Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 208 of 235
Found at i:70876906 original size:20 final size:19
Alignment explanation
Indices: 70876869--70876908 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
70876859 ATATACATAA
* *
70876869 ATATATTAAAAACATATAC
1 ATATATAAAAAAAATATAC
70876888 ATATATAAAAAAAATTATAC
1 ATATATAAAAAAAA-TATAC
70876908 A
1 A
70876909 CTAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (19 bp):
ATATATAAAAAAAATATAC
Found at i:70877060 original size:3 final size:3
Alignment explanation
Indices: 70877054--70877088 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
70877044 TTATTACATC
* *
70877054 ATA ATA ATA ATA ATA ATA TTA ATA ATA ATA TTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
70877089 GACGACAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:70877071 original size:12 final size:12
Alignment explanation
Indices: 70877054--70877088 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
70877044 TTATTACATC
*
70877054 ATAATAATAATA
1 ATAATATTAATA
70877066 ATAATATTAATA
1 ATAATATTAATA
70877078 ATAATATTAAT
1 ATAATATTAAT
70877089 GACGACAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATATTAATA
Found at i:70877120 original size:20 final size:21
Alignment explanation
Indices: 70877095--70877133 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
70877085 TAATGACGAC
*
70877095 AATAAAAA-TAAAAATAAAAA
1 AATAAAAACAAAAAATAAAAA
70877115 AATAAAAACAAAAAATAAA
1 AATAAAAACAAAAAATAAA
70877134 GATAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.13
Consensus pattern (21 bp):
AATAAAAACAAAAAATAAAAA
Found at i:70877903 original size:16 final size:16
Alignment explanation
Indices: 70877871--70877916 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
70877861 AATTTTTTTC
70877871 TTTTTTT-TATTTATTA
1 TTTTTTTCT-TTTATTA
*
70877887 TTTTTTTCTTTTCTTA
1 TTTTTTTCTTTTATTA
*
70877903 TCTTTTTCTTTTAT
1 TTTTTTTCTTTTAT
70877917 ACTTTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 25 0.96
17 1 0.04
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTCTTTTATTA
Found at i:70879714 original size:26 final size:25
Alignment explanation
Indices: 70879674--70879735 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
70879664 ATATTTTAAT
*
70879674 ATATTTTAATTATAAATT-ATCTTATA
1 ATATTTTTATTATAAATTAATC--ATA
*
70879700 A-ATTTTTATTAATAATTTAATCATA
1 ATATTTTTATT-ATAAATTAATCATA
70879725 ATATTTTTATT
1 ATATTTTTATT
70879736 TTATTAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 12 0.39
26 16 0.52
27 3 0.10
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (25 bp):
ATATTTTTATTATAAATTAATCATA
Found at i:70883447 original size:15 final size:16
Alignment explanation
Indices: 70883427--70883463 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
70883417 TTAAAATTTG
70883427 AAAAAT-ATAAGAGTA-
1 AAAAATAATAA-AGTAT
70883442 AAAAATAATAAAGTAT
1 AAAAATAATAAAGTAT
70883458 AAAAAT
1 AAAAAT
70883464 CAAGTAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAATAATAAAGTAT
Found at i:70888342 original size:12 final size:12
Alignment explanation
Indices: 70888321--70888387 Score: 56
Period size: 12 Copynumber: 5.8 Consensus size: 12
70888311 TAATAATATT
70888321 ATTA-TATTAAA
1 ATTATTATTAAA
70888332 ATTATTATT-AA
1 ATTATTATTAAA
70888343 A-TATTATTAATA
1 ATTATTATTAA-A
70888355 ATTA-TATTAATA
1 ATTATTATTAA-A
*
70888367 A-TGTTATT-AA
1 ATTATTATTAAA
70888377 ATTATATATTA
1 ATTAT-TATTA
70888388 TTTTTATTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
10 9 0.20
11 12 0.26
12 23 0.50
13 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:70888345 original size:27 final size:28
Alignment explanation
Indices: 70888298--70888389 Score: 81
Period size: 27 Copynumber: 3.5 Consensus size: 28
70888288 TATATTAGGC
*
70888298 ATTAAAATATTCTTAATAATATTATTAT
1 ATTAAAATATTATTAATAATATTATTAT
70888326 ATTAAAATTATTATT-A-AATATTATTA-
1 ATTAAAA-TATTATTAATAATATTATTAT
* * *
70888352 A-T-AATTA-TATTAATAATGTTATTAA
1 ATTAAAATATTATTAATAATATTATTAT
*
70888377 ATT-ATATATTATT
1 ATTAAAATATTATT
70888390 TTTATTAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
22 4 0.08
23 3 0.06
24 11 0.21
25 2 0.04
26 5 0.09
27 14 0.26
28 8 0.15
29 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
ATTAAAATATTATTAATAATATTATTAT
Found at i:70888352 original size:22 final size:23
Alignment explanation
Indices: 70888325--70888388 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
70888315 AATATTATTA
70888325 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTATAATAT
*
70888347 TATTAATAATTA-TATTAATAATGT
1 TATTAA-AATTATTATT-ATAATAT
70888371 TATT-AAATTATATATTAT
1 TATTAAAATTAT-TATTAT
70888389 TTTTATTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.42
23 9 0.25
24 12 0.33
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTAAAATTATTATTATAATAT
Found at i:70888361 original size:34 final size:36
Alignment explanation
Indices: 70888321--70888387 Score: 95
Period size: 34 Copynumber: 1.9 Consensus size: 36
70888311 TAATAATATT
70888321 ATTATATTAA-AATTATTATTAAA-TAT-TATTAATA
1 ATTATATTAATAA-TATTATTAAATTATATATTAATA
*
70888355 ATTATATTAATAATGTTATTAAATTATATATTA
1 ATTATATTAATAATATTATTAAATTATATATTA
70888388 TTTTTATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 19 0.66
35 5 0.17
36 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (36 bp):
ATTATATTAATAATATTATTAAATTATATATTAATA
Found at i:70888482 original size:58 final size:58
Alignment explanation
Indices: 70888350--70888484 Score: 175
Period size: 58 Copynumber: 2.3 Consensus size: 58
70888340 TAAATATTAT
* * * *
70888350 TAATAATTATATTAATAATGTTATTAAATTATATATTATTTTTATTAAATTGTATTTAA
1 TAATAATTATATTAA-AATATGACTAAATTATATATTATTTTTATTAAATTATATTTAA
* *
70888409 TAATAATTATGTTAAAATATGACTAAATTATTTATTATTTTTTATTAAA-TATATTTAA
1 TAATAATTATATTAAAATATGACTAAATTATATATTA-TTTTTATTAAATTATATTTAA
70888467 TAATAATCT-TATTAAAAT
1 TAATAAT-TATATTAAAAT
70888485 TTAATAACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
58 41 0.61
59 26 0.39
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (58 bp):
TAATAATTATATTAAAATATGACTAAATTATATATTATTTTTATTAAATTATATTTAA
Found at i:70889871 original size:19 final size:18
Alignment explanation
Indices: 70889849--70889896 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
70889839 TAAAAAATTC
*
70889849 AAATATTAAAAATTAGAAA
1 AAATAGTAAAAA-TAGAAA
* *
70889868 AAATCGTAAAAATATAAA
1 AAATAGTAAAAATAGAAA
*
70889886 AAATTGTAAAA
1 AAATAGTAAAA
70889897 TTTTATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (18 bp):
AAATAGTAAAAATAGAAA
Found at i:70889886 original size:18 final size:19
Alignment explanation
Indices: 70889855--70889896 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
70889845 ATTCAAATAT
70889855 TAAAAATTAGAAAAAATCG
1 TAAAAATTAGAAAAAATCG
* *
70889874 TAAAAA-TATAAAAAATTG
1 TAAAAATTAGAAAAAATCG
70889892 TAAAA
1 TAAAA
70889897 TTTTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (19 bp):
TAAAAATTAGAAAAAATCG
Found at i:70889896 original size:28 final size:28
Alignment explanation
Indices: 70889849--70889944 Score: 79
Period size: 28 Copynumber: 3.5 Consensus size: 28
70889839 TAAAAAATTC
* *
70889849 AAATATTAAAAATTAG-AAAAAATCGTAA
1 AAATATAAAAAATT-GTAAAAAATCATAA
** *
70889877 AAATATAAAAAATTGTAAAATTTTATAA
1 AAATATAAAAAATTGTAAAAAATCATAA
* * * * *
70889905 AAACATAAAAAATTATAAAATAT-ACAG
1 AAATATAAAAAATTGTAAAAAATCATAA
70889932 AAATATAAAAAAT
1 AAATATAAAAAAT
70889945 ATATTAATTT
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 15 0.27
28 41 0.73
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (28 bp):
AAATATAAAAAATTGTAAAAAATCATAA
Found at i:70889935 original size:10 final size:9
Alignment explanation
Indices: 70889875--70889947 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
70889865 AAAAAATCGT
70889875 AAAAATATA
1 AAAAATATA
*
70889884 AAAAAT-TGT
1 AAAAATAT-A
* *
70889893 AAAATTTTA
1 AAAAATATA
*
70889902 TAAAAACATA
1 -AAAAATATA
70889912 AAAAAT-TA
1 AAAAATATA
*
70889920 TAAAATATA
1 AAAAATATA
*
70889929 CAGAAATATA
1 -AAAAATATA
70889939 AAAAATATA
1 AAAAATATA
70889948 TTAATTTTTA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
8 8 0.17
9 26 0.54
10 14 0.29
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (9 bp):
AAAAATATA
Found at i:70892156 original size:9 final size:10
Alignment explanation
Indices: 70892132--70892171 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
70892122 GTAACTAGTA
70892132 GAAATGAATT
1 GAAATGAATT
*
70892142 GGAATG-ATT
1 GAAATGAATT
70892151 GAAATGAATT
1 GAAATGAATT
70892161 GAAATG-ATT
1 GAAATGAATT
70892170 GA
1 GA
70892172 TTATTGCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 13 0.48
10 14 0.52
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (10 bp):
GAAATGAATT
Found at i:70892156 original size:19 final size:19
Alignment explanation
Indices: 70892132--70892171 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
70892122 GTAACTAGTA
*
70892132 GAAATGAATTGGAATGATT
1 GAAATGAATTGAAATGATT
70892151 GAAATGAATTGAAATGATT
1 GAAATGAATTGAAATGATT
70892170 GA
1 GA
70892172 TTATTGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (19 bp):
GAAATGAATTGAAATGATT
Found at i:70893005 original size:14 final size:14
Alignment explanation
Indices: 70892988--70893034 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
70892978 AATTAAAAGA
70892988 CAAATTTTAAACCC
1 CAAATTTTAAACCC
* ***
70893002 CAAATATTAAAAGA
1 CAAATTTTAAACCC
70893016 CAAATTTTAAACCC
1 CAAATTTTAAACCC
70893030 CAAAT
1 CAAAT
70893035 GTGTCCCTTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.51, C:0.21, G:0.02, T:0.26
Consensus pattern (14 bp):
CAAATTTTAAACCC
Found at i:70893011 original size:28 final size:28
Alignment explanation
Indices: 70892979--70893034 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
70892969 GGTAAAATAA
70892979 ATTAAAAGACAAATTTTAAACCCCAAAT
1 ATTAAAAGACAAATTTTAAACCCCAAAT
70893007 ATTAAAAGACAAATTTTAAACCCCAAAT
1 ATTAAAAGACAAATTTTAAACCCCAAAT
70893035 GTGTCCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.25
Consensus pattern (28 bp):
ATTAAAAGACAAATTTTAAACCCCAAAT
Found at i:70893744 original size:95 final size:94
Alignment explanation
Indices: 70893581--70893874 Score: 453
Period size: 95 Copynumber: 3.2 Consensus size: 94
70893571 ATGGAAAAAT
70893581 GTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
1 GTGGTGCTAAGTGGATATACCAC-ATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
70893646 TGCCACGGTTACATATATTGATTCATTAAC
65 TGCCACGGTTACATATATTGATTCATTAAC
*
70893676 GTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGTAACGCGGTGCTAAGTGGATA
1 GTGGTGCTAAGTGGATATACCAC-ATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
70893741 TGCCACGGTTACATATATTGATTCATTAAC
65 TGCCACGGTTACATATATTGATTCATTAAC
