Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008249.1 Hibiscus syriacus cultivar Beakdansim tig00110901_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 175145
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:11439 original size:17 final size:17
Alignment explanation
Indices: 11406--11437 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11396 TGGTTTTAAC
11406 CGAAAATTCCAAATTTA
1 CGAAAATTCCAAATTTA
11423 CGAAAATT-CAAATTT
1 CGAAAATTCCAAATTT
11438 TATGCTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (17 bp):
CGAAAATTCCAAATTTA
Found at i:18297 original size:21 final size:21
Alignment explanation
Indices: 18271--18323 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
18261 CCTGTCCGGT
18271 TGCAATTGCAAAAACTAATGC
1 TGCAATTGCAAAAACTAATGC
18292 TGCAATTGCAAAAACTAATGC
1 TGCAATTGCAAAAACTAATGC
18313 TGCAATTGCAA
1 TGCAATTGCAA
18324 CCTATTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (21 bp):
TGCAATTGCAAAAACTAATGC
Found at i:23102 original size:13 final size:14
Alignment explanation
Indices: 23084--23116 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
23074 TGTCACGTTC
23084 ATATTTTTTAAA-A
1 ATATTTTTTAAATA
23097 ATA-TTTTTAAATA
1 ATATTTTTTAAATA
23110 ATATTTT
1 ATATTTT
23117 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 7 0.39
14 3 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATTTTTTAAATA
Found at i:26005 original size:21 final size:21
Alignment explanation
Indices: 25890--26005 Score: 51
Period size: 21 Copynumber: 5.6 Consensus size: 21
25880 TGACCAACAA
**
25890 AATCGCAACGCGA-TCCCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
25910 AATCGCAAATC-AGTTTCCAA
1 AATCGCAACGCGATTTTCCAG
* *
25930 AATCGCAACGCGATTCTT-GAC
1 AATCGCAACGCGATT-TTCCAG
* * ** *
25951 AATCGTAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
25971 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
25993 AATCGCAACGCGA
1 AATCGCAACGCGA
26006 ATATGAAAAT
Statistics
Matches: 68, Mismatches: 22, Indels: 11
0.67 0.22 0.11
Matches are distributed among these distances:
19 1 0.01
20 25 0.37
21 38 0.56
22 4 0.06
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:26018 original size:20 final size:20
Alignment explanation
Indices: 25993--26185 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
25983 GATTTTCCAG
* ** *
25993 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
26013 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
26033 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
26053 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
26073 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
26093 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
26113 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
26133 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
26154 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
26174 AATCGCAACGCG
1 AATCGCAACGCG
26186 ATTTTTAAAG
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
19 1 0.01
20 131 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:26604 original size:33 final size:33
Alignment explanation
Indices: 26565--26635 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
26555 TTCACTTAGA
26565 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
26598 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
26631 TTTCA
1 TTTCA
26636 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:26741 original size:21 final size:20
Alignment explanation
Indices: 26715--26788 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 20
26705 TGCAGAAGAG
26715 TCGCAACGAGATAAATGAATA
1 TCGCAACGAGA-AAATGAATA
* *
26736 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAATA
*
26756 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAATA
26778 TCGCAACGAGA
1 TCGCAACGAGA
26789 GAATCGCAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 11 0.24
21 25 0.54
22 10 0.22
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAATA
Found at i:26795 original size:14 final size:14
Alignment explanation
Indices: 26776--26832 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
26766 GAAAAATGAA
26776 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
26790 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
26809 AATCGCAACGAGAG
1 AATCGCAACGAGAG
26823 AATCGCAACG
1 AATCGCAACG
26833 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:26807 original size:33 final size:33
Alignment explanation
Indices: 26769--26848 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
26759 GCAACGAGAA
26769 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
26802 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
26835 AAACCAAAATCGCA
1 AAATGAAAATCGCA
26849 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:26866 original size:19 final size:19
Alignment explanation
Indices: 26844--26971 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
26834 GAAACCAAAA
*
26844 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
26863 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
26877 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
26896 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
26910 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
26930 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
26950 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
26970 TC
1 TC
26972 AACCAAAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:26885 original size:14 final size:14
Alignment explanation
Indices: 26866--26922 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
26856 TTTCATTTCG
26866 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
26880 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
26899 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
26913 CGTTGCGATT
1 CGTTGCGATT
26923 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:26891 original size:33 final size:33
Alignment explanation
Indices: 26849--26971 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
26839 CAAAATCGCA
26849 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
26882 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
26915 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
26956 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
26972 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:26933 original size:21 final size:21
Alignment explanation
Indices: 26907--26971 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
26897 CGCGTTGCGA
26907 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
26928 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
26948 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
26969 TTC
1 TTC
26972 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:28812 original size:93 final size:93
Alignment explanation
Indices: 28653--28968 Score: 605
Period size: 93 Copynumber: 3.4 Consensus size: 93
28643 TAGATTGCTT
*
28653 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
28718 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
28746 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAATTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
28811 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
28839 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
28904 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
28932 AGTAAATTTGTTCAGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
28969 AATACCCTGA
Statistics
Matches: 219, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 219 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:29122 original size:19 final size:19
Alignment explanation
Indices: 29098--29156 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
29088 GCAACGAGAG
29098 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
29117 AATCGCAA--CG--A-CAA
1 AATCGCAACGCGAAACCAA
*
29131 AATCGCAACGCAAAACCAA
1 AATCGCAACGCGAAACCAA
29150 AATCGCA
1 AATCGCA
29157 TTGCGATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 11 0.32
15 1 0.03
16 1 0.03
17 2 0.06
18 1 0.03
19 18 0.53
ACGTcount: A:0.49, C:0.31, G:0.14, T:0.07
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:29124 original size:33 final size:33
Alignment explanation
Indices: 29066--29156 Score: 128
Period size: 33 Copynumber: 2.7 Consensus size: 33
29056 TAGTTTACTT
* * * *
29066 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAAAA
29100 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
*
29133 TCGCAACGCAAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
29157 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
33 39 0.75
34 13 0.25
ACGTcount: A:0.47, C:0.29, G:0.15, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAAAA
Found at i:29133 original size:14 final size:14
Alignment explanation
Indices: 29082--29145 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
29072 CACGAAACTT
*
29082 AAAATCGCAACGAG
1 AAAATCGCAACGAC
*
29096 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
29115 AAAATCGCAACGAC
1 AAAATCGCAACGAC
29129 AAAATCGCAACG-C
1 AAAATCGCAACGAC
29142 AAAA
1 AAAA
29146 CCAAAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
13 5 0.12
14 22 0.52
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 9 0.21
ACGTcount: A:0.50, C:0.27, G:0.17, T:0.06
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:29174 original size:19 final size:19
Alignment explanation
Indices: 29152--29310 Score: 175
