Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 121 of 378
Found at i:33939896 original size:28 final size:28
Alignment explanation
Indices: 33939827--33939927 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
33939817 GACAAGATTG
* * * *
33939827 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
33939857 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33939885 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
33939914 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33939928 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33939921 original size:29 final size:28
Alignment explanation
Indices: 33939856--33939927 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
33939846 AAAATTGTAC
*
33939856 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
33939884 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
33939913 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
33939928 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:33968968 original size:22 final size:21
Alignment explanation
Indices: 33968943--33968989 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
33968933 AGGGCTATGG
*
33968943 TCCAATAACAGCAGCAGGGGCC
1 TCCAATAACAGCA-CAAGGGCC
*
33968965 TCCAGTAACAGCACAAGGGCC
1 TCCAATAACAGCACAAGGGCC
33968986 -CCAA
1 TCCAA
33968990 CTCTGACTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 3 0.14
21 7 0.32
22 12 0.55
ACGTcount: A:0.34, C:0.34, G:0.23, T:0.09
Consensus pattern (21 bp):
TCCAATAACAGCACAAGGGCC
Found at i:33970992 original size:35 final size:35
Alignment explanation
Indices: 33970941--33971013 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
33970931 CAGATATGCA
*
33970941 ATCAATAAATCCTACCCAACCAGCCTCTAGACTCT
1 ATCAATAAATCATACCCAACCAGCCTCTAGACTCT
*
33970976 ATCAATAAATCATACCCAACCAGCCTTTAGACTCT
1 ATCAATAAATCATACCCAACCAGCCTCTAGACTCT
33971011 ATC
1 ATC
33971014 TCTATCCAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.36, C:0.34, G:0.05, T:0.25
Consensus pattern (35 bp):
ATCAATAAATCATACCCAACCAGCCTCTAGACTCT
Found at i:33973975 original size:41 final size:41
Alignment explanation
Indices: 33973930--33974047 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
33973920 TGAAAGATAA
33973930 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
33973971 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
33974001 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
33974042 ATGTAG
1 ATGTAG
33974048 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:33973986 original size:71 final size:71
Alignment explanation
Indices: 33973898--33974061 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
33973888 GAGATGTATC
33973898 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33973963 AGGACA
66 AGGACA
33973969 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33974034 AGGACA
66 AGGACA
33974040 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
33974062 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:33980052 original size:41 final size:41
Alignment explanation
Indices: 33980007--33980124 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
33979997 TGAAAGATAA
33980007 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
33980048 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
33980078 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
33980119 ATGTAG
1 ATGTAG
33980125 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:33980063 original size:71 final size:71
Alignment explanation
Indices: 33979975--33980138 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
33979965 GAGATGTATC
33979975 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33980040 AGGACA
66 AGGACA
33980046 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33980111 AGGACA
66 AGGACA
33980117 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
33980139 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:33982072 original size:61 final size:61
Alignment explanation
Indices: 33981979--33982115 Score: 265
Period size: 61 Copynumber: 2.2 Consensus size: 61
33981969 TGTTTTGTTA
33981979 TTATTATTCTTCTGAGATGTTTTCTTTTACACTTATGAACTATATGATAAATATTTGACTTG
1 TTATTATT-TTCTGAGATGTTTTCTTTTACACTTATGAACTATATGATAAATATTTGACTTG
33982041 TTATTATTTTCTGAGATGTTTTCTTTTACACTTATGAACTATATGATAAATATTTGACTTG
1 TTATTATTTTCTGAGATGTTTTCTTTTACACTTATGAACTATATGATAAATATTTGACTTG
33982102 TTATTATTTTCTGA
1 TTATTATTTTCTGA
33982116 ATTATATGAT
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
61 67 0.89
62 8 0.11
ACGTcount: A:0.27, C:0.10, G:0.11, T:0.52
Consensus pattern (61 bp):
TTATTATTTTCTGAGATGTTTTCTTTTACACTTATGAACTATATGATAAATATTTGACTTG
Found at i:33982600 original size:13 final size:13
Alignment explanation
Indices: 33982582--33982607 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33982572 CTGTGCATTC
33982582 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
33982595 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
33982608 AACAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:33990244 original size:81 final size:81
Alignment explanation
Indices: 33990102--33990281 Score: 211
Period size: 81 Copynumber: 2.2 Consensus size: 81
33990092 AATCTCATAT
* * * * * *
33990102 CTGTAGGCTAGCATTACTGAAATACTCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAG
1 CTGTAGGGTAGAATTACCGAAATACTCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAA
* *
33990167 AGTTACTGAA-ATACCC
66 AATTAC-CAAGATACCC
* *
33990183 CTGTAGGGTAGAATTACCGAAATAC-CCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTA
1 CTGTAGGGTAGAATTACCGAAATACTCC-TGTAGGGTAGAAATACCGAAATACCCCTATAGGGTA
33990247 AAATTACCAAGATACCC
65 AAATTACCAAGATACCC
* * *
33990264 TTGTGGGGTAAAATTACC
1 CTGTAGGGTAGAATTACC
33990282 ATTTTGCCCC
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 4 0.05
81 80 0.95
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (81 bp):
CTGTAGGGTAGAATTACCGAAATACTCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAA
AATTACCAAGATACCC
Found at i:33990282 original size:27 final size:27
Alignment explanation
Indices: 33990114--33990281 Score: 189
Period size: 27 Copynumber: 6.2 Consensus size: 27
33990104 GTAGGCTAGC
* *
33990114 ATTACTGAAATACTCC-TGTAGGGTAGA
1 ATTACCGAAATAC-CCTTGTAGGGTAAA
* * * *
33990141 ATTACTGAAATACCCCTATAGGGTAGA
1 ATTACCGAAATACCCTTGTAGGGTAAA
* * * *
33990168 GTTACTGAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCTTGTAGGGTAAA
33990195 ATTACCGAAATACCCTTGTAGGGTAGAA
1 ATTACCGAAATACCCTTGTAGGGTA-AA
33990223 A-TACCGAAATACCCTTGTAGGGTAAA
1 ATTACCGAAATACCCTTGTAGGGTAAA
*
33990249 ATTACC-AAGATACCCTTGTGGGGTAAA
1 ATTACCGAA-ATACCCTTGTAGGGTAAA
33990276 ATTACC
1 ATTACC
33990282 ATTTTGCCCC
Statistics
Matches: 129, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
26 7 0.05
27 120 0.93
28 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
ATTACCGAAATACCCTTGTAGGGTAAA
Found at i:33990847 original size:22 final size:22
Alignment explanation
Indices: 33990799--33990857 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
33990789 ATTATTCTGA
33990799 TTATGGCTTTGTGCCAACCTAC
1 TTATGGCTTTGTGCCAACCTAC
* **
33990821 ATATGGCTTTGTGCCAACCTGT
1 TTATGGCTTTGTGCCAACCTAC
*
33990843 TTATGGCTGTGTGCC
1 TTATGGCTTTGTGCC
33990858 GTTATTGTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (22 bp):
TTATGGCTTTGTGCCAACCTAC
Found at i:33990969 original size:27 final size:26
Alignment explanation
Indices: 33990939--33991002 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
33990929 TTTGCCACAT
*
33990939 TATCTGATTCTGGTGGCTCTACCAAAA
1 TATCTG-TTCTGGTGACTCTACCAAAA
* *
33990966 TATCTGTATCTGGTGACTCTATCACAA
1 TATCTGT-TCTGGTGACTCTACCAAAA
33990993 TATCTGTTCT
1 TATCTGTTCT
33991003 AGTAGCCATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (26 bp):
TATCTGTTCTGGTGACTCTACCAAAA
Found at i:33993098 original size:27 final size:27
Alignment explanation
Indices: 33993068--33993295 Score: 189
Period size: 27 Copynumber: 8.6 Consensus size: 27
33993058 AATCTCATAT
* *
33993068 CTGTAGGCTAGCATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
33993095 CTGTAGGGTAGAATTACCGAGATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * * * ** *
33993122 TTGCAGGGTAAAATTAC-CATTTTGCCC
1 CTGTAGGGTAGAATTACTGA-AATACCC
*
33993149 C--TAGGGT-G--TTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
33993171 CTATAGGGTAGAGTTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
33993198 CTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
33993225 CTGTAGGGTAGAAATACCGAAATACTC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * * *
33993252 CTATAGGGTAGACTTACCGAGATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
33993279 TTGCAGGGTAAAATTAC
1 CTGTAGGGTAGAATTAC
33993296 CATTTTGCCC
Statistics
Matches: 160, Mismatches: 34, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
22 9 0.06
23 1 0.01
24 6 0.04
25 6 0.04
26 1 0.01
27 137 0.86
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:33993861 original size:22 final size:22
Alignment explanation
Indices: 33993809--33993871 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
33993799 GCCAATTATT
* **
33993809 CTGATTCTGGCTTTACGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
33993831 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
33993853 CTGATTATGGCTGTGTGCC
1 CTGATTATGGCTTTGTGCC
33993872 GTTATTGTAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.33
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:33993914 original size:20 final size:20
Alignment explanation
Indices: 33993867--33993914 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
33993857 TTATGGCTGT
*
33993867 GTGCCGTTATTGTAGGCTTC
1 GTGCCGATATTGTAGGCTTC
** *
33993887 GTATCGATATTGTGGGCTTC
1 GTGCCGATATTGTAGGCTTC
33993907 GTGCCGAT
1 GTGCCGAT
33993915 TATAGACTCG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (20 bp):
GTGCCGATATTGTAGGCTTC
Found at i:33993988 original size:27 final size:27
Alignment explanation
Indices: 33993958--33994019 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
33993948 ATTCTGTTAA
*
33993958 GTGGCTTTGCCAC-ATTATCTG-ATTCTG
1 GTGGCTCTGCCACGA-TATCTGTA-TCTG
33993985 GTGGCTCTGCCACGATATCTGTATCTG
1 GTGGCTCTGCCACGATATCTGTATCTG
*
33994012 GTGACTCT
1 GTGGCTCT
33994020 ATCACAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACGATATCTGTATCTG
Found at i:33994029 original size:27 final size:27
Alignment explanation
Indices: 33993967--33994038 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
33993957 AGTGGCTTTG
* * *
33993967 CCACATTATCTGATTCTGGTGGCTCTG
1 CCACAATATCTGATTCTGGTGACTCTA
*
33993994 CCACGATATCTG-TATCTGGTGACTCTA
1 CCACAATATCTGAT-TCTGGTGACTCTA
*
33994021 TCACAATATCT-ATTCTGG
1 CCACAATATCTGATTCTGG
33994039 CAGCCATGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
