Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 47 of 73
Found at i:11296897 original size:135 final size:135
Alignment explanation
Indices: 11296655--11297165 Score: 708
Period size: 135 Copynumber: 3.9 Consensus size: 135
11296645 AGTCCTTCGG
* * * * *
11296655 GCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCA
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* *
11296720 TGATGATTAAATCCTTAGAGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAG
66 TGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAG
11296785 TAAGT
131 TAAGT
*
11296790 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCA
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
11296855 TGATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATC--
66 TGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAG
11296918 --A--
131 TAAGT
*
11296919 G----C---AAGTCTTTCGAGCATGATGATGAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCA
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
*
11296977 TGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAATCCCATCAG
66 TGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAG
11297042 TAAGT
131 TAAGT
* * * * *
11297047 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCTTTCGGGTCAGCAGTAAGCCTTCCGAGCA
1 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
* * ** ** **
11297112 TGGTGATTAAGTCCTTCGGGCCA-TCCTAAGCCTTCACAAAAGAGTAGTGAAGCA
66 TGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCA
11297166 GAATCACACC
Statistics
Matches: 336, Mismatches: 27, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
122 115 0.34
125 1 0.00
126 1 0.00
128 1 0.00
129 1 0.00
131 1 0.00
132 1 0.00
134 27 0.08
135 188 0.56
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (135 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCA
TGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAG
TAAGT
Found at i:11296946 original size:22 final size:21
Alignment explanation
Indices: 11296921--11296983 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
11296911 ACCCATCAGC
11296921 AAGTCTTTCGAGCATGATGAT
1 AAGTCTTTCGAGCATGATGAT
* *
11296942 GAAGTCCTTCGAGCCATCA-G-T
1 -AAGTCTTTCGAG-CATGATGAT
11296963 AAGTCTTTCGAGCATGATGAT
1 AAGTCTTTCGAGCATGATGAT
11296984 TAAATCCTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
19 4 0.12
20 12 0.35
21 2 0.06
22 12 0.35
23 4 0.12
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (21 bp):
AAGTCTTTCGAGCATGATGAT
Found at i:11296972 original size:20 final size:20
Alignment explanation
Indices: 11296913--11296975 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
11296903 TGAAGCAAAC
*
11296913 CCATCAGCAAGTCTTTCGAG
1 CCATCAGTAAGTCTTTCGAG
* *
11296933 -CATGATGATGAAGTCCTTCGAG
1 CCATCA-G-T-AAGTCTTTCGAG
11296955 CCATCAGTAAGTCTTTCGAG
1 CCATCAGTAAGTCTTTCGAG
11296975 C
1 C
11296976 ATGATGATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 4 0.12
20 13 0.38
21 1 0.03
22 12 0.35
23 4 0.12
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (20 bp):
CCATCAGTAAGTCTTTCGAG
Found at i:11296980 original size:257 final size:256
Alignment explanation
Indices: 11296664--11297165 Score: 797
Period size: 257 Copynumber: 2.0 Consensus size: 256
11296654 GGCCATCAAT
* * *
11296664 AAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGATTA
1 AAGTCTTTCGAGCATGATGATGAAATCCTTAGAGCCATCAGTAAGTCTTTCGAGCATGATGATTA
11296729 AATCCTTAGAGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAGTAAGTGCCA
66 AATCCTTAGAGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAGTAAGTGCCA
* * *
11296794 TCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGAT
131 TCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCAGCAATAAGCCTTCCGAGCATGAT
** **
11296859 GATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAGC
196 GATTAAATCCTTCGGGAAA-TCCTAAGCCTTCACAAAAGAGTAGTGAAGCAAACCCATCAGC
* *
11296921 AAGTCTTTCGAGCATGATGATGAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGATTA
1 AAGTCTTTCGAGCATGATGATGAAATCCTTAGAGCCATCAGTAAGTCTTTCGAGCATGATGATTA
* * *
11296986 AATCCTTCGGGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAATCCCATCAGTAAGTGCCA
66 AATCCTTAGAGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAGTAAGTGCCA
* * * *
11297051 TCAGTAAGTCTTTCGAGCATGATGATGAAGTCTTTCGGGTCAGCAGTAAGCCTTCCGAGCATGGT
131 TCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCAGCAATAAGCCTTCCGAGCATGAT
* **
11297116 GATTAAGTCCTTCGGGCCATCCTAAGCCTTCACAAAAGAGTAGTGAAGCA
196 GATTAAATCCTTCGGGAAATCCTAAGCCTTCACAAAAGAGTAGTGAAGCA
11297166 GAATCACACC
Statistics
Matches: 223, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
256 27 0.12
257 196 0.88
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (256 bp):
AAGTCTTTCGAGCATGATGATGAAATCCTTAGAGCCATCAGTAAGTCTTTCGAGCATGATGATTA
AATCCTTAGAGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAGTAAGTGCCA
TCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCAGCAATAAGCCTTCCGAGCATGAT
GATTAAATCCTTCGGGAAATCCTAAGCCTTCACAAAAGAGTAGTGAAGCAAACCCATCAGC
Found at i:11297008 original size:122 final size:122
Alignment explanation
Indices: 11296791--11297046 Score: 467
Period size: 122 Copynumber: 2.1 Consensus size: 122
11296781 TCAGTAAGTG
*
11296791 CCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCAT
1 CCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCAT
11296856 GATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAAC
66 GATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAAC
* *
11296913 CCATCAGCAAGTCTTTCGAGCATGATGATGAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCAT
1 CCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCAT
* *
11296978 GATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAATC
66 GATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAAC
11297035 CCATCAGTAAGT
1 CCATCAGTAAGT
11297047 GCCATCAGTA
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
122 128 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (122 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGAGCCATCAATAAGTCTTTCGAGCAT
GATGATTAAATCCTTCGGGAAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAAC
Found at i:11297053 original size:13 final size:13
Alignment explanation
Indices: 11297035--11297059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11297025 TGAAGCAATC
11297035 CCATCAGTAAGTG
1 CCATCAGTAAGTG
11297048 CCATCAGTAAGT
1 CCATCAGTAAGT
11297060 CTTTCGAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:11297111 original size:42 final size:42
Alignment explanation
Indices: 11297052--11297131 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
11297042 TAAGTGCCAT
* * *
11297052 CAGTAAGTCTTTCGAGCATGATGATGAAGTCTTTCGGGTCAG
1 CAGTAAGCCTTCCGAGCATGATGATGAAGTCCTTCGGGTCAG
* *
11297094 CAGTAAGCCTTCCGAGCATGGTGATTAAGTCCTTCGGG
1 CAGTAAGCCTTCCGAGCATGATGATGAAGTCCTTCGGG
11297132 CCATCCTAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (42 bp):
CAGTAAGCCTTCCGAGCATGATGATGAAGTCCTTCGGGTCAG
Found at i:11297245 original size:53 final size:53
Alignment explanation
Indices: 11297175--11297346 Score: 238
Period size: 53 Copynumber: 3.2 Consensus size: 53
11297165 AGAATCACAC
* * *
11297175 CAGAAGATTGTTAGAGTTCTACTCCTTAAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCATGAAGCAAGAGGGAGCGAACCCGTAGG
* * *
11297228 CAGAAGATTATTCGAGTTCTACTCCATGAAGCAAGAGGGAGAGAACCCATAGG
1 CAGAAGATTGTTCGAGTTCTACTCCATGAAGCAAGAGGGAGCGAACCCGTAGG
* * * *
11297281 CAGAAGACTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCAAACCCGCTAGT
1 CAGAAGATTGTTCGAGTTCTACTCCATGAAGCAAGAGGGAGCGAACCCG-TAGG
11297335 C-GAAGATTGTTC
1 CAGAAGATTGTTC
11297347 AAAGAAGAGG
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
53 100 0.96
54 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCATGAAGCAAGAGGGAGCGAACCCGTAGG
Found at i:11297526 original size:3 final size:3
Alignment explanation
Indices: 11297496--11297567 Score: 53
Period size: 3 Copynumber: 24.7 Consensus size: 3
11297486 TCCGGGATTT
* * * *
11297496 TTA TTA TTT TTA TTG TT- TTA TT- TTA TTA TTA TAA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
11297542 TATA TTAA TT- TTA TT- TTA TTG TTA TT
1 T-TA TT-A TTA TTA TTA TTA TTA TTA TT
11297568 TTTTAGGTCA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
2 8 0.15
3 40 0.74
4 6 0.11
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11306938 original size:30 final size:30
Alignment explanation
Indices: 11306902--11307031 Score: 152
Period size: 30 Copynumber: 4.3 Consensus size: 30
11306892 CCCGAAGGAC
11306902 CTATCCATAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCATAAAGATCCTCGGTAA
* * *
11306932 CTATCCAGAGGTTATAAAGATCATCGGTAA
1 CTATCCATAGGTCATAAAGATCCTCGGTAA
* *
11306962 CTGTCCATAGGTTATAAAGATCCTCGGTAA
1 CTATCCATAGGTCATAAAGATCCTCGGTAA
* *** * *
11306992 CTGTCCATAGGTCCCGAAGAACCTAGGTAAA
1 CTATCCATAGGTCATAAAGATCCTCGGT-AA
11307023 CTATCCATA
1 CTATCCATA
11307032 TGTTCCTTAG
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
30 76 0.88
31 10 0.12
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (30 bp):
CTATCCATAGGTCATAAAGATCCTCGGTAA
Found at i:11310896 original size:18 final size:17
Alignment explanation
Indices: 11310875--11310908 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11310865 AAATTAAAAC
*
11310875 ACATCATAATATCATTTA
1 ACATCAAAATA-CATTTA
11310893 ACATCAAAATACATTT
1 ACATCAAAATACATTT
11310909 TCTAATCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (17 bp):
ACATCAAAATACATTTA
Found at i:11312000 original size:30 final size:30
Alignment explanation
Indices: 11311948--11312050 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
11311938 CCCGAAGGAC
* *
11311948 CTATCCAGAGGTCATAAAAGATCCTCGGTAG
1 CTATCCAGAGGTTAT-AAAGATCCTCGGTAA
* *
11311979 CTATTCAGAGGTTATAAAGATCATCGGTAA
1 CTATCCAGAGGTTATAAAGATCCTCGGTAA
* *
11312009 CTGTCCATAGGTTATAAAGATCCTCGGTAA
1 CTATCCAGAGGTTATAAAGATCCTCGGTAA
* *
11312039 CTGTCCATAGGT
1 CTATCCAGAGGT
11312051 CCCGAAGAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 51 0.80
31 13 0.20
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (30 bp):
CTATCCAGAGGTTATAAAGATCCTCGGTAA
Found at i:11312068 original size:30 final size:30
Alignment explanation
Indices: 11312004--11312118 Score: 86
Period size: 31 Copynumber: 3.8 Consensus size: 30
11311994 AAAGATCATC
**** * *
11312004 GGTAACTGTCCATAGGTTATAAAGATCCTC
1 GGTAACTGTCCATAGGTCCCGAAGAACCTA
11312034 GGTAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAACTGTCCATAGGTCCCGAAGAACCTA
* * * ** *
11312064 GGTAAACTATCCATATGTTCCTTAGAACATA
1 GGT-AACTGTCCATAGGTCCCGAAGAACCTA
* *
11312095 GGTATACTGTCCATATGTCTCGAA
1 GGTA-ACTGTCCATAGGTCCCGAA
11312119 AGACATAGGT
Statistics
Matches: 66, Mismatches: 17, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
30 28 0.42
31 38 0.58
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (30 bp):
GGTAACTGTCCATAGGTCCCGAAGAACCTA
Found at i:11312125 original size:31 final size:30
Alignment explanation
Indices: 11312034--11312129 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
