Script_path:	/home/rcorbett/slx_service_rc/tags/0.0.8/bamStats.py
Bam_path:	/projects/remc_bigdata/Karsan/HS1238_kd/maq2sam/HS1238.h.bam
Quality_threshold:	10
Read_length:	50
Total_Number_Of_Reads:	16316102
Number_of_Chastity_Passed_Reads:	16316102
Number_of_Chastity_Failed:	0
Number_of_Duplicates:	0
Number_Reads_Aligned:	16316102
Number_Reads_Unaligned:	0
Mapping_Qualities_of_Aligned:
	0:	1691925
	1-9:	127550
	10-19:	704183
	20-29:	464748
	30-39:	944065
	40-49:	540754
	50-59:	1151992
	60-69:	1060630
	70-79:	9630255
	80-89:	0
Number_Unique_Alignments:	14624177
Number_Non_Unique_Alignments:	1691925
Number_Mismatches_in_Unique_Alignments:
	0_mismatches:	10878309
	1_mismatches:	2724151
	2_mismatches:	519367
	3_mismatches:	217701
Number_of_Paired_Alignments:	0
Average_Insert_Size:	0.000000
Number_of_Uniquely_Aligned_Reads_with_Q_>=_10:	14496627
Number_of_Uniquely_Aligned_Reads_without_Dups_Q_>_0:	14624177
Number_of_Uniquely_Aligned_Reads_without_Dups_and_Q_>=_10:	14496627
Number_of_Reads_Used_for_SNV_calling_with_Q_>=_10:	14496627
Number_of_Reads_Used_for_Gene_Coverage_with_Q_>=_10:	14478512
Number_Uniquely_Aligned_Without_Dups_to_Each_Chr:
	1:	1307880
	10:	736619
	11:	802179
	12:	598178
	13:	436530
	14:	473110
	15:	397560
	16:	286572
	17:	532157
	18:	314624
	19:	356285
	2:	1226299
	20:	452651
	21:	158267
	22:	152361
	3:	945047
	4:	850624
	5:	949822
	6:	1144213
	7:	850087
	8:	659329
	9:	539099
	MT:	538
	X:	449036
	Y:	5110
Estimate_for_X_coverage:	0.286247
END