Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014776.1 Kokia drynarioides strain JFW-HI SEQ_129818, 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: 247535
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 243 characters in sequence are not A, C, G, or T
Found at i:5756 original size:19 final size:19
Alignment explanation
Indices: 5732--5768 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5722 TATTATTGAT
*
5732 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
5751 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
5769 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:5769 original size:15 final size:15
Alignment explanation
Indices: 5714--5770 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
5704 TTTATACTAC
5714 AAAATATTTATTATT
1 AAAATATTTATTATT
* * *
5729 GATATATTTATAATTATA
1 AAAATA-TT-T-ATTATT
5747 ATAAATATTTATTATT
1 A-AAATATTTATTATT
5763 AAAATATT
1 AAAATATT
5771 AATATTGAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 11 0.34
16 8 0.25
17 2 0.06
18 7 0.22
19 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:5953 original size:11 final size:12
Alignment explanation
Indices: 5921--5953 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
5911 ATATTGAAAA
5921 ATATAATATTTT
1 ATATAATATTTT
5933 ATATTAATATTTT
1 ATA-TAATATTTT
5946 A-ATAATAT
1 ATATAATAT
5954 AAATATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 6 0.30
12 4 0.20
13 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATAATATTTT
Found at i:5999 original size:20 final size:19
Alignment explanation
Indices: 5949--5999 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
5939 ATATTTTAAT
*
5949 AATATAAATATT-TTAAAA
1 AATAAAAATATTATTAAAA
*
5967 AATAAAAAAATTATTATAAA
1 AATAAAAATATTATTA-AAA
* *
5987 TATAATAATATTA
1 AATAAAAATATTA
6000 AACTTGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 10 0.38
19 3 0.12
20 13 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AATAAAAATATTATTAAAA
Found at i:12434 original size:21 final size:21
Alignment explanation
Indices: 12408--12448 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
12398 AAATTTAAAA
*
12408 TTTAAGAGTTTGAGTTCAATG
1 TTTAAGAATTTGAGTTCAATG
12429 TTTAAGAATTTGAGTTCAAT
1 TTTAAGAATTTGAGTTCAAT
12449 CATATCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.44
Consensus pattern (21 bp):
TTTAAGAATTTGAGTTCAATG
Found at i:22947 original size:11 final size:11
Alignment explanation
Indices: 22908--22949 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
22898 TTTGGGTTTG
22908 AAATTT-AAAT
1 AAATTTAAAAT
*
22918 AAATTTAAACTT
1 AAATTTAAA-AT
*
22930 AATTTTAAAAT
1 AAATTTAAAAT
22941 AAATTTAAA
1 AAATTTAAA
22950 TCCTGTTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 6 0.23
11 11 0.42
12 9 0.35
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATTTAAAAT
Found at i:25700 original size:27 final size:28
Alignment explanation
Indices: 25625--25702 Score: 72
Period size: 27 Copynumber: 2.8 Consensus size: 28
25615 TAATAATATA
25625 ATTAATTATTTTAATAATAAAT-TTTGAC
1 ATTAA-TATTTTAATAATAAATATTTGAC
** * * *
25653 GGTAATATATT-ATAGAAAAATATTT-AT
1 ATTAATATTTTAATA-ATAAATATTTGAC
25680 ATTAATATTTTAATAATAAATAT
1 ATTAATATTTTAATAATAAATAT
25703 GTATTAAAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
26 3 0.08
27 26 0.68
28 9 0.24
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.46
Consensus pattern (28 bp):
ATTAATATTTTAATAATAAATATTTGAC
Found at i:25783 original size:23 final size:23
Alignment explanation
Indices: 25732--25784 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
25722 TTTAATAATA
*
25732 AATATTTTATTATATAAAATATT
1 AATATTTTATTATATAAAATATG
* *
25755 ACTATTTTAATTATAT-CAATATG
1 AATATTTT-ATTATATAAAATATG
25778 AATATTT
1 AATATTT
25785 GGCCAAAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
AATATTTTATTATATAAAATATG
Found at i:29269 original size:26 final size:25
Alignment explanation
Indices: 29240--29308 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
29230 ATTATTAAAC
*
29240 ATAAATATTTATATTATTTATATTTA
1 ATAAATATTTATATTATTTA-ATATA
*
29266 ATAATATAATTA-ATTA-TTAATATA
1 ATAA-ATATTTATATTATTTAATATA
29290 ATAAATTATTATATATTAT
1 ATAAA-TATT-TATATTAT
29309 AACTTTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
23 1 0.03
24 11 0.31
25 5 0.14
26 12 0.34
27 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATAAATATTTATATTATTTAATATA
Found at i:29285 original size:19 final size:19
Alignment explanation
Indices: 29263--29326 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 19
29253 TTATTTATAT
29263 TTAATAATATAATTAATTA
1 TTAATAATATAATTAATTA
*
29282 -T--TAATATAATAAATTA
1 TTAATAATATAATTAATTA
* *
29298 TTATATATTATAACTTTATT-
1 TTA-ATAATATAA-TTAATTA
29318 TTAATAATA
1 TTAATAATA
29327 CATTTTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
16 14 0.40
17 1 0.03
18 1 0.03
19 5 0.14
20 10 0.29
21 4 0.11
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAATAATATAATTAATTA
Found at i:29288 original size:16 final size:16
Alignment explanation
Indices: 29267--29310 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
29257 TTATATTTAA
*
29267 TAATATAATTAATTAT
1 TAATATAATAAATTAT