11312024 AAAGATCCTC
* * *
11312034 GGTAACTGTCCATAGGTCCCGAAGAACCTA
1 GGTAACTGTCCATATGTCTCGAAGAACATA
* **
11312064 GGTAAACTATCCATATGT-TCCTTAGAACATA
1 GGT-AACTGTCCATATGTCT-CGAAGAACATA
11312095 GGTATACTGTCCATATGTCTCGAA-AGACATA
1 GGTA-ACTGTCCATATGTCTCGAAGA-ACATA
11312126 GGTA
1 GGTA
11312130 GTTCTTTGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
30 5 0.10
31 46 0.88
32 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (30 bp):
GGTAACTGTCCATATGTCTCGAAGAACATA
Found at i:11317165 original size:18 final size:20
Alignment explanation
Indices: 11317142--11317181 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
11317132 AGCATCTTTA
11317142 TTTCATG-T-TATTTATTTT
1 TTTCATGCTGTATTTATTTT
11317160 TTTCATGCTTGTATTTATTTT
1 TTTCATGC-TGTATTTATTTT
11317181 T
1 T
11317182 ATTTAATGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
20 1 0.05
21 11 0.58
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTCATGCTGTATTTATTTT
Found at i:11321976 original size:83 final size:83
Alignment explanation
Indices: 11321781--11322341 Score: 559
Period size: 83 Copynumber: 6.8 Consensus size: 83
11321771 GAACATGTAC
* * * *
11321781 CTTTTATTTCGAATGGGATGGAACACTATGATATCG-CAGAGATTCTCTGAATAATAATGGAAAA
1 CTTTCATTTCGGATGGGATAGAACACTATGACAT-GACAGAGATTCTCTGAATAATAATGGAAAA
* *
11321845 TGCTT-CCATAGAA-CATG
65 TGCTTCCCCTAGAAGCACG
* * * * *
11321862 CCTTTCATTTCGAATGGGAT-GAAACATTATGACATGAAAGATATTCTCTGAATAATAAGGGAAA
1 -CTTTCATTTCGGATGGGATAG-AACACTATGACATGACAGAGATTCTCTGAATAATAATGGAAA
11321926 ATGCTTCCCCTAGAA-CACG
64 ATGCTTCCCCTAGAAGCACG
*
11321945 TCTTTCATTTCGGATGGGATAGAACACTATGACATGACAGAGATTCTATGAATAATAATGGAAAA
1 -CTTTCATTTCGGATGGGATAGAACACTATGACATGACAGAGATTCTCTGAATAATAATGGAAAA
*
11322010 CGCTTCCCCT-GTAATGCAC-
65 TGCTTCCCCTAG-AA-GCACG
* * * * *
11322029 CTTTCATTTTGGATGAGATAGAACATTATGAAATGATAGAGATTCTCTGAATAATAATGGAAAAT
1 CTTTCATTTCGGATGGGATAGAACACTATGACATGACAGAGATTCTCTGAATAATAATGGAAAAT
*
11322094 GCTTCCCCTGGAATGCAC-
66 GCTTCCCCTAGAA-GCACG
* * * * * * * * *
11322112 CTTTCATTTCAGATGGGATGGAACACTTTGACATAGA-AAAAATTATTTAAATAATAAAGGAAAA
1 CTTTCATTTCGGATGGGATAGAACACTATGACAT-GACAGAGATTCTCTGAATAATAATGGAAAA
* *
11322176 TGTTTCCCCTAGAA-CGCG
65 TGCTTCCCCTAGAAGCACG
* * * *
11322194 CCTTTCATTTCAGATGGGATGGAACACTATGACCTGACAGAGATTCTCTGAATAATAATTGAAAA
1 -CTTTCATTTCGGATGGGATAGAACACTATGACATGACAGAGATTCTCTGAATAATAATGGAAAA
*
11322259 TGCTTCCCCTGGAATGCAC-
65 TGCTTCCCCTAGAA-GCACG
* * * * * * * * *
11322278 ATTTTATTTTGGATGGGATAAAACACAATAACATGGCAGATATTCTCTAAATAATAATGGAAAA
1 CTTTCATTTCGGATGGGATAGAACACTATGACATGACAGAGATTCTCTGAATAATAATGGAAAA
11322342 CACTATGACA
Statistics
Matches: 401, Mismatches: 64, Indels: 27
0.82 0.13 0.05
Matches are distributed among these distances:
81 4 0.01
82 62 0.15
83 326 0.81
84 4 0.01
85 5 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (83 bp):
CTTTCATTTCGGATGGGATAGAACACTATGACATGACAGAGATTCTCTGAATAATAATGGAAAAT
GCTTCCCCTAGAAGCACG
Found at i:11322266 original size:249 final size:247
Alignment explanation
Indices: 11321817--11322341 Score: 691
Period size: 249 Copynumber: 2.1 Consensus size: 247
11321807 TATGATATCG
11321817 CAGAGATTCTCTGAATAATAATGGAAAATGCTTCCATAGAACATGCCTTTCATTTCGAATGGGAT
1 CAGAGATTCTCTGAATAATAATGGAAAATGCTTCCATAGAACA-GCCTTTCATTTCGAATGGGAT
* * * * *
11321882 GAAACATTATGACATGAAAGATATTCTCTGAATAATAAGGGAAAATGCTTCCCCTAGAACACGTC
65 GAAACATTATGACATGAAAGAAATTATCTAAATAATAAAGGAAAATGCTTCCCCTAGAACACGCC
*
11321947 TTTCATTTCGGATGGGATAGAACACTATGACATGACAGAGATTCTATGAATAATAATGGAAAACG
130 TTTCATTTCAGATGGGATAGAACACTATGACATGACAGAGATTCTATGAATAATAATGGAAAACG
* * * **
11322012 CTTCCCCTGTAATGCACCTTTCATTTTGGATGAGATAGAACATTATGAA-ATGA
195 CTTCCCCTGGAATGCACATTTCATTTTGGATGAGATAAAACACAAT-AACATGA
* * *
11322065 TAGAGATTCTCTGAATAATAATGGAAAATGCTTCCCCTGGAATGCA-CCTTTCATTTC-AGATGG
1 CAGAGATTCTCTGAATAATAATGGAAAATGCTT-CCATAGAA--CAGCCTTTCATTTCGA-ATGG
* * *
11322128 GATGGAACACTT-TGACATAGAAA-AAATTATTTAAATAATAAAGGAAAATGTTTCCCCTAGAAC
62 GATGAAACA-TTATGACAT-GAAAGAAATTATCTAAATAATAAAGGAAAATGCTTCCCCTAGAAC
* * * * *
11322191 GCGCCTTTCATTTCAGATGGGATGGAACACTATGACCTGACAGAGATTCTCTGAATAATAATTGA
125 ACGCCTTTCATTTCAGATGGGATAGAACACTATGACATGACAGAGATTCTATGAATAATAATGGA
* * * *
11322256 AAATGCTTCCCCTGGAATGCACATTTTATTTTGGATGGGATAAAACACAATAACATGG
190 AAACGCTTCCCCTGGAATGCACATTTCATTTTGGATGAGATAAAACACAATAACATGA
* *
11322314 CAGATATTCTCTAAATAATAATGGAAAA
1 CAGAGATTCTCTGAATAATAATGGAAAA
11322342 CACTATGACA
Statistics
Matches: 241, Mismatches: 29, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
248 35 0.15
249 198 0.82
250 6 0.02
251 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (247 bp):
CAGAGATTCTCTGAATAATAATGGAAAATGCTTCCATAGAACAGCCTTTCATTTCGAATGGGATG
AAACATTATGACATGAAAGAAATTATCTAAATAATAAAGGAAAATGCTTCCCCTAGAACACGCCT
TTCATTTCAGATGGGATAGAACACTATGACATGACAGAGATTCTATGAATAATAATGGAAAACGC
TTCCCCTGGAATGCACATTTCATTTTGGATGAGATAAAACACAATAACATGA
Found at i:11323256 original size:26 final size:27
Alignment explanation
Indices: 11323220--11323271 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
11323210 TGAACTATAA
* *
11323220 AAACAATAAACCA-TAAACATTACATT
1 AAACAACAAACCATTAAACATGACATT
*
11323246 AAACAACAAACTATTAAACATGACAT
1 AAACAACAAACCATTAAACATGACAT
11323272 GAAGCACACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.58, C:0.19, G:0.02, T:0.21
Consensus pattern (27 bp):
AAACAACAAACCATTAAACATGACATT
Found at i:11324211 original size:15 final size:15
Alignment explanation
Indices: 11324191--11324276 Score: 52
Period size: 15 Copynumber: 5.9 Consensus size: 15
11324181 TTGCTCCTCG
11324191 TCATCCTCATCATCC
1 TCATCCTCATCATCC
* *
11324206 TCATCCTTATCATCA
1 TCATCCTCATCATCC
* * ** *
11324221 TCCTCCTCGTTGTCA
1 TCATCCTCATCATCC
* *
11324236 TCGTCCTCATCTTCC
1 TCATCCTCATCATCC
*
11324251 T--TCTTC-TCATCC
1 TCATCCTCATCATCC
*
11324263 TCATCGTCATCATC
1 TCATCCTCATCATC
11324277 ATTCTCAACA
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
12 6 0.11
13 4 0.08
14 4 0.08
15 39 0.74
ACGTcount: A:0.15, C:0.41, G:0.05, T:0.40
Consensus pattern (15 bp):
TCATCCTCATCATCC
Found at i:11324218 original size:18 final size:18
Alignment explanation
Indices: 11324197--11324246 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
11324187 CTCGTCATCC
11324197 TCATCATCCTCATCCTTA
1 TCATCATCCTCATCCTTA
* * *
11324215 TCATCATCCTCCTCGTTG
1 TCATCATCCTCATCCTTA
*
11324233 TCATCGTCCTCATC
1 TCATCATCCTCATC
11324247 TTCCTTCTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.16, C:0.40, G:0.06, T:0.38
Consensus pattern (18 bp):
TCATCATCCTCATCCTTA
Found at i:11326360 original size:19 final size:20
Alignment explanation
Indices: 11326336--11326377 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
11326326 AGTTTACAAT
*
11326336 TAAATAATCAAATAAAA-AA
1 TAAATAATAAAATAAAATAA
*
11326355 TAAATACTAAAATAAAATAA
1 TAAATAATAAAATAAAATAA
11326375 TAA
1 TAA
11326378 TAAAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAATAATAAAATAAAATAA
Found at i:11326373 original size:32 final size:32
Alignment explanation
Indices: 11326337--11326401 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
11326327 GTTTACAATT
11326337 AAATAATCAAATAAAA-AA-TAAATACTAAAATA
1 AAATAAT--AATAAAATAATTAAATACTAAAATA
* *
11326369 AAATAATAATAAAATAATTAATTACTTAAATA
1 AAATAATAATAAAATAATTAAATACTAAAATA
11326401 A
1 A
11326402 TAGAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 7 0.24
31 2 0.07
32 20 0.69
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (32 bp):
AAATAATAATAAAATAATTAAATACTAAAATA
Found at i:11326381 original size:16 final size:17
Alignment explanation
Indices: 11326336--11326385 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
11326326 AGTTTACAAT
*
11326336 TAAATAATCAAATAAAAAA
1 TAAATAAT-AAA-ATAAAA
*
11326355 TAAATACTAAAATAAAA
1 TAAATAATAAAATAAAA
11326372 T-AATAATAAAATAA
1 TAAATAATAAAATAA
11326386 TTAATTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 12 0.43
17 6 0.21
18 3 0.11
19 7 0.25
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAATAAAATAAAA
Found at i:11327161 original size:7 final size:7
Alignment explanation
Indices: 11327149--11327174 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11327139 AAAATCGTAA
11327149 TTTATAT
1 TTTATAT
11327156 TTTATAT
1 TTTATAT
11327163 TTTATAT
1 TTTATAT
11327170 TTTAT
1 TTTAT
11327175 TCTTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATAT
Found at i:11328018 original size:18 final size:18
Alignment explanation
Indices: 11327995--11328037 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
11327985 ACTGAAATCT
11327995 ATTTTCATATAAAGTTCA
1 ATTTTCATATAAAGTTCA
*
11328013 ATTTTCGTATAAAGTTCA
1 ATTTTCATATAAAGTTCA
*
11328031 AATTTCA
1 ATTTTCA
11328038 AATTGTTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (18 bp):
ATTTTCATATAAAGTTCA
Found at i:11329361 original size:21 final size:21
Alignment explanation
Indices: 11329312--11329352 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
11329302 CTGCTGATAT
11329312 GCTGCTTCTCTCTGTGCTTCC
1 GCTGCTTCTCTCTGTGCTTCC
*
11329333 GCTGCTTCTCTCTTTGCTTC
1 GCTGCTTCTCTCTGTGCTTC
11329353 ACTCGCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.37, G:0.17, T:0.46
Consensus pattern (21 bp):
GCTGCTTCTCTCTGTGCTTCC
Found at i:11334884 original size:20 final size:20
Alignment explanation
Indices: 11334789--11334883 Score: 163
Period size: 20 Copynumber: 4.8 Consensus size: 20
11334779 AATGCAATTA
*
11334789 GTGCATCGATGCATCCTTAT
1 GTGCATCGATGCATCCTTCT
11334809 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTTCT
11334829 GTGCATCGATGCATCCTTCT
1 GTGCATCGATGCATCCTTCT
*
11334849 GTGCATCGATGCATCATTCT
1 GTGCATCGATGCATCCTTCT
*
11334869 ATGCATCGATGCATC
1 GTGCATCGATGCATC
11334884 AAGGTTGTGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (20 bp):
GTGCATCGATGCATCCTTCT
Found at i:11336155 original size:2 final size:2
Alignment explanation
Indices: 11336148--11336186 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
11336138 GATATAACAT
* *
11336148 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11336187 CACACATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:11336646 original size:30 final size:30
Alignment explanation
Indices: 11336583--11336675 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
11336573 GAAGGACTTA
* * * *
11336583 TCCAGAGGTCACAAAGA-CCCCGATAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
11336612 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
11336642 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
11336672 TCCA
1 TCCA
11336676 TAAGGACCAC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 16 0.27
30 43 0.73
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:11337685 original size:64 final size:64
Alignment explanation
Indices: 11337578--11337754 Score: 223
Period size: 64 Copynumber: 2.8 Consensus size: 64
11337568 TAATGAAGGT
* * ** ** *
11337578 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAAGACATTCGATGTTTGTTTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTG-CATTCGATGTTTCCTTATTAATGGG
