Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 121 of 316
Found at i:38266729 original size:41 final size:41
Alignment explanation
Indices: 38266651--38266729 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
38266641 GGCTATATAT
*
38266651 GGCACTTAGTGTGTGAGGTTAAGATAGCTTCAGCTATGGAA
1 GGCACTTAGTGTGTGAGATTAAGATAGCTTCAGCTATGGAA
*
38266692 GGCACTTAGTGTGTGAGATTATA-ATAGCTTCGGCTATG
1 GGCACTTAGTGTGTGAGATTA-AGATAGCTTCAGCTATG
38266730 CGTTAGCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 34 0.97
42 1 0.03
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (41 bp):
GGCACTTAGTGTGTGAGATTAAGATAGCTTCAGCTATGGAA
Found at i:38274006 original size:40 final size:41
Alignment explanation
Indices: 38273987--38274139 Score: 127
Period size: 41 Copynumber: 3.8 Consensus size: 41
38273977 TTTGAGATAT
38273987 CTTTGGCTATATA-GAGCACTTAGTGTGCGAATTGGATTAG
1 CTTTGGCTATATATGAGCACTTAGTGTGCGAATTGGATTAG
* *
38274027 CTTTGGCTATATATGA-CACTTAGTGTGCGAGGTCGAGA-TAG
1 CTTTGGCTATATATGAGCACTTAGTGTGCGA-ATTG-GATTAG
* * ** *
38274068 CTTTGGCTATGA-AAG-GCACTTATTGTGCGAGATTATAATAG
1 CTTTGGCTAT-ATATGAGCACTTAGTGTGCGA-ATTGGATTAG
* *** *
38274109 CTTCGGCTATGCGTTAGCACTTAGTGTGCGA
1 CTTTGGCTATATATGAGCACTTAGTGTGCGA
38274140 GATATCGAGT
Statistics
Matches: 91, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
40 28 0.31
41 46 0.51
42 17 0.19
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.33
Consensus pattern (41 bp):
CTTTGGCTATATATGAGCACTTAGTGTGCGAATTGGATTAG
Found at i:38274088 original size:41 final size:40
Alignment explanation
Indices: 38273980--38274100 Score: 129
Period size: 41 Copynumber: 3.0 Consensus size: 40
38273970 TGTGCGTTTT
* * *
38273980 GAGATATCTTTGGCTATATAGAGCACTTAGTGTGCGA-ATT
1 GAGATAGCTTTGGCTATAAAG-GCACTTAGTGTGCGAGATC
* * *
38274020 G-GATTAGCTTTGGCTATATATGACACTTAGTGTGCGAGGTC
1 GAGA-TAGCTTTGGCTATA-AAGGCACTTAGTGTGCGAGATC
*
38274061 GAGATAGCTTTGGCTATGAAAGGCACTTATTGTGCGAGAT
1 GAGATAGCTTTGGCTAT-AAAGGCACTTAGTGTGCGAGAT
38274101 TATAATAGCT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
39 2 0.03
40 28 0.42
41 33 0.50
42 3 0.05
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (40 bp):
GAGATAGCTTTGGCTATAAAGGCACTTAGTGTGCGAGATC
Found at i:38280863 original size:49 final size:49
Alignment explanation
Indices: 38280692--38280866 Score: 142
Period size: 49 Copynumber: 3.6 Consensus size: 49
38280682 AAATGCCGAC
* * ** * *
38280692 GCCATGTCCCAGACATGGTCTTACATTGACTAGCACAT-T-GAAGTCGAT
1 GCCATGTCCTAGACA-GGTCTTACACTGACTCTCATATATCGAGGTCGAT
* * * *
38280740 GCCGTATCCTAGACAGGCCTTACACTGACTTTCATATATCGAGG-CTGAT
1 GCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAGGTC-GAT
* * * * *
38280789 GCCATGTCCCAAACAAGTCTTACACTGGCTCTCATCTATCG-GTGTCGAT
1 GCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAG-GTCGAT
* *
38280838 GCCATGTCTTAGACAGGTCTAACACTGAC
1 GCCATGTCCTAGACAGGTCTTACACTGAC
38280867 ACACAACAAG
Statistics
Matches: 98, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
47 17 0.17
48 15 0.15
49 65 0.66
50 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (49 bp):
GCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAGGTCGAT
Found at i:38281543 original size:30 final size:30
Alignment explanation
Indices: 38281494--38281550 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
38281484 TAATTCACAA
* *
38281494 TTTAGAAAAATGACTATTTTACCCTTAGAC
1 TTTACAAAAATGACGATTTTACCCTTAGAC
* *
38281524 TTTACAAAAATTACGATTTTGCCCTTA
1 TTTACAAAAATGACGATTTTACCCTTA
38281551 TGCTTGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.39
Consensus pattern (30 bp):
TTTACAAAAATGACGATTTTACCCTTAGAC
Found at i:38284003 original size:43 final size:42
Alignment explanation
Indices: 38283830--38284003 Score: 128
Period size: 43 Copynumber: 4.1 Consensus size: 42
38283820 CAATGCCGAC
* *
38283830 GTCCCAGACGTGGTCTTACATGTAAAAA-AATATCGATGCC-ACT
1 GTCCCAGACATGGTCTTACA--CAAAAACAATATCGATGCCTA-T
* * * *
38283873 GTCCCAGAGAAGGTCTTACACAAAATCAA-ATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACAAAAACAATAT-CGATGCCTAT
* * *
38283915 GTTCCAGACAT-G-CTTACACGTAAAATCAAAAGTCGATG-CTAAT
1 GTCCCAGACATGGTCTTACAC--AAAAACAATA-TCGATGCCT-AT
38283958 GTCCCAGACATGGTCTTACACAAAAACACATATCGGAT-CCTAT
1 GTCCCAGACATGGTCTTACACAAAAACA-ATATC-GATGCCTAT
38284001 GTC
1 GTC
38284004 ATGACATATG
Statistics
Matches: 106, Mismatches: 12, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
40 7 0.07
41 7 0.07
42 27 0.25
43 49 0.46
44 9 0.08
45 7 0.07
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACAAAAACAATATCGATGCCTAT
Found at i:38289251 original size:31 final size:31
Alignment explanation
Indices: 38289213--38289276 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
38289203 AATAGAAAAA
* *
38289213 CCCTAAACTTTTAACAGTTTTGTAAATTAGT
1 CCCTAAACCTTTAACAGTTTTGAAAATTAGT
38289244 CCCTAAACCTTTAACAGTTTTGAAAATTAGT
1 CCCTAAACCTTTAACAGTTTTGAAAATTAGT
38289275 CC
1 CC
38289277 TTGAGCCAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (31 bp):
CCCTAAACCTTTAACAGTTTTGAAAATTAGT
Found at i:38291521 original size:13 final size:13
Alignment explanation
Indices: 38291503--38291529 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38291493 AAAGTAATCG
38291503 CACATGGGCGTGT
1 CACATGGGCGTGT
38291516 CACATGGGCGTGT
1 CACATGGGCGTGT
38291529 C
1 C
38291530 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.22
Consensus pattern (13 bp):
CACATGGGCGTGT
Found at i:38295325 original size:18 final size:18
Alignment explanation
Indices: 38295302--38295338 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
38295292 AAGAGAGCTA
38295302 CAAGACATTATGATGTAG
1 CAAGACATTATGATGTAG
38295320 CAAGACATTATGATGTAG
1 CAAGACATTATGATGTAG
38295338 C
1 C
38295339 TAGGTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (18 bp):
CAAGACATTATGATGTAG
Found at i:38295781 original size:23 final size:24
Alignment explanation
Indices: 38295755--38295804 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
38295745 CCTATACTTG
38295755 TGATGTATGAAATGTA-GTGAAAA
1 TGATGTATGAAATGTATGTGAAAA
* * * *
38295778 TGATTTGTGATATGTATGTTAAAA
1 TGATGTATGAAATGTATGTGAAAA
38295802 TGA
1 TGA
38295805 GGTTAATACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (24 bp):
TGATGTATGAAATGTATGTGAAAA
Found at i:38304306 original size:47 final size:47
Alignment explanation
Indices: 38304237--38304330 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
38304227 GCTGAAATTT
38304237 TATTTGGATCAACTCGGATGCCTTCTGCTAAAATAATATGTCCCAAA
1 TATTTGGATCAACTCGGATGCCTTCTGCTAAAATAATATGTCCCAAA
38304284 TATTTGGATCAACTCGGATGCCTTCTGCTAAAATAATATGTCCCAAA
1 TATTTGGATCAACTCGGATGCCTTCTGCTAAAATAATATGTCCCAAA
38304331 AATCTAACTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (47 bp):
TATTTGGATCAACTCGGATGCCTTCTGCTAAAATAATATGTCCCAAA
Found at i:38310034 original size:12 final size:12
Alignment explanation
Indices: 38310014--38310052 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
38310004 GGCCACATAC
*
38310014 GGCCATGTGCCA
1 GGCCGTGTGCCA
38310026 GGCCGTGTGCCA
1 GGCCGTGTGCCA
*
38310038 GGCCGTGTGCTA
1 GGCCGTGTGCCA
38310050 GGC
1 GGC
38310053 TGTGCCAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.10, C:0.31, G:0.41, T:0.18
Consensus pattern (12 bp):
GGCCGTGTGCCA
Found at i:38310041 original size:24 final size:22
Alignment explanation
Indices: 38310014--38310059 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
38310004 GGCCACATAC
38310014 GGCCATGTGCCAGGCCGTGTGCCA
1 GGCCATGTGCCAGG-C-TGTGCCA
* *
38310038 GGCCGTGTGCTAGGCTGTGCCA
1 GGCCATGTGCCAGGCTGTGCCA
38310060 AACCGATAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.11, C:0.30, G:0.39, T:0.20
Consensus pattern (22 bp):
GGCCATGTGCCAGGCTGTGCCA
Found at i:38310475 original size:23 final size:23
Alignment explanation
Indices: 38310449--38310495 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
38310439 ACTTAACTAG
*
38310449 TTAATTTCATATATGGACTTTCT
1 TTAATTTCATATATGCACTTTCT
38310472 TTAATTTCATATATGCACTTTCT
1 TTAATTTCATATATGCACTTTCT
38310495 T
1 T
38310496 ACCGAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (23 bp):
TTAATTTCATATATGCACTTTCT
Found at i:38318049 original size:29 final size:32
Alignment explanation
Indices: 38317981--38318071 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 32
38317971 ATTTTAAAAT
* *
38317981 TATACA-AGAATTTTAATTTAAAGTGTAATTATA
1 TATACATAAAATTTTAATTT-TA-TGTAATTATA
*
38318014 TATACAT-AAATTTTGATTTTATGTAATT-T-
1 TATACATAAAATTTTAATTTTATGTAATTATA
*
38318043 TATACATAAAATTTTAATTTTATTTAATT
1 TATACATAAAATTTTAATTTTATGTAATT
38318072 CTCGAAATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 7 0.14
30 20 0.39
31 7 0.14
32 1 0.02
33 16 0.31
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (32 bp):
TATACATAAAATTTTAATTTTATGTAATTATA
Found at i:38319251 original size:20 final size:19
Alignment explanation
Indices: 38319226--38319264 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
38319216 AACCATAAAG
*
38319226 AATTTAGCAACTTTTTAAGA
1 AATTTAACAA-TTTTTAAGA
*
38319246 AATTTAATAATTTTTAAGA
1 AATTTAACAATTTTTAAGA
38319265 GATTCTGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (19 bp):
AATTTAACAATTTTTAAGA
Found at i:38319848 original size:14 final size:14
Alignment explanation
Indices: 38319826--38319857 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
38319816 TCCAATCACC
38319826 GGGCAAGTTTGGTT
1 GGGCAAGTTTGGTT
*
38319840 GGGCCAGTTTGGTT
1 GGGCAAGTTTGGTT
38319854 GGGC
1 GGGC
38319858 TAAATGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.12, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCAAGTTTGGTT
Found at i:38324973 original size:14 final size:14
Alignment explanation
Indices: 38324951--38324982 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
38324941 TCCAATCACC
38324951 GGGCAAGTTTGGTT
1 GGGCAAGTTTGGTT
*
38324965 GGGCCAGTTTGGTT
1 GGGCAAGTTTGGTT
38324979 GGGC
1 GGGC
38324983 TAAATGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.12, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCAAGTTTGGTT
Found at i:38346302 original size:34 final size:34
Alignment explanation
