Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015286.1 Kokia drynarioides strain JFW-HI SEQ_130331, 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: 659172
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 555 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:2932 original size:2 final size:2
Alignment explanation
Indices: 2925--2952 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2915 ATGAAATTCA
2925 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
2953 CTTACATAGT
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:5941 original size:79 final size:79
Alignment explanation
Indices: 5846--6004 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
5836 AGAAGTAATC
*
5846 CCTAAAAAGTATATATCAATGAAATCATCATAGAAAAGCAATTCCAAATAGACTCTTAGACCATA
1 CCTAAAAAGTATATATCAACGAAATCATCATAGAAAAGCAATTCCAAATAGACTCTTAGACCATA
5911 TATTAATGGGATTT
66 TATTAATGGGATTT
5925 CCTAAAAAGTATATATCAACGAAATCATCATAGAAAAGCAATTCCAAATAGACTCTTAGACCATA
1 CCTAAAAAGTATATATCAACGAAATCATCATAGAAAAGCAATTCCAAATAGACTCTTAGACCATA
5990 TATTAATGGGATTT
66 TATTAATGGGATTT
6004 C
1 C
6005 AAAAAGATTT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.28
Consensus pattern (79 bp):
CCTAAAAAGTATATATCAACGAAATCATCATAGAAAAGCAATTCCAAATAGACTCTTAGACCATA
TATTAATGGGATTT
Found at i:16572 original size:33 final size:34
Alignment explanation
Indices: 16535--16622 Score: 94
Period size: 33 Copynumber: 2.6 Consensus size: 34
16525 TTGTTATTGT
16535 TATTTTTATTTTATTGAAAAATATT-TA-TTTTAA
1 TATTTTTATTTTATT-AAAAATATTATATTTTTAA
* * *
16568 TATTTTTAGTGTATTTAAAATATTATATTTTTAA
1 TATTTTTATTTTATTAAAAATATTATATTTTTAA
*
16602 -ATTTGT-TTTTATATAAAAATA
1 TATTTTTATTTTAT-TAAAAATA
16623 ATATTACAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 12 0.27
33 27 0.60
34 6 0.13
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (34 bp):
TATTTTTATTTTATTAAAAATATTATATTTTTAA
Found at i:16997 original size:2 final size:2
Alignment explanation
Indices: 16992--17025 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
16982 TTTCGATCAA
16992 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
17026 TAGCTTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21661 original size:23 final size:23
Alignment explanation
Indices: 21631--21733 Score: 115
Period size: 23 Copynumber: 4.5 Consensus size: 23
21621 GCTGGGGAAA
21631 CAGTAAGCACACACAGTGC-AAT
1 CAGTAAGCACACACAGTGCAAAT
21653 CCAGTAAGCACACACAGTGC-AAT
1 -CAGTAAGCACACACAGTGCAAAT
* * *
21676 CAGTAGGCGCACATAGTGCAAAT
1 CAGTAAGCACACACAGTGCAAAT
*
21699 CAGTAGGCACACA-AGGTGCGAAA-
1 CAGTAAGCACACACA-GTGC-AAAT
21722 CAGTAAGCACAC
1 CAGTAAGCACAC
21734 GAAGTGTGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
22 17 0.24
23 52 0.72
24 3 0.04
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (23 bp):
CAGTAAGCACACACAGTGCAAAT
Found at i:21744 original size:23 final size:23
Alignment explanation
Indices: 21603--21752 Score: 107
Period size: 23 Copynumber: 6.4 Consensus size: 23
21593 CGAAATACTT
*
21603 AACAGTAAGCACACAAGTGCTGGGGA
1 AACAGTAAGCACACAAG-G-T-GCGA
21629 AACAGTAAGCACACACA-GTGC-A
1 AACAGTAAGCACACA-AGGTGCGA
*
21651 ATCCAGTAAGCACACACA-GTGC-A
1 A-ACAGTAAGCACACA-AGGTGCGA
* * *
21674 ATCAGTAGGCGCACATA-GTGC-A
1 AACAGTAAGCACACA-AGGTGCGA
*
21696 AATCAGTAGGCACACAAGGTGCGA
1 AA-CAGTAAGCACACAAGGTGCGA
*
21720 AACAGTAAGCACACGAA-GTGTGA
1 AACAGTAAGCACAC-AAGGTGCGA
21743 AACAGTAAGC
1 AACAGTAAGC
21753 GCGCTAGCGT
Statistics
Matches: 108, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
22 21 0.19
23 64 0.59
24 6 0.06
25 1 0.01
26 15 0.14
27 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.13
Consensus pattern (23 bp):
AACAGTAAGCACACAAGGTGCGA
Found at i:48279 original size:21 final size:22
Alignment explanation
Indices: 48225--48277 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
48215 CAGTTAACAT
48225 TTACTATTTTAAAAAATATAAC
1 TTACTATTTTAAAAAATATAAC
48247 TTACTATTTTAAAAAATATAAC
1 TTACTATTTTAAAAAATATAAC
48269 TTACTATTT
1 TTACTATTT
48278 AACAAAGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (22 bp):
TTACTATTTTAAAAAATATAAC
Found at i:49380 original size:2 final size:2
Alignment explanation
Indices: 49373--49401 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49363 CTGTAATCTT
49373 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
49402 TTAAAGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:59273 original size:46 final size:46
Alignment explanation
Indices: 59180--59273 Score: 102
Period size: 46 Copynumber: 2.0 Consensus size: 46
59170 GTTCATCCAA
* * **
59180 TTATGAGAAATTACAAAATAATTATTTAATTATTATGTTTTTTTTT
1 TTATGAGAAATTACAAAATAATCATTTAATTATTATATTTTACTTT
* *
59226 TTATGA-AAAGTTATAAAATAATCATTTATTTATT-TAATTTTACTTT
1 TTATGAGAAA-TTACAAAATAATCATTTAATTATTAT-ATTTTACTTT
59272 TT
1 TT
59274 TTGGTCATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
45 4 0.10
46 36 0.90
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.54
Consensus pattern (46 bp):
TTATGAGAAATTACAAAATAATCATTTAATTATTATATTTTACTTT
Found at i:71478 original size:17 final size:17
Alignment explanation
Indices: 71442--71476 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
71432 ATCCGTTTTT
71442 AATTAAATAAATATTAA
1 AATTAAATAAATATTAA
*
71459 AATTTAATAAAT-TTAA
1 AATTAAATAAATATTAA
71475 AA
1 AA
71477 ATAAGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AATTAAATAAATATTAA
Found at i:79647 original size:72 final size:71
Alignment explanation
Indices: 79531--79676 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 71
79521 GTTTATGATG
*
79531 TCACCTGTACTAATTTTTTTTTTGGTTTACTTGATGAGCAAGCAATGTCCTTGAAACAGAAAGGG
1 TCACCTGTACTAAATTTTTTTTTGGTTTACTTGATGAGCAAGCAATGTCCTTGAAACAGAAAGGG
79596 CTTCTT
66 CTTCTT
79602 TCACCTGTACTAAAATTTTTTTTTGGTTTACTTGATGAGCAAGCAATGTCCTTGAAACAGAAAGG
1 TCACCTGTACT-AAATTTTTTTTTGGTTTACTTGATGAGCAAGCAATGTCCTTGAAACAGAAAGG
79667 GCTTCTT
65 GCTTCTT
79674 TCA
1 TCA
79677 GATTTCAACT
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
71 11 0.15
72 62 0.85
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (71 bp):
TCACCTGTACTAAATTTTTTTTTGGTTTACTTGATGAGCAAGCAATGTCCTTGAAACAGAAAGGG
CTTCTT
Found at i:91139 original size:19 final size:20
Alignment explanation
Indices: 91094--91139 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
91084 GGTTATGGGT
* *
91094 AATTCTAAATATTATATAAA
1 AATTATAAATATGATATAAA
*
91114 AA-AATAAATATGATA-AAA
1 AATTATAAATATGATATAAA
91132 AATTATAA
1 AATTATAA
91140 TAAAAATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
18 5 0.24
19 14 0.67
20 2 0.10
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AATTATAAATATGATATAAA
Found at i:108862 original size:25 final size:23
Alignment explanation
Indices: 108830--108875 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
108820 GTTGGATACA
108830 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
*
108855 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
108876 CCCTAATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:108962 original size:13 final size:13
Alignment explanation
Indices: 108941--108974 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
108931 ACAATATAAT
108941 AATAATAATCCTA
1 AATAATAATCCTA
*
108954 AATATTAATCCTA
1 AATAATAATCCTA
*
108967 AAAAATAA
1 AATAATAA
108975 AGTTTAGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:113573 original size:38 final size:38
Alignment explanation
Indices: 113530--113634 Score: 201
Period size: 38 Copynumber: 2.8 Consensus size: 38
113520 ACGAATACAG
113530 ATAATTGATAGGATTCTTTAAAAGGGTCATGAATATGA
1 ATAATTGATAGGATTCTTTAAAAGGGTCATGAATATGA
*
113568 ATAATTGATAGGATTCTTTAAAAGGGTCATGAATATGG
1 ATAATTGATAGGATTCTTTAAAAGGGTCATGAATATGA
113606 ATAATTGATAGGATTCTTTAAAAGGGTCA
1 ATAATTGATAGGATTCTTTAAAAGGGTCA
113635 AGGAGTTTAC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 66 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (38 bp):
ATAATTGATAGGATTCTTTAAAAGGGTCATGAATATGA
Found at i:120140 original size:30 final size:29
Alignment explanation
Indices: 120100--120157 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
120090 AATTTAATAT
* *
120100 AAAAAAATATTTATTTATTAAAATGGTAC
1 AAAAAAATATTTATATACTAAAATGGTAC
*
120129 AAAATAAATATTTATATACTAAATTGGTA
1 AAAA-AAATATTTATATACTAAAATGGTA
120158 TCTCCACCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (29 bp):
AAAAAAATATTTATATACTAAAATGGTAC
Found at i:120269 original size:29 final size:30
Alignment explanation
Indices: 120197--120269 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
120187 TGTGGATACT
120197 ATTTTGGTATATAAATATTTATTTAGTACC
1 ATTTTGGTATATAAATATTTATTTAGTACC
* *
120227 ATTTTGGTATATAAATATTTTTTTA-TATC
1 ATTTTGGTATATAAATATTTATTTAGTACC
*
120256 ATTTTGGTAAATAA
1 ATTTTGGTATATAA
120270 CCCATTTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 16 0.40
30 24 0.60
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.52
Consensus pattern (30 bp):
ATTTTGGTATATAAATATTTATTTAGTACC
Found at i:120821 original size:1 final size:1
Alignment explanation
Indices: 120817--120843 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
120807 GTGCACCATT
120817 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
120844 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:120867 original size:1 final size:1
Alignment explanation
Indices: 120861--120889 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
120851 NNNNNNNNNN
120861 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
120890 CTGCTAATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:128190 original size:9 final size:9
Alignment explanation
Indices: 128176--128255 Score: 61
Period size: 9 Copynumber: 9.6 Consensus size: 9
128166 GCAAATGATT
128176 TTAAAATTA
1 TTAAAATTA
128185 TTAAAATTA
1 TTAAAATTA
128194 TTTTTAAAA-TA
1 ---TTAAAATTA
128205 -TAAAATTA
1 TTAAAATTA
*
128213 TTAAAAATA
1 TTAAAATTA
128222 TT----TT-
1 TTAAAATTA
128226 TTAAAA-TA
1 TTAAAATTA
128234 -TAAAATTA
1 TTAAAATTA
128242 TTAAAATTA
1 TTAAAATTA
128251 TTAAA
1 TTAAA
128256 TAATTTTAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
4 2 0.04
5 1 0.02
7 11 0.19
8 4 0.07
9 31 0.54
11 2 0.04
12 6 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TTAAAATTA
Found at i:128210 original size:19 final size:21
Alignment explanation
Indices: 128174--128214 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
128164 CAGCAAATGA
128174 TTTTAAAATTATTAAAATTAT
1 TTTTAAAATTATTAAAATTAT
128195 TTTTAAAA-TA-TAAAATTAT
1 TTTTAAAATTATTAAAATTAT
128214 T
1 T
128215 AAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
21 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTAAAATTATTAAAATTAT
Found at i:128229 original size:29 final size:29
Alignment explanation
Indices: 128177--128252 Score: 136
Period size: 29 Copynumber: 2.7 Consensus size: 29
128167 CAAATGATTT
128177 TAAAATTATTAAAATTA-TTTTTAAAATA
1 TAAAATTATTAAAATTATTTTTTAAAATA
*
128205 TAAAATTATTAAAAATATTTTTTAAAATA
1 TAAAATTATTAAAATTATTTTTTAAAATA
128234 TAAAATTATTAAAATTATT
1 TAAAATTATTAAAATTATT
128253 AAATAATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 16 0.36
29 29 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (29 bp):