29283 TAATATAATAAATTAT
1 TAATATAATAAATTAT
*
29299 TATATATTATAA
1 TA-ATATAATAA
29311 CTTTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATATAATAAATTAT
Found at i:38259 original size:10 final size:9
Alignment explanation
Indices: 38232--38258 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
38222 ACATCAAAGA
38232 GGTTTTTTT
1 GGTTTTTTT
38241 GGTTTTTTT
1 GGTTTTTTT
38250 GGTTTTTTT
1 GGTTTTTTT
38259 TAAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (9 bp):
GGTTTTTTT
Found at i:40006 original size:84 final size:84
Alignment explanation
Indices: 39865--40039 Score: 350
Period size: 84 Copynumber: 2.1 Consensus size: 84
39855 AGGAGGCCCA
39865 CCATGGGCGTAGGAGTAGAAGTTGCTCTAATCATACTTATTTTGTGAAGTAACTTAGTAATGTAT
1 CCATGGGCGTAGGAGTAGAAGTTGCTCTAATCATACTTATTTTGTGAAGTAACTTAGTAATGTAT
39930 TTCTTGAGTAAGAAACAGT
66 TTCTTGAGTAAGAAACAGT
39949 CCATGGGCGTAGGAGTAGAAGTTGCTCTAATCATACTTATTTTGTGAAGTAACTTAGTAATGTAT
1 CCATGGGCGTAGGAGTAGAAGTTGCTCTAATCATACTTATTTTGTGAAGTAACTTAGTAATGTAT
40014 TTCTTGAGTAAGAAACAGT
66 TTCTTGAGTAAGAAACAGT
40033 CCATGGG
1 CCATGGG
40040 ATATGTGATG
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 91 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (84 bp):
CCATGGGCGTAGGAGTAGAAGTTGCTCTAATCATACTTATTTTGTGAAGTAACTTAGTAATGTAT
TTCTTGAGTAAGAAACAGT
Found at i:44844 original size:12 final size:12
Alignment explanation
Indices: 44808--44849 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
44798 AAAAATTGGG
44808 TCATTTTATTTTT
1 TCATTTT-TTTTT
*
44821 TC-TTCTTGTTTT
1 TCATT-TTTTTTT
44833 TCATTTTTTTTT
1 TCATTTTTTTTT
44845 TCATT
1 TCATT
44850 AAGCCAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 19 0.76
13 6 0.24
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (12 bp):
TCATTTTTTTTT
Found at i:48280 original size:14 final size:14
Alignment explanation
Indices: 48261--48306 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
48251 TAAGTTAGAT
48261 GAACATACTCAATC
1 GAACATACTCAATC
**
48275 GAACATGTTC-AT-
1 GAACATACTCAATC
48287 GAACATACTCAATC
1 GAACATACTCAATC
48301 GAACAT
1 GAACAT
48307 GTTCATGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 8 0.31
13 4 0.15
14 14 0.54
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.24
Consensus pattern (14 bp):
GAACATACTCAATC
Found at i:48289 original size:26 final size:26
Alignment explanation
Indices: 48259--48318 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
48249 ATTAAGTTAG
48259 ATGAACATACTCAATCGAACATGTTC
1 ATGAACATACTCAATCGAACATGTTC
48285 ATGAACATACTCAATCGAACATGTTC
1 ATGAACATACTCAATCGAACATGTTC
48311 ATGAACAT
1 ATGAACAT
48319 TAAACAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.27
Consensus pattern (26 bp):
ATGAACATACTCAATCGAACATGTTC
Found at i:48292 original size:12 final size:12
Alignment explanation
Indices: 48275--48318 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
48265 ATACTCAATC
48275 GAACATGTTCAT
1 GAACATGTTCAT
**
48287 GAACATACTCAAT
1 GAACATGTTC-AT
48300 CGAACATGTTCAT
1 -GAACATGTTCAT
48313 GAACAT
1 GAACAT
48319 TAAACAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 14 0.54
13 4 0.15
14 8 0.31
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (12 bp):
GAACATGTTCAT
Found at i:57009 original size:16 final size:17
Alignment explanation
Indices: 56988--57020 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
56978 TTAAAAATGA
*
56988 TAAAAATAT-AAATTAT
1 TAAAAAGATGAAATTAT
57004 TAAAAAGATGAAATTAT
1 TAAAAAGATGAAATTAT
57021 ATTTTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
TAAAAAGATGAAATTAT
Found at i:58209 original size:21 final size:21
Alignment explanation
Indices: 58180--58219 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58170 AAAAACAATA
* *
58180 TAATGGTTTTGCCTTTTAACT
1 TAATAGTTTTGACTTTTAACT
58201 TAATAGTTTTGACTTTTAA
1 TAATAGTTTTGACTTTTAA
58220 TTTTAGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (21 bp):
TAATAGTTTTGACTTTTAACT
Found at i:59016 original size:39 final size:39
Alignment explanation
Indices: 58973--59050 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
58963 AAAGTAGAGT
58973 TTGAATTGTCTTTAAAGTCAATGTAATGTATTAAATATC
1 TTGAATTGTCTTTAAAGTCAATGTAATGTATTAAATATC
59012 TTGAATTGTCTTTAAAGTCAATGTAATGTATTAAATATC
1 TTGAATTGTCTTTAAAGTCAATGTAATGTATTAAATATC
59051 CATGTACACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (39 bp):
TTGAATTGTCTTTAAAGTCAATGTAATGTATTAAATATC
Found at i:59295 original size:29 final size:29
Alignment explanation
Indices: 59238--59297 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
59228 ACATTTATGC
* *
59238 TAATGATTCAGTATTCATTCTGCATATCT
1 TAATGATTCAGTATTCATTCTACAAATCT
* *
59267 TAATGATTCAGTGTTCATTTTACAAATCT
1 TAATGATTCAGTATTCATTCTACAAATCT
59296 TA
1 TA
59298 CGTGTTCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (29 bp):
TAATGATTCAGTATTCATTCTACAAATCT
Found at i:63675 original size:18 final size:19
Alignment explanation
Indices: 63652--63690 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
63642 ATGAATTGTC
*
63652 TATTTTTTAA-ATAATATT
1 TATTTTTTAACAGAATATT
63670 TATTTTTTAACAGAATATT
1 TATTTTTTAACAGAATATT
63689 TA
1 TA
