Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 17 of 121
Found at i:3124806 original size:57 final size:57
Alignment explanation
Indices: 3124681--3124813 Score: 150
Period size: 57 Copynumber: 2.3 Consensus size: 57
3124671 TTATTTTCAT
*
3124681 TTTTCTTAAATTTTAAAACTTCTCAATATGTTGGTAATTTTTTTATTTTTCAAAAATCA
1 TTTT-TTAAATTTTAAAACTTCTCAATATGTTGGTAATTTTTTTA-TTTACAAAAATCA
* *
3124740 -TTTTTAAATTTTAAAACATT-T-AATATGTTGGTATGATTTTTTTA-TTAC-ATAATTA
1 TTTTTTAAATTTTAAAAC-TTCTCAATATGTTGGTA--ATTTTTTTATTTACAAAAATCA
3124795 TTTTTTAAAATTTTAAAAC
1 TTTTTT-AAATTTTAAAAC
3124814 CTTTCAACAT
Statistics
Matches: 66, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
55 5 0.08
56 20 0.30
57 27 0.41
58 14 0.21
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (57 bp):
TTTTTTAAATTTTAAAACTTCTCAATATGTTGGTAATTTTTTTATTTACAAAAATCA
Found at i:3125225 original size:57 final size:56
Alignment explanation
Indices: 3125155--3125298 Score: 163
Period size: 57 Copynumber: 2.5 Consensus size: 56
3125145 TTATTTCCAT
*
3125155 TTTTCTTAAATTTTAAAACCTTTCAATATGTT-G-ATA-ATTTTTTTTTTTACCAAAACTCA
1 TTTT-TTAAATTTTAAAACCTTTCAATAT-TTCGTA-AGATTTTTTTATTT--CAAAA-TCA
*
3125214 -TTTTTAAATTTTAAAACC-TTAAATATTTCGTAAGATTTTTTTATTTCAAAATCA
1 TTTTTTAAATTTTAAAACCTTTCAATATTTCGTAAGATTTTTTTATTTCAAAATCA
*
3125268 TTTTTTAAAATTTTAAAACCTTCCAATATTT
1 TTTTTT-AAATTTTAAAACCTTTCAATATTT
3125299 TCGCAAGGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
54 3 0.04
55 12 0.16
56 22 0.29
57 35 0.47
58 3 0.04
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.51
Consensus pattern (56 bp):
TTTTTTAAATTTTAAAACCTTTCAATATTTCGTAAGATTTTTTTATTTCAAAATCA
Found at i:3125364 original size:473 final size:468
Alignment explanation
Indices: 3124545--3125505 Score: 1181
Period size: 473 Copynumber: 2.0 Consensus size: 468
3124535 TGATGAGAGA
* **
3124545 CATCGTACAAAGTAAGCATTGACCTCAAAAAACAAACATCGTAAAAATCACTTTTATGTAATTTT
1 CATCATACAAAGTAAGCATTGACCTCAAAAAACAAACATCACAAAAATCACTTTTATGTAATTTT
*
3124610 TTTAATTTATTTTCAAAAGTCATTTTTAAATATTTAAACCTTCTAATATGTTAGTAATGGTTTAT
66 TTTAATTTATTTCCAAAAGTCATTTTTAAATATTTAAACCTTCTAATATGTTAGTAATGGTTTAT
* * *
3124675 TTTCATTTTTCTTAAATTTTAAAACTTCTCAATATGTTGGTAATTTTTTTATTTTTCAAAAATCA
131 TTCCATTTTTCTTAAATTTTAAAACTTCTCAATATGTTGATAATTTTTTTATTTTCCAAAAATCA
* * * * *
3124740 TTTTTAAATTTTAAAACATTTAATATGTTGGTATGATTTTTTTATTACATAATTATTTTTTAAAA
196 TTTTTAAATTTTAAAACATTAAATATGTTCGTAAGATTTTTTTATTACAAAATCATTTTTTAAAA
* * * *
3124805 TTTTAAAACCTTTCAACATTTTGATGAGGTTTTTAAATAAAACAACCGATGTCTTTTACATTAAT
261 TTTTAAAACCTTCCAACATTTTGA-GAGGTTTTGAAATAAAACAAACAATGTCTTTTACATTAAT
* *
3124870 ATTCTTTCTCCATTTAAGTTATAATTTATTTTAATCTTTATTCCACGTGGAATTATATTCTTACC
325 ATTCTTTCTCCATTTAAGTTATAATTTATTCTAATCTTTATTCCACGTGGAATTATA-CCTTACC
* * * * * * *
3124935 -ACTATCTAGATTAAACCTTTGCATTCTGGCT-CCTCGACAA-GTAATTTATTATGTTTCAAGTT
389 TACTAGCTAGATTAAACCTTTACATTCTGG-TGCCTC-AAAAGGTAACTCATTACGCTTCAAGTT
3124997 T-AAGGCCCATAAGGTG
452 TAAAGGCCCATAAGGTG
* * * * * *
3125013 CATCATACAAAGTAAGCATTGACTTTAGAAAACAAACTTTACAAAAATCATTTTTATGTAATTTT
1 CATCATACAAAGTAAGCATTGACCTCAAAAAACAAACATCACAAAAATCACTTTTATGTAATTTT
* *
3125078 TTT-ATTTCTCTTCCAAAA-TCATTTTTAAAT-TTCTAAGA-CTTTTAATATGTTATATGTTGAA
66 TTTAATTTAT-TTCCAAAAGTCATTTTTAAATATT-TAA-ACCTTCTAATATG-T-TA-G-T---
*
3125139 AATGTTTTATTTCCATTTTTCTTAAATTTTAAAACCTT-TCAATATGTTGATAATTTTTTT-TTT
121 AATGGTTTATTTCCATTTTTCTTAAATTTTAAAA-CTTCTCAATATGTTGATAATTTTTTTATTT
* * *
3125202 TACCAAAACTCATTTTTAAATTTTAAAACCTTAAATAT-TTCGTAAGATTTTTTTATTTCAAAAT
185 T-CCAAAAATCATTTTTAAATTTTAAAACATTAAATATGTTCGTAAGATTTTTTTATTACAAAAT
* *
3125266 CATTTTTTAAAATTTTAAAACCTTCCAATATTTTCGCA-AGGTTTTGAAATAAAACAAACAATTT
249 CATTTTTTAAAATTTTAAAACCTTCCAACATTTT-G-AGAGGTTTTGAAATAAAACAAACAATGT
* * ** * * * *
3125330 CTTTTACATTAATGTTCTTTTTCTGTTTAAGTTATACTTTATTCTAATCTTTATTTCATGTTGAA
312 CTTTTACATTAATATTCTTTCTCCATTTAAGTTATAATTTATTCTAATCTTTATTCCACGTGGAA
* * *
3125395 TTATACCTTTCCTACTAGCTAGGTTAAACCTTTACATTTTGGTGCCTCAAAAGGTAACTCATTAC
377 TTATACCTTACCTACTAGCTAGATTAAACCTTTACATTCTGGTGCCTCAAAAGGTAACTCATTAC
*** *
3125460 GCTTCAAGTTTAAAGGTTGATGAGGTG
442 GCTTCAAGTTTAAAGGCCCATAAGGTG
*
3125487 CATCACACAAAGTAAGCAT
1 CATCATACAAAGTAAGCAT
3125506 GCAAAAATCA
Statistics
Matches: 420, Mismatches: 55, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
466 2 0.00
467 30 0.07
468 68 0.16
469 2 0.00
470 1 0.00
471 1 0.00
472 9 0.02
473 188 0.45
474 115 0.27
475 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.45
Consensus pattern (468 bp):
CATCATACAAAGTAAGCATTGACCTCAAAAAACAAACATCACAAAAATCACTTTTATGTAATTTT
TTTAATTTATTTCCAAAAGTCATTTTTAAATATTTAAACCTTCTAATATGTTAGTAATGGTTTAT
TTCCATTTTTCTTAAATTTTAAAACTTCTCAATATGTTGATAATTTTTTTATTTTCCAAAAATCA
TTTTTAAATTTTAAAACATTAAATATGTTCGTAAGATTTTTTTATTACAAAATCATTTTTTAAAA
TTTTAAAACCTTCCAACATTTTGAGAGGTTTTGAAATAAAACAAACAATGTCTTTTACATTAATA
TTCTTTCTCCATTTAAGTTATAATTTATTCTAATCTTTATTCCACGTGGAATTATACCTTACCTA
CTAGCTAGATTAAACCTTTACATTCTGGTGCCTCAAAAGGTAACTCATTACGCTTCAAGTTTAAA
GGCCCATAAGGTG
Found at i:3125946 original size:13 final size:13
Alignment explanation
Indices: 3125930--3125968 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
3125920 TTTTTAAGTA
3125930 ATTTTTTAAATTT
1 ATTTTTTAAATTT
*
3125943 ATTTTCTAAATGTT
1 ATTTTTTAAAT-TT
3125957 A-TTTTTAAATTT
1 ATTTTTTAAATTT
3125969 CTAAACCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 2 0.09
13 18 0.78
14 3 0.13
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (13 bp):
ATTTTTTAAATTT
Found at i:3127249 original size:870 final size:871
Alignment explanation
Indices: 3125526--3127412 Score: 2353
Period size: 870 Copynumber: 2.2 Consensus size: 871
3125516 TTTTTATGTA
* * * * *
3125526 ATTTATTTTCTAAAAGTCATTTTTCAATTTCTAAACCTTTTAATATGTTGGTAATATTTTATTTC
1 ATTTATTTTCCAAAAGTCATTTTTAAATTTTTAAACCTTCTAATATGTTGGTAATGTTTTATTTC
*
3125591 TATTTTTCATAAATTTTAAAAACTTCAATATGTTGGT-A-A-TTTTTTTTATTTAAAAATTATTT
66 TATTTTTCATAAATTTTAAAACCTTCAATATGTT-GTAAGATTTTTTTTTATTT-AAAATTATTT
* ** * * *
3125653 TATAAATTTTAAAACCTTCTAATATTTTGGTGAGGTTTTCCAATAAAACAAATGATATCTTTTAC
129 TATAAATTTTAAAACCTTCCAATATTTTAATAAGGTTTTCAAATAAAACAAATAATATCTTTTAC
* * * *
3125718 ATTAATGTTCTTTTTTTCATTCAAGCTATACTTTATTCTAATCTTTTATTCCAAGTTGAATTATA
194 ATCAATATTC-TTTTTTCA-TCAAGCTATACTTTATTATAATCTTTTATTCCAAGTTGAAATATA
* * * *
3125783 CCTTTCCTACCAGTTAGGCTAAACCTTTGCATTTTGGTGCCTCAACAAGTAATTCATTATGCTTC
257 CCTTTACTACCAGCTAGGCTAAACCTTTGCATTTTGGTACCCCAACAAGTAATTCATTATGCTTC
** * * *
3125848 AAGTTTGAAGGTTGATGAGGTGCATCATACAAAATAAGCATTGACATTAGAAAACAAATATTGCA
322 AAGTTCAAAGATTGATGAGGTGCATCATACAAAAGAAGCATTGACATTAGAAAACAAATATTACA
* * *
3125913 AAAATCATTTTTAAGTAATTTTTTAAATTTATTTTCTAAATGTTATTTTTAAATTTCTAAACCTT
387 AAAATCATTTTTAAGTAATTTTTT-AATTTATCTTCCAAATGTTATTTTTAAATTTCTAAACATT
* * * * *
3125978 CTAATATATGGGTAATGTTTTATTTCTATTTTTCTTAAATTTTAAAACATTTCAATATGCTGGTA
451 CGAATATATGGGTAATATTTTATTCCCATTTTTCTTAAATTTTAAAACATTTCAATATGCTGCTA
* * * *
3126043 GATTTTTTTATTTTCAAAAAATCATTTTTAAATTTTAAAACCTTCAATATGTTGGTAAGATTTTT
516 GACTTTTTTATTTTCAAAAAATCAATTTTAAATTCTAAAACCTTCAATATATTGGTAAGATTTTT
* *
3126108 TTTTTCAAAATTTTATTTTATTTTAGAAACTTCCAATATTTTGGTGAGATTTTTAAATAAAACAA
581 TTTTTCAAAATTTTATTTTAATTTAGAAACTTCCAATATTTTGGTAAGATTTTTAAATAAAACAA
*** * * * * * *
3126173 TTGATATCTTTTATATTAATTTTCTTTTTCTATTTAAGTTATACTTTATTTTAGTTTTTATTCTA
646 CCAATATCTTTTACATTAATGTTCTTTTTCTATTTAAGTTACACTTTATTCTAATCTTTATTCTA
3126238 CATTGAATTATACCTTTACACTAGGTTAAACATTTGCATTTTGGTACCTTAACAAGTAATTCATT
711 CATTGAATTATACCTTTACACTAGGTTAAACATTTGCATTTTGGTACCTTAACAAGTAATTCATT
*
3126303 GTGCTTCAAGTTTGAAGGTTGATGAGATGCATCATACAAAGTAACCATTGACCTCAGAAAACAAA
776 ATGCTTCAAGTTTGAAGGTTGATGAGATGCATCATACAAAGTAACCATTGACCTCAGAAAACAAA
3126368 CCTTACAAAAAT-AGTTTTTATGT-A-TTTTT
841 CCTTACAAAAATCA-TTTTTATGTAATTTTTT
* *
3126397 -TTTATTTTCCAAAAGTTA-TTTTAAATTTTTAAACCTTCTAATATGTTGGTAATGTTTTAATTC
1 ATTTATTTTCCAAAAGTCATTTTTAAATTTTTAAACCTTCTAATATGTTGGTAATGTTTTATTTC
* *
3126460 TATTTTTCGTAAATTTTAAAACCTTTCAATATGTTAGTAAGATTTTTTTTTATTT-CAA-T-TTT
66 TATTTTTCATAAATTTTAAAACC-TTCAATATGTT-GTAAGATTTTTTTTTATTTAAAATTATTT
* * * * * *
3126522 T-T-AATTTTAAAATCTTCCAATTTTTTAATAAGTTTTTTTAAATAAAATAACCA-AATGTCTTT
129 TATAAATTTTAAAACCTTCCAATATTTTAATAAG-GTTTTCAAATAAAACAA--ATAATATCTTT
* * *
3126584 TGCATCAATATTC-TTTTTC-T-AAGTTATACTTTATTATAATC-TTTATTCCATGTT-AAGATA
191 TACATCAATATTCTTTTTTCATCAAGCTATACTTTATTATAATCTTTTATTCCAAGTTGAA-ATA
* * * * *
3126644 TGCCTTTATTACTAGCTAGGTTAAACCTTTGCATTTTTGTACCCCAACAAGTAATTCATTATGCT
255 TACCTTTACTACCAGCTAGGCTAAACCTTTGCATTTTGGTACCCCAACAAGTAATTCATTATGCT
3126709 TCAAGTTCAAAGATTGATGAGGTGCATCATACAAAAGGAAGCATTGATC-TTAGAAAACAAACT-
320 TCAAGTTCAAAGATTGATGAGGTGCATCATACAAAA-GAAGCATTGA-CATTAGAAAACAAA-TA
* *
3126772 TTACAAAATTCATTTTTATGTAAATTTTTT-ATTTATCTTCCAAA-GTTATTTTTAAATTTCTAA
382 TTACAAAAATCATTTTTAAGT-AATTTTTTAATTTATCTTCCAAATGTTATTTTTAAATTTCTAA
* * * * *
3126835 ATGATT-GAATATGTTGGTAATATTTTATTCCCATTTTTCTTATATTTTAAAACCTTTCAATATG
446 A-CATTCGAATATATGGGTAATATTTTATTCCCATTTTTCTTAAATTTTAAAACATTTCAATATG
* * *
3126899 TTGCTAGGCTTTTTTATTTTTC-AAAAATCAATTTTAAATTCTAAAATCTTCAATATATTGGTAA
510 CTGCTAGACTTTTTTA-TTTTCAAAAAATCAATTTTAAATTCTAAAACCTTCAATATATTGGTAA
* *
3126963 GATTTTTTTATTTCAAAATTATTTTTTTAAATTTA-AAACTTCCCAATATTTTGGTAAGGTTTTT
574 GATTTTTTT-TTTCAAAATT-TTATTTT-AATTTAGAAACTT-CCAATATTTTGGTAAGATTTTT
* * * *
3127027 AAATAAAACAACCAATGTCTTTTACATTAATGTTCTTTTTTTGTTTAAGTTACATTTTATTCTAA
635 AAATAAAACAACCAATATCTTTTACATTAATGTTCTTTTTCTATTTAAGTTACACTTTATTCTAA
* *
3127092 TCTTTA-T-TACATGTTGAATTATACCTTTACAACTAGTTAGGTTAAACCTTTGCATTTTGGTGC
700 TCTTTATTCTACA--TTGAATTATACCTTTAC-AC----TAGGTTAAACATTTGCATTTTGGTAC
* * * * *
3127155 CTTGACAAGTAATTCATTATGCTTCAAGTTTGACA-GTTGATGAGGTGTATCATCCAAAGTAAGC
758 CTTAACAAGTAATTCATTATGCTTCAAGTTTGA-AGGTTGATGAGATGCATCATACAAAGTAACC
* *
3127219 ATTGACCTCAGAAAACAAATCTTGCAAAAATCATTTTTATGTAATTTTTTTT
822 ATTGACCTCAGAAAACAAACCTTACAAAAATCATTTTTATGTAA--TTTTTT
* *
3127271 ATTTATTTTTCAAAAGTCATTTTTAAATTTTTAAATCTTCTAATATGTTGGTAATGTTTTATTTC
1 ATTTATTTTCCAAAAGTCATTTTTAAATTTTTAAACCTTCTAATATGTTGGTAATGTTTTATTTC
* * * *
3127336 TATTTTTCTTAAATTTTAAAACCATTCAATATGCTGATAAG-TTTTTTTTT-TTCAAAAATCATT
66 TATTTTTCATAAATTTTAAAACC-TTCAATATGTTG-TAAGATTTTTTTTTATT-TAAAATTATT
3127399 TT-TAAATTTTAAAA
128 TTATAAATTTTAAAA
3127413 TCTTTAATAT
Statistics
Matches: 874, Mismatches: 103, Indels: 70
0.83 0.10 0.07
Matches are distributed among these distances:
862 131 0.15
863 136 0.16
864 71 0.08
865 111 0.13
866 2 0.00
867 30 0.03
868 14 0.02
869 82 0.09
870 149 0.17
871 6 0.01
872 1 0.00
873 12 0.01
874 7 0.01
875 26 0.03
876 81 0.09
878 5 0.01
879 10 0.01
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (871 bp):
ATTTATTTTCCAAAAGTCATTTTTAAATTTTTAAACCTTCTAATATGTTGGTAATGTTTTATTTC
TATTTTTCATAAATTTTAAAACCTTCAATATGTTGTAAGATTTTTTTTTATTTAAAATTATTTTA
TAAATTTTAAAACCTTCCAATATTTTAATAAGGTTTTCAAATAAAACAAATAATATCTTTTACAT
CAATATTCTTTTTTCATCAAGCTATACTTTATTATAATCTTTTATTCCAAGTTGAAATATACCTT
TACTACCAGCTAGGCTAAACCTTTGCATTTTGGTACCCCAACAAGTAATTCATTATGCTTCAAGT
TCAAAGATTGATGAGGTGCATCATACAAAAGAAGCATTGACATTAGAAAACAAATATTACAAAAA
TCATTTTTAAGTAATTTTTTAATTTATCTTCCAAATGTTATTTTTAAATTTCTAAACATTCGAAT
ATATGGGTAATATTTTATTCCCATTTTTCTTAAATTTTAAAACATTTCAATATGCTGCTAGACTT
TTTTATTTTCAAAAAATCAATTTTAAATTCTAAAACCTTCAATATATTGGTAAGATTTTTTTTTT
CAAAATTTTATTTTAATTTAGAAACTTCCAATATTTTGGTAAGATTTTTAAATAAAACAACCAAT
ATCTTTTACATTAATGTTCTTTTTCTATTTAAGTTACACTTTATTCTAATCTTTATTCTACATTG
AATTATACCTTTACACTAGGTTAAACATTTGCATTTTGGTACCTTAACAAGTAATTCATTATGCT
TCAAGTTTGAAGGTTGATGAGATGCATCATACAAAGTAACCATTGACCTCAGAAAACAAACCTTA
CAAAAATCATTTTTATGTAATTTTTT
Found at i:3127457 original size:56 final size:56
Alignment explanation
Indices: 3127290--3127470 Score: 171
Period size: 56 Copynumber: 3.3 Consensus size: 56
3127280 TCAAAAGTCA
* * *
3127290 TTTTTAAATTTTTAAATCTTCTAATATGTTGGT-A-A-TGTTTTATTTC--TATT-T
1 TTTTTAAATTTTAAAATCTT-TAATATGTTGGTAAGATTTTTTTATTTCAAAATTAT
* * * * * * *
3127341 TTCTTAAATTTTAAAACCATTCAATATGCTGATAAG-TTTTTTTTTTTCAAAAATCA-
1 TTTTTAAATTTTAAAATC-TTTAATATGTTGGTAAGATTTTTTTATTTC-AAAATTAT
3127397 TTTTTAAATTTTAAAATCTTTAATATGTTGGTAAGATTTTTTTATTTCAAAATTAT
1 TTTTTAAATTTTAAAATCTTTAATATGTTGGTAAGATTTTTTTATTTCAAAATTAT
3127453 TTTTTAAAAATTTTAAAA
1 TTTTT--AAATTTTAAAA
3127471 CCTTCCAACA
Statistics
Matches: 101, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