TAAAATTATTAAAATTATTTTTTAAAATA
Found at i:128320 original size:18 final size:18
Alignment explanation
Indices: 128269--128320 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
128259 TTTTAATTTT
*
128269 CAATTTCATCTTCTTCAC
1 CAATTTCATCTTCTTCCC
*
128287 CAA--T-AT-TTCTTTCC
1 CAATTTCATCTTCTTCCC
128301 CAATTTCATCTTCTTCCC
1 CAATTTCATCTTCTTCCC
128319 CA
1 CA
128321 TTTTTCCATC
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
14 9 0.33
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.44
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTCATCTTCTTCCC
Found at i:128629 original size:13 final size:13
Alignment explanation
Indices: 128598--128652 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
128588 CATTTGCTTA
*
128598 TGTTTGTT-TTTT
1 TGTTTGTTGGTTT
*
128610 TGATTTGGTGGTTT
1 TG-TTTGTTGGTTT
128624 TGTTTGTTGGTTT
1 TGTTTGTTGGTTT
* *
128637 TTTTTTTTGGTTT
1 TGTTTGTTGGTTT
128650 TGT
1 TGT
128653 GAAAATGGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
12 2 0.06
13 28 0.80
14 5 0.14
ACGTcount: A:0.02, C:0.00, G:0.25, T:0.73
Consensus pattern (13 bp):
TGTTTGTTGGTTT
Found at i:128897 original size:3 final size:3
Alignment explanation
Indices: 128891--128920 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
128881 CTAAGAACGG
128891 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
128921 TATAAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:132168 original size:211 final size:212
Alignment explanation
Indices: 131822--132216 Score: 587
Period size: 211 Copynumber: 1.9 Consensus size: 212
131812 ACGGAATATG
* * * *
131822 TGTTTAATATCTAATATAATACTTATATTTAAACACTTTACTGATTTAATGTCATCCTTTAATTG
1 TGTTTAATATCTAATATAATACTTATATTTAAACAATTTACTGAGTTAATGTCATCCCTTAAATG
* * * * * *
131887 GCTTACCAATTTAGTTATGAAATTATAGAAATATCCTTTCTTTTAAATTATAATTAATGTTATTG
66 GCTCACCAACTAAATTATAAAATTATAGAAATATCATTTCTTTTAAATTATAATTAATGTTATTG
*
131952 TGATATCAATTGTATCTTTCCATATTTTTATATCATCTTTAAATAAAATAATTACAAATTATAAA
131 TGATATCAATTGTATCTTTCCATACTTTTATATCATCTTTAAATAAAATAATTACAAATTATAAA
132017 TCCTATGATCAAACCCA
196 TCCTATGATCAAACCCA
* * *
132034 TGTTTAATATCTAATCTAATACTTATATTTAAGCAATTTAC-GAGGTTAGTGTCA-CCCTTAAAT
1 TGTTTAATATCTAATATAATACTTATATTTAAACAATTTACTGA-GTTAATGTCATCCCTTAAAT
* *
132097 GGGTCACCAGCTAAATTATAAAATTATAGAAATATCATTTCTTTTAAATTATAATTAATGTTATT
65 GGCTCACCAACTAAATTATAAAATTATAGAAATATCATTTCTTTTAAATTATAATTAATGTTATT
* * * *
132162 GTGATATCAGTTTTGTTTTTCCATACTTTTATATCATCTTTAAATAAAATAATTA
130 GTGATATCAATTGTATCTTTCCATACTTTTATATCATCTTTAAATAAAATAATTA
132217 AAAAAACTCA
Statistics
Matches: 162, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
211 116 0.72
212 46 0.28
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (212 bp):
TGTTTAATATCTAATATAATACTTATATTTAAACAATTTACTGAGTTAATGTCATCCCTTAAATG
GCTCACCAACTAAATTATAAAATTATAGAAATATCATTTCTTTTAAATTATAATTAATGTTATTG
TGATATCAATTGTATCTTTCCATACTTTTATATCATCTTTAAATAAAATAATTACAAATTATAAA
TCCTATGATCAAACCCA
Found at i:138578 original size:22 final size:22
Alignment explanation
Indices: 138553--138615 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
138543 GTTGGGTTCT
* *
138553 ATCCGGATTTATTTTGGTTTAA
1 ATCCGAATATATTTTGGTTTAA
138575 ATCCGAATATATTTTGGTTTAA
1 ATCCGAATATATTTTGGTTTAA
138597 ATCCGAATATATTTTGGTT
1 ATCCGAATATATTTTGGTT
138616 ATTAGACCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.48
Consensus pattern (22 bp):
ATCCGAATATATTTTGGTTTAA
Found at i:143727 original size:48 final size:48
Alignment explanation
Indices: 143667--143784 Score: 191
Period size: 48 Copynumber: 2.5 Consensus size: 48
143657 CCACTGCCTA
* *
143667 ATGTGTACAAGTCCCCACCTCCACCATCACCTTCACCTCCTCCACCTT
1 ATGTGTACAAGTCCCCACCTCCACCATCACCCTCACCTCCCCCACCTT
* * *
143715 ATGTCTACAAGTCCCCACCTCCACCGTCTCCCTCACCTCCCCCACCTT
1 ATGTGTACAAGTCCCCACCTCCACCATCACCCTCACCTCCCCCACCTT
143763 ATGTGTACAAGTCCCCACCTCC
1 ATGTGTACAAGTCCCCACCTCC
143785 TCCACCCTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.19, C:0.49, G:0.08, T:0.24
Consensus pattern (48 bp):
ATGTGTACAAGTCCCCACCTCCACCATCACCCTCACCTCCCCCACCTT
Found at i:143784 original size:30 final size:30
Alignment explanation
Indices: 143743--143814 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
143733 CTCCACCGTC
* * *
143743 TCCCTCACCTCCCCCACCTTATGTGTACAAG
1 TCCC-CACCTCCCCCACCCTATATCTACAAG
*
143774 TCCCCACCTCCTCCACCCTATATCTACAAG
1 TCCCCACCTCCCCCACCCTATATCTACAAG
143804 TCCCCACCTCC
1 TCCCCACCTCC
143815 ACCTCCATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 33 0.89
31 4 0.11
ACGTcount: A:0.19, C:0.51, G:0.06, T:0.24
Consensus pattern (30 bp):
TCCCCACCTCCCCCACCCTATATCTACAAG
Found at i:147217 original size:48 final size:48
Alignment explanation
Indices: 147161--147380 Score: 251
Period size: 48 Copynumber: 4.6 Consensus size: 48
147151 ATCCCCGCCA
* * *
147161 CCTCCTTACATTTATAAATCCCCACCTCCACCATCACCTTCACCACCT
1 CCTCCTTACATCTACAAATCCCCACCTCCACCATCTCCTTCACCACCT
* * * *
147209 CCTCCTTACATCTACAAGTCGCCTCCTCCACCAACTCCTTCACCACCT
1 CCTCCTTACATCTACAAATCCCCACCTCCACCATCTCCTTCACCACCT
* ** *
147257 TCTCCTTACATCTACAAATCCCCACCTCCAAAATCTCCCTCACCACCT
1 CCTCCTTACATCTACAAATCCCCACCTCCACCATCTCCTTCACCACCT
* * ** * *
147305 CCTCCTTACATTTCCATGTCCCCACCTCCACCATCTCCTTCACCTCCC
1 CCTCCTTACATCTACAAATCCCCACCTCCACCATCTCCTTCACCACCT
* ** *
147353 CCACCTTATGTCTACAAGTCCCCACCTC
1 CCTCCTTACATCTACAAATCCCCACCTC
147381 TACCGTTTCC
Statistics
Matches: 141, Mismatches: 31, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 141 1.00
ACGTcount: A:0.22, C:0.50, G:0.02, T:0.26
Consensus pattern (48 bp):
CCTCCTTACATCTACAAATCCCCACCTCCACCATCTCCTTCACCACCT
Found at i:147420 original size:48 final size:48
Alignment explanation
Indices: 147164--147434 Score: 166
Period size: 48 Copynumber: 5.6 Consensus size: 48
147154 CCCGCCACCT
* * * ** * * *
147164 CCTTACATTTATAAATCCCCACCTCCACCATCACCTTCACCACCTCCT
1 CCTTACATTTACAAGTCCCCACCTCCACCATCTCCTAAACCTCCCCCA
* * * * ** * ** *
147212 CCTTACATCTACAAGTCGCCTCCTCCACCAACTCCTTCACCACCTTCT
1 CCTTACATTTACAAGTCCCCACCTCCACCATCTCCTAAACCTCCCCCA
* * ** * * * *
147260 CCTTACATCTACAAATCCCCACCTCCAAAATCTCCCT-CACCACCTCCT
1 CCTTACATTTACAAGTCCCCACCTCCACCATCT-CCTAAACCTCCCCCA
* * **
147308 CCTTACATTTCCATGTCCCCACCTCCACCATCTCCTTCACCTCCCCCA
1 CCTTACATTTACAAGTCCCCACCTCCACCATCTCCTAAACCTCCCCCA
** * * * * *
147356 CCTTATGTCTACAAGTCCCCACCTCTACCGTTTCCTAAACCTCCCCCG
1 CCTTACATTTACAAGTCCCCACCTCCACCATCTCCTAAACCTCCCCCA
* **
147404 CCTTACATTTATAAGTCTTCACCTCCACCAT
1 CCTTACATTTACAAGTCCCCACCTCCACCAT
147435 ATGTCTACAA
Statistics
Matches: 178, Mismatches: 43, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
47 3 0.02
48 172 0.97
49 3 0.02
ACGTcount: A:0.22, C:0.48, G:0.03, T:0.27
Consensus pattern (48 bp):
CCTTACATTTACAAGTCCCCACCTCCACCATCTCCTAAACCTCCCCCA
Found at i:147448 original size:27 final size:27
Alignment explanation
Indices: 147416--147509 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
147406 TTACATTTAT
*
147416 AAGTCTTCACCTCCACCATATGTCTAC
1 AAGTCTCCACCTCCACCATATGTCTAC
147443 AAGTCTCCACCTCCACC--A--TCT-C
1 AAGTCTCCACCTCCACCATATGTCTAC
** * *
147465 -CCTCACCTCCTCCACCATATGTCTAC
1 AAGTCTCCACCTCCACCATATGTCTAC
147491 AAGTCTCCACCTCCACCAT
1 AAGTCTCCACCTCCACCAT
147510 CTCCCTCACC
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
21 12 0.23
22 1 0.02
23 4 0.08
25 4 0.08
26 1 0.02
27 30 0.58
ACGTcount: A:0.23, C:0.46, G:0.05, T:0.26
Consensus pattern (27 bp):
AAGTCTCCACCTCCACCATATGTCTAC
Found at i:147490 original size:48 final size:48
Alignment explanation
Indices: 147425--148559 Score: 1131
Period size: 48 Copynumber: 23.6 Consensus size: 48
147415 TAAGTCTTCA
* *
147425 CCTCCACCATATGTCTACAAGTCTCCACCTCCACCATCTCCCTCACCT
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * *
147473 CCTCCACCATATGTCTACAAGTCTCCACCTCCACCATCTCCCTCACCA
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* ** * * * *
147521 CCTCCTCCTTACATCTACAAATCCCCACCTCCACCATCTCCCTCACCA
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* ** * * *
147569 CCTCCTCCTTACATCCACAAGTCCCCACCTCCTCCATCTCCTTCACCT
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * *
147617 CC-CTCACCTTATGTCTACAAGTCCCCACCTCCACCGTCTCTTTCACCT
1 CCTC-CACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* ** * *
147665 CCCCCACCTTACATTTATAAGTCTCCACCTCCACCATCTCCTTCACCT
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
** * *
147713 CCTCCACCAAATGTCTACAAGTCTCCACCTCCACCATCTCCCTCACCA
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * ** * * * * *
147761 CCTCCTCTTTACATCTACAAATCCCCACCTCTACCATTTCATTCACCT
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * * *
147809 CCACCACCATATGTCTACAAGTCCCCACCTCCACCGTCTCCTTCACCT
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * * * *
147857 CCCCCACCTTATCTCTACAAGTCACCACCTCCACCGTCTCCTTCACTT
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * * *
147905 CCCCCACCTTATGTCTACAAGTCACCACCTCCACCGTCTCCCTCACCT
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * * * *
147953 CCCCCACCATATGTCTACAAGTC-CTCACCTCCACCGTCTCCCTCATCT
1 CCTCCACCTTATGTCTACAAGTCTC-CACCTCCACCATCTCCTTCACCT
* * * * *
148001 GCTCCACCATATGTCTACAAGTCCCCACCTCCACCATCTCCCTCACCA
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * ** * *
148049 CATCCTCCTTCCAT-TCATA-AA-T-TACCGTCGCCACTATCTCCTTCACCT
1 CCTCCACCTT--ATGTC-TACAAGTCT-CCACCTCCACCATCTCCTTCACCT
* * * *
148097 CCTCCACCATATGTTTACAAGTCTCCACCTCCACCATCTCCCTCACCA
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
** * * *
148145 CCTCTTCCTTCCAT-TCATA-AA-TCACCGCCGCCACCATCTCCTTCACCT
1 CCTCCACCTT--ATGTC-TACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * *
148193 CCTCCACCATATGTCTACAAGTCTCCACCTCCACCATCTCCCTCACCA
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * *
148241 CCTCCTCCTTACT-TCTACAAGTCTCCACCTCCACCATCTCCCTCACCA
1 CCTCCACCTTA-TGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * *
148289 CATCCTCCTTATATCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * * * **
148337 TCACCACCATATGTCTACAAGTCCCCACCTCCACTGTCTCCTTCACCTT
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACC-T
* * * * *
148386 CC-ACACCTTATGTCTACAAGTCCCCACCTCCACCGTCTCTTTCACCG
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * *
148433 CCCCCACCTTATGTCTACAAGTCACCACCTCCACCATCTCCTTCACTT
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* * * * *
148481 CCTCCACCTTATGTTTATAAGTCGCCACCTCCGCCATCTCCATCACCT
1 CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
* *
148529 CCTTCACCATATGTCTACAAGTCTCCACCTC
1 CCTCCACCTTATGTCTACAAGTCTCCACCTC
148560 TTCCTCACAT
Statistics
Matches: 915, Mismatches: 150, Indels: 44
0.83 0.14 0.04
Matches are distributed among these distances:
46 8 0.01
47 12 0.01
48 874 0.96
49 13 0.01
50 8 0.01
ACGTcount: A:0.21, C:0.48, G:0.04, T:0.27
Consensus pattern (48 bp):
CCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCTCCTTCACCT
Found at i:147521 original size:21 final size:21
Alignment explanation
Indices: 147449--147573 Score: 70
Period size: 21 Copynumber: 5.4 Consensus size: 21
147439 CTACAAGTCT
147449 CCACCTCCACCATCTCCCTCA
1 CCACCTCCACCATCTCCCTCA
* ** *
147470 CCTCCTCCACCATATGTCTACAAGTCT
1 CCACCTCCACC--A--TCT-C-CCTCA
