Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 68 of 113
Found at i:15833271 original size:64 final size:64
Alignment explanation
Indices: 15833200--15833370 Score: 177
Period size: 64 Copynumber: 2.7 Consensus size: 64
15833190 AATTCAATCA
* *
15833200 TCCTTATTTTTTACCTTTGCTCAGTTTGATCATTTTCATTTTTGA-CTTTGATTCAGTCTAGTCA
1 TCCTTATTTTTCACCTTTGCTCAGTCTGATCATTTTCATTTTTGATC-TTGATTCAGTCTAGTC-
15833264 C
64 C
* * ** * * * *
15833265 T-TTTA-TTTTCAACTTTGGCTCAGTCCAATCATTTTTATTTTTGATCTTGGTTCAGTCTGGTCG
1 TCCTTATTTTTCACCTTT-GCTCAGTCTGATCATTTTCATTTTTGATCTTGATTCAGTCTAGTCC
* * *
15833328 TCCTTATTTTTGACCTTAGCTAAGTCTGATCATTTTCATTTTT
1 TCCTTATTTTTCACCTTTGCTCAGTCTGATCATTTTCATTTTT
15833371 TGACCTTGGC
Statistics
Matches: 84, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
63 10 0.12
64 64 0.76
65 10 0.12
ACGTcount: A:0.17, C:0.19, G:0.12, T:0.52
Consensus pattern (64 bp):
TCCTTATTTTTCACCTTTGCTCAGTCTGATCATTTTCATTTTTGATCTTGATTCAGTCTAGTCC
Found at i:15833273 original size:32 final size:32
Alignment explanation
Indices: 15833228--15833322 Score: 95
Period size: 32 Copynumber: 3.0 Consensus size: 32
15833218 GCTCAGTTTG
*
15833228 ATCA-TTTTCATTTTTGACTTTGATTCAGTCTA
1 ATCACTTTT-ATTTTTGACTTTGGTTCAGTCTA
* ** * *
15833260 GTCACTTTTATTTTCAACTTTGGCTCAGTCCA
1 ATCACTTTTATTTTTGACTTTGGTTCAGTCTA
*
15833292 ATCATTTTTATTTTTGA-TCTTGGTTCAGTCT
1 ATCACTTTTATTTTTGACT-TTGGTTCAGTCT
15833323 GGTCGTCCTT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
31 1 0.02
32 44 0.90
33 4 0.08
ACGTcount: A:0.19, C:0.18, G:0.12, T:0.52
Consensus pattern (32 bp):
ATCACTTTTATTTTTGACTTTGGTTCAGTCTA
Found at i:15833893 original size:21 final size:23
Alignment explanation
Indices: 15833868--15833913 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
15833858 ATTTATCCTA
15833868 TTTATTTTT-ATGT-GTTAATCT
1 TTTATTTTTAATGTGGTTAATCT
*
15833889 TTTATTTTTAATGTGGTTTATCT
1 TTTATTTTTAATGTGGTTAATCT
15833912 TT
1 TT
15833914 AACTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 4 0.18
23 9 0.41
ACGTcount: A:0.17, C:0.04, G:0.11, T:0.67
Consensus pattern (23 bp):
TTTATTTTTAATGTGGTTAATCT
Found at i:15833961 original size:23 final size:23
Alignment explanation
Indices: 15833935--15833982 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
15833925 TTTTCAAAAT
15833935 TTATCTAATTATTTTTTAT-TTTA
1 TTATCTAATTA-TTTTTATGTTTA
* *
15833958 TTATTTATTTATTTTTATGTTTA
1 TTATCTAATTATTTTTATGTTTA
15833981 TT
1 TT
15833983 TGTTATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
TTATCTAATTATTTTTATGTTTA
Found at i:15833967 original size:4 final size:4
Alignment explanation
Indices: 15833933--15834042 Score: 57
Period size: 4 Copynumber: 27.0 Consensus size: 4
15833923 ATTTTTCAAA
* * *
15833933 ATTT ATCT AATT ATTT -TTT ATTT -TATT ATTT ATTT ATTT -TTAT GTTT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT ATTT ATTT ATT-T ATTT
* * * *
15833980 ATTT GTTAT ATTT CATTT TTTT CTTT -TAT ATTT ATTT CATTTT ATTT
1 ATTT ATT-T ATTT -ATTT ATTT ATTT ATTT ATTT ATTT -A-TTT ATTT
* *
15834027 TTTT ATTT ATTG ATTT
1 ATTT ATTT ATTT ATTT
15834043 GGTCATTAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
3 8 0.10
4 58 0.72
5 12 0.15
6 3 0.04
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:15833975 original size:29 final size:28
Alignment explanation
Indices: 15833943--15834037 Score: 67
Period size: 29 Copynumber: 3.4 Consensus size: 28
15833933 ATTTATCTAA
15833943 TTATTTTTTATTTTATTATTTATTT-ATTT
1 TTATTTTTTATTTTATTA--TATTTCATTT
* *
15833972 TTA-TGTTTA-TTTGTTATATTTCATTT
1 TTATTTTTTATTTTATTATATTTCATTT
*
15833998 TT-TTCTTTTATATTTATT-TCATTTTATTT
1 TTATT-TTTTAT-TTTATTAT-ATTTCATTT
*
15834027 TT-TTATTTATT
1 TTATTTTTTATT
15834038 GATTTGGTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
25 5 0.09
26 7 0.13
27 11 0.20
28 11 0.20
29 20 0.37
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (28 bp):
TTATTTTTTATTTTATTATATTTCATTT
Found at i:15833986 original size:8 final size:7
Alignment explanation
Indices: 15833943--15834034 Score: 57
Period size: 7 Copynumber: 12.9 Consensus size: 7
15833933 ATTTATCTAA
15833943 TTATTTT
1 TTATTTT
15833950 TTATTTT
1 TTATTTT
15833957 ATTATTTAT
1 -TTATTT-T
15833966 TTA-TTT
1 TTATTTT
*
15833972 TTA-TGT
1 TTATTTT
*
15833978 TTATTTG
1 TTATTTT
*
15833985 TTATATT
1 TTATTTT
*
15833992 TCATTTT
1 TTATTTT
15833999 TT-TCTTT
1 TTAT-TTT
15834006 TATATTTAT
1 T-TATTT-T
15834015 TTCATTTT
1 TT-ATTTT
*
15834023 AT-TTTT
1 TTATTTT
15834029 TTATTT
1 TTATTT
15834035 ATTGATTTGG
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
6 15 0.23
7 28 0.42
8 15 0.23
9 8 0.12
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.76
Consensus pattern (7 bp):
TTATTTT
Found at i:15834162 original size:19 final size:21
Alignment explanation
Indices: 15834126--15834167 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
15834116 GAATTTAAAC
15834126 TTGTCAAGATATATTCTA-TT
1 TTGTCAAGATATATTCTAGTT
*
15834146 TTGTCATGATA-ATTCTAGTT
1 TTGTCAAGATATATTCTAGTT
15834166 TT
1 TT
15834168 TTGACTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (21 bp):
TTGTCAAGATATATTCTAGTT
Found at i:15835665 original size:17 final size:17
Alignment explanation
Indices: 15835643--15835675 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15835633 TATTTTGTTG
15835643 TTTTAAATAAAAAATAT
1 TTTTAAATAAAAAATAT
15835660 TTTTAAATAAAAAATA
1 TTTTAAATAAAAAATA
15835676 AAACCTTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTTTAAATAAAAAATAT
Found at i:15835935 original size:37 final size:37
Alignment explanation
Indices: 15835866--15835936 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
15835856 TAGTTTTTAT
* **
15835866 AAAATCTTACCAATATATTAGAGGATAATTTTGACAA
1 AAAATCTTACCAACATATTAGAAAATAATTTTGACAA
* *
15835903 AAAATTTTACCAACATATTAGAAAATATTTTTGA
1 AAAATCTTACCAACATATTAGAAAATAATTTTGA
15835937 AAATAAAGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.35
Consensus pattern (37 bp):
AAAATCTTACCAACATATTAGAAAATAATTTTGACAA
Found at i:15841120 original size:7 final size:8
Alignment explanation
Indices: 15841101--15841127 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15841091 GGTAACGAAA
15841101 AAAAAATG
1 AAAAAATG
15841109 AAAAAATG
1 AAAAAATG
15841117 AAAAAATG
1 AAAAAATG
15841125 AAA
1 AAA
15841128 GAGAAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:15851169 original size:2 final size:2
Alignment explanation
Indices: 15851160--15851198 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
15851150 TGTGTCTACT
15851160 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15851199 AGTGAAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15855116 original size:31 final size:31
Alignment explanation
Indices: 15855049--15855109 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
15855039 AAAAAAATAA
*
15855049 AATATACAATTTACATTCTAAACTTTCAAAT
1 AATATACAATTTACATCCTAAACTTTCAAAT
*
15855080 AATATACAATTTGCA-CCATAAACTTTCAAA
1 AATATACAATTTACATCC-TAAACTTTCAAA
15855110 CTATATATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (31 bp):
AATATACAATTTACATCCTAAACTTTCAAAT
Found at i:15856859 original size:25 final size:25
Alignment explanation
Indices: 15856830--15856878 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15856820 AAAATAGAGC
*
15856830 AATCTGTAATAGCCATCTTATTCAA
1 AATCTATAATAGCCATCTTATTCAA
* *
15856855 AATCTATAGTAGCCATCTTGTTCA
1 AATCTATAATAGCCATCTTATTCA
15856879 CATTTCATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (25 bp):
AATCTATAATAGCCATCTTATTCAA
Found at i:15860226 original size:355 final size:354
Alignment explanation
Indices: 15859598--15860674 Score: 1422
Period size: 355 Copynumber: 3.0 Consensus size: 354
15859588 TCTTACATAG
*** *
15859598 TAAAATGCCTTCAATATACCACGATGGTTATAGAAGACATTTATT-AAAAAATATG-CTTTCAAT
1 TAAAATGCCTTCAATATACCACGATGGTTATAGAAGGTGTTTATTCAAAAAA-GTGACTTT-AAT
* * * * *
15859661 ATACCCTTAAACTTAGTAATCCGTTAC-GAAAGGCATTTGTTATTAACATACACCTTTAATATTT
64 ATACCTTTAAACTTAGTAATCCATTACTG-AAGGTATTTGTTAATAACAGACACCTTTAATATTT
* * * *
15859725 TCCTTTTAAAAAA-TTTGGGCATTATTAAAGGCATCTTCTACTGTAAAATACATTCAATATA-CT
128 T-CTCTCAAAAAATTTTGGGCATTATTAAAGGCATCTTCTACTGTAAAATACCTTAAATATATC-
* * * * *
15859788 GCCACATAAATTTTAACACGATTATTGAAAGTGTATATTCACGAAAAATGCCTTTAATATTTGCT
191 GCCACACAAATTTTAACAAG-TTATTGAAAGCGTATAATCAAGAAAAATGCCTTTAATATTTGCT
*
15859853 ATTAAATTTTGTAGATAATTAGTGAAGGCGTTTGCAGATAGCAACGCCTTTAATAATTTCATTAA
255 ATTAGATTTTGTAGATAATTAGTGAAGGCGTTTGCAGATAGCAACGCCTTTAATAATTTCATTAA
*
15859918 AAAAATTTTAAGATTATTAAAGGCATCTTTTATTA
320 AAAAATTTTGAGATTATTAAAGGCATCTTTTATTA
* * * *
15859953 TAAAATACCTTCAATATACCACAATGGTTATAAAAGGTGTTTATTCAAAAAAGTGACTTTGATAT
1 TAAAATGCCTTCAATATACCACGATGGTTATAGAAGGTGTTTATTCAAAAAAGTGACTTTAATAT
* * * * *
15860018 ACCTTTAAACTTAGTAATCCATTACTGAAGGTGTTTATTAATAATAGACATCTTCAATATTTTCT
66 ACCTTTAAACTTAGTAATCCATTACTGAAGGTATTTGTTAATAACAGACACCTTTAATATTTTCT
* *
15860083 CTCAAAAAATTTTGGGCATTATTATAGGCATCTTCTACTGTAAAATGCCTTAAATATATCGCCAC
131 CTCAAAAAATTTTGGGCATTATTAAAGGCATCTTCTACTGTAAAATACCTTAAATATATCGCCAC
* *
15860148 ACAAATTTTAACATAGTTATTGAAGGCGTATAATCAAGAAAAATGCCTTTAATATTTGTTATTAG
196 ACAAATTTTAACA-AGTTATTGAAAGCGTATAATCAAGAAAAATGCCTTTAATATTTGCTATTAG
* * *
15860213 ATTTTGTAGATAATTAGTGAAGGCGTTTGCAGATAACAACACTTTTAATAATTTCATTAAAAAAA
260 ATTTTGTAGATAATTAGTGAAGGCGTTTGCAGATAGCAACGCCTTTAATAATTTCATTAAAAAAA
*
15860278 -TTTGAGATTATTAAAGGCATTTTTTATTA
325 TTTTGAGATTATTAAAGGCATCTTTTATTA
*
15860307 TAAAATGCCTTCAATATACCA-GATGGTTATAGAAGGTGTTTATTCAAAAAAGTGACTTCAATAT
1 TAAAATGCCTTCAATATACCACGATGGTTATAGAAGGTGTTTATTCAAAAAAGTGACTTTAATAT
* *
15860371 ACCTTTAAACTTAGTAATCCATTACTGAAGGTATTTGTTAATAACAGACGCCTTTAATATTTTTT
66 ACCTTTAAACTTAGTAATCCATTACTGAAGGTATTTGTTAATAACAGACACCTTTAATATTTTCT
* * * ** * *
15860436 GTCAAAACATTTTGAGCATTATTAAAGGTGTCTTCTACTGTAAAATACCTTTAATATATTGCCAC
131 CTCAAAAAATTTTGGGCATTATTAAAGGCATCTTCTACTGTAAAATACCTTAAATATATCGCCAC
* * * *
15860501 ACAAATTTTAACACAGTT-TTTAAATACGTAT-ATTAAAAAAAATGCCTTT-A-ATTTGCTATTA
196 ACAAATTTTAACA-AGTTATTGAAA-GCGTATAATCAAGAAAAATGCCTTTAATATTTGCTATTA
* * * *
15860562 GATTTTGTAGATAATTAGTAAAGGTGTTTGTAGATAGCAATG-CTTTCAATAATTTCATTAAAAA
259 GATTTTGTAGATAATTAGTGAAGGCGTTTGCAGATAGCAACGCCTTT-AATAATTTCATTAAAAA
** * *
15860626 TTTTTTTGAGATTATTAAATGCGTCTTTTATTA
323 -AATTTTGAGATTATTAAAGGCATCTTTTATTA
* *
15860659 TAAAATGTCTTTAATA
1 TAAAATGCCTTCAATA
15860675 ATTTATTATA
Statistics
Matches: 633, Mismatches: 79, Indels: 23
0.86 0.11 0.03
Matches are distributed among these distances:
349 3 0.00
350 63 0.10
351 1 0.00
352 60 0.09
353 175 0.28
354 56 0.09
355 262 0.41
356 13 0.02
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (354 bp):
TAAAATGCCTTCAATATACCACGATGGTTATAGAAGGTGTTTATTCAAAAAAGTGACTTTAATAT
ACCTTTAAACTTAGTAATCCATTACTGAAGGTATTTGTTAATAACAGACACCTTTAATATTTTCT
CTCAAAAAATTTTGGGCATTATTAAAGGCATCTTCTACTGTAAAATACCTTAAATATATCGCCAC
ACAAATTTTAACAAGTTATTGAAAGCGTATAATCAAGAAAAATGCCTTTAATATTTGCTATTAGA
TTTTGTAGATAATTAGTGAAGGCGTTTGCAGATAGCAACGCCTTTAATAATTTCATTAAAAAAAT
TTTGAGATTATTAAAGGCATCTTTTATTA
Found at i:15866183 original size:9 final size:9
Alignment explanation
Indices: 15866169--15866200 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
15866159 TTTTTTTTTA
15866169 TATCTTATT
1 TATCTTATT
15866178 TATCTTATT
1 TATCTTATT
15866187 TAT-TTATT
1 TATCTTATT
15866195 TATCTT
1 TATCTT
15866201 TTTTTATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (9 bp):
TATCTTATT
Found at i:15867155 original size:102 final size:101
Alignment explanation
Indices: 15866890--15867184 Score: 362
Period size: 101 Copynumber: 2.9 Consensus size: 101
15866880 GAAATTCATT
* * *