63691 AAACTACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TATTTTTTAACAGAATATT
Found at i:64644 original size:40 final size:40
Alignment explanation
Indices: 64567--64645 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
64557 TATTTTTATT
*
64567 TGTATTAGTTATTTAAAATTTTAAATTATTTTATATTTTG
1 TGTATTAGTTATTTAAAATTTTAAATTATATTATATTTTG
*
64607 TGTATTA-TTATATTAAATTATTTAAA-TATGATT-TATTTT
1 TGTATTAGTTAT-TTAAAAT-TTTAAATTAT-ATTATATTTT
64646 TATATTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
39 4 0.12
40 22 0.65
41 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (40 bp):
TGTATTAGTTATTTAAAATTTTAAATTATATTATATTTTG
Found at i:66822 original size:22 final size:21
Alignment explanation
Indices: 66792--66833 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
66782 ATACAGTTAG
*
66792 TTTTATTTTGGTCACTTTAATT
1 TTTTATTTT-GTCAATTTAATT
*
66814 TTTTTTTTTGTCAATTTAAT
1 TTTTATTTTGTCAATTTAAT
66834 CACTTTAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTATTTTGTCAATTTAATT
Found at i:71090 original size:21 final size:19
Alignment explanation
Indices: 71066--71117 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
71056 TAGCTCAAAA
71066 TTTTTTTCTTCTTCTTCTTC
1 TTTTTTTCTTCTTC-TCTTC
71086 TTTTTTTTCAATT-TTCTCTTC
1 -TTTTTTTC--TTCTTCTCTTC
71107 TTTTTTTCTTC
1 TTTTTTTCTTC
71118 AATTTTTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 2 0.07
20 8 0.29
21 13 0.46
22 3 0.11
23 2 0.07
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTTCTTCTTCTCTTC
Found at i:71117 original size:35 final size:35
Alignment explanation
Indices: 71077--71159 Score: 84
Period size: 36 Copynumber: 2.4 Consensus size: 35
71067 TTTTTTCTTC
*
71077 TTCTTCTTCTTTTTTTTCAATTTTCTCTTCT-TTTT
1 TTCTTCTTCTTTTTTTTCAAATTT-TCTTCTCTTTT
**
71112 TTCTTCAATT-TTTCCTTTCAAATTTTCTTCTCTTTT
1 TTCTTC--TTCTTTTTTTTCAAATTTTCTTCTCTTTT
71148 TT-TT-TTCTTTTT
1 TTCTTCTTCTTTTT
71160 CTAAACAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
32 2 0.05
33 3 0.08
35 14 0.36
36 18 0.46
37 2 0.05
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.72
Consensus pattern (35 bp):
TTCTTCTTCTTTTTTTTCAAATTTTCTTCTCTTTT
Found at i:71125 original size:24 final size:24
Alignment explanation
Indices: 71078--71123 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
71068 TTTTTCTTCT
*
71078 TCTTCTTCTTTTTTTTCAATTTTC
1 TCTTCTTCTTTTTCTTCAATTTTC
71102 TCTTCTT-TTTTTCTTCAATTTT
1 TCTTCTTCTTTTTCTTCAATTTT
71124 TCCTTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.72
Consensus pattern (24 bp):
TCTTCTTCTTTTTCTTCAATTTTC
Found at i:72190 original size:10 final size:10
Alignment explanation
Indices: 72145--72189 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
72135 TTTTTTGAAC
72145 TTTTCAATTT
1 TTTTCAATTT
72155 TTTTCAAATTT
1 TTTTC-AATTT
*
72166 TTTTCATTTTT
1 TTTTCA-ATTT
72177 TTTTC-ATTT
1 TTTTCAATTT
72186 TTTT
1 TTTT
72190 TTAAAACATG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 7 0.23
10 6 0.19
11 18 0.58
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTCAATTT
Found at i:72191 original size:12 final size:11
Alignment explanation
Indices: 72152--72191 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
72142 AACTTTTCAA
**
72152 TTTTTTTCAAA
1 TTTTTTTCATT
72163 TTTTTTTCATT
1 TTTTTTTCATT
72174 TTTTTTTCATT
1 TTTTTTTCATT
72185 TTTTTTT
1 TTTTTTT
72192 AAAACATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTTCATT
Found at i:77079 original size:20 final size:21
Alignment explanation
Indices: 77051--77101 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
77041 AAAAGGGAAA
77051 AAATT-AAAATAG-AAA-AATT
1 AAATTAAAAATAGCAAATAA-T
77070 AAATTAAAAAT-GCAAATAAT
1 AAATTAAAAATAGCAAATAAT
*
77090 AAAATAAAAATA
1 AAATTAAAAATA
77102 AATAATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 6 0.22
20 19 0.70
21 2 0.07
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
AAATTAAAAATAGCAAATAAT
Found at i:88643 original size:52 final size:52
Alignment explanation
Indices: 88587--88690 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
88577 GTTCGATGGT
88587 CGATGTTGGATCATTGGATGGGTTATGCATGAATACCTACTCGTTATTCATA
1 CGATGTTGGATCATTGGATGGGTTATGCATGAATACCTACTCGTTATTCATA
88639 CGATGTTGGATCATTGGATGGGTTATGCATGAATACCTACTCGTTATTCATA
1 CGATGTTGGATCATTGGATGGGTTATGCATGAATACCTACTCGTTATTCATA
88691 GTAATTATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (52 bp):
CGATGTTGGATCATTGGATGGGTTATGCATGAATACCTACTCGTTATTCATA
Found at i:94182 original size:30 final size:30
Alignment explanation
Indices: 94113--94187 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
94103 TTTAATAGTT
* * * *
94113 TATATTTTTATAAATTTTAAAATATTAAAT
1 TATAATTTTATTATTTTTAAAATATTAAAA
94143 TA-AATTTTTATTATTTTTGAAAA-ATTAAAA
1 TATAA-TTTTATTATTTTT-AAAATATTAAAA
94173 TATAATTTTATTATT
1 TATAATTTTATTATT
94188 AAAAATGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
29 1 0.03
30 31 0.82
31 6 0.16
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (30 bp):
TATAATTTTATTATTTTTAAAATATTAAAA
Found at i:95281 original size:16 final size:16
Alignment explanation
Indices: 95259--95295 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
95249 ATTTTTATTT
95259 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