Indices: 38346259--38346332 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
38346249 ATATGGATCT
38346259 CTGATACTG-TACTGAAATGGGGCTAAGGCCCACA
1 CTGATACTGTTACTGAAAT-GGGCTAAGGCCCACA
*
38346293 CTGATACTGTTACTGTAATGGGCTAAGGCCCACA
1 CTGATACTGTTACTGAAATGGGCTAAGGCCCACA
38346327 CTGATA
1 CTGATA
38346333 TTGCCATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 30 0.79
35 8 0.21
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (34 bp):
CTGATACTGTTACTGAAATGGGCTAAGGCCCACA
Found at i:38346350 original size:34 final size:34
Alignment explanation
Indices: 38346278--38346363 Score: 100
Period size: 34 Copynumber: 2.5 Consensus size: 34
38346268 TACTGAAATG
** ** *
38346278 GGGCTAAGGCCCACACTGATACTGTTACTGTAAT
1 GGGCTAAGGCCCACACTGATACTGCCACTAAAAA
* *
38346312 GGGCTAAGGCCCACACTGATATTGCCATTAAAAA
1 GGGCTAAGGCCCACACTGATACTGCCACTAAAAA
*
38346346 GGGCTAAGGCCCAGACTG
1 GGGCTAAGGCCCACACTG
38346364 TTTTGTACTA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
GGGCTAAGGCCCACACTGATACTGCCACTAAAAA
Found at i:38354717 original size:32 final size:32
Alignment explanation
Indices: 38354681--38354751 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
38354671 ATCATTGCTG
38354681 CTGTTTCCTAACTATTCCATGGCCAACTCTAA
1 CTGTTTCCTAACTATTCCATGGCCAACTCTAA
* *
38354713 CTGTTTCCTAACTGTTCCATGGCCAACTCTTA
1 CTGTTTCCTAACTATTCCATGGCCAACTCTAA
*
38354745 CTCTTTC
1 CTGTTTC
38354752 ATACTTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.20, C:0.32, G:0.10, T:0.38
Consensus pattern (32 bp):
CTGTTTCCTAACTATTCCATGGCCAACTCTAA
Found at i:38355285 original size:53 final size:53
Alignment explanation
Indices: 38355217--38355423 Score: 216
Period size: 53 Copynumber: 3.8 Consensus size: 53
38355207 TTCCTTTGTA
* * *
38355217 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * * *
38355270 AACTCACCATTGCCATGCCTTGGCATGGTTTTACATGGGATCTTTGCCTTATTG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-TG
** * * * * * *
38355324 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* *
38355379 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
38355424 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 44 0.36
54 40 0.33
55 38 0.31
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:38356400 original size:37 final size:37
Alignment explanation
Indices: 38356358--38356433 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
38356348 TGAAAACCTA
38356358 ATGATCTAATTACCATTTAAGGACCTCTACTTTAATT
1 ATGATCTAATTACCATTTAAGGACCTCTACTTTAATT
*
38356395 ATGATCTAATTTCCATTTAAGGACCTCTACTTTAATT
1 ATGATCTAATTACCATTTAAGGACCTCTACTTTAATT
38356432 AT
1 AT
38356434 ACTCATTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (37 bp):
ATGATCTAATTACCATTTAAGGACCTCTACTTTAATT
Found at i:38357442 original size:124 final size:123
Alignment explanation
Indices: 38357222--38357458 Score: 429
Period size: 124 Copynumber: 1.9 Consensus size: 123
38357212 CTCGATTTTC
* * *
38357222 AAAAGACAAATGATTTTCAACTACCACGTTTCGCAACTTGTTTTAAAAGCTTTTGCAATGAACAA
1 AAAAGACAAATGATTTTCAACTACCACGTTCCGCAACTCGTTTTAAAAGCTTTTGCAATGAAAAA
*
38357287 TGTTTTTAAAATGTAATAACAACTTATTATGACACTTGTTTTGCTAAAAAAAAACCTTT
66 TGTTTTTAAAATGTAATAACAACTTAGTATGACACTTGTTTTGC-AAAAAAAAACCTTT
38357346 AAAAGACAAATGATTTTCAACTACCACGTTCCGCAACTCGTTTTAAAAGCTTTTGCAATGAAAAA
1 AAAAGACAAATGATTTTCAACTACCACGTTCCGCAACTCGTTTTAAAAGCTTTTGCAATGAAAAA
38357411 TGTTTTTAAAATGTAATAACAACTTAGTATGACACTTGTTTTGCAAAA
66 TGTTTTTAAAATGTAATAACAACTTAGTATGACACTTGTTTTGCAAAA
38357459 CAAACCTGTA
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
123 4 0.04
124 105 0.96
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (123 bp):
AAAAGACAAATGATTTTCAACTACCACGTTCCGCAACTCGTTTTAAAAGCTTTTGCAATGAAAAA
TGTTTTTAAAATGTAATAACAACTTAGTATGACACTTGTTTTGCAAAAAAAAACCTTT
Found at i:38364499 original size:28 final size:28
Alignment explanation
Indices: 38364431--38364640 Score: 323
Period size: 28 Copynumber: 7.5 Consensus size: 28
38364421 CATGAGATTG
* * * *
38364431 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
38364460 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
38364488 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
38364516 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
38364544 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
38364572 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
38364600 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
38364627 ACACTGAGTGTGCG
1 GCACTAAGTGTGCG
38364641 GACTTAATAT
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
27 23 0.13
28 130 0.76
29 18 0.11
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:38367563 original size:15 final size:15
Alignment explanation
Indices: 38367539--38367568 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38367529 CTAATGTATT
38367539 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
38367554 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
38367569 ACAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:38390145 original size:20 final size:22
Alignment explanation
Indices: 38390116--38390159 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
38390106 TTGCCTGTAC
38390116 TTAGGTACATT-TAGTT-GTATT
1 TTAGGTACATTCTA-TTAGTATT
38390137 TTAGG-ACATTCTATTAGTATT
1 TTAGGTACATTCTATTAGTATT
38390158 TT
1 TT
38390160 TCTTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.52
Consensus pattern (22 bp):
TTAGGTACATTCTATTAGTATT
Found at i:38391116 original size:27 final size:27
Alignment explanation
Indices: 38391066--38391117 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
38391056 AGCTGCTAGA
*
38391066 AACAGTAAATGTGGCAAAGCCACCAAT
1 AACAGTAAATGTGACAAAGCCACCAAT
* * *
38391093 AACAGTGAATGTGACATAGTCACCA
1 AACAGTAAATGTGACAAAGCCACCA
38391118 GTATAGTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.17
Consensus pattern (27 bp):
AACAGTAAATGTGACAAAGCCACCAAT
Found at i:38391401 original size:26 final size:26
Alignment explanation
Indices: 38391261--38391488 Score: 213
Period size: 27 Copynumber: 8.5 Consensus size: 26
38391251 GAGCATAATT
* **
38391261 GTCATTTTACCATACAAGAATATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
* ** *
38391288 ATCATTTTATCCTACAGGGACATTACA
1 GTCATTTTA-CCTACAGGGGTATTACG
*
38391315 GTCATTTTACCCTACAGGGATATTACG
1 GTCATTTTA-CCTACAGGGGTATTACG
*
38391342 GTCATTTTACACTACAGGGGCATTACG
1 GTCATTTTAC-CTACAGGGGTATTACG
* * *
38391369 GTCATTTTACTTATAGAGGTATTACG
1 GTCATTTTACCTACAGGGGTATTACG
* *
38391395 GTAATTTTACCCTACAGGGGTGTTACG
1 GTCATTTTA-CCTACAGGGGTATTACG
* *
38391422 GTCATTTTACCCCACAGGGGTATTACA
1 GTCATTTTA-CCTACAGGGGTATTACG
* * * *
38391449 ATCATTTTACCTTATAAGGGCATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
38391476 GTCATTTTACCTA
1 GTCATTTTACCTA
38391489 TTTTGGGGTT
Statistics
Matches: 166, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
26 25 0.15
27 139 0.84
28 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:38391421 original size:80 final size:81
Alignment explanation
Indices: 38391282--38391486 Score: 247
Period size: 80 Copynumber: 2.5 Consensus size: 81
38391272 ATACAAGAAT
* * *
38391282 ATTACGATCATTTTATCC-TA-CAGGGACATTACAGTCATTTTACCCTACAGGGATATTACGGTC
1 ATTACAATCATTTTA-CCTTATAAGGG-CATTACGGTCATTTTACCCTACAGGGATATTACGGTC
*
38391345 ATTTTACACTACAGGGGC
64 ATTTTACACCACAGGGGC
** * * * *
38391363 ATTACGGTCATTTTA-CTTAT-AGAGGTATTACGGTAATTTTACCCTACAGGGGTGTTACGGTCA
1 ATTACAATCATTTTACCTTATAAG-GGCATTACGGTCATTTTACCCTACAGGGATATTACGGTCA
* *
38391426 TTTTACCCCACAGGGGT
65 TTTTACACCACAGGGGC
38391443 ATTACAATCATTTTACCTTATAAGGGCATTACGGTCATTTTACC
1 ATTACAATCATTTTACCTTATAAGGGCATTACGGTCATTTTACC
38391487 TATTTTGGGG
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
79 1 0.01
80 64 0.60
81 39 0.37
82 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (81 bp):
ATTACAATCATTTTACCTTATAAGGGCATTACGGTCATTTTACCCTACAGGGATATTACGGTCAT
TTTACACCACAGGGGC
Found at i:38391426 original size:107 final size:107
Alignment explanation
Indices: 38391281--38391485 Score: 277
Period size: 107 Copynumber: 1.9 Consensus size: 107
38391271 CATACAAGAA
* * * **
38391281 TATTACGATCATTTTATCCTACAGGGACATTACAGTCATTTTACCCTACAGGGATATTACGGTCA
1 TATTACGATAATTTTACCCTACAGGGACATTACAGTCATTTTACCCCACAGGGATATTACAATCA
*
38391346 TTTTACAC-TACAGGGGCATTACGGTCATTTTACTTATAGAGG
66 TTTTAC-CTTACAAGGGCATTACGGTCATTTTACTTATAGAGG
* *** * *
38391388 TATTACGGTAATTTTACCCTACAGGGGTGTTACGGTCATTTTACCCCACAGGGGTATTACAATCA
1 TATTACGATAATTTTACCCTACAGGGACATTACAGTCATTTTACCCCACAGGGATATTACAATCA
*
38391453 TTTTACCTTATAAGGGCATTACGGTCATTTTAC
66 TTTTACCTTACAAGGGCATTACGGTCATTTTAC
38391486 CTATTTTGGG
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
106 1 0.01
107 83 0.99
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (107 bp):
TATTACGATAATTTTACCCTACAGGGACATTACAGTCATTTTACCCCACAGGGATATTACAATCA
TTTTACCTTACAAGGGCATTACGGTCATTTTACTTATAGAGG
Found at i:38391764 original size:132 final size:132
Alignment explanation
Indices: 38391527--38391785 Score: 464
Period size: 132 Copynumber: 2.0 Consensus size: 132
38391517 CCTCCGAAGG
38391527 TCTACAATCGCCTCGAACGACACAGATAACCAAAATGATCATAACGGTGTAAATAGGCCCAAGGC
1 TCTACAATCGCCTCGAACGACACAGATAACCAAAATGATCATAACGGTGTAAATAGGCCCAAGGC
*
38391592 CCATTACTCGGCCCAAGTGGGCCCACACGCTCGTGTGGCCCATTTAGCCCAAATTTAGTTACAAA
66 CCATTACTCGGCCCAAGTGGGCCCACACGCTCGTGTGGCCCATTTAGCCCAAATTTACTTACAAA
38391657 GT
131 GT
* * * * *
38391659 TCTACAATCGCCTCGAATGATACAGATAACCTAAATGATCATAACGGTGTAAATGGGCCCGAGGC
1 TCTACAATCGCCTCGAACGACACAGATAACCAAAATGATCATAACGGTGTAAATAGGCCCAAGGC
38391724 CCATTACTCGGCCCAAGTGGGCCCACACGCTCGTGTGGCCCATTTAGCCCAAATTTACTTAC
66 CCATTACTCGGCCCAAGTGGGCCCACACGCTCGTGTGGCCCATTTAGCCCAAATTTACTTAC
38391786 GGCTATGTGA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 121 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (132 bp):
TCTACAATCGCCTCGAACGACACAGATAACCAAAATGATCATAACGGTGTAAATAGGCCCAAGGC
CCATTACTCGGCCCAAGTGGGCCCACACGCTCGTGTGGCCCATTTAGCCCAAATTTACTTACAAA
GT
Found at i:38394955 original size:39 final size:39
Alignment explanation
Indices: 38394912--38395040 Score: 204
Period size: 39 Copynumber: 3.3 Consensus size: 39
38394902 CTTTAACCCA