15866890 ATGAATTTTTTTAAAAAAGTAATAATAAAATTTTCC-ATCTTACCAAACTATTGAAGAATTTAAA
1 ATGAATTTTTTTAAAAAAATAATAATAAAA-TTTCCAATCCTACCAAACTATTGAAGGATTTAAA
* * * *
15866954 TCTTGAATTAAGTATTACCAAACTATTAGAGGACTTG
65 TCTTGAATTAAGTCTTACCAAAATATTAGAGAACTTA
* * * * * *
15866991 AT-AAATTTTTTAAAAATAATAATAATTAAATTTCTAATTCTATCAAACTATTGAATGATTTAAA
1 ATGAATTTTTTTAAAAA-AATAATAATAAAATTTCCAATCCTACCAAACTATTGAAGGATTTAAA
*
15867055 TCTTGAATTAAGTCTTATCAAAATATTAGAGAACTTA
65 TCTTGAATTAAGTCTTACCAAAATATTAGAGAACTTA
* * *
15867092 ATGAATTTTTTGTAAAAAAATAATAGTAAAATTTCCAATCCCACCAAACTATTGGAGGATTTAAA
1 ATGAATTTTTT-TAAAAAAATAATAATAAAATTTCCAATCCTACCAAACTATTGAAGGATTTAAA
* *
15867157 TATTGAATT-AGATCTTACCAAATTATTA
65 TCTTGAATTAAG-TCTTACCAAAATATTA
15867185 AAAGGTTTAA
Statistics
Matches: 163, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
100 17 0.10
101 72 0.44
102 68 0.42
103 6 0.04
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (101 bp):
ATGAATTTTTTTAAAAAAATAATAATAAAATTTCCAATCCTACCAAACTATTGAAGGATTTAAAT
CTTGAATTAAGTCTTACCAAAATATTAGAGAACTTA
Found at i:15874982 original size:84 final size:84
Alignment explanation
Indices: 15874820--15875002 Score: 201
Period size: 84 Copynumber: 2.2 Consensus size: 84
15874810 CAAAGTTTGG
* * * *
15874820 TTTGTAAGACCTCCGAGCGTAATGTCTAAGTTATCCGAACAAGATTCATAAGTCTTACGAACTAA
1 TTTGTAAGACCTCTGAGCATAATCTCTAAGTTATCAGAACAAGATTCATAAGTCTTACGAACTAA
* *
15874885 ATTTATTCTAGAGTTAAGA
66 ATCTATTCTAGAGTCAAGA
* ** * *
15874904 TTTGTAAGACCTCTGAGCATAATCTCTAAGTTTTTCAG-GTAAGATTCGTAAGTCTT-CTGAGCT
1 TTTGTAAGACCTCTGAGCATAATCTCTAAG-TTATCAGAACAAGATTCATAAGTCTTAC-GAACT
*
15874967 GAATCTA-TCTGAGAGTCAAGA
64 AAATCTATTCT-AGAGTCAAGA
*
15874988 TTTGTAAAACCTCTG
1 TTTGTAAGACCTCTG
15875003 GGCGTAGTCT
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
83 4 0.05
84 74 0.89
85 5 0.06
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (84 bp):
TTTGTAAGACCTCTGAGCATAATCTCTAAGTTATCAGAACAAGATTCATAAGTCTTACGAACTAA
ATCTATTCTAGAGTCAAGA
Found at i:15875911 original size:26 final size:26
Alignment explanation
Indices: 15875873--15875945 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
15875863 TCTATACTCA
*
15875873 AGCTCTTTGGTTGGAATTGGTGGTAG
1 AGCTCTTTGGTTGGAATTGGTGGCAG
*
15875899 AGCTCTTTAGTTGGAATTGGTGGCAG
1 AGCTCTTTGGTTGGAATTGGTGGCAG
*
15875925 AGTTCTTTGGTTGGAATTGGT
1 AGCTCTTTGGTTGGAATTGGT
15875946 AACTATCTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (26 bp):
AGCTCTTTGGTTGGAATTGGTGGCAG
Found at i:15876304 original size:101 final size:100
Alignment explanation
Indices: 15876180--15876501 Score: 359
Period size: 101 Copynumber: 3.2 Consensus size: 100
15876170 GAGAATTTCA
* *
15876180 TAATGAATTCTTTTTAAAA-AATAATAATAAAATTTTTAATCTTACCAAGCTATTGAAAGATTTA
1 TAATGAATT-TTTTAAAAATAATAATAATAAAATTTTCAATCTTACCAA-CTATTGAAAGATTTA
*
15876244 AATCTTGAATTAAGTGTTACTAAACTATTGTAA-GATT
64 AATCTTGAATTAAGTCTTACTAAACTATTG-AAGGATT
* *
15876281 TCATGAATTTTTTAAAAATAATAATAATAAAATTTTCAATCTTACCAAACTATTG-GAGACTTTA
1 TAATGAATTTTTTAAAAATAATAATAATAAAATTTTCAATCTTACC-AACTATTGAAAGA-TTTA
* ** *
15876345 AATCTTGAATTAAGTCTTATTAAAAGATTGAAGGACT
64 AATCTTGAATTAAGTCTTACTAAACTATTGAAGGATT
* *
15876382 TAATGAATTTTTTATAAAATAATAATAA-AAAAATTTCAATCCTTACCACACTATTGAATGATTT
1 TAATGAATTTTTTA-AAAATAATAATAATAAAATTTTCAAT-CTTACCA-ACTATTGAAAGATTT
* ** * *
15876446 AAATATAAAATT-AGATCTTACCAAACTATTGGAATG-TT
63 AAATCTTGAATTAAG-TCTTACTAAACTATT-GAAGGATT
15876484 TAATGAATTTTCTTAAAA
1 TAATGAATTTT-TTAAAA
15876502 TAAATTTCAT
Statistics
Matches: 188, Mismatches: 22, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
100 13 0.07
101 100 0.53
102 66 0.35
103 9 0.05
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.39
Consensus pattern (100 bp):
TAATGAATTTTTTAAAAATAATAATAATAAAATTTTCAATCTTACCAACTATTGAAAGATTTAAA
TCTTGAATTAAGTCTTACTAAACTATTGAAGGATT
Found at i:15876559 original size:21 final size:21
Alignment explanation
Indices: 15876533--15876575 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
15876523 TCATAAAATC
15876533 TCACCAAACAATTGGGAGATT
1 TCACCAAACAATTGGGAGATT
15876554 TCACCAAACAATTGGGAGATT
1 TCACCAAACAATTGGGAGATT
15876575 T
1 T
15876576 GCATTAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (21 bp):
TCACCAAACAATTGGGAGATT
Found at i:15882683 original size:2 final size:2
Alignment explanation
Indices: 15882676--15882721 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
15882666 TGGAGTGCTT
*
15882676 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15882718 TA TA
1 TA TA
15882722 AAGCTTAGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15887502 original size:3 final size:3
Alignment explanation
Indices: 15887496--15887525 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15887486 AATAATAATA
15887496 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15887526 TATAAGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15904247 original size:9 final size:9
Alignment explanation
Indices: 15904233--15904258 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
15904223 TCCTTCATTT
15904233 TTATTAGTC
1 TTATTAGTC
15904242 TTATTAGTC
1 TTATTAGTC
15904251 TTATTAGT
1 TTATTAGT
15904259 AATTTTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.58
Consensus pattern (9 bp):
TTATTAGTC
Found at i:15904455 original size:11 final size:11
Alignment explanation
Indices: 15904439--15904493 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
15904429 CCTTTCTTAC
15904439 ATTTTTTTATT
1 ATTTTTTTATT
*
15904450 ATTTTTTAATT
1 ATTTTTTTATT
**
15904461 ATTTTCTTGGTT
1 ATTTT-TTTATT
15904473 ATCTTTTTTAATT
1 AT-TTTTTT-ATT
15904486 ATTTTTTT
1 ATTTTTTT
15904494 TATTTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 15 0.42
12 14 0.39
13 7 0.19
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (11 bp):
ATTTTTTTATT
Found at i:15906119 original size:17 final size:18
Alignment explanation
Indices: 15906093--15906127 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15906083 TTTTAATACT
15906093 TAAAAATAAAAAT-AAAA
1 TAAAAATAAAAATGAAAA
*
15906110 TAAAAGTAAAAATGAAAA
1 TAAAAATAAAAATGAAAA
15906128 CAGTCAGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAATGAAAA
Found at i:15916231 original size:6 final size:6
Alignment explanation
Indices: 15916223--15916275 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
15916213 TGGAAAGGAG
* * * * *
15916223 AGAGAG AGAGAG AGAGAC AGACAG ACAGAC AGAGAC AGAGAC AGAGAC
1 AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC
15916271 AGAGA
1 AGAGA
15916276 AGGATCTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.51, C:0.13, G:0.36, T:0.00
Consensus pattern (6 bp):
AGAGAC
Found at i:15918182 original size:3 final size:3
Alignment explanation
Indices: 15918174--15918200 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15918164 TTTCCCTCAC
15918174 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
15918201 TATTTTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:15922087 original size:3 final size:3
Alignment explanation
Indices: 15922079--15922111 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15922069 CCTTTTCTCC
15922079 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15922112 CCCAAATCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15923769 original size:13 final size:13
Alignment explanation
Indices: 15923751--15923779 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15923741 TTTTAGAGGA
15923751 AAAGGCCTTAGGT
1 AAAGGCCTTAGGT
15923764 AAAGGCCTTAGGT
1 AAAGGCCTTAGGT
15923777 AAA
1 AAA
15923780 AAAAAAGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.21
Consensus pattern (13 bp):
AAAGGCCTTAGGT
Found at i:15932195 original size:34 final size:33
Alignment explanation
Indices: 15932138--15932205 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 33
15932128 AGTTTAGTCC
* *
15932138 CGATCATTTCATTTTTGATTTGTAGTTCAATCT
1 CGATCATTTCATTTTTGACTTGTAGCTCAATCT
*
15932171 CGATCATTTTCA-TTTTGAACTTGTAGCTCAGTCT
1 CGATCA-TTTCATTTTTG-ACTTGTAGCTCAATCT
15932205 C
1 C
15932206 AGTGATAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 11 0.37
34 19 0.63
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (33 bp):
CGATCATTTCATTTTTGACTTGTAGCTCAATCT
Found at i:15937105 original size:47 final size:47
Alignment explanation
Indices: 15937022--15937113 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
15937012 ATTTTACAAA
* *
15937022 TTTTATTTCTAAATTTTTAACCATTGGGGCCAATTT-AAAATTTTCT
1 TTTTATTTCTAAATTTTTAACAATTGAGGCCAATTTAAAAATTTTCT
* * * *
15937068 TTTTGATTTCTAAATTTTTCACAATTTAGGTCTATTTAAAAATTTT
1 TTTT-ATTTCTAAATTTTTAACAATTGAGGCCAATTTAAAAATTTT
15937114 TTTATTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 4 0.11
47 26 0.68
48 8 0.21
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (47 bp):
TTTTATTTCTAAATTTTTAACAATTGAGGCCAATTTAAAAATTTTCT
Found at i:15937738 original size:4 final size:4
Alignment explanation
Indices: 15937729--15937780 Score: 56
Period size: 4 Copynumber: 13.2 Consensus size: 4
15937719 AATACTTTAA
*
15937729 AAAT AAAT AAAT AACT AAAT AAAT AAAT AAA- ATAAT AAA- ATAAT AAA-
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT A-AAT AAAT
15937776 AAAT A
1 AAAT A
15937781 CCTAAACAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
3 5 0.12
4 34 0.83
5 2 0.05
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:15938730 original size:20 final size:19
Alignment explanation
Indices: 15938686--15938732 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
15938676 AACAAGAAAA
15938686 TAAAA-TTTTCCTTTTTTG
1 TAAAATTTTTCCTTTTTTG
* *
15938704 AAAAATTTTTCCTTTTATTT
1 TAAAATTTTTCCTTTT-TTG
15938724 TAAAATTTT
1 TAAAATTTT
15938733 ATTTTGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.17
19 10 0.42
20 10 0.42
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (19 bp):
TAAAATTTTTCCTTTTTTG
Found at i:15940418 original size:17 final size:15
Alignment explanation
Indices: 15940368--15940420 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
15940358 TTTATTTCCA
*
15940368 TATTTATGTTTTATTT
1 TATTTATCTTTTA-TT
15940384 TATTTTATCTTTTATT
1 TA-TTTATCTTTTATT
*
15940400 TATTTATTTTATTACTT
1 TATTTATCTT-TTA-TT
15940417 TATT
1 TATT
15940421 ATTATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 7 0.22
16 9 0.28
17 16 0.50
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (15 bp):
TATTTATCTTTTATT
Found at i:15948214 original size:71 final size:69
Alignment explanation
Indices: 15948052--15948238 Score: 200
Period size: 71 Copynumber: 2.7 Consensus size: 69
15948042 TCTTGATAAT
* * * ****
15948052 TTTTATTTTTAAAAAAAATTGGTACTTCCAACATTTTCC-CAAAA-ATTTTTGTTTTTTTTATTT
1 TTTTATTTTT-AAGAAAATTGATACTTTCAACATTTTCCTCAAAATATTTTTGAAAATTTTATTT
*
15948115 TGAAA
65 AGAAA
* *
15948120 TTCTAATTTTGAAGAAAATTGATACTTTCAAC-TTTTCCTCAAAATACTTTTTGAAAATTTTATC
1 TT-TTATTTTTAAGAAAATTGATACTTTCAACATTTTCCTCAAAATA-TTTTTGAAAATTTTAT-
15948184 TTAGAAA
63 TTAGAAA
* *
15948191 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCTAAAAATAT
1 TTTTATTTTTAA-GAAAATTGATACTTTCAACATTTTCCTCAAAATAT
15948239 ATATTTTTTA
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
67 6 0.06
68 25 0.25
69 7 0.07
70 20 0.20
71 28 0.28
72 13 0.13
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (69 bp):
TTTTATTTTTAAGAAAATTGATACTTTCAACATTTTCCTCAAAATATTTTTGAAAATTTTATTTA
GAAA
Found at i:15948276 original size:62 final size:61
Alignment explanation
Indices: 15948191--15948308 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 61
15948181 ATCTTAGAAA
*
15948191 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCC-TAAAAATATATATTTTTTAAAACC
1 TTTTATTTTTAAGGAAAATTGATACTTTCAAC-TTTCCCTTAAAAA-A-ATATTTTTTAAAACC
