Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold183
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: 471943
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 1 of 3
Found at i:8990 original size:14 final size:14
Alignment explanation
Indices: 8971--8997 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8961 AAATGTATCA
8971 GAAACGCATGATCT
1 GAAACGCATGATCT
8985 GAAACGCATGATC
1 GAAACGCATGATC
8998 CGAGCCCACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (14 bp):
GAAACGCATGATCT
Found at i:10582 original size:28 final size:29
Alignment explanation
Indices: 10525--11672 Score: 1229
Period size: 28 Copynumber: 39.9 Consensus size: 29
10515 TGTTCATCTC
*
10525 TTTCAAAGCCCACAAGTTAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
10553 TTTC-AAGCCCACAAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
10580 TTTCAAAGCCCGCAAGTCAGCGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
10608 TTTCAAAGCCCGCAAGTCAGCGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
10636 TTTCAAAGCCCACAAGTCAGTGGCAC-CA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
10664 TTTCAGAGCCCACAAGTTAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
10693 TGT-GAAGCCCACAATTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
10720 TTTCAAAGCCCACAAGTCAATGGCA-TCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
10748 TTTCAAAGCCCATACAAGTCAGTGGCACTCC
1 TTTCAAAGCCC--ACAAGTCAGTGGCACTCT
*
10779 TTTCAAAGCCCACAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
10807 TTTCAAAGCCCACACAAGTCAGTGGCATTCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACTCT
* * *
10838 TTTCAAAGCCCACACAAGTCGGTAGCAACTCC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACTCT
10870 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
10899 TTTCAAAGCCTACGAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
10928 TTTC-AAGCCCACGAGTCAGTGGCAC-C-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
10954 CTTCCAAGCCCACGAGTCAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
10982 TTTCAAAGCCCACGAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
11010 TTTCAAAGCCCACAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
11038 TTTCAAAGCCCACGCAAGTTAGTGGCACCCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
*
11069 TTT-AAAGCCCACGCAAGTTAGTGGCAC-CT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
*
11098 TTTCAAAGCCCACGAGTCAGTGGCAC-CTT
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-T
*
11127 TTTCAAAGCCCACGAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
11155 TTTCAAAGCCCACAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
11183 TTTCAAAGCCCACGCAAGTCAGTGGCACCCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
11214 TTT-AAAGCCCACACAAGTCAGTGGCAC-CT
1 TTTCAAAG-CC-CACAAGTCAGTGGCACTCT
**
11243 TTTCAAAGCCCACGGGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
11271 TTTCAAAGCCCATAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
11299 TTTC-AAGCCCACGAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
11326 TTTC-AAGCCCACGAGTCAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
11353 TTTCAAAGCCCACGAGTCAGTAGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
11381 TTTCAAAGCCCACGCAAGTCAGTGGCACCCT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
11412 TTT-AAAGCCCACGCAAGTCAGTGGCAC-CT
1 TTTCAAAGCCCA--CAAGTCAGTGGCACTCT
*
11441 TTTCAAAGCCCACGAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
11469 TTTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACT-CT
11498 TTT-AAAGCCCACAAGTCAGTGGCA-TCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
11525 TTTCAAAGCCCAAAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
11553 TTTCAAAGCCCACGTAAGTCAGTGGCACCCT
1 TTTCAAAGCCCAC--AAGTCAGTGGCACTCT
* **
11584 TTT-AAAGCCCACAAGCCAGTAGTAACTCT
1 TTTCAAAGCCCACAAGTCAGT-GGCACTCT
* * * *
11613 TTTCCAAGCCCACACGTATCGGTGGCAACTTT
1 TTTCAAAGCCCACAAG--TCAGTGGC-ACTCT
*
11645 TTTCAAAGCCTACACAAGTTAGTGGCAC
1 TTTCAAAGCC--CACAAGTCAGTGGCAC
11673 ATTTGTTTTT
Statistics
Matches: 990, Mismatches: 78, Indels: 101
0.85 0.07 0.09
Matches are distributed among these distances:
26 3 0.00
27 114 0.12
28 463 0.47
29 112 0.11
30 194 0.20
31 63 0.06
32 36 0.04
34 5 0.01
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:12261 original size:20 final size:20
Alignment explanation
Indices: 12233--12306 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
12223 TTTTACCTAG
12233 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* ** *
12253 ATATATCGATACA-TGATGA
1 ATGTATCGATACATTTTTCA
* *
12272 ATGTATCGATATATTTTGCA
1 ATGTATCGATACATTTTTCA
12292 ATGTATCGATACATT
1 ATGTATCGATACATT
12307 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 14 0.33
20 28 0.67
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:18171 original size:2 final size:2
Alignment explanation
Indices: 18166--18207 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
18156 ATATATGACC
18166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18208 TAAGAGGAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18784 original size:20 final size:18
Alignment explanation
Indices: 18736--18802 Score: 60
Period size: 17 Copynumber: 4.1 Consensus size: 18
18726 ATAAATATTT
18736 TAAAATTTATATAATAT-
1 TAAAATTTATATAATATA
18753 T--AA-TTAT-TAATATA
1 TAAAATTTATATAATATA
18767 TCAAAATTTATATAA-ATA
1 T-AAAATTTATATAATATA
*
18785 TAAAATATAT-TAA-ATA
1 TAAAATTTATATAATATA
18801 TA
1 TA
18803 GTTATAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 6 0.14
14 5 0.12
15 2 0.05
16 8 0.19
17 11 0.26
18 8 0.19
19 3 0.07
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAATTTATATAATATA
Found at i:18800 original size:16 final size:16
Alignment explanation
Indices: 18757--18802 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
18747 TAATATTAAT
*
18757 TATTAATATATCAAAATT
1 TATTAA-ATAT-AAAATA
18775 TATATAAATATAAAATA
1 TAT-TAAATATAAAATA
18792 TATTAAATATA
1 TATTAAATATA
18803 GTTATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 8 0.31
17 8 0.31
18 7 0.27
19 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TATTAAATATAAAATA
Found at i:18813 original size:11 final size:9
Alignment explanation
Indices: 18720--18822 Score: 53
Period size: 10 Copynumber: 11.9 Consensus size: 9
18710 GACATAACAG
18720 AAATATA-T
1 AAATATATT
*
18728 AAATATTTT
1 AAATATATT
18737 AAA-AT-TT
1 AAATATATT
*
18744 ATATAATATT
1 AAAT-ATATT
18754 -AAT-TATT
1 AAATATATT
*
18761 -AATATATCA
1 AAATATAT-T
*
18770 AAATTTATAT
1 AAATATAT-T
18780 AAATATA--
1 AAATATATT
18787 AAATATATT
1 AAATATATT
18796 AAATATAGTT
1 AAATATA-TT
*
18806 ATAATATAAT
1 A-AATATATT
18816 AAA-ATAT
1 AAATATAT
18823 ACAAATATAA
Statistics
Matches: 74, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
7 18 0.24
8 14 0.19
9 17 0.23
10 19 0.26
11 6 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (9 bp):
AAATATATT
Found at i:18818 original size:30 final size:27
Alignment explanation
Indices: 18777--18831 Score: 74
Period size: 30 Copynumber: 1.9 Consensus size: 27
18767 TCAAAATTTA
*
18777 TATAAATATAAAATATATTAAATATAGT
1 TATAAATATAAAATATA-CAAATATAGT
18805 TATAATATAATAAAATATACAAATATA
1 TATAA-AT-ATAAAATATACAAATATA
18832 ACATAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 5 0.21
29 9 0.38
30 10 0.42
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
TATAAATATAAAATATACAAATATAGT
Found at i:19892 original size:38 final size:39
Alignment explanation
Indices: 19835--19923 Score: 128
Period size: 38 Copynumber: 2.3 Consensus size: 39
19825 CATTTAAAGC
* *
19835 TTATTTATTATTCAATTATAATTTAATTAATAATA-TTA
1 TTATTTATTATTTAATTATAATATAATTAATAATATTTA
* *
19873 TTATTTTTTATTTATTTATAATATAATTAATAATATTTA
1 TTATTTATTATTTAATTATAATATAATTAATAATATTTA
19912 TT-TTTATTATTT
1 TTATTTATTATTT
19924 TATATTTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
38 40 0.89
39 5 0.11
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (39 bp):
TTATTTATTATTTAATTATAATATAATTAATAATATTTA
Found at i:19904 original size:35 final size:32
Alignment explanation
Indices: 19858--19940 Score: 80
Period size: 35 Copynumber: 2.5 Consensus size: 32
19848 AATTATAATT
*
19858 TAATTAATAATATTA-TTATTTTTTATTTATTTA
1 TAATTAATAATAATATTTA-TTTTTA-TTATTTA
19891 TAATATAATTAATAATATTTATTTTTATTATTTTA
1 TAAT-TAA-TAATAATATTTATTTTTATTA-TTTA
*
19926 TATTTAA-AACTAATA
1 TAATTAATAA-TAATA
19941 CAAATGTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
32 2 0.05
33 9 0.21
34 9 0.21
35 20 0.47
36 3 0.07
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (32 bp):
TAATTAATAATAATATTTATTTTTATTATTTA
Found at i:20182 original size:2 final size:2
