Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold251
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: 763550
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 2 of 5
Found at i:183337 original size:61 final size:63
Alignment explanation
Indices: 183272--183427 Score: 176
Period size: 61 Copynumber: 2.4 Consensus size: 63
183262 TTTTAAAGCT
** *
183272 CACAACTCCGTGGCACCTTTTCCTTTTTTAAGTCCACAACTCCGTGGCA-C-CCTTTTAAGTC
1 CACAACTCCGTGGCACCTTTTCCTTTTTTAAACCCACAACTCCGTGGCACCTCCTTCTAAGTC
*
183333 CACAACTTCGTGGCACTCTTTTTCC--TTTTAAACCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 CACAACTCCGTGGCAC-C-TTTTCCTTTTTTAAACCCACAACTCCGTGGCAC-C----TCCTTCT
183396 AAGTC
59 AAGTC
*
183401 CACAACTCCGTGGCACCTTTTTCTTTT
1 CACAACTCCGTGGCACCTTTTCCTTTT
183428 CAAAGCCCAC
Statistics
Matches: 78, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
61 37 0.47
62 1 0.01
63 7 0.09
66 5 0.06
67 1 0.01
68 27 0.35
ACGTcount: A:0.19, C:0.34, G:0.12, T:0.36
Consensus pattern (63 bp):
CACAACTCCGTGGCACCTTTTCCTTTTTTAAACCCACAACTCCGTGGCACCTCCTTCTAAGTC
Found at i:183438 original size:34 final size:33
Alignment explanation
Indices: 183228--183438 Score: 215
Period size: 34 Copynumber: 6.5 Consensus size: 33
183218 CCGTGGCACC
*
183228 CTTTT-AAGCCCACAACTCTGTGGCACCTTTTT
1 CTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
* *
183260 CTTTTTAAAGCTCACAACTCCGTGGCACCTTTTC
1 C-TTTTAAAGCCCACAACTCCGTGGCACCTTTTT
* *
183294 CTTTTTTAAGTCCACAACTCCGTGGCACC-----
1 C-TTTTAAAGCCCACAACTCCGTGGCACCTTTTT
* *
183323 CTTTT-AAGTCCACAACTTCGTGGCACTCTTTTT
1 CTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
183356 CCTTTTAAA-CCCACAACTCCGTGGCACTCTTTTT
1 -CTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
* *
183390 CCTTCT-AAGTCCACAACTCCGTGGCACCTTTTT
1 -CTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
183423 CTTTTCAAAGCCCACA
1 CTTTT-AAAGCCCACA
183439 CAAGTCGGTG
Statistics
Matches: 153, Mismatches: 13, Indels: 24
0.81 0.07 0.13
Matches are distributed among these distances:
27 20 0.13
28 5 0.03
29 1 0.01
32 5 0.03
33 12 0.08
34 108 0.71
35 2 0.01
ACGTcount: A:0.20, C:0.33, G:0.11, T:0.35
Consensus pattern (33 bp):
CTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
Found at i:183470 original size:33 final size:32
Alignment explanation
Indices: 183428--183688 Score: 303
Period size: 33 Copynumber: 8.0 Consensus size: 32
183418 TTTTTCTTTT
*
183428 CAAAGCCCACACAAGTCGGTGGCAACCTTTTTC
1 CAAAGCCCACACAAGTCGGTGGCAACC-TTCTC
*
183461 CAAAGCCCACACAAGTCGGTGGCAACCTTTTTC
1 CAAAGCCCACACAAGTCGGTGGCAACC-TTCTC
* * * *
183494 TAAAGCCCAAACAAGTTGGTGGCAAACC-CCTC
1 CAAAGCCCACACAAGTCGGTGGC-AACCTTCTC
* *
183526 CAAAGCCCACACAAGTTGGTGGCAATCC-CCTC
1 CAAAGCCCACACAAGTCGGTGGCAA-CCTTCTC
*
183558 CAAAGCCCACACAAGTCGGTGGCAACCTTTTTTC
1 CAAAGCCCACACAAGTCGGTGGCAACC--TTCTC
* * *
183592 TAAAGCCCACACAAGTTGGTGGCAATCC-CCTC
1 CAAAGCCCACACAAGTCGGTGGCAA-CCTTCTC
183624 CAAAGCCCACACAAGTCGGTGGCAACCATTCTC
1 CAAAGCCCACACAAGTCGGTGGCAACC-TTCTC
*
183657 TAAAGCCCACACAAGTCGGTGGCAACTCTTCT
1 CAAAGCCCACACAAGTCGGTGGCAAC-CTTCT
183689 AAGCCCAATA
Statistics
Matches: 201, Mismatches: 18, Indels: 18
0.85 0.08 0.08
Matches are distributed among these distances:
31 6 0.03
32 78 0.39
33 85 0.42
34 30 0.15
35 2 0.01
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (32 bp):
CAAAGCCCACACAAGTCGGTGGCAACCTTCTC
Found at i:183547 original size:98 final size:98
Alignment explanation
Indices: 183428--183682 Score: 415
Period size: 98 Copynumber: 2.6 Consensus size: 98
183418 TTTTTCTTTT
*
183428 CAAAGCCCACACAAGTCGGTGGCAACCTTTTTCCAAAGCCCACACAAGTCGGTGGCAACC-TTTT
1 CAAAGCCCACACAAGTCGGTGGCAACC-TTCTCCAAAGCCCACACAAGTCGGTGGCAACCTTTTT
183492 TCTAAAGCCCAAACAAGTTGGTGGCAAACCCCTC
65 TCTAAAGCCCAAACAAGTTGGTGGCAAACCCCTC
* *
183526 CAAAGCCCACACAAGTTGGTGGCAATCC-CCTCCAAAGCCCACACAAGTCGGTGGCAACCTTTTT
1 CAAAGCCCACACAAGTCGGTGGCAA-CCTTCTCCAAAGCCCACACAAGTCGGTGGCAACCTTTTT
* *
183590 TCTAAAGCCCACACAAGTTGGTGGCAATCCCCTC
65 TCTAAAGCCCAAACAAGTTGGTGGCAAACCCCTC
*
183624 CAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAAC
1 CAAAGCCCACACAAGTCGGTGGCAACC-TTCTCCAAAGCCCACACAAGTCGGTGGCAAC
183683 TCTTCTAAGC
Statistics
Matches: 145, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
97 31 0.21
98 84 0.58
99 30 0.21
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.18
Consensus pattern (98 bp):
CAAAGCCCACACAAGTCGGTGGCAACCTTCTCCAAAGCCCACACAAGTCGGTGGCAACCTTTTTT
CTAAAGCCCAAACAAGTTGGTGGCAAACCCCTC
Found at i:183614 original size:66 final size:65
Alignment explanation
Indices: 183428--183681 Score: 334
Period size: 66 Copynumber: 3.9 Consensus size: 65
183418 TTTTTCTTTT
* **
183428 CAAAGCCCACACAAGTCGGTGGCAACCTTTTTCCAAAGCCCACACAAGTCGGTGGCAA-CCTTTT
1 CAAAGCCCACACAAGTCGGTGGCAACCTTTCTCCAAAGCCCACACAAGTCGGTGGCAATCC--CC
183492 TC
64 TC
* * * * *
183494 TAAAGCCCAAACAAGTTGGTGGCAAACC--CCTCCAAAGCCCACACAAGTTGGTGGCAATCCCCT
1 CAAAGCCCACACAAGTCGGTGGC-AACCTTTCTCCAAAGCCCACACAAGTCGGTGGCAATCCCCT
183557 C
65 C
* * *
183558 CAAAGCCCACACAAGTCGGTGGCAACCTTTTTTCTAAAGCCCACACAAGTTGGTGGCAATCCCCT
1 CAAAGCCCACACAAGTCGGTGGCAACC-TTTCTCCAAAGCCCACACAAGTCGGTGGCAATCCCCT
183623 C
65 C
* *
183624 CAAAGCCCACACAAGTCGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CAAAGCCCACACAAGTCGGTGGCAACCTTTCTCCAAAGCCCACACAAGTCGGTGGCAA
183682 CTCTTCTAAG
Statistics
Matches: 166, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
63 4 0.02
64 22 0.13
65 54 0.33
66 82 0.49
67 4 0.02
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (65 bp):
CAAAGCCCACACAAGTCGGTGGCAACCTTTCTCCAAAGCCCACACAAGTCGGTGGCAATCCCCTC
Found at i:183756 original size:49 final size:49
Alignment explanation
Indices: 183683--184075 Score: 477
Period size: 49 Copynumber: 8.1 Consensus size: 49
183673 CGGTGGCAAC
* * * * *
183683 TCTTCTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTA
1 TCTT-TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
*
183733 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C--C-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
183778 TC--TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
*
183825 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TC-
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
183872 -C---AAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* ** *
183917 TCTTTTAAGCCCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTAA
1 TC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
183967 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCA
1 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
*
184019 TCTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTCA
1 TC-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
184069 TCTTTAA
1 TCTTTAA
184076 CATTCCTAAA
Statistics
Matches: 294, Mismatches: 32, Indels: 35
0.81 0.09 0.10
Matches are distributed among these distances:
43 72 0.24
44 3 0.01
45 2 0.01
46 3 0.01
47 2 0.01
48 3 0.01
49 115 0.39
50 48 0.16
51 2 0.01
52 4 0.01
53 40 0.14
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:183843 original size:92 final size:93
Alignment explanation
Indices: 183686--184065 Score: 568
Period size: 92 Copynumber: 4.0 Consensus size: 93
183676 TGGCAACTCT
* * *
183686 TCTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATC-TTTAAGTCCAATGTA
1 TCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTTAAGTCCAATGTA
183750 GCTGGCCTTGAATCAGCACATTGGCACC
66 GCTGGCCTTGAATCAGCACATTGGCACC
183778 TCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC-TTTAAGTCCAATGTA
1 TCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTTAAGTCCAATGTA
183842 GCTGGCCTTGAATCAGCACATTGGCACC
66 GCTGGCCTTGAATCAGCACATTGGCACC
* * *
183870 TCCAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTTAAGCCCAATGTC
1 TCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTTAAGTCCAATGT-
*
183935 A-TTGGCCTTGAATCAGCACATTGGCACC
65 AGCTGGCCTTGAATCAGCACATTGGCACC
183963 TTAATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTTAAG
1 ----TC--TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTTAAG
* *
184028 TCCAATGTCGCTGGCCTTGAATCAGCACATTGGTACC
57 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
184065 T
1 T
184066 TCATCTTTAA
Statistics
Matches: 263, Mismatches: 13, Indels: 18
0.89 0.04 0.06
Matches are distributed among these distances:
92 136 0.52
93 39 0.15
94 1 0.00
97 2 0.01
98 1 0.00
99 39 0.15
101 1 0.00
102 44 0.17
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.31
Consensus pattern (93 bp):
TCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCACC
Found at i:184045 original size:53 final size:50
Alignment explanation
Indices: 183873--184073 Score: 278
Period size: 50 Copynumber: 4.0 Consensus size: 50
183863 TGGCACCTCC
* *
183873 AAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTT
* * ** *
183923 AAGCCCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTAATC-TTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTT
*
183972 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTT
* *
184025 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
184074 AACATTCCTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
49 38 0.29
50 47 0.36
51 2 0.02
52 4 0.03
53 40 0.31
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (50 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTT
Found at i:185133 original size:13 final size:13
Alignment explanation
Indices: 185115--185140 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
185105 CAATTTTTTG
185115 TGTATCGATACAT
1 TGTATCGATACAT
185128 TGTATCGATACAT
1 TGTATCGATACAT
185141 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:185226 original size:20 final size:20
Alignment explanation
Indices: 185201--185273 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
185191 ATCTTTTTTT
185201 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
185221 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
185242 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
