Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold494
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: 556777
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:7820 original size:13 final size:13
Alignment explanation
Indices: 7802--7827 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7792 CAATTTTTTG
7802 TGTATCGATACAT
1 TGTATCGATACAT
7815 TGTATCGATACAT
1 TGTATCGATACAT
7828 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7892 original size:21 final size:21
Alignment explanation
Indices: 7866--7941 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
7856 CTGCCAAGAA
*
7866 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
7887 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
7907 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
7928 ATGTATCGATACAT
1 ATGTATCGATACAT
7942 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:7912 original size:20 final size:20
Alignment explanation
Indices: 7887--7959 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
7877 CATCTTTTTT
7887 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
7907 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
7928 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
7948 ATGTATCGATAC
1 ATGTATCGATAC
7960 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:7923 original size:41 final size:41
Alignment explanation
Indices: 7866--7959 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
7856 CTGCCAAGAA
*
7866 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
7907 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
7948 ATGTATCGATAC
1 ATGTATCGATAC
7960 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:10423 original size:13 final size:13
Alignment explanation
Indices: 10405--10443 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
10395 ATAATCACCC
*
10405 TGTATCGATACAG
1 TGTATCGATACAA
10418 TGTATCGATACAA
1 TGTATCGATACAA
10431 TGTATCGATACAA
1 TGTATCGATACAA
10444 CAAAAATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:12535 original size:15 final size:15
Alignment explanation
Indices: 12515--12545 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12505 ATTTCGTTTG
*
12515 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
12530 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
12545 G
1 G
12546 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:16625 original size:13 final size:13
Alignment explanation
Indices: 16607--16632 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16597 CAATTTTTTG
16607 TGTATCGATACAT
1 TGTATCGATACAT
16620 TGTATCGATACAT
1 TGTATCGATACAT
16633 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16718 original size:20 final size:20
Alignment explanation
Indices: 16693--16765 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
16683 ATCTTTTTTT
16693 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
16713 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
16734 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
16754 ATGTATCGATAC
1 ATGTATCGATAC
16766 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:16744 original size:41 final size:42
Alignment explanation
Indices: 16671--16765 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
16661 CTGCCAAGAA
*
16671 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
16713 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
16754 ATGTATCGATAC
1 ATGTATCGATAC
16766 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:17741 original size:31 final size:31
Alignment explanation
Indices: 17703--17847 Score: 190
Period size: 31 Copynumber: 4.7 Consensus size: 31
17693 AAAAAAAAAA
17703 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* *
17734 AAAGTCCACGACTCAATGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
17765 AAAGTCCACGACGCAGTGGC-ATC-CTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
17794 TTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 ---AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
17827 AAAGTCCACGACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
17848 TTTTTTCTTT
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
29 5 0.05
30 23 0.23
31 47 0.47
32 22 0.22
33 4 0.04
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:17848 original size:62 final size:63
Alignment explanation
Indices: 17703--17878 Score: 211
Period size: 62 Copynumber: 2.8 Consensus size: 63
17693 AAAAAAAAAA
17703 AAAGTCCACGACTCAGTGGCAATCTCTTCTC---AAAGTCCACGACTCAATGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATC-CTTCTCTTTAAAGTCCACGACTCAATGGCAATCTCTGCTC
* * *
17765 AAAGTCCACGACGCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAATGGCAATCTCTG-CTC
* * * * *
17827 AAAGTCCACGACTCAGTGGCAT-TTTTTCTTTAAAGCCCACAACTCCATGGCA
1 AAAGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAATGGCA
17879 CCTTGTTCCT
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
60 6 0.06
61 29 0.29
62 45 0.45
63 19 0.19
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (63 bp):
AAAGTCCACGACTCAGTGGCATCCTTCTCTTTAAAGTCCACGACTCAATGGCAATCTCTGCTC
Found at i:17893 original size:34 final size:33
Alignment explanation
Indices: 17855--18174 Score: 321
Period size: 34 Copynumber: 9.8 Consensus size: 33
17845 GCATTTTTTC
*
17855 TTTAAAGCCCACAACTCCATGGCACCTTGTTCCT
1 TTTAAAGCCCACAACTCCGTGGCACCTT-TTCCT
*
17889 TTT-AAGTCCACAACTCCGTGGCA-C----CCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
* * *
17916 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCAT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTCCT
* *
17950 CTTT-AAGTCCACAACTCCGTGGCA-C----CCG
1 -TTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
17978 TTT-AAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTTAAAGCCCACAACTCCGTGGCACCTT-TTCCT
18010 TTTCAAAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTT-TTCCT
18044 TTTCAAAGCCCACAACTCCGTGGCACCTTCTT-CT
1 TTT-AAAGCCCACAACTCCGTGGCACCTT-TTCCT
**
18078 TTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C--TTTTCCT
*
18114 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTCCT
*
18148 TTTAAAGCCCACAACTCTGTGGCACCT
1 TTTAAAGCCCACAACTCCGTGGCACCT
18175 ACAACTTTGT
Statistics
Matches: 246, Mismatches: 19, Indels: 43
0.80 0.06 0.14
Matches are distributed among these distances:
27 28 0.11
28 20 0.08
32 5 0.02
33 61 0.25
34 99 0.40
35 5 0.02
36 8 0.03
37 20 0.08
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.31
Consensus pattern (33 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTCCT
Found at i:18148 original size:70 final size:70
Alignment explanation
Indices: 17981--18369 Score: 446
Period size: 70 Copynumber: 5.4 Consensus size: 70
17971 GCACCCGTTT
* *
17981 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCAC-C-TTCTT-C
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTTCC
18043 TTTTCA
65 TTTTCA
* **
18049 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCT
18114 TTTCA
66 TTTCA
*
18119 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACAACTTTG
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA-CT----C----
*
18184 TGGCACTCTCTTTCCCTTTTTA
57 T-----T-T-TTT-CCTTTTCA
* *
18206 AAGCCCACAACTCCGTGGCACATTTTTCTATTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 AAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCC
*
18271 TTTTCC
65 TTTTCA
* *
18277 AAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCT
18342 TTT--
66 TTTCA
* *
18345 AAGTCCACAACTCCGTGGCATCTTT
1 AAGCCCACAACTCCGTGGCACCTTT
18370 CTCCCTTCCT
Statistics
Matches: 285, Mismatches: 15, Indels: 42
0.83 0.04 0.12
Matches are distributed among these distances:
67 20 0.07
68 55 0.19
69 4 0.01
70 97 0.34
71 36 0.13
72 2 0.01
73 1 0.00
74 1 0.00
75 1 0.00
79 2 0.01
83 1 0.00
84 1 0.00
85 1 0.00
86 3 0.01
87 37 0.13
88 23 0.08
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (70 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCT
TTTCA
Found at i:18234 original size:87 final size:88
Alignment explanation
Indices: 18088--18260 Score: 294
Period size: 87 Copynumber: 2.0 Consensus size: 88
18078 TTTAAAGCCC
* * *
18088 ACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACATTTTTCTATTTA
*
18152 AAGCCCACAACTCTGTGGCACCT
66 AAGCCCACAACTCCGTGGCACCT
*
18175 ACAACTTTGTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACATTTTTCTATTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACATTTTTCTATTTA
18240 AAGCCCACAACTCCGTGGCAC
66 AAGCCCACAACTCCGTGGCAC
18261 TCTTTTTCCC
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 56 0.70
88 24 0.30
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.33
Consensus pattern (88 bp):
ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACATTTTTCTATTTA
AAGCCCACAACTCCGTGGCACCT
Found at i:18264 original size:158 final size:157
Alignment explanation
Indices: 18042--18330 Score: 488
Period size: 158 Copynumber: 1.8 Consensus size: 157
18032 GCACCTTCTT
* **
18042 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACATTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
* *
18107 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCA
66 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
18172 CCTACAACTTTGTGGCACTCTCTTTCC
131 CCTACAACTTTGTGGCACTCTCTTTCC
* *
18199 CTTTTTAAAGCCCACAACTCCGTGGCACATTTTTCTATTTAAAGCCCACAACTCCGTGGCACTCT
1 CTTTTCAAAGCCCACAACTCCGTGGCACATTCTTCT-TTTAAAGCCCACAACTCCGTGGCACTCT
* *
18264 TTTTCCCTTTTCCAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
65 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGC
18329 AC
130 AC
18331 TCTTTTTCCC
Statistics
Matches: 122, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
157 33 0.27
158 89 0.73
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (157 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACATTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
CCTACAACTTTGTGGCACTCTCTTTCC
Found at i:18291 original size:71 final size:68
Alignment explanation
Indices: 18183--18364 Score: 292
Period size: 71 Copynumber: 2.6 Consensus size: 68
18173 CTACAACTTT
*
18183 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACATTTTTCTATTTAAAGCCCAC
1 GTGGCACTCTTTTTCCC-TTTT-AAGCCCACAACTCCGTGGCACATTTTTCT-TTTAAAGCCCAC
18248 AACTCC
63 AACTCC
*
18254 GTGGCACTCTTTTTCCCTTTTCCAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACA
1 GTGGCACTCTTTTTCCCTTTT--AAGCCCACAACTCCGTGGCACATTTTTCTTTTAAAGCCCACA
18319 ACTCC
64 ACTCC
*
18324 GTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA
1 GTGGCACTCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCA
18365 TCTTTCTCCC
Statistics
Matches: 106, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
68 19 0.18
70 43 0.41
71 44 0.42
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.34
Consensus pattern (68 bp):
GTGGCACTCTTTTTCCCTTTTAAGCCCACAACTCCGTGGCACATTTTTCTTTTAAAGCCCACAAC
TCC
Found at i:18375 original size:34 final size:35
Alignment explanation
Indices: 18183--18389 Score: 246
Period size: 34 Copynumber: 5.9 Consensus size: 35
18173 CTACAACTTT
*
18183 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCC
1 GTGGCA-TCTTTTTCCC-TTTTAAAGCCCACAACTCC
18220 GTGGCA-CATTTTT--CTATTTAAAGCCCACAACTCC
1 GTGGCATC-TTTTTCCCT-TTTAAAGCCCACAACTCC
*
18254 GTGGCACTCTTTTTCCCTTTTCCAAGCCCACAACTCC
1 GTGGCA-TCTTTTTCCCTTTT-AAAGCCCACAACTCC
*
18291 GTGGCA-CTTTTT-TCTTTTAAAGCCCACAACTCC
1 GTGGCATCTTTTTCCCTTTTAAAGCCCACAACTCC
*
18324 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCC
1 GTGGCA-TCTTTTTCCCTTTTAAAGCCCACAACTCC
* *
18359 GTGGCATCTTTCTCCCTTCCTAAAGCCCACA
1 GTGGCATCTTTTTCCCTT-TTAAAGCCCACA
18390 CAAGTCGGTG
Statistics
Matches: 149, Mismatches: 9, Indels: 25
0.81 0.05 0.14
Matches are distributed among these distances:
33 21 0.14
34 41 0.28
35 38 0.26
36 21 0.14
37 28 0.19
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (35 bp):
GTGGCATCTTTTTCCCTTTTAAAGCCCACAACTCC
Found at i:18385 original size:104 final size:103
Alignment explanation
Indices: 18201--18389 Score: 274
Period size: 104 Copynumber: 1.8 Consensus size: 103
18191 CTCTTTCCCT
*
18201 TTTTAAAGCCCACAACTCCGTGGCACATTTTTCTATTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTTTAAAGCCCACAACTCCGTGGCACATTTTTCCATTTAAAGCCCACAACTCCGTGGCACTCTTT
*
