Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 60 of 344
Found at i:19350025 original size:47 final size:47
Alignment explanation
Indices: 19349929--19350106 Score: 266
Period size: 47 Copynumber: 3.7 Consensus size: 47
19349919 TTAGGATTCT
19349929 ATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCG
19349978 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
19350025 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
19350072 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
19350107 TCCCGAAGGG
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
47 94 0.79
49 25 0.21
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:19350275 original size:37 final size:37
Alignment explanation
Indices: 19350225--19350340 Score: 187
Period size: 37 Copynumber: 3.1 Consensus size: 37
19350215 CCGAGCTCTA
19350225 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
*
19350262 AAGACCCAATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
19350299 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
19350336 AAGAC
1 AAGAC
19350341 TTCGTAATAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:19355565 original size:205 final size:205
Alignment explanation
Indices: 19355213--19355997 Score: 1171
Period size: 205 Copynumber: 3.8 Consensus size: 205
19355203 CCGCAGCATG
** * ** * *
19355213 GCAGATCTGGCCTTCAGATGTTTATACTGAAATAGATCCAATATGGTTTGGTATTCTTGTGCTTA
1 GCAGATCTCACCTTCAGATGCTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
** * *
19355278 TGAGGAATAAATCGAAGACATGGCTGATTTGGCTTTCACATGTTTACGCTGAAGCAAATCTAAGA
66 CAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGCTGAAGCAAATCTAAGA
* * * *
19355343 TGACTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTGATAGAGAT
131 TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGATGGAGAT
19355408 CAGATACATA
196 CAGATACATA
* *
19355418 GCAGATCTCACCTTCAGATGCTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTATGCTTA
1 GCAGATCTCACCTTCAGATGCTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
19355483 CAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGCTGAAGCAAATCTAAGA
66 CAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGCTGAAGCAAATCTAAGA
* * *
19355548 TGATTCGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTAGCATCTCCACTTCGATGGAGAG
131 TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGATGGAGAT
19355613 CAGATACATA
196 CAGATACATA
*
19355623 GCAGATCTCACCTTCAGATGCTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
1 GCAGATCTCACCTTCAGATGCTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
*
19355688 CAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAC-GAAGCAAATCTAAG
66 CAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACG-CTGAAGCAAATCTAAG
* * * * *
19355752 ATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTCTAGCATCTCAACTTCAACGGGGA
130 ATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGATGGAGA
19355817 GT-AGATACATA
195 -TCAGATACATA
* ** * * *
19355828 GCATATCTCACCTTCAGATAATT-TCACTGAAGCAAGATCCAAGATGATTTGGCATTCTTGTGCT
1 GCAGATCTCACCTTCAGATGCTTAT-ACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCT
* * * *
19355892 TACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATATAA
64 TACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGCTGAAGCAAATCTAA
*
19355957 GATGATTTGGCGTCTCTGTATTGTCAGAGAACAAATCGAAG
129 GATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
19355998 AAGCAGATTT
Statistics
Matches: 533, Mismatches: 42, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
204 1 0.00
205 404 0.76
206 128 0.24
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (205 bp):
GCAGATCTCACCTTCAGATGCTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTA
CAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGCTGAAGCAAATCTAAGA
TGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGATGGAGAT
CAGATACATA
Found at i:19356008 original size:43 final size:44
Alignment explanation
Indices: 19355960--19356042 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
19355950 AATATAAGAT
* *
19355960 GATTTGGCGTCTCTGTATT-GTCAGAGAACAAATCGAAGAAGCA
1 GATTTGGCATCTCTGTATTCGGCAGAGAACAAATCGAAGAAGCA
* * *
19356003 GATTTGGCATCTCTGTGTTCGGCAGAGAGCAGATCGAAGA
1 GATTTGGCATCTCTGTATTCGGCAGAGAACAAATCGAAGA
19356043 TATCAACATG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 17 0.50
44 17 0.50
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTCGGCAGAGAACAAATCGAAGAAGCA
Found at i:19357311 original size:26 final size:26
Alignment explanation
Indices: 19357278--19357385 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
19357268 TGATACAAAC
19357278 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
19357304 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19357330 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19357356 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19357382 TGAT
1 TGAT
19357386 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19360710 original size:20 final size:19
Alignment explanation
Indices: 19360682--19360834 Score: 127
Period size: 20 Copynumber: 7.7 Consensus size: 19
19360672 ATTTTTATTT
*
19360682 TTATATTATATATTATATAA
1 TTATTTTATATATTATAT-A
19360702 TTATTTTATATATTACTCATA
1 TTATTTTATATATTA-T-ATA
19360723 TTATTTATATATATTATATA
1 TTATTT-TATATATTATATA
* *
19360743 TTATTTTCACATA-TATACTT
1 TTATTTT-ATATATTATA-TA
*
19360763 TTATATTATATATTATAT-
1 TTATTTTATATATTATATA
19360781 TTA-TTT-TATATTAT-TA
1 TTATTTTATATATTATATA
19360797 TGTCATTTTATACTATTATATA
1 T-T-ATTTTATA-TATTATATA
*
19360819 TTTTTATCTATATATT
1 TTATT-T-TATATATT
19360835 GTTATCATTA
Statistics
Matches: 111, Mismatches: 7, Indels: 29
0.76 0.05 0.20
Matches are distributed among these distances:
15 1 0.01
16 9 0.08
17 3 0.03
18 4 0.04
19 13 0.12
20 42 0.38
21 21 0.19
22 18 0.16
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (19 bp):
TTATTTTATATATTATATA
Found at i:19360726 original size:29 final size:26
Alignment explanation
Indices: 19360676--19360797 Score: 85
Period size: 26 Copynumber: 4.6 Consensus size: 26
19360666 TGCTTTATTT
19360676 TTATTTT-TATATTATATATTATATAA
1 TTATTTTATATATTATATATTAT-TAA
*
19360702 TTATTTTATATATTACTCATATTATTTA
1 TTATTTTATATATTA-T-ATATTATTAA
* *
19360730 TATATATTATATATTAT-T-TTCA-CATA
1 T-TATTTTATATATTATATATT-ATTA-A
* *
19360756 TATACTTT-TATATTATATATTA-TAT
1 T-TATTTTATATATTATATATTATTAA
19360781 TTATTTTATATTATTAT
1 TTATTTTATA-TATTAT
19360798 GTCATTTTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
24 5 0.06
25 13 0.17
26 25 0.32
27 9 0.12
28 5 0.06
29 20 0.26
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (26 bp):
TTATTTTATATATTATATATTATTAA
Found at i:19360815 original size:8 final size:7
Alignment explanation
Indices: 19360683--19360834 Score: 85
Period size: 7 Copynumber: 21.9 Consensus size: 7
19360673 TTTTTATTTT
19360683 TATATTA
1 TATATTA
19360690 TATATTA
1 TATATTA
19360697 TATAATTA
1 TAT-ATTA
19360705 T-T-TTA
1 TATATTA
19360710 TATATTA
1 TATATTA
19360717 CTCATATTA
1 -T-ATATTA
*
19360726 TTTA-TA
1 TATATTA
19360732 TATATTA
1 TATATTA
19360739 TATATTA
1 TATATTA
19360746 T-T-TTCA
1 TATATT-A
*
19360752 CATA-TA
1 TATATTA
19360758 TACT-TT-
1 TA-TATTA
19360764 TATATTA
1 TATATTA
19360771 TATATTA
1 TATATTA
19360778 TAT-TTA
1 TATATTA
19360784 T-T-TTA
1 TATATTA
19360789 TATTATTA
1 TA-TATTA
*
19360797 TGTCATTTTA
1 --T-ATATTA
19360807 TACTATTA
1 TA-TATTA
19360815 TATATT-
1 TATATTA
*
19360821 TTTATCTA
1 TATAT-TA
19360829 TATATT
1 TATATT
19360835 GTTATCATTA
Statistics
Matches: 115, Mismatches: 8, Indels: 44
0.69 0.05 0.26
Matches are distributed among these distances:
5 12 0.10
6 22 0.19
7 48 0.42
8 21 0.18
9 6 0.05
10 5 0.04
11 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (7 bp):
TATATTA
Found at i:19360823 original size:18 final size:18
Alignment explanation
Indices: 19360768--19360833 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
19360758 TACTTTTATA
*
19360768 TTATA-TATTATATTTATT
1 TTATACTATTATATAT-TT
* *
19360786 TTATATTATTATGTCA-TT
1 TTATACTATTATAT-ATTT
19360804 TTATACTATTATATATTT
1 TTATACTATTATATATTT
19360822 TTAT-CTA-TATAT
1 TTATACTATTATAT
19360834 TGTTATCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 5 0.12
17 4 0.10
18 25 0.61
19 7 0.17
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATACTATTATATATTT
Found at i:19360834 original size:42 final size:41
Alignment explanation
Indices: 19360761--19360839 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
19360751 ACATATATAC
* *
19360761 TTTTATATTATATATTATATTTATTTTATATTATTATGTCA
1 TTTTATACTATATATTATATTTATTATATATTATTATGTCA
* *
19360802 TTTTATACTAT-TATATATTTTTATCTATATATTGTTAT
1 TTTTATACTATATAT-TATATTTAT-TATATATTATTAT
19360840 CATTAAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 3 0.09
41 18 0.56
42 11 0.34
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (41 bp):