51 24 0.24
52 3 0.03
53 9 0.09
55 20 0.20
56 34 0.34
58 11 0.11
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.54
Consensus pattern (56 bp):
TTTTTAAATTTTAAAATCTTTAATATGTTGGTAAGATTTTTTTATTTCAAAATTAT
Found at i:3127517 original size:470 final size:466
Alignment explanation
Indices: 3126556--3127939 Score: 1734
Period size: 470 Copynumber: 3.0 Consensus size: 466
3126546 TTAATAAGTT
* * * *
3126556 TTTTTAAATAAAATAACCAAATGTCTTTTGCATCAATATTCTTTTT-C---TAAGTTATACTTTA
1 TTTTTAAACAAAACAACC-AATGTCTTTTACATTAATATTCTTTTTCCATTTAAGTTATACTTTA
* * * * *
3126617 TTATAATCTTTATTCCATGTT-AAGATATGCCTTTATTACTAGCTAGGTTAAACCTTTGCATTTT
65 TTCTAATCTTTATTCCATGTTGAA-TTATACCTTTACTACTAGTTAGGTTAAACCTTTGCA-TTT
* * *
3126681 TGTACCCCAACAAGTAATTCATTATGCTTCAAGTTCAAAGATTGATGAGGTGCATCATACAAAAG
128 TGTGCCTCAACAAGTAATTCATTATGCTTCAAGTT-AAAG-TTGATGAGGTGCATCAT-CCAAAG
* * * * * *
3126746 GAAGCATTGATCTTAGAAAACAAACTTTACAAAATTCATTTTTATGTAA-ATTTTTTATTTA-TC
190 TAAGCATTGACCTTAGAAAACAAAC-TTGCAAAAATCATTTTTATGTAATTTTTTTTATTTATTT
* * * * * * *
3126809 TTCCAAAGTTATTTTTAAATTTCTAAATGATT-GAATATGTTGGTAATATTTTATTCCCATTTTT
254 TTCAAAAGTAATTTTTAAATTTCTAAAT-CTTCTAATATGTTGGTAATGTTTTATTTCTATTTTT
* * * *
3126873 CTTATATTTTAAAACCTTTCAATATGTTGCTAGGCTTTTTTATTTTTCAAAAATCAATTTTAAAT
318 CTTAAATTTTAAAACCATTCAATATGTTGATAAG-TTTTTT-TTTTTCAAAAATCAATTTTAAAT
* * *
3126938 TCTAAAATCTTCAATATATTGGTAAGATTTTTTTATTTCAAAATTATTTTTT-TAAA-TTTAAAA
381 TTTAAAATCTTCAATATGTTGGTAAGATTTTTTTATTTCAAAATTATTTTTTAAAAATTTTAAAA
* * *
3127001 CTTCCCAATATTTTGGTAAGG
446 CTTCCCAACATTTTGGCAAGA
* * *** * *
3127022 TTTTTAAATAAAACAACCAATGTCTTTTACATTAATGTTCTTTTTTTGTTTAAGTTACATTTTAT
1 TTTTTAAACAAAACAACCAATGTCTTTTACATTAATATTCTTTTTCCATTTAAGTTATACTTTAT
* *
3127087 TCTAATCTTTATTACATGTTGAATTATACCTTTACAACTAGTTAGGTTAAACCTTTGCATTTTGG
66 TCTAATCTTTATTCCATGTTGAATTATACCTTTACTACTAGTTAGGTTAAACCTTTGCATTTT-G
** * *
3127152 TGCCTTGACAAGTAATTCATTATGCTTCAAGTTTGACAGTTGATGAGGTGTATCATCCAAAGTAA
130 TGCCTCAACAAGTAATTCATTATGCTTCAAG-TT-AAAGTTGATGAGGTGCATCATCCAAAGTAA
*
3127217 GCATTGACCTCAGAAAACAAATCTTGCAAAAATCATTTTTATGTAATTTTTTTTATTTATTTTTC
193 GCATTGACCTTAGAAAACAAA-CTTGCAAAAATCATTTTTATGTAATTTTTTTTATTTATTTTTC
* *
3127282 AAAAGTCATTTTTAAATTTTTAAATCTTCTAATATGTTGGTAATGTTTTATTTCTATTTTTCTTA
257 AAAAGTAATTTTTAAATTTCTAAATCTTCTAATATGTTGGTAATGTTTTATTTCTATTTTTCTTA
* *
3127347 AATTTTAAAACCATTCAATATGCTGATAAGTTTTTTTTTTTCAAAAATCATTTTTAAATTTTAAA
322 AATTTTAAAACCATTCAATATGTTGATAAGTTTTTTTTTTTCAAAAATCAATTTTAAATTTTAAA
*
3127412 ATCTTTAATATGTTGGTAAGATTTTTTTATTTCAAAATTATTTTTTAAAAATTTTAAAACCTT-C
387 ATCTTCAATATGTTGGTAAGATTTTTTTATTTCAAAATTATTTTTTAAAAATTTTAAAA-CTTCC
* *
3127476 CAACATTTTGGCGATA
451 CAACATTTTGGCAAGA
* *
3127492 TTTTTAAACAAAACAATCGATGTCTTTTACATTAATATTCTTTTTCCATTTAAGTTATACTTTAT
1 TTTTTAAACAAAACAACCAATGTCTTTTACATTAATATTCTTTTTCCATTTAAGTTATACTTTAT
* * * *
3127557 TCTATTCTTTATTCCATGTTGAATTACACCTTTACTACTAGTTAGGTTAAACATTTGCACTTTTA
66 TCTAATCTTTATTCCATGTTGAATTATACCTTTACTACTAGTTAGGTTAAACCTTTGCA-TTTTG
*
3127622 TGCCTCAACAAGTAATTCATTATGCTTCAAGCTTAAAGGTTGATGAGGTGCATCATACAAAGTAA
130 TGCCTCAACAAGTAATTCATTATGCTTCAAG-TTAAA-GTTGATGAGGTGCATCATCCAAAGTAA
* * * * * * *
3127687 ACATTGACCTTATAAAACAAACCTTGCAAAAGTCATTTGTATGT-ATTTTCTTAATTTATTTTCC
193 GCATTGACCTTAGAAAACAAA-CTTGCAAAAATCATTTTTATGTAATTTTTTTTATTTATTTTTC
* * *
3127751 AAAAGTAATTTTTAAATTTCTAAACCTTCTAATATATTGGTATTGTTTTATTT-TCATTTTTCTT
257 AAAAGTAATTTTTAAATTTCTAAATCTTCTAATATGTTGGTAATGTTTTATTTCT-ATTTTTCTT
* * * *
3127815 AAATTTAAAAACCGTTTAATATGTTGGTAAG-TTTTTTTTTTCAAAAATCAATTTTAAATTTTAA
321 AAATTTTAAAACCATTCAATATGTTGATAAGTTTTTTTTTTTCAAAAATCAATTTTAAATTTTAA
* * * * *
3127879 AACCTTCAATATGTTCGTAATATTTTTTTATTTCACAATTATTGTTTTAAAATTTCTTAAA
386 AATCTTCAATATGTTGGTAAGATTTTTTTATTTCAAAATTATT-TTTTAAAAATT-TTAAA
3127940 TTAAAGTACC
Statistics
Matches: 800, Mismatches: 99, Indels: 34
0.86 0.11 0.04
Matches are distributed among these distances:
465 24 0.03
466 17 0.02
468 193 0.24
469 241 0.30
470 318 0.40
471 7 0.01
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (466 bp):
TTTTTAAACAAAACAACCAATGTCTTTTACATTAATATTCTTTTTCCATTTAAGTTATACTTTAT
TCTAATCTTTATTCCATGTTGAATTATACCTTTACTACTAGTTAGGTTAAACCTTTGCATTTTGT
GCCTCAACAAGTAATTCATTATGCTTCAAGTTAAAGTTGATGAGGTGCATCATCCAAAGTAAGCA
TTGACCTTAGAAAACAAACTTGCAAAAATCATTTTTATGTAATTTTTTTTATTTATTTTTCAAAA
GTAATTTTTAAATTTCTAAATCTTCTAATATGTTGGTAATGTTTTATTTCTATTTTTCTTAAATT
TTAAAACCATTCAATATGTTGATAAGTTTTTTTTTTTCAAAAATCAATTTTAAATTTTAAAATCT
TCAATATGTTGGTAAGATTTTTTTATTTCAAAATTATTTTTTAAAAATTTTAAAACTTCCCAACA
TTTTGGCAAGA
Found at i:3127984 original size:15 final size:17
Alignment explanation
Indices: 3127966--3128002 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
3127956 TCACCTTATT
3127966 AATAAAAT-AT-ATAAA
1 AATAAAATAATAATAAA
3127981 AATAAAATCAATAATAAA
1 AATAAAAT-AATAATAAA
3127999 AATA
1 AATA
3128003 TACTTTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAAATAATAATAAA
Found at i:3129057 original size:60 final size:58
Alignment explanation
Indices: 3128718--3129055 Score: 418
Period size: 60 Copynumber: 5.8 Consensus size: 58
3128708 TTTTTTTTTG
* * *
3128718 TTCAGGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTCTTGAAATTTTAAT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATT
* ** *
3128775 TTCGAGGAAAATTGATACTTTCAAC-TTTCCCC--AAA-A-TCCTTTGAAATTTTTTT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATT
* * *
3128828 TTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTCTTGAAAATTTTGATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAATTTT-ATT
* * **
3128888 TTCGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTTGAAGCTTTAGTT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTTGAAATTTTA-TT
*
3128950 TCCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTATT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAATTTTATT
* *
3129009 TTTAAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 TTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
3129056 TTTGGAAATT
Statistics
Matches: 241, Mismatches: 29, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
53 36 0.15
54 9 0.04
56 10 0.04
57 24 0.10
58 11 0.05
59 46 0.19
60 53 0.22
61 1 0.00
62 44 0.18
63 7 0.03
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (58 bp):
TTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATT
Found at i:3129125 original size:17 final size:17
Alignment explanation
Indices: 3129105--3129159 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
3129095 TAAAAAAGTG
3129105 AAAATAAATAAAGATAA
1 AAAATAAATAAAGATAA
*
3129122 AAAATAAAGGAAAG-TAA
1 AAAATAAA-TAAAGATAA
*
3129139 AACCA-AAATAAAGATAA
1 AA-AATAAATAAAGATAA
3129156 AAAA
1 AAAA
3129160 AATATTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
16 5 0.16
17 21 0.68
18 5 0.16
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.13
Consensus pattern (17 bp):
AAAATAAATAAAGATAA
Found at i:3129212 original size:10 final size:9
Alignment explanation
Indices: 3129188--3129221 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
3129178 TCTAATAAAT
3129188 AAAAAATAA
1 AAAAAATAA
3129197 AAAAAATAA
1 AAAAAATAA
*
3129206 ATGAAAATAA
1 A-AAAAATAA
3129216 AAAAAA
1 AAAAAA
3129222 AAACCTGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:3129222 original size:20 final size:20
Alignment explanation
Indices: 3129181--3129221 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
3129171 AACCTAATCT
3129181 AATAAATAAAAAATAAAAAA
1 AATAAATAAAAAATAAAAAA
*
3129201 AATAAAT-GAAAATAAAAAA
1 AATAAATAAAAAATAAAAAA
3129220 AA
1 AA
3129222 AAACCTGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (20 bp):
AATAAATAAAAAATAAAAAA
Found at i:3129514 original size:20 final size:20
Alignment explanation
Indices: 3129489--3129542 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
3129479 GGTGGAATTT
3129489 TCACCGGAATTTGGAAAATG
1 TCACCGGAATTTGGAAAATG
* * * *
3129509 TCACCGAAATCTGGGAAATT
1 TCACCGGAATTTGGAAAATG
* *
3129529 TCGCCGGAAGTTGG
1 TCACCGGAATTTGG
3129543 CCGAAATTTC
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (20 bp):
TCACCGGAATTTGGAAAATG
Found at i:3129714 original size:25 final size:25
Alignment explanation
Indices: 3129668--3129719 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
3129658 AATCTGGAAA
*
3129668 TTTCCCAGAAATTTCCAGAAAATTT
1 TTTCCCAAAAATTTCCAGAAAATTT
*
3129693 TTTCGCCAAAAATTTCTA-AAAATTT
1 TTTC-CCAAAAATTTCCAGAAAATTT
3129718 TT
1 TT
3129720 CCTCACTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAGAAAATTT
Found at i:3130214 original size:3 final size:3
Alignment explanation
Indices: 3130200--3130233 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
3130190 ATACATATAT
3130200 TAA TACA TAA TAA TAA TAA TAA TAA TAAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TA
3130234 CAATACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 23 0.79
4 6 0.21
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:3130609 original size:31 final size:32
Alignment explanation
Indices: 3130550--3130609 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
3130540 TATCATCTTT
* * * *
3130550 TTAAAATTATCAAATAAAAAATATATATGAAA
1 TTAAAATTATAAAAAAAAAAAAACATATGAAA
3130582 TTAAAATTA-AAAAAAAAAAAAACATATG
1 TTAAAATTATAAAAAAAAAAAAACATATG
3130610 GACCTCATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 15 0.62
32 9 0.38
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (32 bp):
TTAAAATTATAAAAAAAAAAAAACATATGAAA
Found at i:3134243 original size:20 final size:20
Alignment explanation
Indices: 3134212--3134262 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3134202 AAGTACGTAT
* * *
3134212 AAAATACGAAATATAATAAA
1 AAAATACAAAATACAAAAAA
*
3134232 AAGATACAAAATACAAAAAA
1 AAAATACAAAATACAAAAAA
3134252 AAAATACAAAA
1 AAAATACAAAA
3134263 AAAAAGTAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.14
Consensus pattern (20 bp):
AAAATACAAAATACAAAAAA
Found at i:3134262 original size:12 final size:13
Alignment explanation
Indices: 3134239--3134267 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3134229 AAAAAGATAC
3134239 AAAATACAAAAAA
1 AAAATACAAAAAA
3134252 AAAATACAAAAAA
1 AAAATACAAAAAA
3134265 AAA
1 AAA
3134268 GTAGAATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAATACAAAAAA
Found at i:3134394 original size:38 final size:39
Alignment explanation
Indices: 3134321--3134410 Score: 139
Period size: 38 Copynumber: 2.3 Consensus size: 39
3134311 CGGCACCACT
3134321 GCCACCACCCGTGCCACCAGACCCACCAGACCCTACACTA
1 GCCACCACCCGTGCCACCAGACCCACCAGACCCTACAC-A
* *
3134361 -CCGCCACCCGTGCCACCTGA-CCACCAGACCCTACACA
1 GCCACCACCCGTGCCACCAGACCCACCAGACCCTACACA
3134398 GCCACCACCCGTG
1 GCCACCACCCGTG
3134411 ATCGCCAGAC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
37 1 0.02
38 27 0.59
39 18 0.39
ACGTcount: A:0.24, C:0.53, G:0.14, T:0.08
Consensus pattern (39 bp):
GCCACCACCCGTGCCACCAGACCCACCAGACCCTACACA
Found at i:3134535 original size:12 final size:12
Alignment explanation
Indices: 3134518--3134543 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3134508 TACACCCGTA
3134518 CCGAGCCCCATG
1 CCGAGCCCCATG
3134530 CCGAGCCCCATG
1 CCGAGCCCCATG
3134542 CC
1 CC
3134544 CTTTCCCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.54, G:0.23, T:0.08
Consensus pattern (12 bp):
CCGAGCCCCATG
Found at i:3135910 original size:13 final size:13
Alignment explanation
Indices: 3135892--3135926 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
3135882 AAATTTTAAT
*
3135892 TTTAATTAAAAAA
1 TTTAATAAAAAAA
3135905 TTTAATAAAAAAA
1 TTTAATAAAAAAA
3135918 -TTAATAAAA
1 TTTAATAAAA
3135927 TTTTCAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TTTAATAAAAAAA
Found at i:3135913 original size:12 final size:12
Alignment explanation
Indices: 3135892--3135926 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
3135882 AAATTTTAAT
3135892 TTTAATTAAAAAA
1 TTTAA-TAAAAAA
3135905 TTTAATAAAAAA
1 TTTAATAAAAAA
*
3135917 ATTAATAAAA
1 TTTAATAAAA
3135927 TTTTCAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TTTAATAAAAAA
Found at i:3135935 original size:21 final size:20
Alignment explanation
Indices: 3135895--3135938 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
3135885 TTTTAATTTT
3135895 AATTAAAAAATTTAATAAAAA
1 AATTAAAAAATTT-ATAAAAA
*
3135916 AATTAATAAAATTT-TCAAAA
1 AATTAA-AAAATTTATAAAAA
3135936 AAT
1 AAT