** *
70893771 GTGGTGCTAAGTGGATATACCACGGT-----TA---A-ACATGTAACGTAGTGCTAAGTGGATAT
1 GTGGTGCTAAGTGGATATACCACATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATAT
* *
70893827 GCCACGGTTACATATATTGATTAATTAAT
66 GCCACGGTTACATATATTGATTCATTAAC
70893856 GTGGTGCTAAGTGGATATA
1 GTGGTGCTAAGTGGATATA
70893875 ACACGGTTAA
Statistics
Matches: 191, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
85 71 0.37
86 1 0.01
89 2 0.01
94 1 0.01
95 116 0.61
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (94 bp):
GTGGTGCTAAGTGGATATACCACATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATAT
GCCACGGTTACATATATTGATTCATTAAC
Found at i:70893818 original size:38 final size:38
Alignment explanation
Indices: 70893767--70893928 Score: 171
Period size: 38 Copynumber: 4.0 Consensus size: 38
70893757 ATTGATTCAT
70893767 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
70893805 TAACGTAGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
* *
70893846 ATTAATTAATGTGGTGCTAAGTGGATATAACACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
70893890 TAACGTGGTGCTAAGTGGATATGCCATGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
70893928 T
1 T
70893929 TAATTTGTAA
Statistics
Matches: 102, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
38 64 0.63
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 28 0.27
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:70893860 original size:85 final size:85
Alignment explanation
Indices: 70893715--70893952 Score: 363
Period size: 85 Copynumber: 2.8 Consensus size: 85
70893705 ACATATTGAT
* *
70893715 ACATGTAACGCGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTAATTAACGTGGTGCTA
*
70893780 AGTGGATATACCACGGTTAA
66 AGTGGATATAACACGGTTAA
* *
70893800 ACATGTAACGTAGTGCTAAGTGGATATGCCACGGTTACATATATTGATTAATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTAATTAACGTGGTGCTA
70893865 AGTGGATATAACACGGTTAA
66 AGTGGATATAACACGGTTAA
* * * * *
70893885 ACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTATACATGTTAATT--TGTAACGTGGTGCT
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTAAT-TAACGTGGTGCT
70893948 AAGTG
65 AAGTG
70893953 CGTATGCCAT
Statistics
Matches: 140, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
83 1 0.01
84 16 0.11
85 123 0.88
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTAATTAACGTGGTGCTA
AGTGGATATAACACGGTTAA
Found at i:70899171 original size:48 final size:48
Alignment explanation
Indices: 70899100--70899360 Score: 463
Period size: 48 Copynumber: 5.5 Consensus size: 48
70899090 ACAATAGACA
70899100 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGT
70899148 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGT
70899196 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGT
70899244 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGT
* ** *
70899292 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTA-AT-T
1 AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGA-TACATGT
70899339 AACGTGGTGCTAAGTGGATATA
1 AACGTGGTGCTAAGTGGATATA
70899361 ACATGGTTAA
Statistics
Matches: 207, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
47 22 0.11
48 183 0.88
49 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (48 bp):
AACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGT
Found at i:70899367 original size:21 final size:21
Alignment explanation
Indices: 70899338--70899397 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
70899328 ATTGATTAAT
70899338 TAACGTGGTGCTAAGTGGATA
1 TAACGTGGTGCTAAGTGGATA
* **
70899359 TAACATGGT--TAA--ACATA
1 TAACGTGGTGCTAAGTGGATA
70899376 TAACGTGGTGCTAAGTGGATA
1 TAACGTGGTGCTAAGTGGATA
70899397 T
1 T
70899398 GCCATGGTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
17 11 0.38
19 6 0.21
21 12 0.41
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (21 bp):
TAACGTGGTGCTAAGTGGATA
Found at i:70899389 original size:38 final size:38
Alignment explanation
Indices: 70899338--70899412 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
70899328 ATTGATTAAT
70899338 TAACGTGGTGCTAAGTGGATATAACATGGTTAAACATA
1 TAACGTGGTGCTAAGTGGATATAACATGGTTAAACATA
** *
70899376 TAACGTGGTGCTAAGTGGATATGCCATGGTTATACAT
1 TAACGTGGTGCTAAGTGGATATAACATGGTTAAACAT
70899413 GTTAATTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATAACATGGTTAAACATA
Found at i:70911788 original size:19 final size:19
Alignment explanation
Indices: 70911764--70911803 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
70911754 AAGTACATAC
70911764 TTGTACCATCTCGTAATAA
1 TTGTACCATCTCGTAATAA
70911783 TTGTACCATCTCGTAATAA
1 TTGTACCATCTCGTAATAA
70911802 TT
1 TT
70911804 TCATACTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (19 bp):
TTGTACCATCTCGTAATAA
Found at i:70918242 original size:27 final size:27
Alignment explanation
Indices: 70918211--70918388 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
70918201 TAAATTGTAC
70918211 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
70918238 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
70918264 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
70918292 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
70918320 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
70918347 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
70918374 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
70918389 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:70918325 original size:82 final size:81
Alignment explanation
Indices: 70918212--70918367 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
70918202 AAATTGTACA
* *
70918212 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
70918276 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
70918293 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
70918358 TGCGAGTTGA
65 TGCGAATTGA
70918368 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:70918379 original size:82 final size:81
Alignment explanation
Indices: 70918208--70918388 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
70918198 GATTAAATTG
* *
70918208 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
70918273 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
70918289 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
70918353 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
70918371 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
70918389 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:70921356 original size:27 final size:27
Alignment explanation
Indices: 70921314--70921370 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
70921304 GGCGTATAAT
* *
70921314 GCCCAAACCTTTGGCCAACACCATTTG
1 GCCCAAAACTTAGGCCAACACCATTTG
** *
70921341 GCCCAAAACTTAGGCCTGCATCATTTG
1 GCCCAAAACTTAGGCCAACACCATTTG
70921368 GCC
1 GCC
70921371 TAGTAAGGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.23
Consensus pattern (27 bp):
GCCCAAAACTTAGGCCAACACCATTTG
Found at i:70937884 original size:94 final size:94
Alignment explanation
Indices: 70937695--70937870 Score: 334
Period size: 94 Copynumber: 1.9 Consensus size: 94
70937685 TCAACATTGG
*
70937695 CACTATGTGTGCGGATTTTATATGCTATTTGAAGTAAGTTAATTGCCTTATTATAATGAGTTAAC
1 CACTATGTGTGCAGATTTTATATGCTATTTGAAGTAAGTTAATTGCCTTATTATAATGAGTTAAC
70937760 ATTGGCACTATGTGTGCGAAATTAAATGT
66 ATTGGCACTATGTGTGCGAAATTAAATGT
*
70937789 CACTTTGTGTGCAGATTTTATATGCTATTTGAAGTAAGTTAATTGCCTTATTATAATGAGTTAAC
1 CACTATGTGTGCAGATTTTATATGCTATTTGAAGTAAGTTAATTGCCTTATTATAATGAGTTAAC
70937854 ATTGGCACTATGTGTGC
66 ATTGGCACTATGTGTGC
70937871 AGATTTGAAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 80 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.40
Consensus pattern (94 bp):
CACTATGTGTGCAGATTTTATATGCTATTTGAAGTAAGTTAATTGCCTTATTATAATGAGTTAAC
ATTGGCACTATGTGTGCGAAATTAAATGT
Found at i:70937937 original size:24 final size:24
Alignment explanation
Indices: 70937905--70937968 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
70937895 GAAAATTTCA
* *
70937905 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
*
70937929 GGCACTATGTGGGCGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
70937953 AGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
70937969 ATTCGGGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.31
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:70939893 original size:48 final size:48
Alignment explanation
Indices: 70939698--70940005 Score: 266
Period size: 48 Copynumber: 6.6 Consensus size: 48
70939688 CATGTGAACT
* * *
70939698 AGTGTAAGACCATGT-T-GGACATGGCATCAGCCAC-ATTTTGTA-TGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATG-AGAGCC
* * * * *
70939744 AGTGTAAGACCATGT-T-AGACATGGCATCAG-CATTGA-CTGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCC
*** *
70939789 AGTGTAAGACCATGT-T-GGACATGGCATCGGCGTTGAT-TGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * *
70939834 AGTGTAAGACCATGTCTGGGACATGGCGTCGACCACCATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * *
70939882 AGTGTAAGACCATGT-T-GGACATGGCCTCGG-CATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * *
70939928 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* *
70939976 AGAGTAAGACTATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
70940006 AGCAACTCAC
Statistics
Matches: 222, Mismatches: 28, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
45 63 0.28
46 66 0.30
47 18 0.08
48 74 0.33
49 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:70939974 original size:94 final size:93
Alignment explanation
Indices: 70939698--70940005 Score: 322
Period size: 94 Copynumber: 3.3 Consensus size: 93
70939688 CATGTGAACT
* * *
70939698 AGTGTAAGACCATGTTGGACATGGCATCAGCCACATT--TTGTA-TGCCAGTGTAAGACCATGT-
1 AGTGTAAGACCATGTTGGACATGGCATC-G--GCATTGAATG-AGAGCCAGTGTAAGACCATGTC
* * * * *
70939759 T-AGACATGGCATCAGCATTGAC-TGTGAGCC
62 TGGGACATGGCATCGGCCTCGACATGAGAGCC
* * *
70939789 AGTGTAAGACCATGTTGGACATGGCATCGGCGTTGATTGTGAGCCAGTGTAAGACCATGTCTGGG
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATTGAATGAGAGCCAGTGTAAGACCATGTCTGGG
* * * * *
70939854 ACATGGCGTCGACCACCATATGAGAGCC
66 ACATGGCATCGGCCTCGACATGAGAGCC
* *
70939882 AGTGTAAGACCATGTTGGACATGGCCTCGGCATTGAGATGAGAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATTGA-ATGAGAGCCAGTGTAAGACCATGTCTGG
*
70939947 GACATGGCATCGGCCTCGACATGAGAGCT
65 GACATGGCATCGGCCTCGACATGAGAGCC
* *
70939976 AGAGTAAGACTATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGT-T-GGACATGGCATC
70940006 AGCAACTCAC
Statistics
Matches: 180, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
88 3 0.02
90 22 0.12
91 29 0.16
92 12 0.07
93 41 0.23
94 61 0.34
95 1 0.01
96 11 0.06
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACCATGTTGGACATGGCATCGGCATTGAATGAGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGGCCTCGACATGAGAGCC
Found at i:70941859 original size:22 final size:21
