Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 212 of 250
Found at i:65995952 original size:21 final size:20
Alignment explanation
Indices: 65995894--65995951 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
65995884 TTATTTTTAC
65995894 TATTATTTATAT-TAT-TAT
1 TATTATTTATATATATATAT
* *
65995912 TATTATTTCTCATGTATATAT
1 TATTATTTAT-ATATATATAT
65995933 TATTATTTATAT-TATATAT
1 TATTATTTATATATATATAT
65995952 ACCCTCTCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 9 0.26
19 9 0.26
20 5 0.14
21 12 0.34
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTATTTATATATATATAT
Found at i:65996028 original size:3 final size:3
Alignment explanation
Indices: 65996022--65996075 Score: 58
Period size: 3 Copynumber: 17.7 Consensus size: 3
65996012 TTCTGACTAC
*
65996022 TAT TAT TA- TAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
65996068 TAT TAT TA
1 TAT TAT TA
65996076 ATATCACCCC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 3 0.07
3 35 0.78
4 7 0.16
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:66002631 original size:12 final size:12
Alignment explanation
Indices: 66002607--66002686 Score: 74
Period size: 12 Copynumber: 6.6 Consensus size: 12
66002597 GAGAGGGTAT
66002607 ATATAATATAATA
1 ATATAA-ATAATA
66002620 ATATAAATAATA
1 ATATAAATAATA
* *
66002632 ATATATACATGAGA
1 ATATA-A-ATAATA
66002646 A-AT-AATAATA
1 ATATAAATAATA
66002656 ATATAAATAATA
1 ATATAAATAATA
* *
66002668 GTAAAAATAATA
1 ATATAAATAATA
*
66002680 AAATAAA
1 ATATAAA
66002687 AAAAATAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.09
11 3 0.06
12 32 0.59
13 9 0.17
14 5 0.09
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:66002682 original size:9 final size:9
Alignment explanation
Indices: 66002616--66002694 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
66002606 TATATAATAT
*
66002616 AATAATATA
1 AATAATAAA
66002625 AATAATAATA
1 AATAATAA-A
* *
66002635 TATACATGAGA
1 AATA-AT-AAA
*
66002646 AATAATAAT
1 AATAATAAA
66002655 AAT-ATAAA
1 AATAATAAA
*
66002663 TAATAGTAAA
1 -AATAATAAA
66002673 AATAAT-AA
1 AATAATAAA
*
66002681 AATAAAAAA
1 AATAATAAA
66002690 AATAA
1 AATAA
66002695 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
8 11 0.20
9 26 0.48
10 10 0.19
11 6 0.11
12 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (9 bp):
AATAATAAA
Found at i:66003225 original size:30 final size:30
Alignment explanation
Indices: 66003191--66003275 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 30
66003181 ATTTGATGGT
*
66003191 GTAGGTGCAAGTGGGAGATAAGGTGGTAGA
1 GTAGGTGCAAGTGGGAGACAAGGTGGTAGA
* * *
66003221 GTAGGTGCAAGTGGGAGGCAATGTGGTGGA
1 GTAGGTGCAAGTGGGAGACAAGGTGGTAGA
*
66003251 GTAGGTGCAAGTGGAAG-CAAGGTGG
1 GTAGGTGCAAGTGGGAGACAAGGTGG
66003276 CTAGGGTTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
29 7 0.14
30 42 0.86
ACGTcount: A:0.27, C:0.06, G:0.48, T:0.19
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGACAAGGTGGTAGA
Found at i:66004867 original size:28 final size:28
Alignment explanation
Indices: 66004835--66004889 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
66004825 AGGTTGTAAA
66004835 AGAGCCTATTTATAGGCTAAATTCATAT
1 AGAGCCTATTTATAGGCTAAATTCATAT
66004863 AGAGCCTATTTATAGGCTAAATTCATA
1 AGAGCCTATTTATAGGCTAAATTCATA
66004890 GGTCAAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (28 bp):
AGAGCCTATTTATAGGCTAAATTCATAT
Found at i:66008148 original size:33 final size:33
Alignment explanation
Indices: 66008111--66008184 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
66008101 ATAATATCAT
* * *
66008111 ATAATATCCCATTAGGAATTAAATTGTTAATAG
1 ATAATATCCCATTAGGAATTAAATTGCTAAGAA
* *
66008144 ATAATATCTCATTAGGAATTAATTTGCTAAGAA
1 ATAATATCCCATTAGGAATTAAATTGCTAAGAA
66008177 ATAATATC
1 ATAATATC
66008185 ACATAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (33 bp):
ATAATATCCCATTAGGAATTAAATTGCTAAGAA
Found at i:66013888 original size:18 final size:17
Alignment explanation
Indices: 66013867--66013907 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
66013857 TTATTTTTTA
*
66013867 AAAAAATTTAAAATTATT
1 AAAAAATATAAAATTA-T
*
66013885 AAAAAGTATAAAATTAT
1 AAAAAATATAAAATTAT
66013902 AAAAAA
1 AAAAAA
66013908 AAATTTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAAAATATAAAATTAT
Found at i:66016370 original size:13 final size:13
Alignment explanation
Indices: 66016354--66016383 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
66016344 ATTGTCATGT
66016354 AATTGTTTTTCTG
1 AATTGTTTTTCTG
66016367 AATTGTTTTTCTG
1 AATTGTTTTTCTG
66016380 AATT
1 AATT
66016384 TAGCTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
AATTGTTTTTCTG
Found at i:66017412 original size:157 final size:157
Alignment explanation
Indices: 66017242--66017551 Score: 548
Period size: 157 Copynumber: 2.0 Consensus size: 157
66017232 TAAAGAATAT
*
66017242 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
66017307 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
66017372 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
66017399 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
66017464 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
*
66017529 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
66017552 ATGCTAAGGG
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 145 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:66017703 original size:16 final size:16
Alignment explanation
Indices: 66017682--66017733 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
66017672 GATTTGCTAT
*
66017682 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
66017698 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
66017714 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
66017730 TACA
1 TACA
66017734 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:66031524 original size:30 final size:29
Alignment explanation
Indices: 66031465--66031524 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 29
66031455 AACTATTTAT
* * *
66031465 ATATTTATATAATTTTTATTTTTTTTTGA
1 ATATTTATATAATTTTAATTATTTGTTGA
66031494 ATATTT-TATAACTTTTAAATTATTTGTTGA
1 ATATTTATATAA-TTTT-AATTATTTGTTGA
66031524 A
1 A
66031525 GTGACACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 5 0.19
29 10 0.38
30 11 0.42
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (29 bp):
ATATTTATATAATTTTAATTATTTGTTGA
Found at i:66034756 original size:16 final size:16
Alignment explanation
Indices: 66034732--66034783 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
66034722 TGGTTTATTG
*
66034732 TAATAGAATAAGGCTA
1 TAATAGAATAAAGCTA
*
66034748 TAATTGAATAAAGCTA
1 TAATAGAATAAAGCTA
* * *
66034764 TAATGGAATAGAGCTG
1 TAATAGAATAAAGCTA
66034780 TAAT
1 TAAT
66034784 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (16 bp):
TAATAGAATAAAGCTA
Found at i:66034858 original size:44 final size:46
Alignment explanation
Indices: 66034765--66034858 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
66034755 ATAAAGCTAT
* *
66034765 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTAGTTGAATGG
***
66034811 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTAGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTAGTTGAATGG
66034855 AATG
1 AATG
66034859 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 22 0.51
45 3 0.07
46 18 0.42
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTAGTTGAATGG
Found at i:66035068 original size:12 final size:12
Alignment explanation
Indices: 66035022--66035068 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
66035012 TAACATAACT
66035022 ATTATTAAATATA
1 ATTATT-AATATA
*
66035035 A-T-TTAATAAA
1 ATTATTAATATA
66035045 ATTATTAATATA
1 ATTATTAATATA
*
66035057 ATTATTATTATA
1 ATTATTAATATA
66035069 TGAATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
10 6 0.21
11 3 0.10
12 19 0.66
13 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATTATTAATATA
Found at i:66036824 original size:21 final size:23
Alignment explanation
Indices: 66036800--66036843 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
66036790 TTGAAAACAT
66036800 GAAT-GAAATAAAAAAA-AAAGA
1 GAATGGAAATAAAAAAACAAAGA
**
66036821 GAATGGTGATAAAAAAACAAAGA
1 GAATGGAAATAAAAAAACAAAGA
66036844 AACTTTTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.68, C:0.02, G:0.18, T:0.11
Consensus pattern (23 bp):
GAATGGAAATAAAAAAACAAAGA
Found at i:66041875 original size:25 final size:24
Alignment explanation
Indices: 66041826--66041885 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
66041816 TTGACCATTT
66041826 AATATGTAAA-AAAATATTTAAATA
1 AATAT-TAAATAAAATATTTAAATA
* *
66041850 ATTATTAAATAAAATATTTCATATA
1 AATATTAAATAAAATATTT-AAATA
66041875 AATATTAAATA
1 AATATTAAATA
66041886 TATAATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.13
24 13 0.42
25 14 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
AATATTAAATAAAATATTTAAATA
Found at i:66041901 original size:18 final size:19
Alignment explanation
Indices: 66041855--66041902 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
66041845 AAATAATTAT
* *
66041855 TAAATA-AAATATTTCATA
1 TAAATATAAATATATAATA
66041873 TAAATATTAAATATATAATA
1 TAAATA-TAAATATATAATA
66041893 -AAATATAAAT
1 TAAATATAAAT
66041903 GTAAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 11 0.42
19 5 0.19
20 10 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATAAATATATAATA
Found at i:66041997 original size:24 final size:23
Alignment explanation
Indices: 66041940--66041998 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
66041930 CAACTATTAC
* *
66041940 ATAATGATTATATAAGTTTTTTT
1 ATAATGAATATAAAAGTTTTTTT
* *
66041963 ATTTATAAATATAAAACGTTTTTTT
1 A-TAATGAATATAAAA-GTTTTTTT
66041988 ATAATGAATAT
1 ATAATGAATAT
66041999 GATTTTAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 1 0.04
24 18 0.64
25 9 0.32
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.51
Consensus pattern (23 bp):
ATAATGAATATAAAAGTTTTTTT
Found at i:66042279 original size:21 final size:21
Alignment explanation
Indices: 66042237--66042280 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
66042227 TTTTCACTAT
*
66042237 TACAATAATTAATCTCATCAC
1 TACAATAATTAATCTCACCAC
* * *
66042258 TACATTAATTAATTTTACCAC
1 TACAATAATTAATCTCACCAC
66042279 TA
1 TA
66042281 TCGTTATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (21 bp):
TACAATAATTAATCTCACCAC
Found at i:66043090 original size:18 final size:18
Alignment explanation
Indices: 66043069--66043103 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