3135939 ATGTCTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTAAAAAATTTATAAAAA
Found at i:3136262 original size:191 final size:194
Alignment explanation
Indices: 3135984--3136360 Score: 505
Period size: 191 Copynumber: 2.0 Consensus size: 194
3135974 GCATGACATA
* * *
3135984 ATTTTTTTACGAAAAGTAAATTTAGACCTCCCAAAGATGAGATTCTAAAAGTATTCCGAGTAAAG
1 ATTTTCTTACGAAAAATAAATTTAGACCTCCCAAAGATGAGATCCTAAAAGTATTCCGAGTAAAG
* * * ** *
3136049 ATGCTTTAAGAAATCTCTAGGTGA-AAAAGAATTCTTTTAATGTTACCAATGTACTGGAACATTT
66 ATACTCTAAGAAATCTCTAGGTGAGAAAA-AATTCTTCTAATGTTACCAACATACTGAAACATTT
*
3136113 TAAGAATTATTTAAATAAAAAGATTTTAATTTATTTTTCTCGAGAATAAATTTTTTTAACATGAC
130 TAAGAATTATTTAAATAAAAAGATTTTAATTTATTTTTCTCAAGAATAAATTTTTTTAACATGAC
* **
3136178 ATTTTCTTACGAAAAATAAATTTCAG-CCT-CCAAGGATGAGATCCT-ATGGTATTCCGAG-AAG
1 ATTTTCTTACGAAAAATAAATTT-AGACCTCCCAAAGATGAGATCCTAAAAGTATTCCGAGTAA-
* *
3136239 CGATAC-CTAAGAAATCTCTAGGTGAGAAAAAGTTCTTCTAATGTTACCAACATACTGAAACATT
64 AGATACTCTAAGAAATCTCTAGGTGAGAAAAAATTCTTCTAATGTTACCAACATACTGAAACATT
* * * * *
3136303 TTAAGAATTATTTCAATAAAAGGGTTTTGATTTATTTTTCTCAAGAATAATTTTTTTT
129 TTAAGAATTATTTAAATAAAAAGATTTTAATTTATTTTTCTCAAGAATAAATTTTTTT
3136361 TATGAATAAA
Statistics
Matches: 160, Mismatches: 20, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
191 101 0.63
192 19 0.12
193 14 0.09
194 24 0.15
195 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (194 bp):
ATTTTCTTACGAAAAATAAATTTAGACCTCCCAAAGATGAGATCCTAAAAGTATTCCGAGTAAAG
ATACTCTAAGAAATCTCTAGGTGAGAAAAAATTCTTCTAATGTTACCAACATACTGAAACATTTT
AAGAATTATTTAAATAAAAAGATTTTAATTTATTTTTCTCAAGAATAAATTTTTTTAACATGAC
Found at i:3136821 original size:15 final size:16
Alignment explanation
Indices: 3136792--3136824 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3136782 AGTCTTAATC
3136792 AATTTCTTAAATTTTT
1 AATTTCTTAAATTTTT
*
3136808 AATTT-TTAATTTTTT
1 AATTTCTTAAATTTTT
3136823 AA
1 AA
3136825 AAAAGGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTTCTTAAATTTTT
Found at i:3145688 original size:48 final size:48
Alignment explanation
Indices: 3145573--3146137 Score: 708
Period size: 47 Copynumber: 12.0 Consensus size: 48
3145563 TTGAGAGAAG
* * *
3145573 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCATTTTTC--
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* *
3145619 A--AGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * *
3145665 ATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGAGGA-ACTTTTTCAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
3145712 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* *
3145759 ATGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCATTTTCAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * * * *
3145807 ATGAGATTTTAAAGTCGTTGAGCCTCTGTTGAAAGGAG-CTTTTTTAG
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * *
3145854 ATGAGATTTTAAAGTTGTTGAGCTTCTACTGAAAGGAG-CTTTTTCAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * * *
3145901 ATGAAAATTTAAAGTTTTTTAGCCTCTGCTGAGAGGAGCCTTTTTC--
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
* * *
3145947 A--AGATTTTAAAGTTGTTGAACCTCTGATGAGAGGAGCCCTTTTCAA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
*
3145993 ATGAGATTTTAAAGTTGTTGAGTCTCTGCTGAGAGGAG-CTTTTTCAGA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCA-A
* * * * *
3146041 TTTTAAATTGTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAA
1 -ATGAGA-T-TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
*
3146092 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAG-CTTTTTCA
1 ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCA
3146138 GATTTTAAGT
Statistics
Matches: 448, Mismatches: 55, Indels: 31
0.84 0.10 0.06
Matches are distributed among these distances:
44 74 0.17
46 4 0.01
47 180 0.40
48 145 0.32
49 4 0.01
50 4 0.01
51 30 0.07
52 7 0.02
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (48 bp):
ATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAA
Found at i:3145790 original size:142 final size:142
Alignment explanation
Indices: 3145571--3146140 Score: 780
Period size: 142 Copynumber: 4.0 Consensus size: 142
3145561 TTTTGAGAGA
* *
3145571 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCATTTTTC-AA-G--ATTTTAAAGT
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCAAATGAAATTTTAAAGT
3145632 TGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGTTGTTGAGCCTCTACTGA
65 TGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGTTGTTGAGCCTCTACTGA
*
3145697 GAGGAACTTTTTC
130 GAGGAGCTTTTTC
*
3145710 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAGATTTTAAAGTT
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAAATTTTAAAGTT
* * ** *
3145775 GTTGAGCCTCTGTTGAGAGGAGCCATTTTCAAATGAGATTTTAAAGTCGTTGAGCCTCTGTTGAA
66 GTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGTTGTTGAGCCTCTACTGAG
*
3145840 AGGAGCTTTTTT
131 AGGAGCTTTTTC
* * * *
3145852 AGATGAGATTTTAAAGTTGTTGAGCTTCTACTGAAAGGAGCTTTTTCAAATGAAAATTTAAAGTT
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAAATTTTAAAGTT
* * * * *
3145917 TTTTAGCCTCTGCTGAGAGGAGCCTTTTTC--A--AGATTTTAAAGTTGTTGAACCTCTGA-TGA
66 GTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGTTGTTGAGCCTCT-ACTGA
*
3145977 GAGGAGCCCTTTTC
130 GAGGAG-CTTTTTC
* * * *
3145991 AAATGAGATTTTAAAGTTGTTGAGTCTCTGCTGAGAGGAGCTTTTTCAGATTTTAAATTGTTTAA
1 AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCA-A-ATGAAA-T-TTTAA
*
3146056 AGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGTTGTTGAGCCTCTGC
62 AGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGTTGTTGAGCCTCTAC
*
3146121 TGAGATGAGCTTTTTC
127 TGAGAGGAGCTTTTTC
3146137 AGAT
1 AGAT
3146141 TTTAAGTTTT
Statistics
Matches: 375, Mismatches: 41, Indels: 23
0.85 0.09 0.05
Matches are distributed among these distances:
138 36 0.10
139 89 0.24
140 3 0.01
141 4 0.01
142 167 0.45
143 35 0.09
145 1 0.00
146 9 0.02
147 31 0.08
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (142 bp):
AGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAATGAAATTTTAAAGTT
GTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGTTGTTGAGCCTCTACTGAG
AGGAGCTTTTTC
Found at i:3146065 original size:51 final size:49
Alignment explanation
Indices: 3145950--3146187 Score: 225
Period size: 48 Copynumber: 4.8 Consensus size: 49
3145940 CTTTTTCAAG
* * * * * *
3145950 ATTTTAAAGTTGTTGAACCTCTGATGAGAGGAGCCCTTTTCA-A-ATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAGATTTTAA
*
3145998 ATTTTAAAGTTGTTGAGTCTCTGCTGAGAGGAGCTTTTTCAGATTTTAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATTTTAA
* * * * *
3146047 ATTGTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCA-A-ATGAG
1 A-T-TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAGATTTTAA
*
3146097 ATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAGATTTTAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATTTTAA
* * * *
3146146 GTTTTCGAAAGTTGTCGAGCCTCAAG-TGAGAGGAGCATTTTC
1 ATTTT--AAAGTTGTTGAGCCTC-TGCTGAGAGGAGCTTTTTC
3146188 GATAAAAAAA
Statistics
Matches: 156, Mismatches: 24, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
47 14 0.09
48 61 0.39
49 10 0.06
50 4 0.03
51 59 0.38
52 8 0.05
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.37
Consensus pattern (49 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAGATTTTAA
Found at i:3146123 original size:99 final size:95
Alignment explanation
Indices: 3145571--3146181 Score: 668
Period size: 95 Copynumber: 6.4 Consensus size: 95
3145561 TTTTGAGAGA
* * * **
3145571 AGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCATTTTTC--A--AGATTTTAAAGT
1 AGATTAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGT
* *
3145632 TGTTGAGCCTCTGTTGAGAGGAGCCCTTTTC
66 TGTTGAGCCTCTGCTGAGAGGAG-CTTTTTC
* * * ** * * *
3145663 AAATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGAGGA-ACTTTTTCAGATGAGATTTTAAAGT
1 AGATTAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGT
3145727 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
66 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * * *
3145757 AAATGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCATTTTCAAATGAGATTTTAAAGT
1 AGATTAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGT
* * * *
3145822 CGTTGAGCCTCTGTTGAAAGGAGCTTTTTT
66 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * * ** * * * *
3145852 AGATGAGATTTTAAAGTTGTTGAGCTTCTACTGAAAGGAG-CTTTTTCAAATGAAAATTTAAAGT
1 AGATTAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGT
* *
3145916 TTTTTAGCCTCTGCTGAGAGGAGCCTTTTTC
66 TGTTGAGCCTCTGCTGAGAGGAG-CTTTTTC
* * *
3145947 --A--AGATTTTAAAGTTGTTGAACCTCTGATGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGT
1 AGATTAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGT
*
3146008 TGTTGAGTCTCTGCTGAGAGGAGCTTTTTC
66 TGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
3146038 AGATTTTAAATTGTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTA
1 AGA--TTAAA-T-TTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTA
*
3146103 AAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTC
62 AAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
* * *
3146137 AGATTTTAAGTTTTCGAAAGTTGTCGAGCCTCAAG-TGAGAGGAGC
1 AGA--TTAAATTTT--AAAGTTGTTGAGCCTC-TGTTGAGAGGAGC
3146182 ATTTTCGATA
Statistics
Matches: 451, Mismatches: 50, Indels: 29
0.85 0.09 0.05
Matches are distributed among these distances:
91 43 0.10
92 76 0.17
93 3 0.01
94 82 0.18
95 123 0.27
97 5 0.01
98 2 0.00
99 116 0.26
100 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (95 bp):
AGATTAAATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCCCTTTTCAAATGAGATTTTAAAGT
TGTTGAGCCTCTGCTGAGAGGAGCTTTTTC
Found at i:3146370 original size:19 final size:19
Alignment explanation
Indices: 3146320--3146398 Score: 106
Period size: 19 Copynumber: 4.2 Consensus size: 19
3146310 AAGTACATAT
*
3146320 AAAATATGAAATATAATAAA
1 AAAATATGAAATACAA-AAA
* **
3146340 AAGATACAAAATACAAAAA
1 AAAATATGAAATACAAAAA
3146359 AAAATATGAAATACAAAAA
1 AAAATATGAAATACAAAAA
3146378 AAAATATGAAATA-AAAAA
1 AAAATATGAAATACAAAAA
3146396 AAA
1 AAA
3146399 CAAAAAAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
18 8 0.15
19 32 0.62
20 12 0.23
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAATATGAAATACAAAAA
Found at i:3146379 original size:38 final size:38
Alignment explanation
Indices: 3146296--3146398 Score: 120
Period size: 38 Copynumber: 2.7 Consensus size: 38
3146286 TCAATTTATC
* * *
3146296 CAAAAAAAGATACAAAGTAC-ATATAAAATATGAAATA
1 CAAAAAAAGATACAAAATACAAAAAAAAATATGAAATA
*
3146333 TAATAAAAAGATACAAAATACAAAAAAAAATATGAAATA
1 CAA-AAAAAGATACAAAATACAAAAAAAAATATGAAATA
* **
3146372 CAAAAAAAAATATGAAATA-AAAAAAAA
1 CAAAAAAAGATACAAAATACAAAAAAAA
3146399 CAAAAAAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
37 10 0.18
38 29 0.52
39 17 0.30
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (38 bp):
CAAAAAAAGATACAAAATACAAAAAAAAATATGAAATA
Found at i:3146408 original size:19 final size:19
Alignment explanation
Indices: 3146386--3146424 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3146376 AAAAAATATG
3146386 AAATAAAAAAAAACAAAAA
1 AAATAAAAAAAAACAAAAA
* * *
3146405 AAATAGAACAGAACAAAAA
1 AAATAAAAAAAAACAAAAA
3146424 A
1 A
3146425 TCAATGATGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.82, C:0.08, G:0.05, T:0.05
Consensus pattern (19 bp):
AAATAAAAAAAAACAAAAA
Found at i:3146422 original size:26 final size:26
Alignment explanation
Indices: 3146374--3146424 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
3146364 ATGAAATACA
*
3146374 AAAAAAAATATGAAATAAAAAAAAAC
1 AAAAAAAATATGAAAGAAAAAAAAAC
*
3146400 AAAAAAAATA-GAACAGAACAAAAAA
1 AAAAAAAATATGAA-AGAAAAAAAAA
3146425 TCAATGATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.08
Consensus pattern (26 bp):
AAAAAAAATATGAAAGAAAAAAAAAC
Found at i:3147362 original size:13 final size:13
Alignment explanation
Indices: 3147344--3147375 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3147334 GACCGAGCCC
*
3147344 AACCGTCGGACCG
1 AACCGTCGAACCG
3147357 AACCGTCGAACCG
1 AACCGTCGAACCG
3147370 AACCGT
1 AACCGT
3147376 ACGTTGATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.38, G:0.25, T:0.09
Consensus pattern (13 bp):
AACCGTCGAACCG
Found at i:3148024 original size:11 final size:12
Alignment explanation
Indices: 3147996--3148029 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
