Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010253.1 Kokia drynarioides strain JFW-HI SEQ_125090, 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: 208150
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 227 characters in sequence are not A, C, G, or T
Found at i:277 original size:14 final size:13
Alignment explanation
Indices: 258--339 Score: 59
Period size: 12 Copynumber: 6.6 Consensus size: 13
248 TACTTTTTTT
258 TTTCCTTCTCCTTC
1 TTTCCTTCT-CTTC
272 TTTCCTT-TCTTC
1 TTTCCTTCTCTTC
*
284 TCTTTCTTC-CTTC
1 T-TTCCTTCTCTTC
*
297 -TTCTTTCT-TTC
1 TTTCCTTCTCTTC
*
308 TTTCTTTCTCTT-
1 TTTCCTTCTCTTC
* *
320 TTTTCTT-TCTTT
1 TTTCCTTCTCTTC
332 TTTCCTTC
1 TTTCCTTC
340 ATTTTTCGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
11 12 0.22
12 24 0.44
13 12 0.22
14 7 0.13
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTCCTTCTCTTC
Found at i:285 original size:18 final size:18
Alignment explanation
Indices: 262--330 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 18
252 TTTTTTTTTC
262 CTTCTCCTTCTTTCCTTT
1 CTTCTCCTTCTTTCCTTT
*
280 CTTCTCTTTC-TTCC-TT
1 CTTCTCCTTCTTTCCTTT
296 CTTCT--TTCTTT-CTTT
1 CTTCTCCTTCTTTCCTTT
*
311 CTT-TCTCTT-TTTTCTTT
1 CTTCTC-CTTCTTTCCTTT
328 CTT
1 CTT
331 TTTTCCTTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
14 5 0.11
15 7 0.16
16 10 0.23
17 13 0.30
18 9 0.20
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTCTCCTTCTTTCCTTT
Found at i:304 original size:4 final size:4
Alignment explanation
Indices: 269--335 Score: 68
Period size: 4 Copynumber: 16.8 Consensus size: 4
259 TTCCTTCTCC
*
269 TTCT TTCCT TTCT TCTCT TTC- TTCC TTC- TTCT TTCT TTCT TTCT TTCT
1 TTCT TT-CT TTCT T-TCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
*
317 CTTTT TTCT TTCT TT-T TTC
1 -TTCT TTCT TTCT TTCT TTC
336 CTTCATTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
3 9 0.16
4 35 0.64
5 11 0.20
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
TTCT
Found at i:317 original size:32 final size:32
Alignment explanation
Indices: 259--335 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
249 ACTTTTTTTT
*
259 TTCCTTC-TCCTTCTTTCCTTTCTTCTCTTTC
1 TTCCTTCTTCTTTCTTTCCTTTCTTCTCTTTC
*
290 TTCCTTCTTCTTTCTTT-CTTTCTTTCTCTTTT
1 TTCCTTCTTCTTTCTTTCCTTTC-TTCTCTTTC
* *
322 TTCTTTCTTTTTTC
1 TTCCTTCTTCTTTC
336 CTTCATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 12 0.30
32 28 0.70
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (32 bp):
TTCCTTCTTCTTTCTTTCCTTTCTTCTCTTTC
Found at i:332 original size:11 final size:11
Alignment explanation
Indices: 277--346 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
267 CCTTCTTTCC
277 TTTCTTCTCTTT
1 TTTCTT-TCTTT
* * *
289 CTTCCTTCTTC
1 TTTCTTTCTTT
300 TTTCTTTCTTT
1 TTTCTTTCTTT
311 CTTTC--TCTTT
1 -TTTCTTTCTTT
321 TTTCTTTCTTT
1 TTTCTTTCTTT
* *
332 TTTCCTTCATT
1 TTTCTTTCTTT
343 TTTC
1 TTTC
347 GTTGGTCCCC
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
9 4 0.09
10 5 0.11
11 30 0.64
12 8 0.17
ACGTcount: A:0.01, C:0.27, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTCTTTCTTT
Found at i:344 original size:12 final size:11
Alignment explanation
Indices: 266--346 Score: 60
Period size: 11 Copynumber: 7.2 Consensus size: 11
256 TTTTTCCTTC
266 TCCTTCTTTCCTT
1 TCCTTCTTT--TT
279 T-CTTCTCTTTCT
1 TCCTTCT-TTT-T
*
291 TCCTTCTTCTT
1 TCCTTCTTTTT
*
302 TCTTTCTTTCTT
1 TCCTTCTTT-TT
314 T-C-TCTTTTT
1 TCCTTCTTTTT
*
323 TCTTTCTTTTT
1 TCCTTCTTTTT
*
334 TCCTTCATTTT
1 TCCTTCTTTTT
345 TC
1 TC
347 GTTGGTCCCC
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
9 3 0.05
10 5 0.09
11 27 0.49
12 12 0.22
13 8 0.15
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (11 bp):
TCCTTCTTTTT
Found at i:1359 original size:120 final size:119
Alignment explanation
Indices: 1134--1366 Score: 369
Period size: 120 Copynumber: 1.9 Consensus size: 119
1124 GAATAAACTT
*
1134 CATCGACGGGATAAAGGTTTCAATCTCAACATTAATAAAATATTACAGCATCTTGACAACTGATT
1 CATCGACGCGATAAAGGTTTCAATCTCAACATTAATAAAATATTACAGCATCTTGACAACTGATT
*
1199 TTATCACAAATCAAACACGACATATCTAGAGTGATTACAAGTAACTAATACGTC
66 TTATCACAAATCAAACACGACATATCTAGAGTGATTACAAGCAACTAATACGTC
* * *
1253 CATCGACGCGATAAAAGGTTTCAATCTCAACATTAATAGAATATTATAGCA-CGTTGACAATTGA
1 CATCGACGCGAT-AAAGGTTTCAATCTCAACATTAATAAAATATTACAGCATC-TTGACAACTGA
* **
1317 TTTTATCACAATTCAAGTACGACATATCTAGAGTGATTACAAGCAACTAA
64 TTTTATCACAAATCAAACACGACATATCTAGAGTGATTACAAGCAACTAA
1367 CATTATAAGA
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
119 12 0.12
120 92 0.88
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.28
Consensus pattern (119 bp):
CATCGACGCGATAAAGGTTTCAATCTCAACATTAATAAAATATTACAGCATCTTGACAACTGATT
TTATCACAAATCAAACACGACATATCTAGAGTGATTACAAGCAACTAATACGTC
Found at i:1541 original size:16 final size:18
Alignment explanation
Indices: 1515--1561 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
1505 ATACTATAAT
1515 AACAGATAAAAACTT-TTA
1 AACA-ATAAAAACTTATTA
*
1533 AA-AATAAAAATTTATTA
1 AACAATAAAAACTTATTA
*
1550 AACAAAAAAAAC
1 AACAATAAAAAC
1562 CAAAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 9 0.38
17 6 0.25
18 9 0.38
