Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold349
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: 1036866
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 2 of 6
Found at i:213827 original size:19 final size:19
Alignment explanation
Indices: 213803--213867 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
213793 TAGCCAAACT
213803 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
213822 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
213835 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
213856 TGTATCGATACA
1 TGTATCGATACA
213868 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:213839 original size:13 final size:13
Alignment explanation
Indices: 213821--213846 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
213811 TACACAAAAT
213821 ATGTATCGATACA
1 ATGTATCGATACA
213834 ATGTATCGATACA
1 ATGTATCGATACA
213847 CAAAAAATAT
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:213844 original size:32 final size:33
Alignment explanation
Indices: 213803--213867 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
213793 TAGCCAAACT
213803 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
213835 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
213868 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:220025 original size:13 final size:13
Alignment explanation
Indices: 220007--220044 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
219997 CATTTTTCTT
220007 TGTATCGATACAA
1 TGTATCGATACAA
*
220020 TGTATCGATACAC
1 TGTATCGATACAA
220033 TGTATCGATACA
1 TGTATCGATACA
220045 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:220199 original size:20 final size:20
Alignment explanation
Indices: 220156--220201 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
220146 AAATCTTTTG
220156 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
220177 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
220197 CAAAA
1 CAAAA
220202 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:222573 original size:19 final size:19
Alignment explanation
Indices: 222549--222613 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
222539 TAGCCAAACT
222549 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
222568 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
222581 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
222602 TGTATCGATACA
1 TGTATCGATACA
222614 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:222585 original size:13 final size:13
Alignment explanation
Indices: 222567--222592 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
222557 TACACAAAAT
222567 ATGTATCGATACA
1 ATGTATCGATACA
222580 ATGTATCGATACA
1 ATGTATCGATACA
222593 CAAAAAATAT
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:222590 original size:32 final size:33
Alignment explanation
Indices: 222549--222613 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
222539 TAGCCAAACT
222549 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
222581 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
222614 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:223851 original size:49 final size:49
Alignment explanation
Indices: 223699--224160 Score: 354
Period size: 43 Copynumber: 9.9 Consensus size: 49
223689 AATGATAATG
* * * * *
223699 TGCTGATTCATGGCCAGCGACATTAGACTTAAAGAAG-A-ATGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATA
* ** * * * * *
223746 TACTGAGGCAAGGCTAGCAATATTGGGCTTAGGAATGTTAAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTA--AA-GATGAAGATGCCAATA
* *** * *
223798 TGCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAGATACCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATA
** *
223847 TGCTGATTCAAGGCTGGCGACATTGGACTT-AA-A-G--G-TGCCAATA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATA
*
223890 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATA
* *
223939 TGCTGATTCAAGGCC-GACAACATTGGACTT-AA-A-G--G-TGCCAATA
1 TGCTGATTCAAGGCCAG-CGATATTGGACTTAAAGATGAAGATGCCAATA
**
223982 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAACG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATA
* * *
224031 CGCTGATTCAAGGCC-GATGACATTGGACTT-AA-A-G--G-TGCCAATA
1 TGCTGATTCAAGGCCAG-CGATATTGGACTTAAAGATGAAGATGCCAATA
* * *
224074 TGCTGATTCAAGGCCAACGACATTGGACTT-AA-A-G--G-TGCCAAAA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATA
* *
224117 TGCTGATTCAAGGCCAGCGATATTGGAC--ATAGAAGAAGATGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCA
224161 CCAACTTGTG
Statistics
Matches: 329, Mismatches: 59, Indels: 54
0.74 0.13 0.12
Matches are distributed among these distances:
42 1 0.00
43 137 0.42
44 9 0.03
45 2 0.01
46 6 0.02
47 30 0.09
48 10 0.03
49 101 0.31
50 3 0.01
51 1 0.00
52 29 0.09
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATA
Found at i:223940 original size:92 final size:92
Alignment explanation
Indices: 223783--224107 Score: 524
Period size: 92 Copynumber: 3.5 Consensus size: 92
223773 CTTAGGAATG
* *** *
223783 TTAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAGATACCAATGT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATGCCAATGT
* *
223848 GCTGATTCAAGGCTGGCGACATTGGAC
66 GCTGATTCAAGGCCGACGACATTGGAC
*
223875 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATGCCAATGT
*
223940 GCTGATTCAAGGCCGACAACATTGGAC
66 GCTGATTCAAGGCCGACGACATTGGAC
* * *
223967 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAACGC
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATGCCAATGT
*
224032 GCTGATTCAAGGCCGATGACATTGGAC
66 GCTGATTCAAGGCCGACGACATTGGAC
*
224059 TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAG
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
224108 GTGCCAAAAT
Statistics
Matches: 218, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 218 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (92 bp):
TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGATGCCAATGT
GCTGATTCAAGGCCGACGACATTGGAC
Found at i:224197 original size:31 final size:31
Alignment explanation
Indices: 224156--224258 Score: 101
Period size: 29 Copynumber: 3.5 Consensus size: 31
224146 TAGAAGAAGA
224156 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAA-GGT
224188 TG-CACCAACTTGTGT--GCTTTTG-AAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
** * *
224215 TGCCACTGAC-T-TGTGGGCTTTTGAAAAGA
1 TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
**
224244 TGCCACTGACTTGTG
1 TGCCACCAACTTGTG
224259 GGCTTTGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
26 3 0.05
27 6 0.10
28 14 0.23
29 20 0.33
30 1 0.02
31 15 0.25
32 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.33
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAGGT
Found at i:224256 original size:57 final size:57
Alignment explanation
Indices: 224169--224411 Score: 253
Period size: 57 Copynumber: 4.2 Consensus size: 57
224159 CACCAACTTG
* * * * *
224169 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAA-GGATGCCACCGACTTGTGGGC-TTTGAAAGGGTACCACTGACT
* *
224226 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGGTACC-CTGACT
1 TGTGGGCTTTTGAAAGGATGCCACCGACTTGTGGGCTTTG-AAAGGGTACCACTGACT
* * *
224283 TGTGGGC-TTTGAAATGAGTGCCACCGACTTGTGAGCTTTGAAATGGGTACCACCGACT
1 TGTGGGCTTTTGAAAGGA-TGCCACCGACTTGTGGGCTTTGAAA-GGGTACCACTGACT
* * * * *
224341 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGTAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACCGACTTGTGGGCTTTG-AAAGGGTACCACTGACT
*
224398 TGTGGGATTTTGAA
1 TGTGGGCTTTTGAA
224412 GGGTGAGGAA
Statistics
Matches: 157, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
56 19 0.12
57 108 0.69
58 26 0.17
59 4 0.03
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (57 bp):
TGTGGGCTTTTGAAAGGATGCCACCGACTTGTGGGCTTTGAAAGGGTACCACTGACT
Found at i:224257 original size:29 final size:29
Alignment explanation
Indices: 224169--224411 Score: 232
Period size: 29 Copynumber: 8.5 Consensus size: 29
224159 CACCAACTTG
* **
224169 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAA-GGATGCCACTGACT
* *
224198 TGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
*
224226 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
* *
224255 TGTGGGC-TTTGAAAAGGGTACC-CTGACT
1 TGTGGGCTTTTG-AAAGGATGCCACTGACT
* *
224283 TGTGGGC-TTTGAAATGAGTGCCACCGACT
1 TGTGGGCTTTTGAAAGGA-TGCCACTGACT
* * * *
224312 TGTGAGC-TTTGAAATGGGTACCACCGACT
1 TGTGGGCTTTTGAAA-GGATGCCACTGACT
*
224341 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACT
*
224369 TGTGGGC-TTTGTAAAAGATGCCACTGACT
1 TGTGGGCTTTTG-AAAGGATGCCACTGACT
*
224398 TGTGGGATTTTGAA
1 TGTGGGCTTTTGAA
224412 GGGTGAGGAA
Statistics
Matches: 180, Mismatches: 24, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
27 13 0.07
28 61 0.34
29 97 0.54
30 9 0.05
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGATGCCACTGACT
Found at i:224305 original size:86 final size:87
Alignment explanation
Indices: 224169--224411 Score: 246
Period size: 86 Copynumber: 2.8 Consensus size: 87
224159 CACCAACTTG
** ** * * * *
224169 TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGTGCTTT-TGAAGGTTGCCACTGACTTGTGGGC
1 TGTGGGCTTTTG-AAGGGTACCACTGACTTGTGGGCTTTGTAAAAGATGCCACTGACTTGTGGGC
* *
224233 TTTTGAAA-AGATGCCACTGACT
65 TTTTGAAATAGATACCACCGACT
* * *
224255 TGTGGGC-TTTGAAAAGGGTACC-CTGACTTGTGGGCTTTG-AAATGAGTGCCACCGACTTGTGA
1 TGTGGGCTTTTG--AAGGGTACCACTGACTTGTGGGCTTTGTAAAAGA-TGCCACTGACTTGTGG
* *
224317 GC-TTTGAAATGGGTACCACCGACT
63 GCTTTTGAAATAGATACCACCGACT
* * *
224341 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGTAAAAGATGCCACTGACTTGTGGGAT
1 TGTGGGCTTTTGAAGGGTACCACTGACTTGTGGGCTTTGTAAAAGATGCCACTGACTTGTGGGCT
224406 TTTGAA
66 TTTGAA
224412 GGGTGAGGAA
Statistics
Matches: 129, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
85 34 0.26
86 80 0.62
87 15 0.12
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (87 bp):
TGTGGGCTTTTGAAGGGTACCACTGACTTGTGGGCTTTGTAAAAGATGCCACTGACTTGTGGGCT