3147986 AAATTTTAAT
3147996 TTTAATTAAAAAA
1 TTTAA-TAAAAAA
3148009 TTTAATAAAAAA
1 TTTAATAAAAAA
3148021 -TTAATAAAA
1 TTTAATAAAA
3148030 TTTTCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 7 0.33
13 5 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TTTAATAAAAAA
Found at i:3151291 original size:57 final size:56
Alignment explanation
Indices: 3151145--3151361 Score: 176
Period size: 52 Copynumber: 3.9 Consensus size: 56
3151135 ATGTAAATTT
* * * * *
3151145 TTTTATTTATTTTTCAAAAATCATTTTTAATTTTTTAAACCTTCTAATATATTGGTAA
1 TTTT-TTTATTTTTC-AAAATTATTTTTAAATTTTAAAACCTTTTAATATGTTGGTAA
** * * * *
3151203 -TAATTTACTTTT---ATTTTTTTTTAACTTTTAAAACCTTTTAATATGTTGGTAA
1 TTTTTTTATTTTTCAAAATTATTTTTAAATTTTAAAACCTTTTAATATGTTGGTAA
* *
3151255 TTTTTTTATTTTTCAAAAATTATTTTTAAATTTTAAAA-CATTTAATATGTTGATAAGA
1 TTTTTTTATTTTTC-AAAATTATTTTTAAATTTTAAAACCTTTTAATATGTTGGT-A-A
** * *
3151313 TTTTTTT-TACTTCATAATTATTTTTTAAAATTTTAAAACCTTTCAATAT
1 TTTTTTTATTTTTCAAAATTA-TTTTT-AAATTTTAAAACCTTTTAATAT
3151362 TTTGATGAGA
Statistics
Matches: 126, Mismatches: 23, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
52 33 0.26
53 9 0.07
56 28 0.22
57 29 0.23
58 19 0.15
59 8 0.06
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (56 bp):
TTTTTTTATTTTTCAAAATTATTTTTAAATTTTAAAACCTTTTAATATGTTGGTAA
Found at i:3151317 original size:56 final size:57
Alignment explanation
Indices: 3151219--3151377 Score: 171
Period size: 56 Copynumber: 2.8 Consensus size: 57
3151209 ACTTTTATTT
* * * **
3151219 TTTTTTAACTTTTAAAACCTTTTAATATGTTGGTAATTTTTTTATTT-TTCAAAAATTA
1 TTTTTTAAATTTTAAAA-CATTTAATATGTTGATAAGATTTTTATTTATTC-AAAATTA
*
3151277 -TTTTTAAATTTTAAAACATTTAATATGTTGATAAGATTTTT-TTTACTTCATAATTA
1 TTTTTTAAATTTTAAAACATTTAATATGTTGATAAGATTTTTATTTA-TTCAAAATTA
* * *
3151333 TTTTTTAAAATTTTAAAACCTTTCAATATTTTGATGAGATTTTTA
1 TTTTTT-AAATTTTAAAACATTT-AATATGTTGATAAGATTTTTA
3151378 AATAAAACAA
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
55 3 0.03
56 27 0.31
57 23 0.27
58 15 0.17
59 18 0.21
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (57 bp):
TTTTTTAAATTTTAAAACATTTAATATGTTGATAAGATTTTTATTTATTCAAAATTA
Found at i:3151373 original size:59 final size:58
Alignment explanation
Indices: 3151219--3151376 Score: 180
Period size: 57 Copynumber: 2.7 Consensus size: 58
3151209 ACTTTTATTT
* * **
3151219 TTTTTTAACTTTTAAAACCTTTTAATATGTTGGTA-ATTTTTTTATTTTTCAAAAATTA
1 TTTTTTAAATTTTAAAACC-TTTAATATGTTGATAGATTTTTTTATACTTCAAAAATTA
* *
3151277 -TTTTTAAATTTTAAAACATTTAATATGTTGATAAGATTTTTTT-TACTTC-ATAATTA
1 TTTTTTAAATTTTAAAACCTTTAATATGTTGAT-AGATTTTTTTATACTTCAAAAATTA
*
3151333 TTTTTTAAAATTTTAAAACCTTTCAATATTTTGATGAGATTTTT
1 TTTTTT-AAATTTTAAAACCTTT-AATATGTTGAT-AGATTTTT
3151377 AAATAAAACA
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
56 19 0.22
57 26 0.30
58 23 0.27
59 18 0.21
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (58 bp):
TTTTTTAAATTTTAAAACCTTTAATATGTTGATAGATTTTTTTATACTTCAAAAATTA
Found at i:3151573 original size:470 final size:464
Alignment explanation
Indices: 3150497--3151763 Score: 1551
Period size: 470 Copynumber: 2.7 Consensus size: 464
3150487 TAAATATACC
* * * * *
3150497 TTATTCTAATCTTTATTCCATGTTGTATTATACCTTTATTACTAATTAGGTTAAACCTTTGCTTT
1 TTATTCTAATCTTTATTCCATATTGAATTATACCTTTACTACTAGTTAGGTTAAACCTTTGCATT
* * * *
3150562 TTGTGCCTCAACAAATAATTCATTATGCTTCAAATTTGAAGGTTGATGAGATACATTGTACAAAG
66 TTGTGCCTCAACAAGTAATTCATTATGCTTCAAGTTTGAAGGTTGATGAGGTGCATTGTACAAAG
*
3150627 TAAGCATTGACCTCAGAAAACAAACATTGTAAAAATCACTTTTATGT-AATTTTTTTATTTA-TT
131 TAAGCATTGACCTCAGAAAACAAACTTTGTAAAAATCA-TTTTATGTAAATTTTTTTATTTATTT
* * * *
3150690 TTCAAAAGTTATTTTTAAATCTCTAAACCTTTTAATATATTGATAATGTTTTATTTTTATTTTTC
195 TTCAAAAATCATTTTTAAATTTTTAAACCTTTTAATATATTGATAATGTTTTA-TTTTATTTTTC
*
3150755 TTAAATTTTAAAACTTTTCAATATGTTGAT-TTTTTTTTATTTTTCAAAAATCATTTTTAAATTT
259 TTAAATTTTAAAACTTTT-AATATGTTGATAATTTTTTTATTTTTCAAAAATCATTTTTAAATTT
* * * * *
3150819 TAAAATATTTAATATGTTGGTAAGATTTTTTTTATTTTATGATCATTTTTTAAAATTTAAAACCT
323 TAAAACATTTAATATGTTGATAAGATTTTTTTTACTTCATAATCATTTTTTAAAATTTAAAACCT
* * * *
3150884 TCCAATATTTTGGTGAGGTTTCTAAATAAAACAACTGATTTCTTTTACATTAATTTTTTTTCCAT
388 TCCAATATTTTGATGAGATTTCTAAATAAAACAACTAATGTCTTTTACATTAATTTTTTTTCCAT
* *
3150949 TTAAGTTATATT
453 GTAAGTTATAAT
* * *
3150961 TTATTCTGATCTTTATTCCATATTGAATTATACCTTTACTACTTGTTAGGTTAAACCTTTGTATG
1 TTATTCTAATCTTTATTCCATATTGAATTATACCTTTACTACTAGTTAGGTTAAACCTTTGCAT-
* * ** * * ** *
3151026 TTGGTTCCTTGACAAGTAATTTATCATGCTTCCGGTTTGAAGGTTGACGAGGTGCATTGTACAAA
65 TTTGTGCCTCAACAAGTAATTCATTATGCTTCAAGTTTGAAGGTTGATGAGGTGCATTGTACAAA
*
3151091 GTAAGCATTGACCTCAAAAAACAAACTTTGTAAAAATCATTTCTATGTAAATTTTTTTATTTATT
130 GTAAGCATTGACCTCAGAAAACAAACTTTGTAAAAATCATTT-TATGTAAATTTTTTTATTTATT
* * * **
3151156 TTTCAAAAATCATTTTTAATTTTTTAAACCTTCTAATATATTGGTAATAATTTACTTTTATTTTT
194 TTTCAAAAATCATTTTTAAATTTTTAAACCTTTTAATATATTGATAATGTTTTA-TTTTA-TTTT
* * * *
3151221 TTTTAACTTTTAAAACCTTTTAATATGTTGGTAATTTTTTTATTTTTCAAAAATTATTTTTAAAT
257 TCTTAAATTTTAAAA-CTTTTAATATGTTGATAATTTTTTTATTTTTCAAAAATCATTTTTAAAT
*
3151286 TTTAAAACATTTAATATGTTGATAAGATTTTTTTTACTTCATAATTATTTTTTAAAATTTTAAAA
321 TTTAAAACATTTAATATGTTGATAAGATTTTTTTTACTTCATAATCATTTTTTAAAA-TTTAAAA
* * *
3151351 CCTTTCAATATTTTGATGAGATTTTTAAATAAAACAA-TCAATGTCTTTTATATTAATATTCTTT
385 CCTTCCAATATTTTGATGAGATTTCTAAATAAAACAACT-AATGTCTTTTACATTAAT-TT-TTT
3151415 TT-CATGTAAGTTATAAT
447 TTCCATGTAAGTTATAAT
* * ** * * * *
3151432 TTATTCTAATCTTTATTCCACATTGAATCATATTTTTACTACTAGCTAGATTAAACCATCGCATT
1 TTATTCTAATCTTTATTCCATATTGAATTATACCTTTACTACTAGTTAGGTTAAACCTTTGCATT
* * * * * **
3151497 TTGATGCCTCAACAAGGAATTCATTATGTTTCAAGTTTAAAGGGTGATAAGGTGCATCAT-CAAA
66 TTG-TGCCTCAACAAGTAATTCATTATGCTTCAAGTTTGAAGGTTGATGAGGTGCATTGTACAAA
* ** * * *
3151561 GTAAGCATTGACCTTAGAAAACAAA-TCTTACAAAAATCATTTTTATCTAAATTCTTTTATTTCT
130 GTAAGCATTGACCTCAGAAAACAAACT-TTGTAAAAATCA-TTTTATGTAAATTTTTTTATTTAT
** * * **
3151625 TTGCCAAAAATGATTTTTAAATTTTTAAGA-CTTTTAATATGTTGATAATGTTTTATTACCATTT
193 TTTTCAAAAATCATTTTTAAATTTTTAA-ACCTTTTAATATATTGATAATGTTTTATT-TTATTT
* * * * *
3151689 TTCTTAAATTTTAAAATCTTTCAATATGTAGATAAGTTTTTTTTTTTTTCAAAAACCATTTTTAG
256 TTCTTAAATTTTAAAA-CTTTTAATATGTTGATAA-TTTTTTTATTTTTCAAAAATCATTTTTAA
3151754 ATTTTAAAAC
319 ATTTTAAAAC
3151764 CTTATAAAGA
Statistics
Matches: 678, Mismatches: 108, Indels: 28
0.83 0.13 0.03
Matches are distributed among these distances:
464 59 0.09
465 94 0.14
466 14 0.02
467 51 0.08
468 27 0.04
469 122 0.18
470 193 0.28
471 113 0.17
472 5 0.01
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (464 bp):
TTATTCTAATCTTTATTCCATATTGAATTATACCTTTACTACTAGTTAGGTTAAACCTTTGCATT
TTGTGCCTCAACAAGTAATTCATTATGCTTCAAGTTTGAAGGTTGATGAGGTGCATTGTACAAAG
TAAGCATTGACCTCAGAAAACAAACTTTGTAAAAATCATTTTATGTAAATTTTTTTATTTATTTT
TCAAAAATCATTTTTAAATTTTTAAACCTTTTAATATATTGATAATGTTTTATTTTATTTTTCTT
AAATTTTAAAACTTTTAATATGTTGATAATTTTTTTATTTTTCAAAAATCATTTTTAAATTTTAA
AACATTTAATATGTTGATAAGATTTTTTTTACTTCATAATCATTTTTTAAAATTTAAAACCTTCC
AATATTTTGATGAGATTTCTAAATAAAACAACTAATGTCTTTTACATTAATTTTTTTTCCATGTA
AGTTATAAT
Found at i:3158270 original size:169 final size:167
Alignment explanation
Indices: 3158048--3158393 Score: 435
Period size: 169 Copynumber: 2.1 Consensus size: 167
3158038 ACTAGCTAGG
* * *** *
3158048 TTAAACCTTTGCATTTAGGTGCCTCAACAAGTAATTCATTACGCTTCAAGTTTGAAGGTTGATGA
1 TTAAACCTTTGCATTTAGGTACCTCAACAAGTAATTAATTACGCTTCAAGTTTGAACACTGATAA
* * *** * * * * *
3158113 GGTGCATGATACCATGTAAGCT-TTGACTTCAAAAAACAAGCCTTGCAAAATTC-ATTTTTATGT
66 GGTGCATCATACAAAACAAG-TATTCACCTCAAAAAACAAACCTTGCAAAAATCAATTTTTAAGT
3158176 AATTTTTTTAATTTATTTTCCAAAAATCATTTTTAAATTT
130 AA-TTTTTT-ATTTATTTTCCAAAAATCATTTTTAAATTT
* *
3158216 TTAAACCTTTGCATTTTGGTACCTCATACAAGTAATTAATTATGCTTCAAGTTTGAACACTGATA
1 TTAAACCTTTGCATTTAGGTACCTCA-ACAAGTAATTAATTACGCTTCAAGTTTGAACACTGATA
* *
3158281 AGGTGCATCATAGAAAACAAGTATTCACCTCAAAAAACAAACCTTGTAAAAATCAATTTTTAAGT
65 AGGTGCATCATACAAAACAAGTATTCACCTCAAAAAACAAACCTTGCAAAAATCAATTTTTAAGT
* *
3158346 AATTTTTTATTTGTTTTCTAAAAATCATTTTTAAATTT
130 AATTTTTTATTTATTTTCCAAAAATCATTTTTAAATTT
*
3158384 TCAAACCTTT
1 TTAAACCTTT
3158394 AAATATGTTT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
168 62 0.41
169 79 0.52
170 11 0.07
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (167 bp):
TTAAACCTTTGCATTTAGGTACCTCAACAAGTAATTAATTACGCTTCAAGTTTGAACACTGATAA
GGTGCATCATACAAAACAAGTATTCACCTCAAAAAACAAACCTTGCAAAAATCAATTTTTAAGTA
ATTTTTTATTTATTTTCCAAAAATCATTTTTAAATTT
Found at i:3158467 original size:47 final size:48
Alignment explanation
Indices: 3158376--3158468 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 48
3158366 AAAATCATTT
* * *
3158376 TTAAATTTTCAAACCTTTAAATATGTTTGTAAGGTTTTATTTTTTCTC
1 TTAAATTTTCAAACATTTAAATATGTTCGTAAGATTTTATTTTTTCTC
* *
3158424 TTAAA-TTTCAAAACATTTCAATATGTTCGTAA-ATTTTTTTTTTTC
1 TTAAATTTTC-AAACATTTAAATATGTTCGTAAGATTTTATTTTTTC
3158469 AAAAATCATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
47 15 0.38
48 24 0.62
ACGTcount: A:0.29, C:0.11, G:0.06, T:0.54
Consensus pattern (48 bp):
TTAAATTTTCAAACATTTAAATATGTTCGTAAGATTTTATTTTTTCTC
Found at i:3162570 original size:51 final size:54
Alignment explanation
Indices: 3162442--3162572 Score: 135
Period size: 52 Copynumber: 2.5 Consensus size: 54
3162432 CTCAAATCTG
* * * *** * *
3162442 AGACTTTTTCTATGAGAAAAACCCATTGTTCCATTTTTGCTAGTTTTAAATTCA
1 AGACCTTTTCTATAAGAAAAACCGATCAATCCATTTTTGCCAGCTTTAAATTCA
* * *
3162496 AGACCATTT-TATAAGAAACACCGATCAATCCA-TTTTGCCAGCTTTAAATTTA
1 AGACCTTTTCTATAAGAAAAACCGATCAATCCATTTTTGCCAGCTTTAAATTCA
3162548 A-A-CTTTTCTATAAGAAAAACCGATC
1 AGACCTTTTCTATAAGAAAAACCGATC
3162573 GATTTCTTCT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
50 4 0.06
51 17 0.27
52 18 0.29
53 17 0.27
54 7 0.11
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (54 bp):
AGACCTTTTCTATAAGAAAAACCGATCAATCCATTTTTGCCAGCTTTAAATTCA
Found at i:3166221 original size:33 final size:33
Alignment explanation
Indices: 3166179--3166245 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
3166169 ATGCTGGAGA
3166179 ACGACAGGGTAGTTGGGGAAGGTGATTCTTCGT
1 ACGACAGGGTAGTTGGGGAAGGTGATTCTTCGT
*
3166212 ACGACAGGGTAGTTGGGGAATGTGATTCTTCGT
1 ACGACAGGGTAGTTGGGGAAGGTGATTCTTCGT
3166245 A
1 A
3166246 AAGTTAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.12, G:0.37, T:0.28
Consensus pattern (33 bp):
ACGACAGGGTAGTTGGGGAAGGTGATTCTTCGT
Found at i:3170909 original size:28 final size:28
Alignment explanation
Indices: 3170869--3170924 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
3170859 AAAAATTCAT
3170869 TATAAAAGTAATGATATTACACTTAAGG
1 TATAAAAGTAATGATATTACACTTAAGG
3170897 TATAAAAGTAATGATATTACACTTAAGG
1 TATAAAAGTAATGATATTACACTTAAGG
3170925 CTTATGGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.32
Consensus pattern (28 bp):
TATAAAAGTAATGATATTACACTTAAGG
Found at i:3178555 original size:19 final size:18
Alignment explanation
Indices: 3178533--3178568 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
3178523 GAAAATTGAA
3178533 AAAATAAAAAATAAAAAGG
1 AAAATAAAAAA-AAAAAGG
*
3178552 AAAATAAAGAAAAAAAG
1 AAAATAAAAAAAAAAAG
3178569 AGAGAGAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.08
Consensus pattern (18 bp):
AAAATAAAAAAAAAAAGG
Found at i:3178899 original size:18 final size:20
Alignment explanation
Indices: 3178856--3178899 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
3178846 AACAAGAATA
* *
3178856 AATAGTAATTAGTTTGTTGG
1 AATAATAATTAGTTTGTTGC
3178876 AATAATAATTAGTTT-TT-C
1 AATAATAATTAGTTTGTTGC
3178894 AATAAT
1 AATAAT
3178900 TAAAACATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 2 0.09
20 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (20 bp):
AATAATAATTAGTTTGTTGC
Found at i:3179169 original size:13 final size:14
Alignment explanation
Indices: 3179144--3179172 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3179134 AAAAATCCTA
3179144 TAAATACTTAAATT
1 TAAATACTTAAATT
3179158 TAAATA-TTAAATT
1 TAAATACTTAAATT
3179171 TA
1 TA
3179173 TTAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAATACTTAAATT
Found at i:3179558 original size:30 final size:30
Alignment explanation
Indices: 3179524--3179584 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
3179514 GAAATGAGAC
*
3179524 AAGTTAAATCCAATGATTATGTTTTTGAAT
1 AAGTTAAATCCAATGATTATATTTTTGAAT
3179554 AAGTTAAATCCAATGATTATATTTTTGAAT
