Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 185 of 343
Found at i:61403650 original size:14 final size:15
Alignment explanation
Indices: 61403633--61403661 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61403623 TCACGAAAAT
61403633 TTCACACAT-ATAAA
1 TTCACACATAATAAA
61403647 TTCACACATAATAAA
1 TTCACACATAATAAA
61403662 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:61405702 original size:28 final size:29
Alignment explanation
Indices: 61405669--61405769 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
61405659 TATAGTAAGT
* * *
61405669 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
61405697 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
61405726 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
61405755 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
61405770 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:61415115 original size:40 final size:40
Alignment explanation
Indices: 61415032--61415294 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
61415022 TTGAATGCTG
* * * * * *
61415032 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
61415072 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
61415112 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
61415152 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
61415192 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
61415232 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
61415271 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61415295 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:61415314 original size:79 final size:80
Alignment explanation
Indices: 61415071--61415329 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
61415061 AAGTGAATAT
* * * * * * *
61415071 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
61415135 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
61415151 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
61415216 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
61415231 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
61415295 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
61415310 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
61415330 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:61423071 original size:39 final size:40
Alignment explanation
Indices: 61422962--61423223 Score: 300
Period size: 39 Copynumber: 6.6 Consensus size: 40
61422952 ATTGAATGCT
* * * * * *
61422962 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATAT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAA
* * * * *
61423002 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAA
61423042 ATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
61423081 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* *
61423121 ATCCGGGTTAAGT-CCGAAGGCAGTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* * *
61423160 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* * *
61423199 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
61423224 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 106 0.54
40 83 0.42
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
Found at i:61423099 original size:79 final size:80
Alignment explanation
Indices: 61422962--61423223 Score: 300
Period size: 79 Copynumber: 3.3 Consensus size: 80
61422952 ATTGAATGCT
* * * * * *
61422962 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCC
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCC
*
61423025 TTTGTGCGAGATACTAA
64 TTTGTGCGAGTTACTAA
* *
61423042 ATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTT
* *
61423106 CGTGCGAGTTATTAA
66 TGTGCGAGTTACTAA
* * * * *
61423121 ATCCGGGTTAAGT-CCGAAGGCAGTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CAT
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTT
*
61423184 TGTGTGAGTTACTAA
66 TGTGCGAGTTACTAA
* *
61423199 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
61423224 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 24 0.15
79 114 0.73
80 18 0.12
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTT
TGTGCGAGTTACTAA
Found at i:61423243 original size:79 final size:79
Alignment explanation
Indices: 61423002--61423258 Score: 225
Period size: 79 Copynumber: 3.3 Consensus size: 79
61422992 AAGTGAATAT
* * * * * * *
61423002 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCAGT
** * *
61423066 CGTGCGAGTTA-TTAA
65 CGAACGAG-GAGCTAA
* * *
61423081 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCAGTC
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCAGTC
** ** *
61423146 GTGCGAGTTGTTAA
66 GAACGAGGAGCTAA
* * * *
61423160 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGT-CCGAAGGCAGT
* *
61423224 TGAACGAGGAGCTAT
65 CGAACGAGGAGCTAA
*
61423239 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
61423259 TACGTGATTT
Statistics
Matches: 152, Mismatches: 23, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
78 38 0.25
79 114 0.75
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCAGTC
GAACGAGGAGCTAA
Found at i:61423243 original size:118 final size:118
Alignment explanation
Indices: 61422964--61423258 Score: 292
Period size: 118 Copynumber: 2.5 Consensus size: 118
61422954 TGAATGCTAT
* ** * * * ** *
61422964 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTATATCCGGGTTAAG-TCCGAAGGCAGTC
* *
61423028 GTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTATTAAAT
64 GTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAAA
* ** * * *
61423083 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCAGTCGT
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCGAAGGCAGTCGT
* ** * *
61423148 GCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAA
66 GCGAGATACTAAATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTACTAAAA
* * *
61423201 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTATATCCGGGTTAAGT-CCGAAGG
61423259 TACGTGATTT
Statistics
Matches: 146, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
117 8 0.05
118 85 0.58
119 47 0.32
120 6 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (118 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCGAAGGCAGTCGT
GCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAAA
Found at i:61425978 original size:17 final size:18
Alignment explanation
Indices: 61425944--61425979 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
61425934 TGAATTTCTA
61425944 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
61425962 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
61425979 T
1 T
61425980 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:61426422 original size:11 final size:10
Alignment explanation
Indices: 61426406--61426444 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
61426396 GCTTCTGTTC
61426406 TTTTTCTTCT
1 TTTTTCTTCT
61426416 TTGTTTCTTCT
1 TT-TTTCTTCT
*
61426427 TTTTTTTTCT
1 TTTTTCTTCT
*
61426437 TTTGTCTT
1 TTTTTCTT
61426445 TCGTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.79
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:61426564 original size:16 final size:16
Alignment explanation
Indices: 61426543--61426573 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
61426533 AATTAATAAT
61426543 ATAATACAAATGTATC
1 ATAATACAAATGTATC
61426559 ATAATACAAATGTAT
1 ATAATACAAATGTAT
61426574 ACATTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (16 bp):
ATAATACAAATGTATC
Found at i:61426889 original size:26 final size:23
Alignment explanation
Indices: 61426835--61426880 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
61426825 ATAATATCAC
*
61426835 ATAATTATAATAAATATCTATTT
1 ATAATAATAATAAATATCTATTT
61426858 A-AATAATAATAAATATCTATTT
1 ATAATAATAATAAATATCTATTT
61426880 A
1 A
61426881 CTTTAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
ATAATAATAATAAATATCTATTT
Found at i:61437013 original size:13 final size:13
Alignment explanation
Indices: 61436995--61437019 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61436985 ATTTATGATC
61436995 TCAAGTTCAATTT
1 TCAAGTTCAATTT
61437008 TCAAGTTCAATT
1 TCAAGTTCAATT
61437020 ACCAATTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCAAGTTCAATTT
Found at i:61440131 original size:9 final size:9
Alignment explanation
Indices: 61440117--61440154 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
61440107 TTCTTTAGAC
61440117 CATCATCAG
1 CATCATCAG
61440126 CATCATCAG
1 CATCATCAG
*
61440135 CATCATCAT
1 CATCATCAG
*
61440144 CAACATCAG
1 CATCATCAG
61440153 CA
1 CA
61440155 GCCTCGGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.37, C:0.34, G:0.08, T:0.21
Consensus pattern (9 bp):
CATCATCAG
Found at i:61442906 original size:19 final size:20
Alignment explanation
Indices: 61442863--61442906 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
61442853 TCCCTTTTTT
61442863 CTTTTGTTTTTTCTTCTTAA
1 CTTTTGTTTTTTCTTCTTAA
* * *
61442883 ATTTTG-TTTTTCTTTTTAC
1 CTTTTGTTTTTTCTTCTTAA
61442902 CTTTT
1 CTTTT
61442907 TAAGCTGACT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.09, C:0.14, G:0.05, T:0.73
Consensus pattern (20 bp):
CTTTTGTTTTTTCTTCTTAA
Found at i:61445896 original size:22 final size:22
Alignment explanation
Indices: 61445862--61445903 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
61445852 GATGCCATTA
61445862 GTTTAAGTTAATTAAAGATTAGT
1 GTTTAAGTTAATT-AAGATTAGT
61445885 GTTTAA-TTAATTAAGATTA
1 GTTTAAGTTAATTAAGATTA
61445904 AACTAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.45
Consensus pattern (22 bp):
GTTTAAGTTAATTAAGATTAGT
Found at i:61446088 original size:25 final size:25
Alignment explanation
Indices: 61446054--61446108 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
61446044 GACCATCATT
61446054 TCCCTAGCCATCATTTACAAGTAAG
1 TCCCTAGCCATCATTTACAAGTAAG
61446079 TCCCTAGCCATCATTTACAAGTAAG
1 TCCCTAGCCATCATTTACAAGTAAG
61446104 TCCCT
1 TCCCT
61446109 TATACGCCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (25 bp):
TCCCTAGCCATCATTTACAAGTAAG
Found at i:61446162 original size:19 final size:19
Alignment explanation
Indices: 61446114--61446150 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
61446104 TCCCTTATAC
61446114 GCCAGGATGCACCTCATGT
1 GCCAGGATGCACCTCATGT
*
61446133 GCCAGGATGCACTTCATG
1 GCCAGGATGCACCTCATG
61446151 CTCTAGGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.22
Consensus pattern (19 bp):
GCCAGGATGCACCTCATGT
Found at i:61447268 original size:35 final size:35
Alignment explanation
Indices: 61447222--61447295 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
61447212 AGTTGTGACT
61447222 TCACACCTTAAATATTGCAACATCAGGTTATCACG
1 TCACACCTTAAATATTGCAACATCAGGTTATCACG
61447257 TCACACCTTAAATATTGCAACATCAGGTTATCACG
1 TCACACCTTAAATATTGCAACATCAGGTTATCACG
61447292 TCAC
1 TCAC
61447296 GATATCCCCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (35 bp):
TCACACCTTAAATATTGCAACATCAGGTTATCACG
Found at i:61448855 original size:11 final size:11
Alignment explanation
Indices: 61448807--61448858 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
61448797 ATTTGGTAAT
61448807 AATTA-TATTA
1 AATTATTATTA
* *
61448817 AAATATGATTA
1 AATTATTATTA
61448828 AATTATTTATT-
1 AATTA-TTATTA
*
61448839 ATTTATTATTA
1 AATTATTATTA
61448850 AATTATTAT
1 AATTATTAT
61448859 AATAATAATC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
10 9 0.27
11 20 0.61
12 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (11 bp):
AATTATTATTA
Found at i:61450334 original size:31 final size:29
Alignment explanation
Indices: 61450298--61450377 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
61450288 ATCTAATAAC
*
61450298 TATACATGAATTATGATTCAATGTGTAATTA
1 TATACATGAATTTTGATT--ATGTGTAATTA
** * *
61450329 TATACACAAATTTTGATTTTGTGTAATTT
1 TATACATGAATTTTGATTATGTGTAATTA
61450358 TATACATGAAATTTTGATTA
1 TATACATG-AATTTTGATTA
61450378 ATTCAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 15 0.38
30 10 0.25
31 15 0.38
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.46
Consensus pattern (29 bp):
TATACATGAATTTTGATTATGTGTAATTA
Found at i:61450352 original size:29 final size:30
Alignment explanation
Indices: 61450319--61450376 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
61450309 TATGATTCAA
61450319 TGTGTAATTATATACA-CAAATTTTGATTT
1 TGTGTAATTATATACATCAAATTTTGATTT
* *
