Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 47 of 195
Found at i:9764033 original size:145 final size:142
Alignment explanation
Indices: 9763841--9764108 Score: 403
Period size: 145 Copynumber: 1.9 Consensus size: 142
9763831 TGGTCAAATT
* * * *
9763841 GACATGACTCTATTATAAAATGTCAAATCAAAATATTGTTTAATATGAAGAATTATAATTTTTAG
1 GACATGACTCTATTATAAAAAGTCAAATCAAAAGATTGTTTAATATGAAAAATTATAATTTTCAG
9763906 AAACATAAATAATGATTTCTCTTTGTATGAAAAGTTTAACTATTCAAATGAACAAATATATCTGT
66 AAACATAAATAATGATTTCTCTTTGTATG-AAAGTTTAACTATTCAAATGAACAAATATATCTGT
9763971 AATCTTTCAAAAA
130 AATCTTTCAAAAA
* *
9763984 GACATGATTTTATTATAAAAAGATTCAAATCAAAAGATTGCTTT-ATATGAAAAATTATAATTTT
1 GACATGACTCTATTATAAAAAG--TCAAATCAAAAGATTG-TTTAATATGAAAAATTATAATTTT
* * * *
9764048 CATAAACATAGATATTGATTTCTCTTTGTATGAAAGTTTAACTATTTAAATGAACAAATAT
63 CAGAAACATAAATAATGATTTCTCTTTGTATGAAAGTTTAACTATTCAAATGAACAAATAT
9764109 GCATATAATT
Statistics
Matches: 112, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
143 19 0.17
144 28 0.25
145 62 0.55
146 3 0.03
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (142 bp):
GACATGACTCTATTATAAAAAGTCAAATCAAAAGATTGTTTAATATGAAAAATTATAATTTTCAG
AAACATAAATAATGATTTCTCTTTGTATGAAAGTTTAACTATTCAAATGAACAAATATATCTGTA
ATCTTTCAAAAA
Found at i:9768262 original size:145 final size:144
Alignment explanation
Indices: 9768074--9768337 Score: 350
Period size: 145 Copynumber: 1.8 Consensus size: 144
9768064 AATTTACCTA
* * *
9768074 ATTCTATTATAAAAAAGTCAAATCAAAAGATTGTTTTATATGAAAAATTATAATTTTTAGAAACG
1 ATTCTATTATAAAAAAGTCAAATCAAAAGACTATTTTATATGAAAAATTATAATTTTCAGAAACG
** * * *
9768139 TAAATAATGGCCTT-TCTTTGTATAAAAAGTTTAACTATTCAAATGAATAAATATATCTGTAATT
66 TAAATAAT-AACTTCTCTTTATATAAAAAGTTTAACTATTCAAATAAACAAATATATCTGTAATT
9768203 TTTTAAAAATGCATG
130 TTTTAAAAATGCATG
* * * * *
9768218 ATTCTATTTTAAAAAGATTCAAATCAGAATACTATTTTATATGAAAAATTATAATTTTCAGAAAT
1 ATTCTATTATAAAAA-AGTCAAATCAAAAGACTATTTTATATGAAAAATTATAATTTTCAGAAAC
* * * *
9768283 GTTAATAGTAATTTCTCTTTATATGAAAAGTTTAACTATTCAAATAAACAAATAT
65 GTAAATAATAACTTCTCTTTATATAAAAAGTTTAACTATTCAAATAAACAAATAT
9768338 GTACATATTT
Statistics
Matches: 101, Mismatches: 17, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
144 16 0.16
145 85 0.84
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (144 bp):
ATTCTATTATAAAAAAGTCAAATCAAAAGACTATTTTATATGAAAAATTATAATTTTCAGAAACG
TAAATAATAACTTCTCTTTATATAAAAAGTTTAACTATTCAAATAAACAAATATATCTGTAATTT
TTTAAAAATGCATG
Found at i:9768376 original size:145 final size:145
Alignment explanation
Indices: 9768107--9768376 Score: 323
Period size: 145 Copynumber: 1.9 Consensus size: 145
9768097 CAAAAGATTG
* ** *
9768107 TTTTATATGAAAAATTATAATTTTTAGAAACGTAAATAATGGCCTTTCTTTGTATAAAAAGTTTA
1 TTTTATATGAAAAATTATAATTTTCAGAAACGTAAATAATGAACTTTCTTTATATAAAAAGTTTA
* * * * **
9768172 ACTATTCAAATGAATAAATATATCTGTAATTTTTTAAAAATGCATGATTCTATTTTAAAAAGATT
66 ACTATTCAAATAAACAAATATATCTATAATTTTTTAAAAAAGCATGATTCTATACTAAAAAGATT
9768237 CAAATCAGAATACTA
131 CAAATCAGAATACTA
* * * * *
9768252 TTTTATATGAAAAATTATAATTTTCAGAAATGTTAATAGT-AATTTCTCTTTATATGAAAAGTTT
1 TTTTATATGAAAAATTATAATTTTCAGAAACGTAAATAATGAACTT-TCTTTATATAAAAAGTTT
* *
9768316 AACTATTCAAATAAACAAATATGTAC-ATATTTTTTTAAAAAAGACAT-ATTTCTA-ACTAAAA
65 AACTATTCAAATAAACAAATATAT-CTATAATTTTTTAAAAAAG-CATGA-TTCTATACTAAAA
9768377 GAAAGTAACT
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
144 2 0.02
145 93 0.89
146 9 0.09
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (145 bp):
TTTTATATGAAAAATTATAATTTTCAGAAACGTAAATAATGAACTTTCTTTATATAAAAAGTTTA
ACTATTCAAATAAACAAATATATCTATAATTTTTTAAAAAAGCATGATTCTATACTAAAAAGATT
CAAATCAGAATACTA
Found at i:9769001 original size:2 final size:2
Alignment explanation
Indices: 9768994--9769021 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9768984 CCTAGAGTCC
9768994 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9769022 TGACTAACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9770088 original size:2 final size:2
Alignment explanation
Indices: 9770046--9770077 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9770036 ACTAGTATTC
9770046 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9770078 CTCCATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9776225 original size:33 final size:33
Alignment explanation
Indices: 9776180--9776246 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
9776170 AATGAGAAAC
*
9776180 AATTCTAGGTGACACATGCCTCCATGATACAAA
1 AATTCTAAGTGACACATGCCTCCATGATACAAA
*
9776213 AATTCTAAGTGACACATGCTTCCATGATACAAA
1 AATTCTAAGTGACACATGCCTCCATGATACAAA
9776246 A
1 A
9776247 GCTTAGCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.25
Consensus pattern (33 bp):
AATTCTAAGTGACACATGCCTCCATGATACAAA
Found at i:9779309 original size:108 final size:108
Alignment explanation
Indices: 9779166--9779379 Score: 419
Period size: 108 Copynumber: 2.0 Consensus size: 108
9779156 AAATTTTTTA
9779166 AATTTTCAAAATCTTACATAAAATTGCTTGAATTTTTAATATCTTACATAAATTTTTAAAAAGAT
1 AATTTTCAAAATCTTACATAAAATTGCTTGAATTTTTAATATCTTACATAAATTTTTAAAAAGAT
9779231 AATTTTTTAAGTCAAAATTTTAAATCAAGATAAAACATATTTG
66 AATTTTTTAAGTCAAAATTTTAAATCAAGATAAAACATATTTG
*
9779274 AATTTTCAAAATCTTACATAAAATTGCTTGAATTTTTAATGTCTTACATAAATTTTTAAAAAGAT
1 AATTTTCAAAATCTTACATAAAATTGCTTGAATTTTTAATATCTTACATAAATTTTTAAAAAGAT
9779339 AATTTTTTAAGTCAAAATTTTAAATCAAGATAAAACATATT
66 AATTTTTTAAGTCAAAATTTTAAATCAAGATAAAACATATT
9779380 GTTGAAATAT
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (108 bp):
AATTTTCAAAATCTTACATAAAATTGCTTGAATTTTTAATATCTTACATAAATTTTTAAAAAGAT
AATTTTTTAAGTCAAAATTTTAAATCAAGATAAAACATATTTG
Found at i:9788650 original size:20 final size:20
Alignment explanation
Indices: 9788627--9788698 Score: 107
Period size: 18 Copynumber: 3.8 Consensus size: 20
9788617 ACATGTAGAA
9788627 ATATTTGTGAACATATATAT
1 ATATTTGTGAACATATATAT
*
9788647 ATATTTGT-AA-ACATATAT
1 ATATTTGTGAACATATATAT
9788665 ATATTTGTGAAC--ATATAT
1 ATATTTGTGAACATATATAT
9788683 ATATTTGTGAACATAT
1 ATATTTGTGAACATAT
9788699 TCATTTAACA
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
18 33 0.70
19 4 0.09
20 10 0.21
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (20 bp):
ATATTTGTGAACATATATAT
Found at i:9789220 original size:615 final size:613
Alignment explanation
Indices: 9788050--9789275 Score: 2195
Period size: 615 Copynumber: 2.0 Consensus size: 613
9788040 ACATGTAGAA
*
9788050 ATATTTGTGAACATATATATATTTGTGAACATATTCATTTAACATTTAGGAATGAGTTCATTTAA
1 ATATTTGTGAACATATATATATTTGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAA
* *
9788115 CTTAATCTAGGCGAACATAAACCGAACATGAACATCCTACCATTTAAACGAACACTCGAATGAAT
66 CTTAATCTAGGCGAACATAAACCGAACATAAACATCCTACCATTTAAACGAACACTCAAATGAAT
* *
9788180 AAAAGAATTTTCTTATTGAGCACAAATCAAGCTCAAACAACTCTAAAATTAAACAAACAAACCAT
131 AAAAGAATTTTCTTATCGAGCACAAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCAT
9788245 AAATATATATTCGTTCATTTATGGTCAATATGTTTAACCCCTATAACGATTATCATGAAACCATT
196 AAATATATATTCGTTCATTTATGGTCAATATGTTTAACCCCTATAACGATTATCATGAAACCATT
*
9788310 GGCTCAATGTTTCAATCTGTCTATTTTCCCCTTGTGGACGTTCTTACCATTGTTCATGTCGTTAG
261 GGCTCAATGTTTCAATCTGTCTATTTTCCCCTTGTGGACGTTCTTACCAATGTTCATGTCGTTAG
* *
9788375 CTCTATCTGCTGTCTAATTCTATTTGGCTTCAAACAAACTTCTAGACCCTTTCATACAACTGATA
326 CTCTATCTGCTGTCTAATTCTATTTGACCTCAAACAAACTTCTAGACCCTTTCATACAACTGATA
*
9788440 CAGCTATTCTGGTTTGTTTTTCATTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGTGA
391 CAGCTATTCTGGTTTATTTTTCATTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGTGA
* *
9788505 AGTCTTAAATGGCCCATTTAGTATTCAAATCCTTGATTTCAATAATGGCGGTGTTGAACCTCTTT
456 AGTCCTAAATGGCCCATTTAGTATTCAAATCCTTGATTTCAATAATGGCGATGTTGAACCTCTTT
* *
9788570 AAATGATGTCGTAAAGTTTCTTTAACTTTTTGCTTCATGGCTAACAAACATGTAGAAATATTTGT
521 AAATGATGTCGCAAAGTTTCTTTAACCTTTTGCTTCATGGCTAACAAACATGTAGAAATATTTGT
9788635 GAACATATATATATATTTGTAAACATATAT
586 GAAC--ATATATATATTTGTAAACATATAT
9788665 ATATTTGTGAACATATATATATTTGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAA
1 ATATTTGTGAACATATATATATTTGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAA
* *
9788730 CTTAATCTAGTCGAACATAAACCGAACATAAACATCCTACGATTTAAACGAACACTCAAATGAAT
66 CTTAATCTAGGCGAACATAAACCGAACATAAACATCCTACCATTTAAACGAACACTCAAATGAAT
*
9788795 AAAATAATTTTCTTATCGAGCACAAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCAT
131 AAAAGAATTTTCTTATCGAGCACAAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCAT
*
9788860 AAATATATATTCGTTCATTTATGGTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATT
196 AAATATATATTCGTTCATTTATGGTCAATATGTTTAACCCCTATAACGATTATCATGAAACCATT
9788925 GGCTCAATGTTTCAATCTGTCTATTTTCCCCTTGTGGACGTTCTTACCAATGTTCATGTCGTTTA
261 GGCTCAATGTTTCAATCTGTCTATTTTCCCCTTGTGGACGTTCTTACCAATGTTCATGTCG-TTA
*
9788990 GCTCTATCTGTTGTCCTAA-TCTATTTGACCTC-AACAAACTTCTAGACCCTTTCATACAACTGA
325 GCTCTATCTGCTGT-CTAATTCTATTTGACCTCAAACAAACTTCTAGACCCTTTCATACAACTGA
9789053 TACAGCTATTCTGGTTTATTTTTCATTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGT
389 TACAGCTATTCTGGTTTATTTTTCATTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGT
* *
9789118 GAAGTCCTAAATGGCCTATTTAGTATTCAAATCCTTGATTTCAATAGTGGCGATGTTGAACCTCT
454 GAAGTCCTAAATGGCCCATTTAGTATTCAAATCCTTGATTTCAATAATGGCGATGTTGAACCTCT
* *
9789183 TTAAATGATGTTGCAAAGTTTCTTTAACCTTTTGCTTCATGGCTAACATACATGTAGAAATATTT
519 TTAAATGATGTCGCAAAGTTTCTTTAACCTTTTGCTTCATGGCTAACAAACATGTAGAAATATTT
*
9789248 GTGAACATATATATATTTGTGAACATAT
584 GTGAACATATATATATTTGTAAACATAT
9789276 TCATTTAACA
Statistics
Matches: 586, Mismatches: 23, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
613 21 0.04
615 534 0.91
616 27 0.05
617 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (613 bp):
ATATTTGTGAACATATATATATTTGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAA
CTTAATCTAGGCGAACATAAACCGAACATAAACATCCTACCATTTAAACGAACACTCAAATGAAT
AAAAGAATTTTCTTATCGAGCACAAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCAT
AAATATATATTCGTTCATTTATGGTCAATATGTTTAACCCCTATAACGATTATCATGAAACCATT
GGCTCAATGTTTCAATCTGTCTATTTTCCCCTTGTGGACGTTCTTACCAATGTTCATGTCGTTAG
CTCTATCTGCTGTCTAATTCTATTTGACCTCAAACAAACTTCTAGACCCTTTCATACAACTGATA
CAGCTATTCTGGTTTATTTTTCATTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGTGA
AGTCCTAAATGGCCCATTTAGTATTCAAATCCTTGATTTCAATAATGGCGATGTTGAACCTCTTT
AAATGATGTCGCAAAGTTTCTTTAACCTTTTGCTTCATGGCTAACAAACATGTAGAAATATTTGT
GAACATATATATATTTGTAAACATATAT
Found at i:9789758 original size:577 final size:577
Alignment explanation
Indices: 9786920--9789820 Score: 4733
Period size: 577 Copynumber: 5.0 Consensus size: 577
9786910 TATATGTGTG
* *
9786920 TGTGAACATATTCATTTAACATTTAAGAACGAGTTCATTTAACTTAATCTAGTCGAATATAAACC
1 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
* *
9786985 GAACATGAACATCCAACCATTTAAACGAACCCTCGAATGAATAAAATAATTTTCTTATCGAGCAC
66 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCGAGCAC
*
9787050 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCATTCATTTATG
131 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
* *
9787115 GTCAATATGTTTAACCCCTATAACGATTATCATGAAACTATTGGCTCAATGTTTCAATCTGTCTA
196 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
* * *
9787180 TTTTCCCCTTGTGGACATTTTTACCATTGTTCATGTCATTTAGCTCTATCTGCTGTCCTAATCTA
261 TTTTCCCCTTGTGGACGTTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
9787245 TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCT-AGTTTGTTTTTC
326 TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGA-TTTGTTTTTC
*
9787309 ATTAACTAATATCTCAAATGATCGTGTCTTACCCTTAAGGTGAAGTCCTAAATGGCCCATTTAGT
390 ATTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGTGAAGTCCTAAATGG-CCATTTAGT
* *
9787374 ATTCAAATCCTTGTTTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTCGCAAAATTTCTT
454 ATTCAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTCGCAAAGTTTCTT
9787439 TAGGCTTTTGCTTCATGGCTAACAAACATGTAGAAATATTTGTGAACATATATATATATT
519 TAGGCTTTTGCTTCATGGCTAACAAACATGTAGAAATATTTGTGAACA-ATATATATATT
9787499 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
1 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
* *
9787564 GAACATGAACATCCAACCATTTAAACGAACGCTCGAATGAATAAAATAATTTTCTTATCGAGCAC
66 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCGAGCAC
*
9787629 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAATCATAAATATATATTCGTTCATTTATG
131 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