1 AAGTTAAATCCAATGATTATATTTTTGAAT
3179584 A
1 A
3179585 TCATTGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (30 bp):
AAGTTAAATCCAATGATTATATTTTTGAAT
Found at i:3181855 original size:25 final size:25
Alignment explanation
Indices: 3181827--3181874 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
3181817 AACAACTCTT
*
3181827 GTGTTATACTAAAAGAACTTAGTAG
1 GTGTTATACTAAAAAAACTTAGTAG
3181852 GTGTTATACTAAAAAAACTTAGT
1 GTGTTATACTAAAAAAACTTAGT
3181875 TATGTCAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (25 bp):
GTGTTATACTAAAAAAACTTAGTAG
Found at i:3186236 original size:17 final size:17
Alignment explanation
Indices: 3186186--3186236 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
3186176 CCAACAAGCT
*
3186186 TATTTTCATGCCATGAT
1 TATTTTCATGCCATGAA
3186203 TATTTTCATGCCATGAA
1 TATTTTCATGCCATGAA
*
3186220 TATTTTTATGCCATGAA
1 TATTTTCATGCCATGAA
3186237 GACATGTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (17 bp):
TATTTTCATGCCATGAA
Found at i:3195546 original size:114 final size:115
Alignment explanation
Indices: 3195285--3195556 Score: 260
Period size: 114 Copynumber: 2.4 Consensus size: 115
3195275 TTTATTTTTA
* * * * * * *
3195285 AAAAGTCTTTAATTATGACATTTTATTTAATATAAACACATTAATTATTATTTTTTCTCAATTAA
1 AAAACTCTTCAATTAAGACATTTGA-TTAATATAAACACCTTAATTACTATTTTTTCTCAATGAA
* * * *
3195350 GGCATTTGTTTAATATGAATACCTTAATTGAGATTGTTCGATGAATCCAAG
65 GGCATTTATTTAAGATGAATACATTAATTGAGATTGTTCAATGAATCCAAG
* *** * * *
3195401 AAAACTCCTCAATTAAGGTGTTTG-TCCAATATAAACACCTTAATTGCT-TTTTTTCTTAATGAA
1 AAAACTCTTCAATTAAGACATTTGAT-TAATATAAACACCTTAATTACTATTTTTTCTCAATGAA
* * * * * *
3195464 GGCGTTTATTTAGGATGAATATATTAATTGAGATTGTTTAATGAATCTAGG
65 GGCATTTATTTAAGATGAATACATTAATTGAGATTGTTCAATGAATCCAAG
* ** *
3195515 ATATTTCTTCAATTAAGACATTTGATTAATATAAACGCCTTA
1 AAAACTCTTCAATTAAGACATTTGATTAATATAAACACCTTA
3195557 GTTGATAATA
Statistics
Matches: 121, Mismatches: 33, Indels: 6
0.76 0.21 0.04
Matches are distributed among these distances:
114 86 0.71
115 19 0.16
116 16 0.13
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (115 bp):
AAAACTCTTCAATTAAGACATTTGATTAATATAAACACCTTAATTACTATTTTTTCTCAATGAAG
GCATTTATTTAAGATGAATACATTAATTGAGATTGTTCAATGAATCCAAG
Found at i:3197258 original size:61 final size:60
Alignment explanation
Indices: 3197191--3197410 Score: 252
Period size: 60 Copynumber: 3.6 Consensus size: 60
3197181 TATTTTAAGG
*
3197191 AAAATTGATACTTTCAACTTTTCCTCAAAATACTTTTTTTTTTGAAATTTTAATTTAAAAA
1 AAAATTGATACTTTCAACTTTTTCTCAAAATA-TTTTTTTTTTGAAATTTTAATTTAAAAA
* * *
3197252 AAAATTGATACTTTCAACTTTTTATCAAAAAACCTTTTTTTTT-AAATTTTAATTTAAAAA
1 AAAATTGATACTTTCAACTTTTTCTCAAAATA-TTTTTTTTTTGAAATTTTAATTTAAAAA
* * * * *
3197312 AAAATTGATACTTTTAA-TTTCTTTTCAAAA-ATATTTTTTTTGATAATTTT-ATTTTAAGA
1 AAAATTGATACTTTCAACTTT-TTCTCAAAATATTTTTTTTTTGA-AATTTTAATTTAAAAA
* *
3197371 AAAATT-AGTACTTCCAATTTTTTCTCAAAAATATTTTTTT
1 AAAATTGA-TACTTTCAACTTTTTCTC-AAAATATTTTTTT
3197411 ATATTTTTAT
Statistics
Matches: 138, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
58 9 0.07
59 29 0.21
60 54 0.39
61 46 0.33
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.50
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTTTTTGAAATTTTAATTTAAAAA
Found at i:3197327 original size:32 final size:32
Alignment explanation
Indices: 3197230--3197328 Score: 89
Period size: 30 Copynumber: 3.2 Consensus size: 32
3197220 ATACTTTTTT
3197230 TTTTGAAATTTTAATTTAAAAAAAAATTGATAC
1 TTTT-AAATTTTAATTTAAAAAAAAATTGATAC
* * * * ** **
3197263 TTTCAACTTTT--TATCAAAAAACCTT--TTT
1 TTTTAAATTTTAATTTAAAAAAAAATTGATAC
3197291 TTTTAAATTTTAATTTAAAAAAAAATTGATAC
1 TTTTAAATTTTAATTTAAAAAAAAATTGATAC
3197323 TTTTAA
1 TTTTAA
3197329 TTTCTTTTCA
Statistics
Matches: 46, Mismatches: 16, Indels: 9
0.65 0.23 0.13
Matches are distributed among these distances:
28 10 0.22
30 20 0.43
32 13 0.28
33 3 0.07
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (32 bp):
TTTTAAATTTTAATTTAAAAAAAAATTGATAC
Found at i:3197492 original size:21 final size:20
Alignment explanation
Indices: 3197454--3197492 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3197444 AAATACTTTA
*
3197454 AAAAAAACAAACACATAAAT
1 AAAAAAACAAAAACATAAAT
*
3197474 AAAAAAACTAAAAATATAA
1 AAAAAAAC-AAAAACATAA
3197493 TAATAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (20 bp):
AAAAAAACAAAAACATAAAT
Found at i:3198088 original size:15 final size:15
Alignment explanation
Indices: 3198068--3198098 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3198058 CTATTTTCTT
3198068 TTTTTTTTCTGTGTA
1 TTTTTTTTCTGTGTA
3198083 TTTTTTTTCTGTGTA
1 TTTTTTTTCTGTGTA
3198098 T
1 T
3198099 CTATGGATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.13, T:0.74
Consensus pattern (15 bp):
TTTTTTTTCTGTGTA
Found at i:3198535 original size:44 final size:44
Alignment explanation
Indices: 3198481--3198861 Score: 341
Period size: 44 Copynumber: 8.8 Consensus size: 44
3198471 TAGAGTGAAC
3198481 AAATAGAGGCTCAACAACTTTTAAAAAATAAACAAAGCTCCTCT
1 AAATAGAGGCTCAACAACTTTTAAAAAATAAACAAAGCTCCTCT
* ** * *
3198525 AAACAGAGGCTCAATGACTTTTAAAAAATAAACAAGGCTCTTCT
1 AAATAGAGGCTCAACAACTTTTAAAAAATAAACAAAGCTCCTCT
* ** *
3198569 AATTAGAGGCTCAATGACTTTT-AAAAATAAAACAAAGCTCCTTT
1 AAATAGAGGCTCAACAACTTTTAAAAAAT-AAACAAAGCTCCTCT
** * * *
3198613 AAATAGAAACTCAACAAC-TTTGAAAAATAAAATAAAAGCTCATCT
1 AAATAGAGGCTCAACAACTTTTAAAAAAT-AAA-CAAAGCTCCTCT
* * * *
3198658 AAATAGAGGCTCAACGACTTTGAAAAAATAAATAAAGCTCCTTT
1 AAATAGAGGCTCAACAACTTTTAAAAAATAAACAAAGCTCCTCT
** *
3198702 AAATAGAGGCTCAATGACTTTGAAAAAATAAACAAAGCTCCTCT
1 AAATAGAGGCTCAACAACTTTTAAAAAATAAACAAAGCTCCTCT
* * * * * *
3198746 AAACAGAGCCACCACAAC-TTTGAAAAAT-AA-AATGCTCCTCT
1 AAATAGAGGCTCAACAACTTTTAAAAAATAAACAAAGCTCCTCT
* *
3198787 AAATAGAGG-T-AACCATAAC-TTTAAAAAAT-AA-AATGCTTCTCT
1 AAATAGAGGCTCAA-C--AACTTTTAAAAAATAAACAAAGCTCCTCT
* * * *
3198829 AAACAGAGGCACCATAACTTTTAAAAAATAAAC
1 AAATAGAGGCTCAACAACTTTTAAAAAATAAAC
3198862 TGCTCTTTTA
Statistics
Matches: 277, Mismatches: 48, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 20 0.07
42 44 0.16
43 19 0.07
44 157 0.57
45 27 0.10
46 8 0.03
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (44 bp):
AAATAGAGGCTCAACAACTTTTAAAAAATAAACAAAGCTCCTCT
Found at i:3198677 original size:133 final size:133
Alignment explanation
Indices: 3198481--3198778 Score: 388
Period size: 133 Copynumber: 2.2 Consensus size: 133
3198471 TAGAGTGAAC
* * * * *
3198481 AAATAGAGGCTCAACAACTTTTAAAAA-ATAAA-CAAAGCTCCTCTAAACAGAGGCTCAATGACT
1 AAATAGAGACTCAACAACTTTGAAAAATA-AAATAAAAGCTCATCTAAACAGAGGCTCAACGACT
* * * *
3198544 TTTAAAAAATAAACAAGGCT-CTTCTAATTAGAGGCTCAATGACTTT-TAAAAATAAAACAAAGC
65 TTGAAAAAATAAACAAAGCTCCTT-TAAATAGAGGCTCAATGACTTTGAAAAAAT-AAACAAAGC
*
3198607 TCCTTT
128 TCCTCT
* *
3198613 AAATAGAAACTCAACAACTTTGAAAAATAAAATAAAAGCTCATCTAAATAGAGGCTCAACGACTT
1 AAATAGAGACTCAACAACTTTGAAAAATAAAATAAAAGCTCATCTAAACAGAGGCTCAACGACTT
*
3198678 TGAAAAAATAAATAAAGCTCCTTTAAATAGAGGCTCAATGACTTTGAAAAAATAAACAAAGCTCC
66 TGAAAAAATAAACAAAGCTCCTTTAAATAGAGGCTCAATGACTTTGAAAAAATAAACAAAGCTCC
3198743 TCT
131 TCT
* * * *
3198746 AAACAGAGCCACCACAACTTTGAAAAATAAAAT
1 AAATAGAGACTCAACAACTTTGAAAAATAAAAT
3198779 GCTCCTCTAA
Statistics
Matches: 144, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
132 27 0.19
133 108 0.75
134 9 0.06
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (133 bp):
AAATAGAGACTCAACAACTTTGAAAAATAAAATAAAAGCTCATCTAAACAGAGGCTCAACGACTT
TGAAAAAATAAACAAAGCTCCTTTAAATAGAGGCTCAATGACTTTGAAAAAATAAACAAAGCTCC
TCT
Found at i:3198787 original size:41 final size:41
Alignment explanation
Indices: 3198626--3198909 Score: 217
Period size: 42 Copynumber: 6.6 Consensus size: 41
3198616 TAGAAACTCA
* * * *
3198626 ACAACTTTGAAAAATAAAATAAAAGCTCATCTAAATAGAGGCTCA
1 ACAACTTTGAAAAATAAAAT----GCTCCTCTAAACAGAGGCACC
* * * * * *
3198671 ACGACTTTGAAAAAATAAATAAAGCTCCTTTAAATAGAGGCTCA
1 ACAACTTTG-AAAAAT-AA-AATGCTCCTCTAAACAGAGGCACC
** * *
3198715 ATGACTTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGCCACC
1 ACAACTTTG-AAAAAT-AA-AATGCTCCTCTAAACAGAGGCACC
* *
3198759 ACAACTTTGAAAAATAAAATGCTCCTCTAAATAGAGGTAACC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAACAGAGG-CACC
* * *
3198801 ATAACTTTAAAAAATAAAATGCTTCTCTAAACAGAGGCACC
1 ACAACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACC
* * * * * *
3198842 ATAACTTTTAAAAAATAAACTGCTCTTTTAAACAAAGGCACC
1 ACAAC-TTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACC
* *
3198884 ACAACTTTGGAAAATAAATTGCTCCT
1 ACAACTTTGAAAAATAAAATGCTCCT
3198910 TGACGATTAT
Statistics
Matches: 202, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
41 42 0.21
42 73 0.36
43 6 0.03
44 63 0.31
45 8 0.04
46 6 0.03
47 2 0.01
48 2 0.01
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (41 bp):
ACAACTTTGAAAAATAAAATGCTCCTCTAAACAGAGGCACC
Found at i:3198874 original size:42 final size:42
Alignment explanation
Indices: 3198496--3198909 Score: 215
Period size: 44 Copynumber: 9.6 Consensus size: 42
3198486 GAGGCTCAAC
* * *
3198496 AACTTTTAAAAAATAAACAAAGCTCCTCTAAACAGAGGCTCAAT
1 AACTTTTAAAAAAT-AA-AATGCTCCTCTAAACAGAGGCACCAT
* * * ** * *
3198540 GACTTTTAAAAAATAAACAAGGCTCTTCTAATTAGAGGCTCAAT
1 AACTTTTAAAAAAT-AA-AATGCTCCTCTAAACAGAGGCACCAT
* * * * * ** * * *
3198584 GACTTTTAAAAATAAAACAAAGCTCCTTTAAATAGAAACTCAAC
1 AACTTTTAAAAA-ATAA-AATGCTCCTCTAAACAGAGGCACCAT
* * * * * *
3198628 AAC-TTTGAAAAATAAAATAAAAGCTCATCTAAATAGAGGCTCAAC
1 AACTTTTAAAAAATAAAAT----GCTCCTCTAAACAGAGGCACCAT
* * * * * * *
3198673 GACTTTGAAAAAATAAATAAAGCTCCTTTAAATAGAGGCTCAAT
1 AACTTTTAAAAAAT-AA-AATGCTCCTCTAAACAGAGGCACCAT
* * * * *
3198717 GACTTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGCCACCAC
1 AACTTTTAAAAAAT-AA-AATGCTCCTCTAAACAGAGGCACCAT
* * *
3198761 AAC-TTTGAAAAATAAAATGCTCCTCTAAATAGAGGTAACCAT
1 AACTTTTAAAAAATAAAATGCTCCTCTAAACAGAGG-CACCAT
*
3198803 AAC-TTTAAAAAATAAAATGCTTCTCTAAACAGAGGCACCAT
1 AACTTTTAAAAAATAAAATGCTCCTCTAAACAGAGGCACCAT
* * * * *
3198844 AACTTTTAAAAAATAAACTGCTCTTTTAAACAAAGGCACCAC
1 AACTTTTAAAAAATAAAATGCTCCTCTAAACAGAGGCACCAT
** *
3198886 AAC-TTTGGAAAATAAATTGCTCCT
1 AACTTTTAAAAAATAAAATGCTCCT
3198910 TGACGATTAT
Statistics
Matches: 303, Mismatches: 57, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
41 44 0.15
42 76 0.25
43 15 0.05
44 134 0.44
45 22 0.07
46 8 0.03
47 2 0.01
48 2 0.01
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.25
Consensus pattern (42 bp):
AACTTTTAAAAAATAAAATGCTCCTCTAAACAGAGGCACCAT
Found at i:3198890 original size:83 final size:83
Alignment explanation
Indices: 3198718--3198909 Score: 206
Period size: 83 Copynumber: 2.3 Consensus size: 83
3198708 AGGCTCAATG
* *
3198718 ACTTTGAAAAAATAAACAAAGCTCCTCTAAACAGAGCCACCACAACTTTGAAAAATAAAATGCTC
1 ACTTT-AAAAAAT-AA-AATGCTCCTCTAAACAGAGCCACCACAACTTTAAAAAATAAAATGCTC
* * *
3198783 CTCTAAATAGAGGTAACCATA
63 CTCTAAACAAAGGTAACCACA
* * * * *
3198804 ACTTTAAAAAATAAAATGCTTCTCTAAACAGAGGCACCATAACTTTTAAAAAATAAACTGCTCTT
1 ACTTTAAAAAATAAAATGCTCCTCTAAACAGAGCCACCACAAC-TTTAAAAAATAAAATGCTCCT
* *
3198869 TTAAACAAAGG-CACCACA
65 CTAAACAAAGGTAACCACA
** *
3198887 ACTTTGGAAAATAAATTGCTCCT
1 ACTTTAAAAAATAAAATGCTCCT
3198910 TGACGATTAT
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
83 49 0.55
84 28 0.31
85 7 0.08
86 5 0.06
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.24
Consensus pattern (83 bp):
ACTTTAAAAAATAAAATGCTCCTCTAAACAGAGCCACCACAACTTTAAAAAATAAAATGCTCCTC
TAAACAAAGGTAACCACA
Found at i:3199323 original size:58 final size:58
Alignment explanation
Indices: 3199261--3199395 Score: 191
Period size: 58 Copynumber: 2.3 Consensus size: 58
3199251 TATTCAAAAC
* * *
3199261 TCAAAGATTCTCATTTGAGTTCGAAGATTCATAGTT-TACAAATTTTGGGTTTCACACA
1 TCAAAGATTCTCATTTGAGTTCGAAGATTCACA-TTCGACAAATTTTGAGTTTCACACA
* * *
3199319 TCAAAGATTCTCATTTGAGTTTGAAGATTCACATTCGATAAATTTTGAGTTTCACACC
1 TCAAAGATTCTCATTTGAGTTCGAAGATTCACATTCGACAAATTTTGAGTTTCACACA
*
3199377 TCAAAGATTCTTATTTGAG
1 TCAAAGATTCTCATTTGAG
3199396 AACTCAAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 2 0.03
58 67 0.97
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (58 bp):
TCAAAGATTCTCATTTGAGTTCGAAGATTCACATTCGACAAATTTTGAGTTTCACACA
Found at i:3200541 original size:11 final size:11
Alignment explanation
Indices: 3200525--3200557 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
3200515 CTTCTTTCCA
3200525 TTTCTCTTTTT
1 TTTCTCTTTTT
3200536 TTTCTCTTTTT
