Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012778.1 Kokia drynarioides strain JFW-HI SEQ_127790, 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: 288136
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 306 characters in sequence are not A, C, G, or T
Found at i:703 original size:29 final size:29
Alignment explanation
Indices: 661--724 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
651 AGAAGTCCCA
*
661 AAACTTTCCTAAAATCACATTTTGAC-CTC
1 AAACTTTCCAAAAATCACATTTTGACAC-C
* *
690 AAACTTTCCAAAAATTATATTTTGACACC
1 AAACTTTCCAAAAATCACATTTTGACACC
719 AAACTT
1 AAACTT
725 CTTGAGAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.34
Consensus pattern (29 bp):
AAACTTTCCAAAAATCACATTTTGACACC
Found at i:3186 original size:22 final size:24
Alignment explanation
Indices: 3153--3198 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
3143 AAAAAAAATA
3153 TTAAATAATATAT-TTTA-TAATT
1 TTAAATAATATATATTTACTAATT
3175 TTAAA-AAGTATATATTTACTAATT
1 TTAAATAA-TATATATTTACTAATT
3199 AAATGAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.10
22 10 0.48
23 4 0.19
24 5 0.24
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TTAAATAATATATATTTACTAATT
Found at i:4152 original size:3 final size:3
Alignment explanation
Indices: 4133--4188 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
4123 TAAATATTTG
* * *
4133 ATT AAT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4181 ATT ATT AT
1 ATT ATT AT
4189 CACATAATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:11726 original size:30 final size:30
Alignment explanation
Indices: 11692--11754 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
11682 TAGTATTAAG
11692 ATAATTTGAAGACATATAAGTAATATATGA
1 ATAATTTGAAGACATATAAGTAATATATGA
**
11722 ATAATTTGAATTCATATAAGTAATATATGA
1 ATAATTTGAAGACATATAAGTAATATATGA
11752 ATA
1 ATA
11755 TGCTTGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (30 bp):
ATAATTTGAAGACATATAAGTAATATATGA
Found at i:14313 original size:2 final size:2
Alignment explanation
Indices: 14306--14339 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14296 CAAGTTCATT
14306 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14340 CTTGCAACAT
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):
TA
Found at i:15868 original size:117 final size:114
Alignment explanation
Indices: 15727--15964 Score: 300
Period size: 117 Copynumber: 2.1 Consensus size: 114
15717 ATTTGGGTTT
* *
15727 TTTTTCAACTAATGGTCGACACCCAAAAAAATACAAATAAAAAATATT-TTTTTTGATATTTGGC
1 TTTTTCAACTAATGGTCGACACCC-AAAAAACACAAATAAAAAATATTATTTTTTGATATTTGAC
* *
15791 AACCAATGGTCAACACCACCTTTCCCAACACTTGAGAAAAAAAAATTTCCCAC
65 AACCAATGGCCAACACCACCTTTACCAACA-TTG-GAAAAAAAAATTT-CCAC
* * * * * * *
15844 TTTTTCAACTAATGGTC-AGTACCCATAAAACGCGAATAAAAAATTTTATTTTTTGGTGTTTGAC
1 TTTTTCAACTAATGGTCGA-CACCCAAAAAACACAAATAAAAAATATTATTTTTTGATATTTGAC
* *
15908 AACCAATGGCCGACACCACCTTTACTAACATTGGAAAAAAAAATTTCCAC
65 AACCAATGGCCAACACCACCTTTACCAACATTGGAAAAAAAAATTTCCAC
15958 TTTTTCA
1 TTTTTCA
15965 TCCTTATTGA
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
114 11 0.10
115 13 0.12
116 22 0.21
117 60 0.57
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (114 bp):
TTTTTCAACTAATGGTCGACACCCAAAAAACACAAATAAAAAATATTATTTTTTGATATTTGACA
ACCAATGGCCAACACCACCTTTACCAACATTGGAAAAAAAAATTTCCAC
Found at i:18960 original size:6 final size:6
Alignment explanation
Indices: 18951--19257 Score: 82
Period size: 6 Copynumber: 55.3 Consensus size: 6
18941 GAAAGTAGAA
* *
18951 TGAAAT TG-AAT T-AAAT TGAAA- T-AAAA TGAAAT TTAAATT TG-AAT
1 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAA-T TGAAAT
* * * * *
18995 TAAAAT AT-AATT TGAACT T--AAT TTAAA- TGAAAT TGAAAT T-TAAT
1 TGAAAT -TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT
* * * * * *
19039 T-TAAT TTAAA- TGAAAT TTAAAT TTAAATT TG-AAT TAAAAT AT-AATT
1 TGAAAT TGAAAT TGAAAT TGAAAT TGAAA-T TGAAAT TGAAAT -TGAAAT
* * * * * *
19085 TGAACT T--AAT TTAAA- GGAAAT TGAAAT T-TAAT T-TAAT TTAAA-
1 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT
* * *
19127 TGAAAT TGGAAT TGGAAT TGGAAT T-AAAT TGAAA- TGAAA- TGAAAT
1 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT
* * * * *
19172 TTAAATT TG-AAT TAAAAT AT-AATT TGAACT T-AACT T-AAA- TGAAAT
1 TGAAA-T TGAAAT TGAAAT -TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT
* *
19217 TGAAAT TGAAAT T--AAT TTAAA- TGAAAT TGAAAT TGGAAT TG
1 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT TG
19258 GGATTTGTTA
Statistics
Matches: 235, Mismatches: 33, Indels: 66
0.70 0.10 0.20
Matches are distributed among these distances:
4 14 0.06
5 80 0.34
6 132 0.56
7 9 0.04
ACGTcount: A:0.49, C:0.01, G:0.11, T:0.39
Consensus pattern (6 bp):
TGAAAT
Found at i:18970 original size:16 final size:16
Alignment explanation
Indices: 18951--18998 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
18941 GAAAGTAGAA
18951 TGAAATTGAATTAAAT
1 TGAAATTGAATTAAAT
** *
18967 TGAAATAAAATGAAAT
1 TGAAATTGAATTAAAT
*
18983 TTAAATTTGAATTAAA
1 TGAAA-TTGAATTAAA
18999 ATATAATTTG
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.35
Consensus pattern (16 bp):
TGAAATTGAATTAAAT
Found at i:19008 original size:17 final size:17
Alignment explanation
Indices: 18986--19093 Score: 56
Period size: 17 Copynumber: 6.7 Consensus size: 17
18976 ATGAAATTTA
18986 AATTTGAATTAAAATAT
1 AATTTGAATTAAAATAT
*
19003 AATTTGAACTT--AATTT
1 AATTTGAA-TTAAAATAT
* * *
19019 AA-ATGAAATTGAAATTT
1 AATTTG-AATTAAAATAT
*
19036 AATTT-AATTTAAATGA-
1 AATTTGAATTAAAAT-AT
*
19052 AATTTAAATT----TA-
1 AATTTGAATTAAAATAT
19064 AATTTGAATTAAAATAT
1 AATTTGAATTAAAATAT
19081 AATTTGAACTTAA
1 AATTTGAA-TTAA
19094 TTTAAAGGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 25
0.70 0.06 0.24
Matches are distributed among these distances:
12 10 0.14
13 1 0.01
15 4 0.06
16 23 0.32
17 27 0.38
18 7 0.10
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (17 bp):
AATTTGAATTAAAATAT
Found at i:19073 original size:78 final size:78
Alignment explanation
Indices: 18951--19154 Score: 311
Period size: 78 Copynumber: 2.6 Consensus size: 78
18941 GAAAGTAGAA
* * * *
18951 TGAAATTGAATTAAATTGAAAT-AAAATGAAATTTAAATTTGAATTAAAATATAATTTGAACTTA
1 TGAAATTTAATTTAATTTAAATGAAATTGAAATTTAAATTTGAATTAAAATATAATTTGAACTTA
*
19015 ATTTAAATGAAAT
66 ATTTAAAGGAAAT
*
19028 TGAAATTTAATTTAATTTAAATGAAATTTAAATTTAAATTTGAATTAAAATATAATTTGAACTTA
1 TGAAATTTAATTTAATTTAAATGAAATTGAAATTTAAATTTGAATTAAAATATAATTTGAACTTA
19093 ATTTAAAGGAAAT
66 ATTTAAAGGAAAT
* ** *
19106 TGAAATTTAATTTAATTTAAATGAAATTGGAATTGGAATTGGAATTAAA
1 TGAAATTTAATTTAATTTAAATGAAATTGAAATTTAAATTTGAATTAAA
19155 TTGAAATGAA
Statistics
Matches: 115, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
77 19 0.17
78 96 0.83
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (78 bp):
TGAAATTTAATTTAATTTAAATGAAATTGAAATTTAAATTTGAATTAAAATATAATTTGAACTTA
ATTTAAAGGAAAT
Found at i:19075 original size:11 final size:11
Alignment explanation
Indices: 18959--19250 Score: 78
Period size: 11 Copynumber: 26.4 Consensus size: 11
18949 AATGAAATTG
*
18959 AATTAAATTGA
1 AATTAAATTTA
* *
18970 AA-TAAAATGA
1 AATTAAATTTA
*
18980 AATTTAAATTTG
1 AA-TTAAATTTA
*
18992 AATTAAAATATA
1 AATT-AAATTTA
* * *
19004 ATTTGAACTTA
1 AATTAAATTTA
* *
19015 ATTTAAA-TGA
1 AATTAAATTTA
19025 AATTGAAATTT-
1 AATT-AAATTTA
*
19036 AATTTAATTTA
1 AATTAAATTTA
*
19047 AATGAAATTTA
1 AATTAAATTTA
*
19058 AATTTAAATTTG
1 AA-TTAAATTTA
*
19070 AATTAAAATATA
1 AATT-AAATTTA
* * *
19082 ATTTGAACTTA
1 AATTAAATTTA
* **
19093 ATTTAAA-GGA
1 AATTAAATTTA
19103 AATTGAAATTT-
1 AATT-AAATTTA
*
19114 AATTTAATTTA
1 AATTAAATTTA
* **
19125 AATGAAATTGG
1 AATTAAATTTA
* **
19136 AATTGGAATTGG
1 AATT-AAATTTA
*
19148 AATTAAATTGA
1 AATTAAATTTA
* *
19159 AATGAAA-TGA
1 AATTAAATTTA
*
19169 AATTTAAATTTG
1 AA-TTAAATTTA
*
19181 AATTAAAATATA
1 AATT-AAATTTA
* * *
19193 ATTTGAACTTA
1 AATTAAATTTA
* *
19204 ACTTAAA-TGA
1 AATTAAATTTA
*
19214 AATTGAAATTGA
1 AATT-AAATTTA
19226 AATT-AATTTA
1 AATTAAATTTA
* *
19236 AATGAAATTGA
1 AATTAAATTTA
19247 AATT
1 AATT
19251 GGAATTGGGA
Statistics
Matches: 205, Mismatches: 58, Indels: 36
0.69 0.19 0.12
Matches are distributed among these distances:
10 46 0.22
11 98 0.48
12 61 0.30
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.39
Consensus pattern (11 bp):
AATTAAATTTA
Found at i:19117 original size:111 final size:110
Alignment explanation
Indices: 18992--19256 Score: 328
Period size: 111 Copynumber: 2.4 Consensus size: 110
18982 TTTAAATTTG
* * * * *
18992 AATTAAAATATAATTTGAACTTAATTTAAATGAAATTGAAATT-TAATTTAATTTAAATGAAATT
1 AATTGAAAT-TAATTTGAAATTAATTTAAATGAAATTGAAATTGGAATTAAATTGAAATGAAA-T
* *
19056 TAAATTTAAATTTGAATTAAAATATAATTTGAACTTAATTTAAAGGA
64 GAAATTTAAATTTGAATTAAAATATAATTTGAACTTAACTTAAAGGA
* * * * *
19103 AATTGAAATTTAATTT-AATTTAAATGAAATTGGAATTGGAATTGGAATTAAATTGAAATGAAAT
1 AATTGAAA-TTAATTTGAAATTAATTTAAA-TGAAATTGAAATTGGAATTAAATTGAAATGAAAT
