Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913	3,815,859	Δ82 bp		[rph]–[rph]	[rph], [rph]

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913	3815859	3815940	82	57 [0]	[0] 54	[rph]–[rph]	[rph],[rph]

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3815858	0 (0.000)	50 (0.710)	45/264	0.5	100%	pseudogene (24/48 nt)	rph	ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH
	?	NC_000913	3815941 =	0 (0.000)					pseudogene (609/669 nt)	rph	ribonuclease PH (defective);enzyme; Degradation of RNA; RNase PH

AACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTC  >  NC_000913/3815716‑3816000                                                                                                                                                |                                                                                                                                               aaCACCTGCTTGCTAATCGCAAATCCACTACACCGGCGCTTTTATGGTTTCATGCCTTCGCTCCTCATCTTACTTCTCTACAGAC‑AAAAAAAAGGCGACTCAGCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGC                                                                                                                                                <  2:366531‑M1/143‑1 (MQ=255) aaCACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTCTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGC                                                                                                                                                <  1:1065951‑M1/143‑1 (MQ=255)    acCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCCTATTCCTTTTATACAGAC‑AAAAAAAAGGCGACTCATGAGTCGCCTTAGAAATCAGTTTGGCCGCGCCGCCTTCTGCcgt                                                                                                                                             >  1:398467‑M1/1‑140 (MQ=255)    acCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCAAGCCTTCGCTCCTCATCCTAGTATGTTGCAGGG‑GGGTCGGAGACGACACAGCAGGCGCCTTACAAACCCGTTTGCCAGCGCCGCGCTCTGccgc                                                                                                                                             >  2:1327468/1‑140 (MQ=255)     ccTGCTTGCTAAGCGCAAATTCAATAAAATGGCGATGGTATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtc                                                                                                                                            <  1:690180‑M1/143‑5 (MQ=255)      cTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgccc                                                                                                                                           >  1:641927‑M1/1‑138 (MQ=255)      cTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGACATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcc                                                                                                                                           >  2:853696‑M1/1‑138 (MQ=255)       tgcttgctAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGACGCCTTCTGCcgtccc                                                                                                                                          >  1:658855‑M1/1‑137 (MQ=255)         cttgctACGCGCAAATTCCATAAACTGGCGCTGATATGGTTCCATGCCTTCGCTCCTCATCTTACTTTTCTACCGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccct                                                                                                                                        <  1:1094683‑M1/143‑9 (MQ=255)         cttgctAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCCCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccct                                                                                                                                        <  1:392863‑M1/143‑9 (MQ=255)            ggtgagcgcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgca                                                                                                                                     <  1:1186138‑M1/139‑12 (MQ=255)             ctAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcac                                                                                                                                    >  1:150439‑M1/1‑131 (MQ=255)              tAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGAATCATCTGACTCGGTAAAAAGCAGTTTGCCAGCGCCGCCTTCGGCcgtcacctgcact                                                                                                                                   >  1:624918‑M1/1‑130 (MQ=255)                aGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcgcttc                                                                                                                                 >  1:1052031‑M1/1‑128 (MQ=255)                   gtaaattCCATACACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaat                                                                                                                              <  2:412393‑M1/141‑19 (MQ=255)                   gcAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGACAAAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgctcttcaa                                                                                                                               >  1:1007066‑M1/1‑126 (MQ=255)                           aaTAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTCAAAATCACTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaattatgcgct                                                                                                                      >  1:441002‑M1/1‑117 (MQ=255)                           aaTAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcactgatgcgcc                                                                                                                      >  2:1059447‑M1/1‑117 (MQ=255)                                   tgcgctTATATGGTTTCATGCCTGCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcg                                                                                                              <  2:1210521‑M1/142‑35 (MQ=255)                                      gcTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcattgatccgcccgtcttcggtc                                                                                                           >  1:697742‑M1/1‑106 (MQ=255)                                              ggTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCCCCTTACAAATCAGTTTGCCAGCGCCGCCCTCTGCcgtcccctgcacttgaatgatgcgcccgtcttcgctcctccctac                                                                                                   >  1:222026‑M1/1‑98 (MQ=255)                                               gTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacg                                                                                                  >  2:97724‑M1/1‑97 (MQ=255)                                                tttCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcactgatgcgcccgtcttcggtcatcactacgc                                                                                                 >  2:910848‑M1/1‑96 (MQ=255)                                                    aTGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcat                                                                                             <  1:710584‑M1/143‑52 (MQ=255)                                                    aTGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgaagcggccgtcatcggtcatcactacgctcct                                                                                             >  2:333427‑M1/1‑92 (MQ=255)                                                     tGCCTTCGCTCCTCATCTTACTTTTTTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTT‑AAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcactgatgcgcccgtcttcggtcatcactacgttcatgt                                                                                           <  2:197030‑M1/143‑54 (MQ=255)                                                      gCCTTCGCTCTTCATCTTACTTTTCTACAGAT‑AACAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgt                                                                                           <  2:1095720‑M1/143‑54 (MQ=255)                                                       ccTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtgctcactacgttcatgtc                                                                                          >  1:1271238‑M1/1‑89 (MQ=255)                                                         ttCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcgg                                                                                        >  1:909362‑M1/1‑87 (MQ=255)                                                                  cATCTGACTTTTCTACAGAC‑AAAAAAAAGGCGGCTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcgg                                                                               <  1:67139‑M1/143‑66 (MQ=255)                                                                      ttACTTTTGTAGAGGC‑AAAAAGAAGGCGACTCATCAGTCGGCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcaga                                                                           <  2:1160450‑M1/143‑70 (MQ=255)                                                                          ttttCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcctcactacgttcatggcggtcgctccggccgcgtct                                                                       >  1:545718‑M1/1‑70 (MQ=255)                                                                            ttCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttc                                                                     <  1:904453‑M1/143‑76 (MQ=255)                                                                               tACAGAC‑AAAAAACGGGCGATGCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCCTCTGCcgttccctccacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaac                                                                  <  2:1104637‑M1/143‑79 (MQ=255)                                                                                   gAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcgcgctccgcggcagagtcctcaaggtct                                                              >  2:1199980‑M1/1‑61 (MQ=255)                                                                                    aC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggcctctgcggcagagtcctcaacgtctt                                                             >  2:449777‑M1/1‑60 (MQ=255)                                                                                        aaaaaaaGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattcca                                                          <  1:879909‑M1/143‑87 (MQ=255)                                                                                           caaagGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagat                                                       <  2:1078520‑M1/142‑90 (MQ=255)                                                                                               ggCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagctcgca                                                   >  2:380466‑M1/1‑50 (MQ=255)                                                                                                gCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCcatcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagctcgcaa                                                  >  2:610144‑M1/1‑49 (MQ=255)                                                                                                 cGACTCATCCTCCGCCTTATAAATCAGTTTGCCAGCGCCGCCTTCTGCcgtctcctgcacttcaatgatgcgcccctcttcggtcatcactacgttcatgtcggtctcttcggcagagtcttcaacgtattccagatcgcaaa                                                 <  2:922733‑M1/143‑96 (MQ=255)                                                                                                               cattaaAATTCACTTTGCCAGCGCCGCCTTCTGCcgtcccctgcaccgcaacgatgcgcccgtcttcgttcatcactacgttcatgtcggtctctgcggcagagtctgcaacgtattccagatcgcaaaccgcttcgccgttc                                   <  1:8372‑M1/141‑110 (MQ=255)                                                                                                                   aaaaaTCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaa                               <  1:384421‑M1/143‑114 (MQ=255)                                                                                                                     aaaTCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcctcactacgttcatgtcggtctctgcggcagaatcttaaacgtattccaaatcacaaaacggttcgcatttgacaatt                             >  1:129529‑M1/1‑28 (MQ=255)                                                                                                                     aaaTCAGTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaatt                             <  2:1273562‑M1/143‑116 (MQ=255)                                                                                                                         ctgttTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccga                         <  1:146738‑M1/141‑120 (MQ=255)                                                                                                                           gTTTGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttaatgccggtctctacggcagagtcttcaacgccttccagcgcgccaaccgcttcgcccttcaccattccgacc                       >  2:22589‑M1/1‑22 (MQ=255)                                                                                                                            tttGCCAGCGCCGCCTTCTGCcgtcccctgcacttcaatcatgcgcccgtcttcggccatcactacgttcatgtcggtctctgcggcagcgtcttcaacgtattccagaccgcacaccgctccgcccctcacacgtcccacag                      >  2:838966‑M1/1‑21 (MQ=255)                                                                                                                                  cgcgccGCCTTCTGCcgtcacctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaaaggattccagatcgcagaccgcttcgccgtttacaattccgacaggaactg                >  1:292019‑M1/2‑15 (MQ=255)                                                                                                                                   gcgcCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgc               <  1:1309531‑M1/143‑130 (MQ=255)                                                                                                                                   gcgcCGCCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggacatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttgacaattcagacagaaactgc               >  1:1072874‑M1/1‑14 (MQ=255)                                                                                                                                    cgccgcCTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcg              <  1:427205‑M1/143‑131 (MQ=255)                                                                                                                                      ccgccTTCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcggc            >  1:3017‑M1/1‑11 (MQ=255)                                                                                                                                           ttCTGCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcggctacca       >  1:92552‑M1/1‑6 (MQ=255)                                                                                                                                               gCcgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgaccatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcggctcccatccc   >  1:576869‑M1/1‑2 (MQ=255)                                                                                                                                                ccgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcggctcccatccct  >  2:174854‑M1/1‑1 (MQ=255)                                                                                                                                                ccgtcccctgcacttcaatgatgcgcccgtcttcggtcatcactacgttcatgtcggtctctgcggcagagtcttcaacgtattccagatcgcaaaccgcttcgccgttcacaattccgacagaaactgcggctaccatccct  >  2:998015‑M1/1‑1 (MQ=255)                                                                                                                                                |                                                                                                                                               AACACCTGCTTGCTAAGCGCAAATTCAATAAACTGGCGCTGATATGGTTTCATGCCTTCGCTCCTCATCTTACTTTTCTACAGAC‑AAAAAAAAGGCGACTCATCAGTCGCCTTAAAAATCAGTTTGCCAGCGCCGCCTTCTGCGTCGCTACAATGGATTCGATTCCCCTCGGGCCAGAGCCAACAAGATGAGTAGCTCTTCATGGGTGAACGGCTCGCCTTCTGCCGTCCCCTGCACTTCAATGATGCGCCCGTCTTCGGTCATCACTACGTTCATGTCGGTCTC  >  NC_000913/3815716‑3816000

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