1 TTTCTCTTTTT
*
3200547 TTTATCTTTTT
1 TTTCTCTTTTT
3200558 ATCTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTCTCTTTTT
Found at i:3200545 original size:10 final size:10
Alignment explanation
Indices: 3200532--3200576 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
3200522 CCATTTCTCT
*
3200532 TTTTTTTCTC
1 TTTTTTTATC
3200542 TTTTTTTTATC
1 -TTTTTTTATC
3200553 --TTTTTATC
1 TTTTTTTATC
3200561 TTTTTTTATC
1 TTTTTTTATC
3200571 TTTTTT
1 TTTTTT
3200577 CTTTCATCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
8 8 0.26
10 14 0.45
11 9 0.29
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTTATC
Found at i:3200564 original size:18 final size:17
Alignment explanation
Indices: 3200543--3200580 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
3200533 TTTTTTCTCT
3200543 TTTTTTTATCTTTTTATC
1 TTTTTTTATCTTTTT-TC
3200561 TTTTTTTATCTTTTTTC
1 TTTTTTTATCTTTTTTC
3200578 TTT
1 TTT
3200581 CATCCATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTATCTTTTTTC
Found at i:3200567 original size:11 final size:11
Alignment explanation
Indices: 3200529--3200576 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
3200519 TTTCCATTTC
*
3200529 TCTTTTTTTTC
1 TCTTTTTTTTA
3200540 TCTTTTTTTTA
1 TCTTTTTTTTA
3200551 TC---TTTTTA
1 TCTTTTTTTTA
3200559 TC-TTTTTTTA
1 TCTTTTTTTTA
3200569 TCTTTTTT
1 TCTTTTTT
3200577 CTTTCATCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 8 0.24
10 8 0.24
11 17 0.52
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.81
Consensus pattern (11 bp):
TCTTTTTTTTA
Found at i:3206665 original size:14 final size:15
Alignment explanation
Indices: 3206646--3206674 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3206636 TTTTGAAAAT
3206646 TTTTATTTT-AGAAA
1 TTTTATTTTAAGAAA
3206660 TTTTATTTTAAGAAA
1 TTTTATTTTAAGAAA
3206675 AATTAATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
TTTTATTTTAAGAAA
Found at i:3206801 original size:57 final size:57
Alignment explanation
Indices: 3206658--3206839 Score: 274
Period size: 57 Copynumber: 3.1 Consensus size: 57
3206648 TTATTTTAGA
* * *
3206658 AATTTTATTTTAAGAAAAATTAATACTTTCAACTTTTCCTCAAAATACTTTTTTTTTAA
1 AATTTTATTTTAAGAAAAATTAATACTTTCAACTTTTTCTCAAAA-A-TATTTTTTTAT
*
3206717 AATTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTAT
1 AATTTT-ATTTTAAGAAAAATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTTAT
* *
3206775 AATTTTATTTTAAGGAAAATTAATACTTTCAATTTTTTCTCAAAAATATTTTTTTAT
1 AATTTTATTTTAAGAAAAATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTTAT
*
3206832 ATTTTTAT
1 AATTTTAT
3206840 ATATTTTTTA
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
57 55 0.48
58 15 0.13
59 7 0.06
60 37 0.32
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.52
Consensus pattern (57 bp):
AATTTTATTTTAAGAAAAATTAATACTTTCAACTTTTTCTCAAAAATATTTTTTTAT
Found at i:3206820 original size:27 final size:27
Alignment explanation
Indices: 3206732--3206821 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
3206722 TAATTTTAAG
* *
3206732 AAAAATTGATACTTTCAACTTTTTCTC
1 AAAAATTAATACTTTCAATTTTTTCTC
* ** * * *
3206759 AAAAA-TATTTTTTTATAATTTTATTTTA
1 AAAAATTAATACTTT-CAATTTT-TTCTC
3206787 AGGAAAATTAATACTTTCAATTTTTTCTC
1 A--AAAATTAATACTTTCAATTTTTTCTC
3206816 AAAAAT
1 AAAAAT
3206822 ATTTTTTTAT
Statistics
Matches: 44, Mismatches: 14, Indels: 10
0.65 0.21 0.15
Matches are distributed among these distances:
26 5 0.11
27 15 0.34
28 4 0.09
29 4 0.09
30 10 0.23
31 6 0.14
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (27 bp):
AAAAATTAATACTTTCAATTTTTTCTC
Found at i:3209569 original size:24 final size:24
Alignment explanation
Indices: 3209534--3209587 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
3209524 TGTATATTAT
3209534 TTTGTAAGGGTTATTGGCAGCTTG
1 TTTGTAAGGGTTATTGGCAGCTTG
3209558 TTTGT-AGAGGTTATTGGCAGCTTG
1 TTTGTAAG-GGTTATTGGCAGCTTG
3209582 -TTGTAA
1 TTTGTAA
3209588 TTAAGATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.19, C:0.07, G:0.31, T:0.43
Consensus pattern (24 bp):
TTTGTAAGGGTTATTGGCAGCTTG
Found at i:3228918 original size:85 final size:85
Alignment explanation
Indices: 3228824--3228992 Score: 302
Period size: 85 Copynumber: 2.0 Consensus size: 85
3228814 CTGTTTATAT
* *
3228824 CAGCTAGTCATTGAATGGATCAGAATTTCCAATGTGATAATTTGTAGGATTACAAGTGGTTCTCA
1 CAGCTAGTCATTGAATGAATCAGAATTTCCAATGTGATAATTTCTAGGATTACAAGTGGTTCTCA
3228889 ATCATTGATGACATACATAA
66 ATCATTGATGACATACATAA
*
3228909 CAGCTAGTCATTGAATGAATCAGAATTTCCAATGTGATACTTTCTAGGATTACAAGTGGTTCTCA
1 CAGCTAGTCATTGAATGAATCAGAATTTCCAATGTGATAATTTCTAGGATTACAAGTGGTTCTCA
*
3228974 ATCGTTGATGACATACATA
66 ATCATTGATGACATACATA
3228993 CCTCGTTGCT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (85 bp):
CAGCTAGTCATTGAATGAATCAGAATTTCCAATGTGATAATTTCTAGGATTACAAGTGGTTCTCA
ATCATTGATGACATACATAA
Found at i:3231203 original size:15 final size:15
Alignment explanation
Indices: 3231183--3231213 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3231173 GTTAAATCGC
3231183 AACTTTCACCCTTTT
1 AACTTTCACCCTTTT
3231198 AACTTTCACCCTTTT
1 AACTTTCACCCTTTT
3231213 A
1 A
3231214 TGATTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (15 bp):
AACTTTCACCCTTTT
Found at i:3236322 original size:13 final size:13
Alignment explanation
Indices: 3236304--3236339 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
3236294 AAAATTTAAA
3236304 ATTATATTTTTAT
1 ATTATATTTTTAT
**
3236317 ATTATATCATTAT
1 ATTATATTTTTAT
3236330 ATTATATTTT
1 ATTATATTTT
3236340 AAATTATCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTATATTTTTAT
Found at i:3243543 original size:11 final size:10
Alignment explanation
Indices: 3243506--3243591 Score: 59
Period size: 10 Copynumber: 8.1 Consensus size: 10
3243496 ATATAATAAA
3243506 TTATCAAAAT
1 TTATCAAAAT
*
3243516 TTATTAAAAT
1 TTATCAAAAT
3243526 TTATCAAAAT
1 TTATCAAAAT
3243536 TATATCAATACAT
1 T-TATCAA-A-AT
**
3243549 TGCT-AAAATT
1 TTATCAAAA-T
*
3243559 TTGTC-AAAT
1 TTATCAAAAT
3243568 GTTATCAAAAT
1 -TTATCAAAAT
3243579 TATATCAATAAT
1 T-TATCAA-AAT
3243591 T
1 T
3243592 ACCAATATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
9 2 0.03
10 31 0.52
11 18 0.30
12 6 0.10
13 3 0.05
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (10 bp):
TTATCAAAAT
Found at i:3243601 original size:21 final size:21
Alignment explanation
Indices: 3243577--3243617 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3243567 TGTTATCAAA
3243577 ATTATATCAATAATTACCAAT
1 ATTATATCAATAATTACCAAT
* *
3243598 ATTATATCATTAGTTACCAA
1 ATTATATCAATAATTACCAA
3243618 AACAATATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (21 bp):
ATTATATCAATAATTACCAAT
Found at i:3243919 original size:46 final size:46
Alignment explanation
Indices: 3243821--3243919 Score: 119
Period size: 46 Copynumber: 2.1 Consensus size: 46
3243811 ATCATTTTAT
* *
3243821 TAAAATCAAAATTATATAAAAAATTATCAACTTATATAAAAGTTTA
1 TAAAATCAAAATTATATAAAAAATTATCAAATTATATAAAAGGTTA
* * * *
3243867 TCAAAATCAAAATT-TATCAAAGATTATCAAATTATGTCAAAGGTTA
1 T-AAAATCAAAATTATATAAAAAATTATCAAATTATATAAAAGGTTA
3243913 CTAAAAT
1 -TAAAAT
3243920 TGTATCAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
46 32 0.71
47 13 0.29
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (46 bp):
TAAAATCAAAATTATATAAAAAATTATCAAATTATATAAAAGGTTA
Found at i:3243927 original size:21 final size:19
Alignment explanation
Indices: 3243875--3243939 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 19
3243865 TATCAAAATC
*
3243875 AAAATTTATCAAAGATTAT
1 AAAATTTATCAAAGGTTAT
* *
3243894 CAAATTATGTCAAAGGTTACT
1 AAAATT-TATCAAAGGTTA-T
3243915 AAAATTGTATCAAAGGTTAT
1 AAAATT-TATCAAAGGTTAT
3243935 CAAAA
1 -AAAA
3243940 CGATTTCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 5 0.14
20 11 0.30
21 21 0.57
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (19 bp):
AAAATTTATCAAAGGTTAT
Found at i:3244080 original size:21 final size:21
Alignment explanation
Indices: 3244056--3244101 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
3244046 TATATATATA
* *
3244056 TATATCAAAGTTTATCAAAAT
1 TATATCAAAGGTTATCAAAAC
* *
3244077 TATATTAAAGGTTCTCAAAAC
1 TATATCAAAGGTTATCAAAAC
3244098 TATA
1 TATA
3244102 CCCAATGTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (21 bp):
TATATCAAAGGTTATCAAAAC
Found at i:3244133 original size:21 final size:21
Alignment explanation
Indices: 3244109--3244157 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
3244099 ATACCCAATG
3244109 TTACCAAAATGCTATCAAAGA
1 TTACCAAAATGCTATCAAAGA
*
3244130 TTACCAAAATGCTATCAATGA
1 TTACCAAAATGCTATCAAAGA
3244151 TTACCAA
1 TTACCAA
3244158 TAGTATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (21 bp):
TTACCAAAATGCTATCAAAGA
Found at i:3244261 original size:21 final size:20
Alignment explanation
Indices: 3244237--3244286 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
3244227 TTTTATCAAA
*
3244237 AGTTACCAAAATTATATTCAT
1 AGTTACCAAAACTATA-TCAT
*
3244258 AGTTACTAAAACTATATCAT
1 AGTTACCAAAACTATATCAT
3244278 -GTTACCAAA
1 AGTTACCAAA
3244287 CTAATACCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 8 0.31
20 4 0.15
21 14 0.54
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (20 bp):
AGTTACCAAAACTATATCAT
Found at i:3244404 original size:11 final size:10
Alignment explanation
Indices: 3244390--3244445 Score: 58
Period size: 11 Copynumber: 5.3 Consensus size: 10
3244380 GGTTATCAAA
3244390 ATCAAAATTAT
1 ATCAAAATT-T
3244401 ATCAAAATTT
1 ATCAAAATTT
*
3244411 ATCAATATTAT
1 ATCAAAATT-T
* *
3244422 GTCAAAACTT
1 ATCAAAATTT
3244432 ATCAAAATTGT
1 ATCAAAATT-T
3244443 ATC
1 ATC
3244446 TAAGGTTACC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
10 17 0.46
11 20 0.54
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (10 bp):
ATCAAAATTT
Found at i:3244420 original size:21 final size:21
Alignment explanation
Indices: 3244390--3244564 Score: 90
Period size: 21 Copynumber: 8.4 Consensus size: 21
3244380 GGTTATCAAA
*
3244390 ATCAAAATTATATCAAAATTT
1 ATCAAAATTATATCAAAACTT
* *
3244411 ATCAATATTATGTCAAAACTT
1 ATCAAAATTATATCAAAACTT
* * **
3244432 ATCAAAATTGTATCTAAGGTT
1 ATCAAAATTATATCAAAACTT
* * ** * **
3244453 ACCAAAAATGCATTAAAGGTT
1 ATCAAAATTATATCAAAACTT
*
3244474 ACCAAAATTATATC-AAACTT
1 ATCAAAATTATATCAAAACTT
* *
3244494 AAT-AAAATTTTATCAAATGC-T
1 -ATCAAAATTATATCAAA-ACTT
* *
3244515 ACCAAAATTATAT-AAATAGTT
1 ATCAAAATTATATCAAA-ACTT
* *
3244536 ACTC-AAATTATATCATAAGTT
1 A-TCAAAATTATATCAAAACTT
3244557 ATCAAAAT
1 ATCAAAAT
3244565 AGTAGTAAAA
Statistics
Matches: 117, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
20 21 0.18
21 92 0.79
22 4 0.03
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (21 bp):
ATCAAAATTATATCAAAACTT
Found at i:3244605 original size:42 final size:41
Alignment explanation
Indices: 3244450--3244607 Score: 133
Period size: 42 Copynumber: 3.8 Consensus size: 41
3244440 TGTATCTAAG
* * * *
3244450 GTTACCAAAAATGCATTAAAGGTTACCAAAATTATATCAAA
1 GTTACCAAAATTGTATCAAAGGTTACCAAAATTATATAAAA
* ** * * *
3244491 CTTAATAAAATTTTATCAAATGCTACCAAAATTATATAAATA
1 GTTACCAAAATTGTATCAAAGGTTACCAAAATTATATAAA-A
* *
3244533 GTTACTC-AAATTATATCATAA-GTTATCAAAA-TAGTAGTAAAA
1 GTTAC-CAAAATTGTATCA-AAGGTTACCAAAATTA-TA-TAAAA
*
3244575 GTTACCAAAATTGTATTAAAGGTTACCAAAATT
1 GTTACCAAAATTGTATCAAAGGTTACCAAAATT
3244608 TTATGAATTG
Statistics
Matches: 90, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
41 35 0.39
42 48 0.53
43 7 0.08
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (41 bp):
GTTACCAAAATTGTATCAAAGGTTACCAAAATTATATAAAA
Found at i:3244607 original size:21 final size:21
Alignment explanation
Indices: 3244434--3244607 Score: 106
Period size: 21 Copynumber: 8.3 Consensus size: 21
3244424 CAAAACTTAT
3244434 CAAAATTGTATCT-AAGGTTAC
1 CAAAATTGTAT-TAAAGGTTAC
* *
3244455 CAAAAATGCATTAAAGGTTAC
1 CAAAATTGTATTAAAGGTTAC
* * * *
3244476 CAAAATTATATCAAA-CTTAA
1 CAAAATTGTATTAAAGGTTAC
* * * * *
3244496 TAAAATTTTATCAAATGCTAC
1 CAAAATTGTATTAAAGGTTAC
* *
3244517 CAAAATTATA-TAAATAGTTAC
1 CAAAATTGTATTAAA-GGTTAC
* * *
3244538 TC-AAATTATATCATAA-GTTAT
1 -CAAAATTGTATTA-AAGGTTAC
* * *
3244559 CAAAATAGTAGTAAAAGTTAC
1 CAAAATTGTATTAAAGGTTAC
3244580 CAAAATTGTATTAAAGGTTAC
1 CAAAATTGTATTAAAGGTTAC
3244601 CAAAATT
1 CAAAATT
3244608 TTATGAATTG
Statistics
Matches: 117, Mismatches: 28, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
20 23 0.20
21 90 0.77
22 2 0.02