Alignment explanation
Indices: 20175--20206 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20165 CTTAAACTCA
20175 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
20207 GGATTCCTTG
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:21837 original size:16 final size:16
Alignment explanation
Indices: 21818--21848 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
21808 CGATGGATCT
21818 AGCTGTAATAGTTGCA
1 AGCTGTAATAGTTGCA
21834 AGCTGTAATAGTTGC
1 AGCTGTAATAGTTGC
21849 CATAGGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (16 bp):
AGCTGTAATAGTTGCA
Found at i:37163 original size:9 final size:9
Alignment explanation
Indices: 37140--37215 Score: 73
Period size: 10 Copynumber: 8.0 Consensus size: 9
37130 TCCTTGACAC
37140 CCAAAGAAAA
1 CCAAA-AAAA
37150 CCCAAAAAAA
1 -CCAAAAAAA
37160 CCAAAAAAAA
1 CC-AAAAAAA
*
37170 CAAAAAAAA
1 CCAAAAAAA
*
37179 CAAAAAAAAA
1 C-CAAAAAAA
*
37189 ACAAAAAAA
1 CCAAAAAAA
37198 -CAAAAAAA
1 CCAAAAAAA
37206 CCAAGAAAAA
1 CCAA-AAAAA
37216 ATAACAAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
8 8 0.14
9 20 0.34
10 25 0.43
11 5 0.09
ACGTcount: A:0.80, C:0.17, G:0.03, T:0.00
Consensus pattern (9 bp):
CCAAAAAAA
Found at i:37163 original size:20 final size:19
Alignment explanation
Indices: 37140--37215 Score: 77
Period size: 19 Copynumber: 4.0 Consensus size: 19
37130 TCCTTGACAC
*
37140 CCAAAGAAAACCCAAAAAAA
1 CCAAA-AAAACACAAAAAAA
37160 CCAAAAAAA-ACAAAAAAAA
1 CCAAAAAAACAC-AAAAAAA
* *
37179 CAAAAAAAAAACAAAAAAA
1 CCAAAAAAACACAAAAAAA
37198 -CAAAAAAAC-CAAGAAAAA
1 CCAAAAAAACACAA-AAAAA
37216 ATAACAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.06
18 13 0.27
19 26 0.53
20 7 0.14
ACGTcount: A:0.80, C:0.17, G:0.03, T:0.00
Consensus pattern (19 bp):
CCAAAAAAACACAAAAAAA
Found at i:37189 original size:30 final size:30
Alignment explanation
Indices: 37153--37227 Score: 109
Period size: 28 Copynumber: 2.5 Consensus size: 30
37143 AAGAAAACCC
*
37153 AAAAAAACCAAAAAAAACAAAAAAAACAA-
1 AAAAAAAACAAAAAAAACAAAAAAAACAAG
*
37182 AAAAAAAAC-AAAAAAACAAAAAAACCAAG
1 AAAAAAAACAAAAAAAACAAAAAAAACAAG
37211 AAAAAATAACAAAAAAA
1 AAAAAA-AACAAAAAAA
37228 CAGAAAAGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 18 0.44
29 14 0.34
30 3 0.07
31 6 0.15
ACGTcount: A:0.85, C:0.12, G:0.01, T:0.01
Consensus pattern (30 bp):
AAAAAAAACAAAAAAAACAAAAAAAACAAG
Found at i:37224 original size:8 final size:8
Alignment explanation
Indices: 37152--37234 Score: 68
Period size: 7 Copynumber: 10.8 Consensus size: 8
37142 AAAGAAAACC
37152 CAAAAAAA
1 CAAAAAAA
37160 CCAAAAAAA
1 -CAAAAAAA
*
37169 -ACAAAAA
1 CAAAAAAA
*
37176 -AAACAAA
1 CAAAAAAA
37183 -AAAAAAA
1 CAAAAAAA
37190 CAAAAAAA
1 CAAAAAAA
37198 CAAAAAAA
1 CAAAAAAA
* *
37206 C-CAAGAA
1 CAAAAAAA
*
37213 -AAAATAA
1 CAAAAAAA
37220 CAAAAAAA
1 CAAAAAAA
37228 CAGAAAA
1 CA-AAAA
37235 GGGTCCAGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
7 25 0.41
8 24 0.39
9 12 0.20
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.01
Consensus pattern (8 bp):
CAAAAAAA
Found at i:37224 original size:9 final size:9
Alignment explanation
Indices: 37152--37226 Score: 87
Period size: 9 Copynumber: 8.0 Consensus size: 9
37142 AAAGAAAACC
*
37152 CAAAAAAAC
1 CAAAAAAAA
37161 CAAAAAAAA
1 CAAAAAAAA
37170 CAAAAAAAA
1 CAAAAAAAA
37179 CAAAAAAAA
1 CAAAAAAAA
*
37188 AACAAAAAAA
1 CA-AAAAAAA
*
37198 CAAAAAAAC
1 CAAAAAAAA
37207 CAAGAAAAAA
1 CAA-AAAAAA
*
37217 TAACAAAAAA
1 CAA-AAAAAA
37227 ACAGAAAAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
9 36 0.63
10 21 0.37
ACGTcount: A:0.84, C:0.13, G:0.01, T:0.01
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:37225 original size:1 final size:1
Alignment explanation
Indices: 37162--37205 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
37152 CAAAAAAACC
* * * *
37162 AAAAAAAACAAAAAAAACAAAAAAAAAACAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
37206 CCAAGAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:37234 original size:9 final size:8
Alignment explanation
Indices: 37152--37234 Score: 68
Period size: 8 Copynumber: 10.9 Consensus size: 8
37142 AAAGAAAACC
37152 CAAAAAAA
1 CAAAAAAA
37160 CCAAAAAAA
1 -CAAAAAAA
*
37169 -ACAAAAA
1 CAAAAAAA
*
37176 -AAACAAA
1 CAAAAAAA
37183 -AAAAAAA
1 CAAAAAAA
37190 CAAAAAAA
1 CAAAAAAA
37198 CAAAAAAA
1 CAAAAAAA
* *
37206 C-CAAGAA
1 CAAAAAAA
*
37213 -AAAATAA
1 CAAAAAAA
37220 CAAAAAAA
1 CAAAAAAA
*
37228 CAGAAAA
1 CAAAAAA
37235 GGGTCCAGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
7 25 0.41
8 28 0.46
9 8 0.13
ACGTcount: A:0.83, C:0.13, G:0.02, T:0.01
Consensus pattern (8 bp):
CAAAAAAA
Found at i:38434 original size:28 final size:29
Alignment explanation
Indices: 38394--38581 Score: 103
Period size: 28 Copynumber: 6.4 Consensus size: 29
38384 CGTTCATCTC
*
38394 TTCAAAGCCCACATGTCAGTGGCAC-CCT
1 TTCAAAACCCACATGTCAGTGGCACTCCT
* * *
38422 TTCAAAACCCACAAGTCTGTGGCACTCTT
1 TTCAAAACCCACATGTCAGTGGCACTCCT
* * * *
38451 TTCGAAACCCACATGAGTCGGTGGTAACTCTT
1 TTCAAAACCCACAT--GTCAGTGG-CACTCCT
* * * *
38483 TTCAAAGCCCACAAGTTAGTGGCA-TCTT
1 TTCAAAACCCACATGTCAGTGGCACTCCT
* * * * *
38511 TTCAAAGCCCACAAGTCGGTGGTA-TCAT
1 TTCAAAACCCACATGTCAGTGGCACTCCT
* * * * * *
38539 TTCAAAGCCTATAAGTCGGTGGCAACTCAT
1 TTCAAAACCCACATGTCAGTGGC-ACTCCT
*
38569 TTCAAAGCCCACA
1 TTCAAAACCCACA
38582 CAAGTCGGTG
Statistics
Matches: 131, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
28 70 0.53
29 16 0.12
30 21 0.16
31 7 0.05
32 17 0.13
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (29 bp):
TTCAAAACCCACATGTCAGTGGCACTCCT
Found at i:38741 original size:156 final size:150
Alignment explanation
Indices: 38394--39128 Score: 713
Period size: 156 Copynumber: 4.9 Consensus size: 150
38384 CGTTCATCTC
* * * * * *
38394 TTCAAAGCCCACATGTCAGTGGCACCCTTTCAAAACCCACAAGTCTGTGGCACTCTTTTCGAAA-
1 TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACTCATTT-GAAAG
** * **
38458 CCCACATGAGTCGGTGGTAACTCTTTTCAAAG-CC-CACAAGTTAGTGGC-A-TCTTTTCAAAGC
65 CCCACACAAGTTGGTGG-AAC-CTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGC
* *
38519 C-CACAAGTCGGTGG-TA-TCAT
128 CACACAAGTCGGTGGCAACCCAT
* * * *
38539 TTCAAAGCCTATAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTG
1 TTCAAAGCCCACAAGTCAGTGGC-A-TCATTTCAAAG-CC-CACAAGTCAGTGGC-ACTCATTTG
* * *
38604 AAAGCCCACACAAGTTGGTGGTAACCTATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCA
61 AAAGCCCACACAAGTTGGTGG-AACCT-TTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCA
38669 AAGTCCACACAAGTCGGTGGCAACCCAT
124 AAG-CCACACAAGTCGGTGGCAACCCAT
* * *
38697 TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCTAAACAAGTCGGTGGCAACTCATTTCAA
1 TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCC--CACAAGTCAGTGGC-ACTCATTTGAA
*
38762 AGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAAC-CTATTTCAA
63 AGCCCACACAAGTTGGTGG-AA-CCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCT-TTTCAA
38826 AGCCCACACAAGTCGGTGGCAACCCAT
125 AG-CCACACAAGTCGGTGGCAACCCAT
* * * *
38853 TTCAAAGCCCATAAGT-AGGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAG
1 TTCAAAGCCCACAAGTCA-GTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACTCATTTGAAAG
* * * * * ** *
38916 -TC-CATAAGTCGGTGGCATCTTTTCAAAG-CC-CACAAGTCGAAGGC-A-TTTTTTCAAAGCC-
65 CCCACACAAGTTGGTGGAACCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCA
**
38974 CACAAGTTAGTGGC-ACCC-T
130 CACAAGTCGGTGGCAACCCAT
* * *
38993 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTGAAAG-
1 TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACTCATTTGAAAGC
** * * *
39057 CC-CACAAGTTAATGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTTTTAAAGCCC
66 CCACACAAGTTGGTGGAAC-CTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAG-CC
39121 ACACAAGT
129 ACACAAGT
39129 TAGTGACACC
Statistics
Matches: 502, Mismatches: 59, Indels: 55
0.81 0.10 0.09
Matches are distributed among these distances:
140 48 0.10
141 26 0.05
142 22 0.04
143 4 0.01
144 19 0.04
145 22 0.04
146 22 0.04
147 12 0.02
148 18 0.04
149 20 0.04
150 44 0.09
151 3 0.01
152 23 0.05
153 2 0.00
154 21 0.04
155 6 0.01
156 163 0.32
157 4 0.01
158 23 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (150 bp):
TTCAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGCACTCATTTGAAAGC
CCACACAAGTTGGTGGAACCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCAC
ACAAGTCGGTGGCAACCCAT
Found at i:39124 original size:32 final size:29
Alignment explanation
Indices: 38394--39123 Score: 604
Period size: 32 Copynumber: 24.4 Consensus size: 29
38384 CGTTCATCTC
* * *
38394 TTCAAAGCCCACATGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