*
15948254 TTTTATTTTTTA-GAAAATTGATACTTTCAACTTTCCCTTAAAAAAATATTTTTTA
1 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTCCCTTAAAAAAATATTTTTTA
15948309 TGTTCAAAGG
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
60 10 0.19
61 6 0.12
62 25 0.48
63 11 0.21
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (61 bp):
TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTCCCTTAAAAAAATATTTTTTAAAACC
Found at i:15948501 original size:23 final size:23
Alignment explanation
Indices: 15948462--15948530 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
15948452 AAAGAAAGAA
*
15948462 AAAATTAAAAATAAAATTAAAAT
1 AAAATTAAAATTAAAATTAAAAT
*
15948485 AAAATTAAAATTAAAATTAAATT
1 AAAATTAAAATTAAAATTAAAAT
* *
15948508 AAAATCAAAATTAAGATTAAAAT
1 AAAATTAAAATTAAAATTAAAAT
15948531 TAAGGAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (23 bp):
AAAATTAAAATTAAAATTAAAAT
Found at i:15948512 original size:6 final size:6
Alignment explanation
Indices: 15948462--15948533 Score: 103
Period size: 6 Copynumber: 12.3 Consensus size: 6
15948452 AAAGAAAGAA
*
15948462 AAAATT AAAAAT AAAATT AAAA-T AAAATT AAAATT AAAATT -AAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* *
15948508 AAAATC AAAATT AAGATT AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AA
15948534 GGAATATCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
5 10 0.17
6 48 0.83
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:15948569 original size:21 final size:22
Alignment explanation
Indices: 15948551--15948592 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
15948541 CAAATAATTC
*
15948551 TAAATTAA-AAAATAATAATAA
1 TAAATAAATAAAATAATAATAA
15948572 TAAATAAATAAAATAA-AATAA
1 TAAATAAATAAAATAATAATAA
15948593 CCTTTGAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAATAAATAAAATAATAATAA
Found at i:15949226 original size:17 final size:17
Alignment explanation
Indices: 15949192--15949225 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15949182 TTCTAAACGC
*
15949192 CTTTCTGTTTTTCTTTT
1 CTTTCTGTTGTTCTTTT
15949209 CTTTCTGTGTGTTCTTT
1 CTTTCTGT-TGTTCTTT
15949226 CCACGTCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.00, C:0.18, G:0.12, T:0.71
Consensus pattern (17 bp):
CTTTCTGTTGTTCTTTT
Found at i:15949450 original size:20 final size:21
Alignment explanation
Indices: 15949418--15949534 Score: 111
Period size: 20 Copynumber: 5.7 Consensus size: 21
15949408 ATTGATCAAG
15949418 AAAAA-AA-AGATAAA-AATA
1 AAAAATAATAGATAAATAATA
15949436 AAAAATAATAGATAAATAATA
1 AAAAATAATAGATAAATAATA
*
15949457 AAATATATTAATAGATAACTAA-A
1 AAA-A-A-TAATAGATAAATAATA
* *
15949480 AAAATTAATAGATAAAGAA-A
1 AAAAATAATAGATAAATAATA
*
15949500 AAAATTAATAGATAAATAAT-
1 AAAAATAATAGATAAATAATA
* *
15949520 AATAATAATAAATAA
1 AAAAATAATAGATAA
15949535 TTAAATTAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
18 5 0.06
19 2 0.02
20 50 0.60
21 7 0.08
22 2 0.02
23 5 0.06
24 13 0.15
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.24
Consensus pattern (21 bp):
AAAAATAATAGATAAATAATA
Found at i:15949528 original size:9 final size:10
Alignment explanation
Indices: 15949427--15949530 Score: 56
Period size: 11 Copynumber: 10.1 Consensus size: 10
15949417 GAAAAAAAAG
15949427 ATAAA-AATA
1 ATAAATAATA
*
15949436 AAAAATAATA
1 ATAAATAATA
15949446 GATAAATAATA
1 -ATAAATAATA
*
15949457 A-AATATATTA
1 ATAA-ATAATA
*
15949467 ATAGATAACTAA
1 ATAAATAA-T-A
*
15949479 AAAAATTAATA
1 ATAAA-TAATA
*
15949490 GATAAAGAA-A
1 -ATAAATAATA
15949500 A-AAATTAATA
1 ATAAA-TAATA
15949510 GATAAATAATA
1 -ATAAATAATA
15949521 AT-AATAATA
1 ATAAATAATA
15949530 A
1 A
15949531 ATAATTAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 24
0.68 0.09 0.22
Matches are distributed among these distances:
8 3 0.04
9 17 0.23
10 18 0.25
11 20 0.27
12 12 0.16
13 3 0.04
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (10 bp):
ATAAATAATA
Found at i:15949543 original size:5 final size:5
Alignment explanation
Indices: 15949533--15949566 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
15949523 AATAATAAAT
15949533 AATTA AATTAAA AATTA AATTA AATTA AATTA AA
1 AATTA AATT--A AATTA AATTA AATTA AATTA AA
15949567 AAGAAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 22 0.81
7 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AATTA
Found at i:15949546 original size:64 final size:63
Alignment explanation
Indices: 15949425--15949550 Score: 159
Period size: 64 Copynumber: 2.0 Consensus size: 63
15949415 AAGAAAAAAA
* *
15949425 AGATAAAAATAAAAAATAATAGATAAATAATAAAATATATTAATAGATAACTAAAAAAATTAAT
1 AGATAAAAATAAAAAATAATAGATAAATAATAAAATATATAAATAGATAAAT-AAAAAATTAAT
* *
15949489 AGATAAAGAA-AAAAATTAATAGATAAATAATAATAATA-ATAAATA-ATTAAATTAAAAATTAA
1 AGATAAA-AATAAAAAATAATAGATAAATAATAA-AATATATAAATAGA-TAAATAAAAAATTAA
15949551 ATTAAATTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
63 10 0.18
64 39 0.71
65 6 0.11
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (63 bp):
AGATAAAAATAAAAAATAATAGATAAATAATAAAATATATAAATAGATAAATAAAAAATTAAT
Found at i:15949841 original size:45 final size:44
Alignment explanation
Indices: 15949771--15949898 Score: 148
Period size: 45 Copynumber: 2.9 Consensus size: 44
15949761 AAATTTTAAT
* * *
15949771 CAAAGCTCCTCTAAGTAGAGGCTCAATGACTTTGAGTAAAATAAA
1 CAAAGCTCTTCTAAGTAGAGGCTCAAAGACTTTGA-AAAAATAAA
* * * * *
15949816 CAAAGCTCTTTTAAGCAGAGACTCAACGACTTTTAAAAAATAAA
1 CAAAGCTCTTCTAAGTAGAGGCTCAAAGACTTTGAAAAAATAAA
* *
15949860 CAAAGTTCTTCTAAATAGAGGCTCAAAGACTTTTGAAAA
1 CAAAGCTCTTCTAAGTAGAGGCTCAAAGAC-TTTGAAAA
15949899 GTAAATTGCT
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 32 0.47
45 36 0.53
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (44 bp):
CAAAGCTCTTCTAAGTAGAGGCTCAAAGACTTTGAAAAAATAAA
Found at i:15949885 original size:44 final size:44
Alignment explanation
Indices: 15949771--15949903 Score: 149
Period size: 44 Copynumber: 3.0 Consensus size: 44
15949761 AAATTTTAAT
* * * *
15949771 CAAAGCTCCTCTAAGTAGAGGCTCAATGACTTTGAGTAAAATAAA
1 CAAAGCTCTTCTAAGTAGAGGCTCAAAGACTTTTA-AAAAATAAA
* * * *
15949816 CAAAGCTCTTTTAAGCAGAGACTCAACGACTTTTAAAAAATAAA
1 CAAAGCTCTTCTAAGTAGAGGCTCAAAGACTTTTAAAAAATAAA
* * * *
15949860 CAAAGTTCTTCTAAATAGAGGCTCAAAGACTTTTGAAAAGTAAA
1 CAAAGCTCTTCTAAGTAGAGGCTCAAAGACTTTTAAAAAATAAA
15949904 TTGCTCCTCT
Statistics
Matches: 73, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
44 44 0.60
45 29 0.40
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (44 bp):
CAAAGCTCTTCTAAGTAGAGGCTCAAAGACTTTTAAAAAATAAA
Found at i:15949962 original size:45 final size:45
Alignment explanation
Indices: 15949809--15949991 Score: 135
Period size: 45 Copynumber: 4.2 Consensus size: 45
15949799 ACTTTGAGTA
* * * * *
15949809 AAATAAACAAAGCTCTTTTAAGC-AGAGACTCAACGACTTTTAAA-
1 AAATAAACAAAGCTCCTCTAAACAAAAG-CTCAACAACTTTTAAAG
* * * * * *
15949853 AAATAAACAAAGTTCTTCTAAATAGAGGCTCAA-AGACTTTTGAA-
1 AAATAAACAAAGCTCCTCTAAACAAAAGCTCAACA-ACTTTTAAAG
* ** *
15949897 AAGT-AA-ATTGCTCCTCTAAACAAAAGCTCCACAACTTTTAAAG
1 AAATAAACAAAGCTCCTCTAAACAAAAGCTCAACAACTTTTAAAG
* * * *
15949940 AAATAAACAAAGCTCCTTTAAACAGAAGCTTAACAACTTTTGAAG
1 AAATAAACAAAGCTCCTCTAAACAAAAGCTCAACAACTTTTAAAG
15949985 AAATAAA
1 AAATAAA
15949992 TAACGCCTCT
Statistics
Matches: 106, Mismatches: 27, Indels: 11
0.74 0.19 0.08
Matches are distributed among these distances:
42 25 0.24
43 6 0.06
44 37 0.35
45 38 0.36
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.25
Consensus pattern (45 bp):
AAATAAACAAAGCTCCTCTAAACAAAAGCTCAACAACTTTTAAAG
Found at i:15949979 original size:87 final size:87
Alignment explanation
Indices: 15949844--15950006 Score: 206
Period size: 87 Copynumber: 1.9 Consensus size: 87
15949834 AGACTCAACG
* * * * **
15949844 ACTTTTAAAAAATAAACAAAGTTCTTCTAAATAGAGGCTCAAAGACTTTTGAA-AAGTAAATTGC
1 ACTTTTAAAAAATAAACAAAGTCCTTCTAAACAGAAGCTCAAAGACTTTTGAAGAAATAAATAAC
*
15949908 TCCTCTAAACAAAAGCTCCACA
66 GCCTCTAAACAAAAGCTCCACA
*
15949930 ACTTTTAAAGAAATAAACAAAGCTCCTT-TAAACAGAAGCTTAACA-ACTTTTGAAGAAATAAAT
1 ACTTTTAAA-AAATAAACAAAG-TCCTTCTAAACAGAAGCTCAA-AGACTTTTGAAGAAATAAAT
15949993 AACGCCTCTAAACA
63 AACGCCTCTAAACA
15950007 GAGACATCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
86 9 0.14
87 33 0.51
88 23 0.35
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (87 bp):
ACTTTTAAAAAATAAACAAAGTCCTTCTAAACAGAAGCTCAAAGACTTTTGAAGAAATAAATAAC
GCCTCTAAACAAAAGCTCCACA
Found at i:15950090 original size:40 final size:41
Alignment explanation
Indices: 15950036--15950119 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 41
15950026 AAGTAAATTG
* * *
15950036 CTCTAAACAGAGGCAAC-GAACTTTGAGAAATAAATTGCTC
1 CTCTAAACAAAGGCAACAGAACTTTGAAAAATAAATGGCTC
* * *
15950076 CTCTAAATAAAGGCACCATAACTTTGAAAAATAAATGGCTC
1 CTCTAAACAAAGGCAACAGAACTTTGAAAAATAAATGGCTC
15950117 CTC
1 CTC
15950120 AACAATCATG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 14 0.38
41 23 0.62
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (41 bp):
CTCTAAACAAAGGCAACAGAACTTTGAAAAATAAATGGCTC
Found at i:15962073 original size:23 final size:22
Alignment explanation
Indices: 15962046--15962097 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 22
15962036 ATTTTTTTAG
15962046 AAAAAAAAATTGTTGAAAAGAA
1 AAAAAAAAATTGTTGAAAAGAA
15962068 AGAAAAAAAATTGTTGAAAAGAA
1 A-AAAAAAAATTGTTGAAAAGAA
15962091 AAAAAAA
1 AAAAAAA
15962098 TTAAAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.15
Consensus pattern (22 bp):
AAAAAAAAATTGTTGAAAAGAA
Found at i:15962103 original size:6 final size:6
Alignment explanation
Indices: 15962094--15962149 Score: 85
Period size: 6 Copynumber: 9.3 Consensus size: 6
15962084 AAAAGAAAAA
* * *
15962094 AAAATT AAAATT AAAATT AAAATC AAAATT AAAATC AAAATT AAGATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
15962142 AAAATT AA
1 AAAATT AA
15962150 GGAATACCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:15962924 original size:3 final size:3
Alignment explanation
Indices: 15962907--15963037 Score: 65
Period size: 3 Copynumber: 42.3 Consensus size: 3
15962897 GAAAAAAAAG
* * * *
15962907 ATA AAA ATA AAA ATA ATA GATAA ATA ATA A-A AT- ATA TTA ATCG ATA
1 ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA AT-A ATA
* * *
15962953 ACTA A-A A-A AAA ATA TTA ATA GATAA ATA ATA A-A ATA TTA ATA GATAA
1 A-TA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA -AT-A
* *
15963000 ATA ATA ATA ATA ATC ATA ATA ATA ATGA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA A
15963038 AATTAAAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 26
0.70 0.12 0.18
Matches are distributed among these distances:
2 10 0.10
3 66 0.67
4 19 0.19
5 3 0.03
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:15962952 original size:24 final size:24
Alignment explanation
Indices: 15962920--15963011 Score: 125
Period size: 24 Copynumber: 3.9 Consensus size: 24
15962910 AAAATAAAAA
15962920 TAATAGATAAATAATAAAATATAT
1 TAATAGATAAATAATAAAATATAT
* * * *
15962944 TAATCGATAACTAAAAAAAAATAT
1 TAATAGATAAATAATAAAATATAT
15962968 TAATAGATAAATAAT-AAA-ATAT
1 TAATAGATAAATAATAAAATATAT
15962990 TAATAGATAAATAATAATAATA
1 TAATAGATAAATAATAA-AATA
15963012 ATCATAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.33
23 4 0.07
24 34 0.59
25 1 0.02
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
TAATAGATAAATAATAAAATATAT
Found at i:15962989 original size:22 final size:22
Alignment explanation
Indices: 15962905--15963011 Score: 121
Period size: 22 Copynumber: 4.8 Consensus size: 22
15962895 AAGAAAAAAA
15962905 AGATAAA-AATAAAA-A-TAAT
1 AGATAAATAATAAAATATTAAT
15962924 AGATAAATAATAAAATATATTAAT
1 AGATAAATAAT-AAA-ATATTAAT