*
19167 GAAATTTAAATTTGAATTAAAATATAATTTGAACTTAACTTAAATGA
64 GAAATTTAAATTTGAATTAAAATATAATTTGAACTTAACTTAAAGGA
19214 AATTG--A--AA-TTGAAATTAATTTAAATGAAATTGAAATTGGAATT
1 AATTGAAATTAATTTGAAATTAATTTAAATGAAATTGAAATTGGAATT
19257 GGGATTTGTT
Statistics
Matches: 133, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
105 19 0.14
106 12 0.09
109 1 0.01
110 10 0.08
111 74 0.56
112 17 0.13
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.39
Consensus pattern (110 bp):
AATTGAAATTAATTTGAAATTAATTTAAATGAAATTGAAATTGGAATTAAATTGAAATGAAATGA
AATTTAAATTTGAATTAAAATATAATTTGAACTTAACTTAAAGGA
Found at i:19257 original size:111 final size:112
Alignment explanation
Indices: 19022--19258 Score: 370
Period size: 111 Copynumber: 2.1 Consensus size: 112
19012 TTAATTTAAA
* * * * *
19022 TGAAATTGAAATT-TAATTTAATTTAAATGAAATTTAAATTTAAATTTGAATTAAAATATAATTT
1 TGAAATTGGAATTGGAATTAAATTGAAATGAAATTGAAATTTAAATTTGAATTAAAATATAATTT
* * *
19086 GAACTTAATTTAAAGGAAATTGAAATTTAATTTAATTTAAATGAAAT
66 GAACTTAACTTAAAGGAAATTGAAATTGAAATTAATTTAAATGAAAT
*
19133 TGGAATTGGAATTGGAATTAAATTGAAATGAAA-TGAAATTTAAATTTGAATTAAAATATAATTT
1 TGAAATTGGAATTGGAATTAAATTGAAATGAAATTGAAATTTAAATTTGAATTAAAATATAATTT
*
19197 GAACTTAACTTAAATGAAATTGAAATTGAAATTAATTTAAATGAAAT
66 GAACTTAACTTAAAGGAAATTGAAATTGAAATTAATTTAAATGAAAT
19244 TGAAATTGGAATTGG
1 TGAAATTGGAATTGG
19259 GATTTGTTAA
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
111 98 0.86
112 16 0.14
ACGTcount: A:0.48, C:0.01, G:0.12, T:0.39
Consensus pattern (112 bp):
TGAAATTGGAATTGGAATTAAATTGAAATGAAATTGAAATTTAAATTTGAATTAAAATATAATTT
GAACTTAACTTAAAGGAAATTGAAATTGAAATTAATTTAAATGAAAT
Found at i:19378 original size:20 final size:20
Alignment explanation
Indices: 19353--19408 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
19343 CTCTTGTGAG
* *
19353 ACTTCTACCGGTAGAACTCC
1 ACTTCTACCGATACAACTCC
19373 ACTTCTACCGATACAACTCC
1 ACTTCTACCGATACAACTCC
*
19393 ACTTCTACCGAAACAA
1 ACTTCTACCGATACAA
19409 GTCAAGTCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.36, G:0.09, T:0.23
Consensus pattern (20 bp):
ACTTCTACCGATACAACTCC
Found at i:23369 original size:6 final size:6
Alignment explanation
Indices: 23350--23537 Score: 56
Period size: 5 Copynumber: 33.8 Consensus size: 6
23340 ATTTGAGCTT
* * *
23350 AATTTA AATT-A AATTGA AA-TGA AA-TGA AATTTGA ATTTG- AATTAA
1 AATTGA AATTGA AATTGA AATTGA AATTGA AA-TTGA AATTGA AATTGA
* * * * * *
23395 AATAGA ATTTGA ACTT-- AATT-T AATT-T AATTGA AATT-- AATTTA
1 AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA
* *
23437 AA-TGA AATT-A ATATT-A GAATTGA AAATGA AA-TGA AA-TGA AATTTA
1 AATTGA AATTGA A-ATTGA -AATTGA AATTGA AATTGA AATTGA AATTGA
* * * *
23482 AATTTGA ACTT-A AATT-A AA-TGA AAATGA AA-TGA ACTT-A ATTTGAA
1 AA-TTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTGA AATTG-A
23527 AATTGA AATTG
1 AATTGA AATTG
23538 GGTCTCGGCC
Statistics
Matches: 144, Mismatches: 19, Indels: 38
0.72 0.09 0.19
Matches are distributed among these distances:
4 8 0.06
5 61 0.42
6 60 0.42
7 15 0.10
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.37
Consensus pattern (6 bp):
AATTGA
Found at i:23387 original size:61 final size:60
Alignment explanation
Indices: 23295--23429 Score: 225
Period size: 61 Copynumber: 2.2 Consensus size: 60
23285 GAGCTAATAG
* *
23295 AATTAAATTGAAATGAAATGAAATTTAAATTTGAATTAAAATATAATTTGAGCTTAATTT
1 AATTAAATTGAAATGAAATGAAATTTAAATTTGAATTAAAATAGAATTTGAACTTAATTT
*
23355 AAATTAAATTGAAATGAAATGAAATTTGAATTTGAATTAAAATAGAATTTGAACTTAATTT
1 -AATTAAATTGAAATGAAATGAAATTTAAATTTGAATTAAAATAGAATTTGAACTTAATTT
*
23416 AATTTAATTGAAAT
1 AATTAAATTGAAAT
23430 TAATTTAAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
60 13 0.19
61 57 0.81
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (60 bp):
AATTAAATTGAAATGAAATGAAATTTAAATTTGAATTAAAATAGAATTTGAACTTAATTT
Found at i:23390 original size:23 final size:23
Alignment explanation
Indices: 23363--23407 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23353 TTAAATTAAA
*
23363 TTGAAATGAAAT-GAAATTTGAAT
1 TTGAAATAAAATAG-AATTTGAAT
*
23386 TTGAATTAAAATAGAATTTGAA
1 TTGAAATAAAATAGAATTTGAA
23408 CTTAATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.36
Consensus pattern (23 bp):
TTGAAATAAAATAGAATTTGAAT
Found at i:23477 original size:34 final size:33
Alignment explanation
Indices: 23436--23512 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
23426 AAATTAATTT
23436 AAATGAAATTAATATTAGAA-TTGAAAATGAAATG-
1 AAATGAAATTAA-ATTAGAACTT--AAATGAAATGA
* *
23470 AAATGAAATTTAAATTTGAACTTAAATTAAATGA
1 AAATGAAA-TTAAATTAGAACTTAAATGAAATGA
23504 AAATGAAAT
1 AAATGAAAT
23513 GAACTTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
33 10 0.26
34 22 0.58
35 6 0.16
ACGTcount: A:0.56, C:0.01, G:0.12, T:0.31
Consensus pattern (33 bp):
AAATGAAATTAAATTAGAACTTAAATGAAATGA
Found at i:23526 original size:99 final size:95
Alignment explanation
Indices: 23348--23527 Score: 211
Period size: 99 Copynumber: 1.8 Consensus size: 95
23338 TAATTTGAGC
* * * *
23348 TTAATTTAAATTAAATTGAAATGAAATGAAATTTGAATTTGAATTAAAATAGAATTTGAACTTAA
1 TTAATTTAAATTAAAATGAAATGAAATGAAATTTAAATTTGAATTAAAATAGAA-TTGAAATGAA
* * *
23413 TTTAATTTAATTGAAATTAATTTAAATGAAA
65 ATGAACTTAATTGAAATTAATTTAAATGAAA
*
23444 TTAATATTAGAATTGAAAATGAAATGAAATGAAATTTAAATTTGAACTTAAATTA-AA-TGAAAA
1 TTAAT-TTA-AATT-AAAATGAAATGAAATGAAATTTAAATTTGAA-TTAAAATAGAATTG-AAA
23507 TGAAATGAACTTAATTTGAAA
61 TGAAATGAACTTAA-TTGAAA
23528 ATTGAAATTG
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
96 5 0.07
97 5 0.07
98 16 0.23
99 37 0.53
100 7 0.10
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.37
Consensus pattern (95 bp):
TTAATTTAAATTAAAATGAAATGAAATGAAATTTAAATTTGAATTAAAATAGAATTGAAATGAAA
TGAACTTAATTGAAATTAATTTAAATGAAA
Found at i:23858 original size:21 final size:21
Alignment explanation
Indices: 23794--23858 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
23784 TTAATATTTT
**
23794 TAATTTTAAAAACGATTTAAA
1 TAATTTTAAAAATAATTTAAA
* **
23815 TAA-TAT-AAAATAATATT-TC
1 TAATTTTAAAAATAAT-TTAAA
23834 TAATTTTAAAAATAATTTAAA
1 TAATTTTAAAAATAATTTAAA
23855 TAAT
1 TAAT
23859 AGTTTTCAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
19 9 0.28
20 8 0.25
21 15 0.47
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (21 bp):
TAATTTTAAAAATAATTTAAA
Found at i:23873 original size:31 final size:31
Alignment explanation
Indices: 23812--23874 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
23802 AAAACGATTT
*
23812 AAATAATATAAAATAATATTTCTAATTTTAA
1 AAATAATATAAAATAATATTTCTAAATTTAA
*
23843 AAATAAT-TTAAATAATAGTTT-TCAAATTTAA
1 AAATAATATAAAATAATA-TTTCT-AAATTTAA
23874 A
1 A
23875 TGAAATTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (31 bp):
AAATAATATAAAATAATATTTCTAAATTTAA
Found at i:46604 original size:31 final size:31
Alignment explanation
Indices: 46562--46633 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
46552 GCGCCATTCC
* *
46562 TAGGCCATGTGCGCCACATGCCCTAGACAAT
1 TAGGCCGTGTGCGCCACACGCCCTAGACAAT
*
46593 TAGGCCGTGTGCGCCACACGCCCTAGACACT
1 TAGGCCGTGTGCGCCACACGCCCTAGACAAT
46624 TAGGCCGTGT
1 TAGGCCGTGT
46634 AGCCCTTACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.19
Consensus pattern (31 bp):
TAGGCCGTGTGCGCCACACGCCCTAGACAAT
Found at i:68866 original size:75 final size:75
Alignment explanation
Indices: 68781--68932 Score: 304
Period size: 75 Copynumber: 2.0 Consensus size: 75
68771 TTTTAGATTA
68781 AAAGAGTAAGTAAAGTCTTATATTACTATTCATTTCCATCTTTTTACCTGAGCAAAGATTCCCAA
1 AAAGAGTAAGTAAAGTCTTATATTACTATTCATTTCCATCTTTTTACCTGAGCAAAGATTCCCAA
68846 TTATAATTTT
66 TTATAATTTT
68856 AAAGAGTAAGTAAAGTCTTATATTACTATTCATTTCCATCTTTTTACCTGAGCAAAGATTCCCAA
1 AAAGAGTAAGTAAAGTCTTATATTACTATTCATTTCCATCTTTTTACCTGAGCAAAGATTCCCAA
68921 TTATAATTTT
66 TTATAATTTT
68931 AA
1 AA
68933 GAAAAAAGAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (75 bp):
AAAGAGTAAGTAAAGTCTTATATTACTATTCATTTCCATCTTTTTACCTGAGCAAAGATTCCCAA
TTATAATTTT
Found at i:72062 original size:6 final size:6
Alignment explanation
Indices: 72053--72107 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
72043 ACATATACGT
* *
72053 ATGAAG ATGAAT ATGAAG ATGAAG ATGAAG ATGAAG ATGAAA ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
72101 ATGAAG A
1 ATGAAG A
72108 ACCTTTTCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.53, C:0.00, G:0.29, T:0.18
Consensus pattern (6 bp):
ATGAAG
Found at i:73207 original size:61 final size:60
Alignment explanation
Indices: 73129--73254 Score: 157
Period size: 61 Copynumber: 2.1 Consensus size: 60
73119 ATCTTAAATA
* * * * *
73129 TAAAAAATCAATAAATTT-AGCCCTTAATATTTACAAAATTTGTCATTTTAGTT-CTAATTC
1 TAAAAAATCAATAAATTTGA-CCCTCAATATTTACAAAATCTATCAATTTA-TTCCTAACTC
*
73189 TAAAAAACTCAATAAATTTGATCCTCAATATTTACAAAATCTATCAATTTATTCCTAACTC
1 TAAAAAA-TCAATAAATTTGACCCTCAATATTTACAAAATCTATCAATTTATTCCTAACTC
73250 TAAAA
1 TAAAA
73255 TTTAAAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