*
11337642 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
* * *
11337706 ATGCATTGATGCACTACTTATGCATCAATGCACGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGT
11337755 ATTTATTTTA
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
63 1 0.01
64 92 0.94
65 5 0.05
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
Found at i:11337775 original size:64 final size:64
Alignment explanation
Indices: 11337617--11337786 Score: 159
Period size: 64 Copynumber: 2.7 Consensus size: 64
11337607 GCATAAAAGA
** ** * * * * *
11337617 CATTCGATGTTTGTTTATTACTGGGATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTG
1 CATTCGATGTTTCATTATTAAAGAGATGCATCTATGCACT-ACTTATGCATCAATGCACGAATTG
* * *
11337681 CATTCGATGTTTCCTTATTAATGGGATGCAT-TGATGCACTACTTATGCATCAATGCACGAATTG
1 CATTCGATGTTTCATTATTAAAGAGATGCATCT-ATGCACTACTTATGCATCAATGCACGAATTG
*
11337745 CATTCGATGTATTTATT-TTAAA-AGAGTGCATCTATGCACTAC
1 CATTCGATGT-TTCATTATTAAAGAGA-TGCATCTATGCACTAC
11337787 CAAGGCATCG
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
63 2 0.02
64 82 0.91
65 6 0.07
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (64 bp):
CATTCGATGTTTCATTATTAAAGAGATGCATCTATGCACTACTTATGCATCAATGCACGAATTG
Found at i:11341269 original size:2 final size:2
Alignment explanation
Indices: 11341262--11341286 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11341252 TCAAAACGAG
11341262 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11341287 ACATATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11341736 original size:30 final size:30
Alignment explanation
Indices: 11341674--11341765 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
11341664 AAAGGACCTA
* *
11341674 TCCAGAGGTCACAAAGA-CC-CGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
**
11341702 TCCAGAGGTCATAAAGATCCTCAATAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
11341732 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
11341762 TCCA
1 TCCA
11341766 TAAGGACCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 16 0.29
29 2 0.04
30 38 0.68
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:11342128 original size:84 final size:84
Alignment explanation
Indices: 11341987--11342154 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
11341977 TCCTTTCTCT
11341987 TATGAACATATATCTTTTCTTTTCAGTCACGTACCAAATGTACGTGTAATCATTGATCTTATAAT
1 TATGAACATATATCTTTTCTTTTCAGTCACGTACCAAATGTACGTGTAATCATTGATCTTATAAT
11342052 CACATATTCATTCTATTCG
66 CACATATTCATTCTATTCG
11342071 TATGAACATATATCTTTTCTTTTCAGTCACGTACCAAATGTACGTGTAATCATTGATCTTATAAT
1 TATGAACATATATCTTTTCTTTTCAGTCACGTACCAAATGTACGTGTAATCATTGATCTTATAAT
11342136 CACATATTCATTCTATTCG
66 CACATATTCATTCTATTCG
11342155 GTCACATACC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.42
Consensus pattern (84 bp):
TATGAACATATATCTTTTCTTTTCAGTCACGTACCAAATGTACGTGTAATCATTGATCTTATAAT
CACATATTCATTCTATTCG
Found at i:11342877 original size:64 final size:64
Alignment explanation
Indices: 11342772--11342992 Score: 252
Period size: 64 Copynumber: 3.5 Consensus size: 64
11342762 TAATGAAGGT
* * * ** *
11342772 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGCATTCGATGTTTGTTTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCCTTATTAATGGG
*
11342836 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
* ** **
11342900 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGT-TTCCTTATTAATGGG
**
11342963 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
11342993 ACACCTTCAA
Statistics
Matches: 137, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
63 3 0.02
64 128 0.93
65 6 0.04
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAATTGCATTCGATGTTTCCTTATTAATGGG
Found at i:11346297 original size:29 final size:32
Alignment explanation
Indices: 11346243--11346303 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 32
11346233 CAATTTAAGG
*
11346243 CAAAATGGTTTTTTGGACTTGAATTGAGTTTA
1 CAAAATGGTTTTTTGGACTTGAATTGAATTTA
11346275 CAAAAT-G-TTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTTGGACTTGAATTGAATTTA
11346304 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 10 0.36
30 11 0.39
31 1 0.04
32 6 0.21
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (32 bp):
CAAAATGGTTTTTTGGACTTGAATTGAATTTA
Found at i:11346412 original size:21 final size:21
Alignment explanation
Indices: 11346383--11346481 Score: 105
Period size: 21 Copynumber: 4.7 Consensus size: 21
11346373 AGGGTGTCAA
* *
11346383 AGTGGATCCATGAACCCCTGC
1 AGTGCATCCATGCACCCCTGC
*
11346404 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCACCCCTGC
11346425 AGTGCATCCATGCA--CCTGCAC
1 AGTGCATCCATGCACCCCTG--C
* *
11346446 TAGTGCATCGATGCA-CCATGC
1 -AGTGCATCCATGCACCCCTGC
11346467 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
11346482 TCAAACACCG
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
19 4 0.06
20 13 0.19
21 34 0.51
22 13 0.19
23 3 0.04
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:11346534 original size:20 final size:20
Alignment explanation
Indices: 11346506--11346575 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
11346496 CAATTAGTGC
11346506 ATCGATGCATCCTTCTGTGA
1 ATCGATGCATCCTTCTGTGA
* *
11346526 ATTGATGCATCCTTCTGTGC
1 ATCGATGCATCCTTCTGTGA
*
11346546 ATCGATGCATCCTTCTGTGC
1 ATCGATGCATCCTTCTGTGA
11346566 A-CGATGCATC
1 ATCGATGCATC
11346576 AAGGCTGTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 9 0.19
20 38 0.81
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (20 bp):
ATCGATGCATCCTTCTGTGA
Found at i:11346589 original size:40 final size:40
Alignment explanation
Indices: 11346502--11346614 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
11346492 AATGCAATTA
* * ***
11346502 GTGCATCGATGCATCCTTCTGTGAATTGATGCATCCTTCT
1 GTGCATCGATGCATCCTTCTGTGCATCGATGCATCAGGCT
11346542 GTGCATCGATGCATCCTTCTGTGCA-CGATGCATCAAGGCT
1 GTGCATCGATGCATCCTTCTGTGCATCGATGCATC-AGGCT
* * * *
11346582 GTTCATCGATGTATCCTGCTGTGCATCCATGCA
1 GTGCATCGATGCATCCTTCTGTGCATCGATGCA
11346615 CGAAGGATGA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 8 0.13
40 48 0.77
41 6 0.10
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (40 bp):
GTGCATCGATGCATCCTTCTGTGCATCGATGCATCAGGCT
Found at i:11350035 original size:49 final size:49
Alignment explanation
Indices: 11349963--11350060 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
11349953 GTTTAAATTT
11349963 AGCGGCGTTTGTGTTTAAAAACGCCACTAACGTATGATTGTTTTGCGGC
1 AGCGGCGTTTGTGTTTAAAAACGCCACTAACGTATGATTGTTTTGCGGC
11350012 AGCGGCGTTTGTGTTTAAAAACGCCACTAACGTATGATTGTTTTGCGGC
1 AGCGGCGTTTGTGTTTAAAAACGCCACTAACGTATGATTGTTTTGCGGC
11350061 GTTTTGACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (49 bp):
AGCGGCGTTTGTGTTTAAAAACGCCACTAACGTATGATTGTTTTGCGGC
Found at i:11350601 original size:24 final size:24
Alignment explanation
Indices: 11350574--11350628 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
11350564 TCTTTACCAT
11350574 ATTGTTCACTAGAATTTAGTCTTC
1 ATTGTTCACTAGAATTTAGTCTTC
11350598 ATTGTTCACTAGAATTTAGTCTTC
1 ATTGTTCACTAGAATTTAGTCTTC
11350622 ATTGTTC
1 ATTGTTC
11350629 CTTCGTGGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (24 bp):
ATTGTTCACTAGAATTTAGTCTTC
Found at i:11351399 original size:22 final size:22
Alignment explanation
Indices: 11351371--11351418 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
11351361 CACGTTTTCA
11351371 AAAGCTATTATTTTCCTATTCG
1 AAAGCTATTATTTTCCTATTCG
*
11351393 AAAGCTATTATTTTTCTATTCG
1 AAAGCTATTATTTTCCTATTCG
11351415 AAAG
1 AAAG
11351419 AAGAAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (22 bp):
AAAGCTATTATTTTCCTATTCG
Found at i:11351973 original size:82 final size:82
Alignment explanation
Indices: 11351835--11352086 Score: 274
Period size: 83 Copynumber: 3.0 Consensus size: 82
11351825 GTTTTTATAA
* ** * * *
11351835 AAAATGCCACTAATGATGAACCCTATTAC-GACGTTTGTCCTAAAAACACCGCTAAATTACTACT
1 AAAATGCCACT-ATAAACAACCCTATT-CTGACGTTTGTGCTATAAACGCCGCTAAATTACTACT
11351899 CTATTGCGACGTTTGTTGG
64 CTATTGCGACGTTTGTTGG
* * *
11351918 AAAATGTCACTATAAACAACCCTATTCTGACGTTTGTGCTATAAACGCCGTTAAATTACTATTCT
1 AAAATGCCACTATAAACAACCCTATTCTGACGTTTGTGCTATAAACGCCGCTAAATTACTACTCT
* * *
11351983 ATTACGGA-ATTTGTTGAA
66 ATTGC-GACGTTTGTTG-G
* *** * * *
11352001 AAAATGCCATTATAAACAACCCTATTCTGGTATTTGTGATATAAACGCTGCTACATTACTACTCT
1 AAAATGCCACTATAAACAACCCTATTCTGACGTTTGTGCTATAAACGCCGCTAAATTACTACTCT
*
11352066 ATTGCGGCGTTTGTTGG
66 ATTGCGACGTTTGTTGG
11352083 AAAA
1 AAAA
11352087 ATGATGCTAA
Statistics
Matches: 139, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
81 1 0.01
82 60 0.43
83 78 0.56
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (82 bp):
AAAATGCCACTATAAACAACCCTATTCTGACGTTTGTGCTATAAACGCCGCTAAATTACTACTCT
ATTGCGACGTTTGTTGG
Found at i:11357376 original size:20 final size:20
Alignment explanation
Indices: 11357351--11357399 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
11357341 AGACTCTATA
11357351 TATTTATATGA-TTATAAATT
1 TATTTATATGAGTTAT-AATT
11357371 TATTTA-ATTGAGTTATAATT
1 TATTTATA-TGAGTTATAATT
*
11357391 TATATATAT
1 TATTTATAT
11357400 AGTACTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 19 0.76
21 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (20 bp):
TATTTATATGAGTTATAATT
Found at i:11357555 original size:152 final size:153
Alignment explanation
Indices: 11357386--11357691 Score: 605
Period size: 152 Copynumber: 2.0 Consensus size: 153
11357376 AATTGAGTTA
11357386 TAATTTATATATATAGTACTCTATACATTATAATTTAATTATATTATGAAATATCATTAAAATTA
1 TAATTTATATATATAGTACTCTATACATTATAATTTAATTATATTATGAAATATCATTAAAATTA
11357451 AAGTTGCATCGAATAAG-TATTTAACAGTATATAGTAATGGGACTGAAAACGTGAAAAAAGAATT
66 AAGTTGCATCGAATAAGTTATTTAACAGTATATAGTAATGGGACTGAAAACGTGAAAAAAGAATT
11357515 TGGCATGATATCGAGGCGAAAGT
131 TGGCATGATATCGAGGCGAAAGT
11357538 TAATTTATATATATAGTACTCTATACATTATAATTTAATTATATTATGAAATATCATTAAAATTA
1 TAATTTATATATATAGTACTCTATACATTATAATTTAATTATATTATGAAATATCATTAAAATTA
11357603 AAGTTGCATCGAATAAGTTATTTAACAGTATATAGTAATGGGACTGAAAACGTGAAAAAAGAATT
66 AAGTTGCATCGAATAAGTTATTTAACAGTATATAGTAATGGGACTGAAAACGTGAAAAAAGAATT
11357668 TGGCATGATATCGAGGCGAAAGT
131 TGGCATGATATCGAGGCGAAAGT
11357691 T
1 T
11357692 GGCTAGCATG
Statistics
Matches: 153, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
152 82 0.54
153 71 0.46
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (153 bp):
TAATTTATATATATAGTACTCTATACATTATAATTTAATTATATTATGAAATATCATTAAAATTA
AAGTTGCATCGAATAAGTTATTTAACAGTATATAGTAATGGGACTGAAAACGTGAAAAAAGAATT
TGGCATGATATCGAGGCGAAAGT
Found at i:11358526 original size:72 final size:72
Alignment explanation
Indices: 11358441--11358583 Score: 268
Period size: 72 Copynumber: 2.0 Consensus size: 72
11358431 ACAATTTGCT
* *
11358441 GGATCTTATCTAGTAATTAATTGAATTAGACATATAAATGGGGTAAAATTAATTAGTCACTGATT
1 GGATCTTATCTAGTAAATAATTGAATTAGACATATAAATGGGGTAAAATTAATTAGCCACTGATT
11358506 ATATATG
66 ATATATG
11358513 GGATCTTATCTAGTAAATAATTGAATTAGACATATAAATGGGGTAAAATTAATTAGCCACTGATT
1 GGATCTTATCTAGTAAATAATTGAATTAGACATATAAATGGGGTAAAATTAATTAGCCACTGATT
11358578 ATATAT