66043059 AAAAAAAACT
66043069 AATAACATA-ATTTAATTA
1 AATAA-ATATATTTAATTA
66043087 AATAAATATATTTAATT
1 AATAAATATATTTAATT
66043104 GCTATTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAAATATATTTAATTA
Found at i:66045986 original size:46 final size:46
Alignment explanation
Indices: 66045926--66046149 Score: 317
Period size: 46 Copynumber: 4.9 Consensus size: 46
66045916 TTTGACATGA
* * * * ** * *
66045926 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGCCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** *
66045972 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCA-AGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA-TCAGGC
66046018 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
66046064 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
66046110 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
66046150 CCAGAGAGCA
Statistics
Matches: 164, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
45 4 0.02
46 159 0.97
47 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:66046617 original size:49 final size:49
Alignment explanation
Indices: 66046561--66046658 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
66046551 TTCATCACAT
66046561 AACCACATATTTCAAGTATTTAAAATACAATTCAAGTTACACAAACTTA
1 AACCACATATTTCAAGTATTTAAAATACAATTCAAGTTACACAAACTTA
66046610 AACCACATATTTCAAGTATTTAAAATACAATTCAAGTTACACAAACTTA
1 AACCACATATTTCAAGTATTTAAAATACAATTCAAGTTACACAAACTTA
66046659 CCTCATTGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (49 bp):
AACCACATATTTCAAGTATTTAAAATACAATTCAAGTTACACAAACTTA
Found at i:66048376 original size:16 final size:17
Alignment explanation
Indices: 66048345--66048390 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
66048335 TCATCCTTTC
*
66048345 TTTCTTTTTCTATTCTT
1 TTTCTTTTTATATTCTT
66048362 TTTCTTTTTAT-TTCTT
1 TTTCTTTTTATATTCTT
* *
66048378 TTACTTTATATAT
1 TTTCTTTTTATAT
66048391 ATATATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTATATTCTT
Found at i:66048379 original size:10 final size:10
Alignment explanation
Indices: 66048341--66048378 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
66048331 CGTTTCATCC
66048341 TTTCTTTCTT
1 TTTCTTTCTT
66048351 TTTCTATTCTT
1 TTTCT-TTCTT
66048362 TTTCTTT-TT
1 TTTCTTTCTT
66048371 ATTTCTTT
1 -TTTCTTT
66048379 TACTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:66053406 original size:36 final size:36
Alignment explanation
Indices: 66053377--66053450 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
66053367 GCTCATCCAG
*
66053377 AGTTGTGAGCTCATCGAAAGCTGTAAGCTCAAACAA
1 AGTTGCGAGCTCATCGAAAGCTGTAAGCTCAAACAA
* * **
66053413 AGTTGCGAGCTCTTTGAAAGCTGCGAGCTCAAACAA
1 AGTTGCGAGCTCATCGAAAGCTGTAAGCTCAAACAA
66053449 AG
1 AG
66053451 ACGCAAATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (36 bp):
AGTTGCGAGCTCATCGAAAGCTGTAAGCTCAAACAA
Found at i:66053423 original size:18 final size:18
Alignment explanation
Indices: 66053402--66053450 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
66053392 GAAAGCTGTA
*
66053402 AGCTCAAACAAAGTTGCG
1 AGCTCAAACAAAGCTGCG
****
66053420 AGCTCTTTGAAAGCTGCG
1 AGCTCAAACAAAGCTGCG
66053438 AGCTCAAACAAAG
1 AGCTCAAACAAAG
66053451 ACGCAAATTC
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.18
Consensus pattern (18 bp):
AGCTCAAACAAAGCTGCG
Found at i:66053493 original size:16 final size:17
Alignment explanation
Indices: 66053459--66053493 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
66053449 AGACGCAAAT
66053459 TCATCAAAGATGAGAGC
1 TCATCAAAGATGAGAGC
*
66053476 TCATCAAAG-TGCGAGC
1 TCATCAAAGATGAGAGC
66053492 TC
1 TC
66053494 TTAAGTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (17 bp):
TCATCAAAGATGAGAGC
Found at i:66055087 original size:22 final size:23
Alignment explanation
Indices: 66055048--66055092 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
66055038 CTCAGTTGCC
66055048 TTATATAATTTTCTATAA-GTTT
1 TTATATAATTTTCTATAATGTTT
*
66055070 TTATA-AATTTTTTAATAATGTTT
1 TTATATAATTTTCT-ATAATGTTT
66055093 CTGTAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 9 0.45
23 4 0.20
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (23 bp):
TTATATAATTTTCTATAATGTTT
Found at i:66060804 original size:31 final size:31
Alignment explanation
Indices: 66060757--66060878 Score: 163
Period size: 31 Copynumber: 3.9 Consensus size: 31
66060747 AAAGGACAAA
* * *
66060757 TGATAAGTCAAAAGTGGTAGCTTCGGTTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
66060788 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
* * *
66060819 TGATCTGTGAAAAATAGTAGCTTCGGCTACC
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
* * *
66060850 TTATCAATGAATAGTGGTAGCTTCGGCTA
1 TGATCAGTGAAAAGTGGTAGCTTCGGCTA
66060879 AAAGTGACAA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (31 bp):
TGATCAGTGAAAAGTGGTAGCTTCGGCTACC
Found at i:66061113 original size:10 final size:10
Alignment explanation
Indices: 66061098--66061125 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
66061088 ATGCTATGGC
66061098 ATCAGTGATT
1 ATCAGTGATT
66061108 ATCAGTGATT
1 ATCAGTGATT
66061118 ATCAGTGA
1 ATCAGTGA
66061126 AATTTAGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (10 bp):
ATCAGTGATT
Found at i:66063114 original size:21 final size:22
Alignment explanation
Indices: 66063080--66063124 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
66063070 AAAAGAATAT
**
66063080 AATAAATTGTGAAA-AATATGA
1 AATAAATTAAGAAATAATATGA
*
66063101 AATAAATTAAGAAATAGTATGA
1 AATAAATTAAGAAATAATATGA
66063123 AA
1 AA
66063125 ATAATATGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.27
Consensus pattern (22 bp):
AATAAATTAAGAAATAATATGA
Found at i:66063428 original size:94 final size:94
Alignment explanation
Indices: 66063320--66063522 Score: 282
Period size: 94 Copynumber: 2.2 Consensus size: 94
66063310 AATAAGATCA
* * * * * *
66063320 GTTGTGATCGTAAATCATCTAATTG-TTAGGAGTAGCGATACTAAATCAACTAACTCATAGAAGA
1 GTTGTGATCGTAAATCAACGAACTGTTTA-AAGTAGCGATAATAAATCAACTAACTCATAAAAGA
* *
66063384 TTGTTCATGATCATAAATCAGTGAACTTAG
65 TTGTTCATGATCATAAACCAATGAACTTAG
* * *
66063414 GTTGTGATCGTAAATCAACGAACTGTTTAAAGTAGTGATAATAAATCAGCTAATTCATAAAAGAT
1 GTTGTGATCGTAAATCAACGAACTGTTTAAAGTAGCGATAATAAATCAACTAACTCATAAAAGAT
66063479 TGTTCATGATCATAAACCAATGAACTTAG
66 TGTTCATGATCATAAACCAATGAACTTAG
*
66063508 GTTATGATCGTAAAT
1 GTTGTGATCGTAAAT
66063523 TAGTGAGTCT
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 93 0.97
95 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (94 bp):
GTTGTGATCGTAAATCAACGAACTGTTTAAAGTAGCGATAATAAATCAACTAACTCATAAAAGAT
TGTTCATGATCATAAACCAATGAACTTAG
Found at i:66073904 original size:20 final size:21
Alignment explanation
Indices: 66073879--66073928 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
66073869 GCCAACAGTG
*
66073879 AAAAAAAACA-CTAAAAAC-A
1 AAAAAAAAAAGCTAAAAACGA
*
66073898 AAAAAAAAAAGCTGAAAACGA
1 AAAAAAAAAAGCTAAAAACGA
*
66073919 AAAATAAAAA
1 AAAAAAAAAA
66073929 TAAAAAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 9 0.35
20 7 0.27
21 10 0.38
ACGTcount: A:0.78, C:0.10, G:0.06, T:0.06
Consensus pattern (21 bp):
AAAAAAAAAAGCTAAAAACGA
Found at i:66073915 original size:21 final size:19
Alignment explanation
Indices: 66073879--66073933 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
66073869 GCCAACAGTG
*
66073879 AAAAAAAACACTAAAAAC-A
1 AAAAAAAAAACT-AAAACGA
66073898 AAAAAAAAAAGCTGAAAACGA
1 AAAAAAAAAA-CT-AAAACGA
*
66073919 AAAATAAAAA-TAAAA
1 AAAAAAAAAACTAAAA
66073934 AAAAGGTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 4 0.13
19 10 0.32
20 7 0.23
21 10 0.32
ACGTcount: A:0.78, C:0.09, G:0.05, T:0.07
Consensus pattern (19 bp):
AAAAAAAAAACTAAAACGA
Found at i:66074088 original size:9 final size:9
Alignment explanation
Indices: 66074074--66074160 Score: 53
Period size: 9 Copynumber: 10.3 Consensus size: 9
66074064 TTCGGGAGCA
66074074 AAGAAGGAG
1 AAGAAGGAG
66074083 AAG-A--AG
1 AAGAAGGAG
*
66074089 AA-AAGGAA
1 AAGAAGGAG
66074097 AAGAAGGAG
1 AAGAAGGAG
*
66074106 AATAAGGA-
1 AAGAAGGAG
66074114 AAGAA-GAG
1 AAGAAGGAG
*
66074122 AAGAAGAAG
1 AAGAAGGAG
**
66074131 AAAGAAAAAG
1 -AAGAAGGAG
*
66074141 AAG-GGGAG
1 AAGAAGGAG
*
66074149 GAGAAGGAG
1 AAGAAGGAG
66074158 AAG
1 AAG
66074161 GAGGCCGGCA
Statistics
Matches: 58, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
6 5 0.09
7 2 0.03
8 17 0.29
9 26 0.45
10 8 0.14
ACGTcount: A:0.61, C:0.00, G:0.38, T:0.01
Consensus pattern (9 bp):
AAGAAGGAG
Found at i:66074099 original size:23 final size:22
Alignment explanation
Indices: 66074073--66074138 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
66074063 TTTCGGGAGC
66074073 AAAGAAGGAGAAGAAGAAAAGGA
1 AAAGAAGGAGAAGAAGAAAA-GA
* *
66074096 AAAGAAGGAGAATAAGGAAAGA
1 AAAGAAGGAGAAGAAGAAAAGA
* *
66074118 AGAGAAGAAGAAGAAAGAAAA
1 AAAGAAGGAGAAG-AAGAAAA
66074139 AGAAGGGGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.33
23 24 0.67
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.02
Consensus pattern (22 bp):
AAAGAAGGAGAAGAAGAAAAGA
Found at i:66074634 original size:17 final size:17
Alignment explanation
Indices: 66074604--66074675 Score: 60
Period size: 17 Copynumber: 4.4 Consensus size: 17
66074594 CCTTTTACAA
* *
66074604 AAAATAGTATAAAAAAT
1 AAAATACTAGAAAAAAT
66074621 AAAATACT--AAAAAAT
1 AAAATACTAGAAAAAAT
* * *
66074636 ATATTAAT-GAAAAAAT
1 AAAATACTAGAAAAAAT
* *
66074652 AAAATACGAGAAGAAAT
1 AAAATACTAGAAAAAAT
66074669 AAAATAC
1 AAAATAC
66074676 AAAAAAAAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
15 12 0.27
16 11 0.25
17 21 0.48
ACGTcount: A:0.68, C:0.04, G:0.07, T:0.21
Consensus pattern (17 bp):
AAAATACTAGAAAAAAT
Found at i:66075229 original size:298 final size:298
Alignment explanation
Indices: 66074720--66076713 Score: 3283
Period size: 298 Copynumber: 6.7 Consensus size: 298
66074710 GAGTTTTTTG
* ** * * *
66074720 CTAAAATAATATAAA-ATATAAAATATAAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* * * *
66074784 AAAAATACGAACAATGTGCCAAAGTCAGGGTTATTTATTAAATTAATAT-AAAAA-ACTTAAATA
66 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTA
* * * *
66074847 ATACATTTGAAACATTTTTTTCTAAAATCATAT-TAAA-AAAATACGAAAATAATATATTTTAAA
131 ATACATTTGAAACATTTTTTGCTAAAATAATATAAAAATAAAATACAAAAATAATATATTTTAAA
66074910 AATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-AAAAAATA
196 AATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
*
66074974 TAAAAAACACTTATATAATACATTTGAAACATTATGTA
261 TAAAAAACACTTAAATAATACATTTGAAACATTATGTA