147497 CCACCTCCACCATCTCCCTCA
1 CCACCTCCACCATCTCCCTCA
* ** *
147518 CCACCTCCTCCTTACATCTACAAATCC
1 CCACCTCC-AC---CATCT-C-CCTCA
147545 CCACCTCCACCATCTCCCTCA
1 CCACCTCCACCATCTCCCTCA
147566 CCACCTCC
1 CCACCTCC
147574 TCCTTACATC
Statistics
Matches: 76, Mismatches: 16, Indels: 24
0.66 0.14 0.21
Matches are distributed among these distances:
21 30 0.39
22 3 0.04
23 9 0.12
25 9 0.12
26 3 0.04
27 22 0.29
ACGTcount: A:0.21, C:0.55, G:0.02, T:0.22
Consensus pattern (21 bp):
CCACCTCCACCATCTCCCTCA
Found at i:147531 original size:123 final size:123
Alignment explanation
Indices: 147326--147557 Score: 304
Period size: 123 Copynumber: 1.9 Consensus size: 123
147316 TTCCATGTCC
* * * * *
147326 CCACCTCCACCATCTCCTTCACCTCCCCCACCTTATGTCTACAAGTCCCCACCTCTACCGTTTCC
1 CCACCTCCACCATCTCCCTCACCTCCCCCACCATATGTCTACAAGTCCCCACCTCCACCATTCCC
* * * * **
147391 TAAACCTCCCCCGCCTTACATTTATAAGTCTTCACCTCCACCATATGTCTACAAGTCT
66 TAAACCACCCCCGCCTTACATCTACAAATCCCCACCTCCACCATATGTCTACAAGTCT
* *
147449 CCACCTCCACCATCTCCCTCACCTCCTCCACCATATGTCTACAAGTCTCCACCTCCACCATCTCC
1 CCACCTCCACCATCTCCCTCACCTCCCCCACCATATGTCTACAAGTCCCCACCTCCACCAT-TCC
* * *
147514 CT-CACCACCTCCTCCTTACATCTACAAATCCCCACCTCCACCAT
65 CTAAACCACCCCCGCCTTACATCTACAAATCCCCACCTCCACCAT
147558 CTCCCTCACC
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
123 88 0.96
124 4 0.04
ACGTcount: A:0.22, C:0.49, G:0.04, T:0.26
Consensus pattern (123 bp):
CCACCTCCACCATCTCCCTCACCTCCCCCACCATATGTCTACAAGTCCCCACCTCCACCATTCCC
TAAACCACCCCCGCCTTACATCTACAAATCCCCACCTCCACCATATGTCTACAAGTCT
Found at i:147597 original size:27 final size:26
Alignment explanation
Indices: 147518--147603 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 26
147508 ATCTCCCTCA
*
147518 CCACCTCCTCCTTACATCTACAAATCC
1 CCACCTCCTCCTTACATCCAC-AATCC
* * *
147545 CCACCTCCACCAT-C-TCC-C--TCA
1 CCACCTCCTCCTTACATCCACAATCC
147566 CCACCTCCTCCTTACATCCACAAGTCC
1 CCACCTCCTCCTTACATCCACAA-TCC
147593 CCACCTCCTCC
1 CCACCTCCTCC
147604 ATCTCCTTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
21 13 0.28
22 1 0.02
23 3 0.07
24 2 0.04
25 2 0.04
26 1 0.02
27 24 0.52
ACGTcount: A:0.21, C:0.56, G:0.01, T:0.22
Consensus pattern (26 bp):
CCACCTCCTCCTTACATCCACAATCC
Found at i:147600 original size:171 final size:171
Alignment explanation
Indices: 147267--147605 Score: 365
Period size: 171 Copynumber: 2.0 Consensus size: 171
147257 TCTCCTTACA
* * * * *
147267 TCTACAAATCCCCACCTCCAAAATCTCCCTCACCACCTCCTCCTTACATTTCCATGTCCCCACCT
1 TCTACAAATCCCCACCTCCAAAATCTCCCTCACCACCTCCACCATACATCTACAAGTCCCCACCT
* * ** * * * *
147332 CCACCATCTCCTTCACCTCCCCCACCTTATGTCTACAAGTCCCCACCTCTACCGTTTCCTAAACC
66 CCACCATCTCCCTCACCACCCCCACCTTACATCTACAAATCCCCACCTCCACCATTCCCTAAACC
* ** * **
147397 TCCCCCGCCTTACATTTATAAGTCTTCACCTCCACCATATG
131 ACCCCCGCCTTACATCCACAAGTCCCCACCTCCACCATATG
* * ** * ** *
147438 TCTACAAGTCTCCACCTCCACCATCTCCCTCACCTCCTCCACCATATGTCTACAAGTCTCCACCT
1 TCTACAAATCCCCACCTCCAAAATCTCCCTCACCACCTCCACCATACATCTACAAGTCCCCACCT
* * *
147503 CCACCATCTCCCTCACCACCTCCTCCTTACATCTACAAATCCCCACCTCCACCATCTCCCT-CAC
66 CCACCATCTCCCTCACCACCCCCACCTTACATCTACAAATCCCCACCTCCACCAT-TCCCTAAAC
* * *
147567 CACCTCCTCCTTACATCCACAAGTCCCCACCTCCTCCAT
130 CACCCCCGCCTTACATCCACAAGTCCCCACCTCCACCAT
147606 CTCCTTCACC
Statistics
Matches: 134, Mismatches: 33, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
171 130 0.97
172 4 0.03
ACGTcount: A:0.22, C:0.50, G:0.03, T:0.26
Consensus pattern (171 bp):
TCTACAAATCCCCACCTCCAAAATCTCCCTCACCACCTCCACCATACATCTACAAGTCCCCACCT
CCACCATCTCCCTCACCACCCCCACCTTACATCTACAAATCCCCACCTCCACCATTCCCTAAACC
ACCCCCGCCTTACATCCACAAGTCCCCACCTCCACCATATG
Found at i:147619 original size:219 final size:219
Alignment explanation
Indices: 147219--147619 Score: 525
Period size: 219 Copynumber: 1.8 Consensus size: 219
147209 CCTCCTTACA
* * * * *
147219 TCTACAAGTCGCCTCCTCCACCAACTCCTTCACCACCTTCTCCTTACATCTACAAATCCCCACCT
1 TCTACAAGTCGCCACCTCCACCAACTCCCTCACCACCTCCACCATACATCTACAAATCCCCACCT
* * ** *
147284 CCAAAATCTCCCTCACCACCTCCTCCTTACATTTCCATGTCCCCACCTCCACCATCTCCTTCACC
66 CCAAAATCTCCCTCACCACCTCCTCCTTACATCTACAAATCCCCACCTCCACCATCTCCCTCACC
* ** * * *
147349 TCCCCCACCTTATGTCTACAAGTCCCCACCTCTACCGTTTCCTAAACCTCCCCCGCCTTACATTT
131 ACCCCCACCTTACATCCACAAGTCCCCACCTCTACCATCTCCTAAACCTCCCCCGCCTTACATTT
147414 ATAAGTCTTCACCTCCACCATATG
196 ATAAGTCTTCACCTCCACCATATG
* * * ** * *
147438 TCTACAAGTCTCCACCTCCACCATCTCCCTCACCTCCTCCACCATATGTCTACAAGTCTCCACCT
1 TCTACAAGTCGCCACCTCCACCAACTCCCTCACCACCTCCACCATACATCTACAAATCCCCACCT
**
147503 CCACCATCTCCCTCACCACCTCCTCCTTACATCTACAAATCCCCACCTCCACCATCTCCCTCACC
66 CCAAAATCTCCCTCACCACCTCCTCCTTACATCTACAAATCCCCACCTCCACCATCTCCCTCACC
* * **
147568 ACCTCCTCCTTACATCCACAAGTCCCCACCTCCT-CCATCTCCTTCACCTCCC
131 ACCCCCACCTTACATCCACAAGTCCCCACCT-CTACCATCTCCTAAACCTCCC
147620 TCACCTTATG
Statistics
Matches: 152, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
219 150 0.99
220 2 0.01
ACGTcount: A:0.21, C:0.50, G:0.03, T:0.26
Consensus pattern (219 bp):
TCTACAAGTCGCCACCTCCACCAACTCCCTCACCACCTCCACCATACATCTACAAATCCCCACCT
CCAAAATCTCCCTCACCACCTCCTCCTTACATCTACAAATCCCCACCTCCACCATCTCCCTCACC
ACCCCCACCTTACATCCACAAGTCCCCACCTCTACCATCTCCTAAACCTCCCCCGCCTTACATTT
ATAAGTCTTCACCTCCACCATATG
Found at i:147861 original size:27 final size:27
Alignment explanation
Indices: 147831--147913 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
147821 GTCTACAAGT
147831 CCCCACCTCCACCGTCTCCTTCACCTC
1 CCCCACCTCCACCGTCTCCTTCACCTC
* * **
147858 CCCCACCT-TA---TCT-CTACAAGT-
1 CCCCACCTCCACCGTCTCCTTCACCTC
* *
147879 CACCACCTCCACCGTCTCCTTCACTTC
1 CCCCACCTCCACCGTCTCCTTCACCTC
147906 CCCCACCT
1 CCCCACCT
147914 TATGTCTACA
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
21 7 0.17
22 6 0.15
23 3 0.08
25 3 0.08
26 6 0.15
27 15 0.38
ACGTcount: A:0.16, C:0.57, G:0.04, T:0.24
Consensus pattern (27 bp):
CCCCACCTCCACCGTCTCCTTCACCTC
Found at i:147938 original size:27 final size:26
Alignment explanation
Indices: 147803--147987 Score: 60
Period size: 27 Copynumber: 7.5 Consensus size: 26
147793 ACCATTTCAT
* *
147803 TCACCTCCACCACCATATGTCTACAAG
1 TCACCACCTCCACC-TATGTCTACAAG
* **
147830 TCCCCACCTCCACC---GTCT-C-CT
1 TCACCACCTCCACCTATGTCTACAAG
* * *
147851 TCACCTCCCCCACCTTATCTCTACAAG
1 TCACCACCTCCACC-TATGTCTACAAG
**
147878 TCACCACCTCCACC---GTCT-C-CT
1 TCACCACCTCCACCTATGTCTACAAG
** *
147899 TCACTTCCCCCACCTTATGTCTACAAG
1 TCACCACCTCCACC-TATGTCTACAAG
**
147926 TCACCACCTCCACC---GTCT-C-CC
1 TCACCACCTCCACCTATGTCTACAAG
* *
147947 TCACCTCCCCCACCATATGTCTACAAG
1 TCACCACCTCCACC-TATGTCTACAAG
147974 TC-CTCACCTCCACC
1 TCAC-CACCTCCACC
147988 GTCTCCCTCA
Statistics
Matches: 107, Mismatches: 32, Indels: 38
0.60 0.18 0.21
Matches are distributed among these distances:
21 34 0.32
22 3 0.03
23 11 0.10
25 11 0.10
26 4 0.04
27 44 0.41
ACGTcount: A:0.20, C:0.51, G:0.05, T:0.24
Consensus pattern (26 bp):
TCACCACCTCCACCTATGTCTACAAG
Found at i:148419 original size:27 final size:27
Alignment explanation
Indices: 148389--148467 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 27
148379 TCACCTTCCA
*
148389 CACCTTATGTCTACAAGTCCCCACCTC
1 CACCTTATGTCTACAAGTCACCACCTC
** * *
148416 CACC----GTCT-C-TTTCACCGCCCC
1 CACCTTATGTCTACAAGTCACCACCTC
148437 CACCTTATGTCTACAAGTCACCACCTC
1 CACCTTATGTCTACAAGTCACCACCTC
148464 CACC
1 CACC
148468 ATCTCCTTCA
Statistics
Matches: 37, Mismatches: 9, Indels: 12
0.64 0.16 0.21
Matches are distributed among these distances:
21 11 0.30
22 1 0.03
23 4 0.11
25 4 0.11
26 1 0.03
27 16 0.43
ACGTcount: A:0.20, C:0.48, G:0.08, T:0.24
Consensus pattern (27 bp):
CACCTTATGTCTACAAGTCACCACCTC
Found at i:148539 original size:192 final size:191
Alignment explanation
Indices: 147429--148778 Score: 1196
Period size: 192 Copynumber: 7.1 Consensus size: 191
147419 TCTTCACCTC
* * *
147429 CACCATATGTCTACAAGTCTCCACCTCCACCATCTCCCTCACCTCCTCCACCATATGTCTACAAG
1 CACCATATGTCTACAAGTCCCCACCTCCACCATCTCCCTCACCTCCCCCACCTTAT-TCTACAAG
* * * * ** * *
147494 TCTCCACCTCCACCATCTCCCTCACCACCTCCTCCTTACATCTACAAATCCCCACCTCCACCATC
65 TCACCACCTCCACCATCTCCTTCACCTCCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATC
* * ** * * * *
147559 TCCCTCACCACCTCCTCCTTACATCCACAAGTCCCCACCTCCTCCATCTCCTTCACCTCCCT
130 TCCCTCACCACCTCCACCATATGTCTACAAGTCCCCACCTCCACCATCTCCTTCACCTTCCA
* * ** *
147621 CACCTTATGTCTACAAGTCCCCACCTCCACCGTCTCTTTCACCTCCCCCACCTTACATT-TATAA
1 CACCATATGTCTACAAGTCCCCACCTCCACCATCTCCCTCACCTCCCCCACCTT--ATTCTACAA
* **
147685 GTCTCCACCTCCACCATCTCCTTCACCTCCTCCACCAAATGTCTACAAGTCTCCACCTCCACCAT
64 GTCACCACCTCCACCATCTCCTTCACCTCCTCCACCTTATGTCTACAAGTCTCCACCTCCACCAT
* ** ** * * * *
147750 CTCCCTCACCACCTCCTCTTTACATCTACAAATCCCCACCTCTACCATTTCATTCACC-TCCA
129 CTCCCTCACCACCTCCACCATATGTCTACAAGTCCCCACCTCCACCATCTCCTTCACCTTCCA
* *
147812 CCACCATATGTCTACAAGTCCCCACCTCCACCGTCTCCTTCACCTCCCCCACCTTATCTCTACAA
1 -CACCATATGTCTACAAGTCCCCACCTCCACCATCTCCCTCACCTCCCCCACCTTAT-TCTACAA
* * * * *
147877 GTCACCACCTCCACCGTCTCCTTCACTTCCCCCACCTTATGTCTACAAGTCACCACCTCCACCGT
64 GTCACCACCTCCACCATCTCCTTCACCTCCTCCACCTTATGTCTACAAGTCTCCACCTCCACCAT
* * * * * * *
147942 CTCCCTCACCTCCCCCACCATATGTCTACAAGTCCTCACCTCCACCGTCTCCCTCATCTGCTC-
129 CTCCCTCACCACCTCCACCATATGTCTACAAGTCCCCACCTCCACCATCTCCTTCACCTTC-CA
* ** *
148005 CACCATATGTCTACAAGTCCCCACCTCCACCATCTCCCTCACCACATCCTCCTTCCATTCATA-A
1 CACCATATGTCTACAAGTCCCCACCTCCACCATCTCCCTCACCTCCCCCACCTT--ATTC-TACA
* ** * * * *
148069 A-TTACCGTCGCCACTATCTCCTTCACCTCCTCCACCATATGTTTACAAGTCTCCACCTCCACCA
63 AGTCACCACCTCCACCATCTCCTTCACCTCCTCCACCTTATGTCTACAAGTCTCCACCTCCACCA
** * * * *
148133 TCTCCCTCACCACCTCTTCCTTCCAT-TCATA-AA-TCACCGCCGCCACCATCTCCTTCACC-TC
128 TCTCCCTCACCACCTCCACCAT--ATGTC-TACAAGTCCCCACCTCCACCATCTCCTTCACCTTC
*
148194 CTC
190 C-A
* * * *
148197 CACCATATGTCTACAAGTCTCCACCTCCACCATCTCCCTCACCACCTCCTCCTTACTTCTACAAG
1 CACCATATGTCTACAAGTCCCCACCTCCACCATCTCCCTCACCTCCCCCACCTTA-TTCTACAAG
* * * * * *
148262 TCTCCACCTCCACCATCTCCCTCACCACATCCTCCTTATATCTACAAGTCTCCACCTCCACCATC
65 TCACCACCTCCACCATCTCCTTCACCTCCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATC
* ** * **
148327 TCCTTCACCTTCACCACCATATGTCTACAAGTCCCCACCTCCACTGTCTCCTTCACCTTCCA
130 TCCCTCACCACCTCCACCATATGTCTACAAGTCCCCACCTCCACCATCTCCTTCACCTTCCA
* * ** *
148389 CACCTTATGTCTACAAGTCCCCACCTCCACCGTCTCTTTCACCGCCCCCACCTTATGTCTACAAG
1 CACCATATGTCTACAAGTCCCCACCTCCACCATCTCCCTCACCTCCCCCACCTTAT-TCTACAAG
* * * * *
148454 TCACCACCTCCACCATCTCCTTCACTTCCTCCACCTTATGTTTATAAGTCGCCACCTCCGCCATC
65 TCACCACCTCCACCATCTCCTTCACCTCCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATC
* * *
148519 TCCATCACCTCCTTCACCATATGTCTACAAGT------CTCCA-C--CT-CTT--CC-T---
130 TCCCTCACCACCTCCACCATATGTCTACAAGTCCCCACCTCCACCATCTCCTTCACCTTCCA
* * * * ** *
148565 CA-C--AT-TCATA-AA-TCACCGCCTCCACCATTTCCTTCACCTCCTTCACCATATGTCTACAA
1 CACCATATGTC-TACAAGTCCCCACCTCCACCATCTCCCTCACCTCCCCCACCTTAT-TCTACAA
* * * * * ** * * * *
148624 GTCTCCACCTCCACCATCTCCCTCACCACTTCCTCCTTACATCTACAAATCCCCGCCTCCACCGT
64 GTCACCACCTCCACCATCTCCTTCACCTCCTCCACCTTATGTCTACAAGTCTCCACCTCCACCAT
* ** * * * * *
148689 CTCCCTCACCACCTCCTCTTTATATCTACAAGTCTCTACCTCCACCATCTCCTTCACCTCCCC
129 CTCCCTCACCACCTCCACCATATGTCTACAAGTCCCCACCTCCACCATCTCCTTCACCTTCCA
* * *