9787694 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
196 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
9787759 TTTTCCCCTTGTGGACGTTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
261 TTTTCCCCTTGTGGACGTTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
* *
9787824 TTTGGCCTCAACAAACTTTTAGATCCTTTCATACAACTGATACAGCTATTCT-AGTTTGTTTTTC
326 TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGA-TTTGTTTTTC
9787888 ATTAACTAATATCTCAAATG--A-TGTCTTACCCTTAAGGTGAAGTCCTAAATGGCCTATTTAGT
390 ATTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGTGAAGTCCTAAATGGCC-ATTTAGT
*
9787950 ATTCAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTCGCAAAATTTCTT
454 ATTCAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTCGCAAAGTTTCTT
9788015 TAGGCTTTTGCTTCATGGCTAACAAACATGTAGAAATATTTGTGAAC-ATATATATATT
519 TAGGCTTTTGCTTCATGGCTAACAAACATGTAGAAATATTTGTGAACAATATATATATT
* *
9788073 TGTGAACATATTCATTTAACATTTAGGAATGAGTTCATTTAACTTAATCTAGGCGAACATAAACC
1 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
* *
9788138 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAAGAATTTTCTTATTGAGCAC
66 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCGAGCAC
*
9788203 AAATCAAGCTCAAACAACTCTAAAATTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
131 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
*
9788268 GTCAATATGTTTAACCCCTATAACGATTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
196 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
9788333 TTTTCCCCTTGTGGACGTTCTTACCATTGTTCATGTCG-TTAGCTCTATCTGCTGT-CTAATTCT
261 TTTTCCCCTTGTGGACGTTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAA-TCT
* *
9788396 ATTTGGCTTCAAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGGTTTGTTTTT
325 ATTTGGCCTC-AACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGATTTGTTTTT
*
9788461 CATTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGTGAAGTCTTAAATGGCCCATTTAG
389 CATTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGTGAAGTCCTAAATGG-CCATTTAG
* * *
9788526 TATTCAAATCCTTGATTTCAATAATGGCGGTGTTGAACCTCTTTAAATGATGTCGTAAAGTTTCT
453 TATTCAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTCGCAAAGTTTCT
*
9788591 TTA-ACTTTTTGCTTCATGGCTAACAAACATGTAGAAATATTTGTGAACATATATATATATTTGT
518 TTAGGC-TTTTGCTTCATGGCTAACAAACATGTAGAAATA-TT-TG----------------TG-
9788655 AAACATATATATATTTGTGAACATATATATATT
563 -AAC------A-A----T----A--TATATATT
9788688 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
1 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
* * *
9788753 GAACATAAACATCCTACGATTTAAACGAACACTCAAATGAATAAAATAATTTTCTTATCGAGCAC
66 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCGAGCAC
9788818 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
131 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
9788883 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
196 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
* *
9788948 TTTTCCCCTTGTGGACGTTCTTACCAATGTTCATGTCGTTTAGCTCTATCTGTTGTCCTAATCTA
261 TTTTCCCCTTGTGGACGTTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
* * *
9789013 TTTGACCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGGTTTATTTTTCA
326 TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGATTTGTTTTTCA
9789078 TTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGTGAAGTCCTAAATGGCCTATTTAGTA
391 TTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGTGAAGTCCTAAATGGCC-ATTTAGTA
* * *
9789143 TTCAAATCCTTGATTTCAATAGTGGCGATGTTGAACCTCTTTAAATGATGTTGCAAAGTTTCTTT
455 TTCAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTCGCAAAGTTTCTTT
** *
9789208 AACCTTTTGCTTCATGGCTAACATACATGTAGAAATATTTGTGAAC-ATATATATATT
520 AGGCTTTTGCTTCATGGCTAACAAACATGTAGAAATATTTGTGAACAATATATATATT
9789265 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
1 TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
* *
9789330 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCAAGAAC
66 GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCGAGCAC
* *
9789395 AAATCAAGCTCAAATAACTCTAAAAGTAAACAAACAAACCATAAATATATATTTGTTCATTTATG
131 AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
*
9789460 ATCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
196 GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
* *
9789525 TTTTCCCCTTGTGGACGTTCTTACCATTGTTCATGTCGTTTAGCTTTATCTGCTGTCTTAATCTA
261 TTTTCCCCTTGTGGACGTTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
* * * * *
9789590 TTTTGCCTCAACAAACTTCTAGATCCTTTCATACAATTGATACAACTATTTTGATTTGTTTTTCA
326 TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGATTTGTTTTTCA
* * *
9789655 TTAACTAATATCTCAAATGATCGTATCTTACCCTTAAGGTAAAGTCCTAAATGGCTCATTTAGTA
391 TTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGTGAAGTCCTAAATGGC-CATTTAGTA
* *
9789720 TTTAAATCCTTGATTTCAAGAGTGGCGGTATTGAACCTCTTTAAATGATGTCGCAAAGTTTCTTT
455 TTCAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTCGCAAAGTTTCTTT
9789785 AGGCTTTTGCTTCATGGCTAACAAACATGTAGAAAT
520 AGGCTTTTGCTTCATGGCTAACAAACATGTAGAAAT
9789821 GCAGACCACA
Statistics
Matches: 2185, Mismatches: 85, Indels: 106
0.92 0.04 0.04
Matches are distributed among these distances:
572 4 0.00
573 29 0.01
574 371 0.17
575 2 0.00
576 151 0.07
577 664 0.30
578 5 0.00
579 400 0.18
583 1 0.00
587 1 0.00
595 5 0.00
597 5 0.00
605 1 0.00
609 1 0.00
613 3 0.00
614 4 0.00
615 506 0.23
616 28 0.01
617 4 0.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (577 bp):
TGTGAACATATTCATTTAACATTTAGGAACGAGTTCATTTAACTTAATCTAGTCGAACATAAACC
GAACATGAACATCCTACCATTTAAACGAACACTCGAATGAATAAAATAATTTTCTTATCGAGCAC
AAATCAAGCTCAAACAACTCTAAAAGTAAACAAACAAACCATAAATATATATTCGTTCATTTATG
GTCAATATGTTTAACCCCTATAACGGTTATCATGAAACCATTGGCTCAATGTTTCAATCTGTCTA
TTTTCCCCTTGTGGACGTTCTTACCATTGTTCATGTCGTTTAGCTCTATCTGCTGTCCTAATCTA
TTTGGCCTCAACAAACTTCTAGACCCTTTCATACAACTGATACAGCTATTCTGATTTGTTTTTCA
TTAACTAATATCTCAAATGATAGTGTCTTACCCTTAAGGTGAAGTCCTAAATGGCCATTTAGTAT
TCAAATCCTTGATTTCAAGAGTGGCGGTGTTGAACCTCTTTAAATGATGTCGCAAAGTTTCTTTA
GGCTTTTGCTTCATGGCTAACAAACATGTAGAAATATTTGTGAACAATATATATATT
Found at i:9793371 original size:2 final size:2
Alignment explanation
Indices: 9793366--9793410 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
9793356 TTTTTACTTC
* *
9793366 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9793408 TA T
1 TA T
9793411 TTGCTTTAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9793522 original size:13 final size:13
Alignment explanation
Indices: 9793506--9793552 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
9793496 GAAATTTATG
*
9793506 AAATTTTTATTAA
1 AAATTTTTAATAA
9793519 AAATTGTTTAATAA
1 AAATT-TTTAATAA
*
9793533 AAAATTTTAATAA
1 AAATTTTTAATAA
9793546 AATATTT
1 AA-ATTT
9793553 AAATTAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 15 0.52
14 14 0.48
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
AAATTTTTAATAA
Found at i:9793692 original size:13 final size:12
Alignment explanation
Indices: 9793657--9793700 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
9793647 TATGTAATAG
*
9793657 TAAAAATTTTAT
1 TAAAAATTTTAC
*
9793669 TAAAATTTTTAC
1 TAAAAATTTTAC
9793681 TAAAAATGTTTATC
1 TAAAAAT-TTTA-C
9793695 TAAAAA
1 TAAAAA
9793701 ATATCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 16 0.59
13 4 0.15
14 7 0.26
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (12 bp):
TAAAAATTTTAC
Found at i:9795055 original size:29 final size:29
Alignment explanation
Indices: 9795014--9795069 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
9795004 TCATAATCAT
*
9795014 TTTTAATTTTTAATATATATCTAAATATA
1 TTTTAATTTTTAATATATATCCAAATATA
* *
9795043 TTTTATTTTTTAATTTATATCCAAATA
1 TTTTAATTTTTAATATATATCCAAATA
9795070 ACCCTTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTTAATTTTTAATATATATCCAAATATA
Found at i:9797620 original size:2 final size:2
Alignment explanation
Indices: 9797613--9797646 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9797603 CAACCGCTGC
9797613 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9797647 TTGCTGCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9799284 original size:145 final size:142
Alignment explanation
Indices: 9799085--9799352 Score: 403
Period size: 145 Copynumber: 1.9 Consensus size: 142
9799075 TGGTCAAATT
* * * *
9799085 GACATGACTCTATTATAAAATGTCAAATCAAAATATTGTTTAATATGAAGAATTATAATTTTTAG
1 GACATGACTCTATTATAAAAAGTCAAATCAAAAGATTGTTTAATATGAAAAATTATAATTTTCAG
9799150 AAACATAAATAATGATTTCTCTTTGTATGAAAAGTTTAACTATTCAAATGAACAAATATATCTGT
66 AAACATAAATAATGATTTCTCTTTGTATG-AAAGTTTAACTATTCAAATGAACAAATATATCTGT
9799215 AATCTTTCAAAAA
130 AATCTTTCAAAAA
* *
9799228 GACATGATTTTATTATAAAAAGATTCAAATCAAAAGATTGCTTT-ATATGAAAAATTATAATTTT
1 GACATGACTCTATTATAAAAAG--TCAAATCAAAAGATTG-TTTAATATGAAAAATTATAATTTT
* * * *
9799292 CATAAACATAGATATTGATTTCTCTTTGTATGAAAGTTTAACTATTTAAATGAACAAATAT
63 CAGAAACATAAATAATGATTTCTCTTTGTATGAAAGTTTAACTATTCAAATGAACAAATAT
9799353 GCATATAATT
Statistics
Matches: 112, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
143 19 0.17
144 28 0.25
145 62 0.55
146 3 0.03
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (142 bp):
GACATGACTCTATTATAAAAAGTCAAATCAAAAGATTGTTTAATATGAAAAATTATAATTTTCAG
AAACATAAATAATGATTTCTCTTTGTATGAAAGTTTAACTATTCAAATGAACAAATATATCTGTA
ATCTTTCAAAAA
Found at i:9803507 original size:145 final size:144
Alignment explanation
Indices: 9803319--9803601 Score: 354
Period size: 145 Copynumber: 2.0 Consensus size: 144
9803309 AATTTACCTA
* * *
9803319 ATTCTATTATAAAAAAGTCAAATCAAAAGATTGTTTTATATGAAAAATTATAATTTTTAGAAACG
1 ATTCTATTATAAAAAAGTCAAATCAAAAGACTATTTTATATGAAAAATTATAATTTTCAGAAACG
** * * * *
9803384 TAAATAATGGCCTT-TCTTTGTATAAAAAGTTTAACTATTCAAATGAATAAATATAT-CTGTAAT
66 TAAATAAT-AACTTCTCTTTATATAAAAAGTTTAACTATTCAAATAAACAAATATATAC-ATAAT
9803447 TTTTTAAAAATGCATG
129 TTTTTAAAAATGCATG
* * * * *
9803463 ATTCTATTTTAAAAAGATTCAAATCAGAATACTATTTTATATGAAAAATTATAATTTTCAGAAAT
1 ATTCTATTATAAAAA-AGTCAAATCAAAAGACTATTTTATATGAAAAATTATAATTTTCAGAAAC
* * * * *
9803528 GTTAATAGTAATTTCTCTTTATATGAAAAGTTTAACTATTCAAATAAACAAATATGTACATAATT
65 GTAAATAATAACTTCTCTTTATATAAAAAGTTTAACTATTCAAATAAACAAATATATACATAATT
9803593 TTTTAAAAA
130 TTTTAAAAA
9803602 AGACATATTT
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
144 16 0.14
145 100 0.85
146 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (144 bp):
ATTCTATTATAAAAAAGTCAAATCAAAAGACTATTTTATATGAAAAATTATAATTTTCAGAAACG
TAAATAATAACTTCTCTTTATATAAAAAGTTTAACTATTCAAATAAACAAATATATACATAATTT
TTTAAAAATGCATG
Found at i:9805323 original size:2 final size:2
Alignment explanation
Indices: 9805279--9805312 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
9805269 ACTAGTATTC
9805279 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9805313 CTCCATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9811460 original size:33 final size:33
Alignment explanation
Indices: 9811415--9811481 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
9811405 AATGAGAAAC
*
9811415 AATTCTAGGTGACACATGCCTCCATGATACAAA
1 AATTCTAAGTGACACATGCCTCCATGATACAAA
*
9811448 AATTCTAAGTGACACATGCTTCCATGATACAAA
1 AATTCTAAGTGACACATGCCTCCATGATACAAA
9811481 A
1 A
9811482 GCTTAGCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.25
Consensus pattern (33 bp):
AATTCTAAGTGACACATGCCTCCATGATACAAA
Found at i:9814127 original size:57 final size:57
Alignment explanation
Indices: 9814066--9814179 Score: 133
Period size: 57 Copynumber: 2.0 Consensus size: 57
9814056 CATAAGAATG
* * *
9814066 AAATTGTAATAACAATAAAATATATCTTAGAAAAAATTTA-T-AAACAAAAAAAAAAAT
1 AAATTGCAATAACAATAAAATATACCTTA-AAAAAAGTTACTGAAA-AAAAAAAAAAAT
** * *
9814123 AAATTGCAATAGTAATAGAATATACCTTAAAAAAAGTTACTGAAAAAATAAAAAAAT
1 AAATTGCAATAACAATAAAATATACCTTAAAAAAAGTTACTGAAAAAAAAAAAAAAT
9814180 TGATGCATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
56 9 0.19
57 36 0.75
58 3 0.06
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (57 bp):
AAATTGCAATAACAATAAAATATACCTTAAAAAAAGTTACTGAAAAAAAAAAAAAAT
Found at i:9817736 original size:22 final size:22
Alignment explanation
Indices: 9817711--9817757 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9817701 AAAAAAAATC
*
9817711 AAAAGAGT-AGAAAAA-AAGGA
1 AAAAAAGTAAGAAAAATAAGGA
*
9817731 AAAAAATTAAGAAAAATAAGGA
1 AAAAAAGTAAGAAAAATAAGGA
9817753 AAAAA
1 AAAAA
9817758 GATTTCGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 7 0.30
