Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 50 of 126
Found at i:9975021 original size:32 final size:32
Alignment explanation
Indices: 9974980--9975051 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
9974970 TGTGATTCTC
* *
9974980 TTTGGCATGATGGTTGTAAGGGTGGATTAATT
1 TTTGGCATGATGGATGTAAGGGTGGATCAATT
9975012 TTTGGCATGATGGATGTAAGGGTGGATCAATT
1 TTTGGCATGATGGATGTAAGGGTGGATCAATT
9975044 TTTGGCAT
1 TTTGGCAT
9975052 ATTGGTTACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.22, C:0.06, G:0.33, T:0.39
Consensus pattern (32 bp):
TTTGGCATGATGGATGTAAGGGTGGATCAATT
Found at i:9979270 original size:10 final size:10
Alignment explanation
Indices: 9979241--9979269 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9979231 GGGAAGTAAG
9979241 AGCACTTTTT
1 AGCACTTTTT
9979251 AGCACTTTTT
1 AGCACTTTTT
9979261 AGC-CTTTTT
1 AGCACTTTTT
9979270 TGTAAGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.17, C:0.21, G:0.10, T:0.52
Consensus pattern (10 bp):
AGCACTTTTT
Found at i:9983851 original size:231 final size:233
Alignment explanation
Indices: 9982786--9984422 Score: 687
Period size: 234 Copynumber: 7.0 Consensus size: 233
9982776 ATGGAAAGTA
* * * * * * * *
9982786 AGAACAACCATAATAATATATTATTGTAACATAAAAAATTATACTA-ACAACGTGAAATTTTAAT
1 AGAACAACCATAAAAACAAATTATTATAACATAAATAACTATA-TAGCCAACGTAAAATTTTAAT
* * * * * * *
9982850 TAATTATCATTTTGTAAATATTTAAGGAAAATATG-TAGAAATTAAAAAATAAATTGATAAAGTA
65 TATTTAT-TTTTTGTAAATATATAA--AAAATA-GCTAAAAATTAAAAAATAAAATGGTAATGTA
* ** * *** * * * *
9982914 AATAAGTGAA-AACAACCATAAGATTAGTATTATTTGACATAAAAT-AAGT-AATAAGTATCGTA
126 AACAAGT-AAGAA-AAATATAAAATTAGTATTATTTGGTGTAAAATGAGGTAAAAAAGTGTCATA
* * * * **
9982976 ATATATTAAGAAAAAA-ATATAACAATTACAAATGTAATGGAAA-ATT
189 ACACACTAAGAAAAAATA-ATAACAATTATAAACATAAT-GAAAGA-T
* * * * * * * * ** * *
9983022 A-AACAACCGTAAGAAA-ATATTATTGTAAAATAAATAATTTTGTTGATAATGTAAATTTTTAAT
1 AGAACAACCATAA-AAACAAATTATTATAACATAAATAACTATATAGCCAACGTAAAATTTTAAT
* * * *
9983085 TAATTATTTTTCCTATAAATATATGAGAAAAATAGCTAAAAATTAAAAAA-ACAAATTGATAATA
65 TATTTATTTTT--TGTAAATATAT-A-AAAAATAGCTAAAAATTAAAAAATA-AAA-TGGTAATG
* ** * * * * *
9983149 TAAACAAATAAG--AAACGTAAAATTAGTATTATTTGGTATCAAAT--GG-ATAGAAGTATCATA
124 TAAACAAGTAAGAAAAATATAAAATTAGTATTATTTGGTGTAAAATGAGGTAAAAAAGTGTCATA
* * * ** * * * *
9983209 AAATACTAAGAAAGAGCAATGATAATTTTAAACATAGTGAAA-AGT
189 ACACACTAAGAAAAAATAATAACAATTATAAACATAATGAAAGA-T
* * ** * * * * * * *
9983254 AAGAACAATCATAAAAATATTTTTTTATAATATAAATTATTATGAT-GGCAATGTAACATTTTAA
1 -AGAACAACCATAAAAACAAATTATTATAACATAAATAACTAT-ATAGCCAACGTAAAATTTTAA
* * *
9983318 TTAATTGT-TATTTTTGTATATATTTATGAAAAATAGCTAAAAATTAAAAAATAAATTGGTAATG
64 TT-ATT-TAT-TTTTTGTA-A-ATATATAAAAAATAGCTAAAAATTAAAAAATAAAATGGTAATG
* * * *
9983382 TAAACAAGTAAGAAGAAACATAAAATCAGTATTATTTGGTGTAAAAT-AGGTAAAAAATTGTCTT
124 TAAACAAGTAAGAA-AAATATAAAATTAGTATTATTTGGTGTAAAATGAGGTAAAAAAGTGTCAT
* * * * * ** *
9983446 AACACACTAAGAAAGAGTTATAATAATTTTAAATGTAATGGAAGAT
188 AACACACTAAGAAAAAATAATAACAATTATAAACATAATGAAAGAT
* * * * * * * *
9983492 AAGAATAACCATAAGAACATATTATTATAACATAAATAATTATATTGGCAATGTAAAATTTTAAC
1 -AGAACAACCATAAAAACAAATTATTATAACATAAATAACTATATAGCCAACGTAAAATTTTAAT
* * * * * *
9983557 TAATAATTATTTTTTAAATATATAAGAAAAATAGCTAAAAATTGAAAAA-CAAATAGATAATGTA
65 TATTTATT-TTTTGTAAATATAT-A-AAAAATAGCTAAAAATTAAAAAATAAAAT-GGTAATGTA
* * * * *
9983621 AAAAAGTAAGAAAAATGTAAAATTACTATAATTTGATGTAAAATGA-GT-AAAAAGTGTCATAAC
126 AACAAGTAAGAAAAATATAAAATTAGTATTATTTGGTGTAAAATGAGGTAAAAAAGTGTCATAAC
* * *
9983684 ATACTAAGAAAAAATAATGACAATTATAAACATAATTAAAGCAT
191 ACACTAAGAAAAAATAATAACAATTATAAACATAATGAAAG-AT
* * * *
9983728 -GACCAATCATAAAAAAGAAATTATTGTAACGA-AAATAACTA-AGTAGCCAACGTAAAATTTTA
1 AGAACAACCAT-AAAAACAAATTATTATAAC-ATAAATAACTATA-TAGCCAACGTAAAATTTTA
* *
9983790 ATTATTTATTTTTTGTAAATATAT-AAAAATAGCTAAAAATTAAAAAATGAACTGGTAATGTAAA
63 ATTATTTATTTTTTGTAAATATATAAAAAATAGCTAAAAATTAAAAAATAAAATGGTAATGTAAA
* * ** * * *
9983854 CAAGTGAGAAAAAATATAAAA-TAGTATTATTTGGTGTAAAATGA--TTATGAATTATCATAATA
128 CAAGTAAG-AAAAATATAAAATTAGTATTATTTGGTGTAAAATGAGGTAAAAAAGTGTCATAACA
* * * * * * * *
9983916 CGCTAA-AAAGAGTTATGATAATTCTAAATATAATGAAA-ATT
192 CACTAAGAAAAAATAATAACAATTATAAACATAATGAAAGA-T
* * * * * * * * ** **
9983957 AAGAACTACCCTAATAATATATTGTTGTAACGTAAATAACTATAT-GGTAATATAAAATTTTAAT
1 -AGAACAACCATAAAAACAAATTATTATAACATAAATAACTATATAGCCAACGTAAAATTTTAAT
* * * * * * *
9984021 TAATTATTATTTTATAAATATCTATGAAAAATAGCTAGAAATTAAAAAATAAATTAGTAACGTAA
65 TATTTATT-TTTTGTAAATA--TATAAAAAATAGCTAAAAATTAAAAAATAAAATGGTAATGTAA
* * ** ** * *
9984086 ACAAGTAAGAACAAATGT-AAATTAGCACCATTTAATGTAAAATGA-GTAAAAAA-TAAT-GTAA
127 ACAAGTAAGAA-AAATATAAAATTAGTATTATTTGGTGTAAAATGAGGTAAAAAAGT-GTCATAA
* *** * ** * *
9984147 TATGTTAAGAAAGAATTGTAACAATTGTAAATATAATGAAA-AGT
190 CACACTAAGAAAAAATAATAACAATTATAAACATAATGAAAGA-T
* * * * * * **** *
9984191 AAAAAAAACAGTAAAAA-ATATTATTATAA-AGGT-AATAATTATGTTTATAAAGTAAAATTTTA
1 AGAACAACCA-TAAAAACAAATTATTATAACA--TAAATAACTATATAGCCAACGTAAAATTTTA
* * * *
9984253 ATTATTTATTATTCTTGTAAATATATTAAAAAATAGC-AAAAACTAAAAAACAAATTGATAATGT
63 ATTATTTATT-TT-TTGTAAATATA-TAAAAAATAGCTAAAAATTAAAAAATAAAATGGTAATGT
* * * * * * * * * **
9984317 AAACAAGTGAGAAGTAATGTAAAATTAATACTATTTTGGAGTAAAATG-GGT-TAGAAGTATTGT
125 AAACAAGTAAGAA-AAATATAAAATTAGTATTA-TTTGGTGTAAAATGAGGTAAAAAAGTGTCAT
* * * * * *
9984380 AACACATTAAGAAAGAGTTACAACAATTTTAAACATAATGAAA
188 AACACACTAAGAAAAAATAATAACAATTATAAACATAATGAAA
9984423 AGTAAAAACA
Statistics
Matches: 1093, Mismatches: 241, Indels: 135
0.74 0.16 0.09
Matches are distributed among these distances:
228 1 0.00
229 23 0.02
230 61 0.06
231 80 0.07
232 28 0.03
233 196 0.18
234 214 0.20
235 214 0.20
236 109 0.10
237 69 0.06
238 97 0.09
239 1 0.00
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (233 bp):
AGAACAACCATAAAAACAAATTATTATAACATAAATAACTATATAGCCAACGTAAAATTTTAATT
ATTTATTTTTTGTAAATATATAAAAAATAGCTAAAAATTAAAAAATAAAATGGTAATGTAAACAA
GTAAGAAAAATATAAAATTAGTATTATTTGGTGTAAAATGAGGTAAAAAAGTGTCATAACACACT
AAGAAAAAATAATAACAATTATAAACATAATGAAAGAT
Found at i:9984225 original size:21 final size:20
Alignment explanation
Indices: 9984200--9984247 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
9984190 TAAAAAAAAC
9984200 AGTAAAAAATAT-TATTATAA
1 AGTAAAAAATATGT-TTATAA
* *
9984220 AGGTAATAATTATGTTTATAA
1 A-GTAAAAAATATGTTTATAA
9984241 AGTAAAA
1 AGTAAAA
9984248 TTTTAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 6 0.26
21 16 0.70
22 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.35
Consensus pattern (20 bp):
AGTAAAAAATATGTTTATAA
Found at i:9984287 original size:234 final size:232
Alignment explanation
Indices: 9982755--9984454 Score: 743
Period size: 235 Copynumber: 7.3 Consensus size: 232
9982745 ACTAAAAAAT
* * * * * *
9982755 GTTATGACAATTCTAAATGTAATGGAAAGTAAGAACAACCA-TAATAATATATTATTGT-AACAT
1 GTTATAACAATTCTAAATATAATGAAAAGTAAAAACAA-CAGTAA-AATATATTATTATAAACGT
* ** * * *
9982818 AAA-AAAT-TATACTAACAACGTGAAATTTTAATTAATTATCATTTTGTAAATAT-TTAAGGAAA
64 AAATAACTATATGGTAA-AA-GTAAAATTTTAATTATTTATTATTTTGTAAATATATT-A--AAA
* * * ***
9982880 ATATG-TAGAAATTAAAAAATAAATTGATAAAGTAAATAAGTGA-AAACAACCATAAGATTAGTA
124 ATA-GCTAAAAATTAAAAAATAAATTG-TAATGTAAACAAGTGAGAAA-AAATGTAA-ATTAGTA
* ** * * ** *
9982943 TTATTTGACATAAAATAAG-TAATAAGT-ATCGTAATATATTAAGAAAAA
185 CTATTTGATGTAAAATGAGTTAA-AAATAAT-GTAATACGTTAAGAAAGA
** * * * * * *
9982991 AATATAACAATTAC-AAATGTAATGGAAAA-T-TAAACAACCGTAAGAAAATATTATTGTAAA-A
1 GTTATAACAATT-CTAAATATAAT-GAAAAGTAAAAACAACAGTAA-AATATATTATTATAAACG
* * * * * * *
9983052 TAAATAA-T-TTTGTTGATAATGTAAATTTTTAATTAATTATT-TTTCCTATAAATATATGAGAA
63 TAAATAACTATATGGT-A-AAAGTAAAATTTTAATTATTTATTATTT--TGTAAATATAT--TAA
* * * * *
9983114 AAATAGCTAAAAATTAAAAAAACAAATTGATAATATAAACAA---ATAAGAAACGTAAAATTAGT
122 AAATAGCTAAAAATT-AAAAAATAAATTG-TAATGTAAACAAGTGAGAAAAAATGT-AAATTAGT
* * * * * * * **
9983176 ATTATTTGGTATCAAATG-GATAGAAGTATCATAAAATAC--TAAGAAAGA
184 ACTATTTGATGTAAAATGAGTTA-AA-AATAATGTAATACGTTAAGAAAGA
** * * * * * * * *
9983224 GCAATGATAATTTTAAACATAGTGAAAAGTAAGAACAATCA-TAAAAATATTTTTTTATAATA--
1 GTTATAACAATTCTAAATATAATGAAAAGTAAAAACAA-CAGT-AAAATATATTATTATAA-ACG
* * * * * * * * *
9983286 TAAATTATTATGATGG-CAATGTAACATTTTAATTAATTGTTATTTTTGTATATATTTATGAAAA
63 TAAATAACTAT-ATGGTAAAAGTAAAATTTTAATTATTTATTA-TTTTGTA-A-ATATATTAAAA
* * * *
9983350 ATAGCTAAAAATTAAAAAATAAATTGGTAATGTAAACAAGTAAGAAGAAACAT-AAAATCAGTAT
124 ATAGCTAAAAATTAAAAAATAAATT-GTAATGTAAACAAGTGAGAA-AAA-ATGTAAATTAGTAC
* * * * **
9983414 TATTTGGTGTAAAAT-AGGTAAAAA-ATTGTCTTAACACACTAAGAAAGA
186 TATTTGATGTAAAATGAGTTAAAAATAATG---TAATACGTTAAGAAAGA
* * * * * * * *
9983462 GTTATAATAATTTTAAATGTAATG-GAAGATAAGAATAACCA-TAAGAACATATTATTAT-AACA
1 GTTATAACAATTCTAAATATAATGAAAAG-TAAAAACAA-CAGTAA-AATATATTATTATAAACG
* * * * * * * *
9983524 TAAATAATTATATTGG-CAATGTAAAATTTTAACTAATAATTATTTTTTAAATATATAAGAAAAA
63 TAAATAACTATA-TGGTAAAAGTAAAATTTTAATTATTTATTATTTTGTAAATATAT--TAAAAA
* * * * * *
9983588 TAGCTAAAAATTGAAAAACAAATAGATAATGTAAAAAAGTAAG-AAAAATGTAAAATTACTA-TA
125 TAGCTAAAAATTAAAAAATAAATTG-TAATGTAAACAAGTGAGAAAAAATGT-AAATTAGTACT-
* * * *
9983651 ATTTGATGTAAAATGAG-T-AAAA-AGTGTCATAACATACTAAGAAAAA
187 ATTTGATGTAAAATGAGTTAAAAATAATGTAAT-ACGT--TAAGAAAGA
* * * * * * * ** * * * *
9983697 ATAATGACAATTATAAACATAAT-TAAAGCATGACCAATCA-TAAAAAAGAAATTATTGT-AACG
1 GTTATAACAATTCTAAATATAATGAAAAGTAAAAACAA-CAGT--AAAATATATTATTATAAACG
* * ** *
9983759 AAAATAACTA-AGTAGCCAACGTAAAATTTTAATTATTTATT-TTTTGTAAATATA-TAAAAATA
63 TAAATAACTATA-TGGTAAAAGTAAAATTTTAATTATTTATTATTTTGTAAATATATTAAAAATA
* * * * *
9983821 GCTAAAAATTAAAAAATGAACTGGTAATGTAAACAAGTGAGAAAAAATATAAAATAGTATTATTT
127 GCTAAAAATTAAAAAAT-AAATTGTAATGTAAACAAGTGAGAAAAAATGTAAATTAGTACTATTT
* ** * * *
9983886 GGTGTAAAATGA-TTATGAATTATCATAATACGCTAA-AAAGA
191 GATGTAAAATGAGTTAAAAATAAT-GTAATACGTTAAGAAAGA
* * * * * ** * *
9983927 GTTATGATAATTCTAAATATAATGAAAATTAAGAACTACCCTAATAATATATTGTTGT-AACGTA
1 GTTATAACAATTCTAAATATAATGAAAAGTAAAAACAACAGTAA-AATATATTATTATAAACGTA
* * * *
9983991 AATAACTATATGGTAATA-TAAAATTTTAATTAATTATTATTTTATAAATATCTATGAAAAATAG
65 AATAACTATATGGTAAAAGTAAAATTTTAATTATTTATTATTTTGTAAATA--TATTAAAAATAG
* * * * * * *
9984055 CTAGAAATTAAAAAATAAATTAGTAACGTAAACAAGTAAGAACAAATGTAAATTAGCACCATTTA
128 CTAAAAATTAAAAAATAAATT-GTAATGTAAACAAGTGAGAAAAAATGTAAATTAGTACTATTTG
* *
9984120 ATGTAAAATGAGTAAAAAATAATGTAATATGTTAAGAAAGA
192 ATGTAAAATGAGTTAAAAATAATGTAATACGTTAAGAAAGA
* * * * * *
9984161 ATTGTAACAATTGTAAATATAATGAAAAGTAAAAAAAACAGTAAAAAATATTATTATAAAGGT-A
1 GTTATAACAATTCTAAATATAATGAAAAGTAAAAACAACAGTAAAATATATTATTATAAACGTAA
*
9984225 ATAA-T-TATGTTTATAAAGTAAAATTTTAATTATTTATTATTCTTGTAAATATATTAAAAAATA
66 ATAACTATATG-GTA-AAAGTAAAATTTTAATTATTTATTATT-TTGTAAATATATT-AAAAATA
* * ** *
9984288 GC-AAAAACTAAAAAACAAATTGATAATGTAAACAAGTGAGAAGTAATGTAAAATTAATACTATT
127 GCTAAAAATTAAAAAATAAATTG-TAATGTAAACAAGTGAGAAAAAATGT-AAATTAGTACTA-T
* * * * * *
9984352 TTGGA-GTAAAATGGGTTAGAAGTATTGTAACACATTAAGAAAGA
189 TT-GATGTAAAATGAGTTAAAAATAATGTAATACGTTAAGAAAGA
* * * * *
9984396 GTTACAACAATTTTAAACATAATGAAAAGTAAAAACAATAGTAAAATATTTTATTATAA
1 GTTATAACAATTCTAAATATAATGAAAAGTAAAAACAACAGTAAAATATATTATTATAA
9984455 TGTTTATAAT
Statistics
Matches: 1125, Mismatches: 247, Indels: 185
0.72 0.16 0.12
Matches are distributed among these distances:
229 21 0.02
230 59 0.05
231 77 0.07
232 30 0.03
233 186 0.17
234 216 0.19
235 243 0.22
236 117 0.10
237 91 0.08
238 85 0.08
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (232 bp):
GTTATAACAATTCTAAATATAATGAAAAGTAAAAACAACAGTAAAATATATTATTATAAACGTAA
ATAACTATATGGTAAAAGTAAAATTTTAATTATTTATTATTTTGTAAATATATTAAAAATAGCTA
AAAATTAAAAAATAAATTGTAATGTAAACAAGTGAGAAAAAATGTAAATTAGTACTATTTGATGT
AAAATGAGTTAAAAATAATGTAATACGTTAAGAAAGA
Found at i:9984422 original size:235 final size:233
Alignment explanation
Indices: 9982755--9984624 Score: 1034
Period size: 233 Copynumber: 8.0 Consensus size: 233
9982745 ACTAAAAAAT
* * ** * * * * *