TTTTATACTATATATTATATTTATTATATATTATTATGTCA
Found at i:19368749 original size:25 final size:25
Alignment explanation
Indices: 19368691--19368775 Score: 84
Period size: 25 Copynumber: 3.3 Consensus size: 25
19368681 TAACTTTCAA
*
19368691 ACCCAAACGTAACCTAAACC-TACAACAG
1 ACCCAAACCTAA--TAAACCTTAC-A-AG
19368719 ACCCAAACCTAATAAACCTTACAAG
1 ACCCAAACCTAATAAACCTTACAAG
*
19368744 ACCCAAACCCAA-AAACCCTTACAAG
1 ACCCAAACCTAATAAA-CCTTACAAG
*
19368769 TCCCAAA
1 ACCCAAA
19368776 ACTCATGAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
24 3 0.06
25 28 0.54
26 7 0.13
27 3 0.06
28 11 0.21
ACGTcount: A:0.47, C:0.36, G:0.05, T:0.12
Consensus pattern (25 bp):
ACCCAAACCTAATAAACCTTACAAG
Found at i:19369941 original size:30 final size:29
Alignment explanation
Indices: 19369902--19369962 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 29
19369892 CCTTATTACT
19369902 TTTAATTTTACTAAGATACT-TTATATATTA
1 TTTAATTTTA-TAA-ATACTATTATATATTA
* *
19369932 TTTATTTTTATAAATATTAGTTATATATTA
1 TTTAATTTTATAAATACTA-TTATATATTA
19369962 T
1 T
19369963 ATATATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 3 0.11
30 20 0.74
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (29 bp):
TTTAATTTTATAAATACTATTATATATTA
Found at i:19370044 original size:12 final size:13
Alignment explanation
Indices: 19370000--19370045 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
19369990 ATAAATTATA
19370000 TTTTAT-TATATT
1 TTTTATATATATT
19370012 TTGTTATATATATT
1 TT-TTATATATATT
*
19370026 TCCTTATAT-TATT
1 T-TTTATATATATT
19370039 TTTTATA
1 TTTTATA
19370046 AATTATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 7 0.24
13 9 0.31
14 13 0.45
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (13 bp):
TTTTATATATATT
Found at i:19370052 original size:29 final size:27
Alignment explanation
Indices: 19369989--19370061 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 27
19369979 TTATCTCATC
*
19369989 TATAAATTATATTTTATTATATTTTGT
1 TATAAATTATATTTCATTATATTTTGT
* *
19370016 TAT--A-TATATTTCCTTATATTATTTTT
1 TATAAATTATATTTCATTATA-T-TTTGT
19370042 TATAAATTATATATT-ATTAT
1 TATAAATTATAT-TTCATTAT
19370062 TTATTAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
24 12 0.33
25 2 0.06
26 7 0.19
27 3 0.08
28 1 0.03
29 9 0.25
30 2 0.06
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (27 bp):
TATAAATTATATTTCATTATATTTTGT
Found at i:19370056 original size:21 final size:22
Alignment explanation
Indices: 19370030--19370071 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
19370020 TATATTTCCT
*
19370030 TATATTATTTTTTA-TAAATTA
1 TATATTATTATTTATTAAATTA
19370051 TATATTATTATTTATTAAATT
1 TATATTATTATTTATTAAATT
19370072 TGTAAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATTATTATTTATTAAATTA
Found at i:19370339 original size:17 final size:19
Alignment explanation
Indices: 19370296--19370338 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
19370286 CATGTTCAAA
19370296 ATTTTTATTATATGATATAT
1 ATTTTTATTATAT-ATATAT
*
19370316 ATTTTTATTATAT-TATTT
1 ATTTTTATTATATATATAT
19370334 ATTTT
1 ATTTT
19370339 ACTATATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
20 13 0.59
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTATTATATATATAT
Found at i:19370483 original size:12 final size:12
Alignment explanation
Indices: 19370466--19370503 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19370456 TTTATCTTTC
19370466 TTATATATATTA
1 TTATATATATTA
*
19370478 TTATATATTTTA
1 TTATATATATTA
19370490 TT-TATATATCTA
1 TTATATATAT-TA
19370502 TT
1 TT
19370504 TTGTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATATATATTA
Found at i:19370597 original size:22 final size:22
Alignment explanation
Indices: 19370572--19370613 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19370562 ATACTTATTA
19370572 TATATTT-ATTATCATTTTATAT
1 TATATTTCATTAT-ATTTTATAT
*
19370594 TATATTTCCTTATATTTTAT
1 TATATTTCATTATATTTTAT
19370614 TCATATCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (22 bp):
TATATTTCATTATATTTTATAT
Found at i:19381450 original size:15 final size:15
Alignment explanation
Indices: 19381430--19381462 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
19381420 TCGGGGTACA
19381430 ATCAGATAAAGATGC
1 ATCAGATAAAGATGC
19381445 ATCAGATAAAGATGC
1 ATCAGATAAAGATGC
19381460 ATC
1 ATC
19381463 CATAGGACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (15 bp):
ATCAGATAAAGATGC
Found at i:19386026 original size:205 final size:206
Alignment explanation
Indices: 19385158--19386000 Score: 1348
Period size: 205 Copynumber: 4.1 Consensus size: 206
19385148 GGATCTGGCT
*
19385158 AAGCAAGATCC-AGATGA-TTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA-
1 AAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGAT
*
19385220 TTGGCTTTCACGTGCTTACGATGAAGC-AATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
65 TTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* * * **
19385284 ACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGTAGATACATA-CAGATCTGGCCTTCAG
130 ACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAG
*
19385348 ATG-TTATACTG
195 ATGATTAGACTG
19385359 AAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATT
1 AAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATT
* *
19385424 TGGCTTTCATGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
66 TAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
*
19385489 CAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTTAGA
131 CAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGA
19385554 TGATTAGACTG
196 TGATTAGACTG
* * * *
19385565 AAGGAGATCCAATATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATTGAA-ATCATAGCTGAT
1 AAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGA-CATAGCTGAT
19385629 TTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
65 TTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* * * *
19385694 ACAAATCGAAGTTTGGC-TTTCCATATTCGATGGAGGGCAGACACATAACAAATCTAACCTTCAG
130 ACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAG
19385758 ATGATTAGACTG
195 ATGATTAGACTG
*
19385770 AAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAA-ATCATAGCTGAT
1 AAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGA-CATAGCTGAT
* *
19385834 TTAGCTTTCACGTGCTTA-GCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
65 TTAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
19385898 ACAAATCGAGGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAG
130 ACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAG
19385963 ATGATTAGACTG
195 ATGATTAGACTG
* *
19385975 AAGCA-AGTCTAAGATGATTTGACATC
1 AAGCAGA-TCCAAGATGATTTGGCATC
19386001 TCTGTATTGT
Statistics
Matches: 600, Mismatches: 33, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
200 6 0.01
201 10 0.02
202 44 0.07
203 26 0.04
204 143 0.24
205 226 0.38
206 145 0.24
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (206 bp):
AAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGATT
TAGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAA
CAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGA
TGATTAGACTG
Found at i:19386064 original size:119 final size:119
Alignment explanation
Indices: 19385849--19386096 Score: 435
Period size: 119 Copynumber: 2.1 Consensus size: 119
19385839 TTTCACGTGC
* *
19385849 TTAG-CTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAGGTTTG
1 TTAGACTGAAGCAAGTCTAAGATGATTTGACATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
* *
19385913 GCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGA
66 GCGTCTCCATATTCGACGAAGGGCAGACACATAGCAGATCTAACCTTCAAATGA
19385967 TTAGACTGAAGCAAGTCTAAGATGATTTGACATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
1 TTAGACTGAAGCAAGTCTAAGATGATTTGACATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
* *
19386032 GCGTCTCTATATTCGATGAAGGGCAGACACATAGCAGATCTAACCTTCAAATGA
66 GCGTCTCCATATTCGACGAAGGGCAGACACATAGCAGATCTAACCTTCAAATGA
19386086 TTAGACTGAAG
1 TTAGACTGAAG
19386097 TAGATCCAAG
Statistics
Matches: 123, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
118 4 0.03
119 119 0.97
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (119 bp):
TTAGACTGAAGCAAGTCTAAGATGATTTGACATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
GCGTCTCCATATTCGACGAAGGGCAGACACATAGCAGATCTAACCTTCAAATGA
Found at i:19386606 original size:47 final size:47
Alignment explanation
Indices: 19386537--19386627 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
19386527 AACTACAGCC
*
19386537 CAAAAATTGAAACCCAACTAGCCCACTACCCGTGTACCCAAATAGCA
1 CAAAAATTAAAACCCAACTAGCCCACTACCCGTGTACCCAAATAGCA
* *
19386584 CAAAAATTAAAACCTAACTAGCCCACTACCTGTGTACCCAAATA
1 CAAAAATTAAAACCCAACTAGCCCACTACCCGTGTACCCAAATA
19386628 ATTTCAAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.42, C:0.32, G:0.09, T:0.18
Consensus pattern (47 bp):
CAAAAATTAAAACCCAACTAGCCCACTACCCGTGTACCCAAATAGCA