22 10 0.43
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (22 bp):
AAAAAAGTAAGAAAAATAAGGA
Found at i:9818167 original size:12 final size:12
Alignment explanation
Indices: 9818150--9818174 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9818140 CCTTCACAAA
9818150 CCTAGCACTAGC
1 CCTAGCACTAGC
9818162 CCTAGCACTAGC
1 CCTAGCACTAGC
9818174 C
1 C
9818175 TTAAACCTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.44, G:0.16, T:0.16
Consensus pattern (12 bp):
CCTAGCACTAGC
Found at i:9833362 original size:34 final size:34
Alignment explanation
Indices: 9833323--9833389 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
9833313 ATTCAATAGA
9833323 TACATGGTTAATTTTACAAAATTTGGAAACAAAT
1 TACATGGTTAATTTTACAAAATTTGGAAACAAAT
*
9833357 TACATGGTTAATTTTGCAAAATTTGGAAACAAA
1 TACATGGTTAATTTTACAAAATTTGGAAACAAA
9833390 AATTAAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.34
Consensus pattern (34 bp):
TACATGGTTAATTTTACAAAATTTGGAAACAAAT
Found at i:9843210 original size:11 final size:11
Alignment explanation
Indices: 9843194--9843221 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9843184 AAGCTCATGG
9843194 ATAGTATTATA
1 ATAGTATTATA
9843205 ATAGTATTATA
1 ATAGTATTATA
9843216 ATAGTA
1 ATAGTA
9843222 ACGCAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (11 bp):
ATAGTATTATA
Found at i:9843496 original size:18 final size:19
Alignment explanation
Indices: 9843475--9843512 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
9843465 ATTCATCAAT
9843475 TATAAA-AAATTATAAACA
1 TATAAACAAATTATAAACA
*
9843493 TATAAATCAAATTATCAACA
1 TATAAA-CAAATTATAAACA
9843513 ATTAATACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (19 bp):
TATAAACAAATTATAAACA
Found at i:9844958 original size:37 final size:36
Alignment explanation
Indices: 9844917--9844987 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
9844907 GGCTTTGTTG
*
9844917 TAAAAAATATCCTCCAATCTATTGGTAAGACTTTTTT
1 TAAAAAATATCCTCCAATCTATTAGTAAGA-TTTTTT
* * *
9844954 TAAAAATTATCTTCCAATCTGTTAGTAAGATTTT
1 TAAAAAATATCCTCCAATCTATTAGTAAGATTTT
9844988 ATGCAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 4 0.13
37 26 0.87
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.42
Consensus pattern (36 bp):
TAAAAAATATCCTCCAATCTATTAGTAAGATTTTTT
Found at i:9846360 original size:34 final size:34
Alignment explanation
Indices: 9846316--9846400 Score: 143
Period size: 34 Copynumber: 2.5 Consensus size: 34
9846306 GATAATCATT
* *
9846316 AGGCTCAAAGCCCAAATGAAATAAAACATATTTA
1 AGGCTAAAAGCCCAAACGAAATAAAACATATTTA
*
9846350 AGGCTAAAAGCCCAAACGAAATAAAACATATTTT
1 AGGCTAAAAGCCCAAACGAAATAAAACATATTTA
9846384 AGGCTAAAAGCCCAAAC
1 AGGCTAAAAGCCCAAAC
9846401 AAGAACTAGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.49, C:0.20, G:0.13, T:0.18
Consensus pattern (34 bp):
AGGCTAAAAGCCCAAACGAAATAAAACATATTTA
Found at i:9846996 original size:31 final size:31
Alignment explanation
Indices: 9846953--9847020 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
9846943 CTGCATGTCG
* *
9846953 AAAAAAAATGACCTAGACTGAGCCA-AGGTC
1 AAAAAAAATGACCAAGACTGAACCACAGGTC
* *
9846983 AAAAATAAATGACCAAGATTGAATCACAGGTC
1 AAAAA-AAATGACCAAGACTGAACCACAGGTC
9847015 AAAAAA
1 AAAAAA
9847021 TTAAAATAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 5 0.16
31 17 0.53
32 10 0.31
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.15
Consensus pattern (31 bp):
AAAAAAAATGACCAAGACTGAACCACAGGTC
Found at i:9847044 original size:66 final size:66
Alignment explanation
Indices: 9846973--9847137 Score: 188
Period size: 66 Copynumber: 2.5 Consensus size: 66
9846963 ACCTAGACTG
* * * *
9846973 AGCCAAGGTCAAAAATAAATGACCAAGATTGAATCACAGGTCAAAAAATTAAAATAGCCTGGACC
1 AGCCAAGGTCAAAAATAAATGACCAAGATTGAATCACAGGTAAAAAAACTAAAATAACCTGAACC
9847038 A
66 A
** * * * *
9847039 AGCCAAGGTTGAAAATGAATGACCAAGATTGAATCGCAGGTAAAAAAACTAAAGTAACTTGAACC
1 AGCCAAGGTCAAAAATAAATGACCAAGATTGAATCACAGGTAAAAAAACTAAAATAACCTGAACC
*
9847104 G
66 A
* * *
9847105 AGCTAAGGTCAAAAA-AGAGTGACCGAGATTGAA
1 AGCCAAGGTCAAAAATA-AATGACCAAGATTGAA
9847138 CCGTTGGTCA
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
66 81 1.00
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.17
Consensus pattern (66 bp):
AGCCAAGGTCAAAAATAAATGACCAAGATTGAATCACAGGTAAAAAAACTAAAATAACCTGAACC
A
Found at i:9850012 original size:15 final size:16
Alignment explanation
Indices: 9849992--9850022 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9849982 GAGAGAAAAA
9849992 AAAGG-AAAGAGAGAT
1 AAAGGAAAAGAGAGAT
9850007 AAAGGAAAAGAGAGAT
1 AAAGGAAAAGAGAGAT
9850023 CTGAAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.06
Consensus pattern (16 bp):
AAAGGAAAAGAGAGAT
Found at i:9850567 original size:59 final size:59
Alignment explanation
Indices: 9850393--9850753 Score: 265
Period size: 58 Copynumber: 6.0 Consensus size: 59
9850383 TTTTCAATGA
* * *
9850393 TCTCTTTAAAATGAAAATTTTAAAAAATATTTTTGAAGG-AAAGTTGAATGTATCAATT
1 TCTCTTGAAAATAAAAATTTTAAAAAATATTTTTGAAGGAAAAGTTGAAAGTATCAATT
* * *
9850451 T-TCTTTGAACATAAAAA-TTAAAAAATATATTTTTGAA-AAAAAGTTGAAAGTATCAATT
1 TCTC-TTGAAAATAAAAATTTTAAAAA-ATATTTTTGAAGGAAAAGTTGAAAGTATCAATT
*
9850509 TCTCTTGAAAATAAAAATTTTCAAAAAATA-TTTTGAAGGAAAAGTTAAAAGTATCAATT
1 TCTCTTGAAAATAAAAATTTT-AAAAAATATTTTTGAAGGAAAAGTTGAAAGTATCAATT
* * * ****
9850568 TTTATTGAAAATAAAAAAAAGAGATTTCAAGAGGGGATTTTT-AAGGAAAAGTTGAAAGTATCAA
1 TCTCTTGAAAAT-----AAA-A-ATTTTAA-AAAATATTTTTGAAGGAAAAGTTGAAAGTATCAA
9850632 TT
58 TT
* * * * * * *
9850634 TTTCTTAAAAATAAAATTTTTAAAAAAAGCATTTCTTG-AGAAAAAGTTGGAAGTACCAATT
1 TCTCTTGAAAATAAAAATTTT-AAAAAA-TATTT-TTGAAGGAAAAGTTGAAAGTATCAATT
* * * * * *
9850695 TTTCTTAAAAAT-AAAACTTGAAGAAGTATATTTTT-AAGG-AAAGTTGAAAGTATTAATT
1 TCTCTTGAAAATAAAAATTTTAA-AA-AATATTTTTGAAGGAAAAGTTGAAAGTATCAATT
9850753 T
1 T
9850754 TTTTAAAAAA
Statistics
Matches: 242, Mismatches: 38, Indels: 46
0.74 0.12 0.14
Matches are distributed among these distances:
57 9 0.04
58 77 0.32
59 46 0.19
60 23 0.10
61 38 0.16
64 3 0.01
65 3 0.01
66 39 0.16
67 4 0.02
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (59 bp):
TCTCTTGAAAATAAAAATTTTAAAAAATATTTTTGAAGGAAAAGTTGAAAGTATCAATT
Found at i:9854649 original size:9 final size:9
Alignment explanation
Indices: 9854635--9854716 Score: 60
Period size: 9 Copynumber: 8.9 Consensus size: 9
9854625 CTAATGGATG
9854635 GAAAAAGAT
1 GAAAAAGAT
9854644 GAAAAAAGAT
1 G-AAAAAGAT
9854654 GAAAAA-AT
1 GAAAAAGAT
* *
9854662 TAAAAAAATT
1 GAAAAAGA-T
* *
9854672 AAAAAAAAT
1 GAAAAAGAT
9854681 GAAAAA-AT
1 GAAAAAGAT
9854689 GGAAAAAAGAT
1 -G-AAAAAGAT
* *
9854700 GAAAAAAAA
1 GAAAAAGAT
9854709 GAAAAAGA
1 GAAAAAGA
9854717 AGACTCAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
8 9 0.15
9 27 0.44
10 23 0.38
11 2 0.03
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (9 bp):
GAAAAAGAT
Found at i:9854649 original size:10 final size:10
Alignment explanation
Indices: 9854631--9854706 Score: 72
Period size: 10 Copynumber: 8.0 Consensus size: 10
9854621 ACCACTAATG
*
9854631 GATGGAAAAA
1 GATGAAAAAA
9854641 GATGAAAAAA
1 GATGAAAAAA
9854651 GATG-AAAAA
1 GATGAAAAAA
*
9854660 -ATTAAAAAA
1 GATGAAAAAA
*
9854669 -ATTAAAAAA
1 GATGAAAAAA
*
9854678 AATG-AAAAA
1 GATGAAAAAA
9854687 -ATGGAAAAAA
1 GAT-GAAAAAA
9854697 GATGAAAAAA
1 GATGAAAAAA
9854707 AAGAAAAAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
8 4 0.07
9 25 0.43
10 27 0.47
11 2 0.03
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (10 bp):
GATGAAAAAA
Found at i:9854712 original size:19 final size:19
Alignment explanation
Indices: 9854636--9854714 Score: 83
Period size: 19 Copynumber: 4.2 Consensus size: 19
9854626 TAATGGATGG
9854636 AAAAAGATGAAAAAAGATG-
1 AAAAAGATGAAAAAA-ATGA
* *
9854655 AAAAA-ATTAAAAAAATTA
1 AAAAAGATGAAAAAAATGA
*
9854673 AAAAAAATG-AAAAAATGGA
1 AAAAAGATGAAAAAAAT-GA
*
9854692 AAAAAGATGAAAAAAAAGA
1 AAAAAGATGAAAAAAATGA
9854711 AAAA
1 AAAA
9854715 GAAGACTCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
17 2 0.04
18 20 0.40
19 22 0.44
20 6 0.12
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (19 bp):
AAAAAGATGAAAAAAATGA
Found at i:9855702 original size:21 final size:21
Alignment explanation
Indices: 9855677--9855887 Score: 100
Period size: 21 Copynumber: 9.3 Consensus size: 21
9855667 TTTGATGAAG
*
9855677 TTTTAAGTCTTAAATGAAAAT
1 TTTTAAGTCTTAAATGAGAAT
* *
9855698 TTTTAAGATGTTTTCAAATAAGAAT
1 TTTT-A-A-GTCTT-AAATGAGAAT
* * *
9855723 CTTTGAGTCTTAAATGAAAAT
1 TTTTAAGTCTTAAATGAGAAT
*
9855744 CTTTTAAGACATTTTCAAATGAGAAT
1 -TTTTAAG---TCTT-AAATGAGAAT
* *
9855770 CTTTGAGTCTTAAATGAGAAT
1 TTTTAAGTCTTAAATGAGAAT
* * * *
9855791 CATTATGACTTTCTAAATGAGAAT
1 --TTTTAAGTCT-TAAATGAGAAT
*
9855815 CTTTAAGTCTTAAATGAGAAT
1 TTTTAAGTCTTAAATGAGAAT
* * *
9855836 ATTTAAGACGTTTTCAAATGA-AAA
1 -TTTTA-A-GTCTT-AAATGAGAAT
*
9855860 TTTTGAGTCTTAAATGAGAAT
1 TTTTAAGTCTTAAATGAGAAT
*
9855881 CTTTAAG
1 TTTTAAG
9855888 ACATTTTCCA
Statistics
Matches: 139, Mismatches: 34, Indels: 34
0.67 0.16 0.16
Matches are distributed among these distances:
20 6 0.04
21 44 0.32
22 22 0.16
23 12 0.09
24 21 0.15
25 25 0.18
26 9 0.06
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
TTTTAAGTCTTAAATGAGAAT
Found at i:9855734 original size:46 final size:46
Alignment explanation
Indices: 9855682--9856136 Score: 397
Period size: 46 Copynumber: 10.0 Consensus size: 46
9855672 TGAAGTTTTA
* * * *
9855682 AGTCTTAAATGAAAATTTTTAAGATGTTTTCAAATAAGAATCTTTG
1 AGTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTG
* *
9855728 AGTCTTAAATGAAAATCTTTTAAGACATTTTCAAATGAGAATCTTTG
1 AGTCTTAAATGAGAATC-TTTAAGACGTTTTCAAATGAGAATCTTTG
* * *
9855775 AGTCTTAAATGAGAATCATTATGAC--TTTCTAAATGAGAATCTTTA
1 AGTCTTAAATGAGAATCTTTAAGACGTTTTC-AAATGAGAATCTTTG
* *
9855820 AGTCTTAAATGAGAATATTTAAGACGTTTTCAAATGAAAAT-TTTG
1 AGTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTG
* *
9855865 AGTCTTAAATGAGAATCTTTAAGACATTTTCCAAT----A------
1 AGTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTG
* * * * *
9855901 AGTCTTAAATGAGAATTTTTAAGATGTTTCCAAATGATAATTTTTAAG
1 AGTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTT--G
* * *
9855949 ACGTTTTCAAATGAGAATATTT--GA-GTCTT-AAATGAGAATCTTTAAG
1 A-GTCTT-AAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTT--G
* * * *
9855995 ATGTTTCTAAATGTGAATCTTTAAGACATTTTCAAATTAGAATCTTTG
1 A-GTCT-TAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTG
* * * * *
9856043 AGT-TTCAAATGAGAATGTTTAAGATGTTTTCAAATTAGCATCTTTA
1 AGTCTT-AAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTG
* *
9856089 AGTCTTAAATGAGAACCTTTAAGACATTTTCAAATGAGAATCTTTG
1 AGTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTG
9856135 AG
1 AG
9856137 ATGTAAAACC
Statistics
Matches: 338, Mismatches: 46, Indels: 50
0.78 0.11 0.12
Matches are distributed among these distances:
36 30 0.09
40 1 0.00
41 1 0.00
44 4 0.01
45 72 0.21
46 136 0.40
47 54 0.16
48 7 0.02
49 7 0.02
50 26 0.08
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.39
Consensus pattern (46 bp):
AGTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTG
Found at i:9855817 original size:71 final size:71
Alignment explanation
Indices: 9855733--9856090 Score: 283
Period size: 71 Copynumber: 5.3 Consensus size: 71
9855723 CTTTGAGTCT
* * *
9855733 TAAATGAAAATCTTTTAAGACATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCATTATG
1 TAAATGAGAATC-TTTAAGACATTTTCAAATGAGAATATTTGAGTCTTAAATGAGAATCATTAAG
*
9855798 A-CTTTC
65 ATGTTTC
* *
9855804 TAAATGAGAATCTTTAAG---TCTT-AAATGAGAATATTTAAGACGTTTTCAAATGA-AA--ATT
1 TAAATGAGAATCTTTAAGACATTTTCAAATGAGAATATTT--GA-GTCTT-AAATGAGAATCATT
** *
9855862 TTGA-GTCT-
62 AAGATGTTTC
* **
9855870 TAAATGAGAATCTTTAAGACATTTTC------CAATA----AGTCTTAAATGAGAATTTTTAAGA
1 TAAATGAGAATCTTTAAGACATTTTCAAATGAGAATATTTGAGTCTTAAATGAGAATCATTAAGA
9855925 TGTTTC
66 TGTTTC
* * * * *
9855931 CAAATGATAATTTTTAAGACGTTTTCAAATGAGAATATTTGAGTCTTAAATGAGAATCTTTAAGA
1 TAAATGAGAATCTTTAAGACATTTTCAAATGAGAATATTTGAGTCTTAAATGAGAATCATTAAGA
9855996 TGTTTC
66 TGTTTC
* * * **
9856002 TAAATGTGAATCTTTAAGACATTTTCAAATTAGAATCTTTGAGT-TTCAAATGAGAATGTTTAAG
1 TAAATGAGAATCTTTAAGACATTTTCAAATGAGAATATTTGAGTCTT-AAATGAGAATCATTAAG
9856066 ATGTTT-
65 ATGTTTC
* *
9856072 TCAAATTAGCATCTTTAAG
1 T-AAATGAGAATCTTTAAG
9856091 TCTTAAATGA
Statistics
Matches: 231, Mismatches: 31, Indels: 50
0.74 0.10 0.16
Matches are distributed among these distances:
56 6 0.03
57 6 0.03
58 1 0.00
59 4 0.02
60 3 0.01
61 22 0.10
64 4 0.02
66 31 0.13
67 15 0.06
68 2 0.01
69 9 0.04
70 15 0.06
71 113 0.49
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.39
Consensus pattern (71 bp):
TAAATGAGAATCTTTAAGACATTTTCAAATGAGAATATTTGAGTCTTAAATGAGAATCATTAAGA
TGTTTC
Found at i:9855935 original size:25 final size:25
Alignment explanation
Indices: 9855907--9856140 Score: 197
Period size: 25 Copynumber: 9.8 Consensus size: 25
9855897 AATAAGTCTT
* *
9855907 AAATGAGAATTTTTAAGATGTTTCC
1 AAATGAGAATCTTTAAGATGTTTTC
* * *
9855932 AAATGATAATTTTTAAGACGTTTTC
1 AAATGAGAATCTTTAAGATGTTTTC
* *
9855957 AAATGAGAATATTT--GA-GTCTT-
1 AAATGAGAATCTTTAAGATGTTTTC
9855978 AAATGAGAATCTTTAAGATG-TTTC
1 AAATGAGAATCTTTAAGATGTTTTC
* **
9856002 TAAATGTGAATCTTTAAGACATTTTC
1 -AAATGAGAATCTTTAAGATGTTTTC
*
9856028 AAATTAGAATCTTT--GA-G-TTTC
1 AAATGAGAATCTTTAAGATGTTTTC
*
9856049 AAATGAGAATGTTTAAGATGTTTTC
1 AAATGAGAATCTTTAAGATGTTTTC
* * *
9856074 AAATTAGCATCTTT-A-A-GTCTT-
1 AAATGAGAATCTTTAAGATGTTTTC
* **
9856095 AAATGAGAACCTTTAAGACATTTTC
1 AAATGAGAATCTTTAAGATGTTTTC
*
9856120 AAATGAGAATCTTTGAGATGT
1 AAATGAGAATCTTTAAGATGT
9856141 AAAACCCTAA
Statistics
Matches: 166, Mismatches: 29, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
21 40 0.24
22 9 0.05
23 12 0.07
24 6 0.04
25 95 0.57
26 4 0.02
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (25 bp):
AAATGAGAATCTTTAAGATGTTTTC
Found at i:9856384 original size:21 final size:21
Alignment explanation
Indices: 9856360--9856408 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
9856350 TTTTGGATGG
9856360 GAATCTTTAAA-ATTCGAATGA
1 GAATCTTTAAATATT-GAATGA
*
9856381 GAATCTTTAAATATTGAATGC
1 GAATCTTTAAATATTGAATGA
9856402 GAATCTT
1 GAATCTT
9856409 AAGATCTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (21 bp):
GAATCTTTAAATATTGAATGA
Found at i:9856655 original size:42 final size:42
Alignment explanation
Indices: 9856603--9856724 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 42
9856593 TAGAGGAGTC
*
9856603 GTATTTATTTTGTCAAAGTTATGGTGCCTCTGTTTAGAGG-A
1 GTATTTATTTTGTCAAAGTTGTGGTGCCTCTGTTTAGAGGAA
* * * * **
9856644 GTAATTTATTTTTTAAAAGTTGTGATACCTCTACTTAGAGGAACA
1 GT-ATTTATTTTGTCAAAGTTGTGGTGCCTCTGTTTAGAGG-A-A
* *
9856689 GTATTTATTTTGTCAAAGTTGTGGTGCTTTTGTTTA
1 GTATTTATTTTGTCAAAGTTGTGGTGCCTCTGTTTA
9856725 AAATAGCTTA
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
41 2 0.03
42 31 0.50
44 26 0.42
45 3 0.05
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (42 bp):
GTATTTATTTTGTCAAAGTTGTGGTGCCTCTGTTTAGAGGAA
Found at i:9856794 original size:89 final size:88
Alignment explanation
Indices: 9856593--9856889 Score: 336
Period size: 89 Copynumber: 3.4 Consensus size: 88
9856583 GACATCCTTG
* * * *
9856593 TAGAGGAGTCGTATTTATTTTGTCAAAGTTATGGTGCCTCTGTTTAGAGGAG--TAATTTATTTT
1 TAGAGGAGTCGTATTTATTTTGTCAAAGTTGTGGTGCTTTTGTTTAGAAGAGCTTAATTTATTTT
* *
9856656 TTAAAAGTTG-TGATACCTCTACT
66 TAAAAAGTAGTTGA-ACCTCTACT
* * *
9856679 TAGAGGA-ACAGTATTTATTTTGTCAAAGTTGTGGTGCTTTTGTTTAAAATAGCTTAATTTATTT
1 TAGAGGAGTC-GTATTTATTTTGTCAAAGTTGTGGTGCTTTTGTTTAGAAGAGCTTAATTTATTT
* *
9856743 TTCAAAAAGTAGTTGAGCCTCTACC
65 TT-AAAAAGTAGTTGAACCTCTACT
* *
9856768 TAGAAGAGTCGTATTTATTTTGTCAAAATTGTGGTG-TTTCTGTTTAGAAGAGCTTAATTTATTT
1 TAGAGGAGTCGTATTTATTTTGTCAAAGTTGTGGTGCTTT-TGTTTAGAAGAGCTTAATTTA-TT
* *
9856832 TTTAGAAAGTCA-TTGAACCTCTGCT
64 TTTAAAAAGT-AGTTGAACCTCTACT
* **
9856857 TAGAGGAGCCGTATTTATTTCATCAAAGTTGTG
1 TAGAGGAGTCGTATTTATTTTGTCAAAGTTGTG
9856890 AGCCTCAGTT
Statistics
Matches: 177, Mismatches: 25, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
85 1 0.01
86 43 0.24
88 15 0.08
89 108 0.61
90 10 0.06
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (88 bp):
TAGAGGAGTCGTATTTATTTTGTCAAAGTTGTGGTGCTTTTGTTTAGAAGAGCTTAATTTATTTT
TAAAAAGTAGTTGAACCTCTACT
Found at i:9856828 original size:44 final size:44
Alignment explanation
Indices: 9856691--9856832 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 44
9856681 GAGGAACAGT
* * *
9856691 ATTTATTTTGTCAAAGTTGTGGTGCTTT-TGTTTAAAATAGCTTA
1 ATTTATTTTGTCAAAATTGTGGTG-TTTCTGTTTAGAAGAGCTTA
* * * ** *** *
9856735 ATTTATTTT-TCAAAAAGTAGTTGAGCCTCTACCTAGAAGAGTCGT-
1 ATTTATTTTGTC-AAAA-TTGTGGTGTTTCTGTTTAGAAGAG-CTTA
9856780 ATTTATTTTGTCAAAATTGTGGTGTTTCTGTTTAGAAGAGCTTA
1 ATTTATTTTGTCAAAATTGTGGTGTTTCTGTTTAGAAGAGCTTA
9856824 ATTTATTTT
1 ATTTATTTT
9856833 TTAGAAAGTC
Statistics
Matches: 71, Mismatches: 21, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
43 4 0.06
44 38 0.54
45 25 0.35
46 4 0.06
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (44 bp):
ATTTATTTTGTCAAAATTGTGGTGTTTCTGTTTAGAAGAGCTTA
Found at i:9857717 original size:11 final size:11
Alignment explanation
Indices: 9857698--9857727 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9857688 AAGAGAAAAA
*
9857698 AAAAATTTTTG
1 AAAATTTTTTG
9857709 AAAATTTTTTG
1 AAAATTTTTTG
9857720 AAAATTTT
1 AAAATTTT
9857728 CCAAATTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (11 bp):
AAAATTTTTTG
Found at i:9858436 original size:60 final size:57
Alignment explanation
Indices: 9858363--9858541 Score: 209
Period size: 60 Copynumber: 3.1 Consensus size: 57
9858353 TGAAAATTTG
* *
9858363 AAAAAATATTTTTGAAGGAAAGTTGAATGTATCAATTTCCTTTGAACATAAAAACTAA
1 AAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTT-CTTTGAAAATAAAAACTAA
* **
9858421 AAAATATATATTTTTGAAGGAAAGTTGAAAGTATCAATTTCTCTTGAAAATAAAAATTTT
1 AAAA-A-ATATTTTTGAAGGAAAGTTGAAAGTATCAATTTCT-TTGAAAATAAAAACTAA
* * * * *
9858481 CAAAAATATTTTTAAAGAAAAATTGAAAGTATTAATTTTCTTTGAAAATAAAAA--AA
1 AAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAA-TTTCTTTGAAAATAAAAACTAA
9858537 AAAAA
1 AAAAA
9858542 GATTTCAAGA
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
56 4 0.04
58 43 0.41
59 9 0.09
60 48 0.46
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.34
Consensus pattern (57 bp):
AAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATTTCTTTGAAAATAAAAACTAA
Found at i:9858518 original size:58 final size:59
Alignment explanation
Indices: 9858342--9858534 Score: 232
Period size: 58 Copynumber: 3.3 Consensus size: 59
9858332 TTTTCAATGA
* * *
9858342 TCTCTTT-AAAATGAAAATTTGAAAAAATATTTTTGAAGGAAAGTTGAATGTATCAATT
1 TCTCTTTGAAAATAAAAATTTAAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATT
* * *
9858400 TC-CTTTGAACATAAAAACTAAAAAATATATATTTTTGAAGGAAAGTTGAAAGTATCAATT
1 TCTCTTTGAAAATAAAAATTTAAAAA-A-ATATTTTTGAAGGAAAGTTGAAAGTATCAATT
** * * * *
9858460 TCTC-TTGAAAATAAAAATTTTCAAAAATATTTTTAAAGAAAAATTGAAAGTATTAATT
1 TCTCTTTGAAAATAAAAATTTAAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATT
9858518 T-TCTTTGAAAATAAAAA
1 TCTCTTTGAAAATAAAAA
9858535 AAAAAAAGAT
Statistics
Matches: 115, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
57 6 0.05
58 57 0.50
59 2 0.02
60 49 0.43
61 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.36
Consensus pattern (59 bp):
TCTCTTTGAAAATAAAAATTTAAAAAAATATTTTTGAAGGAAAGTTGAAAGTATCAATT
Found at i:9858596 original size:61 final size:63
Alignment explanation
Indices: 9858531--9858663 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 63
9858521 TTTGAAAATA
* *
9858531 AAAAAAAAAAAGATTTC-AAGAAAGGATTT-TTGAGGAAAAGTTGAGA-GTAT-CAA-TTTTCCT
1 AAAAAAAAAAA-ATTTCAAAAAAAGCATTTCTTGAGGAAAAGTTG-GATGT-TCCAATTTTTCCT
9858591 T
63 T
* *
9858592 -AAAAACAAAATTTTCAAAAAAAGCATTTCTTGAGGAAAAGTTGGATGTTCCAATTTTTCCTT
1 AAAAAAAAAAAATTTCAAAAAAAGCATTTCTTGAGGAAAAGTTGGATGTTCCAATTTTTCCTT
*
9858654 AAAAATAAAA
1 AAAAAAAAAA
9858664 CTTGAAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
59 4 0.07
60 22 0.37
61 19 0.32
62 8 0.13
63 7 0.12
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (63 bp):
AAAAAAAAAAAATTTCAAAAAAAGCATTTCTTGAGGAAAAGTTGGATGTTCCAATTTTTCCTT
Found at i:9858672 original size:61 final size:60
Alignment explanation
Indices: 9858551--9858715 Score: 162
Period size: 61 Copynumber: 2.8 Consensus size: 60
9858541 AGATTTCAAG
* *
9858551 AAAGGATTTTTGAGGAAAAGTTGAGAGTATCAATTTTCCTTAAAAACAAAATTTTCAAAA
1 AAAGCATTTTTGAGGAAAAGTTGAGAGTATCAATTTTCCTTAAAAACAAAATCTTCAAAA
* *
9858611 AAAGCATTTCTTGAGGAAAAGTTG-GATGT-TCCAATTTTTCCTTAAAAATAAAA-CTTGAAAA
1 AAAGCATTT-TTGAGGAAAAGTTGAGA-GTAT-CAA-TTTTCCTTAAAAACAAAATCTTCAAAA
* * * * *
9858672 AATA-TATTTTTAAGG-AAAGTTGAAAGTATTAATTTT-TTTAAAAA
1 AA-AGCATTTTTGAGGAAAAGTTGAGAGTATCAATTTTCCTTAAAAA
9858716 ATAAAAAACC
Statistics
Matches: 89, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
57 7 0.08
58 4 0.04
59 11 0.12
60 18 0.20
61 31 0.35
62 18 0.20
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (60 bp):
AAAGCATTTTTGAGGAAAAGTTGAGAGTATCAATTTTCCTTAAAAACAAAATCTTCAAAA
Found at i:9875485 original size:3 final size:3
Alignment explanation
Indices: 9875477--9875541 Score: 82
Period size: 3 Copynumber: 22.7 Consensus size: 3
9875467 ATTGTATCTT
* * *
9875477 TTA TTA TTA ATA -TA TTA TT- TTA -TA TTA CTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9875522 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
9875542 GCTGTTGTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
2 6 0.11
3 48 0.89
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:9875502 original size:21 final size:21
Alignment explanation
Indices: 9875442--9875541 Score: 69
Period size: 21 Copynumber: 4.6 Consensus size: 21
9875432 TCATATAGTA
* * *
9875442 TAATATATTATATCATATTAA
1 TAATATATTATTTTATATTAT
*
9875463 TACTAT-TGTATCTTT-TATTAT
1 TAATATAT-TAT-TTTATATTAT
*
9875484 TAATATATTATTTTATATTAC
1 TAATATATTATTTTATATTAT
*
9875505 TATTACTATTATTATTATTATTAT
1 TAATA-TATTATT-TTA-TATTAT
*
9875529 TATTATTATTATT
1 TAATA-TATTATT
9875542 GCTGTTGTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
20 4 0.06
21 30 0.48
22 9 0.14
23 3 0.05
24 17 0.27
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (21 bp):
TAATATATTATTTTATATTAT
Found at i:9876428 original size:14 final size:14
Alignment explanation
Indices: 9876406--9876443 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
9876396 TTATCACAGG
*
9876406 TTTTCTTTTTTTCA
1 TTTTATTTTTTTCA
*
9876420 TTTTATTTTTTTTA
1 TTTTATTTTTTTCA
9876434 TTTTATTTTT
1 TTTTATTTTT
9876444 AACCCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTATTTTTTTCA
Found at i:9876468 original size:13 final size:12
Alignment explanation
Indices: 9876450--9876493 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
9876440 TTTTAACCCA
9876450 TTTTATTTTAATT
1 TTTTATTTT-ATT
*
9876463 TTTTATATTATT
1 TTTTATTTTATT
9876475 TTTCTAGTTTTATT
1 TTT-TA-TTTTATT
9876489 TTTTA
1 TTTTA
9876494 AAAAATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 6 0.22
13 12 0.44
14 9 0.33
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:9876579 original size:15 final size:15
Alignment explanation
Indices: 9876561--9876593 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9876551 ATTCTAAAAA
9876561 AAAATCTTTCCAAAT
1 AAAATCTTTCCAAAT
*
9876576 AAAATCTTTTCAAAT
1 AAAATCTTTCCAAAT
9876591 AAA
1 AAA
9876594 GTTTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATCTTTCCAAAT
Found at i:9876579 original size:16 final size:16
Alignment explanation
Indices: 9876540--9876593 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
9876530 AAAAAAATAA
** *
9876540 AAATAAAAATGATTCT
1 AAATAAAAATCTTTCC
*
9876556 AAAAAAAAATCTTTCC
1 AAATAAAAATCTTTCC
*
9876572 AAAT-AAAATCTTTTC
1 AAATAAAAATCTTTCC
9876587 AAATAAA
1 AAATAAA
9876594 GTTTTCAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 14 0.45
16 17 0.55
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (16 bp):
AAATAAAAATCTTTCC
Found at i:9876725 original size:60 final size:60
Alignment explanation
Indices: 9876654--9876775 Score: 199
Period size: 60 Copynumber: 2.0 Consensus size: 60
9876644 TTTCAAATAG
* * *
9876654 AAATTCTTACAAAATAAATTCATGAATTTCACCAAACTATTGGATAGTTTTCATAGGTTT
1 AAATCCTTACAAAATAAATTCAAGAATTCCACCAAACTATTGGATAGTTTTCATAGGTTT
* *
9876714 AAATCCTTACAAAATAAATTCAAGAATTCCACCAAACTATTGGATAGTTTTTATGGGTTT
1 AAATCCTTACAAAATAAATTCAAGAATTCCACCAAACTATTGGATAGTTTTCATAGGTTT
9876774 AA
1 AA
9876776 TTTTTTTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (60 bp):
AAATCCTTACAAAATAAATTCAAGAATTCCACCAAACTATTGGATAGTTTTCATAGGTTT
Found at i:9877439 original size:36 final size:38
Alignment explanation
Indices: 9877398--9877477 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 38
9877388 ATAAATTTGA