66 ATATAT
11358584 AGCATCCAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (72 bp):
GGATCTTATCTAGTAAATAATTGAATTAGACATATAAATGGGGTAAAATTAATTAGCCACTGATT
ATATATG
Found at i:11366922 original size:21 final size:21
Alignment explanation
Indices: 11366881--11366955 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
11366871 AACAATTATC
* *
11366881 TTCATGAAAA-GATTAAATCCT
1 TTCATCAAAAGGA-TAAGTCCT
11366902 TTCATCAAAAGGATAAGTCCT
1 TTCATCAAAAGGATAAGTCCT
* * * *
11366923 TTAATCGAGAGG-TCAAGTTCT
1 TTCATCAAAAGGAT-AAGTCCT
*
11366944 TTCATCGAAAGG
1 TTCATCAAAAGG
11366956 TCTTAACCCT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.02
21 41 0.93
22 2 0.05
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (21 bp):
TTCATCAAAAGGATAAGTCCT
Found at i:11366956 original size:21 final size:21
Alignment explanation
Indices: 11366898--11366957 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
11366888 AAAGATTAAA
*
11366898 TCCTTTCATCAAAAGGAT-AAG
1 TCCTTTCATCGAAAGG-TCAAG
* *
11366919 TCCTTTAATCGAGAGGTCAAG
1 TCCTTTCATCGAAAGGTCAAG
*
11366940 TTCTTTCATCGAAAGGTC
1 TCCTTTCATCGAAAGGTC
11366958 TTAACCCTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (21 bp):
TCCTTTCATCGAAAGGTCAAG
Found at i:11367393 original size:3 final size:3
Alignment explanation
Indices: 11367387--11367416 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11367377 ATAATAATAA
*
11367387 TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11367417 CTCATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:11367467 original size:2 final size:2
Alignment explanation
Indices: 11367460--11367506 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
11367450 CATATTCTTT
11367460 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11367502 TA TA T
1 TA TA T
11367507 TTAATCCGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11370493 original size:21 final size:21
Alignment explanation
Indices: 11370452--11370519 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
11370442 AACAATTATC
* *
11370452 TTCATGAAAA-GATTAAATCCT
1 TTCATCAAAAGGA-TAAGTCCT
11370473 TTCATCAAAAGGATAAGTCCT
1 TTCATCAAAAGGATAAGTCCT
* * *
11370494 TTAATCGAAAGG-TGAAGTCTT
1 TTCATCAAAAGGAT-AAGTCCT
11370515 TTCAT
1 TTCAT
11370520 TTAAAGGTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.03
21 36 0.92
22 2 0.05
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (21 bp):
TTCATCAAAAGGATAAGTCCT
Found at i:11371503 original size:2 final size:2
Alignment explanation
Indices: 11371496--11371532 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
11371486 ATGGATAACA
11371496 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11371533 TGTTATCCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11373048 original size:74 final size:74
Alignment explanation
Indices: 11372927--11373076 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
11372917 CATAGGTGAC
11372927 TTATGTTGCTCGACTTATCGAAGTACAAAATGGTCATTAAAAGTTGTGCTTAGCCTATACCAATT
1 TTATGTTGCTCGACTTATCGAAGTACAAAATGGTCATTAAAAGTTGTGCTTAGCCTATACCAATT
11372992 TGATAACTG
66 TGATAACTG
11373001 TTATGTTGCTCGACTTATCGAAGTACAAAATGGTCATTAAAAGTTGTGCTTAGCCTATACCAATT
1 TTATGTTGCTCGACTTATCGAAGTACAAAATGGTCATTAAAAGTTGTGCTTAGCCTATACCAATT
11373066 TGATAACTG
66 TGATAACTG
11373075 TT
1 TT
11373077 TACATCATAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (74 bp):
TTATGTTGCTCGACTTATCGAAGTACAAAATGGTCATTAAAAGTTGTGCTTAGCCTATACCAATT
TGATAACTG
Found at i:11380551 original size:21 final size:21
Alignment explanation
Indices: 11380535--11380584 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
11380525 AATAGTATCA
11380535 ATACTGATTCAAGTAGTAACG
1 ATACTGATTCAAGTAGTAACG
11380556 ATACTGATTCAAGTAGTAACG
1 ATACTGATTCAAGTAGTAACG
11380577 ATACTGAT
1 ATACTGAT
11380585 GTGGAGGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (21 bp):
ATACTGATTCAAGTAGTAACG
Found at i:11380745 original size:20 final size:20
Alignment explanation
Indices: 11380696--11380748 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
11380686 TAAAATAGAA
11380696 GTATCGATACTATAGTAGGG
1 GTATCGATACTATAGTAGGG
*
11380716 GTATCAATACTATAGTAGGG
1 GTATCGATACTATAGTAGGG
*
11380736 GTATTGATACTAT
1 GTATCGATACTAT
11380749 TCAGTCTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (20 bp):
GTATCGATACTATAGTAGGG
Found at i:11381557 original size:54 final size:54
Alignment explanation
Indices: 11381440--11381664 Score: 326
Period size: 54 Copynumber: 4.2 Consensus size: 54
11381430 TACTGTGTAC
*
11381440 TATCGACACTATGTGTGCAACCCACGGAATTCATAAT-AATTTATGAATGACCG
1 TATCGACACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCG
* * ** *
11381493 TATCGGCACTATATGTGCAACCCACATAATTCATAATGAGTTTATGGATGACCG
1 TATCGACACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCG
* *
11381547 TATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATGACCG
1 TATCGACACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCG
* * * * *
11381601 TATAGGCACTATGTGTGCAACCCATGGAATTTATAATGAGTTTGTGAATGACCG
1 TATCGACACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCG
11381655 TATCGACACT
1 TATCGACACT
11381665 TAGGTGCAAT
Statistics
Matches: 153, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 33 0.22
54 120 0.78
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (54 bp):
TATCGACACTATGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCG
Found at i:11383621 original size:23 final size:23
Alignment explanation
Indices: 11383594--11383639 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
11383584 ACATCTTAAT
11383594 ATTATCTTAACTTATT-AAATATA
1 ATTATCTTAACTT-TTAAAATATA
*
11383617 ATTATTTTAACTTTTAAAATATA
1 ATTATCTTAACTTTTAAAATATA
11383640 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTATCTTAACTTTTAAAATATA
Found at i:11383798 original size:30 final size:31
Alignment explanation
Indices: 11383729--11383798 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
11383719 TCTGATAATA
* * *
11383729 TTTTAAAGTTAAGATAAAATTTAATATATAT
1 TTTTATAGTTAAGATAAAATATAAAATATAT
* *
11383760 TTTT-TAGTTAATATAAAA-ATAAAATTTAT
1 TTTTATAGTTAAGATAAAATATAAAATATAT
11383789 TTTTATAGTT
1 TTTTATAGTT
11383799 GAAATAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 12 0.36
30 17 0.52
31 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (31 bp):
TTTTATAGTTAAGATAAAATATAAAATATAT
Found at i:11383823 original size:20 final size:20
Alignment explanation
Indices: 11383786--11383825 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11383776 AAATAAAATT
* * *
11383786 TATTTTTATAGTTGAAATAA
1 TATTTTTAAAATTCAAATAA
11383806 TATTTTTAAAATTCAAATAA
1 TATTTTTAAAATTCAAATAA
11383826 GAATAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (20 bp):
TATTTTTAAAATTCAAATAA
Found at i:11383892 original size:29 final size:29
Alignment explanation
Indices: 11383854--11384102 Score: 142
Period size: 30 Copynumber: 8.6 Consensus size: 29
11383844 TAATTCAATT
11383854 TAAAATTATATATTTAAATTAAGATAAGAA
1 TAAAA-TATATATTTAAATTAAGATAAGAA
* * *
11383884 TAAAATATATATTTTAAGTTAAAATAAGGA
1 TAAAATATATA-TTTAAATTAAGATAAGAA
*
11383914 T-AAAT-TATATTTAATGATTTAAGGTAAGAA
1 TAAAATATATATTTAA--A-TTAAGATAAGAA
* *
11383944 TAAAATATAT-TTAATAATTTAAGTTAAGAA
1 TAAAATATATATT--TAAATTAAGATAAGAA
* *** *
11383974 TATAAT-T-TA--TGGGTTAAGATAAGAC
1 TAAAATATATATTTAAATTAAGATAAGAA
11383999 TAAAATATA-A-TTAACAGTTAAGATAAGAA
1 TAAAATATATATTTAA-A-TTAAGATAAGAA
* ** *
11384028 TAAAATATATTTTTATGTTAAGGA-AATAA
1 TAAAATATATATTTAAATTAA-GATAAGAA
* * *
11384057 TAAAATAT-TTTTAATAAAATAAGATAAAAA
1 TAAAATATATATT--TAAATTAAGATAAGAA
*
11384087 TAAAATATATTTTTAA
1 TAAAATATATATTTAA
11384103 TGTTAAAATA
Statistics
Matches: 170, Mismatches: 28, Indels: 43
0.71 0.12 0.18
Matches are distributed among these distances:
25 16 0.09
26 2 0.01
27 6 0.04
28 9 0.05
29 52 0.31
30 66 0.39
31 13 0.08
32 3 0.02
33 3 0.02
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.37
Consensus pattern (29 bp):
TAAAATATATATTTAAATTAAGATAAGAA
Found at i:11384111 original size:19 final size:19
Alignment explanation
Indices: 11384087--11384151 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
11384077 AAGATAAAAA
11384087 TAAAATATATTTTTAATGT
1 TAAAATATATTTTTAATGT
* **
11384106 TAAAATACAAATTTAAT-T
1 TAAAATATATTTTTAATGT
* *
11384124 TAATATGTGA-TTTTAA-GT
1 TAAAATAT-ATTTTTAATGT
11384142 TAAAATATAT
1 TAAAATATAT
11384152 AAAATATTAA
Statistics
Matches: 34, Mismatches: 9, Indels: 7
0.68 0.18 0.14
Matches are distributed among these distances:
17 1 0.03
18 18 0.53
19 15 0.44
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (19 bp):
TAAAATATATTTTTAATGT
Found at i:11391234 original size:30 final size:29
Alignment explanation
Indices: 11391193--11391279 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
11391183 CACATCTTAA
*
11391193 TATTATCTTAACTTATTAAATATAGTTTAT
1 TATTATCTTAACTTATAAAATATA-TTTAT
*
11391223 TATTATTTTAACTT-TAGAAATATATTTTAT
1 TATTATCTTAACTTATA-AAATATA-TTTAT
*
11391253 TTTTATCTTAACTTA-AAAATATATTTA
1 TATTATCTTAACTTATAAAATATATTTA
11391280 GTATATATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 4 0.08
29 8 0.16
30 38 0.76
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (29 bp):
TATTATCTTAACTTATAAAATATATTTAT
Found at i:11391297 original size:35 final size:33
Alignment explanation
Indices: 11391193--11391304 Score: 94
Period size: 30 Copynumber: 3.5 Consensus size: 33
11391183 CACATCTTAA
** *
11391193 TATTATCTTAACTTATTAA-ATA--TAGTTTAT
1 TATTATCTTAACTTAAAAATATATTTAGTATAT
* *
11391223 TATTATTTTAACTTTAGAAATATATTT--TAT-T
1 TATTATCTTAAC-TTAAAAATATATTTAGTATAT
11391254 T-TTATCTTAACTTAAAAATATATTTAGTATAT
1 TATTATCTTAACTTAAAAATATATTTAGTATAT
*
11391286 ATATTATTCTTATCTTAAA
1 -TATTA-TCTTAACTTAAA
11391305 TATTTATATT
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
29 13 0.20
30 20 0.31
31 10 0.15
32 6 0.09
33 1 0.02
34 4 0.06
35 11 0.17
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.54
Consensus pattern (33 bp):
TATTATCTTAACTTAAAAATATATTTAGTATAT
Found at i:11391525 original size:26 final size:27
Alignment explanation
Indices: 11391494--11391557 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
11391484 TATATATTAT
11391494 TATATATTTAAATTAAGAT-AG-ATAAA
1 TATATATTTAAATTAA-ATAAGAATAAA
*
11391520 TATATATTTTAAGTTAAATAAGAATAAA
1 TATATA-TTTAAATTAAATAAGAATAAA
11391548 T-TATATTTAA
1 TATATATTTAA
11391558 TTATTTAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
26 13 0.38
27 15 0.44
28 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (27 bp):
TATATATTTAAATTAAATAAGAATAAA
Found at i:11391691 original size:65 final size:65
Alignment explanation
Indices: 11391591--11391722 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
11391581 TATAATATTT
11391591 AGTTAAGATATAATTTATGTAATGGGTTAAGATAATAATAAAATATAAATTTAGCAGTTAAGATA
1 AGTTAAGATATAATTTATGTAATGGGTTAAGATAATAATAAAATATAAATTTAGCAGTTAAGATA
11391656 AGTTAAGATATAATTTATGTAATGGGTTAAGATAATAATAAAATATAAATTTAGCAGTTAAGATA
1 AGTTAAGATATAATTTATGTAATGGGTTAAGATAATAATAAAATATAAATTTAGCAGTTAAGATA
11391721 AG
1 AG