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (18 bp):
AACAATAAAAACTTATTA
Found at i:3045 original size:18 final size:19
Alignment explanation
Indices: 3010--3047 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
3000 CACCGATCGA
3010 TAAATCGAATTAAATCAAT
1 TAAATCGAATTAAATCAAT
*
3029 TAAATCG-ATTAATTCAAT
1 TAAATCGAATTAAATCAAT
3047 T
1 T
3048 TTAACTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAATCGAATTAAATCAAT
Found at i:3717 original size:14 final size:14
Alignment explanation
Indices: 3698--3726 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3688 AATTAAGTTG
3698 TATTTTATCATATT
1 TATTTTATCATATT
3712 TATTTTATCATATT
1 TATTTTATCATATT
3726 T
1 T
3727 TCTCTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTTTATCATATT
Found at i:4031 original size:29 final size:29
Alignment explanation
Indices: 3997--4056 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
3987 AATACTTTTA
3997 CCTTTAATAATCTCACCATGCCAAAAGAC
1 CCTTTAATAATCTCACCATGCCAAAAGAC
4026 CCTTTAATAATCTCACCATGCCAAAAGAC
1 CCTTTAATAATCTCACCATGCCAAAAGAC
4055 CC
1 CC
4057 ATCAGTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.37, C:0.33, G:0.07, T:0.23
Consensus pattern (29 bp):
CCTTTAATAATCTCACCATGCCAAAAGAC
Found at i:4221 original size:15 final size:15
Alignment explanation
Indices: 4201--4231 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4191 TATTTTATGA
4201 TTTATGAATATTATT
1 TTTATGAATATTATT
*
4216 TTTATGGATATTATT
1 TTTATGAATATTATT
4231 T
1 T
4232 AGTAAAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (15 bp):
TTTATGAATATTATT
Found at i:7664 original size:23 final size:21
Alignment explanation
Indices: 7634--7675 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
7624 CTAGCTTGGA
7634 TAAAAAAAGTTTAAGTCTCAATG
1 TAAAAAAAG-TTAAGT-TCAATG
7657 TAAAAAAAGTTAAGTTCAA
1 TAAAAAAAGTTAAGTTCAA
7676 AATTTAATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (21 bp):
TAAAAAAAGTTAAGTTCAATG
Found at i:13231 original size:121 final size:121
Alignment explanation
Indices: 13017--13260 Score: 470
Period size: 121 Copynumber: 2.0 Consensus size: 121
13007 TTGAATTATT
*
13017 TCGAATTTAAATTATTTTAAATTCAAATTAGTAGTTTGTTGATTTTTATAGTGAACTGGAATTGG
1 TCGAATTTAAATTATTTTAAATTCAAATTAGTAGTTCGTTGATTTTTATAGTGAACTGGAATTGG
13082 ATTTAAATTGAGATTAATCAAGTCAAATTTTTAATAAATGTCTTGACGAGTTCATA
66 ATTTAAATTGAGATTAATCAAGTCAAATTTTTAATAAATGTCTTGACGAGTTCATA
*
13138 TCGAATTTAAATTATTTTAAATTCAAATTAGTAGTTCGTTGATTTTTATAGTGAATTGGAATTGG
1 TCGAATTTAAATTATTTTAAATTCAAATTAGTAGTTCGTTGATTTTTATAGTGAACTGGAATTGG
13203 ATTTAAATTGAGATTAATCAAGTCAAATTTTTAATAAATGTCTTGACGAGTTCATA
66 ATTTAAATTGAGATTAATCAAGTCAAATTTTTAATAAATGTCTTGACGAGTTCATA
13259 TC
1 TC
13261 ACTTCAAGAG
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 121 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (121 bp):
TCGAATTTAAATTATTTTAAATTCAAATTAGTAGTTCGTTGATTTTTATAGTGAACTGGAATTGG
ATTTAAATTGAGATTAATCAAGTCAAATTTTTAATAAATGTCTTGACGAGTTCATA
Found at i:30717 original size:31 final size:32
Alignment explanation
Indices: 30675--30736 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
30665 CAAAATGATT
*
30675 ATCGAATTATTCAAAAACTTTTA-TTTAAGTC
1 ATCGAACTATTCAAAAACTTTTATTTTAAGTC
**
30706 ATCGAACTATTCAAAAGTTTTTATTTTAAGT
1 ATCGAACTATTCAAAAACTTTTATTTTAAGT
30737 AATTAAGTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (32 bp):
ATCGAACTATTCAAAAACTTTTATTTTAAGTC
Found at i:52126 original size:48 final size:47
Alignment explanation
Indices: 51974--52127 Score: 109
Period size: 48 Copynumber: 3.2 Consensus size: 47
51964 CTTTGTTATT
*
51974 CAATAAATCATTTAAGAAAAAAACAT-TTACTATAAAAATACTAAATC
1 CAATAAATCATTTAAGAAAAAAA-ATGTTACTATAAATATACTAAATC
* * * * * * ** ** *
52021 CAATCAATCATAT-A-TAATAAAAT-TGACTGAATTAATTTATTGTTTATT
1 CAATAAATCATTTAAGAAAAAAAATGTTACT--A-TAA-ATATACTAAATC
52069 CAATAAATCATTTAAGAAAAAAAATGTTCACTATAAATATACTAAATC
1 CAATAAATCATTTAAGAAAAAAAATGTT-ACTATAAATATACTAAATC
*
52117 CAATCAATCAT
1 CAATAAATCAT
52128 ATTTAATAAA
Statistics
Matches: 75, Mismatches: 24, Indels: 15
0.66 0.21 0.13
Matches are distributed among these distances:
44 6 0.08
45 5 0.07
46 2 0.03
47 14 0.19
48 32 0.43
49 4 0.05
50 8 0.11
51 1 0.01
52 3 0.04
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (47 bp):
CAATAAATCATTTAAGAAAAAAAATGTTACTATAAATATACTAAATC
Found at i:52150 original size:96 final size:95
Alignment explanation
Indices: 51969--52150 Score: 294
Period size: 96 Copynumber: 1.9 Consensus size: 95
51959 AGCTTCTTTG
51969 TTATTCAATAAATCATTTAAGAAAAAAACATTTACTATAAAAATACTAAATCCAATCAATCATAT
1 TTATTCAATAAATCATTTAAGAAAAAAACATTTACTATAAAAATACTAAATCCAATCAATCATAT
*
52034 ATAATAAAATTGACTGAATTAATTTATTGT
66 ATAATAAAATTGACTAAATTAATTTATTGT
*
52064 TTATTCAATAAATCATTTAAGAAAAAAA-ATGTTCACTATAAATATACTAAATCCAATCAATCAT
1 TTATTCAATAAATCATTTAAGAAAAAAACAT-TT-ACTATAAAAATACTAAATCCAATCAATCAT
* * *
52128 ATTTAATAAAGTTGCCTAAATTA
64 ATATAATAAAATTGACTAAATTA
52151 GTATTTTTAT
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
94 2 0.03
95 30 0.38
96 48 0.60
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (95 bp):
TTATTCAATAAATCATTTAAGAAAAAAACATTTACTATAAAAATACTAAATCCAATCAATCATAT