Alignment explanation
Indices: 70941827--70941870 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 21
70941817 GTTGAAGGCA
70941827 CACAGGGGTGT-CCTTGTGTC
1 CACAGGGGTGTACCTTGTGTC
70941847 CACATGGGCGTGTCACCTTGTGTC
1 CACA-GGG-GTGT-ACCTTGTGTC
70941871 ATGGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.20
21 3 0.15
22 4 0.20
24 9 0.45
ACGTcount: A:0.11, C:0.27, G:0.32, T:0.30
Consensus pattern (21 bp):
CACAGGGGTGTACCTTGTGTC
Found at i:70942318 original size:17 final size:18
Alignment explanation
Indices: 70942296--70942332 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
70942286 AATAGAAAAT
70942296 AATTAT-TGGGTTGGATA
1 AATTATATGGGTTGGATA
*
70942313 AATTATATGTGTTGGATA
1 AATTATATGGGTTGGATA
70942331 AA
1 AA
70942333 AGTCCAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (18 bp):
AATTATATGGGTTGGATA
Found at i:70954582 original size:20 final size:20
Alignment explanation
Indices: 70954553--70954597 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
70954543 AGCACATGTA
* *
70954553 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
70954573 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
70954593 TTCAT
1 TTCAT
70954598 TTTAGTCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:70958544 original size:12 final size:12
Alignment explanation
Indices: 70958527--70958551 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
70958517 ATGTAAGTGA
70958527 TCTTGATGATTT
1 TCTTGATGATTT
70958539 TCTTGATGATTT
1 TCTTGATGATTT
70958551 T
1 T
70958552 TACATTTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:70959426 original size:92 final size:92
Alignment explanation
Indices: 70959269--70959437 Score: 259
Period size: 92 Copynumber: 1.8 Consensus size: 92
70959259 TTTGTGCGCC
* * * *
70959269 AGTGTAAGGCATGTCTGGGACATGCTTCGGCCACATTATGAGAGACATTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGACAGTGTAAGACCATGTCTGG
70959334 GACATGGCATCGACATCCAGTTGGATT
66 GACATGGCATCGACATCCAGTTGGATT
* * *
70959361 AGTGTAAGACATGTCTGGGCCATGCATCAGCTATATTATGAGA-ACAAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGAC-AGTGTAAGACCATGTCTG
70959425 GGACATGGCATCG
65 GGACATGGCATCG
70959438 GCACAGAGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
91 2 0.03
92 67 0.97
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGACAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCCAGTTGGATT
Found at i:70959472 original size:47 final size:48
Alignment explanation
Indices: 70959407--70959580 Score: 177
Period size: 47 Copynumber: 3.7 Consensus size: 48
70959397 TATGAGAACA
70959407 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAGATGAGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACAGAGAT-AGTGCC
* *
70959455 AGAGTAAGA-CATATCTGGGACAT-GCATCGGCCTCAACAGAGATAG-G-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG---CAACAGAGATAGTGCC
* * * * *
70959502 AGTGTAAGA-CGTGTCTGGGACA-CGTATCGGCTA-AGAG-TTGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACAGAGATAGTGCC
*
70959546 AGTGTAAGACCATGTCTGGGACATGGCATTGGCAA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
70959581 TATATCCCAC
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 12 0.12
45 12 0.12
46 14 0.13
47 39 0.38
48 9 0.09
49 3 0.03
50 8 0.08
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.21
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACAGAGATAGTGCC
Found at i:70960589 original size:23 final size:23
Alignment explanation
Indices: 70960563--70960611 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
70960553 GGACACAGTT
*
70960563 GTGCATTTTATGTCCACACGGGC
1 GTGCATTCTATGTCCACACGGGC
70960586 GTGCATTCTATGTCCACACGGGC
1 GTGCATTCTATGTCCACACGGGC
70960609 GTG
1 GTG
70960612 TGGAGTCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.29
Consensus pattern (23 bp):
GTGCATTCTATGTCCACACGGGC
Found at i:70963505 original size:24 final size:25
Alignment explanation
Indices: 70963473--70963524 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
70963463 GCCTAGCTTC
70963473 TTTTAAT-AACTGGAGCAAAGCCCT
1 TTTTAATAAACTGGAGCAAAGCCCT
* *
70963497 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGAGCAAAGCCCT
70963522 TTT
1 TTT
70963525 CGGTAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGAGCAAAGCCCT
Found at i:70963515 original size:25 final size:25
Alignment explanation
Indices: 70963480--70963549 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
70963470 TTCTTTTAAT
* *
70963480 AACTGGAGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
70963505 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
70963530 AATTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
70963550 AGCAGTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:70963782 original size:27 final size:27
Alignment explanation
Indices: 70963753--70963918 Score: 210
Period size: 27 Copynumber: 6.2 Consensus size: 27
70963743 GGGCAAAATG
* * *
70963753 GTAATTTTACCCGACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
70963780 GTAATTCTACCCTAC-AGGGTGTTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
70963806 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
70963833 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * **
70963860 ATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
70963887 GTAATTCTACCCTATAGGGGTA-TTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
70963913 ATAATT
1 GTAATT
70963919 TTGTAAATCG
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 31 0.25
27 93 0.75
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:70963817 original size:53 final size:53
Alignment explanation
Indices: 70963754--70963918 Score: 233
Period size: 53 Copynumber: 3.1 Consensus size: 53
70963744 GGCAAAATGG
* * *
70963754 TAATTTTACCCGACAAGGGTATTTCGGTAATTCTACCCTACAGGGTGTTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTGTTTCAA
* *
70963807 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTGTTTCAA
* * *
70963861 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTATAGGG-GTATTCAA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTGT-TTCAA
70963914 TAATT
1 TAATT
70963919 TTGTAAATCG
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
52 1 0.01
53 52 0.52
54 47 0.47
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (53 bp):
TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTGTTTCAA
Found at i:70963883 original size:54 final size:54
Alignment explanation
Indices: 70963754--70963918 Score: 244
Period size: 54 Copynumber: 3.1 Consensus size: 54
70963744 GGCAAAATGG
* * * *
70963754 TAATTTTACCCGACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTGTTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
*
70963807 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
* * *
70963861 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTATAGGGGTA-TTCAA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
70963914 TAATT
1 TAATT
70963919 TTGTAAATCG
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 49 0.48
54 53 0.52
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
Found at i:70963944 original size:27 final size:26
Alignment explanation
Indices: 70963914--70963989 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
70963904 GGGTATTCAA
70963914 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTTT-TAAATCGAGGGTAAAATGG
* ***
70963941 TAATTCTATAAATCGAGGGTACTTTGG
1 TAATT-TTTAAATCGAGGGTAAAATGG
70963968 TAATTTTTACAAGTCGAGGGTA
1 TAATTTTTA-AA-TCGAGGGTA
70963990 TTTCAATAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.07
27 28 0.68
28 10 0.24
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TAATTTTTAAATCGAGGGTAAAATGG
Found at i:70964011 original size:27 final size:27
Alignment explanation
Indices: 70963940--70964298 Score: 237
Period size: 27 Copynumber: 13.3 Consensus size: 27
70963930 GGGTAAAATG
* * *
70963940 GTAATTCTATAAATCGAGGGTACTTT-G
1 GTAATTTTACAAATCGAGGGTA-TTTCA
*
70963967 GTAATTTTTACAAGTCGAGGGTATTTCA
1 GTAA-TTTTACAAATCGAGGGTATTTCA
* * *
70963995 ATAGTTTTACAAATCGAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCA
* *
70964022 GTAATTTTGCAAA-CTGAGGGTATTTCG
1 GTAATTTTACAAATC-GAGGGTATTTCA
* **
70964049 GTAATTTCACAAATC-AGGGGTATTTTG
1 GTAATTTTACAAATCGA-GGGTATTTCA
* * * **
70964076 GTAATTTTATAAACCAAGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTCA
** * * *
70964103 GTAATTTTGTAAACCAAGGGTATTT-T
1 GTAATTTTACAAATCGAGGGTATTTCA
* * *
70964129 GATAATTTTATAAGTCAAGGGTATTTCA
1 G-TAATTTTACAAATCGAGGGTATTTCA
* * **
70964157 GTAATTTCACAAAT-TAGGGGTATTTTG
1 GTAATTTTACAAATCGA-GGGTATTTCA
*
70964184 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* * **
70964211 GTAATTTCACAAAT-TAGGGGTATTTTG
1 GTAATTTTACAAATCGA-GGGTATTTCA
* *
70964238 GTAATTTTACAAA-CTAGGGGTATTTTA
1 GTAATTTTACAAATCGA-GGGTATTTCA
* * * *
70964265 GTAATTTTACCAATTGAGGGCATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCA
70964292 GTAATTT
1 GTAATTT
70964299 GGTAAACTAA
Statistics
Matches: 272, Mismatches: 47, Indels: 26
0.79 0.14 0.08
Matches are distributed among these distances:
26 5 0.02
27 245 0.90
28 22 0.08
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTCA
Found at i:70964070 original size:54 final size:54
Alignment explanation
Indices: 70963957--70964271 Score: 307
Period size: 54 Copynumber: 5.8 Consensus size: 54
70963947 TATAAATCGA
* * * * *
70963957 GGGTACTTTGGTAATTTTTAC-AAGTCGAGGGTATTTCAATAGTTTTACAAATC-G
1 GGGTATTTTGGTAA-TTTTACAAACT-GAGGGTATTTCAGTAATTTCACAAATCAG
* * *
70964011 AGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATCAG
1 -GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTCACAAATCAG
* ** ** *** * *
70964066 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTCACAAATCAG
* * * * *
70964120 GGGTATTTTGATAATTTTA-TAAGTCAAGGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACT-GAGGGTATTTCAGTAATTTCACAAATCAG
* *
70964174 GGGTATTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACT-GAGGGTATTTCAGTAATTTCACAAATCAG
*
70964228 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTTTACAAACTGA-GGGTATTTCAGTAATTT
70964272 TACCAATTGA
Statistics
Matches: 219, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
53 3 0.01
54 197 0.90
55 19 0.09
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTCACAAATCAG
Found at i:70964099 original size:81 final size:81
Alignment explanation
Indices: 70964011--70964272 Score: 301
Period size: 81 Copynumber: 3.2 Consensus size: 81
70964001 TTACAAATCG
70964011 AGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTG
1 AGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTG
* *
70964076 GTAATTTTATAAACCA
66 GTAATTTTACAAACTA
* * ** * * * * * * **
70964092 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGATAATTTTATAAGTCAAGGGTATTTCA
1 AGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTG
* *
70964157 GTAATTTCACAAATTA
66 GTAATTTTACAAACTA
* * * * * *
70964173 GGGGTATTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTT
1 AGGGTATTTTAGTAATTTTGCAAACT-GAGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTT
70964237 GGTAATTTTACAAACTA
65 GGTAATTTTACAAACTA
*
70964254 GGGGTATTTTAGTAATTTT
1 AGGGTATTTTAGTAATTTT
70964273 ACCAATTGAG
Statistics
Matches: 145, Mismatches: 35, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
80 2 0.01
81 143 0.99
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTG
GTAATTTTACAAACTA
Found at i:70964273 original size:81 final size:80
Alignment explanation
Indices: 70963999--70964298 Score: 300
Period size: 81 Copynumber: 3.7 Consensus size: 80
70963989 ATTTCAATAG
* * * *
70963999 TTTTACAAA-TCGAGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAAT
1 TTTTACAAACTAG-GGGTATTTTAGTAATTTTACAATC-GAGGGTATTTCAGTAATTTCACAAAT
70964063 CAGGGGTATTTTGGTAA
64 CAGGGGTATTTTGGTAA
* * * * * * * * * *
70964080 TTTTATAAACCAAGGGTATTTTGGTAATTTTGTA-AACCAAGGGTATTT-TGATAATTTTATAAG
1 TTTTACAAACTAGGGGTATTTTAGTAA-TTT-TACAATCGAGGGTATTTCAG-TAATTTCACAAA
* **
70964143 TCAAGGGTATTTCAGTAA
63 TCAGGGGTATTTTGGTAA
* * * *
70964161 TTTCACAAATTAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATT
1 TTTTACAAACTAGGGGTATTTTAGTAATTTTACAA-TCGAGGGTATTTCAGTAATTTCACAAATC
70964226 AGGGGTATTTTGGTAA
65 AGGGGTATTTTGGTAA
* * *
70964242 TTTTACAAACTAGGGGTATTTTAGTAATTTTACCAATTGAGGGCATTTTAGTAATTT
1 TTTTACAAACTAGGGGTATTTTAGTAATTTTA-CAATCGAGGGTATTTCAGTAATTT
70964299 GGTAAACTAA
Statistics
Matches: 175, Mismatches: 36, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
79 2 0.01
80 6 0.03
81 156 0.89
82 10 0.06
83 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
TTTTACAAACTAGGGGTATTTTAGTAATTTTACAATCGAGGGTATTTCAGTAATTTCACAAATCA
GGGGTATTTTGGTAA
Found at i:70973592 original size:20 final size:20
Alignment explanation
Indices: 70973563--70973607 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
70973553 AGCACATGTA
* *
70973563 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
70973583 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
70973603 TTCAT
1 TTCAT
70973608 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:70978499 original size:25 final size:24
Alignment explanation
Indices: 70978462--70978513 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
70978452 ATGTCCAAGC
*
70978462 GAGCCATTTCAGGA-AGCTCACAAA
1 GAGCCATATCAGGACA-CTCACAAA
*
70978486 GAGCCTATATCAGGACACTCATAAA
1 GAGCC-ATATCAGGACACTCACAAA
70978511 GAG
1 GAG
70978514 TTGTGTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 18 0.75
26 1 0.04
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGACACTCACAAA
Found at i:70981652 original size:41 final size:41
Alignment explanation
Indices: 70981607--70981689 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
70981597 GATCAGTGTA
*
70981607 TATGTAACATTTTTCACCAAACAAATAGTGTCGCCAAATTT
1 TATGTAACATTTTTCACCAAACAAATAGTGTCACCAAATTT
70981648 TATGTAACATTTTTCACCAAACAAATAGTGTCACCAAATTT
1 TATGTAACATTTTTCACCAAACAAATAGTGTCACCAAATTT
70981689 T
1 T
70981690 TAATGCAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.35
Consensus pattern (41 bp):
TATGTAACATTTTTCACCAAACAAATAGTGTCACCAAATTT
Found at i:71003602 original size:20 final size:20
Alignment explanation
Indices: 71003577--71003631 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
71003567 TGTGGTTCAA
*
71003577 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
71003597 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
71003617 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
71003632 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:71007120 original size:27 final size:27
Alignment explanation
Indices: 71007090--71007267 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
71007080 ATATTGAGCC
* *
71007090 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
71007117 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
71007144 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
71007172 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
71007199 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
71007226 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
71007253 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71007268 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:71007202 original size:55 final size:54
Alignment explanation
Indices: 71007090--71007267 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
71007080 ATATTGAGCC
* * * * *
71007090 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
71007144 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
71007199 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
71007253 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71007268 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:71013581 original size:50 final size:50
Alignment explanation
Indices: 71013506--71013731 Score: 253
Period size: 50 Copynumber: 4.5 Consensus size: 50
71013496 TGAATACACG
* *
71013506 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * ** *
71013556 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * * *
71013607 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * *
71013657 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
71013706 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
71013732 TGCGTATCAG
Statistics
Matches: 151, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 33 0.22
50 74 0.49
51 35 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:71013677 original size:101 final size:97
Alignment explanation
Indices: 71013502--71013743 Score: 288
Period size: 101 Copynumber: 2.4 Consensus size: 97
71013492 ATTGTGAATA
* * * *
71013502 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTGAAGTCACATGTGTAGTACT
*
71013567 AAGTGCAGGCTACTATGCGTACTC-AATGACTTCGAT
65 AAGTGCAGGCTACTACGCGTAC-CGAATG--TT-GAT
* *
71013603 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GTGAAGTCACATGTGTAGTACT
* * *
71013668 AAGTGCAGGCTACTACGTGTACCGGATTGTTGGT
65 AAGTGCAGGCTACTACGCGTACC-GAATGTTGAT
* * * *
71013702 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
71013744 AGCTTCGGCT
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
99 40 0.32
100 4 0.03
101 77 0.62
102 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (97 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTGAAGTCACATGTGTAGTACTA
AGTGCAGGCTACTACGCGTACCGAATGTTGAT
Found at i:71013861 original size:27 final size:26
Alignment explanation
Indices: 71013831--71013882 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
71013821 GGGAAAATCG
71013831 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
71013858 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
71013883 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:71015035 original size:43 final size:42
Alignment explanation
Indices: 71014948--71015028 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
71014938 GTTACATTGA
* * *
71014948 CATCGTATTTGATTTCGTGTAAGACCCTGTCTGGGACAGTGG
1 CATCGTATTTGATTACATGTAAGACCCTGTCTAGGACAGTGG
*
71014990 CATCGATATTTGGTTACATGTAAGACCAC-GTCTAGGACA
1 CATCG-TATTTGATTACATGTAAGACC-CTGTCTAGGACA
71015029 TGGGCATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 5 0.15
43 27 0.82
44 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
CATCGTATTTGATTACATGTAAGACCCTGTCTAGGACAGTGG
Found at i:71021393 original size:27 final size:27
Alignment explanation
Indices: 71021325--71021395 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
71021315 CTCACATAGG
* *
71021325 GGCAAAACGATCATCTTACCACATAAA
1 GGCAAAACAATCATTTTACCACATAAA
* * *
71021352 GGCAAAATAGTCATTTTACCACGT-AA
1 GGCAAAACAATCATTTTACCACATAAA
71021378 GGACAAAACAATCATTTT
1 GG-CAAAACAATCATTTT
71021396 GTCAATTTGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 4 0.11
27 32 0.89
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (27 bp):
GGCAAAACAATCATTTTACCACATAAA
Found at i:71034840 original size:17 final size:17
Alignment explanation
Indices: 71034818--71034853 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
71034808 TAAAATGGAC
71034818 TATACAAATAAGTGAGT
1 TATACAAATAAGTGAGT
71034835 TATACAAATAAGTGAGT
1 TATACAAATAAGTGAGT
71034852 TA
1 TA
71034854 AGTCTGCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.31
Consensus pattern (17 bp):
TATACAAATAAGTGAGT
Found at i:71040654 original size:27 final size:26
Alignment explanation
Indices: 71040624--71040675 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
71040614 GGGAAAATCG
71040624 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
71040651 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
71040676 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:71048009 original size:55 final size:55
Alignment explanation
Indices: 71047949--71048058 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
71047939 ACAAAGTGTT
* * *
71047949 TTTGAAACTCTTACCGTGGAAGAAAGTAATTTGATTTGGCAGAAAATGCAAGCTG
1 TTTGAAACTCTCACCGTGGAAGAAAGTAACTTGATTTGGCAGAAAAGGCAAGCTG
71048004 TTTGAAACTCTCACCGTGGAAGAAAGTAACTTGATTTGGCAGAAAAGGCAAGCTG
1 TTTGAAACTCTCACCGTGGAAGAAAGTAACTTGATTTGGCAGAAAAGGCAAGCTG
71048059 AGTCCGAGGT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.26
Consensus pattern (55 bp):
TTTGAAACTCTCACCGTGGAAGAAAGTAACTTGATTTGGCAGAAAAGGCAAGCTG
Found at i:71059907 original size:17 final size:16
Alignment explanation
Indices: 71059868--71059899 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
71059858 TGTGTAACAC
71059868 CCCAAAAATCCTGAAA
1 CCCAAAAATCCTGAAA
71059884 CCCAAAAATCCTGAAA
1 CCCAAAAATCCTGAAA
71059900 ACTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
CCCAAAAATCCTGAAA
Found at i:71063421 original size:16 final size:15
Alignment explanation
Indices: 71063399--71063441 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
71063389 AGTAGATCGA
71063399 CAAAAGCCGAAATGC
1 CAAAAGCCGAAATGC
*
71063414 CGAAAAGCCAAAATGC
1 C-AAAAGCCGAAATGC
*
71063430 CAAAAGACGAAA
1 CAAAAGCCGAAA
71063442 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.53, C:0.23, G:0.19, T:0.05
Consensus pattern (15 bp):
CAAAAGCCGAAATGC
Found at i:71063683 original size:28 final size:29
Alignment explanation
Indices: 71063664--71063768 Score: 137
Period size: 28 Copynumber: 3.7 Consensus size: 29
71063654 ATAATGTGAT
71063664 TTGGGCC-AGATGGGCCATATAAATGAGA
1 TTGGGCCTAGATGGGCCATATAAATGAGA
* * * *
71063692 CTGGGCCTA-ACGGGCCATATGAATGCGAA
1 TTGGGCCTAGATGGGCCATATAAATGAG-A
71063721 TTGGGCCT-GATGGGCCATATAAATGAGA
1 TTGGGCCTAGATGGGCCATATAAATGAGA
71063749 TTGGGCCTAG-TGGGCCATAT
1 TTGGGCCTAGATGGGCCATAT
71063769 GCATGTATGT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
28 40 0.62
29 25 0.38