Period size: 19 Copynumber: 8.6 Consensus size: 19
29142 AAAACCAAAA
*
29152 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
29171 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
29190 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
29206 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
29223 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
29242 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
29261 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
29280 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
29300 TCGTGTTGCGA
1 TCGCGTTGCGA
29311 AAGTAAACTA
Statistics
Matches: 119, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
14 7 0.06
16 5 0.04
17 5 0.04
19 90 0.76
20 12 0.10
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:29219 original size:52 final size:54
Alignment explanation
Indices: 29157--29294 Score: 190
Period size: 52 Copynumber: 2.5 Consensus size: 54
29147 CAAAATCGCA
29157 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCT-G-TCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTGGTTCG
** * *
29209 TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATTTTGGTTTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTGG--T-TCG
*
29266 TTGCGATTCTCATTTCGCGTTGCGATTTT
1 TTGCGATTTTCATTTCGCGTTGCGATTTT
29295 AAGTTTCGTG
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
52 44 0.58
53 1 0.01
57 31 0.41
ACGTcount: A:0.09, C:0.20, G:0.23, T:0.48
Consensus pattern (54 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCATTGCGATTCTGGTTCG
Found at i:31256 original size:14 final size:14
Alignment explanation
Indices: 31237--31272 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
31227 ATTGTTTAAT
31237 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
31251 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
31265 TGATTTGT
1 TGATTTGT
31273 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:31387 original size:19 final size:19
Alignment explanation
Indices: 31363--31450 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
31353 GCATTATGTT
31363 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
31382 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
31399 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
31415 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
31434 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
31451 CGAGAGAATC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 29 0.48
20 16 0.26
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:31482 original size:53 final size:53
Alignment explanation
Indices: 31363--31469 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
31353 GCATTATGTT
31363 GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
31415 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
31468 GA
1 GA
31470 TTTTCATTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 19 0.35
53 35 0.65
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (53 bp):
GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:31546 original size:72 final size:68
Alignment explanation
Indices: 31459--31734 Score: 253
Period size: 72 Copynumber: 3.9 Consensus size: 68
31449 AACGAGAGAA
*
31459 TCGCAATGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGAT
1 TCGCATTGCGATTTTC-TTTCG--TTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGAT
31524 TTTCATT
62 TTTCATT
* * * * *
31531 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTT-GTTATTTTC-ATT-TCGCATTGC
1 TCGCATTGCGATTTTC-TTTCG--TTGCGATT-T-TCATTTCG-CA-TTGCGATTCTCTCGTTGC
31592 GATTTTCATT
59 GATTTTCATT
* *
31602 TCTGCATTGCGA--TTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 TC-GCATTGCGATTTTCTTTCGTTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCG
31665 ATTTTCATT
60 ATTTTCATT
*
31674 TCCGCATTGCGATTTTC-TT-GTTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 T-CGCATTGCGATTTTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
31735 GTAATTTCCG
Statistics
Matches: 171, Mismatches: 16, Indels: 39
0.76 0.07 0.17
Matches are distributed among these distances:
65 5 0.03
66 5 0.03
67 17 0.10
68 2 0.01
69 8 0.05
70 8 0.05
71 20 0.12
72 93 0.54
73 8 0.05
74 5 0.03
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (68 bp):
TCGCATTGCGATTTTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
ATT
Found at i:31599 original size:105 final size:109
Alignment explanation
Indices: 31465--31734 Score: 407
Period size: 105 Copynumber: 2.6 Consensus size: 109
31455 AGAATCGCAA
31465 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
31530 TTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TCT-CG-T
66 TTCGCATTGCGATTTTCATTTCGCATTGCGATTTCATCTCCGAT
** *
31570 TGTTATTTTCATTTCGCATTGCGATTTTCATTTCTGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
*
31635 TTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
66 TTCGCATTGCGATTTTCATTTCGCATTGCGA-TTTCATCTCCG-AT
*
31681 TGCGATTTTC--TT-G--TTGGGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATT
31735 GTAATTTCCG
Statistics
Matches: 151, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
105 118 0.78
106 14 0.09
107 3 0.02
108 3 0.02
109 4 0.03
111 9 0.06
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.47
Consensus pattern (109 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTTTCATTTCGCATTGCGATTTCATCTCCGAT
Found at i:31749 original size:53 final size:52
Alignment explanation
Indices: 31465--31734 Score: 397
Period size: 53 Copynumber: 5.1 Consensus size: 52
31455 AGAATCGCAA
31465 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
31518 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
**
31570 TGTTATTTTCATTTCGCATTGCGATTTTCATTTCTGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTC-GCATTGCGATTCTCTCGT
*
31623 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
*
31681 TGCGATTTTC--TT-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
31728 TGCGATT
1 TGCGATT
31735 GTAATTTCCG
Statistics
Matches: 203, Mismatches: 7, Indels: 20
0.88 0.03 0.09
Matches are distributed among these distances:
47 8 0.04
49 2 0.01
50 2 0.01
51 3 0.01
52 60 0.30
53 107 0.53
54 3 0.01
55 3 0.01
56 4 0.02
58 11 0.05
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:34252 original size:24 final size:24
Alignment explanation
Indices: 34218--34264 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
34208 CTGAAACATC
34218 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
34242 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
34265 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:34985 original size:20 final size:20
Alignment explanation
Indices: 34957--35185 Score: 235
Period size: 20 Copynumber: 11.4 Consensus size: 20
34947 AAATTTCAGT
* * *
34957 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
34977 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
34997 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
35017 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
35037 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
35057 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
35077 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
35097 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
35117 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
35137 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
35157 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
35177 GTTGCGATT
1 GTTGCGATT
35186 CTTGAAAATC
Statistics
Matches: 181, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 180 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:35238 original size:21 final size:20
Alignment explanation
Indices: 35153--35250 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
35143 ATTTATGTGT
* *
35153 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
*
35173 TCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGATT-TTCAAAA
** **
35194 TCGCAATGCGAATTTGT-ACTA
1 TCGCGTTGCG-ATTT-TCAAAA
*
35215 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
35236 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
35251 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 39 0.63
22 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:35246 original size:42 final size:43
Alignment explanation
Indices: 35153--35251 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
35143 ATTTATGTGT
* *
35153 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
**
35194 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTTCAA-AA
*
35236 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
35252 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
Found at i:36599 original size:16 final size:16
Alignment explanation
Indices: 36578--36608 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36568 TTGAAATAAA
36578 CCAAAAACTTTAAAAG
1 CCAAAAACTTTAAAAG
36594 CCAAAAACTTTAAAA
1 CCAAAAACTTTAAAA
36609 ACCTTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.19, G:0.03, T:0.19
Consensus pattern (16 bp):
CCAAAAACTTTAAAAG
Found at i:41610 original size:60 final size:60
Alignment explanation
Indices: 41497--41612 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
41487 ATAGTCGGGT
* * * *
41497 GATCATTTTATAACTTTTAATAGTTATAGGACTCAACAAAGTAGTGCCATATAATTTGAG
1 GATCATTTTATAACTTTTAATAGTAAGAGGACTCAACAAAGTACTACCATATAATTTGAG
* * * ** *
41557 GATCATTTTGTAATTTTTAATAGTAAGGGGACTTGACAAAGTACTACCCTATAATT