ATAATAAAATTGACTAAATTAATTTATTGT
Found at i:58511 original size:3 final size:3
Alignment explanation
Indices: 58503--58528 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58493 TAATCAGCTG
58503 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
58529 CTTTTTGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:62733 original size:2 final size:2
Alignment explanation
Indices: 62726--62759 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
62716 CAATGTATTG
62726 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
62760 GTACGTATAT
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:65106 original size:19 final size:18
Alignment explanation
Indices: 65084--65126 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
65074 ATTTTTATAA
65084 TAATTGATAACATATATTT
1 TAATTGATAA-ATATATTT
*
65103 TAATTTTATAAATATATTT
1 TAA-TTGATAAATATATTT
*
65122 AAATT
1 TAATT
65127 ACTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 2 0.10
19 13 0.62
20 6 0.29
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
TAATTGATAAATATATTT
Found at i:67214 original size:31 final size:31
Alignment explanation
Indices: 67176--67246 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
67166 ACTAAAAAAT
67176 GGGCAAATTAGTCCTTGTACATTAGATCAAA
1 GGGCAAATTAGTCCTTGTACATTAGATCAAA
*
67207 GGGCAAATTAGTTCTTGTACATTAGATCAAA
1 GGGCAAATTAGTCCTTGTACATTAGATCAAA
*
67238 GAGCAAATT
1 GGGCAAATT
67247 GATCCTTCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (31 bp):
GGGCAAATTAGTCCTTGTACATTAGATCAAA
Found at i:68694 original size:13 final size:13
Alignment explanation
Indices: 68676--68700 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68666 TCGTACATCT
68676 AGAATTTAATTTA
1 AGAATTTAATTTA
68689 AGAATTTAATTT
1 AGAATTTAATTT
68701 CTCTGCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
AGAATTTAATTTA
Found at i:72689 original size:16 final size:17
Alignment explanation
Indices: 72658--72699 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
72648 GTTTTAACTT
*
72658 TTTATTTATAAAATATTA
1 TTTATTT-TAAAATATAA
72676 TTTATTTT-AAATATAA
1 TTTATTTTAAAATATAA
72692 TTTATTTT
1 TTTATTTT
72700 TACGTGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.65
17 1 0.04
18 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATTTTAAAATATAA
Found at i:73352 original size:3 final size:3
Alignment explanation
Indices: 73344--73387 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
73334 GTGTCTAAAT
73344 TTA TTA TTA CTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
73388 GGTTAGATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:79152 original size:2 final size:2
Alignment explanation
Indices: 79147--79183 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
79137 GATTTTTTAA
79147 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
79184 GAAGTAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:87406 original size:31 final size:31
Alignment explanation
Indices: 87363--87423 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
87353 TTATTCACAC
87363 ATTAAAACTTGAACTAGACA-ATTATTCTTAT
1 ATTAAAACTTGAACTAGA-AGATTATTCTTAT
* *
87394 ATTAAAGA-TTGAATTTGAAGATTATTCTTA
1 ATTAAA-ACTTGAACTAGAAGATTATTCTTA
87424 CTTTAAGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 1 0.04
31 24 0.92
32 1 0.04
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (31 bp):
ATTAAAACTTGAACTAGAAGATTATTCTTAT
Found at i:93847 original size:21 final size:21
Alignment explanation
Indices: 93803--93847 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
93793 AAATTTTATT
* *
93803 ATTTTTATAAGTTTTTTTAGA
1 ATTTTTATAAGTTTTTATAAA
*
93824 ATTTTTATATGTTTTTATAAA
1 ATTTTTATAAGTTTTTATAAA
93845 ATT
1 ATT
93848 ATATATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (21 bp):
ATTTTTATAAGTTTTTATAAA
Found at i:93854 original size:2 final size:2
Alignment explanation
Indices: 93847--93885 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
93837 TTTATAAAAT
93847 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93886 TTGAATATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:93951 original size:14 final size:15
Alignment explanation
Indices: 93927--93955 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
93917 TACTTTATTA
93927 AATTATAATTTTTAT
1 AATTATAATTTTTAT
93942 AATT-TAATTTTTAT
1 AATTATAATTTTTAT
93956 TAAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTATAATTTTTAT
Found at i:96920 original size:6 final size:7
Alignment explanation
Indices: 96904--96930 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
96894 TATTATCACC
96904 AAAAATA
1 AAAAATA
96911 AAAAATA
1 AAAAATA
96918 AAAAATA
1 AAAAATA
96925 AAAAAT
1 AAAAAT
96931 CTTGTGCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:107365 original size:18 final size:17
Alignment explanation
Indices: 107331--107369 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
107321 AAATGGTAAG
107331 AAAAAAAAAAAGTAATTT
1 AAAAAAAAAAAGTAA-TT
107349 AAAAAAAAAACAG-AATT
1 AAAAAAAAAA-AGTAATT
107366 AAAA
1 AAAA
107370 GGAGTAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 12 0.60
19 2 0.10