26 6 0.16
27 31 0.84
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (27 bp):
CCACAATATCTGATTCTGGTGACTCTA
Found at i:33994204 original size:25 final size:25
Alignment explanation
Indices: 33994156--33994223 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
33994146 TTGCATTCAC
* * *
33994156 ATTCTGATTTTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
*
33994181 ATAT-TGGTTCTGATTCTGTCACCTA
1 AT-TCTGATTCTGATTCTGTCACCTA
33994206 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
33994224 ATTCTGATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:33994215 original size:6 final size:6
Alignment explanation
Indices: 33994206--33994259 Score: 74
Period size: 6 Copynumber: 8.8 Consensus size: 6
33994196 CTGTCACCTA
*
33994206 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
33994255 ATTCT
1 ATTCT
33994260 CATTTTGGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 1 0.02
6 38 0.88
7 3 0.07
8 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:33994219 original size:37 final size:37
Alignment explanation
Indices: 33994188--33994259 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
33994178 CTGATATTGG
33994188 TTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGA
1 TTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGA
*
33994225 TTCTGATTCTGTCACCTGATTCTGATTCTGATTCT
1 TTCTGATTCTGTCACCTAATTCTGATTCTGATTCT
33994260 CATTTTGGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.47
Consensus pattern (37 bp):
TTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGA
Found at i:33998931 original size:47 final size:48
Alignment explanation
Indices: 33998816--33999176 Score: 229
Period size: 46 Copynumber: 7.8 Consensus size: 48
33998806 GATCTTGTCC
* *
33998816 ATCTGTGTCGATGCCGTGTCCCAGACA-GGTCTTACACT-G-ACACAT
1 ATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT
*** ***
33998861 ATC-AACCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCAT
1 ATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT
* *
33998908 GATGTG-GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCACACAT
1 -ATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT
*
33998954 ATCTGTGCCGACGCCATGTCCCAGACATGGTCTTACACT-G-ACACAT
1 ATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT
* * * * * ** *
33999000 CTC-GTAGCTGATG-CATGTCCTAAACAT-GTCTTACACTGGCTTACGT
1 ATCTGT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT
* * * * * * *
33999046 -CCCGAGGTCGATG-CATGTCCCAAACAT-GTCTTACACTAGCACTCGT
1 ATCTG-TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT
* ** * * *
33999092 CTCAATGCCGATGCCATGTCCTAGACATGGTCTTACACT-GACTCTCAT
1 ATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CACACAT
* * *
33999140 AATATG-GTCGATG-CATGTTCCAGACAT-GTCTTACACT
1 -ATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACT
33999177 GGTGCACATA
Statistics
Matches: 247, Mismatches: 51, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
44 28 0.11
45 34 0.14
46 88 0.36
47 58 0.23
48 38 0.15
49 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
ATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT
Found at i:33999064 original size:138 final size:139
Alignment explanation
Indices: 33998816--33999133 Score: 383
Period size: 138 Copynumber: 2.3 Consensus size: 139
33998806 GATCTTGTCC
* *
33998816 ATCTGTGTCGATGCCGTGTCCCAGACA-GGTCTTACACTGACACATATCAACCCGATGCCATGTC
1 ATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAACCCGATGCCATGTC
* * * * * *
33998880 CCAGACATGGTCTTACACTAGCTTTCATGATGTGGCTGATGCATGTCCCAGACATGTCTTACACT
66 CCAAACATGGTCTTACACTAGCTTACATCACGAGGCTGATGCATGTCCCAAACATGTCTTACACT
33998945 AGCACACAT
131 AGCACACAT
* * * * *
33998954 ATCTGTGCCGACGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCTGATG-CATGT
1 ATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATC-AACCCGATGCCATGT
* * * *
33999018 CCTAAACAT-GTCTTACACTGGCTTACGTCCCGAGG-TCGATGCATGTCCCAAACATGTCTTACA
65 CCCAAACATGGTCTTACACTAGCTTACATCACGAGGCT-GATGCATGTCCCAAACATGTCTTACA
* *
33999081 CTAGCACTCGT
129 CTAGCACACAT
* ** *
33999092 CTCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGAC
1 ATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC
33999134 TCTCATAATA
Statistics
Matches: 153, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
137 1 0.01
138 114 0.75
139 32 0.21
140 6 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (139 bp):
ATCTGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAACCCGATGCCATGTC
CCAAACATGGTCTTACACTAGCTTACATCACGAGGCTGATGCATGTCCCAAACATGTCTTACACT
AGCACACAT
Found at i:34004568 original size:15 final size:15
Alignment explanation
Indices: 34004548--34004586 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
34004538 AATTAACAAC
34004548 TTTTGTGAAAGGATT
1 TTTTGTGAAAGGATT
34004563 TTTTGTG-AAGGATT
1 TTTTGTGAAAGGATT
*
34004577 TTTTATGAAA
1 TTTTGTGAAA
34004587 CCACCTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (15 bp):
TTTTGTGAAAGGATT
Found at i:34005350 original size:46 final size:47
Alignment explanation
Indices: 34005295--34005710 Score: 265
Period size: 48 Copynumber: 8.7 Consensus size: 47
34005285 ATATGAGAGC
*
34005295 CAGTGTAAGACCATGTCTGGGACATGGCAT-TGCACTCGATATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCGATATGTGT
* * * * *
34005341 CATTGTAAGACCATGTTTGGGACATGACATCGGCAC-CGCTTTATGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCG--ATAT--GTGT
* *
34005391 -AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCAATTTGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCGATATGTGT
* * * *
34005436 CAGTGTAAGACAATGTCTGGGACATGGCATCGGCAC-CAGTTTATGCGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTC-G-ATAT--GTGT
* * * * * * **
34005486 CAGCGTAAGACCATGTTTGGAACATGACATCAGCA-TTGTTATATAAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCG--ATATGTGT
* * * * *
34005534 CAATGTAAGACCATGTCTGGGACATGGCATTGGC-CTCAATATGCGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCGATAT--GTGT
* * * * * * *
34005582 CAGTGTAAAACCATGTTTGGAACATGACATTGGTA-TTGTTATATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCG--ATATGTGT
* * * * * *
34005630 CAATGTAAGACTATGCCTGGTACATGGCATCGGCAC-CGATGTATGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCGA--TAT--GTGT
34005680 CAGTGTAAGACCATGTCTGGGACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
34005711 AGCATTTTAC
Statistics
Matches: 279, Mismatches: 66, Indels: 46
0.71 0.17 0.12
Matches are distributed among these distances:
45 3 0.01
46 67 0.24
47 7 0.03
48 99 0.35
49 32 0.11
50 71 0.25
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCGATATGTGT
Found at i:34005459 original size:95 final size:96
Alignment explanation
Indices: 34005286--34005710 Score: 419
Period size: 96 Copynumber: 4.4 Consensus size: 96
34005276 ACAATGGCGA
* * *
34005286 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT-TGCACTCGATATGTGTCATTGTAAG
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCTATATGTGTCAATGTAAG
* *
34005350 ACCATGTTTGGGACATGACATCGGCACCGCTT
65 ACCATGTCTGGGACATGGCATCGGCACCGCTT
* * * *
34005382 TATGAGAG-TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATTTGTGTCAGTGTAAGA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTATATGTGTCAATGTAAGA
*
34005446 CAATGTCTGGGACATGGCATCGGCACCAG-TT
66 CCATGTCTGGGACATGGCATCGGCACC-GCTT
* * * * * * * * **
34005477 TATGCGAGCCAGCGTAAGACCATGTTTGGAACATGACATCAGCATTGTTATATAAGTCAATGTAA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CT-CTATATGTGTCAATGTAA
* * **
34005542 GACCATGTCTGGGACATGGCATTGG--CCTCAA
64 GACCATGTCTGGGACATGGCATCGGCACCGCTT
* * * * * * ** *
34005573 TATGCGAGCCAGTGTAAAACCATGTTTGGAACATGACATTGGTATTGTTATATGTGTCAATGTAA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CCT-CTATATGTGTCAATGTAA
* * * * *
34005638 GACTATGCCTGGTACATGGCATCGGCACCGATG
64 GACCATGTCTGGGACATGGCATCGGCACCGCTT
34005671 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
34005711 AGCATTTTAC
Statistics
Matches: 272, Mismatches: 48, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
95 81 0.30
96 119 0.44
97 1 0.00
98 71 0.26
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (96 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCTATATGTGTCAATGTAAGA
CCATGTCTGGGACATGGCATCGGCACCGCTT
Found at i:34010529 original size:2 final size:2
Alignment explanation
Indices: 34010522--34010552 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
34010512 ACCTACTCTT
34010522 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34010553 TCTTACCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34012368 original size:26 final size:27
Alignment explanation
Indices: 34012317--34012409 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
34012307 CATGGTTTGC
* *
34012317 CACAAAGGCTTTCAATTCATTTTACGT
1 CACAAAGGCTTTCATTTCATATTACGT
34012344 CACAAAGGCTTTC-TTTCATATTACGT
1 CACAAAGGCTTTCATTTCATATTACGT
* * * *
34012370 TACAAAGG-TTATCTTTTCATATTATGC
1 CACAAAGGCTT-TCATTTCATATTACGT
34012397 CACAAAGGCTTTC
1 CACAAAGGCTTTC
34012410 CTTATCTGTC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
25 2 0.04
26 20 0.35
27 33 0.58
28 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.38
Consensus pattern (27 bp):
CACAAAGGCTTTCATTTCATATTACGT
Found at i:34015184 original size:40 final size:39
Alignment explanation
Indices: 34015024--34015217 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
34015014 TGTGTATGAA
* * *
34015024 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
34015063 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
34015102 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
34015141 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
34015181 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
34015218 GTTTGAACGA
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 96 0.70
40 41 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:34023091 original size:40 final size:39
Alignment explanation
Indices: 34022931--34023124 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
34022921 TGTGTATGAA
* * *
34022931 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
34022970 TGTGCGAATTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
34023009 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
34023048 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
34023088 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
34023125 GTTTGAACGA
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 96 0.70
40 41 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:34029129 original size:40 final size:40
Alignment explanation
Indices: 34029024--34029240 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
34029014 CGGATGATAA
* *
34029024 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
