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ReduceReads error: Provided read is behind the Sliding Window!

Googled this error. looks like new. So paste here. let me know if you need bam file

..$ java  -Xms4800m -Xmx6400m -XX:PermSize=1200m -XX:MaxPermSize=1600m -jar  gatk2Jar/GenomeAnalysisTK.jar  --reference_sequence  reference/3280_vervet_ref_6.0.3.fasta  -T ReduceReads  --unsafe --validation_strictness SILENT --read_filter BadCigar  -L Scaffold171:1-425159 -I  individual_alignment/2312_640_1985088_GA_vs_3280_by_method2_realigned0.bam  --out  folderMap/2312_640_1985088_GA_vs_3280_Scaffold171_1_425159.reduceReads.bam  --downsample_to_coverage 60 --downsampling_type BY_SAMPLE
WARNING: BAM index file /u/home/eeskin2/polyacti/NetworkData/scratch/ReduceReads/ReduceReadsAlnID2310_2349_Ref3280.2013.May.4T235958/individual_alignment/2312_640_1985088_GA_vs_3280_by_method2_realigned0.bam.bai is older than BAM /u/home/eeskin2/polyacti/NetworkData/scratch/ReduceReads/ReduceReadsAlnID2310_2349_Ref3280.2013.May.4T235958/individual_alignment/2312_640_1985088_GA_vs_3280_by_method2_realigned0.bam
INFO  16:01:45,169 HelpFormatter - -------------------------------------------------------------------------------- 
INFO  16:01:45,172 HelpFormatter - The Genome Analysis Toolkit (GATK) v2.5-2-gf57256b, Compiled 2013/05/01 09:27:02 
INFO  16:01:45,172 HelpFormatter - Copyright (c) 2010 The Broad Institute 
INFO  16:01:45,172 HelpFormatter - For support and documentation go to http://www.broadinstitute.org/gatk 
INFO  16:01:45,177 HelpFormatter - Program Args: --reference_sequence reference/3280_vervet_ref_6.0.3.fasta -T ReduceReads --unsafe --validation_strictness SILENT --read_filter BadCigar -L Scaffold171:1-425159 -I individual_alignment/2312_640_1985088_GA_vs_3280_by_method2_realigned0.bam --out folderMap/2312_640_1985088_GA_vs_3280_Scaffold171_1_425159.reduceReads.bam --downsample_to_coverage 60 --downsampling_type BY_SAMPLE 
INFO  16:01:45,178 HelpFormatter - Date/Time: 2013/05/13 16:01:45 
INFO  16:01:45,178 HelpFormatter - -------------------------------------------------------------------------------- 
INFO  16:01:45,178 HelpFormatter - -------------------------------------------------------------------------------- 
INFO  16:01:46,111 GenomeAnalysisEngine - Strictness is SILENT 
INFO  16:01:46,545 GenomeAnalysisEngine - Downsampling Settings: Method: BY_SAMPLE, Target Coverage: 60 
INFO  16:01:46,553 SAMDataSource$SAMReaders - Initializing SAMRecords in serial 
INFO  16:01:46,627 SAMDataSource$SAMReaders - Done initializing BAM readers: total time 0.07 
INFO  16:01:46,643 IntervalUtils - Processing 425159 bp from intervals 
INFO  16:01:46,816 GenomeAnalysisEngine - Creating shard strategy for 1 BAM files 
INFO  16:01:46,956 GenomeAnalysisEngine - Done creating shard strategy 
INFO  16:01:46,956 ProgressMeter - [INITIALIZATION COMPLETE; STARTING PROCESSING] 
INFO  16:01:46,957 ProgressMeter -        Location processed.reads  runtime per.1M.reads completed total.runtime remaining 
INFO  16:01:47,159 ReadShardBalancer$1 - Loading BAM index data for next contig 
INFO  16:01:47,166 ReadShardBalancer$1 - Done loading BAM index data for next contig 
INFO  16:01:53,162 GATKRunReport - Uploaded run statistics report to AWS S3 
##### ERROR ------------------------------------------------------------------------------------------
##### ERROR stack trace 
java.lang.IllegalStateException: Provided read is behind the Sliding Window! Read = HWI-ST118_107896307:4:5:12995:143860#0 1/2 58b aligned read., readStart = 0, cigar = 1S46I7M4I, window = 1-187