18266 TTCCCTTTTCCAAGCCCACAACTCCGTGGCACTTTTTTC
66 CTCCC-TTTCCAAGCCCACAACTCCGTGGCACTTTTTTC
* * * *
18305 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTT
1 TTTTAAAGCCCACAACTCCGTGGCAC-ATTTTTCCATTTAAAGCCCACAACTCCGTGGCACTCTT
18369 TCTCCC-TTCCTAAAGCCCACA
65 TCTCCCTTTCC--AAGCCCACA
18390 CAAGTCGGTG
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
102 4 0.05
104 44 0.58
105 28 0.37
ACGTcount: A:0.21, C:0.35, G:0.11, T:0.33
Consensus pattern (103 bp):
TTTTAAAGCCCACAACTCCGTGGCACATTTTTCCATTTAAAGCCCACAACTCCGTGGCACTCTTT
CTCCCTTTCCAAGCCCACAACTCCGTGGCACTTTTTTC
Found at i:18417 original size:33 final size:35
Alignment explanation
Indices: 18374--18443 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 35
18364 ATCTTTCTCC
18374 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
*
18408 CTTCC-AAAGCCCACACAAGTTGGTGGCAACCCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
18442 CT
1 CT
18444 AAGCCCAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 23 0.68
34 11 0.32
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.21
Consensus pattern (35 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCCTT
Found at i:18417 original size:104 final size:101
Alignment explanation
Indices: 18205--18422 Score: 235
Period size: 104 Copynumber: 2.1 Consensus size: 101
18195 TTCCCTTTTT
* *
18205 AAAGCCCACAACTCCGTGGCACATTTTTCTATTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACATTTTTCCATTTAAAGCCCACAACTCCGTGGCACTCTTTCTCC
* **
18270 CTTTTCCAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
66 C-TTTCCAAGCCCACAACTCCGTGGCAC--TCTTCTTCC
* * * *
18309 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTCTC
1 AAAGCCCACAACTCCGTGGCAC-ATTTTTCCATTTAAAGCCCACAACTCCGTGGCACTCTTTCTC
* *
18373 CC-TTCCTAAAGCCCACACAAGTCGGTGGCAAC-CTTCTTCC
65 CCTTTCC--AAG-CC-CACAACTCCGTGGC-ACTCTTCTTCC
18413 AAAGCCCACA
1 AAAGCCCACA
18423 CAAGTTGGTG
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
102 4 0.04
104 49 0.51
105 30 0.31
106 12 0.12
107 2 0.02
ACGTcount: A:0.22, C:0.36, G:0.12, T:0.29
Consensus pattern (101 bp):
AAAGCCCACAACTCCGTGGCACATTTTTCCATTTAAAGCCCACAACTCCGTGGCACTCTTTCTCC
CTTTCCAAGCCCACAACTCCGTGGCACTCTTCTTCC
Found at i:18559 original size:49 final size:49
Alignment explanation
Indices: 18443--20065 Score: 1869
Period size: 49 Copynumber: 33.2 Consensus size: 49
18433 GCAACCCTTC
* * * * *
18443 TAAGCCCAATATAGCTGGCTTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
*
18495 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
18544 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
18587 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
18636 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
18685 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
18733 TAAGTCCAATGTAGCTGGCCTTGACTTAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
18782 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC----T--TCATCTT
* * * * * * *
18838 TAAGCCCAATATCGTTGGCCGTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
18887 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
18930 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
18979 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * *
19022 TAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
19071 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
19120 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
19168 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
19217 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
19265 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
19308 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T--TCATCTT
* *
19360 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
19409 TAAGTCCAATGTAGCTGGCTTTGACTCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
19457 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
19506 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC----T--TCATCTT
* * * * * * * * *
19562 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCAT--CTT
* * * * * * * * *
19613 T---TCTC-ATCTTCATCTTTAAGTCCAATGTAGCTGGC-C-TTGAATCAGCACATTGGCACCTT
1 TAAGTC-CAAT-GT-AGC--T--GGCC-TTGAATC-AGCACATTG-----GCACCTT--CATCTT
* * * * *
19672 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
19721 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
19770 TAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
19818 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
19867 T---TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
19912 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
19955 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-T--TCATCTT
* *
20007 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
20056 TAAGTCCAAT
1 TAAGTCCAAT
20066 ATCGCTAGCC
Statistics
Matches: 1357, Mismatches: 133, Indels: 165
0.82 0.08 0.10
Matches are distributed among these distances:
43 193 0.14
45 12 0.01
46 36 0.03
47 3 0.00
48 267 0.20
49 589 0.43
50 8 0.01
51 12 0.01
52 116 0.09
54 10 0.01
55 10 0.01
56 83 0.06
58 1 0.00
59 9 0.01
60 1 0.00
61 3 0.00
62 4 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:18768 original size:97 final size:97
Alignment explanation
Indices: 18443--20065 Score: 1787
Period size: 97 Copynumber: 16.6 Consensus size: 97
18433 GCAACCCTTC
* * * *
18443 TAAGCCCAATATAGCTGGCTTTGAATCAGCATATTGGCA-CATTTTCCATCTTTAAGTCCAATGT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCA---T-CATCTTTAAGTCCAATGT
*
18507 AGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
62 AGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
* *
18544 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---CA-C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
* *
18603 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCACATTGGCA-CCTCATCTT
18636 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
18701 GGCCTTGAATCAGCACATTGGCACCTCATCTT
66 GGCCTTGAATCAGCACATTGGCACCTCATCTT
* * * *
18733 TAAGTCCAATGTAGCTGGCCTTGACTTAGCACATTGGCACCTTCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
*
18798 GGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
66 GGCCTTGAATCAGCACATTGGCA--C-----C-TCATCTT
* * * * * * * *
18838 TAAGCCCAATATCGTTGGCCGTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
18903 GGCCTTGAATCAGCACATTGGCA---C--CTT
66 GGCCTTGAATCAGCACATTGGCACCTCATCTT
* * * * *
18930 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
18995 GGCCTTGAATCAGCACATTGGCA---C--CTT
66 GGCCTTGAATCAGCACATTGGCACCTCATCTT
* * * * *
19022 TAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
*
19087 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGAATCAGCACATTGGCACC-TCATCTT
19120 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
*
19184 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGAATCAGCACATTGGCACC-TCATCTT
*
19217 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
*
19281 GGCCTTGAATCAGCACATTAGCA---C--CTT
66 GGCCTTGAATCAGCACATTGGCACCTCATCTT
* * * *
19308 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTCATCATCTTTAAGTCCAATGTC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C--CATCATCTTTAAGTCCAATGTA
*
19373 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
63 GCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
* *
19409 TAAGTCCAATGTAGCTGGCTTTGACTCAGCACATTGGCACC-TCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
*
19473 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGAATCAGCACATTGGCACC-TCATCTT
* *
19506 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAA
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--C-----CATCATCTTTAAGTCCAA
* * * * * * * *
19571 TATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTT
59 TGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCAT--CTT
* * * * * * * * *
19613 T---TCTC-ATCTTCATCTTTAAGTCCAATGTAGCTGGC-C-TTGAATCAGCACATTGGCACCTT
1 TAAGTC-CAAT-GT-AGC--T--GGCC-TTGAATC-AGCACATTG--GCA-C-CA-T--CATCTT
* * * *
19672 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
50 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCATCTT
* * *
19721 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
19786 GGCCTTGAATCAGCACATTGGCACCTCATCTT
66 GGCCTTGAATCAGCACATTGGCACCTCATCTT
* *
19818 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTT---TCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
*
19880 GGCCTTGAATCAGCACATTGGCACCTCACCTT
66 GGCCTTGAATCAGCACATTGGCACCTCATCTT
*
19912 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---CA-C--CTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
* *
19971 GGCCTTGAATCAGCATATCGGCACCTTCATCATCTT
66 GGCCTTGAATCAGCACATTGGCA-C--C-TCATCTT
* * *
20007 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAAT
20066 ATCGCTAGCC
Statistics
Matches: 1332, Mismatches: 115, Indels: 150
0.83 0.07 0.09
Matches are distributed among these distances:
88 4 0.00
90 1 0.00
91 72 0.05
92 261 0.20
93 2 0.00
94 82 0.06
95 87 0.07
96 2 0.00
97 378 0.28
98 120 0.09
99 4 0.00
100 2 0.00
101 84 0.06
102 1 0.00
103 4 0.00
104 10 0.01
105 133 0.10
106 3 0.00
107 7 0.01
108 6 0.00
109 2 0.00
110 53 0.04
111 10 0.01
112 4 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (97 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTCATCTT
Found at i:19329 original size:22 final size:21
Alignment explanation
Indices: 19261--19329 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 21
19251 TGGCACCTCA
19261 CCTTTAAGTCCAATGTAGCTGG
1 CCTTTAAGTCCAAT-TAGCTGG
* *
19283 CCTTGAA-TCAGCACATTAGC--A
1 CCTTTAAGTC--CA-ATTAGCTGG
19304 CCTTTAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAAT-TAGCTGG
19326 CCTT
1 CCTT
19330 GAATCAGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 8 0.22
22 12 0.33
23 6 0.17
24 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (21 bp):
CCTTTAAGTCCAATTAGCTGG
Found at i:19476 original size:435 final size:432
Alignment explanation
Indices: 18443--20065 Score: 1976
Period size: 435 Copynumber: 3.7 Consensus size: 432
18433 GCAACCCTTC
* * *
18443 TAAGCCCAATATAGCTGGCTTTGAATCAGCATATTGGCA-CATTTTCCATCTTTAAGTCCAATGT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCA---T-CATCTTTAAGTCCAATGT
*
18507 AGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
62 AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
* * *
18572 GCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTT
127 GCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCATCATCTTT
18637 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--ATCATCTTTAAGTCCAATGTAGC
192 AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCATCTTTAAGTCCAATGTAGC
*
18700 TGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTTAGCA
257 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
*
18764 CATTGGCACCTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTT
322 CATTGGCACCTTCA-CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCC----T
* * * * * *
18829 CATCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAGCATATTGGCATCTTCATCTT
382 CA-C--CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---TCA-CTT
* * *
18887 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---CA-C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
* *
18946 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
* * *
19011 ATTGGCACCTTTAAATCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGT
131 ATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCATCATCTTTAAGT
*
19076 CCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-T-TCATCTTTAAGTCCAATGTAGCTGGC
196 CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCATCTTTAAGTCCAATGTAGCTGGC
19139 CTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATT
261 CTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATT
19203 GGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTTTA
326 GGCACCTTCA-CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCCTCACCTTTA
*
19267 AGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCA-C-CTT
390 AGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCACTT
* * *
19308 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTCATCATCTTTAAGTCCAATGTC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--CATCATCTTTAAGTCCAATGTA
* * *