61450348 TGTGTAATTTTATACATGAAATTTTGATT
1 TGTGTAATTATATACATCAAATTTTGATT
61450377 AATTCAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (30 bp):
TGTGTAATTATATACATCAAATTTTGATTT
Found at i:61451571 original size:21 final size:21
Alignment explanation
Indices: 61451533--61451577 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
61451523 TATTTTAAAA
* *
61451533 AATGATAGTAATAGTAATAGT
1 AATGATAATAAAAGTAATAGT
* *
61451554 AATGATAATAAAATTAATGGT
1 AATGATAATAAAAGTAATAGT
61451575 AAT
1 AAT
61451578 AATACAAGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (21 bp):
AATGATAATAAAAGTAATAGT
Found at i:61451708 original size:3 final size:3
Alignment explanation
Indices: 61451700--61452083 Score: 149
Period size: 3 Copynumber: 128.0 Consensus size: 3
61451690 GGTAAAAAAT
*
61451700 ATA ATA ATA AT- ATA ATA GTA ATA ATA ATA ATA ATA AGGTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA
* ** * *
61451746 ATA ATA ATG ATA ATA ATA ATA AT- ATA AGTAA ATA CGGA GAGA AT- ATGT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA -ATA -ATA ATA AT-A
* * *
61451794 ATA AT- ATA ATA ATA ACA AT- ATA A-A ATTA ATCA GT- CTA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA AT-A ATA ATA ATA ATA
* * * * * * **
61451836 ATG ATG ATA ATT CTA GTA ATA ATA ATA A-A GTGGA A-A ACG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT--A ATA ATA ATA ATA
* * * * * **
61451881 ATA ATA CATTA ATA AGA ATA AAA ACA AT- ATA TTT ATA ATA ACG ATAA
1 ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * **
61451928 ATA ATA ATA ATA A-A ATA AGGA ATA ATA A-A GACA ACC ATA AT- ATAA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA -ATA ATA ATA ATA AT-A
* *
61451973 ATA ATAA ATA A-A A-A ACA ACA ATA ATA ATA A-A AT- ATA AGTA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
* * * *
61452016 GTA ATA ATA AT- ATA ATA ATA ATA GTA GTA ATA ATA ATA ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
61452063 ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
61452084 GTGTTAGAAA
Statistics
Matches: 292, Mismatches: 53, Indels: 72
0.70 0.13 0.17
Matches are distributed among these distances:
2 35 0.12
3 223 0.76
4 26 0.09
5 8 0.03
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:61453618 original size:45 final size:45
Alignment explanation
Indices: 61453378--61453946 Score: 283
Period size: 44 Copynumber: 12.7 Consensus size: 45
61453368 TTTAACCTGT
* ** * *
61453378 TCCACTGCAACTTCAGGGAGAT--GATGTCTATTTTCTTCAATCTGG
1 TCCACTGCAACTTCAGGGAGATAAGAT-T-TGTTAACTTCACTCTGC
* * *** * *
61453423 TCCACTGCAGCTTCAGGGAGATGAGATTTGTTGTTTTTAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTAACTTCACTCTGC
* * * *
61453468 TCCGCTGCAACTTTAGAGAGATAAGACTTG-TAACTTCGACT-TGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTAACTTC-ACTCTGC
* * * * *
61453512 TCCACTACATCTTCAGGGAGATAAGGTTTGTGATTTCTAACTTCAATCTAC
1 TCCACTGCAACTTCAGGGAGATAA-GATT-TG---T-TAACTTCACTCTGC
* * *
61453563 TCCA-TCGCAACTTCAGGGAGACAAAATTTGTTATCTTCACTCTGC
1 TCCACT-GCAACTTCAGGGAGATAAGATTTGTTAACTTCACTCTGC
* *
61453608 TCCACTGCAACTTCAAGGAGATAAGACTTG-TAACTTCAACT-TGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTAACTTC-ACTCTGC
* * * * * * *
61453652 TCTACTGCAACTTCAAGGAGGTAAGAATTGTT-GCTTTGA-TCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTAAC-TTCACTCTGC
* * * *
61453696 TCCACTACAACTTTAGGGAGATAAGAATCG-TAACTTCAAC-CTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTAACTTC-ACTCTGC
* * * ** *
61453740 -CCTACTGCAACTTAAGGGGGATAAGGTTTG-TGGCTTCAATCTGC
1 TCC-ACTGCAACTTCAGGGAGATAAGATTTGTTAACTTCACTCTGC
* * * * * * *
61453784 TTCACTGTAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTAACTTCACTCTGC
* * * * * * *
61453829 TCCACTGTAACTTCAGGAAGATAAGACTTG-CATCTTCAATCTTC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTAACTTCACTCTGC
** * * * *
61453873 TCCACTATAACTTTAGGGAGATAAGGTTTG-TGACTTCAATC-GC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTTAACTTCACTCTGC
* *
61453916 TCCAATGCCA-TGTCAGGGAGA-AGAGATTTGT
1 TCCACTGCAACT-TCAGGGAGATA-AGATTTGT
61453947 AGCTTCGATC
Statistics
Matches: 403, Mismatches: 94, Indels: 55
0.73 0.17 0.10
Matches are distributed among these distances:
42 2 0.00
43 28 0.07
44 190 0.47
45 140 0.35
46 5 0.01
47 3 0.01
49 2 0.00
50 5 0.01
51 28 0.07
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTTAACTTCACTCTGC
Found at i:61454020 original size:88 final size:88
Alignment explanation
Indices: 61453914--61454338 Score: 591
Period size: 88 Copynumber: 4.8 Consensus size: 88
61453904 GACTTCAATC
* *
61453914 GCTCCAATGCCATGTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTTCGCTGAAACTTCAAGGA
1 GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
* * *
61453979 GATACGAACTGTGGCTTAGAGGA
66 GATACGAACTATGGCTTCGAGCA
* * * *
61454002 GATCCAATGCCATTTCAGGGAGAAGATATTTGTAGCCTCGATCTACTCCGATGAAACTTCAAGGA
1 GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
*
61454067 GATACGAACTATGGCTTCGAGCC
66 GATACGAACTATGGCTTCGAGCA
* *
61454090 GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTAAAACTTCAAGGA
1 GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
*
61454155 GATACGAACTGTGGCTTCGAGCCA
66 GATACGAACTATGGCTTCGAG-CA
* * *
61454179 -CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCGCTGGAACTTCAAAGA
1 GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
* * *
61454243 GATACGTATTATGGCTTCGAGCC
66 GATACGAACTATGGCTTCGAGCA
* ** * * * * *
61454266 GCTCTAATTTCATTTCAGGGAGAAGAGGTTTGTACCTTCGATCTACTCTGCTGGAACTTCAAAGA
1 GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
61454331 GATACGAA
66 GATACGAA
61454339 TTGTTGATTT
Statistics
Matches: 303, Mismatches: 32, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
87 1 0.00
88 301 0.99
89 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
GATACGAACTATGGCTTCGAGCA
Found at i:61454226 original size:44 final size:43
Alignment explanation
Indices: 61453915--61454226 Score: 148
Period size: 44 Copynumber: 7.1 Consensus size: 43
61453905 ACTTCAATCG
*
61453915 CTCCAATGCCATGTCAGGGAGAAGAGATTTGTAGCTTCGATCTA
1 CTCCAATGCCATTTCAGGGAGAAGA-ATTTGTAGCTTCGATCTA
* ** ** * * * * * **
61453959 CTTCGCTGAAACTTCAAGGAGATACGAA-CTGTGGCTTAGA-GGA
1 CTCCAATGCCATTTCAGGGAGA-A-GAATTTGTAGCTTCGATCTA
* *
61454002 GATCCAATGCCATTTCAGGGAGAAGATATTTGTAGCCTCGATCTA
1 -CTCCAATGCCATTTCAGGGAGAAGA-ATTTGTAGCTTCGATCTA
* ** * * * * **
61454047 CTCCGATGAAACTTCAAGGAGATACGAACTATG--GCTTCGAGCCG
1 CTCCAATGCCATTTCAGGGAGA-A-GAA-TTTGTAGCTTCGATCTA
*
61454091 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTA
1 CTCCAATGCCATTTCAGGGAGAAGA-ATTTGTAGCTTCGATCTA
** *** * * * * * *
61454135 CTCCGCTAAAACTTCAAGGAGATACGAA-CTGTGGCTTCGAGCCA
1 CTCCAATGCCATTTCAGGGAGA-A-GAATTTGTAGCTTCGATCTA
*
61454179 CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAACTTCGATCTA
1 CTCCAATGCCATTTCAGGGAGAAGA-ATTTGTAGCTTCGATCTA
61454223 CTCC
1 CTCC
61454227 GCTGGAACTT
Statistics
Matches: 180, Mismatches: 72, Indels: 32
0.63 0.25 0.11
Matches are distributed among these distances:
42 9 0.05
43 7 0.04
44 148 0.82
45 7 0.04
46 9 0.05
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (43 bp):
CTCCAATGCCATTTCAGGGAGAAGAATTTGTAGCTTCGATCTA
Found at i:61454374 original size:88 final size:87
Alignment explanation
Indices: 61453903--61454386 Score: 392
Period size: 88 Copynumber: 5.5 Consensus size: 87
61453893 ATAAGGTTTG
* * *
61453903 TGACTTC-AATCGCTCCAA-TGCCATGTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTTCGCT
1 TGACTTCGAACCGCTCCAACTG-CAT-TCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCGCT
* * * *
61453966 GAAACTTCAAGGAGATACGAACTG
64 GGAACTTCAAAGAGATACGAATTA
* * *** * * * * *
61453990 TGGCTTAGAGGAGATCCAA-TGCCATTTCAGGGAGAAGATATTTGTAGCCTCGATCTACTCCGAT
1 TGACTTCGAACCGCTCCAACTG-CA-TTCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCGCT
* * *
61454054 GAAACTTCAAGGAGATACGAACTA
64 GGAACTTCAAAGAGATACGAATTA
* * * *
61454078 TGGCTTCGAGCCGCTCCAA-TGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCT
1 TGACTTCGAACCGCTCCAACTG-CA-TTCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCGCT
** * * *
61454142 AAAACTTCAAGGAGATACGAACTG
64 GGAACTTCAAAGAGATACGAATTA
* * *
61454166 TGGCTTCGAGCCACTCCAA-TGCCATTTCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCGCT
1 TGACTTCGAACCGCTCCAACTG-CA-TTCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCGCT
*
61454230 GGAACTTCAAAGAGATACGTATTA
64 GGAACTTCAAAGAGATACGAATTA
* * * * * * * *
61454254 TGGCTTCGAGCCGCTCTAATTTCATTTCAGGGAGAAGAGGTTTGTACCTTCGATCTACTCTGCTG
1 TGACTTCGAACCGCTCCAACTGCA-TTCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCGCTG
*
61454319 GAACTTCAAAGAGATACGAATTGT
65 GAACTTCAAAGAGATACGAATT-A
*
61454343 TGATTTC-AACCTGCTCCACTACTGC-TT-AGGGAGACA-AGATTTGT
1 TGACTTCGAACC-GCTCCA--ACTGCATTCAGGGAGA-AGAGATTTGT
61454387 TATCTTTGAT
Statistics
Matches: 346, Mismatches: 43, Indels: 15
0.86 0.11 0.04
Matches are distributed among these distances:
87 5 0.01
88 323 0.93
89 15 0.04
91 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (87 bp):
TGACTTCGAACCGCTCCAACTGCATTCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCGCTGG
AACTTCAAAGAGATACGAATTA
Found at i:61454403 original size:44 final size:44
Alignment explanation
Indices: 61454353--61455177 Score: 299
Period size: 44 Copynumber: 19.0 Consensus size: 44
61454343 TGATTTCAAC
* ** *
61454353 CTGCTCCACTACTGCTTAGGGAGACAAGATTTGTTATCTTTGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAAT
** * * ** * **
61454397 CTGCTCCACTACTTATTAGGGAGATAATATCTATAATCTTCAGC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAAT
* * * * * *
61454441 CTACTCCACTACTTCTTAGGGAGATAGGATGGTG---GCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCAATCTTTAAT
* * ** **
61454483 CTGCTCCACTACTGCTTAGGGAGACAAGATTCGCCGTCTTCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAAT
* * * **
61454527 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAAT
* * * * * *
61454571 CTACTCCACTACTACTTAGGGAGATAGGATGGTG---GCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCAATCTTTAAT
* ** ** **
61454613 CTGCTCCACCACTGCTTAGGGAGATAAGATTCACTGTCTTCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAAT
* * * **
61454657 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAAT
** * * * *
61454701 CTATTCCACTACTGCTTAAGGAGATAAGA--TGGAAGCTTCAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAAT
* **
61454743 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAAT-TTCTAGC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTT-TAAT
* * ** ** ** **
61454787 CTGTTACC-CTACTGCTTATGGG-GTTAAGGCTCACTGTCTTCGAT
1 CTGCT-CCACTACTGCTTA-GGGAGATAAGATTTGCAATCTTTAAT
* * ** **
61454831 CTGCTCCGCTACTGCTTAGGGAGATAAGATCTATAAT-TTTCAGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTT-AAT
* * * * ***** * **
61454875 CTGTTACC-CTACTACTTAGGGGGTTAAGGCCCACCATCTTCGAT
1 CTGCT-CCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAAT
* * * * **
61454919 CTGCTTC-CTATTGCTTAGGGTGATAAGATTTGTAAT-TTCTAGC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTT-TAAT
** * * * ** * * *
61454962 CTATTACC-TTACTACTTAGAGG-GTTAAGGCTCGTC-GTCTTTGAT
1 CTGCT-CCACTACTGCTTAG-GGAGATAAGATTTG-CAATCTTTAAT
* * * * *
61455006 TTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATC-TTCAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAAT
* * * * *
61455049 CCTACTCCACTACTGCTTAGGGAGATAGGAATGTG---GCTTAAAT
1 -CTGCTCCACTACTGCTTAGGGAGATAAG-ATTTGCAATCTTTAAT
* * * * * * *
61455092 CTTCTCCACTATTGCTTAGAGAGACAAGATTCGCCATCTTTGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAAT
* *
61455136 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTA
1 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTA
61455178 GCCTGTTCTA
Statistics
Matches: 554, Mismatches: 194, Indels: 66
0.68 0.24 0.08
Matches are distributed among these distances:
41 4 0.01
42 120 0.22
43 41 0.07
44 368 0.66
45 21 0.04
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (44 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAAT
Found at i:61454559 original size:130 final size:130
Alignment explanation
Indices: 61454353--61454773 Score: 653
Period size: 130 Copynumber: 3.2 Consensus size: 130
61454343 TGATTTCAAC
* * * * **
61454353 CTGCTCCACTACTGCTTAGGGAGACAAGATTTGTTATCTTTGATCTGCTCCACTACTTATTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGG
* * *
61454418 AGATAATATCTATAATCTTCAGCCTACTCCACTACTTCTTAGGGAGATAGGATGGTGGCTTAAAT