*
66075012 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT-A
**
66075077 AAAAAATACGAAGAAAGTGCCAAAATCAGTATTATTTATTAAATTAATATAAAAAACACTTAAGT
65 AAAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGT
*
66075142 AATACATTTGAAACATTTCTTGCTAAAATAATATAAAAATAAAATACAAAAATAATATATTTTAA
130 AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAATAAAATACAAAAATAATATATTTTAA
*
66075207 AAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCTGGGTTATTTATTAAAAAAAT
195 AAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAAT
*
66075272 ATAAAAAACACTTAAATAATGCATTTGAAACATTATGTA
260 ATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
*
66075311 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
**
66075376 AAAAATACGAAGAAAGTGCCAAAATCAGTATTATTTATTAAATTAATATAAAAAACACTTAAGTA
66 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTA
* *
66075441 ATACATTTGAAACATTTCTTGCTAAAATAATATAAAAATAAAATACGAAAATAATATATTTTAAA
131 ATACATTTGAAACATTTTTTGCTAAAATAATATAAAAATAAAATACAAAAATAATATATTTTAAA
66075506 AATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
196 AATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
*
66075571 TAAAAAACACTTAAATAATGCATTTGAAACATTATGTA
261 TAAAAAACACTTAAATAATACATTTGAAACATTATGTA
66075609 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAT-A
* * * *
66075674 AAAAAATACGAAAAAAAGTGCAAAAATTAGGGTTATTTATTAAATTAATATAAAAAAAACTTAAG
65 AAAAAATACG-AAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAG
66075739 TAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAATAAAATACAAAAATAATATATTTT
129 TAATACATTTGAAACATTTTTTGCTAAAATAATAT-AAAAATAAAATACAAAAATAATATATTTT
*
66075804 AAAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATTAGGGTTATTTATT-AAAA
193 -AAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAA
*
66075868 AATATAAAAAAACACTTATATAATACATTTGAAACATTATGTA
257 AATAT-AAAAAACACTTAAATAATACATTTGAAACATTATGTA
66075911 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* *
66075976 AAAAATATGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACATTTACA-
66 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAACACTTA-AG
* * *
66076040 TAACACATTTGAAACATTTTTTCCTAAAATAATATAAAAATAAAATACGAAAATAATATATTTTA
129 TAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAATAAAATACAAAAATAATATATTTT-
*
66076105 AAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATTAGGGTTATTTATTAAAAAA
193 AAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
66076170 ATATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
258 ATATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
* * *
66076211 CTAAAATAGTATAAAGAAATAAAATACGAAAGTAATATATTTTAAAAAATAAGATACAAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
*
66076276 AAAAATACGAAGAAAGTGTCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTA
66 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTA
*
66076341 ATACATTTGAAACATTTTTTG---------T-T-AAAATAATATA-AAAAATAATATATTTTAGA
131 ATACATTTGAAACATTTTTTGCTAAAATAATATAAAAATAAAATACAAAAATAATATATTTTA-A
*
66076394 AAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCTGGGTTATTTATTAAAAAAAT
195 AAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAAT
66076459 ATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
260 ATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
66076498 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
66076563 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACA-
66 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATAT-AAAAAACACTTA-AG
*
66076627 TAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATACAATAATAATATATTT
129 TAATACATTTGAAACATTTTTTGCTAAAATAATAT--AAAAATAAAATACAAAAATAATATATTT
*
66076692 TAAAAAACAATATACGAAAATA
192 T-AAAAATAATATACGAAAATA
66076714 TTTTACTTAT
Statistics
Matches: 1604, Mismatches: 64, Indels: 58
0.93 0.04 0.03
Matches are distributed among these distances:
286 1 0.00
287 228 0.14
288 45 0.03
289 2 0.00
290 1 0.00
292 15 0.01
293 40 0.02
294 46 0.03
295 5 0.00
296 38 0.02
297 4 0.00
298 377 0.24
299 150 0.09
300 352 0.22
301 109 0.07
302 190 0.12
303 1 0.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (298 bp):
CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTA
ATACATTTGAAACATTTTTTGCTAAAATAATATAAAAATAAAATACAAAAATAATATATTTTAAA
AATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATA
TAAAAAACACTTAAATAATACATTTGAAACATTATGTA
Found at i:66075520 original size:13 final size:13
Alignment explanation
Indices: 66075464--66075523 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
66075454 ATTTCTTGCT
66075464 AAAATAATATA--
1 AAAATAATATACG
*
66075475 AAAATAAAATACG
1 AAAATAATATACG
**
66075488 AAAATAATATATTTTA
1 AAAATAATATA---CG
66075504 AAAATAATATACG
1 AAAATAATATACG
66075517 AAAATAA
1 AAAATAA
66075524 AAAATACGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
11 10 0.26
13 17 0.45
16 11 0.29
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (13 bp):
AAAATAATATACG
Found at i:66075779 original size:12 final size:13
Alignment explanation
Indices: 66075764--66075799 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
66075754 ATTTTTTGCT
66075764 AAAATAATATA-A
1 AAAATAATATACA
*
66075776 AAAATAAAATACA
1 AAAATAATATACA
66075789 AAAATAATATA
1 AAAATAATATA
66075800 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:66075925 original size:600 final size:599
Alignment explanation
Indices: 66074720--66076713 Score: 3351
Period size: 600 Copynumber: 3.4 Consensus size: 599
66074710 GAGTTTTTTG
* ** * * *
66074720 CTAAAATAATATAAA-ATATAAAATATAAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* * * *
66074784 AAAAATACGAACAATGTGCCAAAGTCAGGGTTATTTATTAAATTAATAT--AAAAA-ACTTAAAT
66 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACAT
* * *
66074846 AATACATTTGAAACATTTTTTTCTAAAATCATAT-TAAA-AAAATACGAAAATAATATATTTT-A
131 AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAATAAAATACGAAAATAATATATTTTAA
66074908 AAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-AAAAAA
196 AAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAA
*
66074972 TATAAAAAACACTTATATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAAT
261 TATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAAT
66075037 ACGAAAATAATATATTTTAAAAAATAAGATACAAAAATAAAAAAAATACGAAGAAAGTGCCAAAA
326 ACGAAAATAATATATTTTAAAAAATAAGATACAAAAATAAAAAAAATACGAAGAAAGTG-CAAAA
** *
66075102 TCAGTATTATTTATTAAATTAATATAAAAAACACTTAAGTAATACATTTGAAACATTTCTTGCTA
390 TCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTAATACATTTGAAACATTTTTTGCTA
66075167 AAATAATATAAAAATAAAATACAAAAATAATATATTTT-AAAAATAATATACGAAAATAAAAAAT
455 AAATAATATAAAAATAAAATACAAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAT
*
66075231 ACGAATAAAGTGCTAAAATCTGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATGCAT
520 ACGAATAAAGTGCTAAAATCTGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACAT
66075296 TTGAAACATTATGTA
585 TTGAAACATTATGTA
*
66075311 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACAAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
**
66075376 AAAAATACGAAGAAAGTGCCAAAATCAGTATTATTTATTAAATTAATAT-AAAAAACACTTA-AG
66 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACA-
*
66075439 TAATACATTTGAAACATTTCTTGCTAAAATAATATAAAAATAAAATACGAAAATAATATATTTT-
130 TAATACATTTGAAACATTTTTTGCTAAAATAATATAAAAATAAAATACGAAAATAATATATTTTA
66075503 AAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
195 AAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
*
66075568 ATATAAAAAACACTTAAATAATGCATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAA
260 ATATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAA
* *
66075633 TACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAAATACGAAAAAAAGTGCAAA
325 TACGAAAATAATATATTTTAAAAAATAAGATACAAAAATAAAAAAAATACG-AAGAAAGTGC-AA
* *
66075698 AATTAGGGTTATTTATTAAATTAATATAAAAAAAACTTAAGTAATACATTTGAAACATTTTTTGC
388 AATCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTAATACATTTGAAACATTTTTTGC
66075763 TAAAATAATATAAAAAATAAAATACAAAAATAATATATTTTAAAAAATAATATACGAAAATAAAA
453 TAAAATAATAT-AAAAATAAAATACAAAAATAATATATTTTAAAAAATAATATACGAAAATAAAA
*
66075828 AATACGAATAAAGTGCTAAAAT-TAGGGTTATTTATT-AAAAAATATAAAAAAACACTTATATAA
517 AATACGAATAAAGTGCTAAAATCT-GGGTTATTTATTAAAAAAATAT-AAAAAACACTTAAATAA
66075891 TACATTTGAAACATTATGTA
580 TACATTTGAAACATTATGTA
66075911 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
* *
66075976 AAAAATATGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACATTTACAT
66 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACAT
* *
66076041 AACACATTTGAAACATTTTTTCCTAAAATAATATAAAAATAAAATACGAAAATAATATATTTTAA
131 AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAATAAAATACGAAAATAATATATTTTAA
*
66076106 AAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATTAGGGTTATTTATTAAAAAAA
196 AAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAA
*
66076171 TATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAGTATAAAGAAATAAAAT
261 TATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAAT
*
66076236 ACGAAAGTAATATATTTTAAAAAATAAGATACAAAAAT-AAAAAAATACGAAGAAAGTGTCAAAA
326 ACGAAAATAATATATTTTAAAAAATAAGATACAAAAATAAAAAAAATACGAAGAAAGTG-CAAAA
66076300 TCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTAATACATTTGAAACATTTTTTG---
390 TCAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTAATACATTTGAAACATTTTTTGCTA
* *
66076362 ------T-T-AAAATAATATA-AAAAATAATATATTTTAGAAAATAATATACGAAAATAAAAAAT
455 AAATAATATAAAAATAAAATACAAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAT
66076418 ACGAATAAAGTGCTAAAATCTGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACAT
520 ACGAATAAAGTGCTAAAATCTGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACAT
66076483 TTGAAACATTATGTA
585 TTGAAACATTATGTA
66076498 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
1 CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
66076563 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACAT
66 AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACAT
66076628 AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATAC-AATAATAATATATTT
131 AATACATTTGAAACATTTTTTGCTAAAATAATAT--AAAAATAAAATACGAA-AATAATATATTT
*
66076692 TAAAAAACAATATACGAAAATA
193 TAAAAAATAATATACGAAAATA
66076714 TTTTACTTAT
Statistics
Matches: 1330, Mismatches: 51, Indels: 46
0.93 0.04 0.03
Matches are distributed among these distances:
587 269 0.20
588 22 0.02
589 46 0.03
590 1 0.00
591 16 0.01
592 86 0.06
593 6 0.00
594 37 0.03
595 3 0.00
596 82 0.06