19373 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCTTTGACTCAG
63 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
* * * *
19438 CACATTGGCACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
128 CACATTGGCA---C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCATCAT
* *
19503 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCC
188 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC---TT-ATCATCTTTAAGTC
* * * * * *
19568 CAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAG
248 CAATGTAGCTGGCCTTGAATCAGCACATTGG---------CA-------C--CTTCATCTTTAAG
* * *
19633 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C-CTTTAAGTCCAATATCGCTGGCCT
295 TCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACTTTAAGTCCAATGTAGCTGGCCT
* * * *
19693 TGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG
360 TGAATCAGCACATTGGCATCCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
19758 CACCTTCATCTT
425 CA---TCA-CTT
* *
19770 TAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCACC-TCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
*
19834 GGCCTTGACTCAGCACATTGGCACCTTCATCTTT---TCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
19896 ATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---CA-C--CTT
131 ATTGG-----CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCATCATCTT
* * * *
19955 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTCATCATCTTTAAGTCCAATGTC
191 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCATCTTTAAGTCCAATGTA
*
20020 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAAT
255 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAT
20066 ATCGCTAGCC
Statistics
Matches: 1049, Mismatches: 77, Indels: 123
0.84 0.06 0.10
Matches are distributed among these distances:
421 37 0.04
423 1 0.00
427 55 0.05
428 1 0.00
429 2 0.00
430 88 0.08
433 1 0.00
434 2 0.00
435 399 0.38
436 4 0.00
437 1 0.00
440 1 0.00
442 39 0.04
444 33 0.03
445 42 0.04
448 2 0.00
449 38 0.04
451 3 0.00
452 1 0.00
455 109 0.10
456 44 0.04
457 2 0.00
458 55 0.05
459 1 0.00
460 4 0.00
461 46 0.04
462 38 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (432 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
ATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCATCATCTTTAAGT
CCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCATCTTTAAGTCCAATGTAGCTGGC
CTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATT
GGCACCTTCACTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCCTCACCTTTAA
GTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCACTT
Found at i:19689 original size:43 final size:43
Alignment explanation
Indices: 19626--20051 Score: 429
Period size: 43 Copynumber: 9.1 Consensus size: 43
19616 TCATCTTCAT
19626 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
19669 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---CA-C
*
19716 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C
*
19765 ATCTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCACCTC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C
*
19813 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
***
19858 CTTCATCTTTTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 CTT--T-AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CAC
19909 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
19952 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTCATC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------CA-C
*
20002 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
20047 CTTTA
1 CTTTA
20052 TCTTTAAGTC
Statistics
Matches: 331, Mismatches: 26, Indels: 52
0.81 0.06 0.13
Matches are distributed among these distances:
43 85 0.26
45 3 0.01
46 38 0.11
47 1 0.00
48 78 0.24
49 83 0.25
50 1 0.00
51 6 0.02
52 36 0.11
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:20006 original size:189 final size:187
Alignment explanation
Indices: 19622--20056 Score: 610
Period size: 189 Copynumber: 2.3 Consensus size: 187
19612 TTTCTCATCT
*** *
19622 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-T-AAGTCCAATATC
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTTTTCCAATATA
* * *
19685 GCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
66 GCTGGCCTTGAATCAGCACATTGGCATCATCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
* * *
19750 CACATTGGCACCTTCATCTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCACC
131 CACATTGGCA-C--CA-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGGCACC
* *
19811 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTTCCAATGT
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTTTTCCAATAT
*
19876 AGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
65 AGCTGGCCTTGAATCAGCACATTGGCATCATCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
*
19940 GCACATTGGCA-C-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTC
130 GCACATTGGCACCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGGCA-C--C
*
19999 ATCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTT
1 -TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTATCTTT
20057 AAGTCCAATA
Statistics
Matches: 222, Mismatches: 16, Indels: 16
0.87 0.06 0.06
Matches are distributed among these distances:
185 38 0.17
186 1 0.00
187 1 0.00
188 1 0.00
189 101 0.45
190 2 0.01
191 46 0.21
192 32 0.14
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (187 bp):
TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTATCTTTTCCAATATA
GCTGGCCTTGAATCAGCACATTGGCATCATCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
CACATTGGCACCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGGCACC
Found at i:20037 original size:95 final size:91
Alignment explanation
Indices: 19868--20051 Score: 296
Period size: 95 Copynumber: 2.0 Consensus size: 91
19858 CTTCATCTTT
* *
19868 TCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCT
1 TCCAATATAGCTGGCCTTGAATCAGCACATCGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCT
19933 TGAATCAGCACATTGGCACCTTTAAG
66 TGAATCAGCACATTGGCACCTTTAAG
* *
19959 TCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTCATCATCTTTAAGTCCAATGTCGCTG
1 TCCAATATAGCTGGCCTTGAATCAGCACATCGGCACC-TCA-C--CTTTAAGTCCAATGTAGCTG
20024 GCCTTGAATCAGCACATTGGCACCTTTA
62 GCCTTGAATCAGCACATTGGCACCTTTA
20052 TCTTTAAGTC
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
91 34 0.40
92 3 0.04
93 1 0.01
95 47 0.55
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (91 bp):
TCCAATATAGCTGGCCTTGAATCAGCACATCGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCT
TGAATCAGCACATTGGCACCTTTAAG
Found at i:20797 original size:33 final size:33
Alignment explanation
Indices: 20760--20826 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
20750 TTCAACGATT
20760 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
20793 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
20826 T
1 T
20827 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:20798 original size:13 final size:13
Alignment explanation
Indices: 20780--20804 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20770 CATAAAATGT
20780 TGTATCGATACAA
1 TGTATCGATACAA
20793 TGTATCGATACA
1 TGTATCGATACA
20805 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:20885 original size:13 final size:13
Alignment explanation
Indices: 20867--20891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20857 ATTACTCAAA
20867 TGTATCGATACAT
1 TGTATCGATACAT
20880 TGTATCGATACA
1 TGTATCGATACA
20892 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:20956 original size:52 final size:52
Alignment explanation
Indices: 20900--21024 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
20890 CACTGATCTT
*
20900 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
* * *
20952 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
*
21004 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
21025 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATAAAA
Found at i:30270 original size:16 final size:16
Alignment explanation
Indices: 30209--30272 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 16
30199 TAATTATCCT
30209 TAAATTATTATTATTTATA
1 TAAATT-TTA-TA-TTATA
*
30228 TAAGTTTT-TA-TATA
1 TAAATTTTATATTATA
*
30242 TTAATAATTTATATTATA
1 -TAA-ATTTTATATTATA
30260 TAAATTTTATATT
1 TAAATTTTATATT
30273 TTTATGTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
14 4 0.11
15 3 0.08
16 14 0.38
17 5 0.14
18 6 0.16
19 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TAAATTTTATATTATA
Found at i:30628 original size:17 final size:17
Alignment explanation
Indices: 30606--30644 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
30596 AAAATATTAT
30606 TTAAAAA-TATTTAAATA
1 TTAAAAACTATTT-AATA
*
30623 TTAAAAACTATTTTATA
1 TTAAAAACTATTTAATA
30640 TTAAA
1 TTAAA
30645 TCTCTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAAACTATTTAATA
Found at i:30840 original size:54 final size:51
Alignment explanation
Indices: 30700--30869 Score: 143
Period size: 54 Copynumber: 3.3 Consensus size: 51
30690 TTAAACTCCG
** *
30700 TATTAAATCCTGAATTTTTATTTAAAAATA-ATAAATTAAAAAAGTATTTTA
1 TATTAAATCCTGAATTACTATTTAAAAATATAAAAATTAAAAAA-TATTTTA
* * ** * *
30751 CATGAAATCCCCAATAACTATTTAAAAAGGAATAAAAATTTAAAAAATATTTTA
1 TATTAAATCCTGAATTACTATTTAAAAA--TATAAAAA-TTAAAAAATATTTTA
* * *
30805 TATTAAATCTTGAATTACTATTTAAAAATTTATAAAA-T-AAAAACA--TTA
1 TATTAAATCCTGAATTACTATTTAAAAATATA-AAAATTAAAAAATATTTTA
*
30853 TATTAAATCTTGAATTA
1 TATTAAATCCTGAATTA
30870 TAGTAAATAA
Statistics
Matches: 96, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
48 20 0.21
50 6 0.06
51 22 0.23
52 2 0.02
53 5 0.05
54 33 0.34
55 8 0.08
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (51 bp):
TATTAAATCCTGAATTACTATTTAAAAATATAAAAATTAAAAAATATTTTA
Found at i:31549 original size:9 final size:9
Alignment explanation
Indices: 31527--31569 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
31517 TTATTTTTAA
*
31527 ATAATATTT
1 ATAATATAT
*
31536 TTAATATAT
1 ATAATATAT
31545 ATAATTTATAT
1 ATAA--TATAT
31556 ATAATATAT
1 ATAATATAT
31565 ATAAT
1 ATAAT
31570 TAAAGGTCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 20 0.69
11 9 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
ATAATATAT
Found at i:31644 original size:2 final size:2
Alignment explanation
Indices: 31639--31701 Score: 94
Period size: 2 Copynumber: 32.5 Consensus size: 2
31629 ATACGTTCCA
31639 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
31681 AT -T AT TT A- AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
31702 ATTTTTTAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:31895 original size:53 final size:52
Alignment explanation
Indices: 31815--32050 Score: 174
Period size: 53 Copynumber: 4.3 Consensus size: 52
31805 TAATTTGAGC
* * *
31815 TTTAATATAAAATATTTTTAAATTTTTATTATTGTTAAATAGCT-ATTCAAGA
1 TTTAATATAAAATATATTTAAACTTTTATTATTGTTAAATA-ATAATTCAAGA
* * *
31867 TTTAATGTAAAATACTATTTAACCTTTTATTATTTTTAAATAATAATTCAAGA
1 TTTAATATAAAATA-TATTTAAACTTTTATTATTGTTAAATAATAATTCAAGA
* * * *
31920 TTTAATATGATATTTAATATAAATTTTTTTTAATTTTTATTAGTT-TTAAATAGTAATTCGAGA
1 TTTAATAT-A-A---AATAT--A----TTTAAACTTTTATTA-TTGTTAAATAATAATTCAAGA
* * *
31983 TTTAATATAAAATAT-TTTTAATTTTTAATTATTTATTAAATAATAATTCATA-A
1 TTTAATATAAAATATATTTAAACTTTT-ATTA-TTGTTAAATAATAATTCA-AGA
32036 TTTAATATAAAATAT
1 TTTAATATAAAATAT
32051 TTTCTAATTA
Statistics
Matches: 152, Mismatches: 15, Indels: 33
0.76 0.08 0.17
Matches are distributed among these distances:
51 11 0.07
52 20 0.13
53 67 0.44
54 2 0.01
55 1 0.01
57 1 0.01
58 9 0.06
59 1 0.01
61 1 0.01
62 1 0.01
63 36 0.24
64 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (52 bp):
TTTAATATAAAATATATTTAAACTTTTATTATTGTTAAATAATAATTCAAGA
Found at i:31984 original size:116 final size:117
Alignment explanation
Indices: 31815--32043 Score: 317
Period size: 116 Copynumber: 2.0 Consensus size: 117
31805 TAATTTGAGC
*
31815 TTTAATATAAAATATTTTTAAATTTTTATTATTGTTAAATAGCTATTCAAGATTTAATGTAAAAT
1 TTTAATATAAAATATTTTTAAATTTTTATTATTGTTAAATAGCTATTCAAGATTTAATATAAAAT
31880 ACTATTTAACCTTTT-ATTATTT-TTAAATAATAATTCA-AGATTTAATATGATA
66 A-TATTTAA-CTTTTAATTATTTATTAAATAATAATTCATA-ATTTAATATGATA
* * *
31932 TTTAATAT-AAATTTTTTTTAATTTTTATTAGTT-TTAAATAG-TAATTCGAGATTTAATATAAA