TTTGAAATAGATACCACCGACT
Found at i:225870 original size:21 final size:20
Alignment explanation
Indices: 225843--226009 Score: 144
Period size: 21 Copynumber: 8.1 Consensus size: 20
225833 ATCCAGACCT
*
225843 TTTTGTTGTTGTTTTTTTTC
1 TTTTGTTGTTGTTTTTTTTG
225863 TATTTGTTTGTTTGTTTTTTTTG
1 T-TTTG-TTG-TTGTTTTTTTTG
*
225886 TTTTGTT-TCGGTTTTTTTT-
1 TTTTGTTGT-TGTTTTTTTTG
*
225905 TGTTTGTTTGTTTGTTTGTTTTG
1 T-TTTG-TTG-TTGTTTTTTTTG
* *
225928 TTTTGTTTTTGTTTTGTTTG
1 TTTTGTTGTTGTTTTTTTTG
*
225948 -TTTGTTTGTTTGTTTGTTTTG
1 TTTTG-TTG-TTGTTTTTTTTG
* *
225969 TTTTTTTGTTTGTTTGTTTTG
1 TTTTGTTG-TTGTTTTTTTTG
225990 TTTTGTTGTT-TTTTTTTTG
1 TTTTGTTGTTGTTTTTTTTG
226009 T
1 T
226010 GGAGGACGCC
Statistics
Matches: 122, Mismatches: 13, Indels: 25
0.76 0.08 0.16
Matches are distributed among these distances:
19 15 0.12
20 28 0.23
21 43 0.35
22 22 0.18
23 14 0.11
ACGTcount: A:0.01, C:0.01, G:0.19, T:0.79
Consensus pattern (20 bp):
TTTTGTTGTTGTTTTTTTTG
Found at i:225872 original size:4 final size:4
Alignment explanation
Indices: 225865--226009 Score: 131
Period size: 4 Copynumber: 35.2 Consensus size: 4
225855 TTTTTTTCTA
*
225865 TTTG TTTG TTTG TTTTT TTTG TTTTG TTTCGG TTT- TTT- TTTG TTTG
1 TTTG TTTG TTTG -TTTG TTTG -TTTG TTT--G TTTG TTTG TTTG TTTG
225911 TTTG TTTG TTTG TTTTG TTT- TGTT- TTTG TTTTG TTTG TTTG TTTG TTTG
1 TTTG TTTG TTTG -TTTG TTTG T-TTG TTTG -TTTG TTTG TTTG TTTG TTTG
* *
225960 TTTG TTTTG TTTT TTTG TTTG TTTG TTTTG TTT- TGTTG TTT- TTTT TTTG
1 TTTG -TTTG TTTG TTTG TTTG TTTG -TTTG TTTG T-TTG TTTG TTTG TTTG
226009 T
1 T
226010 GGAGGACGCC
Statistics
Matches: 122, Mismatches: 5, Indels: 28
0.79 0.03 0.18
Matches are distributed among these distances:
3 13 0.11
4 81 0.66
5 24 0.20
6 4 0.03
ACGTcount: A:0.00, C:0.01, G:0.20, T:0.79
Consensus pattern (4 bp):
TTTG
Found at i:225892 original size:37 final size:34
Alignment explanation
Indices: 225842--226007 Score: 183
Period size: 37 Copynumber: 4.6 Consensus size: 34
225832 CATCCAGACC
225842 TTTTTGTTGTTGTTTTTTTTCTATTTGTTTGTTTGTTT
1 TTTTTGTT-TTGTTTTTTTT-T-TTTGTTTGTTTG-TT
225880 TTTTTGTTTTGTTTCGGTTTTTTTTTGTTTGTTTGTT
1 TTTTTGTTTTGTTT---TTTTTTTTTGTTTGTTTGTT
*
225917 TGTTTGTTTTGTTTTGTTTTTGTTTTGTTTGTTTGTT
1 TTTTTGTTTTG-TTT-TTTTT-TTTTGTTTGTTTGTT
* *
225954 TGTTTG-TTTGTTTTGTTTTTTTGTTTGTTTGTT
1 TTTTTGTTTTGTTTTTTTTTTTTGTTTGTTTGTT
*
225987 TTGTTT-TGTTGTTTTTTTTTT
1 TT-TTTGTTTTGTTTTTTTTTT
226008 GTGGAGGACG
Statistics
Matches: 116, Mismatches: 5, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
33 16 0.14
34 19 0.16
35 3 0.03
36 10 0.09
37 39 0.34
38 23 0.20
39 1 0.01
40 5 0.04
ACGTcount: A:0.01, C:0.01, G:0.19, T:0.80
Consensus pattern (34 bp):
TTTTTGTTTTGTTTTTTTTTTTTGTTTGTTTGTT
Found at i:225905 original size:16 final size:14
Alignment explanation
Indices: 225842--226006 Score: 121
Period size: 13 Copynumber: 11.6 Consensus size: 14
225832 CATCCAGACC
*
225842 TTTTTGTTG-TTGT
1 TTTTTTTTGTTTGT
*
225855 TTTTTTTCTATTTG-
1 TTTTTTT-TGTTTGT
*
225869 -TTTGTTTGTTT-T
1 TTTTTTTTGTTTGT
225881 TTTTGTTTTGTTTCGGT
1 TTTT-TTTTGTTT--GT
225898 TTTTTTTTGTTTGT
1 TTTTTTTTGTTTGT
225912 TTGTTTGTTTGTTTTGT
1 TT-TTT-TTTG-TTTGT
225929 TTTGTTTTTGTTTTGT
1 TTT-TTTTTG-TTTGT
225945 TTGTTTGTTTGTTTG-
1 TT-TTT-TTTGTTTGT
*
225960 TTTGTTTTG-TT-T
1 TTTTTTTTGTTTGT
*
225972 TTTTGTTTGTTTGT
1 TTTTTTTTGTTTGT
*
225986 TTTGTTTTG-TTGT
1 TTTTTTTTGTTTGT
225999 TTTTTTTT
1 TTTTTTTT
226007 TGTGGAGGAC
Statistics
Matches: 124, Mismatches: 11, Indels: 34
0.73 0.07 0.20
Matches are distributed among these distances:
12 13 0.10
13 31 0.25
14 22 0.18
15 8 0.06
16 31 0.25
17 19 0.15
ACGTcount: A:0.01, C:0.01, G:0.19, T:0.79
Consensus pattern (14 bp):
TTTTTTTTGTTTGT
Found at i:225914 original size:42 final size:41
Alignment explanation
Indices: 225843--226009 Score: 184
Period size: 42 Copynumber: 4.0 Consensus size: 41
225833 ATCCAGACCT
* * *
225843 TTTTGTTGTTGTTTTTTTTCTATTTGTTTGTTTGTTTTTTTTG
1 TTTTGTT-TGGTTTTTTTT-TGTTTGTTTGTTTGTTTGTTTTG
225886 TTTTGTTTCGGTTTTTTTTTGTTTGTTTGTTTGTTTGTTTTG
1 TTTTGTTT-GGTTTTTTTTTGTTTGTTTGTTTGTTTGTTTTG
225928 TTTTGTTT--TTGTTTTGTTTGTTTGTTTGTTTGTTTGTTTTG
1 TTTTGTTTGGTT-TTTT-TTTGTTTGTTTGTTTGTTTGTTTTG
*
225969 TTTT-TTTGTTTGTTTGTTTTGTTT-TGTTGTTT-TTT-TTTTG
1 TTTTGTTTGGTT-TTT-TTTTGTTTGT-TTGTTTGTTTGTTTTG
226009 T
1 T
226010 GGAGGACGCC
Statistics
Matches: 114, Mismatches: 3, Indels: 17
0.85 0.02 0.13
Matches are distributed among these distances:
39 2 0.02
40 13 0.11
41 33 0.29
42 49 0.43
43 17 0.15
ACGTcount: A:0.01, C:0.01, G:0.19, T:0.79
Consensus pattern (41 bp):
TTTTGTTTGGTTTTTTTTTGTTTGTTTGTTTGTTTGTTTTG
Found at i:235372 original size:13 final size:13
Alignment explanation
Indices: 235354--235380 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
235344 ACAAAGATCA
235354 AATGTATCGATAC
1 AATGTATCGATAC
235367 AATGTATCGATAC
1 AATGTATCGATAC
235380 A
1 A
235381 TTGAGTAATG
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):
AATGTATCGATAC
Found at i:241871 original size:106 final size:105
Alignment explanation
Indices: 241732--242169 Score: 378
Period size: 106 Copynumber: 4.2 Consensus size: 105
241722 TTTAACTCTA
* * * *
241732 GGAAACTCCGACCCCACTAC-TCTGAGGTGATACTCTAACCCCGTTCTTCATAAAAAATCAAATT
1 GGAAACTCCAACCCTACTACTTC-GAGGGGATACTCTAACCCCATTCTTCATAAAAAATCAAATT
* * * *
241796 TTTTCTTTTTTCCTTAAA-AGTTTTCATAATTTTCTCTTTAAA
65 TTCTCTTTGTTCCTTAAATA-TTTTCATAATTTTAT-TTTAAG
* * * *
241838 AGAATCTCCAACCCTACTACTTCGAGGGGATACTCTAATCTCATTCTTCATAAAAGAATCAAATT
1 GGAAACTCCAACCCTACTACTTCGAGGGGATACTCTAACCCCATTCTTCATAAAA-AATCAAATT
* *
241903 TTCTTTTTGTTCC-TAAATATTTTCATAATTTTATTTTTAG
65 TTCTCTTTGTTCCTTAAATATTTTCATAATTTTATTTTAAG
* * * *
241943 GGAAACTCTAACTCC-ACTACTCCGAGGGGATACTCTAA-TCCATTTTTCATAAAAAAATCAAAT
1 GGAAACTCCAAC-CCTACTACTTCGAGGGGATACTCTAACCCCATTCTTCAT-AAAAAATCAAAT
* ** *
242006 CAAGTTCTCTCTTT-ATCCTTAGGT-GTTTCATAATTTTATTTTAAG
64 ----TT-TCTCTTTGTTCCTTAAATATTTTCATAATTTTATTTTAAG
* * * * * * * * *
242051 GGAAACTCTAACCCT-TTACTTTGAGGGGACACTCCAACCTC-TTTTGTTATAAAAAATCATATT
1 GGAAACTCCAACCCTACTACTTCGAGGGGATACTCTAACCCCATTCT-TCATAAAAAATCAAATT
242114 TTCTCTTTGTT-CTTAAATATTTTCATAATTTTATCTTT--G
65 TTCTCTTTGTTCCTTAAATATTTTCATAATTTTAT-TTTAAG
*
242153 GGAATGCTCCAACCCTA
1 GGAA-ACTCCAACCCTA
242170 GTTCTCCGAA
Statistics
Matches: 271, Mismatches: 42, Indels: 40
0.77 0.12 0.11
Matches are distributed among these distances:
102 17 0.06
103 26 0.10
104 20 0.07
105 39 0.14
106 64 0.24
107 56 0.21
108 40 0.15
109 9 0.03
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (105 bp):
GGAAACTCCAACCCTACTACTTCGAGGGGATACTCTAACCCCATTCTTCATAAAAAATCAAATTT
TCTCTTTGTTCCTTAAATATTTTCATAATTTTATTTTAAG
Found at i:243972 original size:21 final size:21
Alignment explanation
Indices: 243945--244001 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
243935 TACAAGTGAA
243945 AATGTATCAATACATTATGT-
1 AATGTATCAATACATTATGTG
**
243965 ACATGTATTGATACATTATGTG
1 A-ATGTATCAATACATTATGTG
*
243987 AATATATCAATACAT
1 AATGTATCAATACAT
244002 CTTGTTGGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (21 bp):
AATGTATCAATACATTATGTG
Found at i:250308 original size:20 final size:19
Alignment explanation
Indices: 250283--250410 Score: 97
Period size: 20 Copynumber: 6.8 Consensus size: 19
250273 TTTTCACAAT
*
250283 TTGTATCGATACATTATTTA
1 TTGTATCGATACATT-TTCA
*
250303 TTGTATTGATACATTTTGCA
1 TTGTATCGATACATTTT-CA
*
250323 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATT-TTCA
*
250343 TTGTATTGAT--A----CA
1 TTGTATCGATACATTTTCA
**
250356 TTGTATCGATACATGGCTCA
1 TTGTATCGATACAT-TTTCA
*
250376 TTATATCGATACATTTTACA
1 TTGTATCGATACATTTT-CA
*
250396 ATGTATCGATACATT
1 TTGTATCGATACATT
250411 CAGGCATTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
13 11 0.13
15 1 0.01
18 1 0.01
19 3 0.03
20 70 0.80
21 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (19 bp):
TTGTATCGATACATTTTCA
Found at i:250363 original size:33 final size:33
Alignment explanation
Indices: 250321--250390 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
250311 ATACATTTTG
* * *
250321 CATTGTATCGATACATTGCTCATTGTATTGATA
1 CATTGTATCGATACATGGCTCATTATATCGATA
250354 CATTGTATCGATACATGGCTCATTATATCGATA
1 CATTGTATCGATACATGGCTCATTATATCGATA
250387 CATT
1 CATT
250391 TTACAATGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (33 bp):
CATTGTATCGATACATGGCTCATTATATCGATA
Found at i:251906 original size:27 final size:29
Alignment explanation
Indices: 251841--251907 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
251831 AATGAACAAG
* * *
251841 GTATCGAAACATTTGGGTTTATCCAGAAT
1 GTATCGATACATCTGGGTTTATCAAGAAT
251870 GTATCGATACATCTGGGTTT-TCAAG-AT
1 GTATCGATACATCTGGGTTTATCAAGAAT
*
251897 GTATTGATACA
1 GTATCGATACA
251908 ATGAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 12 0.35
28 4 0.12
29 18 0.53
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (29 bp):
GTATCGATACATCTGGGTTTATCAAGAAT
Found at i:251973 original size:47 final size:47
Alignment explanation
Indices: 251871--251974 Score: 106
Period size: 47 Copynumber: 2.2 Consensus size: 47
251861 ATCCAGAATG
* *
251871 TATCGATACATCTGGGTTTTCAAGATGTATTGATACAATGAATAATG
1 TATCGATACATCTGGGTTTTCAAGATGTATTGATACAATCAATAATA
* * * *
251918 TATTGATACATTTGGG-TTTCTAA-ATTGTATCT-ATACATTCACTAATA
1 TATCGATACATCTGGGTTTTC-AAGA-TGTAT-TGATACAATCAATAATA
251965 TATCGATACA
1 TATCGATACA
251975 AACACTATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
46 5 0.11
47 41 0.87
48 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (47 bp):
TATCGATACATCTGGGTTTTCAAGATGTATTGATACAATCAATAATA
Found at i:252788 original size:32 final size:33
Alignment explanation
Indices: 252742--252803 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
252732 ACAAACAGTA
*
252742 ATTGTATACATAAGTGTTGTATCGATACAATGT
1 ATTGTATACATAAGTATTGTATCGATACAATGT
252775 ATTG-ATACATAAGTATTGTATCGATACAA
1 ATTGTATACATAAGTATTGTATCGATACAA