185262 ATGTATCGATAC
1 ATGTATCGATAC
185274 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:185252 original size:41 final size:42
Alignment explanation
Indices: 185179--185273 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
185169 CTGCCAAGAA
*
185179 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
185221 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
185262 ATGTATCGATAC
1 ATGTATCGATAC
185274 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:185911 original size:16 final size:16
Alignment explanation
Indices: 185880--185925 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
185870 CTCTCCTTTG
185880 TCTCCCCCGTTTAAAAAA
1 TCTCCCCC--TTAAAAAA
185898 TCTCCCCCTTAAAAAA
1 TCTCCCCCTTAAAAAA
185914 TCTCCCCCTTAA
1 TCTCCCCCTTAA
185926 TCAAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 20 0.71
18 8 0.29
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.28
Consensus pattern (16 bp):
TCTCCCCCTTAAAAAA
Found at i:187170 original size:13 final size:13
Alignment explanation
Indices: 187152--187190 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
187142 ATAATCACCC
*
187152 TGTATCGATACAG
1 TGTATCGATACAA
187165 TGTATCGATACAA
1 TGTATCGATACAA
187178 TGTATCGATACAA
1 TGTATCGATACAA
187191 CAAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:187201 original size:20 final size:20
Alignment explanation
Indices: 187176--187254 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
187166 GTATCGATAC
187176 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
187196 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
187221 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
187240 ACATGTATCGATACA
1 A-ATGTATCGATACA
187255 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
21 3 0.07
23 3 0.07
25 13 0.28
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:189307 original size:15 final size:15
Alignment explanation
Indices: 189271--189308 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
189261 TACATCAATT
* *
189271 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
189286 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
189301 TCATTTTG
1 TCATTTTG
189309 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:193388 original size:13 final size:13
Alignment explanation
Indices: 193370--193395 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
193360 CAATTTTTTG
193370 TGTATCGATACAT
1 TGTATCGATACAT
193383 TGTATCGATACAT
1 TGTATCGATACAT
193396 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:193481 original size:20 final size:20
Alignment explanation
Indices: 193456--193528 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
193446 ATCTTTTTTT
193456 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
193476 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
193497 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
193517 ATGTATCGATAC
1 ATGTATCGATAC
193529 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:193507 original size:41 final size:42
Alignment explanation
Indices: 193434--193528 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
193424 CTGCCAAGAA
*
193434 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
193476 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
193517 ATGTATCGATAC
1 ATGTATCGATAC
193529 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:194744 original size:13 final size:13
Alignment explanation
Indices: 194726--194751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
194716 TACACCAAGT
194726 ATGTATCGATACA
1 ATGTATCGATACA
194739 ATGTATCGATACA
1 ATGTATCGATACA
194752 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:194749 original size:32 final size:33
Alignment explanation
Indices: 194708--194771 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
194698 TAGCCAAACT
* **
194708 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
194740 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
194772 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:195635 original size:52 final size:52
Alignment explanation
Indices: 195591--195719 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
195581 CACTGATCTT
* *
195591 TGTATCGATACACGCAGGGAAATTTACCCAAATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAAATGTATCGATACACTATGAAA
* * * *
195643 TGTATCGATACATACAGGCAAATTTGCCCAGATATATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAAATGTATCGATACACTATGAAA
195695 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
195720 TCATATTTTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAAATGTATCGATACACTATGAAA
Found at i:200176 original size:16 final size:16
Alignment explanation
Indices: 200152--200182 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
200142 GTCTCATTAA
*
200152 TGATTCAAAAATATAG
1 TGATCCAAAAATATAG
200168 TGATCCAAAAATATA
1 TGATCCAAAAATATA
200183 TTAAAGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (16 bp):
TGATCCAAAAATATAG
Found at i:201824 original size:3 final size:3
Alignment explanation
Indices: 201816--201849 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
201806 TCTAATCCAT
201816 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
201850 AACGGTGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:203731 original size:21 final size:20
Alignment explanation
Indices: 203679--203731 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
203669 AAGAACCTAG
203679 AATGTATCGATACAATGAGA
1 AATGTATCGATACAATGAGA
*
203699 AATGCATCGATACAAAT-AGTA
1 AATGTATCGATAC-AATGAG-A
*
203720 AATGTATTGATA
1 AATGTATCGATA
203732 AATTTACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:203824 original size:20 final size:21
Alignment explanation
Indices: 203801--203854 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
203791 TATTTCAAGC
203801 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTGT
*
203821 ATGTATCGATACATTTACTGT
1 ATGTATCGATACATTCACTGT
* *
203842 TTATATCGATACA
1 ATGTATCGATACA
203855 AATTATAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATTCACTGT
Found at i:204706 original size:51 final size:50
Alignment explanation
Indices: 204647--204815 Score: 205
Period size: 50 Copynumber: 3.3 Consensus size: 50
204637 GAAAAAGTAC
* *
204647 TATAAAATATATTTTTATTTTTATTATTTTTGAAAAAAATTCATGATTTAA
1 TATAAAATAT-TTTTAATTTTTATTATTTTTGAAAATAATTCATGATTTAA
* **
204698 TAAAAAATATTTTTAATTTTTATTATTTTT-AAATAGTAATTTGTGATTTAA
1 TATAAAATATTTTTAATTTTTATTATTTTTGAAA-A-TAATTCATGATTTAA
* * * * * *
204749 TATAAAATATTTTTCATATTTATTATTTTAGAGAGTAATTCAAGATTTAA
1 TATAAAATATTTTTAATTTTTATTATTTTTGAAAATAATTCATGATTTAA
204799 TATAAAATATTTTTAAT
1 TATAAAATATTTTTAAT
204816 AGTAATTTAG
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
49 3 0.03
50 48 0.48
51 47 0.47
52 2 0.02
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (50 bp):
TATAAAATATTTTTAATTTTTATTATTTTTGAAAATAATTCATGATTTAA
Found at i:204836 original size:84 final size:82
Alignment explanation
Indices: 204721--204896 Score: 225
Period size: 82 Copynumber: 2.1 Consensus size: 82
204711 TAATTTTTAT
*
204721 TATTTTTAAATAGTAATTTGTGATTTAATATAAAATATTT-TTCATATTTATTA-TTTTAGAGAG
1 TATTTTT-AATAGTAATTTGTGATTTAATATAAAAT-TTTCTT-AT-TTT-TTATTTTTAAAGAG
204784 TAATTCAAGATTTAATAT-AAAA
61 TAATTCAAGATTTAAT-TGAAAA
*
204806 TATTTTTAATAGTAATTTAG-GATTTAATATAAAATTTTCTTATTTTTTATTTTTAAATAGTAAT
1 TATTTTTAATAGTAATTT-GTGATTTAATATAAAATTTTCTTATTTTTTATTTTTAAAGAGTAAT
* *
204870 TCGAGATTTAATTGGAAA
65 TCAAGATTTAATTGAAAA
204888 TATTTTTAA
1 TATTTTTAA
204897 ATTTTTTATT
Statistics
Matches: 83, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
81 4 0.05
82 38 0.46
83 5 0.06
84 28 0.34
85 8 0.10
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.51
Consensus pattern (82 bp):
TATTTTTAATAGTAATTTGTGATTTAATATAAAATTTTCTTATTTTTTATTTTTAAAGAGTAATT
CAAGATTTAATTGAAAA
Found at i:204919 original size:53 final size:52
Alignment explanation
Indices: 204806--205006 Score: 206
Period size: 50 Copynumber: 4.0 Consensus size: 52
204796 TAATATAAAA
* *
204806 TATTTTT-AATAGTAATTTAGGATTTAATATAAAAT-TTTCTT-A--TTTT-T
1 TATTTTTAAATAGTAATTCAAGATTTAATATAAAATATTT-TTAATTTTTTAT
* *
204853 TATTTTTAAATAGTAATTCGAGATTTAAT-TGGAAATATTTTTAAATTTTTTAT
1 TATTTTTAAATAGTAATTCAAGATTTAATAT-AAAATATTTTT-AATTTTTTAT
* * * *
204906 TATTTTTAAATAGTAATTTAAAATCTGATATAAAATATTTTTAATTTTTTA-
1 TATTTTTAAATAGTAATTCAAGATTTAATATAAAATATTTTTAATTTTTTAT
* *
204957 T-TTTTTAAATTGTAATTCAAGATTTAATATAAAATAATTTT-ATTATTTTA
1 TATTTTTAAATAGTAATTCAAGATTTAATATAAAATATTTTTAATT-TTTTA
205007 ATATAGTGAT
Statistics
Matches: 128, Mismatches: 16, Indels: 17
0.80 0.10 0.11
Matches are distributed among these distances:
47 8 0.06
48 24 0.19
49 6 0.05
50 40 0.31
51 1 0.01
52 13 0.10
53 35 0.27
54 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (52 bp):
TATTTTTAAATAGTAATTCAAGATTTAATATAAAATATTTTTAATTTTTTAT
Found at i:204921 original size:135 final size:135
Alignment explanation
Indices: 204691--204950 Score: 332
Period size: 135 Copynumber: 1.9 Consensus size: 135
204681 AAAAATTCAT
* *
204691 GATTTAATAAAAAATATTTTTAATTTTTATTATTTTTAAATAGTAATTTGTGATTTAATATAAAA
1 GATTTAATAAAAAATATTTTTAATTTTTATTATTTTTAAATAGTAATTCGAGATTTAATATAAAA
* * * *
204756 TATTTTTCATATTTATTATTTTAGAGAGTAATTCAAGATTTAATATAAAATATTTTTAATAGTAA
66 TATTTTTAATATTTATTATTTTAAAGAGTAATTCAAAATCTAATATAAAATATTTTTAATAGTAA
204821 TTTAG
131 TTTAG
* *
204826 GATTTAATATAAAAT-TTTCTT-A-TTTT-TTATTTTTAAATAGTAATTCGAGATTTAAT-TGGA
1 GATTTAATAAAAAATATTT-TTAATTTTTATTATTTTTAAATAGTAATTCGAGATTTAATAT-AA
* * * *
204886 AATATTTTTAAATTTTTTATTATTTTTAAATAGTAATTTAAAATCTGATATAAAATATTTTTAAT
64 AATATTTTT-AA-TATTTATTA-TTTTAAAGAGTAATTCAAAATCTAATATAAAATATTTTTAAT
204951 TTTTTATTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
131 1 0.01
132 38 0.35
133 5 0.05
134 12 0.11
135 52 0.48
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.52
Consensus pattern (135 bp):
GATTTAATAAAAAATATTTTTAATTTTTATTATTTTTAAATAGTAATTCGAGATTTAATATAAAA