1 TTTAATATAAAATATTTTTAAATTTTTATTA-TTGTTAAATAGCT-ATTCAAGATTTAATATAAA
* *
31994 ATATTTTTAATTTTTAATTATTTATTAAATAATAATTCATAATTTAATAT
64 ATATATTTAACTTTTAATTATTTATTAAATAATAATTCATAATTTAATAT
32044 AAAATATTTT
Statistics
Matches: 101, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
114 4 0.04
115 14 0.14
116 72 0.71
117 11 0.11
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (117 bp):
TTTAATATAAAATATTTTTAAATTTTTATTATTGTTAAATAGCTATTCAAGATTTAATATAAAAT
ATATTTAACTTTTAATTATTTATTAAATAATAATTCATAATTTAATATGATA
Found at i:32593 original size:52 final size:53
Alignment explanation
Indices: 32505--32629 Score: 134
Period size: 52 Copynumber: 2.4 Consensus size: 53
32495 TGCAAATAAT
* ** * *
32505 TAAAAAATATTTTA-AATAAAATCATGATTTTTTATTTAAAATAATTAAAAA-A
1 TAAAAAATATTTTATAAT-AAATCATGAATTACTATTTAAAAAAAATAAAAACA
32557 TAAAAAATATTTTATAATAAATC-TCGAATTACTATTTAAAAAAAATAAAAACA
1 TAAAAAATATTTTATAATAAATCAT-GAATTACTATTTAAAAAAAATAAAAACA
* *
32610 -AAAAAA-ATTCTATATTAAAT
1 TAAAAAATATTTTATAATAAAT
32630 ACAATATTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
51 13 0.21
52 46 0.73
53 4 0.06
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (53 bp):
TAAAAAATATTTTATAATAAATCATGAATTACTATTTAAAAAAAATAAAAACA
Found at i:32760 original size:53 final size:53
Alignment explanation
Indices: 32636--32782 Score: 163
Period size: 53 Copynumber: 2.8 Consensus size: 53
32626 AAATACAATA
* * *
32636 TTAAATCCAAAATTATTATTTAAACATAATAAAAAATAAAAAAGTATTTTACC
1 TTAAATCCCAAATTACTATTTAAAAATAATAAAAAATAAAAAAGTATTTTACC
* * *
32689 TTAAATCCCAAATAACTATTTAAAAATAATAAAAATTTAAAGAA-TATTTTACC
1 TTAAATCCCAAATTACTATTTAAAAATAATAAAAA-ATAAAAAAGTATTTTACC
*** * * *
32742 TTAAATCTTGAATTACTATTTACAAAT-TTATAAAATAAAAA
1 TTAAATCCCAAATTACTATTTAAAAATAATAAAAAATAAAAA
32783 CATATTAAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
51 5 0.06
52 5 0.06
53 62 0.79
54 6 0.08
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (53 bp):
TTAAATCCCAAATTACTATTTAAAAATAATAAAAAATAAAAAAGTATTTTACC
Found at i:33464 original size:2 final size:2
Alignment explanation
Indices: 33457--33508 Score: 79
Period size: 2 Copynumber: 26.0 Consensus size: 2
33447 CCGATCCCAA
*
33457 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33498 AT CAT AT AT AT
1 AT -AT AT AT AT
33509 TAAAAATACT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 43 0.93
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33512 original size:14 final size:14
Alignment explanation
Indices: 33455--33512 Score: 75
Period size: 14 Copynumber: 4.2 Consensus size: 14
33445 AACCGATCCC
33455 AAATATATATATAT
1 AAATATATATATAT
*
33469 ATATATATATATAT
1 AAATATATATATAT
*
33483 ATATATATAT-TAT
1 AAATATATATATAT
33496 AAATCATATATAT-T
1 AAAT-ATATATATAT
33510 AAA
1 AAA
33513 AATACTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
13 6 0.15
14 33 0.82
15 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:33515 original size:16 final size:16
Alignment explanation
Indices: 33485--33515 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33475 ATATATATAT
*
33485 ATATATATTATAAATC
1 ATATATATTAAAAATC
33501 ATATATATTAAAAAT
1 ATATATATTAAAAAT
33516 ACTATTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATATTAAAAATC
Found at i:33599 original size:50 final size:51
Alignment explanation
Indices: 33545--33665 Score: 129
Period size: 51 Copynumber: 2.4 Consensus size: 51
33535 ATCAAAAGTG
* * *
33545 AATTACTATTTAAAAAAATCAAAATTTTAAAAAAATTATATA-AAATCT-TA
1 AATTAATATTTAAAAAAAT-AAAAATTTAAAAAAATTATATATAAATCTCAA
* * * *
33595 AATTATTATTTAAAAAATAATAAAAATTTAAAAATATTTTATATTAATCTCAA
1 AATTAATATTT-AAAAA-AATAAAAATTTAAAAAAATTATATATAAATCTCAA
*
33648 AATTAAAATTTAAAAAAA
1 AATTAATATTTAAAAAAA
33666 ATATTTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
50 10 0.17
51 26 0.44
52 13 0.22
53 10 0.17
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (51 bp):
AATTAATATTTAAAAAAATAAAAATTTAAAAAAATTATATATAAATCTCAA
Found at i:33650 original size:38 final size:38
Alignment explanation
Indices: 33608--33714 Score: 96
Period size: 38 Copynumber: 2.8 Consensus size: 38
33598 TATTATTTAA
33608 AAAATAATAAAAATTTAAAAATATTTTATATTAATCTC
1 AAAATAATAAAAATTTAAAAATATTTTATATTAATCTC
* * * *
33646 AAAAT--T-AAAATTTAAAAAAAATATTTTTTTACTATTTTC
1 AAAATAATAAAAATTT---AAAAATA-TTTTATATTAATCTC
* *
33685 AAATTAATAAATA-TTAAAAATATTTTATAT
1 AAAATAATAAAAATTTAAAAATATTTTATAT
33715 ATGCATTGGG
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
35 7 0.13
36 1 0.02
37 6 0.11
38 19 0.35
39 15 0.28
41 3 0.06
42 3 0.06
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (38 bp):
AAAATAATAAAAATTTAAAAATATTTTATATTAATCTC
Found at i:34143 original size:2 final size:2
Alignment explanation
Indices: 34138--34162 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34128 TAATTTTTAC
34138 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
34163 GTTGGATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36908 original size:30 final size:30
Alignment explanation
Indices: 36874--36930 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
36864 AGACTAAAAA
* *
36874 GATATATTTCAAATTAAAGAAGAGCAAGAG
1 GATATATTCCAAATTAAAGAAAAGCAAGAG
* *
36904 GATATCTTCCAAATTAAATAAAAGCAA
1 GATATATTCCAAATTAAAGAAAAGCAA
36931 TTATATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.25
Consensus pattern (30 bp):
GATATATTCCAAATTAAAGAAAAGCAAGAG
Found at i:37154 original size:28 final size:27
Alignment explanation
Indices: 37100--37155 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
37090 AATTAAAACT
* *
37100 TTTAAAATTTAATTTTTAATTATTAAA
1 TTTAAAATTTAATTTTTAATCAATAAA
37127 TTTAAAATTTTAATATTTT-ATCAATAAA
1 TTTAAAA-TTTAAT-TTTTAATCAATAAA
37155 T
1 T
37156 CACGTTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.28
28 14 0.56
29 4 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTAAAATTTAATTTTTAATCAATAAA
Found at i:37390 original size:18 final size:18
Alignment explanation
Indices: 37345--37390 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
37335 ATTTTAATAA
* **
37345 AAATAAAAAATAAAAATT
1 AAATTAAAAATAAAAAAC
*
37363 AAATTGAAAATAAAAAAC
1 AAATTAAAAATAAAAAAC
37381 AAATTAAAAA
1 AAATTAAAAA
37391 AGCTAAAGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (18 bp):
AAATTAAAAATAAAAAAC
Found at i:39409 original size:20 final size:20
Alignment explanation
Indices: 39352--39418 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
39342 CAGTTGTTGA
*
39352 GATAAATCTGAGTGTGTATC
1 GATACATCTGAGTGTGTATC
** **
39372 GATACA-AGGCAGCATGTATC
1 GATACATCTG-AGTGTGTATC
39392 GATACATCTGAGTGTGTATC
1 GATACATCTGAGTGTGTATC
39412 GATACAT
1 GATACAT
39419 TCAAGGGTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
19 1 0.03
20 34 0.94
21 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (20 bp):
GATACATCTGAGTGTGTATC
Found at i:39937 original size:15 final size:17
Alignment explanation
Indices: 39917--39950 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
39907 GTTTTTGTTT
39917 TTCT-CCCCTTAAA-AA
1 TTCTCCCCCTTAAACAA
39932 TTCTCCCCCTTAAACAA
1 TTCTCCCCCTTAAACAA
39949 TT
1 TT
39951 ATCTTCTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 9 0.53
17 4 0.24
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (17 bp):
TTCTCCCCCTTAAACAA
Found at i:42021 original size:4 final size:4
Alignment explanation
Indices: 42012--42041 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
42002 AAAATTTGCT
42012 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
42042 ATTGAGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:50457 original size:17 final size:16
Alignment explanation
Indices: 50434--50473 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
50424 AATCATATTT
*
50434 TTTTATAACAAATTGA
1 TTTTATAACAAATTAA
*
50450 TTTATATAATAAATTAA
1 TTT-TATAACAAATTAA
50467 TTTTATA
1 TTTTATA
50474 TTTTTCTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
TTTTATAACAAATTAA
Found at i:50475 original size:43 final size:48
Alignment explanation
Indices: 50428--50516 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 48
50418 ATAATAAATC
* *
50428 ATATTTTTTTA-TAAC-AA-ATTGATTTATATA-ATAAAT-TAATTTT
1 ATATTTTTCTACTAACAAATATTGATTTAAATATATAAATATAATTTT
50471 ATATTTTTCTACTAACAAATATTGATTTAAATATATAAATATAATT
1 ATATTTTTCTACTAACAAATATTGATTTAAATATATAAATATAATT
50517 AAAAATATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
43 10 0.26
44 4 0.10
45 2 0.05
46 12 0.31
47 6 0.15
48 5 0.13
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (48 bp):
ATATTTTTCTACTAACAAATATTGATTTAAATATATAAATATAATTTT
Found at i:51256 original size:50 final size:51
Alignment explanation
Indices: 51162--51262 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 51
51152 TTATCAACTT
51162 TTCGAAGGATCATCATAATTTTTTTTTTTTTTTAATTTAGTATCATTATAA
1 TTCGAAGGATCATCATAATTTTTTTTTTTTTTTAATTTAGTATCATTATAA
51213 TTCGAAGGATCATCATAA-TTTTTTTTTTTTTTAATTTAGTATCATTATAA
1 TTCGAAGGATCATCATAATTTTTTTTTTTTTTTAATTTAGTATCATTATAA
51263 ATCATTCAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 32 0.64
51 18 0.36
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (51 bp):
TTCGAAGGATCATCATAATTTTTTTTTTTTTTTAATTTAGTATCATTATAA
Found at i:51632 original size:42 final size:44
Alignment explanation
Indices: 51549--51645 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 44
51539 AGCACATGAC
51549 AAGTTGTA-ATAAATAAAGCATGGGCAAGCATAAATTAACAAGTAA
1 AAGTTGTAGATAAATAAAGCATGGGCAAGCAT-AA-TAACAAGTAA
*
51594 AAGTTGTAGATAAATAAAGCATGGGCAAGCAT-A-AACAAGTTA
1 AAGTTGTAGATAAATAAAGCATGGGCAAGCATAATAACAAGTAA
*
51636 GAGTTGTAGA
1 AAGTTGTAGA
51646 AGTAATGATT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
42 17 0.35
44 1 0.02
45 8 0.16
46 23 0.47
ACGTcount: A:0.47, C:0.08, G:0.22, T:0.23
Consensus pattern (44 bp):
AAGTTGTAGATAAATAAAGCATGGGCAAGCATAATAACAAGTAA
Found at i:51778 original size:19 final size:18
Alignment explanation
Indices: 51749--51803 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
51739 TAATATATGA
51749 AAAAATAATATTAATATTAT
1 AAAAAT-ATATTAATATT-T
* *
51769 ATAAATATATAAATATTT
1 AAAAATATATTAATATTT
*
51787 AAAAATTTATATAATAT
1 AAAAATATAT-TAATAT
51804 GAATTATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 9 0.31
19 15 0.52
20 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAATATATTAATATTT
Found at i:53178 original size:16 final size:17
Alignment explanation
Indices: 53149--53182 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
53139 TCTTTATTTG
53149 TTTATTTTTAATTTTTT
1 TTTATTTTTAATTTTTT
53166 TTTATTTTT-ATTTTTT
1 TTTATTTTTAATTTTTT
53182 T
1 T
53183 GTAGGTTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTATTTTTAATTTTTT
Found at i:53512 original size:12 final size:13
Alignment explanation
Indices: 53479--53512 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
53469 ATGAATTAAT
53479 ATATTATAATTTG
1 ATATTATAATTTG
53492 AT-TTATAATTTG
1 ATATTATAATTTG
53504 ATATT-TAAT
1 ATATTATAAT
53513 AAAAGTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTATAATTTG
Found at i:60536 original size:31 final size:31
Alignment explanation
Indices: 60479--60561 Score: 107
Period size: 31 Copynumber: 2.6 Consensus size: 31
60469 ACATATTTCA
60479 TTTAAACATTTTAAATTTT-AAATTATTATT-T
1 TTTAAA-A-TTTAAATTTTAAAATTATTATTAT
*
60510 TATTTAAATTTAAATTTTAAAATTATTATTAT
1 T-TTAAAATTTAAATTTTAAAATTATTATTAT
*
60542 TTTAAAATTCAAATTTTAAA
1 TTTAAAATTTAAATTTTAAA
60562 TCAAATACAG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
30 10 0.22
31 30 0.65
32 6 0.13
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (31 bp):
TTTAAAATTTAAATTTTAAAATTATTATTAT
Found at i:66631 original size:23 final size:22
Alignment explanation
Indices: 66592--66637 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
66582 AATCGTTATT
**
66592 TTATCCAAATTTGAATTTAAAA
1 TTATCCAAATTCAAATTTAAAA
*
66614 TTATCCAAAATTCAAATTTTAAA
1 TTATCC-AAATTCAAATTTAAAA
66637 T
1 T
66638 CAGATACAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (22 bp):
TTATCCAAATTCAAATTTAAAA
Found at i:68643 original size:2 final size:2
Alignment explanation
Indices: 68636--68664 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
68626 CTATCTCTTC
68636 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