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (17 bp):
AAAAAAAAAAAGTAATT
Found at i:108269 original size:24 final size:24
Alignment explanation
Indices: 108234--108289 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
108224 TAAAAATAAA
*
108234 ATAAAATC-AAGTCTTTTTGTCCT
1 ATAAAAACTAAGTCTTTTTGTCCT
108257 ATAAAAACTAAGTCTTTTTGTCCT
1 ATAAAAACTAAGTCTTTTTGTCCT
108281 ATAAAAACT
1 ATAAAAACT
108290 CTCTTCAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 7 0.23
24 24 0.77
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (24 bp):
ATAAAAACTAAGTCTTTTTGTCCT
Found at i:110681 original size:25 final size:25
Alignment explanation
Indices: 110634--110681 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
110624 TATTTTATCG
*
110634 TCAAATTCAATTTTGTGTGAAAAGT
1 TCAAATTCAATTTTGTGTAAAAAGT
* *
110659 TCAAATTCAATTTTTTTTAAAAA
1 TCAAATTCAATTTTGTGTAAAAA
110682 AAATTAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (25 bp):
TCAAATTCAATTTTGTGTAAAAAGT
Found at i:118257 original size:60 final size:60
Alignment explanation
Indices: 118186--118305 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
118176 GAAAAAGTTT
118186 TATATGTATTTTGAACTTAAGATTTCAAATTGAATTTAGTCAATGGTACCAAAGAAATTA
1 TATATGTATTTTGAACTTAAGATTTCAAATTGAATTTAGTCAATGGTACCAAAGAAATTA
*
118246 TATATGTATTTTGAACTTAATATTTCAAATTGAATTTAGTCAATGGTACCAAAGAAATTA
1 TATATGTATTTTGAACTTAAGATTTCAAATTGAATTTAGTCAATGGTACCAAAGAAATTA
118306 GATAATTTAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.39
Consensus pattern (60 bp):
TATATGTATTTTGAACTTAAGATTTCAAATTGAATTTAGTCAATGGTACCAAAGAAATTA
Found at i:118345 original size:27 final size:25
Alignment explanation
Indices: 118308--118357 Score: 82
Period size: 27 Copynumber: 1.9 Consensus size: 25
118298 AGAAATTAGA
118308 TAATTTACATTTTAAATTACTTTTTT
1 TAATTTACATTTTAAATTA-TTTTTT
118334 TAATATTACATTTTAAATTATTTT
1 TAAT-TTACATTTTAAATTATTTT
118358 ATTTGGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (25 bp):
TAATTTACATTTTAAATTATTTTTT
Found at i:119872 original size:118 final size:117
Alignment explanation
Indices: 119664--119889 Score: 267
Period size: 118 Copynumber: 1.9 Consensus size: 117
119654 TTAGTTGTTC
* * *
119664 TAGGTTCAGGTTGTTTGGTTTGAGGGTCCAATTTTCAAATTTTGATCAATTTAGATTTAAGTCAA
1 TAGGTTCAAGTTGTTGGGTTTGAGGGTCCAATTTTCAAATTTTGATCAATTAAGATTTAAGTCAA
** ** * * * *
119729 TTTGAATTACTTGTTCAGGTCATTTCGAATTCAGCTCATTTTTGGGTTGCTT
66 TTCAAACCACTTGGTCAGATCATTTCAAATTCAGCTAATTTTTGGGTTGCTT
* * * *
119781 TAGGTTCAAGTTGTTGGGTTTGAGGTTCTGATTTTTCAAATTTTGGTCAATTCAAG-TTTAAGTC
1 TAGGTTCAAGTTGTTGGGTTTGAGGGTC-CAATTTTCAAATTTTGATCAATT-AAGATTTAAGTC
*
119845 AATTCAAACCACTTGGTC-GAATTATTTCAAATTCAGCTAATTTTT
64 AATTCAAACCACTTGGTCAG-ATCATTTCAAATTCAGCTAATTTTT
119890 TTTTTTTTTT
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
117 26 0.29
118 62 0.69
119 2 0.02
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.44
Consensus pattern (117 bp):
TAGGTTCAAGTTGTTGGGTTTGAGGGTCCAATTTTCAAATTTTGATCAATTAAGATTTAAGTCAA
TTCAAACCACTTGGTCAGATCATTTCAAATTCAGCTAATTTTTGGGTTGCTT
Found at i:121781 original size:65 final size:65
Alignment explanation
Indices: 121707--121837 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
121697 TTATGCTGTT
121707 AAGTGTTTTTTTTTTAAAGTTCGGTTAACAAGATTCAAGCGACAGTTCAACAATAGGTACAATGG
1 AAGTGTTTTTTTTTTAAAGTTCGGTTAACAAGATTCAAGCGACAGTTCAACAATAGGTACAATGG
121772 AAGTGTTTTTTTTTTAAAGTTCGGTTAACAAGATTCAAGCGACAGTTCAACAATAGGTACAATGG
1 AAGTGTTTTTTTTTTAAAGTTCGGTTAACAAGATTCAAGCGACAGTTCAACAATAGGTACAATGG
121837 A
1 A
121838 CCAATATCCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (65 bp):
AAGTGTTTTTTTTTTAAAGTTCGGTTAACAAGATTCAAGCGACAGTTCAACAATAGGTACAATGG
Found at i:129999 original size:150 final size:150
Alignment explanation
Indices: 129728--130028 Score: 496
Period size: 150 Copynumber: 2.0 Consensus size: 150
129718 CATGAGTAAA
* * *
129728 TTAGCTTTCCTCATCATCATCCCCTCCTCTTTCTTTAGCCTTGTTGGTATAGTGTATCAATAATA
1 TTAGCTTTCCTCATCATCATCCCCTCCTCTTTCTCTAGCCTTGTTAGTATAGTGTATCAACAATA
** *
129793 ATATTAATTTTTTAATAACTTAATTAAAATATTTTAAAATTTAGAAATCAATTTAATATCTGAAA
66 ATATTAATTTTTTAATAACTTAATTAAAATATTAAAAAATTTAAAAATCAATTTAATATCTGAAA
129858 AATATCTTTTACTTTCCTTT
131 AATATCTTTTACTTTCCTTT
* * * *
129878 TTAGCTTTCCTCATCATTATCCCTTCCTTTTTCTCTAGCCTTGTTAGTA-ACGTGTATTAACAAT
1 TTAGCTTTCCTCATCATCATCCCCTCCTCTTTCTCTAGCCTTGTTAGTATA-GTGTATCAACAAT
129942 AATATTAATTTTTTAATAACTTAATTAAAATATTAAAAAATTTAAAAATCAATTTAATATCTGAA
65 AATATTAATTTTTTAATAACTTAATTAAAATATTAAAAAATTTAAAAATCAATTTAATATCTGAA
130007 AAATATCTTTTACTTTCCTTT
130 AAATATCTTTTACTTTCCTTT
130028 T
1 T
130029 ACATCGTTAA
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
149 1 0.01
150 139 0.99
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.46
Consensus pattern (150 bp):
TTAGCTTTCCTCATCATCATCCCCTCCTCTTTCTCTAGCCTTGTTAGTATAGTGTATCAACAATA
ATATTAATTTTTTAATAACTTAATTAAAATATTAAAAAATTTAAAAATCAATTTAATATCTGAAA
AATATCTTTTACTTTCCTTT
Found at i:136096 original size:20 final size:20
Alignment explanation
Indices: 136055--136107 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
136045 CCAAAACAAC
136055 AACAA-AAATAAAAACATCAA
1 AACAATAAA-AAAAACATCAA