60 9 0.16
61 47 0.82
62 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (60 bp):
TAAAAAATCAATAAATTTGACCCTCAATATTTACAAAATCTATCAATTTATTCCTAACTC
Found at i:73277 original size:15 final size:15
Alignment explanation
Indices: 73254--73283 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
73244 TAACTCTAAA
73254 ATTTAAAAAAATTAT
1 ATTTAAAAAAATTAT
*
73269 ATTTTAAAAAATTAT
1 ATTTAAAAAAATTAT
73284 TGTTAACTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTTAAAAAAATTAT
Found at i:73491 original size:21 final size:20
Alignment explanation
Indices: 73465--73503 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
73455 CTTTATTTTT
*
73465 TTTTATCTTAATTTGTTTATG
1 TTTTATCTCAATTT-TTTATG
73486 TTTTATCTCAATTTTTTA
1 TTTTATCTCAATTTTTTA
73504 AAGTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTATCTCAATTTTTTATG
Found at i:73509 original size:21 final size:21
Alignment explanation
Indices: 73465--73510 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
73455 CTTTATTTTT
* *
73465 TTTTATCTTAATTTGTTTATG
1 TTTTATCTCAATTTGTTTAAG
73486 TTTTATCTCAATTT-TTTAAAG
1 TTTTATCTCAATTTGTTT-AAG
73507 TTTT
1 TTTT
73511 TTTTGCAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.65
Consensus pattern (21 bp):
TTTTATCTCAATTTGTTTAAG
Found at i:82907 original size:6 final size:6
Alignment explanation
Indices: 82896--82935 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
82886 CCTTTCTTCT
82896 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
82936 CATTAGTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:83470 original size:27 final size:28
Alignment explanation
Indices: 83422--83488 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
83412 TTTTTTACAA
* *
83422 ATATTAAATTATTTATATAATTT-TATTAT
1 ATATTATATT-TTTATAAAATTTGTATT-T
83451 ATATTATATTTTTA-AAAATTTGTATTT
1 ATATTATATTTTTATAAAATTTGTATTT
*
83478 TTATTAT-TTTT
1 ATATTATATTTT
83489 AATGGTGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 4 0.12
27 13 0.38
28 8 0.24
29 9 0.26
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (28 bp):
ATATTATATTTTTATAAAATTTGTATTT
Found at i:83713 original size:30 final size:31
Alignment explanation
Indices: 83677--83743 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
83667 ATATGAAAGG
* * *
83677 TTAAATTTATTGAATTATTTAA-TATT-AGGA
1 TTAAATTGATCGAA-TATGTAAGTATTGAGGA
83707 TTAAATTGATCGAATATGTAAGTATTGAGGA
1 TTAAATTGATCGAATATGTAAGTATTGAGGA
83738 TTAAAT
1 TTAAAT
83744 ATGTTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 6 0.19
30 16 0.50
31 10 0.31
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.43
Consensus pattern (31 bp):
TTAAATTGATCGAATATGTAAGTATTGAGGA
Found at i:90456 original size:14 final size:14
Alignment explanation
Indices: 90420--90456 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
90410 AACAGACTAT
90420 AACTAACACATTAC
1 AACTAACACATTAC
90434 AAC-AGACACATTAC
1 AACTA-ACACATTAC
90448 AACTAACAC
1 AACTAACAC
90457 GCTATCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.51, C:0.30, G:0.03, T:0.16
Consensus pattern (14 bp):
AACTAACACATTAC
Found at i:95617 original size:79 final size:78
Alignment explanation
Indices: 95428--95656 Score: 262
Period size: 79 Copynumber: 2.9 Consensus size: 78
95418 CGAGATTGTA
* * * *
95428 TTATGTTTGTAAACAAAAATTAATTGAATAATTCTGTTTCGGGA-TTTATTCCTGCCATTAAACA
1 TTATGTTT-TAAACAAAAATTAATTGAACAATTCTGTTTCAGGATTTTATTCCTGCCGTTCAACA
*
95492 GAATTTTTATTCGATT
65 GAA--TTTAATCGATT
* * * * * * *
95508 TTTTGTTTTTAAATAGAAATTAATTAAACAATTATGTTTTAGGATTTTATTCCTACCGTTCAACA
1 TTATG-TTTTAAACAAAAATTAATTGAACAATTCTGTTTCAGGATTTTATTCCTGCCGTTCAACA
95573 GAATTTAATCGATT
65 GAATTTAATCGATT
* * * *
95587 TTATGTTTTCAAACAAAAATCAATTGAACAATTCTGTTTCATGATTCTATTACTGCCGTTCAACA
1 TTATGTTTT-AAACAAAAATTAATTGAACAATTCTGTTTCAGGATTTTATTCCTGCCGTTCAACA
95652 GAATT
65 GAATT
95657 GATTCAATTT
Statistics
Matches: 123, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
78 4 0.03
79 64 0.52
80 32 0.26
81 23 0.19
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (78 bp):
TTATGTTTTAAACAAAAATTAATTGAACAATTCTGTTTCAGGATTTTATTCCTGCCGTTCAACAG
AATTTAATCGATT
Found at i:96134 original size:31 final size:31
Alignment explanation
Indices: 96096--96165 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
96086 TAATGCATGA
*
96096 CCTTAAATTGTGACAAAAGCTTAAATTGTGG
1 CCTTAAATTATGACAAAAGCTTAAATTGTGG
*
96127 CCTTAAATTATGATAAAAGCTTAAATTGTGG
1 CCTTAAATTATGACAAAAGCTTAAATTGTGG
*
96158 CTTTAAAT
1 CCTTAAAT
96166 GTGGCATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (31 bp):
CCTTAAATTATGACAAAAGCTTAAATTGTGG
Found at i:100526 original size:60 final size:61
Alignment explanation
Indices: 100447--100568 Score: 212
Period size: 60 Copynumber: 2.0 Consensus size: 61
100437 CGGTAGAAGT
100447 TAGAATTGTTCTAGGAGAACTCCAGGTTGTATCGGTAGGATTTTGTAG-CTTTTTCAGGAC
1 TAGAATTGTTCTAGGAGAACTCCAGGTTGTATCGGTAGGATTTTGTAGCCTTTTTCAGGAC
*
100507 TAGAATTGTTCT-GGTAGAACTCCAGGTTGTATTGGTAGGATTTTGTAGCCTTTTTCAGGAC
1 TAGAATTGTTCTAGG-AGAACTCCAGGTTGTATCGGTAGGATTTTGTAGCCTTTTTCAGGAC
100568 T
1 T
100569 CTTCCCATAT
Statistics
Matches: 59, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
59 2 0.03
60 44 0.75
61 13 0.22
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (61 bp):
TAGAATTGTTCTAGGAGAACTCCAGGTTGTATCGGTAGGATTTTGTAGCCTTTTTCAGGAC
Found at i:101456 original size:16 final size:16
Alignment explanation
Indices: 101432--101465 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
101422 ATAACTTGCA
*
101432 TAATATTTTGTGTGAT
1 TAATATTTTGTGTAAT
*
101448 TAATGTTTTGTGTAAT
1 TAATATTTTGTGTAAT
101464 TA
1 TA
101466 TAAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (16 bp):
TAATATTTTGTGTAAT
Found at i:122454 original size:33 final size:33
Alignment explanation
Indices: 122378--122454 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 33
122368 TCTATTTACT
* * * ** *
122378 TAAAATAAATAATTTTAGTCAAAATGAAATTAG
1 TAAAATAAACAAATTTAGTAAAAACAAAATTAA
*
122411 GAAAAT-AACAAATTTAGTAAAAACAAAATTAA
1 TAAAATAAACAAATTTAGTAAAAACAAAATTAA
122443 TAAAATAAACAA
1 TAAAATAAACAA
122455 CTTTGACTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
32 25 0.71
33 10 0.29
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.26
Consensus pattern (33 bp):
TAAAATAAACAAATTTAGTAAAAACAAAATTAA
Found at i:125450 original size:14 final size:14
Alignment explanation
Indices: 125431--125460 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
125421 GCCCTTTTTG
*
125431 CATGCATTACACTT
1 CATGCATTAAACTT
125445 CATGCATTAAACTT
1 CATGCATTAAACTT
125459 CA
1 CA
125461 ATAAAATTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (14 bp):
CATGCATTAAACTT
Found at i:126921 original size:12 final size:13
Alignment explanation
Indices: 126906--126961 Score: 62
Period size: 13 Copynumber: 4.3 Consensus size: 13
126896 ATTTCATCAA
*
126906 AAAAACAAAAAA-
1 AAAAAGAAAAAAG
126918 AAAAAGGAAAAAAGG
1 AAAAA-GAAAAAA-G
126933 AAAAA-AAAAAAG
1 AAAAAGAAAAAAG
*
126945 AAAAAGAAAAAGG
1 AAAAAGAAAAAAG
126958 AAAA
1 AAAA
126962 TGGGAGGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.29
13 22 0.58
15 5 0.13
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:126930 original size:21 final size:20
Alignment explanation
Indices: 126904--126949 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
126894 AAATTTCATC
126904 AAAAAAACAAAAAAAAAAAGG
1 AAAAAAACAAAAAAAAAAA-G
**
126925 AAAAAAGGAAAAAAAAAAAG
1 AAAAAAACAAAAAAAAAAAG
126945 AAAAA
1 AAAAA
126950 GAAAAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAAAACAAAAAAAAAAAG
Found at i:127919 original size:49 final size:47
Alignment explanation
Indices: 127866--128005 Score: 145
Period size: 48 Copynumber: 2.9 Consensus size: 47
127856 TGTAACGAAA
* * *
127866 AATCTGATACCCTAGAGATATGAAGAGAAAGATTGAAGTCGCGACGGTG
1 AATCTG-TACCCTAGAGATATGAAG-GAAAGATTGAAGCCGCAACGGCG
* * * *
127915 AATCTTGTACCCTAGAGTTATGGAGGAAAGGTTGAAGCCGTAACGGCG
1 AATC-TGTACCCTAGAGATATGAAGGAAAGATTGAAGCCGCAACGGCG
* * * *
127963 AACCTTTACCTTAGAGATGTGAAGGGAAAGATTGAAGCCGCAA
1 AATCTGTACCCTAGAGATATGAA-GGAAAGATTGAAGCCGCAA
128006 TGATGAATCT
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
47 14 0.19
48 38 0.51
49 20 0.27
50 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (47 bp):
AATCTGTACCCTAGAGATATGAAGGAAAGATTGAAGCCGCAACGGCG
Found at i:128369 original size:40 final size:40
Alignment explanation
Indices: 128295--128907 Score: 345
Period size: 40 Copynumber: 15.5 Consensus size: 40
128285 GCAAGTTACA
*
128295 ACCATTCAATCTTTTACCCTAA-TCAGAAGG-CAGATTGAAG
1 ACCATCCAATCTTTTACCCTAACT-AG-AGGACAGATTGAAG
* * *
128335 ATCATCCAATCTTTTACCTTAATTAGAGGACAGATTGAAG
1 ACCATCCAATCTTTTACCCTAACTAGAGGACAGATTGAAG
* * * * * *
128375 ACCATCAAATCTTTTACCTTAACCAGA-TAGCAGATTAAAA
1 ACCATCCAATCTTTTACCCTAACTAGAGGA-CAGATTGAAG
** ** *
128415 ACCATCCAATCACTTACCC-AGACCTAG-GG-TGGATTTAAG
1 ACCATCCAATCTTTTACCCTA-A-CTAGAGGACAGATTGAAG
* * * * * *