Found at i:19386688 original size:25 final size:25
Alignment explanation
Indices: 19386660--19386718 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
19386650 AAACCTCAGC
19386660 AGACCCAAACCCAATAAA-CCTTACA
1 AGACCCAAACCCAA-AAAGCCTTACA
*
19386685 AGACCCAAACCCAAAAAGCTTTACA
1 AGACCCAAACCCAAAAAGCCTTACA
19386710 AGACCCAAA
1 AGACCCAAA
19386719 ACTCATGAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.49, C:0.34, G:0.07, T:0.10
Consensus pattern (25 bp):
AGACCCAAACCCAAAAAGCCTTACA
Found at i:19387882 original size:30 final size:29
Alignment explanation
Indices: 19387843--19387908 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
19387833 CCTTATTACT
*
19387843 TTTAATTTTACTAAGATACT-TTATATATTA
1 TTTATTTTTA-TAA-ATACTATTATATATTA
*
19387873 TTTATTTTTATAAATATTAGTTATATATTA
1 TTTATTTTTATAAATACTA-TTATATATTA
*
19387903 TATATT
1 TTTATT
19387909 ATATTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 4 0.13
29 3 0.10
30 24 0.77
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTATTTTTATAAATACTATTATATATTA
Found at i:19387958 original size:27 final size:27
Alignment explanation
Indices: 19387928--19388001 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
19387918 TTATCTCATC
19387928 TATAAATTATATTTTATTATATTTTGT
1 TATAAATTATATTTTATTATATTTTGT
* *
19387955 TATATA-TAT-TTCCTTA-TATTATTTTTT
1 TATAAATTATATT--TTATTA-TATTTTGT
*
19387982 TATAAATTATATATTATTAT
1 TATAAATTATATTTTATTAT
19388002 TTATTAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
25 2 0.05
26 5 0.14
27 24 0.65
28 5 0.14
29 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (27 bp):
TATAAATTATATTTTATTATATTTTGT
Found at i:19388009 original size:22 final size:22
Alignment explanation
Indices: 19387969--19388011 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19387959 TATATTTCCT
*
19387969 TATATTATTTTTTTATAAATTA
1 TATATTATTTTTATATAAATTA
19387991 TATATTATTATTTAT-TAAATT
1 TATATTATT-TTTATATAAATT
19388012 TGTAAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATATTATTTTTATATAAATTA
Found at i:19388427 original size:24 final size:23
Alignment explanation
Indices: 19388371--19388427 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
19388361 CTATGTTTTA
*
19388371 TTATTTAATATTCCTTATAATAT
1 TTATTTAATATACCTTATAATAT
*
19388394 TTATTATAATATACGTTAT-ATAT
1 TTATT-TAATATACCTTATAATAT
19388417 TATATATTAAT
1 T-TAT-TTAAT
19388428 TATTTTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 10 0.34
24 18 0.62
25 1 0.03
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (23 bp):
TTATTTAATATACCTTATAATAT
Found at i:19388488 original size:22 final size:22
Alignment explanation
Indices: 19388463--19388504 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19388453 ATACTTATTG
19388463 TATATTT-ATTATCATTTTATAT
1 TATATTTCATTAT-ATTTTATAT
*
19388485 TATATTTCCTTATATTTTAT
1 TATATTTCATTATATTTTAT
19388505 TCATATCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (22 bp):
TATATTTCATTATATTTTATAT
Found at i:19389314 original size:12 final size:12
Alignment explanation
Indices: 19389297--19389340 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
19389287 TTTCGACAAG
19389297 ATAAATAAAGAA
1 ATAAATAAAGAA
19389309 ATAAATAAAGAAA
1 ATAAATAAAG-AA
* *
19389322 ATGAACAAATGAA
1 ATAAATAAA-GAA
19389335 ATAAAT
1 ATAAAT
19389341 CGGTAAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 10 0.38
13 15 0.58
14 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.18
Consensus pattern (12 bp):
ATAAATAAAGAA
Found at i:19393747 original size:43 final size:43
Alignment explanation
Indices: 19393682--19393780 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
19393672 AGATACAAGG
* * * *
19393682 GACACACGACCGTGTCACCTTGCCATGTGTCACAGACGACTGA
1 GACACACGACCGTATCACCTTGCCATGTGTAACACACGACTAA
* *
19393725 TACACACGACCGTATCATCTTGCCATGTGTAACACACGACTAA
1 GACACACGACCGTATCACCTTGCCATGTGTAACACACGACTAA
*
19393768 GACACACGCCCGT
1 GACACACGACCGT
19393781 TTCCCTACCC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (43 bp):
GACACACGACCGTATCACCTTGCCATGTGTAACACACGACTAA
Found at i:19394367 original size:30 final size:29
Alignment explanation
Indices: 19394331--19394391 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
19394321 TAAGCCTAAT
*
19394331 AAAGCTTACTAAGTTCGACGGGTTAAACAA
1 AAAGCTTACTAAGTTCAAC-GGTTAAACAA
*
19394361 AAAGCTTAGTAAGTTCAACGGTTAAACAA
1 AAAGCTTACTAAGTTCAACGGTTAAACAA
19394390 AA
1 AA
19394392 TCTTACCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (29 bp):
AAAGCTTACTAAGTTCAACGGTTAAACAA
Found at i:19394699 original size:21 final size:21
Alignment explanation
Indices: 19394682--19394733 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
19394672 TAGAAGCTAT
19394682 TAAAAGCTGAACATAAGCTCA
1 TAAAAGCTGAACATAAGCTCA
* * * *
19394703 TAAGAGCTGAACAGAAGATCG
1 TAAAAGCTGAACATAAGCTCA
*
19394724 TAAGAGCTGA
1 TAAAAGCTGA
19394734 TCCACCTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.17
Consensus pattern (21 bp):
TAAAAGCTGAACATAAGCTCA
Found at i:19408789 original size:27 final size:27
Alignment explanation
Indices: 19408758--19408935 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19408748 TAAATTGTAC
19408758 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19408785 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19408811 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19408839 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19408867 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19408894 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19408921 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19408936 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19408872 original size:82 final size:81
Alignment explanation
Indices: 19408759--19408914 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19408749 AAATTGTACA
* *
19408759 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19408823 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
19408840 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19408905 TGCGAGTTGA
65 TGCGAATTGA
19408915 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19408926 original size:82 final size:81
Alignment explanation
Indices: 19408755--19408935 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
19408745 GATTAAATTG
* *
19408755 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19408820 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19408836 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19408900 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19408918 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19408936 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19425616 original size:6 final size:6
Alignment explanation
Indices: 19425601--19425654 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
19425591 TAAGAACATG
* * *
19425601 AAAAAT AAAAAC AAAAAT AAACAT AAAAAT AAAAA- GAAAAT -AAAA-
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
19425646 AAAAAT AAA
1 AAAAAT AAA
19425655 TTGAAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
5 12 0.30
6 28 0.70
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (6 bp):
AAAAAT
Found at i:19425628 original size:18 final size:16
Alignment explanation
Indices: 19425602--19425668 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 16
19425592 AAGAACATGA
19425602 AAAATAAAAACAAAAAT
1 AAAATAAAAA-AAAAAT
*
19425619 AAACATAAAAATAAAAAG
1 AAA-ATAAAAA-AAAAAT
19425637 AAAAT-AAAAAAAAAT
1 AAAATAAAAAAAAAAT
* * *
19425652 AAATTGAAAAATAAAT
1 AAAATAAAAAAAAAAT
19425668 A
1 A
19425669 GACTCAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
15 9 0.21
16 14 0.33
17 5 0.12
18 15 0.35
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAATAAAAAAAAAAT
Found at i:19430314 original size:18 final size:17
Alignment explanation
Indices: 19430287--19430321 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19430277 TAAGAACATG
19430287 AAAAATAAAAACAAAAA
1 AAAAATAAAAACAAAAA
*
19430304 AAAACATAAAAAGAAAAA
1 AAAA-ATAAAAACAAAAA
19430322 CAAATTGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.86, C:0.06, G:0.03, T:0.06
Consensus pattern (17 bp):
AAAAATAAAAACAAAAA
Found at i:19431626 original size:13 final size:13
Alignment explanation
Indices: 19431608--19431632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19431598 CAACAAAACT
19431608 AAATAAGTAGACG
1 AAATAAGTAGACG
19431621 AAATAAGTAGAC
1 AAATAAGTAGAC
19431633 TCTTAATACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.20, T:0.16
Consensus pattern (13 bp):
AAATAAGTAGACG
Found at i:19434998 original size:11 final size:11
Alignment explanation
Indices: 19434984--19435013 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
19434974 AATAAACATA
19434984 AAAAGAAAAAG
1 AAAAGAAAAAG
19434995 AAAAGAAAAAG
1 AAAAGAAAAAG
19435006 AAAA-AAAA
1 AAAAGAAAA