95276 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
95291 TAATA
1 TAATA
95296 CTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:95383 original size:15 final size:15
Alignment explanation
Indices: 95302--95385 Score: 57
Period size: 15 Copynumber: 5.5 Consensus size: 15
95292 AATACTCTTC
*
95302 ATATATTATTGAA-AA
1 ATATATTAAT-AATAA
*
95317 ATAT-TTAAT-ATTA
1 ATATATTAATAATAA
* *
95330 ATATTTTAACAATAA
1 ATATATTAATAATAA
*
95345 ATATTTATTACAATTATAA
1 ATA--TATT--AATAATAA
95364 ATATATTAATAATAA
1 ATATATTAATAATAA
95379 ATATATT
1 ATATATT
95386 TTGTAGTATA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
12 1 0.02
13 5 0.09
14 8 0.15
15 24 0.44
17 7 0.13
19 9 0.17
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (15 bp):
ATATATTAATAATAA
Found at i:96682 original size:21 final size:21
Alignment explanation
Indices: 96658--96700 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
96648 AGGGATATTT
96658 TTTAATT-TTGAATTTTTTAGA
1 TTTAATTATTG-ATTTTTTAGA
*
96679 TTTATTTATTGATTTTTTAGA
1 TTTAATTATTGATTTTTTAGA
96700 T
1 T
96701 AATGGTGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (21 bp):
TTTAATTATTGATTTTTTAGA
Found at i:101230 original size:2 final size:2
Alignment explanation
Indices: 101223--101264 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
101213 AATCATGCAA
101223 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
101265 GTATTCTGAT
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:115638 original size:4 final size:4
Alignment explanation
Indices: 115624--115670 Score: 76
Period size: 4 Copynumber: 11.8 Consensus size: 4
115614 CGGTCCCTTG
* *
115624 ATAT GTAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATTT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
115671 AAATATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (4 bp):
ATAT
Found at i:115638 original size:6 final size:6
Alignment explanation
Indices: 115624--115670 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
115614 CGGTCCCTTG
* *
115624 ATATGT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT TTATA
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATA
115671 AAATATTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (6 bp):
ATATAT
Found at i:119024 original size:55 final size:58
Alignment explanation
Indices: 118900--119026 Score: 161
Period size: 61 Copynumber: 2.2 Consensus size: 58
118890 CAATCTCAAA
*
118900 AATCGATTGTTTATATGTTTCAATAGATTATTATGGTGGAATATTGCTTCTTCCTCTTTTG
1 AATCGATTGTTTATATGTTTAAATAGATTATTATGGTGGAATATTG--TCTT-CTCTTTTG
* * *
118961 AATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATATTG-C-T-TCTTTTG
1 AATCGATTGTTTATATGTTTAAATAGATTATTATGGTGGAATATTGTCTTCTCTTTTG
*
119016 AATTGATTGTT
1 AATCGATTGTT
119027 ATGTTGAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
55 17 0.28
57 1 0.02
58 1 0.02
61 42 0.69
ACGTcount: A:0.24, C:0.09, G:0.17, T:0.50
Consensus pattern (58 bp):
AATCGATTGTTTATATGTTTAAATAGATTATTATGGTGGAATATTGTCTTCTCTTTTG
Found at i:119029 original size:34 final size:34
Alignment explanation
Indices: 118986--119057 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
118976 TGTTTAAATC
*
118986 GATTGTTATGTTGGAATATTGCTTCTTTTGAATT
1 GATTGTTATGTTGAAATATTGCTTCTTTTGAATT
119020 GATTGTTATGTTGAAATATTGCTTCTTTTGAATT
1 GATTGTTATGTTGAAATATTGCTTCTTTTGAATT
119054 GATT
1 GATT
119058 TTTTATATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.22, C:0.06, G:0.19, T:0.53
Consensus pattern (34 bp):
GATTGTTATGTTGAAATATTGCTTCTTTTGAATT
Found at i:119050 original size:17 final size:17
Alignment explanation
Indices: 119000--119051 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
118990 GTTATGTTGG
119000 AATATTGCTTCTTTTGA
1 AATATTGCTTCTTTTGA
* * *
119017 ATTGATTG-TTATGTTGA
1 AAT-ATTGCTTCTTTTGA
119034 AATATTGCTTCTTTTGA
1 AATATTGCTTCTTTTGA
119051 A
1 A
119052 TTGATTTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.15
17 19 0.70
18 4 0.15
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (17 bp):
AATATTGCTTCTTTTGA
Found at i:120582 original size:39 final size:40
Alignment explanation
Indices: 120487--120583 Score: 101
Period size: 39 Copynumber: 2.4 Consensus size: 40
120477 AATTGTATAA
*
120487 GGTTGTAATGGAATAGAACTGTAATTAGTAATTCAATTGTTT
1 GGTTG-AAT-GAATAGAACAGTAATTAGTAATTCAATTGTTT
* *
120529 GGTTAAATTGAATAGAACAG-AATT-GTAATTC-TTGTGTTT
1 GGTTGAA-TGAATAGAACAGTAATTAGTAATTCAAT-TGTTT
120568 GGTTGAATGAAATAGA
1 GGTTGAATG-AATAGA
120584 TGTTATAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
38 3 0.06
39 24 0.50
40 4 0.08
41 12 0.25
42 5 0.10
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (40 bp):
GGTTGAATGAATAGAACAGTAATTAGTAATTCAATTGTTT
Found at i:122740 original size:23 final size:24
Alignment explanation
Indices: 122708--122753 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
122698 ATAATTTTTT
122708 TAAAATATAATACATAAAA-AAATA
1 TAAAATATAATA-ATAAAATAAATA
122732 TAAAA-ATAATAATAAAATAAAT
1 TAAAATATAATAATAAAATAAAT
122754 GCTTCCCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.29
23 10 0.48
24 5 0.24
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
TAAAATATAATAATAAAATAAATA