23 2 0.02
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (21 bp):
CAAAATTGTATTAAAGGTTAC
Found at i:3245663 original size:21 final size:21
Alignment explanation
Indices: 3245608--3245663 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
3245598 GTCATATAAT
*
3245608 AAGTTACCAAAATAGTATTAA
1 AAGTTACCAAAATTGTATTAA
**
3245629 AAGTTATGAAAATTGTATT-A
1 AAGTTACCAAAATTGTATTAA
*
3245649 GAGATTACCAAAATT
1 AAG-TTACCAAAATT
3245664 TTATCAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.32
Consensus pattern (21 bp):
AAGTTACCAAAATTGTATTAA
Found at i:3245763 original size:15 final size:15
Alignment explanation
Indices: 3245743--3245777 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3245733 TAATGCACGG
3245743 GTAATAATTATATAT
1 GTAATAATTATATAT
3245758 GTAATAATTATATAT
1 GTAATAATTATATAT
*
3245773 ATAAT
1 GTAAT
3245778 TTAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (15 bp):
GTAATAATTATATAT
Found at i:3245790 original size:20 final size:19
Alignment explanation
Indices: 3245744--3245791 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
3245734 AATGCACGGG
3245744 TAATAAT-TATATATGTAA
1 TAATAATATATATATGTAA
* *
3245762 TAATTATATATATAATTTAA
1 TAATAATATATAT-ATGTAA
*
3245782 TTATAATATA
1 TAATAATATA
3245792 ATTTAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 6 0.25
19 5 0.21
20 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATAATATATATATGTAA
Found at i:3245792 original size:16 final size:17
Alignment explanation
Indices: 3245747--3245797 Score: 72
Period size: 15 Copynumber: 3.2 Consensus size: 17
3245737 GCACGGGTAA
*
3245747 TAATTATATATGTAA--
1 TAATTATATATATAATT
3245762 TAATTATATATATAATT
1 TAATTATATATATAATT
3245779 TAATTATA-ATATAATT
1 TAATTATATATATAATT
3245795 TAA
1 TAA
3245798 AAATTTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 14 0.42
16 11 0.33
17 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TAATTATATATATAATT
Found at i:3245807 original size:21 final size:21
Alignment explanation
Indices: 3245782--3245830 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
3245772 TATAATTTAA
* * *
3245782 TTATAATATAATTTAAAAATT
1 TTATAATAAAAATAAAAAATT
3245803 TTAT-ATAAAAATAAAAAATT
1 TTATAATAAAAATAAAAAATT
*
3245823 TTAAAATA
1 TTATAATA
3245831 GATATTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TTATAATAAAAATAAAAAATT
Found at i:3251298 original size:8 final size:8
Alignment explanation
Indices: 3251287--3251349 Score: 56
Period size: 9 Copynumber: 7.2 Consensus size: 8
3251277 GGAAAAGACG
3251287 AAAAAGAA
1 AAAAAGAA
3251295 AAAAA-ATA
1 AAAAAGA-A
3251303 AAAAAGGAA
1 AAAAA-GAA
3251312 AAAAAGAGA
1 AAAAAGA-A
3251321 AAAAATGAA
1 AAAAA-GAA
*
3251330 AGAATAGAA
1 A-AAAAGAA
3251339 AAAAATGAA
1 AAAAA-GAA
3251348 AA
1 AA
3251350 TGAGAGAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
7 1 0.02
8 16 0.35
9 23 0.50
10 6 0.13
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.06
Consensus pattern (8 bp):
AAAAAGAA
Found at i:3251341 original size:18 final size:18
Alignment explanation
Indices: 3251287--3251359 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 18
3251277 GGAAAAGACG
*
3251287 AAAAA-GAAAAAAA-ATA
1 AAAAATGAAAAAAAGAGA
*
3251303 AAAAAGGAAAAAAAGAGA
1 AAAAATGAAAAAAAGAGA
*
3251321 AAAAATGAAAGAATAGA-A
1 AAAAATGAAA-AAAAGAGA
**
3251339 AAAAATGAAAATGAGAGA
1 AAAAATGAAAAAAAGAGA
3251357 AAA
1 AAA
3251360 TGAAGACTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
16 5 0.10
17 12 0.25
18 26 0.54
19 5 0.10
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (18 bp):
AAAAATGAAAAAAAGAGA
Found at i:3251359 original size:17 final size:16
Alignment explanation
Indices: 3251312--3251363 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
3251302 AAAAAAGGAA
*
3251312 AAAAAGAGAAAAAATG
1 AAAATGAGAAAAAATG
3251328 AAAGAAT-AGAAAAAAATG
1 -AA-AATGAG-AAAAAATG
*
3251346 AAAATGAGAGAAAATG
1 AAAATGAGAAAAAATG
3251362 AA
1 AA
3251364 GACTCAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 12 0.40
17 8 0.27
18 10 0.33
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (16 bp):
AAAATGAGAAAAAATG
Found at i:3252627 original size:22 final size:22
Alignment explanation
Indices: 3252579--3252620 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3252569 CAATGGAAAC
3252579 CTTTGAA--TTTAGATGAGAAT
1 CTTTGAACTTTTAGATGAGAAT
*
3252599 CTTTGAACTTTTAGATGTGAAT
1 CTTTGAACTTTTAGATGAGAAT
3252621 TTCTGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (22 bp):
CTTTGAACTTTTAGATGAGAAT
Found at i:3252804 original size:18 final size:18
Alignment explanation
Indices: 3252762--3252806 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
3252752 TTTAATTATT
3252762 AAAAAAATATAATAATAA
1 AAAAAAATATAATAATAA
* *
3252780 TATAAAATATAA-AATACA
1 AAAAAAATATAATAATA-A
3252798 AAAAAAATA
1 AAAAAAATA
3252807 AGAAAAAAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAAAATATAATAATAA
Found at i:3254283 original size:17 final size:17
Alignment explanation
Indices: 3254261--3254295 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3254251 TAAAACCCCT
*
3254261 AAAATCTAAAACCTCAA
1 AAAATCCAAAACCTCAA
*
3254278 AAAATCCAAAATCTCAA
1 AAAATCCAAAACCTCAA
3254295 A
1 A
3254296 CCTTTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (17 bp):
AAAATCCAAAACCTCAA
Found at i:3254304 original size:24 final size:24
Alignment explanation
Indices: 3254261--3254326 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
3254251 TAAAACCCCT
* **
3254261 AAAATCTAAAACCTCAAAAAATCC
1 AAAATCTCAAACCTTTAAAAATCC
*
3254285 AAAATCTCAAACCTTT-AAAATCT
1 AAAATCTCAAACCTTTAAAAATCC
*
3254308 TAAATC-CAAATCCTTTAAA
1 AAAATCTCAAA-CCTTTAAA
3254327 TCAAAACCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.11
23 16 0.46
24 15 0.43
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAATCTCAAACCTTTAAAAATCC
Found at i:3254367 original size:14 final size:14
Alignment explanation
Indices: 3254324--3254397 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
3254314 CAAATCCTTT
*
3254324 AAATCAAAACCCTA
1 AAATCAAAACTCTA
* *
3254338 AACCTCAAAA-TTTA
1 AA-ATCAAAACTCTA
*
3254352 AAATCGAAACTCTA
1 AAATCAAAACTCTA
*
3254366 AAATCTTCAAACTCTA
1 AAATC--AAAACTCTA
*
3254382 AAATCAAAACCCTA
1 AAATCAAAACTCTA
3254396 AA
1 AA
3254398 CCTTCCATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
13 5 0.11
14 23 0.49
15 6 0.13
16 13 0.28
ACGTcount: A:0.53, C:0.24, G:0.01, T:0.22
Consensus pattern (14 bp):
AAATCAAAACTCTA
Found at i:3254413 original size:30 final size:29
Alignment explanation
Indices: 3254324--3254415 Score: 73
Period size: 30 Copynumber: 3.1 Consensus size: 29
3254314 CAAATCCTTT
* *
3254324 AAATCAAAACCCTAAACC-TCAAAAT-TTA
1 AAATCAAAACCCTAAACCTTC-CAATCCTA
* * * *
3254352 AAATCGAAACTCTAAAATCTT-CAAACTCTA
1 AAATCAAAACCCT-AAACCTTCCAATC-CTA
3254382 AAATCAAAACCCTAAACCTTCCATATCCTA
1 AAATCAAAACCCTAAACCTTCCA-ATCCTA
3254412 AAAT
1 AAAT
3254416 TCAAGCCTTA
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
28 13 0.27
29 10 0.21
30 23 0.48
31 2 0.04
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (29 bp):
AAATCAAAACCCTAAACCTTCCAATCCTA
Found at i:3255595 original size:14 final size:15
Alignment explanation
Indices: 3255567--3255597 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3255557 TTATTTGATA
3255567 TTTAATTTAATTTTT
1 TTTAATTTAATTTTT
*
3255582 TTTATTTTAATTTTT
1 TTTAATTTAATTTTT
3255597 T
1 T
3255598 AAAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTAATTTAATTTTT
Found at i:3261089 original size:13 final size:12
Alignment explanation
Indices: 3261073--3261101 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
3261063 AAAAAAAGAG
3261073 AAAAAAAAAACT
1 AAAAAAAAAACT
3261085 AAAAAAAAAACT
1 AAAAAAAAAACT
3261097 AAAAA
1 AAAAA
3261102 TTTTTTGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAAAAAACT
Found at i:3262342 original size:33 final size:32
Alignment explanation
Indices: 3262305--3262550 Score: 208
Period size: 33 Copynumber: 7.5 Consensus size: 32
3262295 AAAAAAAAAT
* * *
3262305 TTTAAGCCTAGTTTATCTGGCAATTAATAAAGC
1 TTTAAGCCCAGTTTATCTGGC-ATCAATGAAGC
* * * *
3262338 TTTAAGTCTAGTTTATTTGATCATCAATGAAGC
1 TTTAAGCCCAGTTTATCTG-GCATCAATGAAGC
* * * *
3262371 TTTAACCCCAGTTTATGTGGCCTCAAATGAAGT
1 TTTAAGCCCAGTTTATCTGGCATC-AATGAAGC
* * *
3262404 TTTAAACCCAATTTATCTGGCCATCAATGAAAC
1 TTTAAGCCCAGTTTATCTGG-CATCAATGAAGC
* *
3262437 TTTAAGCCCAGTTTATCTGGCCATTAATGAAGT
1 TTTAAGCCCAGTTTATCTGG-CATCAATGAAGC
* * *
3262470 TTTAAGTCCAGTTTATCTGGCCTCAAATGAAGT
1 TTTAAGCCCAGTTTATCTGGCATC-AATGAAGC
* **
3262503 TTTAAGCCCAGTTTAGT-TGGCCTTCAAT-AAAA
1 TTTAAGCCCAGTTTA-TCTGG-CATCAATGAAGC
3262535 TTTAAGCCCAGTTTAT
1 TTTAAGCCCAGTTTAT
3262551 TTTGCCCTAA
Statistics
Matches: 177, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
31 1 0.01
32 22 0.12
33 146 0.82
34 8 0.05
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (32 bp):
TTTAAGCCCAGTTTATCTGGCATCAATGAAGC
Found at i:3262481 original size:99 final size:98
Alignment explanation
Indices: 3262316--3262550 Score: 292
Period size: 99 Copynumber: 2.4 Consensus size: 98
3262306 TTAAGCCTAG
* * * * * *
3262316 TTTATCTGGCAATTAATAAAGCTTTAAGTCTAGTTTATTTGATCATCAATGAAGCTTTAACCCCA
1 TTTATCTGGCCATCAATAAA-CTTTAAGCCCAGTTTATCTGACCATCAATGAAGCTTTAACCCCA
*
3262381 GTTTATGTGGCCTCAAATGAAGTTTTAAACCCAA
65 GTTTATCTGGCCTCAAATGAAGTTTTAAACCCAA
* * * **
3262415 TTTATCTGGCCATCAATGAAACTTTAAGCCCAGTTTATCTGGCCATTAATGAAGTTTTAAGTCCA
1 TTTATCTGGCCATCAAT-AAACTTTAAGCCCAGTTTATCTGACCATCAATGAAGCTTTAACCCCA
* *
3262480 GTTTATCTGGCCTCAAATGAAGTTTTAAGCCCAG
65 GTTTATCTGGCCTCAAATGAAGTTTTAAACCCAA
* *
3262514 TTTAGT-TGGCCTTCAATAAAATTTAAGCCCAGTTTAT
1 TTTA-TCTGGCCATCAATAAACTTTAAGCCCAGTTTAT
3262551 TTTGCCCTAA
Statistics
Matches: 118, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
98 19 0.16
99 95 0.81
100 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (98 bp):
TTTATCTGGCCATCAATAAACTTTAAGCCCAGTTTATCTGACCATCAATGAAGCTTTAACCCCAG
TTTATCTGGCCTCAAATGAAGTTTTAAACCCAA
Found at i:3262524 original size:66 final size:64
Alignment explanation
Indices: 3262305--3262550 Score: 235
Period size: 66 Copynumber: 3.8 Consensus size: 64
3262295 AAAAAAAAAT
* * * * * * * * *
3262305 TTTAAGCCTAGTTTATCTGGCAATTAATAAAGCTTTAAGTCTAGTTTATTTGATCATCAATGAAG
1 TTTAAGCCCAGTTTATCTGGC-CTTAATGAAGTTTTAAGCCCAGTTTATCTG-GCCTCAATGAAG
3262370 C
64 C
* * * * * *
3262371 TTTAACCCCAGTTTATGTGGCCTCAAATGAAGTTTTAAACCCAATTTATCTGGCCATCAATGAAA
1 TTTAAGCCCAGTTTATCTGGCCT-TAATGAAGTTTTAAGCCCAGTTTATCTGGCC-TCAATGAAG
3262436 C
64 C
*
3262437 TTTAAGCCCAGTTTATCTGGCCATTAATGAAGTTTTAAGTCCAGTTTATCTGGCCTCAAATGAAG
1 TTTAAGCCCAGTTTATCTGGCC-TTAATGAAGTTTTAAGCCCAGTTTATCTGGCCTC-AATGAAG
*
3262502 T
64 C
**
3262503 TTTAAGCCCAGTTTAGT-TGGCCTTCAAT-AAAATTTAAGCCCAGTTTAT
1 TTTAAGCCCAGTTTA-TCTGGCCTT-AATGAAGTTTTAAGCCCAGTTTAT
3262551 TTTGCCCTAA
Statistics
Matches: 148, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
65 23 0.16
66 123 0.83
67 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (64 bp):
TTTAAGCCCAGTTTATCTGGCCTTAATGAAGTTTTAAGCCCAGTTTATCTGGCCTCAATGAAGC
Found at i:3263375 original size:87 final size:87
Alignment explanation
Indices: 3263154--3263420 Score: 358
Period size: 87 Copynumber: 3.1 Consensus size: 87
3263144 ACTTTTGGGT
* * *
3263154 ATAATTTCGATTCACGGTGTTATCTCGATCGATTCATTATTCTTGACTTGTGGTGTTATCCCAAT
1 ATAATTTCGATTCACGGTGTTATCCCGATCGATTCATTATTCTTGACTTGTGGTGTTGTCCCAGT
* *
3263219 CGATTCTGTAAGA-CTCCGAAC
66 CGATTCTGTAAGACCTTCGGAC
* * * * *
3263240 ATGATCTCGATTCACGGTGTTATCCCGATCGATTCTTTAATT-TTGACTTGCGATGTTGTCCCAG
1 ATAATTTCGATTCACGGTGTTATCCCGATCGATTCATT-ATTCTTGACTTGTGGTGTTGTCCCAG
*
3263304 TCGATTCTGTAAGACCTTCGGGC
65 TCGATTCTGTAAGACCTTCGGAC
** * *
3263327 ATAATTTCGATTTGCGGTGTTATCCCAATCGATTCATTATTCTCGACTTGTGGTGTTGTCCCAGT
1 ATAATTTCGATTCACGGTGTTATCCCGATCGATTCATTATTCTTGACTTGTGGTGTTGTCCCAGT
*
3263392 CGATTTTGTAAGACCTTCGGAC
66 CGATTCTGTAAGACCTTCGGAC
*
3263414 ATGATTT
1 ATAATTT
3263421 TTGTAAGACC
Statistics
Matches: 155, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
86 69 0.45
87 86 0.55
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.39
Consensus pattern (87 bp):
ATAATTTCGATTCACGGTGTTATCCCGATCGATTCATTATTCTTGACTTGTGGTGTTGTCCCAGT
CGATTCTGTAAGACCTTCGGAC
Found at i:3263424 original size:24 final size:24
Alignment explanation
Indices: 3263395--3263444 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