148752 CACCTTATGTCTACAAATCCCTACCTC
1 CACCATATGTCTACAAGTCCCCACCTC
148779 TACCCTATGT
Statistics
Matches: 941, Mismatches: 171, Indels: 92
0.78 0.14 0.08
Matches are distributed among these distances:
171 114 0.12
172 4 0.00
173 4 0.00
175 1 0.00
176 2 0.00
177 5 0.01
178 1 0.00
179 1 0.00
180 4 0.00
181 3 0.00
182 3 0.00
183 4 0.00
186 5 0.01
187 2 0.00
188 1 0.00
190 14 0.01
191 18 0.02
192 731 0.78
193 13 0.01
194 11 0.01
ACGTcount: A:0.21, C:0.48, G:0.04, T:0.27
Consensus pattern (191 bp):
CACCATATGTCTACAAGTCCCCACCTCCACCATCTCCCTCACCTCCCCCACCTTATTCTACAAGT
CACCACCTCCACCATCTCCTTCACCTCCTCCACCTTATGTCTACAAGTCTCCACCTCCACCATCT
CCCTCACCACCTCCACCATATGTCTACAAGTCCCCACCTCCACCATCTCCTTCACCTTCCA
Found at i:148619 original size:219 final size:218
Alignment explanation
Indices: 148375--149112 Score: 669
Period size: 219 Copynumber: 3.4 Consensus size: 218
148365 CTCCACTGTC
* * * * * *
148375 TCCTTCACCTTCC-ACACCTTATGTCTACAAGTCCCCACCTCCACCGTCTCTTTCACCGCCCCCA
1 TCCTTCACC-TCCTACACCTTATGTCTACAAGTCACCACCTCCACCATCTCCTTCACCACCTCCT
* * * * *
148439 CCTTATGTCTACAAGTCACCACCTCCACCATCTCCTTCACTTCCTCCACCTTATGTTTATAAGTC
65 CCTTATGTCTACAAGTCACCGCCTCCACCATCTCCCTCACCTCCTCCACCTTATGTCTACAAGTC
* * * *
148504 GCCACCTCCGCCATCTCCATCACCTCCTTCACCATATGTCTACAAGTCTCCACCTCT-TCCTCAC
130 ACCACCTCCACCATCTCCATCACCTCCTCCACCATATGTCTACAAGTC-CCACCTCTACCCT-AC
* * *
148568 ATTCATAAATCACCGCCTCCACCATT
193 ATTCACAAATCACCACCACCACCATT
* * * * *
148594 TCCTTCACCTCCTTCACCATATGTCTACAAGTCTCCACCTCCACCATCTCCCTCACCACTTCCTC
1 TCCTTCACCTCCTACACCTTATGTCTACAAGTCACCACCTCCACCATCTCCTTCACCACCTCCTC
** * * * * * * * *
148659 CTTACATCTACAAATCCCCGCCTCCACCGTCTCCCTCACCACCTCCTCTTTATATCTACAAGTCT
66 CTTATGTCTACAAGTCACCGCCTCCACCATCTCCCTCACCTCCTCCACCTTATGTCTACAAGTCA
* * * * * **
148724 CTACCTCCACCATCTCCTTCACCTCCCCCACCTTATGTCTACAAATCCCTACCTCTACCCTATGT
131 CCACCTCCACCATCTCCATCACCTCCTCCACCATATGTCTACAAGTCCC-ACCTCTACCCTACAT
* * *
148789 TTACAAGTCCCCACCACCACCATT
195 TCACAAATCACCACCACCACCATT
* * * *
148813 TCCCTT-ACCACCTCCACCTTATGTTTATC-AGTCACCACCTCCACCATCTCCTTCACCTCCTCC
1 T-CCTTCACCTCCTACACCTTATGTCTA-CAAGTCACCACCTCCACCATCTCCTTCACCACCTCC
* * *
148876 TCCATATGTTTACAAGTCACCGCCTCCACCATCTCCCTCACCTCCTCCACCATATGTCTACAAGT
64 TCCTTATGTCTACAAGTCACCGCCTCCACCATCTCCCTCACCTCCTCCACCTTATGTCTACAAGT
** * * * *
148941 CACCGTCTCCACCATCTCCCTCACCTCCTCCACCATATGTTTACAAGTCACCACCTCCA-CC-AT
129 CACCACCTCCACCATCTCCATCACCTCCTCCACCATATGTCTACAAGTC-CCACCTCTACCCTAC
* * * * *
149004 ATGTCTACAAGTCACCGCCTCTACCATC
193 AT-TC-ACAAATCACCACCACCACCATT
* * * * ** * * ** * * * * *
149032 TCCCTCATCTCCTCCTCCTTACATTTATAAGTCTTCACCACCACCATCTCATTCACCTCCTTCAC
1 TCCTTCACCTCCTACACCTTATGTCTACAAGTCACCACCTCCACCATCTCCTTCACCACCTCCTC
149097 CTTATGTCTACAAGTC
66 CTTATGTCTACAAGTC
149113 CTCACCACCA
Statistics
Matches: 416, Mismatches: 93, Indels: 20
0.79 0.18 0.04
Matches are distributed among these distances:
217 3 0.01
218 11 0.03
219 392 0.94
220 10 0.02
ACGTcount: A:0.21, C:0.45, G:0.05, T:0.29
Consensus pattern (218 bp):
TCCTTCACCTCCTACACCTTATGTCTACAAGTCACCACCTCCACCATCTCCTTCACCACCTCCTC
CTTATGTCTACAAGTCACCGCCTCCACCATCTCCCTCACCTCCTCCACCTTATGTCTACAAGTCA
CCACCTCCACCATCTCCATCACCTCCTCCACCATATGTCTACAAGTCCCACCTCTACCCTACATT
CACAAATCACCACCACCACCATT
Found at i:148638 original size:48 final size:48
Alignment explanation
Indices: 148583--148767 Score: 190
Period size: 48 Copynumber: 3.9 Consensus size: 48
148573 TAAATCACCG
* * * * *
148583 CCTCCACCATTTCCTTCACCTCCTTCACCATATGTCTACAAGTCTCCA
1 CCTCCACCATCTCCCTCACCTCCTCCACCTTATATCTACAAGTCTCCA
* * * * * * *
148631 CCTCCACCATCTCCCTCACCACTTCCTCCTTACATCTACAAATCCCCG
1 CCTCCACCATCTCCCTCACCTCCTCCACCTTATATCTACAAGTCTCCA
* * * * *
148679 CCTCCACCGTCTCCCTCACCACCTCCTCTTTATATCTACAAGTCTCTA
1 CCTCCACCATCTCCCTCACCTCCTCCACCTTATATCTACAAGTCTCCA
* * *
148727 CCTCCACCATCTCCTTCACCTCCCCCACCTTATGTCTACAA
1 CCTCCACCATCTCCCTCACCTCCTCCACCTTATATCTACAA
148768 ATCCCTACCT
Statistics
Matches: 110, Mismatches: 27, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 110 1.00
ACGTcount: A:0.20, C:0.48, G:0.03, T:0.29
Consensus pattern (48 bp):
CCTCCACCATCTCCCTCACCTCCTCCACCTTATATCTACAAGTCTCCA
Found at i:148796 original size:171 final size:171
Alignment explanation
Indices: 148613--148938 Score: 402
Period size: 171 Copynumber: 1.9 Consensus size: 171
148603 TCCTTCACCA
* * * * *
148613 TATGTCTACAAGTCTCCACCTCCACCATCTCCCTCACCACTTCCTCCTTACATCTA-CAAATCCC
1 TATGTCTACAAGTCCCCACCACCACCATCTCCCTCACCACCTCCACCTTACATCTATC-AATCAC
* * ** * * *
148677 CGCCTCCACCGTCTCCCTCACCACCTCCTCTTTATATCTACAAGTCTCTACCTCCACCATCTCCT
65 CACCTCCACCATCTCCCTCACCACCTCCTCCATATATCTACAAGTCACCACCTCCACCATCTCCC
*
148742 TCACCTCCCCCACCTTATGTCTACAAATCCCTACCTCTACCC
130 TCACCTCCCCCACCATATGTCTACAAATCCCTACCTCTACCC
* * * ** * *
148784 TATGTTTACAAGTCCCCACCACCACCATTTCCCTTACCACCTCCACCTTATGTTTATCAGTCACC
1 TATGTCTACAAGTCCCCACCACCACCATCTCCCTCACCACCTCCACCTTACATCTATCAATCACC
* * * * *
148849 ACCTCCACCATCTCCTTCACCTCCTCCTCCATATGTTTACAAGTCACCGCCTCCACCATCTCCCT
66 ACCTCCACCATCTCCCTCACCACCTCCTCCATATATCTACAAGTCACCACCTCCACCATCTCCCT
*
148914 CACCTCCTCCACCATATGTCTACAA
131 CACCTCCCCCACCATATGTCTACAA
148939 GTCACCGTCT
Statistics
Matches: 128, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
171 127 0.99
172 1 0.01
ACGTcount: A:0.21, C:0.46, G:0.04, T:0.28
Consensus pattern (171 bp):
TATGTCTACAAGTCCCCACCACCACCATCTCCCTCACCACCTCCACCTTACATCTATCAATCACC
ACCTCCACCATCTCCCTCACCACCTCCTCCATATATCTACAAGTCACCACCTCCACCATCTCCCT
CACCTCCCCCACCATATGTCTACAAATCCCTACCTCTACCC
Found at i:148800 original size:123 final size:123
Alignment explanation
Indices: 148667--148890 Score: 288
Period size: 123 Copynumber: 1.8 Consensus size: 123
148657 TCCTTACATC
* * * * * * *
148667 TACAAATCCCCGCCTCCACCGTCTCCCTCACCACCTCCTCTTTATATCTA-CAAGTCTCTACCTC
1 TACAAATCCCCACCACCACCATCTCCCTCACCACCTCCACCTTATATCTATC-AGTCACCACCTC
*
148731 CACCATCTCCTTCACCTCCCCCACCTTATGTCTACAAATCCCTACCTCTACCCTATGTT
65 CACCATCTCCTTCACCTCCCCCACCATATGTCTACAAATCCCTACCTCTACCCTATGTT
* * * * *
148790 TACAAGTCCCCACCACCACCATTTCCCTTACCACCTCCACCTTATGTTTATCAGTCACCACCTCC
1 TACAAATCCCCACCACCACCATCTCCCTCACCACCTCCACCTTATATCTATCAGTCACCACCTCC
* * *
148855 ACCATCTCCTTCACCTCCTCCTCCATATGTTTACAA
66 ACCATCTCCTTCACCTCCCCCACCATATGTCTACAA
148891 GTCACCGCCT
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
123 83 0.99
124 1 0.01
ACGTcount: A:0.21, C:0.46, G:0.04, T:0.29
Consensus pattern (123 bp):
TACAAATCCCCACCACCACCATCTCCCTCACCACCTCCACCTTATATCTATCAGTCACCACCTCC
ACCATCTCCTTCACCTCCCCCACCATATGTCTACAAATCCCTACCTCTACCCTATGTT
Found at i:148826 original size:48 final size:48
Alignment explanation
Indices: 148775--149003 Score: 316
Period size: 48 Copynumber: 4.8 Consensus size: 48
148765 CAAATCCCTA
* * * * * * *
148775 CCTCTACCCTATGTTTACAAGTCCCCACCACCACCATTTCCCTTACCA
1 CCTCCACCATATGTTTACAAGTCACCACCTCCACCATCTCCCTCACCT
* *
148823 CCTCCACCTTATGTTTATC-AGTCACCACCTCCACCATCTCCTTCACCT
1 CCTCCACCATATGTTTA-CAAGTCACCACCTCCACCATCTCCCTCACCT
* *
148871 CCTCCTCCATATGTTTACAAGTCACCGCCTCCACCATCTCCCTCACCT
1 CCTCCACCATATGTTTACAAGTCACCACCTCCACCATCTCCCTCACCT
* **
148919 CCTCCACCATATGTCTACAAGTCACCGTCTCCACCATCTCCCTCACCT
1 CCTCCACCATATGTTTACAAGTCACCACCTCCACCATCTCCCTCACCT
148967 CCTCCACCATATGTTTACAAGTCACCACCTCCACCAT
1 CCTCCACCATATGTTTACAAGTCACCACCTCCACCAT
149004 ATGTCTACAA
Statistics
Matches: 161, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 159 0.99
49 1 0.01
ACGTcount: A:0.21, C:0.46, G:0.05, T:0.27
Consensus pattern (48 bp):
CCTCCACCATATGTTTACAAGTCACCACCTCCACCATCTCCCTCACCT
Found at i:148907 original size:27 final size:27
Alignment explanation
Indices: 148865--149030 Score: 131
Period size: 27 Copynumber: 6.6 Consensus size: 27
148855 ACCATCTCCT
* * *
148865 TCACCTCCTCCTCCATATGTTTACAAG
1 TCACCGCCTCCACCATATGTCTACAAG
**
148892 TCACCGCCTCCACC--A--TCT-C-CC
1 TCACCGCCTCCACCATATGTCTACAAG
*
148913 TCACCTCCTCCACCATATGTCTACAAG
1 TCACCGCCTCCACCATATGTCTACAAG
* **
148940 TCACCGTCTCCACC--A--TCT-C-CC
1 TCACCGCCTCCACCATATGTCTACAAG
* *
148961 TCACCTCCTCCACCATATGTTTACAAG
1 TCACCGCCTCCACCATATGTCTACAAG
*
148988 TCACCACCTCCACCATATGTCTACAAG
1 TCACCGCCTCCACCATATGTCTACAAG
*
149015 TCACCGCCTCTACCAT
1 TCACCGCCTCCACCAT
149031 CTCCCTCATC
Statistics
Matches: 106, Mismatches: 21, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
21 25 0.24
22 2 0.02
23 7 0.07
25 7 0.07
26 2 0.02
27 63 0.59
ACGTcount: A:0.22, C:0.45, G:0.07, T:0.26
Consensus pattern (27 bp):
TCACCGCCTCCACCATATGTCTACAAG
Found at i:148922 original size:21 final size:21
Alignment explanation
Indices: 148892--148976 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 21
148882 TGTTTACAAG
*
148892 TCACCGCCTCCACCATCTCCC
1 TCACCTCCTCCACCATCTCCC
**
148913 TCACCTCCTCCACCATATGTCTACAAG
1 TCACCTCCTCCACC--A--TCT-C-CC
148940 TCACCGT-CTCCACCATCTCCC
1 TCACC-TCCTCCACCATCTCCC
148961 TCACCTCCTCCACCAT
1 TCACCTCCTCCACCAT
148977 ATGTTTACAA
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
20 1 0.02
21 27 0.53
22 1 0.02
23 4 0.08
25 4 0.08
26 1 0.02
27 12 0.24
28 1 0.02
ACGTcount: A:0.19, C:0.53, G:0.05, T:0.24
Consensus pattern (21 bp):
TCACCTCCTCCACCATCTCCC
Found at i:149046 original size:48 final size:48
Alignment explanation
Indices: 148994--149178 Score: 133
Period size: 48 Copynumber: 4.1 Consensus size: 48
148984 CAAGTCACCA
*
148994 CCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCT
1 CCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCACTCATCT
* * ** * * ** * * * * *
149042 CCTCCTCCTTACATTTATAAGTCTTCACCACCACCATCTCATTCACCT
1 CCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCACTCATCT
* *
149090 CCTTCACCTTATGTCTACAAGT-----CCTC-ACCA-C-CAC-CA---
1 CCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCACTCATCT
*
149126 CCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCT
1 CCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCACTCATCT
149174 CCTCC
1 CCTCC
149179 TCCTTACATT
Statistics
Matches: 100, Mismatches: 25, Indels: 24
0.67 0.17 0.16
Matches are distributed among these distances:
36 20 0.20
39 2 0.02
40 2 0.02
41 5 0.05
42 8 0.08
43 4 0.04
44 2 0.02
45 2 0.02
48 55 0.55
ACGTcount: A:0.22, C:0.45, G:0.05, T:0.28
Consensus pattern (48 bp):
CCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCACTCATCT
Found at i:149064 original size:75 final size:75
Alignment explanation
Indices: 148913--149078 Score: 224
Period size: 75 Copynumber: 2.2 Consensus size: 75
148903 ACCATCTCCC
* *
148913 TCACCTCCTCCACCATATGTCTACAAGTCACCGTCTCCACCATCTCCCTCACCTCCTCCACCATA
1 TCACCACCTCCACCATATGTCTACAAGTCACCGCCTCCACCATCTCCCTCACCTCCTCCACCATA
**
148978 TGTTTACAAG
66 CATTTACAAG
* * * *
148988 TCACCACCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCTCCTCCTCCTTA
1 TCACCACCTCCACCATATGTCTACAAGTCACCGCCTCCACCATCTCCCTCACCTCCTCCACCATA
*
149053 CATTTATAAG
66 CATTTACAAG
** *
149063 TCTTCACCACCACCAT
1 TCACCACCTCCACCAT
149079 CTCATTCACC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.23, C:0.44, G:0.05, T:0.28
Consensus pattern (75 bp):
TCACCACCTCCACCATATGTCTACAAGTCACCGCCTCCACCATCTCCCTCACCTCCTCCACCATA
CATTTACAAG
Found at i:149064 original size:123 final size:123
Alignment explanation
Indices: 148865--149257 Score: 491