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (29 bp):
TTGGGCCTAGATGGGCCATATAAATGAGA
Found at i:71072262 original size:673 final size:673
Alignment explanation
Indices: 71070976--71072322 Score: 2685
Period size: 673 Copynumber: 2.0 Consensus size: 673
71070966 ATATAGTGGT
71070976 GGAGATTTGATTTTCATGCAAGCCTATAGTAATAACATTTCATATTGACTAATGAGTGCTTTATT
1 GGAGATTTGATTTTCATGCAAGCCTATAGTAATAACATTTCATATTGACTAATGAGTGCTTTATT
71071041 TGATGTCCTTAAACACCTCGAGTGATTTGAGTGAATCTTTAGTGAGGATGTTAAACTCTGTGATA
66 TGATGTCCTTAAACACCTCGAGTGATTTGAGTGAATCTTTAGTGAGGATGTTAAACTCTGTGATA
71071106 TTTTGATCAAAGGTGATTACTTAGATGAGGGGGGACACCTATGTTTTCGTGATAAAATGCATAAC
131 TTTTGATCAAAGGTGATTACTTAGATGAGGGGGGACACCTATGTTTTCGTGATAAAATGCATAAC
71071171 TTGGAATGTTTGAAACTTTGATGTCCTTTTAGTTGAATTTTCAATGTATGATTACTTATGGATTA
196 TTGGAATGTTTGAAACTTTGATGTCCTTTTAGTTGAATTTTCAATGTATGATTACTTATGGATTA
71071236 TTTTGAGATATTATTTATAGGGATTATAAATTGAGAAGAATTTATTTTGATTGTGAGTTGAGGCT
261 TTTTGAGATATTATTTATAGGGATTATAAATTGAGAAGAATTTATTTTGATTGTGAGTTGAGGCT
71071301 TTTGCTTGAGGACAAGCAAACGCTTAAGTGTGGGGGTATTTGATAAACCGTAATCCATACATATT
326 TTTGCTTGAGGACAAGCAAACGCTTAAGTGTGGGGGTATTTGATAAACCGTAATCCATACATATT
71071366 TTTATCCCATGATTAGCACATTTATGGATGGTTTCTCCTTAGATTTGGTGAATTCGATGCTCCTA
391 TTTATCCCATGATTAGCACATTTATGGATGGTTTCTCCTTAGATTTGGTGAATTCGATGCTCCTA
71071431 ATTCTTTAATTTCATGTTTTATACTTAGGTGAGCATAGGAGAGTAAAAAGAGCGAAAAACGGGCC
456 ATTCTTTAATTTCATGTTTTATACTTAGGTGAGCATAGGAGAGTAAAAAGAGCGAAAAACGGGCC
71071496 GAAAGCGGAGAAAATGGACCGACATGGGAAATCAACATGGCCTGGACTTCCTCGCACGAGTAAGC
521 GAAAGCGGAGAAAATGGACCGACATGGGAAATCAACATGGCCTGGACTTCCTCGCACGAGTAAGC
*
71071561 TACACAGCCATGTCCATTTGGTAGGATCGAAGCACGACTTCCACAGGGAGACTGCACACCCGTGC
586 TACACAGCCATGTCCATTTGGTAGGATCGAAGCACGACTTCCACAGGGAGACTACACACCCGTGC
71071626 CTATTTAACAGCCTTGACCACGG
651 CTATTTAACAGCCTTGACCACGG
71071649 GGAGATTTGATTTTCATGCAAGCCTATAGTAATAACATTTCATATTGACTAATGAGTGCTTTATT
1 GGAGATTTGATTTTCATGCAAGCCTATAGTAATAACATTTCATATTGACTAATGAGTGCTTTATT
71071714 TGATGTCCTTAAACACCTCGAGTGATTTGAGTGAATCTTTAGTGAGGATGTTAAACTCTGTGATA
66 TGATGTCCTTAAACACCTCGAGTGATTTGAGTGAATCTTTAGTGAGGATGTTAAACTCTGTGATA
71071779 TTTTGATCAAAGGTGATTACTTAGATGAGGGGGGACACCTATGTTTTCGTGATAAAATGCATAAC
131 TTTTGATCAAAGGTGATTACTTAGATGAGGGGGGACACCTATGTTTTCGTGATAAAATGCATAAC
71071844 TTGGAATGTTTGAAACTTTGATGTCCTTTTAGTTGAATTTTCAATGTATGATTACTTATGGATTA
196 TTGGAATGTTTGAAACTTTGATGTCCTTTTAGTTGAATTTTCAATGTATGATTACTTATGGATTA
71071909 TTTTGAGATATTATTTATAGGGATTATAAATTGAGAAGAATTTATTTTGATTGTGAGTTGAGGCT
261 TTTTGAGATATTATTTATAGGGATTATAAATTGAGAAGAATTTATTTTGATTGTGAGTTGAGGCT
71071974 TTTGCTTGAGGACAAGCAAACGCTTAAGTGTGGGGGTATTTGATAAACCGTAATCCATACATATT
326 TTTGCTTGAGGACAAGCAAACGCTTAAGTGTGGGGGTATTTGATAAACCGTAATCCATACATATT
71072039 TTTATCCCATGATTAGCACATTTATGGATGGTTTCTCCTTAGATTTGGTGAATTCGATGCTCCTA
391 TTTATCCCATGATTAGCACATTTATGGATGGTTTCTCCTTAGATTTGGTGAATTCGATGCTCCTA
71072104 ATTCTTTAATTTCATGTTTTATACTTAGGTGAGCATAGGAGAGTAAAAAGAGCGAAAAACGGGCC
456 ATTCTTTAATTTCATGTTTTATACTTAGGTGAGCATAGGAGAGTAAAAAGAGCGAAAAACGGGCC
71072169 GAAAGCGGAGAAAATGGACCGACATGGGAAATCAACATGGCCTGGACTTCCTCGCACGAGTAAGC
521 GAAAGCGGAGAAAATGGACCGACATGGGAAATCAACATGGCCTGGACTTCCTCGCACGAGTAAGC
71072234 TACACAGCCATGTCCATTTGGTAGGATCGAAGCACGACTTCCACAGGGAGACTACACACCCGTGC
586 TACACAGCCATGTCCATTTGGTAGGATCGAAGCACGACTTCCACAGGGAGACTACACACCCGTGC
71072299 CTATTTAACAGCCTTGACCACGG
651 CTATTTAACAGCCTTGACCACGG
71072322 G
1 G
71072323 CTGGAGCAAT
Statistics
Matches: 673, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
673 673 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (673 bp):
GGAGATTTGATTTTCATGCAAGCCTATAGTAATAACATTTCATATTGACTAATGAGTGCTTTATT
TGATGTCCTTAAACACCTCGAGTGATTTGAGTGAATCTTTAGTGAGGATGTTAAACTCTGTGATA
TTTTGATCAAAGGTGATTACTTAGATGAGGGGGGACACCTATGTTTTCGTGATAAAATGCATAAC
TTGGAATGTTTGAAACTTTGATGTCCTTTTAGTTGAATTTTCAATGTATGATTACTTATGGATTA
TTTTGAGATATTATTTATAGGGATTATAAATTGAGAAGAATTTATTTTGATTGTGAGTTGAGGCT
TTTGCTTGAGGACAAGCAAACGCTTAAGTGTGGGGGTATTTGATAAACCGTAATCCATACATATT
TTTATCCCATGATTAGCACATTTATGGATGGTTTCTCCTTAGATTTGGTGAATTCGATGCTCCTA
ATTCTTTAATTTCATGTTTTATACTTAGGTGAGCATAGGAGAGTAAAAAGAGCGAAAAACGGGCC
GAAAGCGGAGAAAATGGACCGACATGGGAAATCAACATGGCCTGGACTTCCTCGCACGAGTAAGC
TACACAGCCATGTCCATTTGGTAGGATCGAAGCACGACTTCCACAGGGAGACTACACACCCGTGC
CTATTTAACAGCCTTGACCACGG
Found at i:71078176 original size:15 final size:15
Alignment explanation
Indices: 71078139--71078209 Score: 74
Period size: 15 Copynumber: 4.7 Consensus size: 15
71078129 GTATCTTGGG
*
71078139 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
71078154 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
* *
71078169 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
71078184 TTTCTGTA-TCTTGGA
1 TTTCTTTATTC-TGGA
71078199 TTTCTTTATTC
1 TTTCTTTATTC
71078210 GGTTTTTTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.09
15 37 0.82
16 4 0.09
ACGTcount: A:0.11, C:0.17, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:71080758 original size:93 final size:93
Alignment explanation
Indices: 71080599--71080769 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
71080589 GGATGGTTGA
* *
71080599 GCATCCGAACTCGTTGAATTGAGTCCGACTTCACTTATGGATGCAAATGACCGAACTCGTTAAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGACTTCACTTATGGATACAAACGACCGAACTCGTTAAGT
71080664 TGAGTCCGAGTTCGTGAGATTTAACTAG
66 TGAGTCCGAGTTCGTGAGATTTAACTAG
* * * * * * * * *
71080692 GCATCTGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGACTTCACTTATGGATACAAACGACCGAACTCGTTAAGT
71080757 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71080770 ACTTAGGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTGAGTCCGACTTCACTTATGGATACAAACGACCGAACTCGTTAAGT
TGAGTCCGAGTTCGTGAGATTTAACTAG
Found at i:71083752 original size:15 final size:15
Alignment explanation
Indices: 71083715--71083785 Score: 74
Period size: 15 Copynumber: 4.7 Consensus size: 15
71083705 GTATCTTGGG
*
71083715 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
71083730 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
* *
71083745 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
71083760 TTTCTGTA-TCTTGGA
1 TTTCTTTATTC-TGGA
71083775 TTTCTTTATTC
1 TTTCTTTATTC
71083786 GGTTTTTTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.09
15 37 0.82
16 4 0.09
ACGTcount: A:0.11, C:0.17, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:71086223 original size:46 final size:46
Alignment explanation
Indices: 71086173--71086348 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
71086163 TGGTTGAGCA
71086173 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71086219 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
71086264 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71086312 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71086349 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 65 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71086329 original size:93 final size:93
Alignment explanation
Indices: 71086170--71086340 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
71086160 GGATGGTTGA
* *
71086170 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71086235 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
71086263 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71086328 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71086341 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71087622 original size:108 final size:108
Alignment explanation
Indices: 71087433--71087647 Score: 385
Period size: 108 Copynumber: 2.0 Consensus size: 108
71087423 AGAAACAAAT
**
71087433 TACCAGATAGATATATGAGTCTAGTTTCAGGAAAAATTTATGGAATTGGATTTTGAGTTTTTGAA
1 TACCAGATAGATATATGAGTCTAGTTTCAGGAAAAATTTATGGAATTGGATTTTGAGTTTCGGAA
* *
71087498 CTCTAGATATGATTTTTAAAGCGACTGTGATGCAGTTAGCCAA
66 CTCAAGATATGATTTTTAAAGCGACTATGATGCAGTTAGCCAA
*
71087541 TACCAGATAGATATATGAGTCTAGTTTCAGGAAAAATTTATGGAATTGGATTTTGAGTTTCGGAG
1 TACCAGATAGATATATGAGTCTAGTTTCAGGAAAAATTTATGGAATTGGATTTTGAGTTTCGGAA
71087606 CTCAAGATATGATTTTTAAAGCGACTATGATGCAGTTAGCCA
66 CTCAAGATATGATTTTTAAAGCGACTATGATGCAGTTAGCCA
71087648 GCTTGTCTGG
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.35
Consensus pattern (108 bp):
TACCAGATAGATATATGAGTCTAGTTTCAGGAAAAATTTATGGAATTGGATTTTGAGTTTCGGAA
CTCAAGATATGATTTTTAAAGCGACTATGATGCAGTTAGCCAA
Found at i:71089634 original size:26 final size:26
Alignment explanation
Indices: 71089601--71089672 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
71089591 GAGCTTAAAA
*
71089601 CAGTAAGCTCTTACGAGCTGATATGT
1 CAGTAAGCTCTTACGAGCTGATATAT
71089627 CAGTAAGCTCTTACGAGCTGATATAT
1 CAGTAAGCTCTTACGAGCTGATATAT
* *
71089653 CGGTAAGCTCTGACGAGCTG
1 CAGTAAGCTCTTACGAGCTG
71089673 TGGTGAGTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (26 bp):
CAGTAAGCTCTTACGAGCTGATATAT
Found at i:71092283 original size:44 final size:43
Alignment explanation
Indices: 71092220--71092361 Score: 150
Period size: 44 Copynumber: 3.3 Consensus size: 43
71092210 TGTGTTATCG
*
71092220 TGTAAGACCACGTGTGGGACGTTGGCATCGACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTT-TGATTTACA
*
71092264 TGTAAGACCACGTCTGGGACATTGGCATCGTAC-TTGATTT-CA
1 TGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTTGATTTACA
* * * *
71092306 TGTAATA-CACTATCTGGGACAG-TGGCTTCGATATTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGA-CTTTGATTTACA
71092349 TGTAAGACCACGT
1 TGTAAGACCACGT
71092362 TAGATACGTT
Statistics
Matches: 82, Mismatches: 9, Indels: 15
0.77 0.08 0.14
Matches are distributed among these distances:
41 4 0.05
42 25 0.30
43 19 0.23
44 32 0.39
45 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACTTTGATTTACA
Found at i:71093620 original size:15 final size:15
Alignment explanation
Indices: 71093560--71093624 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
71093550 TAAAGATAAC
* *
71093560 AAGAAAACC-GAAAA
1 AAGAAATCCAGAATA
71093574 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
71093589 GAA-AAACCCAGATTA
1 -AAGAAATCCAGAATA
71093604 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
71093619 AAGAAA
1 AAGAAA
71093625 CCCAAGATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
14 11 0.28
15 26 0.65
16 3 0.08
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:71096696 original size:49 final size:49
Alignment explanation
Indices: 71096643--71096871 Score: 284
Period size: 49 Copynumber: 4.7 Consensus size: 49
71096633 CTGGTACGCA
* * *
71096643 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* *
71096692 TAGTAGCCTGAACTTAGTACTACACACGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * *
71096741 TAGTAGCCTGTACTTAGTACTACACACGTGACACCATT-T--GATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC-CAATTATCCGGTACACG
* * * * *
71096788 TAGTAGCCTGCACTTAGTACTACACACGTGATCATAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCA-A-TTATCCGGTACACG