252804 AGCTACTGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (33 bp):
ATTGTATACATAAGTATTGTATCGATACAATGT
Found at i:259838 original size:21 final size:20
Alignment explanation
Indices: 259812--259872 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 20
259802 AAGTAAGCAC
259812 ACAAACAAAAGTAAAAAAAAA
1 ACAAACAAAAG-AAAAAAAAA
*
259833 ACAAACAAAAACAAAAAAAAA
1 ACAAAC-AAAAGAAAAAAAAA
259854 ACACACACAAAAGAAAAAA
1 ACA-A-ACAAAAGAAAAAA
259873 GTTCAAAGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 18 0.51
22 15 0.43
23 2 0.06
ACGTcount: A:0.80, C:0.15, G:0.03, T:0.02
Consensus pattern (20 bp):
ACAAACAAAAGAAAAAAAAA
Found at i:259842 original size:11 final size:11
Alignment explanation
Indices: 259824--259856 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
259814 AAACAAAAGT
259824 AAAAAAAAAAC
1 AAAAAAAAAAC
*
259835 -AAACAAAAAC
1 AAAAAAAAAAC
259845 AAAAAAAAAAC
1 AAAAAAAAAAC
259856 A
1 A
259857 CACACAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:259863 original size:17 final size:17
Alignment explanation
Indices: 259827--259872 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
259817 CAAAAGTAAA
259827 AAAAAAACAAACAAAAAC
1 AAAAAAA-AAACAAAAAC
* *
259845 AAAAAAAAAACACACAC
1 AAAAAAAAAACAAAAAC
259862 AAAAGAAAAAA
1 AAAA-AAAAAA
259873 GTTCAAAGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAAAAAC
Found at i:261222 original size:32 final size:32
Alignment explanation
Indices: 261143--261620 Score: 515
Period size: 32 Copynumber: 15.3 Consensus size: 32
261133 AATTCTTCAA
* *
261143 ATCTCTTGTCCCAAAGTCCACAACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACAACTCAGTGGC
* *
261175 A--TCTTGTCTCAAAGTCCACAATTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACAACTCAGTGGC
* *
261205 ATCTCTTTTCTCAAAGTCCACGACTCAATGGC
1 ATCTCTTTTCTCAAAGTCCACAACTCAGTGGC
* * *
261237 A--TCTTATCTCAAAGTCCACAATTTAGTGGC
1 ATCTCTTTTCTCAAAGTCCACAACTCAGTGGC
*
261267 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACAACTCAGTGGC
**
261299 ATC-CTTTTCTTCAAAGTCCATGACTCAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACAACTCAGTGGC
* *
261331 A--TCTTTTCTTCAAAGTCCACGACTTAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACAACTCAGTGGC
* *
261362 A--TCTTGTCTCAAAGTCCACAATTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACAACTCAGTGGC
* * *
261392 A--TCTTGTCTCAAACTCCACAATTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACAACTCAGTGGC
*
261422 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACAACTCAGTGGC
*
261454 ATC-CTTTTCTTCCAAGTCCACAACTCAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACAACTCAGTGGC
* *
261486 ATC-CTTTTCTTCCAAGTCCACGACTCAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACAACTCAGTGGC
*
261518 ATCTC-TTTC-CAAAGTCCACGACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACAACTCAGTGGC
**
261548 A--TCTTTTCTTCAAAGTCCATGACTCAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACAACTCAGTGGC
* * *
261579 ATCTTTTTTCTTCAAAGTCCACAACTCCGTAGC
1 ATCTCTTTTC-TCAAAGTCCACAACTCAGTGGC
261612 ATCT-TTTTC
1 ATCTCTTTTC
261621 CTTTAAAGTC
Statistics
Matches: 394, Mismatches: 37, Indels: 30
0.85 0.08 0.07
Matches are distributed among these distances:
28 2 0.01
29 4 0.01
30 123 0.31
31 67 0.17
32 168 0.43
33 30 0.08
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.32
Consensus pattern (32 bp):
ATCTCTTTTCTCAAAGTCCACAACTCAGTGGC
Found at i:261473 original size:187 final size:185
Alignment explanation
Indices: 261143--261651 Score: 641
Period size: 187 Copynumber: 2.7 Consensus size: 185
261133 AATTCTTCAA
*
261143 ATCTCTTGTCCCAAAGTCCACAACTCAGTGGCATCTTGTCTCAAAGTCCACAATTCAGTGGCATC
1 ATCTCTT-T-CCAAAGTCCACGACTCAGTGGCATCTTGTCTCAAAGTCCACAATTCAGTGGCA--
* * * * * *
261208 TCTTTTCTCAAAGTCCACGACTCAATGGCA--TCTTATCTCAAAGTCCACAATTTAGTGGCATCT
62 TCTTTTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATC-
* *
261271 CTTTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCATGACTCAGTGGC
126 CTTTTCTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGC
*
261331 ATCT-TTTCTTCAAAGTCCACGACTTAGTGGCATCTTGTCTCAAAGTCCACAATTCAGTGGCATC
1 ATCTCTTTC--CAAAGTCCACGACTCAGTGGCATCTTGTCTCAAAGTCCACAATTCAGTGGCATC
* * *
261395 TTGTCTCAAACTCCACAATTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCCTT
64 TTTTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCCTT
* *
261460 TTCTTCCAAGTCCACAACTCAGTGGCATCCTTTTCTTCCAAGTCCACGACTCAGTGGC
129 TTC-TCAAAGTCCACAACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGC
* ** *
261518 ATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCATGACTCAGTGGCATCT
1 ATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTGTC-TCAAAGTCCACAATTCAGTGGCATC-
* * * * *
261583 TTTTTCTTCAAAGTCCACAACTCCGTAGCATCT-TTTTCCTTTAAAGTCCGCGACTCTGTGGCA-
64 -TTTTC-TCAAAGTCCACAACTCAGTGGCATCTCTTTT-C-TCAAAGTCCACGACTCAGTGGCAT
261646 CCTTTT
125 CCTTTT
261652 TCTTTTCAAA
Statistics
Matches: 281, Mismatches: 28, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
185 26 0.09
186 34 0.12
187 156 0.56
188 8 0.03
189 8 0.03
190 29 0.10
191 20 0.07
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (185 bp):
ATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTGTCTCAAAGTCCACAATTCAGTGGCATCTT
TTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCCTTTT
CTCAAAGTCCACAACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGC
Found at i:261533 original size:217 final size:216
Alignment explanation
Indices: 261146--261616 Score: 714
Period size: 217 Copynumber: 2.2 Consensus size: 216
261136 TCTTCAAATC
* *
261146 TCTTGTCCCAAAGTCCACAACTCAGTGGCATCTTGTCTCAAAGTCCACAATTCAGTGGCATCTCT
1 TCTTGTCTCAAAGTCCACAACTCAGTGGCATCTTGTCTCAAACTCCACAATTCAGTGGCATCTCT
* *
261211 TTTCTCAAAGTCCACGACTCAATGGCATCTTATCTCAAAGTCCACAATTTAGTGGCATCTCTTTT
66 TTTCTCAAAGTCCACGACTCAATGGCATCTTATCTCAAAGTCCACAACTCAGTGGCATCTCTTTT
*
261276 CTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCATGACTCAGTGGCATCTTTTCTT
131 CTCAAAGTCCACGACTCAGTGGCATCCTTTTC-TCAAAGTCCACGACTCAGTGGCATCTTTTCTT
*
261341 CAAAGTCCACGACTTAGTGGCA
195 CAAAGTCCACGACTCAGTGGCA
*
261363 TCTTGTCTCAAAGTCCACAATTCAGTGGCATCTTGTCTCAAACTCCACAATTCAGTGGCATCTCT
1 TCTTGTCTCAAAGTCCACAACTCAGTGGCATCTTGTCTCAAACTCCACAATTCAGTGGCATCTCT
* * *
261428 TTTCTCAAAGTCCACGACTCAGTGGCATCCTTTTCTTCCAAGTCCACAACTCAGTGGCATC-CTT
66 TTTCTCAAAGTCCACGACTCAATGGCAT-CTTATC-TCAAAGTCCACAACTCAGTGGCATCTCTT
*
261492 TTCTTCCAAGTCCACGACTCAGTGGCAT-CTCTTTC-CAAAGTCCACGACTCAGTGGCATCTTTT
129 TTC-TCAAAGTCCACGACTCAGTGGCATCCT-TTTCTCAAAGTCCACGACTCAGTGGCATCTTTT
*
261555 CTTCAAAGTCCATGACTCAGTGGCA
192 CTTCAAAGTCCACGACTCAGTGGCA
* * *
261580 TCTTTTTTCTTCAAAGTCCACAACTCCGTAGCATCTT
1 TC--TTGTC-TCAAAGTCCACAACTCAGTGGCATCTT
261617 TTTCCTTTAA
Statistics
Matches: 231, Mismatches: 16, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
217 141 0.61
218 13 0.06
219 53 0.23
220 24 0.10
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (216 bp):
TCTTGTCTCAAAGTCCACAACTCAGTGGCATCTTGTCTCAAACTCCACAATTCAGTGGCATCTCT
TTTCTCAAAGTCCACGACTCAATGGCATCTTATCTCAAAGTCCACAACTCAGTGGCATCTCTTTT
CTCAAAGTCCACGACTCAGTGGCATCCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTC
AAAGTCCACGACTCAGTGGCA
Found at i:261673 original size:34 final size:34
Alignment explanation
Indices: 261521--261681 Score: 125
Period size: 33 Copynumber: 4.9 Consensus size: 34
261511 CAGTGGCATC
* * * * *
261521 TCTTTCCAAAGTCCACGACTCAGTGGCATC-TTT
1 TCTTTTCAAAGTCCGCAACTCTGTGGCACCTTTT
*** * *
261554 TC--TTCAAAGTCCATGACTCAGTGGCATCTTTT
1 TCTTTTCAAAGTCCGCAACTCTGTGGCACCTTTT
* * * * *
261586 T-TCTTCAAAGTCCACAACTCCGTAGCATCTTTT
1 TCTTTTCAAAGTCCGCAACTCTGTGGCACCTTTT
* *
261619 TCCTTT-AAAGTCCGCGACTCTGTGGCACCTTTT
1 TCTTTTCAAAGTCCGCAACTCTGTGGCACCTTTT
*
261652 TCTTTTCAAAGTTCGCAACTCTGTGGCACC
1 TCTTTTCAAAGTCCGCAACTCTGTGGCACC
261682 CTTCTTCCTT
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
31 24 0.22
32 4 0.04
33 56 0.52
34 23 0.21
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.35
Consensus pattern (34 bp):
TCTTTTCAAAGTCCGCAACTCTGTGGCACCTTTT
Found at i:261762 original size:33 final size:33
Alignment explanation
Indices: 261155--261786 Score: 389
Period size: 32 Copynumber: 20.1 Consensus size: 33
261145 CTCTTGTCCC
* *
261155 AAAGTCCACAACTCAGTGGCATC-TTGT-C-TC
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* *
261185 AAAGTCCACAATTCAGTGGCATCTCTTTT-C-TC
1 AAAGTCCACAACTCAGTGGCATCT-TTTTCCTTT
* * * *
261217 AAAGTCCACGACTCAATGGCATC-TTAT-C-TC
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* * *
261247 AAAGTCCACAATTTAGTGGCATCTCTTTT-C-TC
1 AAAGTCCACAACTCAGTGGCATCT-TTTTCCTTT
* * *
261279 AAAGTCCACGACTCAGTGGCATCCTTTT-CTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
** *
261311 AAAGTCCATGACTCAGTGGCATC-TTTT-CTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* * * *
261342 AAAGTCCACGACTTAGTGGCATC-TTGT-C-TC
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* * *
261372 AAAGTCCACAATTCAGTGGCATC-TTGT-C-TC
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* * *
261402 AAACTCCACAATTCAGTGGCATCTCTTTT-C-TC
1 AAAGTCCACAACTCAGTGGCATCT-TTTTCCTTT
* * *
261434 AAAGTCCACGACTCAGTGGCATCCTTTT-CTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* * *
261466 CAAGTCCACAACTCAGTGGCATCCTTTT-CTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* * *
261498 CAAGTCCACGACTCAGTGGCATCTCTTTCC---
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* *
261528 AAAGTCCACGACTCAGTGGCATC-TTTT-CTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
** * *
261559 AAAGTCCATGACTCAGTGGCATCTTTTTTCTTC
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* *
261592 AAAGTCCACAACTCCGTAGCATCTTTTTCCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* * * * *
261625 AAAGTCCGCGACTCTGTGGCACCTTTTTCTTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* * * * *
261658 CAAAGTTCGCAACTCTGTGGCACCCTTCTTCCTTT
1 -AAAGTCCACAACTCAGTGGCA-TCTTTTTCCTTT
* * * *