*
9877398 AATTATTTTA-TTCCCTTTT-ATTGCT-TATATTTGCTT
1 AATTATTTTATTTCCCTTTTCATTG-TGTATACTTGCTT
* *
9877434 TATTA-TTTATTTTCCTTTTCATTGTGTATACTTGCTT
1 AATTATTTTATTTCCCTTTTCATTGTGTATACTTGCTT
9877471 AATTATT
1 AATTATT
9877478 CATTCATCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
35 4 0.11
36 13 0.36
37 18 0.50
38 1 0.03
ACGTcount: A:0.20, C:0.12, G:0.06, T:0.61
Consensus pattern (38 bp):
AATTATTTTATTTCCCTTTTCATTGTGTATACTTGCTT
Found at i:9887241 original size:10 final size:10
Alignment explanation
Indices: 9887215--9887248 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
9887205 GCTTGACCTA
9887215 AAAAAAAGA-
1 AAAAAAAGAG
9887224 AAAAAAAGAG
1 AAAAAAAGAG
9887234 AAAAAAAGAG
1 AAAAAAAGAG
9887244 TAAAA
1 -AAAA
9887249 CTTGAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
10 10 0.43
11 4 0.17
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:9888323 original size:118 final size:118
Alignment explanation
Indices: 9888019--9888567 Score: 410
Period size: 118 Copynumber: 4.6 Consensus size: 118
9888009 TTTATTTACC
* * * * ** * * *
9888019 TGATCTTGACTCAGTCCAAATTATCTCTTATGGCTCATGGTTTCATCTC-AGTTATTTATTTTGA
1 TGATCTTGACTCAGTCTAGATCATCTCATATGATTTATGATTTCATCTCGA-TCATTTATTTTGA
* * * * * * *
9888083 TCTCGACTCGATCTTGGTCATTTCATTTTAACTCGTAATTTTAT-CCTGATCACT
65 CCTTGACTCAATCTTGATCGTTTCATTTTAACTCGTGATTTCATCCCT-ATCACT
* * * * ** * *
9888137 TGATATTGGCTCAGTAC-ATATCATCTCATATGATTTATGGTTTTGTCTCGGTTATTTATTTTGA
1 TGATCTTGACTCAGT-CTAGATCATCTCATATGATTTATGATTTCATCTCGATCATTTATTTTGA
* * *
9888201 CCTTGACTCAATCTT-AGTCGTTTCATTTTGACTTGTGATTTCATCCCTATTACT
65 CCTTGACTCAATCTTGA-TCGTTTCATTTTAACTCGTGATTTCATCCCTATCACT
* * **
9888255 TGATCTTGACTCAGTCTATATCATCTTATATGATTCGTGATTTCATCTCGATCATTTATTTT-AC
1 TGATCTTGACTCAGTCTAGATCATCTCATATGATTTATGATTTCATCTCGATCATTTATTTTGA-
*** * * * ** * *
9888319 CCTTGACTTGGTCTTGATTGCTTCATTTTAACTCATGATTTTGTCTCAATCACT
65 CCTTGACTCAATCTTGATCGTTTCATTTTAACTCGTGATTTCATCCCTATCACT
* * * * ** * * *
9888373 TTATCTTGGCTCAGTCTAGATCATTTCATTTTGGCTTATGATTTTATCCCGATAATTTATTTTTG
1 TGATCTTGACTCAGTCTAGATCATCTCA-TATGATTTATGATTTCATCTCGATCATTTA-TTTTG
* * * * * **
9888438 ACCTTGATTCAATCTTGATCGTTTCATTTTAAATTGTGGTTTCATCTCGGTCACT
64 ACCTTGACTCAATCTTGATCGTTTCATTTTAACTCGTGATTTCATCCCTATCACT
* * *
9888493 TGATCTT-AGCACAGTCTAGATCATCTCATATAATTTATGATTTCGTC-CTGATCATTTATTTTC
1 TGATCTTGA-CTCAGTCTAGATCATCTCATATGATTTATGATTTCATCTC-GATCATTTATTTT-
*
9888556 AACCTTGACTCA
63 GACCTTGACTCA
9888568 GTCCTGGTCG
Statistics
Matches: 334, Mismatches: 84, Indels: 25
0.75 0.19 0.06
Matches are distributed among these distances:
117 2 0.01
118 206 0.62
119 58 0.17
120 67 0.20
121 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.46
Consensus pattern (118 bp):
TGATCTTGACTCAGTCTAGATCATCTCATATGATTTATGATTTCATCTCGATCATTTATTTTGAC
CTTGACTCAATCTTGATCGTTTCATTTTAACTCGTGATTTCATCCCTATCACT
Found at i:9889027 original size:5 final size:5
Alignment explanation
Indices: 9888998--9889104 Score: 81
Period size: 5 Copynumber: 20.2 Consensus size: 5
9888988 CTATTAGTGT
* * * *
9888998 TATTA TATCATA TAGTA TAATA TATTA TATCA TATTAA TACTA T-TGTA
1 TATTA TAT--TA TATTA TATTA TATTA TATTA TATT-A TATTA TAT-TA
* * *
9889046 TCTTT TATTA TTAGTA TATTA TATTA TATTA TATTA TATTA TATTA TTATTA
1 TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA
9889098 TTATTA T
1 -TATTA T
9889105 TATTTATGTT
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
5 59 0.71
6 20 0.24
7 4 0.05
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:9889058 original size:3 final size:3
Alignment explanation
Indices: 9889050--9889108 Score: 67
Period size: 3 Copynumber: 21.7 Consensus size: 3
9889040 ATTGTATCTT
*
9889050 TTA TTA TTA GTA -TA TTA -TA TTA -TA TTA -TA TTA -TA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9889092 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
9889109 TATGTTTTTC
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
2 12 0.24
3 37 0.76
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:9889105 original size:15 final size:14
Alignment explanation
Indices: 9888980--9889108 Score: 70
Period size: 15 Copynumber: 9.1 Consensus size: 14
9888970 TATAATAGTA
*
9888980 TATTATTACTATTAG
1 TATTATTA-TATTAT
* *
9888995 TGTTATTATATCAT
1 TATTATTATATTAT
* *
9889009 ATAGTATAATA-TAT
1 -TATTATTATATTAT
* *
9889023 TA-TATCATATTAA
1 TATTATTATATTAT
* * *
9889036 TACTATTGTATCTTT
1 TATTATTATAT-TAT
9889051 TATTATTAGTA-TAT
1 TATTATTA-TATTAT
9889065 TA-TATTATATTA-
1 TATTATTATATTAT
9889077 TATTATATTATATTAT
1 TA-T-TATTATATTAT
9889093 TATTATTATTATTAT
1 TATTATTA-TATTAT
9889108 T
1 T
9889109 TATGTTTTTC
Statistics
Matches: 87, Mismatches: 16, Indels: 22
0.70 0.13 0.18
Matches are distributed among these distances:
12 10 0.11
13 13 0.15
14 21 0.24
15 39 0.45
16 4 0.05
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (14 bp):
TATTATTATATTAT
Found at i:9890105 original size:17 final size:17
Alignment explanation
Indices: 9890085--9890119 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9890075 ATTCTAAAAG
9890085 AAAAT-TTTTCCAAATAA
1 AAAATATTTT-CAAATAA
9890102 AAAATATTTTCAAATAA
1 AAAATATTTTCAAATAA
9890119 A
1 A
9890120 GTTTTCACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATATTTTCAAATAA
Found at i:9890176 original size:18 final size:17
Alignment explanation
Indices: 9890139--9890173 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9890129 AAATATTTAT
9890139 ATAAAAAAATCTTTTCA
1 ATAAAAAAATCTTTTCA
9890156 ATAAAAAAATCTTTTCA
1 ATAAAAAAATCTTTTCA
9890173 A
1 A
9890174 ATAGAAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAAAAAAATCTTTTCA
Found at i:9894944 original size:2 final size:2
Alignment explanation
Indices: 9894937--9894970 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9894927 CCCTTCTCGC
*
9894937 CT CT CT CT CT CT CT CT CT CT CA CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9894971 GTGACTGGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:9900054 original size:6 final size:6
Alignment explanation
Indices: 9900043--9900075 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
9900033 AAACCAATGG
9900043 CTGCCA CTGCCA CTGCCA CTGCCA CTGCCA CTG
1 CTGCCA CTGCCA CTGCCA CTGCCA CTGCCA CTG
9900076 TCTCTCACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.48, G:0.18, T:0.18
Consensus pattern (6 bp):
CTGCCA
Found at i:9918345 original size:21 final size:20
Alignment explanation
Indices: 9918304--9918358 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
9918294 ATGAACAGTA
* *
9918304 AAAATTAATA--ACAATAGT
1 AAAATTAATATTATAATAAT
9918322 AAAATTAATTATTATAATAAT
1 AAAATTAA-TATTATAATAAT
9918343 AAAATTAATATTATAA
1 AAAATTAATATTATAA
9918359 CAATTACTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.25
19 2 0.06
20 8 0.25
21 14 0.44
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATTAATATTATAATAAT
Found at i:9918604 original size:19 final size:19
Alignment explanation
Indices: 9918555--9918605 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
9918545 ATACAACTTG
9918555 TTTATT-TATT-AA-TTTA
1 TTTATTATATTAAATTTTA
* *
9918571 TTATATAATAATAAATTTTA
1 TT-TATTATATTAAATTTTA
9918591 TTTATTATATTAAAT
1 TTTATTATATTAAAT
9918606 CAATAAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 2 0.07
17 3 0.11
18 3 0.11
19 13 0.48
20 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATTATATTAAATTTTA
Found at i:9923513 original size:4 final size:4
Alignment explanation
Indices: 9923504--9923533 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
9923494 CATAACTTTT
9923504 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
9923534 GCGTGGTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:9923866 original size:21 final size:24
Alignment explanation
Indices: 9923842--9923897 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
9923832 AAAAAAGTTC
9923842 TGTAATA-ATT-T-ACTCTAGCCT
1 TGTAATATATTATAACTCTAGCCT
9923863 TGT-ATATATTAGTAACTCTAGCCT
1 TGTAATATATTA-TAACTCTAGCCT
9923887 TGT-ATATATTA
1 TGTAATATATTA
9923898 GTATGAATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.10
21 6 0.19
23 1 0.03
24 21 0.68
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (24 bp):
TGTAATATATTATAACTCTAGCCT
Found at i:9923880 original size:24 final size:24
Alignment explanation
Indices: 9923853--9923900 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
9923843 GTAATAATTT
9923853 ACTCTAGCCTTGTATATATTAGTA
1 ACTCTAGCCTTGTATATATTAGTA
9923877 ACTCTAGCCTTGTATATATTAGTA
1 ACTCTAGCCTTGTATATATTAGTA
9923901 TGAATGCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (24 bp):
ACTCTAGCCTTGTATATATTAGTA
Found at i:9924664 original size:22 final size:24
Alignment explanation
Indices: 9924610--9924691 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
9924600 AAAATTTTTA
* *
9924610 TAATTTTTTTAAAAAATC-ATATTT
1 TAATTTTTTT-AAAATTCAATATTG
* *
9924634 TAAAATTTTCTAAAA-TCAA-ATT-
1 T-AATTTTTTTAAAATTCAATATTG
9924656 TAATTTTTTTAAAATTCAATATTG
1 TAATTTTTTTAAAATTCAATATTG
*
9924680 TGATTTTTTTAA
1 TAATTTTTTTAA
9924692 GAAATCTTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
21 11 0.23
22 5 0.10
23 8 0.17
24 17 0.35
25 7 0.15
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (24 bp):
TAATTTTTTTAAAATTCAATATTG
Found at i:9924850 original size:21 final size:22
Alignment explanation
Indices: 9924817--9924863 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
9924807 AATTTTTGGA
9924817 ATTTTTATAAAATTTTCTATAT
1 ATTTTTATAAAATTTTCTATAT
*
9924839 ATTTTTA-GAAATTTTCTATAT
1 ATTTTTATAAAATTTTCTATAT
9924860 ATTT
1 ATTT
9924864 GTAATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTTATAAAATTTTCTATAT
Found at i:9925110 original size:28 final size:28
Alignment explanation
Indices: 9925041--9925111 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
9925031 TAAAAATTTT
*
9925041 TAAAATTTTTAAAA-TCTTTTTAAAAATA
1 TAAAA-TTTAAAAATTCTTTTTAAAAATA
**
9925069 TAAAAAATATAAAATTCTTTTTAAAAA-A
1 TAAAATTTA-AAAATTCTTTTTAAAAATA
9925097 TAAAAGTTTAAAAAT
1 TAAAA-TTTAAAAAT
9925112 AAATAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
27 1 0.03
28 20 0.57
29 14 0.40
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (28 bp):
TAAAATTTAAAAATTCTTTTTAAAAATA
Found at i:9925117 original size:18 final size:19
Alignment explanation
Indices: 9925094--9925129 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9925084 TCTTTTTAAA
9925094 AAATAAAAGTTTA-AAAAT
1 AAATAAAAGTTTATAAAAT
*
9925112 AAATAAAATTTTATAAAA
1 AAATAAAAGTTTATAAAA
9925130 ATTCCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AAATAAAAGTTTATAAAAT
Found at i:9925384 original size:10 final size:9
Alignment explanation
Indices: 9925367--9925408 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
9925357 TCTTAAAAAA
*
9925367 TTAAAATTT
1 TTAAAAATT
9925376 TTAAAAATT
1 TTAAAAATT
*
9925385 TATAAAAACT
1 T-TAAAAATT
9925395 TT-AAAATT
1 TTAAAAATT
9925403 TTAAAA
1 TTAAAA
9925409 TATGGATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 7 0.25
9 13 0.46
10 8 0.29
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
TTAAAAATT
Found at i:9942453 original size:30 final size:31
Alignment explanation
Indices: 9942417--9942488 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 31
9942407 TAATTTCAAA
9942417 TCAATTGAGTCTTTAAATATTTATTTTTA-T
1 TCAATTGAGTCTTTAAATATTTATTTTTACT
* *
9942447 TCAATTGAATTTTTAAATATTTATTTTTACT
1 TCAATTGAGTCTTTAAATATTTATTTTTACT
*
9942478 TTAATTGAGTC
1 TCAATTGAGTC
9942489 ATTGATTGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 27 0.75
31 9 0.25
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (31 bp):
TCAATTGAGTCTTTAAATATTTATTTTTACT
Found at i:9942783 original size:21 final size:20
Alignment explanation
Indices: 9942749--9942797 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
9942739 ATATAATAAA
*
9942749 TAAAAATTCTTGTTAAATTTTT
1 TAAAAAATCTTGTTAAA--TTT
9942771 TAAAAAATC-TGTTAAATTT
1 TAAAAAATCTTGTTAAATTT
9942790 TAAAAAAT
1 TAAAAAAT
9942798 TTTTGAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 11 0.42
21 7 0.27
22 8 0.31
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (20 bp):
TAAAAAATCTTGTTAAATTT
Found at i:9953483 original size:32 final size:32
Alignment explanation
Indices: 9953442--9953502 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
9953432 AAGTTTGGTT
9953442 TCTGTATTAATCTTCTTGTTATTTAATTTGCA