TATTTTTAATATTTATTATTTTAAAGAGTAATTCAAAATCTAATATAAAATATTTTTAATAGTAA
TTTAG
Found at i:204924 original size:185 final size:182
Alignment explanation
Indices: 204647--205199 Score: 553
Period size: 185 Copynumber: 2.9 Consensus size: 182
204637 GAAAAAGTAC
* * * *
204647 TATAAAATATATTTTTATTTTTATTATTTTTGAAA-A-AAATTCATGATTTAATAAAAAATATTT
1 TATAAAATAT-TTCTTA-TTTTATT-TTTTT-AAATAGTAATTCAAGATTTAAT-AGAAATATTT
* * *
204710 TTAATTTTTATTATTTTTAAATAGTAATTTGTGATTTAATATAAAATATTTTTCATATTTATTAT
61 TTAATTTTTATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATATTTTTAATTTTTATT-T
*
204775 TTTAGAGAGTAATTCAAGATTTAATATAAAATATTTTTA-ATAGTAATTTAGGA-TTTAA
125 TTTA-AAAGTAATTCAAGATTTAATATAAAATATTTTTATATAGTAATTT-GGATTTTAA
* *
204833 TATAAAAT-TTTCTTATTTT-TTATTTTTAAATAGTAATTCGAGATTTAATTGGAAATATTTTTA
1 TATAAAATATTTCTTATTTTATT-TTTTTAAATAGTAATTCAAGATTTAA-TAGAAATATTTTT-
* * * *
204896 AATTTTTTATTATTTTTAAATAGTAATTTAAAATCTGATATAAAATATTTTTAATTTTTTATTTT
63 AA-TTTTTATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATATTTTTAA-TTTTTATTTT
* * *
204961 TTAAATTGTAATTCAAGATTTAATATAAAATAATTTTATTATTTTAATATAGTGATTTTGATTTT
126 TTAAA-AGTAATTCAAGATTTAATAT--AA-AA---TA-T-TTTT-ATATAGTAATTTGGATTTT
205026 AA
181 AA
* * *
205028 TATAAAATAAGTTTTTTATTTTATTTTTTTAAATGGTTATTCAAGATTTAATAGAATATATTTTT
1 TATAAAAT-A-TTTCTTATTTTATTTTTTTAAATAGTAATTCAAGATTTAATAGAA-ATATTTTT
*
205093 AATTTTTATTATTTTTTAAATTA-TAATTTGAGATTTATTATAAAATATTTTTTAATTTTTATAA
63 AATTTTTATTA-TTTTTAAA-TAGTAATTTGAGATTTAATATAAAATA-TTTTTAA-TTTT-T-A
* *
205157 TTTTTTAAAAATAATTTAAGATTTAATATAAAATAATTTTTAT
122 TTTTTTAAAAGTAATTCAAGATTTAATATAAAAT-ATTTTTAT
205200 TATTTTTAAA
Statistics
Matches: 308, Mismatches: 30, Indels: 53
0.79 0.08 0.14
Matches are distributed among these distances:
181 3 0.01
182 9 0.03
183 26 0.08
184 9 0.03
185 70 0.23
186 15 0.05
187 2 0.01
188 2 0.01
191 4 0.01
192 5 0.02
193 6 0.02
194 4 0.01
195 22 0.07
196 11 0.04
197 35 0.11
198 55 0.18
199 20 0.06
200 10 0.03
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (182 bp):
TATAAAATATTTCTTATTTTATTTTTTTAAATAGTAATTCAAGATTTAATAGAAATATTTTTAAT
TTTTATTATTTTTAAATAGTAATTTGAGATTTAATATAAAATATTTTTAATTTTTATTTTTTAAA
AGTAATTCAAGATTTAATATAAAATATTTTTATATAGTAATTTGGATTTTAA
Found at i:204974 original size:103 final size:101
Alignment explanation
Indices: 204806--205242 Score: 366
Period size: 103 Copynumber: 4.4 Consensus size: 101
204796 TAATATAAAA
**
204806 TATTTTT-AATAGTAATTTAGGATTTAATATAAAAT--TTTCTT-ATTTTTTA-TTTTTAAATAG
1 TATTTTTAAATAGTAATTTAAAATTTAATATAAAATAGTTT-TTAATTTTTTATTTTTTAAATAG
*
204866 TAATTCGAGATTTAATTGGAAATATTTTTAAATTTTTTAT
65 TAATTCAAGATTTAATT-GAAATATTTTT-AA-TTTTTAT
* * *
204906 TATTTTTAAATAGTAATTTAAAATCTGATATAAAATA-TTTTTAATTTTTTATTTTTTAAATTGT
1 TATTTTTAAATAGTAATTTAAAATTTAATATAAAATAGTTTTTAATTTTTTATTTTTTAAATAGT
204970 AATTCAAGATTTAATAT-AAA-A----TAA-TTTTAT
66 AATTCAAGATTTAAT-TGAAATATTTTTAATTTTTAT
* ** * * * *
205000 TA-TTTTAATATAGTGATTTTGATTTTAATATAAAATAAGTTTTTTATTTTAT-TTTTTTAAATG
1 TATTTTTAA-ATAGTAATTTAAAATTTAATATAAAAT-AGTTTTTAATTTTTTATTTTTTAAATA
* *
205063 GTTATTCAAGATTTAATAGAATATATTTTTAATTTTTAT
64 GTAATTCAAGATTTAATTGAA-ATATTTTTAATTTTTAT
* * * *
205102 TATTTTTTAAATTA-TAATTTGAGATTTATTATAAAATATTTTTTAATTTTTATAATTTTTTAAA
1 TA-TTTTTAAA-TAGTAATTTAAAATTTAATATAAAATAGTTTTTAATTTTT-T-ATTTTTTAAA
* *
205166 -AATAATTTAAGATTTAATAT-AAA-A----TAATTTTTAT
62 TAGTAATTCAAGATTTAAT-TGAAATATTTTTAATTTTTAT
* *
205200 TATTTTTAAA-AGTAATTCT-AAATATAATATAAAATATTTTTTA
1 TATTTTTAAATAGTAATT-TAAAATTTAATATAAAATAGTTTTTA
205243 TTATTAATAA
Statistics
Matches: 278, Mismatches: 34, Indels: 54
0.76 0.09 0.15
Matches are distributed among these distances:
93 6 0.02
94 29 0.10
95 30 0.11
96 40 0.14
97 11 0.04
98 12 0.04
100 7 0.03
101 30 0.11
102 34 0.12
103 45 0.16
104 25 0.09
105 9 0.03
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.54
Consensus pattern (101 bp):
TATTTTTAAATAGTAATTTAAAATTTAATATAAAATAGTTTTTAATTTTTTATTTTTTAAATAGT
AATTCAAGATTTAATTGAAATATTTTTAATTTTTAT
Found at i:205006 original size:24 final size:23
Alignment explanation
Indices: 204979--205050 Score: 78
Period size: 24 Copynumber: 3.2 Consensus size: 23
204969 TAATTCAAGA
204979 TTTAATATAAAATAATTTTATTAT
1 TTTAATATAAAATAATTTT-TTAT
* * *
205003 TTTAATAT--AGTGA-TTTTGAT
1 TTTAATATAAAATAATTTTTTAT
205023 TTTAATATAAAATAAGTTTTTTAT
1 TTTAATATAAAATAA-TTTTTTAT
205047 TTTA
1 TTTA
205051 TTTTTTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
20 11 0.29
21 3 0.08
22 6 0.16
24 18 0.47
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (23 bp):
TTTAATATAAAATAATTTTTTAT
Found at i:205076 original size:52 final size:51
Alignment explanation
Indices: 205023--205244 Score: 196
Period size: 52 Copynumber: 4.5 Consensus size: 51
205013 TGATTTTGAT
** * *
205023 TTTAATATAAAATAAGTTTTTTA-TTTTAT-TTTTTTAAATGGTTATTCAAGA
1 TTTAATATAAAAT-A-TTTTTTATTTTTATATTTTTTAAATAATAATTTAAGA
* * * * *
205074 TTTAATAGAATATATTTTTAATTTTTATTATTTTTTAAATTATAATTTGAGA
1 TTTAATATAAAATATTTTTTATTTTTA-TATTTTTTAAATAATAATTTAAGA
*
205126 TTTATTATAAAATATTTTTTAATTTTTATAATTTTTTAAA-AATAATTTAAGA
1 TTTAATATAAAATATTTTTT-ATTTTTAT-ATTTTTTAAATAATAATTTAAGA
* *
205178 TTTAATATAAAATAATTTTTA----T-TA-TTTTTAAA-AGTAATTCTAA-A
1 TTTAATATAAAATATTTTTTATTTTTATATTTTTTAAATAATAATT-TAAGA
*
205222 TATAATATAAAATATTTTTTATT
1 TTTAATATAAAATATTTTTTATT
205245 ATTAATAATA
Statistics
Matches: 144, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
44 34 0.24
45 4 0.03
46 1 0.01
47 1 0.01
49 6 0.04
50 6 0.04
51 13 0.09
52 62 0.43
53 17 0.12
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (51 bp):
TTTAATATAAAATATTTTTTATTTTTATATTTTTTAAATAATAATTTAAGA
Found at i:205174 original size:21 final size:21
Alignment explanation
Indices: 205150--205216 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 21
205140 TTTTTTAATT
205150 TTTATAATTTTTTAAAAATAA
1 TTTATAATTTTTTAAAAATAA
**
205171 TTTA-AGATTTAATATAAAATAA
1 TTTATA-ATTTTTTA-AAAATAA
* * *
205193 TTTTTATTATTTTTAAAAGTAA
1 TTTATAAT-TTTTTAAAAATAA
205215 TT
1 TT
205217 CTAAATATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
20 1 0.03
21 10 0.29
22 19 0.54
23 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (21 bp):
TTTATAATTTTTTAAAAATAA
Found at i:205228 original size:44 final size:44
Alignment explanation
Indices: 205145--205247 Score: 145
Period size: 44 Copynumber: 2.3 Consensus size: 44
205135 AAATATTTTT
* *
205145 TAATTTTTATAATTTTTTAAAAATAATTTAAGATTTAATATAAAA
1 TAATTTTTATTA-TTTTTAAAAATAATTTAAGATATAATATAAAA
*
205190 TAATTTTTATTATTTTTAAAAGTAATTCTAA-ATATAATATAAAA
1 TAATTTTTATTATTTTTAAAAATAATT-TAAGATATAATATAAAA
*
205234 TATTTTTTATTATT
1 TAATTTTTATTATT
205248 AATAATATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
44 39 0.74
45 14 0.26
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (44 bp):
TAATTTTTATTATTTTTAAAAATAATTTAAGATATAATATAAAA
Found at i:205621 original size:51 final size:51
Alignment explanation
Indices: 205562--205665 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
205552 ATCGTTACGA
*
205562 ATAAAAAGAATCATATAGTAAATAGACGAAAAAACTTATCCCTGAAGATTT
1 ATAAAAAGAATCATATAGTAAATAGAAGAAAAAACTTATCCCTGAAGATTT
205613 ATAAAAAGAATCATATAGTAAATAGAAGAAAAAACTTATCCCTGAAGATTT
1 ATAAAAAGAATCATATAGTAAATAGAAGAAAAAACTTATCCCTGAAGATTT
205664 AT
1 AT
205666 TTCATGGATG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.52, C:0.11, G:0.12, T:0.26
Consensus pattern (51 bp):
ATAAAAAGAATCATATAGTAAATAGAAGAAAAAACTTATCCCTGAAGATTT
Found at i:209450 original size:20 final size:20
Alignment explanation
Indices: 209425--209463 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
209415 CGATATAATT
*
209425 AGTGAATATATTGATACATA
1 AGTGAATATATCGATACATA
*
209445 AGTGAATGTATCGATACAT
1 AGTGAATATATCGATACAT
209464 GTCTTAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (20 bp):
AGTGAATATATCGATACATA
Found at i:209579 original size:51 final size:52
Alignment explanation
Indices: 209519--209637 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 52
209509 TTTGGAAAGA
* * * *
209519 AAATGTATTGATATATTTTTTATTGTATCGATACATTTTAGG-TTTTGACCC
1 AAATGTATTGATACATTCTTTATTGTATCAATACATTCTAGGTTTTTGACCC
* *
209570 AAATGTATTGATACATTCTTTATTGTATCAATACATTCTGGGTTTTTGACCT
1 AAATGTATTGATACATTCTTTATTGTATCAATACATTCTAGGTTTTTGACCC
*
209622 AAATGTATGGATACAT
1 AAATGTATTGATACAT
209638 GCAGGCTATT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
51 37 0.62
52 23 0.38
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.45
Consensus pattern (52 bp):
AAATGTATTGATACATTCTTTATTGTATCAATACATTCTAGGTTTTTGACCC
Found at i:210804 original size:23 final size:23
Alignment explanation
Indices: 210760--210804 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
210750 GTATTTTCAT
*
210760 TGTCAAAATATATGTTTAAAAGC
1 TGTCAAAATAGATGTTTAAAAGC
*
210783 TGTCAAAAATAGAT-TTTGAAAG
1 TGTC-AAAATAGATGTTTAAAAG
210805 ATCGCTCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (23 bp):
TGTCAAAATAGATGTTTAAAAGC
Found at i:212414 original size:13 final size:13
Alignment explanation
Indices: 212396--212420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
212386 ATAATGCACA
212396 GTATCGATACATT
1 GTATCGATACATT
212409 GTATCGATACAT
1 GTATCGATACAT
212421 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:212526 original size:19 final size:20
Alignment explanation
Indices: 212502--212553 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
212492 CTTAACTGTT
212502 TGTATCGATACAT-A-CAAGA
1 TGTATCGATACATGACCAA-A
212521 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
212541 TGTATCGATACAT
1 TGTATCGATACAT
212554 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 15 0.48
21 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:219676 original size:25 final size:25
Alignment explanation
Indices: 219642--219698 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
219632 AATAAATTTA
219642 TGATTAAGGGGGAGAAAGAAACATG
1 TGATTAAGGGGGAGAAAGAAACATG
219667 TGATTAAGGGGGAGAAAGAAACATG
1 TGATTAAGGGGGAGAAAGAAACATG