9982755 GTTATGACAATTCTAAATGTAATGGAAAGTAAGAACAACCATAATAATATATTATTGTAACATAA
1 GTTATAACAATTTTAAACATAATGAAAAGTAA-AAAAAACATAA-AAAATATTATTATAA-ATAA
* ** * * * * *
9982820 AAAATTATACTAACAACGTGAAATTTTAATTAATTATCATTTTGTAAATAT-TTAAGGAAAATAT
63 ATAATTATGTTGACAATGTAAAATTTTAATTAATTATTATTTTGTAAATATATT-AGAAAAATA-
* * * * * *** *
9982884 G-TAGAAATTAAAAAATAAATTGATAAAGTAAATAAGTGAA-AACAACCATAAGATTAGTATTAT
126 GCTAAAAATTAAAAAACAAATTGATAATGTAAACAAGT-AAGAAGAAATGTAAAATTAGTATTAT
* ** * * * * * * *
9982947 TT-GACATAAAATAAGTAATAAGTATCGTAATATATTAAGAAAAA
190 TTGGA-GTAAAATGGGTTAGAAGTATCATAACACACTAAGAAAGA
** ** ** * * * * *
9982991 AATATAACAATTACAAATGTAATGGAAAA-TTAAACAACCGTAAGAAAATATTATTGTAAAATAA
1 GTTATAACAATTTTAAACATAAT-GAAAAGTAAAAAAAACATAA-AAAATATTATTAT-AAATAA
* * * * *
9983055 ATAATTTTGTTGATAATGTAAATTTTTAATTAATTATT-TTTCCTATAAATATATGAGAAAAATA
63 ATAATTATGTTGACAATGTAAAATTTTAATTAATTATTATTT--TGTAAATATATTAGAAAAATA
* * *
9983119 GCTAAAAATTAAAAAAACAAATTGATAATATAAAC-A--AATAAGAAACGTAAAATTAGTATTAT
126 GCTAAAAATT-AAAAAACAAATTGATAATGTAAACAAGTAAGAAGAAATGTAAAATTAGTATTAT
* * * *
9983181 TTGGTA-TCAAAT-GGATAGAAGTATCATAAAATACTAAGAAAGA
190 TTGG-AGTAAAATGGGTTAGAAGTATCATAACACACTAAGAAAGA
** * * * * * * *
9983224 GCAATGATAATTTTAAACATAGTGAAAAGTAAGAACAATCATAAAAATATTTTTTTATAATATAA
1 GTTATAACAATTTTAAACATAATGAAAAGTAA-AAAAAACATAAAAA-ATATTATTATAA-ATAA
* * * * * *
9983289 ATTATTATGATGGCAATGTAACATTTTAATTAATTGTTATTTTTGTATATAT-TTATGAAAAATA
63 ATAATTATGTTGACAATGTAAAATTTTAATTAATTATTA-TTTTGTAAATATATTA-GAAAAATA
* * ** *
9983353 GCTAAAAATTAAAAAATAAATTGGTAATGTAAACAAGTAAGAAGAAACATAAAATCAGTATTATT
126 GCTAAAAATTAAAAAACAAATTGATAATGTAAACAAGTAAGAAGAAATGTAAAATTAGTATTATT
* * * * * * *
9983418 TGGTGTAAAATAGGTAAAAAATTGTCTTAACACACTAAGAAAGA
191 TGGAGTAAAATGGGT-TAGAAGTATCATAACACACTAAGAAAGA
* ** * * * *
9983462 GTTATAATAATTTTAAATGTAATG-GAAGATAAGAATAACCATAAGAACATATTATTATAACATA
1 GTTATAACAATTTTAAACATAATGAAAAG-TAA-AAAAAACATAA-AAAATATTATTATAA-ATA
* * * * * *
9983526 AATAATTATATTGGCAATGTAAAATTTTAACTAATAATTATTTTTTAAATATATAAGAAAAATAG
62 AATAATTATGTTGACAATGTAAAATTTTAATTAATTATTATTTTGTAAATATATTAGAAAAATAG
* * * * *
9983591 CTAAAAATTGAAAAACAAATAGATAATGTAAAAAAGTAAGAA-AAATGTAAAATTACTATAATTT
127 CTAAAAATTAAAAAACAAATTGATAATGTAAACAAGTAAGAAGAAATGTAAAATTAGTATTATTT
* * * * * *
9983655 -GATGTAAAATGAGTAAAAAGTGTCATAACATACTAAGAAAAA
192 GGA-GTAAAATGGGTTAGAAGTATCATAACACACTAAGAAAGA
* * * * * * * ** * * *
9983697 ATAATGACAATTATAAACATAAT-TAAAGCATGACCAATCATAAAAAAGAAATTATTGTAACGA-
1 GTTATAACAATTTTAAACATAATGAAAAGTA-AAAAAAACAT-AAAAA-ATATTATTATAA--AT
* * * * * *
9983760 AAATAACTAAGTAGCCAACGTAAAATTTTAATTATTTATT-TTTTGTAAATATA-T--AAAAATA
61 AAATAATTATGTTGACAATGTAAAATTTTAATTAATTATTATTTTGTAAATATATTAGAAAAATA
** * * * * *
9983821 GCTAAAAATTAAAAAATGAACTGGTAATGTAAACAAGTGAGAAAAAATATAAAA-TAGTATTATT
126 GCTAAAAATTAAAAAACAAATTGATAATGTAAACAAGTAAGAAGAAATGTAAAATTAGTATTATT
* * * * *
9983885 TGGTGTAAAAT-GATTATGAATTATCATAATACGCTAA-AAAGA
191 TGGAGTAAAATGGGTTA-GAAGTATCATAACACACTAAGAAAGA
* * * * * ** * * * * * *
9983927 GTTATGATAATTCTAAATATAATGAAAATTAAGAACTACCCTAATAATATATTGTTGTAACGTAA
1 GTTATAACAATTTTAAACATAATGAAAAGTAA-AAAAAACATAA-AAAATATTATTATAA-ATAA
* * ** * * *
9983992 ATAACTAT-ATGGTAATATAAAATTTTAATTAATTATTATTTTATAAATAT-CTATGAAAAATAG
63 ATAATTATGTTGACAATGTAAAATTTTAATTAATTATTATTTTGTAAATATATTA-GAAAAATAG
* * * * * **
9984055 CTAGAAATTAAAAAATAAATT-AGTAACGTAAACAAGTAAGAACAAATGT-AAATTAGCACCATT
127 CTAAAAATTAAAAAACAAATTGA-TAATGTAAACAAGTAAGAAGAAATGTAAAATTAGTATTATT
* * * * * * * ***
9984118 T-AATGTAAAATGAGTAAAAAATAAT-GTAATATGTTAAGAAAGA
191 TGGA-GTAAAATGGGTTAGAAGT-ATCATAACACACTAAGAAAGA
* * * *
9984161 ATTGTAACAATTGTAAATATAATGAAAAGTAAAAAAAACAGTAAAAAATATTATTATAAAGGT-A
1 GTTATAACAATTTTAAACATAATGAAAAGTAAAAAAAACA-TAAAAAATATTATTATAAA--TAA
* * * *
9984225 ATAATTATGTTTATAAAGTAAAATTTTAATTATTTATTATTCTTGTAAATATATTA-AAAAATAG
63 ATAATTATGTTGACAATGTAAAATTTTAATTAATTATTATT-TTGTAAATATATTAGAAAAATAG
* * * * *
9984289 C-AAAAACTAAAAAACAAATTGATAATGTAAACAAGTGAGAAGTAATGTAAAATTAATACTATTT
127 CTAAAAATTAAAAAACAAATTGATAATGTAAACAAGTAAGAAGAAATGTAAAATTAGTATTA-TT
** *
9984353 TGGAGTAAAATGGGTTAGAAGTATTGTAACACATTAAGAAAGA
191 TGGAGTAAAATGGGTTAGAAGTATCATAACACACTAAGAAAGA
* * * *
9984396 GTTACAACAATTTTAAACATAATGAAAAGT-AAAAACA-ATAGTAAAATATT-TTAT-TAT-AAT
1 GTTATAACAATTTTAAACATAATGAAAAGTAAAAAAAACATA-AAAAATATTATTATAAATAAAT
** ** * * * * * *
9984456 GTTTATAATGACAATGTAAAATTTTAATTAACTATTGTTATTATATATATATGCTAGGAGAATAG
65 AATTATGTTGACAATGTAAAATTTTAATTAATTATTATT-TTGTAAATATAT--TAGAAAAATAG
* * * * * * * *
9984521 CTAGAAA-T--AAAA-AATTTGATAATATAAATAAGTGAGAAAAAATGTAAAATTAGTATCAGTT
127 CTAAAAATTAAAAAACAAATTGATAATGTAAACAAGTAAGAAGAAATGTAAAATTAGTATTATTT
* * * * * *
9984582 GAAGTAAAATGGGTAAAAAATATCGTAATACACTAAGAAAGA
192 GGAGTAAAATGGGTTAGAAGTATCATAACACACTAAGAAAGA
9984624 G
1 G
9984625 CTATGATAGT
Statistics
Matches: 1265, Mismatches: 303, Indels: 140
0.74 0.18 0.08
Matches are distributed among these distances:
228 38 0.03
229 103 0.08
230 61 0.05
231 86 0.07
232 32 0.03
233 218 0.17
234 218 0.17
235 209 0.17
236 112 0.09
237 86 0.07
238 100 0.08
239 2 0.00
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (233 bp):
GTTATAACAATTTTAAACATAATGAAAAGTAAAAAAAACATAAAAAATATTATTATAAATAAATA
ATTATGTTGACAATGTAAAATTTTAATTAATTATTATTTTGTAAATATATTAGAAAAATAGCTAA
AAATTAAAAAACAAATTGATAATGTAAACAAGTAAGAAGAAATGTAAAATTAGTATTATTTGGAG
TAAAATGGGTTAGAAGTATCATAACACACTAAGAAAGA
Found at i:9994445 original size:20 final size:21
Alignment explanation
Indices: 9994421--9994470 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
9994411 CCTACATAAG
9994421 GGATCGATCACCTAAAG-AACA
1 GGATCGATCACCTAAAGTAA-A
* *
9994442 -GATCTATCCCCTAAAGTAAA
1 GGATCGATCACCTAAAGTAAA
9994462 GGATCGATC
1 GGATCGATC
9994471 GAGTAAGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (21 bp):
GGATCGATCACCTAAAGTAAA
Found at i:9995421 original size:16 final size:17
Alignment explanation
Indices: 9995391--9995428 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
9995381 TCATTATTCC
9995391 ATTT-TTAATCTTAAAA
1 ATTTATTAATCTTAAAA
*
9995407 ATTTATTAATC-TAAAT
1 ATTTATTAATCTTAAAA
9995423 ATTTAT
1 ATTTAT
9995429 CTAGTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATTAATCTTAAAA
Found at i:9996299 original size:19 final size:19
Alignment explanation
Indices: 9996273--9996318 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
9996263 CCCTATTTGA
9996273 TTTT-ATTTTCATTATT-TT
1 TTTTAATTTT-ATTATTATT
*
9996291 TTTTAATTTTTTTATTATT
1 TTTTAATTTTATTATTATT
*
9996310 TTTGAATTT
1 TTTTAATTT
9996319 AAAGATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTAATTTTATTATTATT
Found at i:9996804 original size:15 final size:16
Alignment explanation
Indices: 9996777--9996806 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9996767 ACACAGTAAG
9996777 TGTTTTAATTTTGGGT
1 TGTTTTAATTTTGGGT
9996793 TGTTTT-ATTTTGGG
1 TGTTTTAATTTTGGG
9996807 GAGATTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.10, C:0.00, G:0.27, T:0.63
Consensus pattern (16 bp):
TGTTTTAATTTTGGGT
Found at i:9997288 original size:29 final size:30
Alignment explanation
Indices: 9997250--9997321 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 30
9997240 TCGGTTCCTT
*
9997250 TTTTTCATTTTATTTATTCA-TT-TATCTTTA
1 TTTTT-ATTTTATTTATTCAGTTGTAT-TCTA
*
9997280 TTTTTATTTTA-TTATTTAGTTGTATTCTA
1 TTTTTATTTTATTTATTCAGTTGTATTCTA
9997309 -TTTTATTTTATTT
1 TTTTTATTTTATTT
9997322 GTAGATTTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
28 16 0.43
29 13 0.35
30 8 0.22
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (30 bp):
TTTTTATTTTATTTATTCAGTTGTATTCTA
Found at i:9997305 original size:24 final size:24
Alignment explanation
Indices: 9997256--9997315 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
9997246 CCTTTTTTTC
*
9997256 ATTTTA-TTTATTCATTTATCTTT
1 ATTTTATTTTATTCATTTATCTGT
9997279 ATTTTTATTTTATT-ATTTAGT-TGT
1 A-TTTTATTTTATTCATTTA-TCTGT
*
9997303 ATTCTATTTTATT
1 ATTTTATTTTATT
9997316 TTATTTGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 12 0.38
24 13 0.41
25 7 0.22
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (24 bp):
ATTTTATTTTATTCATTTATCTGT
Found at i:9997339 original size:29 final size:28
Alignment explanation
Indices: 9997281--9997342 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
9997271 TTATCTTTAT
* *
9997281 TTTTATTTTATTATTTAGTTGTATTCTA
1 TTTTATTTTATTATGTAGTTGGATTCTA
*
9997309 TTTTATTTTATT-TGTAGATTTGGATTGTA
1 TTTTATTTTATTATGTAG--TTGGATTCTA
9997338 TTTTA
1 TTTTA
9997343 GAATAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 4 0.14
28 12 0.41
29 13 0.45
ACGTcount: A:0.21, C:0.02, G:0.11, T:0.66
Consensus pattern (28 bp):
TTTTATTTTATTATGTAGTTGGATTCTA
Found at i:10008384 original size:6 final size:7
Alignment explanation
Indices: 10008366--10008392 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10008356 GGTGAACAAT
10008366 GAAAAAA
1 GAAAAAA
10008373 GAAAAAA
1 GAAAAAA
10008380 GAAAAAA
1 GAAAAAA
10008387 GAAAAA
1 GAAAAA
10008393 TGGAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:10008399 original size:14 final size:14
Alignment explanation
Indices: 10008363--10008401 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
10008353 AGTGGTGAAC
10008363 AATGAAAAAAGAAA
1 AATGAAAAAAGAAA
*
10008377 AAAGAAAAAAGAAA
1 AATGAAAAAAGAAA
10008391 AATGGAAAAAA
1 AAT-GAAAAAA
10008402 TGTGAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.05
Consensus pattern (14 bp):
AATGAAAAAAGAAA
Found at i:10008429 original size:20 final size:20
Alignment explanation
Indices: 10008366--10008430 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
10008356 GGTGAACAAT
* *
10008366 GAAAAAAGAAAAAAGAAAAAA
1 GAAAAATGAAAAAA-AAGAAA
* * **
10008387 GAAAAATGGAAAAAATGTGA
1 GAAAAATGAAAAAAAAGAAA
*
10008407 GAAAAGTGAAAAAAAAGAAA
1 GAAAAATGAAAAAAAAGAAA
10008427 GAAA
1 GAAA
10008431 GAAAATTGAT
Statistics
Matches: 33, Mismatches: 11, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (20 bp):
GAAAAATGAAAAAAAAGAAA
Found at i:10008669 original size:43 final size:42
Alignment explanation
Indices: 10008615--10008763 Score: 122
Period size: 43 Copynumber: 3.5 Consensus size: 42
10008605 TTGATTTAAT
* *
10008615 AAACTTT-AATCTCCAATTGCAAATCTTT-AAACTCAAATTATG
1 AAACTTTGAATCTCAAATTGCAAATCTTTGAAA-TCAAATT-TA
* * *** * *
10008657 AACCTTTAAATCTCAAATTATGAATCTTTGAATTTTAAATTTCA
1 AAACTTTGAATCTCAAATTGCAAATCTTTGAA-ATCAAATTT-A
* * *
10008701 AAAATTTGAATCTCCAATTGCAAATCTTTGAAATCAAATTGTT
1 AAACTTTGAATCTCAAATTGCAAATCTTTGAAATCAAATT-TA
*
10008744 AATCTTTGAATCTCAAATTG
1 AAACTTTGAATCTCAAATTG
10008764 TGAAACTTTG
Statistics
Matches: 81, Mismatches: 21, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
42 6 0.07
43 41 0.51
44 34 0.42
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (42 bp):
AAACTTTGAATCTCAAATTGCAAATCTTTGAAATCAAATTTA
Found at i:10008730 original size:22 final size:22
Alignment explanation
Indices: 10008618--10008805 Score: 118
Period size: 22 Copynumber: 8.7 Consensus size: 22
10008608 ATTTAATAAA
*
10008618 CTTT-AATCTCCAATTGCAAAT
1 CTTTGAATCTCAAATTGCAAAT
* *** *
10008639 CTTT-AAACTCAAATTATGAAC
1 CTTTGAATCTCAAATTGCAAAT
* ***
10008660 CTTTAAATCTCAAATTATGAAT
1 CTTTGAATCTCAAATTGCAAAT
* * * *
10008682 CTTTGAATTTTAAATTTCAAAA
1 CTTTGAATCTCAAATTGCAAAT
* *
10008704 ATTTGAATCTCCAATTGCAAAT
1 CTTTGAATCTCAAATTGCAAAT
* **
10008726 CTTTGAA-ATCAAATTGTTAAT
1 CTTTGAATCTCAAATTGCAAAT
*
10008747 CTTTGAATCTCAAATTGTGAAA-
1 CTTTGAATCTCAAATTG-CAAAT
*
10008769 CTTTGAATAT-ACAATTGCAAAT
1 CTTTGAATCTCA-AATTGCAAAT
*
10008791 CGTTGAA-CTCAAATT
1 CTTTGAATCTCAAATT
10008806 ATGAATATTT
Statistics
Matches: 128, Mismatches: 33, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
21 45 0.35
22 81 0.63
23 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (22 bp):
CTTTGAATCTCAAATTGCAAAT
Found at i:10008773 original size:43 final size:44
Alignment explanation
Indices: 10008660--10008818 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 44