66 AGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAAT
*
61454483 CTGCTCCACTACTGCTTAGGGAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGG
61454548 AGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAAT
66 AGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAAT
* * *
61454613 CTGCTCCACCACTGCTTAGGGAGATAAGATTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGACAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGG
* * * * ** *
61454678 AGATAAGATCTACAATCTTCAGCCTATTCCACTACTGCTTAAGGAGATAAGATGGAAGCTTCAAT
66 AGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAAT
*
61454743 CTGCTCCACTACTGCTTAGGGAGATAAGATT
1 CTGCTCCACTACTGCTTAGGGAGACAAGATT
61454774 TGTAATTTCT
Statistics
Matches: 269, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 269 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (130 bp):
CTGCTCCACTACTGCTTAGGGAGACAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAAT
Found at i:61454711 original size:174 final size:174
Alignment explanation
Indices: 61454481--61455075 Score: 427
Period size: 174 Copynumber: 3.4 Consensus size: 174
61454471 GGTGGCTTAA
* * ** * *
61454481 ATCTGCTCCACTACTGCTTAGGGAGACAAGAT-TCGCCGTCTTC-GATCTGCTCCACTACTGCTT
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTCAG-CCTGTTCCACTACTGCTT
* * * **
61454544 AGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGA-TGGTGGCT
64 AGGGAGATAAGA--TACAAGCTTCAACCTACTCCACTACTACTTAGGGAGATAAGATTGGTAACT
* *
61454608 T-AAATCTGCT-CCACCACTGCTTA-GGGAGATAAGATTCACTGTCTTCG
127 TCAAACCTGCTACC-CCACTGCTTATGGG-GATAAGACTCACTGTCTTCG
* *
61454655 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTATTCCACTACTGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGTTCCACTACTGCTTAG
** * * * * * *
61454720 GGAGATAAGATGGAAGCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTCTA
66 GGAGATAAGATACAAGCTTCAACCTACTCCACTACTACTTAGGGAGATAAGATTGGTAACTTCAA
* * * * *
61454785 GCCTGTTACCCTACTGCTTATGGGGTTAAGGCTCACTGTCTTCG
131 ACCTGCTACCCCACTGCTTATGGGGATAAGACTCACTGTCTTCG
* * * * *
61454829 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTATAATTTTCAGGCTGTTACC-CTACTACTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGTT-CCACTACTGCTTA
* * ** * * * * * * * * * * *
61454893 GGGGGTTAAGGCCCACCATCTTCGATCTGCTTC-CTATTGCTTAGGGTGATAAGATTTGTAATTT
65 GGGAGATAA-G-ATACAAGCTTCAACCTACTCCACTACTACTTAGGGAGATAAGATTGGTAACTT
* * ** ** * * * * *
61454957 CTAGCCTATTACCTTACTACTTA-GAGGGTTAAGGCTC-GTCGTCTTTG
128 CAAACCTGCTACCCCACTGCTTATG-GGGATAAGACTCACT-GTCTTCG
* * ** * **
61455004 ATTTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCATCCTACTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGTTCCACTACTGCTTAG
61455069 GGAGATA
66 GGAGATA
61455076 GGAATGTGGC
Statistics
Matches: 345, Mismatches: 64, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
172 34 0.10
173 5 0.01
174 159 0.46
175 134 0.39
176 13 0.04
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (174 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGTTCCACTACTGCTTAG
GGAGATAAGATACAAGCTTCAACCTACTCCACTACTACTTAGGGAGATAAGATTGGTAACTTCAA
ACCTGCTACCCCACTGCTTATGGGGATAAGACTCACTGTCTTCG
Found at i:61454788 original size:86 final size:86
Alignment explanation
Indices: 61454347--61455165 Score: 410
Period size: 86 Copynumber: 9.4 Consensus size: 86
61454337 AATTGTTGAT
* * * ** * ** **
61454347 TTCAACCTGCTCCACTACTGCTTAGGGAGACAAGATTTGTTATCTTTGATCTGCTCCACTACTTA
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAAGA--TGCAAGCTTCAATCTGCTCCACTACTGC
* * *
61454412 TTAGGGAGATAATATCTATAATC
64 TTAGGGAGATAAGATTTGTAATC
* * *** *
61454435 TTCAGCCTACTCCACTACTTCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAAGATGCAAGCTTCAATCTGCTCCACTACTGCTT
* * ***
61454500 AGGGAGACAAGATTCGCCGTC
66 AGGGAGATAAGATTTGTAATC
* * * * ** * *
61454521 TTC-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTA
1 TTCAG-CCTACTCCACTACTGCTTAGGGAGATAAGA--TGCAAGCTTCAATCTGCTCCACTACTG
* * **
61454585 CTTAGGGAGATAGGA-TGGT-GGC
63 CTTAGGGAGATAAGATTTGTAATC
* ** * * * * *
61454607 TTAAATCTGCTCCACCACTGCTTAGGGAGATAAGATTCACTGTCTTCGATCTGCTCCACTACTGC
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAAGATGCA-AG-CTTCAATCTGCTCCACTACTGC
* **
61454672 TTAGGGAGATAAGATCTACAATC
64 TTAGGGAGATAAGATTTGTAATC
* * *
61454695 TTCAGCCTATTCCACTACTGCTTAAGGAGATAAGATGGAAGCTTCAATCTGCTCCACTACTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAAGATGCAAGCTTCAATCTGCTCCACTACTGCTT
61454760 AGGGAGATAAGATTTGTAAT-
66 AGGGAGATAAGATTTGTAATC
** * * * * *
61454780 TTCTAGCCTGTTACC-CTACTGCTTATGGG-GTTAAGGCT-CACTGTCTTCGATCTGCTCCGCTA
1 TTC-AGCCTACT-CCACTACTGCTTA-GGGAGATAA-GATGCA-AG-CTTCAATCTGCTCCACTA
* * *
61454842 CTGCTTAGGGAGATAAGATCTATAATT
60 CTGCTTAGGGAGATAAGATTTGTAATC
* ** * * * *** * * * *
61454869 TTCAGGCTGTTACC-CTACTACTTAGGGGGTTAAGGCCCACCATCTTCGATCTGCTTC-CTATTG
1 TTCAGCCTACT-CCACTACTGCTTAGGGAGATAAGATGCA--AGCTTCAATCTGCTCCACTACTG
*
61454932 CTTAGGGTGATAAGATTTGTAAT-
63 CTTAGGGAGATAAGATTTGTAATC
* * * * * ** * *
61454955 TTCTAGCCTATTACC-TTACTACTTAGAGG-GTTAAGGCTCGTC--GTCTTTGATTTGCTCTACT
1 TTC-AGCCTACT-CCACTACTGCTTAG-GGAGATAA-GAT-G-CAAG-CTTCAATCTGCTCCACT
*
61455016 ACTGCTTAGGGAGATAAGATCTGTAATC
59 ACTGCTTAGGGAGATAAGATTTGTAATC
* * ** * * *
61455044 TTCATCCTACTCCACTACTGCTTAGGGAGATAGGAATG-TGGCTTAAATCTTCTCCACTATTGCT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAAG-ATGCAAGCTTCAATCTGCTCCACTACTGCT
* * * **
61455108 TAGAGAGACAAGATTCGCCATC
65 TAGGGAGATAAGATTTGTAATC
* * *
61455130 TT-TGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
1 TTCAG-CCTACTCCACTACTGCTTAGGGAGATAAGAT
61455166 CTACAATCTT
Statistics
Matches: 569, Mismatches: 130, Indels: 67
0.74 0.17 0.09
Matches are distributed among these distances:
84 3 0.01
85 6 0.01
86 254 0.45
87 80 0.14
88 218 0.38
89 7 0.01
90 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (86 bp):
TTCAGCCTACTCCACTACTGCTTAGGGAGATAAGATGCAAGCTTCAATCTGCTCCACTACTGCTT
AGGGAGATAAGATTTGTAATC
Found at i:61455020 original size:175 final size:174
Alignment explanation
Indices: 61454643--61455075 Score: 523
Period size: 175 Copynumber: 2.5 Consensus size: 174
61454633 GAGATAAGAT
*
61454643 TCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTATTCC
1 TCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAGCCTATTCC
* ***
61454708 ACTACTGCTTAAGGAGATAAGATGGAAGCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
66 ACTACTACTTAAGGAGATAAGACCCAAGCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
* *
61454773 TTGTAATTTCTAGCCTGTTACCCTACTGCTTATGGGGTTAAGGC
131 TTGTAATTTCTAGCCTATTACCCTACTACTTATGGGGTTAAGGC
* * * *
61454817 TCACTGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTATAATTTTCAGGCTGTTAC
1 TCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAGCCTATT-C
* * * * * * * * *
61454882 C-CTACTACTTAGGGGGTTAAGGCCCACCATCTTCGATCTGCTTC-CTATTGCTTAGGGTGATAA
65 CACTACTACTTAAGGAGATAAGACCCA--AGCTTCAATCTGCTCCACTACTGCTTAGGGAGATAA
*
61454945 GATTTGTAATTTCTAGCCTATTACCTTACTACTTA-GAGGGTTAAGGC
128 GATTTGTAATTTCTAGCCTATTACCCTACTACTTATG-GGGTTAAGGC
* * * * * * *
61454992 TC-GTCGTCTTTGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCATCCTACTC
1 TCACT-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAGCCTATTC
* *
61455056 CACTACTGCTTAGGGAGATA
65 CACTACTACTTAAGGAGATA
61455076 GGAATGTGGC
Statistics
Matches: 218, Mismatches: 35, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
174 79 0.36
175 126 0.58
176 13 0.06
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (174 bp):
TCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAGCCTATTCC
ACTACTACTTAAGGAGATAAGACCCAAGCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
TTGTAATTTCTAGCCTATTACCCTACTACTTATGGGGTTAAGGC
Found at i:61455068 original size:88 final size:87
Alignment explanation
Indices: 61454648--61455068 Score: 419
Period size: 88 Copynumber: 4.8 Consensus size: 87
61454638 AAGATTCACT
**
61454648 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTATT-CCACTA
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAGCCTATTACC-CTA
* * * *
61454712 CTGCTTA-AGGAGATAA-GATGGAA
64 CTGCTTAGAGG-GTTAAGGCTCGAC
* * *
61454735 G-CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTCTAGCCTGTTACCCTAC
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTATTACCCTAC
61454799 TGCTTATG-GGGTTAAGGCTC-AC
65 TGCTTA-GAGGGTTAAGGCTCGAC
* * * *
61454821 TGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTATAATTTTCAGGCTGTTACCCTA
1 -GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAGCCTATTACCCTA
* * *
61454886 CTACTTAGGGGGTTAAGGC-CCACC
64 CTGCTTAGAGGGTTAAGGCTCGA-C
* * * * * *
61454910 ATCTTCGATCTGCTTC-CTATTGCTTAGGGTGATAAGATTTGTAATTTCTAGCCTATTACCTTAC
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTATTACCCTAC
* *
61454974 TACTTAGAGGGTTAAGGCTCGTC
65 TGCTTAGAGGGTTAAGGCTCGAC
* * * * *
61454997 GTCTTTGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCATCCTACT-CCACTA
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAGCCTATTACC-CTA
61455061 CTGCTTAG
64 CTGCTTAG
61455069 GGAGATAGGA
Statistics
Matches: 279, Mismatches: 39, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
85 3 0.01
86 66 0.24
87 77 0.28
88 125 0.45
89 8 0.03
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (87 bp):
GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAGCCTATTACCCTACT
GCTTAGAGGGTTAAGGCTCGAC
Found at i:61458740 original size:16 final size:16
Alignment explanation
Indices: 61458719--61458751 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61458709 GATATGATAC
61458719 TAAAAT-TACTAAAAAT
1 TAAAATATA-TAAAAAT
61458735 TAAAATATATAAAAAT
1 TAAAATATATAAAAAT
61458751 T
1 T
61458752 TTTGGGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAATATATAAAAAT
Found at i:61459042 original size:22 final size:21
Alignment explanation
Indices: 61459007--61459082 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
61458997 AAAAGGTATC
* *
61459007 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
61459028 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
61459051 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
61459070 TGC-AATCATATCT
1 TACAAATCATATCT
61459083 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:61459099 original size:35 final size:37
Alignment explanation
Indices: 61459036--61459133 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
61459026 ATTACAAAAT
61459036 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
61459072 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
61459107 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
61459134 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:61459141 original size:17 final size:19
Alignment explanation
Indices: 61459043--61459133 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
61459033 AATCATATCT
61459043 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
61459062 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
61459080 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
61459097 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
61459116 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
61459134 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:61459537 original size:45 final size:45
Alignment explanation
Indices: 61459482--61459640 Score: 176
Period size: 45 Copynumber: 3.5 Consensus size: 45
61459472 GGAAGGCGAT
* * *
61459482 ATCTGCTATCTTTGATCTGCTTCCGGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTTGATCTGCTTCCCGTCTAATACAGAGATGCCAA
*
61459527 ATCTGTTATCTTCGATCTG-TTCCCCGTCTAAATACAGAGATGCCAA
1 ATCTGTTATCTTTGATCTGCTT-CCCGTCT-AATACAGAGATGCCAA
* * * * *
61459573 ATCTATTATCTCTGATTTGCTCCCCGTCTAATACAGAAATGCCAA
1 ATCTGTTATCTTTGATCTGCTTCCCGTCTAATACAGAGATGCCAA
* * * *
61459618 ATTTGTCATCTTGGATCTTCTTC
1 ATCTGTTATCTTTGATCTGCTTC
61459641 GATGTAAACA
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
44 2 0.02
45 53 0.57
46 37 0.40
47 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (45 bp):
ATCTGTTATCTTTGATCTGCTTCCCGTCTAATACAGAGATGCCAA
Found at i:61459781 original size:78 final size:78
Alignment explanation
Indices: 61459652--61459946 Score: 475
Period size: 78 Copynumber: 3.8 Consensus size: 78
61459642 ATGTAAACAC
**
61459652 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
61459717 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