219692 TGATTAA
1 TGATTAA
219699 AGGAAATTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.44, C:0.04, G:0.33, T:0.19
Consensus pattern (25 bp):
TGATTAAGGGGGAGAAAGAAACATG
Found at i:219742 original size:21 final size:22
Alignment explanation
Indices: 219701--219742 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
219691 GTGATTAAAG
219701 GAAATTGTTTTATTAAGGGGGA
1 GAAATTGTTTTATTAAGGGGGA
219723 GAAATT-TTTTGATTAAGGGG
1 GAAATTGTTTT-ATTAAGGGG
219743 TAGAGACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (22 bp):
GAAATTGTTTTATTAAGGGGGA
Found at i:220320 original size:13 final size:13
Alignment explanation
Indices: 220302--220326 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
220292 ATAATGCACA
220302 GTATCGATACATT
1 GTATCGATACATT
220315 GTATCGATACAT
1 GTATCGATACAT
220327 GACCAAATAT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:220341 original size:20 final size:21
Alignment explanation
Indices: 220316--220366 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
220306 CGATACATTG
*
220316 TATCGATACATG-ACCA-AATA
1 TATCGATACATGCA-AAGAATA
*
220336 TATCGATACTTGCAAAGAATA
1 TATCGATACATGCAAAGAATA
220357 TATCGATACA
1 TATCGATACA
220367 GGTGATTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (21 bp):
TATCGATACATGCAAAGAATA
Found at i:220445 original size:13 final size:13
Alignment explanation
Indices: 220427--220452 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
220417 ACATACAAGA
220427 TGTATCGATACAT
1 TGTATCGATACAT
220440 TGTATCGATACAT
1 TGTATCGATACAT
220453 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:220468 original size:33 final size:32
Alignment explanation
Indices: 220407--220474 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
220397 CCTTAACTGT
220407 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
220439 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
220472 TTG
1 TTG
220475 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 17 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:227506 original size:20 final size:21
Alignment explanation
Indices: 227477--227530 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
227467 TGGGCTCCAC
227477 GTATCGATACAATGC-ACTAT
1 GTATCGATACAATGCAACTAT
* * *
227497 GTATCTATACAATTCAAGTAT
1 GTATCGATACAATGCAACTAT
227518 GTATCGATACAAT
1 GTATCGATACAAT
227531 ATATCAATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (21 bp):
GTATCGATACAATGCAACTAT
Found at i:227626 original size:32 final size:33
Alignment explanation
Indices: 227589--227653 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
227579 ATAATTCAAT
227589 ATGTATCGATACTAAG-AACATGTATCAATACA
1 ATGTATCGATACTAAGCAACATGTATCAATACA
* *
227621 ATGTATCGATACTAAGCAATATGTATCGATACA
1 ATGTATCGATACTAAGCAACATGTATCAATACA
227654 TCTGTGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACTAAGCAACATGTATCAATACA
Found at i:227646 original size:20 final size:20
Alignment explanation
Indices: 227570--227692 Score: 95
Period size: 20 Copynumber: 6.5 Consensus size: 20
227560 GCCAGCTTTG
*
227570 TGTATCGATA-TAATTCAATA
1 TGTATCGATACTAA-GCAATA
*
227590 TGTATCGATACTAAG-AACA
1 TGTATCGATACTAAGCAATA
227609 TGTATC-A-A-T-A-C-A-A
1 TGTATCGATACTAAGCAATA
227622 TGTATCGATACTAAGCAATA
1 TGTATCGATACTAAGCAATA
** ** *
227642 TGTATCGATACATCTG-TGTG
1 TGTATCGATAC-TAAGCAATA
227662 TGTATCGATACTAAGCAATA
1 TGTATCGATACTAAGCAATA
227682 TGTATCGATAC
1 TGTATCGATAC
227693 ACATACTTTC
Statistics
Matches: 80, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
13 7 0.09
14 2 0.03
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
19 12 0.15
20 46 0.57
21 5 0.06
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCGATACTAAGCAATA
Found at i:228606 original size:35 final size:36
Alignment explanation
Indices: 228553--228626 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 36
228543 ATTCATAAAA
* * *
228553 AAAATGATATCAAGGCAAACATTAATTGCATTCATG
1 AAAATGATAGCAAGGCAAACATTAATTACAATCATG
*
228589 AAAAT-ATAGCAAGGCAAACATTCATTACAATCATG
1 AAAATGATAGCAAGGCAAACATTAATTACAATCATG
228624 AAA
1 AAA
228627 GCAAACATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
35 29 0.85
36 5 0.15
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (36 bp):
AAAATGATAGCAAGGCAAACATTAATTACAATCATG
Found at i:232193 original size:52 final size:52
Alignment explanation
Indices: 232115--232243 Score: 195
Period size: 52 Copynumber: 2.5 Consensus size: 52
232105 CGAAATATGA
* * *
232115 AAATTTGCCTGCATGTATTGATACATTTCATAGTGTATCGATATATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
232167 AAATTTGCTTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
232219 AAATTTGCCGGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
232244 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:232254 original size:52 final size:52
Alignment explanation
Indices: 232115--232263 Score: 156
Period size: 52 Copynumber: 2.9 Consensus size: 52
232105 CGAAATATGA
* ** ** * *
232115 AAATTTGCCTGCATGTATTGATACATTTCATAGTGTATCGATATATCTGGGT
1 AAATTTGCCGGCATGTATCAATACATAACATAGTGTATCGATACATCTGGGC
** * * **
232167 AAATTTGCTTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCGGCATGTATCAATACATAACATAGTGTATCGATACATCTGGGC
*
232219 AAATTTGCCGGCATGTATCAATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCGGCATGTATCAATACATAACAT-AGTGTATCGATACA
232264 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCGGCATGTATCAATACATAACATAGTGTATCGATACATCTGGGC
Found at i:232270 original size:13 final size:13
Alignment explanation
Indices: 232252--232276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
232242 CAAAGATCAG
232252 TGTATCGATACAA
1 TGTATCGATACAA
232265 TGTATCGATACA
1 TGTATCGATACA
232277 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:232362 original size:32 final size:32
Alignment explanation
Indices: 232321--232391 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
232311 AGCTTCGTAG
232321 CGATACATTGTATCGATACAA-AACTTATATAT
1 CGATACATTGTATCGATACAATAA-TTATATAT
* *
232353 CGATACATTGTATCGATACAATAATTTTGTAT
1 CGATACATTGTATCGATACAATAATTATATAT
232385 CGATACA
1 CGATACA
232392 AATCGTTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 34 0.94
33 2 0.06
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAATAATTATATAT
Found at i:233196 original size:53 final size:53
Alignment explanation
Indices: 233084--233208 Score: 137
Period size: 53 Copynumber: 2.4 Consensus size: 53
233074 ACGACCAATG
* * * *
233084 ATATTGGGTTTAAAGATGAGAAACAATGCTAATGTGCTGATTCAAGGCCAACG
1 ATATTGGGTTTAAAGATGAGAAACAATGCCAATATGCGGATTCAAGGCCAACA
* * *
233137 ACATTGGGTTTCAAAGATGACG-AA-GATGCCAATATGCGGATTCAAGGCCAGCA
1 ATATTGGGTTT-AAAGATGA-GAAACAATGCCAATATGCGGATTCAAGGCCAACA
**
233190 ATATTGGACTTAAAGATGA
1 ATATTGGGTTTAAAGATGA
233209 TGAGGATGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
52 8 0.13
53 41 0.68
54 10 0.17
55 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (53 bp):
ATATTGGGTTTAAAGATGAGAAACAATGCCAATATGCGGATTCAAGGCCAACA
Found at i:233294 original size:174 final size:173
Alignment explanation
Indices: 233022--233373 Score: 526
Period size: 174 Copynumber: 2.0 Consensus size: 173
233012 TGCTACACTA
*
233022 GACTTAAAGATGATGAGGATGAAGAGTGATAAAAGGACCAATACGTTGATTCACGACCAATGATA
1 GACTTAAAGATGATGAGGATGAAGAGTGATAAAAGGACCAATACGTTGATTCACGACCAACGATA
* **
233087 TTGGGTTTAAAGATGAGAAACAATGCTAATGTGCTGATTCAAGGCCAACGACATTGGGTTTCAAA
66 TTGGGTTTAAAGATGAGAAACAATGCTAATGTGCTGATTCAAGACCAACGACATTGGACTT-AAA
* * *
233152 GATGACGAAGATGCCAATATGCGGATTCAAGGCCAGCAATATTG
130 GATGACGAAGACGCCAATATACGGATTCAAGGCCAACAATATTG
*
233196 GACTTAAAGATGATGAGGATGAAGAGTGATAAAAGGACCAATACGTTGATTCACGGCCAACGATA
1 GACTTAAAGATGATGAGGATGAAGAGTGATAAAAGGACCAATACGTTGATTCACGACCAACGATA
* * * *
233261 TTGGGTTTAAAGATGAGAAAGAATG-TCAATGTGCTGATTCACGATCAGCGACATTGGACTTAAA
66 TTGGGTTTAAAGATGAGAAACAATGCT-AATGTGCTGATTCAAGACCAACGACATTGGACTTAAA
* * * * *
233325 GATGACGAGGGCGCCAATATACTGATTCAAGGCCAACGATATTT
130 GATGACGAAGACGCCAATATACGGATTCAAGGCCAACAATATTG
233369 GACTT
1 GACTT
233374 TAGATGGAGG
Statistics
Matches: 160, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
173 45 0.28
174 115 0.72
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (173 bp):
GACTTAAAGATGATGAGGATGAAGAGTGATAAAAGGACCAATACGTTGATTCACGACCAACGATA
TTGGGTTTAAAGATGAGAAACAATGCTAATGTGCTGATTCAAGACCAACGACATTGGACTTAAAG
ATGACGAAGACGCCAATATACGGATTCAAGGCCAACAATATTG
Found at i:233460 original size:49 final size:49
Alignment explanation
Indices: 233287--233750 Score: 480
Period size: 49 Copynumber: 9.8 Consensus size: 49
233277 GAAAGAATGT
* * ** * * *
233287 CAATGTGCTGATTCACGATCAGCGACATTGGACTTAAAGATGACGAGGGCGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-A--AAGGTGC
* * * * * * ** *
233339 CAATATACTGATTCAAGGCCAACGATATTTGACTT-TAGATGGAGGTTC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
*
233387 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * *
233436 CAATATACTGATTCAAGGCTAGCTATATTGGAC-T-----TAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
*
233479 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* *
233528 CAATATGCTGATTCAAGGCTAGCTATATTGGAC-T-----TAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* *
233571 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * *
233620 CAATATGCTTATTCAAGGCCACCTATATTGGAC-T-----TAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
* * *
233663 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
*
233712 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
233751 GTGTCTCGGA
Statistics
Matches: 339, Mismatches: 54, Indels: 41
0.78 0.12 0.09
Matches are distributed among these distances:
43 112 0.33
44 3 0.01
48 35 0.10
49 158 0.47
51 4 0.01
52 27 0.08
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
Found at i:233508 original size:92 final size:92
Alignment explanation
Indices: 233287--233753 Score: 691
Period size: 92 Copynumber: 5.0 Consensus size: 92
233277 GAAAGAATGT
* ** * * * *