*
71096839 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
71096872 TCACAATAGA
Statistics
Matches: 157, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
46 1 0.01
47 37 0.24
48 2 0.01
49 77 0.49
50 4 0.03
51 36 0.23
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:71104807 original size:44 final size:42
Alignment explanation
Indices: 71104737--71104894 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 42
71104727 TATGTGTTAT
* * *
71104737 CGTGTAAGACCACATCTGTGATGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATC-ACTT-TGATTTA
71104781 CGTGTAAGACCACGTCTGGGACGTTGGCATCA-TACTTGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCACT--TTGATTTA
* *
71104823 CGTGTAAAACC-CTGTCTGGGACAG-TGGCATCAATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC-A-CTTTGATTTA
* * * *
71104866 CATGTATGACCATGTCTGGGACATTGGCA
1 CGTGTAAGACCACGTCTGGGACGTTGGCA
71104895 CTATACGAGC
Statistics
Matches: 95, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
41 1 0.01
42 29 0.31
43 35 0.37
44 29 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCACTTTGATTTA
Found at i:71104840 original size:42 final size:43
Alignment explanation
Indices: 71104774--71104894 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
71104764 CATCGACTTA
71104774 TGATTTACGTGTAAGACCAC-GTCTGGGACGTTGGCATC-ATACT
1 TGATTT-CGTGTAAGACC-CTGTCTGGGACGTTGGCATCAATACT
* *
71104817 TGATTTCGTGTAAAACCCTGTCTGGGACAG-TGGCATCAATATT
1 TGATTTCGTGTAAGACCCTGTCTGGGAC-GTTGGCATCAATACT
* * * * *
71104860 TGATTACATGTATGACCATGTCTGGGACATTGGCA
1 TGATTTCGTGTAAGACCCTGTCTGGGACGTTGGCA
71104895 CTATACGAGC
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.02
42 26 0.39
43 39 0.59
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACGTTGGCATCAATACT
Found at i:71117349 original size:42 final size:42
Alignment explanation
Indices: 71117287--71117408 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
71117277 TGGGGGTTAC
*
71117287 TGAGATTACATGTAAAACCATATCTGGGATATGGCATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
71117329 TGAGACTT-CATGTAAGACCATAGCTAGGCTATTGGCATTGATA
1 TGAGA-TTACATGTAAGACCATATCTGGGATA-TGGCATCGATA
* *
71117372 CGAGATTACATGTAAGACCATGTCTGGGATATGGCAT
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCAT
71117409 TGGTACAGTA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:71118907 original size:13 final size:13
Alignment explanation
Indices: 71118891--71118921 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
71118881 AGTCACGGCA
*
71118891 GTGTGTCTCGACC
1 GTGTGTCTCAACC
71118904 GTGTGTCTCAACC
1 GTGTGTCTCAACC
71118917 GTGTG
1 GTGTG
71118922 AAGGACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.26, G:0.32, T:0.32
Consensus pattern (13 bp):
GTGTGTCTCAACC
Found at i:71125524 original size:27 final size:27
Alignment explanation
Indices: 71125487--71125599 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
71125477 AGCATGGCTG
* *
71125487 CCAGA-ACAGATATTGTGACAGAGTCA
1 CCAGATACAGATATTGTGGCAGAGCCA
71125513 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGATACAGATATTGTGGCAGAGCCA
* *
71125540 CTAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
* *
71125568 CCAGAT-CAGATATTTGTGGTAGACCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
71125595 CCAGA
1 CCAGA
71125600 ACGCTTCCTC
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.06
27 54 0.70
28 18 0.23
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CCAGATACAGATATTGTGGCAGAGCCA
Found at i:71125579 original size:54 final size:55
Alignment explanation
Indices: 71125487--71125600 Score: 153
Period size: 55 Copynumber: 2.1 Consensus size: 55
71125477 AGCATGGCTG
* *
71125487 CCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTGGCAGACCCA
* * *
71125540 CTAGAAACAGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGTAGACCCA
1 CCAGAAACAGATA-TTGTGACAGAGCCACCAGATACAGATATTTGTGGCAGACCCA
71125595 CCAGAA
1 CCAGAA
71125601 CGCTTCCTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 3 0.06
54 14 0.27
55 35 0.67
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (55 bp):
CCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATATTTGTGGCAGACCCA
Found at i:71128500 original size:40 final size:40
Alignment explanation
Indices: 71128463--71128594 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
71128453 GCTACTCGTT
*
71128463 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* * *
71128503 CAACTGCCTTCGGGACTTAACCGGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** * * * *
71128543 CCAATGCCTTTAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
71128582 CAAATGCCTTCGG
1 CAAATGCCTTCGG
71128595 ATCTTAGTCC
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
39 31 0.41
40 43 0.57
41 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:71133409 original size:40 final size:40
Alignment explanation
Indices: 71133304--71133955 Score: 959
Period size: 40 Copynumber: 16.5 Consensus size: 40
71133294 CGGATGATAA
71133304 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71133344 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
71133383 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71133423 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
71133462 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71133502 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
71133541 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71133581 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
71133620 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * * **
71133660 CCGGGCTAAG-CCCGAAGGGCATGAATATTCG-G--A-TGATAA
1 CCGGGCTAAGTCCCGAA-GGCAT--TTGTGCGAGTTACT-ATTT
71133699 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
71133739 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
71133779 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * *
71133819 CCGGGCTAA-CCCCGAAGGCATTTGTGCTAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
**
71133858 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71133898 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
* *
71133938 CC-GGCTAAATACCGAAGG
1 CCGGGCTAAGTCCCGAAGG
71133956 TACTTGGTTT
Statistics
Matches: 557, Mismatches: 40, Indels: 31
0.89 0.06 0.05
Matches are distributed among these distances:
37 4 0.01
38 2 0.00
39 224 0.40
40 321 0.58
41 2 0.00
42 4 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:71133565 original size:119 final size:119
Alignment explanation
Indices: 71133304--71133945 Score: 969
Period size: 119 Copynumber: 5.4 Consensus size: 119
71133294 CGGATGATAA
71133304 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
*
71133369 GTGAGTTACTATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
66 GCGAGTTACTATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71133423 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATGTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAG-CCCGAAGGCATTTG
* * *
71133487 TGCGAGTTACTATTTCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATGT
65 TGCGAGTTACTATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
71133541 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
*
71133606 GTGAGTTACTATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
66 GCGAGTTACTATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * * **
71133660 CCGGGCTAAG-CCCGAAGGGCATGAATATTCG-G--A-TGATAACCGGGCTAAGTCCCGAAGGCA
1 CCGGGCTAAGTCCCGAA-GGCAT--TTGTGCGAGTTACT-ATTTCCGGGCTAAG-CCCGAAGGCA
* *
71133720 TTTGTGCGAGTTACTATTTCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATTT
61 TTTGTGCGAGTTACTATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71133779 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATTTCCGGGCTAACCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
* **
71133844 GCTAGTTACTATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
66 GCGAGTTACTATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71133898 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTTCCGGGCTAA
71133946 ATACCGAAGG
Statistics
Matches: 474, Mismatches: 35, Indels: 29
0.88 0.07 0.05
Matches are distributed among these distances:
117 4 0.01
118 139 0.29
119 307 0.65
120 19 0.04
121 5 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
GCGAGTTACTATGTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:71133955 original size:79 final size:79
Alignment explanation
Indices: 71133304--71133922 Score: 1034
Period size: 79 Copynumber: 7.8 Consensus size: 79
71133294 CGGATGATAA
71133304 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
71133369 GTGAGTTACTATGT
66 GTGAGTTACTATGT
71133383 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
71133448 GTGAGTTACTATGT
66 GTGAGTTACTATGT
71133462 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
71133527 GTGAGTTACTATGT
66 GTGAGTTACTATGT
71133541 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
71133606 GTGAGTTACTATGT
66 GTGAGTTACTATGT
71133620 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGGCA--TG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAA-GGCATTTG
** *
71133683 AAT-A-TT-CGGATGAT
65 TGTGAGTTAC-TATG-T
*
71133697 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCTCGAAGGCATT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAG-CCCGAAGGCATT
* *
71133762 TGTGCGAGTTACTATTT
63 TGTGTGAGTTACTATGT
* *
71133779 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATTTCCGGGCTAACCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
71133844 GCT-AGTTACTATGT
66 G-TGAGTTACTATGT
**
71133858 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAG-CCCGAAGGCATTTG
71133923 AGCGAGTAGC
Statistics
Matches: 509, Mismatches: 18, Indels: 25
0.92 0.03 0.05
Matches are distributed among these distances:
75 1 0.00
76 5 0.01
77 2 0.00
78 3 0.01
79 418 0.82
80 71 0.14
81 2 0.00
82 2 0.00
83 4 0.01
84 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGCCCGAAGGCATTTGT
GTGAGTTACTATGT
Found at i:71134841 original size:251 final size:251
Alignment explanation
Indices: 71134397--71134897 Score: 966
Period size: 251 Copynumber: 2.0 Consensus size: 251
71134387 AACTCTGAAA
71134397 ATGGCATGTATAGGACTACCCTTTTGTTGTTAGTCAAGTACTTTGGTGTTGTATATATTTGGATA
1 ATGGCATGTATAGGACTACCCTTTTGTTGTTAGTCAAGTACTTTGGTGTTGTATATATTTGGATA
71134462 GCCATGCGAAAATGGCTTATATATTTTGAGCATAGTGTTATAATCATTTTGTATGTATATGGTTA
66 GCCATGCGAAAATGGCTTATATATTTTGAGCATAGTGTTATAATCATTTTGTATGTATATGGTTA
*
71134527 TTGAGAGGTGTGGATATGCTTGGCAATGATTGGCCATTGAAATGGTTAATCATGATTATATTTTG
131 TTGAGAGGTGTGGATATGCTTGGCAATGATTGGCCATTGAAATGGTTAATCATGATCATATTTTG
*
71134592 TGCCATATATGCTAAAGGGCTAGTTGAATCATGGAAACTACGAAATAGGTAAAGTC
196 TGACATATATGCTAAAGGGCTAGTTGAATCATGGAAACTACGAAATAGGTAAAGTC
71134648 ATGGCATGTATAGGACTACCCTTTTGTTGTTAGTCAAGTACTTTGGTGTTGTATATATTTGGATA