* * *
15962948 CGATAACTAAAAAAAAATATTAAT
1 AGATAA--ATAATAAAATATTAAT
15962972 AGATAAATAATAAAATATTAAT
1 AGATAAATAATAAAATATTAAT
15962994 AGATAAATAATAATAATA
1 AGATAAATAATAA-AATA
15963012 ATCATAATAA
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
19 7 0.09
20 3 0.04
21 3 0.04
22 28 0.38
23 5 0.07
24 22 0.30
25 3 0.04
26 3 0.04
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (22 bp):
AGATAAATAATAAAATATTAAT
Found at i:15963020 original size:48 final size:47
Alignment explanation
Indices: 15962907--15963003 Score: 137
Period size: 46 Copynumber: 2.1 Consensus size: 47
15962897 GAAAAAAAAG
*
15962907 ATAAAAATAAAA-ATAATAGATAAATAATAAAATATATTAATCGATAA
1 ATAAAAA-AAAATATAATAGATAAATAATAAAATATATTAATAGATAA
*
15962954 CTAAAAAAAAATATTAATAGATAAATAAT-AAA-ATATTAATAGATAA
1 ATAAAAAAAAATA-TAATAGATAAATAATAAAATATATTAATAGATAA
15963000 ATAA
1 ATAA
15963004 TAATAATAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
46 20 0.44
47 10 0.22
48 15 0.33
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (47 bp):
ATAAAAAAAAATATAATAGATAAATAATAAAATATATTAATAGATAA
Found at i:15963021 original size:22 final size:22
Alignment explanation
Indices: 15962905--15963037 Score: 114
Period size: 22 Copynumber: 6.0 Consensus size: 22
15962895 AAGAAAAAAA
15962905 AGATAAA-AAT-AAA-AATAAT
1 AGATAAATAATAAAATAATAAT
15962924 AGATAAATAATAAAATATATTAAT
1 AGATAAATAATAAAATA-A-TAAT
* * * *
15962948 CGATAACTAAAAAAAAATATTAAT
1 AGATAA--ATAATAAAATAATAAT
*
15962972 AGATAAATAATAAAATATTAAT
1 AGATAAATAATAAAATAATAAT
*
15962994 AGATAAATAATAATAATAATCAT
1 AGATAAATAATAA-AATAATAAT
15963017 A-AT-AATAATGAAAAATAATAA
1 AGATAAATAAT--AAAATAATAA
15963038 AATTAAAAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
19 7 0.07
20 3 0.03
21 9 0.10
22 37 0.39
23 11 0.12
24 18 0.19
26 9 0.10
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (22 bp):
AGATAAATAATAAAATAATAAT
Found at i:15963059 original size:10 final size:11
Alignment explanation
Indices: 15963037--15963072 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
15963027 AAAAATAATA
15963037 AAATTAAAAATT
1 AAATT-AAAATT
15963049 AAATT-AAATT
1 AAATTAAAATT
15963059 AAATTAAAATT
1 AAATTAAAATT
15963070 AAA
1 AAA
15963073 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.43
11 8 0.35
12 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:15964327 original size:21 final size:20
Alignment explanation
Indices: 15964293--15964332 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
15964283 AAGGCAAAGC
*
15964293 CTTAATAAAGCCAAAAATAG
1 CTTAAAAAAGCCAAAAATAG
15964313 CTTAAAAAATGCCAAAAATA
1 CTTAAAAAA-GCCAAAAATA
15964333 AAATGATGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.57, C:0.15, G:0.07, T:0.20
Consensus pattern (20 bp):
CTTAAAAAAGCCAAAAATAG
Found at i:15966893 original size:17 final size:16
Alignment explanation
Indices: 15966861--15966892 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15966851 TTAAATTTAT
15966861 TTTTTAAATTAAAAAA
1 TTTTTAAATTAAAAAA
15966877 TTTTTAAATTAAAAAA
1 TTTTTAAATTAAAAAA
15966893 AAAATTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTTTAAATTAAAAAA
Found at i:15967203 original size:24 final size:24
Alignment explanation
Indices: 15967176--15967222 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
15967166 CTGAAAGGTG
* *
15967176 AGACGAATTTTTGGAAAATTTTGA
1 AGACGAATTTTTGAAAAAATTTGA
*
15967200 AGACTAATTTTTGAAAAAATTTG
1 AGACGAATTTTTGAAAAAATTTG
15967223 TAGGCCAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (24 bp):
AGACGAATTTTTGAAAAAATTTGA
Found at i:15967232 original size:24 final size:24
Alignment explanation
Indices: 15967176--15967234 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
15967166 CTGAAAGGTG
* * *
15967176 AGACGAATTTTTGGAAAATTTTGA
1 AGACCAATTTTTGAAAAAATTTGA
* *
15967200 AGACTAATTTTTGAAAAAATTTGT
1 AGACCAATTTTTGAAAAAATTTGA
*
15967224 AGGCCAATTTT
1 AGACCAATTTT
15967235 CAATAGAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (24 bp):
AGACCAATTTTTGAAAAAATTTGA
Found at i:15968197 original size:15 final size:15
Alignment explanation
Indices: 15968154--15968200 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
15968144 GGCATGTTCA
*
15968154 ATATTTTTTCATTTTT
1 ATATTTTAT-ATTTTT
* *
15968170 -TATTTAATTTTTTT
1 ATATTTTATATTTTT
15968184 ATATTTTATATTTTT
1 ATATTTTATATTTTT
15968199 AT
1 AT
15968201 TTCTTTTTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (15 bp):
ATATTTTATATTTTT
Found at i:15970858 original size:2 final size:2
Alignment explanation
Indices: 15970851--15970891 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
15970841 CTACTCATTC
* * *
15970851 AT AT AT AT TT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15970892 AATAGGTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
AT
Found at i:15971807 original size:18 final size:19
Alignment explanation
Indices: 15971786--15971821 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15971776 TTATTTATCA
*
15971786 ATAAAATA-GTATTTTAAT
1 ATAAAATATATATTTTAAT
15971804 ATAAAATATATATTTTAA
1 ATAAAATATATATTTTAA
15971822 AAAATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATAAAATATATATTTTAAT
Found at i:15971961 original size:33 final size:31
Alignment explanation
Indices: 15971925--15971984 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
15971915 AAAATGAAAA
15971925 AAAAAACATCATATCATTTTAAAATATTAAGT
1 AAAAAACATCATATCATTTTAAAA-ATTAAGT
**
15971957 AAAAAATTTCATATCATTTTAAAAATTA
1 AAAAAACATCATATCATTTTAAAAATTA
15971985 GATTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (31 bp):
AAAAAACATCATATCATTTTAAAAATTAAGT
Found at i:15971978 original size:65 final size:63
Alignment explanation
Indices: 15971858--15971981 Score: 144
Period size: 64 Copynumber: 2.0 Consensus size: 63
15971848 AAAATAATTA
* * * *
15971858 AAAAAAAAAACTCTATCATTTTAAACTAATCAAATAACAACTTTATATTGATTTAAAAAAATG
1 AAAAAAAAAACTCTATCATTTTAAAATAATCAAATAAAAAATTTATATTCATTTAAAAAAATG
* * *
15971921 AAAAAAAAAACATCATATCATTTTAAAAT-ATTAAGTAAAAAATTTCATA-TCATTTTAAAAA
1 AAAAAAAAAAC-TC-TATCATTTTAAAATAATCAAATAAAAAATTT-ATATTCATTTAAAAAA
15971982 TTAGATTTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
63 11 0.22
64 24 0.47
65 16 0.31
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (63 bp):
AAAAAAAAAACTCTATCATTTTAAAATAATCAAATAAAAAATTTATATTCATTTAAAAAAATG
Found at i:15972614 original size:18 final size:17
Alignment explanation
Indices: 15972593--15972626 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15972583 AAATTTTTTT
15972593 AAATTATGAATCAAAATA
1 AAATT-TGAATCAAAATA
*
15972611 AAATTTGACTCAAAAT
1 AAATTTGAATCAAAAT
15972627 TTTAAGGCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (17 bp):
AAATTTGAATCAAAATA
Found at i:15975373 original size:5 final size:5
Alignment explanation
Indices: 15975363--15975394 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
15975353 AGCAAAGCCC
*
15975363 TCTTT TTTTT TCTTT TCTTT TCTTT TCTTT TC
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TC
15975395 GTATCAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:15977660 original size:2 final size:2
Alignment explanation
Indices: 15977653--15977686 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15977643 TCAATTCTTT
15977653 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15977687 ATCTTAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15979173 original size:22 final size:23
Alignment explanation
Indices: 15979148--15979190 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
15979138 TTATAATTCT
*
15979148 ATTTTTTTCA-TATGCTCTCTCC
1 ATTTTCTTCATTATGCTCTCTCC
*
15979170 ATTTTCTTCATTATGTTCTCT
1 ATTTTCTTCATTATGCTCTCT
15979191 TTTCATCATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.14, C:0.23, G:0.05, T:0.58
Consensus pattern (23 bp):
ATTTTCTTCATTATGCTCTCTCC
Found at i:15987195 original size:12 final size:11
Alignment explanation
Indices: 15987181--15987291 Score: 60
Period size: 11 Copynumber: 9.1 Consensus size: 11
15987171 GTCTATGTTC
*
15987181 TTTTTTTCTTTC
1 TTTTTTT-TTTA
15987193 TTTATTTTATTTA
1 TTT-TTTT-TTTA
15987206 TTTTTATTTTTA
1 TTTTT-TTTTTA
*
15987218 TTTTTTTTGTA
1 TTTTTTTTTTA
*
15987229 TTTTACATTTTTA
1 TTTT--TTTTTTA
*
15987242 TTTTATTTTTA
1 TTTTTTTTTTA
15987253 TTATTATTGTTTATA
1 TT-TT-TT-TTT-TA
* *
15987268 TATATTTTTTTC
1 T-TTTTTTTTTA
*
15987280 TTTTATTTTTA
1 TTTTTTTTTTA
15987291 T
1 T
15987292 CTTAGGTATT
Statistics
Matches: 79, Mismatches: 11, Indels: 19
0.72 0.10 0.17
Matches are distributed among these distances:
11 26 0.33
12 18 0.23
13 25 0.32
14 5 0.06
15 4 0.05
16 1 0.01
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:15987213 original size:6 final size:6
Alignment explanation
Indices: 15987202--15987291 Score: 85
Period size: 6 Copynumber: 14.8 Consensus size: 6
15987192 CTTTATTTTA
* *
15987202 TTTATT TTTATT TTTATT TTT-TT TGTATT TTACATT TTTA-T TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT TTTATT TTTATT
* * * *
15987249 TTTATT ATTATT GTTTATA TATATT TTTTTCT TTTATT TTTAT
1 TTTATT TTTATT -TTTATT TTTATT TTTAT-T TTTATT TTTAT
15987292 CTTAGGTATT
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
5 9 0.13
6 44 0.66
7 14 0.21
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:15987294 original size:13 final size:12
Alignment explanation
Indices: 15987202--15987291 Score: 85
Period size: 13 Copynumber: 7.4 Consensus size: 12
15987192 CTTTATTTTA
15987202 TTTATTTTTATT
1 TTTATTTTTATT
15987214 TTTATTTTT-TT
1 TTTATTTTTATT
* *
15987225 TGTATTTTACATT
1 TTTATTTT-TATT
15987238 TTTA-TTTTATT
1 TTTATTTTTATT
*
15987249 TTTATTATTATT
1 TTTATTTTTATT
* *
15987261 GTTTATATATATT
1 -TTTATTTTTATT
*
15987274 TTTTTCTTTTATT
1 TTTAT-TTTTATT
15987287 TTTAT
1 TTTAT
15987292 CTTAGGTATT
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
11 16 0.26
12 22 0.36
13 23 0.38
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:15987458 original size:14 final size:15
Alignment explanation
Indices: 15987429--15987464 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
15987419 AATTTCTTGA
*
15987429 TTTATCTGATTTTTT
1 TTTATTTGATTTTTT
15987444 TTTATTTGA-TTTTT
1 TTTATTTGATTTTTT
15987458 TTTATTT
1 TTTATTT
15987465 ATCCGGCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.78
Consensus pattern (15 bp):
TTTATTTGATTTTTT
Found at i:15988307 original size:11 final size:10
Alignment explanation
Indices: 15988293--15988360 Score: 52
Period size: 11 Copynumber: 6.7 Consensus size: 10
15988283 TTTACTATTC
15988293 TTTTATCTTTA
1 TTTTAT-TTTA
15988304 TTTTATTTTTA
1 TTTTA-TTTTA
*
15988315 TTTTTGTTTTA
1 -TTTTATTTTA
*
15988326 CTTTT-CTTTA
1 -TTTTATTTTA
15988336 TTTT-TTTTA
1 TTTTATTTTA
*
15988345 -TTTATTTTG
1 TTTTATTTTA
15988354 TTTTATT
1 TTTTATT
15988361 ATTCTATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
8 3 0.06
9 12 0.25
10 10 0.21
11 18 0.38
12 5 0.10
ACGTcount: A:0.13, C:0.04, G:0.03, T:0.79
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:15988310 original size:5 final size:5
Alignment explanation
Indices: 15988293--15988360 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
15988283 TTTACTATTC
* *
15988293 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTT- CTTTA TTTT-
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA
*
15988340 TTTTA -TTTA TTTTG TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TT
15988361 ATTCTATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
4 11 0.22
5 21 0.41
6 19 0.37
ACGTcount: A:0.13, C:0.04, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:15988313 original size:17 final size:17
Alignment explanation