68665 AAATTATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70727 original size:39 final size:39
Alignment explanation
Indices: 70667--70809 Score: 137
Period size: 39 Copynumber: 3.7 Consensus size: 39
70657 GATTAACTGA
*
70667 AATCTAAAAGATATGATTAATGCATAAATTTTTCATTGG
1 AATCTAAAAGATATGACTAATGCATAAATTTTTCATTGG
* * * * * *
70706 ATTCTGAAAGATATTAGTAATGTAT-AATTTATTTATTGG
1 AATCTAAAAGATATGACTAATGCATAAATTT-TTCATTGG
* * **
70745 AATCTAAAAGATATGACTAATACATAAATTTTTTATTAA
1 AATCTAAAAGATATGACTAATGCATAAATTTTTCATTGG
* *
70784 AAT-TCAAAAGATGTGACTAATACATA
1 AATCT-AAAAGATATGACTAATGCATA
70810 GATTCTGTTT
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
38 6 0.07
39 75 0.87
40 5 0.06
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.38
Consensus pattern (39 bp):
AATCTAAAAGATATGACTAATGCATAAATTTTTCATTGG
Found at i:77657 original size:27 final size:27
Alignment explanation
Indices: 77627--77687 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
77617 AATGAGGCTA
*
77627 GAGTATCCCCTC-AGAAGAATGGAGTTG
1 GAGTATCCCCTCGA-AAGAATGGAGCTG
** *
77654 GAGTATCTTCTCGAAAGAATGGGGCTG
1 GAGTATCCCCTCGAAAGAATGGAGCTG
77681 GAGTATC
1 GAGTATC
77688 TCCGTGAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (27 bp):
GAGTATCCCCTCGAAAGAATGGAGCTG
Found at i:87430 original size:2 final size:2
Alignment explanation
Indices: 87423--87459 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
87413 TTTTTATCTT
87423 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87460 TTCAAAACTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:98155 original size:13 final size:13
Alignment explanation
Indices: 98137--98161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98127 AAGAGCGAGA
98137 TTTTGGACCAAAC
1 TTTTGGACCAAAC
98150 TTTTGGACCAAA
1 TTTTGGACCAAA
98162 AAAACAATCT
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTTTGGACCAAAC
Found at i:98483 original size:28 final size:28
Alignment explanation
Indices: 98385--98481 Score: 86
Period size: 28 Copynumber: 3.5 Consensus size: 28
98375 CATCCAAAGT
* * * *
98385 AAGCTCATATTCGCTGGCACACGAGTTA
1 AAGCCCATATTAGCTGGCACACAAGTCA
* * * *
98413 AAGCCCATATTTGCTGGCATATAAGTCT
1 AAGCCCATATTAGCTGGCACACAAGTCA
* * * *
98441 AAGCCCACACTAGTTGGCACACAAGTCG
1 AAGCCCATATTAGCTGGCACACAAGTCA
98469 AAGCCCATATTAG
1 AAGCCCATATTAG
98482 TTAGCATTCA
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (28 bp):
AAGCCCATATTAGCTGGCACACAAGTCA
Found at i:98504 original size:56 final size:56
Alignment explanation
Indices: 98441--98777 Score: 174
Period size: 56 Copynumber: 6.1 Consensus size: 56
98431 ATATAAGTCT
* *
98441 AAGCCCACACTAGTTGGCACACAAGTCGAAGCCCATATTAGTTAGCATTCACGTTA
1 AAGCCCACACTAGTTGGCACACAAGTCGAAGCCCACATTAGTTGGCATTCACGTTA
* * * * * * * * *
98497 AAACCCACATTAGCTAGCATC-TAAGTCTAAGCCCACACTAGCTGGCA-TCTAAG-T-
1 AAGCCCACACTAGTTGGCA-CACAAGTCGAAGCCCACATTAGTTGGCATTC-ACGTTA
* * **
98551 AAGCCTACACTA-TCTGGCACACAAGTCGAAGCCCACATTAGTTGGAATTTGCGTTA
1 AAGCCCACACTAGT-TGGCACACAAGTCGAAGCCCACATTAGTTGGCATTCACGTTA
* * ** * * * * * **
98607 AAGCCCATATTAGTTGGCACGTAAGTTGAAACCTACGTTAGTTGGCACTTGA-GTCC
1 AAGCCCACACTAGTTGGCACACAAGTCGAAGCCCACATTAGTTGGCA-TTCACGTTA
* * ** * * *
98663 AAGCCCACACTTGCTGGCAC-CTTAA-TATAAGCCCACACTAGTTGGCA-CCTAAG-T-
1 AAGCCCACACTAGTTGGCACAC--AAGTCGAAGCCCACATTAGTTGGCATTC-ACGTTA
* * * * * * *
98717 AAGCCCACACTAGCTGGTATACGAGTCGAAGCCTACATTAGTTAGCATTCACATTA
1 AAGCCCACACTAGTTGGCACACAAGTCGAAGCCCACATTAGTTGGCATTCACGTTA
98773 AAGCC
1 AAGCC
98778 AATATTAGTT
Statistics
Matches: 199, Mismatches: 64, Indels: 36
0.67 0.21 0.12
Matches are distributed among these distances:
53 2 0.01
54 70 0.35
55 9 0.05
56 112 0.56
57 6 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (56 bp):
AAGCCCACACTAGTTGGCACACAAGTCGAAGCCCACATTAGTTGGCATTCACGTTA
Found at i:98531 original size:28 final size:28
Alignment explanation
Indices: 98413--98733 Score: 112
Period size: 28 Copynumber: 11.6 Consensus size: 28
98403 ACACGAGTTA
* * *
98413 AAGCCCATATTTGCTGGCATATAAGTCT
1 AAGCCCACATTAGCTGGCATCTAAGTCT
* * * *
98441 AAGCCCACACTAGTTGGCA-CACAAGTCG
1 AAGCCCACATTAGCTGGCATC-TAAGTCT
* * * *
98469 AAGCCCATATTAGTTAGCAT-TCACGT-T
1 AAGCCCACATTAGCTGGCATCT-AAGTCT
* *
98496 AAAACCCACATTAGCTAGCATCTAAGTCT
1 -AAGCCCACATTAGCTGGCATCTAAGTCT
*
98525 AAGCCCACACTAGCTGGCATCTAAG--T
1 AAGCCCACATTAGCTGGCATCTAAGTCT
* * * * *
98551 AAGCCTACACTATCTGGCA-CACAAGTCG
1 AAGCCCACATTAGCTGGCATC-TAAGTCT
* * * **
98579 AAGCCCACATTAGTTGGAATTTGCGT-T
1 AAGCCCACATTAGCTGGCATCTAAGTCT
* *
98606 AAAGCCCATATTAGTTGGCA-CGTAAGT-T
1 -AAGCCCACATTAGCTGGCATC-TAAGTCT
* * * * * *
98634 GAAACCTACGTTAGTTGGCA-CTTGAGTCC
1 -AAGCCCACATTAGCTGGCATC-TAAGTCT
* *
98663 AAGCCCACACTT-GCTGGCACCTTAA-TAT
1 AAGCCCACA-TTAGCTGGCATC-TAAGTCT
* * *
98691 AAGCCCACACTAGTTGGCACCTAAG--T
1 AAGCCCACATTAGCTGGCATCTAAGTCT
*
98717 AAGCCCACACTAGCTGG
1 AAGCCCACATTAGCTGG
98734 TATACGAGTC
Statistics
Matches: 219, Mismatches: 57, Indels: 36
0.70 0.18 0.12
Matches are distributed among these distances:
25 1 0.00
26 38 0.17
27 4 0.02
28 168 0.77
29 8 0.04
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (28 bp):
AAGCCCACATTAGCTGGCATCTAAGTCT
Found at i:98696 original size:166 final size:165
Alignment explanation
Indices: 98524--98951 Score: 482
Period size: 166 Copynumber: 2.6 Consensus size: 165
98514 CATCTAAGTC
* * *
98524 TAAGCCCACACTAGCTGGCATCTAAGTAAGCCTACACTATCTGGCACACAAGTCGAAGCCCACAT
1 TAAGCCCACACTAGCTGGCA-CTAAGTAAGCCCACACTAGCTGGCACACGAGTCGAAGCCCACAT
* * * * * ***
98589 TAGTTGGAATTTGCGTTAAAGCCCATATTAGTTGGCACGT-AAGTTGAAACCTACGTTAGTTGGC
65 TAGTTGGCATTCGCATTAAAGCCCATATTAGTTGGCACATGAA-TTGAAACCCAAACTAGTTGGC
* **
98653 A-CTTGAGTCCAAGCCCACACTTGCTGGCACCTTAATA
129 ACCTT-AGTCCAAGCCCACACTAGCTGAAACCTTAATA
* * * *
98690 TAAGCCCACACTAGTTGGCACCTAAGTAAGCCCACACTAGCTGGTATACGAGTCGAAGCCTACAT
1 TAAGCCCACACTAGCTGGCA-CTAAGTAAGCCCACACTAGCTGGCACACGAGTCGAAGCCCACAT
* * * * *
98755 TAGTTAGCATTCACATTAAAGCCAATATTAGTTGGTACATGAATTGAAGCCCAAACTAGTTGGCA
65 TAGTTGGCATTCGCATTAAAGCCCATATTAGTTGGCACATGAATTGAAACCCAAACTAGTTGGCA
* * ** *
98820 CCTTAGTCCAAGCCCATACTAGCTTAAAGTTTAGTA
130 CCTTAGTCCAAGCCCACACTAGCTGAAACCTTAATA
* * * * *
98856 TAAGCCCACACTAGCTGGCACTTAAGTAAACCCACACTAGCTAGCACATGAGTTGAAGCCCATAT
1 TAAGCCCACACTAGCTGGCAC-TAAGTAAGCCCACACTAGCTGGCACACGAGTCGAAGCCCACAT
* *
98921 TAGTTGGCATTCGCATCAAAGTCCATATTAG
65 TAGTTGGCATTCGCATTAAAGCCCATATTAG
98952 CTAGCATGTG
Statistics
Matches: 216, Mismatches: 43, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
165 1 0.00
166 210 0.97
167 5 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (165 bp):
TAAGCCCACACTAGCTGGCACTAAGTAAGCCCACACTAGCTGGCACACGAGTCGAAGCCCACATT
AGTTGGCATTCGCATTAAAGCCCATATTAGTTGGCACATGAATTGAAACCCAAACTAGTTGGCAC
CTTAGTCCAAGCCCACACTAGCTGAAACCTTAATA
Found at i:100238 original size:2 final size:2
Alignment explanation
Indices: 100231--100260 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
100221 AAGTGAACAG
*
100231 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100261 GGCTCAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:106756 original size:115 final size:115
Alignment explanation
Indices: 106575--106792 Score: 309
Period size: 115 Copynumber: 1.9 Consensus size: 115
106565 TTAGTCCACC
*
106575 ATAATTAAATAAAATAGAGCTTAAATAAATTAATTAAATAAGCATGTGAACCATATTTTATCTAA
1 ATAATTAAATAAAATAGAGATTAAATAAATTAATTAAATAAGCATGTGAACCATATTTTATCTAA
* *
106640 TATATATTTTTATAAAATTTGACTTTAAATTAAATAATTTATGATCTAAT
66 TATATATTTTTACAAAACTTGACTTTAAATTAAATAATTTATGATCTAAT
*
106690 ATAATTAAATAAAATA-A-ATTCAAATAAATTAATTAAATAAGTACATGT-AA-CTTATTTTTAT
1 ATAATTAAATAAAATAGAGATT-AAATAAATTAATTAAATAAG--CATGTGAACCATA-TTTTAT
* **
106751 TTAATATATATTTTTACAGGACTTGACTTTAAATTAAATAAT
62 CTAATATATATTTTTACAAAACTTGACTTTAAATTAAATAAT
106793 ACAATCTTAC
Statistics
Matches: 92, Mismatches: 7, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
113 2 0.02
114 24 0.26
115 61 0.66
116 5 0.05
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (115 bp):
ATAATTAAATAAAATAGAGATTAAATAAATTAATTAAATAAGCATGTGAACCATATTTTATCTAA
TATATATTTTTACAAAACTTGACTTTAAATTAAATAATTTATGATCTAAT
Found at i:113157 original size:24 final size:24
Alignment explanation
Indices: 113122--113172 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
113112 TATTAAATTC
113122 TTTAATTCTATTTTTCT-TTTATT
1 TTTAATTCTATTTTTCTATTTATT
*
113145 TTTATATTTTATTTTTCTATTTATT
1 TTTA-ATTCTATTTTTCTATTTATT
113170 TTT
1 TTT
113173 GCCACCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 4 0.16
24 12 0.48
25 9 0.36
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTAATTCTATTTTTCTATTTATT
Found at i:113167 original size:12 final size:12
Alignment explanation
Indices: 113130--113172 Score: 61
Period size: 13 Copynumber: 3.6 Consensus size: 12
113120 TCTTTAATTC
113130 TATTTTTCT-TT
1 TATTTTTCTATT
*
113141 TATTTTTATATTT
1 TATTTTTCTA-TT
113154 TATTTTTCTATT
1 TATTTTTCTATT
113166 TATTTTT
1 TATTTTT
113173 GCCACCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 8 0.29
12 9 0.32
13 11 0.39
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (12 bp):
TATTTTTCTATT
Found at i:123123 original size:591 final size:591
Alignment explanation
Indices: 121804--125364 Score: 6041
Period size: 591 Copynumber: 6.0 Consensus size: 591
121794 AAATTTACCC
* * *
121804 CAAGATTGTAATGTCAATTTAATTAAAAGCTTAAATCCAAGCTAATCTTCATTGATTGAGGCTAG
1 CAAGATTGTAGTGTCAATTTAATGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAG
* * *
121869 CTTGAACTTAACTTGAGGAGGTGTTTGAAATTTTGCTTTAAGGCAAACAAGTATGATGATCATGC
66 CTTGAACTTAACTTGGGGAGGTATTTGAAAATTTGCTTTAAGGCAAACAAGTATGATGATCATGC
* *
121934 AAGAACATGATGAACAACATTAATGGACGTGCTGAACATGCTATAAATGCATGAAGCATAGTAAA
131 AAGAACATGATGAACAACATTCATGGAGGTGCTGAACATGCTATAAATGCATGAAGCATAGTAAA
*
121999 AATGCATGATCAAGGTTTATCAAAATGATGGAGATGGATATGGTAAGTTAGGCACACAAATGACT
196 AATGCATGATCAAGGTTTATCAAAATGATGGAGATGGATATGGCAAGTTAGGCACACAAATGACT
122064 TCAAATCATCAAAATCATCAAAATAATCCTAAAACTACCACATCCAAAGCCACAATCATGCATGA
261 TCAAATCATCAAAATCATCAAAATAATCCTAAAACTACCACATCCAAAGCCACAATCATGCATGA
* *
122129 TGATCCTAAAAGGGTCATGGAAACATGTTAGGATTACTAAAACGATGATAAACACATAAGTAG-A
326 TGATCCTAAAAGGGTCATGGAAACATGTTAGGATCACTAAAACGATGATAAACACATAAGCAGAA
* *
122193 AAA-AAAATGATCAAAGCTCAGAAAATATACCAACACAAGCTACTATGCTGATTTGCTGGTTTGA
391 AAATAAAAGGATCAAAGTTCAGAAAATATACCAACACAAGCTACTATGCTGATTTGCTGGTTTGA
* * *
122257 AGTGACCAAGCAGCTTGTTCAACACCTTTTTGGGGTTGTAAACAAGCTGAAAATAAGTTGTTTGA
456 AGTGACCAAGCAGCTTGTTTAACACCTCTTTGGGGTTGTAAACAAGCTGAAAATGAGTTGTTTGA
* * *
122322 GTTATGGTATTGAGGGGAAATGGTTTGGAGTTGTGTTTGAGCTAAGGATAAAGTGTTTTGAGGTG
521 GTTATGGTATTGAGGGAAAATGGTTTGGAGTTGTGTGTGAGCTAAGGAGAAAGTGTTTTGAGGTG
122387 TTTTTG
586 TTTTTG
122393 CAAGATTGTAGTGTCAATTTAATGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAG
1 CAAGATTGTAGTGTCAATTTAATGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAG
*
122458 CTTGAACTTAACTTGGGAAGGTATTTGAAAATTTGCTTTAAGGCAAACAAGTATGATGATCATGC
66 CTTGAACTTAACTTGGGGAGGTATTTGAAAATTTGCTTTAAGGCAAACAAGTATGATGATCATGC
122523 AAGAACATGATGAACAACATTCATGGAGGTGCTGAACATGCTATAAATGCATGAAGCATAGTAAA
131 AAGAACATGATGAACAACATTCATGGAGGTGCTGAACATGCTATAAATGCATGAAGCATAGTAAA
122588 AATGCATGATCAAGGTTTATCAAAATGATGGAGATGGATATGGCAAGTTAGGCACACAAATGACT
196 AATGCATGATCAAGGTTTATCAAAATGATGGAGATGGATATGGCAAGTTAGGCACACAAATGACT
122653 TCAAATCATCAAAATCATCAAAATAATCCTAAAACTACCACATCCAAAGCCACAATCATGCATGA
261 TCAAATCATCAAAATCATCAAAATAATCCTAAAACTACCACATCCAAAGCCACAATCATGCATGA
* *
122718 TGATCCTAAAAGGGTTATGGAAACATGTTAGGATCACTAAAACGATGATGAACACATAAGCAGAA
326 TGATCCTAAAAGGGTCATGGAAACATGTTAGGATCACTAAAACGATGATAAACACATAAGCAGAA
* *
122783 AAATAAAAGGATCAAAGTTCAAAAAATATACCAACACAAGCTACTATACTGATTTGCTGGTTTGA
391 AAATAAAAGGATCAAAGTTCAGAAAATATACCAACACAAGCTACTATGCTGATTTGCTGGTTTGA
* * *
122848 AGTGACCAAGCAGCTTGTTTAACACCTCTTTGAGGTTGTAAACAAGTTGAAAATAAGTTGTTTGA
456 AGTGACCAAGCAGCTTGTTTAACACCTCTTTGGGGTTGTAAACAAGCTGAAAATGAGTTGTTTGA
* * *
122913 GTTATGGTATTGAGGGAAAATGGTTTGGAGTTGTGTGTGAGATAAGGAGAAAATATTTTGAGGTG
521 GTTATGGTATTGAGGGAAAATGGTTTGGAGTTGTGTGTGAGCTAAGGAGAAAGTGTTTTGAGGTG
*
122978 TTTTTA
586 TTTTTG
* *
122984 CAAGATTGTAGTGTTAATTTAATGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGTTAG
1 CAAGATTGTAGTGTCAATTTAATGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAG
* *