597 119 0.09
598 81 0.06
599 39 0.03
600 274 0.21
601 84 0.06
602 165 0.12
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (599 bp):
CTAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAA
AAAAATACGAAGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACACTTACAT
AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAATAAAATACGAAAATAATATATTTTAA
AAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAA
TATAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAAT
ACGAAAATAATATATTTTAAAAAATAAGATACAAAAATAAAAAAAATACGAAGAAAGTGCAAAAT
CAGGGTTATTTATTAAATTAATATAAAAAACACTTAAGTAATACATTTGAAACATTTTTTGCTAA
AATAATATAAAAATAAAATACAAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAATA
CGAATAAAGTGCTAAAATCTGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATT
TGAAACATTATGTA
Found at i:66079286 original size:17 final size:17
Alignment explanation
Indices: 66079266--66079304 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
66079256 AATACATTAC
66079266 AACATTAATCT-AATTGG
1 AACATTAAT-TAAATTGG
66079283 AACATTAATTAAATTGG
1 AACATTAATTAAATTGG
66079300 AACAT
1 AACAT
66079305 ACTATTACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (17 bp):
AACATTAATTAAATTGG
Found at i:66083164 original size:23 final size:25
Alignment explanation
Indices: 66083134--66083195 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
66083124 AACAATAATA
**
66083134 ACTAACAATAAT-T-AGGGTTTTTT
1 ACTAACAATAATATAAGGAATTTTT
66083157 ACTAACAATAATAATAAGGAATTTTT
1 ACTAACAATAAT-ATAAGGAATTTTT
66083183 ACTAACAATAATA
1 ACTAACAATAATA
66083196 ATAACTAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 12 0.35
25 2 0.06
26 20 0.59
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (25 bp):
ACTAACAATAATATAAGGAATTTTT
Found at i:66083311 original size:17 final size:19
Alignment explanation
Indices: 66083289--66083334 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 19
66083279 AAAAATTATA
66083289 CCTTCTTTT-TTC-CTTCT
1 CCTTCTTTTCTTCTCTTCT
66083306 CCTTCTTTTCCTTCTCTTCT
1 CCTTCTTTT-CTTCTCTTCT
66083326 CCTTTCTTT
1 CC-TTCTTT
66083335 CCCTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.36
19 3 0.12
20 7 0.28
21 6 0.24
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (19 bp):
CCTTCTTTTCTTCTCTTCT
Found at i:66083316 original size:15 final size:14
Alignment explanation
Indices: 66083292--66083325 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
66083282 AATTATACCT
66083292 TCTT-TTTTCCTTC
1 TCTTCTTTTCCTTC
66083305 TCCTTCTTTTCCTTC
1 T-CTTCTTTTCCTTC
66083320 TCTTCT
1 TCTTCT
66083326 CCTTTCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 8 0.42
15 10 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (14 bp):
TCTTCTTTTCCTTC
Found at i:66083326 original size:20 final size:19
Alignment explanation
Indices: 66083289--66083339 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
66083279 AAAAATTATA
66083289 CCTTCTTTT--TTCCTTCT
1 CCTTCTTTTCCTTCCTTCT
66083306 CCTTCTTTTCCTTCTCTTCT
1 CCTTCTTTTCCTTC-CTTCT
*
66083326 CCTTTCTTTCCCTT
1 CC-TTCTTTTCCTT
66083340 TATTTTCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 9 0.31
19 3 0.10
20 7 0.24
21 10 0.34
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (19 bp):
CCTTCTTTTCCTTCCTTCT
Found at i:66083493 original size:17 final size:18
Alignment explanation
Indices: 66083473--66083514 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
66083463 TGTTTTTTAT
66083473 TTTTTTTCATTTTCAG-C
1 TTTTTTTCATTTTCAGCC
*
66083490 TTTTTTTCTTTTTCAGCC
1 TTTTTTTCATTTTCAGCC
66083508 TTTTTTT
1 TTTTTTT
66083515 TTCACTGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.07, C:0.17, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTTTTTCATTTTCAGCC
Found at i:66085628 original size:50 final size:50
Alignment explanation
Indices: 66085513--66085755 Score: 396
Period size: 50 Copynumber: 4.8 Consensus size: 50
66085503 GATAATAACA
* ** * *
66085513 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
66085564 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
66085614 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
66085664 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
66085714 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
66085756 TTACCCAAAT
Statistics
Matches: 179, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
50 146 0.82
51 33 0.18
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:66085873 original size:13 final size:13
Alignment explanation
Indices: 66085855--66085880 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66085845 GATCATCACC
66085855 AAATAAATTCATA
1 AAATAAATTCATA
66085868 AAATAAATTCATA
1 AAATAAATTCATA
66085881 GTTGCTGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATAAATTCATA
Found at i:66086100 original size:30 final size:30
Alignment explanation
Indices: 66086065--66086122 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
66086055 CCTCGACTCT
*
66086065 AACTTTTTCAAAATTACAATTTTACCCCTA
1 AACTTTTACAAAATTACAATTTTACCCCTA
* * *
66086095 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTACCCC
66086123 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTACCCCTA
Found at i:66093173 original size:50 final size:50
Alignment explanation
Indices: 66093058--66093305 Score: 298
Period size: 50 Copynumber: 4.8 Consensus size: 50
66093048 GATAATAACA
* * ** * *
66093058 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
66093109 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
66093159 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
66093209 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGAC-CTC-TCATC-T-CGG
* *
66093263 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
66093306 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
50 89 0.52
51 36 0.21
52 3 0.02
53 2 0.01
54 5 0.03
55 35 0.21
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:66093244 original size:100 final size:105
Alignment explanation
Indices: 66093057--66093305 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 105
66093047 TGATAATAAC
** * *
66093057 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
66093122 TCCCAGACATGGTCTTATAGGGGAC-CTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACTCTCATCATCTTAAGG
* *
66093159 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
66093223 CCCAGACATGGTCTTACAGGGGACTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACTCTCATCATCTTAAGG
* *
66093263 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
66093306 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
100 45 0.34
101 39 0.30
102 4 0.03
103 1 0.01
104 2 0.02
105 40 0.31
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (105 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACTCTCATCATCTTAAGG
Found at i:66093421 original size:13 final size:13
Alignment explanation
Indices: 66093400--66093431 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
66093390 GCTTGGATCA
*
66093400 TCATCAAATAAAT
1 TCATAAAATAAAT
66093413 TCATAAAATAAAT
1 TCATAAAATAAAT
66093426 TCATAA
1 TCATAA
66093432 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:66093678 original size:30 final size:30
Alignment explanation
Indices: 66093643--66093700 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
66093633 CCTCGACTCT
*
66093643 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
66093673 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
66093701 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:66098649 original size:2 final size:2
Alignment explanation
Indices: 66098642--66098667 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
66098632 GGTGAAAAGA
66098642 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
66098668 TTGAATGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66101613 original size:17 final size:18
Alignment explanation
Indices: 66101591--66101625 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
66101581 TATATATTAT
*
66101591 AATATTTA-ATTAACTAA
1 AATATTTAGAATAACTAA
66101608 AATATTTAGAATAACTAA
1 AATATTTAGAATAACTAA
66101626 GATTAATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (18 bp):
AATATTTAGAATAACTAA
Found at i:66101924 original size:30 final size:31
Alignment explanation
Indices: 66101890--66101950 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
66101880 ATATGAGTAT
* * *
66101890 TACCATTACAT-TTTTTGTCATTTTAGTCAC
1 TACCATTACATACTTTAGTCATTCTAGTCAC
66101920 TACCATTACATACTTTAGTCATTCTAGTCAC
1 TACCATTACATACTTTAGTCATTCTAGTCAC
66101951 CGGTTCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (31 bp):
TACCATTACATACTTTAGTCATTCTAGTCAC
Found at i:66103817 original size:32 final size:32
Alignment explanation
Indices: 66103776--66103840 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
66103766 AGAGAAAGTG
66103776 CAGATATTAATATATTGTAACTGTTTGCATGT
1 CAGATATTAATATATTGTAACTGTTTGCATGT
*
66103808 CAGATATTAATATATTGTAATTGTTTGCATGT
1 CAGATATTAATATATTGTAACTGTTTGCATGT
66103840 C
1 C
66103841 TTTTTGTCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (32 bp):
CAGATATTAATATATTGTAACTGTTTGCATGT
Found at i:66104173 original size:68 final size:68
Alignment explanation
Indices: 66104092--66104229 Score: 267
Period size: 68 Copynumber: 2.0 Consensus size: 68
66104082 GACGAAAAGA
66104092 AAAGCTAATAATATATAGGAACTTGGTTTTTGCTTCTCATTGTTCCCTCTTGAATACTGCTAGAA
1 AAAGCTAATAATATATAGGAACTTGGTTTTTGCTTCTCATTGTTCCCTCTTGAATACTGCTAGAA
66104157 ATT
66 ATT
*
66104160 AAAGCTAATAATATATAGGAACTTGGTTTTTGCTTCTCATTGTTTCCTCTTGAATACTGCTAGAA
1 AAAGCTAATAATATATAGGAACTTGGTTTTTGCTTCTCATTGTTCCCTCTTGAATACTGCTAGAA
66104225 ATT
66 ATT
66104228 AA
1 AA
66104230 GAGATTTGAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (68 bp):
AAAGCTAATAATATATAGGAACTTGGTTTTTGCTTCTCATTGTTCCCTCTTGAATACTGCTAGAA
ATT
Found at i:66107404 original size:17 final size:19
Alignment explanation
Indices: 66107368--66107404 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
66107358 TAATTAAGTG
*
66107368 TGTATAATAAATATTAAAA
1 TGTATAATAAATAATAAAA
66107387 TGTATAA-AAA-AATAAAA
1 TGTATAATAAATAATAAAA
66107404 T
1 T
66107405 AAAACTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
TGTATAATAAATAATAAAA
Found at i:66107984 original size:33 final size:33
Alignment explanation
Indices: 66107942--66108009 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
66107932 AATGAATCAT
66107942 CCCAGCACCGCCACCCACCAATCATCTCACCTG
1 CCCAGCACCGCCACCCACCAATCATCTCACCTG
66107975 CCCAGCACCGCCACCCACCAATCATCTCACCTG