*
136075 AACAGTAAAAAAAACA-CTAA
1 AACAATAAAAAAAACATC-AA
*
136095 AATAATAAAAAAA
1 AACAATAAAAAAA
136108 GCACCAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 24 0.86
21 3 0.11
ACGTcount: A:0.75, C:0.11, G:0.02, T:0.11
Consensus pattern (20 bp):
AACAATAAAAAAAACATCAA
Found at i:136116 original size:20 final size:20
Alignment explanation
Indices: 136064--136119 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
136054 CAACAAAAAT
* * *
136064 AAAAACATCAAAACAGTAAA
1 AAAAACACCAAAATAATAAA
*
136084 AAAAACACTAAAATAATAAA
1 AAAAACACCAAAATAATAAA
*
136104 AAAAGCACCAAAATAA
1 AAAAACACCAAAATAA
136120 CAATATAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.71, C:0.14, G:0.04, T:0.11
Consensus pattern (20 bp):
AAAAACACCAAAATAATAAA
Found at i:153551 original size:15 final size:15
Alignment explanation
Indices: 153531--153559 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
153521 AAATGTTTAC
153531 TCATGCTTATTTGCT
1 TCATGCTTATTTGCT
153546 TCATGCTTATTTGC
1 TCATGCTTATTTGC
153560 CGCGCTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.52
Consensus pattern (15 bp):
TCATGCTTATTTGCT
Found at i:159328 original size:18 final size:18
Alignment explanation
Indices: 159305--159349 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
159295 CATTAATACA
*
159305 AGAACCTGAAACAGAACC
1 AGAACCGGAAACAGAACC
* *
159323 AGAACCGGAAGCCGAACC
1 AGAACCGGAAACAGAACC
159341 AGAACCGGA
1 AGAACCGGA
159350 GCATGAACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.44, C:0.29, G:0.24, T:0.02
Consensus pattern (18 bp):
AGAACCGGAAACAGAACC
Found at i:164643 original size:61 final size:59
Alignment explanation
Indices: 164520--164645 Score: 159
Period size: 59 Copynumber: 2.1 Consensus size: 59
164510 GTCATGCCAT
* *
164520 GACACCCCATTTTTTTTCTAGTAAAAAATTAATTTTTTTGTGTTGGCCATGCAATGGCC
1 GACACCCCATTTTTTATCTAGTAAAAAATTAATTTTTTTATGTTGGCCATGCAATGGCC
*
164579 GACACTCCC-TTTTTTATC-AGATAAAAAATTCGAA-TTTTTTATGTTGGTCATTGCAATGGCC
1 GACAC-CCCATTTTTTATCTAG-TAAAAAATT--AATTTTTTTATGTTGGCCA-TGCAATGGCC
164640 GACACC
1 GACACC
164646 AACTTTCCCT
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
58 2 0.03
59 22 0.37
60 18 0.31
61 17 0.29
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (59 bp):
GACACCCCATTTTTTATCTAGTAAAAAATTAATTTTTTTATGTTGGCCATGCAATGGCC
Found at i:168417 original size:23 final size:22
Alignment explanation
Indices: 168391--168436 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
168381 TAAACTTCAT
*
168391 AATTATATAAGTTTGAAATTTAA
1 AATTATACAAG-TTGAAATTTAA
*
168414 AATTCTACAAGTTGAAATTTAA
1 AATTATACAAGTTGAAATTTAA
168436 A
1 A
168437 TTACATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (22 bp):
AATTATACAAGTTGAAATTTAA
Found at i:168549 original size:84 final size:84
Alignment explanation
Indices: 168461--169088 Score: 973
Period size: 84 Copynumber: 7.5 Consensus size: 84
168451 AATTTAACAT
* * *
168461 TATTTAAATAAAAAAATTATTATTATATTTCAATTTATATCAAATAATGTGTTGATTTGACAATA
1 TATTTAAAT-TAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATA
* *
168526 CATTA-TTATTAAATTTTAA
65 CATTATTTATCAAATTTGAA
* *
168545 TATTTAAATTAAAAATTATTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGGCAATAC
1 TATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATAC
*
168610 ATTATTTACCAAATTTGAA
66 ATTATTTATCAAATTTGAA
* *
168629 TATTTAAATAAAAAATTATTA-T-TATTACAATTTTTATCAAATAATGTATTGATTTGACAATAC
1 TATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATAC
*
168692 ATTATTTATCAAATTTTAA
66 ATTATTTATCAAATTTGAA
* * *
168711 TATTTAAATTAAAAATCATTATTATATTATAATTTTTTATCAAATAATGTGTTGATTTGATAATA
1 TATTTAAATTAAAAATTATTATTATATTACAA-TTTTTATCAAATAATGTGTTGATTTGACAATA
168776 CATTATTTATCAAATTTGAA
65 CATTATTTATCAAATTTGAA
*
168796 TATTTAAA-TAAAAATTTATTATTATATTACATTTTTTATCAAATAATGTGTTGATTTGACAATA
1 TATTTAAATTAAAAA-TTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATA
* *
168860 TATTATTTATCAAATTTTAA
65 CATTATTTATCAAATTTGAA
*
168880 TATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATAT
1 TATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATAC
*
168945 ATTATTTACCAAATTTGAA
66 ATTATTTATCAAATTTGAA
* * *
168964 TATTTAAATTAAAAATTATTATTATATTACACTTTTTATCAAATAATGTGTTGATTTAATAATAC
1 TATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATAC
*
169029 ATTATTTACCAAATTTGAA
66 ATTATTTATCAAATTTGAA
169048 TATTTAAATT-AAAA-T-TTATTATATTACAATTTTTATCAAAT
1 TATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAAT
169089 TTTAAATTTA
Statistics
Matches: 504, Mismatches: 34, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
81 25 0.05
82 75 0.15
83 61 0.12
84 266 0.53
85 77 0.15
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (84 bp):
TATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATAC
ATTATTTATCAAATTTGAA
Found at i:168987 original size:335 final size:333
Alignment explanation
Indices: 168461--169088 Score: 1037
Period size: 335 Copynumber: 1.9 Consensus size: 333
168451 AATTTAACAT
*
168461 TATTTAAATAAAAAAATTATTATTATATTTCAATTTATATCAAATAATGTGTTGATTTGACAATA
1 TATTTAAATAAAAAAATTATTATTATATTACAATTTATATCAAATAATGTGTTGATTTGACAATA
* *