261693 TAAGCCCACAACTCCGTAGCA-C-----CCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* * *
261720 GAAGGCCACAACTCCGTGGCATCTTTTTCCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
* * **
261753 TAAGTCCACAACTCCGTGGCA-CTTTCACCTTT
1 AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
261785 AA
1 AA
261787 GACCAATGTT
Statistics
Matches: 514, Mismatches: 66, Indels: 42
0.83 0.11 0.07
Matches are distributed among these distances:
27 23 0.04
28 2 0.00
29 3 0.01
30 120 0.23
31 65 0.13
32 174 0.34
33 83 0.16
34 34 0.07
35 10 0.02
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (33 bp):
AAAGTCCACAACTCAGTGGCATCTTTTTCCTTT
Found at i:261900 original size:49 final size:49
Alignment explanation
Indices: 261823--262344 Score: 550
Period size: 49 Copynumber: 10.6 Consensus size: 49
261813 CACATTGGCA
261823 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTT-ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTCATCTT
* * * * *
261872 TAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*** *
261921 TAAGTCTGGTATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
261970 TAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
** *
262019 TAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCACCATCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
262068 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*** *
262117 TAAGTCTGGTATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
262166 TAAGACCAATGTCGATGGCCTTGAATCAGCACATTGGCACCTTCATTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
** * * *
262215 TAAGTCCAATATCATTAGCCTTGCATCAGCATATTGGCATCTTTAACAT-TCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTT--CATCT-T
* * * * * *
262267 TAAGCCCAATGTCGCTGACCTT-ATCTCAGCACATTGGCA--TTCTTCTT
1 TAAGTCCAATATCGCTGGCCTTGA-ATCAGCATATTGGCACCTTCATCTT
* * * *
262314 CAAGTCTAATGTCGCTGGCCATGAATCAGCA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCA
262345 CATTATCATT
Statistics
Matches: 386, Mismatches: 79, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
47 26 0.07
48 4 0.01
49 319 0.83
50 3 0.01
51 1 0.00
52 33 0.09
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:261992 original size:98 final size:98
Alignment explanation
Indices: 261832--262344 Score: 701
Period size: 98 Copynumber: 5.2 Consensus size: 98
261822 ATAAGTCCAA
* *
261832 TATCGCTGGCCTTGAATCAGCATATTGGCACCGTTATCTTTAAGACCAATGTCGCTAGCCTTGAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAA
261897 TCAGCACATTGGCATCTTCATCTTTAAGTCTGG
66 TCAGCACATTGGCATCTTCATCTTTAAGTCTGG
*
261930 TATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTTGCTGGCCTTGAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAA
*
261995 TCAGCACATTGGCATCTTCATCTTTAAGTCCGG
66 TCAGCACATTGGCATCTTCATCTTTAAGTCTGG
*
262028 TATCGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGACCAATGTCGCTGGCCTTGAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAA
262093 TCAGCACATTGGCATCTTCATCTTTAAGTCTGG
66 TCAGCACATTGGCATCTTCATCTTTAAGTCTGG
* * *
262126 TATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGATGGCCTTGAA
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAA
* * ***
262191 TCAGCACATTGGCACCTTCATTTTTAAGTCCAA
66 TCAGCACATTGGCATCTTCATCTTTAAGTCTGG
** * * ** * *
262224 TATCATTAGCCTTGCATCAGCATATTGGCATCTTTAACAT-TCTTAAGCCCAATGTCGCTGACCT
1 TATCGCTGGCCTTGAATCAGCATATTGGCA-CCGT--CATCT-TTAAGACCAATGTCGCTGGCCT
* * * **
262288 T-ATCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAA
62 TGA-ATCAGCACATTGGCATCTTCATCTTTAAGTCTGG
* *
262323 TGTCGCTGGCCATGAATCAGCA
1 TATCGCTGGCCTTGAATCAGCA
262345 CATTATCATT
Statistics
Matches: 375, Mismatches: 35, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
98 304 0.81
99 32 0.09
100 2 0.01
101 37 0.10
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (98 bp):
TATCGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAA
TCAGCACATTGGCATCTTCATCTTTAAGTCTGG
Found at i:263091 original size:20 final size:21
Alignment explanation
Indices: 263041--263095 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
263031 TTTCAACAAT
263041 TTGTATCGATACAAATAGTAA
1 TTGTATCGATACAAATAGTAA
* * **
263062 TTGCATCGATACATA-AGTGC
1 TTGTATCGATACAAATAGTAA
263082 TTGTATCGATACAA
1 TTGTATCGATACAA
263096 TGTATCGCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAATAGTAA
Found at i:263164 original size:13 final size:13
Alignment explanation
Indices: 263146--263170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
263136 CATTACTCAA
263146 TGTATCGATACAT
1 TGTATCGATACAT
263159 TGTATCGATACA
1 TGTATCGATACA
263171 ATGATCTTTG
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:268552 original size:21 final size:21
Alignment explanation
Indices: 268497--268554 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
268487 ATATAAGTGA
*
268497 AAATATATCGATACATTATGT
1 AAATATATCGATACATTAAGT
** *
268518 AAAGGTATCAATACATTAAGT
1 AAATATATCGATACATTAAGT
*
268539 AAATATATTGATACAT
1 AAATATATCGATACAT
268555 CTTATTAGAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (21 bp):
AAATATATCGATACATTAAGT
Found at i:269691 original size:17 final size:17
Alignment explanation
Indices: 269669--269709 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
269659 AAATTGAAAT
*
269669 TATTTGGATACAAAACG
1 TATTTGGATACAAAAAG
269686 TATTTGGATACAAAAAG
1 TATTTGGATACAAAAAG
269703 TATTTGG
1 TATTTGG
269710 GCAAGGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (17 bp):
TATTTGGATACAAAAAG
Found at i:270795 original size:30 final size:31
Alignment explanation
Indices: 270743--270856 Score: 144
Period size: 32 Copynumber: 3.6 Consensus size: 31
270733 CAACACTGTC
*
270743 TTTCAAGGCTAAGATAGAAACCTCTCTATCT
1 TTTCAAGGCTAAGATAGAAACCTCCCTATCT
270774 TTTGC-AGGCTAAGATAG-AACCTCCCTATCT
1 TTT-CAAGGCTAAGATAGAAACCTCCCTATCT
*
270804 TTTACAAAGGCTAAGAGAGAAACTCTACCCTATC-
1 TTT-C-AAGGCTAAGATAGAAAC-CT-CCCTATCT
270838 TTTCAAGGCTAAGATAGAA
1 TTTCAAGGCTAAGATAGAA
270857 CCTTTCAATC
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
30 16 0.22
31 15 0.21
32 26 0.36
33 4 0.05
34 5 0.07
35 7 0.10
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (31 bp):
TTTCAAGGCTAAGATAGAAACCTCCCTATCT
Found at i:271323 original size:20 final size:20
Alignment explanation
Indices: 271300--271378 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 20
271290 CAATGTCTCA
271300 ATACAACTC-TCTATGTATCG
1 ATACAACTCATC-ATGTATCG
* *
271320 ATACAATTCATCATGTATTG
1 ATACAACTCATCATGTATCG
271340 ATAC-A---AT-A--TATCG
1 ATACAACTCATCATGTATCG
*
271353 ATACAAATCATCATGTATCG
1 ATACAACTCATCATGTATCG
271373 ATACAA
1 ATACAA
271379 TATATCGATA
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
13 8 0.17
14 1 0.02
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 1 0.02
20 30 0.62
21 2 0.04
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (20 bp):
ATACAACTCATCATGTATCG
Found at i:271357 original size:13 final size:13
Alignment explanation
Indices: 271339--271391 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
271329 ATCATGTATT
271339 GATACAATATATC
1 GATACAATATATC
271352 GATAC-A-A-ATC
1 GATACAATATATC
*
271362 -AT-C-ATGTATC
1 GATACAATATATC
271372 GATACAATATATC
1 GATACAATATATC
271385 GATACAA
1 GATACAA
271392 ATCATCATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 6 0.18
11 3 0.09
12 2 0.06
13 18 0.55
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.28
Consensus pattern (13 bp):
GATACAATATATC
Found at i:271357 original size:33 final size:33
Alignment explanation
Indices: 271315--271411 Score: 176
Period size: 33 Copynumber: 2.9 Consensus size: 33
271305 ACTCTCTATG
*
271315 TATCGATACAATTCATCATGTATTGATACAATA
1 TATCGATACAAATCATCATGTATTGATACAATA
*
271348 TATCGATACAAATCATCATGTATCGATACAATA
1 TATCGATACAAATCATCATGTATTGATACAATA
271381 TATCGATACAAATCATCATGTATTGATACAA
1 TATCGATACAAATCATCATGTATTGATACAA
271412 AGTGAGTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.33
Consensus pattern (33 bp):
TATCGATACAAATCATCATGTATTGATACAATA
Found at i:271410 original size:20 final size:20
Alignment explanation
Indices: 271312--271412 Score: 77
Period size: 20 Copynumber: 5.8 Consensus size: 20
271302 ACAACTCTCT
*
271312 ATGTATCGATACAATTCATC
1 ATGTATCGATACAAATCATC
*
271332 ATGTATTGATAC--A--AT-
1 ATGTATCGATACAAATCATC
271347 A--TATCGATACAAATCATC
1 ATGTATCGATACAAATCATC
271365 ATGTATCGATAC--A--AT-
1 ATGTATCGATACAAATCATC
271380 A--TATCGATACAAATCATC
1 ATGTATCGATACAAATCATC
*
271398 ATGTATTGATACAAA
1 ATGTATCGATACAAA
271413 GTGAGTTTAG
Statistics
Matches: 63, Mismatches: 4, Indels: 28
0.66 0.04 0.29
Matches are distributed among these distances:
13 17 0.27
15 4 0.06
16 4 0.06
17 4 0.06
18 3 0.05
20 31 0.49
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAAATCATC
Found at i:271795 original size:13 final size:13
Alignment explanation
Indices: 271777--271801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
271767 CATTATGCTT
271777 TGTATCGATACAA
1 TGTATCGATACAA
271790 TGTATCGATACA
1 TGTATCGATACA
271802 TATTTATTGC
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:271905 original size:13 final size:13
Alignment explanation
Indices: 271887--271917 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
271877 CGATACGTGG
271887 TACATTGTATCCA
1 TACATTGTATCCA
*
271900 TACATTGTATCGA
1 TACATTGTATCCA
271913 TACAT
1 TACAT
271918 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (13 bp):
TACATTGTATCCA
Found at i:271927 original size:33 final size:33
Alignment explanation
Indices: 271871--271939 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
271861 CTACCACTGT
* *
271871 TTGTATCGATACGTGGTACATTGTATCCATACA
1 TTGTATCGATACATGATACATTGTATCCATACA
* *
271904 TTGTATCGATACATGATGA-ATTGTATCGATGCA
1 TTGTATCGATACATGAT-ACATTGTATCCATACA
271937 TTG
1 TTG
271940 CTTGTAACGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATACATTGTATCCATACA
Found at i:278071 original size:13 final size:13
Alignment explanation