1 CCCAGCACCGCCACCCACCAATCATCTCACCTG
66108008 CC
1 CC
66108010 AATCATCACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.24, C:0.56, G:0.09, T:0.12
Consensus pattern (33 bp):
CCCAGCACCGCCACCCACCAATCATCTCACCTG
Found at i:66108011 original size:16 final size:16
Alignment explanation
Indices: 66107959--66108016 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
66107949 CCGCCACCCA
66107959 CCAATCATCTCACCTG
1 CCAATCATCTCACCTG
* * * * **
66107975 CCCAGCACCGCCACCCA
1 CCAATCATC-TCACCTG
66107992 CCAATCATCTCACCTG
1 CCAATCATCTCACCTG
66108008 CCAATCATC
1 CCAATCATC
66108017 ACCACACACT
Statistics
Matches: 29, Mismatches: 12, Indels: 2
0.67 0.28 0.05
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.26, C:0.50, G:0.07, T:0.17
Consensus pattern (16 bp):
CCAATCATCTCACCTG
Found at i:66108979 original size:19 final size:18
Alignment explanation
Indices: 66108932--66108979 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
66108922 TGTTATTCGT
* *
66108932 TTAAAATTTTTTATCATA
1 TTAATATTTTTTATAATA
* *
66108950 TTGATAATTTTTATAATAA
1 TTAATATTTTTTATAAT-A
66108969 TTAATATTTTT
1 TTAATATTTTT
66108980 AAAAAATATA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
TTAATATTTTTTATAATA
Found at i:66112330 original size:115 final size:115
Alignment explanation
Indices: 66112107--66112385 Score: 468
Period size: 115 Copynumber: 2.4 Consensus size: 115
66112097 AGAACGAACA
* * * *
66112107 TTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTTTAGCGGCGTTTTTCAAAAAGCGCC
1 TTAGCGGCGCTTCTTAAAAA-CGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAAGCACC
* *
66112172 GCAAAAGAGTTTTACAGAACAACGTCGTTTTGTATTGACCTTTTAGTGGCT
65 GCAAAAGAGTTTTACAAAACAACGTCATTTTGTATTGACCTTTTAGTGGCT
* *
66112223 TTAGTGGCGCTTCTTAAAAACGCCGCTATAGGTACACCTATAGTGGCGTTTTTCAAAAAGCACCG
1 TTAGCGGCGCTTCTTAAAAACGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAAGCACCG
66112288 CAAAAGAGTTTTACAAAACAACGTCATTTTGTATTGACCTTTTAGTGGCT
66 CAAAAGAGTTTTACAAAACAACGTCATTTTGTATTGACCTTTTAGTGGCT
*
66112338 TTAGCGGCGCTTTTTAAAAACGCCGCTATAGGTACACCTATAGCGGCG
1 TTAGCGGCGCTTCTTAAAAACGCCGCTATAGGTACACCTATAGCGGCG
66112386 CTCCTTTAGC
Statistics
Matches: 152, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
115 135 0.89
116 17 0.11
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (115 bp):
TTAGCGGCGCTTCTTAAAAACGCCGCTATAGGTACACCTATAGCGGCGTTTTTCAAAAAGCACCG
CAAAAGAGTTTTACAAAACAACGTCATTTTGTATTGACCTTTTAGTGGCT
Found at i:66112394 original size:53 final size:54
Alignment explanation
Indices: 66112336--66112439 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
66112326 CTTTTAGTGG
66112336 CTTTAGCGGCGCTTTTTAAAAA-CGCCGCTATAGGTACACCTATAGCGGCGCTC
1 CTTTAGCGGCGCTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGCGGCGCTC
* *
66112389 CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGTGGCG
1 CTTTAGCGGCGCTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGCGGCG
66112440 TTTTTCAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 21 0.44
54 27 0.56
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (54 bp):
CTTTAGCGGCGCTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGCGGCGCTC
Found at i:66112522 original size:169 final size:169
Alignment explanation
Indices: 66112221--66112709 Score: 740
Period size: 154 Copynumber: 3.0 Consensus size: 169
66112211 CTTTTAGTGG
* * * *
66112221 CTTTAGTGGCGCTTCTTAAAAA-CGCCGCTATAGGTACACCTATAGTGGCGTTTTTCAAAAAGCA
1 CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGTGGCGTTTTTCAAAAAGCG
* * *
66112285 CCGCAAAAGAGTTTTACAAAACAACGTCATTTTGTATTGACCTTTTAGTGGCTTTAGCGGCGCTT
66 CCGCAAAAGAGTTTTACAAAACGACGTCGTTTTATATTGACCTTTTAGTGGCTTTAGCGGCGCTT
*
66112350 TTTAAAAACGCCGCTATAGGTACACCTATAGCGGCGCTC
131 TTTAAAAACGCCGCTATAGGTACACCTATAGCGGCGCAC
66112389 CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGTGGCGTTTTTCAAAAAGCG
1 CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGTGGCGTTTTTCAAAAAGCG
*
66112454 CCGCAAAAGAGTTTTACAAAACGACGTCGTTCTATATTGACCTTTTAGTGGCTTTAGCGGCGCTT
66 CCGCAAAAGAGTTTTACAAAACGACGTCGTTTTATATTGACCTTTTAGTGGCTTTAGCGGCGCTT
66112519 TTTAAAAACGCCGCTATA-G-------ATA------CAC
131 TTTAAAAACGCCGCTATAGGTACACCTATAGCGGCGCAC
*
66112544 CTTTAGC-GCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGTGGCGTTTTTCAAAAAGTG
1 CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGTGGCGTTTTTCAAAAAGCG
* *
66112608 CCACAAAAGAGTTTTACAAAACGACGTCGTTTTATATTGACCTTTTAGTGGCTTTAGCTGCGCTT
66 CCGCAAAAGAGTTTTACAAAACGACGTCGTTTTATATTGACCTTTTAGTGGCTTTAGCGGCGCTT
*
66112673 TTTGAAAAACGCCGCTATAGGTACACCTTTAGCGGCG
131 TTT-AAAAACGCCGCTATAGGTACACCTATAGCGGCG
66112710 TTTTTCAAAA
Statistics
Matches: 291, Mismatches: 14, Indels: 31
0.87 0.04 0.09
Matches are distributed among these distances:
154 121 0.42
155 24 0.08
156 1 0.00
161 3 0.01
163 2 0.01
168 20 0.07
169 120 0.41
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (169 bp):
CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGTGGCGTTTTTCAAAAAGCG
CCGCAAAAGAGTTTTACAAAACGACGTCGTTTTATATTGACCTTTTAGTGGCTTTAGCGGCGCTT
TTTAAAAACGCCGCTATAGGTACACCTATAGCGGCGCAC
Found at i:66112570 original size:39 final size:39
Alignment explanation
Indices: 66112505--66112605 Score: 132
Period size: 39 Copynumber: 2.6 Consensus size: 39
66112495 CTTTTAGTGG
*
66112505 CTTTAGCGGCGCTTTTTAAAAA-CGCCGCTATAGATACAC
1 CTTTAGC-GCGTTTTTTAAAAAGCGCCGCTATAGATACAC
*
66112544 CTTTAGCGCGTTTTTTAAAAAGCGCCGCTATAGGTACAC
1 CTTTAGCGCGTTTTTTAAAAAGCGCCGCTATAGATACAC
* * *
66112583 CTATAGTGGCGTTTTTCAAAAAG
1 CTTTAG-CGCGTTTTTTAAAAAG
66112606 TGCCACAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
38 13 0.24
39 28 0.51
40 14 0.25
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (39 bp):
CTTTAGCGCGTTTTTTAAAAAGCGCCGCTATAGATACAC
Found at i:66112762 original size:116 final size:115
Alignment explanation
Indices: 66112544--66112846 Score: 394
Period size: 116 Copynumber: 2.6 Consensus size: 115
66112534 ATAGATACAC
* * * * *
66112544 CTTTAGCGCGTTTTTTAAAAAGCGCCGCTATAGGTACACCTATAGTGGCGTTTTTCAAAAAGTGC
1 CTTTAGCGCGCTTTTTAAAAAACGCCGCTATAGGTACACCTTTAGCGGCGTTTTTCAAAAAGCGC
* *
66112609 CACAAAAGAGTTTTACAAAACGACGTCGTTTTATATTGACCTTTTAGTGG
66 CACAAAAGAGTTTTACAAAACAACATCGTTTTATATTGACCTTTTAGTGG
*
66112659 CTTTAGCTGCGCTTTTTGAAAAACGCCGCTATAGGTACACCTTTAGCGGCGTTTTTCAAAAAGCG
1 CTTTAGC-GCGCTTTTTAAAAAACGCCGCTATAGGTACACCTTTAGCGGCGTTTTTCAAAAAGCG
* * * *
66112724 CCGCAAAAGAGTTTTGCAAAACAACATCGTTTTTTATTGACCTTTTAGTTG
65 CCACAAAAGAGTTTTACAAAACAACATCGTTTTATATTGACCTTTTAGTGG
* * * ** *
66112775 CTGTAGCGGCGCTTTATAAAAAACGCCGCTA-ATGCTTTATCTTTAGCGGCGTTTTT-AAAAAGC
1 CTTTAGC-GCGCTTTTTAAAAAACGCCGCTATA-GGTACACCTTTAGCGGCGTTTTTCAAAAAGC
*
66112838 GTCACAAAA
64 GCCACAAAA
66112847 AAAACATTTC
Statistics
Matches: 164, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
115 22 0.13
116 142 0.87
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (115 bp):
CTTTAGCGCGCTTTTTAAAAAACGCCGCTATAGGTACACCTTTAGCGGCGTTTTTCAAAAAGCGC
CACAAAAGAGTTTTACAAAACAACATCGTTTTATATTGACCTTTTAGTGG
Found at i:66113248 original size:11 final size:11
Alignment explanation
Indices: 66113232--66113263 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
66113222 TTAGGGATCA
66113232 TGGTTTAAGGG
1 TGGTTTAAGGG
66113243 TGGTTTAAGGG
1 TGGTTTAAGGG
*
66113254 TAGTTTAAGG
1 TGGTTTAAGG
66113264 TTGGGGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (11 bp):
TGGTTTAAGGG
Found at i:66113314 original size:7 final size:7
Alignment explanation
Indices: 66113304--66113332 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
66113294 AAGGGTTATG
66113304 GGTTCAT
1 GGTTCAT
66113311 GGTTCAT
1 GGTTCAT
66113318 GGTTCAT
1 GGTTCAT
66113325 GGTTCAT
1 GGTTCAT
66113332 G
1 G
66113333 TTTTAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.31, T:0.41
Consensus pattern (7 bp):
GGTTCAT
Found at i:66113314 original size:21 final size:21
Alignment explanation
Indices: 66113290--66113332 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
66113280 AGGTGTTAGG
66113290 GGTTAAGGGTT-ATGGGTTCAT
1 GGTTAAGGGTTCAT-GGTTCAT
* *
66113311 GGTTCATGGTTCATGGTTCAT
1 GGTTAAGGGTTCATGGTTCAT
66113332 G
1 G
66113333 TTTTAAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.16, C:0.09, G:0.35, T:0.40
Consensus pattern (21 bp):
GGTTAAGGGTTCATGGTTCAT
Found at i:66113351 original size:14 final size:14
Alignment explanation
Indices: 66113334--66113380 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
66113324 TGGTTCATGT
66113334 TTTAAGATTTAGGG
1 TTTAAGATTTAGGG
*
66113348 TTTAAGATTTGAGGA
1 TTTAAGATTT-AGGG
*
66113363 TTAGAAG-TTTAGGG
1 TT-TAAGATTTAGGG
66113377 TTTA
1 TTTA
66113381 GAATAATTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
13 1 0.04
14 15 0.56
15 8 0.30
16 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.43
Consensus pattern (14 bp):
TTTAAGATTTAGGG
Found at i:66113494 original size:14 final size:14
Alignment explanation
Indices: 66113475--66113519 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
66113465 TTAATTATCA
66113475 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
66113489 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
66113503 GTATTA-TTTAGGGT
1 TTA-TAGTTTAGGGT
66113517 TTA
1 TTA
66113520 AAGTGTATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 26 0.93
15 2 0.07
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:66113538 original size:28 final size:29
Alignment explanation
Indices: 66113481--66113548 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
66113471 ATCATTATAG
* * * *
66113481 TTTAGGGTTTATAGTTTAGGGTGTATTA-
1 TTTAGGGTTTAAAGTGTAGAGTGTACTAT
66113509 TTTAGGGTTTAAAGTGTATGAGT-TACTAT
1 TTTAGGGTTTAAAGTGTA-GAGTGTACTAT
*
66113538 TTTAAGGTTTA
1 TTTAGGGTTTA
66113549 TGGATTATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
28 20 0.61
29 13 0.39
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (29 bp):
TTTAGGGTTTAAAGTGTAGAGTGTACTAT
Found at i:66114369 original size:41 final size:41
Alignment explanation
Indices: 66114324--66114409 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
66114314 AAAAAAAATT
* * *
66114324 AAAATTAAGCAATAGTGGCGGTTTTAGGAAAAATGCCACAA
1 AAAATTAAGCAACAGTGGCGGTTTTAGCAAAAACGCCACAA
* * * *
66114365 AAAATTAAGCTACAGTGGCGTTTTTATCAAAAACGCCGCAA
1 AAAATTAAGCAACAGTGGCGGTTTTAGCAAAAACGCCACAA
66114406 AAAA
1 AAAA
66114410 CTAAACTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (41 bp):
AAAATTAAGCAACAGTGGCGGTTTTAGCAAAAACGCCACAA
Found at i:66114427 original size:41 final size:41
Alignment explanation