19435014 TTGAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:19435004 original size:6 final size:6
Alignment explanation
Indices: 19434958--19435010 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
19434948 TTATGAACAT
* * * * *
19434958 GAAAAA TAAAAA CAAAAA TAAACA TAAAAA GAAAAA G-AAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
19435005 GAAAAA
1 GAAAAA
19435011 AAATTGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
5 5 0.12
6 35 0.88
ACGTcount: A:0.81, C:0.04, G:0.09, T:0.06
Consensus pattern (6 bp):
GAAAAA
Found at i:19435021 original size:17 final size:17
Alignment explanation
Indices: 19434960--19435010 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
19434950 ATGAACATGA
* * *
19434960 AAAATAAAAACAAAAAT
1 AAAAGAAAAAGAAAAAG
*
19434977 AAACATAAAAAGAAAAAG
1 AAA-AGAAAAAGAAAAAG
19434995 AAAAGAAAAAGAAAAA
1 AAAAGAAAAAGAAAAA
19435011 AAATTGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.82, C:0.04, G:0.08, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAG
Found at i:19443080 original size:38 final size:39
Alignment explanation
Indices: 19443026--19443104 Score: 124
Period size: 39 Copynumber: 2.1 Consensus size: 39
19443016 CTTCTTCAGT
*
19443026 TTCTGCTTCTTCTGTGGCA-TTTTTTAGTCAGTTTCTGA
1 TTCTGATTCTTCTGTGGCATTTTTTTAGTCAGTTTCTGA
* *
19443064 TTCTGATTCTTTTGTGGCATTTTTTTAGTTAGTTTCTGA
1 TTCTGATTCTTCTGTGGCATTTTTTTAGTCAGTTTCTGA
19443103 TT
1 TT
19443105 TAAACTTAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
38 17 0.46
39 20 0.54
ACGTcount: A:0.11, C:0.14, G:0.18, T:0.57
Consensus pattern (39 bp):
TTCTGATTCTTCTGTGGCATTTTTTTAGTCAGTTTCTGA
Found at i:19450579 original size:15 final size:15
Alignment explanation
Indices: 19450559--19450594 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
19450549 GCACGAGGAC
19450559 CCACCATCCCAACAA
1 CCACCATCCCAACAA
* *
19450574 CCACCATTCCAGCAA
1 CCACCATCCCAACAA
19450589 CCACCA
1 CCACCA
19450595 CCCTCGCGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.53, G:0.03, T:0.08
Consensus pattern (15 bp):
CCACCATCCCAACAA
Found at i:19455503 original size:48 final size:47
Alignment explanation
Indices: 19455244--19455513 Score: 244
Period size: 50 Copynumber: 5.7 Consensus size: 47
19455234 TGTGTGCTAA
* * *
19455244 TGTAAGA-CATGTCTGGGACAT-GCATCAG-TCACATTATGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTC-GA-TATGAGAGCCAG
* * ** * ***
19455290 TGTAAGACAATGCCTGGGACATGGCATCAACTTGATAT--GTTTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTCGATATGAGAGCCAG
* * * *
19455335 TGTAAGACCATGTCTGGAACATGGCATCGGCACCGACAGATGAAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-TCG--ATATGAGAGCCAG
*
19455385 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-CTCG--ATATGAGAGCCAG
* * * *
19455435 TGTAAGAGCATGTCTGGGACATGGCATCGGCTTTGATGTGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-TCGATATGAGAGCCAG
19455483 TGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
19455514 ATCTTACCCT
Statistics
Matches: 181, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
45 29 0.16
46 8 0.04
47 15 0.08
48 50 0.28
49 2 0.01
50 76 0.42
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCTCGATATGAGAGCCAG
Found at i:19455504 original size:98 final size:100
Alignment explanation
Indices: 19455331--19455513 Score: 280
Period size: 98 Copynumber: 1.9 Consensus size: 100
19455321 TTGATATGTT
19455331 TCAGTGTAAGACCATGTCTGGAACATGGCATCGGCACCGACAGATGAAAGCCAGTGTAAGACCAT
1 TCAGTGTAAGACCATGTCTGGAACATGGCATCGGCACCGACAGATGAAAGCCAGTGTAAGACCAT
19455396 GTCTGGGACATGGCATCGGCCTCGATATATGAGAG
66 GTCTGGGACATGGCATCGGCCTCGATATATGAGAG
* * *** * **
19455431 TCAGTGTAAGAGCATGTCTGGGACATGGCATCGGCTTTGA-TG-TGTGAGCCAGTGTAAGACCAT
1 TCAGTGTAAGACCATGTCTGGAACATGGCATCGGCACCGACAGATGAAAGCCAGTGTAAGACCAT
19455494 GTCTGGGACATGGCATCGGC
66 GTCTGGGACATGGCATCGGC
19455514 ATCTTACCCT
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
98 39 0.52
99 1 0.01
100 35 0.47
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (100 bp):
TCAGTGTAAGACCATGTCTGGAACATGGCATCGGCACCGACAGATGAAAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCCTCGATATATGAGAG
Found at i:19456514 original size:32 final size:32
Alignment explanation
Indices: 19456468--19456531 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
19456458 CATATTGCTT
* *
19456468 ATTATTTTCATATGGACTTACTAAGCGTAAAG
1 ATTAATTTCATATGGACTTACTAAGCATAAAG
19456500 ATTAATTTCATATGGACTTACTAAGCATAAAG
1 ATTAATTTCATATGGACTTACTAAGCATAAAG
19456532 CTTACTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (32 bp):
ATTAATTTCATATGGACTTACTAAGCATAAAG
Found at i:19459255 original size:43 final size:43
Alignment explanation
Indices: 19459184--19459356 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
19459174 AGCTCATACA
* * *
19459184 ATGCC-ATATCCCAGATATGGTCTGACATGTTATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATCG
* * * *
19459226 ATGCCACTATCCCAGACA-GGATCTTACATGAAATCGA-TTAACG
1 ATGCCAATATCCCAGACATGG-TCTTACATGTAATC-ACATATCG
* * *
19459269 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACA-ATACA
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATAT-CG
* * * *
19459312 ATGCCAATGTCCCTGACATGGTTTTACATGTAATCACATCTCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATCG
19459355 AT
1 AT
19459357 AACCTAATGT
Statistics
Matches: 105, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
42 9 0.09
43 92 0.88
44 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:19465055 original size:18 final size:18
Alignment explanation
Indices: 19465034--19465077 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
19465024 GTAGTAATAG
* *
19465034 TAAATAGTGCAGTAACAA
1 TAAACAGTGCAGAAACAA
*
19465052 TAAACAGTGCAGAAACAG
1 TAAACAGTGCAGAAACAA
19465070 TAAACAGT
1 TAAACAGT
19465078 ATGCAAGTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (18 bp):
TAAACAGTGCAGAAACAA
Found at i:19465431 original size:27 final size:27
Alignment explanation
Indices: 19465407--19465666 Score: 259
Period size: 27 Copynumber: 9.7 Consensus size: 27
19465397 GGGTAAAACG
* *
19465407 GTCATCTTACCATAAAAGGGCAAAATA
1 GTCATTTTACCATATAAGGGCAAAATA
*
19465434 GTCATTTTACCATATAAGGGAAAAATA
1 GTCATTTTACCATATAAGGGCAAAATA
* *
19465461 ATCATTTTACTATATAAGGGCAAAATA
1 GTCATTTTACCATATAAGGGCAAAATA
19465488 GTCATTTTACC-TCATAAGGGCAACAAT-
1 GTCATTTTACCAT-ATAAGGGCAA-AATA
* *
19465515 -T-ATTTTACCACATAAAGGCAAAATA
1 GTCATTTTACCATATAAGGGCAAAATA
* * *
19465540 GTCATTTTATCACATAAAGGCAAAATA
1 GTCATTTTACCATATAAGGGCAAAATA
* * *
19465567 GTGATTTTACC-TCATAAGGGAAAAACA
1 GTCATTTTACCAT-ATAAGGGCAAAATA
19465594 GTCATTTTACCACT-TAAGGGCAAAA-A
1 GTCATTTTACCA-TATAAGGGCAAAATA
* *
19465620 GTCATTTTAGCACT-TAAGGGCAAAACA
1 GTCATTTTACCA-TATAAGGGCAAAATA
*
19465647 ATCATTTTACCGAT-TAAGGG
1 GTCATTTTACC-ATATAAGGG
19465667 TCCAAGTATG
Statistics
Matches: 200, Mismatches: 22, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.01
25 17 0.09
26 28 0.14
27 147 0.74
28 4 0.02
29 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (27 bp):
GTCATTTTACCATATAAGGGCAAAATA
Found at i:19465545 original size:79 final size:80
Alignment explanation
Indices: 19465435--19465657 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 80
19465425 GGCAAAATAG
* * *
19465435 TCATTTTACCATATAAGGGAAAAATAATCATTTTACTATATAAGGGCAAAATAGTCATTTTACCT
1 TCATTTTACCACATAAGGGCAAAATAGTCATTTTACTATATAAGGGCAAAATAGTCATTTTACCT
*
19465500 CATAAGGG-CAACAA
66 CATAAGGGAAAACAA
* * * * *
19465514 TTATTTTACCACATAAAGGCAAAATAGTCATTTTA-TCACATAAAGGCAAAATAGTGATTTTACC
1 TCATTTTACCACATAAGGGCAAAATAGTCATTTTACT-ATATAAGGGCAAAATAGTCATTTTACC
*
19465578 TCATAAGGGAAAAACAG
65 TCATAAGGG-AAAACAA
* * *
19465595 TCATTTTACCACTTAAGGGCAAAA-AGTCATTTTAGC-ACT-TAAGGGCAAAACAATCATTTTAC
1 TCATTTTACCACATAAGGGCAAAATAGTCATTTTA-CTA-TATAAGGGCAAAATAGTCATTTTAC
19465657 C
64 C
19465658 GATTAAGGGT
Statistics
Matches: 120, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 63 0.52
80 31 0.26
81 25 0.21
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (80 bp):
TCATTTTACCACATAAGGGCAAAATAGTCATTTTACTATATAAGGGCAAAATAGTCATTTTACCT
CATAAGGGAAAACAA
Found at i:19465598 original size:106 final size:107
Alignment explanation
Indices: 19465407--19465657 Score: 283
Period size: 106 Copynumber: 2.4 Consensus size: 107
19465397 GGGTAAAACG
* * * *
19465407 GTCATCTTACCATA-AAAGGGCAAAATAGTCATTTTACCATATAAGGGAAAAATAATCATTTTAC
1 GTCATTTTACCACATAAA-GGCAAAATAGTCATTTTACCACATAAAGGAAAAATAATCATTTTAC
* * * * *
19465471 TATATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAACAA
65 TACATAAGGGAAAAACAGTCATTTTACCACATAAGGGCAAAAA
* * * * *
19465514 -TTATTTTACCACATAAAGGCAAAATAGTCATTTTATCACATAAAGGCAAAATAGTGATTTTACC
1 GTCATTTTACCACATAAAGGCAAAATAGTCATTTTACCACATAAAGGAAAAATAATCATTTTA-C
*
19465578 T-CATAAGGGAAAAACAGTCATTTTACCACTTAAGGGCAAAAA
65 TACATAAGGGAAAAACAGTCATTTTACCACATAAGGGCAAAAA
* * * * *
19465620 GTCATTTTAGCACTTAAGGGCAAAACAATCATTTTACC