* *
38422 TTCAAAACCCACAAGTCTGTGGCACTCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
*
38451 TTCGAAA-CCCACATGAGTCGGTGGTAACTCTT
1 TTC-AAAGCCCACA--AGTCGGTGG-CACTCTT
**
38483 TTCAAAGCCCACAAGTTAGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
* *
38511 TTCAAAGCCCACAAGTCGGTGGTA-TCAT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
* * *
38539 TTCAAAGCCTATAAGTCGGTGGCAACTCAT
1 TTCAAAGCCCACAAGTCGGTGGC-ACTCTT
*
38569 TTCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-ACTCTT
* * *
38601 TTGAAAGCCCACACAAGTTGGTGGTAAC-CTAT
1 TTCAAAG-CC-CACAAGTCGGTGG-CACTCT-T
* * *
38633 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-ACTCTT
* *
38665 TTCAAAGTCCACACAAGTCGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-ACTCTT
* *
38697 TTCAAAGCCCACAAGTCAGTGGCA-TCAT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
* *
38725 TTCAAAGCCTAAACAAGTCGGTGGCAACTCAT
1 TTCAAAGCC--CACAAGTCGGTGGC-ACTCTT
* * *
38757 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-ACTCTT
38789 TTCAAAGCCCACACAAGTCGGTGGCAAC-CTAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-ACTCT-T
* *
38821 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCGGTGGC-ACTCTT
* *
38853 TTCAAAGCCCATAAGTAGGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
* *
38881 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
* *
38909 TTCAAAGTCCATAAGTCGGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
** *
38937 TTCAAAGCCCACAAGTCGAAGGCA-TTTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
** *
38965 TTCAAAGCCCACAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
* *
38993 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
*
39021 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
* ***
39050 TTGAAAGCCCACAAGTTAATGGCACTCTT
1 TTCAAAGCCCACAAGTCGGTGGCACTCTT
39079 TTCAAAGCCCACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCGGTGGC-ACTCTT
*
39111 TTTAAAGCCCACA
1 TTCAAAGCCCACA
39124 CAAGTTAGTG
Statistics
Matches: 606, Mismatches: 70, Indels: 48
0.84 0.10 0.07
Matches are distributed among these distances:
28 228 0.38
29 55 0.09
30 58 0.10
31 27 0.04
32 234 0.39
33 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCGGTGGCACTCTT
Found at i:49005 original size:20 final size:21
Alignment explanation
Indices: 48982--49036 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
48972 ACAATTCAAA
* *
48982 GTATCGATACATGTTACA-AT
1 GTATCGATACATGTAAAAGAT
*
49002 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTAAAAGAT
49023 GTATCGATACATGT
1 GTATCGATACATGT
49037 CATTGGGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (21 bp):
GTATCGATACATGTAAAAGAT
Found at i:49107 original size:32 final size:33
Alignment explanation
Indices: 49066--49129 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
49056 TAGCCAAACT
** *
49066 TGTATCGATACA-CAAAGTATGTATTGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
49098 TGTATCGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
49130 TTAGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:55289 original size:13 final size:13
Alignment explanation
Indices: 55271--55309 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
55261 ACATCATTCT
55271 TTGTATCGATACA
1 TTGTATCGATACA
55284 TTGTATCGATACA
1 TTGTATCGATACA
*
55297 CTGTATCGATACA
1 TTGTATCGATACA
55310 GGAGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:55456 original size:21 final size:19
Alignment explanation
Indices: 55432--55483 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
55422 AAATCTCTTG
55432 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCA--T
* *
55453 CAAATTACATCGTTTTTCAT
1 CAAAATAC-TTGTTTTTCAT
55473 CAAAATCACTT
1 CAAAAT-ACTT
55484 TCAAAAACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
20 7 0.28
21 9 0.36
22 9 0.36
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (19 bp):
CAAAATACTTGTTTTTCAT
Found at i:57834 original size:13 final size:13
Alignment explanation
Indices: 57816--57841 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57806 TACACAAAGT
57816 ATGTATCGATACA
1 ATGTATCGATACA
57829 ATGTATCGATACA
1 ATGTATCGATACA
57842 CCAAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:57839 original size:32 final size:33
Alignment explanation
Indices: 57798--57861 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
57788 TAGCCAAACT
**
57798 TGTATCGATACA-CAAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
57830 TGTATCGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
57862 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:61356 original size:19 final size:19
Alignment explanation
Indices: 61332--61429 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 19
61322 CAGTAGCTAA
61332 TTATGTATCGATACAACAC
1 TTATGTATCGATACAACAC
61351 TTATGTATCGAT---ACA-
1 TTATGTATCGATACAACAC
61366 -T-TGTATCGATACAACAC
1 TTATGTATCGATACAACAC
61383 TTATGTATCGAT---ACA-
1 TTATGTATCGATACAACAC
61398 -T-TGTAT-GATACAACAC
1 TTATGTATCGATACAACAC
*
61414 TTATGTATCAATACAA
1 TTATGTATCGATACAA
61430 ATCGTTGAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
12 3 0.05
13 14 0.22
14 2 0.03
15 3 0.05
16 9 0.14
17 1 0.02
18 6 0.09
19 27 0.42
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAACAC
Found at i:61376 original size:32 final size:32
Alignment explanation
Indices: 61335--61428 Score: 172
Period size: 32 Copynumber: 3.0 Consensus size: 32
61325 TAGCTAATTA
61335 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
61367 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
*
61399 TGTAT-GATACAACACTTATGTATCAATACA
1 TGTATCGATACAACACTTATGTATCGATACA
61429 AATCGTTGAA
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
31 24 0.39
32 37 0.61
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:61409 original size:12 final size:13
Alignment explanation
Indices: 61354--61409 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
61344 ACAACACTTA
61354 TGTATCGATACAT
1 TGTATCGATACAT
61367 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
61385 ATGTATCGATACAT
1 -TGTATCGATACAT
61399 TGTAT-GATACA
1 TGTATCGATACA
61410 ACACTTATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
12 6 0.16
13 14 0.38
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:63270 original size:13 final size:13
Alignment explanation
Indices: 63252--63277 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63242 CAATTTTTTG
63252 TGTATCGATACAT
1 TGTATCGATACAT
63265 TGTATCGATACAT
1 TGTATCGATACAT
63278 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:65845 original size:13 final size:13
Alignment explanation
Indices: 65827--65851 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65817 ATAATCACCC
65827 TGTATCGATACAA
1 TGTATCGATACAA
65840 TGTATCGATACA
1 TGTATCGATACA
65852 TTGAATTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:67930 original size:15 final size:15
Alignment explanation
Indices: 67910--67940 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
67900 ATTTCGTTTG
*
67910 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
67925 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
67940 G
1 G
67941 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:69773 original size:21 final size:22
Alignment explanation
Indices: 69749--69789 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
69739 TTCATTTTTC
*
69749 TTAGCTAAC-TCATTATTTCCA
1 TTAGCCAACTTCATTATTTCCA
*
69770 TTAGCCAACTTCTTTATTTC
1 TTAGCCAACTTCATTATTTC
69790 AACTTGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.46
Consensus pattern (22 bp):
TTAGCCAACTTCATTATTTCCA
Found at i:72025 original size:13 final size:13
Alignment explanation
Indices: 72007--72032 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71997 CAATTTTTTG
72007 TGTATCGATACAT
1 TGTATCGATACAT
72020 TGTATCGATACAT
1 TGTATCGATACAT
72033 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:72832 original size:155 final size:158
Alignment explanation
Indices: 72546--72862 Score: 385
Period size: 155 Copynumber: 2.0 Consensus size: 158
72536 ATTTTTTATT
* * * *
72546 TTAAAGCTGGGTCAAGCAAACACGAGCTGACCCGCAGGTCGACGCATAGTTCGCACCTGACCCGC
1 TTAAAGCTGGGTCAAGCAAACACGAGCTGACCAGCAGGTCGACACATAGTTCGCACCTAACCCAC
* * * * *
72611 ATAGAAACCCTAGTGGCTTGGATTCATATCCCACACCACCCTTTTTTTCTTCTTTTTTTTGTTTT
66 ACAGAAACCATAGTGGCTTGGATTCAAATCCCACACCAACCTTTTTTTCTTCTTTCTTTTGTTTT
72676 TTTTTTC-TTCT-TC-TTTCTTTCTTTC
131 TTTTTTCTTTCTCTCTTTTCTTTCTTTC
* * *
72701 TTAAAGTTGGGTCAAGCAAACACGAGCTGACCAGCGGGTC-AGCACATGGGTT-GCACCTAACCC
1 TTAAAGCTGGGTCAAGCAAACACGAGCTGACCAGCAGGTCGA-CACAT-AGTTCGCACCTAACCC
* * * ***