Indices: 66114352--66114448 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 41
66114342 CGGTTTTAGG
* * * * *
66114352 AAAAATGCCACAAAAAATTAAGCTACAGTGGCGTT-TTTATC
1 AAAAACGCCGCAAAAAACTAAACTACAGTAGCGTTGTTT-TC
* *
66114393 AAAAACGCCGCAAAAAACTAAACTATAGTAGCGTTGTTTTT
1 AAAAACGCCGCAAAAAACTAAACTACAGTAGCGTTGTTTTC
*
66114434 TAAAACGCCGCAAAA
1 AAAAACGCCGCAAAA
66114449 GGTGAAATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 44 0.94
42 3 0.06
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (41 bp):
AAAAACGCCGCAAAAAACTAAACTACAGTAGCGTTGTTTTC
Found at i:66118707 original size:23 final size:23
Alignment explanation
Indices: 66118680--66118928 Score: 256
Period size: 23 Copynumber: 10.9 Consensus size: 23
66118670 TGGATGCTGT
*
66118680 TGTTTAAATGCTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
66118703 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* *
66118726 TGTTTAAATGTTGTAAATTGCAG
1 TGTTTAAATGCTGTAAATTGAAG
*
66118749 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
66118772 TGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
** *
66118795 TGTTTAGTTGCTGGAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* *
66118817 ATGTTTTATTGCTGT-AATTG-AG
1 -TGTTTAAATGCTGTAAATTGAAG
* * *
66118839 TTGTATAAATGTTGTTAATTG-AG
1 -TGTTTAAATGCTGTAAATTGAAG
*
66118862 ATG-TTAAAGTGCTGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
*
66118886 TGTTTAAATGCTATAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* *
66118909 TGCTTAAATGTTGTAAATTG
1 TGTTTAAATGCTGTAAATTG
66118929 GCGTTTGTTT
Statistics
Matches: 191, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
22 23 0.12
23 161 0.84
24 7 0.04
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAATTGAAG
Found at i:66119188 original size:19 final size:19
Alignment explanation
Indices: 66119165--66119211 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
66119155 ATTTAATCTA
*
66119165 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
66119183 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
66119203 ATTTTTATT
1 ATTTTTATT
66119212 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:66119620 original size:43 final size:43
Alignment explanation
Indices: 66119475--66119619 Score: 247
Period size: 43 Copynumber: 3.4 Consensus size: 43
66119465 TAAAATTTTG
*
66119475 TGACCTTTAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAGGTCA
1 TGACATTTAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAGGTCA
66119518 TGACA-TTAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAGGTCA
1 TGACATTTAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAGGTCA
* *
66119560 TGACATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGTTCA
1 TGACATTTAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAGGTCA
*
66119603 TGACATTTAGTGGCGTT
1 TGACATTTAGCGGCGTT
66119620 TTCCTGTAGT
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
42 42 0.43
43 55 0.57
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (43 bp):
TGACATTTAGCGGCGTTCGTGGGAAAAGCGCCGCTAAAGGTCA
Found at i:66130034 original size:46 final size:45
Alignment explanation
Indices: 66129964--66130110 Score: 244
Period size: 46 Copynumber: 3.3 Consensus size: 45
66129954 TACTCATTCA
*
66129964 TTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATT
1 TTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATT
*
66130008 CTTTTCATGTCACGTTGCCATAGTATCTTTCAACCATGGTCTTATT
1 -TTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATT
66130054 TATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATT
1 T-TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATT
66130100 TTTTCAT-TCAC
1 TTTTCATGTCAC
66130111 CATGGTCACC
Statistics
Matches: 97, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
44 4 0.04
45 12 0.12
46 81 0.84
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (45 bp):
TTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATT
Found at i:66130196 original size:46 final size:46
Alignment explanation
Indices: 66130139--66130253 Score: 178
Period size: 46 Copynumber: 2.5 Consensus size: 46
66130129 TTTTTTCATG
*
66130139 TGCCATGGTATCTTTCAACCATGGTCTTATTA-ATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA-CACATTTCATATCACGT
* * *
66130185 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATGAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
66130231 TGCCATGGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATG
66130254 ATGGTTGTCA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 1 0.02
46 62 0.98
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
Found at i:66130265 original size:28 final size:27
Alignment explanation
Indices: 66130224--66130281 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 27
66130214 CACATTTCAT
66130224 ATGAGGTTGCCATGGTATCTTTCAACC
1 ATGAGGTTGCCATGGTATCTTTCAACC
*
66130251 ATGATGGTTGTCATGGTATCTTTCAACC
1 ATGA-GGTTGCCATGGTATCTTTCAACC
66130279 ATG
1 ATG
66130282 GTCTTACACA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (27 bp):
ATGAGGTTGCCATGGTATCTTTCAACC
Found at i:66132236 original size:51 final size:51
Alignment explanation
Indices: 66132171--66132278 Score: 216
Period size: 51 Copynumber: 2.1 Consensus size: 51
66132161 CCTTCTTTAT
66132171 TTTTTCCTTCCTTCTTTCTTTCCCCTGCTCTCTCGTTTCATCCTTTCTTTC
1 TTTTTCCTTCCTTCTTTCTTTCCCCTGCTCTCTCGTTTCATCCTTTCTTTC
66132222 TTTTTCCTTCCTTCTTTCTTTCCCCTGCTCTCTCGTTTCATCCTTTCTTTC
1 TTTTTCCTTCCTTCTTTCTTTCCCCTGCTCTCTCGTTTCATCCTTTCTTTC
66132273 TTTTTC
1 TTTTTC
66132279 TATTCTTTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.02, C:0.36, G:0.04, T:0.58
Consensus pattern (51 bp):
TTTTTCCTTCCTTCTTTCTTTCCCCTGCTCTCTCGTTTCATCCTTTCTTTC
Found at i:66132286 original size:15 final size:15
Alignment explanation
Indices: 66132265--66132302 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
66132255 CGTTTCATCC
66132265 TTTCTTTCTTTTTCTA
1 TTTCTTT-TTTTTCTA
*
66132281 -TTCTTTTTTTTTTA
1 TTTCTTTTTTTTCTA
66132295 TTTCTTTT
1 TTTCTTTT
66132303 ACTTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCTTTTTTTTCTA
Found at i:66140743 original size:18 final size:18
Alignment explanation
Indices: 66140720--66140777 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
66140710 CAATCTCAAC
*
66140720 TACTGTATACGTGAACAG
1 TACTGTATACGTGAATAG
* *
66140738 TACTGTATACGTAAATAA
1 TACTGTATACGTGAATAG
*
66140756 TACTGTATACATGAATAG
1 TACTGTATACGTGAATAG
66140774 TACT
1 TACT
66140778 ATAAATGGTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:66151291 original size:126 final size:127
Alignment explanation
Indices: 66151063--66151316 Score: 402
Period size: 126 Copynumber: 2.0 Consensus size: 127
66151053 AGAAAACCCG
* *
66151063 GTCATAATCATGCTGTCATTATTGATCAAAAGGCCCTGCCCCTACCCCAGCCAATTGAACAATCA
1 GTCATAACCATGCTGTCATTATTGATC--AAGGCCCTGCCCCTACCCCAGCCAATGGAACAATCA
* *
66151128 GATAGGAACTGTCAGCCTGAAGCAAACCAGCAATTACAAGCAAAGTCCTGGGTCAATAACTGTA
64 GATAGGAACTGTCAGCCTGAAGCAAACCAGCAATTACAAGCAAAATCCAGGGTCAATAACTGTA
* *
66151192 GTCATAACCATGCTGTCATTATTGATC-AGGCCCTGCCCTTACTCCAGCCAATGGAACAATCAGA
1 GTCATAACCATGCTGTCATTATTGATCAAGGCCCTGCCCCTACCCCAGCCAATGGAACAATCAGA
* * *
66151256 TAGGTACTGTCAGTCTGAAGCAAACCGGCAATTACAAGCAAAATCCAGGGTCAATAACTGT
66 TAGGAACTGTCAGCCTGAAGCAAACCAGCAATTACAAGCAAAATCCAGGGTCAATAACTGT
66151317 GACCCTATAA
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
126 90 0.78
129 26 0.22
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (127 bp):
GTCATAACCATGCTGTCATTATTGATCAAGGCCCTGCCCCTACCCCAGCCAATGGAACAATCAGA
TAGGAACTGTCAGCCTGAAGCAAACCAGCAATTACAAGCAAAATCCAGGGTCAATAACTGTA
Found at i:66161525 original size:24 final size:24
Alignment explanation
Indices: 66161498--66161543 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
66161488 TATATTTATA
* *
66161498 TTTTCTTTTTCTTTTTTTAAAATT
1 TTTTATTTTTCATTTTTTAAAATT
66161522 TTTTATTTTTCATTTTTTAAAA
1 TTTTATTTTTCATTTTTTAAAA
66161544 ATTGAATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTATTTTTCATTTTTTAAAATT
Found at i:66161544 original size:25 final size:24
Alignment explanation
Indices: 66161498--66161546 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
66161488 TATATTTATA
* *
66161498 TTTTCTTTTTCTTTTTTTAAAATT
1 TTTTATTTTTCTTTTTTAAAAATT
66161522 TTTTATTTTTCATTTTTTAAAAATT
1 TTTTATTTTTC-TTTTTTAAAAATT
66161547 GAATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTATTTTTCTTTTTTAAAAATT
Found at i:66161929 original size:17 final size:18
Alignment explanation
Indices: 66161895--66161941 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
66161885 ATTGTTCAAA
*
66161895 TTTAAAAAAATATTAAAT
1 TTTAAAAAAATATAAAAT
*
66161913 TTTAAAAACATA-AAAAT
1 TTTAAAAAAATATAAAAT
*
66161930 TATCAAAAAAAT
1 T-TTAAAAAAAT
66161942 CATTTAAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (18 bp):
TTTAAAAAAATATAAAAT
Found at i:66164145 original size:21 final size:21
Alignment explanation
Indices: 66164121--66164163 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
66164111 AAAGTTTCCA
66164121 TTGT-TGAGAATTGATTGAAAT
1 TTGTGTGA-AATTGATTGAAAT
*
66164142 TTGTGTGAAATTGGTTGAAAT
1 TTGTGTGAAATTGATTGAAAT
66164163 T
1 T
66164164 AAGCTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (21 bp):
TTGTGTGAAATTGATTGAAAT
Found at i:66166404 original size:20 final size:21
Alignment explanation
Indices: 66166364--66166413 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
66166354 CCGGCCCACT
66166364 AAATCAAATAAATAAAACCAA
1 AAATCAAATAAATAAAACCAA
**
66166385 AAAT-AAATAAATAAGTCCAA
1 AAATCAAATAAATAAAACCAA
66166405 AACATCAAA
1 AA-ATCAAA
66166414 GTCCATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.64
21 6 0.24
22 3 0.12
ACGTcount: A:0.68, C:0.14, G:0.02, T:0.16
Consensus pattern (21 bp):
AAATCAAATAAATAAAACCAA
Found at i:66172269 original size:30 final size:30
Alignment explanation
Indices: 66172235--66172329 Score: 129
Period size: 30 Copynumber: 3.2 Consensus size: 30
66172225 TAAAAATTGT
*
66172235 ATTTTGACCCCTAAACTTTTTTTAAATTTC
1 ATTTTGACCCTTAAACTTTTTTTAAATTTC
*
66172265 ATTTTGACCCTTAAACTTTCTTTAAATTTC
1 ATTTTGACCCTTAAACTTTTTTTAAATTTC
* * *
66172295 ACTTAGACCCTTAAA-TTTTCATTAAATTTC
1 ATTTTGACCCTTAAACTTTT-TTTAAATTTC
66172325 ATTTT
1 ATTTT
66172330 AATCCTAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 3 0.05
30 53 0.95
ACGTcount: A:0.28, C:0.19, G:0.03, T:0.49
Consensus pattern (30 bp):
ATTTTGACCCTTAAACTTTTTTTAAATTTC
Found at i:66172760 original size:15 final size:14
Alignment explanation