Found at i:122746 original size:12 final size:12
Alignment explanation
Indices: 122708--122748 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
122698 ATAATTTTTT
122708 TAAAATATAATACA
1 TAAAA-ATAATA-A
122722 TAAAAA-AAT-A
1 TAAAAATAATAA
122732 TAAAAATAATAA
1 TAAAAATAATAA
122744 TAAAA
1 TAAAA
122749 TAAATGCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.28
11 3 0.12
12 9 0.36
13 1 0.04
14 5 0.20
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:127667 original size:18 final size:18
Alignment explanation
Indices: 127636--127671 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
127626 TTCGCTTCTG
127636 TTTCAATTTCGAATAAAT
1 TTTCAATTTCGAATAAAT
127654 TTTCGAATTT-GAATAAAT
1 TTTC-AATTTCGAATAAAT
127672 AGCACAACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (18 bp):
TTTCAATTTCGAATAAAT
Found at i:129776 original size:110 final size:111
Alignment explanation
Indices: 129581--129808 Score: 440
Period size: 110 Copynumber: 2.1 Consensus size: 111
129571 AATTGGACCA
*
129581 AAATATATAACAAATGATACTCTAGGTACCTAATTTGGGAAAAAAAAAGTTTGTACTAAAGTGGG
1 AAATAGATAACAAATGATACTCTAGGTACCTAATTTGGGAAAAAAAAAGTTTGTACTAAAGTGGG
129646 AAAATGAGTATACTCGGGGGCCAAATCGTGAATTAAGCCTAAAAAG
66 AAAATGAGTATACTCGGGGGCCAAATCGTGAATTAAGCCTAAAAAG
129692 AAATAGATAACAAATGATACTCTAGGTACCTAATTTGGG-AAAAAAAAGTTTGTACTAAAGTGGG
1 AAATAGATAACAAATGATACTCTAGGTACCTAATTTGGGAAAAAAAAAGTTTGTACTAAAGTGGG
129756 AAAATGAGTATACTCGGGGGCCAAATCGTGAATTAAGCCTAAAAAG
66 AAAATGAGTATACTCGGGGGCCAAATCGTGAATTAAGCCTAAAAAG
129802 AAATAGA
1 AAATAGA
129809 GGGATCGAAC
Statistics
Matches: 116, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 78 0.67
111 38 0.33
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (111 bp):
AAATAGATAACAAATGATACTCTAGGTACCTAATTTGGGAAAAAAAAAGTTTGTACTAAAGTGGG
AAAATGAGTATACTCGGGGGCCAAATCGTGAATTAAGCCTAAAAAG
Found at i:141684 original size:5 final size:5
Alignment explanation
Indices: 141674--141700 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
141664 TGGCTATTAT
141674 AAACA AAACA AAACA AAACA AAACA AA
1 AAACA AAACA AAACA AAACA AAACA AA
141701 GGCTGTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:143285 original size:19 final size:19
Alignment explanation
Indices: 143261--143305 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
143251 ATAAATGTTA
*
143261 GAATTTTGATAAA-TATTTT
1 GAATTTT-AAAAATTATTTT
143280 GAATTTTAAAAATTATTTT
1 GAATTTTAAAAATTATTTT
143299 GAATTTT
1 GAATTTT
143306 TTTAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (19 bp):
GAATTTTAAAAATTATTTT
Found at i:143457 original size:23 final size:23
Alignment explanation
Indices: 143431--143488 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
143421 TGAACTCGAA
143431 ACTCGAATTACTTATTCGAGTTT
1 ACTCGAATTACTTATTCGAGTTT
143454 ACTCGAATTACTTATTCGAGTTT
1 ACTCGAATTACTTATTCGAGTTT
143477 ACTCGAATTACT
1 ACTCGAATTACT
143489 CAGATAACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (23 bp):
ACTCGAATTACTTATTCGAGTTT
Found at i:151407 original size:268 final size:268
Alignment explanation
Indices: 150918--151437 Score: 685
Period size: 268 Copynumber: 1.9 Consensus size: 268
150908 CGATTGGCTT
* ***
150918 TGTGTGTGGGACTCGTATGCTTTGATGTGTTGAAAGTTTGAGTTCAATTAGTAATAGAGTCGAAA
1 TGTGTGTGGGACTCGTATACTTTGATGTGTTGAAAGCCCGAGTTCAATTAGTAATAGAGTCGAAA
* * *
150983 GCTAGTATATTGGATAGACGACTTTTACATAGCATAACTTCATTTACTAAAGTAGCTTTCATAAC
66 ACTAGTATATTGGATAGACAACTTTTACATAGCATAACTTCATTTACTAAAGTAGATTTCATAAC
* *
151048 ACAATAAATGGTAGATGATATCCTCTCATAAGCATTACATGATAGATGAAAAAGTATTGTGGCCA
131 ACAATAAATGGTAAATGATATCCTCTCATAAGCATTACATGATAGATGAAAAAGTAATGTGGCCA
*
151113 CGAGTAATTCTTCTGAGACAAATGATTTAATTACTATTTGTTAGTAATTGACTTTTTCATGAGTA
196 CGAGTAATTCTTATGAGACAAATGATTTAATTACTATTTGTTAGTAATTGACTTTTTCATGAGTA
151178 AGCGATAA
261 AGCGATAA
* * *
151186 TGTGTTTGTGACTCGTATACTTTGATGTGTTGAAAGCCCGAGTTTAATT-GATAATAGAGTC-AA
1 TGTGTGTGGGACTCGTATACTTTGATGTGTTGAAAGCCCGAGTTCAATTAG-TAATAGAGTCGAA
* * * * *
151249 AACTTGGTATGTTGGATATACAACTTTTGCA-AGGCATAACTTCATTTACTAAGGT-GAATTTCA
65 AAC-TAGTATATTGGATAGACAACTTTTACATA-GCATAACTTCATTTACTAAAGTAG-ATTTCA
* * * *
151312 TAGCTCAATAAATGGTAAATTG-TATCTTCTCATAGGCATTACATGATAGATGAAAAAGTAATGT
127 TAACACAATAAATGGTAAA-TGATATCCTCTCATAAGCATTACATGATAGATGAAAAAGTAATGT
* ** * *
151376 GGCCACGAGTCATT-TGTAT-AGGATGAATGATTTAATTATTATTTGTTGGTAATTGACTTTTT
191 GGCCACGAGTAATTCT-TATGA-GACAAATGATTTAATTACTATTTGTTAGTAATTGACTTTTT
151438 TACGAAGAAA
Statistics
Matches: 218, Mismatches: 27, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
267 9 0.04
268 207 0.95
269 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.37
Consensus pattern (268 bp):
TGTGTGTGGGACTCGTATACTTTGATGTGTTGAAAGCCCGAGTTCAATTAGTAATAGAGTCGAAA
ACTAGTATATTGGATAGACAACTTTTACATAGCATAACTTCATTTACTAAAGTAGATTTCATAAC
ACAATAAATGGTAAATGATATCCTCTCATAAGCATTACATGATAGATGAAAAAGTAATGTGGCCA
CGAGTAATTCTTATGAGACAAATGATTTAATTACTATTTGTTAGTAATTGACTTTTTCATGAGTA
AGCGATAA
Found at i:153387 original size:30 final size:30
Alignment explanation
Indices: 153353--153446 Score: 102
Period size: 30 Copynumber: 3.2 Consensus size: 30
153343 GTTTTCTTTA
*
153353 AAAATCTCATTTTGACCCTTAAACTTCTCT