Period size: 132 Copynumber: 3.1 Consensus size: 123
148855 ACCATCTCCT
* * * * * * *
148865 TCACCTCCTCCTCCATATGTTTACAAGTCACCGCCTCCACCATCTCCCTCACCTCCTCCACCATA
1 TCACCACCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCTCCTCCTCCTTA
** * * ** ** * ** * *
148930 TGTCTACAAGTCACCGTCTCCACCATCTCCCTCACCTCCTCCACCATATGTTTACAAG
66 CATTTATAAGTCTTCACCACCACCATCTCATTCACCTCCTTCACCTTATGTTTACAAG
148988 TCACCACCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCTCCTCCTCCTTA
1 TCACCACCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCTCCTCCTCCTTA
*
149053 CATTTATAAGTCTTCACCACCACCATCTCATTCACCTCCTTCACCTTATGTCTACAAG
66 CATTTATAAGTCTTCACCACCACCATCTCATTCACCTCCTTCACCTTATGTTTACAAG
149111 TCCTCACCACCACCACCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCTCC
1 ---T------CACCACCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCTCC
149176 TCCTCCTTACATTTATAAGTCTTCACCACCACCATCTCATTCACCTCCTTCACCTTATGTTTACA
57 TCCTCCTTACATTTATAAGTCTTCACCACCACCATCTCATTCACCTCCTTCACCTTATGTTTACA
149241 AG
122 AG
*
149243 TC-CTCACCACCACCA
1 TCAC-CACCTCCACCA
149258 CCTCTACCTT
Statistics
Matches: 237, Mismatches: 23, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
122 1 0.00
123 113 0.48
126 1 0.00
129 1 0.00
132 121 0.51
ACGTcount: A:0.22, C:0.44, G:0.05, T:0.28
Consensus pattern (123 bp):
TCACCACCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCTCCTCCTCCTTA
CATTTATAAGTCTTCACCACCACCATCTCATTCACCTCCTTCACCTTATGTTTACAAG
Found at i:149142 original size:132 final size:132
Alignment explanation
Indices: 148989--149280 Score: 539
Period size: 132 Copynumber: 2.2 Consensus size: 132
148979 GTTTACAAGT
148989 CACCACCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCTCCTCCTCCTTAC
1 CACCACCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCTCCTCCTCCTTAC
149054 ATTTATAAGTCTTCACCACCACCATCTCATTCACCTCCTTCACCTTATGTCTACAAGTCCTCACC
66 ATTTATAAGTCTTCACCACCACCATCTCATTCACCTCCTTCACCTTATGTCTACAAGTCCTCACC
149119 AC
131 AC
149121 CACCACCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCTCCTCCTCCTTAC
1 CACCACCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCTCCTCCTCCTTAC
*
149186 ATTTATAAGTCTTCACCACCACCATCTCATTCACCTCCTTCACCTTATGTTTACAAGTCCTCACC
66 ATTTATAAGTCTTCACCACCACCATCTCATTCACCTCCTTCACCTTATGTCTACAAGTCCTCACC
149251 AC
131 AC
* * * *
149253 CACCACCTCTACCTTTTGTGTACAAGTC
1 CACCACCTCCACCATATGTCTACAAGTC
149281 TCCATCACCA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 155 1.00
ACGTcount: A:0.23, C:0.43, G:0.05, T:0.29
Consensus pattern (132 bp):
CACCACCTCCACCATATGTCTACAAGTCACCGCCTCTACCATCTCCCTCATCTCCTCCTCCTTAC
ATTTATAAGTCTTCACCACCACCATCTCATTCACCTCCTTCACCTTATGTCTACAAGTCCTCACC
AC
Found at i:149210 original size:48 final size:48
Alignment explanation
Indices: 149158--149257 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 48
149148 CACCGCCTCT
* * * * *
149158 ACCATCTCCCTCATCTCCTCCTCCTTACATTTATAAGTCTTCACCACC
1 ACCATCTCACTCACCTCCTCCACCTTACATTTACAAGTCCTCACCACC
* * **
149206 ACCATCTCATTCACCTCCTTCACCTTATGTTTACAAGTCCTCACCACC
1 ACCATCTCACTCACCTCCTCCACCTTACATTTACAAGTCCTCACCACC
149254 ACCA
1 ACCA
149258 CCTCTACCTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.23, C:0.43, G:0.03, T:0.31
Consensus pattern (48 bp):
ACCATCTCACTCACCTCCTCCACCTTACATTTACAAGTCCTCACCACC
Found at i:149277 original size:36 final size:35
Alignment explanation
Indices: 149217--149331 Score: 126
Period size: 36 Copynumber: 3.3 Consensus size: 35
149207 CCATCTCATT
* *
149217 CACCTCCTTCACCTTATGTTTACAAGTCCTCACCAC
1 CACCACCTCCACCTTATGTTTACAAGTCCT-ACCAC
* * * *
149253 CACCACCTCTACCTTTTGTGTACAAGT-CT-CCAT
1 CACCACCTCCACCTTATGTTTACAAGTCCTACCAC
*
149286 CACCACCTCCACCTTATGTTTACAAGTCACTACCTC
1 CACCACCTCCACCTTATGTTTACAAGTC-CTACCAC
*
149322 CACCATCTCC
1 CACCACCTCC
149332 CTCACCTCCT
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
33 27 0.42
35 4 0.06
36 33 0.52
ACGTcount: A:0.23, C:0.42, G:0.06, T:0.30
Consensus pattern (35 bp):
CACCACCTCCACCTTATGTTTACAAGTCCTACCAC
Found at i:149300 original size:33 final size:34
Alignment explanation
Indices: 149216--149313 Score: 117
Period size: 33 Copynumber: 2.9 Consensus size: 34
149206 ACCATCTCAT
* *
149216 TCACCTCCTTCACCTTATGTTTACAAGTCCTCACCA
1 TCACCACCTCCACCTTATGTTTACAAGT-CT-ACCA
* * * *
149252 CCACCACCTCTACCTTTTGTGTACAAGTCT-CCA
1 TCACCACCTCCACCTTATGTTTACAAGTCTACCA
149285 TCACCACCTCCACCTTATGTTTACAAGTC
1 TCACCACCTCCACCTTATGTTTACAAGTC
149314 ACTACCTCCA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
33 28 0.54
35 2 0.04
36 22 0.42
ACGTcount: A:0.22, C:0.39, G:0.07, T:0.32
Consensus pattern (34 bp):
TCACCACCTCCACCTTATGTTTACAAGTCTACCA
Found at i:149325 original size:33 final size:33
Alignment explanation
Indices: 149217--149325 Score: 110
Period size: 33 Copynumber: 3.2 Consensus size: 33
149207 CCATCTCATT
* *
149217 CACCTCCTTCACCTTATGTTTACAAGTCCTCACCAC
1 CACCACCTCCACCTTATGTTTACAAG---TCACCAC
* * * * *
149253 CACCACCTCTACCTTTTGTGTACAAGTCTCCAT
1 CACCACCTCCACCTTATGTTTACAAGTCACCAC
*
149286 CACCACCTCCACCTTATGTTTACAAGTCACTAC
1 CACCACCTCCACCTTATGTTTACAAGTCACCAC
*
149319 CTCCACC
1 CACCACC
149326 ATCTCCCTCA
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
33 38 0.64
36 21 0.36
ACGTcount: A:0.23, C:0.41, G:0.06, T:0.29
Consensus pattern (33 bp):
CACCACCTCCACCTTATGTTTACAAGTCACCAC
Found at i:149337 original size:48 final size:48
Alignment explanation
Indices: 149279--149418 Score: 156
Period size: 48 Copynumber: 2.9 Consensus size: 48
149269 TGTGTACAAG
* * * * *
149279 TCTCCATCACCACCTCCACCTTATGTTTACAAGTCACTACCTCCACCA
1 TCTCCCTCACCACCTCCACCATATATCTACAAGTCACCACCTCCACCA
* * *
149327 TCTCCCTCACCTCCTCCACCATATATCTACAAGTCTCCACCTCTACCA
1 TCTCCCTCACCACCTCCACCATATATCTACAAGTCACCACCTCCACCA
* * * *
149375 TCTCTCTCACCACCTCC-TCATTACATCTACAAGTCCCCACCTCC
1 TCTCCCTCACCACCTCCACCA-TATATCTACAAGTCACCACCTCC
149419 TCCTCCTCCT
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 2 0.03
48 75 0.97
ACGTcount: A:0.23, C:0.47, G:0.03, T:0.27
Consensus pattern (48 bp):
TCTCCCTCACCACCTCCACCATATATCTACAAGTCACCACCTCCACCA
Found at i:149426 original size:33 final size:33
Alignment explanation
Indices: 149387--149449 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
149377 TCTCTCACCA
149387 CCTCCTCATTACATCTACAAGTCCCCACCTCCT
1 CCTCCTCATTACATCTACAAGTCCCCACCTCCT
* * * *
149420 CCTCCTCCTTACATTTACTAGTCTCCACCT
1 CCTCCTCATTACATCTACAAGTCCCCACCT
149450 TCACCATCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.19, C:0.46, G:0.03, T:0.32
Consensus pattern (33 bp):
CCTCCTCATTACATCTACAAGTCCCCACCTCCT
Found at i:151487 original size:20 final size:19
Alignment explanation
Indices: 151459--151522 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 19
151449 TGCAGTATGA
151459 TTCTAATTATTTTTGTTATT
1 TTCT-ATTATTTTTGTTATT
*
151479 TTCTCATTATTTTTGTCATT
1 TTCT-ATTATTTTTGTTATT
*
151499 TTACTATTATGTTATTATTATT
1 TT-CTATTAT-TT-TTGTTATT
151521 TT
1 TT
151523 GTTGTTATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 25 0.68
21 4 0.11
22 8 0.22
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.67
Consensus pattern (19 bp):
TTCTATTATTTTTGTTATT
Found at i:153516 original size:149 final size:148
Alignment explanation
Indices: 153249--153518 Score: 357
Period size: 152 Copynumber: 1.8 Consensus size: 148
153239 TGAATTCTAG
* * **
153249 AGATAACATTGTTGGGGAGGATATCTACAAATTTCAAAAAATTAATCTTCGTAGACCGGAAAACA
1 AGATAACATTGTTAGAGAGGATATCTACAAATGCCAAAAAATTAATCTTCGTAGACCGGAAAACA
* * *
153314 AACGTCTAGAATTAAATCCTAAGGAAATAATCTTCACAATTAACACATTATACTTCCCGTGAGAG
66 AACATATAGAATTAAATCCTAAGGAAATAATCTTCACAATT-ACACATCATACTTCCCGTGAGAG
153379 AACTTGGCTCGAATTTTGA
130 AACTTGGCTCGAATTTTGA
* * *
153398 AGATAACATTGTTA-AGAGAGATATCTACAAATGCCAAAAATATTAAAATCTTCGTGGACTGTAA
1 AGATAACATTGTTAGAGAG-GATATCTACAAATGCCAAAAA-ATT--AATCTTCGTAGACCGGAA
* * *
153462 AACAAATATATAGAATTAAATCCTAGGGAAATAATCTTCATAATT-CACA-CATACTTC
62 AACAAACATATAGAATTAAATCCTAAGGAAATAATCTTCACAATTACACATCATACTTC
153519 ACTATTTATC
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
148 3 0.03
149 39 0.38
150 7 0.07
152 55 0.53
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (148 bp):
AGATAACATTGTTAGAGAGGATATCTACAAATGCCAAAAAATTAATCTTCGTAGACCGGAAAACA
AACATATAGAATTAAATCCTAAGGAAATAATCTTCACAATTACACATCATACTTCCCGTGAGAGA
ACTTGGCTCGAATTTTGA
Found at i:155481 original size:22 final size:23
Alignment explanation
Indices: 155462--155503 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
155452 ATGAAATCGT
155462 AATAAAC-A-TGATTTTCAATCA
1 AATAAACAATTGATTTTCAATCA
*
155483 AATTAACAATTGATTTTCAAT
1 AATAAACAATTGATTTTCAAT
155504 TCAAGCGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (23 bp):
AATAAACAATTGATTTTCAATCA
Found at i:161541 original size:21 final size:21
Alignment explanation
Indices: 161515--161591 Score: 59
Period size: 24 Copynumber: 3.5 Consensus size: 21
161505 TTGATGAATC
161515 GAATCAATTAAAAAAATAATT
1 GAATCAATTAAAAAAATAATT
*
161536 GAATCAAATATTAAAAAAATCATAT
1 GAATC--A-ATTAAAAAAATAAT-T
* * *
161561 AAAACAAGTT--AAAAATAGTT
1 GAATCAA-TTAAAAAAATAATT
161581 GAATCAATTAA
1 GAATCAATTAA
161592 TTTAATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
19 2 0.05
20 6 0.14
21 12 0.29
22 1 0.02
23 4 0.10
24 13 0.31
25 4 0.10
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.27
Consensus pattern (21 bp):
GAATCAATTAAAAAAATAATT
Found at i:161754 original size:9 final size:9
Alignment explanation
Indices: 161735--161764 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
161725 GTGTTAAAAA
161735 TATTATTTTT
1 TATT-TTTTT
161745 TATTTTTTT
1 TATTTTTTT
161754 TATTTTTTT
1 TATTTTTTT
161763 TA
1 TA
161765 AATGCATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
TATTTTTTT
Found at i:163689 original size:41 final size:41
Alignment explanation
Indices: 163644--163726 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
163634 AATTTTATCG
* *
163644 TTAAACAGAATTTCTATCATTTTTTCAATTTAGCCCTTTAA
1 TTAAACAGAATATCTATCAATTTTTCAATTTAGCCCTTTAA
*
163685 TTAAACATAATATCTATCAATTTTTCAATTTAGCCCTTTAA
1 TTAAACAGAATATCTATCAATTTTTCAATTTAGCCCTTTAA
163726 T
1 T
163727 AACCTTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.46
Consensus pattern (41 bp):
TTAAACAGAATATCTATCAATTTTTCAATTTAGCCCTTTAA
Found at i:166185 original size:31 final size:31
Alignment explanation
Indices: 166150--166223 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
166140 TCAAAATCAA
* *
166150 ATATATATAATTGAATCAAAATTAAAATTTC
1 ATATATATAATTGAACCAAAATCAAAATTTC
* * * * * *
166181 ATATATACATTTTAACCATAATCGAAGTTTC
1 ATATATATAATTGAACCAAAATCAAAATTTC
166212 ATATATATAATT
1 ATATATATAATT
166224 ACACTTAATC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (31 bp):
ATATATATAATTGAACCAAAATCAAAATTTC
Found at i:171139 original size:26 final size:25
Alignment explanation
Indices: 171096--171153 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
171086 AATTGTAGAT
* *
171096 TTTTTTTATAATTATAATTATTATATA
1 TTTTTTAATAATTATAATT-TT-GATA
*
171123 TTTTTTAAT-ATTTTAATTTTGATA
1 TTTTTTAATAATTATAATTTTGATA
171147 TTTTTTA
1 TTTTTTA
171154 TTATAACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 10 0.36
25 2 0.07
26 8 0.29