Indices: 66172721--66172759 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
66172711 AAGAAGAAAA
66172721 GAAAGAAAAAAGGG
1 GAAAGAAAAAAGGG
66172735 GAAAGAAAAAAGGG
1 GAAAGAAAAAAGGG
66172749 GAAAGAAAAAA
1 GAAAGAAAAAA
66172760 AAAAGAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
GAAAGAAAAAAGGG
Found at i:66172772 original size:14 final size:14
Alignment explanation
Indices: 66172717--66172775 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
66172707 GAAGAAGAAG
66172717 AAAAGAAAGAAAAA
1 AAAAGAAAGAAAAA
***
66172731 AGGGGAAAGAAAAA
1 AAAAGAAAGAAAAA
***
66172745 AGGGGAAAGAAAAAA
1 AAAAGAAAG-AAAAA
66172760 AAAAGAAAGAAAAA
1 AAAAGAAAGAAAAA
66172774 AA
1 AA
66172776 TAAAAAATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 27 0.71
15 11 0.29
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAAGAAAGAAAAA
Found at i:66172892 original size:16 final size:17
Alignment explanation
Indices: 66172857--66172897 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
66172847 CAGGCCAGCC
66172857 CAAAAAAAAAAACCAAAG
1 CAAAAAAAAAAACC-AAG
*
66172875 CAAAAAAAAAAAGC-AG
1 CAAAAAAAAAAACCAAG
66172891 CAAAAAA
1 CAAAAAA
66172898 GAAGAAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
18 13 0.59
ACGTcount: A:0.78, C:0.15, G:0.07, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAACCAAG
Found at i:66172898 original size:24 final size:23
Alignment explanation
Indices: 66172878--66172927 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
66172868 ACCAAAGCAA
66172878 AAAAAAAAAGCAGCAAAAAAGAAG
1 AAAAAAAAAGCAG-AAAAAAGAAG
* *
66172902 AAGAAAGAAGCAGAAAAAAGAAG
1 AAAAAAAAAGCAGAAAAAAGAAG
66172925 AAA
1 AAA
66172928 GAAGCAGCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.74, C:0.06, G:0.20, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAGCAGAAAAAAGAAG
Found at i:66172908 original size:10 final size:10
Alignment explanation
Indices: 66172895--66172931 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
66172885 AAGCAGCAAA
66172895 AAAGAAGAAG
1 AAAGAAGAAG
*
66172905 AAAGAAGCAG
1 AAAGAAGAAG
*
66172915 AAAAAAGAAG
1 AAAGAAGAAG
66172925 AAAGAAG
1 AAAGAAG
66172932 CAGCCCAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.70, C:0.03, G:0.27, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAG
Found at i:66172924 original size:20 final size:20
Alignment explanation
Indices: 66172876--66172934 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
66172866 AAACCAAAGC
* *
66172876 AAAAAA-AA-AAAGCAGCAA
1 AAAAAAGAAGAAAGAAGCAG
66172894 AAAAGAAGAAGAAAGAAGCAG
1 AAAA-AAGAAGAAAGAAGCAG
66172915 AAAAAAGAAGAAAGAAGCAG
1 AAAAAAGAAGAAAGAAGCAG
66172935 CCCAAATGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.11
19 2 0.06
20 18 0.50
21 12 0.33
ACGTcount: A:0.71, C:0.07, G:0.22, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAGAAAGAAGCAG
Found at i:66173079 original size:8 final size:8
Alignment explanation
Indices: 66173068--66173115 Score: 60
Period size: 8 Copynumber: 5.8 Consensus size: 8
66173058 AAAAAGAGAA
66173068 AAAAAAAG
1 AAAAAAAG
*
66173076 AAAAAGAG
1 AAAAAAAG
*
66173084 AGAAAAAG
1 AAAAAAAG
66173092 AAAAAAAG
1 AAAAAAAG
66173100 AAAAAACAAG
1 -AAAAA-AAG
66173110 AAAAAA
1 AAAAAA
66173116 GGGTTTCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 21 0.62
9 10 0.29
10 3 0.09
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:66173081 original size:18 final size:18
Alignment explanation
Indices: 66173054--66173114 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
66173044 AGCCCAGCAG
66173054 AAAA-AAAAAGAGAAAAA
1 AAAAGAAAAAGAGAAAAA
*
66173071 AAAAGAAAAAGAG--AGA
1 AAAAGAAAAAGAGAAAAA
*
66173087 AAAAGAAAAAAAGAAAAA
1 AAAAGAAAAAGAGAAAAA
*
66173105 ACAAGAAAAA
1 AAAAGAAAAA
66173115 AGGGTTTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 14 0.38
17 4 0.11
18 19 0.51
ACGTcount: A:0.84, C:0.02, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAGAGAAAAA
Found at i:66173089 original size:16 final size:15
Alignment explanation
Indices: 66173052--66173104 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
66173042 CCAGCCCAGC
66173052 AGAAAAA-AAAAGAGAA
1 AGAAAAAGAAAA-AG-A
*
66173068 AAAAAAAGAAAAAGA
1 AGAAAAAGAAAAAGA
66173083 GAGAAAAAGAAAAA-A
1 -AGAAAAAGAAAAAGA
66173098 AGAAAAA
1 AGAAAAA
66173105 ACAAGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 7 0.21
15 2 0.06
16 20 0.61
17 4 0.12
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAAAAGA
Found at i:66173105 original size:10 final size:10
Alignment explanation
Indices: 66173055--66173115 Score: 59
Period size: 10 Copynumber: 5.6 Consensus size: 10
66173045 GCCCAGCAGA
66173055 AAAAAAAAGAG
1 AAAAAAAA-AG
66173066 AAAAAAAAAG
1 AAAAAAAAAG
*
66173076 AAAAAGAGAGAAA
1 AAAAA-A-A-AAG
66173089 AAGAAAAAAAG
1 AA-AAAAAAAG
*
66173100 AAAAAACAAG
1 AAAAAAAAAG
66173110 AAAAAA
1 AAAAAA
66173116 GGGTTTCAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
10 20 0.47
11 13 0.30
12 2 0.05
13 5 0.12
14 3 0.07
ACGTcount: A:0.84, C:0.02, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:66173500 original size:19 final size:20
Alignment explanation
Indices: 66173476--66173516 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
66173466 TCGCGTTTCG
66173476 AAATTT-TCGTGTCTTCAAA
1 AAATTTCTCGTGTCTTCAAA
*
66173495 AAATTTCTCGTGTTTTCAAA
1 AAATTTCTCGTGTCTTCAAA
66173515 AA
1 AA
66173517 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (20 bp):
AAATTTCTCGTGTCTTCAAA
Found at i:66173660 original size:17 final size:18
Alignment explanation
Indices: 66173621--66174112 Score: 242
Period size: 17 Copynumber: 27.4 Consensus size: 18
66173611 AAAAAATCAG
66173621 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
66173639 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* * *
66173657 AAAAAATTCCAT-TTTTC
1 AAAAATTTTCGTGTTTTC
* *
66173674 AAAATTTTTCGTGTTTTTTTA
1 AAAAATTTTCGTG---TTTTC
* * *
66173695 AAAAATTTCCAT-ATTTC
1 AAAAATTTTCGTGTTTTC
*
66173712 TAAAATTTTCGTG-TTT-
1 AAAAATTTTCGTGTTTTC
* *
66173728 AAAAAATTTCGTATTTTC
1 AAAAATTTTCGTGTTTTC
* ** *
66173746 AAAATTTTTATTTTTTTC
1 AAAAATTTTCGTGTTTTC
* *
66173764 AACAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* * *
66173781 ACAAATTCTCGTATTTT-
1 AAAAATTTTCGTGTTTTC
* ** *
66173798 AAAATTTTTTATGTTTTA
1 AAAAATTTTCGTGTTTTC
66173816 AAAAATAAATTTC-TCGTGTTTC
1 AAAAAT---TTTCGT-GT-TTTC
* * *
66173838 AAATATTGTCATGTTTT-
1 AAAAATTTTCGTGTTTTC
*
66173855 AAAAATTTTCATG-TTTC
1 AAAAATTTTCGTGTTTTC
* * *
66173872 TAAAATGTTCGT-ATTTC
1 AAAAATTTTCGTGTTTTC
**
66173889 AAAAAATCCTCGTGTTTTC
1 -AAAAATTTTCGTGTTTTC
* *
66173908 AAAAATTCTCATG-TTTC
1 AAAAATTTTCGTGTTTTC
*
66173925 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
66173943 -AAAATTCTAGTG-TTTC
1 AAAAATTTTCGTGTTTTC
*
66173959 AAAAATTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
66173977 AAAAATTTCCCCTGTTTTC
1 AAAAATTT-TCGTGTTTTC
* *
66173996 AAAAATTCTCGT-ATTTC
1 AAAAATTTTCGTGTTTTC
** *
66174013 AAAAATTTTATTTTTTTC
1 AAAAATTTTCGTGTTTTC
* *
66174031 AAAAAAAAACTTCCGTGTTTT-
1 ----AAAAATTTTCGTGTTTTC
* * *
66174052 ATAAATCTCCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* **
66174070 AAAAAATTCTCG-ACTTTC
1 -AAAAATTTTCGTGTTTTC
*
66174088 AAAAAATTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
66174106 AAAAATT
1 AAAAATT
66174113 GACATTGTTT
Statistics
Matches: 350, Mismatches: 93, Indels: 62
0.69 0.18 0.12
Matches are distributed among these distances:
16 17 0.05
17 148 0.42
18 114 0.33
19 31 0.09
20 2 0.01
21 18 0.05
22 20 0.06
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.47
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:66173675 original size:35 final size:35
Alignment explanation
Indices: 66173634--66174017 Score: 155
Period size: 35 Copynumber: 10.8 Consensus size: 35
66173624 AATTTTCGTG
66173634 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTCCAT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTCCAT
* *
66173669 TTTTCAAAATTTTTCGTGTTTTTTTAAAAAATTTCCAT
1 TTTTCAAAAATTTTCGTG--TTTTCAAAAAA-TTCCAT
* * * *
66173707 ATTTCTAAAATTTTCGTG-TTT-AAAAAATTTCGT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTCCAT
* ** * * *
66173740 ATTTTCAAAATTTTTATTTTTTTC-AACAATTCTCGT
1 -TTTTCAAAAATTTTCGTGTTTTCAAAAAATTC-CAT
* * * * ** **
66173776 GTTTCACAAATTCTCGTATTTT-AAAATTTTTTAT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTCCAT
* * *
66173810 GTTTTAAAAAATAAATTTC-TCGTGTTTC-AAATATTGTCAT
1 -TTTTCAAAAAT---TTTCGT-GT-TTTCAAAAAATT-CCAT
* * * *
66173850 GTTTT-AAAAATTTTCATG-TTTC-TAAAATGTTCGT
1 -TTTTCAAAAATTTTCGTGTTTTCAAAAAAT-TCCAT
* **
66173884 ATTTCAAAAAATCCTCGTGTTTTC-AAAAATTCTCAT
1 TTTTC-AAAAATTTTCGTGTTTTCAAAAAATTC-CAT
* * *
66173920 GTTTCAAAAATCTTCGTGTTTTC--AAAATTCTAGT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATTCCA-T
* * * *
66173954 GTTTCAAAAATTTTCATGTTTTCAAAAATTTCCCCT
1 TTTTCAAAAATTTTCGTGTTTTCAAAAAATT-CCAT
* *
66173990 GTTTTCAAAAATTCTCGT-ATTTCAAAAA
1 -TTTTCAAAAATTTTCGTGTTTTCAAAAA
66174018 TTTTATTTTT
Statistics
Matches: 265, Mismatches: 57, Indels: 53
0.71 0.15 0.14
Matches are distributed among these distances:
33 8 0.03
34 59 0.22
35 85 0.32
36 38 0.14
37 27 0.10
38 25 0.09
39 15 0.06
40 8 0.03
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.47
Consensus pattern (35 bp):
TTTTCAAAAATTTTCGTGTTTTCAAAAAATTCCAT
Found at i:66173721 original size:38 final size:36
Alignment explanation
Indices: 66173635--66173727 Score: 118
Period size: 38 Copynumber: 2.5 Consensus size: 36
66173625 ATTTTCGTGT
*
66173635 TTTCAAAAATTTTCGTG--TTTTCAAAAAATTCCATT
1 TTTC-AAAATTTTCGTGTTTTTTCAAAAAATTCCATA
*
66173670 TTTCAAAATTTTTCGTGTTTTTTTAAAAAATTTCCATA
1 TTTCAAAA-TTTTCGTGTTTTTTCAAAAAA-TTCCATA
66173708 TTTCTAAAATTTTCGTGTTT
1 TTTC-AAAATTTTCGTGTTT
66173728 AAAAAATTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
34 4 0.08
35 12 0.24
37 10 0.20
38 21 0.41
39 4 0.08
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (36 bp):
TTTCAAAATTTTCGTGTTTTTTCAAAAAATTCCATA
Found at i:66173960 original size:16 final size:16
Alignment explanation
Indices: 66173904--66173962 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
66173894 ATCCTCGTGT
66173904 TTTCAAAAATTCTCA-TG
1 TTTC-AAAATTCT-AGTG
* *
66173921 TTTCAAAAATCTTCGTG
1 TTTCAAAATTC-TAGTG
66173938 TTTTCAAAATTCTAGTG
1 -TTTCAAAATTCTAGTG
66173955 TTTCAAAA
1 TTTCAAAA
66173963 ATTTTCATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 14 0.40
17 11 0.31
18 10 0.29
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (16 bp):
TTTCAAAATTCTAGTG