* ** *
38394912 GATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
*
38394951 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTTCG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
*
38394990 GATATATTTCCAGCATATAGCCTGCGGACCTTATGTCCG
1 GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
38395029 GATATATTTCCA
1 GATATATTTCCA
38395041 ATCTCATATA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (39 bp):
GATATATTTCCAGCATATAGCCTGCGGACCTCATGTCCG
Found at i:38402608 original size:80 final size:80
Alignment explanation
Indices: 38402467--38402691 Score: 296
Period size: 80 Copynumber: 2.8 Consensus size: 80
38402457 TTGAATGCTG
* * * * * * *
38402467 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CTGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
38402529 TTGTGCGAGTTACTAAA
64 TTGTGCGAGTTACTAAA
* * *
38402546 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
38402610 TGTGCGAGTTACTAAA
65 TGTGCGAGTTACTAAA
*
38402626 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
38402691 G
66 G
38402692 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 21 0.17
80 97 0.76
81 9 0.07
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:38402705 original size:40 final size:40
Alignment explanation
Indices: 38402521--38402691 Score: 290
Period size: 40 Copynumber: 4.3 Consensus size: 40
38402511 ACTAAGATCT
*
38402521 GAAGGCATTTGTGCGAGTTACTAAATCTGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
38402561 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
38402601 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* * *
38402641 GAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCC
38402681 GAAGGCATTTG
1 GAAGGCATTTG
38402692 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 124 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
Found at i:38402709 original size:80 final size:80
Alignment explanation
Indices: 38402467--38402724 Score: 260
Period size: 80 Copynumber: 3.2 Consensus size: 80
38402457 TTGAATGCTG
* * * * *
38402467 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CTGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
** *
38402528 TTTGTGCGAGTTACTAAA
63 TTTGAACGAGTGACTAAA
* * *
38402546 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
38402611 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
*
38402626 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
38402690 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
38402706 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38402725 TACGTGATTT
Statistics
Matches: 155, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
79 35 0.23
80 109 0.70
81 11 0.07
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:38424542 original size:25 final size:25
Alignment explanation
Indices: 38424508--38424557 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
38424498 TGGCTTGTGC
*
38424508 TGCAGCATGCTGGCTCA-CTTCATCA
1 TGCAGCATGCTAGC-CATCTTCATCA
38424533 TGCAGCATGCTAGCCATCTTCATCA
1 TGCAGCATGCTAGCCATCTTCATCA
38424558 CTCCTCCTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (25 bp):
TGCAGCATGCTAGCCATCTTCATCA
Found at i:38428806 original size:25 final size:25
Alignment explanation
Indices: 38428772--38428821 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
38428762 TGGCTTGTGC
*
38428772 TGCAGCATGCTGGCTCA-CTTCATCA
1 TGCAGCATGCTAGC-CATCTTCATCA
38428797 TGCAGCATGCTAGCCATCTTCATCA
1 TGCAGCATGCTAGCCATCTTCATCA
38428822 ATAATATGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (25 bp):
TGCAGCATGCTAGCCATCTTCATCA
Found at i:38430459 original size:16 final size:16
Alignment explanation
Indices: 38430435--38430475 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
38430425 AAAATACAGT
*
38430435 CCGTATTTTTAGAAAA
1 CCGTATTTTCAGAAAA
* *
38430451 CCTTATTTTCATAAAA
1 CCGTATTTTCAGAAAA
38430467 CCGTATTTT
1 CCGTATTTT
38430476 AGACACGCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (16 bp):
CCGTATTTTCAGAAAA
Found at i:38433622 original size:26 final size:27
Alignment explanation
Indices: 38433545--38433693 Score: 230
Period size: 27 Copynumber: 5.6 Consensus size: 27
38433535 TTATTAAGTC
* *
38433545 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
38433572 CGCACACTTAGTGCTACATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
38433599 CGCACACTTA-TGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
38433625 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
38433653 CGCACACTTAGTGCTACAT-ATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
38433679 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38433694 GCACAATTTA
Statistics
Matches: 115, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
26 43 0.37
27 49 0.43
28 23 0.20
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38441594 original size:28 final size:27
Alignment explanation
Indices: 38441531--38441682 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
38441521 TTATTAAGTC
* *
38441531 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
38441558 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
38441586 CGCACACTTACTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
38441613 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
38441641 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
38441668 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38441683 GCACAATTTA
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 65 0.56
28 51 0.44
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38441615 original size:55 final size:55
Alignment explanation
Indices: 38441531--38441707 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
38441521 TTATTAAGTC
* *
38441531 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * *
38441586 CGCACACTTACTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
38441641 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
38441697 CGCACACTTAG
1 CGCACACTTAG
38441708 CGCCAATCTC
Statistics
Matches: 108, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
55 92 0.85
56 16 0.15
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:38454438 original size:23 final size:22
Alignment explanation
Indices: 38454391--38454452 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
38454381 ATCGCAGCGT
38454391 AGCTGCTAATAGTAATCCAGCAA
1 AGCTGCTAATAGTAA-CCAGCAA
* *
38454414 AGCTGCTAATAGTAACGTAGTAA
1 AGCTGCTAATAGTAAC-CAGCAA
* *
38454437 AGCTACAAATAGTAAC
1 AGCTGCTAATAGTAAC
38454453 ACAACAAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 1 0.03
23 33 0.97
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.23
Consensus pattern (22 bp):
AGCTGCTAATAGTAACCAGCAA
Found at i:38462825 original size:20 final size:20
Alignment explanation
Indices: 38462796--38462840 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
38462786 AGCACATGTA
*
38462796 TTCATAAAATTTTAAAATTT
1 TTCATAAAATTTTAAAACTT
* *
38462816 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTAAAACTT
38462836 TTCAT
1 TTCAT
38462841 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTAAAACTT
Found at i:38465993 original size:46 final size:46
Alignment explanation
Indices: 38465925--38466061 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
38465915 TATATATACA
* * * *
38465925 CATCTCATACATATCTCACATTAGCGATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
38465971 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
38466017 TATCTCATACACATTTCTCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
38466062 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:38466096 original size:47 final size:47
Alignment explanation
Indices: 38466035--38466323 Score: 380
Period size: 47 Copynumber: 6.1 Consensus size: 47
38466025 ACACATTTCT
* * *
38466035 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCCTCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
38466082 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* **
38466129 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * **
38466176 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
*
38466223 CATTGGCCATTCGGCCTTATCGCACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATACATGTTCACATTCATCA
* * * **
38466274 CATTTGCCATTCGGCCTGATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
38466321 CAT
1 CAT
38466324 AAAATCCTAA
Statistics
Matches: 219, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
47 176 0.80
49 5 0.02
51 38 0.17
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:38466176 original size:25 final size:25
Alignment explanation
Indices: 38466147--38466224 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 25
38466137 ATTCGGCCTT
38466147 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
** ** *
38466172 AT--CACATTGGCCAT-TTGGCCTT-
1 ATCACACATACG-CATGTTCACATTC
38466194 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
38466219 ATCACA
1 ATCACA
38466225 TTGGCCATTC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 2 0.05
23 14 0.37
24 14 0.37
25 8 0.21
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.29
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:38468006 original size:27 final size:27
Alignment explanation
Indices: 38467976--38468153 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38467966 ATATTGAGTC
* * * *
38467976 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38468003 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38468030 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38468058 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38468085 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38468112 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38468139 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38468154 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38468115 original size:82 final size:81
Alignment explanation
Indices: 38467997--38468152 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38467987 TGCTATATAA
* *