27 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTTAATAATTATAATTTTGATA
Found at i:173020 original size:23 final size:22
Alignment explanation
Indices: 172969--173020 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
172959 ATATATATAA
172969 ATTAAAAAATTAATTAAATTTT
1 ATTAAAAAATTAATTAAATTTT
172991 ATATAAAAAATCTAATTATAATTTT
1 AT-TAAAAAAT-TAATTA-AATTTT
173016 -TTAAA
1 ATTAAA
173021 TAGTGATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 2 0.07
23 12 0.44
24 7 0.26
25 6 0.22
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTAAAAAATTAATTAAATTTT
Found at i:183078 original size:28 final size:28
Alignment explanation
Indices: 183047--183100 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
183037 AAAATACTTC
*
183047 TAATCCATAATTGTTTTTAAAATTTGCT
1 TAATCCATAATTATTTTTAAAATTTGCT
**
183075 TAATCTGTAATTATTTTTAAAATTTG
1 TAATCCATAATTATTTTTAAAATTTG
183101 TCGGATCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (28 bp):
TAATCCATAATTATTTTTAAAATTTGCT
Found at i:183166 original size:28 final size:28
Alignment explanation
Indices: 183133--183278 Score: 179
Period size: 28 Copynumber: 5.2 Consensus size: 28
183123 AAATCTGTCC
* * * *
183133 GTAATTATTTTTAAAATCTGCCTTATCAT
1 GTAATTATTATTGAAATCTGCCTGAT-TT
* * *
183162 -TAATTATTATTGAAATCTACCTTATCT
1 GTAATTATTATTGAAATCTGCCTGATTT
183189 GTAATTATTATTG-AATCTGCCTGATTT
1 GTAATTATTATTGAAATCTGCCTGATTT
*
183216 GTAATTATTGTTGAAATCTGCCTGATTT
1 GTAATTATTATTGAAATCTGCCTGATTT
* *
183244 GTAATTATTGTTGAAATCTGCCTGATCT
1 GTAATTATTATTGAAATCTGCCTGATTT
183272 GTAATTA
1 GTAATTA
183279 CGGATTAGGG
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
27 24 0.23
28 82 0.77
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (28 bp):
GTAATTATTATTGAAATCTGCCTGATTT
Found at i:183221 original size:55 final size:56
Alignment explanation
Indices: 183133--183278 Score: 188
Period size: 55 Copynumber: 2.6 Consensus size: 56
183123 AAATCTGTCC
* * * *
183133 GTAATTATTTTTAAAATCTGCCTTATCAT-TAATTATTATTGAAATCTACCTTATCT
1 GTAATTATTATTGAAATCTGCCTGATC-TGTAATTATTATTGAAATCTACCTGATCT
* * * *
183189 GTAATTATTATTG-AATCTGCCTGATTTGTAATTATTGTTGAAATCTGCCTGATTT
1 GTAATTATTATTGAAATCTGCCTGATCTGTAATTATTATTGAAATCTACCTGATCT
*
183244 GTAATTATTGTTGAAATCTGCCTGATCTGTAATTA
1 GTAATTATTATTGAAATCTGCCTGATCTGTAATTA
183279 CGGATTAGGG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
54 1 0.01
55 46 0.59
56 31 0.40
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (56 bp):
GTAATTATTATTGAAATCTGCCTGATCTGTAATTATTATTGAAATCTACCTGATCT
Found at i:183304 original size:28 final size:27
Alignment explanation
Indices: 183273--183842 Score: 360
Period size: 28 Copynumber: 20.6 Consensus size: 27
183263 GCCTGATCTG
*
183273 TAATTACGGATTAGGGAAATATTAAAAA
1 TAATTACGGATTAGGAAAAT-TTAAAAA
* *
183301 TAATTATGAATTAGGAAAATTTGAAAAA
1 TAATTACGGATTAGGAAAATTT-AAAAA
**
183329 TAATTACAAATTAGGAAAA-TTATAAAA
1 TAATTACGGATTAGGAAAATTTA-AAAA
** *
183356 -AA--ACAAATTAGGGAAATTTGAAAAA
1 TAATTACGGATTAGGAAAATTT-AAAAA
* * *
183381 TAATTAC-CATTTAGAAAAATTACAAAAA
1 TAATTACGGA-TTAGGAAAATT-TAAAAA
* *
183409 TAATTAAGGAATAGGAAAATTTGAAAAA
1 TAATTACGGATTAGGAAAATTT-AAAAA
* * *
183437 TAATTA-TGATTTAAGAAAATTTGAAAGA
1 TAATTACGGA-TTAGGAAAATTT-AAAAA
** * *
183465 TAATTGTGGATTAGCAAAATTTTAAAA
1 TAATTACGGATTAGGAAAATTTAAAAA
* * *
183492 TAATTAC-AATTTAAG-AAATTAATAAAAT
1 TAATTACGGA-TTAGGAAAATT--TAAAAA
*
183520 TAATTACGGCTTAGGAAAAATTT-AAAA
1 TAATTACGGATTAGG-AAAATTTAAAAA
*
183547 TAATTAC-AATTTAGGAAAATATTAAAAA
1 TAATTACGGA-TTAGGAAAAT-TTAAAAA
* *
183575 TAATTGCGGATTAGGGAAATTTGAAAAA
1 TAATTACGGATTAGGAAAATTT-AAAAA
*
183603 TAATTGC-GATGTAGGAAAATTTGAAAAA
1 TAATTACGGAT-TAGGAAAATTT-AAAAA
* *
183631 AAATTACGGCTTAGGAAAATTTTAAAAA
1 TAATTACGGATTAGGAAAA-TTTAAAAA
* * *
183659 TAATTAC-AAGTTAGTAGAATTTTAAAAA
1 TAATTACGGA-TTAGGA-AAATTTAAAAA
* *
183687 TAATTACAGATTAGGAAACTTTTAAAAA
1 TAATTACGGATTAGGAAA-ATTTAAAAA
*
183715 TAATTA-AGATTTAGGAAAATTTGAAAAA
1 TAATTACGGA-TTAGGAAAATTT-AAAAA
* * *
183743 TAATTACGGATTAGTAACATTTTAAAAG
1 TAATTACGGATTAGGAA-AATTTAAAAA
* *
183771 CAATTA-GGATTTAGTAAAATTTTAAAAA
1 TAATTACGGA-TTAGGAAAA-TTTAAAAA
* **
183799 TACTTA-GAGATTAAAAACAATTTAAAAAA
1 TAATTACG-GATTAGGAA-AATTT-AAAAA
*
183828 TAATTACAGATTAGG
1 TAATTACGGATTAGG
183843 CTGTTTTCTT
Statistics
Matches: 433, Mismatches: 68, Indels: 81
0.74 0.12 0.14
Matches are distributed among these distances:
24 13 0.03
25 6 0.01
26 17 0.04
27 56 0.13
28 299 0.69
29 37 0.09
30 5 0.01
ACGTcount: A:0.52, C:0.04, G:0.13, T:0.31
Consensus pattern (27 bp):
TAATTACGGATTAGGAAAATTTAAAAA
Found at i:183333 original size:56 final size:56
Alignment explanation
Indices: 183273--183839 Score: 412
Period size: 56 Copynumber: 10.2 Consensus size: 56
183263 GCCTGATCTG
* *
183273 TAATTACGGA-TTAGGGAAATATTAAAAATAATTATGAATTAGGAAAATTTGAAAAA
1 TAATTAC-GATTTAGGAAAATATTAAAAATAATTACGAATTAGGAAAATTTGAAAAA
* * * *
183329 TAATTACAAATTAGG-AAA-ATTATAAAA-AA--ACAAATTAGGGAAATTTGAAAAA
1 TAATTACGATTTAGGAAAATATTA-AAAATAATTACGAATTAGGAAAATTTGAAAAA
* *
183381 TAATTACCATTTA-GAAAA-ATTACAAAAATAATTAAGGAA-TAGGAAAATTTGAAAAA
1 TAATTACGATTTAGGAAAATATT--AAAAATAATT-ACGAATTAGGAAAATTTGAAAAA
* * * ** * * *
183437 TAATTATGATTTAAGAAAAT-TTGAAAGATAATTGTGGATTAGCAAAATTT-TAAAA
1 TAATTACGATTTAGGAAAATATT-AAAAATAATTACGAATTAGGAAAATTTGAAAAA
* * * * * **
183492 TAATTACAATTTAAGAAATTAATAAAATTAATTACGGCTTAGGAAAAATTT--AAAA
1 TAATTACGATTTAGGAAAATATTAAAAATAATTACGAATTAGG-AAAATTTGAAAAA
* * * *
183547 TAATTACAATTTAGGAAAATATTAAAAATAATTGCGGATTAGGGAAATTTGAAAAA
1 TAATTACGATTTAGGAAAATATTAAAAATAATTACGAATTAGGAAAATTTGAAAAA
* * * ** *
183603 TAATTGCGATGTAGGAAAAT-TTGAAAAAAAATTACGGCTTAGGAAAATTTTAAAAA
1 TAATTACGATTTAGGAAAATATT-AAAAATAATTACGAATTAGGAAAATTTGAAAAA
* * * * * * *
183659 TAATTACAAGTTAGTAGAATTTTAAAAATAATTAC-AGATTAGGAAACTTTTAAAAA
1 TAATTACGATTTAGGAAAATATTAAAAATAATTACGA-ATTAGGAAAATTTGAAAAA
* * * * * *
183715 TAATTAAGATTTAGGAAAAT-TTGAAAAATAATTACGGATTAGTAACATTTTAAAAG
1 TAATTACGATTTAGGAAAATATT-AAAAATAATTACGAATTAGGAAAATTTGAAAAA
* * * * * ** *
183771 CAATTAGGATTTAGTAAAATTTTAAAAATACTTA-GAGATTAAAAACAATTTAAAAAA
1 TAATTACGATTTAGGAAAATATTAAAAATAATTACGA-ATTAGGAA-AATTTGAAAAA
183828 TAATTACAGATT
1 TAATTAC-GATT
183840 AGGCTGTTTT
Statistics
Matches: 411, Mismatches: 75, Indels: 48
0.77 0.14 0.09
Matches are distributed among these distances:
51 1 0.00
52 37 0.09
53 4 0.01
54 15 0.04
55 91 0.22
56 232 0.56
57 27 0.07
58 4 0.01
ACGTcount: A:0.52, C:0.04, G:0.13, T:0.31
Consensus pattern (56 bp):
TAATTACGATTTAGGAAAATATTAAAAATAATTACGAATTAGGAAAATTTGAAAAA
Found at i:183379 original size:24 final size:25
Alignment explanation
Indices: 183309--183380 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 25
183299 AATAATTATG
183309 AATTAGGAAAATTTGAAAAATAATTACA
1 AATTAGGAAAATTTG-AAAA-AA-TACA
183337 AATTAGGAAAATTAT-AAAAAA-ACA
1 AATTAGGAAAATT-TGAAAAAATACA
*
183361 AATTAGGGAAATTTGAAAAA
1 AATTAGGAAAATTTGAAAAA
183381 TAATTACCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
23 1 0.02
24 20 0.49
26 2 0.05
27 4 0.10
28 13 0.32
29 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.12, T:0.25
Consensus pattern (25 bp):
AATTAGGAAAATTTGAAAAAATACA
Found at i:183380 original size:52 final size:54
Alignment explanation
Indices: 183309--183442 Score: 173
Period size: 52 Copynumber: 2.5 Consensus size: 54
183299 AATAATTATG
* *
183309 AATTAGGAAAATTTGAAAAATAATTACAAATTAGGAAAATTATAAAAA-AA-CA
1 AATTAGGAAAATTTGAAAAATAATTACAAATTAGAAAAATTACAAAAATAATCA
* * * *
183361 AATTAGGGAAATTTGAAAAATAATTACCATTTAGAAAAATTACAAAAATAATTA
1 AATTAGGAAAATTTGAAAAATAATTACAAATTAGAAAAATTACAAAAATAATCA
*
183415 AGGAATAGGAAAATTTGAAAAATAATTA
1 A--ATTAGGAAAATTTGAAAAATAATTA
183443 TGATTTAAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
52 43 0.61
53 2 0.03
54 2 0.03
56 23 0.33
ACGTcount: A:0.58, C:0.04, G:0.11, T:0.27
Consensus pattern (54 bp):
AATTAGGAAAATTTGAAAAATAATTACAAATTAGAAAAATTACAAAAATAATCA
Found at i:183922 original size:28 final size:28
Alignment explanation
Indices: 183887--184052 Score: 138
Period size: 28 Copynumber: 5.9 Consensus size: 28
183877 ACCTGATCTG
*
183887 TAAAATCGACCTAATCCTTAATTATTTT
1 TAAAATCGACCTAATCCGTAATTATTTT
* * * *
183915 TATAATCGATCTATTCCCGTAGTTATTTT
1 TAAAATCGACCTAAT-CCGTAATTATTTT
* * *
183944 TAAAATC-ATCCTAATCCTTAATGATATT
1 TAAAATCGA-CCTAATCCGTAATTATTTT
* * *
183972 TAAAATC-ATCGTAATCCATAATGATTTT
1 TAAAATCGA-CCTAATCCGTAATTATTTT
* * * *
184000 TAAAATTGGCCTATTTCGTAATTATTTT
1 TAAAATCGACCTAATCCGTAATTATTTT
* *
184028 TAAAATCGATCTATTCCGTAATTAT
1 TAAAATCGACCTAATCCGTAATTAT
184053 ATAACATGCA
Statistics
Matches: 109, Mismatches: 26, Indels: 6
0.77 0.18 0.04
Matches are distributed among these distances:
28 88 0.81
29 21 0.19
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (28 bp):
TAAAATCGACCTAATCCGTAATTATTTT
Found at i:188486 original size:18 final size:18
Alignment explanation
Indices: 188463--188528 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
188453 AATATTTTTC
*
188463 TCATAAAAATATTAAAAA
1 TCATAAAAATATAAAAAA
188481 TCATAAAAA-ATAAAAAAA
1 TCATAAAAATAT-AAAAAA
*
188499 TTCAGAAAAATTATCAAAAAA
1 -TCATAAAAA-TAT-AAAAAA
188520 T-ATAAAAAT
1 TCATAAAAAT
188529 GATTAAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 2 0.05
18 15 0.38
19 14 0.35
20 1 0.03
21 8 0.20
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.24
Consensus pattern (18 bp):
TCATAAAAATATAAAAAA
Found at i:188491 original size:19 final size:19
Alignment explanation
Indices: 188463--188554 Score: 59
Period size: 19 Copynumber: 4.9 Consensus size: 19
188453 AATATTTTTC
188463 TCAT-AAAAATATTAAAAA
1 TCATAAAAAATATTAAAAA
*
188481 TCATAAAAAATA-AAAAAA
1 TCATAAAAAATATTAAAAA
* * *
188499 TTCAGAAAAATTATCAAAAA
1 -TCATAAAAAATATTAAAAA
*
188519 --ATATAAAAATGATTAAATA
1 TCATA-AAAAAT-ATTAAAAA
* *
188538 TTA-AAAAAATATGAAAA
1 TCATAAAAAATATTAAAA
188555 TTGATATAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
17 2 0.04
18 19 0.33
19 29 0.51
20 6 0.11
21 1 0.02
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.25
Consensus pattern (19 bp):
TCATAAAAAATATTAAAAA
Found at i:188526 original size:9 final size:9
Alignment explanation
Indices: 188467--188527 Score: 54
Period size: 10 Copynumber: 6.4 Consensus size: 9
188457 TTTTTCTCAT
*
188467 AAAAATATT
1 AAAAATATA
188476 AAAAATCATA
1 AAAAAT-ATA
188486 AAAAATA-A
1 AAAAATATA
188494 AAAAAT-TCA
1 AAAAATAT-A
188503 GAAAAATTATCA
1 -AAAAA-TAT-A
188515 AAAAATATA
1 AAAAATATA
188524 AAAA
1 AAAA
188528 TGATTAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
8 7 0.16
9 13 0.29
10 16 0.36
11 6 0.13
12 3 0.07
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (9 bp):
AAAAATATA
Found at i:188536 original size:27 final size:28
Alignment explanation
Indices: 188506--188574 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 28
188496 AAATTCAGAA
188506 AAATTATCAAAAAATAT-AAAAATGAT-T
1 AAATTAT-AAAAAATATGAAAAATGATAT
*
188533 AAA-TATTAAAAAAATATGAAAATTGATAT
1 AAATTA-T-AAAAAATATGAAAAATGATAT
188562 AAACTTATAAAAA
1 AAA-TTATAAAAA
188575 TTATCAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
26 2 0.06
27 13 0.37
28 8 0.23
29 9 0.26
30 1 0.03
31 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (28 bp):