1 TCTGTATTAATCTTCTTGTTATTTAATTTGCA
9953474 TCTGTATTAATCTTCTTGTTATTTAATTT
1 TCTGTATTAATCTTCTTGTTATTTAATTT
9953503 TCATGTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.59
Consensus pattern (32 bp):
TCTGTATTAATCTTCTTGTTATTTAATTTGCA
Found at i:9953499 original size:16 final size:16
Alignment explanation
Indices: 9953448--9953500 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
9953438 GGTTTCTGTA
9953448 TTAATCTTCTTGTTAT
1 TTAATCTTCTTGTTAT
9953464 TTAAT-TTGCATCTG-TA-
1 TTAATCTT-C-T-TGTTAT
9953480 TTAATCTTCTTGTTAT
1 TTAATCTTCTTGTTAT
9953496 TTAAT
1 TTAAT
9953501 TTTCATGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
14 2 0.06
15 5 0.16
16 17 0.55
17 5 0.16
18 2 0.06
ACGTcount: A:0.23, C:0.11, G:0.08, T:0.58
Consensus pattern (16 bp):
TTAATCTTCTTGTTAT
Found at i:9953509 original size:16 final size:16
Alignment explanation
Indices: 9953448--9953509 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
9953438 GGTTTCTGTA
*
9953448 TTAATCTTCTTGTTAT
1 TTAATCTTCATGTTAT
*
9953464 TTAAT-TTGCATCTGTA-
1 TTAATCTT-CATGT-TAT
*
9953480 TTAATCTTCTTGTTAT
1 TTAATCTTCATGTTAT
*
9953496 TTAATTTTCATGTT
1 TTAATCTTCATGTT
9953510 TCTTTAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
15 4 0.11
16 28 0.78
17 4 0.11
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.60
Consensus pattern (16 bp):
TTAATCTTCATGTTAT
Found at i:9954453 original size:25 final size:25
Alignment explanation
Indices: 9954425--9954476 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
9954415 CAAAGCAAAA
9954425 GAAAGAAGAAAAGAGAATGGGATTT
1 GAAAGAAGAAAAGAGAATGGGATTT
*
9954450 GAAAGAAGAAAGGAGAATGGGATTT
1 GAAAGAAGAAAAGAGAATGGGATTT
9954475 GA
1 GA
9954477 TAAAGAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (25 bp):
GAAAGAAGAAAAGAGAATGGGATTT
Found at i:9956070 original size:2 final size:2
Alignment explanation
Indices: 9956065--9956094 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9956055 TACTTAAAAA
*
9956065 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9956095 CTTTATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9958938 original size:269 final size:269
Alignment explanation
Indices: 9958459--9959008 Score: 870
Period size: 269 Copynumber: 2.0 Consensus size: 269
9958449 TAATTTAAAA
* *
9958459 ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTAACCTTAAATCACTCTTAATT
1 ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTAACCTTAAATCACTCTCAATC
* *
9958524 CAATTCATATTAAAAGTATTAAAAATTTAAAAATTTCTTAATTTGACAAATTAAAGCAATCAATG
66 CAATTCATATTAAAAGTATTAAAAATTTAAAAATTTCTTAATTTGAAAAATTAAAGCAATCAATA
9958589 TATAATTAATAAATTAATAAATACTACAATCACAACTACAAAATAGTTGATTCTCTAATCAATTA
131 TATAATTAATAAATTAATAAATACTACAATCACAACTACAAAATAGTTGATTCTCTAATCAATTA
* *
9958654 TTTAATACATTTATATTTGATTAAATATAGTATTC-ATAATTGATGTATATCATGTGTAAATATA
196 TTTAATACATTTATATTTGATTAAATATAGTATCCAATAATTGATATATATCATGTGTAAATATA
9958718 TAAAGCAAAT
261 TAAAG-AAAT
* ** *
9958728 ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTGATTTTAAATCATTCTCAATC
1 ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTAACCTTAAATCACTCTCAATC
* * *
9958793 CAATTCATATTAAAAGTATTAAAATTTTAAAACTTTCTTAATTTGAAAAATTAAATCAATCAATA
66 CAATTCATATTAAAAGTATTAAAAATTTAAAAATTTCTTAATTTGAAAAATTAAAGCAATCAATA
* * * * * *
9958858 TATAATTAATAAATTAATAAATACTACAATTACAATTATAAATTAGTTTATTCTTTAATCAATGT
131 TATAATTAATAAATTAATAAATACTACAATCACAACTACAAAATAGTTGATTCTCTAATCAAT-T
* * *
9958923 -TTTGATACATTTATATTTGATTAAGTATAGTATCCAATAATTGATATATTTCATGTGTAAATAT
195 ATTTAATACATTTATATTTGATTAAATATAGTATCCAATAATTGATATATATCATGTGTAAATAT
9958987 ATAAAGAAAT
260 ATAAAGAAAT
9958997 ATAATTCAAAAA
1 ATAATTCAAAAA
9959009 TATTTATATC
Statistics
Matches: 257, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
269 224 0.87
270 33 0.13
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (269 bp):
ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTAACCTTAAATCACTCTCAATC
CAATTCATATTAAAAGTATTAAAAATTTAAAAATTTCTTAATTTGAAAAATTAAAGCAATCAATA
TATAATTAATAAATTAATAAATACTACAATCACAACTACAAAATAGTTGATTCTCTAATCAATTA
TTTAATACATTTATATTTGATTAAATATAGTATCCAATAATTGATATATATCATGTGTAAATATA
TAAAGAAAT
Found at i:9959614 original size:271 final size:271
Alignment explanation
Indices: 9959124--9959672 Score: 863
Period size: 271 Copynumber: 2.0 Consensus size: 271
9959114 TAATTTAAAA
*
9959124 ATAATTCAAAAAACTAAACTAATTATATTTATATTTTTATTATTAATCTTAAATCACTTTCAATT
1 ATAATTCAAAAAACTAAACTAATTATATTTATATTTTTATTATTAATCTTAAATCACTCTCAATT
* * * *
9959189 CAATTCATATTAAAAGTATTAAAATTTTAAAAATTTCTTGATTTGATAAATTAAATCAATCAATA
66 CAATTCATATTAAAAGAATTAAAATTTTAAAAATTTCTTAACTTGACAAATTAAATCAATCAATA
*
9959254 TATAATTAATAAATTAATAAATACTACAATTACAATTATAAAAAAGTTTATTCTCTAATCAATTA
131 TATAATTAATAAATTAATAAATACTACAATTACAATTATAAAAAAGTTGATTCTCTAATCAATTA
9959319 TTTGATACATTTATATTTGATTAAATATAGTATCCAA-T-AATTGATATATTTCATATGTAAATA
196 TTTGATACATTTATATTTGATTAAATATAGTAT-CAATTGAATTGATATATTTCATATGTAAATA
9959382 TATAAAGCAAAT
260 TATAAAGCAAAT
* * * *
9959394 ATAATTCAAAAAAACTAAATTGATTATATTTATGTTTTTATTATTAAT-TTAAAATTACTCTCAA
1 ATAATTC-AAAAAACTAAACTAATTATATTTATATTTTTATTATTAATCTT-AAATCACTCTCAA
*
9959458 TTCAATTCATATTAAAAGAATTAAAATTTTAAAATTTTCTTAACTTGACAAATTAAATCAATCAA
64 TTCAATTCATATTAAAAGAATTAAAATTTTAAAAATTTCTTAACTTGACAAATTAAATCAATCAA
* *
9959523 TATATAATTAATAGATTAATAAATACTACAATTACAATTATAAAATAA-TTGATTCTCTAATTAA
129 TATATAATTAATAAATTAATAAATACTACAATTACAATTATAAAA-AAGTTGATTCTCTAATCAA
* *
9959587 TTATTTGATACATTTATATTTGATTAAATATAGTATCAATTTGAGCAATTGATGTATTTCATGTG
193 TTATTTGATACATTTATATTTGATTAAATATAGTATCAA-TT--G-AATTGATATATTTCATATG
9959652 TAAATATATAAAGCAAAT
254 TAAATATATAAAGCAAAT
9959670 ATA
1 ATA
9959673 TCAAACTAAT
Statistics
Matches: 255, Mismatches: 15, Indels: 12
0.90 0.05 0.04
Matches are distributed among these distances:
270 12 0.05
271 202 0.79
272 3 0.01
276 38 0.15
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (271 bp):
ATAATTCAAAAAACTAAACTAATTATATTTATATTTTTATTATTAATCTTAAATCACTCTCAATT
CAATTCATATTAAAAGAATTAAAATTTTAAAAATTTCTTAACTTGACAAATTAAATCAATCAATA
TATAATTAATAAATTAATAAATACTACAATTACAATTATAAAAAAGTTGATTCTCTAATCAATTA
TTTGATACATTTATATTTGATTAAATATAGTATCAATTGAATTGATATATTTCATATGTAAATAT
ATAAAGCAAAT
Found at i:9960204 original size:657 final size:668
Alignment explanation
Indices: 9959421--9960746 Score: 1939
Period size: 657 Copynumber: 2.0 Consensus size: 668
9959411 AATTGATTAT
*
9959421 ATTTATGTTTTTATTATTAATTTAAAATTACTCTCAATTCAATTCATATTAAAAGAATTAAAATT
1 ATTTATGTTTTTATTATTAATTTAAAATAACTCTCAATTCAATTCATATTAAAAGAATTAAAATT
9959486 TTAAAATTTTCTTAACTTGACAAATTAAATCAATCAATATATAATTAATAGATTAATAAATACTA
66 TTAAAATTTTCTTAACTTGACAAATTAAATCAATCAATATATAATTAATAGATTAATAAATACTA
* *
9959551 CAATTACAATTATAAAATAATTGATTCTCTAATTAATTATTTGATACATTTATATTTGATTAAAT
131 CAATTACAACTATAAAATAATTGATTCTCTAATCAATTATTTGATACATTTATATTTGATTAAAT
* * *
9959616 ATAGTATCAATTTGAGCAATTGATGTATTTCATGTGTAAATATATAAAGCAAATATATCAAACTA
196 ATAGTATCAATTTGAGCAATTGATATATTTAATGTGTAAATATAGAAAGCAAATATATCAAACTA
9959681 A-TTCTCCATAATTAAATTAATGGAATAAAATATTTTATTAATTTATATTTGATTGATACATTTA
261 ATTTC-CCATAATTAAATTAATGGAATAAAATATTTTATTAATTTATATTTGATTGATACATTTA
* ** * *
9959745 TATTTTATTAAATATAATTTTATTTGATTTCATTTGATAGAATATTAATGCACG-TCGATTTCA-
325 TATTTTATCAAATATAATTCAATTTGATTTCATTTGATAAAATATTAAAGCACGTTCGATTTCAT
** ** *
9959808 TT-T-AT-TT-T-C-ATTT-A-TAATGTTTTATAATTTTATTATTT-GATATT-AATGTAC-ATG
390 TTATAATATTATACTATTTCATTAACATTTTATAATTTTACAATTTAGATATTAAATGCACGAT-
9959862 GATTTAATTAAAATTTAATTTGTTTTATTGCCACTATTAAATACAATAAATTTAATTTGTTTTAT
454 GATTTAATTAAAATTTAATTTGTTTTATTGCCACTATTAAATACAATAAATTTAATTTGTTTTAT
* *
9959927 TATTCCAAATTAAATGAT-TTCTAAATGTTAATAGTAGAATAAAATATTTCAATATCAATCAACT
519 TATTCCAAATTAAAGGATCTT-TAAATGTTAATAGTAGAATAAAATATTTCAATATCAATCAACA
*
9959991 TACCATCGTTAGACCATTATTCACTCACAATTTTTATTATTTCAATATTAACTTTCATAATTTAA
583 TACCAT-GTTAGACCATTATTCACTCACAAGTTTTATTATTTCAATATTAACTTTCATAATTTAA
9960056 AATTATCTTATTAATGGAATAA
647 AATTATCTTATTAATGGAATAA
* * * *
9960078 ATTTATGTTTTTATTATTAACTTT-AAATAACTTTTAATTCAATTTATATTAAAAGTATTAAAAT
1 ATTTATGTTTTTATTATTAA-TTTAAAATAACTCTCAATTCAATTCATATTAAAAGAATTAAAAT
* * *
9960142 TTTAAAATTTTCTTAATTTGACAAATTAAATCAATTAATATATAATTAATA-ATTTCATAAATAC
65 TTTAAAATTTTCTTAACTTGACAAATTAAATCAATCAATATATAATTAATAGA-TTAATAAATAC
* * *
9960206 TATAATTACAACTATAAAATAATTGTTTCTCTAATCAATTATTTGATATATTTATATTTGATTAA
129 TACAATTACAACTATAAAATAATTGATTCTCTAATCAATTATTTGATACATTTATATTTGATTAA
* * * *
9960271 TTATAGTATCTATTTGAGTAATTGATATATTTAATGTGTAAATATAGAAAGCAAATATATCAAAT
194 ATATAGTATCAATTTGAGCAATTGATATATTTAATGTGTAAATATAGAAAGCAAATATATCAAAC
* *
9960336 TAATTTCCCATAATTAAATTAATGGAATAATATATTTTATTAATTTATATTTGATTGATAGATTT
259 TAATTTCCCATAATTAAATTAATGGAATAAAATATTTTATTAATTTATATTTGATTGATACATTT
* * * *
9960401 ATATTTTATCAAATATGATTCAATTTGATTTCATTTGGTAAAATATTAAAGTACGTTTGATTTCA
324 ATATTTTATCAAATATAATTCAATTTGATTTCATTTGATAAAATATTAAAGCACGTTCGATTTCA
9960466 TTTGATAAAATATTAATGCACTTGAATTTCATTTGTAACATTTTATAATTTTACAATTTAGATAT
389 TTT-AT--AATATT-AT--AC-T--ATTTCA--T-TAACATTTTATAATTTTACAATTTAGATAT
* *
9960531 TAAATGCACGATGTTTTAATTAAAATTTAATTTGTTTTATTGCCATTATTAAATACAATAAATTT
442 TAAATGCACGATGATTTAATTAAAATTTAATTTGTTTTATTGCCACTATTAAATACAATAAATTT
* * * *
9960596 AATTTGTTTTATTATTCTAAATTAAGGGATCTTTAACTGTTAATGGTAGAATAAAATATTTCAAT
507 AATTTGTTTTATTATTCCAAATTAAAGGATCTTTAAATGTTAATAGTAGAATAAAATATTTCAAT
* *
9960661 ATCAATTAACATGCCATGTTAGACCATTATTCACTCACAAGTTTTATTATTTCAATATTAACTTT
572 ATCAATCAACATACCATGTTAGACCATTATTCACTCACAAGTTTTATTATTTCAATATTAACTTT
*
9960726 TATAATTTAAAATTATCTTAT
637 CATAATTTAAAATTATCTTAT
9960747 GAATTAACCT
Statistics
Matches: 592, Mismatches: 48, Indels: 35
0.88 0.07 0.05
Matches are distributed among these distances:
656 1 0.00
657 338 0.57
658 14 0.02
659 2 0.00
661 1 0.00
664 2 0.00
665 2 0.00
667 1 0.00
670 1 0.00
674 4 0.01
675 1 0.00
679 20 0.03
680 73 0.12
681 128 0.22
682 4 0.01
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.46
Consensus pattern (668 bp):
ATTTATGTTTTTATTATTAATTTAAAATAACTCTCAATTCAATTCATATTAAAAGAATTAAAATT
TTAAAATTTTCTTAACTTGACAAATTAAATCAATCAATATATAATTAATAGATTAATAAATACTA
CAATTACAACTATAAAATAATTGATTCTCTAATCAATTATTTGATACATTTATATTTGATTAAAT
ATAGTATCAATTTGAGCAATTGATATATTTAATGTGTAAATATAGAAAGCAAATATATCAAACTA
ATTTCCCATAATTAAATTAATGGAATAAAATATTTTATTAATTTATATTTGATTGATACATTTAT
ATTTTATCAAATATAATTCAATTTGATTTCATTTGATAAAATATTAAAGCACGTTCGATTTCATT
TATAATATTATACTATTTCATTAACATTTTATAATTTTACAATTTAGATATTAAATGCACGATGA
TTTAATTAAAATTTAATTTGTTTTATTGCCACTATTAAATACAATAAATTTAATTTGTTTTATTA
TTCCAAATTAAAGGATCTTTAAATGTTAATAGTAGAATAAAATATTTCAATATCAATCAACATAC
CATGTTAGACCATTATTCACTCACAAGTTTTATTATTTCAATATTAACTTTCATAATTTAAAATT
ATCTTATTAATGGAATAA
Found at i:9960498 original size:31 final size:31
Alignment explanation
Indices: 9960425--9960500 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 31
9960415 ATGATTCAAT
* *
9960425 TTGATTTCATTTGGTAAAATATTAAAGTACG
1 TTGATTTCATTTGATAAAATATTAAAGCACG
*
9960456 TTTGATTTCATTTGATAAAATATTAATGCAC-
1 -TTGATTTCATTTGATAAAATATTAAAGCACG
9960487 TTGAATTTCATTTG
1 TTG-ATTTCATTTG
9960501 TAACATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 3 0.08
31 10 0.25
32 27 0.68
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (31 bp):
TTGATTTCATTTGATAAAATATTAAAGCACG
Found at i:9962708 original size:57 final size:58
Alignment explanation
Indices: 9962586--9962974 Score: 529
Period size: 58 Copynumber: 6.7 Consensus size: 58
9962576 TTTTGTACAG
* *
9962586 GAAAAATTGATACTTTCAACTTTTCAC-C-AAAATA-TTTTTAGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTC-CTCAAAAATATTTTTTAGAAACTTTATTTTCAA
** * *
9962642 GGGAAATTGATACTTTCAACTTTTCAC-C-AAAATATTTTTTAGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTC-CTCAAAAATATTTTTTAGAAACTTTATTTTCAA
*
9962699 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAAAC-TTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG--AAACTTTATTTTCAA
* * *
9962758 GAAAAATTGATACTTTAAACTTTTCCTCAAAAATATTTTTTAGAAATTTTTTTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTTATTTTCAA
* * * *
9962816 GAAAAATTGATACTTTCAACTTTTTCTCAAAAACATTTTTTAAAAAATTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTTATTTTCAA
* * *
9962874 AAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAATTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTTATTTTCAA
*
9962932 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTA
9962975 AATCTTTTTA
Statistics
Matches: 305, Mismatches: 21, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
56 33 0.11
57 50 0.16
58 155 0.51
59 63 0.21
60 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAACTTTATTTTCAA
Found at i:9964909 original size:11 final size:10
Alignment explanation
Indices: 9964867--9964911 Score: 72
Period size: 10 Copynumber: 4.4 Consensus size: 10
9964857 TTTTGCCTTT
*
9964867 TTTTTTTTAC
1 TTTTTTTTAA
9964877 TTTTTTTTAA
1 TTTTTTTTAA
9964887 TTTTTTTTAA
1 TTTTTTTTAA
9964897 TTTTTTTTAAA
1 TTTTTTTT-AA
9964908 TTTT
1 TTTT
9964912 GATCAAAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 27 0.82
11 6 0.18
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:9965285 original size:44 final size:45
Alignment explanation
Indices: 9965159--9965367 Score: 300
Period size: 44 Copynumber: 4.7 Consensus size: 45
9965149 GGCTCAATGA
* * *
9965159 CAGAGACTCAACAACTTTGGAAAAATAAACAAAGGCTCCTCTAAG
1 CAGAGGCTCAACGACTTTGGAAAAATAAATAAAGGCTCCTCTAAG
*
9965204 C--AGGCTCAACGATTTTGGAAAAATAAATAAAGGCTCCTCTAAG
1 CAGAGGCTCAACGACTTTGGAAAAATAAATAAAGGCTCCTCTAAG
* *
9965247 CAGAGGCTCAACGACTTTGAAAAAATAAATAAA-GCTCCTCTAAA
1 CAGAGGCTCAACGACTTTGGAAAAATAAATAAAGGCTCCTCTAAG
* * *
9965291 CAGAGGCTCAACAACTTTGAAAAAATAAACAAAGGCTCCTCTAAG
1 CAGAGGCTCAACGACTTTGGAAAAATAAATAAAGGCTCCTCTAAG
*
9965336 TAGAGGCTC-ACGACTTTGGAAAAATAAATAAA
1 CAGAGGCTCAACGACTTTGGAAAAATAAATAAA
9965368 TTCTCTAAAC
Statistics
Matches: 147, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
43 39 0.27
44 61 0.41
45 47 0.32
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (45 bp):
CAGAGGCTCAACGACTTTGGAAAAATAAATAAAGGCTCCTCTAAG
Found at i:9965457 original size:41 final size:42
Alignment explanation
Indices: 9965237--9965578 Score: 264
Period size: 41 Copynumber: 8.1 Consensus size: 42
9965227 TAAATAAAGG
* * * * *
9965237 CTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAATAAA
1 CTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAAT-TA
* * **
9965280 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAACAAA
1 -CTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAA-TTA
** * * * *
9965324 GGCTCCTCTAAGTAGAGGC-TCACGACTTTGGAAAAATAAATAA
1 --CTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAATTA
* * * * ** *
9965367 ATTCTCTAAACAAAAGCACCATGAC-TT-CAAAAATAAA-TA
1 CTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAATTA
* *
9965406 CTCCTCTAAATAGAGGCACCACAACTTTG-AAAAGTAAATTA
1 CTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAATTA
* * * *
9965447 CTCCTATAAATAAAGGCAACCACAACTTTGAAAAAATAAATTG
1 CTCCTCTAAACAGAGGC-ACCACAACTTTGAAAAAATAAATTA
* * * *
9965490 CTCCTCTAAACAGAGGTACCACGACTTTG-AAAAGTAAATTG
1 CTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAATTA
* * *
9965531 CTCTTCTAAACAGAGGCAACAAAACTTTGAAAAAAATAAATTA
1 CTCCTCTAAACAGAGGCACCACAACTTTG-AAAAAATAAATTA
9965574 CTCCT
1 CTCCT
9965579 TAACCATCAT
Statistics
Matches: 242, Mismatches: 46, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
39 19 0.08
40 19 0.08
41 65 0.27
42 28 0.12
43 39 0.16
44 56 0.23
45 16 0.07
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (42 bp):
CTCCTCTAAACAGAGGCACCACAACTTTGAAAAAATAAATTA
Found at i:9965505 original size:84 final size:84
Alignment explanation
Indices: 9965395--9965578 Score: 255
Period size: 84 Copynumber: 2.2 Consensus size: 84
9965385 CCATGACTTC
* *
9965395 AAAAATAAA-TACTCCTCTAAATAGAGGCACCACAACTTTGAAAAGTAAATTACTCCTATAAATA
1 AAAAATAAATTACTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTACTCCTATAAACA
*
9965459 AAGGCAACCACAACTTTG-A
66 AAGGCAA-CAAAACTTTGAA
* * * * * *
9965478 AAAAATAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCTTCTAAACA
1 AAAAATAAATTACTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTACTCCTATAAACA
*
9965543 GAGGCAACAAAACTTTGAA
66 AAGGCAACAAAACTTTGAA
9965562 AAAAATAAATTACTCCT
1 AAAAATAAATTACTCCT
9965579 TAACCATCAT
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
83 18 0.20
84 70 0.80
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.24
Consensus pattern (84 bp):
AAAAATAAATTACTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATTACTCCTATAAACA
AAGGCAACAAAACTTTGAA
Found at i:9965912 original size:44 final size:45
Alignment explanation
Indices: 9965855--9965957 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 45
9965845 CAAGGCTTTT
* *
9965855 TAAAGGTTCTCATTTAGCAAACTTGGA-ATTCATAT-CTAAAAATC
1 TAAAGCTTCTCATTTAG-AAACTTGGAGATTCACATCCTAAAAATC
* ** *
9965899 TAAAGCTTTTCATTT-GAATTTTGGAGATTCACATCCTAAAATTC
1 TAAAGCTTCTCATTTAGAAACTTGGAGATTCACATCCTAAAAATC
9965943 -AAAGCTTCTCATTTA
1 TAAAGCTTCTCATTTA
9965958 AGTTGAATGG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
42 7 0.14
43 21 0.43
44 21 0.43
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.38
Consensus pattern (45 bp):
TAAAGCTTCTCATTTAGAAACTTGGAGATTCACATCCTAAAAATC
Found at i:9966733 original size:63 final size:63
Alignment explanation
Indices: 9966593--9966733 Score: 210
Period size: 63 Copynumber: 2.2 Consensus size: 63
9966583 TATATACCAG
* * * ** *
9966593 GCTTATCAGCACTAACCATTTCAAAATAAATTTCATGTTCTGTCACTTGGTCATCGTTCATAA
1 GCTTCTCAGCACTAGCCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCATTCATAA
**
9966656 GCTTCTCAATACTAGCCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCATTCATAA
1 GCTTCTCAGCACTAGCCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCATTCATAA
9966719 GCTTCTCAGCACTAG
1 GCTTCTCAGCACTAG
9966734 TTTCATCTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.35
Consensus pattern (63 bp):
GCTTCTCAGCACTAGCCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCATTCATAA
Found at i:9967434 original size:12 final size:12
Alignment explanation
Indices: 9967410--9967445 Score: 56
Period size: 11 Copynumber: 3.0 Consensus size: 12
9967400 TTTTTCCTTC
9967410 TTTCATCTTTTTT
1 TTTCAT-TTTTTT
9967423 TTTC-TTTTTTT
1 TTTCATTTTTTT
9967434 TTTCATTTTTTT
1 TTTCATTTTTTT
9967446 AATTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.45
12 8 0.36
13 4 0.18
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTCATTTTTTT
Found at i:9971550 original size:57 final size:58
Alignment explanation
Indices: 9971426--9971641 Score: 296
Period size: 58 Copynumber: 3.7 Consensus size: 58
9971416 TTTTGTATAG
* * ** *
9971426 GAAAAATTGATACTTTCAACTTTTCCTC-AAAGATTTTTTTTTGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTT-AAAATTTTTTTTCAA
*
9971484 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAA-ATTTTTTTAAAATTTTTTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTAAAATTTTTTTTCAA
*
9971541 GAAAAATTGATACTTTCAACCTTTT-CTCAAAAAATATTTTTTAAAAAATTTATTTTT-AA
1 GAAAAATTGATACTTTCAA-CTTTTCCTCAAAAAATATTTTTT-TAAAATTT-TTTTTCAA
*
9971600 GAAAAATTGATACTTTCAACTTTTACTCAAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTT
9971642 AAATCTTTTT
Statistics
Matches: 144, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
57 39 0.27
58 51 0.35
59 49 0.34
60 5 0.03
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTAAAATTTTTTTTCAA
Found at i:9971642 original size:59 final size:59
Alignment explanation
Indices: 9971426--9971644 Score: 295
Period size: 59 Copynumber: 3.8 Consensus size: 59
9971416 TTTTGTATAG
* * ** ** *
9971426 GAAAAATTGATACTTTCAACTTTTCCTC-AAAGATTTTTTTTTGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAAAAAATTTATTTTTAA
* *
9971484 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAA-ATTTTTT-TAAAATTT-TTTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAAAAAATTTATTTTT-AA
9971541 GAAAAATTGATACTTTCAACCTTTT-CTCAAAAAATATTTTTTAAAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAA-CTTTTCCTCAAAAAATATTTTTTAAAAAATTTATTTTTAA
*
9971600 GAAAAATTGATACTTTCAACTTTTACTCAAAAAATATTTTTTAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAAA
9971645 TCTTTTTATC
Statistics
Matches: 145, Mismatches: 9, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
56 4 0.03
57 34 0.23
58 50 0.34
59 52 0.36
60 5 0.03
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAAAAAATTTATTTTTAA
Found at i:9974383 original size:17 final size:17
Alignment explanation
Indices: 9974363--9974412 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
9974353 TATTAACTCT
*
9974363 AAAATTATATTTATTAA
1 AAAAATATATTTATTAA
9974380 AAAAATATCATTT-TTAA
1 AAAAATAT-ATTTATTAA
*
9974397 AAAAATATATCTATTA
1 AAAAATATATTTATTA
9974413 GCTCCATCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 3 0.10
17 22 0.76
18 4 0.14
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATATATTTATTAA
Found at i:9974950 original size:21 final size:21
Alignment explanation
Indices: 9974926--9974970 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
9974916 ATAATTTAGG
*
9974926 ATATTTTATCTTATATATCAT
1 ATATCTTATCTTATATATCAT
*
9974947 ATATCTTATCTTATATATTAT
1 ATATCTTATCTTATATATCAT
9974968 ATA
1 ATA
9974971 AATATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATCTTATCTTATATATCAT
Found at i:9978218 original size:15 final size:15
Alignment explanation
Indices: 9978195--9978226 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9978185 ACCCTTTTAG
9978195 TTAAATGTGACATAT
1 TTAAATGTGACATAT
*
9978210 TTAATTGTGACATAT
1 TTAAATGTGACATAT
9978225 TT
1 TT
9978227 GATTATGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (15 bp):
TTAAATGTGACATAT
Found at i:9986441 original size:11 final size:10
Alignment explanation
Indices: 9986410--9986485 Score: 53
Period size: 10 Copynumber: 7.4 Consensus size: 10
9986400 AAATGTGAAG
9986410 ATTTTAAAGAA
1 ATTTTAAA-AA
*
9986421 ATTTTTAAAA
1 ATTTTAAAAA
*
9986431 GTTTTAAAAA
1 ATTTTAAAAA
*
9986441 ATTTCTCAAAA
1 ATTT-TAAAAA
*
9986452 ATTTAAAAAA
1 ATTTTAAAAA
* **
9986462 AATAAAAAAA
1 ATTTTAAAAA
* *
9986472 AATCTAAAAA
1 ATTTTAAAAA
9986482 ATTT
1 ATTT
9986486 AGAAGAAAAC
Statistics
Matches: 51, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
10 35 0.69
11 16 0.31
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:9986451 original size:21 final size:20
Alignment explanation
Indices: 9986410--9986461 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
9986400 AAATGTGAAG
*
9986410 ATTTTAAAGAAATTTTTAAAA
1 ATTTTAAA-AAATTTTCAAAA
*
9986431 GTTTTAAAAAATTTCTCAAAA
1 ATTTTAAAAAATTT-TCAAAA
9986452 A-TTTAAAAAA
1 ATTTTAAAAAA
9986462 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (20 bp):
ATTTTAAAAAATTTTCAAAA
Found at i:9986462 original size:21 final size:20
Alignment explanation
Indices: 9986412--9986462 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
9986402 ATGTGAAGAT
* * *
9986412 TTTAAAGAAATTTTTAAAAG
1 TTTAAAAAAATTTTCAAAAA
*
9986432 TTTTAAAAAATTTCTCAAAAA
1 TTTAAAAAAATTT-TCAAAAA
9986453 TTTAAAAAAA
1 TTTAAAAAAA
9986463 ATAAAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (20 bp):
TTTAAAAAAATTTTCAAAAA
Found at i:9986675 original size:17 final size:16
Alignment explanation
Indices: 9986653--9986692 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
9986643 TTTTTCAACA
*
9986653 AAAATTTAGATTTTTTT
1 AAAATTT-GATATTTTT
*
9986670 AAAATTTTATATTTTT
1 AAAATTTGATATTTTT
9986686 AAAATTT
1 AAAATTT
9986693 TTTTAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
AAAATTTGATATTTTT
Found at i:9986695 original size:18 final size:18
Alignment explanation
Indices: 9986624--9986704 Score: 51
Period size: 18 Copynumber: 4.4 Consensus size: 18
9986614 GATATGTAGA
*
9986624 ATTTTTAAAATTTTTTTT
1 ATTTTTAAAATTTTTTAT
* **
9986642 ATTTTTCAACAAAAATTTAGAT
1 ATTTTT----AAAATTTTTTAT
*
9986664 TTTTTTAAAA--TTTTAT
1 ATTTTTAAAATTTTTTAT
9986680 ATTTTTAAAATTTTTT-T
1 ATTTTTAAAATTTTTTAT
*
9986697 AGTTTTAA
1 ATTTTTAA
9986705 GAAAATGTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 13
0.69 0.13 0.19
Matches are distributed among these distances:
16 13 0.27
17 8 0.17
18 14 0.29
22 13 0.27
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTTTTAAAATTTTTTAT
Found at i:9986702 original size:17 final size:16
Alignment explanation
Indices: 9986666--9986704 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
9986656 ATTTAGATTT
*
9986666 TTTTAAAATTTTATAT
1 TTTTAAAATTTTATAG
*
9986682 TTTTAAAATTTTTTTAG
1 TTTTAAAA-TTTTATAG
9986699 TTTTAA
1 TTTTAA
9986705 GAAAATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTTAAAATTTTATAG
Found at i:9986860 original size:20 final size:21
Alignment explanation