34029064 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34029103 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34029143 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
34029183 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
34029223 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34029241 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 51 0.31
40 115 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:34029238 original size:119 final size:119
Alignment explanation
Indices: 34029020--34029240 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 119
34029010 TATTCGGATG
* *
34029020 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * *
34029085 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
34029139 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
34029203 ATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
64 ATTTGAGCAAGTTA-CTATATCCGGGCTAAATCCCGAAGG
34029241 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 2 0.02
119 64 0.70
120 26 0.28
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:34035288 original size:79 final size:79
Alignment explanation
Indices: 34035157--34035343 Score: 322
Period size: 79 Copynumber: 2.4 Consensus size: 79
34035147 TATTCGGATG
* *
34035157 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
34035222 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
* *
34035236 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGCCCGAAGGCA
34035300 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
34035315 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
34035344 AGCAAGTAGC
Statistics
Matches: 103, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
78 2 0.02
79 101 0.98
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:34035357 original size:79 final size:79
Alignment explanation
Indices: 34035157--34035375 Score: 320
Period size: 79 Copynumber: 2.8 Consensus size: 79
34035147 TATTCGGATG
* *
34035157 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAGCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-TCCGGGCTAAGTCCGAAGGC
34035220 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* *
34035236 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGCTAAGTCCGAAGGCA
34035300 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* * *
34035315 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAAATTCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCGAAGG
34035376 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
78 15 0.12
79 111 0.87
80 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:34035366 original size:39 final size:40
Alignment explanation
Indices: 34035157--34035343 Score: 317
Period size: 39 Copynumber: 4.7 Consensus size: 40
34035147 TATTCGGATG
* *
34035157 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
34035197 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
34035236 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
34035276 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
34035315 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
34035344 AGCAAGTAGC
Statistics
Matches: 139, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
39 74 0.53
40 65 0.47
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:34047219 original size:30 final size:30
Alignment explanation
Indices: 34047185--34047243 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
34047175 CCATTATGAG
*
34047185 TGCTAAATCATGCAACCACATATTAGCAAT
1 TGCTAAATCATGCAACCACATACTAGCAAT
34047215 TGCTAAATCATGCAACCACATACTAGCAA
1 TGCTAAATCATGCAACCACATACTAGCAA
34047244 ATAAATAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.24
Consensus pattern (30 bp):
TGCTAAATCATGCAACCACATACTAGCAAT
Found at i:34052086 original size:28 final size:28
Alignment explanation
Indices: 34052053--34052110 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
34052043 TGGCCCATCG
34052053 TATGGCCCATCAGGCCCAATCACTTTCA
1 TATGGCCCATCAGGCCCAATCACTTTCA
34052081 TATGGCCCATCAGGCCCAATCACTTTCA
1 TATGGCCCATCAGGCCCAATCACTTTCA
34052109 TA
1 TA
34052111 GTCATGCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.26
Consensus pattern (28 bp):
TATGGCCCATCAGGCCCAATCACTTTCA
Found at i:34052361 original size:16 final size:16
Alignment explanation
Indices: 34052328--34052362 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
34052318 GCCAAACTTA
* *
34052328 TGGCTTTTCGGCATTT
1 TGGCTTTTCGACAATT
34052344 TGGCTTTTCGACAATT
1 TGGCTTTTCGACAATT
34052360 TGG
1 TGG
34052363 GATTTACCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.26, T:0.46
Consensus pattern (16 bp):
TGGCTTTTCGACAATT
Found at i:34056602 original size:29 final size:27
Alignment explanation
Indices: 34056568--34056670 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
34056558 TACTCAATCA
*
34056568 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
34056597 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
34056626 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
34056655 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
34056671 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:34064993 original size:40 final size:40
Alignment explanation
Indices: 34064934--34065126 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 40
34064924 CAATTGAATG
* * * *
34064934 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
34064974 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
34065014 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
34065054 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* *
34065094 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
34065127 TGTGGATATA
Statistics
Matches: 128, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
39 2 0.02
40 124 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:34065072 original size:80 final size:80
Alignment explanation
Indices: 34064936--34065126 Score: 224
Period size: 80 Copynumber: 2.4 Consensus size: 80
34064926 ATTGAATGAT
* * ** * * *
34064936 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAAATCCGGGCTAAGACCCGAAGG-CAT
*
34065000 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
** *
34065016 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAAATCCGGGCTAAGACCCGAAGGCATT
** *
34065081 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
34065096 ATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCA
34065127 TGTGGATATA
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.02
80 91 0.96
81 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATTAAATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:34081519 original size:46 final size:46
Alignment explanation
Indices: 34081467--34081646 Score: 177
Period size: 46 Copynumber: 3.8 Consensus size: 46
34081457 TATTTAGGTA
34081467 TCCGAACTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCGAACG
* * * * * *
34081513 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGAAATGTAACTAGCTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACT--TATG-GA-T-GCGA-ACG
34081564 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
* * * *
34081610 -CCGGAGCTCGTTGATTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
34081647 GCGGGTTACG
Statistics
Matches: 109, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
45 3 0.03
46 58 0.53
47 7 0.06
48 2 0.02
49 2 0.02
50 6 0.06
51 30 0.28
52 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
Found at i:34081577 original size:97 final size:97
Alignment explanation
Indices: 34081461--34081639 Score: 290
Period size: 97 Copynumber: 1.8 Consensus size: 97
34081451 TTCGGATATT
*
34081461 TAGGTATCCGAACTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGT
1 TAGGCATCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCGAACG-CCGGAACTCGT
*
34081524 TGAGTTGAGTCTGAGTTCGTGAAATGTAACTAGC
64 TGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGC
*
34081558 TAGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCGGAGCTCGTTG
1 TAGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCGGAACTCGTTG
*
34081623 ATTTGAGTCCGAGTTCG
66 AGTTGAGTCCGAGTTCG
34081640 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
96 2 0.03
97 73 0.96
98 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (97 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCGGAACTCGTTG
AGTTGAGTCCGAGTTCGTGAAATGTAACTAGC
Found at i:34088626 original size:40 final size:40
Alignment explanation
Indices: 34088424--34088631 Score: 233
Period size: 40 Copynumber: 5.2 Consensus size: 40
34088414 TGAATGATAC
* * *
34088424 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
34088464 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
34088504 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* ** *
34088544 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * *
34088584 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
34088624 CC-GGCTAA
1 CCGGGCTAA
34088632 ATTCCGAAGA
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.04
40 137 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:34095891 original size:40 final size:40
Alignment explanation
Indices: 34095689--34095896 Score: 233
Period size: 40 Copynumber: 5.2 Consensus size: 40
34095679 TGAATGATAC
* * *
34095689 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
34095729 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
34095769 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* ** *
34095809 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * *
34095849 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
34095889 CC-GGCTAA
1 CCGGGCTAA
34095897 ATTCCGAAGA
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.04
40 137 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:34097791 original size:27 final size:27
Alignment explanation
Indices: 34097761--34097868 Score: 153
Period size: 27 Copynumber: 4.0 Consensus size: 27
34097751 AATCTCATAT
* * *
34097761 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTAAAATACCC
*
34097788 CTGTAGGGTAGAATTACTAAAATGCCC
1 CTGTAGGGTAGAATTACTAAAATACCC
* * *
34097815 CTGTAGGATAGAATTATTAAAATGCCC
1 CTGTAGGGTAGAATTACTAAAATACCC
34097842 CTGTAGGGTAGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTAAAATACCC
34097869 TTGGTTTACA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTAAAATACCC
Found at i:34097883 original size:27 final size:27
Alignment explanation
Indices: 34097853--34098253 Score: 276
Period size: 27 Copynumber: 14.9 Consensus size: 27
34097843 TGTAGGGTAG
* * *
34097853 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGATTTGCAA
*** * *
34097880 AATTA-TTGAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGATTTGCAA
* * *
34097906 AATTACCAAAAAACCCTCGATTAGCAA
1 AATTACCAAAATACCCTTGATTTGCAA
* * * *
