New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	= 2472115	28 (0.560)	12 (0.250)	12/324	NT	27.6%	intergenic (+19/+130)	PP_2166/PP_2167	Anti‑anti‑sigma factor/putative PhoD‑like phosphatase
	?	AE015451	2472313 =	36 (0.750)					coding (1783/1851 nt)	PP_2167	putative PhoD‑like phosphatase

ATTTCACGGTTATTGCAGTCGATGGGCTTCGATCAGGTGTTCAACATCGTCGATCGACCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AE015451/2471878‑2472115 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gccggccGCCCCTGTTCATCAAAAAACACCTGTCCCAGCCCGGCACCATTCCACAGCCGTTCCCCGGCCTTGCTGTGGCTGGGCGTACGCGGCACCACCTCCATTTCTCGGCGCTTGGTAAACCAGTTGAGCGGCGAGCGCGGTGCATACAACCAGCGGTTGAGCCGGTCGAGC  >  AE015451/2472313‑2472479                                                                                                                                                                                                                                                                                                                                                                                                                       ATTTCACGGTTATTGCAGTCGATGGGCTTCGATCAGGTGTTCAACATCGTCGATCGACCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGG                                                                                                                                                                           >  1:497965/1‑236                       TGGGCTTCGATCAGGTGTTCAACATCGTCGATCGACCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCG                                                                                                                                                                            >  1:194803/1‑213                                             CATCGTCGATCGACCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCGCCCCTGTTCATCAAAAAACACCTG                                                                                                                                                <  1:516101/219‑1                                             CATCGTCGATCGACCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCGCCCCTGTTCATCAAAAAACACCTG                                                                                                                                                >  2:516098/1‑219                                                            GATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCTGCCCCTGTTCATCAAAACACACCTGTCCCAGCCCGGCACCATTCCCCAG                                                                                                                        >  2:294174/1‑228                                                                           TTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGTTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCAGGATCTGGTCAGCGCGCTGGAGCGGAGCTGCTCTATAGCCTGTGCCGGCCGCCCCTGTTCc                                                                                                                                                              >  2:166049/1‑174                                                                             GCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCGCCCCTGTTCATCAAAAAACACCTGTCCCAGCCCGGCACCATTCCACAGCCGTTCCCCGGCCTTGCTGTGGCTG                                                                                               >  1:354524/1‑236                                                                                                     ACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCGCCCCTGTTCATCAAAAAACACCTGTCCCAGCCCGGCACCATTCCACAGCCGTTCCCCGGCCTTGCTGTGGCTGGGCGTACGCGGCACCACCTCCATT                                                                       <  1:487958/236‑1                                                                                                                      GTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTTAATGACTCCAACCGCGAAGCCTTCCATGAGCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCGCCCCTGTTCATCAAAAAACACCTGTCCCAGCCCGGCACCATTCCACAGCCGTTCCCCGGCCTTGCTGT                                                                                                    <  1:10180/190‑1                                                                                                                                                              GCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCGCCCCTGTTCATCAAAAAACACCTGTCCCAGCCCGGCACCATTCCACAGCCGTTCCCCGGCCTTGCTGTGGCTGGGCGTACGCGGCACCACCTCCAT                                                                        >  2:623337/1‑178                                                                                                                                                                           CAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCGCCCCTGTTCATCAAAAAACACCTGTCCCAGCCCGGCACCATTCCACAGCCGTTCCCCGGCCTTGCTGTGGCTGGGCGTACGCGGCACCACCTCCATTTCTCGGCGCTTGGTAAACCAGTTGAGCGGCGAGCGCGGTGCATACAACCAGCGGTTGAGCCGGT       >  2:670057/1‑230                                                                                                                                                                                                       AATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCCGCCCCTGTTCATCAAACAACACCTGTCCCAGCCCGGCACCATTCCACTGCCGTTCCC                                                                                                                >  2:265735/1‑97                                                                                                                                                                                                                 AGCGGAGCTGATCTATAGCCTGTGCCGGCCGCCCCTGTTCATCAAAAAACACCTGTCCCAGCCCGGCACCATTCCACAGCCGTTCCCCGGCCTTGCTGTGGCTGGGCGTACGCGGCACCACCTCCATTTCTCGGCGCTTGGTAAACCAGTTGAGCGGC                                         >  2:735729/1‑158                                                                                                                                                                                                                                TAGCCTGTGCCGGCCGCCCCTGTTCATCAAAAAACACCTGTCCCAGCCGGGCACCATTCCACAGCCGTTCCCCGGCCTTGCTGTGGCTGGGCGTACGCGGCACCACCTCCATTTCTCGGCGCTTGGTAAACCAGTTGAGCGGCGA                                       <  2:16496/145‑1                                                                                                                                                                                                                                   CCTGTGCCGGCCACCCCTGTTCATCAAAAAACACCTGTCCCAGCCCGGCACCATTCCACAGCCGTTCCCCGGCCTTGCTGTGGCTGGGCGTACGCGGCACCACCTCCATTTCTCGGCGCCTGGTAAACCAGTTGAGCGGCGAGAGCGGGGCATACAACCAGCGGTTG              >  1:688283/1‑167                                                                                                                                                                                                                                          CGGCCGCCCCTGTTCATCAAAAAACACCTGTCCCAGCCCGGCACCATTCCACAGCCGTTCCCCGGCCTTGCTGTGGCTGGGCGTACGCGGCACCACCTCCATTTCTCGGCGCTTGGTAAACCAGTTGAGCGGCGAGCGCGGTGCATACAACCAGCGGTTGAGCCGGTCGAGC  >  2:847812/1‑172                                                                                                                                                                                                                                          CGGCCGCCCCTGTTCATCAAAAAACACCTGTCCCAGCCCGGCACCATTCCACAGCCGTTCCCCGGCCTTGCTGTGGCTGGGCGTACGCGGCACCACCTCCATTTCTCGGCGCTTGGTAAACCAGTTGAGCGGCGAGCGCGGTGCATACAACCAGCGGTGGAGCCGGT       >  1:283176/1‑167                                                                                                                                                                                                                                                                                                                                                                                                                       ATTTCACGGTTATTGCAGTCGATGGGCTTCGATCAGGTGTTCAACATCGTCGATCGACCGATACCCTGCACCGATTGCCTGACCGACTTGCCGTCGCAGGACCAGAATGAAGATGTGGTGCGCTCCAAGGTGCTGGAGGCGCACAAGATCCTCATGGGCCTGAATGACTCCAACCGCGAAGCCTTCCATGATCTGGTCAATGCGCTGGAGCGGAGCTGATCTATAGCCTGTGCCGGCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AE015451/2471878‑2472115 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gccggccGCCCCTGTTCATCAAAAAACACCTGTCCCAGCCCGGCACCATTCCACAGCCGTTCCCCGGCCTTGCTGTGGCTGGGCGTACGCGGCACCACCTCCATTTCTCGGCGCTTGGTAAACCAGTTGAGCGGCGAGCGCGGTGCATACAACCAGCGGTTGAGCCGGTCGAGC  >  AE015451/2472313‑2472479

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.