72764 ACACAGGAACCATGGTGGCTTGGATTTAAATCCCACGTTAACCTTTTTTCTCCTT-TTTCTTTTG
64 ACACAGAAACCATAGTGGCTTGGATTCAAATCCCACACCAACCTTTTTT-T-CTTCTTTCTTTTG
72828 TTTTTTTTTTCTTTCTCTCTTTTTCTTTCTTTC
127 TTTTTTTTTTCTTTCTCTC-TTTTCTTTCTTTC
72861 TT
1 TT
72863 TTTTCTTCTT
Statistics
Matches: 136, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
154 1 0.01
155 89 0.65
156 23 0.17
157 7 0.05
158 2 0.01
160 14 0.10
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (158 bp):
TTAAAGCTGGGTCAAGCAAACACGAGCTGACCAGCAGGTCGACACATAGTTCGCACCTAACCCAC
ACAGAAACCATAGTGGCTTGGATTCAAATCCCACACCAACCTTTTTTTCTTCTTTCTTTTGTTTT
TTTTTTCTTTCTCTCTTTTCTTTCTTTC
Found at i:72841 original size:22 final size:22
Alignment explanation
Indices: 72807--72877 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
72797 CACGTTAACC
* *
72807 TTTTTTCTCCTTTTTCT-TTTGT
1 TTTTTTTTTCTTTTTCTCTTT-T
*
72829 TTTTTTTTTCTTTCTCTCTTTT
1 TTTTTTTTTCTTTTTCTCTTTT
* * *
72851 TCTTTCTTTCTTTTT-TCTTCT
1 TTTTTTTTTCTTTTTCTCTTTT
72872 TTTTTT
1 TTTTTT
72878 CTCCCTTCCT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
21 9 0.23
22 27 0.69
23 3 0.08
ACGTcount: A:0.00, C:0.18, G:0.01, T:0.80
Consensus pattern (22 bp):
TTTTTTTTTCTTTTTCTCTTTT
Found at i:72850 original size:14 final size:14
Alignment explanation
Indices: 72833--72865 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
72823 TTTTGTTTTT
72833 TTTTTCTTTCTCTC
1 TTTTTCTTTCTCTC
*
72847 TTTTTCTTTCTTTC
1 TTTTTCTTTCTCTC
72861 TTTTT
1 TTTTT
72866 TCTTCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTCTTTCTCTC
Found at i:72850 original size:29 final size:29
Alignment explanation
Indices: 72810--72869 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
72800 GTTAACCTTT
* *
72810 TTTCTCC-TTTTTCTTTTGTTTTTTTTTTC
1 TTTCTCCTTTTTTC-TTTCTTTCTTTTTTC
72839 TTTCT-CTCTTTTTCTTTCTTTCTTTTTTC
1 TTTCTCCT-TTTTTCTTTCTTTCTTTTTTC
72868 TT
1 TT
72870 CTTTTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 20 0.74
30 6 0.22
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (29 bp):
TTTCTCCTTTTTTCTTTCTTTCTTTTTTC
Found at i:72856 original size:18 final size:18
Alignment explanation
Indices: 72829--72880 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
72819 TTTCTTTTGT
*
72829 TTTTTTTTTCTTTCTCTC
1 TTTTTCTTTCTTTCTCTC
*
72847 TTTTTCTTTCTTTCT-TT
1 TTTTTCTTTCTTTCTCTC
*
72864 TTTCTTCTTTTTTTCTC
1 TTT-TTCTTTCTTTCTC
72881 CCTTCCTCCC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTCTTTCTCTC
Found at i:72871 original size:14 final size:14
Alignment explanation
Indices: 72832--72877 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
72822 CTTTTGTTTT
*
72832 TTTTTTCTT-TCTC
1 TTTTTTCTTCTTTC
72845 TCTTTTTCTTTCTTTC
1 T-TTTTTC-TTCTTTC
72861 TTTTTTCTTCTTT-
1 TTTTTTCTTCTTTC
72874 TTTT
1 TTTT
72878 CTCCCTTCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 5 0.17
14 12 0.41
15 8 0.28
16 4 0.14
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTCTTCTTTC
Found at i:73660 original size:13 final size:13
Alignment explanation
Indices: 73642--73667 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73632 TACAGCAAGT
73642 ATGTATCGATACA
1 ATGTATCGATACA
73655 ATGTATCGATACA
1 ATGTATCGATACA
73668 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:75917 original size:21 final size:21
Alignment explanation
Indices: 75884--75928 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
75874 TTGCAAGTTG
*
75884 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
75906 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
75926 AAA
1 AAA
75929 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:77751 original size:15 final size:15
Alignment explanation
Indices: 77731--77761 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
77721 TAAAAATGTC
*
77731 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
77746 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
77761 C
1 C
77762 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:79860 original size:14 final size:14
Alignment explanation
Indices: 79841--79867 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
79831 ACATTTTTCT
79841 TTGTATCGATACAA
1 TTGTATCGATACAA
79855 TTGTATCGATACA
1 TTGTATCGATACA
79868 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (14 bp):
TTGTATCGATACAA
Found at i:80034 original size:21 final size:20
Alignment explanation
Indices: 79988--80032 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
79978 AAATCTTTTG
*
79988 CAAAGTACTTGTTTTTCACTT
1 CAAATTACTTGTTTTTCAC-T
80009 CAAATTACTTCGTTTTTCA-T
1 CAAATTACTT-GTTTTTCACT
80029 CAAA
1 CAAA
80033 ATCAGCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (20 bp):
CAAATTACTTGTTTTTCACT
Found at i:83408 original size:8 final size:8
Alignment explanation
Indices: 83397--83431 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
83387 GCTTTTATCA
83397 TTTTTTA-
1 TTTTTTAT
83404 TTTTTTAT
1 TTTTTTAT
83412 TTTTTTAT
1 TTTTTTAT
*
83420 GTTTTTAT
1 TTTTTTAT
83428 TTTT
1 TTTT
83432 AATTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (8 bp):
TTTTTTAT
Found at i:83416 original size:16 final size:16
Alignment explanation
Indices: 83397--83431 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
83387 GCTTTTATCA
83397 TTTTTTAT-TTTTTAT
1 TTTTTTATGTTTTTAT
83412 TTTTTTATGTTTTTAT
1 TTTTTTATGTTTTTAT
83428 TTTT
1 TTTT
83432 AATTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTTTTATGTTTTTAT
Found at i:84917 original size:2 final size:2
Alignment explanation
Indices: 84906--84938 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
84896 TCGATTACAG
84906 AT AT -T 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
84939 CTCTTTGCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:87904 original size:26 final size:26
Alignment explanation
Indices: 87868--87920 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
87858 AAACTAAAGA
87868 AAATCATTACAGATTTGGAA-TCAATT
1 AAATCATTACAGATTT-GAAGTCAATT
*
87894 AAATCATTACATATTTGAAGTCAATT
1 AAATCATTACAGATTTGAAGTCAATT
87920 A
1 A
87921 CATATGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (26 bp):
AAATCATTACAGATTTGAAGTCAATT
Found at i:88358 original size:31 final size:31
Alignment explanation
Indices: 88314--88405 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 31
88304 CAGTTATTAG
* *
88314 CAACAGAACTTTTCATAGTAAATGATTAT-A
1 CAACAGAATTTTTCATAGTAAATAATTATAA
* * * *
88344 CTGACGGAATTTTTCAAAGTAAATTATTATTAA
1 C-AACAGAATTTTTCATAGTAAATAATTA-TAA
*
88377 CAACATAATTTTTCATAGTAAATAATTAT
1 CAACAGAATTTTTCATAGTAAATAATTAT
88406 TAGTGATGGA
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
30 1 0.02
31 23 0.47
32 23 0.47
33 2 0.04
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (31 bp):
CAACAGAATTTTTCATAGTAAATAATTATAA
Found at i:88397 original size:32 final size:32
Alignment explanation
Indices: 88307--88407 Score: 107
Period size: 32 Copynumber: 3.2 Consensus size: 32
88297 GAATGAACAG
* * *
88307 TTATTAGCAACAGAACTTTTCATAGTAAATGA
1 TTATTAACAACAGAATTTTTCATAGTAAATAA
* * * *
88339 TTA-T-ACTGACGGAATTTTTCAAAGTAAATTA
1 TTATTAAC-AACAGAATTTTTCATAGTAAATAA
*
88370 TTATTAACAACATAATTTTTCATAGTAAATAA
1 TTATTAACAACAGAATTTTTCATAGTAAATAA
88402 TTATTA
1 TTATTA
88408 GTGATGGATT
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
30 1 0.02
31 23 0.42
32 29 0.53
33 2 0.04
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (32 bp):
TTATTAACAACAGAATTTTTCATAGTAAATAA
Found at i:88964 original size:16 final size:17
Alignment explanation
Indices: 88906--88972 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 17
88896 AATTAAAATG
*
88906 CAATTATAGTAATTATAAA
1 CAATTATA-T-ATAATAAA
*
88925 CAATTATTTCATAATATTAA
1 CAATTATAT-ATAATA--AA
88945 CAATTATAT-TAATAAA
1 CAATTATATATAATAAA
88961 CAATTATA-ATAA
1 CAATTATATATAA
88973 AATTAGATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
16 13 0.32
18 11 0.27
19 7 0.17
20 10 0.24
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.39
Consensus pattern (17 bp):
CAATTATATATAATAAA
Found at i:89842 original size:14 final size:13
Alignment explanation
Indices: 89819--89853 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
89809 GAAAATATGA
89819 TTTTTTACAGATT
1 TTTTTTACAGATT
89832 TTTTCTTACAGATT
1 TTTT-TTACAGATT
89846 TTATTTTA
1 TT-TTTTA
89854 AAATGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 14 0.70
15 2 0.10
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.63
Consensus pattern (13 bp):
TTTTTTACAGATT
Found at i:90218 original size:27 final size:27
Alignment explanation
Indices: 90159--90217 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
90149 AGAATTATTT
* *