34097933 AATTACCAAAACACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGATTTGCAA
* *
34097960 ATTTACCAAAATACCCTT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGCAA
* **
34097987 AATTACCAAAATA-CCTTAATTTGTGA
1 AATTACCAAAATACCCTTGATTTGCAA
** * ** *
34098013 AATTACTGAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTTGATTTGCAA
** * *
34098040 AATTACCAAAATACCCTCAACTTGTAA
1 AATTACCAAAATACCCTTGATTTGCAA
*** * *
34098067 AATTATTGAAATACCTTTGATTTGTAA
1 AATTACCAAAATACCCTTGATTTGCAA
* *
34098094 AATTACCAAAATACCCCTGATTTGGAA
1 AATTACCAAAATACCCTTGATTTGCAA
*
34098121 AATTACCGAAATACCCTTGATTTTG-AA
1 AATTACCAAAATACCCTTGA-TTTGCAA
* * * *
34098148 AATTACAAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCTTGATTTGCAA
*
34098175 AATTA-CAGAAATACCTTTGACTTT-CAAA
1 AATTACCA-AAATACCCTTGA-TTTGC-AA
* *
34098203 AATTA-CAGAAATACCATTGGTTTGCAA
1 AATTACCA-AAATACCCTTGATTTGCAA
* *
34098230 AATTACCAAAATACCATTGGTTTG
1 AATTACCAAAATACCCTTGATTTG
34098254 TTGATTTACC
Statistics
Matches: 304, Mismatches: 59, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
26 49 0.16
27 225 0.74
28 30 0.10
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGCAA
Found at i:34098016 original size:107 final size:108
Alignment explanation
Indices: 34097904--34098244 Score: 268
Period size: 107 Copynumber: 3.2 Consensus size: 108
34097894 CTTGGTTTAC
* * * *** *
34097904 AAAATTACCAAAAAACCCTCGA-TTAGCAAAATTACCAAAACACCCCT-GGTTTGTAAATTTACC
1 AAAATTACCGAAATACCCTCGACTT-G-AAAATTACCAAAATACCCCTCAACTTGTAAAATTACC
*
34097967 AAAATACCCTTAG-TTTGTAAAATTACCAAAATA-CCTTAATTTGTG
64 AAAATA-CCTTAGATTTGTAAAATTACCAAAATACCCCTAATTTG-G
* * ***
34098012 -AAATTACTGAAATACCCTCGACCTGTAAAATTACCAAAATA-CCCTCAACTTGTAAAATTATTG
1 AAAATTACCGAAATACCCTCGACTTG-AAAATTACCAAAATACCCCTCAACTTGTAAAATTACCA
* *
34098075 AAATACCTTTGATTTGTAAAATTACCAAAATACCCCTGATTTGG
65 AAATACCTTAGATTTGTAAAATTACCAAAATACCCCTAATTTGG
* * * * **
34098119 AAAATTACCGAAATACCCTTGATTTTGAAAATTACAAAAATACCCCT-AATTTACAAAATTA-CA
1 AAAATTACCGAAATACCCTCGA-CTTGAAAATTACCAAAATACCCCTCAACTTGTAAAATTACCA
* ** ** ** *
34098182 GAAATACCTTTGACTTTCAAAAATTA-CAGAAATACCATTGGTTTGC
65 -AAATACCTTAGA-TTTGTAAAATTACCA-AAATACCCCTAATTTGG
*
34098228 AAAATTACCAAAATACC
1 AAAATTACCGAAATACC
34098245 ATTGGTTTGT
Statistics
Matches: 190, Mismatches: 33, Indels: 19
0.79 0.14 0.08
Matches are distributed among these distances:
106 9 0.05
107 69 0.36
108 67 0.35
109 45 0.24
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (108 bp):
AAAATTACCGAAATACCCTCGACTTGAAAATTACCAAAATACCCCTCAACTTGTAAAATTACCAA
AATACCTTAGATTTGTAAAATTACCAAAATACCCCTAATTTGG
Found at i:34098515 original size:12 final size:12
Alignment explanation
Indices: 34098498--34098532 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
34098488 TGGGGATTAT
34098498 GAAATGGAGGAA
1 GAAATGGAGGAA
34098510 GAAATGGAGGAA
1 GAAATGGAGGAA
*
34098522 GAAATTGAGGA
1 GAAATGGAGGA
34098533 TCTCATGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.40, T:0.11
Consensus pattern (12 bp):
GAAATGGAGGAA
Found at i:34098787 original size:22 final size:21
Alignment explanation
Indices: 34098736--34098787 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
34098726 GTTAATTATT
34098736 CTGATTATGGCTTACGCCAAC
1 CTGATTATGGCTTACGCCAAC
* **
34098757 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCT-TACGCCAAC
34098779 CTGATTATG
1 CTGATTATG
34098788 TTTATGTACC
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
20 1 0.04
21 9 0.38
22 13 0.54
23 1 0.04
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (21 bp):
CTGATTATGGCTTACGCCAAC
Found at i:34099046 original size:22 final size:22
Alignment explanation
Indices: 34099002--34099049 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
34098992 GTTGCTGCGA
34099002 TGTTTACGGCTATGTGCTATCC
1 TGTTTACGGCTATGTGCTATCC
* *
34099024 TGTTTACGGCTATGTGTTGTCC
1 TGTTTACGGCTATGTGCTATCC
34099046 TGTT
1 TGTT
34099050 CACAGCCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.46
Consensus pattern (22 bp):
TGTTTACGGCTATGTGCTATCC
Found at i:34100170 original size:27 final size:27
Alignment explanation
Indices: 34100140--34100392 Score: 317
Period size: 27 Copynumber: 9.4 Consensus size: 27
34100130 CCCAAAAGTA
* * *
34100140 GTAAAATGACCATAATGCCCCTATAGT
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
34100167 GTAAAATGACCATAATGCCCTTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
34100194 GTAAAATGACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
34100221 GTAAAATGACCGTAATGCCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
34100248 GTAAAATGACCGTAATGCCCATGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
** * *
34100275 GTAAAATGACTATAATACCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
34100302 GTAAAATGACCGTAATGCCCCTGTAAG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* ** *
34100329 GTAAAATAATTGTAATGCCCCTGTAGC
1 GTAAAATGACCGTAATGCCCCTGTAGG
* * * *
34100356 GTAAAATGACTGAAATACCCCTGTATG
1 GTAAAATGACCGTAATGCCCCTGTAGG
34100383 GTAAAATGAC
1 GTAAAATGAC
34100393 GATTATGCCC
Statistics
Matches: 195, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 195 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCGTAATGCCCCTGTAGG
Found at i:34100237 original size:81 final size:80
Alignment explanation
Indices: 34100140--34100392 Score: 353
Period size: 81 Copynumber: 3.1 Consensus size: 80
34100130 CCCAAAAGTA
* * * *
34100140 GTAAAATGACCATAATGCCCCTATAGTGTAAAATGACCATAATGCCCTTGTAGGGTAAAATGACC
1 GTAAAATGACCGTAATGCCCCTATAG-GTAAAATGACCGTAATGCCCATGTAGGGTAAAATGACT
34100205 GTAATACCCCTGTAGG
65 GTAATACCCCTGTAGG
34100221 GTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCATGTAGGGTAAAATGACT
1 GTAAAATGACCGTAATGCCCCTATA-GGTAAAATGACCGTAATGCCCATGTAGGGTAAAATGACT
* *
34100286 ATAATACCCCTATAGG
65 GTAATACCCCTGTAGG
* * ** * *
34100302 GTAAAATGACCGTAATGCCCCTGTAAGGTAAAATAATTGTAATGCCCCTGTAGCGTAAAATGACT
1 GTAAAATGACCGTAATGCCCCTAT-AGGTAAAATGACCGTAATGCCCATGTAGGGTAAAATGACT
* *
34100367 GAAATACCCCTGTATG
65 GTAATACCCCTGTAGG
34100383 GTAAAATGAC
1 GTAAAATGAC
34100393 GATTATGCCC
Statistics
Matches: 154, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
81 152 0.99
82 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (80 bp):
GTAAAATGACCGTAATGCCCCTATAGGTAAAATGACCGTAATGCCCATGTAGGGTAAAATGACTG
TAATACCCCTGTAGG
Found at i:34100578 original size:27 final size:26
Alignment explanation
Indices: 34100533--34100628 Score: 86
Period size: 27 Copynumber: 3.6 Consensus size: 26
34100523 GGAAGTATTG
* * *
34100533 TACTGGTGACCATGTCACATTCACTAT
1 TACTGGTGGCTATGCCACATT-ACTAT
34100560 TACTGGTGGCTATGCCACAATTACTGA-
1 TACTGGTGGCTATGCCAC-ATTACT-AT
* *
34100587 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACA-TTACTAT
* *
34100614 TTCTGGTAGCTATGC
1 TACTGGTGGCTATGC
34100629 TGCATTATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 52 0.91
28 4 0.07
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
TACTGGTGGCTATGCCACATTACTAT
Found at i:34100649 original size:25 final size:25
Alignment explanation
Indices: 34100616--34100663 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34100606 TTTACTGTTT
*
34100616 CTGGTAGCTATGCTGCATTATTATA
1 CTGGCAGCTATGCTGCATTATTATA
* *
34100641 CTGGCAGCTTTGCTGCGTTATTA
1 CTGGCAGCTATGCTGCATTATTA
34100664 GTGTGCTGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (25 bp):
CTGGCAGCTATGCTGCATTATTATA
Found at i:34117922 original size:45 final size:45
Alignment explanation
Indices: 34117825--34117922 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
34117815 TGATGCATAG
* *
34117825 TAAGCTCTATTGAGCTAAAACGGTCAGCTCTATTGAGCTGAAACGG
1 TAAGCTCTATTGAGCTAAAAC-GTAAGCTCTATTGAGCTGAAACGA
* *
34117871 TCAGCTCTATTGAGCTGAATA-GTAAGCTCGTA-TGAGCTGAAACGA
1 TAAGCTCTATTGAGCT-AAAACGTAAGCTC-TATTGAGCTGAAACGA
34117916 TAAGCTC
1 TAAGCTC
34117923 CAATGAGTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
45 25 0.56
46 17 0.38
47 3 0.07
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (45 bp):
TAAGCTCTATTGAGCTAAAACGTAAGCTCTATTGAGCTGAAACGA
Found at i:34117929 original size:23 final size:23
Alignment explanation
Indices: 34117824--34117922 Score: 123
Period size: 23 Copynumber: 4.3 Consensus size: 23
34117814 CTGATGCATA
*
34117824 GTAAGCTCTATTGAGCTAAAACG
1 GTAAGCTCTATTGAGCTGAAACG
*
34117847 GTCAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATTGAGCTGAAACG
*
34117870 GTCAGCTCTATTGAGCTGAATA--
1 GTAAGCTCTATTGAGCTGAA-ACG
34117892 GTAAGCTCGTA-TGAGCTGAAACG
1 GTAAGCTC-TATTGAGCTGAAACG
*
34117915 ATAAGCTC
1 GTAAGCTC
34117923 CAATGAGTTG
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
21 1 0.01
22 16 0.24
23 50 0.74
24 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACG
Found at i:34120872 original size:41 final size:41
Alignment explanation
Indices: 34120824--34120977 Score: 200
Period size: 41 Copynumber: 3.8 Consensus size: 41
34120814 AAGATTATTG
* * * * *
34120824 CTGAATTGCACAAATGTGCCCCTGTTTGTACTTCAGTACCT
1 CTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
*
34120865 CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
1 CTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * * * * *
34120906 CTGAGTTGCACATATGTGCCCCTGTCTGTATTTTGGTACCC
1 CTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
34120947 CTGAATTGCACATACGTGCCCCTATTTGTAC
1 CTGAATTGCACATACGTGCCCCTATTTGTAC
34120978 CACAGTACTC
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.34
Consensus pattern (41 bp):
CTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
Found at i:34120966 original size:82 final size:82
Alignment explanation
Indices: 34120824--34120977 Score: 236
Period size: 82 Copynumber: 1.9 Consensus size: 82
34120814 AAGATTATTG
* *
34120824 CTGAATTGCACAAATGTGCCCCTGTTTGTACTTCAGTACCTCTAAATTGCACATACGTGCCCCTA
1 CTGAATTGCACAAATGTGCCCCTGTCTGTACTTCAGTACCCCTAAATTGCACATACGTGCCCCTA
34120889 TTTGTACTTCGGTACCC
66 TTTGTACTTCGGTACCC
* * * ** *
34120906 CTGAGTTGCACATATGTGCCCCTGTCTGTATTTTGGTACCCCTGAATTGCACATACGTGCCCCTA
1 CTGAATTGCACAAATGTGCCCCTGTCTGTACTTCAGTACCCCTAAATTGCACATACGTGCCCCTA
34120971 TTTGTAC
66 TTTGTAC
34120978 CACAGTACTC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.34
Consensus pattern (82 bp):
CTGAATTGCACAAATGTGCCCCTGTCTGTACTTCAGTACCCCTAAATTGCACATACGTGCCCCTA
TTTGTACTTCGGTACCC
Found at i:34122346 original size:46 final size:46
Alignment explanation
Indices: 34122239--34122364 Score: 148
Period size: 46 Copynumber: 2.7 Consensus size: 46
34122229 TCACTTGTGT
* * *
34122239 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTAGCATCGAGACGA
* * *
34122287 GTGCTAGTGTAAGACATGTCTGGGACATGC-TTCAGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATT-AGCATCGAGACG-A
34122334 -AGCCAGTGTAAGACATGTCTGGGACATGCAT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCAT
34122365 CGACTACGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
45 2 0.03
46 38 0.55
47 16 0.23
48 13 0.19
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATTAGCATCGAGACGA
Found at i:34132884 original size:40 final size:39
Alignment explanation
Indices: 34132758--34132901 Score: 112
Period size: 40 Copynumber: 3.6 Consensus size: 39
34132748 AAATTGAATG
* * *
34132758 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAA-T-T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATTGT
* * * * * *
34132798 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTG-T
*
34132838 ACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGT
* * *
34132877 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
34132902 CTTGGTGCGG
Statistics
Matches: 80, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
37 3 0.04
38 2 0.03
39 3 0.04
40 72 0.90
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGT
Found at i:34135494 original size:52 final size:52
Alignment explanation
Indices: 34135434--34135535 Score: 204
Period size: 52 Copynumber: 2.0 Consensus size: 52
34135424 CAATGGCTCA
34135434 ACCGATTGATTTTATTCAATTTAACCTTTCCTTTAGTTACCCCTATTAACGG
1 ACCGATTGATTTTATTCAATTTAACCTTTCCTTTAGTTACCCCTATTAACGG
34135486 ACCGATTGATTTTATTCAATTTAACCTTTCCTTTAGTTACCCCTATTAAC
1 ACCGATTGATTTTATTCAATTTAACCTTTCCTTTAGTTACCCCTATTAAC
34135536 AGACTCGTAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.43
Consensus pattern (52 bp):
ACCGATTGATTTTATTCAATTTAACCTTTCCTTTAGTTACCCCTATTAACGG
Found at i:34136582 original size:3 final size:3
Alignment explanation
Indices: 34136576--34136607 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
34136566 AATAATAATA
*
34136576 ATT ATT ATT ATT ATT ATT ATT ATT ATA ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
34136608 AATAAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:34136612 original size:9 final size:9
Alignment explanation
Indices: 34136556--34136612 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
34136546 ATATACTAAT
*
34136556 TAATAATAA
1 TAATTATAA
*
34136565 TAATAATAA
1 TAATTATAA
*
34136574 TAATTATTA
1 TAATTATAA
* *
34136583 TTATTATTA
1 TAATTATAA
* *
34136592 TTATTATTA
1 TAATTATAA
34136601 TAATTATAA
1 TAATTATAA
34136610 TAA
1 TAA
34136613 ATATCTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
TAATTATAA
Found at i:34141519 original size:33 final size:35
Alignment explanation
Indices: 34141469--34141554 Score: 97
Period size: 33 Copynumber: 2.5 Consensus size: 35
34141459 TGTATTGATT
*
34141469 CTGT-AATGGGCTTAGGCCC-CACTGCTACTGTTA
1 CTGTAAATGGGCTAAGGCCCACACTGCTACTGTTA
* * * *
34141502 CTG-AAATGGGCTCAGGCCCAGATTGCTATTGTTA
1 CTGTAAATGGGCTAAGGCCCACACTGCTACTGTTA
*
34141536 CTGTAAAAGGGCTAAGGCC
1 CTGTAAATGGGCTAAGGCC
34141555 TTAACAGGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
33 17 0.39
34 14 0.32
35 13 0.30
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (35 bp):
CTGTAAATGGGCTAAGGCCCACACTGCTACTGTTA
Found at i:34147220 original size:6 final size:6
Alignment explanation
Indices: 34147209--34147255 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
34147199 ATAAAAACAT
* *
34147209 AAAATG AAAATG AAAATG AAAATG AAAAT- AAGAATA AAAATG GAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AA-AATG AAAATG AAAAT
34147256 TAAATTAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 2 0.05
6 33 0.89
7 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:34148196 original size:14 final size:15
Alignment explanation
Indices: 34148172--34148201 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
34148162 GGATATCAAA
34148172 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
34148187 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
34148201 A
1 A
34148202 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:34152680 original size:55 final size:55
Alignment explanation
Indices: 34152616--34152719 Score: 127
Period size: 55 Copynumber: 1.9 Consensus size: 55
34152606 ATGTTTGCTT
* * *
34152616 GGCAGGGGCGTGTCGAACGCCCGTGTTAATTTGACAGGTTCGGCCACGGGTTCAA
1 GGCACGGGCGTGTCGAACGCCCGTGCTAATTTGACAGGTTCGCCCACGGGTTCAA
* * * ** *
34152671 GGCACGGGCGTGTTGCACGCTCGTGCTGTTTTGGCAGGTTCGCCCACGG
1 GGCACGGGCGTGTCGAACGCCCGTGCTAATTTGACAGGTTCGCCCACGG
34152720 CCATGTCGCA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 40 1.00
ACGTcount: A:0.13, C:0.26, G:0.38, T:0.23
Consensus pattern (55 bp):
GGCACGGGCGTGTCGAACGCCCGTGCTAATTTGACAGGTTCGCCCACGGGTTCAA
Found at i:34165295 original size:40 final size:40
Alignment explanation
Indices: 34165236--34165483 Score: 300
Period size: 40 Copynumber: 6.2 Consensus size: 40
34165226 CAATTGAATG
* * * * **
34165236 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* * * *
34165276 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-CGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG-TT
* * *
34165316 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* *
34165356 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
*
34165396 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* * * *
34165436 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
34165476 ATATCCGG
1 ATATCCGG
34165484 TTGTATTCCG
Statistics
Matches: 180, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 179 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
Found at i:34169631 original size:79 final size:80
Alignment explanation
Indices: 34169495--34169710 Score: 265
Period size: 79 Copynumber: 2.7 Consensus size: 80
34169485 GAATGATGTC
* * * * * *
34169495 CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAA-TTCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAACCGGGTTAAGTCCCGAAGGCATTTG
34169559 TGCGAGTTACCAAA-A
65 TGCGAGTTACCAAATA
* *
34169574 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTTAAGTCCCGAAGGCATTTGT
* *
34169639 GCGAGTTACTAAATC
66 GCGAGTTACCAAATA
* * * * * *
34169654 CGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTTAAGTCCCGAAG
34169711 ACAATCGAGC
Statistics
Matches: 117, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
78 16 0.14
79 52 0.44
80 49 0.42
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTTAAGTCCCGAAGGCATTTGT
GCGAGTTACCAAATA
Found at i:34169688 original size:40 final size:40
Alignment explanation
Indices: 34169493--34169710 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
34169483 TCGAATGATG
* * *
34169493 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
34169534 TCCGGG-TCAA-TTCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
34169573 -ACGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
34169612 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
34169652 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34169693 -CCGGGCTATGTCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
34169711 ACAATCGAGC
Statistics
Matches: 156, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 6 0.04
39 37 0.24
40 103 0.66
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34169745 original size:80 final size:80
Alignment explanation
Indices: 34169574--34169736 Score: 191
Period size: 80 Copynumber: 2.0 Consensus size: 80
34169564 GTTACCAAAA
* * * * * * * * *
34169574 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGT
1 CGGGCTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGA
*
34169639 GCGAGTTACTAAATC
66 GCGAGTCACTAAATC
* * *
34169654 CGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGACAATCGA
1 CGGGCTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGA
* *
34169719 GCGAGTCGCTATATC
66 GCGAGTCACTAAATC
34169734 CGG
1 CGG
34169737 TTAAATTCCG
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
CGGGCTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGA
GCGAGTCACTAAATC
Found at i:34177694 original size:39 final size:40
Alignment explanation
Indices: 34177599--34177815 Score: 258
Period size: 40 Copynumber: 5.5 Consensus size: 40
34177589 CGAATGATGT
* * * * *
34177599 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
34177640 CCGGGTCAA-TTCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
34177679 CCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
34177718 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
34177758 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
34177798 CCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAG
34177816 ACAATCGAGC
Statistics
Matches: 155, Mismatches: 19, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
39 55 0.35
40 93 0.60
41 7 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:34177840 original size:80 final size:80
Alignment explanation
Indices: 34177690--34177841 Score: 187
Period size: 80 Copynumber: 1.9 Consensus size: 80
34177680 CGGGTTAAGT
* * * * * * * *
34177690 CCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACTA
34177755 AATCCGGGCTAATTC
66 AATCCGGGCTAATTC
* * * *
34177770 CCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGACAATCGAGCGAGTCGCTA
1 CCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACTA
*
34177835 TATCCGG
66 AATCCGG
34177842 TTAAATTCCG
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 59 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCGAGCGAGTCACTA
AATCCGGGCTAATTC
Found at i:34177849 original size:80 final size:79
Alignment explanation
Indices: 34177665--34177855 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 79
34177655 AGGCATTTGT
* * * * * * * *
34177665 GCGAGTTACCAAAACCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTC
1 GCGAGTCACTAAATCCGGGCTAATTCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTC
* * * *
34177730 CCGAAGGCATTTGT
66 CCGAAGACAATCGA
* * * *
34177744 GCGAGTTACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGT
1 GCGAGTCACTAAATCCGGGCTAATT-CCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGT
34177809 CCCGAAGACAATCGA
65 CCCGAAGACAATCGA
* * *
34177824 GCGAGTCGCTATATCC-GGTTAAATTCCGAAGG
1 GCGAGTCACTAAATCCGGGCT-AATTCCGAAGG
34177856 TACGTGATTC
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
79 31 0.34
80 61 0.66
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (79 bp):
GCGAGTCACTAAATCCGGGCTAATTCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTC
CCGAAGACAATCGA
Found at i:34194158 original size:29 final size:29
Alignment explanation
Indices: 34194123--34194196 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
34194113 GTTGTGAGAT
* *
34194123 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
34194152 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
34194181 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34194197 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:34195930 original size:43 final size:40
Alignment explanation
Indices: 34195806--34195943 Score: 197