38467997 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38468062 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38468079 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38468143 CACTTAGTGC
65 CACTTAGTGC
38468153 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38476187 original size:27 final size:27
Alignment explanation
Indices: 38476157--38476335 Score: 144
Period size: 27 Copynumber: 6.6 Consensus size: 27
38476147 TATATTGAGT
* *
38476157 CCGCACACTCAGTGCTATATAATCAAC
1 CCGCACACTTAGTGCTACATAATCAAC
* *
38476184 CCGCACACTTAGTGCTACGTAATCAAA
1 CCGCACACTTAGTGCTACATAATCAAC
* *
38476211 TCGCACACTTAGTGCTACATAGTCAAAC
1 CCGCACACTTAGTGCTACATAATC-AAC
* ** ** *
38476239 TCGCACACTTAGTGCCGCATGGTCAAT
1 CCGCACACTTAGTGCTACATAATCAAC
* * **
38476266 TCGCACACTTAGTGC-ATCATATTCATT
1 CCGCACACTTAGTGCTA-CATAATCAAC
* * * *
38476293 TCGCACACTTAGTGCAACATAGTCAAA
1 CCGCACACTTAGTGCTACATAATCAAC
*
38476320 TCGCACACTTAGTGCT
1 CCGCACACTTAGTGCT
38476336 GTACAATTTA
Statistics
Matches: 129, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CCGCACACTTAGTGCTACATAATCAAC
Found at i:38476297 original size:82 final size:81
Alignment explanation
Indices: 38476185--38476334 Score: 230
Period size: 82 Copynumber: 1.8 Consensus size: 81
38476175 ATAATCAACC
* *
38476185 CGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTTA
38476250 GTGCCGCATGGTCAATT
65 GTGCCGCATGGTCAATT
* **
38476267 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 CGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
38476331 GTGC
65 GTGC
38476335 TGTACAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
CGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAG
TGCCGCATGGTCAATT
Found at i:38481848 original size:25 final size:25
Alignment explanation
Indices: 38481812--38481860 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
38481802 TAAAGAATTC
38481812 GCACACACAGTGCCTCA-ATTCATTT
1 GCACACACAGTGCCT-ATATTCATTT
*
38481837 GCACACATAGTGCCTATATTCATT
1 GCACACACAGTGCCTATATTCATT
38481861 CGTTATTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (25 bp):
GCACACACAGTGCCTATATTCATTT
Found at i:38482092 original size:40 final size:40
Alignment explanation
Indices: 38482031--38482424 Score: 680
Period size: 40 Copynumber: 9.8 Consensus size: 40
38482021 CACATCACCG
* * * *
38482031 GCACGAATGCCCTTCAGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
*
38482071 GCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
38482111 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
*
38482151 GCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
38482191 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
* *
38482231 GCACGAATGCTGTTCGAGACTTAGCCCGGATATAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
*
38482271 GCACGAATGCTCTTCGGGACTTAGCTCGGATATAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
*
38482311 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
*
38482351 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
*
38482391 GCACGAATGCTCTTTGGGACTTAGCCCGGATATA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATA
38482425 TAACTCTCAA
Statistics
Matches: 337, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 337 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
Found at i:38482335 original size:23 final size:23
Alignment explanation
Indices: 38482309--38482375 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
38482299 GATATAACAC
38482309 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * **
38482332 TAGCCCGGATG-T-AAC---AC-
1 TAGCACGAATGCTCTTCGGGACT
38482349 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
38482372 TAGC
1 TAGC
38482376 CCGGATGTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 9 0.30
18 3 0.10
19 1 0.03
21 1 0.03
22 3 0.10
23 13 0.43
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:38483975 original size:46 final size:46
Alignment explanation
Indices: 38483922--38484058 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
38483912 TATATATACA
* * *
38483922 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
38483968 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* ** *
38484014 TATCTCATACACATTTCTTATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
38484059 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:38484093 original size:47 final size:47
Alignment explanation
Indices: 38484037--38484273 Score: 330
Period size: 47 Copynumber: 5.0 Consensus size: 47
38484027 TTTCTTATTA
* *
38484037 GCCATTCGGCCTTACCACATATATACATGTTCACATTCCTCACATTG
1 GCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTG
* *
38484084 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTG
* **
38484131 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTG
* *
38484178 GCCATTCGGCCTTATCACACATATATATACTGGTTCACATTCATCACATTT
1 GCCATTCGGCCTTAT--CACATATATACA-T-GTTCACATTCATCACATTG
* **
38484229 GCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACAT
38484274 AAAATCCTAA
Statistics
Matches: 170, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 118 0.69
49 18 0.11
50 1 0.01
51 33 0.19
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTG
Found at i:38488162 original size:47 final size:47
Alignment explanation
Indices: 38488108--38488301 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
38488098 TTTAGGATTT
** * *
38488108 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
38488155 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
38488202 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
38488249 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
38488296 ATGTGA
1 ATGTGA
38488302 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:38488208 original size:22 final size:22
Alignment explanation
Indices: 38488137--38488208 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
38488127 GTATATATGA
38488137 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
38488159 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
38488184 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
38488206 GAT
1 GAT
38488209 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:38488257 original size:25 final size:25
Alignment explanation
Indices: 38488182--38488257 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
38488172 ATGCATATAT
38488182 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
38488207 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
38488229 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
38488254 GTGA
1 GTGA
38488258 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:38488335 original size:48 final size:48
Alignment explanation
Indices: 38488272--38488406 Score: 218
Period size: 49 Copynumber: 2.8 Consensus size: 48
38488262 GAACATGCAT
38488272 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
* *
38488320 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATTATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAATA-TGTATGAGATATGC
*
38488369 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
38488407 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
47 1 0.01
48 35 0.44
49 43 0.54
50 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:38488660 original size:37 final size:37
Alignment explanation
Indices: 38488552--38488660 Score: 166
Period size: 37 Copynumber: 2.9 Consensus size: 37
38488542 GGAAATATAT
* *
38488552 TCCGGGTAAGACCTGATGACTAT-GTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACT-TCGTGTGGAGATTTTG
*
38488589 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTTTG
*
38488626 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTT
38488661 CATCTGAGCT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTTTG
Found at i:38489541 original size:20 final size:20
Alignment explanation
Indices: 38489516--38489559 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
38489506 TCGGCCATTA
38489516 TAACATATACAAATGCATAT
1 TAACATATACAAATGCATAT
38489536 TAACATATACAAATGCATAT
1 TAACATATACAAATGCATAT
38489556 TAAC
1 TAAC
38489560 CACTTTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.30
Consensus pattern (20 bp):
TAACATATACAAATGCATAT
Found at i:38496379 original size:46 final size:45
Alignment explanation
Indices: 38496311--38496425 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 45
38496301 TTATGAGAGC
* *
38496311 TAGTGTAAGACCATGTCTGGGACATTCATTGGCCTCGAGACATAAGT
1 TAGTGTAAGACCATGTCTGGGACATGCATCGG-CT-GAGACATAAGT
* * **
38496358 TAGTGTAAGA-CATGTCTGGGACATGCATCGGCTGTGAGATGTGT
1 TAGTGTAAGACCATGTCTGGGACATGCATCGGCTGAGACATAAGT
*
38496402 CAGTGTAAGACCATGTCTGGGACA
1 TAGTGTAAGACCATGTCTGGGACA
38496426 CAGCAGCGGC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
44 16 0.27
45 15 0.25
46 19 0.32
47 10 0.17
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (45 bp):
TAGTGTAAGACCATGTCTGGGACATGCATCGGCTGAGACATAAGT
Found at i:38500499 original size:16 final size:16
Alignment explanation
Indices: 38500475--38500507 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38500465 ATTATGTGGA
*
38500475 ATATCTGAATTGTTTG
1 ATATATGAATTGTTTG
38500491 ATATATGAATTGTTTG
1 ATATATGAATTGTTTG
38500507 A
1 A
38500508 GACAGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.48
Consensus pattern (16 bp):
ATATATGAATTGTTTG
Found at i:38503290 original size:93 final size:93
Alignment explanation
Indices: 38503183--38503353 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
38503173 GCCCCTAAGT
* *
38503183 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
38503248 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
38503276 GAACTCGGACTCAACTCAACGAGTTCGGACATTTTCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
38503341 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38503354 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:38503350 original size:46 final size:46
Alignment explanation
Indices: 38503178--38503350 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
38503168 AACCCGCCCC
* * * * *
38503178 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
* * *
38503224 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACATCCA
* * *