Indices: 9986817--9986860 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9986807 ATTTTTTAAA
* * *
9986817 ATTTTTTTTAGAATTTGTTGG
1 ATTTTTATTAAAATTTGTTAG
9986838 ATTTTTATTAAAATTT-TTAG
1 ATTTTTATTAAAATTTGTTAG
9986858 ATT
1 ATT
9986861 GTCTATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.61
Consensus pattern (21 bp):
ATTTTTATTAAAATTTGTTAG
Found at i:10004114 original size:30 final size:31
Alignment explanation
Indices: 10004078--10004138 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
10004068 TATCTTCTAT
10004078 TTGCTTCACGGGTCTC-TATTCTAGCACCAA
1 TTGCTTCACGGGTCTCTTATTCTAGCACCAA
* * * *
10004108 TTGCTTCATGGGTTTCTTGTTGTAGCACCAA
1 TTGCTTCACGGGTCTCTTATTCTAGCACCAA
10004139 CTACTTTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (31 bp):
TTGCTTCACGGGTCTCTTATTCTAGCACCAA
Found at i:10023418 original size:18 final size:20
Alignment explanation
Indices: 10023397--10023435 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10023387 ATATTTTCTA
10023397 TTAA-AAATAAATT-TATAT
1 TTAACAAATAAATTATATAT
*
10023415 TTAACTAATAAATTATATAT
1 TTAACAAATAAATTATATAT
10023435 T
1 T
10023436 GTGATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAACAAATAAATTATATAT
Found at i:10032427 original size:18 final size:18
Alignment explanation
Indices: 10032393--10032431 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10032383 ACATATTATA
*
10032393 ATATTCAAACTTATGATCT
1 ATATGCAAACTTATGAT-T
10032412 ATATGCAAAC-TATGATT
1 ATATGCAAACTTATGATT
10032429 ATA
1 ATA
10032432 AACTTGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 6 0.32
19 9 0.47
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (18 bp):
ATATGCAAACTTATGATT
Found at i:10033450 original size:35 final size:35
Alignment explanation
Indices: 10033411--10033479 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
10033401 AATCTTTCGT
10033411 CCATCAGTTTGTACAATAGCTTTCGAAAAACTATA
1 CCATCAGTTTGTACAATAGCTTTCGAAAAACTATA
10033446 CCATCAGTTTGTACAATAGCTTTCGAAAAACTAT
1 CCATCAGTTTGTACAATAGCTTTCGAAAAACTAT
10033480 CTTTGGTGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (35 bp):
CCATCAGTTTGTACAATAGCTTTCGAAAAACTATA
Found at i:10041374 original size:31 final size:32
Alignment explanation
Indices: 10041316--10041380 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
10041306 AAAAAATAGT
* *
10041316 TTAAACCAAACGAAATAAATTATATTAT-TTA
1 TTAAACCAAACGAAAGAAATTAAATTATATTA
10041347 TTAAACCAAACGAAACGAAA-TAAATTATATTA
1 TTAAACCAAACGAAA-GAAATTAAATTATATTA
10041379 TT
1 TT
10041381 TATGAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (32 bp):
TTAAACCAAACGAAAGAAATTAAATTATATTA
Found at i:10042776 original size:7 final size:7
Alignment explanation
Indices: 10042764--10042867 Score: 60
Period size: 7 Copynumber: 15.7 Consensus size: 7
10042754 ATTTGTCCAG
10042764 AAATACA
1 AAATACA
10042771 AAATACA
1 AAATACA
*
10042778 AAATA-T
1 AAATACA
10042784 AAATACA
1 AAATACA
**
10042791 AAATATG
1 AAATACA
10042798 AAATACA
1 AAATACA
*
10042805 ATA-ACA
1 AAATACA
*
10042811 AATATACC
1 AA-ATACA
10042819 AAA-A-A
1 AAATACA
*
10042824 TAATACA
1 AAATACA
*
10042831 AAATA-T
1 AAATACA
10042837 AAA-AC-
1 AAATACA
10042842 AAATACA
1 AAATACA
* *
10042849 AAAAAAA
1 AAATACA
*
10042856 AAACACA
1 AAATACA
10042863 AAATA
1 AAATA
10042868 GAACAGAAAA
Statistics
Matches: 71, Mismatches: 18, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
5 6 0.08
6 16 0.23
7 45 0.63
8 4 0.06
ACGTcount: A:0.71, C:0.12, G:0.01, T:0.16
Consensus pattern (7 bp):
AAATACA
Found at i:10042789 original size:20 final size:20
Alignment explanation
Indices: 10042764--10042840 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
10042754 ATTTGTCCAG
10042764 AAATACAAAATACAAAATAT
1 AAATACAAAATACAAAATAT
**
10042784 AAATACAAAATATGAAATA-
1 AAATACAAAATACAAAATAT
*
10042803 CAATAACAAATATACCAAAA-AT
1 AAAT-ACAAA-ATA-CAAAATAT
*
10042825 -AATACAAAATATAAAA
1 AAATACAAAATACAAAA
10042841 CAAATACAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
18 4 0.09
19 6 0.13
20 27 0.57
21 7 0.15
22 3 0.06
ACGTcount: A:0.69, C:0.10, G:0.01, T:0.19
Consensus pattern (20 bp):
AAATACAAAATACAAAATAT
Found at i:10042829 original size:40 final size:38
Alignment explanation
Indices: 10042768--10042851 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 38
10042758 GTCCAGAAAT
10042768 ACAAAATACAAAATATAAATACAAAATATGAAATACAATA
1 ACAAAATACAAAATATAAATACAAAATAT-AAA-ACAATA
10042808 ACAAATATACCAAAA-AT-AATACAAAATATAAAACAA-A
1 ACAAA-ATA-CAAAATATAAATACAAAATATAAAACAATA
10042845 TACAAAA
1 -ACAAAA
10042852 AAAAAAACAC
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
37 2 0.05
38 9 0.22
39 3 0.07
40 17 0.41
41 5 0.12
42 5 0.12
ACGTcount: A:0.69, C:0.12, G:0.01, T:0.18
Consensus pattern (38 bp):
ACAAAATACAAAATATAAATACAAAATATAAAACAATA
Found at i:10042858 original size:18 final size:18
Alignment explanation
Indices: 10042825--10042860 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10042815 TACCAAAAAT
* *
10042825 AATACAAAATATAAAACA
1 AATACAAAAAAAAAAACA
10042843 AATACAAAAAAAAAAACA
1 AATACAAAAAAAAAAACA
10042861 CAAAATAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (18 bp):
AATACAAAAAAAAAAACA
Found at i:10045213 original size:10 final size:11
Alignment explanation
Indices: 10045200--10045251 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
10045190 TAAAAAAGGT
10045200 AAAAAAAACAA
1 AAAAAAAACAA
10045211 AAAACAAAAC-A
1 AAAA-AAAACAA
* *
10045222 AAACAAATCAA
1 AAAAAAAACAA
10045233 AAATAAAAAGCAA
1 AAA-AAAAA-CAA
10045246 AAAAAA
1 AAAAAA
10045252 TTCACACACA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 4 0.12
11 12 0.36
12 11 0.33
13 6 0.18
ACGTcount: A:0.83, C:0.12, G:0.02, T:0.04
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:10056126 original size:52 final size:51
Alignment explanation
Indices: 10056045--10056144 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 51
10056035 AATTTTGAGA
* * *
10056045 AATGATGAGATTTTAAGTTGTTGAACCTCTGCTGAGAGGAGCCCTTTTTTC
1 AATGATGAGATTTTAAGTCGTTGAACCTCTACTAAGAGGAGCCCTTTTTTC
10056096 AATG-TGAGATTTCTAAAGTCGTTGAACCTCTACTAAGAGGAGCCCTTTT
1 AATGATGAGATTT-T-AAGTCGTTGAACCTCTACTAAGAGGAGCCCTTTT
10056145 CTAAAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 8 0.18
51 5 0.11
52 31 0.70
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (51 bp):
AATGATGAGATTTTAAGTCGTTGAACCTCTACTAAGAGGAGCCCTTTTTTC
Found at i:10056222 original size:95 final size:96
Alignment explanation
Indices: 10056091--10056267 Score: 234
Period size: 95 Copynumber: 1.9 Consensus size: 96
10056081 AGGAGCCCTT
*
10056091 TTTTCAATGTGAGATTTCTAAAGTCGTTGAACCTCTACTAAGAGGAGCCCTTTTCTAAAAAAAAT
1 TTTTCAATGTGAGATTTCTAAAGTCGTTGAACCTCTACGAAGAGGAGCCCTTTTC-AAAAAAAAT
10056156 TTTAAAGTTGTTGAGCCTTTACTGAAAGGAGC
65 TTTAAAGTTGTTGAGCCTTTACTGAAAGGAGC
* * * * * ** *
10056188 TTTTCAA-GATGA-ATTT-TAAAGTTGTTGAGCCTCTACGAAGTGGAGCCTTTTTCAAGATGATT
1 TTTTCAATG-TGAGATTTCTAAAGTCGTTGAACCTCTACGAAGAGGAGCCCTTTTCAAAAAAAAT
10056250 TTTAAAGTTGTTGAGCCT
65 TTTAAAGTTGTTGAGCCT
10056268 CTGTTGAAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
94 23 0.33
95 32 0.46
96 5 0.07
97 10 0.14
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (96 bp):
TTTTCAATGTGAGATTTCTAAAGTCGTTGAACCTCTACGAAGAGGAGCCCTTTTCAAAAAAAATT
TTAAAGTTGTTGAGCCTTTACTGAAAGGAGC
Found at i:10056259 original size:48 final size:50
Alignment explanation
Indices: 10056055--10056614 Score: 361
Period size: 48 Copynumber: 11.4 Consensus size: 50
10056045 AATGATGAGA
* *
10056055 TTTT-AAGTTGTTGAACCTCTGCTG-AGAGGAGCCCTTTTTTCAATG-TGAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAAGAGGAG-CC-TTTTTCAA-GAT-AGAT
* * * * * * *
10056106 TTCTAAAGTCGTTGAACCTCTACT-AAGAGGAGCCCTTTTCTAA-AAAAAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAAGAGGAGCCTTTTTC-AAGATAGAT
* *
10056155 TTTTAAAGTTGTTGAGCCTTTACTGAA-AGGAG-C-TTTTCAAGAT-GAA
1 TTTTAAAGTTGTTGAGCCTCTACTGAAGAGGAGCCTTTTTCAAGATAGAT
*
10056201 TTTTAAAGTTGTTGAGCCTCTAC-GAAGTGGAGCCTTTTTCAAGAT-GAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAAGAGGAGCCTTTTTCAAGATAGAT
** * * *
10056249 TTTTAAAGTTGTTGAGCCTCTGTTGAA-AGAAACCCTTTTCAAGATTCAAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAAGAGGAGCCTTTTTCAAGA-T--AGAT
* ** *
10056301 GGATTTTAAAGTTGTTAAGCCTCTGTTG-AGAAGAG-CTTTTTC-AGATGAGAT
1 ---TTTTAAAGTTGTTGAGCCTCTACTGAAGAGGAGCCTTTTTCAAGAT-AGAT
* * * * * * *
10056352 TTTTAAAATTGTTAAGCTTATGCTG-AGATGAGCCATTTTCAAGATTAGA-
1 TTTTAAAGTTGTTGAGCCTCTACTGAAGAGGAGCCTTTTTCAAGA-TAGAT
* * *
10056401 TTTTAAAGTCGTTGAGCCTCTACTG-AGATGAGCATTTTTC---A-AGA-
1 TTTTAAAGTTGTTGAGCCTCTACTGAAGAGGAGCCTTTTTCAAGATAGAT
* * * *
10056445 TTTTAAAGTTG-TGAAGCCTTTGCTG-ATATGAG-CTTTTTCAA-ATGAGAT
1 TTTTAAAGTTGTTG-AGCCTCTACTGAAGAGGAGCCTTTTTCAAGAT-AGAT
* * *
10056493 TTTTAAAGTTGTTGAACCTCTACTG-AGATGAGCTTTTTTCAAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAAGAGGAGCCTTTTTCAAGAT-AGAT
* *
10056543 TTTTAAAGTTGTTGAGCCTCTGCT-AAGAGGAG-TTTTTTCAAGATGAGAAT
1 TTTTAAAGTTGTTGAGCCTCTACTGAAGAGGAGCCTTTTTCAAGAT-AG-AT
* *
10056593 TTTTAAAAATTGTTAAGCCTCT
1 TTTT-AAAGTTGTTGAGCCTCT
10056615 GTTGAAATGA
Statistics
Matches: 419, Mismatches: 57, Indels: 66
0.77 0.11 0.12
Matches are distributed among these distances:
43 8 0.02
44 28 0.07
45 4 0.01
46 31 0.07
47 10 0.02
48 99 0.24
49 94 0.22
50 54 0.13
51 27 0.06
52 28 0.07
53 3 0.01
54 7 0.02
55 26 0.06
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (50 bp):
TTTTAAAGTTGTTGAGCCTCTACTGAAGAGGAGCCTTTTTCAAGATAGAT
Found at i:10056392 original size:49 final size:49
Alignment explanation
Indices: 10056293--10056683 Score: 358
Period size: 49 Copynumber: 8.0 Consensus size: 49
10056283 CTTTTCAAGA
* *
10056293 TTCAAGATG-GA-TTTTAAAGTTGTTAAGCCTCTGTTGAGAAGAGCTTT
1 TTCAAGATGAGATTTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTT
* * * *
10056340 TTC-AGATGAGATTTTTAAAATTGTTAAGCTTATGCTGAGATGAGCCATT
1 TTCAAGATGAGATTTTTAAAGTTGTTAAGCCTCTGCTGAGATGAG-CTTT
* * * *
10056389 TTCAAGATTAGA-TTTTAAAGTCGTTGAGCCTCTACTGAGATGAGCATTT
1 TTCAAGATGAGATTTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGC-TTT
* * *
10056438 TTC---A--AGA-TTTTAAAGTTGTGAAGCCTTTGCTGATATGAGCTTT
1 TTCAAGATGAGATTTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTT
*
10056481 TTCAA-ATGAGATTTTTAAAGTTGTTGAA-CCTCTACTGAGATGAGCTTTT
1 TTCAAGATGAGATTTTTAAAGTTGTT-AAGCCTCTGCTGAGATGAGC-TTT
* * * *
10056530 TTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGTTTT
1 TTCAAGATGAGATTTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTT
* * * *
10056579 TTCAAGATGAGAATTTTTAAAAATTGTTAAGCCTCTGTTGAAATGAGTTTTTT
1 TTCAAGATGAG-ATTTTT-AAAGTTGTTAAGCCTCTGCTGAGATGAG--CTTT
* * * * *
10056632 TTTAAGATAAAATTTTTAAAGTTTTTGAA-CCTCTGCTGAGAAGAGTCTTT
1 TTCAAGATGAGATTTTTAAAGTTGTT-AAGCCTCTGCTGAGATGAG-CTTT
10056682 TT
1 TT
10056684 TAAATTTTAA
Statistics
Matches: 281, Mismatches: 44, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.02
44 30 0.11
45 1 0.00
46 6 0.02
47 8 0.03
48 54 0.19
49 62 0.22
50 52 0.19
51 42 0.15
52 8 0.03
53 12 0.04
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (49 bp):
TTCAAGATGAGATTTTTAAAGTTGTTAAGCCTCTGCTGAGATGAGCTTT
Found at i:10056524 original size:141 final size:140
Alignment explanation
Indices: 10056302--10056586 Score: 376
Period size: 141 Copynumber: 2.0 Consensus size: 140
10056292 ATTCAAGATG
* * *
10056302 GATTTTAAAGTTGTTAAGCCTCTGTTGAGAAGAGCTTTTTCAGATGAGATTTTTAAAATTGTTAA
1 GATTTTAAAGTTGTGAAGCCTCTGCTGAGAAGAGCTTTTTCAAATGAGATTTTTAAAATTGTTAA
* * * *
10056367 GCTTATGCTGAGATGAGCCATTTTCAAGATTAGA-TTTTAAAGTCGTTGAGCCTCTACTGAGATG
66 CCTTA-GCTGAGATGAGCCATTTTCAAGATGAGATTTTTAAAGTCGTTGAGCCTCTACTAAGAGG
10056431 AGCATTTTTCAA
130 AG-ATTTTTCAA
* * * *
10056443 GATTTTAAAGTTGTGAAGCCTTTGCTGATATGAGCTTTTTCAAATGAGATTTTTAAAGTTGTTGA
1 GATTTTAAAGTTGTGAAGCCTCTGCTGAGAAGAGCTTTTTCAAATGAGATTTTTAAAATTGTT-A
** * *
10056508 ACCTCTA-CTGAGATGAGCTTTTTTCAAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTAAGAG
65 ACCT-TAGCTGAGATGAGCCATTTTCAAGATGAGATTTTTAAAGTCGTTGAGCCTCTACTAAGAG
*
10056572 GAGTTTTTTCAA
129 GAGATTTTTCAA
10056584 GAT
1 GAT
10056587 GAGAATTTTT
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
141 91 0.73
142 32 0.26
143 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (140 bp):
GATTTTAAAGTTGTGAAGCCTCTGCTGAGAAGAGCTTTTTCAAATGAGATTTTTAAAATTGTTAA
CCTTAGCTGAGATGAGCCATTTTCAAGATGAGATTTTTAAAGTCGTTGAGCCTCTACTAAGAGGA
GATTTTTCAA
Done.