61459730 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
61459794 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
*
61459808 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
61459873 TAGATCTGCTTCA
66 TGGATCTGCTTCA
* * * **
61459886 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
61459947 TATTTCTTCG
Statistics
Matches: 201, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
77 2 0.01
78 197 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:61460156 original size:78 final size:77
Alignment explanation
Indices: 61460027--61460389 Score: 528
Period size: 78 Copynumber: 4.7 Consensus size: 77
61460017 GTGAAAGCCA
61460027 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
61460092 TTAATGAAGGTCC
66 TCAATGAAGGT-C
* * * * * *
61460105 AATCTGTTATATCTTCGATCTGCTCCCCGTTTAATACAAATATGTCAAATCATCTTGGATCTGCT
1 AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
61460170 TCAATGAAGGTC
66 TCAATGAAGGTC
* * *
61460182 AAATCTGTTGTGACTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGC
1 -AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGC
*
61460247 TTCAATAAAGGTC
65 TTCAATGAAGGTC
* *
61460260 AGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTGGATCTGC
1 A-ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGC
61460325 TTCAATGAAGGTC
65 TTCAATGAAGGTC
* * * **
61460338 AGATCTGCTATGTCTTCGATTTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 A-ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
61460390 TGTTTCTTTG
Statistics
Matches: 257, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
77 2 0.01
78 255 0.99
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (77 bp):
AATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
TCAATGAAGGTC
Found at i:61460308 original size:365 final size:367
Alignment explanation
Indices: 61459535--61460311 Score: 1141
Period size: 365 Copynumber: 2.1 Consensus size: 367
61459525 AAATCTGTTA
* *
61459535 TCTTCGATCTGTTCCCCGTCTAAATACAGAGATGCCAAATCTATTATCTCTGATTTGCTCCCCGT
1 TCTTCGATCTGCTCCCCGTCT-AATACAGAGATGCCAAATCTATTATCTCTGATTTGCTCCCCGA
* * * * *
61459600 CTAATACAGAAATGCCAAATTTGTCATCTTGGATCTTCTTCGATGTAAACACATGAAGGTCAGAT
65 CTAATACAGAAATGCCAAA--T-TCATCTTAGATCTGCTTCGA-GTAAACACATGAAAGCCAAAT
*
61459665 CTGCTATGTCTTCGATCTGCTCCCTATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
126 CTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
* *
61459730 ATGAAGGTCCAATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATCT
191 ATGAAGGTCCAATCTGTTATATCTTCGATCTACTCCCCGTCTAATACAAAGATGCCAAATCATCT
* *
61459795 TGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
256 TGGATCTGCTTCAATGAAGGTCAAATCTGCTGTGACTTCGATCTGCTCCCCGTCTAATACAGAGA
*
61459860 TGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTACTATG
321 TGCCAAATCATCTTAGATCTGCTTCAATAAAGGTCAGATCTACTATG
* * ** * * *
61459907 TCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATT-TCT-TCGATTTGTTCTCTGA
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATTATCTCT-GATTTGCTCCCCGA
* * *
61459970 C-AGTACAGAGATGCCAAA-TCATCTTAGATCTGCTTC-AGCATAAACACGTGAAAGCCAAATCT
65 CTAATACAGAAATGCCAAATTCATCTTAGATCTGCTTCGAG--TAAACACATGAAAGCCAAATCT
* *
61460032 GCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTTAAT
128 GCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAAT
* * * *
61460097 GAAGGTCCAATCTGTTATATCTTCGATCTGCTCCCCGTTTAATACAAATATGTCAAATCATCTTG
193 GAAGGTCCAATCTGTTATATCTTCGATCTACTCCCCGTCTAATACAAAGATGCCAAATCATCTTG
*
61460162 GATCTGCTTCAATGAAGGTCAAATCTGTTGTGACTTCGATCTGCTCCCCGTCTAATACAGAGATG
258 GATCTGCTTCAATGAAGGTCAAATCTGCTGTGACTTCGATCTGCTCCCCGTCTAATACAGAGATG
* * *
61460227 CCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTGTG
323 CCAAATCATCTTAGATCTGCTTCAATAAAGGTCAGATCTACTATG
*
61460272 TCTTCGATCTGCTCCCCGTCTAATACAGATATGCCAAATC
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
61460312 ATCTTGGATC
Statistics
Matches: 364, Mismatches: 38, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
363 1 0.00
364 1 0.00
365 293 0.80
369 16 0.04
370 14 0.04
371 21 0.06
372 18 0.05
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (367 bp):
TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATTATCTCTGATTTGCTCCCCGAC
TAATACAGAAATGCCAAATTCATCTTAGATCTGCTTCGAGTAAACACATGAAAGCCAAATCTGCT
ATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAA
GGTCCAATCTGTTATATCTTCGATCTACTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGAT
CTGCTTCAATGAAGGTCAAATCTGCTGTGACTTCGATCTGCTCCCCGTCTAATACAGAGATGCCA
AATCATCTTAGATCTGCTTCAATAAAGGTCAGATCTACTATG
Found at i:61460322 original size:41 final size:41
Alignment explanation
Indices: 61460199--61460325 Score: 104
Period size: 41 Copynumber: 3.2 Consensus size: 41
61460189 TTGTGACTTC
*
61460199 GATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GATCTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTG
* ** * * ** * *
61460240 GATCTGCT-TCAAT-AAAGGT-CAGATCTG-C-TGT-GTCTTC
1 GATCTGCTCCCCGTCTAA--TACAGATATGCCAAATCATCTTG
61460277 GATCTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTG
1 GATCTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTG
61460318 GATCTGCT
1 GATCTGCT
61460326 TCAATGAAGG
Statistics
Matches: 59, Mismatches: 19, Indels: 16
0.63 0.20 0.17
Matches are distributed among these distances:
37 13 0.22
38 10 0.17
39 6 0.10
40 9 0.15
41 21 0.36
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (41 bp):
GATCTGCTCCCCGTCTAATACAGATATGCCAAATCATCTTG
Found at i:61460482 original size:443 final size:442
Alignment explanation
Indices: 61459652--61460535 Score: 1448
Period size: 443 Copynumber: 2.0 Consensus size: 442
61459642 ATGTAAACAC
* * *
61459652 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATATCTTCGATCTGCTCCCCATCTAATACAAAGATGCCAAATCATCT
* *
61459717 TGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGA
66 TGGATCTGCTTCAATGAAGGTCAAATCTGTTATGACTTCGATCTACTCCCCGTCTAATACAGAGA
*
61459782 TGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCG
131 TGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCG
61459847 TCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTACTATGTCTTC
196 TCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTACTATGTCTTC
* *
61459912 GATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTCTTCGATTTGTTCTCTGACAGTACA
261 GATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTCTTCGATTTATTCTCTAACAGTACA
* * *
61459977 GAGATGCCAAATCATCTTAGATCTGCTTCAGCATAAACACGTGAAAGCCAAATCTGCTATGTCTT
326 GAGATGCCAAATAATCTTAGATCTACTTCAGCATAAACACGTGAAAGCCAAATCTACTATGTCTT
* *
61460042 CGATCTGCTCCCCGTCTAATAC-AGAGATGCCAAATCATCTTGGATCTGCTTTA
391 CGATCTGCTCCCCGTC-AACACAAG-GATGCCAAATCATCTTGGATCTACTTTA
* * * * *
61460095 ATGAAGGTCCA-ATCTGTTATATCTTCGATCTGCTCCCCGTTTAATACAAATATGTCAAATCATC
1 ATGAAGGT-CAGATCTGCTATATCTTCGATCTGCTCCCCATCTAATACAAAGATGCCAAATCATC
* *
61460159 TTGGATCTGCTTCAATGAAGGTCAAATCTGTTGTGACTTCGATCTGCTCCCCGTCTAATACAGAG
65 TTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGACTTCGATCTACTCCCCGTCTAATACAGAG
61460224 ATGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCC
130 ATGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCC
* * *
61460289 GTCTAATACAGATATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTT
195 GTCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTACTATGTCTT
* * *
61460354 CGATTTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTTGATTTATTCTCTAACAGTAC
260 CGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTCTTCGATTTATTCTCTAACAGTAC
*
61460419 AGAGATGCCAAATAATCTTAGATCTACTTCAGCATAAACACGTGAAAGTCAAATCTACTATGTCT
325 AGAGATGCCAAATAATCTTAGATCTACTTCAGCATAAACACGTGAAAGCCAAATCTACTATGTCT
*** *
61460484 TCGATCTGCTCTTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACTTT
390 TCGATCTGCTCCCCGTCAACACAAGGATGCCAAATCATCTTGGATCTACTTT
61460536 GATGTGAAGA
Statistics
Matches: 408, Mismatches: 31, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
442 29 0.07
443 377 0.92
444 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (442 bp):
ATGAAGGTCAGATCTGCTATATCTTCGATCTGCTCCCCATCTAATACAAAGATGCCAAATCATCT
TGGATCTGCTTCAATGAAGGTCAAATCTGTTATGACTTCGATCTACTCCCCGTCTAATACAGAGA
TGCCAAATCATCTTGGATCTGCTTCAATAAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCG
TCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTACTATGTCTTC
GATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTCTTCGATTTATTCTCTAACAGTACA
GAGATGCCAAATAATCTTAGATCTACTTCAGCATAAACACGTGAAAGCCAAATCTACTATGTCTT
CGATCTGCTCCCCGTCAACACAAGGATGCCAAATCATCTTGGATCTACTTTA
Found at i:61461764 original size:37 final size:37
Alignment explanation
Indices: 61461714--61461792 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
61461704 TTATTACGAA
* * *
61461714 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
61461751 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
61461788 GTCTT
1 GTCTT
61461793 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:61461989 original size:47 final size:47
Alignment explanation
Indices: 61461911--61462372 Score: 737
Period size: 47 Copynumber: 9.7 Consensus size: 47
61461901 CCCTTCGGGA
* * * * * *
61461911 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61461958 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61462005 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61462052 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61462099 ATTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61462148 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61462195 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61462244 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61462291 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
61462338 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
61462373 AGAATCCTAA
Statistics
Matches: 389, Mismatches: 21, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 298 0.77
49 90 0.23
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61462141 original size:96 final size:96
Alignment explanation
Indices: 61461911--61462372 Score: 740
Period size: 96 Copynumber: 4.9 Consensus size: 96
61461901 CCCTTCGGGA
* * * * * * *
61461911 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
61461974 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
61462005 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
61462068 GCTTTCACATTCATCACATCGGCCATTAGAC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
61462099 ATTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
61462164 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
61462195 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
61462260 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
61462291 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
61462354 A-TGTTCACATCCATCACAT
66 ACT-TTCACATTCATCACAT
61462373 AGAATCCTAA
Statistics
Matches: 345, Mismatches: 18, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
93 2 0.01
94 158 0.46
96 185 0.54
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61462167 original size:143 final size:141
Alignment explanation
Indices: 61461911--61462372 Score: 703
Period size: 143 Copynumber: 3.2 Consensus size: 141
61461901 CCCTTCGGGA
* * * * * * * * ** *
61461911 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGACATTATCACATATATACAC
61461976 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
61462041 GGCCATTAGGC
131 GGCCATTAGGC
61462052 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGACATTATCACATATATATAC
1 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGACATTATCAC--ATATATAC
*
61462117 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
61462182 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* * *
61462195 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACGCTTTCACATTCATCACATCGGCCATTAGACATTATCACATATATAC
61462260 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
61462325 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
61462338 CTTATCTCATATAT--GCATGTTCACATCCATCACAT
1 CTTATCACATATATACGC-T-TTCACATTCATCACAT
61462373 AGAATCCTAA
Statistics
Matches: 296, Mismatches: 19, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
139 1 0.00
140 1 0.00
141 65 0.22
143 185 0.62
145 44 0.15
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGACATTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:61465104 original size:52 final size:52