123049 CTTGAACTTAACTTAGGGAGGTGTTTGAAAATTTGCTTTAAGGCAAACAAGTATGATGATCATGC
66 CTTGAACTTAACTTGGGGAGGTATTTGAAAATTTGCTTTAAGGCAAACAAGTATGATGATCATGC
* * *
123114 AATAACATGATGAACAATATTCATGGAGGTGCTGAACATGTTATAAATGCATGAAGCATAGTAAA
131 AAGAACATGATGAACAACATTCATGGAGGTGCTGAACATGCTATAAATGCATGAAGCATAGTAAA
* *
123179 AATGCATGATCAAAGTTTATCAAAATGATGGAGATGGATATGGCAAGTTAGGTACACAAATGACT
196 AATGCATGATCAAGGTTTATCAAAATGATGGAGATGGATATGGCAAGTTAGGCACACAAATGACT
*
123244 TCAAATCATCAAAATCATCAAAATAATCCTAAAACCACCACATCCAAAGCCACAATCATGCATGA
261 TCAAATCATCAAAATCATCAAAATAATCCTAAAACTACCACATCCAAAGCCACAATCATGCATGA
123309 TGATCCTAAAAGGGTCATGGAAACATGTTAGGATCACTAAAACGATGATAAACACATAAGCAGAA
326 TGATCCTAAAAGGGTCATGGAAACATGTTAGGATCACTAAAACGATGATAAACACATAAGCAGAA
*
123374 AAATAAAAGGATCAAAGTTCAGAAAATATACCAACACAAGCTACTATACTGATTTGCTGGTTTGA
391 AAATAAAAGGATCAAAGTTCAGAAAATATACCAACACAAGCTACTATGCTGATTTGCTGGTTTGA
*
123439 AGTGACCAAGCAGCTTGTTTAACACCTCTTTGGGGTTGTAAACAAACTGAAAATGAGTT-TTTGA
456 AGTGACCAAGCAGCTTGTTTAACACCTCTTTGGGGTTGTAAACAAGCTGAAAATGAGTTGTTTGA
* *
123503 GTTATGGTATTGAGGGGAAATGGTTTGGAGTTGTGTGTGAGATAAGGAGAAAGTGTTTTGAGGTG
521 GTTATGGTATTGAGGGAAAATGGTTTGGAGTTGTGTGTGAGCTAAGGAGAAAGTGTTTTGAGGTG
123568 TTTTTG
586 TTTTTG
* * *
123574 CGAGATTGTAGTGTCAATTTAATGAAAAGCTTAAATCCAAGCCAATCCTCATTGATTGAGGTTAG
1 CAAGATTGTAGTGTCAATTTAATGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAG
* * *
123639 CTTAAACTTAACTTGGGGAGGTGTTTGAGAATTTGCTTTAAGGCAAACAAGTATGATGATCATGC
66 CTTGAACTTAACTTGGGGAGGTATTTGAAAATTTGCTTTAAGGCAAACAAGTATGATGATCATGC
*
123704 AATAACATGATGAACAACATTCATGGAGGTGCTGAACATGCTATAAATGCATGAAGCGTAGTAAA
131 AAGAACATGATGAACAACATTCATGGA-G-G-TG--C-TG-----AA--CAT---GC-TA-T--A
*
123769 AATGCATGAAGCATAGTAAAAATGCATGATCAAGGTTTATCAAAATAATGGAGATGGATATGGCA
176 AATGCATGAAGCATAGTAAAAATGCATGATCAAGGTTTATCAAAATGATGGAGATGGATATGGCA
* * * *
123834 AGTTAAGTACACAAATGA---C---T--TC-AAATCATCAAAATAATCCTAAAACCACCACATCT
241 AGTTAGGCACACAAATGACTTCAAATCATCAAAATCATCAAAATAATCCTAAAACTACCACATCC
*
123890 AAAGCCACAATCATGCATGATGATCCTAAAAGGGTCATGGAAACATGTTAGGATCACTAAAACAA
306 AAAGCCACAATCATGCATGATGATCCTAAAAGGGTCATGGAAACATGTTAGGATCACTAAAACGA
* *
123955 TGATAAACACATAAGCAAAAAAATAAAAGGATCAAAGTTCAGAAAATATACCAACACAAGCCACT
371 TGATAAACACATAAGCAGAAAAATAAAAGGATCAAAGTTCAGAAAATATACCAACACAAGCTACT
* *
124020 ATGCTGATTTGCTGGTTTGGAGTGACCAAGCAGCTTGTTTAACACCTCTTTAGGGTTGTAAACAA
436 ATGCTGATTTGCTGGTTTGAAGTGACCAAGCAGCTTGTTTAACACCTCTTTGGGGTTGTAAACAA
* *
124085 GCTGAAAATGAGTTGTTTGAGTTATGGTATTGAGGGGAAATAGTTTGGAGTTGTGTGTGAGCTAA
501 GCTGAAAATGAGTTGTTTGAGTTATGGTATTGAGGGAAAATGGTTTGGAGTTGTGTGTGAGCTAA
124150 GGAGAAAGTGTTTTGAGGTGTTTTTG
566 GGAGAAAGTGTTTTGAGGTGTTTTTG
*
124176 CAAGATTGTAGAGTCAATTTAATGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAG
1 CAAGATTGTAGTGTCAATTTAATGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAG
124241 CTTGAACTTAACTTGGGGAGGTATTTGAAAATTTGCTTTAAGGCAAACAAGTATGATGATCATGC
66 CTTGAACTTAACTTGGGGAGGTATTTGAAAATTTGCTTTAAGGCAAACAAGTATGATGATCATGC
* * *
124306 AAGAACATGATGAACAACATTCTTGGAGGTGCTGGACATACTATAAATGCATGAAGCATAGTAAA
131 AAGAACATGATGAACAACATTCATGGAGGTGCTGAACATGCTATAAATGCATGAAGCATAGTAAA
**
124371 AATGCATGATCAATTTTTATCAAAATGATGGAGATGGATATGGCAAGTTAGGCACACAAATGACT
196 AATGCATGATCAAGGTTTATCAAAATGATGGAGATGGATATGGCAAGTTAGGCACACAAATGACT
* *
124436 TCAAATCATCAAAATCGTCAAAATCATCCTAAAACTACCACATCCAAAGCCACAATCATGCATGA
261 TCAAATCATCAAAATCATCAAAATAATCCTAAAACTACCACATCCAAAGCCACAATCATGCATGA
*
124501 TGATCCTAAAAGGGTCATGGAAACATGTTAGGATCACTAAAACAATGATAAACACATAAGCAGAA
326 TGATCCTAAAAGGGTCATGGAAACATGTTAGGATCACTAAAACGATGATAAACACATAAGCAGAA
*
124566 AAATAAAAGGATCAAAGTTCAGAAAATATACCAACACAAGCTATTATGCTGATTTGCTGGTTTGA
391 AAATAAAAGGATCAAAGTTCAGAAAATATACCAACACAAGCTACTATGCTGATTTGCTGGTTTGA
124631 AGTGACCAAGCAGCTTGTTTAACACCTCTTTGGGGTTGTAAACAAGCTGAAAATGAGTTGTTTGA
456 AGTGACCAAGCAGCTTGTTTAACACCTCTTTGGGGTTGTAAACAAGCTGAAAATGAGTTGTTTGA
124696 GTTATGGTATTGAGGGAAAATGGTTTGGAGTTGTGTGTGAGCTAAGGAGAAAGTGTTTTGAGGTG
521 GTTATGGTATTGAGGGAAAATGGTTTGGAGTTGTGTGTGAGCTAAGGAGAAAGTGTTTTGAGGTG
*
124761 TTTTTA
586 TTTTTG
124767 CAAGATTGTAGTGTCAATTTAATGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAG
1 CAAGATTGTAGTGTCAATTTAATGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAG
*
124832 CTTGAACTTAACTTGGGGAGGTATTTGAAAATTTGCTTTAAGGCAAACAAGTATAATGATCATGC
66 CTTGAACTTAACTTGGGGAGGTATTTGAAAATTTGCTTTAAGGCAAACAAGTATGATGATCATGC
* * *
124897 AAGAACATGATGAACAGCATTAATGGAGGTGCTGAACATGCTATAAATACATGAAGCATAGTAAA
131 AAGAACATGATGAACAACATTCATGGAGGTGCTGAACATGCTATAAATGCATGAAGCATAGTAAA
124962 AATGCATGATCAAGGTTTATCAAAATGATGGAGATGGATATGGCAAGTTAGGCACACAAATGACT
196 AATGCATGATCAAGGTTTATCAAAATGATGGAGATGGATATGGCAAGTTAGGCACACAAATGA--
125027 TCAAATCATCAAAATCATCAAAATCATCAAAATAATCCTAAAACTACCACATCCAAAGCCACAAT
259 -C---T--TC-AAATCATCAAAATCATCAAAATAATCCTAAAACTACCACATCCAAAGCCACAAT
125092 CATGCATGATGATCCTAAAAGGGTCATGGAAACATGTTAGGATCACTAAAACGATGATAAACACA
317 CATGCATGATGATCCTAAAAGGGTCATGGAAACATGTTAGGATCACTAAAACGATGATAAACACA
*
125157 TAAGTAGAAAAATAAAAGGATCAAAGTTCAGAAAATATACCAACACAAG-TCACTATGCTGATTT
382 TAAGCAGAAAAATAAAAGGATCAAAGTTCAGAAAATATACCAACACAAGCT-ACTATGCTGATTT
125221 GCTGGTTTGAAGTGACCAAGCAGCTTGTTTAACACCTCTTTGGGGTTGTAAACAAGCTGAAAATG
446 GCTGGTTTGAAGTGACCAAGCAGCTTGTTTAACACCTCTTTGGGGTTGTAAACAAGCTGAAAATG
125286 AGTTGTTTGAGTTATGGTATTGAGGGAAAATGGTTTGGAGTTGTGTGTGAGCTAAGGAGAAAGTG
511 AGTTGTTTGAGTTATGGTATTGAGGGAAAATGGTTTGGAGTTGTGTGTGAGCTAAGGAGAAAGTG
125351 TTTTGAGGTGTTTT
576 TTTTGAGGTGTTTT
125365 GTGGGAAGGA
Statistics
Matches: 2815, Mismatches: 115, Indels: 73
0.94 0.04 0.02
Matches are distributed among these distances:
582 79 0.03
584 1 0.00
585 3 0.00
586 1 0.00
588 1 0.00
589 377 0.13
590 228 0.08
591 1236 0.44
592 1 0.00
593 2 0.00
594 1 0.00
595 1 0.00
596 4 0.00
597 2 0.00
599 5 0.00
600 321 0.11
601 238 0.08
602 224 0.08
603 3 0.00
604 1 0.00
606 1 0.00
607 3 0.00
608 1 0.00
610 81 0.03
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (591 bp):
CAAGATTGTAGTGTCAATTTAATGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAG
CTTGAACTTAACTTGGGGAGGTATTTGAAAATTTGCTTTAAGGCAAACAAGTATGATGATCATGC
AAGAACATGATGAACAACATTCATGGAGGTGCTGAACATGCTATAAATGCATGAAGCATAGTAAA
AATGCATGATCAAGGTTTATCAAAATGATGGAGATGGATATGGCAAGTTAGGCACACAAATGACT
TCAAATCATCAAAATCATCAAAATAATCCTAAAACTACCACATCCAAAGCCACAATCATGCATGA
TGATCCTAAAAGGGTCATGGAAACATGTTAGGATCACTAAAACGATGATAAACACATAAGCAGAA
AAATAAAAGGATCAAAGTTCAGAAAATATACCAACACAAGCTACTATGCTGATTTGCTGGTTTGA
AGTGACCAAGCAGCTTGTTTAACACCTCTTTGGGGTTGTAAACAAGCTGAAAATGAGTTGTTTGA
GTTATGGTATTGAGGGAAAATGGTTTGGAGTTGTGTGTGAGCTAAGGAGAAAGTGTTTTGAGGTG
TTTTTG
Found at i:123773 original size:20 final size:20
Alignment explanation
Indices: 123748--123797 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
123738 AACATGCTAT
*
123748 AAATGCATGAAGCGTAGTAA
1 AAATGCATGAAGCATAGTAA
123768 AAATGCATGAAGCATAGTAA
1 AAATGCATGAAGCATAGTAA
123788 AAATGCATGA
1 AAATGCATGA
123798 TCAAGGTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.48, C:0.10, G:0.22, T:0.20
Consensus pattern (20 bp):
AAATGCATGAAGCATAGTAA
Found at i:125043 original size:9 final size:9
Alignment explanation
Indices: 125029--125059 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
125019 AAATGACTTC
125029 AAATCATCA
1 AAATCATCA
125038 AAATCATCA
1 AAATCATCA
125047 AAATCATCA
1 AAATCATCA
125056 AAAT
1 AAAT
125060 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (9 bp):
AAATCATCA
Found at i:125933 original size:13 final size:13
Alignment explanation
Indices: 125915--125939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125905 TACAAAGATC
125915 AATGTATCGATAT
1 AATGTATCGATAT
125928 AATGTATCGATA
1 AATGTATCGATA
125940 CATTTCTTTG
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:129313 original size:14 final size:14
Alignment explanation
Indices: 129294--129344 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
129284 TTGATATATT
129294 ACTGTTCATGTATC
1 ACTGTTCATGTATC
129308 ACTGTTCATGTATC
1 ACTGTTCATGTATC
*
129322 AC---T-ATTTATC
1 ACTGTTCATGTATC
129332 ACTGTTCATGTAT
1 ACTGTTCATGTAT
129345 TGATACAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
13 1 0.03
14 21 0.68
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.45
Consensus pattern (14 bp):
ACTGTTCATGTATC
Found at i:129887 original size:32 final size:34
Alignment explanation
Indices: 129841--129931 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 34
129831 AAGCAATTGC
*
129841 GAGGTTTTATCTTAGCCTTAAAAGATA-G-TGTA
1 GAGGTTTTACCTTAGCCTTAAAAGATAGGATGTA
129873 GAGGTTTTACCTTAGCCTTTGTAAAAGATAGGATTGTA
1 GAGGTTTTACCTTAGCC--T-TAAAAGATAGGA-TGTA
* *
129911 -AGGTTATACCTTAACCTTAAA
1 GAGGTTTTACCTTAGCCTTAAA
129932 GGTAAACAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
32 16 0.32
34 5 0.10
35 10 0.20
36 1 0.02
37 14 0.28
38 4 0.08
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (34 bp):
GAGGTTTTACCTTAGCCTTAAAAGATAGGATGTA
Found at i:134554 original size:20 final size:21
Alignment explanation
Indices: 134510--134563 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
134500 TTTTACAATT
* *
134510 TGTATCAATACAAACAGTAAA
1 TGTATCGATACATACAGTAAA
*
134531 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATACAGTAAA
134551 TGTATCGATACAT
1 TGTATCGATACAT
134564 GCCTAAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATACAGTAAA
Found at i:134695 original size:20 final size:21
Alignment explanation
Indices: 134608--134704 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 21
134598 TCTAGAAAGG
*
134608 AAATATATCGATACA-TAAAT
1 AAATGTATCGATACATTAAAT
* * *
134628 AAATGCATCGATACATTTACT
1 AAATGTATCGATACATTAAAT
*** * *
134649 GTTTGTATTGATACATT-ATT
1 AAATGTATCGATACATTAAAT
* *
134669 CATTGTATCGATACATTAAAT
1 AAATGTATCGATACATTAAAT
134690 -AATGTATCGATACAT
1 AAATGTATCGATACAT
134705 GTAGGCAAAT
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
20 43 0.72
21 17 0.28
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.38
Consensus pattern (21 bp):
AAATGTATCGATACATTAAAT
Found at i:140275 original size:20 final size:20
Alignment explanation
Indices: 140224--140298 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
140214 AAAAAGACAT
*
140224 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
* *
140243 GAATATATTGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
140264 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
140284 AATGTATCGATACAT
1 AATGTATCGATACAT
140299 CAGGGTATGA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:140296 original size:40 final size:39
Alignment explanation
Indices: 140221--140298 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
140211 GGTAAAAAGA
* * *
140221 CATAATGTATCGATACATTGTAGAATATATTGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
140260 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
140299 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:143252 original size:22 final size:22
Alignment explanation
Indices: 143219--143270 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
143209 ATGAAAGTAG
*
143219 CAAGCTTG-GAAAATATACCAA
1 CAAGGTTGAGAAAATATACCAA
143240 CAAGGTTGAGAAAATATACCAA
1 CAAGGTTGAGAAAATATACCAA
143262 CAAGGTTGA
1 CAAGGTTGA
143271 CAATGCTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 7 0.24
22 22 0.76
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (22 bp):
CAAGGTTGAGAAAATATACCAA
Found at i:144012 original size:31 final size:32
Alignment explanation
Indices: 143949--144027 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 32
143939 GATACATTAA
* * *
143949 AGAATGTATCAATACATTTGGGTCGAAAACCC
1 AGAATGTATCGATACATTTGAGACGAAAACCC
*
143981 AGAATGTATCGATACATTT-AGACTAAAACCC
1 AGAATGTATCGATACATTTGAGACGAAAACCC
*
144012 AGAATGTATTGATACA
1 AGAATGTATCGATACA
144028 ATGAAAAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 24 0.57
32 18 0.43
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (32 bp):
AGAATGTATCGATACATTTGAGACGAAAACCC
Found at i:144153 original size:21 final size:20
Alignment explanation
Indices: 144106--144159 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
144096 CATTTTAAGC
144106 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
144126 ATGTATCGATACATTGC-CTT
1 ATGTATCGATACATT-CACTT
*
144146 ATTGTATCAATACA
1 A-TGTATCGATACA