11391723 AATAAAATAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.48, C:0.02, G:0.16, T:0.35
Consensus pattern (65 bp):
AGTTAAGATATAATTTATGTAATGGGTTAAGATAATAATAAAATATAAATTTAGCAGTTAAGATA
Found at i:11391774 original size:30 final size:29
Alignment explanation
Indices: 11391681--11391804 Score: 133
Period size: 30 Copynumber: 4.2 Consensus size: 29
11391671 TATGTAATGG
* **
11391681 GTTAAGATAATAATAAAATATAAATTTAGCA
1 GTTAAGATAAAAATAAAATAT--ATTTATAA
* * *
11391712 GTTAAGATAAGAATAAAATAT-TTTTTAT
1 GTTAAGATAAAAATAAAATATATTTATAA
*
11391740 GTTAAGATAACAATAAAATATATTTAATAA
1 GTTAAGATAAAAATAAAATATATTT-ATAA
*
11391770 GTTAAGATAAAAATAAAATATATTTTTAA
1 GTTAAGATAAAAATAAAATATATTTATAA
11391799 TGTTAA
1 -GTTAA
11391805 AAATGAATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
28 23 0.29
29 6 0.08
30 31 0.39
31 20 0.25
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (29 bp):
GTTAAGATAAAAATAAAATATATTTATAA
Found at i:11394700 original size:3 final size:3
Alignment explanation
Indices: 11394692--11394750 Score: 86
Period size: 3 Copynumber: 20.3 Consensus size: 3
11394682 CTACAAAAAT
* *
11394692 ATA ATA ATA TTA A-A ATA ATA ATA TTA A-A ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11394738 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
11394751 GTTATTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11394711 original size:14 final size:14
Alignment explanation
Indices: 11394692--11394743 Score: 86
Period size: 14 Copynumber: 3.6 Consensus size: 14
11394682 CTACAAAAAT
11394692 ATAATAATATTAAA
1 ATAATAATATTAAA
11394706 ATAATAATATTAAA
1 ATAATAATATTAAA
*
11394720 ATAATAATAATAATA
1 ATAATAATATTAA-A
11394735 ATAATAATA
1 ATAATAATA
11394744 ATAATAAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
14 26 0.72
15 10 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATAATATTAAA
Found at i:11395194 original size:137 final size:136
Alignment explanation
Indices: 11394948--11395236 Score: 357
Period size: 137 Copynumber: 2.1 Consensus size: 136
11394938 GGTTAATTTG
*
11394948 GAGATAACACGATTCCTACGTGATGAAAAAGTCTGGCTACCTAAGGGTGACACTGCTCCTACACG
1 GAGATAACACG-TTCCTACGTGATGAAAAAGTCTGGCTACCTAAGGGTGACACAGCTCCTACACG
* * *
11395013 ATGAGGATATCGGGTCGGTGGATGACACTGTCCCTACATAATGAGGACTTCTGGA-CATCTTTAG
65 ATGAGGAAATCGGGTCGGTGGATGACACGGTCCCTACATAATGAGGACGTCT-GACCATCTTTAG
11395077 GAATAATA
129 GAATAATA
** * * * **
11395085 GAGATAACACTGTTCCTACGTGATGAGGAATTTTGGCTATCTAAGGGTGACACAGCTCCTACGTG
1 GAGATAACAC-GTTCCTACGTGATGAAAAAGTCTGGCTACCTAAGGGTGACACAGCTCCTACACG
* * * *
11395150 ATGAGGAGAAT-TGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGACCATCTTTAG
65 ATGAGGA-AATCGGGTCGGTGGATGACACGGTCCCTACATAATGAGGACGTCTGACCATCTTTAG
* *
11395214 GGATAATG
129 GAATAATA
*
11395222 GAAATAACACAGTTC
1 GAGATAACAC-GTTC
11395237 TTATGTGAAA
Statistics
Matches: 130, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
136 2 0.02
137 125 0.96
138 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (136 bp):
GAGATAACACGTTCCTACGTGATGAAAAAGTCTGGCTACCTAAGGGTGACACAGCTCCTACACGA
TGAGGAAATCGGGTCGGTGGATGACACGGTCCCTACATAATGAGGACGTCTGACCATCTTTAGGA
ATAATA
Found at i:11395768 original size:37 final size:37
Alignment explanation
Indices: 11395709--11395807 Score: 137
Period size: 37 Copynumber: 2.7 Consensus size: 37
11395699 TGTTTGTGTC
* *
11395709 TTAAGGAAGACTGTCTCAAGTGAGACAAAATTT-ATT
1 TTAAAGAAAACTGTCTCAAGTGAGACAAAATTTGATT
*
11395745 TTAAAGAAAAACTGTCTCAAGTGAGACAAAATTTGTTT
1 TTAAAG-AAAACTGTCTCAAGTGAGACAAAATTTGATT
**
11395783 TTAAAGAAAACAATCTCAAGTGAGA
1 TTAAAGAAAACTGTCTCAAGTGAGA
11395808 TTAATTTTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
36 5 0.09
37 43 0.77
38 8 0.14
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.28
Consensus pattern (37 bp):
TTAAAGAAAACTGTCTCAAGTGAGACAAAATTTGATT
Found at i:11399555 original size:149 final size:149
Alignment explanation
Indices: 11399367--11399681 Score: 569
Period size: 149 Copynumber: 2.1 Consensus size: 149
11399357 GGGTAGAGGG
*
11399367 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
* *
11399432 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
11399497 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
11399516 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
11399581 ACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
11399646 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
11399665 TTTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
11399682 TGCATTTATA
Statistics
Matches: 160, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 1 0.01
149 159 0.99
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:11399682 original size:23 final size:23
Alignment explanation
Indices: 11399649--11399693 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11399639 ATCATTATAT
11399649 GGCACTACGGTGCAATTT-TACGC
1 GGCACTACGGTGC-ATTTATACGC
*
11399672 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCATTTATACG
11399694 AGTTGTGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCATTTATACGC
Found at i:11406582 original size:23 final size:23
Alignment explanation
Indices: 11406538--11406582 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
11406528 ATCATTATAT
*
11406538 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* * *
11406561 GGCACTTCGGTGTATTTATACG
1 GGCACTACGGTGCAATTATACG
11406583 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:11408976 original size:29 final size:29
Alignment explanation
Indices: 11408940--11409000 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
11408930 TTTATGAATG
*
11408940 ATGCATGTGAAAATGCTTGAATAAATGGA
1 ATGCATGTGAAAATGCTTAAATAAATGGA
11408969 ATGCATGTGAAAATGCTTAAATAAATGGA
1 ATGCATGTGAAAATGCTTAAATAAATGGA
11408998 ATG
1 ATG
11409001 AAGGTGCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.28
Consensus pattern (29 bp):
ATGCATGTGAAAATGCTTAAATAAATGGA
Found at i:11414025 original size:3 final size:3
Alignment explanation
Indices: 11414017--11414089 Score: 121
Period size: 3 Copynumber: 24.7 Consensus size: 3
11414007 TTTGATTATT
11414017 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
11414065 TAA TAA TAG TAA -AA TAA TAT TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
11414090 TCAGGAACGA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11415714 original size:30 final size:30
Alignment explanation
Indices: 11415673--11415760 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
11415663 CACATCTTAG
*
11415673 TATTATCTTAAC-TTATTAAATATAGTTTAT
1 TATTATCTTAACTTTA-AAAATATAGTTTAT
* *
11415703 TATTATTTTAACTTTAAAAATATATTTTAT
1 TATTATCTTAACTTTAAAAATATAGTTTAT
* *
11415733 TTTTATCTTAACTTTAAAAAAATA-TTTA
1 TATTATCTTAACTTTAAAAATATAGTTTA
11415761 GTCGAAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
29 4 0.08
30 44 0.86
31 3 0.06
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (30 bp):
TATTATCTTAACTTTAAAAATATAGTTTAT
Found at i:11415772 original size:2 final size:2
Alignment explanation
Indices: 11415767--11415794 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11415757 TTTAGTCGAA
11415767 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
11415795 TATTCTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11415972 original size:30 final size:29
Alignment explanation
Indices: 11415933--11416175 Score: 175
Period size: 30 Copynumber: 8.1 Consensus size: 29
11415923 AAAATAAAAA
11415933 TTAAGATAAGAATAAAATATATATTTTAAG
1 TTAAGATAAGAATAAAATATAT-TTTTAAG
* * * * * *
11415963 TTAAAATAAGAATACATTATATTTAATCAT
1 TTAAGATAAGAATAAAATATATTT-TTAAG
* * * *
11415993 TTAAGGTAAGGATAAAATATATTTAATAAT
1 TTAAGATAAGAATAAAATATATTT-TTAAG
* * * * ** **
11416023 TTAAGTTAAGAACATAATTTATGTAATGGG
1 TTAAGATAAGAATAAAATATAT-TTTTAAG
**
11416053 TTAAGATAAGAATAAAATATAAATTTAGCAG
1 TTAAGATAAGAATAAAATATATTTTTA--AG
* *
11416084 TTAAGATAAAAATAAAATAT-TTGTTTATG
1 TTAAGATAAGAATAAAATATATT-TTTAAG
*
11416113 TTAAGATAACAATAAAATATATTTTATAAG
1 TTAAGATAAGAATAAAATATATTTT-TAAG
*
11416143 TTAAGATAAAAATAAAATAT-TTTTTAATG
1 TTAAGATAAGAATAAAATATATTTTTAA-G
11416172 TTAA
1 TTAA
11416176 AATACAAATT
Statistics
Matches: 167, Mismatches: 38, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
28 3 0.02
29 34 0.20
30 105 0.63
31 25 0.15
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.37
Consensus pattern (29 bp):
TTAAGATAAGAATAAAATATATTTTTAAG
Found at i:11416088 original size:31 final size:28
Alignment explanation
Indices: 11416052--11416162 Score: 114
Period size: 31 Copynumber: 3.8 Consensus size: 28
11416042 TATGTAATGG
*
11416052 GTTAAGATAAGAATAAAATATAAATTTAGCA
1 GTTAAGATAAAAATAAAATAT-AATTTA--A
** *
11416083 GTTAAGATAAAAATAAAATATTTGTTTAT
1 GTTAAGATAAAAATAAAATA-TAATTTAA
* *
11416112 GTTAAGATAACAATAAAATATATTTTATAA
1 GTTAAGATAAAAATAAAATATA-ATT-TAA
11416142 GTTAAGATAAAAATAAAATAT
1 GTTAAGATAAAAATAAAATAT
11416163 TTTTTAATGT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.01
29 21 0.31
30 22 0.32
31 23 0.34
32 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (28 bp):
GTTAAGATAAAAATAAAATATAATTTAA
Found at i:11416126 original size:29 final size:28
Alignment explanation
Indices: 11416083--11416184 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 28
11416073 AAATTTAGCA
11416083 GTTAAGATAAAAATAAAATATTTGTTTAT
1 GTTAAGATAAAAATAAAATATTT-TTTAT
* *
11416112 GTTAAGATAACAATAAAATATATTTTATAA
1 GTTAAGATAAAAATAAAATAT-TTTT-TAT
11416142 GTTAAGATAAAAATAAAATATTTTTTAAT
1 GTTAAGATAAAAATAAAATATTTTTT-AT
* *
11416171 GTTAAAATACAAAT
1 GTTAAGATAAAAAT
11416185 TTAATTTAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
28 1 0.02
29 39 0.61
30 24 0.38
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (28 bp):
GTTAAGATAAAAATAAAATATTTTTTAT
Found at i:11419492 original size:43 final size:40
Alignment explanation
Indices: 11419429--11419534 Score: 99
Period size: 40 Copynumber: 2.6 Consensus size: 40
11419419 AACATGGTTT
* * *
11419429 CTACGCGATGAGGAATTCTGGCTATCTAAGGGTGACACGGCTC
1 CTACGTGATGAGGAATTCTGG---TCGAAGGATGACACGGCTC
* *
11419472 CTACGTGATGAGGAGA-TCTGGTCGATGGATGACACGGTTC
1 CTACGTGATGAGGA-ATTCTGGTCGAAGGATGACACGGCTC
*
11419512 CTATGTGATGAGGACATT-TGGTC
1 CTACGTGATGAGGA-ATTCTGGTC
11419535 ATCTTTAGGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
40 34 0.63
41 1 0.02
43 18 0.33
44 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (40 bp):
CTACGTGATGAGGAATTCTGGTCGAAGGATGACACGGCTC
Found at i:11419772 original size:138 final size:137
Alignment explanation
Indices: 11419280--11419821 Score: 640
Period size: 137 Copynumber: 4.0 Consensus size: 137
11419270 TAAATTTGGT
* * * * * * *
11419280 GATAGCACGGTTCCTATGTGATGAGAAAGTTTGGCTATCTAAGGGTGACGCTGCTCCTACGCGAT
1 GATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGGTGACACTGCTCCTACGTGAT
* * *** *
11419345 GATGAGATC-GATCGGTGGATAACA-T-TATCCTTACGTGATGAGGATGGCTGGCCATATTTAGG
66 GAGGAGATCTGATCGGTGGATGACACTGT-TCC-TACGTGATGAGGACATCTGGCCATCTTTAGG
11419407 GATAATGGA
129 GATAATGGA
* * * *
11419416 GATAACATGGTTTCTACGCGATGAGGAATTCTGGCTATCTAAGGGTGACACGGCTCCTACGTGAT