10008650 AATTATGAAC
* * * * * *
10008660 CTTTAAATCTCAAATTATGAATCTTTGAATTTTA-AATTTCAAAA
1 CTTTGAATCTCAAATTGTGAAACTTTGAA-TATACAATTGCAAAT
* * * **
10008704 ATTTGAATCTCCAATTG-CAAATCTTTGAA-AT-CAAATTGTTAAT
1 CTTTGAATCTCAAATTGTGAAA-CTTTGAATATAC-AATTGCAAAT
10008747 CTTTGAATCTCAAATTGTGAAACTTTGAATATACAATTGCAAAT
1 CTTTGAATCTCAAATTGTGAAACTTTGAATATACAATTGCAAAT
* *
10008791 CGTTGAA-CTCAAATTATGAATA-TTTGAA
1 CTTTGAATCTCAAATTGTGAA-ACTTTGAA
10008819 CTTCATATTG
Statistics
Matches: 90, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
42 1 0.01
43 48 0.53
44 40 0.44
45 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (44 bp):
CTTTGAATCTCAAATTGTGAAACTTTGAATATACAATTGCAAAT
Found at i:10008774 original size:65 final size:65
Alignment explanation
Indices: 10008669--10008837 Score: 198
Period size: 65 Copynumber: 2.6 Consensus size: 65
10008659 CCTTTAAATC
* * * * * *
10008669 TCAAATTATGAATCTTTGAATTTTAAATT-TCAAAAATTTGAATCTCCAATTGCAAATCTTTGAA
1 TCAAATTATGAATCTTTGAATCTCAAATTGT-AAAACTTTGAATATACAATTGCAAATCGTTGAA
10008733 A
65 A
* * * *
10008734 TCAAATTGTTAATCTTTGAATCTCAAATTGTGAAACTTTGAATATACAATTGCAAATCGTTGAAC
1 TCAAATTATGAATCTTTGAATCTCAAATTGTAAAACTTTGAATATACAATTGCAAATCGTTGAAA
* *
10008799 TCAAATTATGAATATTTGAA-CTTCATATTGTAAAACTTT
1 TCAAATTATGAATCTTTGAATC-TCAAATTGTAAAACTTT
10008838 AGATTCTTAC
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 1 0.01
65 85 0.98
66 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (65 bp):
TCAAATTATGAATCTTTGAATCTCAAATTGTAAAACTTTGAATATACAATTGCAAATCGTTGAAA
Found at i:10008797 original size:87 final size:87
Alignment explanation
Indices: 10008622--10008789 Score: 223
Period size: 87 Copynumber: 1.9 Consensus size: 87
10008612 AATAAACTTT
*
10008622 AATCTCCAATTGCAAATCTTTAAACTCAAATTATGAACCTTTAAATCTCAAATTATGAATCTTTG
1 AATCTCCAATTGCAAATCTTTAAACTCAAATTATGAACCTTTAAATCTCAAATTATGAAACTTTG
* * *
10008687 AATTTTAAATTTCAAAAATTTG
66 AATTATAAATTGCAAAAAGTTG
* * * * *
10008709 AATCTCCAATTGCAAATCTTTGAAA-TCAAATTGTTAATCTTTGAATCTCAAATTGTGAAACTTT
1 AATCTCCAATTGCAAATCTTT-AAACTCAAATTATGAACCTTTAAATCTCAAATTATGAAACTTT
10008773 GAA-TATACAATTGCAAA
65 GAATTATA-AATTGCAAA
10008790 TCGTTGAACT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
86 3 0.04
87 65 0.92
88 3 0.04
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (87 bp):
AATCTCCAATTGCAAATCTTTAAACTCAAATTATGAACCTTTAAATCTCAAATTATGAAACTTTG
AATTATAAATTGCAAAAAGTTG
Found at i:10008903 original size:23 final size:23
Alignment explanation
Indices: 10008877--10008920 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10008867 GAATTTTTTA
* *
10008877 ATTTCAAGTGTGAATCTTTGAAT
1 ATTTAAAGTATGAATCTTTGAAT
*
10008900 ATTTAAATTATGAATCTTTGA
1 ATTTAAAGTATGAATCTTTGA
10008921 TTGTGAATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (23 bp):
ATTTAAAGTATGAATCTTTGAAT
Found at i:10008929 original size:14 final size:14
Alignment explanation
Indices: 10008895--10008948 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
10008885 TGTGAATCTT
* *
10008895 TGAATATTTAAATTA
1 TGAATCTTT-AATTG
*
10008910 TGAATCTTTGATTG
1 TGAATCTTTAATTG
10008924 TGAATCTTTAATTG
1 TGAATCTTTAATTG
*
10008938 TGAATTTTTAA
1 TGAATCTTTAA
10008949 GATTGAACGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 26 0.76
15 8 0.24
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (14 bp):
TGAATCTTTAATTG
Found at i:10008991 original size:33 final size:33
Alignment explanation
Indices: 10008949--10009028 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
10008939 GAATTTTTAA
* *
10008949 GATTGAACGTAATGGGTATCTATATATTTGCAT
1 GATTGAACGTAATGGGTATCGATATATTTGCAC
* *
10008982 GATTGAACGTAATAGGTATCGATATCTTTGCAC
1 GATTGAACGTAATGGGTATCGATATATTTGCAC
* *
10009015 GATTAAATGTAATG
1 GATTGAACGTAATG
10009029 AGTACTTATG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (33 bp):
GATTGAACGTAATGGGTATCGATATATTTGCAC
Found at i:10010233 original size:16 final size:16
Alignment explanation
Indices: 10010212--10010253 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10010202 ATTATTTTTT
*
10010212 AAATATAATTATATAA
1 AAATATAAATATATAA
*
10010228 AAATATAAATATATAT
1 AAATATAAATATATAA
*
10010244 AAATAAAAAT
1 AAATATAAAT
10010254 TAAATAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:10010236 original size:22 final size:21
Alignment explanation
Indices: 10010210--10010271 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
10010200 ACATTATTTT
*
10010210 TTAAATATA-ATTATATAAAAA
1 TTAAATATATA-TAAATAAAAA
10010231 TATAAATATATATAAATAAAAA
1 T-TAAATATATATAAATAAAAA
*
10010253 TTAAATA-AT-TAATTAAAAA
1 TTAAATATATATAAATAAAAA
10010272 ATAATTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
19 9 0.24
20 2 0.05
21 7 0.19
22 18 0.49
23 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TTAAATATATATAAATAAAAA
Found at i:10011396 original size:194 final size:193
Alignment explanation
Indices: 10010965--10011417 Score: 483
Period size: 194 Copynumber: 2.3 Consensus size: 193
10010955 CATGAAACTG
* * * * * * *
10010965 ATTCTCTTAAGATTTTTTAGATGATAAATTTTTTAAAATTAATTCTACTAAGAAGTTAGGAGAAT
1 ATTCTCTTAAGAATTCTTAGGTGAAAAATTTTCT-AAATTAATTCTAATAAGAAGTT-GGAGAAC
* *
10011030 TGTTTTTGGAAATGTTTCAATAAAAGGGATTTTTTAATTTCTTCATCATTAATAAATTAAATCAA
64 TGTTTTTGGAAATGTTTCAATAAAAGGGAGTTTTTAATTTCTTCATCATTAATAAATGAAATCAA
* * * *
10011095 TACATAAAATTTAAAATTAAATTAAATTTTCCTTATGATGGAATTAAAAGAGAAACACAAAGGTA
129 TACATAAAATTTAAAAGTAAATAAAATTTTCCTTATGAAGAAATTAAAAGAGAAACACAAAGGTA
* * * * * *
10011160 ATTCTCTTGAA-CATTCCTAAGT-AAGATATTTTTCTTAATTAATTATAATAAGAAGTTGGAAGA
1 ATTCTCTT-AAGAATTCTTAGGTGAA-A-AATTTTCTAAATTAATTCTAATAAGAAGTTGG-AGA
10011223 ACT-TTTTTGGAAATGTTTCAATAAAAGGGAAGTTTTT-ATTTCTTCATCATTAATAAATGAAAT
62 ACTGTTTTTGGAAATGTTTCAATAAAAGGG-AGTTTTTAATTTCTTCATCATTAATAAATGAAAT
* * *
10011286 CAATTCCTAAAATTTAAAGGTAAATAAGAATTCTT-C-TATGAAGAAATTAAAAGA-AAATC-CT
126 CAATACATAAAATTTAAAAGTAAATAA-AATT-TTCCTTATGAAGAAATTAAAAGAGAAA-CAC-
* *
10011347 AATGGTG
187 AAAGGTA
**
10011354 A-TCTTCTTAAGAATTCTTAGGTGAAAAATCTTTCTAAATTAATTCTAGCAAGAAGTTGGGAGAA
1 ATTC-TCTTAAGAATTCTTAGGTGAAAAAT-TTTCTAAATTAATTCTAATAAGAAGTT-GGAGAA
10011418 TTCTTTAGAA
Statistics
Matches: 212, Mismatches: 32, Indels: 29
0.78 0.12 0.11
Matches are distributed among these distances:
193 10 0.05
194 139 0.66
195 53 0.25
196 10 0.05
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.38
Consensus pattern (193 bp):
ATTCTCTTAAGAATTCTTAGGTGAAAAATTTTCTAAATTAATTCTAATAAGAAGTTGGAGAACTG
TTTTTGGAAATGTTTCAATAAAAGGGAGTTTTTAATTTCTTCATCATTAATAAATGAAATCAATA
CATAAAATTTAAAAGTAAATAAAATTTTCCTTATGAAGAAATTAAAAGAGAAACACAAAGGTA
Found at i:10018244 original size:19 final size:20
Alignment explanation
Indices: 10018196--10018244 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
10018186 AATAAAATAA
* *
10018196 AAATAAA-AAGCAGTAAAAT
1 AAATAAATAAGCAATAAAAG
10018215 AAATAAAATAAG-AATAAAAG
1 AAAT-AAATAAGCAATAAAAG
10018235 AAATAAATAA
1 AAATAAATAA
10018245 TAAAAGAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 10 0.38
20 13 0.50
21 3 0.12
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.16
Consensus pattern (20 bp):
AAATAAATAAGCAATAAAAG
Found at i:10018765 original size:21 final size:22
Alignment explanation
Indices: 10018732--10018776 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
10018722 AAAGAAATTT
*
10018732 AAAGATTCATAAAAGTGTTTCA
1 AAAGATTCATAAAAGAGTTTCA
*
10018754 AAAG-TTCGTAAAAGAGTTTCA
1 AAAGATTCATAAAAGAGTTTCA
10018775 AA
1 AA
10018777 TATTCACTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (22 bp):
AAAGATTCATAAAAGAGTTTCA
Found at i:10018815 original size:20 final size:20
Alignment explanation
Indices: 10018792--10018870 Score: 106
Period size: 20 Copynumber: 3.9 Consensus size: 20
10018782 ACTAGAGACT
10018792 TCAAAGATTCACAAAAAAGA
1 TCAAAGATTCACAAAAAAGA
* *
10018812 TCAAAGCTTCACAAAAATGA
1 TCAAAGATTCACAAAAAAGA
*
10018832 TCAAAGATTCACAAAAGTAA-T
1 TCAAAGATTCACAAAA--AAGA
10018853 TCAAAGATTCACAAAAAA
1 TCAAAGATTCACAAAAAA
10018871 AAAAAAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.04
20 33 0.63
21 16 0.31
22 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.09, T:0.19
Consensus pattern (20 bp):
TCAAAGATTCACAAAAAAGA
Found at i:10018858 original size:21 final size:20
Alignment explanation
Indices: 10018791--10019076 Score: 97
Period size: 20 Copynumber: 14.8 Consensus size: 20
10018781 CACTAGAGAC
10018791 TTCAAAGATTCACAAAA-AA
1 TTCAAAGATTCACAAAATAA
* * *
10018810 GATCAAAGCTTCACAAAAATGA
1 -TTCAAAGATTCAC-AAAATAA
10018832 -TCAAAGATTCACAAAAGTAA
1 TTCAAAGATTCACAAAA-TAA
10018852 TTCAAAGATTCAC-AAA-AA
1 TTCAAAGATTCACAAAATAA
10018870 ---AAA-A---A-AAAA-AA
1 TTCAAAGATTCACAAAATAA
* * *
10018881 TTCAAAGATTTA-AAGAAGAG
1 TTCAAAGATTCACAA-AATAA
* ** *
10018901 TTCAAAGGTTTGCAAAAAAA
1 TTCAAAGATTCACAAAATAA
* * * *
10018921 ATCCAAGATTTACAAAAGAAA
1 TTCAAAGATTCACAAAA-TAA
* *
10018942 TTTAAAAATTCAC-AAATAA
1 TTCAAAGATTCACAAAATAA
* *
10018961 CTTTAAAGATTCACAAAA-GA
1 -TTCAAAGATTCACAAAATAA
* * *
10018981 GT-AAATGATTCA-TAAAT-G
1 TTCAAA-GATTCACAAAATAA
* *
10018999 TTGAAAGATTCACAAAAGAA
1 TTCAAAGATTCACAAAATAA
* *
10019019 TTCAAAAATTGACAAAATAAA
1 TTCAAAGATTCACAAAAT-AA
* ** * *
10019040 CTCAAAGATTTGCAAAAGAG
1 TTCAAAGATTCACAAAATAA
10019060 TTCAAAGATTCACAAAA
1 TTCAAAGATTCACAAAA
10019077 GGAGTTTAAA
Statistics
Matches: 200, Mismatches: 42, Indels: 48
0.69 0.14 0.17
Matches are distributed among these distances:
11 6 0.03
14 4 0.02
15 4 0.02
18 18 0.09
19 21 0.10
20 99 0.50
21 47 0.23
22 1 0.00
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.22
Consensus pattern (20 bp):
TTCAAAGATTCACAAAATAA
Found at i:10019368 original size:20 final size:20
Alignment explanation
Indices: 10019313--10019370 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
10019303 CAAAGTTTTG
*
10019313 CAAATAAATTCAAAGGTTCA
1 CAAATAAATTCAAAGATTCA
*
10019333 CAAACAAATTCAAAGATTCA
1 CAAATAAATTCAAAGATTCA
* *
10019353 TAAATATATTCAAAGATT
1 CAAATAAATTCAAAGATT
10019371 TTCTATTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (20 bp):
CAAATAAATTCAAAGATTCA
Found at i:10020654 original size:20 final size:21
Alignment explanation
Indices: 10020629--10020668 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10020619 TTTTATCTTT
10020629 CATC-TTTCTTTCATTTTTTG
1 CATCTTTTCTTTCATTTTTTG
*
10020649 CATCTTTTTTTTCATTTTTT
1 CATCTTTTCTTTCATTTTTT
10020669 TATTCACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.10, C:0.17, G:0.03, T:0.70
Consensus pattern (21 bp):
CATCTTTTCTTTCATTTTTTG
Found at i:10023011 original size:26 final size:26
Alignment explanation
Indices: 10022973--10023024 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
10022963 AATTTTATAA
* *
10022973 CTTTTGATTAAATAATAACATATTAT
1 CTTTTAATAAAATAATAACATATTAT
10022999 CTTTTAATAAAATAATAACATATTAT
1 CTTTTAATAAAATAATAACATATTAT
10023025 AAGTTAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (26 bp):
CTTTTAATAAAATAATAACATATTAT
Found at i:10023031 original size:26 final size:27
Alignment explanation
Indices: 10022982--10023037 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
10022972 ACTTTTGATT
***
10022982 AAATAATAACATATTATCTTTTAA-TA
1 AAATAATAACATATTATAAGTTAAGTA
10023008 AAATAATAACATATTATAAGTTAAGTA
1 AAATAATAACATATTATAAGTTAAGTA
10023035 AAA
1 AAA
10023038 ATGTTCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (27 bp):
AAATAATAACATATTATAAGTTAAGTA
Found at i:10023975 original size:43 final size:43
Alignment explanation
Indices: 10023905--10023988 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
10023895 AAACTTACTT
*
10023905 TAATGAAACTTTGTATCTTGCACTTGAAAATAAGGTAACTTGC
1 TAATGAAACTTTGTATCTTGCACTTGAAAACAAGGTAACTTGC
*** *
10023948 TAATGAAACTTTGTATCTTGTTTTTGAAAGCAAGGTAACTT
1 TAATGAAACTTTGTATCTTGCACTTGAAAACAAGGTAACTT
10023989 CCTCTAGAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (43 bp):
TAATGAAACTTTGTATCTTGCACTTGAAAACAAGGTAACTTGC
Found at i:10025695 original size:44 final size:44