Indices: 15988293--15988343 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
15988283 TTTACTATTC
15988293 TTTTATCTTTATTTTAT
1 TTTTATCTTTATTTTAT
* *
15988310 TTTTATTTTTGTTTTA-
1 TTTTATCTTTATTTTAT
*
15988326 CTTT-TCTTTATTTT-T
1 TTTTATCTTTATTTTAT
15988341 TTT
1 TTT
15988344 ATTTATTTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 10 0.37
16 3 0.11
17 14 0.52
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTATCTTTATTTTAT
Found at i:15988357 original size:18 final size:18
Alignment explanation
Indices: 15988304--15988370 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 18
15988294 TTTATCTTTA
15988304 TTTTATT-TT-TATTTTTG
1 TTTTATTATTCTA-TTTTG
15988321 TTTTACTT-TTCT-TTATT-
1 TTTTA-TTATTCTATT-TTG
15988338 TTTT-TTATT-TATTTTG
1 TTTTATTATTCTATTTTG
15988354 TTTTATTATTCTATTTT
1 TTTTATTATTCTATTTT
15988371 CTTTAAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
15 5 0.12
16 8 0.19
17 16 0.38
18 12 0.29
19 1 0.02
ACGTcount: A:0.13, C:0.04, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTATTATTCTATTTTG
Found at i:15988363 original size:13 final size:13
Alignment explanation
Indices: 15988300--15988360 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
15988290 TTCTTTTATC
15988300 TTTATTTTATTTTT
1 TTTA-TTTATTTTT
* *
15988314 ATT-TTTGTTTTACT
1 TTTATTTATTTT--T
*
15988328 TTTCTTTATTTTT
1 TTTATTTATTTTT
15988341 TTTATTTATTTTGT
1 TTTATTTATTTT-T
15988355 TTTATT
1 TTTATT
15988361 ATTCTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
12 7 0.18
13 12 0.32
14 12 0.32
15 7 0.18
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.80
Consensus pattern (13 bp):
TTTATTTATTTTT
Found at i:15988522 original size:58 final size:59
Alignment explanation
Indices: 15988385--15989014 Score: 737
Period size: 59 Copynumber: 10.7 Consensus size: 59
15988375 AAATAAAAAT
* * * *
15988385 AAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTC
1 AAAAAAAGATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
* * * * *
15988444 CAAAAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTTAAAAAT-AAAATTTC
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
* * *
15988502 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAT-AAAATTTC
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
* * * * *
15988560 AAAAAAAAGATTTTTGAGAAAAAATTGAAAGTATCAGTTTTCCTTGAAAATCAAAGTTTC
1 -AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
* * * *
15988620 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTC
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
* * * * *
15988678 AAAAAAGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAGTTTTTC
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATC-AA-ATTTTC
* * *
15988739 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAAATCAAAGTTTTC
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATCAAA-TTTTC
*
15988798 AAAAAAAG-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
* **
15988855 --AAAAAGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTC
1 AAAAAAAG-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAA-TTTTC
* *
15988914 -AAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTC
1 AAAAAAAGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
* *
15988971 AAAAAAATAAATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCC
1 -AAAAAA-AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
15989015 CTGCACAAAA
Statistics
Matches: 494, Mismatches: 57, Indels: 39
0.84 0.10 0.07
Matches are distributed among these distances:
55 6 0.01
57 48 0.10
58 120 0.24
59 220 0.45
60 94 0.19
61 6 0.01
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAATTTTC
Found at i:15988679 original size:176 final size:175
Alignment explanation
Indices: 15988385--15989014 Score: 855
Period size: 176 Copynumber: 3.6 Consensus size: 175
15988375 AAATAAAAAT
*
15988385 AAAAAAATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAA
1 AAAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAA
* *
15988449 AATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGGTTT
65 AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGGTTT
15988514 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAT-AAAATTTC
130 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATCAAAATTTC
* * * *
15988560 AAAAAAAAGATTTTTGAGAAAAAATTGAAAGTATCAGTTTTCCTTGAAAATCAAAGTTTCCAAAA
1 -AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAA
* *
15988625 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAGGGTTT
65 AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGGTTT
* **
15988690 TTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAGTTTTTC
130 TTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATC-AA-AATTTC
* * *
15988739 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCTTCGAAAATCAAAGTTTTCAAAA
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT-GAAAATCAAAGTTTCCAAAA
* * *
15988802 AA-AGTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC--AAAAAGTTT
65 AATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAG-GT
* *
15988864 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTC
128 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAATCAAA-ATTTC
* * * *
15988914 -AAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTCAAAAAA
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAA
*
15988977 ATAAATTTTTGAGGAAAAGTTAAAAGTATCAATTTTCC
66 AT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
15989015 CTGCACAAAA
Statistics
Matches: 408, Mismatches: 32, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
174 12 0.03
175 51 0.12
176 238 0.58
177 101 0.25
178 2 0.00
179 4 0.01
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (175 bp):
AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTCCAAAAA
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGGTTTT
TGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATCAAAATTTC
Found at i:15988969 original size:17 final size:17
Alignment explanation
Indices: 15988947--15988986 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
15988937 TGAAAGTATC
**
15988947 AATTTTTCTTAAAAATA
1 AATTTTTCAAAAAAATA
15988964 AA-TTTTCAAAAAAATA
1 AATTTTTCAAAAAAATA
15988980 AATTTTT
1 AATTTTT
15988987 GAGGAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTTTTCAAAAAAATA
Found at i:15992651 original size:15 final size:15
Alignment explanation
Indices: 15992630--15992667 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
15992620 AAAAATGCTA
15992630 GAGAAAGCT-AGAAG
1 GAGAAAGCTAAGAAG
15992644 GAAGAAAGCTAAAGAAG
1 G-AGAAAGCT-AAGAAG
15992661 GAGAAAG
1 GAGAAAG
15992668 ACGAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.05
15 8 0.38
16 6 0.29
17 6 0.29
ACGTcount: A:0.55, C:0.05, G:0.34, T:0.05
Consensus pattern (15 bp):
GAGAAAGCTAAGAAG
Found at i:15996632 original size:8 final size:8
Alignment explanation
Indices: 15996619--15996669 Score: 72
Period size: 8 Copynumber: 6.8 Consensus size: 8
15996609 CTACGCTTGA
15996619 AAAAAATG
1 AAAAAATG
15996627 AAAAAATG
1 AAAAAATG
*
15996635 AAAAAATA
1 AAAAAATG
15996643 AAAAAAT-
1 AAAAAATG
15996650 AAAAAATG
1 AAAAAATG
15996658 --AAAATG
1 AAAAAATG
15996664 AAAAAA
1 AAAAAA
15996670 AAAGTGAATG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
6 6 0.15
7 7 0.18
8 26 0.67
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:15997799 original size:42 final size:41
Alignment explanation
Indices: 15997682--15998062 Score: 501
Period size: 42 Copynumber: 9.1 Consensus size: 41
15997672 ATGATTTTCA
* * *
15997682 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAA
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
15997723 AGAAGCAATTTATTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
15997764 AGGAACAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTGAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
15997806 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
15997847 AGGAGTAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
15997888 AGGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
*
15997930 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGATTAG
1 AGGAGCAATTTATTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
15997972 AGGAGCCATTTATTTTTCTAAAATCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTATTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* * * *
15998014 AGGAGCTATTCATGTTTCTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTAT-TTT-TCAAAGTCGTGGTGCCTCTGTTTAG
15998057 AGGAGC
1 AGGAGC
15998063 TTTGATCAAA
Statistics
Matches: 304, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
41 127 0.42
42 144 0.47
43 31 0.10
44 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:15997841 original size:124 final size:124
Alignment explanation
Indices: 15997682--15998062 Score: 505
Period size: 124 Copynumber: 3.0 Consensus size: 124
15997672 ATGATTTTCA
* * *
15997682 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAAAGAAGCAATTTATTTTCCAAAGTC
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTC
* *
15997747 GTGGTGCCTCTGTTTAGAGGAACAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTGAG
66 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
15997806 AGGAGCAATTTACTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGTAATTTATTTTTCAAAGTT
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTC
*
15997871 GTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAAGTCGTGGTGCCTCTGTTTAG
66 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTC-AAAGTCGTGGTGCCTCTGTTTAG
* * * * *
15997930 AGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGATTAGAGGAGCCATTTATTTTTCTAAAA
1 AGGAGCAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTCCAAAG
* * * * * * *
15997995 TCGTTGAGCCTCTGATTAGAGGAGCTATTCA-TGTTTCTCAAAGTCGTTGAGCCTCTGTTTAG
64 TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACT-TTT-TCAAAGTCGTGGTGCCTCTGTTTAG
15998057 AGGAGC
1 AGGAGC
15998063 TTTGATCAAA
Statistics
Matches: 224, Mismatches: 27, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
123 4 0.02
124 125 0.56
125 32 0.14
126 32 0.14
127 30 0.13
128 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (124 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCAAAGTC
GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:15998090 original size:13 final size:13
Alignment explanation
Indices: 15998072--15998114 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
15998062 CTTTGATCAA
15998072 AAACAAAAAAAAT
1 AAACAAAAAAAAT
15998085 AAAC-AAAAAAAT
1 AAACAAAAAAAAT
*
15998097 AAAAAAATAAAAAGT
1 AAACAAA-AAAAA-T
15998112 AAA
1 AAA
15998115 AAGGTCAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 11 0.42
13 6 0.23
14 5 0.19
15 4 0.15
ACGTcount: A:0.84, C:0.05, G:0.02, T:0.09
Consensus pattern (13 bp):
AAACAAAAAAAAT
Found at i:15998283 original size:5 final size:5
Alignment explanation
Indices: 15998275--15998344 Score: 52
Period size: 6 Copynumber: 12.6 Consensus size: 5
15998265 TTTTTCTTTC
*
15998275 TTTAT TTTA- TTTATT TTTATT TTTATT TTTTT TTGTAT TTTACATT TTTAT
1 TTTAT TTTAT TTTA-T TTTA-T TTTA-T TTTAT TT-TAT TTT--A-T TTTAT
15998326 TTTATT TTTAT TTTAT TTT
1 TTTA-T TTTAT TTTAT TTT
15998345 TATTATTGTT
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
4 4 0.07
5 22 0.39
6 25 0.45
7 1 0.02
8 4 0.07
ACGTcount: A:0.17, C:0.01, G:0.01, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:15998295 original size:6 final size:6
Alignment explanation
Indices: 15998284--15998348 Score: 82
Period size: 6 Copynumber: 11.0 Consensus size: 6
15998274 CTTTATTTTA
*
15998284 TTTATT TTTATT TTTATT TTT-TT TTGTATT TTACATT TTTA-T TTTATT