38503272 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTTCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
38503317 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38503351 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 59 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
Found at i:38503807 original size:30 final size:30
Alignment explanation
Indices: 38503773--38503832 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38503763 ATTTAATACG
38503773 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
38503803 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
38503833 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:38511794 original size:40 final size:40
Alignment explanation
Indices: 38511695--38511909 Score: 242
Period size: 40 Copynumber: 5.4 Consensus size: 40
38511685 ATGATAACCA
* *
38511695 GGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCCG
* * * * * *
38511736 GGCTAAGTCCTGATGGCATTTGTTCGATTTATTACATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
38511776 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
38511816 GGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
38511856 GGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
* *
38511894 GGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
38511910 TACTTGGCTT
Statistics
Matches: 150, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
38 15 0.10
39 15 0.10
40 98 0.65
41 19 0.13
42 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:38514453 original size:37 final size:37
Alignment explanation
Indices: 38514394--38514503 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
38514384 AGCTCAGACG
* * *
38514394 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGAAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
*
38514431 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
*
38514468 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAA
38514504 TATATTTCCA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGAAA
Found at i:38514825 original size:22 final size:22
Alignment explanation
Indices: 38514798--38514873 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
38514788 GCTCACATTC
38514798 ATCACATTGGCCACTCGGCCTT
1 ATCACATTGGCCACTCGGCCTT
* *
38514820 ATCACATATATG-CA-T-GTTCACATT
1 ATCACAT-T-GGCCACTCG-GC-C-TT
38514844 CATCACATTGGCCACTCGGCCTT
1 -ATCACATTGGCCACTCGGCCTT
38514867 ATCACAT
1 ATCACAT
38514874 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
21 1 0.02
22 16 0.39
23 7 0.17
24 7 0.17
25 9 0.22
26 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCACTCGGCCTT
Found at i:38514841 original size:47 final size:47
Alignment explanation
Indices: 38514706--38514945 Score: 331
Period size: 47 Copynumber: 5.1 Consensus size: 47
38514696 TATATATATT
* * *
38514706 TCACA-TGAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTG-GCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
38514753 CCACATTGGCCATTCGG-CTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
38514799 TCACATTGGCCACTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
38514846 TCACATTGGCCACTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
** * ** *
38514893 TCACATTGGCCATTCGGCCTTATCTTATATATTCACATTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
38514940 TCACAT
1 TCACAT
38514946 AAAATCCTAA
Statistics
Matches: 174, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
46 39 0.22
47 133 0.76
48 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:38522787 original size:9 final size:9
Alignment explanation
Indices: 38522773--38522803 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
38522763 ATGCATGTTT
38522773 TTTTATTTA
1 TTTTATTTA
38522782 TTTTATTTTA
1 TTTTA-TTTA
38522792 TTTTATTTA
1 TTTTATTTA
38522801 TTT
1 TTT
38522804 GTTAGCTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTATTTA
Found at i:38524045 original size:40 final size:40
Alignment explanation
Indices: 38523948--38524165 Score: 257
Period size: 40 Copynumber: 5.5 Consensus size: 40
38523938 TGGATGATAA
*
38523948 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-C-AGTTACTA-TAT
* *
38523989 CCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTATAT
* *
38524029 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTATAT
* *
38524069 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTATAT
* * *
38524109 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTTA-CTATAT
* *
38524148 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
38524166 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 101 0.64
41 25 0.16
42 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTTACTATAT
Found at i:38551166 original size:46 final size:46
Alignment explanation
Indices: 38551116--38551286 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
38551106 GTTGAGCATT
* *
38551116 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTC
* * *
38551162 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CGTC
* * *
38551209 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTC
* *
38551255 CGAGCTCGTTGAGATGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38551287 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.55
47 29 0.28
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACGTC
Found at i:38551275 original size:93 final size:93
Alignment explanation
Indices: 38551111--38551281 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
38551101 GGATGGTTGA
* * * *
38551111 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGA
38551176 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
38551204 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGCCCGAGCTCGTTGAGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGA
38551269 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38551282 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGA
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38551548 original size:19 final size:20
Alignment explanation
Indices: 38551511--38551548 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38551501 ATAAGGTGGT
38551511 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
38551531 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
38551549 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:38554570 original size:24 final size:25
Alignment explanation
Indices: 38554538--38554588 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 25
38554528 TTATTTGTAC
*
38554538 TTTATGTTTTCAG-TTTTTCA-TTCT
1 TTTAGGTTTT-AGATTTTTCAGTTCT
38554562 TTTAGGTTTTAGATTTTTTCAGTTCT
1 TTTAGGTTTTAGA-TTTTTCAGTTCT
38554588 T
1 T
38554589 GTTATTCGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 2 0.09
24 9 0.39
25 7 0.30
26 5 0.22
ACGTcount: A:0.14, C:0.10, G:0.12, T:0.65
Consensus pattern (25 bp):
TTTAGGTTTTAGATTTTTCAGTTCT
Found at i:38559145 original size:132 final size:132
Alignment explanation
Indices: 38558908--38559170 Score: 472
Period size: 132 Copynumber: 2.0 Consensus size: 132
38558898 TCACATAGCC
38558908 GTAACTAAATTTGGGCTAAATGGGCCACACGAGCGTGTGGGCCCACTTAGGCCGAGTAATGCGCC
1 GTAACTAAATTTGGGCTAAATGGGCCACACGAGCGTGTGGGCCCACTTAGGCCGAGTAATGCGCC
*
38558973 TTGGGCCCATTTACACCGTTATGATCATTTAGGTTATTTGTGTCGTTCGAGGCGATTGTAGACCT
66 TTGGGCCCATTTACACCGTTATGATCATTTAGGTTATTTGTGTCATTCGAGGCGATTGTAGACCT
38559038 TG
131 TG
* * * *
38559040 GTAACTAAGTTTGGGCTAAATGGGCCACGCGAGCGTGTGGGCCCACTTGGGCCGAGTAATGTGCC
1 GTAACTAAATTTGGGCTAAATGGGCCACACGAGCGTGTGGGCCCACTTAGGCCGAGTAATGCGCC
*
38559105 TTGGGCCCATTTACACCGTTATGATCATTTTGGTTATTTGTGTCATTCGAGGCGATTGTAGACCT
66 TTGGGCCCATTTACACCGTTATGATCATTTAGGTTATTTGTGTCATTCGAGGCGATTGTAGACCT
38559170 T
131 T
38559171 TGGAGGGGTC
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 125 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (132 bp):
GTAACTAAATTTGGGCTAAATGGGCCACACGAGCGTGTGGGCCCACTTAGGCCGAGTAATGCGCC
TTGGGCCCATTTACACCGTTATGATCATTTAGGTTATTTGTGTCATTCGAGGCGATTGTAGACCT
TG
Found at i:38559238 original size:27 final size:27
Alignment explanation
Indices: 38559207--38559411 Score: 241
Period size: 27 Copynumber: 7.6 Consensus size: 27
38559197 CCCCAAAATA
* *
38559207 GGTAAAATGATCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
** * *
38559234 GGTAAAATGACTATAATACCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
38559261 GGTAAAATGACCGTAACGCCCCTGTAA
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
38559288 GGTAAAATGACCGTAATACCTCTATA-
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
38559314 AGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* **
38559341 TGTAAAATGACCGTAATATCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
38559368 GGTAAAATGACCGTAATGTCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
38559395 GATTAAATGACCGTAAT
1 GGTAAAATGACCGTAAT
38559412 ATTCTTGTAT
Statistics
Matches: 152, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 22 0.14
27 130 0.86
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:38559282 original size:54 final size:54
Alignment explanation
Indices: 38559207--38559412 Score: 279
Period size: 54 Copynumber: 3.8 Consensus size: 54
38559197 CCCCAAAATA
* * **
38559207 GGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACTATAATACCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCTATAG
* * *
38559261 GGTAAAATGACCGTAACGCCCCTGTAAGGTAAAATGACCGTAATACCTCTATA-
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCTATAG
* * * *
38559314 AGTAAAATGACCGTAATGCCCCTGTAGTGTAAAATGACCGTAATATCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCTATAG
* * *
38559368 GGTAAAATGACCGTAATGTCCCTGTAGGATTAAATGACCGTAATA
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATA
38559413 TTCTTGTATG
Statistics
Matches: 132, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
53 46 0.35
54 86 0.65
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (54 bp):
GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACCGTAATACCCCTATAG
Found at i:38559403 original size:107 final size:107
Alignment explanation
Indices: 38559208--38559412 Score: 304
Period size: 107 Copynumber: 1.9 Consensus size: 107
38559198 CCCAAAATAG
* *