Alignment explanation
Indices: 10025597--10025692 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
10025587 TTCAAAATTG
* *
10025597 TTTTTAAAA-TGCAAAACCTTCAAATACATTGGCAAGGTTTTTAT
1 TTTTTAAAATTTC-AAACCTTCAAATACATTGACAAGGTTTTTAT
* * *
10025641 TTTTTAAAATTTCAAACCTTCTAATATATTGATAA-GTTTTT-T
1 TTTTTAAAATTTCAAACCTTCAAATACATTGACAAGGTTTTTAT
10025683 TTTCTTAAAA
1 TTT-TTAAAA
10025693 ATTAAAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 4 0.09
43 12 0.27
44 27 0.60
45 2 0.04
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.46
Consensus pattern (44 bp):
TTTTTAAAATTTCAAACCTTCAAATACATTGACAAGGTTTTTAT
Found at i:10026511 original size:30 final size:27
Alignment explanation
Indices: 10026474--10026548 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
10026464 CATTTTTAAT
10026474 AAAAAATAAAAGAAACAAAAAGATATAGAA
1 AAAAAATAAAA-AAA-AAAAAGATA-AGAA
* * *
10026504 TAAAAATAAAATAAATAAAGATAAGAA
1 AAAAAATAAAAAAAAAAAAGATAAGAA
* *
10026531 AAAAAATAATAAATAAAA
1 AAAAAATAAAAAAAAAAA
10026549 GTAAAAATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 17 0.46
28 8 0.22
29 2 0.05
30 10 0.27
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (27 bp):
AAAAAATAAAAAAAAAAAAGATAAGAA
Found at i:10026527 original size:21 final size:20
Alignment explanation
Indices: 10026502--10026580 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 20
10026492 AAAGATATAG
10026502 AATAAAAATAAAATAAATAA
1 AATAAAAATAAAATAAATAA
*
10026522 AGATAAGAAAAAAAAT-AAT-A
1 A-ATAA-AAATAAAATAAATAA
*
10026542 AATAAAAGTAAAAATAAATAA
1 AATAAAAAT-AAAATAAATAA
10026563 CTAA-AAAAATAAAATAAA
1 --AATAAAAATAAAATAAA
10026581 GATAAGTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
18 2 0.04
19 9 0.19
20 6 0.12
21 16 0.33
22 13 0.27
23 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (20 bp):
AATAAAAATAAAATAAATAA
Found at i:10026546 original size:40 final size:44
Alignment explanation
Indices: 10026483--10026562 Score: 114
Period size: 41 Copynumber: 1.9 Consensus size: 44
10026473 TAAAAAATAA
10026483 AAGAAACAAAAAGATATAGAATAAAAAT-AAAATAAATAAAGAT
1 AAGAAACAAAAAGATATAGAATAAAAATAAAAATAAATAAAGAT
* *
10026526 AAGAAA-AAAAATA-ATA-AATAAAAGTAAAAATAAATAA
1 AAGAAACAAAAAGATATAGAATAAAAATAAAAATAAATAA
10026563 CTAAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 8 0.24
41 14 0.41
42 6 0.18
43 6 0.18
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.16
Consensus pattern (44 bp):
AAGAAACAAAAAGATATAGAATAAAAATAAAAATAAATAAAGAT
Found at i:10026548 original size:12 final size:12
Alignment explanation
Indices: 10026513--10026574 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
10026503 ATAAAAATAA
10026513 AATAAATAAAGAT
1 AATAAATAAA-AT
* *
10026526 AAGAAAAAAAAT
1 AATAAATAAAAT
10026538 AATAAATAAAAGT
1 AATAAATAAAA-T
10026551 AA-AAAT-AAAT
1 AATAAATAAAAT
10026561 AACTAAA-AAAAT
1 AA-TAAATAAAAT
10026573 AA
1 AA
10026575 AATAAAGATA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 3 0.07
11 3 0.07
12 24 0.59
13 11 0.27
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.18
Consensus pattern (12 bp):
AATAAATAAAAT
Found at i:10026577 original size:40 final size:40
Alignment explanation
Indices: 10026502--10026579 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
10026492 AAAGATATAG
*
10026502 AATAAAAATAAAATAAATAAAGATAAGAAAAAAAATAATA
1 AATAAAAATAAAATAAATAAAGATAAAAAAAAAAATAATA
* *
10026542 AATAAAAGTAAAAATAAAT-AA-CTAAAAAAATAAAATAA
1 AATAAAAAT-AAAATAAATAAAGATAAAAAAA-AAAATAA
10026580 AGATAAGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 7 0.21
40 17 0.52
41 9 0.27
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (40 bp):
AATAAAAATAAAATAAATAAAGATAAAAAAAAAAATAATA
Found at i:10026639 original size:12 final size:12
Alignment explanation
Indices: 10026622--10026668 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
10026612 CAAAAGATAA
*
10026622 ACATAAATAAAC
1 ACATAAATAAAT
*
10026634 ACATAAATAGAT
1 ACATAAATAAAT
10026646 ACATAAATAAAT
1 ACATAAATAAAT
*
10026658 AAATAAATAAA
1 ACATAAATAAA
10026669 AATAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.68, C:0.09, G:0.02, T:0.21
Consensus pattern (12 bp):
ACATAAATAAAT
Found at i:10026657 original size:4 final size:4
Alignment explanation
Indices: 10026624--10026668 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
10026614 AAAGATAAAC
* * * *
10026624 ATAA ATAA ACAC ATAA ATAG ATAC ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
10026669 AATAAAATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:10026677 original size:5 final size:5
Alignment explanation
Indices: 10026650--10026787 Score: 63
Period size: 5 Copynumber: 26.6 Consensus size: 5
10026640 ATAGATACAT
**
10026650 AAAT- AAAT- AAAT- AAATAA AAATA AAATA AAGATA AATATA GCATA
1 AAATA AAATA AAATA AAAT-A AAATA AAATA AA-ATA AA-ATA AAATA
* * ** * *
10026695 AAATAA AAACA AAGATA AATGACTA AAACA AAATA ATGTT AAAT- CAATA
1 AAAT-A AAATA AA-ATA AA--A-TA AAATA AAATA AAATA AAATA AAATA
10026744 AAAT- AAATA AACAT- AAATA GAAGATA AAATA AAATA AAATA AAA
1 AAATA AAATA AA-ATA AAATA -AA-ATA AAATA AAATA AAATA AAA
10026788 ATTTGAGCAA
Statistics
Matches: 105, Mismatches: 16, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
4 21 0.20
5 48 0.46
6 27 0.26
7 5 0.05
8 4 0.04
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:10028045 original size:20 final size:21
Alignment explanation
Indices: 10028022--10028074 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
10028012 TCGATTAGAA
*
10028022 TTTTATTTTATATCTTAG-TT
1 TTTTATTTTATATCATAGATT
*
10028042 TTTTATTTT-TTTCATAGATT
1 TTTTATTTTATATCATAGATT
*
10028062 TTTTAATTTATAT
1 TTTTATTTTATAT
10028075 TTTGGTTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.22
20 19 0.70
21 2 0.07
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTTATTTTATATCATAGATT
Found at i:10032031 original size:15 final size:17
Alignment explanation
Indices: 10032008--10032043 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
10031998 TAATTCTATA
*
10032008 ATTTTTTTAGAATTATC
1 ATTTTTATAGAATTATC
10032025 ATTTTTATAGAATTATC
1 ATTTTTATAGAATTATC
10032042 AT
1 AT
10032044 AGTGCTATAT
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:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (17 bp):
ATTTTTATAGAATTATC
Found at i:10035584 original size:26 final size:25
Alignment explanation
Indices: 10035531--10035588 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
10035521 ATCTATTGTA
*
10035531 TTCTTTAGTCTTTTTCTTTTAAGTT
1 TTCTTTAGTCTTTTTCTTTTAAGCT
*
10035556 TTCTTTAGT-TTTTATGTTCTTAAGCT
1 TTCTTTAGTCTTTT-TCTT-TTAAGCT
10035582 TTCTTTA
1 TTCTTTA
10035589 CTTTGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.14
25 12 0.41
26 13 0.45
ACGTcount: A:0.14, C:0.12, G:0.09, T:0.66
Consensus pattern (25 bp):
TTCTTTAGTCTTTTTCTTTTAAGCT
Found at i:10044408 original size:216 final size:216
Alignment explanation
Indices: 10044143--10044585 Score: 852
Period size: 216 Copynumber: 2.1 Consensus size: 216
10044133 ATGATAACGG
10044143 CTATTTCAAACGTTTTTATTCAAATCAAATTTGAAAATAACACTACTTTCTCTTTTAAAATCCTA
1 CTATTTCAAACGTTTTTATTCAAATCAAATTTGAAAATAACACTACTTTCTCTTTTAAAATCCTA
10044208 ACATATCATAAAAAGATGTAAGTTTTTGATTCTAGGACTTTGGGTATTGTTGAGAATATTTTAAA
66 ACATATCATAAAAAGATGTAAGTTTTTGATTCTAGGACTTTGGGTATTGTTGAGAATATTTTAAA
10044273 TTTTTTTGAAATAAGATGATTTTGAACAAAACATTGGAATCAAATATCTAACAATAAAATTTCGA
131 TTTTTTTGAAATAAGATGATTTTGAACAAAACATTGGAATCAAATATCTAACAATAAAATTTCGA
10044338 AGGAAAATATGTGAATTCTTC
196 AGGAAAATATGTGAATTCTTC
* *
10044359 CTATTTCAGACGTTTTTATTCAAATCAAATTTGAAAATAACATTACTTTCTCTTTTAAAATCCTA
1 CTATTTCAAACGTTTTTATTCAAATCAAATTTGAAAATAACACTACTTTCTCTTTTAAAATCCTA
10044424 ACATATCATAAAAAGATGTAAGTTTTTGATTCTAGGACTTTGGGTATTGTTGAGAATATTTTAAA
66 ACATATCATAAAAAGATGTAAGTTTTTGATTCTAGGACTTTGGGTATTGTTGAGAATATTTTAAA
10044489 TTTTTTTGAAATAAGATGATTTTGAACAAAACATTGGAATCAAATATCTAACAATAAAATTTCGA
131 TTTTTTTGAAATAAGATGATTTTGAACAAAACATTGGAATCAAATATCTAACAATAAAATTTCGA
10044554 AGGAAAATATGTGAATTCTTC
196 AGGAAAATATGTGAATTCTTC
*
10044575 CTA-ATCAAACG
1 CTATTTCAAACG
10044586 CCTTTAAGAG
Statistics
Matches: 223, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
215 6 0.03
216 217 0.97
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (216 bp):
CTATTTCAAACGTTTTTATTCAAATCAAATTTGAAAATAACACTACTTTCTCTTTTAAAATCCTA
ACATATCATAAAAAGATGTAAGTTTTTGATTCTAGGACTTTGGGTATTGTTGAGAATATTTTAAA
TTTTTTTGAAATAAGATGATTTTGAACAAAACATTGGAATCAAATATCTAACAATAAAATTTCGA
AGGAAAATATGTGAATTCTTC
Found at i:10046356 original size:29 final size:28
Alignment explanation
Indices: 10046324--10046392 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
10046314 ATTTAATAAA
*
10046324 TTTATAATTCAAGTACCACATTAAATATT
1 TTTATAATTCAAGCACCACATTAAATA-T
* * *
10046353 TTTAAAATTTAAGCATCACATTAAATAT
1 TTTATAATTCAAGCACCACATTAAATAT
*
10046381 ATTATAATTCAA
1 TTTATAATTCAA
10046393 AGACCATTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.41
Consensus pattern (28 bp):
TTTATAATTCAAGCACCACATTAAATAT
Found at i:10053224 original size:19 final size:19
Alignment explanation
Indices: 10053200--10053243 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
10053190 ATAATTTCAA
*
10053200 AACAATTTAGCAACTCTTC
1 AACAATTTAACAACTCTTC
*
10053219 AACAATTTAACAACTTTTC
1 AACAATTTAACAACTCTTC
10053238 AACAAT
1 AACAAT
10053244 ATCATACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (19 bp):
AACAATTTAACAACTCTTC
Found at i:10066246 original size:213 final size:213
Alignment explanation
Indices: 10065879--10066288 Score: 590
Period size: 213 Copynumber: 1.9 Consensus size: 213
10065869 TTCCCAAATA
* * * * *
10065879 AAGGAAACACTTTGGACTTTTTATTATGTAGAAAGAGCAAAAACATGTAAACAACCAACCCTTAG
1 AAGGAAACACTTTGGACTTTTTACTATGCAAAAAGAGCAAAAACATGTAAACAACCAACCCCTAA
* * * * * * *
10065944 TTCTTGATTTCTATGAATGGCCTTATGTCAAAGTATGAGAGATGATCTATATGCAAAACAAGTCC
66 TTCTTAATTTCTATGAATAGCCCTATGTCAAAGTATCAAAGATGATCGATATGCAAAACAAGACC
* * *
10066009 CATTTGCAAAGAGAACATGCATGGAATGATGAAGCACCCATTTTCCCTAGATATTCCATGTAACA
131 CATTTGAAAAGAGAACATGCATGGAATGATAAAGCACCCATTTTCCCTAGATATTCCATGCAACA
10066074 AATGTGAAAGCTAGTGGG
196 AATGTGAAAGCTAGTGGG
* *
10066092 AAGGAAAGACTTTGGACTTTTTACTATGCAAAAAGAGCAAAAACATGTAAACAACCGACCCCTAA
1 AAGGAAACACTTTGGACTTTTTACTATGCAAAAAGAGCAAAAACATGTAAACAACCAACCCCTAA
**
10066157 TTCTTAATTTCTATGAATAGCCCTATGTCAAAGTATCAAAGATGATCGATATGCAAAACGGGACC
66 TTCTTAATTTCTATGAATAGCCCTATGTCAAAGTATCAAAGATGATCGATATGCAAAACAAGACC
* * *
10066222 CATATAT-AAAAG-GAACATGCATGGAATGATAAAGCACCCATTTTCCTTGGATATTTCATGCAA
131 CAT-T-TGAAAAGAGAACATGCATGGAATGATAAAGCACCCATTTTCCCTAGATATTCCATGCAA
10066285 CAAA
194 CAAA
10066289 CATGAAAACT
Statistics
Matches: 173, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
213 167 0.97
214 5 0.03
215 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (213 bp):
AAGGAAACACTTTGGACTTTTTACTATGCAAAAAGAGCAAAAACATGTAAACAACCAACCCCTAA
TTCTTAATTTCTATGAATAGCCCTATGTCAAAGTATCAAAGATGATCGATATGCAAAACAAGACC
CATTTGAAAAGAGAACATGCATGGAATGATAAAGCACCCATTTTCCCTAGATATTCCATGCAACA
AATGTGAAAGCTAGTGGG
Found at i:10067408 original size:144 final size:143
Alignment explanation
Indices: 10067165--10067436 Score: 336
Period size: 144 Copynumber: 1.9 Consensus size: 143
10067155 TCTAAGATCG
* *
10067165 TGAAGGCCAAATTATGAAAATACCCATATAAGGGTATTTTCATAATTTCACACTTTTAAGGTACT
1 TGAAGGCCAAATTATGAAAATACCCATATAAGAGTATTTTCATAATTTCACACTTCTAAGGTACT
**
10067230 GCTATGATTCTAAATAAACCAAAAATCATAAAATATTATAAAATTGAGATCTAG-AAAGTTTCAT
66 GCTAT-ATTCTAAATAAACCAAAAATCATAAAATAGCATAAAATTGAGAT-TAGAAAAGTTTCAT
10067294 GAAATTTTGAGCTCA
129 GAAATTTTGAGCTCA
* * **
10067309 TGAAGGTCAAATTATGAAAATACCCCTATAAGAGTATTTTGGTAATTTCACACTTCCT-AGGATA
1 TGAAGGCCAAATTATGAAAATACCCATATAAGAGTATTTTCATAATTTCACACTT-CTAAGG-TA
* ** * * *
10067373 CTAGAGTAT-TTC-AAATGCACCAAAAATCATGAAATAGCATAAAATTTAGATTTGAAAAGTTTC
64 CT-G-CTATATTCTAAATAAACCAAAAATCATAAAATAGCATAAAATTGAGATTAGAAAAGTTTC
10067436 A
127 A
10067437 CTAATATCTG
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