1 GATCATTTTATAACTTTTAATAGTAAGAGGACTCAACAAAGTACTACCATATAATT
41613 GGGGGATAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (60 bp):
GATCATTTTATAACTTTTAATAGTAAGAGGACTCAACAAAGTACTACCATATAATTTGAG
Found at i:46660 original size:57 final size:57
Alignment explanation
Indices: 46551--46846 Score: 180
Period size: 58 Copynumber: 5.1 Consensus size: 57
46541 GTCAATAATT
* * * * * * *
46551 CTTTTACAAGATAGAATCGTACTTGATTTTCA-AG-AAATAAATCCAACGATTTAATTC
1 CTTTTACAAAATAGAATCATAC--AATATTCATAGAAAATAAATTCAACAATTTATTTC
* *
46608 CTTTTACAAAATAGAATCATACAATATTCTATA-AAAATAAATTTAACAATTTATTTT
1 CTTTTACAAAATAGAATCATACAATATTC-ATAGAAAATAAATTCAACAATTTATTTC
* * * ** **
46665 CTTCTACAATAT-GAAATCA-ATCTAGATTTTCA-AGAAAATAAATTTGACGTTTTATTTC
1 CTTTTACAAAATAG-AATCATA-C-A-ATATTCATAGAAAATAAATTCAACAATTTATTTC
* * *
46723 CTTTTATC-AAACAGAATCATATAAGATTCATAGGAAAATAAATTCAACAATTTATTTC
1 CTTTTA-CAAAATAGAATCATACAATATTCATA-GAAAATAAATTCAACAATTTATTTC
* * *
46781 GTTTT-CAAAGTTAGAATCA-ACGCAAGATTC-TAAGATGAAATAAATTCAACAATTTATTTC
1 CTTTTACAAA-ATAGAATCATA--CAATATTCAT-AGA--AAATAAATTCAACAATTTATTTC
46841 TCTTTT
1 -CTTTT
46847 TCCAGTGTTA
Statistics
Matches: 187, Mismatches: 31, Indels: 38
0.73 0.12 0.15
Matches are distributed among these distances:
55 5 0.03
56 9 0.05
57 61 0.33
58 69 0.37
59 16 0.09
60 23 0.12
61 4 0.02
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.38
Consensus pattern (57 bp):
CTTTTACAAAATAGAATCATACAATATTCATAGAAAATAAATTCAACAATTTATTTC
Found at i:46777 original size:58 final size:55
Alignment explanation
Indices: 46585--46846 Score: 183
Period size: 58 Copynumber: 4.5 Consensus size: 55
46575 GATTTTCAAG
* * * *
46585 AAATAAATCCAACGATTTAATTCCTTTTACAAAATAGAATCATACAATATTCTATA-A
1 AAATAAATTCAACAATTTATTTCCTTTTAC-AAATAGAATCA-ACAAGATTC-ATAGA
* * * *
46642 AAATAAATTTAACAATTTATTTTCTTCTAC-AATATGAAATCAATCTAGATTTTCA-AGA
1 AAATAAATTCAACAATTTATTTCCTTTTACAAATA-G-AATCAA-CAAGA--TTCATAGA
** ** * *
46700 AAATAAATTTGACGTTTTATTTCCTTTTATCAAACAGAATCATATAAGATTCATAGGA
1 AAATAAATTCAACAATTTATTTCCTTTTA-CAAATAGAATCA-ACAAGATTCATA-GA
*
46758 AAATAAATTCAACAATTTATTTCGTTTT-CAAAGTTAGAATCAACGCAAGATTC-TAAGA
1 AAATAAATTCAACAATTTATTTCCTTTTACAAA--TAGAATCAA--CAAGATTCAT-AGA
46816 TGAAATAAATTCAACAATTTATTTCTCTTTT
1 --AAATAAATTCAACAATTTATTTC-CTTTT
46847 TCCAGTGTTA
Statistics
Matches: 162, Mismatches: 24, Indels: 34
0.74 0.11 0.15
Matches are distributed among these distances:
55 4 0.02
56 10 0.06
57 35 0.22
58 69 0.43
59 14 0.09
60 26 0.16
61 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.37
Consensus pattern (55 bp):
AAATAAATTCAACAATTTATTTCCTTTTACAAATAGAATCAACAAGATTCATAGA
Found at i:50074 original size:15 final size:15
Alignment explanation
Indices: 50054--50098 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
50044 ATTACATGTC
50054 TTAGACACGATATCA
1 TTAGACACGATATCA
*
50069 TTAGACAAGTAATATCA
1 TTAGACACG--ATATCA
*
50086 TTAGACACAATAT
1 TTAGACACGATAT
50099 TCACAAAACG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 12 0.48
17 13 0.52
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (15 bp):
TTAGACACGATATCA
Found at i:50628 original size:22 final size:23
Alignment explanation
Indices: 50603--50645 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
50593 TTTTAGGATT
50603 TTTATATTTAAT-TTTTAAATAG
1 TTTATATTTAATATTTTAAATAG
*
50625 TTTATATTTTATATTTTAAAT
1 TTTATATTTAATATTTTAAAT
50646 TACTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTATATTTAATATTTTAAATAG
Found at i:50635 original size:23 final size:22
Alignment explanation
Indices: 50603--50645 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
50593 TTTTAGGATT
50603 TTTATATTTA-ATTTTTAAATAG
1 TTTATATTTATA-TTTTAAATAG
50625 TTTATATTTTATATTTTAAAT
1 TTTATA-TTTATATTTTAAAT
50646 TACTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 12 0.63
24 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTATATTTATATTTTAAATAG
Found at i:51367 original size:24 final size:23
Alignment explanation
Indices: 51334--51383 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
51324 AAATACTATC
* *
51334 ATTATATTTATTTTTATTCTTTTA
1 ATTATATTTAATTTGATT-TTTTA
*
51358 ATTATTTTTAATTTGATTTTTTA
1 ATTATATTTAATTTGATTTTTTA
51381 ATT
1 ATT
51384 TAATTATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
ATTATATTTAATTTGATTTTTTA
Found at i:51531 original size:14 final size:15
Alignment explanation
Indices: 51504--51533 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
51494 TAATTTATAT
51504 TTAAAATATAAAAAA
1 TTAAAATATAAAAAA
51519 TTAAAAT-TAAAAAA
1 TTAAAATATAAAAAA
51533 T
1 T
51534 GTAAGGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TTAAAATATAAAAAA
Found at i:53090 original size:14 final size:14
Alignment explanation
Indices: 53071--53106 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
53061 AATTTTCCTA
53071 TTCCCTTCATCTTT
1 TTCCCTTCATCTTT
53085 TTCCCTTCATCTTT
1 TTCCCTTCATCTTT
53099 TTCCCTTC
1 TTCCCTTC
53107 TTCTCCCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.56
Consensus pattern (14 bp):
TTCCCTTCATCTTT
Found at i:62383 original size:20 final size:20
Alignment explanation
Indices: 62358--62395 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
62348 ATCAACTTAT
62358 GAGTATCGATACCCTAGGTG
1 GAGTATCGATACCCTAGGTG
*
62378 GAGTATCGATACTCTAGG
1 GAGTATCGATACCCTAGG
62396 GCCAATATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (20 bp):
GAGTATCGATACCCTAGGTG
Found at i:63690 original size:27 final size:27
Alignment explanation
Indices: 63652--63705 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
63642 AAACCAAGAG
63652 ATGTCCATGATTACATGAACATAATCA
1 ATGTCCATGATTACATGAACATAATCA
63679 ATGTCCATGATTACATGAACATAATCA
1 ATGTCCATGATTACATGAACATAATCA
63706 TGAGAACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (27 bp):
ATGTCCATGATTACATGAACATAATCA
Found at i:63953 original size:36 final size:36
Alignment explanation
Indices: 63913--64017 Score: 120
Period size: 36 Copynumber: 2.9 Consensus size: 36
63903 AATGATATTG
* * *
63913 ATACTAGTAATAAGTTATATCACTTGGTGAATAGAC
1 ATACTAATAATAAGTCATATCACTTGGTGAATAAAC
* * * *
63949 ATACTAACAATAAGTCATGTCACTTGATGAACAAAC
1 ATACTAATAATAAGTCATATCACTTGGTGAATAAAC
* * *
63985 ATGCTAATAATAAATCATTTCACTTGGTGAATA
1 ATACTAATAATAAGTCATATCACTTGGTGAATA
64018 CACTTATTAA
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.31
Consensus pattern (36 bp):
ATACTAATAATAAGTCATATCACTTGGTGAATAAAC
Found at i:67785 original size:2 final size:2
Alignment explanation
Indices: 67775--67976 Score: 86
Period size: 2 Copynumber: 102.0 Consensus size: 2
67765 ATTGAAAAAA
* *
67775 AT AT A- AT AT AT AT AT AT A- AT AT A- AGT TT AT AT AT AA AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * *
67814 AT AT AT AT AA ACT AT AT TT AT AT -T AT AA ACT AT AT A- AT -T AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * *
67855 -T AT A- AG CT AT AT AT AT AT AT -T AT GT TT AT AT GA- ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT
* * * * * *
67895 AT AT AA ACT AT AT AT GT AT AA ACT AT AA AA AGT AT AT AGT TT AT
1 AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT A-T AT AT A-T AT AT
*
67939 AA ACT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67977 TATTCAAAGA
Statistics
Matches: 150, Mismatches: 28, Indels: 44
0.68 0.13 0.20
Matches are distributed among these distances:
1 12 0.08
2 129 0.86
3 9 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:67807 original size:15 final size:13
Alignment explanation
Indices: 67774--67975 Score: 89
Period size: 13 Copynumber: 16.1 Consensus size: 13
67764 AATTGAAAAA
67774 AATATA-ATATAT
1 AATATATATATAT
67786 -ATATATA-ATAT
1 AATATATATATAT
*
67797 AAGTTTATATATA-
1 AA-TATATATATAT
67810 AAT-TATATATAT
1 AATATATATATAT
*
67822 AA-ACTATATTTAT
1 AATA-TATATATAT
* *
67835 ATTATAAACTATAT
1 AATATATA-TATAT
67849 AAT-TAT-TATA-
1 AATATATATATAT
*
67859 AGCTATATATATAT
1 A-ATATATATATAT
* * *
67873 ATTATGTTTATAT
1 AATATATATATAT
67886 GAACTATATATATA-
1 -AA-TATATATATAT
*
67900 AACTATATATGTAT
1 AA-TATATATATAT
67914 AA-ACTATA-A-A-
1 AATA-TATATATAT
*
67924 AAGTATATAGTTTAT
1 AA-TATATA-TATAT
67939 AA-ACTATA-ATAT
1 AATA-TATATATAT
67951 -ATATATATATAT
1 AATATATATATAT
67963 -ATATATATATAT
1 AATATATATATAT
67975 A
1 A
67976 TTATTCAAAG
Statistics
Matches: 145, Mismatches: 18, Indels: 53
0.67 0.08 0.25
Matches are distributed among these distances:
10 3 0.02
11 32 0.22
12 30 0.21
13 51 0.35
14 19 0.13
15 10 0.07
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (13 bp):
AATATATATATAT
Found at i:67834 original size:30 final size:33
Alignment explanation
Indices: 67781--67849 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 33
67771 AAAAATATAA
*
67781 TATATATATATAATATAAGTTTATA-TATAAAT
1 TATATATATATAATATAAGTTTATATTATAAAC
67813 TATATATATA-AACTAT-A-TTTATATTATAAAC
1 TATATATATATAA-TATAAGTTTATATTATAAAC
67844 TATATA
1 TATATA
67850 ATTATTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
30 6 0.18
31 15 0.44
32 13 0.38
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (33 bp):
TATATATATATAATATAAGTTTATATTATAAAC
Found at i:68086 original size:19 final size:19
Alignment explanation
Indices: 68046--68093 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
68036 TTTATTTTAT
68046 TTGAG-AATTTAGAGGGAAA
1 TTGAGAAATTTAGAGGG-AA
68065 TTGAGAAATTTAGAGGTG-A
1 TTGAGAAATTTAGAGG-GAA
68084 TTGA-AAATTT
1 TTGAGAAATTT
68094 TGGGAGATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.22
19 10 0.37
20 10 0.37
