGCCCTTTTGGTCCTTTTTTTTCTG‑CTCTTTTTTATTTCATGCAATCTTCTTGCTGCTCAAGCTTTTTCAAGA‑‑CCGGTTAAGATGTTTTTTTTCTCGTTTATTGCCTG‑TAAAACATGCATGAGCCAAAAAATAATAAAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGc                                                                                                                                             <  1:493010/250‑1 (MQ=255)
                                                                            tttttttAATGTAATTTTTGCCCTTTTGGCCCACTTTTTTCTG‑CTCTTTTTTATTTAATGCAATTTTCTGCCTGCGCAAGCGTTTACCAGAA‑CGGGTTA‑GTTGATTTTTTTGTCGCTTAATGCCTG‑AAAAACATGCATGACCCAAAAAAAAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGAttt                                                                                                                                     <  1:30948/247‑1 (MQ=255)
                                                                              gttTTAATGTAAATTTTGACCATTTGGCGCACTTTTTTCTG‑CTCGTTTTTATTTAATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGTC‑CAGGTTA‑GATGATCTTTTTGTCGCTTAATGCCTG‑TACAACATGCATGAGCCAAAAAATAATATAAAAAATCCA‑GCCATTAAGTTGACTTTCAGCACCAATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAATCAGCTTTGCCTTGATTTACg                                                                                                                                  >  2:88143/1‑251 (MQ=255)
                                                                                   aaTGTAAATTTTGACCATTTGGTCCACTTTTTTCTG‑CTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAA‑CAGGTTA‑GATGATCTTTTTGTCGCTTAATGCCTG‑TAAAACATGCATGAGCCACAAAATAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGtcatc                                                                                                                             >  2:152045/1‑251 (MQ=255)
                                                                                                   aTTTGGTCCACTTTTTTCTG‑CTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAA‑CAGGGTA‑GATGATCTTTTTGTCGCTTAATGCCTG‑TAAAACATGCATGAGCCACAAAATAATATAAAAAATCCC‑GACATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATg                                                                                                             >  2:83256/1‑251 (MQ=255)
                                                                                                              ttttttttG‑CTCTTTTTTTTTTTATCCTATCTTCTTTCTGCGCAGGCTTTTTCCAGAA‑CAGTTTA‑GATAATCTTTTTGTCTCTTATGGCCTA‑TAAAACATGCATGCCCCAAAAAAAAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAagt                                                                                                   <  1:278034/250‑1 (MQ=255)
                                                                                                                            ttttttttctttGCAATCTTCTTGCCGGGCAAGCGTTTCCAAAAA‑CAGGTTA‑GTTGTTTTTTTTGTCGTTTAATGCCTG‑TAAAAAATGAATGAGCCAAAAAATAATA‑AAAAAATCCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATtct                                                                                      <  1:65109/239‑1 (MQ=255)
                                                                                                                                                    ctgcGCAAGCGTTTTCCAGAA‑CAGGTTA‑GATGATCTTTTTGTCGCTTAATGCCTG‑TAAAACATGCATGAGCCACAAAATAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAata                                                                                          >  1:255912/1‑222 (MQ=255)
                                                                                                                                                        gcAAGCGTTTTCCAGAA‑CAGGTTA‑GATGATCTTTTTGTCGCTTAATGCCTG‑TAAAACATGCATGAGCCACAAAATAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCt                                                         >  1:74418/1‑251 (MQ=255)
                                                                                                                                                                   ccAGAA‑CAGGTTA‑GATGATCTTTTTGTCGCTTAATGCCTG‑TAAAACATGCATGAGCCACAAAATAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTgg                                              >  1:45795/1‑251 (MQ=255)
                                                                                                                                                                                   atgatCTTTTTGTCGCTTAATGCCTG‑TAAAACATGCGTGAGCCACAAAATAATCTAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCAGTTTGCCAGCACTTCGTCGGTAAGCAGATTTGCATTGATTTCCGTCATCATTGTGAATTAATCTGCAAATACAGTGAGTGAATATTCTCTGGAGGGTGTTTTGCTTAAGTCAGCGCTATTGGTTCTGGAAGACGGAAccc                                  >  2:208667/1‑249 (MQ=255)
                                                                                                                                                                                                   ataagcccTG‑TAAAACATGCATGAGCCAAAAAATAATATAAAAACTCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACGGAACCCAGTTTCACGGTCGGGcc                 <  1:106734/244‑1 (MQ=255)
                                                                                                                                                                                                                  aCATGCATGAGCCACAAAATAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGCATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACGGAACCCAGTTTCACGGTCGGGCCATAGGGGCAACAGGt  >  1:206127/1‑251 (MQ=255)
                                                                                                                                                                                                                                |                                                                                                                                                                                                                                             
GCCCTTTTATTTTTGGTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTG‑CTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAA‑CAGGTTA‑GATGATCTTTTTGTCGCTTAATGCCTG‑TAAAACATGCATGAGCCACAAAATAATATAAAAAATCCC‑GCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACGGAACCCAGTTTCACGGTCGGGCCATAGGGGCAACAGGT  >  NC_000913/29266‑29722

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