143 2 0.02
144 95 0.87
145 8 0.07
146 1 0.01
147 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (143 bp):
TGAAGGCCAAATTATGAAAATACCCATATAAGAGTATTTTCATAATTTCACACTTCTAAGGTACT
GCTATATTCTAAATAAACCAAAAATCATAAAATAGCATAAAATTGAGATTAGAAAAGTTTCATGA
AATTTTGAGCTCA
Found at i:10067983 original size:16 final size:16
Alignment explanation
Indices: 10067961--10068006 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
10067951 ATTTTTTTCA
10067961 TTGTTTTATTTTGTTTG
1 TTGTTTT-TTTTGTTTG
*
10067978 TT-TTTTTTTTATTTTG
1 TTGTTTTTTTT-GTTTG
10067994 TTGTTTTTTTTGT
1 TTGTTTTTTTTGT
10068007 AAATTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 4 0.16
16 11 0.44
17 10 0.40
ACGTcount: A:0.04, C:0.00, G:0.13, T:0.83
Consensus pattern (16 bp):
TTGTTTTTTTTGTTTG
Found at i:10067997 original size:19 final size:20
Alignment explanation
Indices: 10067964--10068004 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
10067954 TTTTTCATTG
10067964 TTTTATTTTGTTTGTTTTTT
1 TTTTATTTTGTTTGTTTTTT
10067984 TTTTATTTTG-TTGTTTTTT
1 TTTTATTTTGTTTGTTTTTT
10068003 TT
1 TT
10068005 GTAAATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.85
Consensus pattern (20 bp):
TTTTATTTTGTTTGTTTTTT
Found at i:10068227 original size:95 final size:95
Alignment explanation
Indices: 10068095--10068340 Score: 255
Period size: 95 Copynumber: 2.6 Consensus size: 95
10068085 TACAAATCTC
**
10068095 AATATATTTGAATGCTCCTCCCAATAAGAGGCATTGAAACTTTGAAAATTTAAAATGGTTTGCTC
1 AATAT-TTTGAATGCTCCT-CGTATAAGAGGCATTGAAACTTT-AAAATTTAAAATGGTTTGCTC
* * *
10068160 -ATAAGTCTTGGAGATTATGCCCAAATGTCTTAA
63 GA-AAGTCTTAGAAATTATGCCCAAAGGTCTTAA
* * ** *
10068193 AATTTTTTGAATGCTCCTCGTATTAGA-GCATTGAAACTTTAAAAATTTAAAATTTTTTGTTCGA
1 AATATTTTGAATGCTCCTCGTATAAGAGGCATTGAAACTTT-AAAATTTAAAATGGTTTGCTCGA
* **** *
10068257 AGGTCTTAGAAATTATGCTTGGAGGTTTTAA
65 AAGTCTTAGAAATTATGCCCAAAGGTCTTAA
* *
10068288 AATATTTTGGATGCTCCTCGTATCAA-AGGCATTGAAACTTTAAAATTTTAAAT
1 AATATTTTGAATGCTCCTCGTAT-AAGAGGCATTGAAACTTTAAAATTTAAAAT
10068341 TTTTTTCTTG
Statistics
Matches: 124, Mismatches: 21, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
95 86 0.69
96 21 0.17
97 13 0.10
98 4 0.03
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.38
Consensus pattern (95 bp):
AATATTTTGAATGCTCCTCGTATAAGAGGCATTGAAACTTTAAAATTTAAAATGGTTTGCTCGAA
AGTCTTAGAAATTATGCCCAAAGGTCTTAA
Found at i:10068341 original size:95 final size:95
Alignment explanation
Indices: 10068189--10068371 Score: 262
Period size: 95 Copynumber: 1.9 Consensus size: 95
10068179 CCCAAATGTC
* * *
10068189 TTAAAATTTTTTGAATGCTCCTCGTATTAGAGCATTGAAACTTTAAAAATTTAAAATTTTTTGT-
1 TTAAAATATTTTGAATGCTCCTCGTATCAAAGCATTGAAACTTTAAAAATTTAAAATTTTTT-TC
10068253 TCGAAGGTCTTAGAAATTATGCTTGGAGGTT
65 TCGAAGGTCTTAGAAATTATGCTTGGAGGTT
* *
10068284 TTAAAATATTTTGGATGCTCCTCGTATCAAAGGCATTGAAACTTT-AAAATTTTAAATTTTTTTC
1 TTAAAATATTTTGAATGCTCCTCGTATCAAA-GCATTGAAACTTTAAAAATTTAAAATTTTTTTC
* * *
10068348 TTGGAGGTCTTGGAAATTATGCTT
65 TCGAAGGTCTTAGAAATTATGCTT
10068372 AAATGTCTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
94 1 0.01
95 64 0.82
96 13 0.17
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (95 bp):
TTAAAATATTTTGAATGCTCCTCGTATCAAAGCATTGAAACTTTAAAAATTTAAAATTTTTTTCT
CGAAGGTCTTAGAAATTATGCTTGGAGGTT
Found at i:10068489 original size:22 final size:22
Alignment explanation
Indices: 10068463--10068508 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10068453 TAAATTTTTA
*
10068463 GCCTA-GAGGTCTTGCAAATTAT
1 GCCTAGGA-GTCTTACAAATTAT
10068485 GCCTAGGAGTCTTACAAATTAT
1 GCCTAGGAGTCTTACAAATTAT
10068507 GC
1 GC
10068509 TTGGAGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (22 bp):
GCCTAGGAGTCTTACAAATTAT
Found at i:10068525 original size:22 final size:22
Alignment explanation
Indices: 10068478--10068525 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
10068468 GAGGTCTTGC
*
10068478 AAATTATGCCTAGGAGTCTTAC
1 AAATTATGCCTAGGAGTCTTAA
* *
10068500 AAATTATG-CTTGGAGGTTTTAA
1 AAATTATGCCTAGGA-GTCTTAA
10068522 AAAT
1 AAAT
10068526 CTTTGAATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (22 bp):
AAATTATGCCTAGGAGTCTTAA
Found at i:10068673 original size:118 final size:115
Alignment explanation
Indices: 10068259--10068719 Score: 485
Period size: 117 Copynumber: 3.9 Consensus size: 115
10068249 TTGTTCGAAG
* * * * * *
10068259 GTCTTAGAAATTATGCTTGGAGGTTTTAAAATAT-TTTGGATGCTCCTCGTATCAAAGGCATTGA
1 GTCTTAGAAATTATACCTAGAGGTCTTAAAA-ATCTTTGAATGCTCCT-GTATTAAAGGCATTGA
* * * *
10068323 AACTTTAAAATTTTAAATTTTTTTCTTGGAGGTCTTGGAAATTATGCTTAAA
64 AACTTTAAAATTTTAAATTTTTTGCCTGAAGGTCTTGGAAATTATGCCTAAA
* **
10068375 TGTCTTAGAAATTACACCTAGAGGTCTTAAAAATCTTTGAATGCTCCCCATATTAAAGGCATTGA
1 -GTCTTAGAAATTATACCTAGAGGTCTTAAAAATCTTTGAATGCT-CCTGTATTAAAGGCATTGA
* * *
10068440 AACTTTAAAATTTTAAATTTTTAGCCT-AGAGGTCTTGCAAATTATGCCTAGGA
64 AACTTTAAAATTTTAAATTTTTTGCCTGA-AGGTCTTGGAAATTATGCCTA-AA
* * * * * * ** *
10068493 GTCTTACAAATTATGCTTGGAGGTTTTAAAAATCTTTGAATGCTCATTGTACCAAAGACATTGAA
1 GTCTTAGAAATTATACCTAGAGGTCTTAAAAATCTTTGAATGCTC-CTGTATTAAAGGCATTGAA
* *
10068558 ACTTTAAAATTTTAAAATTTTTTGCTTGAAGGTCTTGGAAATTATGCCCGAAA
65 ACTTTAAAATTTT-AAATTTTTTGCCTGAAGGTCTTGGAAATTATG-CCTAAA
* * * * * *
10068611 GTTTTAGAAAGTATACCTAAAGGTCTTAAAAATCTTTCAATGTTGCCTGTATTAGAGGCATTGAA
1 GTCTTAGAAATTATACCTAGAGGTCTTAAAAATCTTTGAATGCT-CCTGTATTAAAGGCATTGAA
* * **
10068676 ACTTTAAAAATTTAAAATTTTTGCCCAAAGGTCTTGGAAATTAT
65 ACTTTAAAATTTTAAATTTTTTGCCTGAAGGTCTTGGAAATTAT
10068720 CTGAGTGCCT
Statistics
Matches: 282, Mismatches: 53, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
116 3 0.01
117 183 0.65
118 91 0.32
119 5 0.02
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (115 bp):
GTCTTAGAAATTATACCTAGAGGTCTTAAAAATCTTTGAATGCTCCTGTATTAAAGGCATTGAAA
CTTTAAAATTTTAAATTTTTTGCCTGAAGGTCTTGGAAATTATGCCTAAA
Found at i:10068676 original size:235 final size:234
Alignment explanation
Indices: 10068259--10068719 Score: 649
Period size: 235 Copynumber: 2.0 Consensus size: 234
10068249 TTGTTCGAAG
* * * * *
10068259 GTCTTAGAAATTATGCTTGGAGGTTTTAAAATATTTTGGATGCTCCTCGTATCAAAGGCATTGAA
1 GTCTTACAAATTATGCTTGGAGGTTTTAAAATATTTTGAATGCTCATCGTACCAAAGACATTGAA
* * ** *
10068324 ACTTTAAAATTTTAAATTTTTTTCTTGGAGGTCTTGGAAATTATGCTTAAATGTCTTAGAAATTA
66 ACTTTAAAATTTTAAATTTTTTGCTTGAAGGTCTTGGAAATTATGCCGAAATGTCTTAGAAAGTA
* *
10068389 CACCTAGAGGTCTTAAAAATCTTTGAATGCTCCCCATATTAAAGGCATTGAAACTTT-AAAATTT
131 CACCTAAAGGTCTTAAAAATCTTTCAATGCTCCCCATATTAAAGGCATTGAAACTTTAAAAATTT
* * *
10068453 TAAATTTTTAGCCTAGAGGTCTTGCAAATTATGCCTAGGA
196 AAAATTTTT-GCCCAAAGGTCTTGCAAATTATGCCTAGGA
*
10068493 GTCTTACAAATTATGCTTGGAGGTTTTAAAA-ATCTTTGAATGCTCATTGTACCAAAGACATTGA
1 GTCTTACAAATTATGCTTGGAGGTTTTAAAATAT-TTTGAATGCTCATCGTACCAAAGACATTGA
*
10068557 AACTTTAAAATTTTAAAATTTTTTGCTTGAAGGTCTTGGAAATTATGCCCGAAA-GTTTTAGAAA
65 AACTTTAAAATTTT-AAATTTTTTGCTTGAAGGTCTTGGAAATTATG-CCGAAATGTCTTAGAAA
* * * ** *
10068621 GTATACCTAAAGGTCTTAAAAATCTTTCAATGTTGCCTGTATTAGAGGCATTGAAACTTTAAAAA
128 GTACACCTAAAGGTCTTAAAAATCTTTCAATGCTCCCCATATTAAAGGCATTGAAACTTTAAAAA
*
10068686 TTTAAAATTTTTGCCCAAAGGTCTTGGAAATTAT
193 TTTAAAATTTTTGCCCAAAGGTCTTGCAAATTAT
10068720 CTGAGTGCCT
Statistics
Matches: 199, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
233 2 0.01
234 69 0.35
235 109 0.55
236 19 0.10
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (234 bp):
GTCTTACAAATTATGCTTGGAGGTTTTAAAATATTTTGAATGCTCATCGTACCAAAGACATTGAA
ACTTTAAAATTTTAAATTTTTTGCTTGAAGGTCTTGGAAATTATGCCGAAATGTCTTAGAAAGTA
CACCTAAAGGTCTTAAAAATCTTTCAATGCTCCCCATATTAAAGGCATTGAAACTTTAAAAATTT
AAAATTTTTGCCCAAAGGTCTTGCAAATTATGCCTAGGA
Found at i:10069365 original size:41 final size:41
Alignment explanation
Indices: 10069250--10069369 Score: 143
Period size: 41 Copynumber: 2.9 Consensus size: 41
10069240 GTAAGTGCGA
* *
10069250 ATGCAAGTGATGCAAATATGAATGTCTTTTTTTATGATGCAG
1 ATGCAAGTGATGCAAATATGAATATCTTTTTGT-TGATGCAG
* ** * *
10069292 ATGCAAGTGATGTAAATACAAATGAAC-CTTTGTTGATGCAG
1 ATGCAAGTGATGCAAATATGAAT-ATCTTTTTGTTGATGCAG
*
10069333 ATGCAAGTGATGCAAATGTGAATATCTTTTTGTTGAT
1 ATGCAAGTGATGCAAATATGAATATCTTTTTGTTGAT
10069370 ACAAAGTTGA
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
40 2 0.03
41 36 0.57
42 24 0.38
43 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.36
Consensus pattern (41 bp):
ATGCAAGTGATGCAAATATGAATATCTTTTTGTTGATGCAG
Found at i:10069450 original size:105 final size:105
Alignment explanation
Indices: 10069340--10069535 Score: 275
Period size: 105 Copynumber: 1.9 Consensus size: 105
10069330 CAGATGCAAG
* * * *
10069340 TGATGCAAATGTGAATATCTTTTTGTTGATACAAAGTTGAATGTAAATGTCTTTCTCATGATGCA
1 TGATGCAAATATGAAGATCTTTTTGTTGATACAAAGTTGAATGCAAATATCTTTCTCATGATGCA
*
10069405 CACGTAAGTACAAATGCAAATGATGCGAATGTCCTTTCTA
66 CACGTAAATACAAATGCAAATGATGCGAATGTCCTTTCTA
* *** *
10069445 TGATGCAAATATGAAGGTCTTTTTGTTGATGTTAAGTTGAATGCAAATATCTTTTTCATGATGCA
1 TGATGCAAATATGAAGATCTTTTTGTTGATACAAAGTTGAATGCAAATATCTTTCTCATGATGCA
* * *
10069510 CACGTAAATACGAATGCGAGTGATGC
66 CACGTAAATACAAATGCAAATGATGC
10069536 AAGTATAAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
105 78 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (105 bp):
TGATGCAAATATGAAGATCTTTTTGTTGATACAAAGTTGAATGCAAATATCTTTCTCATGATGCA
CACGTAAATACAAATGCAAATGATGCGAATGTCCTTTCTA
Found at i:10071048 original size:1 final size:1
Alignment explanation
Indices: 10071042--10071116 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
10071032 TTTCCTTTCA
* * * * * * * * * *
10071042 TTTTTTTCTTTTTCTTTTCTTTTTTTCTCTTTTTTTGTTTTTTGTTTTTTATTTTTGTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
10071107 TATTTTTTTT
1 TTTTTTTTTT
10071117 AGCTGAGTGA
Statistics
Matches: 52, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.03, C:0.07, G:0.05, T:0.85
Consensus pattern (1 bp):
T
Found at i:10071060 original size:20 final size:20
Alignment explanation
Indices: 10071032--10071074 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
10071022 TTTCCTTTAC
10071032 TTTCCTTTCATTTTTTTCT-T
1 TTTCCTTTC-TTTTTTTCTCT
*
10071052 TTTCTTTTCTTTTTTTCTCT
1 TTTCCTTTCTTTTTTTCTCT
10071072 TTT
1 TTT
10071075 TTTGTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCCTTTCTTTTTTTCTCT
Found at i:10071061 original size:11 final size:10
Alignment explanation
Indices: 10071042--10071116 Score: 64
Period size: 10 Copynumber: 7.6 Consensus size: 10
10071032 TTTCCTTTCA
10071042 TTTTTTTCTT
1 TTTTTTTCTT
10071052 TTTCTTTTCTT
1 TTT-TTTTCTT
*
10071063 TTTTTCTCTT
1 TTTTTTTCTT
*
10071073 TTTTTGT-TT
1 TTTTTTTCTT
*
10071082 TTTGTTT-TT
1 TTTTTTTCTT
* *
10071091 TATTTTTGTT
1 TTTTTTTCTT
* *
10071101 TTGTTTTATT
1 TTTTTTTCTT
10071111 TTTTTT
1 TTTTTT
10071117 AGCTGAGTGA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
9 14 0.26
10 29 0.55
11 10 0.19
ACGTcount: A:0.03, C:0.07, G:0.05, T:0.85
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:10071064 original size:19 final size:19
Alignment explanation
Indices: 10071031--10071084 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
10071021 CTTTCCTTTA
*
10071031 CTTTCCTTTCATTTTTTTCT
1 CTTTCTTTTC-TTTTTTTCT
*
10071051 TTTTCTTTTCTTTTTTTCT
1 CTTTCTTTTCTTTTTTTCT
*
10071070 CTTT-TTTTGTTTTTT
1 CTTTCTTTTCTTTTTT
10071085 GTTTTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 10 0.33
19 12 0.40
20 8 0.27
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (19 bp):
CTTTCTTTTCTTTTTTTCT
Found at i:10071084 original size:25 final size:23
Alignment explanation
Indices: 10071043--10071116 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
10071033 TTCCTTTCAT
* *
10071043 TTTTTTCT-TTTTCTTTTCTTTTT
1 TTTTTTTTGTTTTGTTTT-TTTTT
* *
10071066 TTCTCTTT-TTTTGTTTTTTGTTT
1 TTTTTTTTGTTTTGTTTTTT-TTT
*
10071089 TTTATTTTTGTTTTGTTTTATTTT
1 TTT-TTTTTGTTTTGTTTTTTTTT
10071113 TTTT
1 TTTT
10071117 AGCTGAGTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
22 2 0.05
23 19 0.46
24 10 0.24
25 10 0.24
ACGTcount: A:0.03, C:0.07, G:0.05, T:0.85