128454 ACCATCCGATCTCTTACCTTAACCAGAGGGCAGATTGAAT
1 ACCATCCAATCTTTTACCCTAACTAGAGGACAGATTGAAG
* ** *
128494 ACCAT-CAGATCTCTTACCCCGACTATAGGGA-AGATTGAAG
1 ACCATCCA-ATCTTTTACCCTAACTAGA-GGACAGATTGAAG
* *
128534 -CAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAG
1 ACCATCCAATCTTTTACCCTAACTAGAGGACAGATTGAAG
* * * *
128573 ACCATTCAAT-TTCTTACCCTGACCATG-GGGCAGATTGAAG
1 ACCATCCAATCTT-TTACCCTAACTA-GAGGACAGATTGAAG
* * *
128613 A-AATTCAATCTTTTACCCTAACTAGAGGACAAATTGAAG
1 ACCATCCAATCTTTTACCCTAACTAGAGGACAGATTGAAG
* * *
128652 ACCATCCGATCTCTTACCCCTACCATAG-GG-CAGATTGAAG
1 ACCATCCAATCTTTTA-CCCTAAC-TAGAGGACAGATTGAAG
* *
128692 TA--ATTCAATCTTTTACCCTAACTAGAGGACAGGTTGAAG
1 -ACCATCCAATCTTTTACCCTAACTAGAGGACAGATTGAAG
** * * ** * * *
128731 ATTAT-TAGATCTCTTACCCCGACCATG-GGGCAAATTGAA-
1 ACCATCCA-ATCTTTTACCCTAACTA-GAGGACAGATTGAAG
* * * * *
128770 ACAATCCAATCTTTTACTCTAACCAGAGGGCAGACTGAAG
1 ACCATCCAATCTTTTACCCTAACTAGAGGACAGATTGAAG
** * * *
128810 ACCATCTGATCTTTTA-CCTCGACCATGGGGA-AGATTGAAG
1 ACCATCCAATCTTTTACCCT-AACTA-GAGGACAGATTGAAG
* *
128850 -CAATCTAATCTTTTACCCTAACTAGA-GAGCAGATTGAAG
1 ACCATCCAATCTTTTACCCTAACTAGAGGA-CAGATTGAAG
* * *
128889 ACCATTCGATATTTTACCC
1 ACCATCCAATCTTTTACCC
128908 CTAAAGTTAT
Statistics
Matches: 439, Mismatches: 97, Indels: 74
0.72 0.16 0.12
Matches are distributed among these distances:
37 5 0.01
38 17 0.04
39 162 0.37
40 232 0.53
41 20 0.05
42 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (40 bp):
ACCATCCAATCTTTTACCCTAACTAGAGGACAGATTGAAG
Found at i:128588 original size:79 final size:79
Alignment explanation
Indices: 128301--128895 Score: 533
Period size: 79 Copynumber: 7.5 Consensus size: 79
128291 TACAACCATT
* * * * **
128301 CAATCTTTTACCCTAA-TCAGAAGGCAGATTGAAGATCATCCAATCTTTTA-CCTTA--ATTAGA
1 CAATCTTTTACCCTAACT-AGAGGGCAGATTGAAGACCATTCAATCTCTTACCCCGACCA-TAG-
*
128362 GGACAGATTGAAGACCATC
63 GGA-AGATTGAAG-CAATC
* * * ** * * * * * *
128381 AAATCTTTTACCTTAACCAGATAGCAGATTAAAAACCATCCAATCACTTACCCAGACC-TAGGGT
1 CAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTCAATCTCTTACCCCGACCATAGGGA
* * *
128445 GGATTTAAGACCATC
66 AGATTGAAG-CAATC
* * * * * *
128460 CGATCTCTTACCTTAACCAGAGGGCAGATTGAATACCA-TCAGATCTCTTACCCCGACTATAGGG
1 CAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTCA-ATCTCTTACCCCGACCATAGGG
128524 AAGATTGAAGCAATC
65 AAGATTGAAGCAATC
* * * *
128539 CAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTCAATTTCTTACCCTGACCATGGGGC
1 CAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTCAATCTCTTACCCCGACCATAGGGA
* *
128604 AGATTGAAGAAATT
66 AGATTGAAGCAATC
* * * * * *
128618 CAATCTTTTACCCTAACTAGAGGACAAATTGAAGACCATCCGATCTCTTACCCCTACCATAGGGC
1 CAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTCAATCTCTTACCCCGACCATAGGGA
* *
128683 AGATTGAAGTAATT
66 AGATTGAAGCAATC
* * ** *
128697 CAATCTTTTACCCTAACTAGAGGACAGGTTGAAGATTATT-AGATCTCTTACCCCGACCATGGGG
1 CAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTCA-ATCTCTTACCCCGACCATAGGG
*
128761 CAA-ATTGAAACAATC
65 -AAGATTGAAGCAATC
* * * * * * *
128776 CAATCTTTTACTCTAACCAGAGGGCAGACTGAAGACCA-TCTGATCTTTTACCTCGACCATGGGG
1 CAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTC-AATCTCTTACCCCGACCATAGGG
128840 AAGATTGAAGCAATC
65 AAGATTGAAGCAATC
* *
128855 TAATCTTTTACCCTAACTAGAGAGCAGATTGAAGACCATTC
1 CAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTC
128896 GATATTTTAC
Statistics
Matches: 423, Mismatches: 79, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
78 5 0.01
79 353 0.83
80 59 0.14
81 6 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (79 bp):
CAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTCAATCTCTTACCCCGACCATAGGGA
AGATTGAAGCAATC
Found at i:128629 original size:158 final size:159
Alignment explanation
Indices: 128301--128895 Score: 623
Period size: 158 Copynumber: 3.8 Consensus size: 159
128291 TACAACCATT
* * * * **
128301 CAATCTTTTACCCTAATCAGAAGGCAGATTGAAGATCATCCA-ATCTTTTA-CCTTA--ATTAGA
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCAT-CAGATCTCTTACCCCGACCA-TAG-
* * * * * * * * *
128362 GGACAGATTGAAGACCATCAAATCTTTTACCTTAACCAGATAGCAGATTAAAAACCATCCAATCA
63 GGA-AGATTGAAG-CAATCCAATCTTTTACCCTAACTAGAGAGCAGATTGAAGACCATTCAATCT
* ** * *
128427 CTTACCCAGACC-TAGGGTGGATTTAAGACCATC
126 CTTACCCAGACCATGGGGCAGATTGAAGACAATC
* * * * *
128460 CGATCTCTTACCTTAACCAGAGGGCAGATTGAATACCATCAGATCTCTTACCCCGACTATAGGGA
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCAGATCTCTTACCCCGACCATAGGGA
* *
128525 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATTCAATTTCTTAC
66 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGAGCAGATTGAAGACCATTCAATCTCTTAC
* *
128590 CCTGACCATGGGGCAGATTGAAGA-AATT
131 CCAGACCATGGGGCAGATTGAAGACAATC
* * * * * *
128618 CAATCTTTTACCCTAACTAGAGGACAAATTGAAGACCATCCGATCTCTTACCCCTACCATAGGGC
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCAGATCTCTTACCCCGACCATAGGGA
* * * **
128683 AGATTGAAGTAATTCAATCTTTTACCCTAACTAGAG-GACAGGTTGAAGATTATT-AGATCTCTT
66 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGAG-CAGATTGAAGACCATTCA-ATCTCTT
* *
128746 ACCCCGACCATGGGGCAAATTGAA-ACAATC
129 ACCCAGACCATGGGGCAGATTGAAGACAATC
* * * * * *
128776 CAATCTTTTACTCTAACCAGAGGGCAGACTGAAGACCATCTGATCTTTTACCTCGACCATGGGGA
1 CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCAGATCTCTTACCCCGACCATAGGGA
*
128841 AGATTGAAGCAATCTAATCTTTTACCCTAACTAGAGAGCAGATTGAAGACCATTC
66 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGAGCAGATTGAAGACCATTC
128896 GATATTTTAC
Statistics
Matches: 361, Mismatches: 65, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
157 3 0.01
158 287 0.80
159 61 0.17
160 6 0.02
161 3 0.01
162 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (159 bp):
CAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCAGATCTCTTACCCCGACCATAGGGA
AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGAGCAGATTGAAGACCATTCAATCTCTTAC
CCAGACCATGGGGCAGATTGAAGACAATC
Found at i:155977 original size:28 final size:28
Alignment explanation
Indices: 155945--156020 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
155935 ACCCAAAAAT
*
155945 AGAATAATGCTCTAT-CGAGCAAGAGTCC
1 AGAATAATGCTCT-TGCGAGCAAGAGTAC
* *
155973 AGAATATTGCTCTTGTGAGCAAGAGTAC
1 AGAATAATGCTCTTGCGAGCAAGAGTAC
* * *
156001 AGAATTACGCTCTTACGAGC
1 AGAATAATGCTCTTGCGAGC
156021 CAAAATACAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (28 bp):
AGAATAATGCTCTTGCGAGCAAGAGTAC
Found at i:161441 original size:17 final size:17
Alignment explanation
Indices: 161419--161456 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
161409 ATCTTTTTAA
161419 TGATATTATGTGTGCAT
1 TGATATTATGTGTGCAT
161436 TGATATTATGTGTGCAT
1 TGATATTATGTGTGCAT
161453 TGAT
1 TGAT
161457 TAACCCAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.47
Consensus pattern (17 bp):
TGATATTATGTGTGCAT
Found at i:164619 original size:25 final size:23
Alignment explanation
Indices: 164579--164624 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
164569 CCAATTAGGG
164579 AATTATTATTTAAATTTAATTAA
1 AATTATTATTTAAATTTAATTAA
*
164602 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTA-AATTTAATT
164625 TGGATTCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
AATTATTATTTAAATTTAATTAA
Found at i:170527 original size:5 final size:5
Alignment explanation
Indices: 170507--170549 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
170497 AATTAGTATA
170507 TTTAT TTTCAAT TTTAT TTTAT TTTATT TTTAAT TTTAT TTTA
1 TTTAT TTT--AT TTTAT TTTAT TTTA-T TTT-AT TTTAT TTTA
170550 ATTATGCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 20 0.59
6 8 0.24
7 6 0.18
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:170529 original size:17 final size:17
Alignment explanation
Indices: 170507--170552 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
170497 AATTAGTATA
170507 TTTATTTTCAATTTT-AT
1 TTTATTTT-AATTTTAAT
*
170524 TTTATTTTATTTTTAAT
1 TTTATTTTAATTTTAAT
170541 TTTATTTTAATT
1 TTTATTTTAATT
170553 ATGCACTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 5 0.19
17 21 0.81
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTTTAATTTTAAT
Found at i:170533 original size:22 final size:22
Alignment explanation
Indices: 170507--170549 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
170497 AATTAGTATA
170507 TTTATTTTCAATTTTATTTTAT
1 TTTATTTTCAATTTTATTTTAT
*
170529 TTTATTTTTAATTTTATTTTA
1 TTTATTTTCAATTTTATTTTA
170550 ATTATGCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTATTTTCAATTTTATTTTAT
Found at i:171513 original size:29 final size:30
Alignment explanation
Indices: 171479--171567 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 30
171469 TTTAGAAAAA
171479 AAAAGAAAAAAGAAAAAGAAAAAAAG-TCG
1 AAAAGAAAAAAGAAAAAGAAAAAAAGATCG
* *
171508 AAAAGAAAAATTGAAAAA-AAAAAAAGAAAATTG
1 AAAAGAAAAA-AGAAAAAGAAAAAAAG---ATCG
171541 AGAAA-AAAAAAGAAAAAGAAAAAAAGA
1 A-AAAGAAAAAAGAAAAAGAAAAAAAGA
171568 AGACAAAAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