144160 AATTGCTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:150276 original size:155 final size:152
Alignment explanation
Indices: 149901--150438 Score: 471
Period size: 155 Copynumber: 3.5 Consensus size: 152
149891 TGTTAGAGTG
* * * * * **
149901 TACCTTTGACGTGAAAGTATCATAGTAACCCTAAAGGGCACAAAAATGATATAAGAGGATGAATT
1 TACCTTTGACGTGAAAGTAT-TTGGTAACCCTAAAGGACACGAAAATGATATAAAAGGATGAACC
* * * *
149966 TATCCTAAAAGCATACCCTTGG-TATAAAAGTGACCCGGTGATTA-CTTAGAACTTGGTTCGAAG
65 TATCCTAAAAGCATA-CTTTGGCT-TAAAAGTGA-CCGATGATTACCTAAG-ACTTGGTTCAAAG
150029 AAAAATTACCAAAATGGCC-TT-AGGATA
126 AAAAATTACCAAAAT-GCCTTTAAGG-TA
* * * *
150056 TACTTTTGACGTAAAAGTATTTCGGTAACCCTAAAGGACACGAAAATGGTGTAGAAAGGCA--AA
1 TACCTTTGACGTGAAAGTATTT-GGTAACCCTAAAGGACACGAAAATGATATA-AAAGG-ATGAA
** *
150119 CCTATCCTAAAAGCATATCTTTGGCTTAAAAGCAACTCGATAATTACCTAAGACTTGGTTCAAAA
63 CCTATCCTAAAAGCATA-CTTTGGCTTAAAAGTGAC-CGATGATTACCTAAGACTTGGTTC-AAA
*
150184 GAAAAA-TACCAAAATCCCTTTAAGGTA
125 GAAAAATTACCAAAATGCCTTTAAGGTA
* * *
150211 TACCTTTGACGTGAAAGTATTGTGGTAATCCTAAAGGACATGAAAACGATATAAAAGGATGAACC
1 TACCTTTGACGTGAAAGTATT-TGGTAACCCTAAAGGACACGAAAATGATATAAAAGGATGAACC
* * * * * * * * * * *
150276 TATTCTTAAGGTATACTTTGGCATAAAAATGACCCAGTGATTACTTAAGACTCGGTTTAAGGAAA
65 TATCCTAAAAGCATACTTTGGCTTAAAAGTGACCGA-TGATTACCTAAGACTTGGTTCAAAGAAA
** * *
150341 AATTATTAAAATGCTTTTAGGGTA
129 AATTACCAAAATGCCTTTAAGGTA
* * * * * * *
150365 TACAC-TCGACATGAAAGTATCTTGATAATCCTAAATGATACGAAAATGATATAATAGGATGAAC
1 TAC-CTTTGACGTGAAAGTAT-TTGGTAACCCTAAAGGACACGAAAATGATATAAAAGGATGAAC
150429 CTATCCTAAA
64 CTATCCTAAA
150439 TGGGCAATTT
Statistics
Matches: 311, Mismatches: 56, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
153 11 0.04
154 116 0.37
155 162 0.52
156 21 0.07
157 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (152 bp):
TACCTTTGACGTGAAAGTATTTGGTAACCCTAAAGGACACGAAAATGATATAAAAGGATGAACCT
ATCCTAAAAGCATACTTTGGCTTAAAAGTGACCGATGATTACCTAAGACTTGGTTCAAAGAAAAA
TTACCAAAATGCCTTTAAGGTA
Found at i:151145 original size:29 final size:30
Alignment explanation
Indices: 151098--151168 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
151088 AGCATGCAAC
**
151098 AAATTTTACAAAAAATACAAATTGGTCTCT
1 AAATTTTACAAAAAATACAAAAAGGTCTCT
* *
151128 AAATTTT-CTAAAATTACAAAAAGGTCTCT
1 AAATTTTACAAAAAATACAAAAAGGTCTCT
*
151157 AAATGTTA-AAAA
1 AAATTTTACAAAA
151169 TACCTAAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 27 0.79
30 7 0.21
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.32
Consensus pattern (30 bp):
AAATTTTACAAAAAATACAAAAAGGTCTCT
Found at i:151952 original size:5 final size:5
Alignment explanation
Indices: 151942--151968 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
151932 AACTAGTATA
151942 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
151969 GAAATCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:152226 original size:13 final size:13
Alignment explanation
Indices: 152210--152234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
152200 AATATAAACT
152210 CAAAAAAATTTGA
1 CAAAAAAATTTGA
152223 CAAAAAAATTTG
1 CAAAAAAATTTG
152235 CGAAGTAGAA
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:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
CAAAAAAATTTGA
Found at i:154720 original size:13 final size:13
Alignment explanation
Indices: 154702--154727 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
154692 CATTTTATGG
154702 TGTATCGATACAT
1 TGTATCGATACAT
154715 TGTATCGATACAT
1 TGTATCGATACAT
154728 ACTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:154724 original size:33 final size:32
Alignment explanation
Indices: 154682--154745 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
154672 TACAAGCCAA
**
154682 TGTATCGATACATTTTATGGTGTATCGATACAT
1 TGTATCGATACATACTAT-GTGTATCGATACAT
*
154715 TGTATCGATACATACTGTGTGTATCGATACA
1 TGTATCGATACATACTATGTGTATCGATACA
154746 AGTTTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATACTATGTGTATCGATACAT
Found at i:154836 original size:13 final size:13
Alignment explanation
Indices: 154818--154842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
154808 ACAATGCAAC
154818 ATGTATCGATACA
1 ATGTATCGATACA
154831 ATGTATCGATAC
1 ATGTATCGATAC
154843 CGTGCAACAT
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:154840 original size:33 final size:33
Alignment explanation
Indices: 154798--154865 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
154788 TATCTTTTTC
*
154798 ATGTATCGATACAATGCAACATGTATCGATACA
1 ATGTATCGATACAATGCAACATGTATCAATACA
**
154831 ATGTATCGATACCGTGCAACATGTATCAATACA
1 ATGTATCGATACAATGCAACATGTATCAATACA
154864 AT
1 AT
154866 TAAATGTGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAATGCAACATGTATCAATACA
Found at i:154856 original size:20 final size:18
Alignment explanation
Indices: 154797--154862 Score: 52
Period size: 20 Copynumber: 3.7 Consensus size: 18
154787 ATATCTTTTT
154797 CATGTATCGATACAATGCAA
1 CATGTATCGATAC--TGCAA
154817 CATGTATCGATA---C-A
1 CATGTATCGATACTGCAA
154831 -ATGTATCGATACCGTGCAA
1 CATGTATCGATA-C-TGCAA
*
154850 CATGTATCAATAC
1 CATGTATCGATAC
154863 AATTAAATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 15
0.70 0.02 0.28
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 2 0.05
20 22 0.58
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.27
Consensus pattern (18 bp):
CATGTATCGATACTGCAA
Found at i:157096 original size:15 final size:15
Alignment explanation
Indices: 157076--157116 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
157066 GTTCATAAAT
157076 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
157091 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
*
157106 CTCAATTTGGA
1 TTC-ATTTGGA
157117 CATTTTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:163313 original size:13 final size:13
Alignment explanation
Indices: 163295--163319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
163285 ACAATGCAAC
163295 ATGTATCGATACA
1 ATGTATCGATACA
163308 ATGTATCGATAC
1 ATGTATCGATAC
163320 TGTGCAACAT
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:163314 original size:33 final size:33
Alignment explanation
Indices: 163277--163342 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
163267 TCTTTTTCAA
163277 GTATCGATACAATGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
**
163310 GTATCGATACTGTGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
163343 TAAATGTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (33 bp):
GTATCGATACAATGCAACATGTATCGATACAAT
Found at i:166677 original size:59 final size:59
Alignment explanation
Indices: 166612--166727 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
166602 ATTAAAGAAA
166612 GATAAACTTTTATG-TGAAATTTCTATTCAAATCTAAATCATATTAAGAATTTTTAATAT
1 GATAAACTTTTATGTTG-AATTTCTATTCAAATCTAAATCATATTAAGAATTTTTAATAT
166671 GATAAACTTTTATGTTGAATTTCTATTCAAATCTAAATCATATTAAGAATTTTTAAT
1 GATAAACTTTTATGTTGAATTTCTATTCAAATCTAAATCATATTAAGAATTTTTAAT
166728 CAATTGTATA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
59 54 0.96
60 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (59 bp):
GATAAACTTTTATGTTGAATTTCTATTCAAATCTAAATCATATTAAGAATTTTTAATAT
Found at i:169099 original size:14 final size:16
Alignment explanation
Indices: 169068--169104 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
169058 AGATGCTATT
169068 AAAATTTTACATATAA
1 AAAATTTTACATATAA
*
169084 AAAATTTTA-TTA-AA
1 AAAATTTTACATATAA
169098 AAAATTT
1 AAAATTT
169105 AATGAGTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 2 0.10
16 9 0.45
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATTTTACATATAA
Found at i:172988 original size:2 final size:2
Alignment explanation
Indices: 172981--173017 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
172971 GTACTCTGTA
172981 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
173018 GTTACTCTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:175010 original size:31 final size:31
Alignment explanation
Indices: 174974--175035 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
174964 GATTAATGTA
174974 ACTACATTAGAATGCTATCTCAAATTTTCCT
1 ACTACATTAGAATGCTATCTCAAATTTTCCT
*
175005 ACTACATTAGAATGCTATCTTAAATTTTCCT
1 ACTACATTAGAATGCTATCTCAAATTTTCCT
175036 CCATCTTTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.40
Consensus pattern (31 bp):
ACTACATTAGAATGCTATCTCAAATTTTCCT
Found at i:184517 original size:16 final size:15
Alignment explanation
Indices: 184496--184526 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
184486 TAACATTTCC
184496 TCTATTAAAAACTTTT
1 TCTATTAAAAA-TTTT
184512 TCTATTAAAAATTTT
1 TCTATTAAAAATTTT
184527 GAAAGCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (15 bp):
TCTATTAAAAATTTT
Found at i:189516 original size:20 final size:20
Alignment explanation
Indices: 189491--189564 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
189481 AACCCTTGTA
189491 TGTATCGATACATGACACAT
1 TGTATCGATACATGACACAT
**
189511 TGTATCGATACATG-TTCAT
1 TGTATCGATACATGACACAT
*
189530 TGTATCGATAC-T-AGCATAAT
1 TGTATCGATACATGA-CA-CAT
189550 TGTATCGATACATGA
1 TGTATCGATACATGA
189565 AACTGGCAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.02
19 14 0.32
20 27 0.61
21 1 0.02
22 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGACACAT
Found at i:189630 original size:33 final size:33
Alignment explanation
Indices: 189593--189657 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
189583 TACCACTGTT
* * * *
189593 TGTATTGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGACAAATTATATCGATACAA
*
189626 TGTATCGATACATGATAAATTATATCGATACA
1 TGTATCGATACATGACAAATTATATCGATACA
189658 TTGCTTCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGACAAATTATATCGATACAA
Found at i:189631 original size:13 final size:13
Alignment explanation
Indices: 189613--189637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
189603 CATGGCACAT
189613 TGTATCGATACAA
1 TGTATCGATACAA
189626 TGTATCGATACA
1 TGTATCGATACA
189638 TGATAAATTA
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:190463 original size:33 final size:33
Alignment explanation
Indices: 190421--190484 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
190411 TTGGGCATAA
190421 TGTATCGATACAAT-TCTTCATGTATCGATACAC
1 TGTATCGATACAATGTC-TCATGTATCGATACAC
*
190454 TGTATCGATATAATGTCTCATGTATCGATAC
1 TGTATCGATACAATGTCTCATGTATCGATAC
190485 TTTCTCTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATGTCTCATGTATCGATACAC
Found at i:195128 original size:20 final size:21
Alignment explanation
Indices: 195090--195138 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
195080 TAAGTAAAAG
195090 AAAAAGAAAAATCAAAAGAAC
1 AAAAAGAAAAATCAAAAGAAC
* *
195111 AAAAA-AAAAATGAGAAGAA-
1 AAAAAGAAAAATCAAAAGAAC
195130 AAATAAGAA
1 AAA-AAGAA
195139 CATAAAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.12
20 14 0.58
21 7 0.29
ACGTcount: A:0.78, C:0.04, G:0.12, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAATCAAAAGAAC
Found at i:201535 original size:6 final size:6
Alignment explanation
Indices: 201526--201588 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
201516 AACTAGAGAT
* * * * * *
201526 GGTGGA GGTGGT GGTGGT GGTGGT GGTGGA GGTGGT GGAGGT GGTGGA
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA
* *
201574 GGAGGA GGAGGA GGT
1 GGTGGA GGTGGA GGT
201589 AGTATCTCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.13, C:0.00, G:0.67, T:0.21
Consensus pattern (6 bp):
GGTGGA
Found at i:201540 original size:3 final size:3
Alignment explanation
Indices: 201525--201572 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
201515 CAACTAGAGA
* * *
201525 TGG TGG AGG TGG TGG TGG TGG TGG TGG TGG AGG TGG TGG AGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
201573 AGGAGGAGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.06, C:0.00, G:0.67, T:0.27
Consensus pattern (3 bp):
TGG
Found at i:201916 original size:16 final size:16
Alignment explanation
Indices: 201895--201926 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
201885 CACATATGAA
201895 GCTACACAAAGACAAG
1 GCTACACAAAGACAAG
201911 GCTACACAAAGACAAG
1 GCTACACAAAGACAAG
201927 CATAAAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.19, T:0.06
Consensus pattern (16 bp):
GCTACACAAAGACAAG