1 GTCATTTTACCACATAAAGGCAAAATAGTCATTTTACC
19465658 GATTAAGGGT
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
106 84 0.71
107 35 0.29
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (107 bp):
GTCATTTTACCACATAAAGGCAAAATAGTCATTTTACCACATAAAGGAAAAATAATCATTTTACT
ACATAAGGGAAAAACAGTCATTTTACCACATAAGGGCAAAAA
Found at i:19467907 original size:13 final size:13
Alignment explanation
Indices: 19467889--19467915 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19467879 GGTCATTTAT
19467889 TAAACTAATTAAC
1 TAAACTAATTAAC
19467902 TAAACTAATTAAC
1 TAAACTAATTAAC
19467915 T
1 T
19467916 GATTAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:19486018 original size:24 final size:24
Alignment explanation
Indices: 19485986--19486038 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
19485976 CCTTAGCCAA
*
19485986 ATTACTCAAACAAAAATCGTAAGC
1 ATTACTCAAACAAAAATCATAAGC
19486010 ATTACTCAAACAAAAATCATAAGC
1 ATTACTCAAACAAAAATCATAAGC
19486034 ATTAC
1 ATTAC
19486039 AAAAAATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.51, C:0.21, G:0.06, T:0.23
Consensus pattern (24 bp):
ATTACTCAAACAAAAATCATAAGC
Found at i:19487991 original size:40 final size:40
Alignment explanation
Indices: 19487908--19488154 Score: 268
Period size: 40 Copynumber: 6.2 Consensus size: 40
19487898 CGGATGATAA
** * **
19487908 CCGGGCTAAGTCCCG-AGAGCATTTGAACTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-T
** *
19487948 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* * * * *
19487988 CCGGGCTAAGTCCCAAAGGCGTTTGTGCAAGATATTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* *
19488028 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
*
19488067 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
* * **
19488107 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
19488147 CC-GGCTAA
1 CCGGGCTAA
19488155 ACTCCGAAGG
Statistics
Matches: 178, Mismatches: 26, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
39 43 0.24
40 132 0.74
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
Found at i:19488096 original size:79 final size:80
Alignment explanation
Indices: 19487947--19488131 Score: 282
Period size: 79 Copynumber: 2.3 Consensus size: 80
19487937 AGTGGCTAAT
* *
19487947 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGCTACTATATCCGGGCTAAGTCCCAAAGGCGTTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGCATTT
* *
19488012 GTGCAAGATATTATG
66 GTGCAAGATACTATA
* * *
19488027 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGCATTT
*
19488091 GTGCAAGTTACTATA
66 GTGCAAGATACTATA
*
19488106 ACCGGGCTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19488132 AGCTAGTGGC
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 59 0.61
80 37 0.39
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCAAAGGCATTT
GTGCAAGATACTATA
Found at i:19488164 original size:79 final size:79
Alignment explanation
Indices: 19487948--19488154 Score: 267
Period size: 79 Copynumber: 2.6 Consensus size: 79
19487938 GTGGCTAATT
* *
19487948 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGCTACTATATCCGGGCTAAGTCCCAAAGGCGTTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TACTATATCCGGGCTAAGTCCCGAAGGCATTT
* **
19488012 GTGCAAGATATTATGT
64 GTGCAAGATACTATAA
* *
19488028 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
19488092 TGCAAGTTACTATAA
65 TGCAAGATACTATAA
* *
19488107 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-ACTATATCCGGGCTAA
19488155 ACTCCGAAGG
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 73 0.66
80 37 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCAAGATACTATAA
Found at i:19495315 original size:5 final size:5
Alignment explanation
Indices: 19495305--19495335 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
19495295 TTGCTTAAAC
19495305 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA A
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA A
19495336 CATTAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTTA
Found at i:19502944 original size:18 final size:18
Alignment explanation
Indices: 19502921--19502956 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19502911 CAACATAGTA
19502921 CTTTTGTTTTGTTATTAG
1 CTTTTGTTTTGTTATTAG
19502939 CTTTTGTTTTGTTATTAG
1 CTTTTGTTTTGTTATTAG
19502957 GTTAAGAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.17, T:0.67
Consensus pattern (18 bp):
CTTTTGTTTTGTTATTAG
Found at i:19507290 original size:9 final size:9
Alignment explanation
Indices: 19507274--19507334 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
19507264 GGTATTTTTC
19507274 GGTAATTCG
1 GGTAATTCG
*
19507283 GTTAATTCG
1 GGTAATTCG
*
19507292 GTTAATTCG
1 GGTAATTCG
*
19507301 GTTAATTCG
1 GGTAATTCG
19507310 GGTAATTCG
1 GGTAATTCG
19507319 GGTAATTCG
1 GGTAATTCG
19507328 GGTAATT
1 GGTAATT
19507335 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.39
Consensus pattern (9 bp):
GGTAATTCG
Found at i:19508140 original size:19 final size:19
Alignment explanation
Indices: 19508116--19508153 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19508106 CTACAGTACA
19508116 AAAGTTGGGCTAGAAGTGG
1 AAAGTTGGGCTAGAAGTGG
19508135 AAAGTTGGGCTAGAAGTGG
1 AAAGTTGGGCTAGAAGTGG
19508154 TTTTGACTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.42, T:0.21
Consensus pattern (19 bp):
AAAGTTGGGCTAGAAGTGG
Found at i:19510703 original size:47 final size:47
Alignment explanation
Indices: 19510594--19510696 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 47
19510584 CCGGGATAAG
** * *
19510594 CACATAGTGCTTCATCGGAACAAATTCGAAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCAAAACAAATCCGAAACTTTAACAGTATAGTA
* * *
19510641 CACAAAGTACTTCATCAAAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCAAAACAAATCCGAAACTTTAACAGTA-TAGTA
19510688 CACATAGTG
1 CACATAGTG
19510697 TCTCATCGGC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
47 44 0.96
48 2 0.04
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCAAAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:19512137 original size:64 final size:64
Alignment explanation
Indices: 19512036--19512165 Score: 233
Period size: 64 Copynumber: 2.0 Consensus size: 64
19512026 GTGAAGGTTC
* * *
19512036 AATAGTAAGACACATTTATTTATGTAATTGATTTTCAAGATTATCAAAATCTAGAATATTTTTA
1 AATAGTAAAACACATTCATTTATGCAATTGATTTTCAAGATTATCAAAATCTAGAATATTTTTA
19512100 AATAGTAAAACACATTCATTTATGCAATTGATTTTCAAGATTATCAAAATCTAGAATATTTTTA
1 AATAGTAAAACACATTCATTTATGCAATTGATTTTCAAGATTATCAAAATCTAGAATATTTTTA
19512164 AA
1 AA
19512166 ATTGGGGGAG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (64 bp):
AATAGTAAAACACATTCATTTATGCAATTGATTTTCAAGATTATCAAAATCTAGAATATTTTTA
Found at i:19514816 original size:26 final size:27
Alignment explanation
Indices: 19514760--19514817 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
19514750 GTCAACAAAT
**
19514760 AGTTTAAATTTTATAAATAAAAATAAAA
1 AGTTTAAAAATTATAAAT-AAAATAAAA
19514788 AGTTTAAAAATTATAAAT-AAATAAAA
1 AGTTTAAAAATTATAAATAAAATAAAA
19514814 AGTT
1 AGTT
19514818 AATTCCAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.43
28 16 0.57
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (27 bp):
AGTTTAAAAATTATAAATAAAATAAAA
Found at i:19521643 original size:24 final size:24
Alignment explanation
Indices: 19521616--19521677 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
19521606 GGATGCTCTA
19521616 AAGAGCTATTAACGGGAAGCTCAC
1 AAGAGCTATTAACGGGAAGCTCAC
* * * *
19521640 AAGAACCATATAATGGGAAGCTCAT
1 AAGAGCTAT-TAACGGGAAGCTCAC
* *
19521665 GAGAGCTAATAAC
1 AAGAGCTATTAAC
19521678 AGGACGCTAT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.18
Consensus pattern (24 bp):
AAGAGCTATTAACGGGAAGCTCAC
Found at i:19525133 original size:4 final size:4
Alignment explanation
Indices: 19525124--19525387 Score: 375
Period size: 4 Copynumber: 66.0 Consensus size: 4
19525114 TAATCTTATG
*
19525124 CATA CATA CATA CATG CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
19525172 CATA CATA CATA CATA CATA CATG CATG CATA CATC CATG CATA CATC
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
19525220 CATG CATA CATG CATA CATA CATA CATA CATA CATA TATA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
19525268 CATA CATG CATA CATG CATA CATA CATG CATA CATG CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
19525316 CATG CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19525364 CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA
19525388 TTGGTAGTAA
Statistics
Matches: 232, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 232 1.00
ACGTcount: A:0.44, C:0.25, G:0.05, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:19531862 original size:44 final size:43
Alignment explanation
Indices: 19531799--19531939 Score: 155
Period size: 43 Copynumber: 3.3 Consensus size: 43
19531789 ACATAGGATC
* * *
19531799 CGATATGTGTTTTTGTGTAAGACCATGTCTAGGATGTTGGCAT