Consensus pattern (23 bp):
TTTTTTTTGTTTTGTTTTTTTTT
Found at i:10071117 original size:25 final size:23
Alignment explanation
Indices: 10071050--10071117 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 23
10071040 CATTTTTTTC
* * *
10071050 TTTTTCTTTTCTTTTTTTCTCTT
1 TTTTTGTTTTTTTTTTTTATCTT
*
10071073 TTTTTGTTTTTTGTTTTTTATTTT
1 TTTTTGTTTTTT-TTTTTTATCTT
10071097 TGTTTTGTTTTATTTTTTTTA
1 T-TTTTGTTTT-TTTTTTTTA
10071118 GCTGAGTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.26
24 10 0.26
25 16 0.42
26 2 0.05
ACGTcount: A:0.04, C:0.06, G:0.06, T:0.84
Consensus pattern (23 bp):
TTTTTGTTTTTTTTTTTTATCTT
Found at i:10071936 original size:13 final size:13
Alignment explanation
Indices: 10071918--10071942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10071908 AAAAAGCTCT
10071918 TTTTTTGTTTTTG
1 TTTTTTGTTTTTG
10071931 TTTTTTGTTTTT
1 TTTTTTGTTTTT
10071943 TTTATAACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTGTTTTTG
Found at i:10101636 original size:11 final size:11
Alignment explanation
Indices: 10101620--10101649 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10101610 AAACTATATA
10101620 AAAAAAAAACT
1 AAAAAAAAACT
*
10101631 AAAAAAAATCT
1 AAAAAAAAACT
10101642 AAAAAAAA
1 AAAAAAAA
10101650 GGAGAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAAAAAACT
Found at i:10103273 original size:21 final size:21
Alignment explanation
Indices: 10103249--10103289 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10103239 ATGCAATATC
10103249 TTTAAAAAT-TAAATAAATAAG
1 TTTAAAAATATAAA-AAATAAG
*
10103270 TTTAAAAGTATAAAAAATAA
1 TTTAAAAATATAAAAAATAA
10103290 TATCATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (21 bp):
TTTAAAAATATAAAAAATAAG
Found at i:10105572 original size:20 final size:20
Alignment explanation
Indices: 10105547--10105596 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
10105537 ATGCAAAAGT
*
10105547 CCATGCAAGATGATATTTGG
1 CCATGCAAGATGATATTCGG
*
10105567 CCATGCAAGATTATATTCGG
1 CCATGCAAGATGATATTCGG
10105587 CCATGCAAGA
1 CCATGCAAGA
10105597 ACCCATTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (20 bp):
CCATGCAAGATGATATTCGG
Found at i:10107795 original size:34 final size:34
Alignment explanation
Indices: 10107757--10107827 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
10107747 TTTTTATCAT
** *
10107757 AAAATGTTGCTAAATGTAGTAACATTTATAGTAG
1 AAAATGTCACTAAATGTAGCAACATTTATAGTAG
* *
10107791 AAAATGTCACTAAATTTAGCAGCATTTATAGTAG
1 AAAATGTCACTAAATGTAGCAACATTTATAGTAG
10107825 AAA
1 AAA
10107828 GCAGCACTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.32
Consensus pattern (34 bp):
AAAATGTCACTAAATGTAGCAACATTTATAGTAG
Found at i:10109086 original size:61 final size:59
Alignment explanation
Indices: 10109013--10109298 Score: 324
Period size: 61 Copynumber: 4.8 Consensus size: 59
10109003 AAAAATTGAA
*
10109013 TGGGGTTATTCAAGGCATTTCTGGCCAAAAACACCTTCAATAATCCCTTTCAATTTTTTTT
1 TGGGATTATTCAAGGCATTT-TGGCCAAAAACACCTTCAATAATCCCTTTCAA-TTTTTTT
* * * * * *
10109074 TGGGATTATTCAAGACATGTTTGGCTAAAAACGCCTTGAATAATCTCTTTCCATTTTTTT
1 TGGGATTATTCAAGGCAT-TTTGGCCAAAAACACCTTCAATAATCCCTTTCAATTTTTTT
* *
10109134 TAGGGATTATTCAAGGCGTTTTTGGCCAAAAACACCTTCAATAGTCCCTTT-AA-TTTTTT
1 T-GGGATTATTCAAGGC-ATTTTGGCCAAAAACACCTTCAATAATCCCTTTCAATTTTTTT
* * * *
10109193 TGGGATTATTCAAGGCATTTTCTGTCAAAAACACCTTTAATAATCCCTTTCAATTTTTTG
1 TGGGATTATTCAAGGCATTTT-GGCCAAAAACACCTTCAATAATCCCTTTCAATTTTTTT
* * * ** *
10109253 GGGGATTATTTAAGGCATTTTGGTCAGAAAATGCCTTGAATAATCC
1 TGGGATTATTCAAGGCATTTTGGCCA-AAAACACCTTCAATAATCC
10109299 TTTACAAAAA
Statistics
Matches: 191, Mismatches: 27, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
57 4 0.02
58 39 0.20
59 13 0.07
60 49 0.26
61 83 0.43
62 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (59 bp):
TGGGATTATTCAAGGCATTTTGGCCAAAAACACCTTCAATAATCCCTTTCAATTTTTTT
Found at i:10109251 original size:119 final size:120
Alignment explanation
Indices: 10109018--10109273 Score: 347
Period size: 119 Copynumber: 2.1 Consensus size: 120
10109008 TTGAATGGGG
*
10109018 TTATTCAAGGCATTTCTGGCCAAAAACACCTTCAATAATCCCTTTCAATTTTTTTTTGGGATTAT
1 TTATTCAAGGCATTTTTGGCCAAAAACACCTTCAATAATCCCTTTCAA-TTTTTTTTGGGATTAT
* * * *
10109083 TCAAGACATGTTTGGCTAAAAACGCCTTGAATAATCTCTTTCCATTTTTTTTAGGGA
65 TCAAGACATGTTTGGCTAAAAACACCTTGAATAATCCCTTT-CAATTTTTTGAGGGA
* *
10109140 TTATTCAAGGCGTTTTTGGCCAAAAACACCTTCAATAGTCCCTTT-AA-TTTTTTTGGGATTATT
1 TTATTCAAGGCATTTTTGGCCAAAAACACCTTCAATAATCCCTTTCAATTTTTTTTGGGATTATT
* * * * *
10109203 CAAGGCATTTTCTGTC-AAAAACACCTTTAATAATCCCTTTCAATTTTTTGGGGGA
66 CAAGACATGTT-TGGCTAAAAACACCTTGAATAATCCCTTTCAATTTTTTGAGGGA
*
10109258 TTATTTAAGGCATTTT
1 TTATTCAAGGCATTTT
10109274 GGTCAGAAAA
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
118 26 0.22
119 46 0.39
120 3 0.03
121 2 0.02
122 42 0.35
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (120 bp):
TTATTCAAGGCATTTTTGGCCAAAAACACCTTCAATAATCCCTTTCAATTTTTTTTGGGATTATT
CAAGACATGTTTGGCTAAAAACACCTTGAATAATCCCTTTCAATTTTTTGAGGGA
Found at i:10111495 original size:13 final size:13
Alignment explanation
Indices: 10111462--10111495 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
10111452 GAGTGAAACC
*
10111462 TCTTTCTCTTAGT
1 TCTTTCTTTTAGT
10111475 TCTTTCTTTTAGT
1 TCTTTCTTTTAGT
10111488 TCTTTCTT
1 TCTTTCTT
10111496 GTTTCTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.68
Consensus pattern (13 bp):
TCTTTCTTTTAGT
Found at i:10116734 original size:12 final size:12
Alignment explanation
Indices: 10116717--10116743 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10116707 ATCTTATGTG
10116717 ATTCACCTAATC
1 ATTCACCTAATC
10116729 ATTCACCTAATC
1 ATTCACCTAATC
10116741 ATT
1 ATT
10116744 GCCTTTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (12 bp):
ATTCACCTAATC
Found at i:10125034 original size:34 final size:33
Alignment explanation
Indices: 10124936--10125445 Score: 190
Period size: 34 Copynumber: 15.2 Consensus size: 33
10124926 TACATTTCTT
*
10124936 ACTTGTGGTTTCATGCAT-GTCATTGCATTTTTAG
1 ACTTGTGGTTTCAT-CTTAGTCATTGCA-TTTTAG
* * ** * *
10124970 AATTGTAGTTTTTTCCTAGTTATAT--ATCTTTAG
1 ACTTGTGGTTTCATCTTAGTCAT-TGCAT-TTTAG
* *
10125003 ACTTGTGGTTTCATCTTAGTAATTACA---T--
1 ACTTGTGGTTTCATCTTAGTCATTGCATTTTAG
* *
10125031 -CTTTTGGTTTCATCCTAGTCATTGCATTTTTAG
1 ACTTGTGGTTTCATCTTAGTCATTGCA-TTTTAG
** * * *
10125064 ACTCATGGTTTCATCTGTA-CCATTACATTTTAAA
1 ACTTGTGGTTTCATCT-TAGTCATTGCATTTT-AG
** *
10125098 ACTTGTAATTTCATCCTCT-GTCATTGCATTTTTAA
1 ACTTGTGGTTTCAT-CT-TAGTCATTGCA-TTTTAG
* ** ** *
10125133 ACTTATGGTTTTGTCCCAGTCATTGTATTTTCAG
1 ACTTGTGGTTTCATCTTAGTCATTGCATTTT-AG
* * * **
10125167 ACTTGTGGTTTCATCCTGGACATTAAATTCTTAG
1 ACTTGTGGTTTCATCTTAGTCATTGCATT-TTAG
* * ** *
10125201 ACTTGTAGTTTCGTCTCGGTCAATGCATCTTTAG
1 ACTTGTGGTTTCATCTTAGTCATTGCAT-TTTAG
* * *
10125235 AGTTGTGGTTTCATCTTGGTCATTGCATCTTTAT
1 ACTTGTGGTTTCATCTTAGTCATTGCAT-TTTAG
* * *
10125269 ACTTGTGGCTTTGC--CATGGTCATTCCATTTTTAG
1 ACTTGTGG-TTT-CATCTTAGTCATTGCA-TTTTAG
*
10125303 ACTTGTGGTTTCATCCTTA-TCATTACATTCTTAG
1 ACTTGTGGTTTCAT-CTTAGTCATTGCATT-TTAG
* **
10125337 ACTTATGGTTT-AGT-TTCAACCATTGCATTTTCAG
1 ACTTGTGGTTTCA-TCTT-AGTCATTGCATTTT-AG
* *
10125371 ACTTGTGGTTTCAT-TTCAGCCATTTCATTTTTAG
1 ACTTGTGGTTTCATCTT-AGTCATTGCA-TTTTAG
** * * * **
10125405 ACTCATAGTTTCATCTTACTCGTTAAACTTTTAG
1 ACTTGTGGTTTCATCTTAGTCATTGCA-TTTTAG
10125439 ACTTGTG
1 ACTTGTG
10125446 ATTTTGTCTT
Statistics
Matches: 356, Mismatches: 85, Indels: 70
0.70 0.17 0.14
Matches are distributed among these distances:
27 22 0.06
30 1 0.00
31 1 0.00
32 5 0.01
33 42 0.12
34 241 0.68
35 39 0.11
36 5 0.01
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (33 bp):
ACTTGTGGTTTCATCTTAGTCATTGCATTTTAG
Found at i:10125366 original size:68 final size:68
Alignment explanation
Indices: 10125035--10125384 Score: 236
Period size: 68 Copynumber: 5.1 Consensus size: 68
10125025 TTACATCTTT
* * * *
10125035 TGGTTTCATCC-TAGTCATTGCATTTTTAGACTCATGGTTTCA-TCT--GTACCATTACATTTTA
1 TGGTTTCATCCTTA-TCATTGCATTCTTAGACTTATGGTTT-AGTCTCAGT--CATTGCATTTTC
*
10125096 AAACTTG
62 AGACTTG
** * * * * * *
10125103 TAATTTCATCCTCTGTCATTGCATTTTTAAACTTATGGTTTTGTCCCAGTCATTGTATTTTCAGA
1 TGGTTTCATCCT-TATCATTGCATTCTTAGACTTATGGTTTAGTCTCAGTCATTGCATTTTCAGA
10125168 CTTG
65 CTTG
* ** * * * * *
10125172 TGGTTTCATCCTGGA-CATTAAATTCTTAGACTTGTAGTTTCGTCTCGGTCAATGCATCTTT-AG
1 TGGTTTCATCCT-TATCATTGCATTCTTAGACTTATGGTTTAGTCTCAGTCATTGCAT-TTTCAG
*
10125235 AGTTG
64 ACTTG
* * * *
10125240 TGGTTTCAT-CTTGGTCATTGCA-TCTTTATACTTGTGGCTTT-G-C-CATGGTCATTCCATTTT
1 TGGTTTCATCCTT-ATCATTGCATTC-TTAGACTTATGG-TTTAGTCTCA--GTCATTGCATTTT
*
10125300 TAGACTTG
61 CAGACTTG
* * **
10125308 TGGTTTCATCCTTATCATTACATTCTTAGACTTATGGTTTAGTTTCAACCATTGCATTTTCAGAC
1 TGGTTTCATCCTTATCATTGCATTCTTAGACTTATGGTTTAGTCTCAGTCATTGCATTTTCAGAC
10125373 TTG
66 TTG
10125376 TGGTTTCAT
1 TGGTTTCAT
10125385 TTCAGCCATT
Statistics
Matches: 217, Mismatches: 47, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
66 1 0.00
67 11 0.05
68 138 0.64
69 62 0.29
70 3 0.01
71 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (68 bp):
TGGTTTCATCCTTATCATTGCATTCTTAGACTTATGGTTTAGTCTCAGTCATTGCATTTTCAGAC
TTG
Found at i:10125570 original size:41 final size:41
Alignment explanation
Indices: 10125465--10125571 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 41
10125455 TGTATATTCC
** * * *
10125465 TTTTATTTTTA-AA-TTGGTTTCCTCCAAGTTATTTTCATT
1 TTTTATTTTTAGAATTTGGTTTTGTCCAAATCATTTTCACT
* * * *
10125504 TATTTCATTTTAAGACTTTGATTTTGTCCAAATCATTTTTACT
1 T-TTT-ATTTTTAGAATTTGGTTTTGTCCAAATCATTTTCACT
10125547 TTTTATTTTTAGAATTTGGTTTTGT
1 TTTTATTTTTAGAATTTGGTTTTGT
10125572 GTAAATGCTT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
39 1 0.02
40 3 0.06
41 24 0.46
42 4 0.08
43 20 0.38
ACGTcount: A:0.21, C:0.10, G:0.09, T:0.59
Consensus pattern (41 bp):
TTTTATTTTTAGAATTTGGTTTTGTCCAAATCATTTTCACT
Found at i:10128606 original size:16 final size:16
Alignment explanation
Indices: 10128585--10128619 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
10128575 ATACAAGCTC
*
10128585 ATACCAATTGTTAAGG
1 ATACCAATTGTTAAAG
10128601 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
10128617 ATA
1 ATA
10128620 TGTTATGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:10137732 original size:74 final size:73
Alignment explanation
Indices: 10137608--10137751 Score: 171
Period size: 74 Copynumber: 2.0 Consensus size: 73
10137598 GTTTAAAAAA
* * * *
10137608 TTAAAAAAATTATTTTTCATAATTCAATAAAAACAACATTTGTAAGATAAATAACATGATCTTTA
1 TTAAAAAAATTATTTTTCAGAATTCAACAAAAACAACATTTGTAAAATAAA-AACATAATCTTTA
10137673 TTAAAATTT
65 TTAAAATTT
* * ** * * * *
10137682 TTAAAAAAATTATTTTTCAGAATTTAACAAATATGATATTTTTAAAATAAAAATATAATTTTTAT
1 TTAAAAAAATTATTTTTCAGAATTCAACAAAAACAACATTTGTAAAATAAAAACATAATCTTTAT
10137747 TAAAA
66 TAAAA
10137752 AAGAGATATT
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
73 16 0.28
74 42 0.72
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (73 bp):
TTAAAAAAATTATTTTTCAGAATTCAACAAAAACAACATTTGTAAAATAAAAACATAATCTTTAT
TAAAATTT
Found at i:10137934 original size:70 final size:71
Alignment explanation
Indices: 10137765--10137984 Score: 209
Period size: 70 Copynumber: 3.1 Consensus size: 71
10137755 AGATATTTCT
* * * * * **
10137765 AAGATAAAAACACAGTTTTTATTGCAAATATGAAAAAATATTTTTTAGAATTCACCAAATATGAT
1 AAGATAAAAACACAGTTTTTATTGAAAATATGAAAATATATTTTTCAGAATTCAACAAAGACAAT
*
10137830 GTTTTT
66 GTTTTA
* * * * *
10137836 AGGATAGAAAGCACAG--TCTATTGAAAATATGACAATATATTTTTCAGAATTTAACAAAGACAA
1 AAGATA-AAAACACAGTTTTTATTGAAAATATGAAAATATATTTTTCAGAATTCAACAAAGACAA
10137899 TGTTTTA
65 TGTTTTA
* * * *
10137906 AAGATAAAAACATAGTTTTTATTG-AAATATGAAAA-ATATATTTTCAAAATTCAA-TAAGACGA
1 AAGATAAAAACACAGTTTTTATTGAAAATATGAAAATATAT-TTTTCAGAATTCAACAAAGACAA
*
10137968 TGTATCT-
65 TGT-TTTA
10137975 AAGATAAAAA
1 AAGATAAAAA
10137985 TGAAATATTT
Statistics
Matches: 121, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