21 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (19 bp):
TTGAGAAATTTAGAGGGAA
Found at i:68305 original size:2 final size:2
Alignment explanation
Indices: 68293--68481 Score: 94
Period size: 2 Copynumber: 97.0 Consensus size: 2
68283 TTTAATTTTC
* * * * * *
68293 TA TA AA TA TA TA TA TA TA TA TA TA TG TA TG TA TG TA TG TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
68335 TA AA CTA TA TA TG TA TA AA CTA TA TA -A AA TA TA TA GTT TA TA
1 TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA
* * * *
68377 AA T- TA TA -A TT TA TA T- TA -A TA TA GTA TA TA TA TG TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* *
68416 TA -A CTA -A TA TA -A GTA -A TC TA TA GA T- TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
68455 TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
68482 GAAACACTAT
Statistics
Matches: 137, Mismatches: 33, Indels: 34
0.67 0.16 0.17
Matches are distributed among these distances:
1 11 0.08
2 119 0.87
3 7 0.05
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (2 bp):
TA
Found at i:68543 original size:7 final size:7
Alignment explanation
Indices: 68531--68591 Score: 59
Period size: 7 Copynumber: 8.7 Consensus size: 7
68521 TTAAAAAAAA
68531 CCTAAAC
1 CCTAAAC
68538 CCTAAAC
1 CCTAAAC
**
68545 TTTAAAC
1 CCTAAAC
* *
68552 CATACAC
1 CCTAAAC
*
68559 ACTAAAC
1 CCTAAAC
*
68566 ACTAAAC
1 CCTAAAC
68573 CCTAAAC
1 CCTAAAC
*
68580 CATAAAC
1 CCTAAAC
68587 CCTAA
1 CCTAA
68592 TATAAATAGA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (7 bp):
CCTAAAC
Found at i:68591 original size:28 final size:28
Alignment explanation
Indices: 68531--68591 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
68521 TTAAAAAAAA
* ** *
68531 CCTAAACCCTAAACTTTAAACCATACAC
1 CCTAAACACTAAACCCTAAACCATAAAC
*
68559 ACTAAACACTAAACCCTAAACCATAAAC
1 CCTAAACACTAAACCCTAAACCATAAAC
68587 CCTAA
1 CCTAA
68592 TATAAATAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (28 bp):
CCTAAACACTAAACCCTAAACCATAAAC
Found at i:68916 original size:13 final size:13
Alignment explanation
Indices: 68884--68910 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
68874 TAATTTACAT
68884 TTAAATAATTTTA
1 TTAAATAATTTTA
68897 TTAAATAATTTTA
1 TTAAATAATTTTA
68910 T
1 T
68911 ATAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:69136 original size:32 final size:29
Alignment explanation
Indices: 69074--69139 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
69064 AACAAAAATC
* * *
69074 AAAGTTCAGTATTATAATTGGTAAAATTA
1 AAAGTTCAGTAGTATAAATGATAAAATTA
*
69103 AAAGTTCAGTAGTATAAATGATATAAAGTTT
1 AAAGTTCAGTAGTATAAATGATA-AAA-TTA
69134 AAAGTT
1 AAAGTT
69140 TGGTGTCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 20 0.65
30 3 0.10
31 8 0.26
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.36
Consensus pattern (29 bp):
AAAGTTCAGTAGTATAAATGATAAAATTA
Found at i:69583 original size:17 final size:17
Alignment explanation
Indices: 69561--69599 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
69551 ACCATGTATA
*
69561 ATATATATATATAACCT
1 ATATATATATATAAACT
69578 ATATATATATATAAACT
1 ATATATATATATAAACT
69595 ATATA
1 ATATA
69600 AAATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATATATATATAAACT
Found at i:69703 original size:13 final size:13
Alignment explanation
Indices: 69682--69750 Score: 66
Period size: 13 Copynumber: 5.2 Consensus size: 13
69672 AGAAACCTTA
* *
69682 AATCCTAAACCCT
1 AATCATAAACACT
*
69695 AATCATAAACTCT
1 AATCATAAACACT
*
69708 AATCATAAACTCT
1 AATCATAAACACT
*
69721 AAACCATAAACACT
1 -AATCATAAACACT
*
69735 AAACTATAAACACT
1 AATC-ATAAACACT
69749 AA
1 AA
69751 ACCCTAAACC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
13 27 0.55
14 22 0.45
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (13 bp):
AATCATAAACACT
Found at i:69730 original size:14 final size:14
Alignment explanation
Indices: 69698--69759 Score: 72
Period size: 14 Copynumber: 4.5 Consensus size: 14
69688 AAACCCTAAT
* *
69698 CATAAACTCT-AAT
1 CATAAACACTAAAC
*
69711 CATAAACTCTAAAC
1 CATAAACACTAAAC
69725 CATAAACACTAAAC
1 CATAAACACTAAAC
*
69739 TATAAACACTAAAC
1 CATAAACACTAAAC
*
69753 CCTAAAC
1 CATAAAC
69760 CTTAATATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
13 10 0.23
14 33 0.77
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (14 bp):
CATAAACACTAAAC
Found at i:69738 original size:21 final size:21
Alignment explanation
Indices: 69686--69759 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
69676 ACCTTAAATC
* * *
69686 CTAAACCCTAATC-ATAAACT
1 CTAAACACTAAACTATAAACA
* *
69706 CTAATCA-TAAACTCTAAAC-
1 CTAAACACTAAACTATAAACA
69725 CATAAACACTAAACTATAAACA
1 C-TAAACACTAAACTATAAACA
*
69747 CTAAACCCTAAAC
1 CTAAACACTAAAC
69760 CTTAATATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
19 5 0.12
20 15 0.35
21 22 0.51
22 1 0.02
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (21 bp):
CTAAACACTAAACTATAAACA
Found at i:69951 original size:14 final size:14
Alignment explanation
Indices: 69932--69978 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
69922 ATTTTTTCTT
69932 TATATAAATTAAAC
1 TATATAAATTAAAC
69946 TATAT-AATT----
1 TATATAAATTAAAC
69955 TATATAAATTAAAC
1 TATATAAATTAAAC
*
69969 TATATTAATT
1 TATATAAATT
69979 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:69956 original size:23 final size:24
Alignment explanation
Indices: 69930--69979 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
69920 TTATTTTTTC
69930 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
69953 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
69977 TTT
1 TTT
69980 TCCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:70050 original size:13 final size:13
Alignment explanation
Indices: 70018--70044 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
70008 TATTATACAT
70018 TTAAATAATTTTA
1 TTAAATAATTTTA
70031 TTAAATAATTTTA
1 TTAAATAATTTTA
70044 T
1 T
70045 ATAATAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:70231 original size:16 final size:16
Alignment explanation
Indices: 70212--70287 Score: 98
Period size: 16 Copynumber: 4.7 Consensus size: 16
70202 AAATATCAGA
*
70212 TCAGGTTAAAAACATG
1 TCAGGTTAAAAACAGG
70228 TCAGGTTAAAAACAGG
1 TCAGGTTAAAAACAGG
* *
70244 TCAGGTTGAAAACATG
1 TCAGGTTAAAAACAGG
* *
70260 TCAGTTTGAAAACAGG
1 TCAGGTTAAAAACAGG
70276 TCAGGTTGAAAA
1 TCAGGTT-AAAA
70288 TAAGTCGGGT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
16 49 0.94
17 3 0.06
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (16 bp):
TCAGGTTAAAAACAGG
Found at i:70248 original size:32 final size:32
Alignment explanation
Indices: 70195--70287 Score: 125
Period size: 32 Copynumber: 2.9 Consensus size: 32
70185 TAATATATGA
* * *
70195 GTCAGG-TAAATATCAGATCAGGTTAAAAACAT
1 GTCAGGTTAAA-AACAGGTCAGGTTGAAAACAT
70227 GTCAGGTTAAAAACAGGTCAGGTTGAAAACAT
1 GTCAGGTTAAAAACAGGTCAGGTTGAAAACAT
* *
70259 GTCAGTTTGAAAACAGGTCAGGTTGAAAA
1 GTCAGGTTAAAAACAGGTCAGGTTGAAAA
70288 TAAGTCGGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 51 0.93
33 4 0.07
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (32 bp):
GTCAGGTTAAAAACAGGTCAGGTTGAAAACAT
Found at i:73695 original size:32 final size:31
Alignment explanation
Indices: 73610--73695 Score: 84
Period size: 37 Copynumber: 2.6 Consensus size: 31
73600 TTATATAATA
73610 TTAC-AAATTATAAAATATTTATATATTTTCT
1 TTACAAAATTA-AAAATATTTATATATTTTCT
* *
73641 TTAAAAAATTAAATTCATAATATTTATATAATTTTTT
1 TTACAAAATT-AA---A-AATATTTATAT-ATTTTCT
73678 TTACAAAATTAAAAATAT
1 TTACAAAATTAAAAATAT
73696 AAAAAAAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
31 3 0.07
32 11 0.24
33 2 0.04
35 1 0.02
36 13 0.29
37 15 0.33
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (31 bp):
TTACAAAATTAAAAATATTTATATATTTTCT
Found at i:75079 original size:262 final size:262
Alignment explanation
Indices: 74613--75136 Score: 940
Period size: 262 Copynumber: 2.0 Consensus size: 262
74603 TTTATTTCTA
*
74613 GCTTGAGCTGTCAATGAGAGAGTAAAGTTTAGTAAGTAAGCGTGTAATTTCCCTTTAACCATTGA
1 GCTTGAGCTGTCAATGAGAGAGTAAAATTTAGTAAGTAAGCGTGTAATTTCCCTTTAACCATTGA
*
74678 AGTCGCTTAGTTCATGTTTCATTTAATATCACAATACAATTAGAGAAATTGTAATCATCGAAGTC
66 AGTCGCTTAGTTCATGTTTCATTTAATATCACAATACAATTAGAGAAATTGTAATAATCGAAGTC
*
74743 AATTAATTTATGTTAGTTTGGTATTTCGCTACAATTAGAGCGGTTAATTAAGATATATGGTAAAT
131 AATTAATTTATGTTAGTTTGGTATTTCACTACAATTAGAGCGGTTAATTAAGATATATGGTAAAT
** *
74808 TACACGCTTACTTACTAAACTTTGTTCTCTCCTATTTTACCTACTATACTTTCAATTTTTTTCAA
196 TACACGCTTACTTACTAAACTTTACTCTCTCCTATTTCACCTACTATACTTTCAATTTTTTTCAA
74873 TT
261 TT
* *
74875 GCTTGAGTTGTCAATGAGAGAGTAAAATTTAGTAAGTAAGCGTGTAATTTCCCTTTAACTATTGA
1 GCTTGAGCTGTCAATGAGAGAGTAAAATTTAGTAAGTAAGCGTGTAATTTCCCTTTAACCATTGA
*
74940 AGTCGCTTAGTTCATGTTTTATTTAATATCACAATACAATTAGAGAAATTGTAATAATCGAAGTC
66 AGTCGCTTAGTTCATGTTTCATTTAATATCACAATACAATTAGAGAAATTGTAATAATCGAAGTC
*
75005 AATTAATTTATTTTAGTTTGGTATTTCACTACAATTAGAGCGGTTAATTAAGATATATGGTAAAT
131 AATTAATTTATGTTAGTTTGGTATTTCACTACAATTAGAGCGGTTAATTAAGATATATGGTAAAT
* *
75070 TATACGCTTACTTACTAAATTTTACTCTCTCCTATTTCACCTACTATACTTTCAATTTTTTTCAA
196 TACACGCTTACTTACTAAACTTTACTCTCTCCTATTTCACCTACTATACTTTCAATTTTTTTCAA
75135 TT
261 TT
75137 TGACCTCTAA
Statistics
Matches: 250, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
262 250 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (262 bp):
GCTTGAGCTGTCAATGAGAGAGTAAAATTTAGTAAGTAAGCGTGTAATTTCCCTTTAACCATTGA
AGTCGCTTAGTTCATGTTTCATTTAATATCACAATACAATTAGAGAAATTGTAATAATCGAAGTC