Alignment explanation
Indices: 61465047--61465149 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
61465037 TGAGCAAAAC
61465047 TTCATTTGTGAAAATTATTTAGTTCATCTATCATTATTTTAATGCAACATAT
1 TTCATTTGTGAAAATTATTTAGTTCATCTATCATTATTTTAATGCAACATAT
61465099 TTCATTTGTGAAAATTATTTAGTTCATCTATCATTATTTTAATGCAACATA
1 TTCATTTGTGAAAATTATTTAGTTCATCTATCATTATTTTAATGCAACATA
61465150 CTTTAAGAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.48
Consensus pattern (52 bp):
TTCATTTGTGAAAATTATTTAGTTCATCTATCATTATTTTAATGCAACATAT
Found at i:61472877 original size:17 final size:17
Alignment explanation
Indices: 61472855--61472888 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
61472845 GATATGATAC
61472855 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
61472872 TAAAATATATAAAAAAT
1 TAAAATATATAAAAAAT
61472889 CGGGAAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:61473170 original size:22 final size:21
Alignment explanation
Indices: 61473135--61473210 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
61473125 AAAAGGTATC
* *
61473135 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
61473156 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
61473179 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
61473198 TGC-AATCATATCT
1 TACAAATCATATCT
61473211 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:61473227 original size:35 final size:37
Alignment explanation
Indices: 61473164--61473261 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
61473154 ATTACAAAAT
61473164 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
61473200 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
61473235 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
61473262 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:61473269 original size:17 final size:19
Alignment explanation
Indices: 61473171--61473261 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
61473161 AATCATATCT
61473171 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
61473190 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
61473208 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
61473225 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
61473244 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
61473262 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:61475160 original size:39 final size:39
Alignment explanation
Indices: 61475106--61475276 Score: 145
Period size: 40 Copynumber: 4.3 Consensus size: 39
61475096 AAATCACGTA
* * *
61475106 CCTTCGGAATTTAACCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAACCGGTTATAGTAACTCGCACAAATG
61475145 CCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAA-CCGG-TTATAGTAACTCGCACAAATG
* * *
61475185 CCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCACAAATG
1 CCTTCGGGACTTA-ACCGGTTA-TAGTAACTCGCACAAATG
* * * * *
61475224 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTA-ACCGGTTATAGTAAC-TCGCACAAATG
61475264 CCTTCGGGACTTA
1 CCTTCGGGACTTA
61475277 GCCCGGACAT
Statistics
Matches: 110, Mismatches: 12, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
38 2 0.02
39 42 0.38
40 52 0.47
41 14 0.13
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
CCTTCGGGACTTAACCGGTTATAGTAACTCGCACAAATG
Found at i:61475179 original size:40 final size:40
Alignment explanation
Indices: 61475127--61475283 Score: 194
Period size: 40 Copynumber: 4.0 Consensus size: 40
61475117 TAACCGGTTA
* *
61475127 TAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT
*
61475167 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT
* * *
61475206 TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATT
* * *
61475246 TGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
61475284 CATCATTCAA
Statistics
Matches: 101, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.33
40 55 0.54
41 11 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT
Found at i:61475243 original size:79 final size:80
Alignment explanation
Indices: 61475127--61475283 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
61475117 TAACCGGTTA
* * *
61475127 TAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAA-GCCTTCG
61475191 GG-CTTAGCCCGGAAT
65 GGACTTAGCCCGGAAT
* ** * *
61475206 TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCG
61475270 GGACTTAGCCCGGA
65 GGACTTAGCCCGGA
61475284 CATCATTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 3 0.04
79 45 0.67
80 19 0.28
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCGGAAT
Found at i:61483082 original size:79 final size:81
Alignment explanation
Indices: 61482958--61483141 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
61482948 GCTACTCGTT
* *
61482958 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCG
* *
61483021 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
61483037 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCG
* *
61483100 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
61483117 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61483142 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 48 0.53
80 19 0.21
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:61483141 original size:40 final size:40
Alignment explanation
Indices: 61482939--61483141 Score: 229
Period size: 39 Copynumber: 5.1 Consensus size: 40
61482929 CGGAATTTAA
** *
61482939 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61482979 CCGGTTATAGTAACTCGCAC-AATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
61483018 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61483057 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
61483097 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
61483137 CCGGA
1 CCGGA
61483142 CATCATTCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 68 0.49
40 57 0.41
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:61488192 original size:18 final size:18
Alignment explanation
Indices: 61488149--61488194 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
61488139 TTAAAGTTTT
61488149 AAAAT-TATATATACATA
1 AAAATATATATATACATA
*
61488166 AAAGGATATATATATATATA
1 AAA--ATATATATATACATA
61488186 AAAATATAT
1 AAAATATAT
61488195 GGTACGACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 6 0.24
19 2 0.08
20 14 0.56
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
AAAATATATATATACATA
Found at i:61488535 original size:3 final size:3
Alignment explanation
Indices: 61488358--61488517 Score: 118
Period size: 3 Copynumber: 53.0 Consensus size: 3
61488348 GTTTAATAGT
* *
61488358 ATA ATA ATA ATA AT- ATA A-A ATA ATA ATA ATA GAGA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * *
61488402 CATTA ATA ATA ATA TATG TTA ATA ACA ATA ATA AT- ATA A-A A-A ATA
1 -A-TA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
61488447 GGA-A ATA ATA AT- ATA CTA ATA AGA ATA ATA ATA GGTTA ATA ATA ATA
1 --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA
*
61488494 GTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
61488518 CTTGTAGTAG
Statistics
Matches: 125, Mismatches: 18, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
2 13 0.10
3 101 0.81
4 6 0.05
5 5 0.04
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:61490531 original size:15 final size:15
Alignment explanation
Indices: 61490509--61490550 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
61490499 AAGAAAAGAA
61490509 AAAGAGAGAAAGACGGG
1 AAAGAGAG-AAGA-GGG
61490526 AAAGAGAGAAGAGGG
1 AAAGAGAGAAGAGGG
*
61490541 AAAGAAAGAA
1 AAAGAGAGAA
61490551 AGAAAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.50
16 4 0.17
17 8 0.33
ACGTcount: A:0.60, C:0.02, G:0.38, T:0.00
Consensus pattern (15 bp):
AAAGAGAGAAGAGGG
Found at i:61503563 original size:45 final size:45
Alignment explanation
Indices: 61503436--61503605 Score: 181
Period size: 45 Copynumber: 3.9 Consensus size: 45
61503426 TATTATCAAA
* * * **
61503436 TCACCGGCATT-CAGCCTGCTAGGTTTAAAAACCCGAAT--TCAT-
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATC
* * *
61503478 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCTGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
61503521 TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* * *
61503566 TCATCGGCATTATAGCTTGCTAGGCTCAAAGGTCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
61503606 GTACTGTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
41 7 0.07
42 24 0.22
43 11 0.10
44 14 0.13
45 51 0.48
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:61507965 original size:53 final size:54
Alignment explanation
Indices: 61507891--61508293 Score: 391
Period size: 55 Copynumber: 7.6 Consensus size: 54
61507881 TTACCATTGT
* * * * *
61507891 CATGTCTTGACATGGTTTTACATGGTATCATTGCCTTAT-GAACTCACCAACGC
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGC
* * *
61507944 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAATGC
1 CATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAATGC
* *
61507999 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGC
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGC
* * *
61508052 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATTAATGC
1 CATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCATCAATGC
* * * *
61508107 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGC
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGC
* * ** *
61508161 CATGCCTTGGCATGGTCTTACATGATATCCTTATC-T-T---AC-CA--AATGT
1 CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGC
** * *
61508207 CATGTTCC-AAACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGC
1 CATG--CCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGC
* * * *
61508262 AATGTCTTGGCATGGTCTTACATGATATCCTT
1 CATGCCTTGACATGGTCTTACATGGTATCCTT
61508294 ATCTTACCAA
Statistics
Matches: 286, Mismatches: 45, Indels: 37
0.78 0.12 0.10
Matches are distributed among these distances:
46 8 0.03
47 23 0.08
48 4 0.01
49 3 0.01
52 6 0.02
53 79 0.28
54 65 0.23
55 94 0.33
56 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
CATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCATCAATGC
Found at i:61508054 original size:108 final size:108
Alignment explanation
Indices: 61507891--61508285 Score: 513
Period size: 108 Copynumber: 3.7 Consensus size: 108
61507881 TTACCATTGT
* * *
61507891 CATGTCTTGACATGGTTTTACATGGTATCATTGCCTTAT-GAACTCACCAACGCCATGCCTTGGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGGC
61507955 ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATGC
66 ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCAT-AATGC
61507999 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGGC
*
61508063 ATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATTAATGC
66 ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCA-TAATGC
* * * *
61508107 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGGC
* * * *
61508172 ATGGTCTTACAT--GA---TATCCTTAT-CTTAC-CA-AATGT
66 ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATAATGC
*** * * * * *
61508207 CATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCAATGTCTTGG
1 CATG-TCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGG
61508272 CATGGTCTTACATG
65 CATGGTCTTACATG
61508286 ATATCCTTAT
Statistics
Matches: 262, Mismatches: 21, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
100 8 0.03
101 65 0.25
102 2 0.01
103 3 0.01
104 7 0.03
107 2 0.01
108 139 0.53
109 36 0.14
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (108 bp):
CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATGCCATGCCTTGGC
ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATAATGC
Found at i:61508224 original size:47 final size:47
Alignment explanation
Indices: 61508171--61508341 Score: 173
Period size: 47 Copynumber: 3.5 Consensus size: 47
61508161 CATGCCTTGG
61508171 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
* * * * ****
61508218 CATGGTCTTACATGGTATCCTTGTCTTA-TAGAACTTATCAATGCAATGTCTTGG
1 CATGGTCTTACATGATATCCTTATCTTACCA-AA--TGTC-ATG---T-TCCAAA
*
61508272 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
*
61508319 CATGGTCTTACATGGTATCCTTA
1 CATGGTCTTACATGATATCCTTA
61508342 ACCGTCAATT
Statistics
Matches: 97, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
46 1 0.01
47 52 0.54
48 1 0.01