38559208 GTAAAATGATCGTAATGCCCCTATAGGGTAAAATGACTATAATACCCCTATAGGGTAAAATGACC
1 GTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCATAATACCCCTATAGGGTAAAATGACC
38559273 GTAACGCCCCTGTAAGGTAAAATGACCGTAATACCTCTATAA
66 GTAACGCCCCTGTAAGGTAAAATGACCGTAATACCTCTATAA
* * * * *
38559315 GTAAAATGACCGTAATGCCCCTGTAGTGTAAAATGACCGTAATATCCCTGTAGGGTAAAATGACC
1 GTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCATAATACCCCTATAGGGTAAAATGACC
* * *
38559380 GTAATGTCCCTGT-AGGATTAAATGACCGTAATA
66 GTAACGCCCCTGTAAGG-TAAAATGACCGTAATA
38559413 TTCTTGTATG
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 3 0.03
107 84 0.97
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (107 bp):
GTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCATAATACCCCTATAGGGTAAAATGACC
GTAACGCCCCTGTAAGGTAAAATGACCGTAATACCTCTATAA
Found at i:38559857 original size:33 final size:34
Alignment explanation
Indices: 38559814--38559881 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
38559804 GCCACACTAT
*
38559814 TACTGTATAGGGCGAAGGCCCAAACTG-TACTGA
1 TACTGAATAGGGCGAAGGCCCAAACTGTTACTGA
** *
38559847 TACTGAATAGGGCTCAGGCCCAGACTGTTACTGA
1 TACTGAATAGGGCGAAGGCCCAAACTGTTACTGA
38559881 T
1 T
38559882 CTGGGCTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 23 0.77
34 7 0.23
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (34 bp):
TACTGAATAGGGCGAAGGCCCAAACTGTTACTGA
Found at i:38580105 original size:13 final size:13
Alignment explanation
Indices: 38580087--38580124 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
38580077 CTTGGTAGGG
38580087 ACACGCCCGTGTA
1 ACACGCCCGTGTA
38580100 ACACGCCCGTGTA
1 ACACGCCCGTGTA
38580113 ACACGCCCGTGT
1 ACACGCCCGTGT
38580125 TCGATTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.21, C:0.39, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:38582274 original size:122 final size:122
Alignment explanation
Indices: 38582100--38582346 Score: 397
Period size: 122 Copynumber: 2.0 Consensus size: 122
38582090 TGCTTGTTAA
* ** *
38582100 TTTACAGGTTTGTTTTCCAAAACAAGTGTCATGCTAAGTTGTTATTACATTTTAAAAACATTTTT
1 TTTAAAGGTTTGTTTTCCAAAACAAGTGTCATAATAAGTTGTTATTACATTTTAAAAACATTGTT
* * *
38582165 CATTGCAAAAGCTTTTAAAACGAGTTGTGGAACATGGTAGTTGAAAATCATTTGTCT
66 CATTGCAAAAGCTTTTAAAACAAGTTGCGAAACATGGTAGTTGAAAATCATTTGTCT
*
38582222 TTTAAAGGTTT-TTTTAGCAAAACAAGTGTCATAATAAGTTGTTATTACATTTTAAAAACATTGT
1 TTTAAAGGTTTGTTTT-CCAAAACAAGTGTCATAATAAGTTGTTATTACATTTTAAAAACATTGT
*
38582286 TCATTGCAAAAGCTTTTAAAACAAGTTGCGAAACGTGGTAGTTGAAAATCATTTGTCT
65 TCATTGCAAAAGCTTTTAAAACAAGTTGCGAAACATGGTAGTTGAAAATCATTTGTCT
38582344 TTT
1 TTT
38582347 GAAAATTGAG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
121 4 0.03
122 111 0.97
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (122 bp):
TTTAAAGGTTTGTTTTCCAAAACAAGTGTCATAATAAGTTGTTATTACATTTTAAAAACATTGTT
CATTGCAAAAGCTTTTAAAACAAGTTGCGAAACATGGTAGTTGAAAATCATTTGTCT
Found at i:38583463 original size:29 final size:30
Alignment explanation
Indices: 38583404--38583461 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
38583394 TTCGAGCCTT
38583404 GGGGCAAAAGTGTAAATTTGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATTTGCAAAAGTTTA
* * *
38583434 GGGGCAAAATTGTAATTTTGCCAAAGTT
1 GGGGCAAAAGTGTAAATTTGCAAAAGTT
38583462 AGAGTTAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATTTGCAAAAGTTTA
Found at i:38592845 original size:34 final size:34
Alignment explanation
Indices: 38592797--38592867 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
38592787 TAGTGCAAAA
38592797 CAGTCTGGGCCTTAG-CCCATTACAGTAACAGTAT
1 CAGTCTGGGCCTTAGCCCCATTACAGT-ACAGTAT
* *
38592831 CAGTGTGGGCCTTAGCCCCATTTCAGTACAGTAT
1 CAGTCTGGGCCTTAGCCCCATTACAGTACAGTAT
38592865 CAG
1 CAG
38592868 AGATCTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 24 0.71
35 10 0.29
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (34 bp):
CAGTCTGGGCCTTAGCCCCATTACAGTACAGTAT
Found at i:38594758 original size:40 final size:40
Alignment explanation
Indices: 38594691--38594867 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
38594681 ACCCAAGTAT
*
38594691 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
38594730 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
38594770 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
38594810 CTTCGGGACATAGCCCGGATATGGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
38594850 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
38594868 TTATCATCCG
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 104 0.87
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:38610409 original size:27 final size:26
Alignment explanation
Indices: 38610373--38610457 Score: 125
Period size: 26 Copynumber: 3.2 Consensus size: 26
38610363 AGCATAGCTG
* *
38610373 CCAGAATAGATATTGTGATAGAGTCA
1 CCAGAATAGATATTGTGGTAGAGCCA
*
38610399 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ATAGATATTGTGGTAGAGCCA
38610426 CCAGAATAGATATTGTGGTAGAGCCA
1 CCAGAATAGATATTGTGGTAGAGCCA
*
38610452 CAAGAA
1 CCAGAA
38610458 CGCTTCCTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
26 30 0.57
27 23 0.43
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (26 bp):
CCAGAATAGATATTGTGGTAGAGCCA
Found at i:38617830 original size:37 final size:37
Alignment explanation
Indices: 38617780--38617858 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
38617770 TTATTACGAA
* *
38617780 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
38617817 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
38617854 GTCTT
1 GTCTT
38617859 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:38618186 original size:49 final size:47
Alignment explanation
Indices: 38617965--38618238 Score: 413
Period size: 47 Copynumber: 5.7 Consensus size: 47
38617955 CTGACAGGGA
* * * * * *
38617965 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38618012 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38618059 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38618106 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38618153 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38618202 CTTATCACATATATATACATGTTCACATCCATCACAT
1 CTTATCACATATATACAC-T-TTCACATTCATCACAT
38618239 AGAATCCTAA
Statistics
Matches: 209, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
47 146 0.70
48 1 0.00
49 62 0.30
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38624694 original size:40 final size:40
Alignment explanation
Indices: 38624645--38624795 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 40
38624635 CAGAATTTAA
* * *
38624645 CCGGATATAGCTACTCG-TTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGCAACTCGCAT-AAATGCCTTCGGGACATAAC
* *
38624685 CCGGTTATAGCAACTCGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAGCAACTCGCATAAATGCCTTCGGGACATAAC
* * ** * * *
38624725 CCGGATTTAGTAACTCGCACCAATGCCTTCTGG-CTTAGC
1 CCGGATATAGCAACTCGCATAAATGCCTTCGGGACATAAC
* * *
38624764 CCGGA-ATTAGTAACTAGCACAAATGCCTTCGG
1 CCGGATA-TAGCAACTCGCATAAATGCCTTCGG
38624796 ATCTTAGTCC
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 32 0.34
40 60 0.65
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCATAAATGCCTTCGGGACATAAC
Found at i:38624778 original size:39 final size:40
Alignment explanation
Indices: 38624664--38624848 Score: 164
Period size: 40 Copynumber: 4.7 Consensus size: 40
38624654 GCTACTCGTT
* * * *
38624664 CAAATGCCTTCGGGACATAGCCCGG-TTATAGCAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCA
* *
38624704 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
* * * *
38624744 CCAATGCCTTCTGG-CTTAGCCCGGAATTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
** * *
38624783 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAAT-TAGTAAC-TCGCA
*
38624824 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
38624849 CATCATTCGA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 74 0.60
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Found at i:38624788 original size:79 final size:80
Alignment explanation
Indices: 38624664--38624848 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
38624654 GCTACTCGTT
* * * * *
38624664 CAAATGCCTTCGGGACATAGCCCGG-TTATAGCAACTCGCATAAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTC-GGATCTTAACCC
* *
38624727 GGATTTAGTAAC-TCGCA
63 GGATATAGTAACTTAGCA
* * **
38624744 CCAATGCCTTCTGG-CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGG
1 -CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGATCTTAACCCGG
*
38624808 ATATAGTCACTTAGCA
65 ATATAGTAACTTAGCA
38624824 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
38624849 CATCATTCGA
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.65
80 24 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:38629359 original size:30 final size:29
Alignment explanation
Indices: 38629310--38629370 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
38629300 CAAGTAACCG
**
38629310 AAGCTAGTTAAATGGCACACTTAGTGCCA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
38629339 AAGCTAGTTTAAATCACACACTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
38629369 AA
1 AA
38629371 ACTTGACACC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:38630666 original size:18 final size:19
Alignment explanation
Indices: 38630643--38630685 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
38630633 TACACAAGCG
38630643 GGCCTACGGGGCCCATC-A
1 GGCCTACGGGGCCCATCGA
***
38630661 GGCCTATTTGGCCCATCGA
1 GGCCTACGGGGCCCATCGA
38630680 GGCCTA
1 GGCCTA
38630686 GAACAGCCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.19
Consensus pattern (19 bp):
GGCCTACGGGGCCCATCGA
Found at i:38637267 original size:23 final size:23
Alignment explanation
Indices: 38637223--38637282 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
38637213 GCAGCATAGT
* *
38637223 TGCTAATAGTAATATAGCAAAGG
1 TGCTAATAGTAACATAGCAAAGC
* *
38637246 TGCTAATAGTAACGTAGTAAAGC
1 TGCTAATAGTAACATAGCAAAGC
* *
38637269 TACAAATAGTAACA
1 TGCTAATAGTAACA
38637283 AAACAAGGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (23 bp):
TGCTAATAGTAACATAGCAAAGC
Found at i:38645462 original size:20 final size:20