90159 TCTTTTATTTTAAAATCATCTGCCACA
1 TCTTTTATTTTAAAATCATCCGACACA
*
90186 TCTTTTATTTTATAATCATCCGACA-A
1 TCTTTTATTTTAAAATCATCCGACACA
90212 TCTTTT
1 TCTTTT
90218 TTATAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.27, C:0.20, G:0.03, T:0.49
Consensus pattern (27 bp):
TCTTTTATTTTAAAATCATCCGACACA
Found at i:95048 original size:16 final size:17
Alignment explanation
Indices: 95017--95055 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
95007 CAAATAAATT
*
95017 ATTTAATTCTTTAATAA
1 ATTTAATTCATTAATAA
95034 ATTTAA-TCATTAATAA
1 ATTTAATTCATTAATAA
*
95050 TTTTAA
1 ATTTAA
95056 AAATTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAATTCATTAATAA
Found at i:99806 original size:21 final size:22
Alignment explanation
Indices: 99782--99822 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
99772 ATTTTAAAAT
99782 ATTAATA-ATTTTATTATATAA
1 ATTAATATATTTTATTATATAA
*
99803 ATTAATATTTTTTATTATAT
1 ATTAATATATTTTATTATAT
99823 TTATATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTAATATATTTTATTATATAA
Found at i:99831 original size:11 final size:11
Alignment explanation
Indices: 99815--99882 Score: 57
Period size: 11 Copynumber: 6.2 Consensus size: 11
99805 TAATATTTTT
99815 TATTATATTTA
1 TATTATATTTA
* *
99826 TATTATTTTTT
1 TATTATATTTA
*
99837 TATTTTATTT-
1 TATTATATTTA
*
99847 TATTTTATATTA
1 TATTATAT-TTA
*
99859 TATTATAATTA
1 TATTATATTTA
* *
99870 TCTTTTATTTA
1 TATTATATTTA
99881 TA
1 TA
99883 AGTGTCGTGA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
10 8 0.18
11 31 0.69
12 6 0.13
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (11 bp):
TATTATATTTA
Found at i:99835 original size:22 final size:21
Alignment explanation
Indices: 99810--99850 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
99800 TAAATTAATA
99810 TTTTTTATTATATTTATATTAT
1 TTTTTTATTATATTT-TATTAT
*
99832 TTTTTTATTTTATTTTATT
1 TTTTTTATTATATTTTATT
99851 TTATATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTATTATATTTTATTAT
Found at i:99849 original size:10 final size:10
Alignment explanation
Indices: 99812--99864 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
99802 AATTAATATT
*
99812 TTTTATTATA
1 TTTTATTTTA
*
99822 TTTATATTATTT
1 TTT-TATT-TTA
99834 TTTTATTTTA
1 TTTTATTTTA
99844 TTTTATTTTA
1 TTTTATTTTA
* *
99854 TATTATATTA
1 TTTTATTTTA
99864 T
1 T
99865 AATTATCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 24 0.67
11 8 0.22
12 4 0.11
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:99875 original size:28 final size:28
Alignment explanation
Indices: 99817--99879 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
99807 ATATTTTTTA
* * * *
99817 TTATATTTATATTATTTTTTTATTTTATT
1 TTAT-TTTATATTATATTATAATTATATT
*
99846 TTATTTTATATTATATTATAATTATCTT
1 TTATTTTATATTATATTATAATTATATT
99874 TTATTT
1 TTATTT
99880 ATAAGTGTCG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (28 bp):
TTATTTTATATTATATTATAATTATATT
Found at i:99876 original size:33 final size:32
Alignment explanation
Indices: 99812--99879 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
99802 AATTAATATT
** *
99812 TTTTATTATATTTATATTATTTTTTTATTTTA
1 TTTTATTATATTTATATTATAATTATATTTTA
* *
99844 TTTTATTTTATATTATATTATAATTATCTTTTA
1 TTTTATTATAT-TTATATTATAATTATATTTTA
99877 TTT
1 TTT
99880 ATAAGTGTCG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 10 0.33
33 20 0.67
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (32 bp):
TTTTATTATATTTATATTATAATTATATTTTA
Found at i:103201 original size:51 final size:52
Alignment explanation
Indices: 103086--103206 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 52
103076 TTGAAAATAA
* * * * *
103086 CGGGGTTGGAGTATCCCCGGTTGTGAAAAAATTAGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTTAGAAATAAAAC
* * * * *
103138 CGAGGTTGGAGTATCCCCGATTATG-AGAAATCAATATTTTGGGAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTTAGAAATAAAAC
103189 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
103207 TCGGAGGTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
51 36 0.62
52 22 0.38
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAAATCAATATTTTAGAAATAAAAC
Found at i:103246 original size:28 final size:28
Alignment explanation
Indices: 103189--103265 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
103179 GGAATAAAGC
*** **
103189 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAGACAA
103217 CGGGGTTGGAGTATCCCCGATGAGACAA
1 CGGGGTTGGAGTATCCCCGATGAGACAA
* *
103245 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
103266 TATGAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAGACAA
Found at i:103327 original size:52 final size:51
Alignment explanation
Indices: 103249--103369 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
103239 AGACAACGAG
* *
103249 GTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCTCGATTATGAAAAATTAGTG-TTTTGAAAATAAAATCGGA
103301 GTTGGAGTAT-CTCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCT-CGATTATGA-AAAATTAGTGTTTTGAAAATAAAATCGGA
*
103352 G-TGAGAATATCCTCGATT
1 GTTG-GAGTATCCTCGATT
103370 GCGGAGAATT
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
50 2 0.03
51 32 0.52
52 28 0.45
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (51 bp):
GTTGGAGTATCCTCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:103344 original size:159 final size:159
Alignment explanation
Indices: 103055--103345 Score: 374
Period size: 159 Copynumber: 1.8 Consensus size: 159
103045 TTGGAGATAA
* * * * *
103055 TAACGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAAATTA
1 TAACGGGGTTGGAGTATCCCCATGAAAACAACGAGGTTGGAGTATCCCCGATTATGAAAAAATTA
**
103120 GTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGGAATA
66 GTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGAAAATA
103185 AAGCCGGGGTTGGAGTATCCCCTCGGAGG
131 AAGCCGGGGTTGGAGTATCCCCTCGGAGG
* *
103214 TAACGGGGTTGGAGTATCCCCGATG-AGACAACGAGGTTGGAGTATCCTCGATTATG-AAAAATT
1 TAACGGGGTTGGAGTATCCCC-ATGAAAACAACGAGGTTGGAGTATCCCCGATTATGAAAAAATT
* * * * * * *
103277 GGTGTTTTTGGAAATAAAATCG-GAGTTGGAGTATCTCCGATTAT-AGAAAATTAGTGTTTTGAA
65 AGTG-TTTTAGAAATAAAACCGAG-GTTGGAGTATCCCCGATTATGAG-AAATCAATATTTTGAA
103340 AATAAA
127 AATAAA
103346 ATCGGAGTGA
Statistics
Matches: 112, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
158 13 0.12
159 97 0.87
160 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (159 bp):
TAACGGGGTTGGAGTATCCCCATGAAAACAACGAGGTTGGAGTATCCCCGATTATGAAAAAATTA
GTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGAAAATA
AAGCCGGGGTTGGAGTATCCCCTCGGAGG
Found at i:105887 original size:21 final size:20
Alignment explanation
Indices: 105861--105937 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 20
105851 GTTGGGACCT
* *
105861 TGTATCGATGCATTTGTATAA
1 TGTATCGATACA-TTCTATAA
*
105882 TGTATCGATACATTCCATAAA
1 TGTATCGATACATTCTAT-AA
*
105903 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTA-TAA
105924 TGTATCGATACATT
1 TGTATCGATACATT
105938 TGGATAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 4 0.08
21 45 0.92
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCTATAA
Found at i:107013 original size:198 final size:198
Alignment explanation
Indices: 106664--107056 Score: 574
Period size: 198 Copynumber: 2.0 Consensus size: 198
106654 GGTTATTGCA
* * * *
106664 TGAGGAGAGATGGATTTGAGTTATGTATTGGTAAAGGAGGAAGTGTTTGAAGGTGTTTTTTCTCT
1 TGAGGAGAGATGGATTGGAGCTATGTATTGGCAAAGGAGGAAGTGTTTGAAGGTGTTTTTTCTCG
** * *
106729 AAAGTGTTGAAGAGCTATGGGAATTGATTTTTCTTGAGTGTTTTGTGTTGATGCTTTTGGCTGAG
66 AAAGTGTTGAAGAGCTACAGGAATTGATTTTTCTTAAGTGTTTTATGTTGATGCTTTTGGCTGAG
* * *
106794 ATATGGTTAGTACTATGGCTGAAAATATAGCTCGAAAAGTTCAAATTTAACTGGATGTATTGATA
131 ATATGGCTACTACTATGGCTGAAAATATAGATCGAAAAGTTCAAATTTAACTGGATGTATTGATA
106859 CAT
196 CAT
* * *
106862 TGAGGAGAGATGGATTGGAGCTATGTATTGGCAAATGATGAAGTGTTT-AGAGTTGTTTTTT-TC
1 TGAGGAGAGATGGATTGGAGCTATGTATTGGCAAAGGAGGAAGTGTTTGA-AGGTGTTTTTTCTC
* *
106925 GAGAGGTGTTGAAGAGCTACAGGAATTGATTTTTCTTAAGTGTTTTATGTTGATGCTTTTGGTTG
65 GA-AAGTGTTGAAGAGCTACAGGAATTGATTTTTCTTAAGTGTTTTATGTTGATGCTTTTGGCTG
* * **
106990 AGATATGGCTACTACTGTGGCTGAAAATATGGATCGAAATTTTCAAATTTAACTGGATGTATTGA
129 AGATATGGCTACTACTATGGCTGAAAATATAGATCGAAAAGTTCAAATTTAACTGGATGTATTGA
107055 TA
194 TA
107057 TATTAAAGAA
Statistics
Matches: 173, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
197 4 0.02
198 169 0.98
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.38
Consensus pattern (198 bp):
TGAGGAGAGATGGATTGGAGCTATGTATTGGCAAAGGAGGAAGTGTTTGAAGGTGTTTTTTCTCG
AAAGTGTTGAAGAGCTACAGGAATTGATTTTTCTTAAGTGTTTTATGTTGATGCTTTTGGCTGAG
ATATGGCTACTACTATGGCTGAAAATATAGATCGAAAAGTTCAAATTTAACTGGATGTATTGATA