        at org.broadinstitute.sting.gatk.walkers.compression.reducereads.SlidingWindow.updateHeaderCounts(SlidingWindow.java:1152)
        at org.broadinstitute.sting.gatk.walkers.compression.reducereads.SlidingWindow.removeFromHeader(SlidingWindow.java:1135)
        at org.broadinstitute.sting.gatk.walkers.compression.reducereads.SlidingWindow.compressVariantRegion(SlidingWindow.java:742)
        at org.broadinstitute.sting.gatk.walkers.compression.reducereads.SlidingWindow.closeVariantRegion(SlidingWindow.java:835)
        at org.broadinstitute.sting.gatk.walkers.compression.reducereads.SlidingWindow.closeVariantRegions(SlidingWindow.java:880)
        at org.broadinstitute.sting.gatk.walkers.compression.reducereads.SlidingWindow.closeVariantRegions(SlidingWindow.java:850)
        at org.broadinstitute.sting.gatk.walkers.compression.reducereads.SingleSampleCompressor.closeVariantRegions(SingleSampleCompressor.java:149)
        at org.broadinstitute.sting.gatk.walkers.compression.reducereads.MultiSampleCompressor.closeVariantRegionsInAllSamples(MultiSampleCompressor.java:158)
        at org.broadinstitute.sting.gatk.walkers.compression.reducereads.MultiSampleCompressor.addAlignment(MultiSampleCompressor.java:127)
        at org.broadinstitute.sting.gatk.walkers.compression.reducereads.ReduceReadsStash.compress(ReduceReadsStash.java:116)
        at org.broadinstitute.sting.gatk.walkers.compression.reducereads.ReduceReads.reduce(ReduceReads.java:453)
        at org.broadinstitute.sting.gatk.walkers.compression.reducereads.ReduceReads.reduce(ReduceReads.java:112)
        at org.broadinstitute.sting.gatk.traversals.TraverseReadsNano$TraverseReadsReduce.apply(TraverseReadsNano.java:253)
        at org.broadinstitute.sting.gatk.traversals.TraverseReadsNano$TraverseReadsReduce.apply(TraverseReadsNano.java:242)
        at org.broadinstitute.sting.utils.nanoScheduler.NanoScheduler.executeSingleThreaded(NanoScheduler.java:279)
        at org.broadinstitute.sting.utils.nanoScheduler.NanoScheduler.execute(NanoScheduler.java:245)
        at org.broadinstitute.sting.gatk.traversals.TraverseReadsNano.traverse(TraverseReadsNano.java:102)
        at org.broadinstitute.sting.gatk.traversals.TraverseReadsNano.traverse(TraverseReadsNano.java:56)
        at org.broadinstitute.sting.gatk.executive.LinearMicroScheduler.execute(LinearMicroScheduler.java:109)
        at org.broadinstitute.sting.gatk.GenomeAnalysisEngine.execute(GenomeAnalysisEngine.java:286)
        at org.broadinstitute.sting.gatk.CommandLineExecutable.execute(CommandLineExecutable.java:113)
        at org.broadinstitute.sting.commandline.CommandLineProgram.start(CommandLineProgram.java:245)
        at org.broadinstitute.sting.commandline.CommandLineProgram.start(CommandLineProgram.java:152)
        at org.broadinstitute.sting.gatk.CommandLineGATK.main(CommandLineGATK.java:91)
##### ERROR ------------------------------------------------------------------------------------------
##### ERROR A GATK RUNTIME ERROR has occurred (version 2.5-2-gf57256b):
##### ERROR
##### ERROR Please check the documentation guide to see if this is a known problem
##### ERROR If not, please post the error, with stack trace, to the GATK forum
##### ERROR Visit our website and forum for extensive documentation and answers to 
##### ERROR commonly asked questions http://www.broadinstitute.org/gatk
##### ERROR
##### ERROR MESSAGE: Provided read is behind the Sliding Window! Read = HWI-ST118_107896307:4:5:12995:143860#0 1/2 58b aligned read., readStart = 0, cigar = 1S46I7M4I, window = 1-187
##### ERROR ------------------------------------------------------------------------------------------

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