Found at i:66174140 original size:17 final size:17
Alignment explanation
Indices: 66173822--66174145 Score: 115
Period size: 17 Copynumber: 18.2 Consensus size: 17
66173812 TTTAAAAAAT
66173822 AAATTTCTCGTGTTTCAA
1 AAATTTC-CGTGTTTCAA
* * *
66173840 ATATTGT-CATGTTTTAA
1 AAATT-TCCGTGTTTCAA
* * *
66173857 AAATTTTCATGTTTCTA
1 AAATTTCCGTGTTTCAA
*
66173874 AAATGTT-CGTATTTCAA
1 AAAT-TTCCGTGTTTCAA
* *
66173891 AAAATCCTCGTGTTTTCAA
1 AAATTTC-CGTG-TTTCAA
*
66173910 AAA-TTCTCATGTTTCAA
1 AAATTTC-CGTGTTTCAA
66173927 AAATCTT-CGTGTTTTC-A
1 AAAT-TTCCGTG-TTTCAA
*
66173944 AAA-TTCTAGTGTTTCAA
1 AAATTTC-CGTGTTTCAA
* *
66173961 AAATTTTCATGTTTTCAA
1 AAATTTCCGTG-TTTCAA
*
66173979 AAATTTCCCCTGTTTTCAA
1 AAATTT-CCGTG-TTTCAA
*
66173998 AAA-TTCTCGTATTTCAA
1 AAATTTC-CGTGTTTCAA
*** *
66174015 AAATTTTATTTTTTTCAAAAAA
1 AAA-TTTCCGTGTTTC----AA
* * *
66174037 AAACTTCCGTGTTTTAT
1 AAATTTCCGTGTTTCAA
*
66174054 AAATCTCCGTGTTTTCAA
1 AAATTTCCGTG-TTTCAA
* **
66174072 AAAATTCTCGACTTTCAAA
1 AAATTTC-CGTGTTTC-AA
66174091 AAATTT-CGTGTTTTCAA
1 AAATTTCCGTG-TTTCAA
* ** *
66174108 AAATTGACATTGTTTCAT
1 AAATT-TCCGTGTTTCAA
66174126 AAATTTCCGTGTTTCAA
1 AAATTTCCGTGTTTCAA
66174143 AAA
1 AAA
66174146 AAATCCTCGT
Statistics
Matches: 225, Mismatches: 53, Indels: 57
0.67 0.16 0.17
Matches are distributed among these distances:
15 2 0.01
16 6 0.03
17 99 0.44
18 69 0.31
19 38 0.17
21 6 0.03
22 5 0.02
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.44
Consensus pattern (17 bp):
AAATTTCCGTGTTTCAA
Found at i:66174202 original size:19 final size:19
Alignment explanation
Indices: 66174178--66174252 Score: 87
Period size: 19 Copynumber: 3.8 Consensus size: 19
66174168 ATCAAAATTT
66174178 TTGTGTTTTCAAAATAAAA
1 TTGTGTTTTCAAAATAAAA
* *
66174197 TTGTGTTTTAAAAATGAAA
1 TTGTGTTTTCAAAATAAAA
*
66174216 TTCGTGTTTTCAAAAAAAAA
1 TT-GTGTTTTCAAAATAAAA
*
66174236 TTCTCGTGTTTCAAAAT
1 TTGT-GT-TTTCAAAAT
66174253 TTTCGTGTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 20 0.43
20 18 0.39
21 8 0.17
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (19 bp):
TTGTGTTTTCAAAATAAAA
Found at i:66174238 original size:20 final size:20
Alignment explanation
Indices: 66174180--66174251 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
66174170 CAAAATTTTT
*
66174180 GTGTTTTCAAAATAAAATT-
1 GTGTTTTCAAAAAAAAATTC
*
66174199 GTGTTTT-AAAAATGAAATTC
1 GTGTTTTCAAAAA-AAAATTC
66174219 GTGTTTTCAAAAAAAAATTC
1 GTGTTTTCAAAAAAAAATTC
66174239 -TCGTGTTTCAAAA
1 GT-GT-TTTCAAAA
66174252 TTTTCGTGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
18 4 0.09
19 13 0.29
20 15 0.33
21 13 0.29
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.39
Consensus pattern (20 bp):
GTGTTTTCAAAAAAAAATTC
Found at i:66186152 original size:70 final size:69
Alignment explanation
Indices: 66186031--66186522 Score: 264
Period size: 70 Copynumber: 7.5 Consensus size: 69
66186021 CTTTCCAAGG
* *
66186031 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACACGTTGAGGTATTTTTAAAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAAATTT
66186096 TTTAA
66 TTT-A
** * ** *
66186101 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT--AGTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAAATTT
*
66186164 ATGTTT
66 -T-TTA
* ** * * *** *** *
66186170 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT-TTTA-A--TTTTTGT-TTTTCAAAA---
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAAATTT
66186227 --T-
66 TTTA
* *
66186228 -----CAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAAATTT
66186288 TTTAA
66 TTT-A
** * ** *
66186293 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT--AGTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAAATTT
*
66186356 ATGTTT
66 -T-TTA
* ** * * *** *** *
66186362 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT-TTTA-A--TTTTTGT-TTTTCAAAA---
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAAATTT
66186419 --T-
66 TTTA
* *
66186420 -----CAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAAATTT
66186480 TTTAAA
66 TTT--A
66186486 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
66186523 GGGGCACGCC
Statistics
Matches: 303, Mismatches: 76, Indels: 85
0.65 0.16 0.18
Matches are distributed among these distances:
53 52 0.17
54 2 0.01
55 2 0.01
57 8 0.03
58 14 0.05
59 2 0.01
63 2 0.01
64 8 0.03
65 4 0.01
66 2 0.01
67 2 0.01
68 8 0.03
69 64 0.21
70 102 0.34
71 31 0.10
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAAATTT
TTTA
Found at i:66186358 original size:192 final size:193
Alignment explanation
Indices: 66186031--66186840 Score: 1498
Period size: 192 Copynumber: 4.2 Consensus size: 193
66186021 CTTTCCAAGG
* *
66186031 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAGACACGTTGAGGTATTTTTAAAATTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
66186096 TTT-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66186160 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66186223 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
66186288 TTT-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66186352 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66186415 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
66186480 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATGTTTA
66 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
*
66186545 GTTTATGTTTTAAATTGACTCATGTTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
66186608 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCATCAAGACATGTTGAGGTATTTTTAAATTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCC-TCAAGACACGTTGAGGTATTTTTAAATTT
*
66186673 TTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTT
65 TTTT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTT
66186738 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
129 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* **
66186803 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
66186841 GGCTCACATG
Statistics
Matches: 603, Mismatches: 11, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
192 258 0.43
193 157 0.26
194 32 0.05
195 124 0.21
196 32 0.05
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (193 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:66186880 original size:16 final size:17
Alignment explanation
Indices: 66186859--66186892 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
66186849 TGCTGAGGTA
*
66186859 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
66186875 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
66186892 T
1 T
66186893 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:66187056 original size:85 final size:88
Alignment explanation
Indices: 66186798--66187056 Score: 309
Period size: 91 Copynumber: 2.9 Consensus size: 88
66186788 TAATTTTTGT
*
66186798 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
*
66186862 TCAATTTATGTTTTTTTCAA-TCTATGC
64 TCAATTTCTG-TTTTTT-AATTCTA-GC
* *
66186889 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
**
66186951 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTG-TTTTTTAATTCTAGC
* *
66186976 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
66187040 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
66187057 TATGTTTTTT
Statistics
Matches: 148, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 40 0.27
87 29 0.20
88 2 0.01
89 31 0.21
91 41 0.28
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:66187245 original size:54 final size:55
Alignment explanation
Indices: 66187157--66187374 Score: 306
Period size: 54 Copynumber: 4.1 Consensus size: 55
66187147 TCAATTTCTA
* *
66187157 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
66187212 CTTTT-AATTTCTATTTTTCAAAAACCAATTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66187266 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
66187317 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66187372 CTT
1 CTT
66187375 GGCTCACGTG
Statistics
Matches: 147, Mismatches: 9, Indels: 14
0.86 0.05 0.08
Matches are distributed among these distances:
50 12 0.08
51 34 0.23
52 2 0.01
53 2 0.01
54 46 0.31
55 42 0.29
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:66187681 original size:30 final size:31
Alignment explanation
Indices: 66187647--66187748 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
66187637 AAAAAAATTA
*
66187647 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
66187677 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
66187707 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
66187737 AAATTTCATTTT
1 AAATTTCATTTT
66187749 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:66188147 original size:9 final size:9
Alignment explanation
Indices: 66188133--66188199 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 9
66188123 AAGGAAGAAG
66188133 AAGAAAAGA
1 AAGAAAAGA
66188142 AAGAAAA-A
1 AAGAAAAGA
66188150 AA-AAAAGA
1 AAGAAAAGA
*
66188158 AA-AAAGGGGA
1 AAGAAA--AGA
*
66188168 AAGAAAAAA
1 AAGAAAAGA
*
66188177 AAGAAAAAA
1 AAGAAAAGA
66188186 AAG-AAAGA
1 AAGAAAAGA
66188194 AA-AAAA
1 AAGAAAA
66188200 TAAAAAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
7 4 0.08
8 18 0.37
9 20 0.41
10 4 0.08
11 3 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAGAAAAGA
Found at i:66188169 original size:26 final size:22
Alignment explanation
Indices: 66188136--66188207 Score: 90
Period size: 22 Copynumber: 3.1 Consensus size: 22
66188126 GAAGAAGAAG
66188136 AAAAGAAAGAAAAAAAAAAAGAA
1 AAAAGAAAGAAAAAAAAAAA-AA
*
66188159 AAAAGGGGAAAGAAAAAAAAGAAAA
1 AAAA---GAAAGAAAAAAAAAAAAA
*
66188184 AAAAGAAAGAAAAAAATAAAAA
1 AAAAGAAAGAAAAAAAAAAAAA
66188206 AA
1 AA
66188208 TAATATATCG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 18 0.42
23 4 0.09
25 6 0.14
26 15 0.35
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (22 bp):
AAAAGAAAGAAAAAAAAAAAAA
Found at i:66188181 original size:44 final size:45
Alignment explanation
Indices: 66188115--66188206 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 45
66188105 GCTAGAGCCG
* * * *
66188115 AAAGAGGGAAGGAAGAAGAAGAAAAGAAAGAAAAAAAAAAAGAAA
1 AAAGAGGGAAAGAAAAAAAAGAAAAAAAAGAAAAAAAAAAAGAAA
* *
66188160 AAAG-GGGAAAGAAAAAAAAGAAAAAAAAGAAAGAAAAAAATAAA
1 AAAGAGGGAAAGAAAAAAAAGAAAAAAAAGAAAAAAAAAAAGAAA
66188204 AAA
1 AAA
66188207 ATAATATATC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 37 0.90
45 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (45 bp):
AAAGAGGGAAAGAAAAAAAAGAAAAAAAAGAAAAAAAAAAAGAAA
Done.