69 30 0.25
70 72 0.60
71 11 0.09
72 8 0.07
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (71 bp):
AAGATAAAAACACAGTTTTTATTGAAAATATGAAAATATATTTTTCAGAATTCAACAAAGACAAT
GTTTTA
Found at i:10138036 original size:40 final size:40
Alignment explanation
Indices: 10137972--10138047 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
10137962 AGACGATGTA
*
10137972 TCTAAGATAAAAATGAAATATTTGTTGAAAAA-ATAATATT
1 TCTAAGATAAAAACGAAATATTTGTT-AAAAACATAATATT
* * *
10138012 TCTAAGATAAAAACGTAGTTTTTGTTAAAAACATAA
1 TCTAAGATAAAAACGAAATATTTGTTAAAAACATAA
10138048 AAAAATTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 5 0.16
40 26 0.84
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (40 bp):
TCTAAGATAAAAACGAAATATTTGTTAAAAACATAATATT
Found at i:10138389 original size:18 final size:18
Alignment explanation
Indices: 10138366--10138414 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
10138356 AAAACAACGT
10138366 GTTATTCACATGTCATGG
1 GTTATTCACATGTCATGG
* * *
10138384 GTTATTCACGTATCATGT
1 GTTATTCACATGTCATGG
10138402 GTTATTCACATGT
1 GTTATTCACATGT
10138415 TATTATTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (18 bp):
GTTATTCACATGTCATGG
Found at i:10139147 original size:21 final size:21
Alignment explanation
Indices: 10139110--10139149 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10139100 GATGAATGCA
*
10139110 AGATTAATTATTATAGTGATG
1 AGATTAATAATTATAGTGATG
10139131 AGATTAA-AATTATTAGTGA
1 AGATTAATAATTA-TAGTGA
10139150 AAATATGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (21 bp):
AGATTAATAATTATAGTGATG
Found at i:10139409 original size:5 final size:5
Alignment explanation
Indices: 10139401--10139425 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10139391 AGGAAAAAAG
10139401 ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT
10139426 GCTCCAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:10140272 original size:16 final size:17
Alignment explanation
Indices: 10140251--10140289 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
10140241 AATAGTAAAT
* *
10140251 TTTATTATTTTATGA-A
1 TTTATTATATAATGACA
10140267 TTTATTATATAATGACA
1 TTTATTATATAATGACA
10140284 TTTATT
1 TTTATT
10140290 TTTCATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTATTATATAATGACA
Found at i:10143473 original size:26 final size:25
Alignment explanation
Indices: 10143413--10143485 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
10143403 AGTAATTTTG
*
10143413 ATAATTTAAAATATAATATAATGAT
1 ATAATTTAAAATATAATAAAATGAT
** *
10143438 ACGATATAAAATA-ATATGAAAATGAT
1 ATAATTTAAAATATA-AT-AAAATGAT
* *
10143464 ATAATTTAAAATTTAAAAAAAT
1 ATAATTTAAAATATAATAAAAT
10143486 TATACATAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
24 1 0.03
25 17 0.47
26 17 0.47
27 1 0.03
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (25 bp):
ATAATTTAAAATATAATAAAATGAT
Found at i:10144648 original size:6 final size:6
Alignment explanation
Indices: 10144637--10144666 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
10144627 TAATAATTAA
10144637 TTAATT TTAATT TTAATT TTAATT TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT
10144667 CATATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:10151768 original size:31 final size:32
Alignment explanation
Indices: 10151730--10151793 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 32
10151720 CAATGTAGAC
*
10151730 ATAGTTGATAAGTCTAGATACAGGACTA-AAA
1 ATAGTTGATAAGCCTAGATACAGGACTAGAAA
*
10151761 ATAGTTGATAAGCCTAGATATAGGACTAGAAA
1 ATAGTTGATAAGCCTAGATACAGGACTAGAAA
10151793 A
1 A
10151794 AAAATGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.25
Consensus pattern (32 bp):
ATAGTTGATAAGCCTAGATACAGGACTAGAAA
Found at i:10153860 original size:57 final size:57
Alignment explanation
Indices: 10153797--10154064 Score: 414
Period size: 57 Copynumber: 4.7 Consensus size: 57
10153787 TTGTGCAAGG
10153797 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGA
* * ** * **
10153854 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACCTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTGAAAATTTATTTTTAAGA
10153912 AAAATTGATACTTTCAACTTTT-CTCAAAAACTTTTTTTGAAAATTTATTTTTAA-A
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGA
10153967 GAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGA
1 -AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGA
* *
10154025 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTT
10154065 TGGATTTTGT
Statistics
Matches: 190, Mismatches: 16, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
55 1 0.01
56 40 0.21
57 99 0.52
58 50 0.26
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGA
Found at i:10154114 original size:17 final size:16
Alignment explanation
Indices: 10154093--10154148 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
10154083 AATAAAATAA
10154093 TAAAACAAAATAAAAG
1 TAAAACAAAATAAAAG
* *
10154109 TGAAAATAAAAAAAAAAG
1 T-AAAA-CAAAATAAAAG
*
10154127 TAAAACAAAAATAAAAA
1 TAAAAC-AAAATAAAAG
10154144 TAAAA
1 TAAAA
10154149 ATAAAGATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 1 0.03
17 21 0.66
18 10 0.31
ACGTcount: A:0.79, C:0.04, G:0.05, T:0.12
Consensus pattern (16 bp):
TAAAACAAAATAAAAG
Found at i:10154120 original size:23 final size:22
Alignment explanation
Indices: 10154086--10154153 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 22
10154076 TAAAGAAAAT
**
10154086 AAAATAATAAAACAAAATAAAAGTG
1 AAAATAA-AAAA-AAAATAAAA-CA
10154111 AAAATAAAAAAAAAAGTAAAACA
1 AAAATAAAAAAAAAA-TAAAACA
10154134 AAAATAAAAATAAAAATAAA
1 AAAATAAAAA-AAAAATAAA
10154154 GATAAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 18 0.46
24 14 0.36
25 7 0.18
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAATAAAAAAAAAATAAAACA
Found at i:10154150 original size:6 final size:6
Alignment explanation
Indices: 10154081--10154160 Score: 69
Period size: 6 Copynumber: 13.5 Consensus size: 6
10154071 TTGTTTAAAG
* *
10154081 AAAAT- AAAATA ATAAA-A CAAAATA AAAGTG AAAATA AAAA-A AAAAGT-
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AAAATA AAAA-TA
* *
10154128 AAAACA AAAATA AAAATA AAAATA AAGATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
10154161 TAATATTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
5 10 0.17
6 45 0.75
7 5 0.08
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:10155040 original size:13 final size:13
Alignment explanation
Indices: 10155022--10155055 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
10155012 TCTTCAGTCG
10155022 AATAAATAAAA-AA
1 AATAAA-AAAATAA
10155035 AATAAAAAAATAA
1 AATAAAAAAATAA
10155048 AATAAAAA
1 AATAAAAA
10155056 TATTAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AATAAAAAAATAA
Found at i:10155108 original size:12 final size:13
Alignment explanation
Indices: 10155085--10155113 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10155075 AGTAAATCAG
10155085 TAAAATTAACAGA
1 TAAAATTAACAGA
10155098 TAAAA-TAACAGA
1 TAAAATTAACAGA
10155110 TAAA
1 TAAA
10155114 TTATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
TAAAATTAACAGA
Found at i:10155206 original size:4 final size:4
Alignment explanation
Indices: 10155199--10155236 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
10155189 AAATAGTAGT
*
10155199 AATA AATA AATA AATA AAT- AATA AATA CATA AGATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA A-ATA AA
10155237 AATGAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 3 0.10
4 23 0.77
5 4 0.13
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:10155222 original size:19 final size:19
Alignment explanation
Indices: 10155198--10155291 Score: 65
Period size: 19 Copynumber: 5.0 Consensus size: 19
10155188 TAAATAGTAG
10155198 TAATAAATAAATAAATAAA
1 TAATAAATAAATAAATAAA
*
10155217 TAATAAATACATAAGATAAA
1 TAATAAATAAATAA-ATAAA
* *
10155237 -AATGAAAGAAA-AATATATA
1 TAAT-AAATAAATAA-ATAAA
*
10155256 TAAAAAAT-AAT-AAT-AA
1 TAATAAATAAATAAATAAA
10155272 TAA-AAATAAAATAAAATAAA
1 TAATAAAT-AAAT-AAATAAA
10155292 ATAAAAATGT
Statistics
Matches: 58, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
15 4 0.07
16 4 0.07
17 5 0.09
18 3 0.05
19 28 0.48
20 14 0.24
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.23
Consensus pattern (19 bp):
TAATAAATAAATAAATAAA
Found at i:10155264 original size:39 final size:37
Alignment explanation
Indices: 10155202--10155323 Score: 105
Period size: 36 Copynumber: 3.4 Consensus size: 37
10155192 TAGTAGTAAT
* *
10155202 AAAT-AAAT-AAAT-AAATAATAAATACATAA-GATAA
1 AAATAAAATAAAATAAAATAAAAAATA-ATAATAATAA
*
10155236 AAATGAAAGA-AAAATATATATAAAAAATAATAATAATAA
1 AAAT-AAA-ATAAAATA-AAATAAAAAATAATAATAATAA
* *
10155275 AAATAAAATAAAATAAAATAAAAATGTAA-AAT-ACAA
1 AAATAAAATAAAATAAAATAAAAA-ATAATAATAATAA
10155311 AAATAAAATAAAA
1 AAATAAAATAAAA
10155324 AAGAAAATAG
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
34 4 0.05
36 18 0.25
37 17 0.23
38 16 0.22
39 18 0.25
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (37 bp):
AAATAAAATAAAATAAAATAAAAAATAATAATAATAA
Found at i:10155271 original size:13 final size:13
Alignment explanation
Indices: 10155158--10155325 Score: 73
Period size: 13 Copynumber: 12.5 Consensus size: 13
10155148 TATTAACAGA
10155158 AAAAAATAATAAT
1 AAAAAATAATAAT
10155171 AAAGATATATATATTAAT
1 AAA-A-A-ATA-A-TAAT
* * *
10155189 AAATAGTAGTAAT
1 AAAAAATAATAAT
10155202 AAATAAATAAATAAAT
1 AAA-AAAT-AAT-AAT
* *
10155218 AATAAATACATAAG
1 AAAAAATA-ATAAT
*
10155232 ATAAAAATGA-AA-
1 A-AAAAATAATAAT
*
10155244 GAAAAAT-ATATAT
1 AAAAAATAATA-AT
10155257 AAAAAATAATAAT
1 AAAAAATAATAAT
*
10155270 AATAAA-AATAA-
1 AAAAAATAATAAT
10155281 AATAAAATAA-AAT
1 AA-AAAATAATAAT
*
10155294 AAAAATGTAA-AAT
1 AAAAA-ATAATAAT
10155307 ACAAAAATAA-AAT
1 A-AAAAATAATAAT
10155320 AAAAAA
1 AAAAAA
10155326 GAAAATAGAC
Statistics
Matches: 120, Mismatches: 16, Indels: 39
0.69 0.09 0.22
Matches are distributed among these distances:
10 1 0.01
11 9 0.08
12 19 0.16
13 43 0.36
14 15 0.12
15 16 0.13
16 9 0.08
17 1 0.01
18 7 0.06
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.24
Consensus pattern (13 bp):
AAAAAATAATAAT
Found at i:10155284 original size:5 final size:5
Alignment explanation
Indices: 10155259--10155323 Score: 55
Period size: 5 Copynumber: 12.8 Consensus size: 5
10155249 ATATATATAA
*
10155259 AAAAT AATAAT AATA- AAAAT AAAAT AAAAT AAAAT AAAAATGT AAAAT
1 AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAA--T AAAAT
*
10155307 -ACA- AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAA
10155324 AAGAAAATAG
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
4 7 0.14
5 28 0.57
6 9 0.18
7 4 0.08
8 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:10155316 original size:26 final size:25
Alignment explanation
Indices: 10155284--10155332 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
10155274 AAAATAAAAT
*
10155284 AAAATAAAATAAAAATGTAAAATACA
1 AAAATAAAATAAAAAAG-AAAATACA
10155310 AAAATAAAATAAAAAAGAAAATA
1 AAAATAAAATAAAAAAGAAAATA
10155333 GACTTACCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (25 bp):
AAAATAAAATAAAAAAGAAAATACA
Found at i:10155592 original size:42 final size:43
Alignment explanation
Indices: 10155508--10155692 Score: 194
Period size: 43 Copynumber: 4.3 Consensus size: 43
10155498 CAAAATTCCC
* * * * *
10155508 CTAAGCAGAAGCTCAACTACTTCGAAAAACGTAAACAAAGCTCTT
1 CTAATCAGAGGCTCAACGACTTTGAAAAA--TAAATAAAGCTCTT
* **
10155553 CTAATCAGAGGCTCAACGACTTT-AAAAATGAATAAAGCTCCC
1 CTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCTT
* ** *
10155595 CTATTCAGAGAATCAACGACTTTGAAAAATAAATAAAGCTCAT
1 CTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCTT
* *
10155638 CTAATCAGAGGCTCAATGACTTTGAAAAATAAACAAAGCT-TCT
1 CTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCT-T
*
10155681 CTAAACAGAGGC
1 CTAATCAGAGGC
10155693 AATTTTTTTA
Statistics
Matches: 117, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
42 30 0.26
43 63 0.54
44 5 0.04