CAT
Found at i:107196 original size:20 final size:21
Alignment explanation
Indices: 107171--107219 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
107161 CAAGATCCAA
*
107171 TATCGATACATTCACTT-ATG
1 TATCGATACATTAACTTGATG
*
107191 TATCGATACATTAACTTGTTG
1 TATCGATACATTAACTTGATG
107212 TATCGATA
1 TATCGATA
107220 TAAATTATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (21 bp):
TATCGATACATTAACTTGATG
Found at i:107786 original size:23 final size:24
Alignment explanation
Indices: 107758--107807 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
107748 AACATATTTT
107758 TAATATT--TATATAAAATAAAAAA
1 TAATATTAGTATAT-AAATAAAAAA
*
107781 TAATATTAGTATATAATTAAAAAA
1 TAATATTAGTATATAAATAAAAAA
107805 TAA
1 TAA
107808 ACGAGTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 7 0.29
24 12 0.50
25 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
TAATATTAGTATATAAATAAAAAA
Found at i:115142 original size:3 final size:3
Alignment explanation
Indices: 115134--115173 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
115124 TTTGTGTTTC
115134 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
115174 AAACTGGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:120819 original size:27 final size:26
Alignment explanation
Indices: 120780--120835 Score: 60
Period size: 25 Copynumber: 2.1 Consensus size: 26
120770 TTTTTTAATT
*
120780 AAATTAATGTCAATTTATTTATAATATTA
1 AAATTAA-GTCAA-ATATTT-TAATATTA
*
120809 AAATTAA-TCAAATATTTTATTATTA
1 AAATTAAGTCAAATATTTTAATATTA
120834 AA
1 AA
120836 TAAATTAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 9 0.36
26 5 0.20
27 4 0.16
29 7 0.28
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (26 bp):
AAATTAAGTCAAATATTTTAATATTA
Found at i:121071 original size:2 final size:2
Alignment explanation
Indices: 121064--121094 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
121054 ATGGTATTTG
121064 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
121095 AACATTCGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:121399 original size:5 final size:5
Alignment explanation
Indices: 121389--121420 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
121379 AATCATATTT
*
121389 TTTTA TTTTA TTTTA TTTTA TTTTA TCTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
121421 ATCCACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:121725 original size:13 final size:14
Alignment explanation
Indices: 121678--121754 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 14
121668 TAAATTTTAA
121678 ATTATTTATAATTTT
1 ATTATTTAT-ATTTT
*
121693 A-TATTTAAATTTT
1 ATTATTTATATTTT
* *
121706 GTAATTT-TATTTT
1 ATTATTTATATTTT
* *
121719 ATTATTTTTA-CTT
1 ATTATTTATATTTT
121732 ATTATTTATATTTCTT
1 ATTATTTATA-TT-TT
121748 ATTATTT
1 ATTATTT
121755 TTAAATTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
13 26 0.54
14 12 0.25
15 1 0.02
16 9 0.19
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.68
Consensus pattern (14 bp):
ATTATTTATATTTT
Found at i:121725 original size:21 final size:20
Alignment explanation
Indices: 121678--121743 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
121668 TAAATTTTAA
*
121678 ATTATTTATAATTTTATATTT
1 ATTATTTTTAATTTTAT-TTT
*
121699 A-AATTTTGTAATTTTATTTT
1 ATTATTTT-TAATTTTATTTT
*
121719 ATTATTTTTACTTATTATTTAT
1 ATTATTTTTAATT-TTATTT-T
121741 ATT
1 ATT
121744 TCTTATTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
20 12 0.32
21 21 0.57
22 4 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTATTTTTAATTTTATTTT
Found at i:122293 original size:31 final size:32
Alignment explanation
Indices: 122248--122311 Score: 96
Period size: 31 Copynumber: 2.0 Consensus size: 32
122238 ATAATGTAGT
*
122248 ATTAAAATTAATTAAATTTTATAT-AATATAA
1 ATTAAAATTAATTAAAATTTATATAAATATAA
122279 ATTAATAATT-ATTAAAATTTATATAAATATAA
1 ATTAA-AATTAATTAAAATTTATATAAATATAA
122311 A
1 A
122312 ATATCTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 18 0.60
32 12 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
ATTAAAATTAATTAAAATTTATATAAATATAA
Found at i:124352 original size:16 final size:18
Alignment explanation
Indices: 124333--124368 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
124323 AATTTAATTA
124333 TAATAT-TTTTT-ATTTT
1 TAATATGTTTTTAATTTT
124349 TAATATGTTTTTAATTTT
1 TAATATGTTTTTAATTTT
124367 TA
1 TA
124369 TTTAAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TAATATGTTTTTAATTTT
Found at i:124648 original size:27 final size:26
Alignment explanation
Indices: 124588--124653 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
124578 AATTTAAGTA
* *
124588 AATTAAAAATATCTAATTATTTATTT
1 AATTAAAAATATCTAATTATTAATAT
124614 AATATAAAAATATC-AATTATTAAATAT
1 AAT-TAAAAATATCTAATTATT-AATAT
124641 ACATTAAAAATAT
1 A-ATTAAAAATAT
124654 ATTCTCAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 10 0.29
27 23 0.66
28 2 0.06
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (26 bp):
AATTAAAAATATCTAATTATTAATAT
Found at i:128337 original size:68 final size:67
Alignment explanation
Indices: 128231--128447 Score: 274
Period size: 68 Copynumber: 3.2 Consensus size: 67
128221 TCGCTTAGTG
* *
128231 TTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGATAGTTTGCCAT
1 TTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGATAGCTTGCCAT
*
128296 TG
66 TA
* * * * ** *
128298 TTGACTAAATGAGAGATTTGGTAGCTTATCATTGTTGATTAAATGAGAAATTTGATAGCTTACCA
1 TTGATTAAATG-GTGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGATAGCTTGCCA
128363 TTA
65 TTA
* * * *
128366 TTGATTAAATGTGTGATTTGGTGGCTTACCATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCC
1 TTGATTAAATG-GTGATTTGGTAGCTTACCATTGTTGATTAAATGGGT-GATTTGATAGCTTGCC
128430 ATTA
64 ATTA
128434 TTGATTAAATGGTG
1 TTGATTAAATGGTG
128448 GTTTTTACCA
Statistics
Matches: 126, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
67 14 0.11
68 112 0.89
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.41
Consensus pattern (67 bp):
TTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGATAGCTTGCCAT
TA
Found at i:128421 original size:102 final size:101
Alignment explanation
Indices: 128229--128445 Score: 283
Period size: 102 Copynumber: 2.1 Consensus size: 101
128219 ACTCGCTTAG
** * * * * *
128229 TGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGATAGTTTGCC
1 TGTTGATTAAATGGAAATTTGATAGCTTACCATTATTGATTAAATGGGTGATTTGATAGCTTACC
*
128294 ATTGTTGACTAAATGAGAGATTTGGTAGCTTATCAT
66 ATTGTTGACTAAATGAGAGATTTGGTAGCTTACCAT
* * *
128330 TGTTGATTAAATGAGAAATTTGATAGCTTACCATTATTGATTAAATGTGTGATTTGGTGGCTTAC
1 TGTTGATTAAATG-GAAATTTGATAGCTTACCATTATTGATTAAATGGGTGATTTGATAGCTTAC
* *
128395 CATTGTTGACTAAATG-GTAGATTTGGTAGGTTGCCAT
65 CATTGTTGACTAAATGAG-AGATTTGGTAGCTTACCAT
*
128432 TATTGATTAAATGG
1 TGTTGATTAAATGG
128446 TGGTTTTTAC
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
101 15 0.15
102 85 0.85
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.41
Consensus pattern (101 bp):
TGTTGATTAAATGGAAATTTGATAGCTTACCATTATTGATTAAATGGGTGATTTGATAGCTTACC
ATTGTTGACTAAATGAGAGATTTGGTAGCTTACCAT
Found at i:128446 original size:34 final size:33
Alignment explanation
Indices: 128229--128447 Score: 249
Period size: 34 Copynumber: 6.5 Consensus size: 33
128219 ACTCGCTTAG
*
128229 TGTTGATTAAATGGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCAT
* * *
128262 TGTTGATTAAATGGGTGATTTGATAGTTTGCCAT
1 TGTTGATTAAAT-GGTGATTTGGTAGCTTACCAT
* * *
128296 TGTTGACTAAATGAGAGATTTGGTAGCTTATCAT
1 TGTTGATTAAATG-GTGATTTGGTAGCTTACCAT
** *
128330 TGTTGATTAAATGAGAAATTTGATAGCTTACCAT
1 TGTTGATTAAATG-GTGATTTGGTAGCTTACCAT
* *
128364 TATTGATTAAATGTGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATG-GTGATTTGGTAGCTTACCAT
* * *
128398 TGTTGACTAAATGGTAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGT-GATTTGGTAGCTTACCAT
*
128432 TATTGATTAAATGGTG
1 TGTTGATTAAATGGTG
128448 GTTTTTACCA
Statistics
Matches: 158, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
33 16 0.10
34 142 0.90
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (33 bp):
TGTTGATTAAATGGTGATTTGGTAGCTTACCAT
Found at i:132912 original size:34 final size:33
Alignment explanation
Indices: 132854--133074 Score: 262
Period size: 34 Copynumber: 6.5 Consensus size: 33
132844 AAGTGGGAGA
* *
132854 ATTGTTTATTAAATGGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACC
* *
132887 ATTGTTGATTAAATGAGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATG-GTGATTTGGTAGCTTACC
* * *
132921 ATTGTTGACTAAATGGGAGATTTGGTAGCTTATC
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACC
** *
132955 ATTGTTGATTAAATGAGAAATTTAGTAGCTTACC
1 ATTGTTGATTAAATG-GTGATTTGGTAGCTTACC