49 3 0.03
50 3 0.03
51 3 0.03
52 2 0.02
53 1 0.01
54 30 0.31
55 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
Found at i:61508239 original size:101 final size:104
Alignment explanation
Indices: 61507900--61508340 Score: 479
Period size: 108 Copynumber: 4.2 Consensus size: 104
61507890 TCATGTCTTG
* * *
61507900 ACATGGTTTTACATGGTATCATTGCCTTATGAACTCACCAACGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
* * ***
61507965 ATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTG
66 AT-GGA-C-TATCCTTATACTAACTCAT-AATGCCATGTCCAA
61508008 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
* * ***
61508073 ATGGGACCTTTGCCTTATAGTAACTCATTAATGCCATGTCTTG
66 AT-GGA-CTAT-CCTTATACTAACTCA-TAATGCCATGTCCAA
* * * *
61508116 ACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTA
* *
61508181 CAT-GA-TATCCTTAT-CTTAC-CA-AATGTCATGTTCCAA
65 CATGGACTATCCTTATACTAACTCATAATGCCATG-TCCAA
* * * * *
61508217 ACATGGTCTTACATGGTATCCTTGTCTTATAGAACTTATCAATGCAATGTCTTGGCATGGTCTTA
1 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTA
*
61508282 CAT-GA-TATCCTTAT-CTTAC-CA-AATGCCATGTTCCAA
65 CATGGACTATCCTTATACTAACTCATAATGCCATG-TCCAA
61508318 ACATGGTCTTACATGGTATCCTT
1 ACATGGTCTTACATGGTATCCTT
61508341 AACCGTCAAT
Statistics
Matches: 309, Mismatches: 20, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
100 8 0.03
101 120 0.39
102 2 0.01
103 3 0.01
104 6 0.02
105 2 0.01
107 5 0.02
108 127 0.41
109 36 0.12
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (104 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
ATGGACTATCCTTATACTAACTCATAATGCCATGTCCAA
Found at i:61513013 original size:22 final size:23
Alignment explanation
Indices: 61512983--61513032 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
61512973 AATTAAATTT
*
61512983 AAAATTTAAAAGAAAAATAAT-G
1 AAAAATTAAAAGAAAAATAATAG
* *
61513005 AAAAATTAAAATAATAATAATAG
1 AAAAATTAAAAGAAAAATAATAG
61513028 AAAAA
1 AAAAA
61513033 GACCTAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (23 bp):
AAAAATTAAAAGAAAAATAATAG
Found at i:61515275 original size:18 final size:18
Alignment explanation
Indices: 61515254--61515292 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
61515244 CCTAAATTTG
61515254 ATTTTGATATATTACA-TA
1 ATTTTGA-ATATTACATTA
*
61515272 ATTTTTAATATTACATTA
1 ATTTTGAATATTACATTA
61515290 ATT
1 ATT
61515293 ATTACGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTTGAATATTACATTA
Found at i:61519602 original size:32 final size:32
Alignment explanation
Indices: 61519513--61519613 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
61519503 TTAGTCTTAG
* **
61519513 TATACATTATTGATTTCCTATTATTTTATGTA
1 TATATATTATTGATTTTATATTATTTTATGTA
* * *
61519545 AATAT-TTCCTT-TTTTTA-ATT-TTTTATGTA
1 TATATATT-ATTGATTTTATATTATTTTATGTA
61519574 TATATATTATTGATTTTATATTATTTTATGTA
1 TATATATTATTGATTTTATATTATTTTATGTA
*
61519606 TGTATATT
1 TATATATT
61519614 TTCTTCTAAG
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
29 15 0.28
30 10 0.19
31 8 0.15
32 21 0.39
ACGTcount: A:0.28, C:0.05, G:0.06, T:0.61
Consensus pattern (32 bp):
TATATATTATTGATTTTATATTATTTTATGTA
Found at i:61531185 original size:27 final size:27
Alignment explanation
Indices: 61531155--61531214 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
61531145 TACATCTCAC
61531155 GAACTCGGACTCAACTCAACGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
61531182 GAACTCGGACTCAACTCAACGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
61531209 GAACTC
1 GAACTC
61531215 AAATATCCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (27 bp):
GAACTCGGACTCAACTCAACGAGTTCG
Found at i:61533603 original size:30 final size:30
Alignment explanation
Indices: 61533569--61533648 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
61533559 TGGTTGACAC
* *
61533569 ATCCCTTTTCTTAATTTGATAACCGAAGTT
1 ATCCCTTTTCATAATTTGATAACCGAAGCT
* * * *
61533599 ATCCC-TTTCAATAGTTCGATAGCTGAAGCT
1 ATCCCTTTTC-ATAATTTGATAACCGAAGCT
61533629 ATCCCTTTTCATAATTTGAT
1 ATCCCTTTTCATAATTTGAT
61533649 GGTCATCACC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
29 4 0.10
30 32 0.80
31 4 0.10
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAACCGAAGCT
Found at i:61533780 original size:29 final size:29
Alignment explanation
Indices: 61533748--61533817 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
61533738 GGTCATCACC
* *
61533748 ATCCCTTATCATAGTCGATAGCCGAAGTT
1 ATCCCTTTTCATAGTCGATAGCCGAAGAT
** *
61533777 ATCCCTTTTCGCATTCGATAGCCGAAGAT
1 ATCCCTTTTCATAGTCGATAGCCGAAGAT
61533806 ATCCCTTTTCAT
1 ATCCCTTTTCAT
61533818 TTGTCGATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.34
Consensus pattern (29 bp):
ATCCCTTTTCATAGTCGATAGCCGAAGAT
Found at i:61537147 original size:35 final size:35
Alignment explanation
Indices: 61537101--61537168 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
61537091 TTCAACTTCA
61537101 AAACCTCAAAATTAAAGAAAAGAAAACTATACTCG
1 AAACCTCAAAATTAAAGAAAAGAAAACTATACTCG
61537136 AAACCTCAAAATTAAAGAAAAGAAAACTATACT
1 AAACCTCAAAATTAAAGAAAAGAAAACTATACT
61537169 GCCAGATGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.59, C:0.16, G:0.07, T:0.18
Consensus pattern (35 bp):
AAACCTCAAAATTAAAGAAAAGAAAACTATACTCG
Found at i:61547265 original size:17 final size:17
Alignment explanation
Indices: 61547243--61547275 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
61547233 CACTAACGTG
*
61547243 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
61547260 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
61547276 GTGTACTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:61547752 original size:21 final size:22
Alignment explanation
Indices: 61547728--61547775 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
61547718 CATCTTTAGG
* * *
61547728 AACTTCT-TTTTCTTCAGCAGC
1 AACTTCTCTCTTCTACAGCAAC
61547749 AACTT-TCTCTTCTACAGCAAC
1 AACTTCTCTCTTCTACAGCAAC
61547770 AACTTC
1 AACTTC
61547776 CTTCTCAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (22 bp):
AACTTCTCTCTTCTACAGCAAC
Found at i:61552731 original size:40 final size:40
Alignment explanation
Indices: 61552687--61552874 Score: 254
Period size: 40 Copynumber: 4.7 Consensus size: 40
61552677 GCTACTTGCT
*
61552687 CAAATGCCTTTAGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
* * **
61552727 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCATA
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
*
61552767 CAAATGCCTTCAGGACTAAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
61552807 CAAATGCCTTC-GGGCTTAGCCCGG-AATTAGTCACTGGCA
1 CAAATGCCTTCAGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
61552846 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCAGGACTTAGCCCGGTTAT
61552875 CATCCGAATA
Statistics
Matches: 128, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.25
40 94 0.73
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:61552789 original size:80 final size:79
Alignment explanation
Indices: 61552687--61552874 Score: 288
Period size: 80 Copynumber: 2.4 Consensus size: 79
61552677 GCTACTTGCT
*
61552687 CAAATGCCTTTAGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
*
61552752 -ATATAGTAACTCATA
65 AAT-TAGTAACTCACA
*
61552767 CAAATGCCTTCAGGACTAAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
* **
61552832 ATTAGTCACTGGCA
66 ATTAGTAACTCACA
*
61552846 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCAGGACTTAGCCCGGTTAT
61552875 CATCCGAATA
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 45 0.45
80 54 0.55
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
ATTAGTAACTCACA
Found at i:61557356 original size:25 final size:25
Alignment explanation
Indices: 61557309--61557356 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
61557299 GTCGTTTAGG
* *
61557309 ATTTTGAATAGTTTGGTTCTTTGAT
1 ATTTTGAATAGATTGATTCTTTGAT
* *
61557334 ATTTTGAATTGATTGATTTTTTG
1 ATTTTGAATAGATTGATTCTTTG
61557357 GTGTTGTTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.58
Consensus pattern (25 bp):
ATTTTGAATAGATTGATTCTTTGAT
Found at i:61558154 original size:13 final size:14
Alignment explanation
Indices: 61558136--61558168 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
61558126 ATGAGGGTAG
*
61558136 GATTCTGTATATCT
1 GATTCTGCATATCT
61558150 G-TTCTGCATATCT
1 GATTCTGCATATCT
61558163 GATTCT
1 GATTCT
61558169 ATTATCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (14 bp):
GATTCTGCATATCT
Found at i:61566860 original size:17 final size:16
Alignment explanation
Indices: 61566826--61566860 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
61566816 ATTTTTAATT
*
61566826 TTTTTCAATTAGTTAA
1 TTTTTCAATTAATTAA
61566842 TTTTTCAATTAATTGAA
1 TTTTTCAATTAATT-AA
61566859 TT
1 TT
61566861 ATTAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (16 bp):
TTTTTCAATTAATTAA
Found at i:61569801 original size:28 final size:28
Alignment explanation
Indices: 61569738--61569891 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
61569728 ATATTAAGTC
*
61569738 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
61569765 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
61569793 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
61569821 TGCACACTTAGTGCTATATAATCAAAAT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
61569849 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
61569878 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61569892 CAATCTCATG
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 22 0.19
28 74 0.65
29 18 0.16
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61577750 original size:28 final size:28
Alignment explanation
Indices: 61577687--61577840 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
61577677 ATATTAAGTC
*
61577687 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
61577714 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
61577742 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
61577770 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
61577798 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
61577827 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61577841 CAATCTCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.65
29 19 0.16
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61584020 original size:26 final size:26
Alignment explanation
Indices: 61583991--61584040 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
61583981 TTGGGGTGGG
61583991 AATTGTATATATGGAGGAAATGATCT
1 AATTGTATATATGGAGGAAATGATCT
61584017 AATTGTATATATGGAGGAAATGAT
1 AATTGTATATATGGAGGAAATGAT
61584041 TTGTATGGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.34
Consensus pattern (26 bp):
AATTGTATATATGGAGGAAATGATCT
Found at i:61584045 original size:22 final size:24
Alignment explanation
Indices: 61583992--61584046 Score: 78
Period size: 26 Copynumber: 2.3 Consensus size: 24
61583982 TGGGGTGGGA
61583992 ATTGTATATATGGAGGAAATGATCT
1 ATTGTATATATGGAGGAAATGA-CT
61584017 AATTGTATATATGGAGGAAATGA-T
1 -ATTGTATATATGGAGGAAATGACT
61584041 -TTGTAT
1 ATTGTAT
61584047 GGCGACCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.21
24 1 0.03
26 22 0.76
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.38
Consensus pattern (24 bp):
ATTGTATATATGGAGGAAATGACT
Found at i:61586356 original size:39 final size:39
Alignment explanation
Indices: 61586313--61586482 Score: 218
Period size: 39 Copynumber: 4.4 Consensus size: 39
61586303 AACTTGTTTT
* *
61586313 TGAGTATTGTGATATATGCTTGAATGTTCTGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
61586352 TGAGTACTGTGATATATGCTTGAACA-G-TATGCGATTAAA
1 TGAGTATTGTGATATATGCTT-AA-ATGTTATGTGATTATA
* *
61586391 TGAGTATTGTAATATATGCTTAAATGTTATGTGGTTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
61586430 TGGGTATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
61586469 TGTGTAATGTGATA
1 TGAGTATTGTGATA
61586483 CATAATTAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
37 1 0.01
38 3 0.03
39 105 0.94
40 2 0.02
41 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.43
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:61586492 original size:39 final size:39
Alignment explanation
Indices: 61586410--61586492 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
61586400 TAATATATGC
* * * **
61586410 TTAAATGTTATGTGGTTATATGGGTATTGTGATATATGC
1 TTAAATGTTATGTGATTATATGGGTAATGTGATACATAA