29 18 0.36
30 7 0.14
32 6 0.12
33 16 0.32
34 3 0.06
ACGTcount: A:0.79, C:0.01, G:0.15, T:0.06
Consensus pattern (30 bp):
AAAAGAAAAAAGAAAAAGAAAAAAAGATCG
Found at i:171546 original size:19 final size:20
Alignment explanation
Indices: 171477--171565 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 20
171467 TGTTTAGAAA
*
171477 AAAAAAGAAAAAAGAAAA-AG
1 AAAAAA-AAAAAAGAAAATTG
*
171497 AAAAAAAGTCGAAAAGAAAAATTG
1 AAAAAAA---AAAAAG-AAAATTG
171521 AAAAAAAAAAAAGAAAATTG
1 AAAAAAAAAAAAGAAAATTG
* *
171541 -AGAAAAAAAAAGAAAA-AG
1 AAAAAAAAAAAAGAAAATTG
171559 AAAAAAA
1 AAAAAAA
171566 GAAGACAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.02
19 21 0.37
20 13 0.23
21 5 0.09
22 5 0.09
23 4 0.07
24 8 0.14
ACGTcount: A:0.80, C:0.01, G:0.13, T:0.06
Consensus pattern (20 bp):
AAAAAAAAAAAAGAAAATTG
Found at i:172627 original size:25 final size:23
Alignment explanation
Indices: 172586--172631 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
172576 CCAATTAGGG
172586 AATTATTGTTTAGATTTAATTAA
1 AATTATTGTTTAGATTTAATTAA
*
172609 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TGTTTAG-ATTTAATT
172632 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (23 bp):
AATTATTGTTTAGATTTAATTAA
Found at i:173313 original size:29 final size:29
Alignment explanation
Indices: 173280--173335 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
173270 TGAATTGAGG
173280 TATTAGCATAATTTAGGGATTTCTACGGT
1 TATTAGCATAATTTAGGGATTTCTACGGT
173309 TATTAGCATAATTTAGGGATTTCTACG
1 TATTAGCATAATTTAGGGATTTCTACG
173336 AAACAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (29 bp):
TATTAGCATAATTTAGGGATTTCTACGGT
Found at i:180476 original size:17 final size:17
Alignment explanation
Indices: 180454--180531 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
180444 TGTTAGTAAG
*
180454 CATTGTCATCACATTCC
1 CATTGTCATCACATTTC
* *
180471 CATTGTCATTACATTTG
1 CATTGTCATCACATTTC
* ** *
180488 CATTTTCATTGCATTTG
1 CATTGTCATCACATTTC
*
180505 CATTTTCATCACATTTC
1 CATTGTCATCACATTTC
180522 CATTTGTCAT
1 CA-TTGTCAT
180532 TAGCATTTAG
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
17 45 0.88
18 6 0.12
ACGTcount: A:0.22, C:0.24, G:0.08, T:0.46
Consensus pattern (17 bp):
CATTGTCATCACATTTC
Found at i:186384 original size:26 final size:25
Alignment explanation
Indices: 186345--186466 Score: 102
Period size: 25 Copynumber: 4.8 Consensus size: 25
186335 TCCAGAAATG
* * * *
186345 TAGCTCATATGAGCCTAGATAGAGTT
1 TAGCTCTTACGAGCC-AGACAGAGTA
*
186371 TAGCTCTTACGAGCCCAGACAGAATA
1 TAGCTCTTACGAG-CCAGACAGAGTA
*
186397 TCGCTCTTACGAGCCAGACAGAGTA
1 TAGCTCTTACGAGCCAGACAGAGTA
** * *
186422 TCTCTCTTAC-ACGCCAGATAGAATA
1 TAGCTCTTACGA-GCCAGACAGAGTA
* *
186447 TCGCTCTTATGAGCCAGACA
1 TAGCTCTTACGAGCCAGACA
186467 AATTTTAACC
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.01
25 46 0.57
26 31 0.39
27 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (25 bp):
TAGCTCTTACGAGCCAGACAGAGTA
Found at i:186423 original size:25 final size:25
Alignment explanation
Indices: 186373--186466 Score: 127
Period size: 25 Copynumber: 3.7 Consensus size: 25
186363 ATAGAGTTTA
186373 GCTCTTACGAGCCCAGACAGAATATC
1 GCTCTTACGAG-CCAGACAGAATATC
*
186399 GCTCTTACGAGCCAGACAGAGTATC
1 GCTCTTACGAGCCAGACAGAATATC
* *
186424 TCTCTTAC-ACGCCAGATAGAATATC
1 GCTCTTACGA-GCCAGACAGAATATC
*
186449 GCTCTTATGAGCCAGACA
1 GCTCTTACGAGCCAGACA
186467 AATTTTAACC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.02
25 46 0.78
26 12 0.20
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (25 bp):
GCTCTTACGAGCCAGACAGAATATC
Found at i:193041 original size:51 final size:51
Alignment explanation
Indices: 192962--193220 Score: 137
Period size: 51 Copynumber: 5.1 Consensus size: 51
192952 ATTACTTTGC
** * *
192962 TTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATAAAAAATTTA-
1 TTAAAAATCTAAACTTTT-TTTTAAAATAATTAAAAAAAATAAAAATTTTAT
* * *
193013 TTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAAAA-AACATATTTTTATT
1 TTAAAAATCTAAACTTTTT-TTTAAAATAATTAAAAAAAATAA-A-AATTTTA-T
* * * * * ** *
193067 TTTAAAATATAAACTTTCTTTTT----T-TTTAAAGAAAATCACTATTTTAC
1 TTAAAAATCTAAACTTT-TTTTTAAAATAATTAAAAAAAATAAAAATTTTAT
* * * * *
193114 CT-AAAATCCAAA-TTTTTATTTCAAAATAGTTAAAAAAAATAAAAACTTT-G
1 TTAAAAATCTAAACTTTTT-TTT-AAAATAATTAAAAAAAATAAAAATTTTAT
* * * *
193164 TTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAAAA-ACAGATTTT-T
1 TTAAAAATCTAAACTTTTT-TTTAAAATAATTAAAAAAAATAAAAATTTTAT
193214 TTAAAAA
1 TTAAAAA
193221 AAAATATAAA
Statistics
Matches: 155, Mismatches: 37, Indels: 33
0.69 0.16 0.15
Matches are distributed among these distances:
44 2 0.01
45 6 0.04
46 8 0.05
47 1 0.01
48 5 0.03
49 8 0.05
50 20 0.13
51 72 0.46
52 13 0.08
54 18 0.12
55 2 0.01
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (51 bp):
TTAAAAATCTAAACTTTTTTTTAAAATAATTAAAAAAAATAAAAATTTTAT
Found at i:193134 original size:151 final size:148
Alignment explanation
Indices: 192737--193455 Score: 846
Period size: 151 Copynumber: 4.8 Consensus size: 148
192727 TAAAAATTTA
*
192737 AAAATAACTAAAAAATAGATTTTTATATTTTAAAAAATCTAAACTTTCTCTTTTTTTTTAAAAAG
1 AAAATAACTAAAAAACAGATTTTTAT-TTTT--AAAATCTAAAC-TT-TCTTTTTTTTT--AAAG
* * * * *
192802 AAAATCACTATTTTGCTTAAAAATTCGAATTTTTATTTCGAAATAATTAGAAAAAAATTAAAACT
59 AAAATCACTATTTTGCTTAAAAATCCAAATTTTTATTTCGAAATAGTTA-AAAAAAATAAAAAAT
* *
192867 TTATTAAAAATTT-AATTTTTTTTTT
123 TTATTAAAAATTTAAACTTTTTCTTT
* * * *
192892 AAAATAACTGAAAAACAGA--TTT-TTTTAAAAATCTAAACTTGC-TCTTTTTTAAAGAAAATCA
1 AAAATAACTAAAAAACAGATTTTTATTTTTAAAATCTAAACTTTCTTTTTTTTTAAAGAAAATCA
* * * *
192953 TTACTTTGCTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATAAAAAATTTATTAAA
66 CTATTTTGCTTAAAAATCCAAATTTTTATTTCGAAATAGTTAAAAAAAATAAAAAATTTATTAAA
193018 AATTTAAACTTTTTCTTT
131 AATTTAAACTTTTTCTTT
* *
193036 AAAATAACTAAAAAAAAAACATATTTTTATTTTTAAAATATAAACTTTCTTTTTTTTTAAAGAAA
1 AAAATAACT----AAAAAACAGATTTTTATTTTTAAAATCTAAACTTTCTTTTTTTTTAAAGAAA
* * * * *
193101 ATCACTATTTTACCT-AAAATCCAAATTTTTATTTCAAAATAGTTAAAAAAAATAAAAACTTTGT
62 ATCACTATTTTGCTTAAAAATCCAAATTTTTATTTCGAAATAGTTAAAAAAAATAAAAAATTTAT
193165 TAAAAATTTAAACTTTTTCTTT
127 TAAAAATTTAAACTTTTTCTTT
*** * * *
193187 AAAATAACTAAAAAAAAACAGATTTTT-TTAAAAAAAAATATAAATTTTC-TCTTTTTTAAAGAA
1 AAAATAACT---AAAAAACAGATTTTTATT--TTTAAAATCTAAACTTTCTTTTTTTTTAAAGAA
* * *
193250 AATCACTATTTTACCTAAAAATCCAAA-TTTTATTTCGAAATAGTTAAAAAAAATAAAAAATTTG
61 AATCACTATTTTGCTTAAAAATCCAAATTTTTATTTCGAAATAGTTAAAAAAAATAAAAAATTTA
*
193314 TTAAAATTTTAAACTTTTTCTTT
126 TTAAAAATTTAAACTTTTTCTTT
*
193337 AAAATAACTAAAAAACATATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTTTAAAGAAAAT
1 AAAATAACTAAAAAACAGATTTTTATTTTT-AAAATCTAAACTTTCT-TTTTTTTTAAAGAAAAT
*
193402 CACTATTTTGCTTAAAAAAAAT-CAAAGTTTTTATTTCGAAATTGTTAAAAAAAA
64 CACTATTTTGCTT---AAAAATCCAAA-TTTTTATTTCGAAATAGTTAAAAAAAA
193456 AAACAAAACA
Statistics
Matches: 493, Mismatches: 50, Indels: 44
0.84 0.09 0.07
Matches are distributed among these distances:
143 26 0.05
144 65 0.13
146 7 0.01
147 28 0.06
148 12 0.02
149 40 0.08
150 115 0.23
151 123 0.25
152 32 0.06
153 28 0.06
155 17 0.03
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.41
Consensus pattern (148 bp):
AAAATAACTAAAAAACAGATTTTTATTTTTAAAATCTAAACTTTCTTTTTTTTTAAAGAAAATCA
CTATTTTGCTTAAAAATCCAAATTTTTATTTCGAAATAGTTAAAAAAAATAAAAAATTTATTAAA
AATTTAAACTTTTTCTTT
Found at i:193458 original size:150 final size:148
Alignment explanation
Indices: 192737--193458 Score: 842
Period size: 150 Copynumber: 4.8 Consensus size: 148
192727 TAAAAATTTA
*
192737 AAAATAACTAAAAAATAGATTTTTATATTTTAAAAAATCTAAACTTTCTCTTTTTTTTTAAAAAG
1 AAAATAACTAAAAAACAGATTTTTAT-TTTT-AAAAATCTAAACTTTCTC-TTTTTTTT--AAAG
* * *
192802 AAAATCACTATTTTGCTTAAAAATTCGAATTTTTATTTCGAAATAATTAGAAAAAAATTAAAACT
61 AAAATCACTATTTTGCTTAAAAA-TCAAATTTTTATTTCGAAATAGTTA-AAAAAAA-AAAAACT
* *
192867 TTATTAAAAATTT-AATTTTTTTTTT
123 TTATTAAAAATTTAAACTTTTTCTTT
* *
192892 AAAATAACTGAAAAACAGA---TT-TTTTTAAAAATCTAAACTTGCTC--TTTTTTAAAGAAAAT
1 AAAATAACTAAAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTTTAAAGAAAAT
* * * *
192951 CATTACTTTGCTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATAAAAAATTTATTA
66 CACTATTTTGCTTAAAAATC-AAATTTTTATTTCGAAATAGTTAAAAAAAA-AAAAACTTTATTA
193016 AAAATTTAAACTTTTTCTTT
129 AAAATTTAAACTTTTTCTTT
* *
193036 AAAATAACTAAAAAAAAAACATATTTTTATTTTT-AAAATATAAACTTTCT-TTTTTTTTAAAGA
1 AAAATAACT----AAAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTTTAAAGA
* * *
193099 AAATCACTATTTTACCT-AAAATCCAAATTTTTATTTCAAAATAGTTAAAAAAAATAAAAACTTT
62 AAATCACTATTTTGCTTAAAAAT-CAAATTTTTATTTCGAAATAGTTAAAAAAAA-AAAAACTTT
*
193163 GTTAAAAATTTAAACTTTTTCTTT
125 ATTAAAAATTTAAACTTTTTCTTT
*** * *
193187 AAAATAACTAAAAAAAAACAGATTTTT-TTAAAAAAAAATATAAA-TTT-TCTCTTTTTTAAAGA
1 AAAATAACT---AAAAAACAGATTTTTATT-TTTAAAAATCTAAACTTTCTCTTTTTTTTAAAGA
* * *
193249 AAATCACTATTTTACCTAAAAATCCAAA-TTTTATTTCGAAATAGTTAAAAAAAATAAAAAATTT