Period size: 40 Copynumber: 3.4 Consensus size: 40
34195796 GGGGTGGTAC
**
34195806 ACTTAGCCCGGATATAGTCACTAGCATGAATGCCTTCGGG
1 ACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGG
34195846 ACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGG
1 ACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGG
* *
34195886 ACTTAGCCTGGGTATAG-CAACTACTCGCACAAATGCCTTCGGG
1 ACTTAGCCCGGATATAGTC-ACTA---GCACAAATGCCTTCGGG
34195929 ACTTAGCCCGGATAT
1 ACTTAGCCCGGATAT
34195944 CATCCGAATA
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 57 0.65
43 30 0.34
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGG
Found at i:34204011 original size:40 final size:40
Alignment explanation
Indices: 34203933--34204153 Score: 274
Period size: 40 Copynumber: 5.5 Consensus size: 40
34203923 ACCCAAGTAT
* *
34203933 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
34203972 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
34204012 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
34204052 CTT--GGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
34204093 CTTTGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
34204133 CTTC-GGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
34204154 CATCCGAATA
Statistics
Matches: 160, Mismatches: 13, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
37 1 0.01
38 22 0.14
39 28 0.17
40 74 0.46
41 14 0.09
43 21 0.13
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:34204111 original size:81 final size:79
Alignment explanation
Indices: 34203933--34204153 Score: 279
Period size: 81 Copynumber: 2.8 Consensus size: 79
34203923 ACCCAAGTAT
* * *
34203933 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTC-GGACTTAGCCCGGATATAG
**
34203996 TCACTAGCATGAATGC
64 TCACTAGCACAAATGC
*
34204012 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTT-GGACTTAGCCCGGGTATAG-C
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGACTTAGCCCGGATATAGTC
34204075 AACTACTCGCACAAATGC
66 -ACTA---GCACAAATGC
* * *
34204093 CTTTGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGACTTAGCCCGGATAT
34204154 CATCCGAATA
Statistics
Matches: 125, Mismatches: 10, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
77 1 0.01
78 21 0.17
79 12 0.10
80 26 0.21
81 49 0.39
82 16 0.13
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:34204441 original size:14 final size:14
Alignment explanation
Indices: 34204424--34204450 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34204414 TCATGACTTA
34204424 ATCAAATCATAAAT
1 ATCAAATCATAAAT
34204438 ATCAAATCATAAA
1 ATCAAATCATAAA
34204451 CTAAGTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (14 bp):
ATCAAATCATAAAT
Found at i:34215315 original size:21 final size:22
Alignment explanation
Indices: 34215266--34215315 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
34215256 AGAAAGATTA
34215266 AACCCAAATCAAAGTGGCTATC
1 AACCCAAATCAAAGTGGCTATC
34215288 AACCCAAATCAAAGTGGCTATC
1 AACCCAAATCAAAGTGGCTATC
34215310 -ACCCAA
1 AACCCAA
34215316 GACTCTGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.42, C:0.30, G:0.12, T:0.16
Consensus pattern (22 bp):
AACCCAAATCAAAGTGGCTATC
Found at i:34226966 original size:79 final size:79
Alignment explanation
Indices: 34226865--34227012 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 79
34226855 GCACGTGTGC
* * *
34226865 GACAGCCCTAATGTGACCCTAGTCGGGAAGTGGTTTCAGGACTACAAAACCGAGTCATAAAAATA
1 GACAGCCCTAATGTGACCCTAGTCAGAAAGTGGTTTCAGGACCACAAAACCGAGTCATAAAAATA
34226930 ATTAGCTGTCATGT
66 ATTAGCTGTCATGT
* * * *
34226944 GACAGCCCTAAAT-TGACCCTAGTCAGAAAGTGGTTTCGGGACCACGAAACCGAGTCTTATAAAT
1 GACAGCCCT-AATGTGACCCTAGTCAGAAAGTGGTTTCAGGACCACAAAACCGAGTCATAAAAAT
34227008 AATTA
65 AATTA
34227013 AAGGTTATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 58 0.95
80 3 0.05
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (79 bp):
GACAGCCCTAATGTGACCCTAGTCAGAAAGTGGTTTCAGGACCACAAAACCGAGTCATAAAAATA
ATTAGCTGTCATGT
Found at i:34227967 original size:2 final size:2
Alignment explanation
Indices: 34227960--34227989 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
34227950 GCTCTTGCAC
34227960 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34227990 GTTTGCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34228790 original size:40 final size:40
Alignment explanation
Indices: 34228691--34228881 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
34228681 TGGATGATAA
* * * * **
34228691 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
34228731 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
34228770 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
34228810 CCGGGCTCAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
34228850 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
34228882 AGCTATATCC
Statistics
Matches: 136, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 33 0.24
40 101 0.74
41 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:34235990 original size:2 final size:2
Alignment explanation
Indices: 34235983--34236014 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34235973 GCTCTTGCAC
34235983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34236015 GTTTGCACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34236816 original size:40 final size:40
Alignment explanation
Indices: 34236718--34236960 Score: 312
Period size: 40 Copynumber: 6.1 Consensus size: 40
34236708 TGGATGATAA
* * * * **
34236718 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
34236758 TCGGGC-AAGTCCCTAAGGCATTTGTGCAAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
34236797 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
34236837 CCGGGCTAAGTCCCGAAGGAATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
34236877 CCGGGCTCAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
34236917 CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAAT
34236957 CCGG
1 CCGG
34236961 TTAAATTCCG
Statistics
Matches: 178, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.20
40 141 0.79
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:34243869 original size:27 final size:27
Alignment explanation
Indices: 34243831--34244132 Score: 334
Period size: 27 Copynumber: 11.1 Consensus size: 27
34243821 AGGCCAAAAT
*
34243831 AATGACCAAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
*
34243858 AATGACCGAAATACCCTCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * *
34243885 AATGATCGAAATACCCCCACATGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
34243912 AATGACCGAAATACCCCCCATAGGGTAA
1 AATGACCGAAATA-CCCCCATAGGGTAA
* * * * *
34243940 CATGATCAAAATACCCCAATAGGCTAA
1 AATGACCGAAATACCCCCATAGGGTAA
** * *
34243967 AATGATTGAAATACCTCCATAGGATAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
34243994 AATGATCGAAATACCTCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
34244021 AATGACTGAAATACCCCAATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
34244048 AATGACCAAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * * *
34244075 AATGGCCAAAATACCCCTATAAGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * ** *
34244102 AATGACGGTAATACCCCTGTAAGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
34244129 AATG
1 AATG
34244133 TCTGATTTGC
Statistics
Matches: 238, Mismatches: 36, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 216 0.91
28 22 0.09
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAGGGTAA
Found at i:34244032 original size:109 final size:108
Alignment explanation
Indices: 34243831--34244106 Score: 360
Period size: 109 Copynumber: 2.5 Consensus size: 108
34243821 AGGCCAAAAT
* *
34243831 AATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAA
1 AATGACCAAAATACCCCAATAGGGTAAAATGACCGAAATACCCTCATAGGATAAAATGATCGAAA
* *
34243896 TACCCCCACATGGTAAAATGACCGAAATACCCCCCATAGGGTAA
66 TACCCCCACAGGGTAAAATGACCGAAATA-CCCCAATAGGGTAA
* * * **
34243940 CATGATCAAAATACCCCAATAGGCTAAAATGATTGAAATA-CCTCCATAGGATAAAATGATCGAA
1 AATGACCAAAATACCCCAATAGGGTAAAATGACCGAAATACCCT-CATAGGATAAAATGATCGAA
* * *
34244004 ATACCTCCATAGGGTAAAATGACTGAAATACCCCAATAGGGTAA
65 ATACCCCCACAGGGTAAAATGACCGAAATACCCCAATAGGGTAA
* * *
34244048 AATGACCAAAATACCCCTATAGGGTAAAATGGCCAAAATACCC-CTATAAGG-TAAAATGA
1 AATGACCAAAATACCCCAATAGGGTAAAATGACCGAAATACCCTC-AT-AGGATAAAATGA
34244107 CGGTAATACC
Statistics
Matches: 143, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
107 1 0.01
108 58 0.41
109 84 0.59
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (108 bp):
AATGACCAAAATACCCCAATAGGGTAAAATGACCGAAATACCCTCATAGGATAAAATGATCGAAA
TACCCCCACAGGGTAAAATGACCGAAATACCCCAATAGGGTAA
Found at i:34245641 original size:53 final size:53
Alignment explanation
Indices: 34245458--34245665 Score: 195
Period size: 54 Copynumber: 3.9 Consensus size: 53
34245448 CATTAGGGTT
* * * * * *
34245458 TAAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGCTAAGTTTTACAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGG
* * * * * * * *
34245512 TAAGGAAATCATGTAAGACCATGTCAATACATGGCATTGATAAACTACAATAAGG
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGG
* * *
34245567 -AA-AATATCCTATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGG
1 TAAGGATA-CC-ATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGG
*
34245620 TAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
34245666 TAAAAAGGAA
Statistics
Matches: 122, Mismatches: 26, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
53 41 0.34
54 45 0.37
55 36 0.30
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (53 bp):
TAAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGG
Found at i:34248077 original size:43 final size:43
Alignment explanation
Indices: 34248016--34248230 Score: 358
Period size: 43 Copynumber: 5.0 Consensus size: 43
34248006 CACTATTCCG
* *
34248016 AGGCCCGAATACATATCACCGGCACGAAGCCTGCTAGGCACGA
1 AGGCCCGAATACACATCATCGGCACGAAGCCTGCTAGGCACGA
* * *
34248059 AGGCCCGAATACATATCACCGGCACGAAGCTTGCTAGGCACGA
1 AGGCCCGAATACACATCATCGGCACGAAGCCTGCTAGGCACGA
* *
34248102 AGGCCCAAATACACATCATCGGCACGAAGCCTACTAGGCACGA
1 AGGCCCGAATACACATCATCGGCACGAAGCCTGCTAGGCACGA
*
34248145 AGGCCCGAATACACATCATTGGCACGAAGCCTGCTAGGCACGA
1 AGGCCCGAATACACATCATCGGCACGAAGCCTGCTAGGCACGA
34248188 AGGCCCGAATACACATCATCGGCACGAAGCCTGCTAGGCACGA
1 AGGCCCGAATACACATCATCGGCACGAAGCCTGCTAGGCACGA
34248231 GGACATTATA
Statistics
Matches: 162, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 162 1.00
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.13
Consensus pattern (43 bp):
AGGCCCGAATACACATCATCGGCACGAAGCCTGCTAGGCACGA
Found at i:34253633 original size:40 final size:40
Alignment explanation
Indices: 34253578--34253745 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
34253568 TGAATGATAC
* *
34253578 CCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