233287 CAATGTGCTGATTCACGATCAGCGACATTGGACTTAAAGATGACGAGGGCGCCAATATACTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-A--AAGGTGCCAATATGCTGATT
* * * *
233352 CAAGGCCAACGATATTTGACTTTAGATGGAGGTTC
63 CAAGGCCAGCTATATTGGAC-TTA-A---AGGTGC
*
233387 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATACTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
233452 GGCTAGCTATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
233479 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
233544 GGCTAGCTATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* *
233571 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTTATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
233636 GGCCACCTATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* *
233663 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
233728 GGCCAGCTATATTGGACTTAAAGGTG
66 GGCCAGCTATATTGGACTTAAAGGTG
233754 TCTCGGAGTT
Statistics
Matches: 348, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
92 272 0.78
95 1 0.00
96 3 0.01
97 34 0.10
99 1 0.00
100 37 0.11
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGC
Found at i:233833 original size:30 final size:30
Alignment explanation
Indices: 233798--233901 Score: 91
Period size: 35 Copynumber: 3.3 Consensus size: 30
233788 CTACATAGTC
233798 GTGGACTTAGAAAAGAGATGCCACTGAGTT
1 GTGGACTTAGAAAAGAGATGCCACTGAGTT
* * *
233828 GTGGACTTAAAAGGAAAAAGGGATGCCATTGAGGT
1 GTGGACTT---A-G-AAAAGAGATGCCACTGAGTT
* ** *
233863 GTGGACTTTGGGAAGAGATTGCCACTGAGTC
1 GTGGACTTAGAAAAGAGA-TGCCACTGAGTT
233894 GTGGACTT
1 GTGGACTT
233902 TAAGAAGGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
30 13 0.22
31 18 0.31
33 1 0.02
34 1 0.02
35 25 0.43
ACGTcount: A:0.30, C:0.12, G:0.34, T:0.24
Consensus pattern (30 bp):
GTGGACTTAGAAAAGAGATGCCACTGAGTT
Found at i:235129 original size:1 final size:1
Alignment explanation
Indices: 235125--235182 Score: 62
Period size: 1 Copynumber: 58.0 Consensus size: 1
235115 TTTTTGTGTG
* * * * * *
235125 TTTTTTTTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTTTTTGTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
235183 GTGTTTACTT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:235146 original size:17 final size:17
Alignment explanation
Indices: 235126--235184 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
235116 TTTTGTGTGT
235126 TTTTTTTTTGTTTTTTG
1 TTTTTTTTTGTTTTTTG
235143 ---TTTTTTGTTTTTTG
1 TTTTTTTTTGTTTTTTG
235157 TTTTTTTTTGTTTTGTT-
1 TTTTTTTTTGTTTT-TTG
235174 TTTTTTTTTGT
1 TTTTTTTTTGT
235185 GTTTACTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
14 14 0.37
17 22 0.58
18 2 0.05
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTGTTTTTTG
Found at i:235146 original size:29 final size:30
Alignment explanation
Indices: 235114--235188 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 30
235104 CCTTTGCACT
235114 TTTTTTGTGTGTTTTTTTTTTGTTTT-TTG
1 TTTTTTGTGTGTTTTTTTTTTGTTTTGTTG
* * *
235143 TTTTTTGTTTTTTGTTTTTTTTTGTTTTGTTT
1 TTTTTTG-TGTGT-TTTTTTTTTGTTTTGTTG
*
235175 TTTTTTTTGTGTTT
1 TTTTTTGTGTGTTT
235189 ACTTTTAACT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
29 7 0.19
30 5 0.14
31 17 0.46
32 8 0.22
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (30 bp):
TTTTTTGTGTGTTTTTTTTTTGTTTTGTTG
Found at i:235165 original size:36 final size:36
Alignment explanation
Indices: 235114--235188 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
235104 CCTTTGCACT
*
235114 TTTTTTGTGTGTTTTTTTTTTGTTTTTTGTTTTT-TG
1 TTTTTTGTGTGTTTTTGTTTTGTTTTTT-TTTTTGTG
* *
235150 TTTTTTGTTTTTTTTTGTTTTGTTTTTTTTTTTGTG
1 TTTTTTGTGTGTTTTTGTTTTGTTTTTTTTTTTGTG
235186 TTT
1 TTT
235189 ACTTTTAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 5 0.14
36 30 0.86
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (36 bp):
TTTTTTGTGTGTTTTTGTTTTGTTTTTTTTTTTGTG
Found at i:235188 original size:14 final size:15
Alignment explanation
Indices: 235113--235178 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
235103 GCCTTTGCAC
235113 TTTTTTTGTGTGTTT-
1 TTTTTTTGTGT-TTTG
*
235128 TTTTTTTGTTTTTTG
1 TTTTTTTGTGTTTTG
*
235143 -TTTTTTGTTTTTTG
1 TTTTTTTGTGTTTTG
*
235157 TTTTTTTTTGTTTTG
1 TTTTTTTGTGTTTTG
235172 TTTTTTT
1 TTTTTTT
235179 TTTTGTGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
14 17 0.37
15 29 0.63
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (15 bp):
TTTTTTTGTGTTTTG
Found at i:235194 original size:29 final size:29
Alignment explanation
Indices: 235138--235194 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
235128 TTTTTTTGTT
**
235138 TTTTGTTTTTTGTTTTTTGTTTTTTTTTG
1 TTTTGTTTTTTGTTTTTTGTTTACTTTTG
235167 TTTTGTTTTTT-TTTTTGTGTTTACTTTT
1 TTTTGTTTTTTGTTTTT-TGTTTACTTTT
235195 AACTTTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (29 bp):
TTTTGTTTTTTGTTTTTTGTTTACTTTTG
Found at i:242105 original size:52 final size:52
Alignment explanation
Indices: 241957--242085 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
241947 CGAAATATGA
241957 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
242009 AAATTTGCTTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
242061 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
242086 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:242214 original size:32 final size:32
Alignment explanation
Indices: 242163--242265 Score: 170
Period size: 32 Copynumber: 3.2 Consensus size: 32
242153 AGCTTCGTAG
* *
242163 CGATACATTGTATCAATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
242195 CGATACATTTTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
242227 CGATACATTGTATCGATACAACACTTTTGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
242259 CGATACA
1 CGATACA
242266 AATCGTTGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:242229 original size:19 final size:18
Alignment explanation
Indices: 242170--242266 Score: 79
Period size: 19 Copynumber: 5.8 Consensus size: 18
242160 TAGCGATACA
* *
242170 TTGTATCAATACAAAACT
1 TTGTATCGATACAACACT
242188 TATGTATCGAT---ACA-T
1 T-TGTATCGATACAACACT
242203 TT-TATCGATACAACACT
1 TTGTATCGATACAACACT
242220 TATGTATCGAT---ACA--
1 T-TGTATCGATACAACACT
242234 TTGTATCGATACAACACTT
1 TTGTATCGATACAACAC-T
242253 TTGTATCGATACAA
1 TTGTATCGATACAA
242267 ATCGTTGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 25
0.70 0.02 0.27
Matches are distributed among these distances:
13 16 0.25
14 2 0.03
15 2 0.03
16 11 0.17
17 2 0.03
18 2 0.03
19 29 0.45
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (18 bp):
TTGTATCGATACAACACT
Found at i:245602 original size:33 final size:33
Alignment explanation
Indices: 245565--245631 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
245555 TTCAACGATT
245565 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
245598 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
245631 T
1 T
245632 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:245603 original size:13 final size:13
Alignment explanation
Indices: 245585--245609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
245575 CATAAAATGT
245585 TGTATCGATACAA
1 TGTATCGATACAA
245598 TGTATCGATACA
1 TGTATCGATACA
245610 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:245692 original size:13 final size:13
Alignment explanation
Indices: 245674--245698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
245664 ATTACTCACA
245674 TGTATCGATACAT
1 TGTATCGATACAT
245687 TGTATCGATACA
1 TGTATCGATACA
245699 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:245835 original size:52 final size:52
Alignment explanation
Indices: 245707--245827 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
245697 CACTGATCTT
*
245707 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
245759 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
245811 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
245828 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:249621 original size:79 final size:77
Alignment explanation
Indices: 249490--249877 Score: 345
Period size: 79 Copynumber: 4.9 Consensus size: 77
249480 TTTTGGGGAT
* * * * *
249490 AATAACGGGGCTGGTGTATCCCCGATTATGGAAAATC-GATGTTCTAAAAATAAAATCGGGGTTG
1 AATAACGGGGTTGGAGTATCCCCGATTGT-GAAAATCAG-TGTT-TTAAAATAAAACCGGGGTTG
*
249554 GAGTATCCCCAT-GGA
63 GAGTATCCCC-TCGAA
* * * ** * *
249569 AATAACAGGGTTGGAGTATCTCTGATTACAGAAAATCAGTGTTTTGAAAATAAAATCAGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATT-GTGAAAATCAGTGTTTT-AAAATAAAACCGGGGTTGG
*
249634 AGTATCCCCTCAAA
64 AGTATCCCCTCGAA
* * **
249648 AATAACGGGGTTGGAGCATCCCCGATTGTGGAAAATC-GATGCTTTAGAAAT-AAGGCGGGGTTG
1 AATAACGGGGTTGGAGTATCCCCGATTGT-GAAAATCAG-TGTTTTA-AAATAAAACCGGGGTTG
*
249711 GAGTAT-CCCTGTGAA
63 GAGTATCCCCT-CGAA
* * * *
249726 AATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGGAATAAAACCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTGTGA-AAATCAGTGTTTTA-AAATAAAACCGGGGTTGG
*
249791 AGTAACCCCTCGAA
64 AGTATCCCCTCGAA
* * ** * *
249805 AATAACGGGGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGT
1 AATAACGGGGTTGGAGTATCCCCGATTGTG-AAAATCAGTGTTTT-AAAATAAAACCGGGGTTGG
249870 AGTATCCC
64 AGTATCCC
249878 GATTATGAAA
Statistics
Matches: 253, Mismatches: 42, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
77 6 0.02
78 62 0.25
79 179 0.71
80 6 0.02
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (77 bp):
AATAACGGGGTTGGAGTATCCCCGATTGTGAAAATCAGTGTTTTAAAATAAAACCGGGGTTGGAG
TATCCCCTCGAA
Found at i:249780 original size:157 final size:157
Alignment explanation
Indices: 249490--249877 Score: 431
Period size: 157 Copynumber: 2.5 Consensus size: 157
249480 TTTTGGGGAT
* * * * *
249490 AATAACGGGGCTGGTGTATCCCCGATTATGGAAAATCGATGTTCTAAAAATAAAATCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTT-TAGAAATAAAACCGGGGTTGG
* * * * *
249555 AGTATCCCCATGGAAATAACAGGGTTGGAGTATCTCTGATTACAGAAAATCAGTGTTTTGAAAAT
65 AGTATCCCCATGAAAATAACAGGGTTGGAGTATCCCCGATTACAGAAAATCAATATTTTGAAAAT
* *
249620 AAAATCAGGGTTGGAGTATCCCCTCAAA