AAATTATAAAAAATATGAAAAATGATAT
Found at i:188573 original size:29 final size:28
Alignment explanation
Indices: 188477--188574 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 28
188467 AAAAATATTA
* * * *
188477 AAAATCATAAAAAATAAAAAAATTCAGA-
1 AAAATTATAAAAAAT-ATAAAATTGATAT
*
188505 AAAATTATCAAAAAATATAAAAATGAT-T
1 AAAATTAT-AAAAAATATAAAATTGATAT
188533 AAATATTA-AAAAAATATGAAAATTGATAT
1 AAA-ATTATAAAAAATAT-AAAATTGATAT
*
188562 AAACTTATAAAAA
1 AAAATTATAAAAA
188575 TTATCAATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
27 9 0.16
28 28 0.49
29 20 0.35
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (28 bp):
AAAATTATAAAAAATATAAAATTGATAT
Found at i:188610 original size:46 final size:46
Alignment explanation
Indices: 188520--188621 Score: 111
Period size: 46 Copynumber: 2.2 Consensus size: 46
188510 TATCAAAAAA
188520 TATAAAAATGATTAAATATTAAAAAAATATGAAAATTGATATAAACT
1 TATAAAAATGATTAAATATTAAAAAAATATGAAAATTGATATAAA-T
* * * *
188567 TATAAAAATTA-TCAATATTATCAAAAATAT-AAAATT-CTAATAAAT
1 TATAAAAATGATTAAATATTA-AAAAAATATGAAAATTGAT-ATAAAT
188612 TATACAAAAT
1 TATA-AAAAT
188622 ATAAAAGTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
45 6 0.12
46 24 0.50
47 18 0.38
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (46 bp):
TATAAAAATGATTAAATATTAAAAAAATATGAAAATTGATATAAAT
Found at i:189246 original size:18 final size:18
Alignment explanation
Indices: 189208--189259 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 18
189198 ATTTATAATA
*
189208 TTTATAAGTTTTTATACTTT
1 TTTATAA-TTTTAATA-TTT
189228 TTTATAATTTTAATATTT
1 TTTATAATTTTAATATTT
*
189246 TTAAT-A-TTTAATAT
1 TTTATAATTTTAATAT
189260 ATTTATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 8 0.27
17 1 0.03
18 7 0.23
19 7 0.23
20 7 0.23
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTATAATTTTAATATTT
Found at i:189255 original size:16 final size:15
Alignment explanation
Indices: 189227--189268 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
189217 TTTTATACTT
189227 TTTTATAATTTTAATA
1 TTTT-TAATTTTAATA
189243 TTTTTAATATTTAATA
1 TTTTTAAT-TTTAATA
*
189259 TATTT-ATTTT
1 TTTTTAATTTT
189269 CAAAAATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 6 0.25
16 15 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTAATTTTAATA
Found at i:195400 original size:12 final size:12
Alignment explanation
Indices: 195383--195408 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
195373 GTGAATTATC
195383 TTTTTATCTTCT
1 TTTTTATCTTCT
195395 TTTTTATCTTCT
1 TTTTTATCTTCT
195407 TT
1 TT
195409 GTCTTTCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTATCTTCT
Found at i:195971 original size:2 final size:2
Alignment explanation
Indices: 195964--195991 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
195954 AGATTACTTG
195964 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
195992 GAAATAATTG
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:198103 original size:29 final size:29
Alignment explanation
Indices: 198070--198128 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
198060 GTTTATATTT
* *
198070 AGTCCAAATTTGTA-GGATTTAGGAGGCAA
1 AGTCCAAATTTATACGG-TTTAGGACGCAA
198099 AGTCCAAATTTATACGGTTTAGGACGCAA
1 AGTCCAAATTTATACGGTTTAGGACGCAA
198128 A
1 A
198129 ATAAAAGCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27
Consensus pattern (29 bp):
AGTCCAAATTTATACGGTTTAGGACGCAA
Found at i:199890 original size:24 final size:24
Alignment explanation
Indices: 199836--199890 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
199826 TTTTATGTTT
199836 ATATATTACATATACAAATAATTA
1 ATATATTACATATACAAATAATTA
* *
199860 ATTTATT-CAATATA-AAATAATTTG
1 ATATATTAC-ATATACAAATAA-TTA
199884 ATATATT
1 ATATATT
199891 TATTTCTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (24 bp):
ATATATTACATATACAAATAATTA
Found at i:199947 original size:31 final size:31
Alignment explanation
Indices: 199906--199976 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
199896 CTTTAAATGA
*
199906 ATATAATTGAA-TCAAAATTAAAACTTTATGT
1 ATATAATTGAACT-AAAATCAAAACTTTATGT
* * *
199937 ATATATTTGAACTACAATCAAAATTTTATGT
1 ATATAATTGAACTAAAATCAAAACTTTATGT
199968 ATATAATTG
1 ATATAATTG
199977 TAAAATATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (31 bp):
ATATAATTGAACTAAAATCAAAACTTTATGT
Found at i:217226 original size:5 final size:5
Alignment explanation
Indices: 217205--217271 Score: 50
Period size: 5 Copynumber: 13.6 Consensus size: 5
217195 AACGATATAT
* * * * *
217205 AAATA ACATA CAATA AAATA AAATA ATATA CATATA AGATA AAAT- AAAT-
1 AAATA AAATA AAATA AAATA AAATA AAATA -AAATA AAATA AAATA AAATA
217254 AAAT- AAATA AAATTA AAA
1 AAATA AAATA AAA-TA AAA
217272 CCAGGTCAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
4 12 0.23
5 30 0.58
6 10 0.19
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.24
Consensus pattern (5 bp):
AAATA
Found at i:217230 original size:20 final size:19
Alignment explanation
Indices: 217205--217266 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
217195 AACGATATAT
217205 AAATAACATACAATAAAATA
1 AAATAA-ATACAATAAAATA
*
217225 AAATAATATACATATAAGATA
1 AAATAA-ATACA-ATAAAATA
217246 AAATAAATA-AAT-AAATA
1 AAATAAATACAATAAAATA
217263 AAAT
1 AAAT
217267 TAAAACCAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
17 8 0.21
18 2 0.05
19 1 0.03
20 14 0.37
21 13 0.34
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (19 bp):
AAATAAATACAATAAAATA
Found at i:217379 original size:60 final size:60
Alignment explanation
Indices: 217275--217436 Score: 175
Period size: 60 Copynumber: 2.7 Consensus size: 60
217265 ATTAAAACCA
** * * * **
217275 GGTCAAATTTGAATTTTTGGAAGCTTCAAGGGCCAAATCAAAATTTTTGGAAATTTTGGG
1 GGTCAAATTTGAATTTTTGGAAAATTTAGGGGCCAAATCAAAATTTTTGGAAAATTTAAG
* * *
217335 GGTCAAATTGGATTTTTTGGAAAATTTAGGGGCTAAATTC-AAATTTTTGGAAAATTTAAG
1 GGTCAAATTTGAATTTTTGGAAAATTTAGGGGCCAAA-TCAAAATTTTTGGAAAATTTAAG
* * * *
217395 GGTTAAATTTGAATTTTT-AAAAATTTAGGGGTCAAATTAAAA
1 GGTCAAATTTGAATTTTTGGAAAATTTAGGGGCCAAATCAAAA
217437 CCTTGCCAAT
Statistics
Matches: 83, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
58 1 0.01
59 18 0.22
60 62 0.75
61 2 0.02
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.37
Consensus pattern (60 bp):
GGTCAAATTTGAATTTTTGGAAAATTTAGGGGCCAAATCAAAATTTTTGGAAAATTTAAG
Found at i:217402 original size:30 final size:30
Alignment explanation
Indices: 217275--217432 Score: 124
Period size: 30 Copynumber: 5.3 Consensus size: 30
217265 ATTAAAACCA
** ** * *
217275 GGTCAAATTTGAATTTTTGGAAGCTTCAAG
1 GGTCAAATTCAAATTTTTGGAAAATTTAGG
* * *
217305 GGCCAAA-TCAAAATTTTTGGAAATTTTGGG
1 GGTCAAATTC-AAATTTTTGGAAAATTTAGG
** *
217335 GGTCAAATTGGATTTTTTGGAAAATTTAGG
1 GGTCAAATTCAAATTTTTGGAAAATTTAGG
*
217365 GG-CTAAATTCAAATTTTTGGAAAATTTAAG
1 GGTC-AAATTCAAATTTTTGGAAAATTTAGG
* ** *
217395 GGTTAAATTTGAATTTTT-AAAAATTTAGG
1 GGTCAAATTCAAATTTTTGGAAAATTTAGG
217424 GGTCAAATT
1 GGTCAAATT
217433 AAAACCTTGC
Statistics
Matches: 100, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
29 19 0.19
30 80 0.80
31 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (30 bp):
GGTCAAATTCAAATTTTTGGAAAATTTAGG
Found at i:221089 original size:20 final size:19
Alignment explanation
Indices: 221061--221115 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
221051 AAGTATATAC
221061 ATAACATACAATAAAATAAA
1 ATAA-ATACAATAAAATAAA
*
221081 ATAATATACATATAAGATAAA
1 ATAA-ATACA-ATAAAATAAA
221102 ATAAATA-AATAAAA
1 ATAAATACAATAAAA
221116 AAATTAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 5 0.16
19 1 0.03
20 12 0.39
21 13 0.42
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (19 bp):
ATAAATACAATAAAATAAA
Found at i:221105 original size:31 final size:30
Alignment explanation
Indices: 221044--221110 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
221034 AAGTATACAT
* *
221044 AATAAAAAAGTATATACATAACATACAATAA
1 AATAAAAAAGTATACACATAACATAAAAT-A
* *
221075 AATAAAATAA-TATACATATAAGATAAAATA
1 AATAAAA-AAGTATACACATAACATAAAATA
221105 AATAAA
1 AATAAA
221111 TAAAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 7 0.23
31 22 0.71
32 2 0.06
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (30 bp):
AATAAAAAAGTATACACATAACATAAAATA
Found at i:221194 original size:30 final size:30
Alignment explanation
Indices: 221129--221446 Score: 240
Period size: 30 Copynumber: 10.7 Consensus size: 30
221119 TTAAAACCGA
* * ** * *
221129 GTCAAATTTGAATTTTTAGAAGCTTCAGGG
1 GTCAAATTTAAATTTTTGGAAAATTTAAGG
**
221159 GTCAAATCAAAATTTTTGGAAAATTTAAGG
1 GTCAAATTTAAATTTTTGGAAAATTTAAGG
* ** * *
221189 ATCAAATTGGATTTTTTGGAAAATTT-GGAG
1 GTCAAATTTAAATTTTTGGAAAATTTAAG-G
* * **
221219 GCCAATTTTGAAATTTTT-G-AAATTTTGGG
1 GTCAAATTT-AAATTTTTGGAAAATTTAAGG
*
221248 TGTCAAATTTGAATTTTTTGGAAAATTT-AGTG
1 -GTCAAATTT-AAATTTTTGGAAAATTTAAG-G
* * *
221280 GTGAAA-TTAGAATTTTTGGAATATTTAGGG
1 GTCAAATTTA-AATTTTTGGAAAATTTAAGG
221310 GTCAAATTTAAA-TTTTGGAAAATTTAAGG
1 GTCAAATTTAAATTTTTGGAAAATTTAAGG
* * * *
221339 GTGAAATTTGAATTTTTAGAAAATTT-GGG
1 GTCAAATTTAAATTTTTGGAAAATTTAAGG
* * *
221368 GTGAAATTTAGATTTTTGGAAATTTTAA-G
1 GTCAAATTTAAATTTTTGGAAAATTTAAGG
* *
221397 ATGAAATTTAAATTTTTGGAAAATTTAAGG
1 GTCAAATTTAAATTTTTGGAAAATTTAAGG
221427 GTCAAA-TTAGAATTTTTGGA
1 GTCAAATTTA-AATTTTTGGA
221447 TAGTTTGGGG
Statistics
Matches: 229, Mismatches: 45, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
29 87 0.38
30 118 0.52
31 17 0.07
32 7 0.03
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (30 bp):
GTCAAATTTAAATTTTTGGAAAATTTAAGG
Found at i:221264 original size:61 final size:61
Alignment explanation
Indices: 221129--221443 Score: 206
Period size: 59 Copynumber: 5.3 Consensus size: 61
221119 TTAAAACCGA
* ** * * * * * * *
221129 GTCAAATTTGAA-TTTTTAGAAGCTTCAGGGGTCAAATCAAAATTTTTGGAAAATTTAAGG
1 GTCAAATTTGAATTTTTTGGAAAATTTAGAGGCCAAATTAGAATTTTTGGAATATTTAGGG
* * * * * *
221189 ATCAAA-TTGGATTTTTTGGAAAATTTGGAGGCCAATTTTGAAATTTTT-GAA-ATTTTGGG
1 GTCAAATTTGAATTTTTTGGAAAATTTAGAGGCCAAATTAG-AATTTTTGGAATATTTAGGG
* **
221248 TGTCAAATTTGAATTTTTTGGAAAATTTAGTGGTGAAATTAGAATTTTTGGAATATTTAGGG
1 -GTCAAATTTGAATTTTTTGGAAAATTTAGAGGCCAAATTAGAATTTTTGGAATATTTAGGG
* ** * * *
221310 GTCAAATTT-AA-ATTTTGGAAAATTTA-AGGGTGAAATTTGAATTTTTAGAAAATTT-GGG
1 GTCAAATTTGAATTTTTTGGAAAATTTAGA-GGCCAAATTAGAATTTTTGGAATATTTAGGG
* * * * *
221368 GTGAAATTT-AGA-TTTTTGGAAATTTTAAGATG--AAATTTA-AATTTTTGGAAAATTTAAGG
1 GTCAAATTTGA-ATTTTTTGGAAAATTT-AGAGGCCAAA-TTAGAATTTTTGGAATATTTAGGG
*
221427 GTCAAATTAGAATTTTT
1 GTCAAATTTGAATTTTT
221444 GGATAGTTTG
Statistics
Matches: 203, Mismatches: 38, Indels: 28
0.75 0.14 0.10
Matches are distributed among these distances:
58 30 0.15
59 73 0.36
60 46 0.23
61 47 0.23
62 7 0.03
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.41
Consensus pattern (61 bp):
GTCAAATTTGAATTTTTTGGAAAATTTAGAGGCCAAATTAGAATTTTTGGAATATTTAGGG
Found at i:221443 original size:59 final size:59
Alignment explanation
Indices: 221168--221446 Score: 250
Period size: 59 Copynumber: 4.7 Consensus size: 59
221158 GGTCAAATCA
* * * * * * *
221168 AAATTTTTGGAAAATTTAAGGATCAAATTGGATTTTTTGGAAAATTT-GGAGGCCAATTTT