1 AAAATCTCATTTTGACCCTCAAACTTCTCT
* *
153383 AAAAT-TACATTTTAACCCTCAAATTTCTCT
1 AAAATCT-CATTTTGACCCTCAAACTTCTCT
* * * *
153413 AAAATCCCATTTTGA-TCTCAAATTTCTCC
1 AAAATCTCATTTTGACCCTCAAACTTCTCT
153442 AAAAT
1 AAAAT
153447 TATGATTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
29 18 0.33
30 37 0.67
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAATCTCATTTTGACCCTCAAACTTCTCT
Found at i:153474 original size:29 final size:29
Alignment explanation
Indices: 153442--153590 Score: 131
Period size: 29 Copynumber: 5.1 Consensus size: 29
153432 AAATTTCTCC
*
153442 AAAATTATGATTTTGCCCTCGAATATCCAA
1 AAAATTATCATTTTGCCCTCGAATATCC-A
* * * *
153472 AAAATAACCATTTTGCTCCT-GAACATCTA
1 AAAATTATCATTTTGC-CCTCGAATATCCA
* **
153501 AAAATTACCA-TTTGCCCTCGAATATAAA
1 AAAATTATCATTTTGCCCTCGAATATCCA
* * *
153529 AAAATTATCATTTTGCCCCCAAACATCCA
1 AAAATTATCATTTTGCCCTCGAATATCCA
* ** *
153558 AAAATTATAATTTTGCCCTTAAATTTCCA
1 AAAATTATCATTTTGCCCTCGAATATCCA
153587 AAAA
1 AAAA
153591 ACACATTTTC
Statistics
Matches: 96, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
27 3 0.03
28 20 0.21
29 51 0.53
30 19 0.20
31 3 0.03
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAATTATCATTTTGCCCTCGAATATCCA
Found at i:153522 original size:58 final size:59
Alignment explanation
Indices: 153442--153591 Score: 160
Period size: 57 Copynumber: 2.6 Consensus size: 59
153432 AAATTTCTCC
** * ** *
153442 AAAATTATGATTTTGCCCTCGAATATCCAAAAAATAACCATTTTGCTCCTGAACATCTA
1 AAAATTACAATTTTGCCCTCGAATATCCAAAAAATAACCATTTTGCCCCCAAACATCCA
* * * *
153501 AAAATTACCA-TTTGCCCTCGAATAT-AAAAAAATTATCATTTTGCCCCCAAACATCCA
1 AAAATTACAATTTTGCCCTCGAATATCCAAAAAATAACCATTTTGCCCCCAAACATCCA
* ** *
153558 AAAATTATAATTTTGCCCTTAAATTTCCAAAAAA
1 AAAATTACAATTTTGCCCTCGAATATCCAAAAAA
153592 CACATTTTCA
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
57 33 0.45
58 27 0.36
59 14 0.19
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.31
Consensus pattern (59 bp):
AAAATTACAATTTTGCCCTCGAATATCCAAAAAATAACCATTTTGCCCCCAAACATCCA
Found at i:164765 original size:72 final size:72
Alignment explanation
Indices: 164648--164793 Score: 292
Period size: 72 Copynumber: 2.0 Consensus size: 72
164638 TCCGCCATGG
164648 TCAGATGTACCAGAAAAGAATTATGCGAGCTTATGACAAAAAGGTTCATCCTATAGAATTTCATG
1 TCAGATGTACCAGAAAAGAATTATGCGAGCTTATGACAAAAAGGTTCATCCTATAGAATTTCATG
164713 AGGGAGA
66 AGGGAGA
164720 TCAGATGTACCAGAAAAGAATTATGCGAGCTTATGACAAAAAGGTTCATCCTATAGAATTTCATG
1 TCAGATGTACCAGAAAAGAATTATGCGAGCTTATGACAAAAAGGTTCATCCTATAGAATTTCATG
164785 AGGGAGA
66 AGGGAGA
164792 TC
1 TC
164794 TAGTTTTGAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.25
Consensus pattern (72 bp):
TCAGATGTACCAGAAAAGAATTATGCGAGCTTATGACAAAAAGGTTCATCCTATAGAATTTCATG
AGGGAGA
Found at i:166375 original size:208 final size:209
Alignment explanation
Indices: 165905--166430 Score: 750
Period size: 208 Copynumber: 2.5 Consensus size: 209
165895 CGAACCCCAA
* *
165905 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTCGTCTTCTTGATGAGATACA
1 CTTCCTGATGAGATACTGAGAAGAAGGTCGAAGCAATAAAATGGTCGTCTTCCTGATGAGATACA
* * * * *
165970 GAAAAGTGAACCAAATCCGTCTTCCTGATGAGATACAAAGAAGCGGATTAAAACAAGTGAGGCGG
66 GAGAAGTGGACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGAGGCGG
* * ** * * *
166035 TCTTGTTCTTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAAAGCTCAATGTGAGTGAA
131 TCATATTCCAGATGAGATACAGAGAAATATACCAAATCAACGAAACAAAGCTCAATGTGAGCGAA
* *
166100 ACTTCGAATCCTAG
196 ACTTCAAAACCTAG
* * ** *
166114 CTTCTTGATGAGATACTGAGAAGTAGGTCGAAGCAATAAAGCGGTCATCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACTGAGAAGAAGGTCGAAGCAATAAAATGGTCGTCTTCCTGATGAGATACA
* * * *
166179 GAGAAGTGGACCAAATCTATCTTCCTGATGAGATATAGAGAAGTGGATTGAAAC-AGTGATGCGG
66 GAGAAGTGGACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGAGGCGG
*
166243 TCATATTCCAGATGAGAT-CAGAGAAATATACCAAATCAACGAAACAAAGTTCAATGTGAGCGAA
131 TCATATTCCAGATGAGATACAGAGAAATATACCAAATCAACGAAACAAAGCTCAATGTGAGCGAA
*
166307 GCTTCAAAACCATAG
196 ACTTCAAAACC-TAG
* * *
166322 CTTCCTGATGAGATAATGAGAAGAAGGTTGAAGCAATAAAATGGTCGTCTTCCTGATGAGACACA
1 CTTCCTGATGAGATACTGAGAAGAAGGTCGAAGCAATAAAATGGTCGTCTTCCTGATGAGATACA
*
166387 GAGAAGTGGACCAAATCTGTCTTCTTGATGAGATACAGAGAAGT
66 GAGAAGTGGACCAAATCTGTCTTCCTGATGAGATACAGAGAAGT
166431 AGACCAAATC
Statistics
Matches: 279, Mismatches: 37, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
207 50 0.18
208 124 0.44
209 105 0.38
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (209 bp):
CTTCCTGATGAGATACTGAGAAGAAGGTCGAAGCAATAAAATGGTCGTCTTCCTGATGAGATACA
GAGAAGTGGACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGATTAAAACAAGTGAGGCGG
TCATATTCCAGATGAGATACAGAGAAATATACCAAATCAACGAAACAAAGCTCAATGTGAGCGAA
ACTTCAAAACCTAG
Found at i:166410 original size:37 final size:37
Alignment explanation
Indices: 166368--166440 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
166358 TAAAATGGTC
*
166368 GTCTTCCTGATGAGACACAGAGAAGTGGACCAAATCT
1 GTCTTCCTGATGAGACACAGAGAAGTAGACCAAATCT
* *
166405 GTCTTCTTGATGAGATACAGAGAAGTAGACCAAATC
1 GTCTTCCTGATGAGACACAGAGAAGTAGACCAAATC
166441 AAATGAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (37 bp):
GTCTTCCTGATGAGACACAGAGAAGTAGACCAAATCT