1 TTTATT TTTATT TTTATT TTTATT TT-TATT TT-TATT TTTATT TTTATT
15998332 TTTA-T TTTATT TTTATT
1 TTTATT TTTATT TTTATT
15998349 ATTGTTTATA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
5 14 0.27
6 29 0.56
7 9 0.17
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:15999450 original size:11 final size:10
Alignment explanation
Indices: 15999436--15999492 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
15999426 TTTAATATTC
15999436 TTTTATCTTTA
1 TTTT-TCTTTA
*
15999447 TTTTATTTTTA
1 TTTT-TCTTTA
*
15999458 TTTTTGTTTTA
1 TTTTT-CTTTA
*
15999469 CTTTTCTTTA
1 TTTTTCTTTA
15999479 TTTTT-TTTA
1 TTTTTCTTTA
15999488 TTTTT
1 TTTTT
15999493 TTCACTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 9 0.22
10 9 0.22
11 23 0.56
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:15999484 original size:28 final size:29
Alignment explanation
Indices: 15999443--15999517 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 29
15999433 TTCTTTTATC
15999443 TTTATTT-TATTTTTATT-TTTGTTTT-ACT
1 TTTATTTAT-TTTTTATTATTT-TTTTCACT
*
15999471 TTTCTTTATTTTTT-TTATTTTTTTCACT
1 TTTATTTATTTTTTATTATTTTTTTCACT
*
15999499 TTTATTT-TGTTTTATTATT
1 TTTATTTATTTTTTATTATT
15999518 CTATTTTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 11 0.28
28 28 0.70
29 1 0.03
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (29 bp):
TTTATTTATTTTTTATTATTTTTTTCACT
Found at i:15999528 original size:28 final size:24
Alignment explanation
Indices: 15999447--15999528 Score: 58
Period size: 25 Copynumber: 3.1 Consensus size: 24
15999437 TTTATCTTTA
*
15999447 TTTTATTTTTATTTTTGTTTTACTTTTC
1 TTTTATTTTT-TTTAT-TTTT--TTTTC
**
15999475 -TTTATTTTTTTTATTTTTTTCAC
1 TTTTATTTTTTTTATTTTTTTTTC
15999498 TTTTATTTTGTTTTATTATTCTATTTTC
1 TTTTATTTT-TTTTATT-TT-T-TTTTC
15999526 TTT
1 TTT
15999529 AAATAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
23 3 0.07
24 8 0.18
25 11 0.25
26 6 0.14
27 10 0.23
28 6 0.14
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTATTTTTTTTATTTTTTTTTC
Found at i:15999616 original size:59 final size:58
Alignment explanation
Indices: 15999549--16000109 Score: 683
Period size: 59 Copynumber: 9.6 Consensus size: 58
15999539 AAAAAAATAT
*
15999549 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAAG
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAGTTTCCAAAAAAG
* * * * * *
15999608 ATTTTTG-GGAAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAATTTCAAAAAAAA
1 ATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCCAAAAAAG
* *
15999666 AGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAAATCAAAGTTTTCAAAAAAT
1 A-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAAT-AAAGTTTCCAAAAAAG
* * * *
15999726 ATTTTTG-GGAAAAAGTTGAAATTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAG
1 ATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTC-CAAAAAAG
* *
15999785 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT-CAAAAAAGG
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCCAAAAAA-G
* * * *
15999843 TTTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCCAAAAAAT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAG-TTTCCAAAAAAG
* *
15999903 A-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAATG
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAGTTTCCAAAAAA-G
* *
15999962 -TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC-AAAAAG
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCCAAAAAAG
* * *
16000017 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTT-CAAAAGAAT
1 -ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCCAAAA-AAG
16000076 ATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTCC
1 A-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
16000110 CTGCACAAAA
Statistics
Matches: 441, Mismatches: 40, Indels: 43
0.84 0.08 0.08
Matches are distributed among these distances:
55 1 0.00
56 5 0.01
57 52 0.12
58 113 0.26
59 240 0.54
60 23 0.05
61 7 0.02
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (58 bp):
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTCCAAAAAAG
Found at i:15999890 original size:176 final size:175
Alignment explanation
Indices: 15999541--16000109 Score: 832
Period size: 176 Copynumber: 3.2 Consensus size: 175
15999531 ATAAAAATAA
*
15999541 AAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAA
1 AAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCAAAAAA
* *
15999606 AGATTTTTG-GGAAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAATTTCAAAAAAAAAG-T
65 AGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC---AAAAAAGTT
15999669 TTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTCGAAAATCAAAGTTTTC
126 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAGTTTTC
* * * *
15999719 AAAAAATATTTTTGGGAAAAAGTTGAAATTATCAATTTTCCTTAAAAAT-AAAATTTCAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTC-AAAAAA
15999783 AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAGGTTTTT
65 AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAA-GTTTTT
* *
15999848 TGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTCC
129 TGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTT-C
*
15999896 AAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTT-CAAAAAA
* *
15999960 TG-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC-AAAAAGTATTTT
65 AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAGT-TTTT
* *
16000023 TGAGGAAAAGTTGAAAGTATCAATTTTCCTCG-AAATTAAAG-TTTC
129 TGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC
*
16000068 AAAAGAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAA-AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
16000110 CTGCACAAAA
Statistics
Matches: 359, Mismatches: 21, Indels: 26
0.88 0.05 0.06
Matches are distributed among these distances:
172 5 0.01
173 7 0.02
174 47 0.13
175 39 0.11
176 135 0.38
177 118 0.33
178 8 0.02
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (175 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCAAAAAAA
GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAGTTTTTTG
AGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTTC
Found at i:16000158 original size:14 final size:14
Alignment explanation
Indices: 16000139--16000171 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
16000129 CTTTTCTTCC
16000139 TTTTTATTCTTATT
1 TTTTTATTCTTATT
*
16000153 TTTTTATTTTTATT
1 TTTTTATTCTTATT
16000167 TTTTT
1 TTTTT
16000172 TCTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTATTCTTATT
Found at i:16000814 original size:24 final size:24
Alignment explanation
Indices: 16000769--16000814 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
16000759 TTATGATTAT
*
16000769 AAATAAATTATTAATAATAATTGA
1 AAATAAATTATTAATAAAAATTGA
*
16000793 AAATATAATTTTTAA-AAAAATT
1 AAATA-AATTATTAATAAAAATT
16000815 TACCAGTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
AAATAAATTATTAATAAAAATTGA
Found at i:16000977 original size:55 final size:55
Alignment explanation
Indices: 16000908--16001046 Score: 165
Period size: 55 Copynumber: 2.5 Consensus size: 55
16000898 ATATAATAAA
16000908 AAAATTAAAACATATAAGTCTATACTGACAATCTCTAACCAT-TAG-TATAGGTAAG
1 AAAATTAAAACATATAAGTCTATACTGACAATCTCTAA-C-TGTAGATATAGGTAAG
* * * * * *
16000963 AAAATTAAAGCATATAATTCCATACTGATAGTCTCTAACTGTCGATATAGGTAAG
1 AAAATTAAAACATATAAGTCTATACTGACAATCTCTAACTGTAGATATAGGTAAG
* * *
16001018 AAAATTAAAAAATACAAGTCTATATTGAC
1 AAAATTAAAACATATAAGTCTATACTGAC
16001047 GAATGCTAAG
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
53 1 0.01
54 3 0.04
55 65 0.94
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (55 bp):
AAAATTAAAACATATAAGTCTATACTGACAATCTCTAACTGTAGATATAGGTAAG
Found at i:16008419 original size:515 final size:507
Alignment explanation
Indices: 16007166--16008286 Score: 1331
Period size: 515 Copynumber: 2.2 Consensus size: 507
16007156 TTTTATCTAT
*** * * *
16007166 GGATTATTAAAGGTGGTTTTTGTCAAAAACACCTTCAAT-AATCCATAGACAAAAGTTGGAA-TA
1 GGATTATTAAAGGCAATTTTTATCAAAAACACCTTCAATAAAT-CATAGAAAAAAGTTGGAACGA
* ** * * * *
16007229 CATTCTTGAAGGTGTTTTTGGTAGACAACGTCTTCAATAATCCCCTT-AT-AAAAAATGTATGCG
65 -ATTCTTAAAGGCATTTTTGATAGACAACGCCTTCAATAAT--CATTCATAAAAAAATATATGCG
* * * *
16007292 ATTATTGAAGGCGTTTTCTATAAGAAGAAATGCCTTTAATAATTCGACTAAAAAATTGC-ACAAG
127 ATTATTGAAGGCATTTTC--T-A-AAGAAACGCCTTCAAGAA-TCGA-T----AATT-CTACAAG
* * * *** * * * *
16007356 CTTATTAAAGGTGTT-TTTGTAAAAAAAATGCCTTCAATACATATCATATCAAAATTTTAAGATC
181 ATTATTAAAAGCGTTACCAGTCAAAAACA--CCTTCAATAAATATCATATCAAAATTTTAAAATC
* * * *
16007420 GTACAAATGTTAACCATAAGGTGGTAAGTTCGATCTCTCCCTTTAGCCTTTTTTGGGTTTGTGTA
244 ATACAAATGTTAACCATAAGGTGGTAAGTTCGATCCCTCACTTTAGCCTTTTTTGGGTTTGTGCA
16007485 GAGATTATTTGTAATTGATTATTCTAGGCATTTTCTTGGCAAAAATGCCTTCACCAATTGCTTTA
309 GAGATTATTTGTAATTGATTATTCTAGGCATTTTCTTGGCAAAAATGCCTTCACCAATTGCTTTA
* * *
16007550 AAAAATTTTAGAGAGAATATTGAAGGCATTTTCGCAGAGAAACGCCCTTAATAATCCATAGGAAA
374 AAAAATTTTAGAGAAAATATTGAAGGCATTTTCACAGAGAAACACCCTTAATAATCCATAGGAAA
* * *
16007615 AATATGAAACTGATTCTTGAAGACATTTTTGGCTGAAGTTCTATAATCTAATCAATAAATTTTTA
439 AATATGAAACAGATTCTTGAAGACATTTTTGGCCGAAGTTCTATAATCCAATCAATAAATTTTTA
16007680 GTTA
504 GTTA
*
16007684 GGATTATTAAAGGCAATTTTTATCAAAAACACCTTCAATAATTCATAGAAAAAAGTTGGAACGAA
1 GGATTATTAAAGGCAATTTTTATCAAAAACACCTTCAATAAATCATAGAAAAAAGTTGGAACGAA
* * *
16007749 TTCTTAAATGTATTTTTGATAGACAACGCCTTCAATAATCCCTTCATAAAAAAATATATGCGATT
66 TTCTTAAAGGCATTTTTGATAGACAACGCCTTCAATAAT-CATTCATAAAAAAATATATGCGATT
* *
16007814 ATTGAAGGCATTTTCTAGAAGAAACGCCTTTAAGAATTCGATCAAAAAATTCTACAAGCTTATTA
130 ATTGAAGGCATTTTCTA-AAGAAACGCCTTCAAGAA-TCGAT-----AATTCTACAAGATTATTA
*** **
16007879 AAAGCGTTTTTAGTCAAAAACACCTTCAATAAATATCATATCAAAATTTTAAAATCATACGGATG
188 AAAGCGTTACCAGTCAAAAACACCTTCAATAAATATCATATCAAAATTTTAAAATCATACAAATG
* * *
16007944 TTAACCATAAGGTGGTAGGTTCGATCCCTCATTTTAGTCTTTTTTGGGTTTGTGCAGAGATTATT
253 TTAACCATAAGGTGGTAAGTTCGATCCCTCACTTTAGCCTTTTTTGGGTTTGTGCAGAGATTATT
*
16008009 TGTAATTGATTATTTTAGGCATTTTCTTGGCAAAAATGCCTTCACCAATTGCTTTAAAAAATTTT
318 TGTAATTGATTATTCTAGGCATTTTCTTGGCAAAAATGCCTTCACCAATTGCTTTAAAAAATTTT
* *
16008074 GGAGAAAATATTGAAGGCATTTTTCATAGAGAAACACCCTTAATAATCCATAGGAAAAATATGAA
383 AGAGAAAATATTGAAGGCA-TTTTCACAGAGAAACACCCTTAATAATCCATAGGAAAAATATGAA
* *
16008139 ACAGATTCTTGAAGGCATTTTTTGCCGAAGTCGCATTCTATAATCCAATCAATAAATTTTTAGTT
447 ACAGATTCTTGAAGACATTTTTGGCCGAA---G--TTCTATAATCCAATCAATAAATTTTTAGTT
16008204 A
507 A
*** * * *
16008205 GGATTATTAAAGGTGGTTTTTGTCAAAAACGCC-TCAA-AAATCAATAGAAAAAAGTTGGAACGG
1 GGATTATTAAAGGCAATTTTTATCAAAAACACCTTCAATAAATC-ATAGAAAAAAGTTGGAACGA
*
16008268 ATTCTTGAAGGCATTTTTG
65 ATTCTTAAAGGCATTTTTG
16008287 GCTCAAAATG
Statistics
Matches: 536, Mismatches: 53, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
515 180 0.34
516 116 0.22
517 16 0.03
518 89 0.17
519 38 0.07
520 39 0.07
521 58 0.11
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (507 bp):
GGATTATTAAAGGCAATTTTTATCAAAAACACCTTCAATAAATCATAGAAAAAAGTTGGAACGAA
TTCTTAAAGGCATTTTTGATAGACAACGCCTTCAATAATCATTCATAAAAAAATATATGCGATTA
TTGAAGGCATTTTCTAAAGAAACGCCTTCAAGAATCGATAATTCTACAAGATTATTAAAAGCGTT
ACCAGTCAAAAACACCTTCAATAAATATCATATCAAAATTTTAAAATCATACAAATGTTAACCAT
AAGGTGGTAAGTTCGATCCCTCACTTTAGCCTTTTTTGGGTTTGTGCAGAGATTATTTGTAATTG
ATTATTCTAGGCATTTTCTTGGCAAAAATGCCTTCACCAATTGCTTTAAAAAATTTTAGAGAAAA
TATTGAAGGCATTTTCACAGAGAAACACCCTTAATAATCCATAGGAAAAATATGAAACAGATTCT
TGAAGACATTTTTGGCCGAAGTTCTATAATCCAATCAATAAATTTTTAGTTA
Found at i:16012006 original size:12 final size:12
Alignment explanation
Indices: 16011973--16012025 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
16011963 CACCATTTAA
16011973 CAAACCATTCAG