1 GATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGGTGACACTGCTCCTACGTGAT
* * * * * *
11419481 GAGGAGATCTGGTCGATGGATGACACGGTTCCTATGTGATGAGGACATTTGGTCATCTTTAGGGA
66 GAGGAGATCTGATCGGTGGATGACACTGTTCCTACGTGATGAGGACATCTGGCCATCTTTAGGGA
*
11419546 TAATAGA
131 TAATGGA
* * *** * **
11419553 GATAACATGGTTCTTATATGATGAGGAACTCTGGCTATCTAAGGGTGATGCTGCTCCTACGTGAT
1 GATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGGTGACACTGCTCCTACGTGAT
* * *
11419618 GAGGAGATCTGGTCGGTGGATGACATTGTTCCTATGTGATGAGGACATCTGGCCATCTTTAGGGA
66 GAGGAGATCTGATCGGTGGATGACACTGTTCCTACGTGATGAGGACATCTGGCCATCTTTAGGGA
11419683 TAAATGGA
131 T-AATGGA
* * * *
11419691 TATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATAACACTGCTTCTACGTGAT
1 GATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGGTGACACTGCTCCTACGTGAT
* * * * *
11419756 GAGGAGATATTATCGGTGGATGACACTATTCCTACATGATGAGGACGTCTGGCCATCTTTAGGGA
66 GAGGAGATCTGATCGGTGGATGACACTGTTCCTACGTGATGAGGACATCTGGCCATCTTTAGGGA
11419821 T
131 T
11419822 GATTTGTTTC
Statistics
Matches: 343, Mismatches: 59, Indels: 6
0.84 0.14 0.01
Matches are distributed among these distances:
136 62 0.18
137 161 0.47
138 119 0.35
139 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (137 bp):
GATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGGTGACACTGCTCCTACGTGAT
GAGGAGATCTGATCGGTGGATGACACTGTTCCTACGTGATGAGGACATCTGGCCATCTTTAGGGA
TAATGGA
Found at i:11419798 original size:275 final size:273
Alignment explanation
Indices: 11419288--11419821 Score: 719
Period size: 275 Copynumber: 1.9 Consensus size: 273
11419278 GTGATAGCAC
* * * *
11419288 GGTTCCTATGTGATGAGAAAGTTTGGCTATCTAAGGGTGACGCTGCTCCTACGCGATGATGAGAT
1 GGTTCCTATATGATGAGAAACTCTGGCTATCTAAGGGTGACGCTGCTCCTACGCGATGAGGAGAT
**
11419353 CGATCGGTGGATAACATTATCCTTACGTGATGAGGATGGCTGGCCATATTTAGGGATAATGGAGA
66 CGATCGGTGGATAACATTATCCTTACGTGATGAGGACAGCTGGCCATATTTAGGGATAATGGAGA
* * * * *
11419418 TAACATGGTTTCTACGCGATGAGGAATTCTGGCTATCTAAGGGTGACACGGCTCCTACGTGATGA
131 TAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATAACACGGCTCCTACGTGATGA
* * * ** * *
11419483 GGAGATCTGGTCGATGGATGACACGGTTCCTATGTGATGAGGACATTTGGTCATCTTTAGGGATA
196 GGAGATATGATCGATGGATGACACGATTCCTACATGATGAGGACATCTGGCCATCTTTAGGGATA
11419548 ATAGAGATAACAT
261 ATAGAGATAACAT
* * * *
11419561 GGTTCTTATATGATGAGGAACTCTGGCTATCTAAGGGTGATGCTGCTCCTACGTGATGAGGAGAT
1 GGTTCCTATATGATGAGAAACTCTGGCTATCTAAGGGTGACGCTGCTCCTACGCGATGAGGAGAT
* * * * * *
11419626 CTGGTCGGTGGATGACATTGTTCC-TATGTGATGAGGACATCTGGCCATCTTTAGGGATAAATGG
66 C-GATCGGTGGATAACATT-ATCCTTACGTGATGAGGACAGCTGGCCATATTTAGGGAT-AATGG
* * *
11419690 ATATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATAACACTGCTTCTACGTGA
128 AGATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATAACACGGCTCCTACGTGA
* * * *
11419755 TGAGGAGATATTATCGGTGGATGACACTATTCCTACATGATGAGGACGTCTGGCCATCTTTAGGG
193 TGAGGAGATATGATCGATGGATGACACGATTCCTACATGATGAGGACATCTGGCCATCTTTAGGG
11419820 AT
258 AT
11419822 GATTTGTTTC
Statistics
Matches: 223, Mismatches: 35, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
273 58 0.26
274 44 0.20
275 121 0.54
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (273 bp):
GGTTCCTATATGATGAGAAACTCTGGCTATCTAAGGGTGACGCTGCTCCTACGCGATGAGGAGAT
CGATCGGTGGATAACATTATCCTTACGTGATGAGGACAGCTGGCCATATTTAGGGATAATGGAGA
TAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATAACACGGCTCCTACGTGATGA
GGAGATATGATCGATGGATGACACGATTCCTACATGATGAGGACATCTGGCCATCTTTAGGGATA
ATAGAGATAACAT
Found at i:11419934 original size:67 final size:67
Alignment explanation
Indices: 11419826--11419951 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 67
11419816 AGGGATGATT
* *
11419826 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATCTGTTTCAAGG-GAAACACTCTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAATCTGTTTC-AGGAGAAACAATCTCAATGTTT
11419890 TTA
65 TTA
*
11419893 TGTTTCAAGAGAAATTGTCTCAAGCAAGACAAAA-CTTGTTTCAGGAGAAACAATCTCAA
1 TGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAATC-TGTTTCAGGAGAAACAATCTCAA
11419952 AGGTTTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
66 4 0.07
67 50 0.93
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAGCAAGACAAAATCTGTTTCAGGAGAAACAATCTCAATGTTTT
TA
Found at i:11420222 original size:37 final size:37
Alignment explanation
Indices: 11420181--11420266 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 37
11420171 AGGAAGACTG
* *
11420181 TCTCAAGTGAGACGAAATTTGTTTTT-AAGAAAAACTA
1 TCTCAAGTGAGACAAAATTTGTTTTTAAAG-AAAACAA
** *
11420218 TCTCAAACGAGACAAAATTTGTTTTTAAAGGAAACAA
1 TCTCAAGTGAGACAAAATTTGTTTTTAAAGAAAACAA
11420255 TCTCAAGTGAGA
1 TCTCAAGTGAGA
11420267 ATAATTTTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 38 0.93
38 3 0.07
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (37 bp):
TCTCAAGTGAGACAAAATTTGTTTTTAAAGAAAACAA
Found at i:11420276 original size:37 final size:36
Alignment explanation
Indices: 11420181--11420278 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 36
11420171 AGGAAGACTG
* *
11420181 TCTCAAGTGAGACGAAATTTGTTTTTAAGAAAAACTA
1 TCTCAAGTGAGA-AAAATTTGTTTTTAAGAAAAACAA
** *
11420218 TCTCAAACGAGACAAAATTTGTTTTTAA-AGGAAACAA
1 TCTCAAGTGAGA-AAAATTTGTTTTTAAGA-AAAACAA
*
11420255 TCTCAAGTGAGAATAATTTTGTTT
1 TCTCAAGTGAGAA-AAATTTGTTT
11420279 CAAGTGAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 2 0.04
37 49 0.96
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (36 bp):
TCTCAAGTGAGAAAAATTTGTTTTTAAGAAAAACAA
Found at i:11422454 original size:10 final size:10
Alignment explanation
Indices: 11422408--11422454 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
11422398 ACTTAATTTA
11422408 TTCTTTTTC-
1 TTCTTTTTCT
* *
11422417 CTCATTTTCT
1 TTCTTTTTCT
*
11422427 TTCATTTTCT
1 TTCTTTTTCT
*
11422437 TTTTTTTTCT
1 TTCTTTTTCT
11422447 TTCTTTTT
1 TTCTTTTT
11422455 GTTTAGTCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
9 7 0.23
10 24 0.77
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (10 bp):
TTCTTTTTCT
Found at i:11423901 original size:29 final size:29
Alignment explanation
Indices: 11423865--11423939 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
11423855 TTTATGAATG
*
11423865 ATGCATGTGAAAATGCTTGAATAAATGGA
1 ATGCATGTGAAAATGCTTAAATAAATGGA
11423894 ATGCATGTGAAAATGCTTAAATAAATGGA
1 ATGCATGTGAAAATGCTTAAATAAATGGA
*
11423923 ATGCAGGTGCAAAATGC
1 ATGCATGTG-AAAATGC
11423940 AAAGATGCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 36 0.84
30 7 0.16
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.25
Consensus pattern (29 bp):
ATGCATGTGAAAATGCTTAAATAAATGGA
Found at i:11427176 original size:29 final size:30
Alignment explanation
Indices: 11427109--11427179 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
11427099 TTTTTTTTTC
*
11427109 TCTATGTTTTTTCGAAAGCTTCATTGTCTTT
1 TCTAT-TTTTTTCGAAAGCTTCATTGTCTTA
* *
11427140 TCTGTTTTTTTCGAAAGCTTTATT-TCTCTA
1 TCTATTTTTTTCGAAAGCTTCATTGTCT-TA
11427170 TC-ATTTTTTT
1 TCTATTTTTTT
11427180 TGTCTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 10 0.29
30 21 0.60
31 4 0.11
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.59
Consensus pattern (30 bp):
TCTATTTTTTTCGAAAGCTTCATTGTCTTA
Found at i:11427750 original size:3 final size:3
Alignment explanation
Indices: 11427742--11427791 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
11427732 CTTAGGCCTG
11427742 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11427790 TA
1 TA
11427792 TGTTAATAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11430133 original size:23 final size:22
Alignment explanation
Indices: 11430102--11430149 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
11430092 AGGTTGAACA
11430102 GTTTATTAAATAGCAATATAAAT
1 GTTTATT-AATAGCAATATAAAT
* *
11430125 GTTTGTTAATAGCTATATAAAT
1 GTTTATTAATAGCAATATAAAT
11430147 GTT
1 GTT
11430150 GGTAATTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (22 bp):
GTTTATTAATAGCAATATAAAT
Found at i:11433684 original size:2 final size:2
Alignment explanation
Indices: 11433679--11433703 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11433669 TATACTTTTG
11433679 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 T
11433704 CTTACACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11441233 original size:3 final size:3
Alignment explanation
Indices: 11441152--11441213 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
11441142 TTTGATTATT
11441152 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11441200 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
11441214 GTAGTAGTAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:11442880 original size:30 final size:31
Alignment explanation
Indices: 11442829--11442912 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 31
11442819 CACATCTTAA
*
11442829 TATTATCTTAA-TTTATTAAATATAGTTTAT
1 TATTATCTTAACTTTATAAAATATAGTTTAT
* *
11442859 TATTATTTTAACTTTA-AAAATATATTTTAT
1 TATTATCTTAACTTTATAAAATATAGTTTAT
* *
11442889 TTTTATCTTAACTTAATAAAATAT
1 TATTATCTTAACTTTATAAAATAT
11442913 TTAGTCGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 35 0.76
31 11 0.24
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.55
Consensus pattern (31 bp):
TATTATCTTAACTTTATAAAATATAGTTTAT
Found at i:11442929 original size:2 final size:2
Alignment explanation
Indices: 11442922--11442947 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11442912 TTTAGTCGAA
11442922 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
11442948 TATTCTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11443146 original size:2 final size:2
Alignment explanation
Indices: 11443139--11443180 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
11443129 ATTTAAAATA
11443139 AT AT AT AT AT 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 AT AT AT AT AT
11443181 TTAAATTAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11443237 original size:30 final size:31
Alignment explanation
Indices: 11443092--11443229 Score: 108
Period size: 30 Copynumber: 4.5 Consensus size: 31
11443082 TTTAAAATAA
*
11443092 AAATTAAAATAAGAATAAAATATAAAT-TTT
1 AAATTAAAATAAGAATAAAATATATATATTT
* * * *
11443122 TAATTAAATTTAA-AATAATATATATATATAT
1 AAATTAAA-ATAAGAATAAAATATATATATTT
* * * *
11443153 ATA-T-ATATATA-TATATATATATATATATTT
1 AAATTAAAATA-AGAATA-AAATATATATATTT
*
11443183 AAATTAAGATAAGAATAAAATATATAT-TTT
1 AAATTAAAATAAGAATAAAATATATATATTT
*
11443213 AAGTTAAAATAAGAATA
1 AAATTAAAATAAGAATA
11443230 CATTATATTT
Statistics
Matches: 84, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
28 2 0.02
29 5 0.06
30 53 0.63
31 17 0.20
32 7 0.08
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (31 bp):
AAATTAAAATAAGAATAAAATATATATATTT
Found at i:11443400 original size:30 final size:30
Alignment explanation
Indices: 11443173--11443428 Score: 200
Period size: 30 Copynumber: 8.6 Consensus size: 30
11443163 ATATATATAT
11443173 ATATATATTTA-AA-TTAAGATAAGAATAAA
1 ATATAT-TTTATAAGTTAAGATAAGAATAAA
* *
11443202 ATATATATTT-TAAGTTAAAATAAGAATACA
1 ATATAT-TTTATAAGTTAAGATAAGAATAAA