Indices: 278053--278112 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
278043 CCCAGATTCG
278053 TTGTATCGATACA
1 TTGTATCGATACA
278066 TTGTATCGATACA
1 TTGTATCGATACA
* *
278079 ----A-C-ATTCC
1 TTGTATCGATACA
278086 TTGTATCGATACA
1 TTGTATCGATACA
278099 TTGTATCGATACA
1 TTGTATCGATACA
278112 T
1 T
278113 GGGTTACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
7 3 0.08
8 1 0.03
9 1 0.03
11 1 0.03
12 1 0.03
13 30 0.81
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:278095 original size:33 final size:33
Alignment explanation
Indices: 278048--278111 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
278038 GAAAACCCAG
*
278048 ATTCGTTGTATCGATACATTGTATCGATACAAC
1 ATTCCTTGTATCGATACATTGTATCGATACAAC
278081 ATTCCTTGTATCGATACATTGTATCGATACA
1 ATTCCTTGTATCGATACATTGTATCGATACA
278112 TGGGTTACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (33 bp):
ATTCCTTGTATCGATACATTGTATCGATACAAC
Found at i:280641 original size:32 final size:33
Alignment explanation
Indices: 280580--280641 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
280570 ACACACCGAG
*
280580 ATGTATCGATACATTATGCTTTGTATCGATGCA
1 ATGTATCGATACATTATGCCTTGTATCGATGCA
*
280613 ATGTATCGATACA-TATTCCTTGTATCGAT
1 ATGTATCGATACATTATGCCTTGTATCGAT
280642 ACATGGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (33 bp):
ATGTATCGATACATTATGCCTTGTATCGATGCA
Found at i:281499 original size:13 final size:13
Alignment explanation
Indices: 281481--281505 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
281471 TACCAAGAAC
281481 ATGTATCGATACA
1 ATGTATCGATACA
281494 ATGTATCGATAC
1 ATGTATCGATAC
281506 TAAGCAATAT
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):
ATGTATCGATACA
Found at i:281647 original size:20 final size:21
Alignment explanation
Indices: 281622--281665 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
281612 GATACTTTGA
281622 ATTATTTTTA-CTAGAAAAAC
1 ATTATTTTTAGCTAGAAAAAC
*
281642 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTA-GCTAGAAAAAC
281664 AT
1 AT
281666 CTATACTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (21 bp):
ATTATTTTTAGCTAGAAAAAC
Found at i:285361 original size:33 final size:33
Alignment explanation
Indices: 285324--285386 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
285314 CTACCACTAT
* * *
285324 TGTATCGATACATGGCACATTGTATTGATATAG
1 TGTATCAATACATGACAAATTGTATTGATATAG
*
285357 TGTATCAATACATGATAAATTGTATTGATA
1 TGTATCAATACATGACAAATTGTATTGATA
285387 CATTGCTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCAATACATGACAAATTGTATTGATATAG
Found at i:287427 original size:32 final size:31
Alignment explanation
Indices: 287375--287531 Score: 130
Period size: 32 Copynumber: 5.0 Consensus size: 31
287365 CCTTACAACA
287375 CTATCTTTT-AAGGCTAAGATAGAAACCTCC
1 CTATCTTTTCAAGGCTAAGATAGAAACCTCC
*
287405 CTATCTTTTCATGAGCTAAGATA-AAACCTCTTCC
1 CTATCTTTTCAAG-GCTAAGATAGAAA-C-C-TCC
* * *
287439 CTATCTTTT-ACAGGGTAAGAT-TAAACATCC
1 CTATCTTTTCA-AGGCTAAGATAGAAACCTCC
*
287469 CTATCTTTTAAAGAGGCTAAGATAG-AACCTCTAC
1 CTATCTTTT-CA-AGGCTAAGATAGAAACCTC--C
287503 ACTATC-TTTCAAGGCTAAGATAG-AACCTC
1 -CTATCTTTTCAAGGCTAAGATAGAAACCTC
287532 TCAATCACTT
Statistics
Matches: 105, Mismatches: 9, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
30 21 0.20
31 5 0.05
32 44 0.42
33 13 0.12
34 17 0.16
35 5 0.05
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (31 bp):
CTATCTTTTCAAGGCTAAGATAGAAACCTCC
Found at i:287470 original size:64 final size:65
Alignment explanation
Indices: 287372--287527 Score: 208
Period size: 64 Copynumber: 2.4 Consensus size: 65
287362 TAACCTTACA
* * *
287372 ACACTATCTTTTAAGGCTAAGATAGAAACCTCCCTATCTTTTCATGA-GCTAAGATAAAACCTCT
1 ACACTATCTTTTAAGGCTAAGATAGAAACATCCCTATCTTTTAAAGAGGCTAAGATAAAACCTCT
* * * * *
287436 TCCCTATCTTTTACAGGGTAAGAT-TAAACATCCCTATCTTTTAAAGAGGCTAAGATAGAACCTC
1 ACACTATCTTTTA-AGGCTAAGATAGAAACATCCCTATCTTTTAAAGAGGCTAAGATAAAACCTC
287500 T
65 T
*
287501 ACACTATCTTTCAAGGCTAAGATAGAA
1 ACACTATCTTTTAAGGCTAAGATAGAA
287528 CCTCTCAATC
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
64 39 0.51
65 37 0.49
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.31
Consensus pattern (65 bp):
ACACTATCTTTTAAGGCTAAGATAGAAACATCCCTATCTTTTAAAGAGGCTAAGATAAAACCTCT
Found at i:288281 original size:20 final size:22
Alignment explanation
Indices: 288256--288296 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
288246 AATACTTTGA
288256 ATTA-TTTT-TACTTGAAAAAT
1 ATTATTTTTATACTTGAAAAAT
288276 ATTATTTTTATACTTGAAAAA
1 ATTATTTTTATACTTGAAAAA
288297 CATCTATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 11 0.58
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTATTTTTATACTTGAAAAAT
Found at i:288312 original size:22 final size:22
Alignment explanation
Indices: 288264--288317 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
288254 GAATTATTTT
* **
288264 TACTTGAAAAATATTATTTTTA
1 TACTTGAAAAACATTATACTTA
288286 TACTTGAAAAACATCTATACTTA
1 TACTTGAAAAACAT-TATACTTA
*
288309 -ACTTTAAAA
1 TACTTGAAAA
288318 CCTTTATGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (22 bp):
TACTTGAAAAACATTATACTTA
Found at i:291950 original size:20 final size:20
Alignment explanation
Indices: 291925--291977 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
291915 AAACCATTGT
291925 ATGTATCGATACACACCCAG
1 ATGTATCGATACACACCCAG
*
291945 ATGTATCGATACATACCCAG
1 ATGTATCGATACACACCCAG
*
291965 ATATATCGATACA
1 ATGTATCGATACA
291978 TTATGCTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (20 bp):
ATGTATCGATACACACCCAG
Found at i:292037 original size:19 final size:19
Alignment explanation
Indices: 291995--292050 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
291985 TTGTATCGAT
* *
291995 ACATTGTATCGATAAATGT
1 ACATTGTATCGATACATGC
* *
292014 TCATTATATCGATACATGC
1 ACATTGTATCGATACATGC
*
292033 ACATTGTATCGATTCATG
1 ACATTGTATCGATACATG
292051 AAACTAGCAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:292549 original size:20 final size:20
Alignment explanation
Indices: 292526--292598 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
292516 ACAATTCAAA
292526 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
292546 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
292567 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
292587 GTATCGATACAT
1 GTATCGATACAT
292599 AAAAAAGTTG
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:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:292570 original size:21 final size:21
Alignment explanation
Indices: 292544--292619 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
292534 ACATGTTGCA
292544 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
292565 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
292585 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
292606 TTGTATCGATACAT
1 ATGTATCGATACAT
292620 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:292577 original size:41 final size:41
Alignment explanation
Indices: 292526--292619 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
292516 ACAATTCAAA
*
292526 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
292567 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
292608 GTATCGATACAT
1 GTATCGATACAT
292620 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:292676 original size:13 final size:13
Alignment explanation
Indices: 292658--292683 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
292648 TACAGCAAGT
292658 ATGTATCGATACA
1 ATGTATCGATACA
292671 ATGTATCGATACA
1 ATGTATCGATACA
292684 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:296765 original size:15 final size:15
Alignment explanation
Indices: 296745--296775 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
296735 TAAAAATGTC
*
296745 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
296760 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
296775 C
1 C
296776 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:298875 original size:20 final size:20
Alignment explanation
Indices: 298796--298875 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
298786 AATTTCCAAA
*
298796 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
298816 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
298841 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
298861 TTGTATCGATACATT
1 ATGTATCGATACATT
298876 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:298879 original size:13 final size:13
Alignment explanation
Indices: 298861--298899 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
298851 ACATTTTTCT
298861 TTGTATCGATACA
1 TTGTATCGATACA
298874 TTGTATCGATACA
1 TTGTATCGATACA
*
298887 CTGTATCGATACA
1 TTGTATCGATACA
298900 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:301367 original size:20 final size:20
Alignment explanation
Indices: 301344--301416 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
301334 ACAATTCAAA
301344 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
301364 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
301385 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
301405 GTATCGATACAT
1 GTATCGATACAT
301417 AAAAAAGTTG
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:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:301388 original size:21 final size:21
Alignment explanation
Indices: 301362--301437 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
301352 ACATGTTGCA
301362 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
301383 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
301403 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
301424 TTGTATCGATACAT
1 ATGTATCGATACAT
301438 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:301395 original size:41 final size:41
Alignment explanation
Indices: 301344--301437 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
301334 ACAATTCAAA
*