AATTAATTTATGTTAGTTTGGTATTTCACTACAATTAGAGCGGTTAATTAAGATATATGGTAAAT
TACACGCTTACTTACTAAACTTTACTCTCTCCTATTTCACCTACTATACTTTCAATTTTTTTCAA
TT
Found at i:79118 original size:12 final size:12
Alignment explanation
Indices: 79097--79155 Score: 73
Period size: 12 Copynumber: 4.9 Consensus size: 12
79087 GAATGTTTTA
*
79097 TCTGACTTCTGC
1 TCTGAATTCTGC
*
79109 TCTGAATTCTGT
1 TCTGAATTCTGC
*
79121 TCTGATTTCTGC
1 TCTGAATTCTGC
*
79133 TCTGAATTCTGT
1 TCTGAATTCTGC
*
79145 TCTGATTTCTG
1 TCTGAATTCTG
79156 ATATCTCTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.12, C:0.22, G:0.17, T:0.49
Consensus pattern (12 bp):
TCTGAATTCTGC
Found at i:79125 original size:24 final size:24
Alignment explanation
Indices: 79097--79155 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
79087 GAATGTTTTA
*
79097 TCTGACTTCTGCTCTGAATTCTGT
1 TCTGATTTCTGCTCTGAATTCTGT
79121 TCTGATTTCTGCTCTGAATTCTGT
1 TCTGATTTCTGCTCTGAATTCTGT
79145 TCTGATTTCTG
1 TCTGATTTCTG
79156 ATATCTCTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.12, C:0.22, G:0.17, T:0.49
Consensus pattern (24 bp):
TCTGATTTCTGCTCTGAATTCTGT
Found at i:79362 original size:32 final size:32
Alignment explanation
Indices: 79299--79372 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
79289 TAAGGCGACC
* * *
79299 CTTGGGTTGG-CTCTACAGCCCTGAGATTTTT
1 CTTGGGTAGGCCTCTACAGCCCCGAGAATTTT
**
79330 CTTGGGTAGGCCTCTATGGCCCCGAGAATTTT
1 CTTGGGTAGGCCTCTACAGCCCCGAGAATTTT
79362 CTTGGGTAGGC
1 CTTGGGTAGGC
79373 TCGCAAGCCC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 9 0.24
32 28 0.76
ACGTcount: A:0.14, C:0.23, G:0.30, T:0.34
Consensus pattern (32 bp):
CTTGGGTAGGCCTCTACAGCCCCGAGAATTTT
Found at i:82574 original size:24 final size:24
Alignment explanation
Indices: 82547--82598 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
82537 ATGTTTTATT
* * *
82547 TGATTTCTTCTCTAAATTTTGTTC
1 TGATTTCTACTCTAAATTCTGTTA
82571 TGATTTCTACTCTAAATTCTGTTA
1 TGATTTCTACTCTAAATTCTGTTA
82595 TGAT
1 TGAT
82599 ATCTCCGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (24 bp):
TGATTTCTACTCTAAATTCTGTTA
Found at i:82787 original size:32 final size:32
Alignment explanation
Indices: 82740--82813 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 32
82730 TAAGGCGACC
*
82740 TTTGGGTAGG-CTCTGTGGCCCTGAG-ATTTT
1 TTTGAGTAGGCCTCTGTGGCCCTGAGAATTTT
82770 TCTTGAGTAGGCCTCTGTGGCCCTGAGAATTTT
1 T-TTGAGTAGGCCTCTGTGGCCCTGAGAATTTT
*
82803 TTTGGGTAGGC
1 TTTGAGTAGGC
82814 TCGTAGGCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 1 0.03
31 8 0.21
32 24 0.62
33 6 0.15
ACGTcount: A:0.12, C:0.18, G:0.32, T:0.38
Consensus pattern (32 bp):
TTTGAGTAGGCCTCTGTGGCCCTGAGAATTTT
Found at i:83577 original size:2 final size:2
Alignment explanation
Indices: 83570--83596 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
83560 CATCATTGTG
83570 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 A
83597 ACAAGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84697 original size:13 final size:13
Alignment explanation
Indices: 84679--84708 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
84669 TATAATTTTA
*
84679 TTTTTTCTAAATT
1 TTTTTTATAAATT
84692 TTTTTTATAAATT
1 TTTTTTATAAATT
84705 TTTT
1 TTTT
84709 AAAATTATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTTTATAAATT
Found at i:85340 original size:186 final size:185
Alignment explanation
Indices: 84997--85387 Score: 694
Period size: 186 Copynumber: 2.1 Consensus size: 185
84987 TTTTCTAATT
* * *
84997 TATATAA-AAATTAAATATTTTATAATTAAAAAAACAGTTTATAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTATAATTAAAAAAACAGTTTAAAATTAATTTAAATAATATATAA
*
85061 TTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTAT
66 TTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTAT
* *
85126 TGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCTATATGTTA
131 TAGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
* *
85181 TATATAATATATTTAATATTTTTTAATTCAGAAAAACAGTTTAAAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAATT-AAAAAAACAGTTTAAAATTAATTTAAATAATATATA
85246 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTA
65 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTA
85311 TTAGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
130 TTAGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
85367 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
85388 AAAATTTTAT
Statistics
Matches: 197, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
184 7 0.04
185 17 0.09
186 173 0.88
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (185 bp):
TATATAATATATTTAATATTTTATAATTAAAAAAACAGTTTAAAATTAATTTAAATAATATATAA
TTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTAT
TAGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
Found at i:86731 original size:3 final size:3
Alignment explanation
Indices: 86723--86757 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
86713 GCCCTTGGTT
86723 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
86758 GTTGTTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:88738 original size:16 final size:17
Alignment explanation
Indices: 88717--88751 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
88707 TCGAAAACTC
88717 AACTG-AAAATCGATTA
1 AACTGAAAAATCGATTA
*
88733 AACTGAAAAATTGATTA
1 AACTGAAAAATCGATTA
88750 AA
1 AA
88752 TTTGGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (17 bp):
AACTGAAAAATCGATTA
Found at i:90728 original size:22 final size:22
Alignment explanation
Indices: 90703--90746 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
90693 TATTATTGAT
90703 AAAAATATAAAAATATATTTTA
1 AAAAATATAAAAATATATTTTA
* * *
90725 AAAATTTTAAATATATATTTTA
1 AAAAATATAAAAATATATTTTA
90747 TTATTGTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAAATATAAAAATATATTTTA
Found at i:90762 original size:22 final size:21
Alignment explanation
Indices: 90702--90746 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
90692 TTATTATTGA
* *
90702 TAAAAATATAAAAATATATTT
1 TAAAAATTTTAAAATATATTT
90723 TAAAAATTTTAAATATATATTT
1 TAAAAATTTTAAA-ATATATTT
90745 TA
1 TA
90747 TTATTGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAAAATTTTAAAATATATTT
Found at i:92905 original size:86 final size:86
Alignment explanation
Indices: 92725--92910 Score: 275
Period size: 86 Copynumber: 2.2 Consensus size: 86
92715 ATACTCTAAA
* * *
92725 GGAGTATCGATATCGAGGGTTAAGTATCAATACTGACCCGAGAGTATTGATACAACCCGTTATTT
1 GGAGTATCGATACCAAGGGTTAAGTATCAATACTGACCCGAGAGTATTGATACAACCAGTTATTT
92790 TTCTTAATTAAAATTTACTCT
66 TTCTTAATTAAAATTTACTCT
* * * * * *
92811 AGAATATCGGTACCAAGGGTTGAGTATCAATACTGACTCGAGAGTATTGATACAACTAGTTATTT
1 GGAGTATCGATACCAAGGGTTAAGTATCAATACTGACCCGAGAGTATTGATACAACCAGTTATTT
92876 TTCTTAATTAAAATTTA-TCGT
66 TTCTTAATTAAAATTTACTC-T
92897 GGAGTATCGATACC
1 GGAGTATCGATACC
92911 CTAGGTGGAG
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 2 0.02
86 85 0.98
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (86 bp):
GGAGTATCGATACCAAGGGTTAAGTATCAATACTGACCCGAGAGTATTGATACAACCAGTTATTT
TTCTTAATTAAAATTTACTCT
Found at i:96887 original size:96 final size:96
Alignment explanation
Indices: 96723--96915 Score: 377
Period size: 96 Copynumber: 2.0 Consensus size: 96
96713 GTAGCCTCAA
*
96723 TAACAAAGTTACTTACGAAAGGTCTGCCATTTGTGTGGGGTGAAAAATAGCAGAATAGTTTTGAG
1 TAACAAAGTTACTTACGAAAGGTCTGCCATTTGTGTGGGGTGAAAAACAGCAGAATAGTTTTGAG
96788 CAATTGAAAACCCTTTTGACCCAAGCCCCAG
66 CAATTGAAAACCCTTTTGACCCAAGCCCCAG
96819 TAACAAAGTTACTTACGAAAGGTCTGCCATTTGTGTGGGGTGAAAAACAGCAGAATAGTTTTGAG
1 TAACAAAGTTACTTACGAAAGGTCTGCCATTTGTGTGGGGTGAAAAACAGCAGAATAGTTTTGAG
96884 CAATTGAAAACCCTTTTGACCCAAGCCCCAG
66 CAATTGAAAACCCTTTTGACCCAAGCCCCAG
96915 T
1 T
96916 CTTAACACAG
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (96 bp):
TAACAAAGTTACTTACGAAAGGTCTGCCATTTGTGTGGGGTGAAAAACAGCAGAATAGTTTTGAG
CAATTGAAAACCCTTTTGACCCAAGCCCCAG
Found at i:99876 original size:20 final size:21
Alignment explanation
Indices: 99835--99874 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
99825 TATCGGTACT
99835 AGGGTCTTGGTTCAAGACCCA
1 AGGGTCTTGGTTCAAGACCCA
*
99856 AGGG-CTTGGTATCGAGACC
1 AGGGTCTTGGT-TCAAGACC
99875 AATTTTCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.23
Consensus pattern (21 bp):
AGGGTCTTGGTTCAAGACCCA
Found at i:105620 original size:183 final size:183
Alignment explanation
Indices: 105312--105661 Score: 637
Period size: 183 Copynumber: 1.9 Consensus size: 183
105302 ATTAAATCCG
*
105312 TAAAGCTGAGCTATTCCATTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * *
105377 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTAGCAATTCGGTGTTTGCTCCACTGCTT
105442 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
105495 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
105560 ATAGATTACATTCAAACCATGACATTGCTCGGACACTTAGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTAGCAATTCGGTGTTTGCTCCACTGCTT
*
105625 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTT
131 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTT
105662 TAGTTAAACC
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 160 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTACATTCAAACCATGACACTGCTCGGACACTTAGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
Found at i:107015 original size:37 final size:37
Alignment explanation
Indices: 106948--107034 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
106938 ATTGAAAACA
** * *
106948 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