45 19 0.16
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.22
Consensus pattern (43 bp):
CTAATCAGAGGCTCAACGACTTTGAAAAATAAATAAAGCTCTT
Found at i:10155708 original size:1 final size:1
Alignment explanation
Indices: 10155704--10155768 Score: 67
Period size: 1 Copynumber: 65.0 Consensus size: 1
10155694 ATTTTTTTAC
* * * * * * *
10155704 TTTTTTTTTGTTTTTTTTATTTTTTTTTGTTTTGTTGTTTTTTTTTGTTTTTTTATTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10155769 AATTTGATCA
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (1 bp):
T
Found at i:10155710 original size:10 final size:9
Alignment explanation
Indices: 10155695--10155766 Score: 67
Period size: 9 Copynumber: 7.8 Consensus size: 9
10155685 ACAGAGGCAA
10155695 TTTTTTTACTT
1 TTTTTTTA--T
*
10155706 TTTTTTTGT
1 TTTTTTTAT
10155715 TTTTTTTAT
1 TTTTTTTAT
10155724 TTTTTTT-T
1 TTTTTTTAT
* *
10155732 GTTTTGTTGT
1 -TTTTTTTAT
10155742 TTTTTTT-T
1 TTTTTTTAT
10155750 GTTTTTTTAT
1 -TTTTTTTAT
10155760 TTTTTTT
1 TTTTTTT
10155767 TTAATTTGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
8 2 0.04
9 42 0.79
10 2 0.04
11 7 0.13
ACGTcount: A:0.04, C:0.01, G:0.07, T:0.88
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:10155719 original size:19 final size:18
Alignment explanation
Indices: 10155695--10155767 Score: 110
Period size: 18 Copynumber: 3.9 Consensus size: 18
10155685 ACAGAGGCAA
10155695 TTTTTTTACTTTTTTTTTG
1 TTTTTTTA-TTTTTTTTTG
10155714 TTTTTTTTATTTTTTTTTG
1 -TTTTTTTATTTTTTTTTG
* *
10155733 TTTTGTTGTTTTTTTTTG
1 TTTTTTTATTTTTTTTTG
10155751 TTTTTTTATTTTTTTTT
1 TTTTTTTATTTTTTTTT
10155768 TAATTTGATC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
18 31 0.63
19 10 0.20
20 8 0.16
ACGTcount: A:0.04, C:0.01, G:0.07, T:0.88
Consensus pattern (18 bp):
TTTTTTTATTTTTTTTTG
Found at i:10155768 original size:19 final size:18
Alignment explanation
Indices: 10155704--10155768 Score: 94
Period size: 19 Copynumber: 3.5 Consensus size: 18
10155694 ATTTTTTTAC
10155704 TTTTTTTTTGTTTTTTTT
1 TTTTTTTTTGTTTTTTTT
* *
10155722 ATTTTTTTTTGTTTTGTTG
1 -TTTTTTTTTGTTTTTTTT
10155741 TTTTTTTTTGTTTTTTTAT
1 TTTTTTTTTGTTTTTTT-T
10155760 TTTTTTTTT
1 TTTTTTTTT
10155769 AATTTGATCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.39
19 25 0.61
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (18 bp):
TTTTTTTTTGTTTTTTTT
Found at i:10155840 original size:41 final size:41
Alignment explanation
Indices: 10155781--10156069 Score: 292
Period size: 42 Copynumber: 7.0 Consensus size: 41
10155771 TTTGATCAAT
* * * *
10155781 GCTCCTCTAAGCAAAGGCTTAACAACTTTGGAAAATAAATG
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAATAAATG
* *
10155822 GCTCCTCTAACCAGAGGCTCGACGACTTTGGAAAAATAAATG
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGG-AAAATAAATG
** * * *
10155864 GCTCCTCTAATTAGAAGCTTAACGACTTTGAAAAATAAATG
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAATAAATG
*
10155905 GCTCCTCTAATA-AGAGGCTCAACGACTTTGGAAAATAAATT
1 GCTCCTCTAA-ACAGAGGCTCAACGACTTTGGAAAATAAATG
* * * * *
10155946 GCTCCTCTAAATAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGAC-TTTGGAAAATAAATG
* * * * * *
10155988 GCTCTTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAA-TAAATG
* * * *
10156030 GTTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAAT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAATAAAT
10156070 TACTCCTTGA
Statistics
Matches: 214, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.00
41 105 0.49
42 108 0.50
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAATAAATG
Found at i:10156070 original size:83 final size:82
Alignment explanation
Indices: 10155805--10156069 Score: 316
Period size: 83 Copynumber: 3.2 Consensus size: 82
10155795 AGGCTTAACA
* * *
10155805 ACTTTGGAAAATAAATGGCTCCTCTAACCAGAGGCTCGACGACTTTGGAAAAATAAATGGCTCCT
1 ACTTTGGAAAATAAATGGCTCCTCTAAACAGAGGCTCAACGACTTTGG-AAAATAAATTGCTCCT
* * ***
10155870 CTAATTAGAAGCTTAACG
65 CTAAATAGAGGCACCACG
*
10155888 ACTTTGAAAAATAAATGGCTCCTCTAATA-AGAGGCTCAACGACTTTGGAAAATAAATTGCTCCT
1 ACTTTGGAAAATAAATGGCTCCTCTAA-ACAGAGGCTCAACGACTTTGGAAAATAAATTGCTCCT
10155952 CTAAATAGAGGCACCACG
65 CTAAATAGAGGCACCACG
* * * * * * * *
10155970 ACTTTTGGAAAGTAAATTGCTCTTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATTGTTCC
1 AC-TTTGGAAAATAAATGGCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAA-TAAATTGCTCC
*
10156035 TCTAAACAGAGGCACCACG
64 TCTAAATAGAGGCACCACG
*
10156054 ACTTTGGAAAGTAAAT
1 ACTTTGGAAAATAAAT
10156070 TACTCCTTGA
Statistics
Matches: 159, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
82 31 0.19
83 98 0.62
84 30 0.19
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (82 bp):
ACTTTGGAAAATAAATGGCTCCTCTAAACAGAGGCTCAACGACTTTGGAAAATAAATTGCTCCTC
TAAATAGAGGCACCACG
Found at i:10157085 original size:12 final size:12
Alignment explanation
Indices: 10157068--10157109 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
10157058 TTGAGTCCTC
10157068 TTTTTTTCACTT
1 TTTTTTTCACTT
10157080 TTTTTTT-ACCTT
1 TTTTTTTCA-CTT
* *
10157092 TTTTTTGCTCTT
1 TTTTTTTCACTT
10157104 TTTTTT
1 TTTTTT
10157110 AAGCATAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 25 0.96
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTTTCACTT
Found at i:10165557 original size:57 final size:57
Alignment explanation
Indices: 10165488--10165874 Score: 528
Period size: 57 Copynumber: 6.8 Consensus size: 57
10165478 TTGTGCAAGA
* * **
10165488 AAAATTGATACTTTCAACTTTTTCC-CAAAATA-TTTTTTAGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAA-ACTTTTTTTGAAACTTTATTTTTAAGG
*
10165545 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAACTTTATTTTTAAGG
* * * * * *
10165602 AAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACCTTAATTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTGAAACTTTATTTTTAAGG
* *
10165660 AAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTGAAACTTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAACTTTATTTTTAAGG
* * * *
10165717 AAAATTGATACCTTCAACTTTTTCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAACTTTATTTTTAAGG
* *
10165774 AAAATTAATACTTTCAACTTTTCCTCAAAAACCTTTTTTGAAAAC-TTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTG-AAACTTTATTTTTAAGG
*
10165831 GAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CTTTTTTTGAAA
10165875 ATATTTTTTT
Statistics
Matches: 290, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
56 7 0.02
57 223 0.77
58 60 0.21
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAACTTTATTTTTAAGG
Found at i:10165780 original size:172 final size:171
Alignment explanation
Indices: 10165483--10165874 Score: 588
Period size: 172 Copynumber: 2.3 Consensus size: 171
10165473 TTTTTTTGTG
* * * * *
10165483 CAAGAAAAATTGATACTTTCAACTTTTTCC-CAAAATATTTTTTAGAAACTTTAATTTCGAGGAA
1 CAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAATCTTTTTTTGAAACTTTAATTTCAAAGAA
*
10165547 AATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGGAAAATTAATA
65 AATTGATACCTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGGAAAATTAATA
* *
10165612 CTTTCAACTTTTCCCCAAAAATATTTTTTTGAAACCTTAATTT
130 CTTTCAACTTTTCCCCAAAAA-ACTTTTTTGAAAACTTAATTT
* *
10165655 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTGAAACTTTATTTTTAAAGAAA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTGAAACTTTAATTTCAAAGAAA
* *
10165720 ATTGATACCTTCAACTTTTTCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGTAAAATTAATAC
66 ATTGATACCTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGGAAAATTAATAC
* * *
10165785 TTTCAACTTTTCCTCAAAAACCTTTTTTGAAAACTTATTTT
131 TTTCAACTTTTCCCCAAAAAACTTTTTTGAAAACTTAATTT
* * *
10165826 TAAGGGAAATTGATACTTTCAACTTTTCCTCAAAAACCTTTTTTTGAAA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAATCTTTTTTTGAAA
10165875 ATATTTTTTT
Statistics
Matches: 200, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
171 52 0.26
172 148 0.74
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (171 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATCTTTTTTTGAAACTTTAATTTCAAAGAAA
ATTGATACCTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAAGGAAAATTAATAC
TTTCAACTTTTCCCCAAAAAACTTTTTTGAAAACTTAATTT
Found at i:10165911 original size:5 final size:5
Alignment explanation
Indices: 10165901--10166066 Score: 58
Period size: 5 Copynumber: 31.8 Consensus size: 5
10165891 TTGTTTAAAG
*
10165901 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT -AAAT -AAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT
* * *
10165948 AAAGA- AAAGT AAAACA AAAAT AAAAAT AAAAAT AAAAAT AAAGAT AAAAG
1 AAA-AT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT AAA-AT AAAAT
* * ** * * *
10165998 AATAT TAAAT AAAACT AATCTAAT AATCT AAAAA AAAAC AAACAA ATAAAT
1 AAAAT AAAAT AAAA-T AA---AAT AAAAT AAAAT AAAAT AAA-AT A-AAAT
10166049 -AAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAA
10166067 ACCTGGAGCA
Statistics
Matches: 123, Mismatches: 20, Indels: 36
0.69 0.11 0.20
Matches are distributed among these distances:
3 3 0.02
4 14 0.11
5 60 0.49
6 35 0.28
7 6 0.05
8 3 0.02
9 2 0.02
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:10165967 original size:6 final size:6
Alignment explanation
Indices: 10165901--10165996 Score: 72
Period size: 6 Copynumber: 15.5 Consensus size: 6
10165891 TTGTTTAAAG
* *
10165901 AAAAT- AAAATA ATAAA-A CAAAATA AAAGTG AAAATA AATAA-A AAAATA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AA-AATA AAAATA
* * *
10165949 AAGAAAA GTAAAACA AAAATA AAAATA AAAATA AAAATA AAGATA AAA
1 AA-AATA --AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
10165997 GAATATTAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
5 7 0.10
6 51 0.70
7 10 0.14
8 3 0.04
9 2 0.03
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:10165989 original size:29 final size:27
Alignment explanation
Indices: 10165897--10165989 Score: 89
Period size: 29 Copynumber: 3.3 Consensus size: 27
10165887 GATTTTGTTT
*
10165897 AAAG-AAAATAAAATAATAAAACAAAATA
1 AAAGTAAAAAAAAATAA-AAAA-AAAATA
* * *
10165925 AAAGTGAAAATAAATAAAAAAATAAAGA
1 AAAGTAAAAAAAAATAAAAAAA-AAATA
10165953 AAAGTAAAACAAAAATAAAAATAAAAATA
1 AAAGTAAAA-AAAAATAAAAA-AAAAATA
*
10165982 AAAATAAA
1 AAAGTAAA
10165990 GATAAAAGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
27 1 0.02
28 20 0.38
29 30 0.57
30 2 0.04
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.14
Consensus pattern (27 bp):
AAAGTAAAAAAAAATAAAAAAAAAATA
Found at i:10166890 original size:22 final size:24
Alignment explanation
Indices: 10166860--10166907 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
10166850 TCAGCCGGAT
10166860 AAATAAAAAAAATTAA-AAAAATA
1 AAATAAAAAAAATTAATAAAAATA
* *
10166883 AAAT-AAAAATATTAATGAAAATA
1 AAATAAAAAAAATTAATAAAAATA
10166906 AA
1 AA
10166908 TCAGGTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (24 bp):
AAATAAAAAAAATTAATAAAAATA
Found at i:10166908 original size:22 final size:22
Alignment explanation
Indices: 10166858--10166908 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
10166848 CTTCAGCCGG
10166858 ATAAATAAAAAAAATTAAAAAA
1 ATAAATAAAAAAAATTAAAAAA
* *
10166880 ATAAA-ATAAAAATATTAATGAAA
1 ATAAATA-AAAAAAATTAA-AAAA
10166903 ATAAAT
1 ATAAAT
10166909 CAGGTAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
ATAAATAAAAAAAATTAAAAAA
Found at i:10167040 original size:4 final size:4
Alignment explanation
Indices: 10167033--10167129 Score: 55
Period size: 4 Copynumber: 24.5 Consensus size: 4
10167023 AAATAGTAGT
* *
10167033 AATA AATA AATA AATA AAT- AATA AATA CATA AGAT- AA-A AATGA AAGA
1 AATA AATA AATA AATA AATA AATA AATA AATA A-ATA AATA AAT-A AATA
* *
10167080 AA-A ATATA TATA AA-A AAT- AAT- AATA ATAAA AATAA AATA AATAA
1 AATA A-ATA AATA AATA AATA AATA AATA A-ATA AAT-A AATA AAT-A
10167124 AATA AA
1 AATA AA
10167130 AATGTAAAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
3 17 0.23
4 40 0.54
5 17 0.23
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (4 bp):
AATA
Done.