62 AAATCACTATTTTGCTTAAAAAT-CAAATTTTTATTTCGAAATAGTTAAAAAAAA-AAAAACTTT
* *
193313 GTTAAAATTTTAAACTTTTTCTTT
125 ATTAAAAATTTAAACTTTTTCTTT
*
193337 AAAATAACTAAAAAACATATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTTTAAAGAAAAT
1 AAAATAACTAAAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTTTAAAGAAAAT
*
193402 CACTATTTTGCTTAAAAAAAATCAAAGTTTTTATTTCGAAATTGTTAAAAAAAAAAA
66 CACTATTTTGCTT---AAAAATCAAA-TTTTTATTTCGAAATAGTTAAAAAAAAAAA
193459 CAAAACATTT
Statistics
Matches: 501, Mismatches: 41, Indels: 53
0.84 0.07 0.09
Matches are distributed among these distances:
143 28 0.06
144 64 0.13
146 6 0.01
147 24 0.05
148 13 0.03
149 49 0.10
150 119 0.24
151 115 0.23
152 41 0.08
153 25 0.05
155 17 0.03
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.41
Consensus pattern (148 bp):
AAAATAACTAAAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTTTAAAGAAAAT
CACTATTTTGCTTAAAAATCAAATTTTTATTTCGAAATAGTTAAAAAAAAAAAAACTTTATTAAA
AATTTAAACTTTTTCTTT
Found at i:195867 original size:27 final size:28
Alignment explanation
Indices: 195832--195897 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
195822 CAAACCAGAG
195832 TACAGAATTACGCTC-TACGAGCCAAAA
1 TACAGAATTACGCTCTTACGAGCCAAAA
195859 TACAGAATTACGCTCTTACGAGCCAAAA
1 TACAGAATTACGCTCTTACGAGCCAAAA
*
195887 TATAGAATTAC
1 TACAGAATTAC
195898 TCCTTGAGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 15 0.41
28 22 0.59
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.23
Consensus pattern (28 bp):
TACAGAATTACGCTCTTACGAGCCAAAA
Found at i:207440 original size:23 final size:22
Alignment explanation
Indices: 207414--207563 Score: 97
Period size: 19 Copynumber: 6.9 Consensus size: 22
207404 AATAAGCCGA
*
207414 CATTTTTATTTAAATTTATTCCT
1 CATTTTTATTT-AATTTATTTCT
207437 CATTTTTA-TT--TTTATTT-T
1 CATTTTTATTTAATTTATTTCT
* *
207455 CATTATTTATTTATTTCTATTGTTTT
1 CATT-TTTATTTAATT-TA-T-TTCT
207481 CA-TTTTATTTAAATTTATTTCT
1 CATTTTTATTT-AATTTATTTCT
207503 CATTTTTA-TT--TTTATTT-T
1 CATTTTTATTTAATTTATTTCT
*
207521 CATTATTTATTT-ATTTATTGTTTT
1 CATT-TTTATTTAATTTA-T-TTCT
207545 CA-TTTTATTTAAATTTATT
1 CATTTTTATTT-AATTTATT
207564 ATTATTGATG
Statistics
Matches: 106, Mismatches: 3, Indels: 37
0.73 0.02 0.25
Matches are distributed among these distances:
18 10 0.09
19 21 0.20
20 4 0.04
21 4 0.04
22 20 0.19
23 20 0.19
24 18 0.17
25 6 0.06
26 3 0.03
ACGTcount: A:0.23, C:0.07, G:0.01, T:0.69
Consensus pattern (22 bp):
CATTTTTATTTAATTTATTTCT
Found at i:207470 original size:17 final size:17
Alignment explanation
Indices: 207447--207536 Score: 68
Period size: 17 Copynumber: 5.4 Consensus size: 17
207437 CATTTTTATT
207447 TTTATTTTCATTATTTA
1 TTTATTTTCATTATTTA
207464 TTTA-TTTC--TATTGT-
1 TTTATTTTCATTATT-TA
**
207478 TTTCATTTT-ATT-TAAA
1 TTT-ATTTTCATTATTTA
207494 TTTATTTCTCATT-TTTA
1 TTTATTT-TCATTATTTA
207511 TTTTTATTTTCATTATTTA
1 --TTTATTTTCATTATTTA
207530 TTTATTT
1 TTTATTT
207537 ATTGTTTTCA
Statistics
Matches: 58, Mismatches: 4, Indels: 22
0.69 0.05 0.26
Matches are distributed among these distances:
14 7 0.12
15 6 0.10
16 12 0.21
17 17 0.29
18 5 0.09
19 11 0.19
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.71
Consensus pattern (17 bp):
TTTATTTTCATTATTTA
Found at i:207489 original size:66 final size:64
Alignment explanation
Indices: 207417--207563 Score: 267
Period size: 66 Copynumber: 2.3 Consensus size: 64
207407 AAGCCGACAT
207417 TTTTATTTAAATTTATTCCTCATTTTTATTTTTATTTTCATTATTTATTTATTTCTATTGTTTTC
1 TTTTATTTAAATTTATTCCTCATTTTTATTTTTATTTTCATTATTTATTTA-TT-TATTGTTTTC
207482 A
64 A
*
207483 TTTTATTTAAATTTATTTCTCATTTTTATTTTTATTTTCATTATTTATTTATTTATTGTTTTCA
1 TTTTATTTAAATTTATTCCTCATTTTTATTTTTATTTTCATTATTTATTTATTTATTGTTTTCA
207547 TTTTATTTAAATTTATT
1 TTTTATTTAAATTTATT
207564 ATTATTGATG
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
64 28 0.35
65 2 0.03
66 50 0.62
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.69
Consensus pattern (64 bp):
TTTTATTTAAATTTATTCCTCATTTTTATTTTTATTTTCATTATTTATTTATTTATTGTTTTCA
Found at i:207563 original size:24 final size:24
Alignment explanation
Indices: 207441--207555 Score: 85
Period size: 24 Copynumber: 5.2 Consensus size: 24
207431 ATTCCTCATT
*
207441 TTTATTT-TTATTTTCATTATTTA
1 TTTATTTATTGTTTTCATTATTTA
207464 TTTATTTCTATTGTTTTCA-T-TTTA
1 TTTA-TT-TATTGTTTTCATTATTTA
*
207488 TTTAAATTTA-T-TTCTCATT-TTTA
1 TTT--ATTTATTGTTTTCATTATTTA
207511 -TT-TTTA---TTTTCATTATTTA
1 TTTATTTATTGTTTTCATTATTTA
207530 TTTATTTATTGTTTTCA-T-TTTA
1 TTTATTTATTGTTTTCATTATTTA
207552 TTTA
1 TTTA
207556 AATTTATTAT
Statistics
Matches: 77, Mismatches: 3, Indels: 25
0.73 0.03 0.24
Matches are distributed among these distances:
18 7 0.09
19 8 0.10
20 2 0.03
21 4 0.05
22 15 0.19
23 11 0.14
24 17 0.22
25 4 0.05
26 9 0.12
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTATTTATTGTTTTCATTATTTA
Found at i:209841 original size:11 final size:12
Alignment explanation
Indices: 209827--209868 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
209817 GAAAACAACT
*
209827 CAGATACAAA-G
1 CAGATACAAATA
209838 CAGAT-CAAATA
1 CAGATACAAATA
*
209849 CAGATACATATA
1 CAGATACAAATA
209861 CAGATACA
1 CAGATACA
209869 GATATAGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 4 0.15
11 10 0.37
12 13 0.48
ACGTcount: A:0.52, C:0.19, G:0.12, T:0.17
Consensus pattern (12 bp):
CAGATACAAATA
Found at i:212013 original size:125 final size:125
Alignment explanation
Indices: 211791--212038 Score: 370
Period size: 125 Copynumber: 2.0 Consensus size: 125
211781 CGTAATACCA
* * * *
211791 TTGGTTATTCCAACTAGAGTTGGGCTCACTATTAATACAGTCGGTTTATCCGACTAGTGCTGGGC
1 TTGGTTAATCCAACTAGAGCTGGGCTCACTATTAATACAGTCAGTTTATCCGACTAGCGCTGGGC
* *
211856 GCAAATTCTATTGCGGTTTATCCACTAGGCACTCGGTGTCAGGAATTGATGAAATTATTG
66 GCAAATTCTATTGCGGTTTATCCACTAGGCACTCGGTGCCAGAAATTGATGAAATTATTG
* * * *
211916 TTGGTTAATCTAACTAGAGCTGGGCTCACTATTATTACTGTCAGTTTATCCGACTAGCGTTGGGC
1 TTGGTTAATCCAACTAGAGCTGGGCTCACTATTAATACAGTCAGTTTATCCGACTAGCGCTGGGC
* * * *
211981 GCAAATTCTATTGTGGTTTATCCGCTAGGCACTGGGTGCCAGAAATTGATGGAATTAT
66 GCAAATTCTATTGCGGTTTATCCACTAGGCACTCGGTGCCAGAAATTGATGAAATTAT
212039 ATGACAAAGT
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
125 109 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (125 bp):
TTGGTTAATCCAACTAGAGCTGGGCTCACTATTAATACAGTCAGTTTATCCGACTAGCGCTGGGC
GCAAATTCTATTGCGGTTTATCCACTAGGCACTCGGTGCCAGAAATTGATGAAATTATTG
Found at i:217769 original size:24 final size:24
Alignment explanation
Indices: 217733--217807 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
217723 GTATACTGGT
* * *
217733 TAACCATTCTGGGCTTGTAATAGC
1 TAACCATTTTGGGCTCGTAAGAGC
217757 TAACCATTTTGGGCTCGTAAGAGC
1 TAACCATTTTGGGCTCGTAAGAGC
* *
217781 TAACCATCTTGGGCTCGTGAGAGC
1 TAACCATTTTGGGCTCGTAAGAGC
217805 TAA
1 TAA
217808 TGCTGTCTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (24 bp):
TAACCATTTTGGGCTCGTAAGAGC
Found at i:218445 original size:24 final size:24
Alignment explanation
Indices: 218405--218451 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
218395 GGTAGTTAAA
*
218405 TAGCAAGTATCGGTAGTTATGTGTT
1 TAGCAAGTATCGATAGTT-TGTGTT
218430 TAGC-AGTATCGATAGTTTGTGT
1 TAGCAAGTATCGATAGTTTGTGT
218452 ACTTGTACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (24 bp):
TAGCAAGTATCGATAGTTTGTGTT
Found at i:226926 original size:39 final size:40
Alignment explanation
Indices: 226873--226952 Score: 126
Period size: 39 Copynumber: 2.0 Consensus size: 40
226863 AAGAGGTATG
*
226873 TCCAATATGAAAAGGGATGTGACTCTTCATAAGGTGTCCA
1 TCCAATATGAAAAGGGATGTGACTCTTCAAAAGGTGTCCA
* *
226913 TCCAATTTG-AAAGGGTTGTGACTCTTCAAAAGGTGTCCA
1 TCCAATATGAAAAGGGATGTGACTCTTCAAAAGGTGTCCA
226952 T
1 T
226953 TGAGTGCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 29 0.78
40 8 0.22
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (40 bp):
TCCAATATGAAAAGGGATGTGACTCTTCAAAAGGTGTCCA
Found at i:227995 original size:125 final size:125
Alignment explanation
Indices: 227767--228014 Score: 340
Period size: 125 Copynumber: 2.0 Consensus size: 125
227757 CATAATACCA
* * * *
227767 TTAGTTAATCCAACTAGAGCCGAGCTCACTATTAATACTGTCGGTTTATCTGACTAGCGCTGGGC
1 TTAGTTAATCCAACTAGAGCAGAGCTCACTATTAATACTATCGGTTTATCCGACTAGCACTGGGC
* *** *
227832 GCAAATTCTATTGAAGTTTATTTGCTAGGTATTGGGTGCCAGGAATTGAC-GAAATTATTG
66 ACAAATTCTATTGAAGTTTATACACTAGGCATTGGGTGCCAGGAATTGACAG-AATTATTG
*
227892 TTAGTTAATCCAACTAGAGCTAG-GCTCACTATTATTACTATCGGTTTATCCGACTAGCACTGGG
1 TTAGTTAATCCAACTAGAGC-AGAGCTCACTATTAATACTATCGGTTTATCCGACTAGCACTGGG
**
227956 CACAAATTCTATTGCGGTTTATACACTAGGCACTT-GGTGCCAGGAATTGACAGAATTAT
65 CACAAATTCTATTGAAGTTTATACACTAGGCA-TTGGGTGCCAGGAATTGACAGAATTAT
228015 ATGACAAATT
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
125 104 0.96
126 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (125 bp):
TTAGTTAATCCAACTAGAGCAGAGCTCACTATTAATACTATCGGTTTATCCGACTAGCACTGGGC
ACAAATTCTATTGAAGTTTATACACTAGGCATTGGGTGCCAGGAATTGACAGAATTATTG