3263385 TCCCAGTCGA
3263395 TTTTGTAAGACCTTCGGACATGAT
1 TTTTGTAAGACCTTCGGACATGAT
* *
3263419 TTTTGTAAGACCTTTGGGCATGAT
1 TTTTGTAAGACCTTCGGACATGAT
3263443 TT
1 TT
3263445 CGATTCGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (24 bp):
TTTTGTAAGACCTTCGGACATGAT
Found at i:3263559 original size:39 final size:38
Alignment explanation
Indices: 3263510--3263606 Score: 115
Period size: 39 Copynumber: 2.5 Consensus size: 38
3263500 CGATCGATTC
* * *
3263510 TTTACTTCTCGACTCGTGGTGTTGTCCCGATCATTTTTA
1 TTTACATCTCGACTTGTGGTGTCGTCCCGATCA-TTTTA
* * *
3263549 TTTACATCTCGACTTGCGGTGTCGTCTCGATCATTTTC
1 TTTACATCTCGACTTGTGGTGTCGTCCCGATCATTTTA
3263587 TTTATCAT-TCGACTTGTGGT
1 TTTA-CATCTCGACTTGTGGT
3263607 TAAAAGAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 19 0.38
39 31 0.62
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (38 bp):
TTTACATCTCGACTTGTGGTGTCGTCCCGATCATTTTA
Found at i:3263854 original size:22 final size:22
Alignment explanation
Indices: 3263826--3263868 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3263816 TTAATTATTA
* *
3263826 AAAAAATATAATAATATAAAAT
1 AAAAAATAAAATAAAATAAAAT
3263848 AAAAAATAAAATAAAATAAAA
1 AAAAAATAAAATAAAATAAAA
3263869 AAAGGTCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAAAATAAAATAAAATAAAAT
Found at i:3263855 original size:17 final size:17
Alignment explanation
Indices: 3263835--3263870 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
3263825 AAAAAAATAT
*
3263835 AATAATATAAAATAAAA
1 AATAAAATAAAATAAAA
3263852 AATAAAATAAAATAAAA
1 AATAAAATAAAATAAAA
3263869 AA
1 AA
3263871 AGGTCTGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AATAAAATAAAATAAAA
Found at i:3265320 original size:17 final size:17
Alignment explanation
Indices: 3265300--3265332 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3265290 TTCTAAAACC
3265300 CCTAAAATCCAAAATCT
1 CCTAAAATCCAAAATCT
3265317 CCTAAAATCCAAAATC
1 CCTAAAATCCAAAATC
3265333 CTATCAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.21
Consensus pattern (17 bp):
CCTAAAATCCAAAATCT
Found at i:3265378 original size:15 final size:15
Alignment explanation
Indices: 3265340--3265468 Score: 66
Period size: 15 Copynumber: 8.5 Consensus size: 15
3265330 ATCCTATCAG
*
3265340 AAACCCCTAAAAATCC
1 AAACCCCT-AAAATCT
* *
3265356 AAAACCCTTAAATCT
1 AAACCCCTAAAATCT
*
3265371 AAACCCCTAAAATCCG
1 AAACCCCTAAAAT-CT
*
3265387 AAACCCTCCAAAATCT
1 AAACCC-CTAAAATCT
* * *
3265403 GAAATCCC-AAACCTTT
1 -AAACCCCTAAA-ATCT
* *
3265419 AAA-CTCTTAAATCT
1 AAACCCCTAAAATCT
* *
3265433 AAATCCCTAAAATCC
1 AAACCCCTAAAATCT
* *
3265448 AAA-CCCTTAAATCA
1 AAACCCCTAAAATCT
3265462 AAACCCC
1 AAACCCC
3265469 AGACCTCAAA
Statistics
Matches: 86, Mismatches: 20, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
14 19 0.22
15 38 0.44
16 18 0.21
17 11 0.13
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (15 bp):
AAACCCCTAAAATCT
Found at i:3265385 original size:30 final size:29
Alignment explanation
Indices: 3265340--3265468 Score: 116
Period size: 29 Copynumber: 4.2 Consensus size: 29
3265330 ATCCTATCAG
3265340 AAACCCCTAAAAATCCAAAACCCTTAAATCT
1 AAACCCCT-AAAATCC-AAACCCTTAAATCT
*
3265371 AAACCCCTAAAATCCGAAACCCTCCAAAATCT
1 AAACCCCTAAAATCC-AAACCCT--TAAATCT
* * ** *
3265403 GAAATCCC-AAACCTTTAAACTCTTAAATCT
1 -AAACCCCTAAA-ATCCAAACCCTTAAATCT
* *
3265433 AAATCCCTAAAATCCAAACCCTTAAATCA
1 AAACCCCTAAAATCCAAACCCTTAAATCT
3265462 AAACCCC
1 AAACCCC
3265469 AGACCTCAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
29 26 0.33
30 23 0.29
31 8 0.10
32 15 0.19
33 7 0.09
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (29 bp):
AAACCCCTAAAATCCAAACCCTTAAATCT
Found at i:3266656 original size:20 final size:20
Alignment explanation
Indices: 3266631--3266681 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
3266621 AAATTTATGT
3266631 GAATCTTTAAACTCAAATGA
1 GAATCTTTAAACTCAAATGA
**
3266651 GAATCTTTGAATTTCAAATGA
1 GAATCTTT-AAACTCAAATGA
3266672 GAATCTTTAA
1 GAATCTTTAA
3266682 GGTGTGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
GAATCTTTAAACTCAAATGA
Found at i:3267149 original size:41 final size:41
Alignment explanation
Indices: 3267092--3267337 Score: 273
Period size: 41 Copynumber: 6.0 Consensus size: 41
3267082 GATTGTCGAA
* * * *
3267092 GAGCATTTTATTTTTCAAAATTGTGGTACCTCCGTTTAGAG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
* * * *
3267133 GAGCATTTTATTTTTCAAAGTTGTGGTGGC-CTATTTAGAT
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
* *
3267173 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
** * * *
3267214 GAGCAATTTAACTTTCAAAGTTATGATGCCTTTGTTTAAGATG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTT-AGA-G
*
3267257 G-GCAATTTAATTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
* * *
3267297 GAG-AATTTATTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAG
3267338 CATTTACTTA
Statistics
Matches: 177, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
40 48 0.27
41 93 0.53
42 34 0.19
43 2 0.01
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (41 bp):
GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAG
Found at i:3267230 original size:81 final size:82
Alignment explanation
Indices: 3267092--3267314 Score: 290
Period size: 81 Copynumber: 2.7 Consensus size: 82
3267082 GATTGTCGAA
* * * * *
3267092 GAGCATTTTATTTTTCAAAATTGTGGTACCTCCGTTTAGAGGAGCATTTTATTTTTCAAAGTTGT
1 GAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTAT
*
3267157 GGTGGCC-TATTT-AGAT
66 GAT-GCCTTATTTAAGAT
* **
3267173 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTAACTTTCAAAGTTAT
1 GAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTAT
*
3267238 GATGCCTTTGTTTAAGAT
66 GATGCC-TTATTTAAGAT
* * *
3267256 GGGCAATTTAATTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG-AATTTATTTTTCAAA
1 GAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAA
3267315 AGTCGTTGAG
Statistics
Matches: 123, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
80 3 0.02
81 59 0.48
82 17 0.14
83 44 0.36
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.42
Consensus pattern (82 bp):
GAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTAT
GATGCCTTATTTAAGAT
Found at i:3267333 original size:83 final size:82
Alignment explanation
Indices: 3267092--3267334 Score: 269
Period size: 83 Copynumber: 3.0 Consensus size: 82
3267082 GATTGTCGAA
* * * * *
3267092 GAGCATTTTATTTTTCAAAATTGTGGTACCTCCGTTTAGAGGAGCATTTTATTTTTCAAAGTTGT
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAG-TGT
* * * *
3267157 GGTGGC-CTATTT-AGAT
65 TGAGCCTCTGTTTAAGAT
* * **
3267173 GAGCATTTTATTTTTCAAAGTTATGGTGCCTCTGTTTAGAGGAGCAATTTAACTTTCAAAGT-TA
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTGT-
*
3267237 TGATGCCTTTGTTTAAGAT
65 TGA-GCCTCTGTTTAAGAT
* *
3267256 GGGCAATTTAATTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAG-AATTTATTTTTCAAAAGTCG
1 GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTC-AAAGT-G
3267320 TTGAGCCTCTGTTTA
64 TTGAGCCTCTGTTTA
3267335 GAGCATTTAC
Statistics
Matches: 136, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
79 1 0.01
80 2 0.01
81 56 0.41
82 14 0.10
83 59 0.43
84 3 0.02
85 1 0.01
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (82 bp):
GAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTGTT
GAGCCTCTGTTTAAGAT
Found at i:3268038 original size:21 final size:20
Alignment explanation
Indices: 3268014--3268068 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
3268004 TTTTAATGAT
3268014 TAAATTTTGAAAAAATAAAAA
1 TAAATTTTGAAAAAAT-AAAA
****
3268035 TAAAAAAAGTAAAAAATAAAA
1 TAAATTTTG-AAAAAATAAAA
3268056 TAAATTTTGAAAA
1 TAAATTTTGAAAA
3268069 TAAATGTTAA
Statistics
Matches: 25, Mismatches: 8, Indels: 3
0.69 0.22 0.08
Matches are distributed among these distances:
20 4 0.16
21 14 0.56
22 7 0.28
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.25
Consensus pattern (20 bp):
TAAATTTTGAAAAAATAAAA
Found at i:3272132 original size:21 final size:21
Alignment explanation
Indices: 3272036--3272132 Score: 54
Period size: 21 Copynumber: 4.6 Consensus size: 21
3272026 AGTTCTATCA
*
3272036 AAAGGTTACCAAAATTATAAT
1 AAAGGTTACCAAAATTATATT
* * * *
3272057 AATA-GCTATCAAAACTATATC
1 AA-AGGTTACCAAAATTATATT
* * * ** *
3272078 ATATGTTTCCAAAATGGTATCA
1 AAAGGTTACCAAAATTATAT-T
*
3272100 AAATGTTA-CAAAATTATATT
1 AAAGGTTACCAAAATTATATT
3272120 AAAGGTTACCAAA
1 AAAGGTTACCAAA
3272133 CTTTTATAAT
Statistics
Matches: 53, Mismatches: 19, Indels: 8
0.66 0.24 0.10
Matches are distributed among these distances:
20 8 0.15
21 38 0.72
22 7 0.13
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (21 bp):
AAAGGTTACCAAAATTATATT
Found at i:3272430 original size:22 final size:22
Alignment explanation
Indices: 3272379--3272440 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
3272369 ATGATTTAAA
* *
3272379 AAAATTAATAATAATTTATTAT
1 AAAATTATTAATAATTTACTAT
* * *
3272401 TAAGTTATTAATGATTTACTAT
1 AAAATTATTAATAATTTACTAT
* *
3272423 AAAATTATCACTAATTTA
1 AAAATTATTAATAATTTA
3272441 TTGCTAAATT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (22 bp):
AAAATTATTAATAATTTACTAT
Found at i:3272459 original size:44 final size:43
Alignment explanation
Indices: 3272297--3272478 Score: 118
Period size: 44 Copynumber: 4.2 Consensus size: 43
3272287 GGGTTTAACC
* * * *** *
3272297 TTATCAATAGTTTATTACTAAATT-ATCATCCATTTATTATTGAG
1 TTATCAATAATTTATTACTAAATTAATGAT-GATTTA-TAAAAAA
* ** *
3272341 TTATGAATAATTTACGACTAAATTAGTGATGATTTA-AAAAAA
1 TTATCAATAATTTATTACTAAATTAATGATGATTTATAAAAAA
* * * * *
3272383 TTAAT-AATAATTTATTATTAAGTTATTAATGATTTACTATAAAA
1 TT-ATCAATAATTTATTACTAAATTAATGATGATTTA-TAAAAAA
* * * *
3272427 TTATCACTAATTTATTGCTAAATTAATGATGATTTATTACAAAT
1 TTATCAATAATTTATTACTAAATTAATGATGATTTA-TAAAAAA
3272471 TTATCAAT
1 TTATCAAT
3272479 GATTAACTAA
Statistics
Matches: 105, Mismatches: 28, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
42 29 0.28
43 4 0.04
44 69 0.66
45 3 0.03
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (43 bp):
TTATCAATAATTTATTACTAAATTAATGATGATTTATAAAAAA
Found at i:3272480 original size:22 final size:22
Alignment explanation
Indices: 3272405--3272482 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
3272395 TATTATTAAG
* * * *
3272405 TTATTAATGATTTACTATAAAA
1 TTATCAATGATTTATTACAAAT
* * *
3272427 TTATCACTAATTTATTGCTAAAT
1 TTATCAATGATTTATTAC-AAAT
* *
3272450 TAAT-GATGATTTATTACAAAT
1 TTATCAATGATTTATTACAAAT
3272471 TTATCAATGATT
1 TTATCAATGATT
3272483 AACTAATTTA
Statistics
Matches: 40, Mismatches: 14, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
21 7 0.17
22 27 0.68
23 6 0.15
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (22 bp):
TTATCAATGATTTATTACAAAT
Found at i:3272571 original size:22 final size:22
Alignment explanation
Indices: 3272486--3272889 Score: 170
Period size: 22 Copynumber: 18.5 Consensus size: 22
3272476 AATGATTAAC
* * *
3272486 TAATTTACTATTAAATTATTAT
1 TAATTTACTATTAAGTTATCAA
* * * * * *
3272508 TGATCTACAACTAAATTATTAA
1 TAATTTACTATTAAGTTATCAA
*
3272530 TGATTTAC-AGTTAAGTTATCAA
1 TAATTTACTA-TTAAGTTATCAA
* * *
3272552 TGATTTACTACTAAGTTATCGA
1 TAATTTACTATTAAGTTATCAA
*
3272574 TAATTTACTATTAAATTATCAA
1 TAATTTACTATTAAGTTATCAA
* *
3272596 -AATTTACTATTATGTTAT-TA
1 TAATTTACTATTAAGTTATCAA
* * * * *
3272616 TGTATTTACAACTATGTTATCAT
1 T-AATTTACTATTAAGTTATCAA
* * * *
3272639 TGATTTAGTATTAAGTTTTTAA
1 TAATTTACTATTAAGTTATCAA
* * ** * * *
3272661 TTATTTATTACAAAGTTTTTAC
1 TAATTTACTATTAAGTTATCAA
* * *
3272683 TAATTTACTATTAAATCATCCA
1 TAATTTACTATTAAGTTATCAA
* ** * * *
3272705 TAATTCACTACCAAATTATTAC
1 TAATTTACTATTAAGTTATCAA
*
3272727 TAATTTATTATTAAGTTATTC-A
1 TAATTTACTATTAAGTTA-TCAA
* *
3272749 TAATTTACTATTAAGCTATCGA
1 TAATTTACTATTAAGTTATCAA
* *
3272771 TAATTTACCATTAAGTTAT-AT
1 TAATTTACTATTAAGTTATCAA
* * * * *
3272792 TGATTTACTTTTAAATTTTTAA
1 TAATTTACTATTAAGTTATCAA
* * *
3272814 TAATTAATTATTAAGTTATAAA
1 TAATTTACTATTAAGTTATCAA
* * ** *
3272836 TTATTTATTACCAAGTTATCAT
1 TAATTTACTATTAAGTTATCAA
* * * **
3272858 TGATTTACAATTAAATTATTTA
1 TAATTTACTATTAAGTTATCAA
3272880 TAATTTACTA
1 TAATTTACTA
3272890 CTAAATTTAT
Statistics
Matches: 278, Mismatches: 96, Indels: 16
0.71 0.25 0.04
Matches are distributed among these distances:
20 1 0.00
21 33 0.12
22 241 0.87
23 3 0.01
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (22 bp):
TAATTTACTATTAAGTTATCAA
Done.