1 CGATATTTGATTTTGTGTAAGACCATGTCTAGGAAGTTGGCAT
*
19531842 CGA-ATTATGATTTATGTGTAAGACCACGTCT-GGAACGTTGGCAT
1 CGATATT-TGATTT-TGTGTAAGACCATGTCTAGGAA-GTTGGCAT
* * *
19531886 C-ATATTTGATTTCGTGTAAGACCCTATCTAGGACAG-TGGCAT
1 CGATATTTGATTTTGTGTAAGACCATGTCTAGGA-AGTTGGCAT
19531928 CGATATTTGATT
1 CGATATTTGATT
19531940 ACATACGCGT
Statistics
Matches: 83, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
42 22 0.27
43 32 0.39
44 29 0.35
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (43 bp):
CGATATTTGATTTTGTGTAAGACCATGTCTAGGAAGTTGGCAT
Found at i:19554306 original size:17 final size:17
Alignment explanation
Indices: 19554284--19554320 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
19554274 GATAGTGTAT
* *
19554284 ACTAAGATTGTAGTAAA
1 ACTAAGACTGTAGCAAA
19554301 ACTAAGACTGTAGCAAA
1 ACTAAGACTGTAGCAAA
19554318 ACT
1 ACT
19554321 GATAAAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (17 bp):
ACTAAGACTGTAGCAAA
Found at i:19556315 original size:9 final size:9
Alignment explanation
Indices: 19556301--19556326 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19556291 TGGCACTGAA
19556301 GGAGCTTAC
1 GGAGCTTAC
19556310 GGAGCTTAC
1 GGAGCTTAC
19556319 GGAGCTTA
1 GGAGCTTA
19556327 AGGCTCAAAT
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:0.19, G:0.35, T:0.23
Consensus pattern (9 bp):
GGAGCTTAC
Found at i:19558693 original size:10 final size:10
Alignment explanation
Indices: 19558680--19558717 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
19558670 TTATTATCAT
19558680 TTATCTTTAG
1 TTATCTTTAG
*
19558690 TTATCTTTAT
1 TTATCTTTAG
19558700 TTAT-TTCTAG
1 TTATCTT-TAG
19558710 TTATCTTT
1 TTATCTTT
19558718 TAGAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 2 0.08
10 20 0.83
11 2 0.08
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
Consensus pattern (10 bp):
TTATCTTTAG
Found at i:19558701 original size:20 final size:20
Alignment explanation
Indices: 19558678--19558717 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
19558668 ATTTATTATC
19558678 ATTTATCTT-TAGTTATCTTT
1 ATTTAT-TTCTAGTTATCTTT
19558698 ATTTATTTCTAGTTATCTTT
1 ATTTATTTCTAGTTATCTTT
19558718 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.20, C:0.10, G:0.05, T:0.65
Consensus pattern (20 bp):
ATTTATTTCTAGTTATCTTT
Found at i:19566457 original size:17 final size:18
Alignment explanation
Indices: 19566435--19566468 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19566425 TTCCAGGGAC
19566435 TAAATTGAA-GGCAAAAG
1 TAAATTGAAGGGCAAAAG
*
19566452 TAAATTTAAGGGCAAAA
1 TAAATTGAAGGGCAAAA
19566469 AGCGCAAATT
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:0.53, C:0.06, G:0.21, T:0.21
Consensus pattern (18 bp):
TAAATTGAAGGGCAAAAG
Found at i:19566641 original size:26 final size:27
Alignment explanation
Indices: 19566605--19566662 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
19566595 TTAATGTTTA
19566605 ATTATATTAGA-ATAATTATTAAGGA-TT
1 ATTATATTAGATATAATT-TT-AGGATTT
*
19566632 ATTAT-TTAGATTTAATTTTAGGATTT
1 ATTATATTAGATATAATTTTAGGATTT
19566658 ATTAT
1 ATTAT
19566663 CATTTATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 4 0.14
26 14 0.50
27 10 0.36
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (27 bp):
ATTATATTAGATATAATTTTAGGATTT
Found at i:19566677 original size:10 final size:10
Alignment explanation
Indices: 19566664--19566702 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
19566654 ATTTATTATC
19566664 ATTTATCTTA
1 ATTTATCTTA
19566674 ATTTATCTTA
1 ATTTATCTTA
*
19566684 ATTTAT-TTGT
1 ATTTATCTT-A
19566694 ATTTATCTT
1 ATTTATCTT
19566703 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (10 bp):
ATTTATCTTA
Found at i:19569435 original size:17 final size:17
Alignment explanation
Indices: 19569400--19569435 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19569390 TTGGGCCGTA
*
19569400 TGGGCCACATGAGCGTG
1 TGGGCCACATGAGCATG
*
19569417 TGGGCCACATGGGCATG
1 TGGGCCACATGAGCATG
19569434 TG
1 TG
19569436 ACCCCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.22, G:0.42, T:0.19
Consensus pattern (17 bp):
TGGGCCACATGAGCATG
Found at i:19570064 original size:24 final size:26
Alignment explanation
Indices: 19570037--19570093 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
19570027 CTTTTTTTAT
*
19570037 TAAATAAAAAAC-TTT-AAAATATAA
1 TAAATAAAAAACATTTAAAAACATAA
* *
19570061 TAAATCAAATACATTTAAAAACATAA
1 TAAATAAAAAACATTTAAAAACATAA
19570087 -AAATAAA
1 TAAATAAA
19570094 TATTAAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 10 0.37
25 9 0.33
26 8 0.30
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (26 bp):
TAAATAAAAAACATTTAAAAACATAA
Found at i:19576132 original size:8 final size:8
Alignment explanation
Indices: 19576092--19576159 Score: 56
Period size: 8 Copynumber: 9.0 Consensus size: 8
19576082 TTTTCTTTTG
19576092 TTATTATT
1 TTATTATT
19576100 TTATT-TT
1 TTATTATT
19576107 TT-TTA--
1 TTATTATT
19576112 TT-TTATT
1 TTATTATT
*
19576119 TAATTATT
1 TTATTATT
19576127 TTATTATT
1 TTATTATT
* *
19576135 GCTGTTATT
1 -TTATTATT
*
19576144 TTATTATA
1 TTATTATT
19576152 TTATTATT
1 TTATTATT
19576160 ATTAAATTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
5 5 0.11
6 2 0.04
7 5 0.11
8 29 0.62
9 6 0.13
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (8 bp):
TTATTATT
Found at i:19577700 original size:6 final size:6
Alignment explanation
Indices: 19577689--19577717 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19577679 ATACTTCTTA
19577689 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTT
19577718 GAATCTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:19582396 original size:51 final size:51
Alignment explanation
Indices: 19582338--19582447 Score: 220
Period size: 51 Copynumber: 2.2 Consensus size: 51
19582328 AAACCTTTAA
19582338 TAAAAGTAAAAATATAAATAAGAGTTTTTTTTAAACATTTAATGATTTGTT
1 TAAAAGTAAAAATATAAATAAGAGTTTTTTTTAAACATTTAATGATTTGTT
19582389 TAAAAGTAAAAATATAAATAAGAGTTTTTTTTAAACATTTAATGATTTGTT
1 TAAAAGTAAAAATATAAATAAGAGTTTTTTTTAAACATTTAATGATTTGTT
19582440 TAAAAGTA
1 TAAAAGTA
19582448 TCTGTAAAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (51 bp):
TAAAAGTAAAAATATAAATAAGAGTTTTTTTTAAACATTTAATGATTTGTT
Found at i:19587540 original size:22 final size:23
Alignment explanation
Indices: 19587508--19587560 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
19587498 TCTCTCACAT
*
19587508 TCTCAAATCTCTCTTAA-ATTTC
1 TCTCAATTCTCTCTTAATATTTC
*
19587530 TCTCAATTCTCTCTTAATTTTTC
1 TCTCAATTCTCTCTTAATATTTC
*
19587553 ACTCAATT
1 TCTCAATT
19587561 TTTGTTCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.25, C:0.26, G:0.00, T:0.49
Consensus pattern (23 bp):
TCTCAATTCTCTCTTAATATTTC
Found at i:19590620 original size:21 final size:21
Alignment explanation
Indices: 19590594--19590646 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
19590584 ACCTCCATAT
**
19590594 TCTGGTTCAGTTGGAACTAGC
1 TCTGGTTCAAATGGAACTAGC
* *
19590615 TCTGGTTCAAATGGAATTGGC
1 TCTGGTTCAAATGGAACTAGC
19590636 TCTGGTTCAAA
1 TCTGGTTCAAA
19590647 AAATATTGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (21 bp):
TCTGGTTCAAATGGAACTAGC
Found at i:19590654 original size:21 final size:21
Alignment explanation
Indices: 19590613--19590654 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
19590603 GTTGGAACTA
**
19590613 GCTCTGGTTCAAATGGAATTG
1 GCTCTGGTTCAAATAAAATTG
19590634 GCTCTGGTTCAAA-AAATATTG
1 GCTCTGGTTCAAATAAA-ATTG
19590655 CAATTTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (21 bp):
GCTCTGGTTCAAATAAAATTG
Found at i:19592585 original size:13 final size:14
Alignment explanation
Indices: 19592569--19592610 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
19592559 TTTTAATTTT
19592569 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
19592582 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
19592597 ATTTTAAATAATAT
1 ATTTT-AATAATAT
19592611 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:19592595 original size:16 final size:16
Alignment explanation
Indices: 19592573--19592609 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
19592563 AATTTTATTT
19592573 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
19592590 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
19592605 TAATA
1 TAATA
19592610 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:19592662 original size:15 final size:15
Alignment explanation
Indices: 19592642--19592698 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
19592632 ATTCAATATT
19592642 AATATTTTAATAATA
1 AATATTTTAATAATA
*
19592657 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
19592676 AATATATTAATAATA
1 AATATTTTAATAATA
19592691 AATATTTT
1 AATATTTT
19592699 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:19593195 original size:15 final size:14
Alignment explanation
Indices: 19593156--19593194 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