Found at i:229652 original size:25 final size:25
Alignment explanation
Indices: 229623--229673 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
229613 AACAAAGATC
229623 CAACATTCACCAATTTCAAGATTAT
1 CAACATTCACCAATTTCAAGATTAT
229648 CAACATTCACCAATTTCAAGATTAT
1 CAACATTCACCAATTTCAAGATTAT
229673 C
1 C
229674 TCTGCAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.31
Consensus pattern (25 bp):
CAACATTCACCAATTTCAAGATTAT
Found at i:234478 original size:26 final size:26
Alignment explanation
Indices: 234448--234502 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
234438 TATACAAAAG
234448 GAACAAATAATACACTAATTTAAGGA
1 GAACAAATAATACACTAATTTAAGGA
234474 GAACAAATAATACACTAATTTAAGGA
1 GAACAAATAATACACTAATTTAAGGA
234500 GAA
1 GAA
234503 TTTCAGTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.22
Consensus pattern (26 bp):
GAACAAATAATACACTAATTTAAGGA
Found at i:239778 original size:18 final size:18
Alignment explanation
Indices: 239747--239799 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
239737 GGGCAATTGG
**
239747 ACCAGATGTGATCACAAA
1 ACCAGATGCAATCACAAA
* * *
239765 AGCAGATGCAATCATACA
1 ACCAGATGCAATCACAAA
*
239783 ACCAGATGCAACCACAA
1 ACCAGATGCAATCACAA
239800 GCTCGAATAC
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.45, C:0.26, G:0.15, T:0.13
Consensus pattern (18 bp):
ACCAGATGCAATCACAAA
Found at i:258811 original size:18 final size:18
Alignment explanation
Indices: 258768--258820 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
258758 ATTTGGACTT
*
258768 TTAAATTTAAAATGT--A
1 TTAAATTTAAAATTTAAA
258784 TTAAACATTTAAAATTTAAA
1 TT-AA-ATTTAAAATTTAAA
258804 TTAAATTT-AAATTTAAA
1 TTAAATTTAAAATTTAAA
258821 ATTTGTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.06
17 11 0.34
18 14 0.44
19 2 0.06
20 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
TTAAATTTAAAATTTAAA
Found at i:260037 original size:8 final size:8
Alignment explanation
Indices: 260002--260035 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
259992 ACAATGTAAA
260002 TTTATTTT
1 TTTATTTT
260010 TTTATTTT
1 TTTATTTT
260018 TTTATTTAT
1 TTTATTT-T
260027 TATTATTTT
1 T-TTATTTT
260036 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 15 0.62
9 3 0.12
10 6 0.25
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTATTTT
Found at i:269182 original size:39 final size:38
Alignment explanation
Indices: 269123--269583 Score: 252
Period size: 39 Copynumber: 11.7 Consensus size: 38
269113 TACATGGCCT
*
269123 AGATTAAAGCAATCCAATCTCTTACCCTAACTAGAGGGC
1 AGATTGAAGC-ATCCAATCTCTTACCCTAACTAGAGGGC
* ** * *
269162 AGATTGAAGTCCTCTGATCTCTTACCCTAACCATGA-GGT
1 AGATTGAAG-CATCCAATCTCTTACCCTAACTA-GAGGGC
*
269201 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGC
1 AGATTGAAGC-ATCCAATCTCTTACCCTAACTAGAGGGC
* * * *
269240 AGATTGAAGCCATCCGATCTCTTACCAC-GACCATG-GGGT
1 AGATTGAAG-CATCCAATCTCTTACC-CTAACTA-GAGGGC
* * *
269279 AGATTGAAACAATCCAATCTTTTACCCTAATTAGAGGGC
1 AGATTGAAGC-ATCCAATCTCTTACCCTAACTAGAGGGC
* ** *
269318 AGATTGAAGACCATCCGATCTCTTACCCCGACCATG-GGGC
1 AGATTGAAG--CATCCAATCTCTTACCCTAACTA-GAGGGC
* * * * *
269358 AGATTGAAGTAATCCAATCTTTTACCCTCAGTAGAGAGC
1 AGATTGAAG-CATCCAATCTCTTACCCTAACTAGAGGGC
* * * ** * *
269397 AGATTGAAGATCACCCGATCTATTACCCCGACCATG-GCGC
1 AGATTGAAG--CATCCAATCTCTTACCCTAACTA-GAGGGC
** * * * *
269437 AGATTGAAGGCCATCTGATCTTTTA-CCTCGACCAGAGGGT
1 AGATTGAA-G-CATCCAATCTCTTACCCT-AACTAGAGGGC
* *
269477 AGATTGAAGACCATCCAATCTCTTACCCTGACCATG-GGGC
1 AGATTGAAG--CATCCAATCTCTTACCCTAACTA-GAGGGC
* * * *
269517 AAATTGAAGCAATCCAATCTTTTACCCTAACTAAAAGGC
1 AGATTGAAGC-ATCCAATCTCTTACCCTAACTAGAGGGC
* * *
269556 AGATTAAAGACCATTCGATCTCTTACCC
1 AGATTGAAG--CATCCAATCTCTTACCC
269584 CGACCATGAG
Statistics
Matches: 325, Mismatches: 71, Indels: 51
0.73 0.16 0.11
Matches are distributed among these distances:
38 8 0.02
39 179 0.55
40 129 0.40
41 9 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (38 bp):
AGATTGAAGCATCCAATCTCTTACCCTAACTAGAGGGC
Found at i:269372 original size:79 final size:79
Alignment explanation
Indices: 269123--269623 Score: 630
Period size: 79 Copynumber: 6.4 Consensus size: 79
269113 TACATGGCCT
* * * *
269123 AGATTAAAGCAATCCAATCTCTTACCCTAACTAGAGGGCAGATTGAAGTCC-TCTGATCTCTTAC
1 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTAC
** * *
269187 CCTAACCATGAGGT
66 CCCGACCATGGGGC
269201 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAG-CCATCCGATCTCTTAC
1 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTAC
* *
269265 CACGACCATGGGGT
66 CCCGACCATGGGGC
* *
269279 AGATTGAAACAATCCAATCTTTTACCCTAATTAGAGGGCAGATTGAAGACCATCCGATCTCTTAC
1 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTAC
269344 CCCGACCATGGGGC
66 CCCGACCATGGGGC
* * * * * * *
269358 AGATTGAAGTAATCCAATCTTTTACCCTCAGTAGAGAGCAGATTGAAGATCACCCGATCTATTAC
1 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTAC
*
269423 CCCGACCATGGCGC
66 CCCGACCATGGGGC
* ** * * * *
269437 AGATTGAAGGCCATCTGATCTTTTA-CCTCGACCAGAGGGTAGATTGAAGACCATCCAATCTCTT
1 AGATTGAA-GCAATCCAATCTTTTACCCT-AACTAGAGGGCAGATTGAAGACCATCCGATCTCTT
*
269501 ACCCTGACCATGGGGC
64 ACCCCGACCATGGGGC
* * * * *
269517 AAATTGAAGCAATCCAATCTTTTACCCTAACTAAAAGGCAGATTAAAGACCATTCGATCTCTTAC
1 AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTAC
*
269582 CCCGACCATGAGGC
66 CCCGACCATGGGGC
* * *
269596 AAATTGAAACAATTCAATCTTTTACCCT
1 AGATTGAAGCAATCCAATCTTTTACCCT
269624 TAAAACTAGG
Statistics
Matches: 367, Mismatches: 51, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
77 2 0.01
78 114 0.31
79 189 0.51
80 62 0.17
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (79 bp):
AGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAGATTGAAGACCATCCGATCTCTTAC
CCCGACCATGGGGC
Found at i:269510 original size:159 final size:158
Alignment explanation
Indices: 269115--269623 Score: 618
Period size: 159 Copynumber: 3.2 Consensus size: 158
269105 ATCCTAGTTA
* * * *
269115 CATGGC-CTAGATT-AAAGCAATCCAATCTCTTACCCTAACTAGAGGGCAGATTGAAGTCC-TCT
1 CATGGCGC-AGATTGAAA-CAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCC
* * * *
269177 GATCTCTTACCCTAACCATGAGGTAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGGGCAG
64 GATCTCTTACCCTGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGAGCAG
*
269242 ATTGAAG-CCATCCGATCTCTTACCACGAC
129 ATTGAAGACCATCCGATCTCTTACCCCGAC
* * **
269271 CATGGGGTAGATTGAAACAATCCAATCTTTTACCCTAATTAGAGGGCAGATTGAAGACCATCCGA
1 CATGGCGCAGATTGAAACAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGA
* * * *
269336 TCTCTTACCCCGACCATGGGGCAGATTGAAGTAATCCAATCTTTTACCCTCAGTAGAGAGCAGAT
66 TCTCTTACCCTGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGAGCAGAT
* * *
269401 TGAAGATCACCCGATCTATTACCCCGAC
131 TGAAGACCATCCGATCTCTTACCCCGAC
* * ** * *
269429 CATGGCGCAGATTGAAGGCCATCTGATCTTTTA-CCTCGACCAGAGGGTAGATTGAAGACCATCC
1 CATGGCGCAGATTGAA-ACAATCCAATCTTTTACCCT-AACCAGAGGGCAGATTGAAGACCATCC
* * *
269493 AATCTCTTACCCTGACCATGGGGCAAATTGAAGCAATCCAATCTTTTACCCTAACTA-AAAGGCA
64 GATCTCTTACCCTGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGA-GCA
* *
269557 GATTAAAGACCATTCGATCTCTTACCCCGAC
128 GATTGAAGACCATCCGATCTCTTACCCCGAC
* *
269588 CATGAG-GCAAATTGAAACAATTCAATCTTTTACCCT
1 CATG-GCGCAGATTGAAACAATCCAATCTTTTACCCT
269624 TAAAACTAGG
Statistics
Matches: 298, Mismatches: 46, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
156 49 0.16
157 69 0.23
158 48 0.16
159 131 0.44
160 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (158 bp):
CATGGCGCAGATTGAAACAATCCAATCTTTTACCCTAACCAGAGGGCAGATTGAAGACCATCCGA
TCTCTTACCCTGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACTAGAGAGCAGAT
TGAAGACCATCCGATCTCTTACCCCGAC
Found at i:270121 original size:11 final size:11
Alignment explanation
Indices: 270105--270137 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
270095 CAATTGTGTT
270105 TTTTTATTTTA
1 TTTTTATTTTA
270116 TTTTTA-TTTA
1 TTTTTATTTTA
*
270126 TTATTATTTTA
1 TTTTTATTTTA
270137 T
1 T
270138 AAATAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:270137 original size:15 final size:15
Alignment explanation
Indices: 270103--270135 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
270093 TCCAATTGTG
270103 TTTT-TTTATTTTAT
1 TTTTATTTATTTTAT
270117 TTTTATTTATTATTAT
1 TTTTATTTATT-TTAT
270133 TTT
1 TTT
270136 ATAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 6 0.35
16 7 0.41
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTATTTTAT
Found at i:279026 original size:50 final size:50
Alignment explanation
Indices: 278951--279077 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 50
278941 CTTTTACCTC
* * * * *
278951 TAAAGATGTGGAGGTGCAGATTGAAGTCGCAATGGCAAATCTCATACACC
1 TAAAGCTGTAGAGGGGCAGAATGAAGTCGCAATGGCAAATCTCATACACA
* * * * ** *
279001 TAAAGTTGTAGAGGGGTAGAATGAAGCCGTAATGGTGAATCTCATTCACA
1 TAAAGCTGTAGAGGGGCAGAATGAAGTCGCAATGGCAAATCTCATACACA
*
279051 TAAAGCTGTAGAGGGGCAGATTGAAGT
1 TAAAGCTGTAGAGGGGCAGAATGAAGT