130 AAAACCAGGGTTGGAGTAACCCCTCAAA
* **
249648 AATAACGGGGTTGGAGCATCCCCGATTGTGGAAAATCGATGCTTTAGAAAT-AAGGCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATG-TTTAGAAATAAAACCGGGGTTGG
** * ** * *
249712 AGTATCCCTGTGAAAATAACGGGGTTGGAGTATCCCCGATT-GTGAGAAATTAATATTTT-AGGA
65 AGTATCCCCATGAAAATAACAGGGTTGGAGTATCCCCGATTACAGA-AAATCAATATTTTGA-AA
* *
249775 ATAAAACCGGGGTTGGAGTAACCCCTCGAA
128 ATAAAACCAGGGTTGGAGTAACCCCTCAAA
* * * * * * *
249805 AATAACGGGGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGT
1 AATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATG-TTTAGAAATAAAACCGGGGTTGG
249870 AGTATCCC
65 AGTATCCC
249878 GATTATGAAA
Statistics
Matches: 192, Mismatches: 34, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
156 3 0.02
157 126 0.66
158 61 0.32
159 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (157 bp):
AATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTAGAAATAAAACCGGGGTTGGA
GTATCCCCATGAAAATAACAGGGTTGGAGTATCCCCGATTACAGAAAATCAATATTTTGAAAATA
AAACCAGGGTTGGAGTAACCCCTCAAA
Found at i:249898 original size:50 final size:51
Alignment explanation
Indices: 249810--249927 Score: 175
Period size: 50 Copynumber: 2.3 Consensus size: 51
249800 TCGAAAATAA
* *
249810 CGGGGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTGGAAATAAAAC
1 CGGGGTTGGAGTATCCTCAATTATGAAAAATTGATGTTTTGGAAATAAAAC
* * *
249861 CGGGGTTGTAGTATCC-CGATTATGAAAAATTGATGTTTTGGAGATAAAAC
1 CGGGGTTGGAGTATCCTCAATTATGAAAAATTGATGTTTTGGAAATAAAAC
*
249911 TGGGGTTGGAGTATCCT
1 CGGGGTTGGAGTATCCT
249928 TGAGATAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 44 0.75
51 15 0.25
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCTCAATTATGAAAAATTGATGTTTTGGAAATAAAAC
Found at i:252287 original size:21 final size:20
Alignment explanation
Indices: 252225--252278 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
252215 AAAATGCCTG
* *
252225 AATGTATCGATTCAAT-GAA
1 AATGTATCGATACAATGGGA
*
252244 CAATGTATTGATACAATGGGA
1 -AATGTATCGATACAATGGGA
252265 AATGTATCGATACA
1 AATGTATCGATACA
252279 TCTGGGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATGGGA
Found at i:267117 original size:13 final size:13
Alignment explanation
Indices: 267095--267133 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
267085 CAGCATACTC
267095 TATATCGATACAT
1 TATATCGATACAT
* * *
267108 TGTATTGATACAC
1 TATATCGATACAT
267121 TATATCGATACAT
1 TATATCGATACAT
267134 GGCAATTATA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (13 bp):
TATATCGATACAT
Found at i:267955 original size:13 final size:13
Alignment explanation
Indices: 267937--267962 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
267927 TACAGCAAGT
267937 ATGTATCGATACA
1 ATGTATCGATACA
267950 ATGTATCGATACA
1 ATGTATCGATACA
267963 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:270213 original size:21 final size:21
Alignment explanation
Indices: 270180--270224 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
270170 TTGCAAGTTG
*
270180 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
270202 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
270222 AAA
1 AAA
270225 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:272047 original size:15 final size:15
Alignment explanation
Indices: 272027--272057 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
272017 TAAAAATGTC
*
272027 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
272042 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
272057 C
1 C
272058 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:274151 original size:20 final size:20
Alignment explanation
Indices: 274072--274151 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
274062 AATGTCCAAA
*
274072 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
274092 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
274117 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
274137 TTGTATCGATACATT
1 ATGTATCGATACATT
274152 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:274155 original size:13 final size:13
Alignment explanation
Indices: 274137--274175 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
274127 ACATTTTTCT
274137 TTGTATCGATACA
1 TTGTATCGATACA
274150 TTGTATCGATACA
1 TTGTATCGATACA
*
274163 CTGTATCGATACA
1 TTGTATCGATACA
274176 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:274320 original size:21 final size:21
Alignment explanation
Indices: 274296--274342 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
274286 AAATCTTTTG
274296 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
274317 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
274337 CAAAAT
1 CAAAAT
274343 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:274339 original size:20 final size:19
Alignment explanation
Indices: 274298--274340 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
274288 ATCTTTTGCA
274298 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
274318 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
274338 AAA
1 AAA
274341 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:276742 original size:13 final size:13
Alignment explanation
Indices: 276724--276749 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
276714 TACAGCAAGT
276724 ATGTATCGATACA
1 ATGTATCGATACA
276737 ATGTATCGATACA
1 ATGTATCGATACA
276750 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:279650 original size:13 final size:13
Alignment explanation
Indices: 279632--279657 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
279622 ACATACAAGA
279632 TGTATCGATACAT
1 TGTATCGATACAT
279645 TGTATCGATACAT
1 TGTATCGATACAT
279658 GACCAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:279676 original size:34 final size:32
Alignment explanation
Indices: 279612--279679 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 32
279602 CCTTAACTGT
279612 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
*
279644 TTGTATCGATACATGACCAA-ATTGTATTGATACA
1 TTGTATCGATACAT-A-CAAGA-TGTATCGATACA
279678 TT
1 TT
279680 AGTTTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 14 0.44
33 2 0.06
34 16 0.50
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:280991 original size:19 final size:19
Alignment explanation
Indices: 280946--281016 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
280936 CTGTCAGTTT
*
280946 CATGTATCGATATAATTCAA
1 CATGTATCGATATAA-GCAA
*
280966 TATGTATCGATATCAAG-AA
1 CATGTATCGATAT-AAGCAA
*
280985 CATGTATTGATAATAAGCAA
1 CATGTATCGAT-ATAAGCAA
*
281005 TATGTATCGATA
1 CATGTATCGATA
281017 CATCTGGATG
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 15 0.36
20 25 0.60
21 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (19 bp):
CATGTATCGATATAAGCAA
Found at i:282091 original size:60 final size:58
Alignment explanation
Indices: 281983--282617 Score: 488
Period size: 60 Copynumber: 10.8 Consensus size: 58
281973 TTGGTACATC
* * * ** * *
281983 CCTTTTTAAAAGTCTATAACTCCGTGGCACCCTTTTTTTTAAGTCCATAACTCTGTGGCA
1 CCTTTTTTAAAGTCCACAACTCTATGGCACCC--TTTTTAAAGTCCACAACTCTGTGGCA
* * *
282043 CCTTTTTTTTAAAGTCCACAACTCTGTGGCACCCTTTTTAATGTCCATAACTCTGTGGCA
1 CC--TTTTTTAAAGTCCACAACTCTATGGCACCCTTTTTAAAGTCCACAACTCTGTGGCA
* * * *
282103 CCTTTTTCAAAAGTCCATAACTCTGTGGCACCTTCTTTTAAAGTCCACAACTCTGTGGCA
1 CCTTTTT-TAAAGTCCACAACTCTATGGCACCCT-TTTTAAAGTCCACAACTCTGTGGCA
** * * * * *
282163 CCCCCTTTTACAGTCCATAACTCTGTGGCA-CC-TTTTAAAATCCACAACTCTATGGCA
1 -CCTTTTTTAAAGTCCACAACTCTATGGCACCCTTTTTAAAGTCCACAACTCTGTGGCA
** * * * * * *
282220 CCCCTTTTAAAGCCCACAACTCTGTGGTA-CCTTATTAAAGCCCATAACTCTGTGGCA
1 CCTTTTTTAAAGTCCACAACTCTATGGCACCCTTTTTAAAGTCCACAACTCTGTGGCA
* * * *
282277 CC--TTTTAAAGTTCGCAACTCCATGGC-GCC-TTTTAAAGTCCACAACTCTGTGGCA
1 CCTTTTTTAAAGTCCACAACTCTATGGCACCCTTTTTAAAGTCCACAACTCTGTGGCA
* * *
282331 CCCTTTTTAGAAGTCCACAACTCTATGGCACCCTCTTTTTTTTTAAGTCCACAACT-TCGTAGCA
1 CCTTTTTTA-AAGTCCACAACTCTATGGCA-CC-C---TTTTTAAAGTCCACAACTCT-GTGGCA
* * * * * * *
282395 CCCTTTTTT-AAGTCCACAATTCCATGACACCTTTCTTTTAAAGTCAACAACTTTGTGGCT
1 -CCTTTTTTAAAGTCCACAACTCTATGGCACC-CT-TTTTAAAGTCCACAACTCTGTGGCA
* * * * * *
282455 CCCTTTTCAAAATCCCCAACTCTATGGCATCCCTTTAT-AAGTCCACAACTCCGTGGCA
1 CCTTTTTTAAAGTCCACAACTCTATGGCA-CCCTTTTTAAAGTCCACAACTCTGTGGCA
* *
282513 CCTTTCTTTTATAGTCCACAACT-TCATGGCACCC-TTTT-AAGTCCACAACTCCGTGGCA
1 CC-TT-TTTTAAAGTCCACAACTCT-ATGGCACCCTTTTTAAAGTCCACAACTCTGTGGCA
* * *
282571 CC-TTTTTAAAGTCCACAACTCTATGGCATCTTTTTTCAAAGCCCACA
1 CCTTTTTTAAAGTCCACAACTCTATGGCACCCTTTTT-AAAGTCCACA
282618 CAAGTCGGTG
Statistics
Matches: 471, Mismatches: 74, Indels: 62
0.78 0.12 0.10
Matches are distributed among these distances:
54 24 0.05
55 43 0.09
56 38 0.08
57 61 0.13
58 56 0.12
59 40 0.08
60 126 0.27
61 8 0.02
62 29 0.06
63 18 0.04
64 21 0.04
65 7 0.01
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (58 bp):
CCTTTTTTAAAGTCCACAACTCTATGGCACCCTTTTTAAAGTCCACAACTCTGTGGCA
Found at i:282094 original size:29 final size:29
Alignment explanation
Indices: 281982--282617 Score: 499
Period size: 29 Copynumber: 21.6 Consensus size: 29
281972 CTTGGTACAT
* * *
281982 CCCTTTTTAAAAGTCTATAACTCCGTGGCA
1 CCCTTTTT-AAAGTCCACAACTCTGTGGCA
* *
282012 CCCTTTTTTTTAAGTCCATAACTCTGTGGCA
1 CCC--TTTTTAAAGTCCACAACTCTGTGGCA
*
282043 CCTTTTTTTTAAAGTCCACAACTCTGTGGCA
1 CC--CTTTTTAAAGTCCACAACTCTGTGGCA
* *
282074 CCCTTTTTAATGTCCATAACTCTGTGGCA
1 CCCTTTTTAAAGTCCACAACTCTGTGGCA
*
282103 -CCTTTTTCAAAAGTCCATAACTCTGTGGCA
1 CCCTTTTT--AAAGTCCACAACTCTGTGGCA
*
282133 CCTTCTTTTAAAGTCCACAACTCTGTGGCA
1 CCCT-TTTTAAAGTCCACAACTCTGTGGCA
* * *
282163 CCCCCTTTTACAGTCCATAACTCTGTGGCA
1 -CCCTTTTTAAAGTCCACAACTCTGTGGCA
* *
282193 -CC-TTTTAAAATCCACAACTCTATGGCA
1 CCCTTTTTAAAGTCCACAACTCTGTGGCA
* * *
282220 CCCCTTTTAAAGCCCACAACTCTGTGGTA
1 CCCTTTTTAAAGTCCACAACTCTGTGGCA
* * *
282249 -CCTTATTAAAGCCCATAACTCTGTGGCA
1 CCCTTTTTAAAGTCCACAACTCTGTGGCA
* * **
282277 -CC-TTTTAAAGTTCGCAACTCCATGGC-
1 CCCTTTTTAAAGTCCACAACTCTGTGGCA
*
282303 GCC-TTTTAAAGTCCACAACTCTGTGGCA
1 CCCTTTTTAAAGTCCACAACTCTGTGGCA
*