168526 CATTATTATTAAATTTTAATATTTAAATTAAAAATTATTATTATATTATAATTTTTATCAAATAA
66 CATTATTATCAAATTTTAATATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAATAA
*
168591 TGTGTTGATTTGGCAATACATTATTTACCAAATTTGAATATTTAAATAAAAAATTATTA-T-TAT
131 TGTGTTGATTTGACAATACATTATTTACCAAATTTGAATATTTAAATAAAAAATTATTATTATAT
* * *
168654 TACAATTTTTATCAAATAATGTATTGATTTGACAATACATTATTTATCAAATTTTAATATTTAAA
196 TACAATTTTTATCAAATAATGTATTGATTTAACAATACATTATTTACCAAATTTGAATATTTAAA
*
168719 TTAAAAATCATTATTATATTATAATTTTTTATCAAATAATGTGTTGATTTGATAATACATTATTT
261 TT-AAAAT--TTATTATATTACAA-TTTTTATCAAATAATGTGTTGATTTGATAATACATTATTT
168784 ATCAAATTTGAA
322 ATCAAATTTGAA
* * *
168796 TATTTAAAT-AAAAATTTATTATTATATTACATTTTTTATCAAATAATGTGTTGATTTGACAATA
1 TATTTAAATAAAAAAATTATTATTATATTACAATTTATATCAAATAATGTGTTGATTTGACAATA
*
168860 TATTATTTATCAAATTTTAATATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAATA
66 CATTA-TTATCAAATTTTAATATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAATA
* *
168925 ATGTGTTGATTTGACAATATATTATTTACCAAATTTGAATATTTAAATTAAAAATTATTATTATA
130 ATGTGTTGATTTGACAATACATTATTTACCAAATTTGAATATTTAAATAAAAAATTATTATTATA
* * *
168990 TTACACTTTTTATCAAATAATGTGTTGATTTAATAATACATTATTTACCAAATTTGAATATTTAA
195 TTACAATTTTTATCAAATAATGTATTGATTTAACAATACATTATTTACCAAATTTGAATATTTAA
169055 ATTAAAATTTATTATATTACAATTTTTATCAAAT
260 ATTAAAATTTATTATATTACAATTTTTATCAAAT
169089 TTTAAATTTA
Statistics
Matches: 273, Mismatches: 17, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
333 12 0.04
334 68 0.25
335 123 0.45
336 6 0.02
337 64 0.23
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (333 bp):
TATTTAAATAAAAAAATTATTATTATATTACAATTTATATCAAATAATGTGTTGATTTGACAATA
CATTATTATCAAATTTTAATATTTAAATTAAAAATTATTATTATATTACAATTTTTATCAAATAA
TGTGTTGATTTGACAATACATTATTTACCAAATTTGAATATTTAAATAAAAAATTATTATTATAT
TACAATTTTTATCAAATAATGTATTGATTTAACAATACATTATTTACCAAATTTGAATATTTAAA
TTAAAATTTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGATAATACATTATTTATCA
AATTTGAA
Found at i:169212 original size:22 final size:22
Alignment explanation
Indices: 169181--169241 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
169171 TGGCCCATCC
* *
169181 AAATTCCAGCTCACCTAAA-CTG
1 AAATTTCAGCTCACCAAAATC-G
*
169203 AAATTTCAGCTCATCAAAATCG
1 AAATTTCAGCTCACCAAAATCG
169225 AAATTTCAGCTCACCAA
1 AAATTTCAGCTCACCAA
169242 CACCCCAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.39, C:0.28, G:0.08, T:0.25
Consensus pattern (22 bp):
AAATTTCAGCTCACCAAAATCG
Found at i:170298 original size:20 final size:18
Alignment explanation
Indices: 170274--170317 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
170264 TTTTATAATT
*
170274 TTTTTTGCTATTTTCGAAA
1 TTTTTTGATATTTTC-AAA
*
170293 TGTTTTTTATATTTTCAAA
1 T-TTTTTGATATTTTCAAA
170312 TTTTTT
1 TTTTTT
170318 AAAAAATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 5 0.23
20 12 0.55
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.66
Consensus pattern (18 bp):
TTTTTTGATATTTTCAAA
Found at i:172676 original size:116 final size:114
Alignment explanation
Indices: 172440--173077 Score: 447
Period size: 116 Copynumber: 5.4 Consensus size: 114
172430 AAAGTTGAAT
* * * * * *
172440 TTTTTATCTGATAAAAAGGGGGTGTTGGCCATGGC-ATGACCAATACCCAAAAATTTG-ATTTTT
1 TTTTTATCAGATAAAAA-GGGGTGTCGACCAT-GCAATGGCCAACA-CCAAAAATTCGAATTTTT
* * * * * * *
172503 TAT-TCAAATAAAAAGGGATATCGATCATTGCAT-AGCCAACACAAAAAAA-TAA
63 TATCTGACA-AAAAGGGGGTGTCG-GCATTGCATGA-CCAACACAAAAAAATTGA
* * * * *
172555 TTTTTTACCAGATACAAAAGGGGTATCGGCCATGCAATGACCAATACCAAAAATTCGAATTTTTT
1 -TTTTTATCAGATA-AAAAGGGGTGTCGACCATGCAATGGCCAACACCAAAAATTCGAATTTTTT
* * *
172620 ATCTTACAGAAAGGGGGTGTCGGCTATTGCATGACCAATACAAAAAAATTGA
64 ATCTGACAAAAAGGGGGTGTCGGC-ATTGCATGACCAACACAAAAAAATTGA
* ** * ** * *
172672 TTTTTATCA-ACAAAAAAAAGGTGTCGATCATGGTAGGGCCAACACAAAAAAATTCGAATTTTTT
1 TTTTTATCAGA-TAAAAAGGGGTGTCGACCATGCAATGGCCAACAC-CAAAAATTCGAATTTTTT
* * * * **
172736 ATCTGACAAAAAGGGGGTGTCGAACATGGCATGATCAACACCCAAAATTTTGAA
64 ATCTGACAAAAAGGGGGTGTCG-GCATTGCATGACCAACA-CAAAAAAATTG-A
*
172790 TTTTTATTCAGATAAAAAGGGGTGTCGACCATGCAATGGCCAACACCAAAAAAATTTGAATTTTT
1 TTTTTA-TCAGATAAAAAGGGGTGTCGACCATGCAATGGCCAACACC--AAAAATTCGAA--TTT
* * *
172855 TTTATCTGA-AAAAAGGAGGTGTCGGCCATTACATGACTAACACAAAAAAATTTGA
61 TTTATCTGACAAAAAGGGGGTGTCGG-CATTGCATGACCAACACAAAAAAA-TTGA
* * *
172910 TTTTTTTATCAG-TAAATAA-GGGTGTCCG-GCATGGC-ATGGCCAACACAAAAAAAATT-AAAT
1 --TTTTTATCAGATAAA-AAGGGGTGT-CGACCAT-GCAATGGCCAACAC--CAAAAATTCGAAT
* * ** *
172970 TTTTTATCTGACAAAAA-GGGATGTCGGTCATTGCATGGCCAACACCCAAAATTTGA
59 TTTTTATCTGACAAAAAGGGGGTGTCGG-CATTGCATGACCAACACAAAAAAATTGA
* * *
173026 TTTTTTTATCAGATTAAAAGGGGGTGTCAACCATGCACTGGCCAACACCAAA
1 --TTTTTATCAGA-TAAAAAGGGGTGTCGACCATGCAATGGCCAACACCAAA
173078 TTTTTTTTTT
Statistics
Matches: 418, Mismatches: 71, Indels: 66
0.75 0.13 0.12
Matches are distributed among these distances:
115 36 0.09
116 149 0.36
117 61 0.15
118 35 0.08
119 32 0.08
120 48 0.11
121 39 0.09
122 18 0.04
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (114 bp):
TTTTTATCAGATAAAAAGGGGTGTCGACCATGCAATGGCCAACACCAAAAATTCGAATTTTTTAT
CTGACAAAAAGGGGGTGTCGGCATTGCATGACCAACACAAAAAAATTGA