Alignment explanation
Indices: 38645433--38645477 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
38645423 AGCACATGTA
*
38645433 TTCATAAAATTTTAAAATTT
1 TTCATAAAATTTTAAAACTT
* *
38645453 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTAAAACTT
38645473 TTCAT
1 TTCAT
38645478 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTAAAACTT
Found at i:38646494 original size:34 final size:34
Alignment explanation
Indices: 38646424--38646494 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
38646414 TTGGTGGCAA
* *
38646424 TATCAGTGTGGGCTTTAGCCCATTATAGTAAGAG
1 TATCAGTGTGGGCCTTAGCCCATTATAGTAACAG
38646458 TATCAGTGTGGGCCTTAGCCCCATT-TCAGT-ACAG
1 TATCAGTGTGGGCCTTAG-CCCATTAT-AGTAACAG
38646492 TAT
1 TAT
38646495 TAGAGATGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 24 0.73
35 9 0.27
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (34 bp):
TATCAGTGTGGGCCTTAGCCCATTATAGTAACAG
Found at i:38651853 original size:46 final size:46
Alignment explanation
Indices: 38651732--38651843 Score: 151
Period size: 46 Copynumber: 2.5 Consensus size: 46
38651722 TATGAGAGCC
*
38651732 AGTGTAAGACCATGTCTGGGACATTCATCGGCCTCGAGACGTAAGTT
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGT-AGTT
*
38651779 AGTGTAAGA-CATGTCTGGGACATGCATCGG-CTGCGAGATGT-GTCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGACGTAGT-T
38651824 -GTGTAAGACCATGTCTGGGA
1 AGTGTAAGACCATGTCTGGGA
38651844 TACAGCATCG
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
44 10 0.17
45 14 0.23
46 27 0.45
47 9 0.15
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGTAGTT
Found at i:38666503 original size:27 final size:27
Alignment explanation
Indices: 38666455--38666612 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
38666445 GCGAGGCTGC
* *
38666455 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
38666482 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
38666508 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
38666535 CA-ATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
38666561 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
38666588 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
38666613 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
26 30 0.26
27 82 0.71
28 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:38666544 original size:53 final size:54
Alignment explanation
Indices: 38666473--38666612 Score: 239
Period size: 53 Copynumber: 2.6 Consensus size: 54
38666463 GTGACGAAGT
*
38666473 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
38666527 CACCAGATCA-ATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
38666580 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
38666613 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
52 2 0.02
53 50 0.61
54 30 0.37
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:38667325 original size:26 final size:26
Alignment explanation
Indices: 38667295--38667350 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
38667285 TGAAATGCCC
38667295 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38667321 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38667347 ATCA
1 ATCA
38667351 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38672097 original size:47 final size:47
Alignment explanation
Indices: 38672010--38672937 Score: 1531
Period size: 47 Copynumber: 19.6 Consensus size: 47
38672000 CCCTTCGGGA
* * * * * * *
38672010 CTTATCCCATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38672057 CCTGTCACATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672104 CTTATCACATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38672149 CTTATCACATATATATACACTTTCACATTCATCCCATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38672198 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672245 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38672292 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672341 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38672388 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38672435 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672484 CTTATCACATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672529 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38672578 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672625 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38672672 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672721 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38672768 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38672815 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672864 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672911 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
38672938 TATTCAAATA
Statistics
Matches: 830, Mismatches: 35, Indels: 32
0.93 0.04 0.04
Matches are distributed among these distances:
45 76 0.09
47 495 0.60
49 259 0.31
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38672317 original size:143 final size:142
Alignment explanation
Indices: 38672010--38672937 Score: 1537
Period size: 143 Copynumber: 6.5 Consensus size: 142
38672000 CCCTTCGGGA
* * * * * * * * *
38672010 CTTATCCCATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
38672075 TTCCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATAT--ACTTTCACATTCATCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
38672137 CGGCCATTAGGC
131 CGGCCATTAGGC
*
38672149 CTTATCACATATATATACACTTTCACATTCATCCCATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
38672214 ACTTTCACATTCATCACATTGGCTATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCAC
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
38672278 ATCGGCCATTAGGC
129 ATCGGCCATTAGGC
*
38672292 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
38672357 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCAC
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
*
38672421 ATCGGCTATTAGGC
129 ATCGGCCATTAGGC
*
38672435 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATAT--
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
38672498 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
38672563 CATCGGCCATTAGGC
128 CATCGGCCATTAGGC
* *
38672578 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38672643 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACA
*
38672708 TCGGCTATTAGGC
130 TCGGCCATTAGGC
38672721 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
38672786 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACA
*
38672851 TCGGTCATTAGGC
130 TCGGCCATTAGGC
38672864 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38672929 TTTCACATT
66 TTTCACATT
38672938 TATTCAAATA
Statistics
Matches: 751, Mismatches: 30, Indels: 12
0.95 0.04 0.02
Matches are distributed among these distances:
139 7 0.01
141 177 0.24
143 567 0.75
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:38672766 original size:380 final size:380
Alignment explanation
Indices: 38672010--38672937 Score: 1693
Period size: 380 Copynumber: 2.4 Consensus size: 380
38672000 CCCTTCGGGA
* * * * * * * * * *
38672010 CTTATCCCATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
* *
38672073 ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTTTCACATTCATCACATC
66 ACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATACTTTCACATTCATCACATC
*
38672138 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCCCATCGGCCATTAGGCCTTAT
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
38672203 CACATATATACACTTTCACATTCATCACATTGGCTATTAGGCCTTATCACATATATACACTTTCA
196 CACATATATACACTTTCACATTCATCACATTGGCTATTAGGCCTTATCACATATATACACTTTCA
38672268 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
261 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
38672333 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
326 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672388 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
38672453 ACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATACTTTCACATTCATCACATC
66 ACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATACTTTCACATTCATCACATC
38672518 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
38672583 CACATATATACACTTTCACATTCATCACATTGGCTATTAGGCCTTATCACATATATACACTTTCA
196 CACATATATACACTTTCACATTCATCACATTGGCTATTAGGCCTTATCACATATATACACTTTCA
38672648 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
261 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
38672713 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
326 TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38672768 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
38672833 ACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATAT--ACTTTCACATTCATCACA
38672898 TCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATT
129 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
38672938 TATTCAAATA
Statistics
Matches: 533, Mismatches: 13, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
378 45 0.08
380 449 0.84
382 39 0.07
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (380 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACACTTTCACATTCATCACATTGGCTATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGC
TATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38674860 original size:13 final size:13
Alignment explanation
Indices: 38674842--38674866 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38674832 TACTAAATTT
38674842 TCATGGATTCAAA
1 TCATGGATTCAAA
38674855 TCATGGATTCAA
1 TCATGGATTCAA
38674867 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:38676731 original size:40 final size:40
Alignment explanation
Indices: 38676674--38676985 Score: 464
Period size: 40 Copynumber: 7.8 Consensus size: 40
38676664 CCAGCATGAT
* * * * *
38676674 TGCTCTTCGGGACTTAGCTCTGATATAACACTAGCAGGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
38676714 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
38676754 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
38676794 TGCTCTTCGAGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