106984 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
107021 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
107035 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.27
37 33 0.73
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:107037 original size:102 final size:102
Alignment explanation
Indices: 106859--107163 Score: 495
Period size: 102 Copynumber: 3.0 Consensus size: 102
106849 TTAAAACAAG
* * * *
106859 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAAGTTTTGTCTCACTTGAGACAGTTTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA-AAA-TTTTGTCTCCCTTGAGACAGTTTCT
*
106924 CTTTAAACATAAACATTGAAAACATTTCCCTTGAAATGA
64 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
106963 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
107028 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
* *
107065 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCCTTTGAGACAGTTTCTAT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* *
107129 TGAAACATAAACTTTGAAAACAGTTTACCTTGAAA
66 TGAAACATAAACATTGAAAACA-TTTCCCTTGAAA
107164 CAAAATCTTT
Statistics
Matches: 191, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
101 49 0.26
102 107 0.56
103 3 0.02
104 32 0.17
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
Found at i:107097 original size:36 final size:36
Alignment explanation
Indices: 107050--107135 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
107040 ATTGAAAACA
** *
107050 TTTCCCTTGAAATGAATTTTGTCT-CTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCCT-TTGAGACAG
107086 TTTCCCTTGAAACAAATTTTGTCTCCTTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCCTTTGAGACAG
**
107122 TTTCTATTGAAACA
1 TTTCCCTTGAAACA
107136 TAAACTTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 42 0.95
37 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCCTTTGAGACAG
Found at i:107153 original size:30 final size:30
Alignment explanation
Indices: 107118--107176 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
107108 CTCCTTTGAG
107118 ACAGTTT-CTATTGAAACATAAA-CTTTGAAA
1 ACAGTTTAC-ATTGAAACA-AAATCTTTGAAA
*
107148 ACAGTTTACCTTGAAACAAAATCTTTGAA
1 ACAGTTTACATTGAAACAAAATCTTTGAA
107177 TATGTTTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 22 0.85
31 1 0.04
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (30 bp):
ACAGTTTACATTGAAACAAAATCTTTGAAA
Found at i:107272 original size:38 final size:36
Alignment explanation
Indices: 107190--107304 Score: 167
Period size: 36 Copynumber: 3.1 Consensus size: 36
107180 GTTTTACATT
*
107190 AAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
107226 AAACAAATTTTGTCTCTCTTAAGACATGTTTTTCTTA
1 AAACAAATTTTGTCTCTCTTGAGACA-GTTTCTCTTG
*
107263 AAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
107300 AAACA
1 AAACA
107305 TCAATCCTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
36 25 0.36
37 24 0.35
38 20 0.29
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:107409 original size:33 final size:33
Alignment explanation
Indices: 107345--107459 Score: 162
Period size: 33 Copynumber: 3.5 Consensus size: 33
107335 CCTTGATACA
107345 GTTTCTCTTGAAACACAAAAAGAAACCTTTGAAATT
1 GTTTCTCTTGAAACAC--AAA-AAACCTTTGAAATT
*
107381 GTTTCTCTTGAAACACAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATT
*
107414 GTTTCTCTTGAAACAC--AAAACCTTTGAGATT
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATT
*
107445 GTTTCCCTTGAAACA
1 GTTTCTCTTGAAACA
107460 AATTTCGTCT
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
31 27 0.36
33 29 0.39
34 3 0.04
36 16 0.21
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.32
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAACCTTTGAAATT
Found at i:107506 original size:67 final size:67
Alignment explanation
Indices: 107414--107599 Score: 255
Period size: 67 Copynumber: 2.7 Consensus size: 67
107404 CTTTGAAAAT
*
107414 GTTTCTCTTGAAACACAAAACCTTTGAGATTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGA
1 GTTTCTCTTGAAACACAAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGA
107479 CA
66 CA
* * * * *
107481 GTTTCTCTTGAAACACAAAATCTTTGAGTTTATTTCCCTTAAAACAAATTTTGTCTCCCTTGAGG
1 GTTTCTCTTGAAACACAAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGA
*
107546 CC
66 CA
* * * *
107548 GTTTCTCATGAAACAACATATATCTTTAAGATTGTTTCCCTTGAAACGAATT
1 GTTTCTCTTGAAAC-ACA-AAATCTTTGAGATTGTTTCCCTTGAAACAAATT
107600 CTGTCTTTTT
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
67 73 0.71
68 3 0.03
69 27 0.26
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (67 bp):
GTTTCTCTTGAAACACAAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGA
CA
Found at i:108109 original size:106 final size:107
Alignment explanation
Indices: 107918--108150 Score: 333
Period size: 106 Copynumber: 2.2 Consensus size: 107
107908 GGTTTTAGCT
* *
107918 AGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAATACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCAAAGGACATTGGACTCAAGACAACACAAGTTCAACTTCACAA
** *
107983 CGAAGGGACGGCTGGTTGTCAAC-AAACAATTTCCCAATTTC
66 CGAAGGGACGGCTGACTGTCAACAAAACAATTTCCCAATTCC
* *** * *
108024 GGAGCCAATTTCAACTTCACATTGAAGGGCATTGGACTCGAGACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCAAAGGACATTGGACTCAAGACAACACAAGTTCAACTTCACAA
*
108089 CGAAGGGACGGCTGACTGTCAACAAAACAATTTCCCAGTTCC
66 CGAAGGGACGGCTGACTGTCAACAAAACAATTTCCCAATTCC
* *
108131 AGAACCAACTTCAACTTCAC
1 AGAGCCAATTTCAACTTCAC
108151 GACAGAAGAT
Statistics
Matches: 111, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
106 78 0.70
107 33 0.30
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (107 bp):
AGAGCCAATTTCAACTTCACAGCAAAGGACATTGGACTCAAGACAACACAAGTTCAACTTCACAA
CGAAGGGACGGCTGACTGTCAACAAAACAATTTCCCAATTCC
Found at i:121485 original size:10 final size:9
Alignment explanation
Indices: 121455--121497 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
121445 TTTTATTTTG
*
121455 AAAATTATT
1 AAAATTATA
121464 AAAATTATTA
1 AAAATTA-TA
121474 AAAATATATA
1 AAAAT-TATA
121484 AAAATT-TA
1 AAAATTATA
121492 AAAATT
1 AAAATT
121498 TTAAGGAGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
8 8 0.26
9 8 0.26
10 13 0.42
11 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAATTATA
Found at i:122353 original size:23 final size:23
Alignment explanation
Indices: 122321--122376 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
122311 TCAATAAGTA
* *
122321 TGTCTATATGACATGTTTTCTTC
1 TGTCTTTATGACACGTTTTCTTC
*
122344 TGTCTTTATGGCACGTTTTCTTC
1 TGTCTTTATGACACGTTTTCTTC
**
122367 AATCTTTATG
1 TGTCTTTATG
122377 GTACATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.14, T:0.52
Consensus pattern (23 bp):
TGTCTTTATGACACGTTTTCTTC
Found at i:122377 original size:23 final size:23
Alignment explanation
Indices: 122335--122396 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
122325 TATATGACAT
*
122335 GTTTTCTTCTGTCTTTATGGCAC
1 GTTTTCTTCTATCTTTATGGCAC
* *
122358 GTTTTCTTCAATCTTTATGGTAC
1 GTTTTCTTCTATCTTTATGGCAC
* *
122381 ATTTTATTCTATCTTT
1 GTTTTCTTCTATCTTT
122397 TGATACTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.15, C:0.18, G:0.11, T:0.56
Consensus pattern (23 bp):
GTTTTCTTCTATCTTTATGGCAC
Found at i:127060 original size:15 final size:15
Alignment explanation
Indices: 127040--127089 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
127030 CGATCCGATT
127040 CGAATAACACATATC
1 CGAATAACACATATC
127055 CGAATAACACATA-C
1 CGAATAACACATATC
* * *
127069 TTGAATACCATATATC
1 -CGAATAACACATATC
127085 CGAAT
1 CGAAT
127090 TTTGATCTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 1 0.03
15 27 0.93
16 1 0.03
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (15 bp):
CGAATAACACATATC
Found at i:127535 original size:20 final size:20
Alignment explanation
Indices: 127498--127533 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
127488 GTTTCCCATT
127498 TTCCTCTCCATTTTCTCTTC
1 TTCCTCTCCATTTTCTCTTC
127518 TTCCTCT-C-TTTTCTCT
1 TTCCTCTCCATTTTCTCT
127534 CTAAATTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.03, C:0.39, G:0.00, T:0.58
Consensus pattern (20 bp):
TTCCTCTCCATTTTCTCTTC
Found at i:128864 original size:29 final size:29
Alignment explanation
Indices: 128813--128961 Score: 126
Period size: 29 Copynumber: 5.2 Consensus size: 29
128803 TGTTATTTTT
** *
128813 GGAATTAATTCGATTTTGGTGCTATTCTG
1 GGAATTAATTCGAAATAGGTGCTATTCTG
* *
128842 GGAATTAATTCGAAATAGTTGCTATTTTG
1 GGAATTAATTCGAAATAGGTGCTATTCTG
* * *
128871 GTAATT--TTCGGAAA-A-GTGATATTCAG
1 GGAATTAATTC-GAAATAGGTGCTATTCTG
* *
128897 GGAATTAATTCGAAATTGGTGCTATTTTG
1 GGAATTAATTCGAAATAGGTGCTATTCTG
* * * *
128926 GGAATTAATTTGAAAAATGTGCTATTTTG
1 GGAATTAATTCGAAATAGGTGCTATTCTG
*
128955 GTAATTA
1 GGAATTA
128962 TTTTAAAAAG
Statistics
Matches: 95, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
26 12 0.13
27 8 0.08
28 7 0.07
29 68 0.72
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (29 bp):
GGAATTAATTCGAAATAGGTGCTATTCTG
Found at i:128987 original size:29 final size:29
Alignment explanation
Indices: 128830--128981 Score: 114
Period size: 29 Copynumber: 5.3 Consensus size: 29
128820 ATTCGATTTT
* * * *
128830 GGTGCTATTCTGGGAATTAATTCGAAATA
1 GGTGCTATTTTGGTAATTAATTTGAAAAA
* * *
128859 GTTGCTATTTTGGTAATT--TTCGGAAAA
1 GGTGCTATTTTGGTAATTAATTTGAAAAA
* ** * * **
128886 -GTGATATTCAGGGAATTAATTCGAAATT
1 GGTGCTATTTTGGTAATTAATTTGAAAAA
*
128914 GGTGCTATTTTGGGAATTAATTTGAAAAA
1 GGTGCTATTTTGGTAATTAATTTGAAAAA
* *
128943 TGTGCTATTTTGGTAATT-ATTTTAAAAA