Found at i:172796 original size:175 final size:175
Alignment explanation
Indices: 172423--172855 Score: 425
Period size: 175 Copynumber: 2.5 Consensus size: 175
172413 GCCATTGCCG
* * * *
172423 ACACCAAAAAGTTGAATTTTTTATCTGATAAAAAGGGGGTGTTGGCCATGGCATGACCAATACCC
1 ACACCAAAAATTTGAATTTTTTATCTGACAAAAAGGGGGTGTCGGCCATGGCATGACCAATACCA
* * * * *
172488 AAAAATTTGATTTTTTATTCAAATAAAAAGGGATATCGATCATTGCATAGCCAACACAAAAAAAT
66 AAAAAATTGATTTTTTATTCAAAAAAAAAAGGATATCGATCATGGCAGAGCCAACACAAAAAAAT
* **
172553 AATTTTTTACCAGATACAAAAGGGGTATCGGCCATGCAATGACCA
131 AATTTTTTACCAGACACAAAAGGGGTATCGAACATGCAATGACCA
* * * * * *
172598 ATACCAAAAATTCGAATTTTTTATCTTACAGAAAGGGGGTGTCGGCTATTGCATGACCAATA-CA
1 ACACCAAAAATTTGAATTTTTTATCTGACAAAAAGGGGGTGTCGGCCATGGCATGACCAATACCA
* * *
172662 AAAAAATTGA-TTTTTA-TCAACAAAAAAAAGG-TGTCGATCATGGTAGGGCCAACACAAAAAAA
66 AAAAAATTGATTTTTTATTCAA-AAAAAAAAGGATATCGATCATGGCAGAGCCAACACAAAAAAA
* * * *
172724 TTCGAATTTTTTATCTGACA-AAAAGGGGGTGTCGAACATGGC-ATGATCA
130 -T--AATTTTTTACCAGACACAAAA-GGGGTATCGAACAT-GCAATGACCA
* * * * * *
172773 ACACCCAAAATTTTGAA-TTTTTATTCAGATAAAAA-GGGGTGTCGACCAT-GCAATGGCCAACA
1 ACA-CCAAAAATTTGAATTTTTTA-TCTGACAAAAAGGGGGTGTCGGCCATGGC-ATGACCAATA
172835 CCAAAAAAATTTGAATTTTTT
63 CCAAAAAAA-TTG-ATTTTTT
172856 TTATCTGAAA
Statistics
Matches: 209, Mismatches: 36, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
172 30 0.14
173 15 0.07
174 16 0.08
175 111 0.53
176 28 0.13
177 3 0.01
178 1 0.00
179 5 0.02
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (175 bp):
ACACCAAAAATTTGAATTTTTTATCTGACAAAAAGGGGGTGTCGGCCATGGCATGACCAATACCA
AAAAAATTGATTTTTTATTCAAAAAAAAAAGGATATCGATCATGGCAGAGCCAACACAAAAAAAT
AATTTTTTACCAGACACAAAAGGGGTATCGAACATGCAATGACCA
Found at i:172916 original size:60 final size:59
Alignment explanation
Indices: 172428--173073 Score: 365
Period size: 59 Copynumber: 11.0 Consensus size: 59
172418 TGCCGACACC
* * * * * * * **
172428 AAAAAGTTGAATTTTTTATCTGATAAAAAGGGGGTGTTGGCCATGGCATGACCAATACCC
1 AAAAATTTGATTTTTTTATCTGACAAAAA-GGGGTGTCGGCCATTGCATGGCCAACACAA
** * * * ** *
172488 AAAAATTTGA-TTTTTTATTCAAATAAAAAGGGATATCGATCATTGCATAGCCAACACAA
1 AAAAATTTGATTTTTTTA-TCTGACAAAAAGGGGTGTCGGCCATTGCATGGCCAACACAA
* * * * * * * *
172547 AAAAA--T-AATTTTTTACCAGATACAAAAGGGGTATCGGCCA-TGCAATGACCAATAC-C
1 AAAAATTTGATTTTTTTATCTGACA-AAAAGGGGTGTCGGCCATTGC-ATGGCCAACACAA
* * * * * * *
172603 AAAAATTCGAATTTTTTATCTTACAGAAAGGGGGTGTCGGCTATTGCATGACCAATACAA
1 AAAAATTTGATTTTTTTATCTGACA-AAAAGGGGTGTCGGCCATTGCATGGCCAACACAA
* ** ** * * *
172663 AAAAA-TTGA--TTTTTATC-AACAAAAAAAAGGTGTCGATCATGGTAGGGCCAACACAA
1 AAAAATTTGATTTTTTTATCTGAC-AAAAAGGGGTGTCGGCCATTGCATGGCCAACACAA
* * ** * ** **
172719 AAAAATTCGAATTTTTTATCTGACAAAAAGGGGGTGTCGAACATGGCATGATCAACACCC
1 AAAAATTTGATTTTTTTATCTGACAAAAA-GGGGTGTCGGCCATTGCATGGCCAACACAA
* * * * *
172779 AAAATTTTGA-ATTTTTATTCAGATAAAAAGGGGTGTCGACCA-TGCAATGGCCAACACCAA
1 AAAAATTTGATTTTTTTA-TCTGACAAAAAGGGGTGTCGGCCATTGC-ATGGCCAACA-CAA
* * *
172839 AAAAATTTGAATTTTTTTTATCTGA-AAAAAGGAGGTGTCGGCCATTACATGACTAACACAA
1 AAAAATTTG-A-TTTTTTTATCTGACAAAAAGG-GGTGTCGGCCATTGCATGGCCAACACAA
* * *
172900 AAAAATTTGATTTTTTTATCAGTA-AATAA-GGGTGTCCGG-CATGGCATGGCCAACACAA
1 AAAAATTTGATTTTTTTATCTG-ACAAAAAGGGGTGT-CGGCCATTGCATGGCCAACACAA
* * * * * *
172958 AAAAAATTAAATTTTTTATCTGACAAAAAGGGATGTCGGTCATTGCATGGCCAACAC-C
1 AAAAATTTGATTTTTTTATCTGACAAAAAGGGGTGTCGGCCATTGCATGGCCAACACAA
* * * * **
173016 CAAAATTTGATTTTTTTATCAGATTAAAAGGGGGTGTCAACCA-TGCACTGGCCAACAC
1 AAAAATTTGATTTTTTTATCTGA-CAAAAAGGGGTGTCGGCCATTGCA-TGGCCAACAC
173074 CAAATTTTTT
Statistics
Matches: 456, Mismatches: 100, Indels: 61
0.74 0.16 0.10
Matches are distributed among these distances:
56 44 0.10
57 43 0.09
58 69 0.15
59 169 0.37
60 81 0.18
61 20 0.04
62 22 0.05
63 8 0.02
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (59 bp):
AAAAATTTGATTTTTTTATCTGACAAAAAGGGGTGTCGGCCATTGCATGGCCAACACAA
Found at i:184519 original size:19 final size:19
Alignment explanation
Indices: 184495--184533 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
184485 ATATATTAAA
184495 TAATTT-TTTTATAAAAAAT
1 TAATTTATTTT-TAAAAAAT
184514 TAATTTAATTTTTAAAAAAT
1 TAATTT-ATTTTTAAAAAAT
184534 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATTTATTTTTAAAAAAT
Found at i:184536 original size:19 final size:18
Alignment explanation
Indices: 184492--184536 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
184482 ACGATATATT
184492 AAATAATTTTTTTATAAA
1 AAATAATTTTTTTATAAA
184510 AAATTAATTTAATTTT-TAAA
1 AAA-TAATTT--TTTTATAAA
184530 AAATAAT
1 AAATAAT
184537 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 7 0.29
21 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATAATTTTTTTATAAA
Found at i:190807 original size:155 final size:155
Alignment explanation
Indices: 190525--190812 Score: 461
Period size: 155 Copynumber: 1.9 Consensus size: 155
190515 TAGTGCAAAA
*
190525 GGCAAACCCTTTGAGGGATTCGAACTTCGGATCGTTCTTATCAAACATTAGGACAAACTTATACA
1 GGCAAACCCTTTGAGGGATTCGAACTTCGGATCGTTCTTATAAAACATTAGGACAAACTTATACA
* *
190590 TCTAACAATCATTGAAATCATGAAACATCATTCACAGCAACATCAAGAATTGTCGGAATACTAAT
66 TCCAACAATAATTGAAATCATGAAACATCATTCACAGCAACATCAAGAATTGTCGGAATACTAAT