301344 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
301385 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
301426 GTATCGATACAT
1 GTATCGATACAT
301438 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:301494 original size:13 final size:13
Alignment explanation
Indices: 301476--301501 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
301466 TACAGCAAGT
301476 ATGTATCGATACA
1 ATGTATCGATACA
301489 ATGTATCGATACA
1 ATGTATCGATACA
301502 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:302323 original size:20 final size:20
Alignment explanation
Indices: 302298--302350 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
302288 AAACCATTGT
302298 ATGTATCGATACACACCCAG
1 ATGTATCGATACACACCCAG
*
302318 ATGTATCGATACATACCCAG
1 ATGTATCGATACACACCCAG
*
302338 ATATATCGATACA
1 ATGTATCGATACA
302351 TTATGCTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (20 bp):
ATGTATCGATACACACCCAG
Found at i:302410 original size:19 final size:19
Alignment explanation
Indices: 302368--302423 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
302358 TTGTATCGAT
* *
302368 ACATTGTATCGATAAATGT
1 ACATTGTATCGATACATGC
* *
302387 TCATTATATCGATACATGC
1 ACATTGTATCGATACATGC
*
302406 ACATTGTATCGATTCATG
1 ACATTGTATCGATACATG
302424 AAACTAGTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:304110 original size:21 final size:21
Alignment explanation
Indices: 304084--304127 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
304074 AAATTCTTGA
304084 AAATGAAATCAAGAAGGCCAC
1 AAATGAAATCAAGAAGGCCAC
304105 AAATGAAATCAAGAAGGCCAC
1 AAATGAAATCAAGAAGGCCAC
304126 AA
1 AA
304128 TTGTATCGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.18, G:0.18, T:0.09
Consensus pattern (21 bp):
AAATGAAATCAAGAAGGCCAC
Found at i:304208 original size:13 final size:13
Alignment explanation
Indices: 304187--304217 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
304177 CGATATATGG
*
304187 TACAATGTATCGA
1 TACATTGTATCGA
304200 TACATTGTATCGA
1 TACATTGTATCGA
304213 TACAT
1 TACAT
304218 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:312349 original size:22 final size:22
Alignment explanation
Indices: 312324--312376 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
312314 TTTGACAAAA
*
312324 GGGGAGAAATGCTTTGATTAAG
1 GGGGAGAAATGCTTTAATTAAG
**
312346 GGGGAGAAATTTTTTAATTAAG
1 GGGGAGAAATGCTTTAATTAAG
312368 GGGGAGAAA
1 GGGGAGAAA
312377 AACGAAAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.02, G:0.36, T:0.26
Consensus pattern (22 bp):
GGGGAGAAATGCTTTAATTAAG
Found at i:312938 original size:13 final size:13
Alignment explanation
Indices: 312920--312946 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
312910 ACATTATGCT
312920 TTGTATCGATACA
1 TTGTATCGATACA
312933 TTGTATCGATACA
1 TTGTATCGATACA
312946 T
1 T
312947 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:312976 original size:20 final size:19
Alignment explanation
Indices: 312930--312986 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
312920 TTGTATCGAT
*
312930 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
312949 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
312968 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
312987 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:318218 original size:20 final size:20
Alignment explanation
Indices: 318180--318219 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
318170 TTTCAAATTT
318180 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
318201 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
318220 TATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:319830 original size:32 final size:31
Alignment explanation
Indices: 319777--319837 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
319767 TATTTCGACT
319777 TTATGTTTATTATATGCGATGTTTGCTTGCA
1 TTATGTTTATTATATGCGATGTTTGCTTGCA
* *
319808 TTATAGTTTGTTATATGTGATGTTTGCTTG
1 TTAT-GTTTATTATATGCGATGTTTGCTTG
319838 AAGAACACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.18, C:0.07, G:0.21, T:0.54
Consensus pattern (31 bp):
TTATGTTTATTATATGCGATGTTTGCTTGCA
Found at i:320563 original size:19 final size:21
Alignment explanation
Indices: 320520--320572 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
320510 CACACCCAGA
*
320520 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGTATGCAT
320540 TGTATCGATACATGT-T-CAT
1 TGTATCGATACATGTATGCAT
320559 TGTATCGATACATG
1 TGTATCGATACATG
320573 CACAATTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 16 0.52
20 14 0.45
21 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATGTATGCAT
Found at i:322211 original size:32 final size:33
Alignment explanation
Indices: 322154--322217 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
322144 TACAAGCTAA
*
322154 TGTATCGATACATATTTTTGTGTATCGATACAT
1 TGTATCGATACATATCTTTGTGTATCGATACAT
*
322187 TGTATTGATACATA-CTTTGTGTATCGATACA
1 TGTATCGATACATATCTTTGTGTATCGATACA
322218 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATATCTTTGTGTATCGATACAT
Found at i:324340 original size:23 final size:24
Alignment explanation
Indices: 324295--324341 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
324285 CAAAGAATTG
*
324295 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
324319 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
324342 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:324663 original size:14 final size:14
Alignment explanation
Indices: 324644--324672 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
324634 ATATCTTCAA
324644 TCTGACTCTTTGAG
1 TCTGACTCTTTGAG
324658 TCTGACTCTTTGAG
1 TCTGACTCTTTGAG
324672 T
1 T
324673 TTTCACCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.45
Consensus pattern (14 bp):
TCTGACTCTTTGAG
Found at i:325391 original size:84 final size:84
Alignment explanation
Indices: 325236--325400 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
325226 CATTTTCCAC
* * * *
325236 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
325301 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
* *
325320 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
325382 CACTTATTGATTTATTTTC
63 AACTCATTGATTTACTTTC
325401 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:327474 original size:19 final size:20
Alignment explanation
Indices: 327434--327484 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
327424 TACAAGCCAA
*
327434 TGTATCGATACATATTTTTG
1 TGTATCGATACATATCTTTG
327454 TGTATCGATACATA-CTTTG
1 TGTATCGATACATATCTTTG
327473 TGTATCGATACA
1 TGTATCGATACA
327485 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATATCTTTG
Found at i:327947 original size:21 final size:23
Alignment explanation
Indices: 327911--327952 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
327901 ACAAAAACAT
*
327911 TTTACACTTTTTAAGA-AGATTA
1 TTTACACTTATTAAGATAGATTA
327933 TTTAC-CTTATTAAGATAGAT
1 TTTACACTTATTAAGATAGAT
327953 GGCTTCACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45
Consensus pattern (23 bp):
TTTACACTTATTAAGATAGATTA
Found at i:330739 original size:26 final size:26
Alignment explanation
Indices: 330716--330767 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
330706 CATAGTAAGT
*
330716 GGGGTGTGAATATTTAGCATGTAAAC
1 GGGGTATGAATATTTAGCATGTAAAC
330742 GGGGTATGAATATTTAGCATGTAAAC
1 GGGGTATGAATATTTAGCATGTAAAC
330768 ACATGACTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (26 bp):
GGGGTATGAATATTTAGCATGTAAAC
Found at i:338322 original size:21 final size:21
Alignment explanation
Indices: 338293--338345 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
338283 ATAAGCTTGT
338293 GTATCAATACAAGGTCATGAA
1 GTATCAATACAAGGTCATGAA
* * *
338314 GTGTTAATACAAGTTCATGAA
1 GTATCAATACAAGGTCATGAA
338335 GTATCAATACA
1 GTATCAATACA
338346 TATTTCTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (21 bp):
GTATCAATACAAGGTCATGAA
Found at i:339498 original size:24 final size:23
Alignment explanation
Indices: 339446--339499 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
339436 AAACAATTTT
*
339446 TTCAAAACTTTTGAATATTTTCC
1 TTCAAAACTTTTGAATATTCTCC
*
339469 TTCAAAACTTTATGAA-ATTCTCT
1 TTCAAAACTTT-TGAATATTCTCC
339492 TTCCAAAA
1 TT-CAAAA
339500 TTGTGTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.43
Consensus pattern (23 bp):
TTCAAAACTTTTGAATATTCTCC
Found at i:340499 original size:104 final size:104
Alignment explanation
Indices: 340358--340595 Score: 261
Period size: 105 Copynumber: 2.3 Consensus size: 104
340348 AAATTTTTGA
340358 CTTTGAGGAAACTCCAACCCCACTACTCCTAGAGGATACTCTAACTCCGGTT-TTCATAAAA-AA
1 CTTTG-GGAAACTCCAACCCCACTACTCCTAGAGGATACTCTAAC-CCGGTTCTTCATAAAAGAA
* *
340421 -TCAAATTTT-TTCTTTGGCCCTCAATGTTTTCATAATTTTAT
64 GT-AAATTTTCTT-TTTGGCCCTAAATATTTTCATAATTTTAT
* * * * **
340462 CTTTGGAGAAACTCCAACCCTACTACT-TTGAGGGGATACTTTAACCTTGTTCTTCATAAAAGAA
1 CTTTGG-GAAACTCCAACCCCACTACTCCT-AGAGGATACTCTAACCCGGTTCTTCATAAAAGAA
****
340526 GTAAATTTTCTTTTTGTTTTTAAATATTTTCATAATTTTAT
64 GTAAATTTTCTTTTTGGCCCTAAATATTTTCATAATTTTAT
*
340567 CTTTGGGAAAACTCCAACCCCATTACTCC
1 CTTTGGG-AAACTCCAACCCCACTACTCC
340596 GATGGATATT
Statistics
Matches: 111, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
103 6 0.05
104 47 0.42
105 55 0.50
106 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (104 bp):
CTTTGGGAAACTCCAACCCCACTACTCCTAGAGGATACTCTAACCCGGTTCTTCATAAAAGAAGT
AAATTTTCTTTTTGGCCCTAAATATTTTCATAATTTTAT
Found at i:351668 original size:33 final size:33
Alignment explanation
Indices: 351631--351697 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
351621 TTCAACGATT
351631 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
351664 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
351697 T
1 T
351698 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:351669 original size:13 final size:13
Alignment explanation
Indices: 351651--351675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