1 CAAACCATTCAG
*
16011985 AAACACCATTCAG
1 CAA-ACCATTCAG
16011998 CAAACCATTCAG
1 CAAACCATTCAG
* * *
16012010 CATACGATTCAA
1 CAAACCATTCAG
16012022 CAAA
1 CAAA
16012026 ATAATATCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 23 0.68
13 11 0.32
ACGTcount: A:0.45, C:0.30, G:0.08, T:0.17
Consensus pattern (12 bp):
CAAACCATTCAG
Found at i:16012025 original size:24 final size:25
Alignment explanation
Indices: 16011958--16012009 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
16011948 GCAAACACTT
*
16011958 AGAAACACCATTTAACAAACCATTC
1 AGAAACACCATTCAACAAACCATTC
*
16011983 AGAAACACCATTCAGCAAACCATTC
1 AGAAACACCATTCAACAAACCATTC
16012008 AG
1 AG
16012010 CATACGATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.46, C:0.29, G:0.08, T:0.17
Consensus pattern (25 bp):
AGAAACACCATTCAACAAACCATTC
Found at i:16012824 original size:184 final size:187
Alignment explanation
Indices: 16012602--16012948 Score: 497
Period size: 184 Copynumber: 1.9 Consensus size: 187
16012592 TTATGTATGT
* * *
16012602 AAATTAGTGAAGGCGTTTTTCTAGAATAAATACCTTTACT-AACTATCTTAAAATTTGAGTTGTG
1 AAATTAGTAAAGGCGATTTTCTAGAATAAATACCTTTACTAAAC-ATCTTAAAATTTGAGCTGTG
* *
16012666 AAAAATTGAAA-G-CATTTTCACTGAAAGACACCTTTAATAATCCCAAAAATTTT-AGAAGAAAT
65 AAAAATT-AAAGGCCATTTTCACTGAAAGACACCTTCAATAATCCCAAAAATTTTAAGAAAAAAT
16012728 TACTGAAGGCATTTGTTCT-AAAAAAATACCTTCAATAATTATATACGTAAAGTAGAAG
129 TACTGAAGGCATTTGTTCTCAAAAAAATACCTTCAATAATTATATACGTAAAGTAGAAG
* * *
16012786 AAATTAGTAAAGGCGATTTTCTAGAATAAATGCCTTTACTAAACGTCTTAAAATTTGAGCTGTGG
1 AAATTAGTAAAGGCGATTTTCTAGAATAAATACCTTTACTAAACATCTTAAAATTTGAGCTGTGA
* * ** *
16012851 AAAATTAAAGGCCTTTTTCACTGGAAGATGCCTTCAATAATCCTAAAAATTTTAAGAAAAAATTA
66 AAAATTAAAGGCCATTTTCACTGAAAGACACCTTCAATAATCCCAAAAATTTTAAGAAAAAATTA
* **
16012916 TTGAAGGTGTTTGTTCTCAAAAAAATACCTTCA
131 CTGAAGGCATTTGTTCTCAAAAAAATACCTTCA
16012949 CTAACCATCT
Statistics
Matches: 142, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
183 3 0.02
184 62 0.44
185 38 0.27
186 24 0.17
187 15 0.11
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (187 bp):
AAATTAGTAAAGGCGATTTTCTAGAATAAATACCTTTACTAAACATCTTAAAATTTGAGCTGTGA
AAAATTAAAGGCCATTTTCACTGAAAGACACCTTCAATAATCCCAAAAATTTTAAGAAAAAATTA
CTGAAGGCATTTGTTCTCAAAAAAATACCTTCAATAATTATATACGTAAAGTAGAAG
Found at i:16012960 original size:125 final size:124
Alignment explanation
Indices: 16012813--16013072 Score: 324
Period size: 125 Copynumber: 2.1 Consensus size: 124
16012803 TTTCTAGAAT
* * * * *
16012813 AAATGCCTTTACTAAACGTCTTAAAATTTGAGCTGTGGAAAATTAAAGGCCTTTTTCACTGGAAG
1 AAATGCCTTCACTAAACATCTTAAAATTTGAGCTGTGAAAAATTAAAGGCATTTTTCACTAGAAG
** * **
16012878 ATGCCTTCAATAATC-CTAAAAATTTTAAGAAAAAATTATTGAAGGTGTTTGTTCTCAAAA
66 ACACCTTCAATAATCTC-AAAAATTTTAAGAAAAAATTAGTGAAGGCATTTGTTC-CAAAA
* * * *
16012938 AAATACCTTCACTAACCATCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTAGAAG
1 AAATGCCTTCACTAAACATCTTAAAATTTGAGCTGTGAAAAATTAAAGGCATTTTTCACTAGAAG
* * ** *
16013003 ACACCTTTAATAATCTCAAAAGTTTTAAGAGGAAATTAGTGAAGGCATTTGTTCCCAAA
66 ACACCTTCAATAATCTCAAAAATTTTAAGAAAAAATTAGTGAAGGCATTTGTTCCAAAA
16013062 AAATGCCTTCA
1 AAATGCCTTCA
16013073 ATAATTATGT
Statistics
Matches: 114, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
124 14 0.12
125 99 0.87
126 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (124 bp):
AAATGCCTTCACTAAACATCTTAAAATTTGAGCTGTGAAAAATTAAAGGCATTTTTCACTAGAAG
ACACCTTCAATAATCTCAAAAATTTTAAGAAAAAATTAGTGAAGGCATTTGTTCCAAAA
Found at i:16013074 original size:186 final size:181
Alignment explanation
Indices: 16012878--16013809 Score: 695
Period size: 180 Copynumber: 5.1 Consensus size: 181
16012868 TCACTGGAAG
* * *
16012878 ATGCCTTCAATAATCCTAAAAATTTTAAGAAAAAATTATTGAAGGTGTTTGTTCTCA-AAAAAAT
1 ATGCCTTCAATAAT--T-AAAA-TTTAAGAAAAAATTAGTGAAGGTATTT-TTCT-AGAATAAAT
* * * *
16012942 ACCTTCACTAACCATCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTAGAAGACAC
60 GCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGACGTTTTTCACTAGAAGACAC
* * *
16013007 CTTTAATAATCTCAAAAGTTTTAAGAGGAAATTAGTGAAGGCATTTGTTCCCAAAAA
125 CTTTAATAATCTCAAAAATTTTAAGAAGAAATTAGTGAAGGCATTTGTTCACAAAAA
* * *
16013064 ATGCCTTCAATAATTATGTACGTAAATT-AGAAAGAATTAGTGAAGGCATTTTTCTAGAATAAAT
1 ATGCCTTCAATAATTA---A---AATTTAAGAAAAAATTAGTGAAGGTATTTTTCTAGAATAAAT
** * * *
16013128 GCCTTCACTAAATGTCTTAAAATTTGAGCTGTGGAAAATTGAAGACGTTTTTCACTA-AACGACG
60 GCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGACGTTTTTCACTAGAA-GACA
* * * * * *
16013192 CCTTTAGTAATCTAAAAAATAAATTTCAA-AAGAAATTATTAAAGGCATTTGTTAAAAAAAAA
124 CCTTTAATAATCTCAAAAAT---TTT-AAGAAGAAATTAGTGAAGGCATTTGTT-CACAAAAA
* * * * *
16013254 ATGCCTTCACTAATT---ATGTACG--TAAATTAGTAAAGGTATTTTTCTAGAATAAATGCCTTC
1 ATGCCTTCAATAATTAAAATTTAAGAAAAAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTC
* * * *
16013314 ACTAACCGTCTTAAAATTTTAGTTGTGAAAAATTAAACACGTTTTTCACT-GAAAGACTCCTTTA
66 ACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGACGTTTTTCACTAG-AAGACACCTTTA
* ** * * *
16013378 ATAATC-CAAAAAATTTTAAGAAAAAATTAGTGAAGGTGTTTATTCTCAGAAA
130 ATAATCTC-AAAAATTTTAAGAAGAAATTAGTGAAGGCATTTGTTCACAAAAA
* * *
16013430 ATGCCTTCAATAATTATGTACGTAAATT-AGAAGAAATTAGTGAAGGTA--TTTCTAGAATAAAC
1 ATGCCTTCAATAATTA---A---AATTTAAGAAAAAATTAGTGAAGGTATTTTTCTAGAATAAAT
* ** * * * * *
16013492 GCCTTTACTAAATGTCTCAAAATTTGAGCTATGAAAAATTGAAGGCGTTTTTCACTAAAAGACGA
60 GCCTTCACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGACGTTTTTCACTAGAAGAC-A
** * * * ** * * *
16013557 -CTTTTGTAATCTAAAAAATAAATTTTAA-AA-AAATTATTAAAGGTGTTTATTATAAAAAAAA
124 CCTTTAATAATCT---CAA-AAATTTTAAGAAGAAATTAGTGAAGGCATTT-GT-TCACAAAAA
* * * * * * *
16013618 ATGCCTTCACTAATT---ATGTATG--TAAATTAGTGAAAGTGTTTTTCTAGAATAAATGCTTTC
1 ATGCCTTCAATAATTAAAATTTAAGAAAAAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTC
* * * * * *
16013678 ATTAACCGTTTTAAAATTTGAGTTGTGAAAAATTAAAGGCATTTTTCACTGGAAGACACCTTTAA
66 ACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGACGTTTTTCACTAGAAGACACCTTTAA
* * * *
16013743 TAATCTAAAAAATTTTAAG-AGAAAATTATTGAAGGCATTTGTTCTCAGAAA
131 TAATCTCAAAAATTTTAAGAAG-AAATTAGTGAAGGCATTTGTTCACAAAAA
*
16013794 ATGCCTTCAATTATTA
1 ATGCCTTCAATAATTA
16013810 TGTACGTAAA
Statistics
Matches: 586, Mismatches: 114, Indels: 101
0.73 0.14 0.13
Matches are distributed among these distances:
176 48 0.08
177 25 0.04
178 28 0.05
179 3 0.01
180 171 0.29
181 4 0.01
182 1 0.00
183 1 0.00
184 75 0.13
185 5 0.01
186 124 0.21
187 24 0.04
188 30 0.05
189 26 0.04
190 21 0.04
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (181 bp):
ATGCCTTCAATAATTAAAATTTAAGAAAAAATTAGTGAAGGTATTTTTCTAGAATAAATGCCTTC
ACTAACCGTCTTAAAATTTGAGTTGTGAAAAATTGAAGACGTTTTTCACTAGAAGACACCTTTAA
TAATCTCAAAAATTTTAAGAAGAAATTAGTGAAGGCATTTGTTCACAAAAA
Found at i:16013076 original size:311 final size:308
Alignment explanation
Indices: 16012602--16013183 Score: 884
Period size: 311 Copynumber: 1.9 Consensus size: 308
16012592 TTATGTATGT
* * *
16012602 AAATTAGTGAAGGCGTTTTTCTAGAATAAATACCTTTACTAACTATCTTAAAATTTGAGTTGTGA
1 AAATTAGTGAAGGCGTTTTTCTAGAAAAAATACCTTCACTAACCATCTTAAAATTTGAGTTGTGA
16012667 AAAATTGAAAGCATTTTCACTGAAAGACACCTTTAATAATCCCAAAAATTTTAGAAGAAATTACT
66 AAAATTGAAAGCATTTTCACTGAAAGACACCTTTAATAATCCCAAAAATTTTAGAAGAAATTACT
*
16012732 GAAGGCATTTGTTCTAAAAAAATACCTTCAATAATTATATACGTAAAGTAG-AAGAAATTAGTAA
131 GAAGGCATTTGTTCCAAAAAAATACCTTCAATAATTATATACGTAAAGTAGAAAG-AATTAGTAA
*
16012796 AGGCGA-TTTTCTAGAATAAATGCCTTTACTAAACGTCTTAAAATTTGAGCTGTGGAAAATTAAA
195 AGGC-ATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGCTGTGGAAAATTAAA
*
16012860 GGCCTTTTTCACTGGAAGATGCCTTCAATAATCCTAAAAATTTTAAGAAA
259 GACCTTTTTCACTGGAAGATGCCTTCAATAATCCTAAAAATTTTAAGAAA
* *
16012910 AAATTATTGAAGGTGTTTGTTCTCA-AAAAAATACCTTCACTAACCATCTTAAAATTTGAGTTGT
1 AAATTAGTGAAGGCGTTT-TTCT-AGAAAAAATACCTTCACTAACCATCTTAAAATTTGAGTTGT
* * * *
16012974 GAAAAATTGAAGGCATTTTTCACT-AGAAGACACCTTTAATAATCTCAAAAGTTTTAAGAGGAAA
64 GAAAAATTGAAAGCA-TTTTCACTGA-AAGACACCTTTAATAATCCCAAAAATTTT-AGAAGAAA
* * * * *
16013038 TTAGTGAAGGCATTTGTTCCCAAAAAATGCCTTCAATAATTATGTACGTAAATTAGAAAGAATTA
126 TTACTGAAGGCATTTGTTCCAAAAAAATACCTTCAATAATTATATACGTAAAGTAGAAAGAATTA
* *
16013103 GTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAATGTCTTAAAATTTGAGCTGTGGAAAATT
191 GTAAAGGCATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGCTGTGGAAAATT
* *
16013168 GAAGACGTTTTTCACT
256 AAAGACCTTTTTCACT
16013184 AAACGACGCC
Statistics
Matches: 246, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
308 16 0.07
309 55 0.22
310 37 0.15
311 135 0.55
312 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (308 bp):
AAATTAGTGAAGGCGTTTTTCTAGAAAAAATACCTTCACTAACCATCTTAAAATTTGAGTTGTGA
AAAATTGAAAGCATTTTCACTGAAAGACACCTTTAATAATCCCAAAAATTTTAGAAGAAATTACT
GAAGGCATTTGTTCCAAAAAAATACCTTCAATAATTATATACGTAAAGTAGAAAGAATTAGTAAA
GGCATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGCTGTGGAAAATTAAAGA
CCTTTTTCACTGGAAGATGCCTTCAATAATCCTAAAAATTTTAAGAAA
Found at i:16013251 original size:311 final size:309
Alignment explanation
Indices: 16012629--16013266 Score: 865
Period size: 311 Copynumber: 2.0 Consensus size: 309
16012619 TTTCTAGAAT
* *
16012629 AAATACCTTTACTAACTATCTTAAAATTTGAGTTGTGAAAAATTGAAAGCATTTTCACTGAAAGA
1 AAATACCTTCACTAACCATCTTAAAATTTGAGTTGTGAAAAATTGAAAGCATTTTCACTGAAAGA
*
16012694 CACCTTTAATAATCCCAAAAATTTTAGAAGAAATTACTGAAGGCATTTGTTCTAAAAAAATACCT
66 CACCTTTAATAATCCCAAAAATTTTAGAAGAAATTACTGAAGGCATTTGTTCCAAAAAAATACCT
*
16012759 TCAATAATTATATACGTAAAGTAGAAGAAATTAGTAAAGGCGATTTTCTAGAATAAATGCCTTTA
131 TCAATAATTATATACGTAAAGTAGAAGAAATTAGTAAAGGCGATTTTCTAGAATAAATGCCTTCA
* * *
16012824 CTAAACGTCTTAAAATTTGAGCTGTGGAAAATTAAAGGCCTTTTTCACTGGAAGATGCCTTCAAT
196 CTAAACGTCTTAAAATTTGAGCTGTGGAAAATTAAAGACCTTTTTCACTGAAAGACGCCTTCAAT
* **
16012889 AATCCTAAAAATTTTAAGAAAAAATTATTGAAGGTGTTTGTTCTCAAAA
261 AATCCTAAAAATTTTAAGAAAAAATTATTAAAGGCATTTGTTCTCAAAA
*
16012938 AAATACCTTCACTAACCATCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACT-AGAA
1 AAATACCTTCACTAACCATCTTAAAATTTGAGTTGTGAAAAATTGAAAGCA-TTTTCACTGA-AA
* * * * * *
16013002 GACACCTTTAATAATCTCAAAAGTTTTAAGAGGAAATTAGTGAAGGCATTTGTTCCCAAAAAATG
64 GACACCTTTAATAATCCCAAAAATTTT-AGAAGAAATTACTGAAGGCATTTGTTCCAAAAAAATA
* * *
16013067 CCTTCAATAATTATGTACGTAAATTAGAA-AGAATTAGTGAAGGC-ATTTTTCTAGAATAAATGC
128 CCTTCAATAATTATATACGTAAAGTAGAAGA-AATTAGTAAAGGCGA-TTTTCTAGAATAAATGC
* * *
16013130 CTTCACTAAATGTCTTAAAATTTGAGCTGTGGAAAATTGAAGACGTTTTTCACT-AAACGACGCC
191 CTTCACTAAACGTCTTAAAATTTGAGCTGTGGAAAATTAAAGACCTTTTTCACTGAAA-GACGCC
* * * ***
16013194 TTTAGTAAT-CTAAAAAATAAATTTCAA-AAGAAATTATTAAAGGCATTTGTTAAAAAAA
255 TTCAATAATCCT-AAAAAT---TTT-AAGAAAAAATTATTAAAGGCATTTGTTCTCAAAA
*
16013252 AAATGCCTTCACTAA
1 AAATACCTTCACTAA
16013267 TTATGTACGT
Statistics
Matches: 288, Mismatches: 30, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
309 49 0.17
310 41 0.14
311 155 0.54
314 41 0.14
315 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (309 bp):
AAATACCTTCACTAACCATCTTAAAATTTGAGTTGTGAAAAATTGAAAGCATTTTCACTGAAAGA
CACCTTTAATAATCCCAAAAATTTTAGAAGAAATTACTGAAGGCATTTGTTCCAAAAAAATACCT
TCAATAATTATATACGTAAAGTAGAAGAAATTAGTAAAGGCGATTTTCTAGAATAAATGCCTTCA
CTAAACGTCTTAAAATTTGAGCTGTGGAAAATTAAAGACCTTTTTCACTGAAAGACGCCTTCAAT
AATCCTAAAAATTTTAAGAAAAAATTATTAAAGGCATTTGTTCTCAAAA
Found at i:16013327 original size:180 final size:175
Alignment explanation
Indices: 16013098--16013825 Score: 697
Period size: 180 Copynumber: 4.0 Consensus size: 175
16013088 AATTAGAAAG
* * * *
16013098 AATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAATGTCTTAAAATTTGAGCTGTGGA
1 AATTAGTAAAGGTATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGCTGTGAA
* *