*
34253618 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATAT
* * ** *
34253658 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
* * ** *
34253698 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
34253738 CC-GGCTAA
1 CCGGGCTAA
34253746 ATTCCGAAGA
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 99 0.93
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
Found at i:34261610 original size:40 final size:40
Alignment explanation
Indices: 34261555--34261702 Score: 190
Period size: 40 Copynumber: 3.7 Consensus size: 40
34261545 TGAATGATAC
* *
34261555 CCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
*
34261595 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATAT
* * ** *
34261635 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
* *
34261675 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
34261703 TTGTGGTTAT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 92 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATAT
Found at i:34261712 original size:80 final size:80
Alignment explanation
Indices: 34261555--34261722 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 80
34261545 TGAATGATAC
* * ** *
34261555 CCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCG
* *
34261620 TGCGAGTTGTTATAT
66 TGCGAGTGGTTATAA
* * *
34261635 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGC-ATTC
**
34261699 GTGCTTGTGGTTATAA
65 GTGCGAGTGGTTATAA
34261715 CC-GGCTAA
1 CCGGGCTAA
34261723 ATTCCGAAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
79 6 0.08
80 66 0.88
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTGGTTATAA
Found at i:34264658 original size:31 final size:31
Alignment explanation
Indices: 34264619--34264677 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
34264609 TCCGAGCCTT
34264619 GGGGAAAAATCGTAA-TTTTGTA-AATGTTAG
1 GGGGAAAAAT-GTAAGTTTTGTATAATGTTAG
34264649 GGGGCAAAAATGTAAGTTTTGTATAATGT
1 GGGG-AAAAATGTAAGTTTTGTATAATGT
34264678 GATTTTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 8 0.31
31 13 0.50
32 5 0.19
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (31 bp):
GGGGAAAAATGTAAGTTTTGTATAATGTTAG
Found at i:34265203 original size:67 final size:68
Alignment explanation
Indices: 34265062--34265218 Score: 271
Period size: 67 Copynumber: 2.3 Consensus size: 68
34265052 ATACTATATA
34265062 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
34265127 AAT
66 AAT
*
34265130 GTAGCTAGGTCACATTTGTGATACGGGATGTATCCCA-GTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
*
34265194 GAT
66 AAT
* *
34265197 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
34265219 TCCAAGTGAA
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 48 0.57
68 36 0.43
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.24
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
AAT
Found at i:34269571 original size:68 final size:66
Alignment explanation
Indices: 34269499--34269670 Score: 238
Period size: 68 Copynumber: 2.5 Consensus size: 66
34269489 CATCATGTGT
* * *
34269499 ACAAGA-AGGCTACGAGATACTATATAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAGA-GCTACGAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACGGGATGTATCCAAT
34269563 GTAG
63 GTAG
34269567 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCAATG
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCAATG
34269632 TAG
64 TAG
*
34269635 ACAAGAGAGCTACGTGAGAGATAGATGTAGCTAGGT
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGT
34269671 TGCATGAGTG
Statistics
Matches: 97, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
68 87 0.90
69 5 0.05
70 5 0.05
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCAATGTA
G
Found at i:34269682 original size:68 final size:68
Alignment explanation
Indices: 34269525--34269670 Score: 274
Period size: 68 Copynumber: 2.1 Consensus size: 68
34269515 ATACTATATA
*
34269525 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCAATGTAGACAAGAGAGCTACGTGAGAGATA
34269590 AAT
66 AAT
34269593 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCAATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCAATGTAGACAAGAGAGCTACGTGAGAGATA
*
34269658 GAT
66 AAT
34269661 GTAGCTAGGT
1 GTAGCTAGGT
34269671 TGCATGAGTG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 76 1.00
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.24
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCAATGTAGACAAGAGAGCTACGTGAGAGATA
AAT
Found at i:34276588 original size:20 final size:19
Alignment explanation
Indices: 34276562--34276607 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
34276552 TTAAGTCAGC
* *
34276562 AATTTTTTATTTTTATTTT
1 AATTTTTTATTTTCAATTT
*
34276581 AATATTTTTGTTTTCAATTT
1 AAT-TTTTTATTTTCAATTT
34276601 AATTTTT
1 AATTTTT
34276608 ACATTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
AATTTTTTATTTTCAATTT
Found at i:34282039 original size:49 final size:49
Alignment explanation
Indices: 34281909--34282041 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 49
34281899 GTACATTAAA
* * * * *
34281909 GTCAATGCCGTGTCCTATACAGGTCTTACGCTAACTTTCATATATCGAG
1 GTCAATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAG
* * * * *
34281958 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATC-AG
1 GTCAATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAG
*
34282006 TGTCAATGCCATGTCCTAGACAAGTCTTACACTGAC
1 -GTCAATGCCATGTCCTAGACAGGTCTTACACTGAC
34282042 ACACAACAAG
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
48 2 0.03
49 66 0.97
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (49 bp):
GTCAATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCGAG
Found at i:34282167 original size:46 final size:45
Alignment explanation
Indices: 34282099--34282232 Score: 164
Period size: 46 Copynumber: 2.9 Consensus size: 45
34282089 TATATCCTGA
* *
34282099 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAA-T
1 GGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCTCA--T-AAGT
**
34282146 -GCCAATGCATGTCCTGGACATGTCTTACACTGGCTCTCATAATGT
1 GGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAA-GT
* *
34282191 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATA
1 GGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCTCATA
34282233 CCACTTAATG
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
43 2 0.03
44 1 0.01
45 1 0.01
46 72 0.95
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GGCCAATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAGT
Found at i:34283061 original size:31 final size:31
Alignment explanation
Indices: 34283025--34283089 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
34283015 AGAATGGCTG
*
34283025 AAAATTTCGGTGGAGGAGAAAGGAAAATGAA
1 AAAATTTCGATGGAGGAGAAAGGAAAATGAA
34283056 AAAATTTCGATGGAGGAGAAAGGAAAATGAA
1 AAAATTTCGATGGAGGAGAAAGGAAAATGAA
34283087 AAA
1 AAA
34283090 GATGAAGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.03, G:0.29, T:0.15
Consensus pattern (31 bp):
AAAATTTCGATGGAGGAGAAAGGAAAATGAA
Found at i:34289302 original size:30 final size:30
Alignment explanation
Indices: 34289232--34289302 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
34289222 GACACTAAAA
*
34289232 CAAAATTAAAAGATCCTATACATGCCATGTT
1 CAAAA-TAAAAGATCCTATACATGCCATCTT
* *
34289263 CAAATTAAAAGATGCTATACATGCCATACTT
1 CAAAATAAAAGATCCTATACATGCCAT-CTT
34289294 -AAAATAAAA
1 CAAAATAAAA
34289303 TAACTAACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 29 0.83
31 6 0.17
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (30 bp):
CAAAATAAAAGATCCTATACATGCCATCTT
Found at i:34289984 original size:48 final size:46
Alignment explanation
Indices: 34289922--34290081 Score: 146
Period size: 46 Copynumber: 3.4 Consensus size: 46
34289912 TGACGCCATA
* *
34289922 TCCCAAACAGGTCTTACACTAGCTTGTATATCCCGAGGCTGATGCATG
1 TCCCAAACATGTCTTACACTAGCTT-TATAT-CCGAGGCCGATGCATG
* * * *
34289970 TCCCAAACATGTCTTATACTAGCTCT-CATCTCGATGCCGATGCATG
1 TCCCAAACATGTCTTACACTAGCTTTATATC-CGAGGCCGATGCATG
* * * * *
34290016 TTCCAGACATGTCTTACACTGGCTCTCATAAT--GTGGCCGATGCATG
1 TCCCAAACATGTCTTACACTAGCT-TTAT-ATCCGAGGCCGATGCATG
*
34290062 TCCCAGACATGTCTTACACT
1 TCCCAAACATGTCTTACACT
34290082 GGCTCACATA
Statistics
Matches: 92, Mismatches: 16, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 66 0.72
47 1 0.01
48 22 0.24
49 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
TCCCAAACATGTCTTACACTAGCTTTATATCCGAGGCCGATGCATG
Found at i:34290026 original size:46 final size:46
Alignment explanation
Indices: 34289962--34290091 Score: 174
Period size: 46 Copynumber: 2.8 Consensus size: 46
34289952 TCCCGAGGCT
* * * *
34289962 GATGCATGTCCCAAACATGTCTTATACTAGCTCTCAT-CTCGAT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAT-G-TGGCC
*
34290008 GATGCATGTTCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
*
34290054 GATGCATGTCCCAGACATGTCTTACACTGGCTCACATA
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATA
34290092 CCACCCAATG
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 1 0.01
46 73 0.97
47 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:34293499 original size:19 final size:20
Alignment explanation
Indices: 34293459--34293499 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
34293449 TGATATTATG
34293459 GTTTTGAGATTGAATGATAT
1 GTTTTGAGATTGAATGATAT
* *
34293479 GTTTTGATATTGGAT-ATAT
1 GTTTTGAGATTGAATGATAT
34293498 GT
1 GT
34293500 ATATTTGGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (20 bp):
GTTTTGAGATTGAATGATAT
Found at i:34298025 original size:19 final size:18
Alignment explanation
Indices: 34298001--34298045 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
34297991 TGATAAAAAT
34298001 AATATATGATGCAAT-TGAA
1 AATATATG-TG-AATATGAA
34298020 AATATATGTGAATATGAA
1 AATATATGTGAATATGAA
34298038 AAGTATAT
1 AA-TATAT
34298046 TCGGCCTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.12
18 8 0.33
19 13 0.54
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.33
Consensus pattern (18 bp):
AATATATGTGAATATGAA
Found at i:34298139 original size:22 final size:22
Alignment explanation
Indices: 34298114--34298159 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
34298104 TGAATGCATA
34298114 AGTATAATTGCTTTTATATAAT
1 AGTATAATTGCTTTTATATAAT
34298136 AGTATAATTGCTTTTATATAAT
1 AGTATAATTGCTTTTATATAAT
34298158 AG
1 AG
34298160 CATGACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
AGTATAATTGCTTTTATATAAT
Found at i:34304391 original size:55 final size:53
Alignment explanation
Indices: 34304254--34304454 Score: 208
Period size: 53 Copynumber: 3.7 Consensus size: 53
34304244 TTTTCCTTTT
* * *
34304254 TGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGGATCCTTGCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
* * *