38676834 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
38676874 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
38676914 TGCTCTTCGGGACTTA-CCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCC-GGATACATCACTAGCACGAA
*
38676954 TGCTCTTCGGGACTTAGCCTGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
38676986 CTCAATTCTC
Statistics
Matches: 253, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
39 3 0.01
40 248 0.98
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:38678312 original size:37 final size:37
Alignment explanation
Indices: 38678253--38678354 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
38678243 GGCTCAGACG
* * *
38678253 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACACGGACA
38678290 AAATCTCCACACGTAGTCATCGGGTCTTACACGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACACGGACA
*
38678327 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
38678355 TAGAGCTCGG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACACGGACA
Found at i:38678551 original size:47 final size:47
Alignment explanation
Indices: 38678473--38679163 Score: 1143
Period size: 47 Copynumber: 14.6 Consensus size: 47
38678463 CCCTTCGGGA
* * * * * *
38678473 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38678520 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38678567 CTTATCACATATAT--ACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38678612 CTTATCACATATATATACACTTTCACATTCATCACATCGGCGATTAGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38678661 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38678708 CTAATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38678755 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38678802 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38678851 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38678898 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38678945 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38678994 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38679041 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38679090 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38679137 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
38679164 TATTCAAATA
Statistics
Matches: 608, Mismatches: 26, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
45 38 0.06
47 395 0.65
49 175 0.29
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38678704 original size:96 final size:94
Alignment explanation
Indices: 38678473--38679163 Score: 1143
Period size: 96 Copynumber: 7.3 Consensus size: 94
38678463 CCCTTCGGGA
* * * * * * * *
38678473 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38678538 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
38678567 CTTATCACATATAT--ACTTTCACATTCATCACACCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
38678630 ACTTTCACATTCATCACATCGGCGATTAGAC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
38678661 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTAATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
38678726 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
38678755 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
38678820 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
38678851 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
38678916 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
38678945 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
38679010 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
38679041 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
38679106 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
38679137 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
38679164 TATTCAAATA
Statistics
Matches: 569, Mismatches: 20, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
92 31 0.05
94 221 0.39
96 317 0.56
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:38678833 original size:143 final size:141
Alignment explanation
Indices: 38678473--38679163 Score: 1143
Period size: 143 Copynumber: 4.9 Consensus size: 141
38678463 CCCTTCGGGA
* * * * * * * *
38678473 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
38678538 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--ACTTTCACATTCATCACACC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
38678601 GGCCATTAGGC
131 GGCCATTAGGC
* *
38678612 CTTATCACATATATATACACTTTCACATTCATCACATCGGCGATTAGACCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
38678677 ACTTTCACATTCATCACATCGGCCATTAGGCCTAATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
38678742 TCGGCTATTAGGC
129 TCGGCCATTAGGC
38678755 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
38678820 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
38678885 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
38678898 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
38678963 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
38679028 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
38679041 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
38679106 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
38679164 TATTCAAATA
Statistics
Matches: 522, Mismatches: 22, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
139 8 0.02
141 134 0.26
143 335 0.64
145 45 0.09
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:38682243 original size:29 final size:29
Alignment explanation
Indices: 38682180--38682247 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
38682170 TAATCAACCG
38682180 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
38682209 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
38682238 CGCACACTTA
1 CGCACACTTA
38682248 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:38682360 original size:174 final size:174
Alignment explanation
Indices: 38682069--38682396 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
38682059 AACTCAAGGT
* * *
38682069 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCATTAATGTAAATAATTTATA
*
38682134 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
38682199 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
38682243 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCATTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCATTAATGTAAATAATTTATA
*
38682308 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
38682373 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
38682397 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCATTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:38682388 original size:29 final size:30
Alignment explanation
Indices: 38682349--38682427 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
38682339 CTTAATAATC
38682349 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
38682379 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
38682408 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38682428 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:38690377 original size:29 final size:29
Alignment explanation
Indices: 38690314--38690381 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
38690304 TAATCAACCG
38690314 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
38690343 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
38690372 CGCACACTTA
1 CGCACACTTA
38690382 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:38690494 original size:174 final size:173
Alignment explanation
Indices: 38690203--38690529 Score: 591
Period size: 174 Copynumber: 1.9 Consensus size: 173
38690193 AACTCAAGGT
* *
38690203 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
38690268 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
38690333 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACT-ACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
38690377 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
38690442 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
38690507 ACTTTAAACTGCACACTTAGTGC
131 ACTTTAAACTACACACTTAGTGC
38690530 TGTACAATTT
Statistics
Matches: 147, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
173 12 0.08
174 135 0.92
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:38690520 original size:28 final size:30
Alignment explanation
Indices: 38690483--38690560 Score: 101
Period size: 28 Copynumber: 2.7 Consensus size: 30
38690473 CTTAATAATC
38690483 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
38690513 AA-CTGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
38690541 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38690561 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
26 5 0.12
27 1 0.02
28 18 0.44
29 14 0.34
30 3 0.07
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:38694964 original size:13 final size:13
Alignment explanation
Indices: 38694946--38694984 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
38694936 AAACCGTATG
38694946 CAATTTTTTTTTT
1 CAATTTTTTTTTT
38694959 CAA-TTTTTTTTT
1 CAATTTTTTTTTT
38694971 CAATTTTTTTTTT
1 CAATTTTTTTTTT
38694984 C
1 C
38694985 GAACTCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.74
Consensus pattern (13 bp):
CAATTTTTTTTTT
Found at i:38694967 original size:12 final size:12
Alignment explanation
Indices: 38694950--38694982 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
38694940 CGTATGCAAT
38694950 TTTTTTTTTCAA
1 TTTTTTTTTCAA
38694962 TTTTTTTTTCAA
1 TTTTTTTTTCAA
38694974 TTTTTTTTT
1 TTTTTTTTT
38694983 TCGAACTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:38695324 original size:21 final size:21
Alignment explanation
Indices: 38695298--38695360 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
38695288 TTGGTATTTG
38695298 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
38695319 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
38695340 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
38695361 ACGGTTCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 21 0.60
22 14 0.40
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Done.