*
61586449 TTAAATGTTATGTGATTATATGTGTAATGTGATACATAA
1 TTAAATGTTATGTGATTATATGGGTAATGTGATACATAA
61586488 TTAAA
1 TTAAA
61586493 AGTGAATATG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (39 bp):
TTAAATGTTATGTGATTATATGGGTAATGTGATACATAA
Found at i:61587476 original size:46 final size:46
Alignment explanation
Indices: 61587423--61587586 Score: 217
Period size: 46 Copynumber: 3.5 Consensus size: 46
61587413 TATTTGGGCA
61587423 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
61587469 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
61587516 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
61587562 TCCGAACTCGTTGAGTTGAGTCCGA
1 TCCGAACTCGTTGAGTTGAGTCCGA
61587587 ATTCGAGAGA
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 57 0.58
47 32 0.32
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61587538 original size:47 final size:46
Alignment explanation
Indices: 61587419--61587637 Score: 207
Period size: 47 Copynumber: 4.7 Consensus size: 46
61587409 AGGATATTTG
*** *
61587419 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GAT-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAATA
*
61587462 GCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
1 G-GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAA-TA
* *** *
61587512 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GAT-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAATA
* *
61587555 GCGAATGTCCGAACTCGTTGAGTTGAGTCCGAATTCGAGAGATGTAAGTA
1 G-GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAA-TA
*
61587605 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
61587638 ACTTATGGGC
Statistics
Matches: 141, Mismatches: 21, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
43 2 0.01
44 5 0.04
45 1 0.01
46 60 0.43
47 63 0.45
48 2 0.01
49 6 0.04
50 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAATA
Found at i:61587578 original size:93 final size:93
Alignment explanation
Indices: 61587419--61587645 Score: 427
Period size: 93 Copynumber: 2.4 Consensus size: 93
61587409 AGGATATTTG
*
61587419 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
61587484 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAATTCGAGAGATGTAACTA
61587512 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
61587577 TTGAGTCCGAATTCGAGAGATGTAAGTA
66 TTGAGTCCGAATTCGAGAGATGTAACTA
61587605 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61587646 GCGGCTTACA
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 131 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAATTCGAGAGATGTAACTA
Found at i:61591490 original size:42 final size:42
Alignment explanation
Indices: 61591424--61591576 Score: 150
Period size: 42 Copynumber: 3.6 Consensus size: 42
61591414 TGAGAATACG
* * *
61591424 TGTAAGACCATATCTAGGATATGGCATCGATATGATATTACA
1 TGTAAGACCATATCTGGGACATGGCATCGATATGAAATTACA
* ***
61591466 TGTAAGACCATGTCTGGGACATGGCATCGAT-TCGAAATTTTG
1 TGTAAGACCATATCTGGGACATGGCATCGATAT-GAAATTACA
* * *
61591508 TGTAAGACCATAGCTGGG-CTATTAGCATCGATATGAGATTACA
1 TGTAAGACCATATCTGGGAC-A-TGGCATCGATATGAAATTACA
* *
61591551 TGTAA-ACCATATCCGGGATATGGCAT
1 TGTAAGACCATATCTGGGACATGGCAT
61591577 TGTATGACTT
Statistics
Matches: 88, Mismatches: 18, Indels: 11
0.75 0.15 0.09
Matches are distributed among these distances:
41 7 0.08
42 61 0.69
43 19 0.22
44 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACATGGCATCGATATGAAATTACA
Found at i:61591574 original size:84 final size:84
Alignment explanation
Indices: 61591423--61591576 Score: 220
Period size: 84 Copynumber: 1.8 Consensus size: 84
61591413 ATGAGAATAC
* * * * *
61591423 GTGTAAGACCATATCTAGGATATGGCATCGATATGATATTACATGTAAGACCATGTCTGGGACAT
1 GTGTAAGACCATAGCTAGGATATAGCATCGATATGAGATTACATGTAAGACCATATCCGGGACAT
61591488 GGCATCGATTCGAAATTTT
66 GGCATCGATTCGAAATTTT
* * *
61591507 GTGTAAGACCATAGCTGGGCTATTAGCATCGATATGAGATTACATGTAA-ACCATATCCGGGATA
1 GTGTAAGACCATAGCTAGGATA-TAGCATCGATATGAGATTACATGTAAGACCATATCCGGGACA
61591571 TGGCAT
65 TGGCAT
61591577 TGTATGACTT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
84 37 0.61
85 24 0.39
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (84 bp):
GTGTAAGACCATAGCTAGGATATAGCATCGATATGAGATTACATGTAAGACCATATCCGGGACAT
GGCATCGATTCGAAATTTT
Found at i:61594808 original size:20 final size:19
Alignment explanation
Indices: 61594765--61594809 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
61594755 TCTTGAATAA
*
61594765 GTGCTCCTGATAGCACTATG
1 GTGCTCCTGATAGCACT-TC
61594785 GTGCTCCTGATAGCACATTC
1 GTGCTCCTGATAGCAC-TTC
61594805 GTGCT
1 GTGCT
61594810 TTAGTTAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (19 bp):
GTGCTCCTGATAGCACTTC
Found at i:61594809 original size:40 final size:40
Alignment explanation
Indices: 61594765--61594873 Score: 105
Period size: 40 Copynumber: 2.8 Consensus size: 40
61594755 TCTTGAATAA
* *
61594765 GTGCTCCTGATAGCACTATGGTGCTCCTGATAGCACATTC
1 GTGCTCCTGATAGCACTACGATGCTCCTGATAGCACATTC
* * * *
61594805 GTGCT-TTAGTTAGCACTACGATGCTCTTGATAGCATATTC
1 GTGCTCCT-GATAGCACTACGATGCTCCTGATAGCACATTC
* * * *
61594845 ATGCTCCTGTTTGCATTACGATGC-CCTGA
1 GTGCTCCTGATAGCACTACGATGCTCCTGA
61594874 CTGAACATTT
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
39 5 0.09
40 50 0.89
41 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (40 bp):
GTGCTCCTGATAGCACTACGATGCTCCTGATAGCACATTC
Found at i:61594838 original size:20 final size:19
Alignment explanation
Indices: 61594765--61594839 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
61594755 TCTTGAATAA
*
61594765 GTGCTCCTGATAGCACTATG
1 GTGCTCCTGATAGCACTA-C
*
61594785 GTGCTCCTGATAGCACATTC
1 GTGCTCCTGATAGCAC-TAC
* *
61594805 GTGCT-TTAGTTAGCACTAC
1 GTGCTCCT-GATAGCACTAC
*
61594824 GATGCTCTTGATAGCA
1 G-TGCTCCTGATAGCA
61594840 TATTCATGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 4 0.09
20 38 0.84
21 3 0.07
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (19 bp):
GTGCTCCTGATAGCACTAC
Found at i:61596272 original size:27 final size:27
Alignment explanation
Indices: 61596198--61596382 Score: 226
Period size: 27 Copynumber: 6.8 Consensus size: 27
61596188 ACATACATCA
* * * *
61596198 CATAGGGGTAAAACAGTCATCTTACCA
1 CATAAGGGCAAAACAGTCATTTTACCC
* * * * *
61596225 TAAAAGGGAAAAAACAATCATTTTACCT
1 CATAAGGG-CAAAACAGTCATTTTACCC
* *
61596253 CATAAGGGAAAAATAGTCATTTTACCC
1 CATAAGGGCAAAACAGTCATTTTACCC
61596280 CATAAGGGCAAAACAGTCATTTTACCC
1 CATAAGGGCAAAACAGTCATTTTACCC
61596307 CATAAGGGCAAAACAGTCATTTTACCC
1 CATAAGGGCAAAACAGTCATTTTACCC
* * *
61596334 CACAAGGGTAAAACAATCATTTTACCC
1 CATAAGGGCAAAACAGTCATTTTACCC
*
61596361 CATAAAGGCAAAACAGTCATTT
1 CATAAGGGCAAAACAGTCATTT
61596383 ATCAATTTTG
Statistics
Matches: 136, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 115 0.85
28 21 0.15
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (27 bp):
CATAAGGGCAAAACAGTCATTTTACCC
Found at i:61605562 original size:40 final size:40
Alignment explanation
Indices: 61605505--61605754 Score: 299
Period size: 40 Copynumber: 6.3 Consensus size: 40
61605495 TTTGAATGAG
* * *
61605505 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
* *
61605545 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
* *
61605585 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
* * *
61605625 ATCTGGGCTAAGACCCGAAGGCATTTGTGCGAATTGA-TAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC-TAGTGATTAT
* * *
61605665 ATCCGGGCTAAGACCAGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTAT
* * * * *
61605705 ACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
61605745 ATCC-GGCTAA
1 ATCCGGGCTAA
61605755 ATTCCGAAGA
Statistics
Matches: 185, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
39 8 0.04
40 173 0.94
41 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
Found at i:61607665 original size:95 final size:95
Alignment explanation
Indices: 61607517--61607705 Score: 265
Period size: 95 Copynumber: 2.0 Consensus size: 95
61607507 ATGACTAAAG
* * *
61607517 GCCGTAAATATCGCAGCAACGATGCCAGTTAACAGAACGACTATAAGCCATAAGTATCACAGGAA
1 GCCGTAAATATCGCAGCAACGAGGCCAGTTAACAAAACGACTATAAGCCATAAGTATCACAGAAA
*
61607582 GGCTAAAAGCCATATACAGGACGGCTACAA
66 GGCTAAAAGCCATATACAAGACGGCTACAA
* * * *
61607612 GCCGTAAATATCGCATCAAC-ACGGCTAGTTAATAAAAC-AGCTATAAGCCATAAGTATCGCAGA
1 GCCGTAAATATCGCAGCAACGA-GGCCAGTTAACAAAACGA-CTATAAGCCATAAGTATCACAGA
*
61607675 AAGGCTAAAAGCCTTATACAAGACGGCTACA
64 AAGGCTAAAAGCCATATACAAGACGGCTACA
61607706 GGCAGTACAC
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
94 2 0.02
95 81 0.98
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (95 bp):
GCCGTAAATATCGCAGCAACGAGGCCAGTTAACAAAACGACTATAAGCCATAAGTATCACAGAAA
GGCTAAAAGCCATATACAAGACGGCTACAA
Found at i:61607911 original size:27 final size:27
Alignment explanation
Indices: 61607851--61607912 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
61607841 GGGCATAATC
* * *
61607851 GTCATTCTACCATACAGGGGTATTATA
1 GTCATTTTACCATACAGGGGCATTACA
*
61607878 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCATACAGGGGCATTACA
61607905 GTCATTTT
1 GTCATTTT
61607913 GCACTACAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCATTACA
Found at i:61607919 original size:27 final size:27
Alignment explanation
Indices: 61607863--61607920 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
61607853 CATTCTACCA
* * *
61607863 TACAGGGGTATTATAGTCATTTTACCC
1 TACAGGGGCATTACAGTCATTTTACAC
*
61607890 TACAGGGGCATTACAGTCATTTTGCAC
1 TACAGGGGCATTACAGTCATTTTACAC
61607917 TACA
1 TACA
61607921 ATGGTATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (27 bp):
TACAGGGGCATTACAGTCATTTTACAC
Found at i:61628375 original size:47 final size:47
Alignment explanation
Indices: 61628306--61628473 Score: 157
Period size: 49 Copynumber: 3.6 Consensus size: 47
61628296 GTATAATGTT
* *
61628306 GATGCCATATCCCAGACATGGTCTTACACTGGCTCATCCATTAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATTAAGTC
* * * *
61628353 GATGCCATGTCCCAGACATGGTCTTAAACTGACT-ATCGATATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCAT-T--AAGTC
* * * * *
61628402 AATGCCATGTCCTAGACATGGTCTTACGCTGACACATCTC-GT-AGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCATC-CATTAAGTC
*
61628448 GATG-CACGTCCCAGACAT-GTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
61628474 TTGGCTTACA
Statistics
Matches: 97, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
44 7 0.07
45 12 0.12
46 10 0.10
47 32 0.33
49 33 0.34
50 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATTAAGTC
Found at i:61628487 original size:46 final size:46
Alignment explanation
Indices: 61628435--61628524 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
61628425 TTACGCTGAC
* *
61628435 ACATCTCGTAGTC-GATGCACGTCCCAGACATGTCTTACATTGGCTT
1 ACATCTCG-AGACTGATGCACATCCCAGACATGTCTTACATTGGCTT
*
61628481 ACATCTCGAGACTGATGCATATCCCAGACATGTCTTACATTGGC
1 ACATCTCGAGACTGATGCACATCCCAGACATGTCTTACATTGGC
61628525 ACACAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 3 0.08
46 37 0.93
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
ACATCTCGAGACTGATGCACATCCCAGACATGTCTTACATTGGCTT
Found at i:61628963 original size:94 final size:93
Alignment explanation
Indices: 61628802--61628992 Score: 364
Period size: 94 Copynumber: 2.0 Consensus size: 93
61628792 TACAATATCA
*
61628802 TCAACCTAAACTTTAATACAATCATGGAAAGATAGATTTTCAAGTATATAACAATGGCATAAATA
1 TCAACCTAAACTTTAATACAATCATGGAAAGATAGATTTTCAAGTATACAACAATGGCATAAATA
61628867 TCATGCTCATTTAATCACACGGACTTACC
66 TCATGCT-ATTTAATCACACGGACTTACC
61628896 TCAACCTAAACTTTAATACAATCATGGAAAGATAGATTTTCAAGTATACAACAATGGCATAAATA
1 TCAACCTAAACTTTAATACAATCATGGAAAGATAGATTTTCAAGTATACAACAATGGCATAAATA
61628961 TCATGCTATTTAATCACACGGACTTACC
66 TCATGCTATTTAATCACACGGACTTACC
61628989 TCAA
1 TCAA
61628993 ATGCAATTTC
Statistics
Matches: 96, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
93 25 0.26
94 71 0.74
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (93 bp):
TCAACCTAAACTTTAATACAATCATGGAAAGATAGATTTTCAAGTATACAACAATGGCATAAATA
TCATGCTATTTAATCACACGGACTTACC
Found at i:61633983 original size:104 final size:104
Alignment explanation
Indices: 61633803--61634069 Score: 437
Period size: 104 Copynumber: 2.6 Consensus size: 104
61633793 TAACCGTTAT
* **
61633803 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
61633868 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