* *
132989 ATTATTGATTAAATGTGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATG-GTGATTTGGTAGCTTACC
* * *
133023 ATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGT-GATTTGGTAGCTTACC
133057 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
133075 GTTTTTACCA
Statistics
Matches: 161, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
33 18 0.11
34 142 0.88
35 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.42
Consensus pattern (33 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACC
Found at i:133009 original size:102 final size:101
Alignment explanation
Indices: 132854--133072 Score: 321
Period size: 102 Copynumber: 2.2 Consensus size: 101
132844 AAGTGGGAGA
* ** * * * *
132854 ATTGTTTATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGAGTGATTTGGTGGTTTA
1 ATTGTTGATTAAATGGAAATTTAGTAGCTTACCATTATTGATTAAATGAGTGATTTGGTGGCTTA
*
132919 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTATC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
*
132955 ATTGTTGATTAAATGAGAAATTTAGTAGCTTACCATTATTGATTAAATGTGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTAGTAGCTTACCATTATTGATTAAATGAGTGATTTGGTGGCTT
* * *
133020 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
133057 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
133073 TGGTTTTTAC
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 15 0.14
102 90 0.86
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.42
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTAGTAGCTTACCATTATTGATTAAATGAGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:137858 original size:12 final size:12
Alignment explanation
Indices: 137838--137886 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
137828 ATCTATTTAA
*
137838 TAATAATTTATT
1 TAATTATTTATT
137850 TAATTATTTA-T
1 TAATTATTTATT
*
137861 TAATTTATTTATA
1 TAA-TTATTTATT
*
137874 TAATTATATATT
1 TAATTATTTATT
137886 T
1 T
137887 TATTTTATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 4 0.13
12 24 0.77
13 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TAATTATTTATT
Found at i:137880 original size:20 final size:21
Alignment explanation
Indices: 137840--137891 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
137830 CTATTTAATA
*
137840 ATAATTTATTTAATTATTTAT
1 ATAATTTATTTAATTAATTAT
137861 -TAATTTATTT-ATATAATTAT
1 ATAATTTATTTAAT-TAATTAT
*
137881 ATATTTTATTT
1 ATAATTTATTT
137892 TATGCTTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.07
20 16 0.59
21 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATAATTTATTTAATTAATTAT
Found at i:138516 original size:18 final size:18
Alignment explanation
Indices: 138481--138516 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
138471 TATATATCAT
* *
138481 TTTGAGAAGTTAATATGA
1 TTTGAGAAGTAAAAATGA
138499 TTTGAGAAGTAAAAATGA
1 TTTGAGAAGTAAAAATGA
138517 GTAAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (18 bp):
TTTGAGAAGTAAAAATGA
Found at i:139658 original size:21 final size:21
Alignment explanation
Indices: 139634--139679 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
139624 AAATATCATA
* * *
139634 ATATTCTATTAGTGTATCGAT
1 ATATTCTATCAATGTATCAAT
*
139655 ATATTTTATCAATGTATCAAT
1 ATATTCTATCAATGTATCAAT
139676 ATAT
1 ATAT
139680 GACTTTTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (21 bp):
ATATTCTATCAATGTATCAAT
Found at i:147167 original size:16 final size:16
Alignment explanation
Indices: 147128--147158 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
147118 TTCAGGTTCG
*
147128 AATATTTTTAGGTTTA
1 AATAATTTTAGGTTTA
147144 AATAATTTTAGGTTT
1 AATAATTTTAGGTTT
147159 TATTTATTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (16 bp):
AATAATTTTAGGTTTA
Found at i:148084 original size:20 final size:20
Alignment explanation
Indices: 148061--148098 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
148051 AAAGAATTTT
* *
148061 ATTATTATTAAACATATTAA
1 ATTATTAATAAAAATATTAA
148081 ATTATTAATAAAAATATT
1 ATTATTAATAAAAATATT
148099 TATTTGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTATTAATAAAAATATTAA
Found at i:148757 original size:20 final size:20
Alignment explanation
Indices: 148734--148772 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
148724 AAAAAACCTA
148734 AACATAAAAAGA-AAAATAAT
1 AACA-AAAAAGATAAAATAAT
*
148754 AACAAAAAATATAAAATAA
1 AACAAAAAAGATAAAATAA
148773 GGATCTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (20 bp):
AACAAAAAAGATAAAATAAT
Found at i:149041 original size:17 final size:18
Alignment explanation
Indices: 149019--149056 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
149009 ACATTTCAAG
*
149019 TCAGTA-TGTTCTTCTTT
1 TCAGTAGTGTACTTCTTT
*
149036 TCAGTAGTGTACTTTTTT
1 TCAGTAGTGTACTTCTTT
149054 TCA
1 TCA
149057 AACGATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.16, C:0.16, G:0.13, T:0.55
Consensus pattern (18 bp):
TCAGTAGTGTACTTCTTT
Found at i:152753 original size:3 final size:3
Alignment explanation
Indices: 152745--152784 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
152735 CGTGATTAAA
152745 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
152785 TGCAGCAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:153114 original size:18 final size:18
Alignment explanation
Indices: 153091--153129 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
153081 AATATAAATA
*
153091 TATATTTTTAATT-ATTAT
1 TATATTATT-ATTAATTAT
153109 TATATTATTATTAATTAT
1 TATATTATTATTAATTAT
153127 TAT
1 TAT
153130 TCAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATATTATTATTAATTAT
Found at i:153122 original size:21 final size:22
Alignment explanation
Indices: 153088--153147 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
153078 AAAAATATAA
*
153088 ATATATATTTTTAATTATTATT
1 ATATATATTATTAATTATTATT
153110 ATAT-TATTATTAATTATTATT
1 ATATATATTATTAATTATTATT
* *
153131 CA-AAATATTTTTAATTA
1 -ATATATATTATTAATTA
153148 CAAAATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATATATTATTAATTATTATT
Found at i:158322 original size:16 final size:16
Alignment explanation
Indices: 158298--158328 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
158288 AAAGGCTTTC
*
158298 AAAATTTTTAATAGAA
1 AAAAGTTTTAATAGAA
158314 AAAAGTTTTAATAGA
1 AAAAGTTTTAATAGA
158329 GGAAATGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (16 bp):
AAAAGTTTTAATAGAA
Found at i:162327 original size:13 final size:13
Alignment explanation
Indices: 162309--162367 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
162299 TATGGGACAA
162309 TGTATCGATACAT
1 TGTATCGATACAT
162322 TGTATCGATACA-
1 TGTATCGATACAT
* *
162334 TG----G-GACAA
1 TGTATCGATACAT
162342 TGTATCGATACAT
1 TGTATCGATACAT
162355 TGTATCGATACAT
1 TGTATCGATACAT
162368 GAACAATTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
12 3 0.08
13 28 0.76
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:162331 original size:33 final size:33
Alignment explanation
Indices: 162289--162388 Score: 166
Period size: 33 Copynumber: 3.0 Consensus size: 33
162279 CTAAGTCAAA
*
162289 TGTATCGATATATGGGACAATGTATCGATACAT
1 TGTATCGATACATGGGACAATGTATCGATACAT
162322 TGTATCGATACATGGGACAATGTATCGATACAT
1 TGTATCGATACATGGGACAATGTATCGATACAT
*
162355 TGTATCGATACAT-GAACAATTGTATCGATACAT
1 TGTATCGATACATGGGACAA-TGTATCGATACAT
162388 T
1 T
162389 ATGCCCAACG
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
32 5 0.08
33 59 0.92
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATGGGACAATGTATCGATACAT
Found at i:162347 original size:20 final size:20
Alignment explanation
Indices: 162287--162354 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
162277 CCCTAAGTCA
*
162287 AATGTATCGATATATGGGAC
1 AATGTATCGATACATGGGAC
162307 AATGTATCGATACAT-----
1 AATGTATCGATACATGGGAC
162322 --TGTATCGATACATGGGAC
1 AATGTATCGATACATGGGAC
162340 AATGTATCGATACAT
1 AATGTATCGATACAT
162355 TGTATCGATA
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 13 0.32
20 27 0.68
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATGGGAC
Found at i:163420 original size:16 final size:15
Alignment explanation
Indices: 163375--163420 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
163365 TGATTTATTT
163375 TTAAATATAAATAATA
1 TTAAA-ATAAATAATA
*
163391 -TAAAAT-ACTAATA
1 TTAAAATAAATAATA
163404 TTAAAATAAATATATA
1 TTAAAATAAATA-ATA
163420 T
1 T
163421 AATTGAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 6 0.24
14 8 0.32
15 7 0.28
16 4 0.16
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
TTAAAATAAATAATA
Found at i:163448 original size:24 final size:24
Alignment explanation
Indices: 163375--163448 Score: 60