282331 CCCTTTTTAGAAGTCCACAACTCTATGGCA
1 CCCTTTTTA-AAGTCCACAACTCTGTGGCA
* *
282361 CCCTCTTTTTTTTTAAGTCCACAACT-TCGTAGCA
1 -CC-C---TTTTTAAAGTCCACAACTCT-GTGGCA
* * ** *
282395 CCCTTTTTTAAGTCCACAATTCCATGACA
1 CCCTTTTTAAAGTCCACAACTCTGTGGCA
* * * *
282424 CCTTTCTTTTAAAGTCAACAACTTTGTGGCT
1 CC-CT-TTTTAAAGTCCACAACTCTGTGGCA
* * * *
282455 CCCTTTTCAAAATCCCCAACTCTATGGCA
1 CCCTTTTTAAAGTCCACAACTCTGTGGCA
* *
282484 TCCCTTTAT-AAGTCCACAACTCCGTGGCA
1 -CCCTTTTTAAAGTCCACAACTCTGTGGCA
* * *
282513 CCTTTCTTTTATAGTCCACAACT-TCATGGCA
1 CC-CT-TTTTAAAGTCCACAACTCT-GTGGCA
*
282544 CCC-TTTT-AAGTCCACAACTCCGTGGCA
1 CCCTTTTTAAAGTCCACAACTCTGTGGCA
*
282571 -CCTTTTTAAAGTCCACAACTCTATGGCA
1 CCCTTTTTAAAGTCCACAACTCTGTGGCA
* * *
282599 TCTTTTTTCAAAGCCCACA
1 CCCTTTTT-AAAGTCCACA
282618 CAAGTCGGTG
Statistics
Matches: 487, Mismatches: 85, Indels: 68
0.76 0.13 0.11
Matches are distributed among these distances:
26 2 0.00
27 80 0.16
28 63 0.13
29 113 0.23
30 105 0.22
31 89 0.18
32 11 0.02
33 3 0.01
34 16 0.03
35 5 0.01
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (29 bp):
CCCTTTTTAAAGTCCACAACTCTGTGGCA
Found at i:282379 original size:34 final size:30
Alignment explanation
Indices: 281982--282617 Score: 412
Period size: 30 Copynumber: 21.6 Consensus size: 30
281972 CTTGGTACAT
* * * **
281982 CCCTTTTTAAAAGTCTATAACTCCGTGGCA
1 CCCTTTTTTAAAGTCCACAACTCTATGGCA
* * *
282012 CCCTTTTTTTTAAGTCCATAACTCTGTGGCA
1 CCC-TTTTTTAAAGTCCACAACTCTATGGCA
* *
282043 CCTTTTTTTTAAAGTCCACAACTCTGTGGCA
1 CC-CTTTTTTAAAGTCCACAACTCTATGGCA
* * *
282074 CCC-TTTTTAATGTCCATAACTCTGTGGCA
1 CCCTTTTTTAAAGTCCACAACTCTATGGCA
* * *
282103 -CCTTTTTCAAAAGTCCATAACTCTGTGGCA
1 CCCTTTTT-TAAAGTCCACAACTCTATGGCA
*
282133 -CCTTCTTTTAAAGTCCACAACTCTGTGGCA
1 CCCTT-TTTTAAAGTCCACAACTCTATGGCA
** * * *
282163 CCCCCTTTTACAGTCCATAACTCTGTGGCA
1 CCCTTTTTTAAAGTCCACAACTCTATGGCA
*
282193 -CC--TTTTAAAATCCACAACTCTATGGCA
1 CCCTTTTTTAAAGTCCACAACTCTATGGCA
* * * *
282220 CCC-CTTTTAAAGCCCACAACTCTGTGGTA
1 CCCTTTTTTAAAGTCCACAACTCTATGGCA
* * * *
282249 -CC-TTATTAAAGCCCATAACTCTGTGGCA
1 CCCTTTTTTAAAGTCCACAACTCTATGGCA
* * *
282277 -CC--TTTTAAAGTTCGCAACTCCATGGC-
1 CCCTTTTTTAAAGTCCACAACTCTATGGCA
* *
282303 GCC--TTTTAAAGTCCACAACTCTGTGGCA
1 CCCTTTTTTAAAGTCCACAACTCTATGGCA
282331 CCC-TTTTTAGAAGTCCACAACTCTATGGCA
1 CCCTTTTTTA-AAGTCCACAACTCTATGGCA
*
282361 CCCTCTTTTTTTTTAAGTCCACAACTTCGTA--GCA
1 -CC-C--TTTTTTAAAGTCCACAAC-TC-TATGGCA
* * *
282395 CCCTTTTTT-AAGTCCACAATTCCATGACA
1 CCCTTTTTTAAAGTCCACAACTCTATGGCA
* * * * *
282424 CCTTTCTTTTAAAGTCAACAACTTTGTGGCT
1 CCCTT-TTTTAAAGTCCACAACTCTATGGCA
* * *
282455 CCC-TTTTCAAAATCCCCAACTCTATGGCA
1 CCCTTTTTTAAAGTCCACAACTCTATGGCA
* **
282484 TCCC-TTTAT-AAGTCCACAACTCCGTGGCA
1 -CCCTTTTTTAAAGTCCACAACTCTATGGCA
* *
282513 CCTTTCTTTTATAGTCCACAACT-TCATGGCA
1 CCCTT-TTTTAAAGTCCACAACTCT-ATGGCA
**
282544 CCC--TTTT-AAGTCCACAACTCCGTGGCA
1 CCCTTTTTTAAAGTCCACAACTCTATGGCA
282571 -CC-TTTTTAAAGTCCACAACTCTATGGCA
1 CCCTTTTTTAAAGTCCACAACTCTATGGCA
* *
282599 -TCTTTTTTCAAAGCCCACA
1 CCCTTTTTT-AAAGTCCACA
282618 CAAGTCGGTG
Statistics
Matches: 491, Mismatches: 82, Indels: 66
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.00
27 81 0.16
28 59 0.12
29 112 0.23
30 118 0.24
31 92 0.19
32 2 0.00
33 2 0.00
34 14 0.03
35 7 0.01
36 2 0.00
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (30 bp):
CCCTTTTTTAAAGTCCACAACTCTATGGCA
Found at i:282635 original size:31 final size:31
Alignment explanation
Indices: 282603--282949 Score: 374
Period size: 31 Copynumber: 11.0 Consensus size: 31
282593 ATGGCATCTT
* **
282603 TTTTCAAAGCCCACACAAGTCGGTGG-TACTTT
1 TTTT-AAAGCCCACACAAGTCGGTGGCAAC-CC
* * *
282635 TTTTGAAGCCCACACAAGTCAGTGGCAATGCTC
1 TTTTAAAGCCCACACAAGTCGGTGGCAA--CCC
*
282668 TTTCAAAGCCCACACAAGTCGGTGGCAACCC
1 TTTTAAAGCCCACACAAGTCGGTGGCAACCC
282699 TTTTAAAGCCCACACAAGTCGGTGGCAACCC
1 TTTTAAAGCCCACACAAGTCGGTGGCAACCC
282730 TTTTAAAGCCCACACAAGTCGGTGGCAACCC
1 TTTTAAAGCCCACACAAGTCGGTGGCAACCC
*
282761 TTTTAAAGCCCACACAAGTCGATGGCAACCC
1 TTTTAAAGCCCACACAAGTCGGTGGCAACCC
*
282792 TTTTAAAGCCCACACAAG-CTAGTGGCAACCC
1 TTTTAAAGCCCACACAAGTC-GGTGGCAACCC
* * ** *
282823 TTTTAAAGTCCACACGAGTCAATGCCAACCC
1 TTTTAAAGCCCACACAAGTCGGTGGCAACCC
* * * * *
282854 TTTTAAAGACTACATAAGTCGATAGCAACCC
1 TTTTAAAGCCCACACAAGTCGGTGGCAACCC
* * * * ** *
282885 TTTTAAAGTCCATACACGTCAGTGGCATTCT
1 TTTTAAAGCCCACACAAGTCGGTGGCAACCC
*
282916 TTTTCAAAAGCCCACACAAGTCGATGGCAACCC
1 TTTT--AAAGCCCACACAAGTCGGTGGCAACCC
282949 T
1 T
282950 CTCAAAAGCC
Statistics
Matches: 266, Mismatches: 42, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
30 1 0.00
31 212 0.80
32 6 0.02
33 46 0.17
34 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (31 bp):
TTTTAAAGCCCACACAAGTCGGTGGCAACCC
Found at i:282983 original size:64 final size:63
Alignment explanation
Indices: 282640--282992 Score: 232
Period size: 62 Copynumber: 5.6 Consensus size: 63
282630 ACTTTTTTTG
* * * * * **
282640 AAGCCCACACAAGTCAGTGGCAATGCTCTTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTA
1 AAGCCCATACAAGTCAGTGGC-ATTCTTTTTCAAAGCCCACACAAGTCGATAGCAACCCTTCAA
* * ** * * * **
282704 AAGCCCACACAAGTCGGTGGCAACCCTTTT-AAAGCCCACACAAGTCGGTGGCAACCCTTTTA
1 AAGCCCATACAAGTCAGTGGCATTCTTTTTCAAAGCCCACACAAGTCGATAGCAACCCTTCAA
* ** * * * **
282766 AAGCCCACACAAGTC-GATGGCAACCCTTTT-AAAGCCCACACAAG-CTAGTGGCAACCCTTTTA
1 AAGCCCATACAAGTCAG-TGGCATTCTTTTTCAAAGCCCACACAAGTCGA-TAGCAACCCTTCAA
* * * * * ** * * * * **
282828 AAGTCCACACGAGTCAATGCCAACCCTTTT-AAAGACTACATAAGTCGATAGCAACCCTTTTA
1 AAGCCCATACAAGTCAGTGGCATTCTTTTTCAAAGCCCACACAAGTCGATAGCAACCCTTCAA
* * *
282890 AAGTCCATACACGTCAGTGGCATTCTTTTTCAAAAGCCCACACAAGTCGATGGCAACCCTCTCAA
1 AAGCCCATACAAGTCAGTGGCATTCTTTTTC-AAAGCCCACACAAGTCGATAGCAACCCT-TCAA
* * *
282955 AAGCCCATGCAAGTTAGTGGCATT-TTTTTCTAAGCCCA
1 AAGCCCATACAAGTCAGTGGCATTCTTTTTCAAAGCCCA
282993 ATGTTATTGG
Statistics
Matches: 247, Mismatches: 35, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
61 2 0.01
62 159 0.64
63 14 0.06
64 50 0.20
65 22 0.09
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (63 bp):
AAGCCCATACAAGTCAGTGGCATTCTTTTTCAAAGCCCACACAAGTCGATAGCAACCCTTCAA
Found at i:283541 original size:52 final size:51
Alignment explanation
Indices: 283485--283610 Score: 137
Period size: 52 Copynumber: 2.5 Consensus size: 51
283475 AATGTTGTTA
* *
283485 GCCTTGAATCAACATATTAGCACCCTTGTCA-CTTTTAAGTCCAATGTCACCG
1 GCCTTGAATCAACACATTAGCACCCTTGTCATC-TTCAAGTCCAATG-CACCG
* ** * * *
283537 GCCTTGAATCAACACATTGGCATTCTTGTTATCTTCAAGTCCAATGCGCTG
1 GCCTTGAATCAACACATTAGCACCCTTGTCATCTTCAAGTCCAATGCACCG
* *
283588 GCCTTGAATCAGCTCATTAGCAC
1 GCCTTGAATCAACACATTAGCAC
283611 TTTTCTCATC
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
51 22 0.36
52 38 0.62
53 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (51 bp):
GCCTTGAATCAACACATTAGCACCCTTGTCATCTTCAAGTCCAATGCACCG
Found at i:284427 original size:51 final size:52
Alignment explanation
Indices: 284363--284481 Score: 186
Period size: 51 Copynumber: 2.3 Consensus size: 52
284353 TCTAGAAACA
*
284363 AAATGTATCGATACATTCTTTAATGCATCAACACATTCTGGG-TTTTGACCC
1 AAATGTATCGATACATTCTTCAATGCATCAACACATTCTGGGTTTTTGACCC
* * * *
284414 AAATGTTTTGATACATTCTTCATTGCATCAATACATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATTCTTCAATGCATCAACACATTCTGGGTTTTTGACCC
284466 AAATGTATCGATACAT
1 AAATGTATCGATACAT
284482 GCAGGCTATT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
51 37 0.62
52 23 0.38
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTCAATGCATCAACACATTCTGGGTTTTTGACCC
Found at i:292679 original size:165 final size:166
Alignment explanation
Indices: 292502--292857 Score: 479
Period size: 165 Copynumber: 2.2 Consensus size: 166
292492 AGCAAACCAG
* * * * * *
292502 TTTTGAAAAATTCTTTTCA-TTTCATGAGTTATTGATTTTCTT-TTGAAATTCTATTGTTTTCGA
1 TTTTGAAAAATTC-ATTCATTTTCATAAATTATTCATTTT-TTCTTGAAATTCTATTGTTTCCAA
* * * *
292565 AATATAGAGTTTTCTACTTTGTAAATGTTTTTAGGGAGATTTTCCTTAGTTTTTAATTTTTAAAA
64 AATACAGAGTCTTCTACTCTGTAAATGTTTTTAGGGAGATTTTCCTTAGTTCTTAATTTTTAAAA
292630 TTCATCAAATATTATTATTTAATTCT-TATTAAATTAGT
129 TTCATCAAATATTATTATTTAATT-TGTATTAAATTAGT
* *
292668 TTTTG-AAAATTCATTCATTTTCATAAATTTTTCATTTTTTCTTGAAATTCTTTTGTTTCCAAAA
1 TTTTGAAAAATTCATTCATTTTCATAAATTATTCATTTTTTCTTGAAATTCTATTGTTTCCAAAA
* * *
292732 TACAGAGTCTTCTACTCTGTAAATGTTTTTGGGGAGATTTTTCTTGGTTCTTAATTTTTAAAATT
66 TACAGAGTCTTCTACTCTGTAAATGTTTTTAGGGAGATTTTCCTTAGTTCTTAATTTTTAAAATT
*
292797 CATCAAATATTATTATTTAATTTGTATTAAATCA-T
131 CATCAAATATTATTATTTAATTTGTATTAAATTAGT
* *
292832 TTTTCAAAAAATTCATTTATTTTCAT
1 TTTT-GAAAAATTCATTCATTTTCAT
292858 GAGCTTTGAA
Statistics
Matches: 167, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
164 12 0.07
165 132 0.79
166 23 0.14
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (166 bp):
TTTTGAAAAATTCATTCATTTTCATAAATTATTCATTTTTTCTTGAAATTCTATTGTTTCCAAAA
TACAGAGTCTTCTACTCTGTAAATGTTTTTAGGGAGATTTTCCTTAGTTCTTAATTTTTAAAATT
CATCAAATATTATTATTTAATTTGTATTAAATTAGT
Found at i:293917 original size:13 final size:12
Alignment explanation
Indices: 293886--293926 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
293876 GTTAAAAGCA
293886 ATGTATCGATAC
1 ATGTATCGATAC
293898 A--TATCGATAC
1 ATGTATCGATAC
293908 ATTGTATCGATAC
1 A-TGTATCGATAC
293921 AATGTA
1 -ATGTA
293927 CCATGTATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 10 0.40
12 1 0.04
13 13 0.52
14 1 0.04
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:293935 original size:20 final size:21
Alignment explanation
Indices: 293886--293942 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
293876 GTTAAAAGCA
293886 ATGTATCGATACATATCGATAC
1 ATGTATCGATACA-ATCGATAC
293908 ATTGTATCGATACAAT-G-TACC
1 A-TGTATCGATACAATCGATA-C
293929 ATGTATCGATACAA
1 ATGTATCGATACAA
293943 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 15 0.45
21 3 0.09
22 3 0.09
23 12 0.36
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACAATCGATAC
Found at i:294010 original size:13 final size:13
Alignment explanation