Found at i:168704 original size:29 final size:29
Alignment explanation
Indices: 168672--168759 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
168662 ATTTAATCCT
168672 CAAACTTCTCCAAAATTTCATTTTGACCC
1 CAAACTTCTCCAAAATTTCATTTTGACCC
* * **
168701 CAAACTCCTCTAAAATCCCATTTTGACCC
1 CAAACTTCTCCAAAATTTCATTTTGACCC
* *
168730 CAAATTTCTCCAAAATTATGATTTTG-CCC
1 CAAACTTCTCCAAAATT-TCATTTTGACCC
168759 C
1 C
168760 TGAATATCCA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 42 0.88
30 6 0.12
ACGTcount: A:0.31, C:0.32, G:0.05, T:0.33
Consensus pattern (29 bp):
CAAACTTCTCCAAAATTTCATTTTGACCC
Found at i:168839 original size:28 final size:29
Alignment explanation
Indices: 168718--168847 Score: 113
Period size: 30 Copynumber: 4.4 Consensus size: 29
168708 CTCTAAAATC
* *
168718 CCATTTTGACCCC-AAATTTCTCCAAAATTA
1 CCATTTT-ACCCCTAAATATC-CAAAAATTA
** * *
168748 TGATTTTGCCCCTGAATATCCAAAAAATTA
1 CCATTTTACCCCTAAATATCC-AAAAATTA
168778 CCATTTTACCCCTAAATATCCAAAAATTA
1 CCATTTTACCCCTAAATATCCAAAAATTA
* * *
168807 CCATTTTA-CCCTCAGATTTCCAAAAATCA
1 CCATTTTACCCCT-AAATATCCAAAAATTA
168836 -CATTTTAACCCC
1 CCATTTT-ACCCC
168848 CGAACTTTTC
Statistics
Matches: 82, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
28 10 0.12
29 35 0.43
30 37 0.45
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.32
Consensus pattern (29 bp):
CCATTTTACCCCTAAATATCCAAAAATTA
Found at i:178779 original size:18 final size:17
Alignment explanation
Indices: 178751--178786 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
178741 GTTACTATTC
*
178751 CTTTTTTTTTTTTTTTT
1 CTTTTTTTTTTTTGTTT
178768 CTTTTTTCTTTTTTGTTT
1 CTTTTTT-TTTTTTGTTT
178786 C
1 C
178787 CTTGTATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (17 bp):
CTTTTTTTTTTTTGTTT
Found at i:183091 original size:2 final size:2
Alignment explanation
Indices: 183084--183114 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
183074 TTCAAGCAGA
183084 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
183115 TAGAGGACTG
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:184552 original size:33 final size:33
Alignment explanation
Indices: 184513--184580 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
184503 TTAAGAAATA
* * *
184513 TCAA-TTTAATAATAAATATTATTTTTGTCAGTT
1 TCAATTTTAACAATAAATATAATTTTT-TCACTT
*
184546 TCAATTTTAACAGTAAATATAATTTTTTCACTT
1 TCAATTTTAACAATAAATATAATTTTTTCACTT
184579 TC
1 TC
184581 GATATGAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 11 0.37
34 19 0.63
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.50
Consensus pattern (33 bp):
TCAATTTTAACAATAAATATAATTTTTTCACTT
Found at i:186231 original size:4 final size:4
Alignment explanation
Indices: 186222--186258 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
186212 ATCAACCAAT
* *
186222 TTTC TTTC TTTC TTTC TTTC TTTC TTTT TTTT TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
186259 AAATTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (4 bp):
TTTC
Found at i:187105 original size:32 final size:32
Alignment explanation
Indices: 187034--187118 Score: 118
Period size: 32 Copynumber: 2.7 Consensus size: 32
187024 AAAAACAAAT
* *
187034 ACCTAATATCC-AAATTGATTAATCTTAATAAT
1 ACCTAATA-CCTAAATTAATTAATCTTAATAAC
**
187066 ATTTAATACCTAAATTAATTAATCTTAATAAC
1 ACCTAATACCTAAATTAATTAATCTTAATAAC
187098 ACCTAATACCTAAATTAATTA
1 ACCTAATACCTAAATTAATTA
187119 TTTTTATATG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 2 0.04
32 44 0.96
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.38
Consensus pattern (32 bp):
ACCTAATACCTAAATTAATTAATCTTAATAAC
Found at i:187274 original size:15 final size:15
Alignment explanation
Indices: 187254--187290 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
187244 TATTTAGATT
187254 TAAATAAGTAAAAAC
1 TAAATAAGTAAAAAC
* *
187269 TAAATAAGTAAAGAT
1 TAAATAAGTAAAAAC
187284 TAAATAA
1 TAAATAA
187291 AATGAGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (15 bp):
TAAATAAGTAAAAAC
Found at i:191478 original size:2 final size:2
Alignment explanation
Indices: 191473--191503 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
191463 AACCCATAGT
191473 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
191504 GATAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:199583 original size:57 final size:59
Alignment explanation
Indices: 199517--199651 Score: 166
Period size: 60 Copynumber: 2.3 Consensus size: 59
199507 TATTTGGTAT
* * * * *
199517 ATATTTTTTCTTAATTTGATACTTAAA-TTTTTTT-ATTCAATTTGGTATCTGAACTTG
1 ATATTTTTTCCTAATTTGATACTTAAATTTTTTTTGATCCAATTTGATACCTGAACTCG
* *
199574 ATATTTTTTCCTAATTTGGTATTTAAATTTTTTTTGGATCCAATTTGATACCTGAACTCG
1 ATATTTTTTCCTAATTTGATACTTAAATTTTTTTT-GATCCAATTTGATACCTGAACTCG
*
199634 ACATTTTTTCCCTAATTT
1 ATATTTTTT-CCTAATTT
199652 TTTTTTTGGT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 24 0.36
58 7 0.11
60 27 0.41
61 8 0.12
ACGTcount: A:0.25, C:0.13, G:0.09, T:0.53
Consensus pattern (59 bp):
ATATTTTTTCCTAATTTGATACTTAAATTTTTTTTGATCCAATTTGATACCTGAACTCG
Found at i:210836 original size:2 final size:2
Alignment explanation
Indices: 210829--210855 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