Found at i:209681 original size:290 final size:290
Alignment explanation
Indices: 209149--209704 Score: 1058
Period size: 290 Copynumber: 1.9 Consensus size: 290
209139 CTAATCAAGC
*
209149 ACAACCAGGACTACATCAAGCACCTGGTCCCTACTACCCGAATGCACCTTACCCAAGCCCAGTCA
1 ACAACCAGGACTACATCAAGCACCTAGTCCCTACTACCCGAATGCACCTTACCCAAGCCCAGTCA
209214 TAATACCCTCTCAGCCAGTGTATGCCGCAACCTATAGCCCATCTTTCGCTATCCCACCATGACCA
66 TAATACCCTCTCAGCCAGTGTATGCCGCAACCTATAGCCCATCTTTCGCTATCCCACCATGACCA
*
209279 CCACGAAATAATCAACCCCGAGCTAACCTAAACGCCAACCCTAATGCCAATAATGTACCAAACAA
131 CCACGAAATAATCAACCCCGAGCTAACCTAAACGCCAACACTAATGCCAATAATGTACCAAACAA
* *
209344 TTCAAGTGCAAATCAGCGAAGGCAGTAGTTCGACCCTATCTCTATGACATATAAAGAGCTTTACC
196 TTCAAGTGCAAATCAGCGAAGGCAGCAGTTCGACCCTATCCCTATGACATATAAAGAGCTTTACC
209409 AGACTTGGTCCCTTCGACCCTATTCCTATG
261 AGACTTGGTCCCTTCGACCCTATTCCTATG
*
209439 ACAACCGGGACTACATCAAGCACCTAGTCCCTACTACCCGAATGCACCTTACCCAAGCCCAGTCA
1 ACAACCAGGACTACATCAAGCACCTAGTCCCTACTACCCGAATGCACCTTACCCAAGCCCAGTCA
209504 TAATACCCTCTCAGCCAGTGTATGCCGCAACCTATAGCCCATCTTTCGCTATCCCACCATGACCA
66 TAATACCCTCTCAGCCAGTGTATGCCGCAACCTATAGCCCATCTTTCGCTATCCCACCATGACCA
*
209569 CCACGAAATAATCAACCCCGAGCTAACCTAAATGCCAACACTAATGCCAATAATGTACCAAACAA
131 CCACGAAATAATCAACCCCGAGCTAACCTAAACGCCAACACTAATGCCAATAATGTACCAAACAA
209634 TTCAAGTGCAAATCAGCGAAGGCAGCAGTTCGACCCTATCCCTATGACATATAAAGAGCTTTACC
196 TTCAAGTGCAAATCAGCGAAGGCAGCAGTTCGACCCTATCCCTATGACATATAAAGAGCTTTACC
209699 AGACTT
261 AGACTT
209705 TGCTCCAAAG
Statistics
Matches: 260, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
290 260 1.00
ACGTcount: A:0.32, C:0.34, G:0.14, T:0.21
Consensus pattern (290 bp):
ACAACCAGGACTACATCAAGCACCTAGTCCCTACTACCCGAATGCACCTTACCCAAGCCCAGTCA
TAATACCCTCTCAGCCAGTGTATGCCGCAACCTATAGCCCATCTTTCGCTATCCCACCATGACCA
CCACGAAATAATCAACCCCGAGCTAACCTAAACGCCAACACTAATGCCAATAATGTACCAAACAA
TTCAAGTGCAAATCAGCGAAGGCAGCAGTTCGACCCTATCCCTATGACATATAAAGAGCTTTACC
AGACTTGGTCCCTTCGACCCTATTCCTATG
Found at i:210743 original size:14 final size:16
Alignment explanation
Indices: 210712--210758 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
210702 AAAAAAAGTC
210712 AAAA-GCAAAAGCACAA
1 AAAATGCAAAAGCA-AA
210728 AAAATG-AAAAG-AAA
1 AAAATGCAAAAGCAAA
*
210742 AAAGTGCAAAAGCAAA
1 AAAATGCAAAAGCAAA
210758 A
1 A
210759 TAAAAAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 13 0.48
17 1 0.04
ACGTcount: A:0.70, C:0.11, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAATGCAAAAGCAAA
Found at i:212163 original size:27 final size:27
Alignment explanation
Indices: 212061--212487 Score: 631
Period size: 27 Copynumber: 15.6 Consensus size: 27
212051 ACTGTGACCT
* *
212061 CTTTAAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
212088 CTTTTAGAGTCCACAACTCCGTGGCATC
1 CTTTTA-AGTCCACAACTCCGTGGCACC
* **
212116 CTTTTAAAGTCCACAATTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
212144 CTTTTAAGTCCACAACTCCGTGGCA-C
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
212170 CTTTTAAAGTCCACAACTCCGTGGAACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
212198 CTTTTAAAGTTCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
212226 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
212253 CTTTTAAGTCCACCACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
212280 CTTTTAAGTCCATAACTCTGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
212307 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
212335 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
212363 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
212390 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
212417 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
212445 CTTTTAAGTTCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
212472 CTTTTTAAGTCCACAA
1 C-TTTTAAGTCCACAA
212488 GGCGGTGGCA
Statistics
Matches: 367, Mismatches: 26, Indels: 13
0.90 0.06 0.03
Matches are distributed among these distances:
26 5 0.01
27 191 0.52
28 170 0.46
29 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:212201 original size:82 final size:82
Alignment explanation
Indices: 212061--212487 Score: 635
Period size: 82 Copynumber: 5.2 Consensus size: 82
212051 ACTGTGACCT
* * * *
212061 CTTTAAAGTCCACAACTCCGTGACACCCTTTTAGAGTCCACAACTCCGTGGCATCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
* **
212126 CCACAATTCCGTGGCATT
65 CCACAACTCCGTGGCACC
*
212144 CTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGAACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
212208 TCACAACTCCGTGGCACC
65 CCACAACTCCGTGGCACC
* * *
212226 CTTTTAAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACCACTCCGTGGCACTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* * *
212290 CATAACTCTGTGACACC
66 CACAACTCCGTGGCACC
212307 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGT
212372 CCACAACTCCGTGGCACC
65 CCACAACTCCGTGGCACC
212390 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCCTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
* *
212454 TCACAACTTCGTGGCACC
65 CCACAACTCCGTGGCACC
212472 CTTTTTAAGTCCACAA
1 C-TTTTAAGTCCACAA
212488 GGCGGTGGCA
Statistics
Matches: 314, Mismatches: 25, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
81 43 0.14
82 179 0.57
83 92 0.29
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (82 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
CACAACTCCGTGGCACC
Found at i:212497 original size:137 final size:137
Alignment explanation
Indices: 212062--212487 Score: 676
Period size: 137 Copynumber: 3.1 Consensus size: 137
212052 CTGTGACCTC
* *
212062 TTTAAAGTCCACAACTCCGTGACACCCTTTTAGAGTCCACAACTCCGTGGCATCCTTTTAAAGTC
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTA-AGTCCACAACTCCGTGGCACCCTTTT-AAGTC
* *
212127 CACAATTCCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCG
64 CACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCG
*
212191 TGGAACCCT
129 TGGCACCCT
* *
212200 TTTAAAGTTCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCA
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
* * * *
212265 CCACTCCGTGGCACTCTTTTAAGTCCATAACTCTGTGACACCCTTTTAAAGTCCACAACTCCGTG
66 CAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTG
212330 GCACCCT
131 GCACCCT
212337 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
1 TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
* * *
212402 CAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTT-AAGTTCACAACTTCGT
66 CAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAAGTCCACAACTCCGT
212466 GGCACCCT
130 GGCACCCT
*
212474 TTTTAAGTCCACAA
1 TTTAAAGTCCACAA
212488 GGCGGTGGCA
Statistics
Matches: 265, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
136 41 0.15
137 187 0.71
138 37 0.14
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (137 bp):
TTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
CAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTG
GCACCCT
Found at i:212526 original size:30 final size:28
Alignment explanation
Indices: 212492--212969 Score: 221
Period size: 32 Copynumber: 15.8 Consensus size: 28
212482 CCACAAGGCG
*
212492 GTGGCATTCCCTTCTAAAGCCCACAAGTTA
1 GTGGCA-TCCTTTC-AAAGCCCACAAGTTA
*
212522 GTGGCA-CATTTTTCAAAGCCCACAAGTTA
1 GTGGCATC--CTTTCAAAGCCCACAAGTTA
* *
212551 GTGGCATCTTTTCAAAGTCCACACAAGTTG
1 GTGGCATCCTTTCAAAG-CC-CACAAGTTA
* *
212581 GTGGCATCCTTTCAAAGCCCACAAATCA
1 GTGGCATCCTTTCAAAGCCCACAAGTTA
*
212609 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTTA
* *
212637 GTGGCA-CCATTTCAAAGCCCATAAGTCA
1 GTGGCATCC-TTTCAAAGCCCACAAGTTA
* * * **
212665 GTGGCAACATTTCAAAGCCCACACAAATCG
1 GTGGCATCCTTTCAAAG-CC-CACAAGTTA
* **
212695 GTGGCA-CTATTTCAAAGCCCACACAAGTCG
1 GTGGCATC-CTTTCAAAG-CC-CACAAGTTA
* **
212725 GTGGCAACCCATTTCAAAGCCGACACAAGTCG
1 GTGGC-ATCC-TTTCAAAGCC--CACAAGTTA
* *
212757 GTGGCAACCCTTTTCAAAGCCCACACAAGTCA
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTTA
* **
212789 GTGGCA-CTATTTCAAAGCCCACACAAGTCG
1 GTGGCATC-CTTTCAAAG-CC-CACAAGTTA
* **
212819 GTGGCAACCCTTTTCAAAGCCCACACAAGTCG
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTTA
* **
212851 GTGGCA-CTATTTCAAAGCCCACACAAGTCG
1 GTGGCATC-CTTTCAAAG-CC-CACAAGTTA
* **
212881 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTTA
*
212913 GTGGCAACCCTTTTCAAAGCCCACACAAGTT-
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTTA
*
212944 GATGGCAACCCATTTCAAAGCCCACA
1 G-TGGC-ATCC-TTTCAAAGCCCACA
212970 TAAGTCGGTG
Statistics
Matches: 399, Mismatches: 25, Indels: 48
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.01
28 81 0.20
29 29 0.07
30 129 0.32
31 10 0.03
32 146 0.37
33 2 0.01
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (28 bp):
GTGGCATCCTTTCAAAGCCCACAAGTTA
Found at i:212572 original size:28 final size:28
Alignment explanation
Indices: 212507--212937 Score: 294
Period size: 30 Copynumber: 14.4 Consensus size: 28
212497 ATTCCCTTCT
*
212507 AAAGCCCACAAGTTAGTGGCA-CATTTTTC
1 AAAGCCCACAAGTCAGTGGCATCA--TTTC
* *
212536 AAAGCCCACAAGTTAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
** *
212564 AAAGTCCACACAAGTTGGTGGCATCCTTTC
1 AAAG-CC-CACAAGTCAGTGGCATCATTTC
* *
212594 AAAGCCCACAAATCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
*
212622 AAAGCCCACAAGTCAGTGGCACCATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* *
212650 AAAGCCCATAAGTCAGTGGCAACATTTC
1 AAAGCCCACAAGTCAGTGGCATCATTTC
* *
212678 AAAGCCCACACAAATCGGTGGCA-CTATTTC
1 AAAG-CC-CACAAGTCAGTGGCATC-ATTTC
* *
212708 AAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-TCATTTC
* * *
212740 AAAGCCGACACAAGTCGGTGGCAACCCTTTTC
1 AAAGCC--CACAAGTCAGTGGC-A-TCATTTC
212772 AAAGCCCACACAAGTCAGTGGCA-CTATTTC
1 AAAG-CC-CACAAGTCAGTGGCATC-ATTTC
* * *
212802 AAAGCCCACACAAGTCGGTGGCAACCCTTTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-TCATTTC
*
212834 AAAGCCCACACAAGTCGGTGGCA-CTATTTC
1 AAAG-CC-CACAAGTCAGTGGCATC-ATTTC
* *
212864 AAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-TCATTTC
* * *
212896 AAAGCCCACACAAGTCGGTGGCAACCCTTTTC
1 AAAG-CC-CACAAGTCAGTGGC-A-TCATTTC
212928 AAAGCCCACA
1 AAAGCCCACA
212938 CAAGTTGATG
Statistics
Matches: 361, Mismatches: 22, Indels: 37
0.86 0.05 0.09
Matches are distributed among these distances:
28 82 0.23
29 30 0.08
30 118 0.33
31 9 0.02
32 117 0.32
33 5 0.01
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCATTTC
Found at i:212744 original size:32 final size:32
Alignment explanation
Indices: 212560--213122 Score: 639
Period size: 32 Copynumber: 18.2 Consensus size: 32
212550 AGTGGCATCT
* * *
212560 TTTCAAAGTCCACACAAGTTGGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
212590 TTTCAAAGCCCACA-AA-TCAGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
212618 TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
212646 TTTCAAAG-CC-CATAAGTCAGTGGCAA--CA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
212674 TTTCAAAGCCCACACAAATCGGTGGC-A-CTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
212704 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
212736 TTTCAAAGCCGACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
212768 TTTCAAAGCCCACACAAGTCAGTGGC-A-CTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
212798 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
212830 TTTCAAAGCCCACACAAGTCGGTGGC-A-CTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
212860 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
212892 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
212924 TTTCAAAGCCCACACAAGTTGATGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
212956 TTTCAAAGCCCACATAAGTCGGTGGTAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
212988 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
213020 TTTCAAAGCCCACACAAGTTGATGGGAACCTC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACC-CA
* ** * *
213052 TTTCAAAAGTCCACAC-TTTCGGTGGAAACCCT
1 TTTC-AAAGCCCACACAAGTCGGTGGCAACCCA
* * * * *
213084 TTTAAAAACCCACGCAAGTCAGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
213116 TTTCAAA
1 TTTCAAA
213123 TCACCATTTT
Statistics
Matches: 465, Mismatches: 51, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.00
27 6 0.01
28 60 0.13
29 6 0.01
30 103 0.22
31 14 0.03
32 263 0.57
33 11 0.02
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
Done.