19593146 CCAAAAAAGT
*
19593156 AAATCATTTTCCAG
1 AAATCATTTTTCAG
19593170 AAATCATTTTTCAG
1 AAATCATTTTTCAG
*
19593184 AAGTCATTTTT
1 AAATCATTTTT
19593195 TGTGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:19593650 original size:15 final size:16
Alignment explanation
Indices: 19593617--19593656 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
19593607 TGATAAATTG
19593617 AAAAATTAAATATTAA
1 AAAAATTAAATATTAA
19593633 AAAAATTAAATATT-A
1 AAAAATTAAATATTAA
19593648 AAAAATTAA
1 AAAAATTAA
19593657 GTATGAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATTAAATATTAA
Found at i:19594054 original size:16 final size:17
Alignment explanation
Indices: 19594022--19594055 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
19594012 CTTAAAAGAA
*
19594022 TATTTTCTTTTTAAAAT
1 TATTTTCTTTATAAAAT
19594039 TATTTT-TTTATAAAAT
1 TATTTTCTTTATAAAAT
19594055 T
1 T
19594056 CAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTCTTTATAAAAT
Found at i:19596233 original size:31 final size:33
Alignment explanation
Indices: 19596194--19596264 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 33
19596184 ATTTACCTCA
*
19596194 TGTT-ACATTTTAGTCACT-TA-CGTTAACGTGT
1 TGTTAACATTTTAGTCACTGAATCGTTAAC-TGT
19596225 TG-TAACATTTTAGTCACTGAATCGTTAACTGT
1 TGTTAACATTTTAGTCACTGAATCGTTAACTGT
19596257 TGTTAACA
1 TGTTAACA
19596265 GTGTAAAGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
30 1 0.03
31 16 0.46
32 6 0.17
33 12 0.34
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTTAACATTTTAGTCACTGAATCGTTAACTGT
Found at i:19597435 original size:18 final size:18
Alignment explanation
Indices: 19597400--19597443 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
19597390 TAATAAATTT
19597400 TATTT-TATTTTTATAAA
1 TATTTATATTTTTATAAA
19597417 TATTTATATTTATTA-AAA
1 TATTTATATTT-TTATAAA
*
19597435 TATTAATAT
1 TATTTATAT
19597444 AAAATATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 16 0.67
19 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATTTATATTTTTATAAA
Found at i:19597610 original size:16 final size:15
Alignment explanation
Indices: 19597570--19597610 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
19597560 TTTTAATTTT
19597570 ATTTT-AATAATAAA
1 ATTTTAAATAATAAA
19597584 A-TTTAAA-AATAATA
1 ATTTTAAATAATAA-A
19597598 ATTTTAAATAATA
1 ATTTTAAATAATA
19597611 TTATTTACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.35
14 5 0.22
15 6 0.26
16 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAAATAATAAA
Found at i:19597663 original size:15 final size:15
Alignment explanation
Indices: 19597643--19597699 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
19597633 ATTCAATATT
19597643 AATATTTTAATAATA
1 AATATTTTAATAATA
*
19597658 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
* *
19597677 AATATATTAACAATA
1 AATATTTTAATAATA
19597692 AATATTTT
1 AATATTTT
19597700 GTAATATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:19598104 original size:32 final size:34
Alignment explanation
Indices: 19598068--19598139 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
19598058 AGGTTTTATG
* * *
19598068 AAATATTTTTA-AGAAATTTGT-TAAACAACAGA
1 AAATATTTTTACACAAATTTATCTAAACAACAAA
*
19598100 AAATA-TTTTACACAAATTTATCTAAACACCAAA
1 AAATATTTTTACACAAATTTATCTAAACAACAAA
19598133 AAATATT
1 AAATATT
19598140 AACTTTTCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 5 0.15
32 13 0.39
33 14 0.42
34 1 0.03
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (34 bp):
AAATATTTTTACACAAATTTATCTAAACAACAAA
Found at i:19600313 original size:12 final size:12
Alignment explanation
Indices: 19600283--19600315 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
19600273 TATATTTTTC
19600283 AAAATT-ATATA
1 AAAATTAATATA
19600294 AAAA-TAATATA
1 AAAATTAATATA
19600305 AAAATTAATAT
1 AAAATTAATAT
19600316 GAATGGACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:19600969 original size:17 final size:17
Alignment explanation
Indices: 19600949--19600982 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19600939 AAATAGATTT
19600949 TTAATTAAAATTTTTAA
1 TTAATTAAAATTTTTAA
19600966 TTAATTAAAATTTTTAA
1 TTAATTAAAATTTTTAA
19600983 ACCTAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATTAAAATTTTTAA
Found at i:19600982 original size:13 final size:13
Alignment explanation
Indices: 19600945--19600969 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19600935 ATGAAAATAG
19600945 ATTTTTAATTAAA
1 ATTTTTAATTAAA
19600958 ATTTTTAATTAA
1 ATTTTTAATTAA
19600970 TTAAAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTTTAATTAAA
Found at i:19603596 original size:20 final size:20
Alignment explanation
Indices: 19603571--19603610 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19603561 AAACTTCTTC
*
19603571 ACTTACTCACTTAATTAAAT
1 ACTTACTCACTTAATCAAAT
*
19603591 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
19603611 TTATTAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:19603987 original size:108 final size:110
Alignment explanation
Indices: 19603843--19604043 Score: 316
Period size: 108 Copynumber: 1.8 Consensus size: 110
19603833 ATCCTTTTGA
* * *
19603843 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAA-CTCACCAA-
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
19603906 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
66 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
* * * *
19603951 AACTTATCAATGCCATGTTTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
19604016 TGTCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
19604044 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 49 0.59
109 7 0.08
110 27 0.33
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATGGT
Found at i:19603998 original size:55 final size:52
Alignment explanation
Indices: 19603796--19604050 Score: 223
Period size: 55 Copynumber: 4.8 Consensus size: 52
19603786 ACGCGGGTAC
* ** * *
19603796 CTTACCATTGCCATGAATTGTCATGGTCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATAAA
*
19603845 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATAAA
* * * * *
19603898 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATGGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCC-TTGCCTTAT--AAA
* * * *
19603953 CTTATCAATGCCATGTTTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATAAA
* * *
19604006 CCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACAT-GTATCCTT
19604051 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
49 40 0.24
52 4 0.02
53 47 0.28
54 8 0.05
55 67 0.40
56 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (52 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATAAA
Found at i:19604808 original size:22 final size:22
Alignment explanation
Indices: 19604780--19604832 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
19604770 CATTAAAAAC
19604780 GGGGCTTGGTATCACTTACTAT
1 GGGGCTTGGTATCACTTACTAT
19604802 GGGGCTTGGTATCACTTACTAT
1 GGGGCTTGGTATCACTTACTAT
*
19604824 GGAGCTTGG
1 GGGGCTTGG
19604833 AAGCTTGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.34
Consensus pattern (22 bp):
GGGGCTTGGTATCACTTACTAT
Found at i:19607386 original size:29 final size:30
Alignment explanation
Indices: 19607338--19607399 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
19607328 TTTATTTTTA
19607338 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
19607368 TTGTTAATTTT-TTTTTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
19607397 TTG
1 TTG
19607400 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:19608806 original size:6 final size:6
Alignment explanation
Indices: 19608780--19608823 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
19608770 CACCCCAAAA
* *
19608780 ACAGAT ACAAAAT ATAGAT ACAGAT ACAGAT ACAGAT ACAGAT A
1 ACAGAT AC-AGAT ACAGAT ACAGAT ACAGAT ACAGAT ACAGAT A
19608824 TAACATGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 29 0.88
7 4 0.12
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.18
Consensus pattern (6 bp):
ACAGAT
Found at i:19611096 original size:16 final size:16
Alignment explanation
Indices: 19611075--19611109 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19611065 CCCTTGTTCT
19611075 TTCTAACAAA-TTTATG
1 TTCTAACAAAGTTT-TG
19611091 TTCTAACAAAGTTTTG
1 TTCTAACAAAGTTTTG
19611107 TTC
1 TTC
19611110 ATCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (16 bp):
TTCTAACAAAGTTTTG
Found at i:19614128 original size:19 final size:19
Alignment explanation
Indices: 19614084--19614129 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19614074 AGTTTATAAA
* *
19614084 ATAAAAAATTTTAAAATTT
1 ATAAAAAATTATAAAAATT
* *
19614103 ATTAAAACTTATAAAAATT
1 ATAAAAAATTATAAAAATT
19614122 ATAAAAAA
1 ATAAAAAA
19614130 AATTGTTATT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAAAAATTATAAAAATT
Found at i:19614627 original size:18 final size:19