* * * * * *
11443232 TTATATTTAATCATTTAAGGTAAGGATAAA
1 ATATATTTTATAAGTTAAGATAAGAATAAA
* * * * *
11443262 ATATATTTAATAATTTAAGTTAAGAACATA
1 ATATATTTTATAAGTTAAGATAAGAATAAA
* * * **
11443292 ATTTATATAATGGGTTAAGATAAGAATAAA
1 ATATATTTTATAAGTTAAGATAAGAATAAA
* ** *
11443322 ATATAAATTTAGCAGTTAAGATAAAAATAAA
1 ATAT-ATTTTATAAGTTAAGATAAGAATAAA
* * *
11443353 ATAT-TTTTTTATGTTAAGATAACAATAAA
1 ATATATTTTATAAGTTAAGATAAGAATAAA
*
11443382 ATATATTTTATAAGTTAAGATAAAAATAAA
1 ATATATTTTATAAGTTAAGATAAGAATAAA
11443412 ATAT-TTTT-TAATGTTAA
1 ATATATTTTATAA-GTTAA
11443429 AATACAAATT
Statistics
Matches: 180, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
28 3 0.02
29 46 0.26
30 108 0.60
31 23 0.13
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (30 bp):
ATATATTTTATAAGTTAAGATAAGAATAAA
Found at i:11443437 original size:29 final size:29
Alignment explanation
Indices: 11443305--11443437 Score: 144
Period size: 29 Copynumber: 4.5 Consensus size: 29
11443295 TATATAATGG
* **
11443305 GTTAAGATAAGAATAAAATATAAATTTAGCA-
1 GTTAAGATAAAAATAAAATAT-TTTTTA--AT
*
11443336 GTTAAGATAAAAATAAAATATTTTTTTAT
1 GTTAAGATAAAAATAAAATATTTTTTAAT
*
11443365 GTTAAGATAACAATAAAATATATTTTATAA-
1 GTTAAGATAAAAATAAAATAT-TTTT-TAAT
11443395 GTTAAGATAAAAATAAAATATTTTTTAAT
1 GTTAAGATAAAAATAAAATATTTTTTAAT
* *
11443424 GTTAAAATACAAAT
1 GTTAAGATAAAAAT
11443438 TTAATTTAAT
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
28 4 0.04
29 36 0.40
30 27 0.30
31 22 0.25
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (29 bp):
GTTAAGATAAAAATAAAATATTTTTTAAT
Found at i:11443689 original size:31 final size:31
Alignment explanation
Indices: 11443653--11443714 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
11443643 TGTCACTCTC
11443653 TGATTGGTGGAAAATAAATTTATCATAAAAT
1 TGATTGGTGGAAAATAAATTTATCATAAAAT
11443684 TGATTGGTGGAAAATAAATTTATCATAAAAT
1 TGATTGGTGGAAAATAAATTTATCATAAAAT
11443715 CTTACTTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.35
Consensus pattern (31 bp):
TGATTGGTGGAAAATAAATTTATCATAAAAT
Found at i:11447042 original size:138 final size:137
Alignment explanation
Indices: 11446550--11447094 Score: 653
Period size: 137 Copynumber: 4.0 Consensus size: 137
11446540 TAAATTTGGT
* * * * * * *
11446550 GATAGCACGGTTCCTATGTGATGAGAAAGTTTGGCTATCTAAGGGTGACGCTGCTCCTACGCGAT
1 GATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGGTGACACTGCTCCTACGTGAT
* * * * *
11446615 GAGGAGATC-GATCGGTGGATAACACT-ATCCTTACGTGATGAGGATGGCTGGCCATATTTAGGG
66 GAGGAGATCTGATCGGTGGATGACACTGTTCC-TACGTGATGAGGACGTCTGGCCATCTTTAGGG
11446678 ATAATGGA
130 ATAATGGA
* * ** *
11446686 GATAACATGGTTCCTACGCGATGAGGAATTCTATCTATCTAAGGGTGACACGGCTCCTACGTGAT
1 GATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGGTGACACTGCTCCTACGTGAT
* * * * * * * *
11446751 GAGGAGATCTGGTCGATGGATGACACGGTTCCTATGTGATGAGGACATTTAGTCATCTTTAGGGA
66 GAGGAGATCTGATCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGA
*
11446816 TAATAGA
131 TAATGGA
* * *** * **
11446823 GATAACATGGTTCTTATATGATGAGGAACTCTGGCTATCTAAGGGTGATGCTGCTCCTACGTGAT
1 GATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGGTGACACTGCTCCTACGTGAT
* * *
11446888 GAGGAGATCTGGTCGGTGGATGACATTGTTCCTATGTGATGAGGACGTCTGGCCATCTTTAGGGA
66 GAGGAGATCTGATCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGA
11446953 TAAATGGA
131 T-AATGGA
* * * *
11446961 TATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATAACACTGCTTCTACGTGAT
1 GATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGGTGACACTGCTCCTACGTGAT
* * * *
11447026 GAGGAGATATTATCGGTGGATGACACTATTCCTACATGATGAGGACGTCTGGCCATCTTTAGGGA
66 GAGGAGATCTGATCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGA
11447091 TAAT
131 TAAT
11447095 TTGTTTCAAG
Statistics
Matches: 343, Mismatches: 63, Indels: 5
0.83 0.15 0.01
Matches are distributed among these distances:
136 62 0.18
137 161 0.47
138 120 0.35
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (137 bp):
GATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGGTGACACTGCTCCTACGTGAT
GAGGAGATCTGATCGGTGGATGACACTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTAGGGA
TAATGGA
Found at i:11447048 original size:275 final size:273
Alignment explanation
Indices: 11446558--11447094 Score: 716
Period size: 275 Copynumber: 2.0 Consensus size: 273
11446548 GTGATAGCAC
* * *
11446558 GGTTCCTATGTGATGAGAAAGTTTGGCTATCTAAGGGTGACGCTGCTCCTACGCGATGAGGAGAT
1 GGTTCCTATATGATGAGAAACTCTGGCTATCTAAGGGTGACGCTGCTCCTACGCGATGAGGAGAT
*
11446623 CGATCGGTGGATAACACTATCCTTACGTGATGAGGATGGCTGGCCATATTTAGGGATAATGGAGA
66 CGATCGGTGGATAACACTATCCTTACGTGATGAGGACGGCTGGCCATATTTAGGGATAATGGAGA
* * * * *
11446688 TAACATGGTTCCTACGCGATGAGGAATTCTATCTATCTAAGGGTGACACGGCTCCTACGTGATGA
131 TAACACGGTTCCTACGCGATGAGGAAGTCTAGCTATCTAAGGATAACACGGCTCCTACGTGATGA
* * * ** * *
11446753 GGAGATCTGGTCGATGGATGACACGGTTCCTATGTGATGAGGACATTTAGTCATCTTTAGGGATA
196 GGAGATATGATCGATGGATGACACGATTCCTACATGATGAGGACATCTAGCCATCTTTAGGGATA
11446818 ATAGAGATAACAT
261 ATAGAGATAACAT
* * * *
11446831 GGTTCTTATATGATGAGGAACTCTGGCTATCTAAGGGTGATGCTGCTCCTACGTGATGAGGAGAT
1 GGTTCCTATATGATGAGAAACTCTGGCTATCTAAGGGTGACGCTGCTCCTACGCGATGAGGAGAT
* * * * * * *
11446896 CTGGTCGGTGGATGACATTGTTCC-TATGTGATGAGGACGTCTGGCCATCTTTAGGGATAAATGG
66 C-GATCGGTGGATAACACT-ATCCTTACGTGATGAGGACGGCTGGCCATATTTAGGGAT-AATGG
* * * *
11446960 ATATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATAACACTGCTTCTACGTGA
128 AGATAACACGGTTCCTACGCGATGAGGAAGTCTAGCTATCTAAGGATAACACGGCTCCTACGTGA
* * * * *
11447025 TGAGGAGATATTATCGGTGGATGACACTATTCCTACATGATGAGGACGTCTGGCCATCTTTAGGG
193 TGAGGAGATATGATCGATGGATGACACGATTCCTACATGATGAGGACATCTAGCCATCTTTAGGG
11447090 ATAAT
258 ATAAT
11447095 TTGTTTCAAG
Statistics
Matches: 225, Mismatches: 36, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
273 59 0.26
274 44 0.20
275 122 0.54
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (273 bp):
GGTTCCTATATGATGAGAAACTCTGGCTATCTAAGGGTGACGCTGCTCCTACGCGATGAGGAGAT
CGATCGGTGGATAACACTATCCTTACGTGATGAGGACGGCTGGCCATATTTAGGGATAATGGAGA
TAACACGGTTCCTACGCGATGAGGAAGTCTAGCTATCTAAGGATAACACGGCTCCTACGTGATGA
GGAGATATGATCGATGGATGACACGATTCCTACATGATGAGGACATCTAGCCATCTTTAGGGATA
ATAGAGATAACAT
Found at i:11447204 original size:67 final size:67
Alignment explanation
Indices: 11447096--11447221 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 67
11447086 AGGGATAATT
* *
11447096 TGTTTCAAGAGAAACTGTCTCAAGCGAGATAAAATCTGTTTCAAGG-GAAACAGTCTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATCTGTTTC-AGGAGAAACAATCTCAATGTTT
11447160 TTA
65 TTA
*
11447163 TGTTTCAAGAGAAATTGTCTCAAGCGAGACAAAA-CTTGTTTCAGGAGAAACAATCTCAA
1 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATC-TGTTTCAGGAGAAACAATCTCAA
11447222 AGGTTTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
66 4 0.07
67 50 0.93
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAATCTGTTTCAGGAGAAACAATCTCAATGTTTT
TA
Found at i:11447529 original size:37 final size:37
Alignment explanation
Indices: 11447451--11447566 Score: 112
Period size: 37 Copynumber: 3.2 Consensus size: 37
11447441 AGGAAGACTG
* * **
11447451 TCTCAAGTGAGACGAAATTTGTTTTTAAGAAAAACTG
1 TCTCAAGTGAGACAAAATTTGTTTTTAAGAGAAACAA
*
11447488 TCTCAAGCGAGACAAAATTTGTTTTTAA-AGGAAACAA
1 TCTCAAGTGAGACAAAATTTGTTTTTAAGA-GAAACAA
* * *
11447525 TCTCAAGTGAGA-ATAATTT-TGTTTCAAGTGAAACAA
1 TCTCAAGTGAGACAAAATTTGT-TTTTAAGAGAAACAA
*
11447561 TTTCAA
1 TCTCAA
11447567 AATTTGCATC
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
35 1 0.02
36 24 0.36
37 41 0.62
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (37 bp):
TCTCAAGTGAGACAAAATTTGTTTTTAAGAGAAACAA
Found at i:11449969 original size:10 final size:10
Alignment explanation
Indices: 11449959--11449991 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11449949 CCTCATTTTC
11449959 TTTCTTT-TT
1 TTTCTTTCTT
11449968 CTTTCTTTCTT
1 -TTTCTTTCTT
11449979 TTTCTTTCTT
1 TTTCTTTCTT
11449989 TTT
1 TTT
11449992 GTTTAGTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 20 0.91
11 2 0.09
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:11449974 original size:14 final size:14
Alignment explanation
Indices: 11449955--11449989 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
11449945 CTTTCCTCAT
11449955 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
11449969 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
11449983 TTTCTTT
1 TTTCTTT
11449990 TTGTTTAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTTTC
Found at i:11450236 original size:30 final size:29
Alignment explanation
Indices: 11450161--11450249 Score: 110
Period size: 29 Copynumber: 3.0 Consensus size: 29
11450151 TGTAATTAAC
*
11450161 AGTTAAGATAAGAATAAAATATATTTTTA
1 AGTTAAGATAAAAATAAAATATATTTTTA
* *
11450190 TGTTAAGGA-AATAATAAAATAT-TTTTAATA
1 AGTTAA-GATAAAAATAAAATATATTTT--TA
11450220 AGTTAAGATAAAAATAAAATATATTTTTA
1 AGTTAAGATAAAAATAAAATATATTTTTA
11450249 A
1 A
11450250 TGGTAAAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
28 4 0.08
29 22 0.43
30 21 0.41
31 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (29 bp):
AGTTAAGATAAAAATAAAATATATTTTTA
Found at i:11452555 original size:29 final size:30
Alignment explanation
Indices: 11452494--11452569 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
11452484 TTTTCTTTTT
11452494 TTTTCTCTAT-G-TTTTTTCGAAAGCTTCA
1 TTTTCTCTATCGTTTTTTTCGAAAGCTTCA
* *
11452522 TTTTCT-TTTCTGTTTTTTTCGAAAGCTTTA
1 TTTTCTCTATC-GTTTTTTTCGAAAGCTTCA
11452552 -TTTCTCTATCGTTTTTTT
1 TTTTCTCTATCGTTTTTTT
11452570 TGTCTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 2 0.05
28 6 0.15
29 14 0.34
30 19 0.46
ACGTcount: A:0.13, C:0.16, G:0.09, T:0.62
Consensus pattern (30 bp):
TTTTCTCTATCGTTTTTTTCGAAAGCTTCA
Found at i:11461983 original size:30 final size:29
Alignment explanation
Indices: 11461948--11462035 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
11461938 CACATCTTAA
*
11461948 TATTATCTTAACTTATTAAATATAGTTTAT
1 TATTATCTTAACTTATAAAATATA-TTTAT
*
11461978 TATTATTTTAACTT-TAGAAATATATTTTAT
1 TATTATCTTAACTTATA-AAATATA-TTTAT
* *
11462008 TTTTATCTTAACTTAAAAAATATATTTA
1 TATTATCTTAACTTATAAAATATATTTA
11462036 GTCTATATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.10
30 44 0.88
31 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (29 bp):
TATTATCTTAACTTATAAAATATATTTAT
Found at i:11462202 original size:76 final size:79
Alignment explanation
Indices: 11462089--11462243 Score: 176
Period size: 77 Copynumber: 2.0 Consensus size: 79
11462079 TATGATAATA
* *** * * *
11462089 TTTTAAAATTAAGATAAAATATAATATATATTTTTTTAGTT-AATATAAAAAAAT-TATTTTTAT
1 TTTTAAAATTAAAATAAAATATAATATATAAAATTTTAATTAAATATAAAAAAATATATATATAT
11462152 AGTTTAAA-TAAGAT
66 A-TTTAAATTAAGAT
* *
11462166 TTTTAAAATTAAAATAAGAATA-AA-ATATAAAATTTTAATTAAATTTAAAATAATATATATATA
1 TTTTAAAATTAAAATAA-AATATAATATATAAAATTTTAATTAAATATAAAAAAATATATATATA
11462229 TATTTAAATTAAGAT
65 TATTTAAATTAAGAT
11462244 AAGAATAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
76 12 0.18
77 35 0.54
78 18 0.28
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (79 bp):