351641 CATAAAATGT
351651 TGTATCGATACAA
1 TGTATCGATACAA
351664 TGTATCGATACA
1 TGTATCGATACA
351676 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:351758 original size:13 final size:13
Alignment explanation
Indices: 351740--351764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
351730 ATTACTCACA
351740 TGTATCGATACAT
1 TGTATCGATACAT
351753 TGTATCGATACA
1 TGTATCGATACA
351765 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:351901 original size:52 final size:52
Alignment explanation
Indices: 351773--351893 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
351763 CACTGATCTT
*
351773 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
351825 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
351877 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
351894 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:358811 original size:23 final size:21
Alignment explanation
Indices: 358781--358851 Score: 99
Period size: 23 Copynumber: 3.3 Consensus size: 21
358771 AAAGGTGATA
358781 AAAAAAAAAACAAACAAACAAA
1 AAAAAAAAAACAAACAAA-AAA
*
358803 CAAAAAAAAAACACACAAAAAA
1 -AAAAAAAAAACAAACAAAAAA
*
358825 AAAAACAAAA-AAACAAAAAA
1 AAAAAAAAAACAAACAAAAAA
358845 AAAAAAA
1 AAAAAAA
358852 CACAGAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 15 0.34
21 9 0.20
22 3 0.07
23 17 0.39
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAACAAACAAAAAA
Found at i:358820 original size:27 final size:25
Alignment explanation
Indices: 358780--358863 Score: 98
Period size: 27 Copynumber: 3.3 Consensus size: 25
358770 AAAAGGTGAT
* *
358780 AAAAAAAAAAACAAACAAACAAACA
1 AAAAAAAAAAACAAAAAAAAAAACA
358805 AAAAAAAAACACACAAAAAAAAAAACA
1 AAAAAAAAA-A-ACAAAAAAAAAAACA
* *
358832 AAAAAACAAAA-AAAAAAAAACACA
1 AAAAAAAAAAACAAAAAAAAAAACA
*
358856 GAAAAAAA
1 AAAAAAAA
358864 GTGCAAAGTC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
24 18 0.35
25 10 0.20
26 2 0.04
27 21 0.41
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAACAAAAAAAAAAACA
Found at i:358823 original size:39 final size:38
Alignment explanation
Indices: 358780--358863 Score: 141
Period size: 39 Copynumber: 2.2 Consensus size: 38
358770 AAAAGGTGAT
*
358780 AAAAAAAAAAACAAACAAACAAACAAAAAAAAAACACAC
1 AAAAAAAAAAACAAAAAAACAAA-AAAAAAAAAACACAC
*
358819 AAAAAAAAAAACAAAAAAACAAAAAAAAAAAAACACAG
1 AAAAAAAAAAACAAAAAAACAAAAAAAAAAAAACACAC
358857 AAAAAAA
1 AAAAAAA
358864 GTGCAAAGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 21 0.49
39 22 0.51
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (38 bp):
AAAAAAAAAAACAAAAAAACAAAAAAAAAAAAACACAC
Found at i:358863 original size:1 final size:1
Alignment explanation
Indices: 358780--358851 Score: 63
Period size: 1 Copynumber: 72.0 Consensus size: 1
358770 AAAAGGTGAT
* * * * * * * * *
358780 AAAAAAAAAAACAAACAAACAAACAAAAAAAAAACACACAAAAAAAAAAACAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
358845 AAAAAAA
1 AAAAAAA
358852 CACAGAAAAA
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:358863 original size:16 final size:16
Alignment explanation
Indices: 358780--358851 Score: 74
Period size: 16 Copynumber: 4.3 Consensus size: 16
358770 AAAAGGTGAT
*
358780 AAAAAAAAAAACAAAC
1 AAAAAAAAAAAAAAAC
358796 AAACAAACAAAAAAAAAAC
1 -AA-AAA-AAAAAAAAAAC
* *
358815 ACACAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAC
358831 AAAAAAACAAAAAAAA-
1 AAAAAAA-AAAAAAAAC
358847 AAAAA
1 AAAAA
358852 CACAGAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
16 21 0.45
17 12 0.26
18 4 0.09
19 10 0.21
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAC
Found at i:359107 original size:1 final size:1
Alignment explanation
Indices: 359101--359141 Score: 64
Period size: 1 Copynumber: 41.0 Consensus size: 1
359091 GTTCTTTTCC
* *
359101 AAAAAAAAAAAAAAAAAACAAAAAAAAAAAGAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
359142 GAAGAACAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.95, C:0.02, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:359124 original size:19 final size:20
Alignment explanation
Indices: 359100--359138 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
359090 TGTTCTTTTC
359100 CAAAAAAAAAAA-AAAAAAA
1 CAAAAAAAAAAAGAAAAAAA
359119 CAAAAAAAAAAAGAAAAAAA
1 CAAAAAAAAAAAGAAAAAAA
359139 AAAGAAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.92, C:0.05, G:0.03, T:0.00
Consensus pattern (20 bp):
CAAAAAAAAAAAGAAAAAAA
Found at i:359146 original size:14 final size:14
Alignment explanation
Indices: 359103--359147 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
359093 TCTTTTCCAA
*
359103 AAAAAAAAAAAAAA
1 AAAAAAAAAAAAAG
359117 AACAAAAAAAAAAAG
1 AA-AAAAAAAAAAAG
*
359132 AAAAAAAAAAGAAG
1 AAAAAAAAAAAAAG
359146 AA
1 AA
359148 CAACCCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.91, C:0.02, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:360192 original size:62 final size:62
Alignment explanation
Indices: 360085--360479 Score: 650
Period size: 62 Copynumber: 6.4 Consensus size: 62
360075 AAATCTCTTC
* *
360085 TCAAAATCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
1 TCAAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
*
360148 TTAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
1 TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
* *
360210 TTAAAGTCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
1 TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
360272 TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
1 TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
* *
360334 TTAAAGTCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
1 TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
* *
360396 TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGACAT-TTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
* * *
360457 TCAAAGCCCACAACTCTGTGGCA
1 TCAAAGTCCACGACTCAGTGGCA
360480 CTCTTTTTCC
Statistics
Matches: 316, Mismatches: 15, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
61 28 0.09
62 268 0.85
63 20 0.06
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (62 bp):
TCAAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCT
Found at i:360625 original size:27 final size:27
Alignment explanation
Indices: 360587--360638 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
360577 TTTTTTCATC
*
360587 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
360614 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
360639 TTCTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:360659 original size:61 final size:62
Alignment explanation
Indices: 360488--360877 Score: 348
Period size: 61 Copynumber: 6.0 Consensus size: 62
360478 CACTCTTTTT
* *
360488 CCCTTTTCAAAGGCCACAACTCCGTGGCACC--TTT-TTTTCAAAGTCCACAACTCCGTGGCA
1 CCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCA
* * * *
360548 CCCTTTTAAAGCCCACAATTCTGTGGCACTTTTTTCATCTTT--AAGTCCACAACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTCAAAGCCCACAACTCCGTGGCA
* *
360610 CCCGTTT-AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCA
**
360671 CCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCG
1 -C--C--CTTTTAAAGCCCACAACTCCGTGGCAC-C-TTTTT-CTTTTCAAAGCCCACAACTCCG
360736 TGGCA
58 TGGCA
*
360741 CCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT-AAAGCCCACAACTCCG
1 -------CCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCG
360805 TGGCA
58 TGGCA
* * *
360810 CTTTTTTCTTTAAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--AAGTCCACAACTCCG
1 C-----CCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTCAAAGCCCACAACTCCG
360873 TGGCA
58 TGGCA
360878 TCTTTCTCCC
Statistics
Matches: 277, Mismatches: 22, Indels: 54
0.78 0.06 0.15
Matches are distributed among these distances:
59 22 0.08
60 8 0.03
61 46 0.17
62 28 0.10
63 1 0.00
64 4 0.01
66 26 0.09
67 28 0.10
68 20 0.07
69 30 0.11
70 32 0.12
71 5 0.02
72 5 0.02
73 20 0.07
74 1 0.00
76 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (62 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCA
Found at i:360882 original size:34 final size:34
Alignment explanation
Indices: 360617--360882 Score: 344
Period size: 33 Copynumber: 7.7 Consensus size: 34
360607 GCACCCGTTT
*
360617 AAGCCCACAACTCCGTGGCACCTTCTT-CTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTT-A
*
360651 AAGCCCACAACTCCGTGGCACCTTCTT-CTTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTA
**
360684 AAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCA
1 AAGCCCACAACTCCGTGGCAC-C-TTTTTCCTTTT-A
360721 AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTTTT-CCTTTT-A
*
360757 AAGCCCACAACTCCGTGGCA-CTTTTTTCTTTTA
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTA
* *
360790 AAGCCCACAACTCCGTGGCA-CTTTTTTCTTTAA
1 AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTA
360823 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-
1 AAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTTA
* *
360858 AAGTCCACAACTCCGTGGCATCTTT
1 AAGCCCACAACTCCGTGGCACCTTT
360883 CTCCCTTCCC
Statistics
Matches: 213, Mismatches: 11, Indels: 16
0.89 0.05 0.07
Matches are distributed among these distances:
33 73 0.34
34 42 0.20
35 40 0.19
36 38 0.18
37 20 0.09
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (34 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCCTTTTA
Found at i:360905 original size:106 final size:104
Alignment explanation
Indices: 360617--360884 Score: 386
Period size: 106 Copynumber: 2.6 Consensus size: 104
360607 GCACCCGTTT
* *
360617 AAGCCCACAACTCCGTGGCACCTTCTT--CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACTTTCTTCT
** *
360680 TTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCA
65 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTTCCTTTTAA
*
360721 AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACTTTCTTCT
360786 TTTAAAGCCCACAACTCCGTGGCA-CTTTTTT-C-TTTAA