34304307 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTCCATGGGA-CCTTCGCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT-GCCTTA
*** *
34304360 TAGTAACTCACCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTA
1 T-G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
* * * * *
34304415 TAGAACTTATCAATGGCATG-CCTAAGCATGGTCTTACATG
1 T-GAACTCACCAATGCCATGTCTTGA-CATGGTCTTACATG
34304455 ATATCCTTAT
Statistics
Matches: 125, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.03
53 46 0.37
54 29 0.23
55 43 0.34
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.33
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA
Found at i:34304494 original size:47 final size:47
Alignment explanation
Indices: 34304441--34304562 Score: 190
Period size: 47 Copynumber: 2.6 Consensus size: 47
34304431 CATGCCTAAG
* * *
34304441 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTTCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
34304488 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* * *
34304535 CATAGTCTTGCATGGTATCATTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
34304563 GTGGCAATGC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:34307747 original size:54 final size:53
Alignment explanation
Indices: 34307630--34307805 Score: 194
Period size: 54 Copynumber: 3.3 Consensus size: 53
34307620 GAATACTTTA
* * * *
34307630 GTTTACCAAATTACTGAAATATCCTC-AGTTGTAAAATTACCAAAGTACCCTC
1 GTTTACAAAATTACCGAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTC
* * *
34307682 GGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTC
1 -GTTTACAAAATTACCGAAATATCCTCGACTTGTAAAATTATC-AAAGTACCCTC
* ** * *
34307736 AGTTTGCAAAATTATTGAAATACCCTCGACATGTAAAATTATCAAAGTACCCTC
1 -GTTTACAAAATTACCGAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTC
34307790 GATTTACAAAATTACC
1 G-TTTACAAAATTACC
34307806 ATTTTACCCT
Statistics
Matches: 101, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
53 26 0.26
54 72 0.71
55 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (53 bp):
GTTTACAAAATTACCGAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTC
Found at i:34307773 original size:27 final size:27
Alignment explanation
Indices: 34307637--34307803 Score: 117
Period size: 27 Copynumber: 6.2 Consensus size: 27
34307627 TTAGTTTACC
* * *
34307637 AAATTACTGAAATATCCTC-AGTTGTA
1 AAATTATTGAAATACCCTCGATTTGTA
** * *
34307663 AAATTA-CCAAAGTACCCTCGGTTTATA
1 AAATTATTGAAA-TACCCTCGATTTGTA
*** *
34307690 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTATTGAAATACCCTCGATTTGTA
* *
34307717 AAATTATCGAAATACCCTC-AGTTTGCA
1 AAATTATTGAAATACCCTCGA-TTTGTA
**
34307744 AAATTATTGAAATACCCTCGACATGTA
1 AAATTATTGAAATACCCTCGATTTGTA
* **
34307771 AAATTA-TCAAAGTACCCTCGATTTACA
1 AAATTATTGAAA-TACCCTCGATTTGTA
34307798 AAATTA
1 AAATTA
34307804 CCATTTTACC
Statistics
Matches: 113, Mismatches: 22, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.03
26 17 0.15
27 87 0.77
28 6 0.05
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTATTGAAATACCCTCGATTTGTA
Found at i:34307813 original size:27 final size:27
Alignment explanation
Indices: 34307783--34308020 Score: 296
Period size: 27 Copynumber: 8.8 Consensus size: 27
34307773 ATTATCAAAG
*
34307783 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
**
34307810 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
34307837 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
34307864 TACCCTCGATTTACAGAGTTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
34307891 TACCCTTGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
34307918 TACCCTTGATTTATAGAATTACCGTTC
1 TACCCTCGATTTACAGAATTACCATTT
* *
34307945 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
34307972 TACCCTCGATTTAGAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
34307999 TACCCTCGATTTAGAAAATTAC
1 TACCCTCGATTTACAGAATTAC
34308021 TAAAACACCT
Statistics
Matches: 189, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 189 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:34307841 original size:81 final size:80
Alignment explanation
Indices: 34307756--34308183 Score: 297
Period size: 81 Copynumber: 5.3 Consensus size: 80
34307746 ATTATTGAAA
** * *
34307756 TACCCTCGACATGTAAAATTATCAAAGTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTGTAAAATTA-CAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
34307821 TACAGAATTACTGTTT
65 TACAGAATTACTGTTT
** *** * * * * *
34307837 TACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAGAGTTACTATTTTACCCTTGAAT
1 TACCCTCGATTTGTAAAATTAC-AAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
* *
34307902 TACAAAATTACTATTT
65 TACAGAATTACTGTTT
* * * **** *
34307918 TACCCTTGATTTATAGAATTACCGTTCTACCCTTGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTGTAAAATTA-CAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
* **
34307983 TAGAGAATTACCATTT
65 TACAGAATTACTGTTT
* * * * *** *
34307999 TACCCTCGATTTAG-AAAATTACTAAA--ACACCTCTGGTTTGTAAAATTACTAAAATACCCCCT
1 TACCCTCGATTT-GTAAAATTAC-AAAGTAC-CCTC-GATTTATAGAATTACCATTTTACCCTC-
** * ***
34308061 GATTTGTAAAATTACTGAAA
61 GATTTACAGAATTACTGTTT
* * * * *
34308081 TACCCTCGACTGGTAAAAATTACCAAAGTACCCTTGATTTATAGAATTA-CTTTTTACCCTTGAT
1 TACCCTCGATTTGT-AAAATTA-CAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGAT
34308145 TTACAGAATTACTGTTT
64 TTACAGAATTACTGTTT
* **
34308162 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTGTAAAATTAC
34308184 CGTTTTACCC
Statistics
Matches: 260, Mismatches: 75, Indels: 26
0.72 0.21 0.07
Matches are distributed among these distances:
79 3 0.01
80 12 0.05
81 190 0.73
82 28 0.11
83 21 0.08
84 4 0.02
85 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (80 bp):
TACCCTCGATTTGTAAAATTACAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTT
ACAGAATTACTGTTT
Found at i:34308075 original size:28 final size:28
Alignment explanation
Indices: 34308013--34308085 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
34308003 CTCGATTTAG
* * *
34308013 AAAATTACTAAAACA-CCTCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
34308040 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
*
34308068 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
34308086 TCGACTGGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 14 0.34
28 27 0.66
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGATTTGT
Found at i:34308099 original size:28 final size:28
Alignment explanation
Indices: 34308038--34308113 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
34308028 CCTCTGGTTT
* *
34308038 GTAAAATTACTAAAATACCCCCTGATTT
1 GTAAAATTACTAAAATACCCCCTGACTG
* *
34308066 GTAAAATTACTGAAATACCCTC-GACTG
1 GTAAAATTACTAAAATACCCCCTGACTG
* *
34308093 GTAAAAATTACCAAAGTACCC
1 GT-AAAATTACTAAAATACCC
34308114 TTGATTTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 5 0.12
28 35 0.88
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (28 bp):
GTAAAATTACTAAAATACCCCCTGACTG
Found at i:34308170 original size:27 final size:27
Alignment explanation
Indices: 34308109--34308199 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
34308099 ATTACCAAAG
*
34308109 TACCCTTGATTTATAGAATTACT-TTT
1 TACCCTTGATTTACAGAATTACTGTTT
34308135 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACTGTTT
* *
34308162 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTTGATTTACAGAATTACTGTTT
*
34308189 TACCCTCGATT
1 TACCCTTGATT
34308200 GTGAAATTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 22 0.37
27 38 0.63
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (27 bp):
TACCCTTGATTTACAGAATTACTGTTT
Found at i:34308323 original size:26 final size:27
Alignment explanation
Indices: 34308204--34308503 Score: 315
Period size: 27 Copynumber: 11.3 Consensus size: 27
34308194 TCGATTGTGA
*
34308204 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * ** *
34308231 AATTACCAAAACACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
** *
34308258 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
34308285 AATTACTAAAATA-CCTTAGTAAGGTAG
1 AATTACCGAAATACCCCT-GTAGGGTAG
34308312 AATTACCG-AATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
34308338 AATTATCGAAATACCCCTGT-GGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
34308364 AATTACCGAAATACCCCTCTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
34308391 AATTATCGCAATA-CCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
34308417 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
34308444 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
34308471 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
34308497 AATTACC
1 AATTACC
34308504 ATTTTGCCCC
Statistics
Matches: 230, Mismatches: 36, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
26 88 0.38
27 141 0.61
28 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:34308340 original size:53 final size:55
Alignment explanation
Indices: 34308204--34308502 Score: 323
Period size: 53 Copynumber: 5.6 Consensus size: 55
34308194 TCGATTGTGA
* * * ** *
34308204 AATTACCGAAATACCCCTATAGGGTAGAATTACCAAAACACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTAGTAGGGTAG
** * * *
34308258 AATTACTAAAATACCCTTGTAGGGTAGAATTACTAAAATA-CCTTAGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTAGTAGGGTAG
*
34308312 AATTACCG-AATACCCCTGTAGGGTAGAATTA-TCGAAATACCCCT-GT-GGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACT-AAAATACCCCTAGTAGGGTAG
* **
34308364 AATTACCGAAATACCCCTCTAGGGTAGAATTA-TCGCAATA-CCCTA-TAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACT-AAAATACCCCTAGTAGGGTAG
*
34308417 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCT-GTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTAGTAGGGTAG
* * * *
34308471 AATTACCGAGATA-CCTTGTGGGGTAAAATTAC
1 AATTACCGAAATACCCCTGTAGGGTAGAATTAC
34308503 CATTTTGCCC
Statistics
Matches: 210, Mismatches: 26, Indels: 19
0.82 0.10 0.07
Matches are distributed among these distances:
52 19 0.09
53 121 0.58
54 70 0.33
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (55 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTAGTAGGGTAG
Found at i:34308837 original size:67 final size:67
Alignment explanation
Indices: 34308729--34308882 Score: 281
Period size: 67 Copynumber: 2.3 Consensus size: 67
34308719 GAGGAAGCGT
34308729 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATGTTCTGGTGACTTCGTCACAA
34308794 TA
66 TA
* *
34308796 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTTGCCACATATATTTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATGTTCTGGTGACTTCGTCACAA
34308861 TA
66 TA
*
34308863 TTTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
34308883 TTCTGTGGTG
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 84 1.00
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATGTTCTGGTGACTTCGTCACAA
TA
Done.