190655 AAACACTGTTCAGAAACACCGCAAC
131 AAACACTGTTCAGAAACACCGCAAC
* *
190680 GGCAAACCCTTTGCA-GGATTCGAACTTCGGGTCGTTCTTATAAAACATTAGGACAAGCTTATAC
1 GGCAAACCCTTTG-AGGGATTCGAACTTCGGATCGTTCTTATAAAACATTAGGACAAACTTATAC
* ** ** *
190744 ATCCAACAATAATTGAAGTTGTGAAACATCATTCACAGCAATGTCAAGATTTGTCGGAATACTAA
65 ATCCAACAATAATTGAAATCATGAAACATCATTCACAGCAACATCAAGAATTGTCGGAATACTAA
190809 TAAA
130 TAAA
190813 GACCGTACGT
Statistics
Matches: 121, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
155 120 0.99
156 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (155 bp):
GGCAAACCCTTTGAGGGATTCGAACTTCGGATCGTTCTTATAAAACATTAGGACAAACTTATACA
TCCAACAATAATTGAAATCATGAAACATCATTCACAGCAACATCAAGAATTGTCGGAATACTAAT
AAACACTGTTCAGAAACACCGCAAC
Found at i:196727 original size:51 final size:53
Alignment explanation
Indices: 196671--196794 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 53
196661 CCCTTCTCAT
* *
196671 AATTTGGTTTACAGTAATGCTG-TC-AGAAGCAGAAG-TTGATT-TCATTCTAGA
1 AATTTGGTTTCCAGTAATGCTGCACTAGAAGCAG-AGTTTGATTCTC-TTCTAGA
* *
196722 AATTTGATTTCCAGTAATGGTGCCACTAGAAGCAGAGTTTGATTCTCTTCTAGA
1 AATTTGGTTTCCAGTAATGCTG-CACTAGAAGCAGAGTTTGATTCTCTTCTAGA
*
196776 AATTCGGTTTCCAGTAATG
1 AATTTGGTTTCCAGTAATG
196795 ATCCTCTCAG
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
51 19 0.31
53 3 0.05
54 38 0.61
55 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (53 bp):
AATTTGGTTTCCAGTAATGCTGCACTAGAAGCAGAGTTTGATTCTCTTCTAGA
Found at i:196875 original size:54 final size:54
Alignment explanation
Indices: 196817--196996 Score: 147
Period size: 54 Copynumber: 3.3 Consensus size: 54
196807 GTTATGGTTG
* *
196817 ATTCCTTTCTAGAAGTTTGGTTTCCAGTAATGACCTTATCAGGATTGGACATTA
1 ATTCCCTTCTAGAAGTTTGGTTTCCAGTAATGACCTTATCAGGATTGGACGTTA
* ** * * * * *
196871 ATTCCGC-TCTAGGAAG-TTGATCCCCAGTAACGAGCC-CA-CTGGAAGTGGGA-GTTG
1 ATTCC-CTTCTA-GAAGTTTGGTTTCCAGTAATGA-CCTTATCAGG-A-TTGGACGTTA
* *
196925 ATTCCCTTCTAGAAGTTTGGTTTCCAGTAATGACCTTATCAGGAGTGGACGCTA
1 ATTCCCTTCTAGAAGTTTGGTTTCCAGTAATGACCTTATCAGGATTGGACGTTA
196979 ATTCCGC-TCTAGGAAGTT
1 ATTCC-CTTCTA-GAAGTT
196997 GATCATCAGT
Statistics
Matches: 94, Mismatches: 20, Indels: 23
0.69 0.15 0.17
Matches are distributed among these distances:
53 13 0.14
54 61 0.65
55 20 0.21
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (54 bp):
ATTCCCTTCTAGAAGTTTGGTTTCCAGTAATGACCTTATCAGGATTGGACGTTA
Found at i:197037 original size:54 final size:54
Alignment explanation
Indices: 196871--197037 Score: 146
Period size: 54 Copynumber: 3.1 Consensus size: 54
196861 TTGGACATTA
** * **
196871 ATTCCGCTCTAGGAAGTTGATCCCCAGTAACGAGCCCACTGGAAGTGGGAGTTG
1 ATTCCGCTCTAGGAAGTTGATCATCAGTAATGAGCCCACCAGAAGTGGGAGTTG
* * * * * * *
196925 ATTCC-CTTCTA-GAAGTTTGGT-TTCCAGTAATGA-CCTTATCAGGAGT-GGACGCTA
1 ATTCCGC-TCTAGGAAG-TTGATCAT-CAGTAATGAGCC-CACCAGAAGTGGGA-GTTG
196979 ATTCCGCTCTAGGAAGTTGATCATCAGTAATGAGCCCACCAGAAGTGGGAGTTG
1 ATTCCGCTCTAGGAAGTTGATCATCAGTAATGAGCCCACCAGAAGTGGGAGTTG
197033 ATTCC
1 ATTCC
197038 TTTCTAGAAA
Statistics
Matches: 85, Mismatches: 18, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
53 10 0.12
54 64 0.75
55 11 0.13
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (54 bp):
ATTCCGCTCTAGGAAGTTGATCATCAGTAATGAGCCCACCAGAAGTGGGAGTTG
Found at i:197062 original size:108 final size:108
Alignment explanation
Indices: 196813--197046 Score: 387
Period size: 108 Copynumber: 2.2 Consensus size: 108
196803 AGGGGTTATG
* *
196813 GTTGATTCCTTTCTAGAAGTTTGGTTTCCAGTAATGACCTTATCAGGATTGGACATTAATTCCGC
1 GTTGATTCCTTTCTAGAAGTTTGGTTTCCAGTAATGACCTTATCAGGAGTGGACACTAATTCCGC
* **
196878 TCTAGGAAGTTGATCCCCAGTAACGAGCCCACTGGAAGTGGGA
66 TCTAGGAAGTTGATCACCAGTAACGAGCCCACCAGAAGTGGGA
* *
196921 GTTGATTCCCTTCTAGAAGTTTGGTTTCCAGTAATGACCTTATCAGGAGTGGACGCTAATTCCGC
1 GTTGATTCCTTTCTAGAAGTTTGGTTTCCAGTAATGACCTTATCAGGAGTGGACACTAATTCCGC
* *
196986 TCTAGGAAGTTGATCATCAGTAATGAGCCCACCAGAAGTGGGA
66 TCTAGGAAGTTGATCACCAGTAACGAGCCCACCAGAAGTGGGA
197029 GTTGATTCCTTTCTAGAA
1 GTTGATTCCTTTCTAGAA
197047 ATCTGAATTC
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 116 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (108 bp):
GTTGATTCCTTTCTAGAAGTTTGGTTTCCAGTAATGACCTTATCAGGAGTGGACACTAATTCCGC
TCTAGGAAGTTGATCACCAGTAACGAGCCCACCAGAAGTGGGA
Found at i:205979 original size:17 final size:17
Alignment explanation
Indices: 205938--205989 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 17
205928 TAATTATTAA
205938 AAAAATATTAAGATACTATAT
1 AAAAATATTAA-ATA--A-AT
*
205959 AAAAATATTCAATAAAT
1 AAAAATATTAAATAAAT
*
205976 AAAATTATTAAATA
1 AAAAATATTAAATA
205990 TTAAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 14 0.50
18 1 0.04
20 3 0.11
21 10 0.36
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAAATATTAAATAAAT
Found at i:207310 original size:20 final size:20
Alignment explanation
Indices: 207274--207311 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
207264 TTTTTGACGT
* *
207274 ATTATATATATATTTTTAAA
1 ATTATATATAAAATTTTAAA
207294 ATTATATATAAAATTTTA
1 ATTATATATAAAATTTTA
207312 GTACGTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATATATAAAATTTTAAA
Done.