65 TTTAAAGCCCACAACTCCGTGGCACCTTTTTTCCTTTTAA
*
360823 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCT
1 AAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCA-CTTTCT
360885 CCCTTCCCAA
Statistics
Matches: 152, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
101 19 0.12
102 30 0.20
103 14 0.09
104 33 0.22
106 56 0.37
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (104 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTTTCTTCTT
TTAAAGCCCACAACTCCGTGGCACCTTTTTTCCTTTTAA
Found at i:360914 original size:38 final size:33
Alignment explanation
Indices: 360886--360955 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 33
360876 CATCTTTCTC
360886 CCTTCCCAAAGCCCACACAAGTCGGTGGCAACCT
1 CCTT-CCAAAGCCCACACAAGTCGGTGGCAACCT
*
360920 TCTTCCAAAGCCCACACAAGTCGGTGGCAACC-
1 CCTTCCAAAGCCCACACAAGTCGGTGGCAACCT
360952 CCTT
1 CCTT
360956 TAAGCCCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 3 0.09
33 28 0.82
34 3 0.09
ACGTcount: A:0.26, C:0.40, G:0.17, T:0.17
Consensus pattern (33 bp):
CCTTCCAAAGCCCACACAAGTCGGTGGCAACCT
Found at i:360915 original size:139 final size:139
Alignment explanation
Indices: 360617--360902 Score: 432
Period size: 139 Copynumber: 2.1 Consensus size: 139
360607 GCACCCGTTT
360617 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
* ** * *
360682 TAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
66 AAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTC
**
360747 TCCCTTTTCA
130 TCCCTTCCCA
* * * *
360757 AAGCCCACAACTCCGTGGCACTTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTTT
1 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
* *
360821 AAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCT
66 AAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTCT
360885 CCCTTCCCA
131 CCCTTCCCA
360894 AAGCCCACA
1 AAGCCCACA
360903 CAAGTCGGTG
Statistics
Matches: 133, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
137 40 0.30
139 63 0.47
140 30 0.23
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.32
Consensus pattern (139 bp):
AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
AAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTCT
CCCTTCCCA
Found at i:360948 original size:139 final size:136
Alignment explanation
Indices: 360617--360935 Score: 390
Period size: 139 Copynumber: 2.3 Consensus size: 136
360607 GCACCCGTTT
*
360617 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 AAGCCCACAACTCCGTGGCA-C-TCTTC-TTCCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
* ** * *
360682 TAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTT
63 AAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTC
**
360747 TCCCTTTTCA
127 TCCCTTCCCA
* ** * *
360757 AAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTTTTTTCTTTA
1 AAGCCCACAACTCCGTGGCAC--TCTTCTTCCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTA
* *
360822 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCTC
64 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTCTC
360886 CCTTCCCA
129 CCTTCCCA
* *
360894 AAGCCCACACAAGTCGGTGGCAAC-CTTCTTCCAAAGCCCACA
1 AAG-CC-CACAACTCCGTGGC-ACTCTTCTTCCAAAGCCCACA
360936 CAAGTCGGTG
Statistics
Matches: 157, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
137 49 0.31
138 2 0.01
139 79 0.50
140 27 0.17
ACGTcount: A:0.22, C:0.36, G:0.12, T:0.30
Consensus pattern (136 bp):
AAGCCCACAACTCCGTGGCACTCTTCTTCCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTAAA
AGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACCTTTCTCCC
TTCCCA
Found at i:361079 original size:49 final size:49
Alignment explanation
Indices: 360953--361373 Score: 497
Period size: 49 Copynumber: 8.7 Consensus size: 49
360943 GTGGCAACCC
* * *
360953 CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC---TTCAT
* * *
361005 TTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * *
361054 CATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
*
361103 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * * * *
361146 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* *
361195 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
*
361244 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA----C--
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
* * *
361287 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CAT
*
361339 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
361374 GTTGACATCC
Statistics
Matches: 318, Mismatches: 36, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
43 77 0.24
45 2 0.01
47 1 0.00
49 166 0.52
50 1 0.00
52 71 0.22
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT
Found at i:361200 original size:92 final size:92
Alignment explanation
Indices: 361051--361329 Score: 381
Period size: 92 Copynumber: 3.0 Consensus size: 92
361041 TTGGCACCTT
* *
361051 CACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAAT
361116 GTAGCTGGCCTTGACTCAGCACATTGG
66 GTAGCTGGCCTTGACTCAGCACATTGG
*
361143 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAAT
361208 GTAGCTGGCCTTGACTCAGCACATTGG
66 GTAGCTGGCCTTGACTCAGCACATTGG
* * *
361235 CACCTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGG---CA-C--CTTTAAG
1 ------CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAG
* * *
361294 TCCAATATAGCTGGCCTTGAATCAGCATATTGG
60 TCCAATGTAGCTGGCCTTGACTCAGCACATTGG
361327 CAC
1 CAC
361330 ATTTTCCATC
Statistics
Matches: 171, Mismatches: 10, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
86 3 0.02
92 126 0.74
94 1 0.01
95 2 0.01
98 39 0.23
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (92 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAAT
GTAGCTGGCCTTGACTCAGCACATTGG
Found at i:361260 original size:141 final size:140
Alignment explanation
Indices: 361006--361373 Score: 547
Period size: 141 Copynumber: 2.6 Consensus size: 140
360996 CTTTTTCATT
* * * * * * *
361006 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATCATCTTTAAGTCCAATGTAG
* * * * *
361071 CTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGC
65 CTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAAC
361136 ACATTGGCACC
130 ACATTGGCACC
*
361147 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATCATCTTTAAGTCCAATGTAG
*
361212 CTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAAC
65 CTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAAC
361277 ACATTGGCACC
130 ACATTGGCACC
*
361288 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA---T-CATCTTTAAGTCCAATG
361353 TAGCTGGCCTTGAATCAGCAC
62 TAGCTGGCCTTGAATCAGCAC
361374 GTTGACATCC
Statistics
Matches: 205, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
140 2 0.01
141 166 0.81
143 1 0.00
144 36 0.18
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (140 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATCATCTTTAAGTCCAATGTAGC
TGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAACA
CATTGGCACC
Found at i:361311 original size:22 final size:22
Alignment explanation
Indices: 361243--361311 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
361233 GGCACCTTCA
*
361243 CCTTTAAGTCCAATGTAGCTGG
1 CCTTTAAGTCCAATATAGCTGG
* * * *
361265 CCTTGAA-T-CAACACA-TTGG
1 CCTTTAAGTCCAATATAGCTGG
361284 CACCTTTAAGTCCAATATAGCTGG
1 --CCTTTAAGTCCAATATAGCTGG
361308 CCTT
1 CCTT
361312 GAATCAGCAT
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 4 0.12
21 7 0.21
22 11 0.33
23 5 0.15
24 3 0.09
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATAGCTGG
Found at i:361422 original size:55 final size:54
Alignment explanation
Indices: 361287--361437 Score: 171
Period size: 52 Copynumber: 2.8 Consensus size: 54
361277 ACATTGGCAC
* *
361287 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTCTCAT
* * **
361339 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTCCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTT-CTCAT
* * * * * *
361394 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATC
361438 TTTATCACTC
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
52 37 0.46
53 5 0.06
54 1 0.01
55 37 0.46
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTCTCAT
Found at i:361581 original size:171 final size:171
Alignment explanation
Indices: 361287--361681 Score: 664
Period size: 171 Copynumber: 2.3 Consensus size: 171
361277 ACATTGGCAC
*
361287 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
*
361352 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTCCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTCCTCATCTTCAAGCCCAATATCGTTGGCC
361417 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* * *
361461 TTTTATGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
* *
361526 GCTGGCCTTGAATCAGCACGTTGACATCTTTTTTCTCATCTTCAAGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTCCTCATCTTCAAGCCCAATATCGTTGGCCATG
* *
361591 AATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* *
361632 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
361682 ATCTCTAAAA
Statistics
Matches: 208, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
171 166 0.80
172 5 0.02
174 37 0.18
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTCCTCATCTTCAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
Found at i:362507 original size:33 final size:33
Alignment explanation
Indices: 362470--362536 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
362460 TTCAACGATT
362470 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
362503 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
362536 T
1 T
362537 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:362508 original size:13 final size:13
Alignment explanation
Indices: 362490--362514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
362480 CATAAAATGT
362490 TGTATCGATACAA
1 TGTATCGATACAA
362503 TGTATCGATACA
1 TGTATCGATACA
362515 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
Done.