TTTTAAAATTAAAATAAAATATAATATATAAAATTTTAATTAAATATAAAAAAATATATATATAT
ATTTAAATTAAGAT
Found at i:11462246 original size:63 final size:62
Alignment explanation
Indices: 11462171--11462317 Score: 167
Period size: 63 Copynumber: 2.4 Consensus size: 62
11462161 AAGATTTTTA
* * *
11462171 AAATTAAAATAAGAATAAAATATAAAATTTTAA-TTAAATTTAA-AATAATATATATATATATTT
1 AAATTAAGATAAGAATAAAATATAAAATTTTAAGTTAAA-ATAAGAATAA-AT-TATATATAATT
* *
11462234 AAATTAAGATAAGAATAAAATAT-ATATTTTAAGTTAAAATAAGAATAAATTATATTTAATT
1 AAATTAAGATAAGAATAAAATATAAAATTTTAAGTTAAAATAAGAATAAATTATATATAATT
* * *
11462295 -ATTTAAGGTAAGGATAAAATATA
1 AAATTAAGATAAGAATAAAATATA
11462318 TTTAATAATT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
60 19 0.26
61 9 0.12
62 13 0.18
63 32 0.44
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.37
Consensus pattern (62 bp):
AAATTAAGATAAGAATAAAATATAAAATTTTAAGTTAAAATAAGAATAAATTATATATAATT
Found at i:11462288 original size:30 final size:29
Alignment explanation
Indices: 11462217--11462478 Score: 176
Period size: 30 Copynumber: 8.8 Consensus size: 29
11462207 AATTTAAAAT
* *
11462217 AATATATATATATATTTAAATTAAGATAAG
1 AATAAATATATAT-TTTAAGTTAAGATAAG
*
11462247 AATAAAATATATATTTTAAGTTAAAATAAG
1 AAT-AAATATATATTTTAAGTTAAGATAAG
* * *
11462277 AATAAAT-TATATTTAATTATTTAAGGTAAG
1 AATAAATATATATTT--TAAGTTAAGATAAG
* * *
11462307 GATAAA-ATATATTTAATAATTTAAGTTAAG
1 AATAAATATATATTT--TAAGTTAAGATAAG
* * ** ** *
11462337 AATATAATTTATGTAATGGGTTAAGATAAT
1 AATA-AATATATATTTTAAGTTAAGATAAG
*
11462367 AATAAATATA-AATTTAGCAGTTAAGATAAG
1 AATAAATATATATTTTA--AGTTAAGATAAG
* * *
11462397 AATAAA-ATATTTTTTATGTTAAGATAAC
1 AATAAATATATATTTTAAGTTAAGATAAG
*
11462425 AATAAA-ATATATTTAATAAGTTAAGATAAA
1 AATAAATATATATTT--TAAGTTAAGATAAG
11462455 AATAAA-ATATATTTTTAATGTTAA
1 AATAAATATATA-TTTTAA-GTTAA
11462479 AAATGAATTT
Statistics
Matches: 184, Mismatches: 35, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
28 31 0.17
29 15 0.08
30 120 0.65
31 14 0.08
32 4 0.02
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.39
Consensus pattern (29 bp):
AATAAATATATATTTTAAGTTAAGATAAG
Found at i:11462300 original size:35 final size:31
Alignment explanation
Indices: 11462174--11462480 Score: 151
Period size: 30 Copynumber: 10.2 Consensus size: 31
11462164 ATTTTTAAAA
*
11462174 TTAAAATAAGAATAAAATATA-AAATTTTAA-
1 TTAAAATAAGAATAAAATATATATA-TTTAAG
* *
11462204 TTAAATTTAA-AATAATATATATATATATTTAAA
1 TTAAA-ATAAGAATAA-A-ATATATATATTTAAG
*
11462237 TTAAGATAAGAATAAAATATATAT-TTTAAG
1 TTAAAATAAGAATAAAATATATATATTTAAG
* * * *
11462267 TTAAAATAAGAATAAATTATATTTAATT-AT
1 TTAAAATAAGAATAAAATATATATATTTAAG
** * * * *
11462297 TTAAGGTAAGGATAAAATATATTTA-ATAAT
1 TTAAAATAAGAATAAAATATATATATTTAAG
** * * * * **
11462327 TTAAGTTAAGAATATAATTTATGTA-ATGGG
1 TTAAAATAAGAATAAAATATATATATTTAAG
* *
11462357 TTAAGATAATAAT-AAATATA-A-ATTTAGCAG
1 TTAAAATAAGAATAAAATATATATATTTA--AG
* *
11462387 TTAAGATAAGAATAAAATAT-T-T-TTTATG
1 TTAAAATAAGAATAAAATATATATATTTAAG
* * * *
11462415 TTAAGATAACAATAAAATATATTTA-ATAAG
1 TTAAAATAAGAATAAAATATATATATTTAAG
* *
11462445 TTAAGATAAAAATAAAATATAT-T-TTTAATG
1 TTAAAATAAGAATAAAATATATATATTTAA-G
11462475 TTAAAA
1 TTAAAA
11462481 ATGAATTTAA
Statistics
Matches: 219, Mismatches: 39, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
27 1 0.00
28 21 0.10
29 11 0.05
30 141 0.64
31 20 0.09
32 14 0.06
33 11 0.05
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (31 bp):
TTAAAATAAGAATAAAATATATATATTTAAG
Found at i:11462337 original size:60 final size:59
Alignment explanation
Indices: 11462237--11462468 Score: 220
Period size: 60 Copynumber: 3.9 Consensus size: 59
11462227 TATATTTAAA
* *
11462237 TTAAGATAAGAATAAAATATATATTTTAAGTTAAAATAAGAATAAATTATATTTAATTAT
1 TTAAGATAAGAATAAAATATAT-TTATAAGTTAAGATAAGAATAAATTATATTTAATTAT
* * * * * ***
11462297 TTAAGGTAAGGATAAAATATATTTAATAATTTAAGTTAAGAATATAATT-TATGTAATGGG
1 TTAAGATAAGAATAAAATATATTT-ATAAGTTAAGATAAGAATA-AATTATATTTAATTAT
* * ** *
11462357 TTAAGATAATAATAAATATAAATTTAGCAGTTAAGATAAGAATAAA--ATATTT-TTTAT
1 TTAAGATAAGAATAAA-ATATATTTATAAGTTAAGATAAGAATAAATTATATTTAATTAT
* * *
11462414 GTTAAGATAACAATAAAATATATTTAATAAGTTAAGATAAAAATAAAATATATTT
1 -TTAAGATAAGAATAAAATATATTT-ATAAGTTAAGATAAGAATAAATTATATTT
11462469 TTAATGTTAA
Statistics
Matches: 136, Mismatches: 28, Indels: 16
0.76 0.16 0.09
Matches are distributed among these distances:
57 8 0.06
58 37 0.27
59 4 0.03
60 76 0.56
61 11 0.08
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (59 bp):
TTAAGATAAGAATAAAATATATTTATAAGTTAAGATAAGAATAAATTATATTTAATTAT
Found at i:11462491 original size:18 final size:18
Alignment explanation
Indices: 11462468--11462515 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
11462458 AAAATATATT
11462468 TTTAATGTTAAAAATGAA
1 TTTAATGTTAAAAATGAA
**
11462486 TTTAAT-TTAATATGTGAA
1 TTTAATGTTAA-AAATGAA
11462504 TTTAA-GTTAAAA
1 TTTAATGTTAAAA
11462516 TATATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (18 bp):
TTTAATGTTAAAAATGAA
Found at i:11462509 original size:148 final size:144
Alignment explanation
Indices: 11462207--11462530 Score: 336
Period size: 148 Copynumber: 2.2 Consensus size: 144
11462197 ATTTTAATTA
* *
11462207 AATTTAAAATAAT-ATATATATATATTTAAATTAAGATAAGAATAAAATATATATTTTAAGTTAA
1 AATTTAAGATAATAATATATATAAATTTAAATTAAGATAAGAATAAAATATATATTTTAAGTTAA
* * * * * ** *
11462271 AATAAGAATAAATTATATTTAATTATTTAAGGTAAGGATAAAATATATTTAATAATTTAAGTTAA
66 AATAACAATAAAATATATTTAATAAGTTAAGATAAAAATAAAATATATTTAATAATTTAAG-AAA
11462336 GAATATAATTTATGT
130 GAATATAATTTATGT
* * *
11462351 AATGGGTTAAGATAATAATAAATATAAATTTAGCAGTTAAGATAAGAATAAAATAT-T-TTTTAT
1 AAT---TTAAGATAATAATATATATAAATTTA--AATTAAGATAAGAATAAAATATATATTTTAA
* *
11462414 GTTAAGATAACAATAAAATATATTTAATAAGTTAAGATAAAAATAAAATATATTT-TTAATGTTA
61 GTTAAAATAACAATAAAATATATTTAATAAGTTAAGATAAAAATAAAATATATTTAATAAT-TTA
*
11462478 A-AAATGAATTTAATTTAATATGT
125 AGAAA-GAATATAA-TT--TATGT
* *
11462501 GAATTTAAGTTAA-AATATATAAAAATTTAA
1 -AATTTAAGATAATAATATATATAAATTTAA
11462531 GATTTTAAGT
Statistics
Matches: 149, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
144 3 0.02
145 1 0.01
146 2 0.01
147 34 0.23
148 79 0.53
149 1 0.01
150 26 0.17
151 3 0.02
ACGTcount: A:0.52, C:0.01, G:0.09, T:0.39
Consensus pattern (144 bp):
AATTTAAGATAATAATATATATAAATTTAAATTAAGATAAGAATAAAATATATATTTTAAGTTAA
AATAACAATAAAATATATTTAATAAGTTAAGATAAAAATAAAATATATTTAATAATTTAAGAAAG
AATATAATTTATGT
Found at i:11464922 original size:29 final size:29
Alignment explanation
Indices: 11464883--11464954 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
11464873 TCTCTGTGTT
11464883 TTTTTCGAAAGCTTCATTTTCTTTTTTCC
1 TTTTTCGAAAGCTTCATTTTCTTTTTTCC
11464912 TTTTTCGAAAGCTTCATTTTCTTTTTTCC
1 TTTTTCGAAAGCTTCATTTTCTTTTTTCC
11464941 TTTTTCGAAAGCTT
1 TTTTTCGAAAGCTT
11464955 TCTTTCTCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.15, C:0.19, G:0.08, T:0.57
Consensus pattern (29 bp):
TTTTTCGAAAGCTTCATTTTCTTTTTTCC
Found at i:11465555 original size:3 final size:3
Alignment explanation
Indices: 11465547--11465591 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
11465537 CTACAAAAAT
*
11465547 ATA ATA ATA TTA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11465592 GTTATTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11466240 original size:138 final size:137
Alignment explanation
Indices: 11465795--11466293 Score: 626
Period size: 137 Copynumber: 3.6 Consensus size: 137
11465785 TTTGGAGATA
** * ** * * *
11465795 ACACTGCTCCTACACGATGAGGATATCGGGTCGGTGGATGACACTGTCCCTACGTAATGAGGACA
1 ACACTGCTCCTACGTGATGAGGAGATATGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACG
** * *
11465860 TTTGGATATCTTTAGGGATAATAGAGATAACACTG-TTCCTACGTGATGAGGAATTTTGGCTATC
66 TTTGGCCATCTTTAGGGATAATAGAGATAACAC-GATTCCTACGTGATGAGGAAGTCTGGCTATC
11465924 TAAGGGTG
130 TAAGGGTG
* * *
11465932 ACACGGCTCCTACGTGATGAGGAGA-ACTGGTCGGTGGATGACACGGTTCCTATGTGATGAGGAC
1 ACACTGCTCCTACGTGATGAGGAGATA-TGGTCGGTGGATGACACTGTTCCTACGTGATGAGGAC
* * * * * *
11465996 GTTTGACCATCTTTAGGGATAATGGAGATAACACAATTCTTATGTGAAGAGGAAGTCTGGCTATC
65 GTTTGGCCATCTTTAGGGATAATAGAGATAACACGATTCCTACGTGATGAGGAAGTCTGGCTATC
11466061 TAAGGGTG
130 TAAGGGTG
* * *
11466069 ACACTGCTCTTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACG
1 ACACTGCTCCTACGTGATGAGGAGATATGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACG
* * * *
11466134 TCTGGCCATCTTTAGGGATAAATAGAGATAACACGATTCCTACGCGATTAGGAAGCCTGGCTATC
66 TTTGGCCATCTTTAGGGAT-AATAGAGATAACACGATTCCTACGTGATGAGGAAGTCTGGCTATC
*
11466199 TAAGGATG
130 TAAGGGTG
* * * **
11466207 ATGA-TTCTCCTACGTGATGAGGAGATATGGTCGGTGGATGACACTATTCCTATATGATGAGGAC
1 A-CACTGCTCCTACGTGATGAGGAGATATGGTCGGTGGATGACACTGTTCCTACGTGATGAGGAC
*
11466271 GTATGGCCATCTTTAGGGATAAT
65 GTTTGGCCATCTTTAGGGATAAT
11466294 TTGTTTCAAG
Statistics
Matches: 310, Mismatches: 47, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
137 192 0.62
138 117 0.38
139 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (137 bp):
ACACTGCTCCTACGTGATGAGGAGATATGGTCGGTGGATGACACTGTTCCTACGTGATGAGGACG
TTTGGCCATCTTTAGGGATAATAGAGATAACACGATTCCTACGTGATGAGGAAGTCTGGCTATCT
AAGGGTG
Found at i:11466285 original size:275 final size:274
Alignment explanation
Indices: 11465795--11466293 Score: 707
Period size: 275 Copynumber: 1.8 Consensus size: 274
11465785 TTTGGAGATA
*
11465795 ACACTGCTCCTACACGATGAGGATATCGGGTCGGTGGATGACACTGTCCCTACGTAATGAGGACA
1 ACACTGCTCCTACACGATGAGGAGATCGGGTCGGTGGATGACACTGTCCCTACGTAATGAGGACA
* * * ***
11465860 TTTGGATATCTTTAGGGATAATAGAGATAACACTGTTCCTACGTGATGAGGAATTTTGGCTATCT
66 TCTGGACATCTTTAGGGATAATAGAGATAACACTGTTCCTACGCGATGAGGAAGCCTGGCTATCT
* * *
11465925 AAGGGTGACACGGCTCCTACGTGATGAGGAGAACTGGTCGGTGGATGACACGGTTCCTATGTGAT
131 AAGGATGACACGGCTCCTACGTGATGAGGAGAACTGGTCGGTGGATGACACGATTCCTATATGAT
*
11465990 GAGGACGTTTGACCATCTTTAGGGATAATGGAGATAACACAATTCTTATGTGAAGAGGAAGTCTG
196 GAGGACGTATGACCATCTTTAGGGATAATGGAGATAACACAATTCTTATGTGAAGAGGAAGTCTG
11466055 GCTATCTAAGGGTG
261 GCTATCTAAGGGTG
* ** * * * * *
11466069 ACACTGCTCTTACGTGATGAGGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACG
1 ACACTGCTCCTACACGATGAGGAGATCGGGTCGGTGGATGACACTGTCCCTACGTAATGAGGACA
* *
11466134 TCTGGCCATCTTTAGGGATAAATAGAGATAACAC-GATTCCTACGCGATTAGGAAGCCTGGCTAT
66 TCTGGACATCTTTAGGGAT-AATAGAGATAACACTG-TTCCTACGCGATGAGGAAGCCTGGCTAT
* ** *
11466198 CTAAGGATGATGA-TTCTCCTACGTGATGAGGAGATA-TGGTCGGTGGATGACACTATTCCTATA
129 CTAAGGATGA-CACGGCTCCTACGTGATGAGGAGA-ACTGGTCGGTGGATGACACGATTCCTATA
*
11466261 TGATGAGGACGTATGGCCATCTTTAGGGATAAT
192 TGATGAGGACGTATGACCATCTTTAGGGATAAT
11466294 TTGTTTCAAG
Statistics
Matches: 195, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
274 73 0.37
275 120 0.62
276 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (274 bp):
ACACTGCTCCTACACGATGAGGAGATCGGGTCGGTGGATGACACTGTCCCTACGTAATGAGGACA
TCTGGACATCTTTAGGGATAATAGAGATAACACTGTTCCTACGCGATGAGGAAGCCTGGCTATCT
AAGGATGACACGGCTCCTACGTGATGAGGAGAACTGGTCGGTGGATGACACGATTCCTATATGAT
GAGGACGTATGACCATCTTTAGGGATAATGGAGATAACACAATTCTTATGTGAAGAGGAAGTCTG
GCTATCTAAGGGTG
Done.