Indices: 293992--294018 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
293982 ACAATTGTCC
293992 ATGTATCGATACA
1 ATGTATCGATACA
294005 ATGTATCGATACA
1 ATGTATCGATACA
294018 A
1 A
294019 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:294068 original size:22 final size:20
Alignment explanation
Indices: 294026--294068 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
294016 CAAAGCATAA
*
294026 TGTATCGATACATCTGGGTT
1 TGTATCGATACATATGGGTT
294046 TGTATCGATACATTGATGGGTT
1 TGTATCGATACA-T-ATGGGTT
294068 T
1 T
294069 TAACCTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 1 0.05
22 7 0.35
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATATGGGTT
Found at i:296307 original size:20 final size:21
Alignment explanation
Indices: 296282--296321 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
296272 TTTGTTGATA
*
296282 ATTTTGATG-AAAAATGAAGT
1 ATTTTGAAGTAAAAATGAAGT
296302 ATTTTGAAGTAAAAATGAAG
1 ATTTTGAAGTAAAAATGAAG
296322 AAATTTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (21 bp):
ATTTTGAAGTAAAAATGAAGT
Found at i:302615 original size:20 final size:20
Alignment explanation
Indices: 302590--302640 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
302580 GTGAGAAGCA
*
302590 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
302610 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
302630 ATGTATCGATA
1 ATGTATCGATA
302641 TAAACAGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:302697 original size:20 final size:20
Alignment explanation
Indices: 302672--302726 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
302662 CTGCTAGTTT
* **
302672 CATGTATCAATACAATTGTC
1 CATGTATCGATACAATTGAA
*
302692 CATGTATCGATATAA-TGAA
1 CATGTATCGATACAATTGAA
302711 CATGTATCGATACAAT
1 CATGTATCGATACAAT
302727 GTATTGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:304286 original size:17 final size:17
Alignment explanation
Indices: 304266--304302 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
304256 AAATTTTTTA
304266 AAAATAAAA-AATAATAT
1 AAAATAAAATAAT-ATAT
304283 AAAATAAAATAATATAT
1 AAAATAAAATAATATAT
304300 AAA
1 AAA
304303 TATTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATAAAATAATATAT
Found at i:304293 original size:15 final size:16
Alignment explanation
Indices: 304273--304304 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
304263 TTAAAAATAA
304273 AAAATAATATA-AAAT
1 AAAATAATATATAAAT
304288 AAAATAATATATAAAT
1 AAAATAATATATAAAT
304304 A
1 A
304305 TTATTTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATAATATATAAAT
Found at i:304581 original size:151 final size:141
Alignment explanation
Indices: 304453--304743 Score: 387
Period size: 139 Copynumber: 2.1 Consensus size: 141
304443 CAAAAATTTA
* *
304453 AAAAATTTTAAAATTAAATAAAAATTATCATCTTAATTTTTTAAGATTTCTAATATTCATATGGT
1 AAAAA-TTAAAAATTAAATAAAAATTATTATCTTAATTTTTTAAGATTTCTAATATTCATATGGT
* *
304518 TTTCCCTAGGGATACAGAAATCTTCAAAACTTTTCGTATTTTTTCAATTCTCCATTAACGTACAA
65 TTTCCCTAGGGGTATAGAAATCTTCAAAACTTTTCGTATTTTTTCAATTCTCCATTAACGTACAA
304583 AATGAATTTTTC
130 AATGAATTTTTC
* *
304595 AAAAATTAAAAATTAAATAAAAATTGTTATCTT-ATTTTTTAAAGATTTTTAATATTCATATGG-
1 AAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTT-AAGATTTCTAATATTCATATGGT
* ** * * * *
304658 -TTCCGTAGGGGTATAGAAATCTTCAAAACTTTTCGTATCTTTTT-GGTTTTTCATTAAGGTACG
65 TTTCCCTAGGGGTATAGAAATCTTCAAAACTTTTCGTAT-TTTTTCAATTCTCCATTAACGTACA
304721 AAATGAGA-TTTTC
129 AAATGA-ATTTTTC
304734 -AAAATTAAAA
1 AAAAATTAAAA
304744 CTTTAATACT
Statistics
Matches: 133, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
138 10 0.08
139 59 0.44
140 13 0.10
141 46 0.35
142 5 0.04
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.42
Consensus pattern (141 bp):
AAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTTAAGATTTCTAATATTCATATGGTT
TTCCCTAGGGGTATAGAAATCTTCAAAACTTTTCGTATTTTTTCAATTCTCCATTAACGTACAAA
ATGAATTTTTC
Found at i:315417 original size:3 final size:3
Alignment explanation
Indices: 315411--315472 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
315401 AATCATCAAA
* *
315411 GAT GAT GAT GAA GAT GAT AAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
315459 GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GA
315473 ATAGGTTGAC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:315939 original size:21 final size:21
Alignment explanation
Indices: 315913--315953 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
315903 TGATGTGCTT
* *
315913 AAAAAAAAGTAGATGAATTAG
1 AAAAAAAAATAAATGAATTAG
315934 AAAAAAAAATAAATGAATTA
1 AAAAAAAAATAAATGAATTA
315954 CAAGATGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (21 bp):
AAAAAAAAATAAATGAATTAG
Found at i:315993 original size:21 final size:21
Alignment explanation
Indices: 315969--316009 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
315959 TGATAATAAA
*
315969 GAATTAACTAGTAAAAACAAC
1 GAATTAACTAGGAAAAACAAC
* *
315990 GAATTGACTAGGAAGAACAA
1 GAATTAACTAGGAAAAACAA
316010 GAACTTGCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.12, G:0.17, T:0.17
Consensus pattern (21 bp):
GAATTAACTAGGAAAAACAAC
Found at i:316401 original size:33 final size:33
Alignment explanation
Indices: 316337--316402 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
316327 CACTCTTAGA
***
316337 TGTATCGATACATATTGCTTAGCATCAATACAT
1 TGTATCGATACATATTAAGTAGCATCAATACAT
* * *
316370 TGTATCGATGCATATTAAGTAGTATCGATACAT
1 TGTATCGATACATATTAAGTAGCATCAATACAT
316403 GAAACTGGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATATTAAGTAGCATCAATACAT
Found at i:322927 original size:17 final size:17
Alignment explanation
Indices: 322907--322962 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
322897 TTGTTTTAGA
322907 AAGGGGGAGAATAGATT
1 AAGGGGGAGAATAGATT
322924 AAGGGGGA-AA-AG-TT
1 AAGGGGGAGAATAGATT
*
322938 ---GGGAAGAATAGATT
1 AAGGGGGAGAATAGATT
322952 AAGGGGGAGAA
1 AAGGGGGAGAA
322963 GTTGTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
11 4 0.13
12 2 0.06
13 2 0.06
14 4 0.13
15 2 0.06
16 2 0.06
17 15 0.48
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.14
Consensus pattern (17 bp):
AAGGGGGAGAATAGATT
Found at i:323759 original size:20 final size:21
Alignment explanation
Indices: 323711--323760 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
323701 TACATTACTA
*
323711 TGCA-TGTATCGATACATACT
1 TGCATTGTATCGATACATACG
* *
323731 TGAATTGTATCGATATATA-G
1 TGCATTGTATCGATACATACG
323751 TGCATTGTAT
1 TGCATTGTAT
323761 TAATACATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (21 bp):
TGCATTGTATCGATACATACG
Found at i:325713 original size:16 final size:17
Alignment explanation
Indices: 325692--325724 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
325682 TGGTTTTTCC
325692 CAAAAA-AAAAACAAAA
1 CAAAAATAAAAACAAAA
*
325708 CAAAAATAAAACCAAAA
1 CAAAAATAAAAACAAAA
325725 AATTTCAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (17 bp):
CAAAAATAAAAACAAAA
Found at i:327195 original size:20 final size:21
Alignment explanation
Indices: 327172--327222 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
327162 GATTGCACAA
*
327172 TATCGATACATG-ACCA-AATG
1 TATCGATACATGTA-AAGAATG
*
327192 TATCGATACTTGTAAAGAATG
1 TATCGATACATGTAAAGAATG
327213 TATCGATACA
1 TATCGATACA
327223 GGTCATTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (21 bp):
TATCGATACATGTAAAGAATG
Found at i:327290 original size:13 final size:13
Alignment explanation
Indices: 327272--327297 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
327262 ACACACAATA
327272 TGTATCGATACAT
1 TGTATCGATACAT
327285 TGTATCGATACAT
1 TGTATCGATACAT
327298 CCCAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:327293 original size:32 final size:33
Alignment explanation
Indices: 327252--327319 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
327242 CCTTAACTGT
* *
327252 TTGTATCGATACA-CACAATATGTATCGATACA
1 TTGTATCGATACATCACAAAATATATCGATACA
*
327284 TTGTATCGATACATCCCAAAATATATCGATACA
1 TTGTATCGATACATCACAAAATATATCGATACA
327317 TTG
1 TTG
327320 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATCACAAAATATATCGATACA
Found at i:329822 original size:20 final size:20
Alignment explanation
Indices: 329799--329873 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
329789 AAAAAGATAG
329799 AATGTATCGATACATT-AAA
1 AATGTATCGATACATTCAAA
*
329818 GAATGTATCGATACATTCATA
1 -AATGTATCGATACATTCAAA
* *
329839 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
329859 AATGTATCAATACAT
1 AATGTATCGATACAT
329874 CTGGGTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 46 0.96
21 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:330826 original size:14 final size:14
Alignment explanation
Indices: 330807--330840 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
330797 GGAATAAAGC
330807 GAAAATCCCCTTAG
1 GAAAATCCCCTTAG
330821 GAAAATCCCCTTAG
1 GAAAATCCCCTTAG
*
330835 AAAAAT
1 GAAAAT
330841 AATTGCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.21
Consensus pattern (14 bp):
GAAAATCCCCTTAG
Found at i:334243 original size:102 final size:103
Alignment explanation
Indices: 334054--334258 Score: 385
Period size: 102 Copynumber: 2.0 Consensus size: 103
334044 TAAGTTTCAT
* *
334054 TCTTTTCATTGAAGCAGAGTCATTAGGATTAGTTTTTTGTATTTTTGTTCATCTAAGGACACCTA
1 TCTTTTCATTGAAGCAGAGTCATTAGGATTAGTTTTTTATATTTTTGTTCATCTAAAGACACCTA
334119 ATTTTATCCTAGCTTCCATTCAAGCATCTCAAGGCATC
66 ATTTTATCCTAGCTTCCATTCAAGCATCTCAAGGCATC
334157 TCTTTTCATTGAAGCAGAGTCATTAGGATTAGTTTTTTATATTTTT-TTCATCTAAAGACACCTA
1 TCTTTTCATTGAAGCAGAGTCATTAGGATTAGTTTTTTATATTTTTGTTCATCTAAAGACACCTA
334221 ATTTTATCCTAGCTTCCATTCAAGCATCTCAAGGCATC
66 ATTTTATCCTAGCTTCCATTCAAGCATCTCAAGGCATC
334259 ATCAAAGCTA
Statistics
Matches: 100, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
102 55 0.55
103 45 0.45
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (103 bp):
TCTTTTCATTGAAGCAGAGTCATTAGGATTAGTTTTTTATATTTTTGTTCATCTAAAGACACCTA
ATTTTATCCTAGCTTCCATTCAAGCATCTCAAGGCATC
Done.