61633907 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
61633972 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * * **
61634011 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
61634070 TTTATATACA
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
104 151 0.99
105 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:61635450 original size:20 final size:21
Alignment explanation
Indices: 61635417--61635458 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
61635407 AGAAGGAAAG
*
61635417 AAGAAAGGTAAAAGGATTAGAA
1 AAGAAAGG-AAAAGGACTAGAA
61635439 AAGAAAGG-AAAGGACTAGAA
1 AAGAAAGGAAAAGGACTAGAA
61635459 GATAAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
22 8 0.42
ACGTcount: A:0.60, C:0.02, G:0.29, T:0.10
Consensus pattern (21 bp):
AAGAAAGGAAAAGGACTAGAA
Found at i:61640804 original size:20 final size:20
Alignment explanation
Indices: 61640738--61640804 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
61640728 ATTTTGATAA
*
61640738 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
**
61640758 ACATGACGTGTATGATATGC
1 ACATGATATGTATGATATGC
61640778 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
61640798 ACATGAT
1 ACATGAT
61640805 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61640962 original size:24 final size:25
Alignment explanation
Indices: 61640855--61641009 Score: 199
Period size: 25 Copynumber: 6.2 Consensus size: 25
61640845 AGGAAGTGTA
61640855 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
61640880 ATAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
61640905 AAAGGGCTTATGCCCTAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
61640930 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
61640954 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
61640978 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
61641006 AAAG
1 AAAG
61641010 CAGCTATGTT
Statistics
Matches: 118, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
24 33 0.28
25 76 0.64
26 1 0.01
27 4 0.03
28 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:61641229 original size:31 final size:31
Alignment explanation
Indices: 61641194--61641256 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
61641184 CGTTTACAGT
*
61641194 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
61641225 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
61641256 A
1 A
61641257 GTGTGAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:61642830 original size:46 final size:49
Alignment explanation
Indices: 61642665--61642838 Score: 159
Period size: 49 Copynumber: 3.6 Consensus size: 49
61642655 CCATCAAGTT
* *
61642665 GATGCCATGTCCCAGACATGGTCTTACGCT-GACTATCGA-A-AT-CGAGGCC
1 GATGCCATGT-CCAGACAT-GTCTTACACTAG-CTCTC-ACATATCCGAGGCC
* *
61642714 GACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCG-TGCC
1 GATGCCATGT-CCAGACAT-GTCTTACACTAGCTCTCACATATCCGAGGCC
* *
61642764 GATGCCATGTCCTAGACATGTCTTACACTAGCT-T-ACATCT-TGAGGCC
1 GATGCCATGTCC-AGACATGTCTTACACTAGCTCTCACATATCCGAGGCC
61642811 GATG-CATGTCTCAGACATGTCTTACACT
1 GATGCCATGTC-CAGACATGTCTTACACT
61642839 GGCACTCAAA
Statistics
Matches: 110, Mismatches: 8, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
46 23 0.21
47 13 0.12
48 2 0.02
49 49 0.45
50 21 0.19
51 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCAGACATGTCTTACACTAGCTCTCACATATCCGAGGCC
Found at i:61647540 original size:24 final size:24
Alignment explanation
Indices: 61647512--61647565 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
61647502 TCTTTCTAAA
*
61647512 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGTATTTATTAGCATAAT
61647536 ATATTTAGTATTTATTAGCATAAT
1 ATATTTAGTATTTATTAGCATAAT
*
61647560 TTATTT
1 ATATTT
61647566 GACCTACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (24 bp):
ATATTTAGTATTTATTAGCATAAT
Found at i:61652494 original size:24 final size:24
Alignment explanation
Indices: 61652467--61652512 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
61652457 GGTCAAATAA
* *
61652467 ATTATGCTAATAAATACTAAATGT
1 ATTATACTAATAAATACCAAATGT
61652491 ATTATACTAATAAATACCAAAT
1 ATTATACTAATAAATACCAAAT
61652513 ATTTTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (24 bp):
ATTATACTAATAAATACCAAATGT
Found at i:61655056 original size:2 final size:2
Alignment explanation
Indices: 61655049--61655083 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
61655039 TCTTGTAAGA
*
61655049 AG AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
61655084 AAGCATATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:61673016 original size:174 final size:174
Alignment explanation
Indices: 61672705--61673048 Score: 564
Period size: 174 Copynumber: 2.0 Consensus size: 174
61672695 AAGGGTAATG
* *
61672705 AGGTGGTTGTGATTGGAAAGCATCAGAATTATCTGTCAAATGTGATTTCTACACTTAGAGCTGAG
1 AGGTGGTTGTAATTGGAAAGCATCAAAATTATCTGTCAAATGTGATTTCTACACTTAGAGCTGAG
* *
61672770 AACTTGGTTCGTAAGGGTTGTGAGGCGTATCTAGCCTACATCAGTGCTTCGAGTTCTGATGTTCT
66 AACTTGGTTCGTAAGGGTTGTGAGGCGTATCTAGCCTACATCAGTGCTTCGAGTTCTGAGGTTCC
*
61672835 GTTTGTTAAAGATATCAGAACAGTTAAAGACTTTCTAGACGTTT
131 ATTTGTTAAAGATATCAGAACAGTTAAAGACTTTCTAGACGTTT
** * *
61672879 AGGTGGTTGTAATTGGGGAGCATCAAAATTATCTGTCAAATGTGATTTTTGCACTTAGAGCTGAG
1 AGGTGGTTGTAATTGGAAAGCATCAAAATTATCTGTCAAATGTGATTTCTACACTTAGAGCTGAG
* * *
61672944 AAGTTGGTTCGTAAGGGTTGTGAGGCGTATCTAGCCTATATCAGTGCTTCGGGTT-TAGAGGTTC
66 AACTTGGTTCGTAAGGGTTGTGAGGCGTATCTAGCCTACATCAGTGCTTCGAGTTCT-GAGGTTC
61673008 CATTTGTTAAAGATATCAGAACAGTTAAAGACTTTCTAGAC
130 CATTTGTTAAAGATATCAGAACAGTTAAAGACTTTCTAGAC
61673049 ATTTTTCCCG
Statistics
Matches: 157, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
173 1 0.01
174 156 0.99
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (174 bp):
AGGTGGTTGTAATTGGAAAGCATCAAAATTATCTGTCAAATGTGATTTCTACACTTAGAGCTGAG
AACTTGGTTCGTAAGGGTTGTGAGGCGTATCTAGCCTACATCAGTGCTTCGAGTTCTGAGGTTCC
ATTTGTTAAAGATATCAGAACAGTTAAAGACTTTCTAGACGTTT
Found at i:61679403 original size:22 final size:22
Alignment explanation
Indices: 61679375--61679420 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
61679365 ACCAGTAAAA
*
61679375 GAAAGAGTTTGATTGAGCTTTC
1 GAAAGAGTTAGATTGAGCTTTC
61679397 GAAAGAGTTAGATTGAGCTTTC
1 GAAAGAGTTAGATTGAGCTTTC
61679419 GA
1 GA
61679421 CTTCTCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (22 bp):
GAAAGAGTTAGATTGAGCTTTC
Found at i:61691273 original size:46 final size:44
Alignment explanation
Indices: 61691128--61691389 Score: 233
Period size: 46 Copynumber: 5.7 Consensus size: 44
61691118 CATGTACCCT
* * *
61691128 TGCCGATGAATGTCCCAGACATGTCTTACACTAGCAT-ATCTCA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTCATCTCG
* * ** *
61691171 TAACTGATGCATGTCCCAGACATGTCTGGCACTTG-TTAACATCTCG
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTT--CATCTCG
* **
61691217 ATGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTGCATAACG
1 -TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTT-CATCTCG
* * *
61691263 TGGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCATCTCAA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAG-CTTCATCTC-G
* *
61691310 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAAT-G
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TCAT-CTCG
*
61691357 TGGCCGATGCATGTCCCGGACATGTCTTACACT
1 T-GCCGATGCATGTCCCAGACATGTCTTACACT
61691390 GGCACACAAA
Statistics
Matches: 176, Mismatches: 29, Indels: 25
0.77 0.13 0.11
Matches are distributed among these distances:
43 2 0.01
44 27 0.15
45 1 0.01
46 88 0.50
47 35 0.20
48 22 0.12
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTCATCTCG
Found at i:61691379 original size:94 final size:92
Alignment explanation
Indices: 61691128--61691389 Score: 284
Period size: 94 Copynumber: 2.8 Consensus size: 92
61691118 CATGTACCCT
* * *
61691128 TGCCGATGAATGTCCCAGACATGTCTTACACTAGCATATCTCATAAC-T----GATGCATGTCCC
1 TGCCAATGCATGTCCCAGACATGTCTTACACTAGC-T-T-GCATAACGTGGCCGATGCATGTCCC
** * **** *
61691188 AGACATGTCTGGCACTTGTTAACATCTCGA
63 AGACATGTCTTACACTAGCCCTCATCTCAA
*
61691218 TGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTGCATAACGTGGCTGATGCATGTCCCAGA
1 TGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTGCATAACGTGGCCGATGCATGTCCCAGA
61691283 CATGTCTTACACTAGCCCTCATCTCAA
66 CATGTCTTACACTAGCCCTCATCTCAA
* * *
61691310 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-CATAATGTGGCCGATGCATGTCCC
1 TGCCAATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TGCATAACGTGGCCGATGCATGTCCC
*
61691374 GGACATGTCTTACACT
63 AGACATGTCTTACACT
61691390 GGCACACAAA
Statistics
Matches: 148, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
87 6 0.04
88 2 0.01
89 1 0.01
90 33 0.22
92 41 0.28
93 14 0.09
94 50 0.34
95 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
TGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTGCATAACGTGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCCCTCATCTCAA
Found at i:61691389 original size:140 final size:136
Alignment explanation
Indices: 61691132--61691389 Score: 324
Period size: 140 Copynumber: 1.9 Consensus size: 136
61691122 TACCCTTGCC
*
61691132 GATGAATGTCCCAGACATGTCTTACACTAGCATATCTCATAACTGATGCATGTCCCAGACATGTC
1 GATGAATGTCCCAGACATGTCTTACACTAGCATATCTCATAACCGATGCATGTCCCAGACATGTC
* * * *
61691197 TGGCACTTGTTAACATCTCGATGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTGCATAAC
66 TGACACTGGCTAACATATCGATGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTGCATAAC
61691262 GTGGCT
131 GTGGCT
* * *
61691268 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCATCTCA-ATGCCGATGCCATGTCCCAGACA
1 GATGAATGTCCCAGACATGTCTTACACTAG-CAT-ATCTCATA-ACCGATG-CATGTCCCAGACA
* * * *
61691332 TGGTCTTACACTGGCTATCATAAT-G-TGGCCGATGCATGTCCCGGACATGTCTTACACT
62 T-GTCTGACACTGGCTAACAT-ATCGAT-GCCAATGCATGTCCCAGACATGTCTTACACT
61691390 GGCACACAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
136 29 0.28
137 3 0.03
138 11 0.11
139 15 0.15
140 44 0.43
141 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (136 bp):
GATGAATGTCCCAGACATGTCTTACACTAGCATATCTCATAACCGATGCATGTCCCAGACATGTC
TGACACTGGCTAACATATCGATGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTGCATAAC
GTGGCT
Found at i:61699660 original size:7 final size:7
Alignment explanation
Indices: 61699648--61699689 Score: 57
Period size: 7 Copynumber: 5.6 Consensus size: 7
61699638 AACCCTAGAA
61699648 AACTTCT
1 AACTTCT
61699655 AACTTCAGAT
1 AACTTC---T
61699665 AACTTCT
1 AACTTCT
61699672 AACTTCT
1 AACTTCT
61699679 AACTTCT
1 AACTTCT
61699686 AACT
1 AACT
61699690 GCTGAAATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 25 0.78
10 7 0.22
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.38
Consensus pattern (7 bp):
AACTTCT
Found at i:61699668 original size:17 final size:14
Alignment explanation
Indices: 61699648--61699689 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 14
61699638 AACCCTAGAA
61699648 AACTTCTAACTTCAGAT
1 AACTTCTAACTTC---T
61699665 AACTTCTAACTTCT
1 AACTTCTAACTTCT
61699679 AACTTCTAACT
1 AACTTCTAACT
61699690 GCTGAAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.48
17 13 0.52
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.38
Consensus pattern (14 bp):
AACTTCTAACTTCT
Found at i:61721081 original size:19 final size:19
Alignment explanation
Indices: 61721039--61721081 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
61721029 AGGACATAAA
* *
61721039 TGTGTTGAAGACACATGGG
1 TGTGTTGAAGACACACGAG
* *
61721058 CGTGTTGAAGACATACGAG
1 TGTGTTGAAGACACACGAG
61721077 TGTGT
1 TGTGT
61721082 CCCTGTGTCT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.12, G:0.35, T:0.28
Consensus pattern (19 bp):
TGTGTTGAAGACACACGAG
Found at i:61727567 original size:49 final size:50
Alignment explanation
Indices: 61727495--61727617 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 50
61727485 GTAGACAAGG
* * *
61727495 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCCAA
* *
61727544 TTATCCGGTACACGTAGTAGCCTGCACTTATTACTACACACGTGACCCAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCCAA
** * *
61727594 CCATCTGATACACGTAATAGCCTG
1 TTATCTGGTACACGTAGTAGCCTG
61727618 TGTGACAGCC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 40 0.63
50 23 0.37
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (50 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCCAA
Done.