16013163 AAATTGAAGACGTTTTTCACT-AAACGACGCCTTTAGTAATCTAAAAAATAAATTTCAAAAGAAA
66 AAATTAAAGACGTTTTTCACTGAAA-GACGCCTTTAATAATCTAAAAAAT---TTT-AAAAGAAA
* *
16013227 TTATTAAAGGCATTTGTTAAAAAAAAAATGCCTTCACTAATTATGTACGTA
126 TTATTAAAGGCATTTATT-AAAAAAAAATGCCTTCAATAATTATGTACGTA
* * *
16013278 AATTAGTAAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTTAGTTGTGAA
1 AATTAGTAAAGGTATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGCTGTGAA
* * * * *
16013343 AAATTAAACACGTTTTTCACTGAAAGACTCCTTTAATAATCCAAAAAATTTTAAGAAAAAATTAG
66 AAATTAAAGACGTTTTTCACTGAAAGACGCCTTTAATAATCTAAAAAATTTTAA-AAGAAATTAT
* ** *** *
16013408 TGAAGGTGTTTATTCTCAGAAAATGCCTTCAATAATTATGTACGTA
130 TAAAGGCATTTATTAAAAAAAAATGCCTTCAATAATTATGTACGTA
* * * * * * *
16013454 AATTAGAAGAAATTAGTGAAGGTATTTCTAGAATAAACGCCTTTACTAAATGTCTCAAAATTTGA
1 AATT---AGTAA--AG-GTA--TTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTTGA
* * * * * **
16013519 GCTATGAAAAATTGAAGGCGTTTTTCACTAAAAGACGACTTTTGTAATCTAAAAAATAAATTTTA
58 GCTGTGAAAAATTAAAGACGTTTTTCACTGAAAGACGCCTTTAATAATCT---AAA-AAATTTTA
** * *
16013584 AAA-AAATTATTAAAGGTGTTTATTATAAAAAAAAATGCCTTCACTAATTATGTATGTA
119 AAAGAAATTATTAAAGGCATTTA-T-TAAAAAAAAATGCCTTCAATAATTATGTACGTA
* * * * * *
16013642 AATTAGTGAAA-GTGTTTTTCTAGAATAAATGCTTTCATTAACCGTTTTAAAATTTGAGTTGTGA
1 AATTAGT-AAAGGTATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGCTGTGA
* * * * *
16013706 AAAATTAAAGGCATTTTTCACTGGAAGACACCTTTAATAATCTAAAAAATTTTAAGAGAAAATTA
65 AAAATTAAAGACGTTTTTCACTGAAAGACGCCTTTAATAATCTAAAAAATTTTAAAAG-AAATTA
* * *** * *
16013771 TTGAAGGCATTTGTTCTCAGAAAATGCCTTCAATTATTATGTACGTA
129 TTAAAGGCATTTATTAAAAAAAAATGCCTTCAATAATTATGTACGTA
16013818 AATTAGTA
1 AATTAGTA
16013826 GGAATTAGTG
Statistics
Matches: 444, Mismatches: 85, Indels: 43
0.78 0.15 0.08
Matches are distributed among these distances:
175 1 0.00
176 76 0.17
177 25 0.06
178 15 0.03
179 4 0.01
180 172 0.39
181 5 0.01
182 3 0.01
184 76 0.17
185 2 0.00
186 19 0.04
187 6 0.01
188 40 0.09
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (175 bp):
AATTAGTAAAGGTATTTTTCTAGAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGCTGTGAA
AAATTAAAGACGTTTTTCACTGAAAGACGCCTTTAATAATCTAAAAAATTTTAAAAGAAATTATT
AAAGGCATTTATTAAAAAAAAATGCCTTCAATAATTATGTACGTA
Found at i:16013671 original size:364 final size:364
Alignment explanation
Indices: 16012910--16013870 Score: 1376
Period size: 364 Copynumber: 2.6 Consensus size: 364
16012900 TTTTAAGAAA
* * * * *
16012910 AAATTATTGAAGGTGTTTGTTCTCA-AAAAAATACCTTCACTAACCATCTTAAAATTTGAGTTGT
1 AAATTAGTGAAAGTGTTT-TTCT-AGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTGT
* * *
16012974 GAAAAATTGAAGGCATTTTTCACT-AGAAGACACCTTTAATAATCTC-AAAAGTTTTAAGAGGAA
64 GAAAAATTAAAGGCATTTTTCACTGA-AAGACACCTTTAATAATC-CAAAAAATTTTAAGAGAAA
* *
16013037 ATTAGTGAAGGCATTTGTTCCCAAAAAATGCCTTCAATAATTATGTACGTAAATTAGAA-AGAAT
127 ATTAGTGAAGGCATTTGTTCTCAGAAAATGCCTTCAATAATTATGTACGTAAATTAGAAGA-AAT
* * * * *
16013101 TAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAAATGTCTTAAAATTTGAGCTGTGGAAAA
191 TAGTGAAGG--TATTTCTAGAATAAACGCCTTCACTAAATGTCTCAAAATTTGAGCTATGAAAAA
* *
16013166 TTGAAGACGTTTTTCACTAAACGACGCCTTTAGTAATCTAAAAAATAAATTTCAAAAGAAATTAT
254 TTGAAGACGTTTTTCACTAAAAGACGACTTTAGTAATCTAAAAAATAAATTTCAAAAGAAATTAT
*
16013231 TAAAGGCATTTGTTAAAAAAAAAATGCCTTCACTAATTATGTACGT
319 TAAAGGCATTTATTAAAAAAAAAATGCCTTCACTAATTATGTACGT
* *
16013277 AAATTAGT-AAAGGTATTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTTAGTTGTG
1 AAATTAGTGAAA-GTGTTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTGTG
** * * *
16013341 AAAAATTAAACACGTTTTTCACTGAAAGACTCCTTTAATAATCCAAAAAATTTTAAGAAAAAATT
65 AAAAATTAAAGGCATTTTTCACTGAAAGACACCTTTAATAATCCAAAAAATTTTAAGAGAAAATT
** *
16013406 AGTGAAGGTGTTTATTCTCAGAAAATGCCTTCAATAATTATGTACGTAAATTAGAAGAAATTAGT
130 AGTGAAGGCATTTGTTCTCAGAAAATGCCTTCAATAATTATGTACGTAAATTAGAAGAAATTAGT
*
16013471 GAAGGTATTTCTAGAATAAACGCCTTTACTAAATGTCTCAAAATTTGAGCTATGAAAAATTGAAG
195 GAAGGTATTTCTAGAATAAACGCCTTCACTAAATGTCTCAAAATTTGAGCTATGAAAAATTGAAG
* * *
16013536 GCGTTTTTCACTAAAAGACGACTTTTGTAATCTAAAAAATAAATTTTAAAA-AAATTATTAAAGG
260 ACGTTTTTCACTAAAAGACGACTTTAGTAATCTAAAAAATAAATTTCAAAAGAAATTATTAAAGG
** *
16013600 TGTTTATTATAAAAAAAAATGCCTTCACTAATTATGTATGT
325 CATTTATTA-AAAAAAAAATGCCTTCACTAATTATGTACGT
* * *
16013641 AAATTAGTGAAAGTGTTTTTCTAGAATAAATGCTTTCATTAACCGTTTTAAAATTTGAGTTGTGA
1 AAATTAGTGAAAGTGTTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGA
* *
16013706 AAAATTAAAGGCATTTTTCACTGGAAGACACCTTTAATAATCTAAAAAATTTTAAGAGAAAATTA
66 AAAATTAAAGGCATTTTTCACTGAAAGACACCTTTAATAATCCAAAAAATTTTAAGAGAAAATTA
* * * *
16013771 TTGAAGGCATTTGTTCTCAGAAAATGCCTTCAATTATTATGTACGTAAATTAGTAGGAATTAGTG
131 GTGAAGGCATTTGTTCTCAGAAAATGCCTTCAATAATTATGTACGTAAATTAGAAGAAATTAGTG
*
16013836 AAGGCATTGTTCTAGAATAAACGCCTTCACTAAAT
196 AAGGTA-T-TTCTAGAATAAACGCCTTCACTAAAT
16013871 ACACCATAAA
Statistics
Matches: 529, Mismatches: 56, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
363 19 0.04
364 307 0.58
365 6 0.01
366 183 0.35
367 14 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (364 bp):
AAATTAGTGAAAGTGTTTTTCTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAGTTGTGA
AAAATTAAAGGCATTTTTCACTGAAAGACACCTTTAATAATCCAAAAAATTTTAAGAGAAAATTA
GTGAAGGCATTTGTTCTCAGAAAATGCCTTCAATAATTATGTACGTAAATTAGAAGAAATTAGTG
AAGGTATTTCTAGAATAAACGCCTTCACTAAATGTCTCAAAATTTGAGCTATGAAAAATTGAAGA
CGTTTTTCACTAAAAGACGACTTTAGTAATCTAAAAAATAAATTTCAAAAGAAATTATTAAAGGC
ATTTATTAAAAAAAAAATGCCTTCACTAATTATGTACGT
Found at i:16021544 original size:34 final size:33
Alignment explanation
Indices: 16021506--16021615 Score: 114
Period size: 34 Copynumber: 3.2 Consensus size: 33
16021496 ATGTCAAAGG
*
16021506 TACAAACGTGTCTAATATAGCGATATTTTTCAGA
1 TACAAACGT-TCTAATATAGCGACATTTTTCAGA
* * * *
16021540 TACAAGCATTGCTAATAAAGC-AGCATTTTCCAGA
1 TACAAACGTT-CTAATATAGCGA-CATTTTTCAGA
* *
16021574 TACAAACGTCACTAATATAGTGACATTTTTCAGA
1 TACAAACGT-TCTAATATAGCGACATTTTTCAGA
16021608 TACAAACG
1 TACAAACG
16021616 CCACAAATGT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
33 2 0.03
34 58 0.95
35 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (33 bp):
TACAAACGTTCTAATATAGCGACATTTTTCAGA
Found at i:16021635 original size:34 final size:34
Alignment explanation
Indices: 16021553--16021636 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 34
16021543 AAGCATTGCT
* * * *
16021553 AATAAAGCAGCATTTTCCAGATACAAACGTCACT
1 AATATAGCGGCATTTTCCAGATACAAACGCCACA
* * *
16021587 AATATAGTGACATTTTTCAGATACAAACGCCACA
1 AATATAGCGGCATTTTCCAGATACAAACGCCACA
*
16021621 AATGTAGCGGCATTTT
1 AATATAGCGGCATTTT
16021637 ATGAAAAACA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.27
Consensus pattern (34 bp):
AATATAGCGGCATTTTCCAGATACAAACGCCACA
Found at i:16022825 original size:66 final size:68
Alignment explanation
Indices: 16022715--16022852 Score: 208
Period size: 66 Copynumber: 2.0 Consensus size: 68
16022705 ACTCTTAAGA
* *
16022715 TATCCTCCATATGAATAGCTAGTCCTTATTAATTTGGTTTAAACTACAATGAATAAAATAGCTAA
1 TATCCTCCATATGAATA-C-AGTCCTTACTAATTTGGTATAAACTACAATGAATAAAATAGCTAA
16022780 AAAAT
64 AAAAT
* *
16022785 TATCCTCCATATGAATA-A-TCCTTACTAGTTTGGTATAAACTACAATGAATTAAATAGCTAAAA
1 TATCCTCCATATGAATACAGTCCTTACTAATTTGGTATAAACTACAATGAATAAAATAGCTAAAA
16022848 AAT
66 AAT
16022851 TA
1 TA
16022853 AGAAGAATTT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
66 46 0.72
67 1 0.02
70 17 0.27
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.34
Consensus pattern (68 bp):
TATCCTCCATATGAATACAGTCCTTACTAATTTGGTATAAACTACAATGAATAAAATAGCTAAAA
AAT
Found at i:16022866 original size:66 final size:66
Alignment explanation
Indices: 16022737--16022867 Score: 163
Period size: 66 Copynumber: 2.0 Consensus size: 66
16022727 GAATAGCTAG
* * * ** *
16022737 TCCTTATTAATTTGGTTTAAACTACAATGAATAAAATAGCTAAAAAATTATCCTCCATATGAATA
1 TCCTTACTAATTTGGTATAAACTACAATGAATAAAATAGCTAAAAAATTAACAACAATATGAATA
16022802 A
66 A
* * * * *
16022803 TCCTTACTAGTTTGGTATAAACTACAATGAATTAAATAGCTAAAAAATTAAGAAGAATTTGAATA
1 TCCTTACTAATTTGGTATAAACTACAATGAATAAAATAGCTAAAAAATTAACAACAATATGAATA
16022868 TATGTAATTT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (66 bp):
TCCTTACTAATTTGGTATAAACTACAATGAATAAAATAGCTAAAAAATTAACAACAATATGAATA
A
Found at i:16025026 original size:28 final size:28
Alignment explanation
Indices: 16024972--16025029 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
16024962 AAAAAAAAAA
* *
16024972 TTATTACTAATTTTTCTTGATATTTTCC
1 TTATTACTAATTTTCCTTCATATTTTCC
*
16025000 TTATT-CTAATTTTCCTTCCTATATTTCC
1 TTATTACTAATTTTCCTTCATAT-TTTCC
16025028 TT
1 TT
16025030 TAACCAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.19, C:0.19, G:0.02, T:0.60
Consensus pattern (28 bp):
TTATTACTAATTTTCCTTCATATTTTCC
Found at i:16026430 original size:3 final size:3
Alignment explanation
Indices: 16026422--16026459 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
16026412 TAATTACTTG
16026422 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
16026460 CTTTTAAGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16026708 original size:18 final size:17
Alignment explanation
Indices: 16026676--16026709 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16026666 TTGATAAAAT
*
16026676 AACATATATATTTTTTC
1 AACATATATACTTTTTC
16026693 AACATCATATACTTTTT
1 AACAT-ATATACTTTTT
16026710 AGATATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (17 bp):
AACATATATACTTTTTC
Found at i:16027577 original size:21 final size:21
Alignment explanation
Indices: 16027553--16027597 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
16027543 AAAAAAAAAA
16027553 AAAAAAACCCAAA-CAATAATT
1 AAAAAAA-CCAAATCAATAATT
* *
16027574 AAAAAAATCAAATTAATAATT
1 AAAAAAACCAAATCAATAATT
16027595 AAA
1 AAA
16027598 TGAGATTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAAAACCAAATCAATAATT
Found at i:16032203 original size:11 final size:12
Alignment explanation
Indices: 16032181--16032213 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16032171 ACCTTGGCAC
16032181 CAAAAAACAAAAG
1 CAAAAAA-AAAAG
16032194 -AAAAAAAAAAG
1 CAAAAAAAAAAG
16032205 CAAAAAAAA
1 CAAAAAAAA
16032214 CACCAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAG
Found at i:16035183 original size:20 final size:19
Alignment explanation
Indices: 16035158--16035198 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
16035148 TAATTTTTTT
*
16035158 AAATATATATATAAGATATA
1 AAATATATATA-AAAATATA
*
16035178 AAATATCTATAAAAATATA
1 AAATATATATAAAAATATA
16035197 AA
1 AA
16035199 TTTTTGGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AAATATATATAAAAATATA
Found at i:16035199 original size:18 final size:19
Alignment explanation
Indices: 16035157--16035199 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
16035147 ATAATTTTTT
*
16035157 TAAATATATATATAAGATA
1 TAAATATATATATAAAATA
*
16035176 TAAA-ATATCTATAAAAATA
1 TAAATATATATAT-AAAATA
16035195 TAAAT
1 TAAAT
16035200 TTTTGGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAATATATATATAAAATA
Found at i:16039529 original size:14 final size:14
Alignment explanation
Indices: 16039505--16039579 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
16039495 AAAAAATAGC
16039505 AAAAT-AAATAATA
1 AAAATAAAATAATA
*
16039518 AAAATGAAATAA-A
1 AAAATAAAATAATA
**
16039531 AACTTAAAAT-ATA
1 AAAATAAAATAATA
*
16039544 AAAATGATAA-AATA
1 AAAAT-AAAATAATA
*
16039558 AAAATAAAAAAATA
1 AAAATAAAATAATA
16039572 AAAA-AAAA
1 AAAATAAAA
16039580 ACCTATGATC
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
12 1 0.02
13 24 0.48
14 25 0.50
ACGTcount: A:0.77, C:0.01, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAATAAAATAATA
Done.