Alignment explanation
Indices: 19614604--19614646 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
19614594 ATGTCCAGTA
19614604 ATTTTTAATTT-TTATAAT
1 ATTTTTAATTTATTATAAT
19614622 ATTTTTTTAATTTATTATAAT
1 A--TTTTTAATTTATTATAAT
19614643 ATTT
1 ATTT
19614647 GAATTATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.05
19 3 0.14
20 10 0.45
21 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTAATTTATTATAAT
Found at i:19614630 original size:20 final size:21
Alignment explanation
Indices: 19614605--19614646 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
19614595 TGTCCAGTAA
19614605 TTTTTAATTT-TTATAATATT
1 TTTTTAATTTATTATAATATT
19614625 TTTTTAATTTATTATAATATT
1 TTTTTAATTTATTATAATATT
19614646 T
1 T
19614647 GAATTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTAATTTATTATAATATT
Found at i:19614711 original size:11 final size:11
Alignment explanation
Indices: 19614695--19614738 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
19614685 ATGAAATTTA
*
19614695 AATTTTTCTAT
1 AATTTTTATAT
19614706 AATTTTTATAAT
1 AATTTTTAT-AT
*
19614718 AATTTTTTTAT
1 AATTTTTATAT
*
19614729 GATTTTTATA
1 AATTTTTATA
19614739 ATTTATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (11 bp):
AATTTTTATAT
Found at i:19614733 original size:23 final size:23
Alignment explanation
Indices: 19614695--19614740 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
19614685 ATGAAATTTA
19614695 AATTTTTCTATAATTTTTATAAT
1 AATTTTTCTATAATTTTTATAAT
* *
19614718 AATTTTTTTATGATTTTTATAAT
1 AATTTTTCTATAATTTTTATAAT
19614741 TTATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
AATTTTTCTATAATTTTTATAAT
Found at i:19617641 original size:58 final size:58
Alignment explanation
Indices: 19617551--19617668 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
19617541 TTTCTCTATA
19617551 TTTGGTGTTGGTCTATAGCTTCACAAATAAACATACAGCGAAAACAAGCAGCATCTCT
1 TTTGGTGTTGGTCTATAGCTTCACAAATAAACATACAGCGAAAACAAGCAGCATCTCT
19617609 TTTGGTGTTGGTCTATAGCTTCACAAATAAACATACAGCGAAAACAAGCAGCATCTCT
1 TTTGGTGTTGGTCTATAGCTTCACAAATAAACATACAGCGAAAACAAGCAGCATCTCT
19617667 TT
1 TT
19617669 ATCATTGCTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (58 bp):
TTTGGTGTTGGTCTATAGCTTCACAAATAAACATACAGCGAAAACAAGCAGCATCTCT
Found at i:19633851 original size:13 final size:13
Alignment explanation
Indices: 19633816--19633854 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
19633806 TGTTATGTGA
*
19633816 TGAATTGATGATT
1 TGAATTGATGAAT
*
19633829 TGAACT-ATGAAT
1 TGAATTGATGAAT
19633841 TGAATTGATGAAT
1 TGAATTGATGAAT
19633854 T
1 T
19633855 ATGAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.41
Consensus pattern (13 bp):
TGAATTGATGAAT
Found at i:19634664 original size:153 final size:152
Alignment explanation
Indices: 19634381--19634688 Score: 386
Period size: 153 Copynumber: 2.0 Consensus size: 152
19634371 GGAATGATAT
* * *
19634381 GAATTGATAGTGAATTTGTCATACCCCAAATTTAGCAGATCGAAAAGAAGGCATGTAGATGTTAA
1 GAATTGATAGTGAATTTGTCACACCCCAAATTTAACAGATCGAAAAGAAGGCATGTAAATGTTAA
* * * * *** *
19634446 AGTTATCTGTTTGGCGTACTATAGTAGCATAGTCTGCCAAATTACAAACTTCTGGTGAACTAAAG
66 AGTTATCTATTTGGCATACTATAGCAGCATAATCTGCCAAATTACAAACTTCTAACGAAATAAAG
*
19634511 TTTGACGTAAAGTATCTACTGTA
131 TTTGACG-AAAGTATCCACTGTA
** * *
19634534 GAATATGATAGTGAATTTGTCACA-CCCAATATTTAATGGATCGAGAAGAAGGCGTGTAAATG-T
1 GAAT-TGATAGTGAATTTGTCACACCCCAA-ATTTAACAGATCGAAAAGAAGGCATGTAAATGTT
* * **
19634597 GAAGTTATCTATTTGGCATACTATAGCAGCATAATCTGCCAAATTATAGGCTTCTAACGAAATAA
64 AAAGTTATCTATTTGGCATACTATAGCAGCATAATCTGCCAAATTACAAACTTCTAACGAAATAA
*
19634662 AGTTTGGCGAAAGTATCCACTGTA
129 AGTTTGACGAAAGTATCCACTGTA
19634686 GAA
1 GAA
19634689 GTATCTAAGG
Statistics
Matches: 132, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
152 17 0.13
153 71 0.54
154 44 0.33
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (152 bp):
GAATTGATAGTGAATTTGTCACACCCCAAATTTAACAGATCGAAAAGAAGGCATGTAAATGTTAA
AGTTATCTATTTGGCATACTATAGCAGCATAATCTGCCAAATTACAAACTTCTAACGAAATAAAG
TTTGACGAAAGTATCCACTGTA
Found at i:19636061 original size:23 final size:24
Alignment explanation
Indices: 19636035--19636142 Score: 100
Period size: 23 Copynumber: 4.6 Consensus size: 24
19636025 GTCACATTCT
* *
19636035 GTAACGCCTTTGTGACGTAT-TTA
1 GTAACGCCTTTGTGGCATATATTA
* *
19636058 GTAACACCTTTATGGCATATATT-
1 GTAACGCCTTTGTGGCATATATTA
*
19636081 GTAACGCCTTTGTGTG-GTATATTCTA
1 GTAACGCCTTTGTG-GCATATA-T-TA
*
19636107 -TAACGCCTTTGTGGCATTTATTA
1 GTAACGCCTTTGTGGCATATATTA
19636130 -TAACGCCTTTGTG
1 GTAACGCCTTTGTG
19636143 TGGCATATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
23 47 0.67
24 6 0.09
25 17 0.24
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (24 bp):
GTAACGCCTTTGTGGCATATATTA
Found at i:19636102 original size:25 final size:25
Alignment explanation
Indices: 19636070--19636157 Score: 110
Period size: 25 Copynumber: 3.6 Consensus size: 25
19636060 AACACCTTTA
*
19636070 TGGCATATATTGTAACGCCTTTGTG
1 TGGCATATATTATAACGCCTTTGTG
*
19636095 TGGTATAT-TCTATAACGCC-TT-TG
1 TGGCATATAT-TATAACGCCTTTGTG
*
19636118 TGGCATTTATTATAACGCCTTTGTG
1 TGGCATATATTATAACGCCTTTGTG
*
19636143 TGGCATATTTTATAA
1 TGGCATATATTATAA
19636158 TGCTTGGCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
23 17 0.32
24 6 0.11
25 30 0.57
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (25 bp):
TGGCATATATTATAACGCCTTTGTG
Found at i:19636134 original size:48 final size:48
Alignment explanation
Indices: 19636059--19636157 Score: 144
Period size: 48 Copynumber: 2.1 Consensus size: 48
19636049 ACGTATTTAG
* *
19636059 TAACACCTTTATGGCATATATTGTAACGCCTTTGTGTGGTATATTCTA
1 TAACACCTTTATGGCATATATTATAACGCCTTTGTGTGGCATATTCTA
* * * *
19636107 TAACGCCTTTGTGGCATTTATTATAACGCCTTTGTGTGGCATATTTTA
1 TAACACCTTTATGGCATATATTATAACGCCTTTGTGTGGCATATTCTA
19636155 TAA
1 TAA
19636158 TGCTTGGCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.42
Consensus pattern (48 bp):
TAACACCTTTATGGCATATATTATAACGCCTTTGTGTGGCATATTCTA
Found at i:19636151 original size:23 final size:23
Alignment explanation
Indices: 19636076--19636151 Score: 84
Period size: 23 Copynumber: 3.2 Consensus size: 23
19636066 TTTATGGCAT
* *
19636076 ATATTGTAACGCCTTTGTGTGGT
1 ATATTATAACGCCTTTGTGTGGC
19636099 ATATTCTATAACGCC-TT-TGTGGC
1 ATA-T-TATAACGCCTTTGTGTGGC
19636122 ATTTATTATAACGCCTTTGTGTGGC
1 A--TATTATAACGCCTTTGTGTGGC
19636147 ATATT
1 ATATT
19636152 TTATAATGCT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
23 22 0.49
24 6 0.13
25 17 0.38
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (23 bp):
ATATTATAACGCCTTTGTGTGGC
Found at i:19636177 original size:19 final size:19
Alignment explanation
Indices: 19636143--19636179 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19636133 CGCCTTTGTG
*
19636143 TGGCATATTTTATAATGCT
1 TGGCATATTCTATAATGCT
*
19636162 TGGCATATTCTGTAATGC
1 TGGCATATTCTATAATGC
19636180 CTTTGAGGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (19 bp):
TGGCATATTCTATAATGCT
Found at i:19641414 original size:25 final size:25
Alignment explanation
Indices: 19641374--19641436 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
19641364 AAACACTTTA
*
19641374 ATATTTTTTAA-CTTTAAAATACAT
1 ATATTTTTTAATTTTTAAAATACAT
** *
19641398 ATATTTTTTAATTTTTATTATATAT
1 ATATTTTTTAATTTTTAAAATACAT
19641423 AT-TTATTTTAATTT
1 ATATT-TTTTAATTT
19641437 ATTATTCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 13 0.39
25 20 0.61
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (25 bp):
ATATTTTTTAATTTTTAAAATACAT
Found at i:19641422 original size:23 final size:26
Alignment explanation
Indices: 19641396--19641442 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
19641386 TTTAAAATAC
19641396 ATATA-TT-TTTTAATTT-TTATTAT
1 ATATATTTATTTTAATTTATTATTAT
19641419 ATATATTTATTTTAATTTATTATT
1 ATATATTTATTTTAATTTATTATT
19641443 CTTTATAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 2 0.10
25 9 0.43
26 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
ATATATTTATTTTAATTTATTATTAT
Found at i:19641456 original size:26 final size:25
Alignment explanation
Indices: 19641403--19641456 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
19641393 TACATATATT
* *
19641403 TTTTAATTTTTATTATATATATTTA
1 TTTTAATTTTTATTATATATAGTCA
* *
19641428 TTTTAATTTATTATTCTTTATAGTCA
1 TTTTAATTT-TTATTATATATAGTCA
19641454 TTT
1 TTT
19641457 ATTACTACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTAATTTTTATTATATATAGTCA
Found at i:19650862 original size:27 final size:27
Alignment explanation
Indices: 19650824--19650882 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
19650814 CATCATGTTA
19650824 ACCTTTGTGGCGTACTCTAAATGGATT
1 ACCTTTGTGGCGTACTCTAAATGGATT
*
19650851 ACCTTTGTGGCGTACTCTGAATGGATT
1 ACCTTTGTGGCGTACTCTAAATGGATT
*
19650878 GCCTT
1 ACCTT
19650883 ATGGCAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (27 bp):
ACCTTTGTGGCGTACTCTAAATGGATT
Done.