279078 TACAAGGATG
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (50 bp):
TAAAGCTGTAGAGGGGCAGAATGAAGTCGCAATGGCAAATCTCATACACA
Found at i:279214 original size:39 final size:39
Alignment explanation
Indices: 279158--279692 Score: 205
Period size: 39 Copynumber: 13.6 Consensus size: 39
279148 CCATAAGGCA
* *
279158 ATTGAAGTAATCCAATCTCTTACCCTGACCGTGAGGTAG
1 ATTGAAGCAATCCAATCTCTTACCCTGACCATGAGGTAG
* * * *
279197 ATTGAAGCAATCTAATCTTTTACACT-A--ATAGAGGGCAG
1 ATTGAAGCAATCCAATCTCTTACCCTGACCAT-GA-GGTAG
* *
279235 ATTGAAGTC-ATCCAATCTCTTACCCCGACCATGGGGTAG
1 ATTGAAG-CAATCCAATCTCTTACCCTGACCATGAGGTAG
* * * * *
279274 ATTGAAGTAATCCAATCTTTTACCCTAACTA-GAAGGCAG
1 ATTGAAGCAATCCAATCTCTTACCCTGACCATG-AGGTAG
* * * *
279313 ATTGAAGTC-ATCCGATCTCTTACCCCGACCATGGGGTTG
1 ATTGAAG-CAATCCAATCTCTTACCCTGACCATGAGGTAG
* * * * ** * *
279352 ATTAAAGCAATCTAATCTTTTACCCTAATTA-AAGGGCAG
1 ATTGAAGCAATCCAATCTCTTACCCTGACCATGA-GGTAG
* * *
279391 ATTGAAGACCATCCAATCTCTTAACCC-GACCATGGGGCAG
1 ATTGAAG-CAATCCAATCTCTT-ACCCTGACCATGAGGTAG
* ** * * * *
279431 AATGAAGTGATTCAATCTTTTACCCT-AGC-TAGAGGGCAG
1 ATTGAAGCAATCCAATCTCTTACCCTGACCAT-GA-GGTAG
* * * * *
279470 ATTGAAGACCATCCGATCTCTTACCTTGA-CATGAGGCAA
1 ATTGAAG-CAATCCAATCTCTTACCCTGACCATGAGGTAG
* ** * * * *
279509 ATTGAAGCTCATCTGATCTTTTA-CCTCAACCA-GAGGGCAA
1 ATTGAAGC-AATCCAATCTCTTACCCT-GACCATGA-GGTAG
* * * * * *
279549 ATTAAAGACCATCCGATCTCTTACCCTGACCATGGGGAAA
1 ATTGAAG-CAATCCAATCTCTTACCCTGACCATGAGGTAG
* * * * * ** * *
279589 ATTGAAGTAATCGAATCTTTTACCTTAACCAAAAGGCAA
1 ATTGAAGCAATCCAATCTCTTACCCTGACCATGAGGTAG
* * * * *
279628 ATTGAAGACCATTCGATCTCTTACCCCGACCATGAGGCAG
1 ATTGAAG-CAATCCAATCTCTTACCCTGACCATGAGGTAG
* * *
279668 ATTAAAACAATCCAATCTTTTACCC
1 ATTGAAGCAATCCAATCTCTTACCC
279693 CTAAAACTAA
Statistics
Matches: 363, Mismatches: 104, Indels: 58
0.69 0.20 0.11
Matches are distributed among these distances:
36 1 0.00
37 3 0.01
38 37 0.10
39 203 0.56
40 106 0.29
41 13 0.04
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (39 bp):
ATTGAAGCAATCCAATCTCTTACCCTGACCATGAGGTAG
Found at i:279448 original size:79 final size:80
Alignment explanation
Indices: 279133--279692 Score: 453
Period size: 79 Copynumber: 7.2 Consensus size: 80
279123 TACAACCTCG
* * * * *
279133 AATCTTTTACCCCAACCATAA-GGCA-ATTGAAGTA--ATCCAATCTCTT-ACCCTGACCGTGAG
1 AATCTTTTACCCTAACTA-AAGGGCAGATTGAAG-ACCATCCGATCTCTTAACCC-GACCATGGG
* *
279193 GTAGATTGAAG-CAATCT
63 GCAGAATGAAGTCAATCT
* * * * * *
279210 AATCTTTTACACTAA-TAGAGGGCAGATTGAAG-TCATCCAATCTCTTACCCCGACCATGGGGTA
1 AATCTTTTACCCTAACTAAAGGGCAGATTGAAGACCATCCGATCTCTTAACCCGACCATGGGGCA
* *
279273 GATTGAAGT-AATCC
66 GAATGAAGTCAATCT
* * *
279287 AATCTTTTACCCTAACTAGAA-GGCAGATTGAAG-TCATCCGATCTCTTACCCCGACCATGGGGT
1 AATCTTTTACCCTAACTA-AAGGGCAGATTGAAGACCATCCGATCTCTTAACCCGACCATGGGGC
* * *
279350 TGATTAAAG-CAATCT
65 AGAATGAAGTCAATCT
* *
279365 AATCTTTTACCCTAATTAAAGGGCAGATTGAAGACCATCCAATCTCTTAACCCGACCATGGGGCA
1 AATCTTTTACCCTAACTAAAGGGCAGATTGAAGACCATCCGATCTCTTAACCCGACCATGGGGCA
* *
279430 GAATGAAGTGATTC-
66 GAATGAAGTCAATCT
* * * *
279444 AATCTTTTACCCTAGCTAGAGGGCAGATTGAAGACCATCCGATCTCTT-ACCTTGA-CATGAGGC
1 AATCTTTTACCCTAACTAAAGGGCAGATTGAAGACCATCCGATCTCTTAACC-CGACCATGGGGC
279507 A-AATTGAAGCTC-ATCT
65 AGAA-TGAAG-TCAATCT
* * * * *
279523 GATCTTTTA-CCTCAACCAGAGGGCAAATTAAAGACCATCCGATCTCTT-ACCCTGACCATGGGG
1 AATCTTTTACCCT-AACTAAAGGGCAGATTGAAGACCATCCGATCTCTTAACCC-GACCATGGGG
* *
279586 -AAAATTGAAGT-AATCG
64 CAGAA-TGAAGTCAATCT
* * * * * * *
279602 AATCTTTTACCTTAACCAAAAGGCAAATTGAAGACCATTCGATCTCTTACCCCGACCATGAGGCA
1 AATCTTTTACCCTAACTAAAGGGCAGATTGAAGACCATCCGATCTCTTAACCCGACCATGGGGCA
* ** *
279667 G-ATTAAAACAATCC
66 GAATGAAGTCAATCT
279681 AATCTTTTACCC
1 AATCTTTTACCC
279693 CTAAAACTAA
Statistics
Matches: 404, Mismatches: 54, Indels: 48
0.80 0.11 0.09
Matches are distributed among these distances:
75 1 0.00
76 5 0.01
77 72 0.18
78 110 0.27
79 193 0.48
80 23 0.06
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (80 bp):
AATCTTTTACCCTAACTAAAGGGCAGATTGAAGACCATCCGATCTCTTAACCCGACCATGGGGCA
GAATGAAGTCAATCT
Found at i:279580 original size:158 final size:154
Alignment explanation
Indices: 279133--279691 Score: 594
Period size: 158 Copynumber: 3.6 Consensus size: 154
279123 TACAACCTCG
* * * * * * *
279133 AATCTTTTACCCCAACCATAAGGCA-ATTGAAGTA--ATCCAATCTCTTACCCTGACCGTGAGGT
1 AATCTTTTACCCTAACTAGAAGGCAGATTGAAG-ACCATCCGATCTCTTACCCCGACCATGAGGC
*
279195 AGATTGAAGCAATCTAATCTTTTACACT-AATAGAGGGCAGATTGAAG-TCATCCAATCTCTTAC
65 AGATTGAAGCAATCTAATCTTTTAC-CTCAATAGAGGGCAGATTGAAGACCATCCAATCTCTTA-
* *
279258 CCCGACCATGGGGTAGATTGAAGTAATCC
128 CCCGACCATGGGG-AGAATGAAGT-ATTC
* * **
279287 AATCTTTTACCCTAACTAGAAGGCAGATTGAAG-TCATCCGATCTCTTACCCCGACCATGGGGTT
1 AATCTTTTACCCTAACTAGAAGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGAGGCA
* *
279351 GATTAAAGCAATCTAATCTTTTACC-CTAATTAAAGGGCAGATTGAAGACCATCCAATCTCTTAA
66 GATTGAAGCAATCTAATCTTTTACCTC-AA-TAGAGGGCAGATTGAAGACCATCCAATCTCTT-A
279415 CCCGACCATGGGGCAGAATGAAGTGATTC
128 CCCGACCATGGGG-AGAATGAAGT-ATTC
* * **
279444 AATCTTTTACCCTAGCTAGAGGGCAGATTGAAGACCATCCGATCTCTTACCTTGA-CATGAGGCA
1 AATCTTTTACCCTAACTAGAAGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGAGGCA
* * * * * * *
279508 AATTGAAGCTCATCTGATCTTTTACCTCAACCAGAGGGCAAATTAAAGACCATCCGATCTCTTAC
66 GATTGAAGC-AATCTAATCTTTTACCTCAA-TAGAGGGCAGATTGAAGACCATCCAATCTCTTAC
* *
279573 CCTGACCATGGGGAAAATTGAAGTAATC
129 CC-GACCATGGGGAGAA-TGAAGTATTC
* * * * *
279601 GAATCTTTTACCTTAACCAAAAGGCAAATTGAAGACCATTCGATCTCTTACCCCGACCATGAGGC
1 -AATCTTTTACCCTAACTAGAAGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGAGGC
* * *
279666 AGATTAAAACAATCCAATCTTTTACC
65 AGATTGAAGCAATCTAATCTTTTACC
279692 CCTAAAACTA
Statistics
Matches: 340, Mismatches: 50, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
154 23 0.07
155 56 0.16
156 16 0.05
157 92 0.27
158 137 0.40
159 16 0.05
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (154 bp):
AATCTTTTACCCTAACTAGAAGGCAGATTGAAGACCATCCGATCTCTTACCCCGACCATGAGGCA
GATTGAAGCAATCTAATCTTTTACCTCAATAGAGGGCAGATTGAAGACCATCCAATCTCTTACCC
GACCATGGGGAGAATGAAGTATTC
Found at i:280171 original size:15 final size:16
Alignment explanation
Indices: 280151--280183 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
280141 AATTTGTCTG
280151 TTTATTTATT-TTATT
1 TTTATTTATTATTATT
280166 TTTATTTATTATTATT
1 TTTATTTATTATTATT
280182 TT
1 TT
280184 ATAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTATTATTATT
Found at i:281466 original size:26 final size:26
Alignment explanation
Indices: 281418--281467 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
281408 GAATTATGCA
*
281418 TATATATATATATATAATTTATTCTT
1 TATATATATATATATAATATATTCTT
*
281444 TATATATATAGTATGT-ATATATTC
1 TATATATATA-TATATAATATATTC
281468 GCCATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (26 bp):
TATATATATATATATAATATATTCTT
Found at i:284889 original size:24 final size:23
Alignment explanation
Indices: 284856--284913 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 23
284846 TTAAACGGTT
284856 AATTGAATCAAATTAGTATTAATTG
1 AATT-AATCAAATTA-TATTAATTG
*
284881 AATTAATCAAA--ATTTTAATTG
1 AATTAATCAAATTATATTAATTG
284902 --TTAATCAAATTA
1 AATTAATCAAATTA
284914 AATTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
19 9 0.30
21 9 0.30
22 1 0.03
24 7 0.23
25 4 0.13
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (23 bp):
AATTAATCAAATTATATTAATTG
Found at i:285902 original size:17 final size:18
Alignment explanation
Indices: 285882--285921 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
285872 ATTAAATTTA
*
285882 TATAAGATATTA-ATTAT
1 TATAAAATATTATATTAT
*
285899 TATAAAATATTATTTTAT
1 TATAAAATATTATATTAT
285917 TATAA
1 TATAA
285922 TAAAATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TATAAAATATTATATTAT
Found at i:285935 original size:21 final size:21
Alignment explanation
Indices: 285894--285934 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
285884 TAAGATATTA
* *
285894 ATTATTATAAAATATTATTTT
1 ATTATAATAAAATAATATTTT
285915 ATTATAATAAAATAA-ATTTT
1 ATTATAATAAAATAATATTTT
285935 TGCCATCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTATAATAAAATAATATTTT
Found at i:288076 original size:12 final size:12
Alignment explanation
Indices: 288053--288087 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
288043 AATTCATATA
288053 ACTTTCAATTTC
1 ACTTTCAATTTC
* *
288065 AATTTCACTTTC
1 ACTTTCAATTTC
288077 ACTTTCAATTT
1 ACTTTCAATTT
288088 TGATCACAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (12 bp):
ACTTTCAATTTC
Found at i:288076 original size:18 final size:18
Alignment explanation
Indices: 288053--288087 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
288043 AATTCATATA
288053 ACTTTCAATTTCAATTTC
1 ACTTTCAATTTCAATTTC
*
288071 ACTTTCACTTTCAATTT
1 ACTTTCAATTTCAATTT
288088 TGATCACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (18 bp):
ACTTTCAATTTCAATTTC
Done.