1 AAATTTTTGGAAAATTTAGGGGTCAAATTAGAATTTTTGGAAAATTTAAGATG--AAATTT
* * * *
221228 GAAATTTTT-G-AAATTTTGGGTGTCAAATTTGAATTTTTTGGAAAATTTAGTGGTGAAA-TT
1 -AAATTTTTGGAAAATTTAGGG-GTCAAATTAGAA-TTTTTGGAAAATTTA-AGATGAAATTT
* *
221288 AGAATTTTTGGAATATTTAGGGGTCAAATTTA-AA-TTTTGGAAAATTTAAGGGTGAAATTT
1 A-AATTTTTGGAAAATTTAGGGGTCAAA-TTAGAATTTTTGGAAAATTTAA-GATGAAATTT
* * * *
221348 GAATTTTTAGAAAATTT-GGGGTGAAATTTAG-ATTTTTGGAAATTTTAAGATGAAATTT
1 AAATTTTTGGAAAATTTAGGGGTCAAA-TTAGAATTTTTGGAAAATTTAAGATGAAATTT
*
221406 AAATTTTTGGAAAATTTAAGGGTCAAATTAGAATTTTTGGA
1 AAATTTTTGGAAAATTTAGGGGTCAAATTAGAATTTTTGGA
221447 TAGTTTGGGG
Statistics
Matches: 181, Mismatches: 23, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
58 41 0.23
59 74 0.41
60 21 0.12
61 33 0.18
62 10 0.06
63 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (59 bp):
AAATTTTTGGAAAATTTAGGGGTCAAATTAGAATTTTTGGAAAATTTAAGATGAAATTT
Found at i:228610 original size:10 final size:10
Alignment explanation
Indices: 228582--228611 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
228572 GAGTTGTAGC
*
228582 ATGTATGTAT
1 ATGTATGTGT
228592 ATGTATGTGT
1 ATGTATGTGT
228602 ATGTATGTGT
1 ATGTATGTGT
228612 GTGTGCGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (10 bp):
ATGTATGTGT
Found at i:230445 original size:13 final size:13
Alignment explanation
Indices: 230427--230452 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
230417 TACTATGACC
230427 TTTTATTTTTTAT
1 TTTTATTTTTTAT
230440 TTTTATTTTTTAT
1 TTTTATTTTTTAT
230453 ACGTAGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:233640 original size:22 final size:22
Alignment explanation
Indices: 233610--233656 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
233600 ATAAAAATAA
* *
233610 AAATAGTAACAATATAATAACG
1 AAATAGTAACAAAACAATAACG
*
233632 AAATGGTAACAAAACAATAACG
1 AAATAGTAACAAAACAATAACG
233654 AAA
1 AAA
233657 CAACAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.17
Consensus pattern (22 bp):
AAATAGTAACAAAACAATAACG
Found at i:236785 original size:31 final size:31
Alignment explanation
Indices: 236721--236786 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
236711 TTTAAATTCA
* * * * *
236721 AAAAAATATAAAGATTAAAATTCACCAATTC
1 AAAAAATACAAAGACTAAAAATAACCAAATC
*
236752 AAAAAATACAAAGACTAAAAATAATCAAATC
1 AAAAAATACAAAGACTAAAAATAACCAAATC
236783 AAAA
1 AAAA
236787 TATATGAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.20
Consensus pattern (31 bp):
AAAAAATACAAAGACTAAAAATAACCAAATC
Found at i:243503 original size:22 final size:24
Alignment explanation
Indices: 243464--243519 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
243454 AAACTTCAAT
*
243464 AAATAAAAAAATATTAAATA-TTA
1 AAATAATAAAATATTAAATATTTA
*
243487 AAATAATATAATA-TAAATATTTA
1 AAATAATAAAATATTAAATATTTA
243510 AAA-AATAAAA
1 AAATAATAAAA
243520 AAAATGGGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATAATAAAATATTAAATATTTA
Found at i:253276 original size:45 final size:45
Alignment explanation
Indices: 253225--253313 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
253215 AAAACTGAGC
* *
253225 GATGACTACAAAGTACAAACAAAAGACTAATTCTAATAGTGAAGA
1 GATGACTACAAAGTACAAACAAAAGACAAATTCTAATAGCGAAGA
***
253270 GATGACTACAAAGTACAAATGGAAGACAAATTCTAATAGCGAAG
1 GATGACTACAAAGTACAAACAAAAGACAAATTCTAATAGCGAAG
253314 CTACCACAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.19
Consensus pattern (45 bp):
GATGACTACAAAGTACAAACAAAAGACAAATTCTAATAGCGAAGA
Found at i:260168 original size:19 final size:19
Alignment explanation
Indices: 260146--260182 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
260136 TTTAAAATTA
*
260146 ATTATTTTTTAAATTTTAT
1 ATTATTTTTAAAATTTTAT
260165 ATTATTTTTAAAATTTTA
1 ATTATTTTTAAAATTTTA
260183 ATTTTAGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTATTTTTAAAATTTTAT
Found at i:262207 original size:33 final size:33
Alignment explanation
Indices: 262165--262231 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
262155 TGTAAAGTTG
262165 TCCAATGCTTCCAAAGATTCAAAATGAGTCTAC
1 TCCAATGCTTCCAAAGATTCAAAATGAGTCTAC
262198 TCCAATGCTTCCAAAGATTCAAAATGAGTCTAC
1 TCCAATGCTTCCAAAGATTCAAAATGAGTCTAC
262231 T
1 T
262232 TTTTACATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (33 bp):
TCCAATGCTTCCAAAGATTCAAAATGAGTCTAC
Found at i:283859 original size:4 final size:4
Alignment explanation
Indices: 283838--283873 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
283828 TGTGGCACCC
*
283838 ATAG AT-G ATAG GTAG ATAG ATAG ATAG ATAG ATAG A
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG A
283874 CAAAACCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (4 bp):
ATAG
Found at i:285839 original size:14 final size:15
Alignment explanation
Indices: 285809--285847 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
285799 AAATAAAAAA
*
285809 AAATATAAAATTATT
1 AAATATTAAATTATT
285824 AAATATTAAA-TATT
1 AAATATTAAATTATT
285838 AAATATTAAA
1 AAATATTAAA
285848 ATAATATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATTAAATTATT
Found at i:285849 original size:22 final size:22
Alignment explanation
Indices: 285809--285860 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
285799 AAATAAAAAA
*
285809 AAATATAAAATTATTAAATATT
1 AAATATAAAATTATTAAATAAT
*
285831 AAATATTAAA-TATTAAAATAAT
1 AAATATAAAATTATT-AAATAAT
285853 ATAATATA
1 A-AATATA
285861 GATATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 4 0.16
22 16 0.64
23 5 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAATATAAAATTATTAAATAAT
Found at i:287662 original size:24 final size:26
Alignment explanation
Indices: 287635--287682 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
287625 AGAGAAATGT
287635 AAATG-TGATATATGA-A-ATTATGAG
1 AAATGATGA-ATATGAGAGATTATGAG
287659 AAATGATGAATATGAGAGATTATG
1 AAATGATGAATATGAGAGATTATG
287683 CCCATGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
AAATGATGAATATGAGAGATTATGAG
Found at i:287781 original size:23 final size:23
Alignment explanation
Indices: 287765--287859 Score: 86
Period size: 22 Copynumber: 4.2 Consensus size: 23
287755 AGCACGTTTC
287765 GTGCCCTCTGTTCAGCACTATGT
1 GTGCCCTCTGTTCAGCACTATGT
* *
287788 GTGCCCTCTATTCAGCACTGTGT
1 GTGCCCTCTGTTCAGCACTATGT
* * * *
287811 GTG-CTTTTGTTTAGCACTGTGT
1 GTGCCCTCTGTTCAGCACTATGT
* * * *
287833 GTG-CTTCTATTTAGCACTTTGT
1 GTGCCCTCTGTTCAGCACTATGT
287855 GTGCC
1 GTGCC
287860 TACTGTTGCT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
22 37 0.60
23 25 0.40
ACGTcount: A:0.12, C:0.24, G:0.23, T:0.41
Consensus pattern (23 bp):
GTGCCCTCTGTTCAGCACTATGT
Found at i:287811 original size:21 final size:22
Alignment explanation
Indices: 287765--287811 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
287755 AGCACGTTTC
*
287765 GTGCCCTCTGTTCAGCACTATGT
1 GTGCCCTCTATTCAGCAC-ATGT
287788 GTGCCCTCTATTCAGCAC-TGT
1 GTGCCCTCTATTCAGCACATGT
287809 GTG
1 GTG
287812 TGCTTTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.26
23 17 0.74
ACGTcount: A:0.13, C:0.30, G:0.23, T:0.34
Consensus pattern (22 bp):
GTGCCCTCTATTCAGCACATGT
Found at i:287829 original size:22 final size:22
Alignment explanation
Indices: 287778--287858 Score: 99
Period size: 22 Copynumber: 3.6 Consensus size: 22
287768 CCCTCTGTTC
* * *
287778 AGCACTATGTGTGCCCTCTATTC
1 AGCACTGTGTGTG-CTTCTATTT
* *
287801 AGCACTGTGTGTGCTTTTGTTT
1 AGCACTGTGTGTGCTTCTATTT
287823 AGCACTGTGTGTGCTTCTATTT
1 AGCACTGTGTGTGCTTCTATTT
*
287845 AGCACTTTGTGTGC
1 AGCACTGTGTGTGC
287859 CTACTGTTGC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
22 38 0.76
23 12 0.24
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.42
Consensus pattern (22 bp):
AGCACTGTGTGTGCTTCTATTT
Found at i:287856 original size:44 final size:45
Alignment explanation
Indices: 287773--287858 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
287763 TCGTGCCCTC
287773 TGTTCAGCACTATGTGTGCCCTCTATTCAGCACTGTGTGTGCTTT
1 TGTTCAGCACTATGTGTGCCCTCTATTCAGCACTGTGTGTGCTTT
* * * * *
287818 TGTTTAGCACTGTGTGTG-CTTCTATTTAGCACTTTGTGTGC
1 TGTTCAGCACTATGTGTGCCCTCTATTCAGCACTGTGTGTGC
287859 CTACTGTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 20 0.56
45 16 0.44
ACGTcount: A:0.13, C:0.21, G:0.23, T:0.43
Consensus pattern (45 bp):
TGTTCAGCACTATGTGTGCCCTCTATTCAGCACTGTGTGTGCTTT
Found at i:296933 original size:2 final size:2
Alignment explanation
Indices: 296926--296958 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
296916 GCCTTGCTAT
296926 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
296959 GAAATTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:298521 original size:6 final size:6
Alignment explanation
Indices: 298510--298538 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
298500 TTCTATATTC
298510 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
298539 TTCTTTTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:306325 original size:117 final size:117
Alignment explanation
Indices: 306110--306348 Score: 354
Period size: 117 Copynumber: 2.0 Consensus size: 117
306100 AACAGTTGTC
* *
306110 CGAAAAGGAACATAAATATGACAAGACAACGGCGGCTCTTCAAGAACTCGTCGATGGCCTTGTAG
1 CGAAAAGGAACATAAATATGACAAGACAACCGCAGCTCTTCAAGAACTCGTCGATGGCCTTGTAG
* * * *
306175 CGAAAATTGACTCCAAGGACAGTGGTTTGCGGGATTGGGAGCTTCGATATAA
66 AGAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCAATATAA
* * ** * *
306227 GGAAATGGAACATAAATATGATGAGACAACCGTAGCTCTTCAA-AGACTCGTTGATGGCCTTGTA
1 CGAAAAGGAACATAAATATGACAAGACAACCGCAGCTCTTCAAGA-ACTCGTCGATGGCCTTGTA
306291 GAGAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCAATATAA
65 GAGAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCAATATAA
306344 CGAAA
1 CGAAA
306349 CCGTGAGACA
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
116 1 0.01
117 107 0.99
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (117 bp):
CGAAAAGGAACATAAATATGACAAGACAACCGCAGCTCTTCAAGAACTCGTCGATGGCCTTGTAG
AGAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCAATATAA
Found at i:309108 original size:2 final size:2
Alignment explanation
Indices: 309103--309134 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
309093 ATTTTTTAAG
309103 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
309135 TAGGGTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:310259 original size:17 final size:16
Alignment explanation
Indices: 310230--310263 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
310220 TATAAATGTA
*
310230 TAAAATTATTAAATAT
1 TAAAATAATTAAATAT
310246 TAAAATAATGTAAATAT
1 TAAAATAAT-TAAATAT
310263 T
1 T
310264 TTTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAAAATAATTAAATAT
Found at i:314799 original size:32 final size:32
Alignment explanation
Indices: 314755--314831 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 32
314745 TAATTAATTT
* * *
314755 TTTTTTTCAAATTTTTAGAGGGTCTAATTAAA
1 TTTTTTTAAAATTTTTAAAAGGTCTAATTAAA
*
314787 TTTTTTTAAAA-TTTTAAAAGGTTTAATTAAA
1 TTTTTTTAAAATTTTTAAAAGGTCTAATTAAA
* *
314818 ATTTTTAAAAATTT
1 TTTTTTTAAAATTT
314832 CAAGGGACCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 26 0.68
32 12 0.32
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.52
Consensus pattern (32 bp):
TTTTTTTAAAATTTTTAAAAGGTCTAATTAAA
Done.