1 ATGGCATGTATAGGACTACCCTTTTGTTGTTAGTCAAGTACTTTGGTGTTGTATATATTTGGATA
71134713 GCCATGCGAAAATGGCTTATATATTTTGAGCATAGTGTTATAATCATTTTGTATGTATATGGTTA
66 GCCATGCGAAAATGGCTTATATATTTTGAGCATAGTGTTATAATCATTTTGTATGTATATGGTTA
*
71134778 TTGAGAGGTGTGGATATGCTTGGCAATGATTGGCCATTGGAATGGTTAATCATGATCATATTTTG
131 TTGAGAGGTGTGGATATGCTTGGCAATGATTGGCCATTGAAATGGTTAATCATGATCATATTTTG
*
71134843 TGACATATATGCTAAAGGGCTAGTTGAATCATGGAAACTATGAAATAGGTAAAGT
196 TGACATATATGCTAAAGGGCTAGTTGAATCATGGAAACTACGAAATAGGTAAAGT
71134898 ATACCTTAAA
Statistics
Matches: 246, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
251 246 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (251 bp):
ATGGCATGTATAGGACTACCCTTTTGTTGTTAGTCAAGTACTTTGGTGTTGTATATATTTGGATA
GCCATGCGAAAATGGCTTATATATTTTGAGCATAGTGTTATAATCATTTTGTATGTATATGGTTA
TTGAGAGGTGTGGATATGCTTGGCAATGATTGGCCATTGAAATGGTTAATCATGATCATATTTTG
TGACATATATGCTAAAGGGCTAGTTGAATCATGGAAACTACGAAATAGGTAAAGTC
Found at i:71140871 original size:89 final size:89
Alignment explanation
Indices: 71140720--71140894 Score: 350
Period size: 89 Copynumber: 2.0 Consensus size: 89
71140710 TGTGTGAGAA
71140720 TTTGAAAAAGGTAGGTCTTAGCAACTTCATGAAGCATTCGGCCATGGTAGGAAGTAGAAGAGAAA
1 TTTGAAAAAGGTAGGTCTTAGCAACTTCATGAAGCATTCGGCCATGGTAGGAAGTAGAAGAGAAA
71140785 TATAGTTGTTGTTCATGTTAGGAT
66 TATAGTTGTTGTTCATGTTAGGAT
71140809 TTTGAAAAAGGTAGGTCTTAGCAACTTCATGAAGCATTCGGCCATGGTAGGAAGTAGAAGAGAAA
1 TTTGAAAAAGGTAGGTCTTAGCAACTTCATGAAGCATTCGGCCATGGTAGGAAGTAGAAGAGAAA
71140874 TATAGTTGTTGTTCATGTTAG
66 TATAGTTGTTGTTCATGTTAG
71140895 ATGAAGTAGA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (89 bp):
TTTGAAAAAGGTAGGTCTTAGCAACTTCATGAAGCATTCGGCCATGGTAGGAAGTAGAAGAGAAA
TATAGTTGTTGTTCATGTTAGGAT
Found at i:71141960 original size:80 final size:80
Alignment explanation
Indices: 71141827--71142456 Score: 991
Period size: 80 Copynumber: 7.9 Consensus size: 80
71141817 GGATGATAAC
71141827 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
71141892 GCGAGTTACTATTTT
66 GCGAGTTACTATTTT
71141907 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
71141972 GCGAGTTACTATTTT
66 GCGAGTTACTATTTT
71141987 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
71142052 GCGAGTTACTATTTT
66 GCGAGTTACTATTTT
71142067 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
71142132 GCGAGTTACTATTTT
66 GCGAGTTACTATTTT
* *
71142147 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGGCATGAA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAA-GGTAT--T
* * ***
71142212 TATTCG-G--A-TGATAAC
63 TGTGCGAGTTACT-ATTTT
71142227 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
71142292 GCGAGTTACTATTTT
66 GCGAGTTACTATTTT
* * *
71142307 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAG-CCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
* * *
71142371 GTGAGTTACTATGTC
66 GCGAGTTACTATTTT
* * * ** * * * *
71142386 CGGGCTAAGTCCCGAAAGTATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCATTTGA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
71142451 GCGAGT
66 GCGAGT
71142457 AGCTATATCC
Statistics
Matches: 514, Mismatches: 27, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
77 4 0.01
78 1 0.00
79 74 0.14
80 425 0.83
81 5 0.01
82 1 0.00
83 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTTCCGGGCTAAGTCCTGAAGGTATTTGT
GCGAGTTACTATTTT
Found at i:71142463 original size:40 final size:40
Alignment explanation
Indices: 71141826--71142456 Score: 876
Period size: 40 Copynumber: 15.8 Consensus size: 40
71141816 CGGATGATAA
*
71141826 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71141866 CCGGGCTAAGTCCTGAAGGTATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71141906 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71141946 CCGGGCTAAGTCCTGAAGGTATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71141986 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71142026 CCGGGCTAAGTCCTGAAGGTATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71142066 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71142106 CCGGGCTAAGTCCTGAAGGTATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71142146 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * * * **
71142186 CCGGGCTAAGTCCTGAAGGGCATGAATATTCG-G--A-TGATAA
1 CCGGGCTAAGTCCCGAA-GGCAT--TTGTGCGAGTTACT-ATTT
*
71142226 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71142266 CCGGGCTAAGTCCTGAAGGTATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
71142306 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71142346 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * **
71142385 CCGGGCTAAGTCCCGAAAGTATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
71142425 CCGGGCCAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
71142457 AGCTATATCC
Statistics
Matches: 518, Mismatches: 64, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
37 4 0.01
39 43 0.08
40 461 0.89
41 6 0.01
43 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:71147913 original size:10 final size:10
Alignment explanation
Indices: 71147898--71147927 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
71147888 TATCGCTGAT
71147898 TATTCAGAAA
1 TATTCAGAAA
71147908 TATTCAGAAA
1 TATTCAGAAA
71147918 TATTCA-AAA
1 TATTCAGAAA
71147927 T
1 T
71147928 GATACTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (10 bp):
TATTCAGAAA
Found at i:71149039 original size:27 final size:28
Alignment explanation
Indices: 71149002--71149114 Score: 171
Period size: 27 Copynumber: 4.2 Consensus size: 28
71148992 AGCATGGCTT
*
71149002 CCAGA-ACAGATA-TTGTGACAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
71149028 CCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
71149055 CTAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
71149083 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
71149110 CCAGA
1 CCAGA
71149115 ATGCTTCCTC
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
26 5 0.06
27 57 0.71
28 18 0.22
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:71149100 original size:55 final size:54
Alignment explanation
Indices: 71149002--71149115 Score: 178
Period size: 55 Copynumber: 2.1 Consensus size: 54
71148992 AGCATGGCTT
71149002 CCAG-AACAGATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGCCA
* *
71149055 CTAGAAACAGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATA-TTGTGACAGAGCCACCAGATACAGATA-TTGTGGCAGAGCCA
71149110 CCAGAA
1 CCAGAA
71149116 TGCTTCCTCC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
53 3 0.05
54 14 0.25
55 38 0.69
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (54 bp):
CCAGAAACAGATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGCCA
Found at i:71159677 original size:72 final size:72
Alignment explanation
Indices: 71159523--71159682 Score: 205
Period size: 72 Copynumber: 2.2 Consensus size: 72
71159513 TGTGATCAGG
* * * * * *
71159523 CCCGTGAGTAACTCACTGAGCGAGCATATCATGTTAATGCTTTGGGTTCCGGGTACTGACTTTGT
1 CCCGTGAGTAGCTCAATGAACGAGCATATCATGATAATGCTTTGGGGTCCGGGTACTAACTTTGT
71159588 GTATAAA
66 GTATAAA
* * *
71159595 CCCGTGAGTAGCTCAATGAACGGGCAT-TACATGATAATGTTTTGGGGTCCGGGTGCTAACTTTG
1 CCCGTGAGTAGCTCAATGAACGAGCATAT-CATGATAATGCTTTGGGGTCCGGGTACTAACTTTG
*
71159659 TGTATAGA
65 TGTATAAA
*
71159667 CCCGTGAGTAGTTCAA
1 CCCGTGAGTAGCTCAA
71159683 ATGCGGGCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
71 1 0.01
72 75 0.99
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (72 bp):
CCCGTGAGTAGCTCAATGAACGAGCATATCATGATAATGCTTTGGGGTCCGGGTACTAACTTTGT
GTATAAA
Found at i:71161853 original size:43 final size:43
Alignment explanation
Indices: 71161801--71161882 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
71161791 GATATATGTG
* *
71161801 GCATCCGAGCTCGTTGAGAGCTTCGAGTTCATTATGGATACGA
1 GCATCCGAGCTCGTTGAGAGCTCCGAGTTCATAATGGATACGA
* * *
71161844 GCATCCGAGCTTGTTGAGAGGTCCGGGTTCATAATGGAT
1 GCATCCGAGCTCGTTGAGAGCTCCGAGTTCATAATGGAT
71161883 GCAATTCATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGAGCTCCGAGTTCATAATGGATACGA
Found at i:71169696 original size:27 final size:27
Alignment explanation
Indices: 71169665--71169970 Score: 153
Period size: 27 Copynumber: 11.6 Consensus size: 27
71169655 TTAGTTTATC
* * *
71169665 AAATTACTAAAATACCCTCGACTTGTT
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
71169692 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
71169719 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
71169746 AAATTACCGAAATA----AGA----TA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** *
71169765 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** * **
71169792 GAATTACCATTTTACCCTCAATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** * *
71169819 GAATTACCATTTTACTCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
** * * * *
71169846 AAATTACTGAAATACCATTGGTTTGCA
1 AAATTACCAAAATACCCTCGATTTGTA
***
71169873 AAATTACCAAAATACCCTCGATCAATA
1 AAATTACCAAAATACCCTCGATTTGTA
**
71169900 AAATTACCAAAATACCCTCGATTAATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
71169927 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
71169954 AAATTATCGAAATACCC
1 AAATTACCAAAATACCC
71169971 CTGTAAGGTA
Statistics
Matches: 218, Mismatches: 52, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
19 11 0.05
23 4 0.02
26 1 0.00
27 202 0.93
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:71169985 original size:27 final size:27
Alignment explanation
Indices: 71169955--71170096 Score: 160
Period size: 27 Copynumber: 5.3 Consensus size: 27
71169945 TAATTTGTGA
*
71169955 AATTATCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* *
71169982 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* *
71170009 AATTACTGAAATACCCCTGT-AGGATAT
1 AATTACCGAAATACCCCTGTAAGG-TAG
*
71170036 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAAGGTAG
* * * ** *
71170063 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAAGGTAG
71170090 AATTACC
1 AATTACC
71170097 ATTTTGCCCC
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 93 0.96
28 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAAGGTAG
Found at i:71170013 original size:81 final size:81
Alignment explanation
Indices: 71169925--71170097 Score: 215
Period size: 81 Copynumber: 2.1 Consensus size: 81
71169915 CCTCGATTAA
** *
71169925 TAAAATTACCAAAATACCCCTAATTTG-TGA-AATTATCGAAATACCCCTGTAAGGTAGAATTAC
1 TAAAATTACCAAAATACCCCT-ATAGGAT-ATAATTACCGAAATACCCCTGTAAGGTAGAATTAC
71169988 CGAAATACCCTTGTAGGG
64 CGAAATACCCTTGTAGGG
* ** * * *
71170006 TAGAATTACTGAAATACCCCTGTAGGATATAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
1 TAAAATTACCAAAATACCCCTATAGGATATAATTACCGAAATACCCCTGTAAGGTAGAATTACCG
* *
71170071 AGATACCCTTGTGGGG
66 AAATACCCTTGTAGGG
71170087 TAAAATTACCA
1 TAAAATTACCA
71170098 TTTTGCCCCT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 3 0.04