1 GGTGCTATTTTGGTAATTAATTTGAAAAA
128971 GGGTGCTATTT
1 -GGTGCTATTT
128982 GTGTAAAATG
Statistics
Matches: 96, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
26 12 0.12
27 7 0.07
28 15 0.16
29 62 0.65
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTTGAAAAA
Found at i:129965 original size:118 final size:118
Alignment explanation
Indices: 129755--129975 Score: 397
Period size: 118 Copynumber: 1.9 Consensus size: 118
129745 TTACTGTTAC
* *
129755 TGGGTGATTGGTGTGATTGGATGGGAAAGTTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
1 TGGGTGATTGGTGTGATTGGATGGAAAAATTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
*
129820 AAGTCCTTACTGGTGTGCAGGTGGGTGTACGGTTCTGAGGAACCTACACATTT
66 AAGTCCTTACTGGTGTGCAGGTAGGTGTACGGTTCTGAGGAACCTACACATTT
129873 TGGGTGATTGGTGTGATTGGATGGAAAAATTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
1 TGGGTGATTGGTGTGATTGGATGGAAAAATTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
* *
129938 AAGTCCTTACTGGTGTGCTGGTAGGTGTATGGTTCTGA
66 AAGTCCTTACTGGTGTGCAGGTAGGTGTACGGTTCTGA
129976 AAAATATACA
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 98 1.00
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (118 bp):
TGGGTGATTGGTGTGATTGGATGGAAAAATTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
AAGTCCTTACTGGTGTGCAGGTAGGTGTACGGTTCTGAGGAACCTACACATTT
Found at i:136050 original size:13 final size:13
Alignment explanation
Indices: 136032--136056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
136022 TGACCGGTCA
136032 TGACCCGACCCGT
1 TGACCCGACCCGT
136045 TGACCCGACCCG
1 TGACCCGACCCG
136057 ACCCGTTGGC
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:0.16, C:0.48, G:0.24, T:0.12
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:136056 original size:18 final size:18
Alignment explanation
Indices: 136033--136097 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
136023 GACCGGTCAT
136033 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
* *
136051 GACCCGACCCGTTGGCAC
1 GACCCGACCCGTTGACCC
*
136069 GACTCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
136087 GACCCGACCCG
1 GACCCGACCCG
136098 ACCCGTTGAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.17, C:0.48, G:0.25, T:0.11
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:136177 original size:29 final size:29
Alignment explanation
Indices: 136116--136279 Score: 136
Period size: 29 Copynumber: 5.7 Consensus size: 29
136106 ACGGTTGACC
*** *
136116 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGAAATA
136145 GGTGCTATTCTGGGAATTAATTCGAAATA
1 GGTGCTATTCTGGGAATTAATTCGAAATA
* * * *
136174 GGTGCTATTTTGGTAAGTT--TTTGAAAAAA
1 GGTGCTATTCTGGGAA-TTAATTCG-AAATA
* * * *
136203 AGTGATATTCTGGGAATTAATTCAAAATT
1 GGTGCTATTCTGGGAATTAATTCGAAATA
* *
136232 GGTGCTATTTTGGGAATTAATTTGAAA-A
1 GGTGCTATTCTGGGAATTAATTCGAAATA
* *
136260 GTGTGCTATTTTGGTAATTA
1 G-GTGCTATTCTGGGAATTA
136280 TTTTAAAAAG
Statistics
Matches: 107, Mismatches: 23, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
28 6 0.06
29 97 0.91
30 4 0.04
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.41
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAATA
Found at i:136279 original size:58 final size:58
Alignment explanation
Indices: 136146--136299 Score: 170
Period size: 58 Copynumber: 2.7 Consensus size: 58
136136 TTCGGTTTTG
* *
136146 GTGCTATTCTGGGAATTAATTCGAAATAGGTGCTATTTTGGTAAGTTTTTGAAAAAAA
1 GTGCTATTCTGGGAATTAATTCAAAATAGGTGCTATTTTGGGAAGTTTTTGAAAAAAA
* * **
136204 GTGATATTCTGGGAATTAATTCAAAATTGGTGCTATTTTGGGAA-TTAATTTG-AAAAGT
1 GTGCTATTCTGGGAATTAATTCAAAATAGGTGCTATTTTGGGAAGTT--TTTGAAAAAAA
* * * *
136262 GTGCTATTTTGGTAATTATTTTAAAA-AGGGTGCTATTT
1 GTGCTATTCTGGGAATTAATTCAAAATA-GGTGCTATTT
136300 GTGTAAAATG
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
57 2 0.02
58 75 0.93
59 4 0.05
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (58 bp):
GTGCTATTCTGGGAATTAATTCAAAATAGGTGCTATTTTGGGAAGTTTTTGAAAAAAA
Found at i:136305 original size:29 final size:29
Alignment explanation
Indices: 136145--136299 Score: 118
Period size: 29 Copynumber: 5.3 Consensus size: 29
136135 ATTCGGTTTT
* * * *
136145 GGTGCTATTCTGGGAATTAATTCGAAATA-
1 GGTGCTATTTTGGTAATTAATT-TAAAAAG
*
136174 GGTGCTATTTTGGTAAGTT--TTTGAAAAAA
1 GGTGCTATTTTGGTAA-TTAATTT-AAAAAG
* * * * * **
136203 AGTGATATTCTGGGAATTAATTCAAAATT
1 GGTGCTATTTTGGTAATTAATTTAAAAAG
* *
136232 GGTGCTATTTTGGGAATTAATTTGAAAAG
1 GGTGCTATTTTGGTAATTAATTTAAAAAG
* *
136261 TGTGCTATTTTGGTAATTATTTTAAAAAG
1 GGTGCTATTTTGGTAATTAATTTAAAAAG
136290 GGTGCTATTT
1 GGTGCTATTT
136300 GTGTAAAATG
Statistics
Matches: 98, Mismatches: 23, Indels: 10
0.75 0.18 0.08
Matches are distributed among these distances:
28 8 0.08
29 86 0.88
30 4 0.04
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.41
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTTAAAAAG
Found at i:137268 original size:118 final size:118
Alignment explanation
Indices: 137058--137277 Score: 397
Period size: 118 Copynumber: 1.9 Consensus size: 118
137048 TTACTGTTAC
*
137058 TGGGTGATTGGTGTGATTGGATGGGAAAGTTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
1 TGGGTGATTGGTGTGATTGGATGGAAAAGTTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
*
137123 AAGTCCTTACTGGTGTGCAGGTGGGTGTACGGTTCTGAGGAACCTACACGTTT
66 AAGTCCTTACTGGTGTGCAGGTAGGTGTACGGTTCTGAGGAACCTACACGTTT
137176 TGGGTGATTGGTGTGATTGGATGGAAAAGTTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
1 TGGGTGATTGGTGTGATTGGATGGAAAAGTTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
*
137241 AAGTCCTTACTGGTGTG-ATGGTAGGTGTATGGTTCTG
66 AAGTCCTTACTGGTGTGCA-GGTAGGTGTACGGTTCTG
137278 GAAAATATAC
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
117 1 0.01
118 97 0.99
ACGTcount: A:0.18, C:0.15, G:0.34, T:0.33
Consensus pattern (118 bp):
TGGGTGATTGGTGTGATTGGATGGAAAAGTTATTACCGCAGGCTCCTCAGCTTTGTGCTCAGGGT
AAGTCCTTACTGGTGTGCAGGTAGGTGTACGGTTCTGAGGAACCTACACGTTT
Found at i:141103 original size:57 final size:56
Alignment explanation
Indices: 140987--141103 Score: 146
Period size: 57 Copynumber: 2.1 Consensus size: 56
140977 TTATGAATGA
* ** *
140987 AATTTAATTTTGGTCTGACTCGAAGTTAAAAGTACTCTATTTTATCTGGATATTAT
1 AATTTAATTTTGGTCTGACTAGAAGTTAAAAGTACTCTATTTTATCTCAAAATTAT
* * *
141043 AATTTAAATTTTGGTCTTACTAGAAGTTAAAAGTACTTTTTATTTATCTCAAAATT-T
1 AATTT-AATTTTGGTCTGACTAGAAGTTAAAAGTACTCTAT-TTTATCTCAAAATTAT
141100 AATT
1 AATT
141104 AAAAATCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 5 0.10
57 36 0.69
58 11 0.21
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.46
Consensus pattern (56 bp):
AATTTAATTTTGGTCTGACTAGAAGTTAAAAGTACTCTATTTTATCTCAAAATTAT
Found at i:145016 original size:2 final size:2
Alignment explanation
Indices: 145009--145037 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
144999 ATGGGATCTG
145009 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
145038 AAAACAATTC
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:147137 original size:60 final size:60
Alignment explanation
Indices: 147039--147184 Score: 190
Period size: 60 Copynumber: 2.5 Consensus size: 60
147029 TTTATAGGAT
* **
147039 AAAG-TACACAAATGATCCTC-AACTATAGTACGTTGCTTTATTGAATCATTTGACTATTA
1 AAAGTTACA-AAATGATCCTCTAACTATAGGACGTTGCTTTATTGAATCATCCGACTATTA
** * *
147098 AAAGTTACAAAATGATCCTCTAACTATAGGGTGTTGCTTTGTTGATTCATCCGACTATTA
1 AAAGTTACAAAATGATCCTCTAACTATAGGACGTTGCTTTATTGAATCATCCGACTATTA
147158 AAAGTTACAAAATGATCAC-CTAACTAT
1 AAAGTTACAAAATGATC-CTCTAACTAT
147185 TCATATGTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
59 15 0.19
60 61 0.79
61 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (60 bp):
AAAGTTACAAAATGATCCTCTAACTATAGGACGTTGCTTTATTGAATCATCCGACTATTA
Found at i:149183 original size:1 final size:1
Alignment explanation
Indices: 149177--149201 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
149167 GCAACCATCG
149177 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
149202 TAGAACGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:161934 original size:14 final size:16
Alignment explanation
Indices: 161910--161953 Score: 65
Period size: 15 Copynumber: 2.8 Consensus size: 16
161900 AAAATGAGTG
161910 AAAATGAAAAAA-ATAA
1 AAAATGAAAAAATA-AA
161926 AAAAT-AAAAAATAAA
1 AAAATGAAAAAATAAA
161941 AAAATGAAAAAAT
1 AAAATGAAAAAAT
161954 GGAAAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAATGAAAAAATAAA
Found at i:161942 original size:23 final size:23
Alignment explanation
Indices: 161910--161953 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
161900 AAAATGAGTG
161910 AAAATGAAAAAAAT-AAAAAATAA
1 AAAAT-AAAAAAATGAAAAAATAA
161933 AAAATAAAAAAATGAAAAAAT
1 AAAATAAAAAAATGAAAAAAT
161954 GGAAAAAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (23 bp):
AAAATAAAAAAATGAAAAAATAA
Found at i:161954 original size:8 final size:8
Alignment explanation
Indices: 161910--161961 Score: 63
Period size: 7 Copynumber: 6.5 Consensus size: 8
161900 AAAATGAGTG
161910 AAAATGAAA
1 AAAATG-AA
161919 AAAAT-AA
1 AAAATGAA
161926 AAAAT-AA
1 AAAATGAA
*
161933 AAAATAAA
1 AAAATGAA
161941 AAAATGAA
1 AAAATGAA
161949 AAAATGGAA
1 AAAAT-GAA
161958 AAAA
1 AAAA
161962 GGAAGGGTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
7 14 0.35
8 14 0.35
9 12 0.30
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (8 bp):
AAAATGAA
Found at i:161959 original size:23 final size:23
Alignment explanation
Indices: 161909--161959 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