Period size: 24 Copynumber: 2.9 Consensus size: 24
163365 TGATTTATTT
*
163375 TTAAATATAAATAATATAAAATACTAATA
1 TTAAA-ATAAAT-ATATAAAAT--TGA-A
*
163404 TTAAAATAAATATATATAATTGAA
1 TTAAAATAAATATATAAAATTGAA
*
163428 TTAAAGATAAATTTA-AAAATT
1 TTAAA-ATAAATATATAAAATT
163449 TTTTTAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 11 0.28
25 10 0.25
27 8 0.20
28 6 0.15
29 5 0.12
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.36
Consensus pattern (24 bp):
TTAAAATAAATATATAAAATTGAA
Found at i:163886 original size:19 final size:19
Alignment explanation
Indices: 163853--163893 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
163843 TTATTTATAA
163853 TAATTCATAAATAATTTAT
1 TAATTCATAAATAATTTAT
*
163872 TAATT-ATAAATTAATTTTT
1 TAATTCATAAA-TAATTTAT
163891 TAA
1 TAA
163894 AATATCTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATTCATAAATAATTTAT
Found at i:164694 original size:15 final size:15
Alignment explanation
Indices: 164676--164716 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
164666 CATATTTTAT
*
164676 TTTATTTTTTAAAAA
1 TTTAATTTTTAAAAA
*
164691 TTTAATTTTTAATAA
1 TTTAATTTTTAAAAA
164706 TTTAATATTTT
1 TTTAAT-TTTT
164717 TATTAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTAATTTTTAAAAA
Found at i:165771 original size:13 final size:13
Alignment explanation
Indices: 165753--165808 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
165743 ATAATATAGT
165753 TAAAAATGATATA
1 TAAAAATGATATA
*
165766 TAAAAAT-ATCT-
1 TAAAAATGATATA
* *
165777 TAATAACGTATATA
1 TAAAAATG-ATATA
*
165791 TAAAAATGATATT
1 TAAAAATGATATA
165804 TAAAA
1 TAAAA
165809 TTACCTTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
11 5 0.15
12 3 0.09
13 19 0.58
14 6 0.18
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (13 bp):
TAAAAATGATATA
Found at i:165773 original size:25 final size:26
Alignment explanation
Indices: 165745--165808 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
165735 TTAAAACAAT
* *
165745 AATATAGTTAAAAATG-ATATATAAA
1 AATATACTTAAAAACGTATATATAAA
*
165770 AATAT-CTTAATAACGTATATATAAA
1 AATATACTTAAAAACGTATATATAAA
*
165795 AATGATATTTAAAA
1 AAT-ATACTTAAAA
165809 TTACCTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 7 0.23
25 17 0.55
26 2 0.06
27 5 0.16
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (26 bp):
AATATACTTAAAAACGTATATATAAA
Found at i:167297 original size:26 final size:27
Alignment explanation
Indices: 167268--167337 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
167258 TAATTATGTG
167268 TTATTTTTATTTTTAATAA-TAATT-TT
1 TTATTTTTATTTTTAA-AACTAATTCTT
*
167294 TTATTTTTATATTTAAAACTAATTCTT
1 TTATTTTTATTTTTAAAACTAATTCTT
* *
167321 TTA-ATTTATTTTAAAAA
1 TTATTTTTATTTTTAAAA
167338 AAACTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 2 0.05
26 31 0.82
27 5 0.13
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (27 bp):
TTATTTTTATTTTTAAAACTAATTCTT
Found at i:167658 original size:19 final size:20
Alignment explanation
Indices: 167634--167682 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
167624 TATTTAAAAA
167634 ATATTAAAAATAT-TATTTT
1 ATATTAAAAATATATATTTT
*
167653 ATATTAATAATTATATATTTT
1 ATATTAA-AAATATATATTTT
167674 ATAATTAAA
1 AT-ATTAAA
167683 TTTAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 7 0.27
20 5 0.19
21 9 0.35
22 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTAAAAATATATATTTT
Found at i:168243 original size:19 final size:22
Alignment explanation
Indices: 168221--168263 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
168211 TTAATACAAA
168221 TTAAA-TT-TTTA-TATTTATT
1 TTAAATTTATTTATTATTTATT
168240 TTAAATTTATTTATTATTTATT
1 TTAAATTTATTTATTATTTATT
168262 TT
1 TT
168264 TATATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 2 0.10
21 4 0.19
22 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTAAATTTATTTATTATTTATT
Found at i:168356 original size:15 final size:16
Alignment explanation
Indices: 168332--168373 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
168322 TATATAATTT
*
168332 AATAAATTAAATC-TA
1 AATAATTTAAATCTTA
168347 AATAATTTAAA-CTTA
1 AATAATTTAAATCTTA
*
168362 AATAATTCAAAT
1 AATAATTTAAAT
168374 ATCAAATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATTTAAATCTTA
Found at i:168471 original size:16 final size:17
Alignment explanation
Indices: 168452--168496 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
168442 TATCGAATTA
*
168452 AAAATTATTTTAAC-TT
1 AAAATAATTTTAACTTT
*
168468 AAAATGA-TTTAACTTT
1 AAAATAATTTTAACTTT
168484 AAAATAATTTTAA
1 AAAATAATTTTAA
168497 AATTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.24
16 14 0.56
17 5 0.20
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAATAATTTTAACTTT
Found at i:169642 original size:71 final size:71
Alignment explanation
Indices: 169567--169700 Score: 250
Period size: 71 Copynumber: 1.9 Consensus size: 71
169557 AATTAAGGGT
*
169567 TATATATATATATATTAAAAAAATTTAAAAAATTATACCTCCATAAATATAATTAAAAATGCACA
1 TATATATATATATATTAAAAAAATTAAAAAAATTATACCTCCATAAATATAATTAAAAATGCACA
169632 TATATA
66 TATATA
*
169638 TATATATATATATATTAAAAAAATTAAAAAAATTATACCTTCATAAATATAATTAAAAATGCA
1 TATATATATATATATTAAAAAAATTAAAAAAATTATACCTCCATAAATATAATTAAAAATGCA
169701 TCACACACAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.35
Consensus pattern (71 bp):
TATATATATATATATTAAAAAAATTAAAAAAATTATACCTCCATAAATATAATTAAAAATGCACA
TATATA
Found at i:173436 original size:8 final size:8
Alignment explanation
Indices: 173423--173447 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
173413 AATGTATCTA
173423 CAATACAG
1 CAATACAG
173431 CAATACAG
1 CAATACAG
173439 CAATACAG
1 CAATACAG
173447 C
1 C
173448 TAAAGACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.28, G:0.12, T:0.12
Consensus pattern (8 bp):
CAATACAG
Found at i:175430 original size:16 final size:16
Alignment explanation
Indices: 175409--175440 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
175399 GTATATATAA
*
175409 TATAAATATTAAAATT
1 TATAAAAATTAAAATT
175425 TATAAAAATTAAAATT
1 TATAAAAATTAAAATT
175441 ATTCCTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAAAAATTAAAATT
Found at i:176243 original size:29 final size:31
Alignment explanation
Indices: 176181--176246 Score: 93
Period size: 29 Copynumber: 2.2 Consensus size: 31
176171 TATTATACCA
*
176181 AAATAAGTCTATAATCTTTTAATTTGTATCT
1 AAATAAGTCTATAATCTTTTAATTTATATCT
176212 AAATAAGTCT-TAAT-TTTTAATTTATAAT-T
1 AAATAAGTCTATAATCTTTTAATTTAT-ATCT
176241 AAATAA
1 AAATAA
176247 ATTACTAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 17 0.52
30 6 0.18
31 10 0.30
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (31 bp):
AAATAAGTCTATAATCTTTTAATTTATATCT
Found at i:177322 original size:28 final size:27
Alignment explanation
Indices: 177265--177328 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
177255 CACCCATTTG
*
177265 TTTATCAAAAATAGTGGTTATTTTGTA
1 TTTATCAAAAATAGTGGTTATTTTGGA
* *
177292 TTTGTCAAAAATGGTGGTT-TCCTTTGGA
1 TTTATCAAAAATAGTGGTTAT--TTTGGA
177320 TTTATCAAA
1 TTTATCAAA
177329 TATGAAGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 17 0.55
28 13 0.42
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (27 bp):
TTTATCAAAAATAGTGGTTATTTTGGA
Found at i:182589 original size:12 final size:12
Alignment explanation
Indices: 182572--182610 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
182562 TTCCCTTCAA
182572 CTTCTTCTTTAG
1 CTTCTTCTTTAG
*
182584 CTTCTTCTTTCG
1 CTTCTTCTTTAG
* *
182596 TTTCCTCTTTAG
1 CTTCTTCTTTAG
182608 CTT
1 CTT
182611 TTGCTTTAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.05, C:0.28, G:0.08, T:0.59
Consensus pattern (12 bp):
CTTCTTCTTTAG
Found at i:182774 original size:3 final size:3
Alignment explanation
Indices: 182766--182794 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
182756 TTAATTTTAT
182766 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
182795 TAGAACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:185508 original size:2 final size:2
Alignment explanation
Indices: 185501--185527 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
185491 CATATACCGT
185501 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 T
185528 TGAATAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:187001 original size:2 final size:2
Alignment explanation
Indices: 186994--187060 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
186984 ACGGGAATCA
*
186994 AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
187036 AT AT TT AC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
187061 ATGAAAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.