81 73 0.96
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCCTATAGGATATAATTACCGAAATACCCCTGTAAGGTAGAATTACCG
AAATACCCTTGTAGGG
Found at i:71170107 original size:54 final size:54
Alignment explanation
Indices: 71169962--71170096 Score: 191
Period size: 54 Copynumber: 2.5 Consensus size: 54
71169952 TGAAATTATC
* *
71169962 GAAATACCCCTGTAAGG-TAGAATTACCGAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGT-AGGATAAAATTACCGAAATACCCCTGTAGGGTAGAATTACT
*
71170016 GAAATACCCCTGTAGGATATAATTACCGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGATAAAATTACCGAAATACCCCTGTAGGGTAGAATTACT
* * * *
71170070 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGATAAAATTACC
71170097 ATTTTGCCCC
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 3 0.04
54 70 0.96
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (54 bp):
GAAATACCCCTGTAGGATAAAATTACCGAAATACCCCTGTAGGGTAGAATTACT
Found at i:71170528 original size:6 final size:6
Alignment explanation
Indices: 71170519--71170583 Score: 80
Period size: 6 Copynumber: 10.7 Consensus size: 6
71170509 TACCTGATAT
*
71170519 TGATTC TGATTC TGATTC TG-TCACC TGATTC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC
71170568 TGATTC T-AGTTC TGAT
1 TGATTC TGA-TTC TGAT
71170584 AATGTTTCTT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
5 2 0.04
6 45 0.87
7 4 0.08
8 1 0.02
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:71170569 original size:31 final size:31
Alignment explanation
Indices: 71170490--71170569 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
71170480 TTGCATTCAC
* * * *
71170490 ATTCTGGTTTTGATTCTATTACCTGATATTG
1 ATTCTGATTCTGATTCTGTCACCTGATATTG
71170521 ATTCTGATTCTGATTCTGTCACCTGAT-TCTG
1 ATTCTGATTCTGATTCTGTCACCTGATAT-TG
71170552 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
71170570 ATTCTAGTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 1 0.02
31 43 0.98
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATATTG
Found at i:71173375 original size:55 final size:55
Alignment explanation
Indices: 71173310--71173419 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
71173300 TTTTATGGTC
*
71173310 TACGATTTCACGGAATGATTTCGTGAAAATTTCGTTCAAAAATTTCGACGTTTGG
1 TACGAATTCACGGAATGATTTCGTGAAAATTTCGTTCAAAAATTTCGACGTTTGG
71173365 TACGAATTCACGGAATGATTTCGTGAAAATTTCGTTCAAAAATTTCGACGTTTGG
1 TACGAATTCACGGAATGATTTCGTGAAAATTTCGTTCAAAAATTTCGACGTTTGG
71173420 GCACTCAATT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (55 bp):
TACGAATTCACGGAATGATTTCGTGAAAATTTCGTTCAAAAATTTCGACGTTTGG
Found at i:71175364 original size:53 final size:53
Alignment explanation
Indices: 71175302--71175406 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
71175292 GAAGGGATTA
71175302 AGTGAAATTGTGCAAAAGTGAACTTTAGTAGTAAAACAGTGTTGGACAGCAAT
1 AGTGAAATTGTGCAAAAGTGAACTTTAGTAGTAAAACAGTGTTGGACAGCAAT
*
71175355 AGTGAAATTGTGCATAAGTGAACTTTAGTAGTAAAACAGTGTTGGACAGCAA
1 AGTGAAATTGTGCAAAAGTGAACTTTAGTAGTAAAACAGTGTTGGACAGCAA
71175407 CAGTACATGA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.27
Consensus pattern (53 bp):
AGTGAAATTGTGCAAAAGTGAACTTTAGTAGTAAAACAGTGTTGGACAGCAAT
Found at i:71177933 original size:16 final size:15
Alignment explanation
Indices: 71177902--71177933 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
71177892 TCGTATCATA
71177902 GATTTCTTTATCTTG
1 GATTTCTTTATCTTG
71177917 GATTTCTTTATTCTTG
1 GATTTCTTTA-TCTTG
71177933 G
1 G
71177934 CTTCTCTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.59
Consensus pattern (15 bp):
GATTTCTTTATCTTG
Found at i:71180017 original size:30 final size:30
Alignment explanation
Indices: 71179978--71180037 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
71179968 TTCCCGAGCC
*
71179978 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGCGCAAAATG-GTAATTATGCAAAAGTT
* *
71180008 TAGGCGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGCGCAAAATGGTAATTATGCAAAAGTT
71180038 CATATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGCGCAAAATGGTAATTATGCAAAAGTT
Found at i:71180760 original size:49 final size:50
Alignment explanation
Indices: 71180680--71180925 Score: 280
Period size: 49 Copynumber: 4.9 Consensus size: 50
71180670 AGCTATTGTG
*
71180680 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
71180730 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * **
71180780 CGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * **
71180830 AGGTCACGTGTGGAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
71180880 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
71180926 GCTTCGGCTA
Statistics
Matches: 160, Mismatches: 34, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
49 79 0.49
50 45 0.28
51 36 0.22
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:71182767 original size:16 final size:16
Alignment explanation
Indices: 71182746--71182779 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
71182736 ATGTAACGCC
71182746 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
*
71182762 CCAAAAATCCTGAAAT
1 CCAAAAATCCCGAAAT
71182778 CC
1 CC
71182780 TGAATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.32, G:0.06, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:71184228 original size:29 final size:28
Alignment explanation
Indices: 71184130--71184244 Score: 106
Period size: 29 Copynumber: 4.0 Consensus size: 28
71184120 GTGAGCATGA
* * * *
71184130 ATATGAATGTGACTGGGCCTAACGTGCT
1 ATATGAATGTGATTGGGCCTAATGGGCC
* *
71184158 ATATAAATGTGGTTTGGGCCTAATGGGCC
1 ATATGAATGT-GATTGGGCCTAATGGGCC
*
71184187 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGA-TTGGGCCTAATGGGCC
* * *
71184216 ATATGAATATGATTGGGCTTAGTGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
71184244 A
1 A
71184245 GATACATGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 26 0.37
29 44 0.62
30 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:71189029 original size:46 final size:46
Alignment explanation
Indices: 71188976--71189141 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 46
71188966 TTCAAACTAT
*
71188976 TTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATGCCCGAACTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCG
* * *
71189022 TTGAGTTGAGTCC-AGGT---TTGTGAGATG-TAACTAGGCATCC-AAGCTCG
1 TTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--GC--CCGAA-CTCG
* * *
71189069 TTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGCCCGAGCTCA
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCG
*
71189115 TTGAGTTGAGTCCGAGTTCGCTTATGG
1 TTGAGTTGAGTCCGAGTTCACTTATGG
71189142 GCGGGTTACA
Statistics
Matches: 95, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
45 5 0.05
46 45 0.47
47 20 0.21
48 5 0.05
50 5 0.05
51 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCG
Found at i:71190177 original size:66 final size:66
Alignment explanation
Indices: 71190095--71190225 Score: 244
Period size: 66 Copynumber: 2.0 Consensus size: 66
71190085 AACAAACAGC
*
71190095 AGTCATTGGATTTTTGTACAGAAGGAAATTTGATTCGTAGTACACAGAGGTCAGAGTAGCCGAAC
1 AGTCATTGGATTTTTGTACAGAAAGAAATTTGATTCGTAGTACACAGAGGTCAGAGTAGCCGAAC
71190160 T
66 T
*
71190161 AGTCATTGGATTTTTGTACAGAAAGAAATTTGATTCGTAGTACACAGGGGTCAGAGTAGCCGAAC
1 AGTCATTGGATTTTTGTACAGAAAGAAATTTGATTCGTAGTACACAGAGGTCAGAGTAGCCGAAC
71190226 CCTGAAACAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (66 bp):
AGTCATTGGATTTTTGTACAGAAAGAAATTTGATTCGTAGTACACAGAGGTCAGAGTAGCCGAAC
T
Found at i:71194226 original size:28 final size:28
Alignment explanation
Indices: 71194194--71194262 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
71194184 ATAGTAAGTC
71194194 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
71194222 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
71194250 CGCACACTT-GTGC
1 CGCACACTTAGTGC
71194263 CAATCTCATT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
27 4 0.11
28 30 0.79
29 3 0.08
30 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:71202095 original size:40 final size:39
Alignment explanation
Indices: 71201997--71202219 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
71201987 TCCTCGTTCA
* * * * *
71201997 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
71202036 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
71202075 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
71202115 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
71202155 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
71202196 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
71202220 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:71202219 original size:120 final size:119
Alignment explanation
Indices: 71201997--71202219 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
71201987 TCCTCGTTCA
* * * *
71201997 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
71202062 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
71202116 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
71202180 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
71202220 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:71211577 original size:28 final size:28
Alignment explanation
Indices: 71211544--71211607 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
71211534 GTACCATAAG
71211544 ACTTAGTGCT-TA-ATAGTCAAACTCGCAC
1 ACTTAGTGCTATACA-A-TCAAACTCGCAC
*
71211572 ACTTAGTGCTATACAATTAAACTCGCAC
1 ACTTAGTGCTATACAATCAAACTCGCAC
71211600 ACTT-GTGC
1 ACTTAGTGC
71211608 CAATCTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
27 4 0.12
28 25 0.76
29 3 0.09
30 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (28 bp):
ACTTAGTGCTATACAATCAAACTCGCAC
Found at i:71212580 original size:50 final size:50
Alignment explanation
Indices: 71212526--71212625 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
71212516 AAATTTTCAC
71212526 ACATGCACTAATACACATAGAGGTTATGCAACCAAATTTTTAAATAAATT
1 ACATGCACTAATACACATAGAGGTTATGCAACCAAATTTTTAAATAAATT
71212576 ACATGCACTAATACACATAGAGGTTATGCAACCAAATTTTTAAATAAATT
1 ACATGCACTAATACACATAGAGGTTATGCAACCAAATTTTTAAATAAATT
71212626 TTGGGACTCG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (50 bp):
ACATGCACTAATACACATAGAGGTTATGCAACCAAATTTTTAAATAAATT
Found at i:71214940 original size:40 final size:40
Alignment explanation
Indices: 71214896--71215055 Score: 275
Period size: 40 Copynumber: 4.0 Consensus size: 40
71214886 GCAAACACAT
* * *
71214896 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
71214936 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
71214976 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
71215016 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
71215056 CCCGGACATA
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 113 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Done.