161899 AAAAATGAGT
161909 GAAAATGAAAAAAATAAAAAATA
1 GAAAATGAAAAAAATAAAAAATA
* *
161932 AAAAAT-AAAAAAATGAAAAAATG
1 GAAAATGAAAAAAAT-AAAAAATA
161955 GAAAA
1 GAAAA
161960 AAGGAAGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (23 bp):
GAAAATGAAAAAAATAAAAAATA
Found at i:163239 original size:164 final size:165
Alignment explanation
Indices: 162962--163487 Score: 824
Period size: 164 Copynumber: 3.2 Consensus size: 165
162952 CAACGATAAT
* * * * *
162962 TGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTGTTGAAGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGACACGATTGATGAAGATTGT
*
163027 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAAATTGTTCGAGTCTTA
66 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTA
*
163092 TACTCTCTGAAGAAATA-GGAGCAGACACGATTGT
131 TACTCTCTGAAGAAATAGGGAGCAGACACGATTGA
*
163126 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGACACGATTGATGAAAATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGACACGATTGATGAAGATTGT
* *
163191 TCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGACTGTTGAAGATTGTTCGAGTCTTA
66 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTA
*
163256 TACTCTCTGCAGAAATAGGGAGCAGACACGATTGA
131 TACTCTCTGAAGAAATAGGGAGCAGACACGATTGA
* *
163291 TGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATGGGGAGCAGACACGGTTGATGAAGA-TGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGACACGATTGATGAAGATTGT
* * * *
163355 TCGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGAGTTGTTGAAGATTGTTTGGGTCTT
66 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA-TTGTTGAAGATTGTTCGAGTCTT
* * *
163420 ATACTCTCTGAGGAAATAGGGAACAAACACGATTGA
130 ATACTCTCTGAAGAAATAGGGAGCAGACACGATTGA
*
163456 TGAAGATTGTTCGAGT-TCTATACTCCCTGAAG
1 TGAAGATTGTTCGAGTCT-TATACTCTCTGAAG
163488 AAAGAGGGAA
Statistics
Matches: 333, Mismatches: 26, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
164 179 0.54
165 154 0.46
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (165 bp):
TGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGACACGATTGATGAAGATTGT
TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTA
TACTCTCTGAAGAAATAGGGAGCAGACACGATTGA
Found at i:163497 original size:55 final size:55
Alignment explanation
Indices: 162961--163496 Score: 799
Period size: 55 Copynumber: 9.8 Consensus size: 55
162951 CCAACGATAA
* *
162961 TTGAAGATTGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACGCGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
163016 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
*
163071 TTGAAAATTGTTCGAGTCTTATACTCTCTGAAGAAATA-GGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* *
163125 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATGGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * *
163180 ATGAAAATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGACTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
*
163235 TTGAAGATTGTTCGAGTCTTATACTCTCTGCAGAAATAGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * * *
163290 ATGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATGGGGAGCAGACACGGTTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * *
163345 ATGAAGA-TGTTCGGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACAAGAGTTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGA-TTG
* * * * *
163400 TTGAAGATTGTTTGGGTCTTATACTCTCTGAGGAAATAGGGAACAAACACGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * *
163455 ATGAAGATTGTTCGAGT-TCTATACTCCCTGAAGAAAGAGGGA
1 TTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGA
163497 ATGAACTCGT
Statistics
Matches: 438, Mismatches: 39, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
54 90 0.21
55 309 0.71
56 39 0.09
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (55 bp):
TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
Found at i:164500 original size:1 final size:1
Alignment explanation
Indices: 164494--164519 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
164484 GCAACCATCG
164494 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
164520 TAGAACGACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:168556 original size:19 final size:20
Alignment explanation
Indices: 168513--168549 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
168503 GGATGAAATC
*
168513 AAAATAAATGCAAAATATGA
1 AAAATAAATGAAAAATATGA
168533 AAAAT-AATGAAAAATAT
1 AAAATAAATGAAAAATAT
168550 AATAAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.22
Consensus pattern (20 bp):
AAAATAAATGAAAAATATGA
Found at i:168630 original size:18 final size:17
Alignment explanation
Indices: 168601--168747 Score: 65
Period size: 16 Copynumber: 8.6 Consensus size: 17
168591 ATAATTTAAG
168601 TTTATATATAAACTATA
1 TTTATATATAAACTATA
168618 TTTATATTATAAACTATA
1 TTTATA-TATAAACTATA
* *
168636 TATGCATAAACTATAAAAAGTATA
1 T-T---T--A-TATATAAACTATA
*
168660 GTT-T-TATAAA-TATA
1 TTTATATATAAACTATA
* *
168674 TATATATATATA-TATA
1 TTTATATATAAACTATA
* *
168690 TATATATATAGA-TATA
1 TTTATATATAAACTATA
* *
168706 TATATATATATA-TATA
1 TTTATATATAAACTATA
* *
168722 TATATATATATA-TATA
1 TTTATATATAAACTATA
*
168738 TATATATATA
1 TTTATATATA
168748 TAGTTTATAA
Statistics
Matches: 111, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
14 5 0.05
15 6 0.05
16 66 0.59
17 6 0.05
18 12 0.11
19 1 0.01
20 1 0.01
22 1 0.01
23 1 0.01
24 10 0.09
25 2 0.02
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
TTTATATATAAACTATA
Found at i:168676 original size:2 final size:2
Alignment explanation
Indices: 168664--168820 Score: 160
Period size: 2 Copynumber: 79.0 Consensus size: 2
168654 AGTATAGTTT
* *
168664 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
168706 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
168748 TA GTT TA TA AA T- TA TA AA TA TA TA -A TGG TA TA TA TA TG TA TG
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
* **
168790 TA TA CTA AA TA CC TA TA T- TA TA TA TA T- TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
168821 GTTTATAGAA
Statistics
Matches: 126, Mismatches: 22, Indels: 14
0.78 0.14 0.09
Matches are distributed among these distances:
1 4 0.03
2 118 0.94
3 4 0.03
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:169004 original size:2 final size:2
Alignment explanation
Indices: 168999--169036 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
168989 AATATGCACA
*
168999 AT AT AT AT AA ACT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A
169037 AAAATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 32 0.97
3 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:169296 original size:11 final size:11
Alignment explanation
Indices: 169284--169328 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 11
169274 TACATGTATG
*
169284 TATAAACTATG
1 TATAAACTATA
169295 TAT-AA-TATA
1 TATAAACTATA
169304 TATAAACTATA
1 TATAAACTATA
*
169315 TATATA-TATA
1 TATAAACTATA
169325 TATA
1 TATA
169329 TATATATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 6 0.20
10 12 0.40
11 12 0.40
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (11 bp):
TATAAACTATA
Found at i:169306 original size:2 final size:2
Alignment explanation
Indices: 169295--169355 Score: 74
Period size: 2 Copynumber: 31.0 Consensus size: 2
169285 ATAAACTATG
*
169295 TA TA -A TA TA TA TA AA CTA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
169337 -A TA TA TA TA GTA T- TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA
169356 CAATCTATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
1 3 0.06
2 46 0.88
3 3 0.06
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:169329 original size:23 final size:23
Alignment explanation
Indices: 169295--169386 Score: 79
Period size: 23 Copynumber: 4.0 Consensus size: 23
169285 ATAAACTATG
169295 TATA-ATATATATAAACTATATA
1 TATATATATATATAAACTATATA
*
169317 TATATATATATATATA-TATAATA
1 TATATATATATATAAACTAT-ATA
169340 TATATAGTATTATATACAATCTAT-T-
1 TATATA-TA-TATATA-AA-CTATATA
*
169365 TATATGT-TATAT-AACTATATA
1 TATATATATATATAAACTATATA
169386 T
1 T
169387 GTAACCTATA
Statistics
Matches: 58, Mismatches: 3, Indels: 19
0.73 0.04 0.24
Matches are distributed among these distances:
19 4 0.07
20 3 0.05
21 1 0.02
22 12 0.21
23 19 0.33
24 3 0.05
25 11 0.19
26 2 0.03
28 3 0.05
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (23 bp):
TATATATATATATAAACTATATA
Found at i:169450 original size:21 final size:21
Alignment explanation
Indices: 169426--169478 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
169416 TAGTGTACTA
* *
169426 TATAGTTTATACTTTATAACC
1 TATAGTTTATAATTTATAAAC
*
169447 TATAGTATATAATTTATAAAC
1 TATAGTTTATAATTTATAAAC
169468 TATAGTTTATA
1 TATAGTTTATA
169479 TTAATGTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.47
Consensus pattern (21 bp):
TATAGTTTATAATTTATAAAC
Found at i:169491 original size:20 final size:21
Alignment explanation
Indices: 169406--169507 Score: 75
Period size: 21 Copynumber: 4.8 Consensus size: 21
169396 AGTTTAAACA
*
169406 ATAGTTTATA-TAGTGTACTAT
1 ATAGTTTATATTAATGTAC-AT
* * *
169427 ATAGTTTATACTTTAT-AACCT
1 ATAGTTTATA-TTAATGTACAT
* * **
169448 ATAGTATATAATTTATAAAC-T
1 ATAGTTTAT-ATTAATGTACAT
169469 ATAGTTTATATTAATGTACTAT
1 ATAGTTTATATTAATGTAC-AT
169491 ATAGTTTATATTAATGT
1 ATAGTTTATATTAATGT
169508 TAATTATCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
20 7 0.11
21 33 0.50
22 24 0.36
23 2 0.03
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (21 bp):
ATAGTTTATATTAATGTACAT
Done.