210819 TAATTTTTGT
210829 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
210856 GATTTATTCT
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:217096 original size:2 final size:2
Alignment explanation
Indices: 217089--217128 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
217079 GATTGATGCG
* *
217089 AT AT AT AT AT AT AT AT AT AC AT AT AT AT GT 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
217129 GATTATCATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:217533 original size:23 final size:24
Alignment explanation
Indices: 217496--217543 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
217486 TTAAAAATTT
* *
217496 ATATTATTTTTATTTT-ATTATTA
1 ATATTACTTTGATTTTGATTATTA
217519 ATATTACTTTGATTTTGGATTATTA
1 ATATTACTTTGATTTT-GATTATTA
217544 TTATACTCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.67
25 7 0.33
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.62
Consensus pattern (24 bp):
ATATTACTTTGATTTTGATTATTA
Found at i:219998 original size:16 final size:18
Alignment explanation
Indices: 219977--220011 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
219967 TTCATAAAAA
219977 ATAAAA-TATTA-TTTTT
1 ATAAAATTATTACTTTTT
219993 ATAAAATTATTACTTTTT
1 ATAAAATTATTACTTTTT
220011 A
1 A
220012 AATTAGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATAAAATTATTACTTTTT
Found at i:220377 original size:13 final size:14
Alignment explanation
Indices: 220354--220382 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
220344 GGTTGATTAA
220354 AACTAAAATTAACT
1 AACTAAAATTAACT
220368 AACT-AAATTAACT
1 AACTAAAATTAACT
220381 AA
1 AA
220383 AGAACACGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (14 bp):
AACTAAAATTAACT
Found at i:229545 original size:12 final size:12
Alignment explanation
Indices: 229530--229599 Score: 61
Period size: 12 Copynumber: 5.9 Consensus size: 12
229520 ATAACATCCA
229530 AACAACAAAAAT
1 AACAACAAAAAT
*
229542 AACAACCAAAAT
1 AACAACAAAAAT
* * *
229554 AGCAATAAAAAC
1 AACAACAAAAAT
** *
229566 AAC-AGTAAAAC
1 AACAACAAAAAT
229577 AACAACAAAAAT
1 AACAACAAAAAT
*
229589 AACAGCAAAAA
1 AACAACAAAAA
229600 CAATACTAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
11 9 0.20
12 36 0.80
ACGTcount: A:0.70, C:0.19, G:0.04, T:0.07
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:229643 original size:22 final size:23
Alignment explanation
Indices: 229604--229667 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 23
229594 CAAAAACAAT
* ** *
229604 ACTAAAACAGTAAAAAAATAGC-
1 ACTAAAACAGCATCAAAATAACA
*
229626 ACTAAAACAGCATCAAAACAACA
1 ACTAAAACAGCATCAAAATAACA
**
229649 ACTAAAATGGCATCAAAAT
1 ACTAAAACAGCATCAAAAT
229668 TGCAACTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 17 0.52
23 16 0.48
ACGTcount: A:0.59, C:0.19, G:0.08, T:0.14
Consensus pattern (23 bp):
ACTAAAACAGCATCAAAATAACA
Found at i:230525 original size:15 final size:15
Alignment explanation
Indices: 230476--230525 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
230466 TCATATTTAT
230476 ATAATTAAAATATTC
1 ATAATTAAAATATTC
* * *
230491 AT-CTTCAAAAAAAT-
1 ATAATT-AAAATATTC
230505 ATAATTAAAATATTC
1 ATAATTAAAATATTC
230520 ATAATT
1 ATAATT
230526 TTATACTAGG
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATTAAAATATTC
Found at i:230898 original size:29 final size:32
Alignment explanation
Indices: 230866--230924 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
230856 TATTTTAACT
230866 TTTAT-ACCGCAA-A-ATATTTATTATTAATA
1 TTTATAACCGCAATATATATTTATTATTAATA
* *
230895 TTTATAATCGTAATATATATTTATTATTAA
1 TTTATAACCGCAATATATATTTATTATTAA
230925 AATATTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 5 0.20
31 1 0.04
32 14 0.56
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (32 bp):
TTTATAACCGCAATATATATTTATTATTAATA
Found at i:230980 original size:14 final size:15
Alignment explanation
Indices: 230963--231003 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
230953 ACATGAAGAA
230963 TATTATTTAAAAAT-
1 TATTATTTAAAAATG
*
230977 TATTATTTTTAAAATG
1 TATTA-TTTAAAAATG
230993 TATTA-TTAAAA
1 TATTATTTAAAA
231004 CAAAATTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 10 0.43
15 8 0.35
16 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTATTTAAAAATG
Found at i:230989 original size:16 final size:17
Alignment explanation
Indices: 230963--231000 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
230953 ACATGAAGAA
230963 TATTATTTAAAAAT-TAT
1 TATTATTT-AAAATGTAT
230980 TATT-TTTAAAATGTAT
1 TATTATTTAAAATGTAT
230996 TATTA
1 TATTA
231001 AAACAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.26
16 10 0.53
17 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TATTATTTAAAATGTAT
Found at i:240323 original size:24 final size:24
Alignment explanation
Indices: 240304--240372 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
240294 ATGAGCCAAA
*
240304 AATGATTAGCTTTTACGAGCCCAG
1 AATGATTAGCTCTTACGAGCCCAG
240328 AAT-AGTTAGCTCTTACGAGCCCAG
1 AATGA-TTAGCTCTTACGAGCCCAG
*
240352 AATGGTTAGCTCTTACGAGCC
1 AATGATTAGCTCTTACGAGCC
240373 TAGATAGAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
AATGATTAGCTCTTACGAGCCCAG
Done.