Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002189.1 Hibiscus syriacus cultivar Beakdansim tig00004457_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: 292373
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:105 original size:3 final size:3
Alignment explanation
Indices: 99--174 Score: 104
Period size: 3 Copynumber: 25.7 Consensus size: 3
89 TTTTTATCCA
*
99 TAT TAT TAT TAT TAA TAT TAT TAT TAT CT-T TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
143 TCAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TA
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
175 ATTTATATTA
Statistics
Matches: 66, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
2 5 0.08
3 57 0.86
4 4 0.06
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:684 original size:21 final size:22
Alignment explanation
Indices: 660--710 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
650 AAAAACAGAG
* * *
660 AGAAAAAACAGAGA-ACGGAAA
1 AGAAAAAACAAACACACAGAAA
681 AGAAAAAACAAACACACAGAAA
1 AGAAAAAACAAACACACAGAAA
703 AGAAAAAA
1 AGAAAAAA
711 ATACTAACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.73, C:0.12, G:0.16, T:0.00
Consensus pattern (22 bp):
AGAAAAAACAAACACACAGAAA
Found at i:12973 original size:5 final size:5
Alignment explanation
Indices: 12963--13048 Score: 69
Period size: 5 Copynumber: 18.0 Consensus size: 5
12953 TGCTTGAAGA
12963 AAAAG AAAAG AAAAAG AAAAG -AAAG AAAAG -AAA- AAAA- AAAAG AAAA-
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
* * *
13009 AAAA- AAATAG AAAAT AGAA- AAAAG AGAAG AAAAAG AAAAG
1 AAAAG AAA-AG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG
13049 GGGGTCAAGG
Statistics
Matches: 68, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
4 24 0.35
5 32 0.47
6 12 0.18
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:12975 original size:11 final size:11
Alignment explanation
Indices: 12959--13048 Score: 84
Period size: 11 Copynumber: 8.3 Consensus size: 11
12949 ATTATGCTTG
12959 AAGAAAAAGAA
1 AAGAAAAAGAA
12970 AAGAAAAAGAA
1 AAGAAAAAGAA
12981 AAG--AAAGAA
1 AAGAAAAAGAA
12990 AAGAAAAA-AA
1 AAGAAAAAGAA
13000 AA-AAGAAA-AA
1 AAGAA-AAAGAA
13010 AA-AAAATAGAAA
1 AAGAAAA-AG-AA
*
13022 ATAGAAAAAAGAG
1 A-AG-AAAAAGAA
13035 AAGAAAAAGAA
1 AAGAAAAAGAA
13046 AAG
1 AAG
13049 GGGGTCAAGG
Statistics
Matches: 68, Mismatches: 2, Indels: 18
0.77 0.02 0.20
Matches are distributed among these distances:
9 13 0.19
10 14 0.21
11 27 0.40
12 5 0.07
13 3 0.04
14 2 0.03
15 4 0.06
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:12989 original size:20 final size:20
Alignment explanation
Indices: 12964--13022 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
12954 GCTTGAAGAA
12964 AAAGAAAAGAAAAAGAAAAG
1 AAAGAAAAGAAAAAGAAAAG
*
12984 AAAGAAAAGAAAAAAAAAAAG
1 AAAGAAAAG-AAAAAGAAAAG
13005 AAA-AAAA-AAAATAGAAAA
1 AAAGAAAAGAAAA-AGAAAA
13023 TAGAAAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 4 0.11
19 5 0.14
20 13 0.37
21 13 0.37
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.02
Consensus pattern (20 bp):
AAAGAAAAGAAAAAGAAAAG
Found at i:13010 original size:33 final size:34
Alignment explanation
Indices: 12962--13048 Score: 119
Period size: 32 Copynumber: 2.6 Consensus size: 34
12952 ATGCTTGAAG
12962 AAAAAGAAAAGAAAAAGAAAAGAAAG-AAA-AGA
1 AAAAAGAAAAGAAAAAGAAAAGAAAGAAAATAGA
*
12994 AAAAAAAAAAGAAAAA-AAAA-AATAGAAAATAGA
1 AAAAAGAAAAGAAAAAGAAAAGAA-AGAAAATAGA
*
13027 AAAAAGAGAAGAAAAAGAAAAG
1 AAAAAGAAAAGAAAAAGAAAAG
13049 GGGGTCAAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
30 2 0.04
31 6 0.13
32 18 0.38
33 17 0.36
34 4 0.09
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (34 bp):
AAAAAGAAAAGAAAAAGAAAAGAAAGAAAATAGA
Found at i:13022 original size:7 final size:7
Alignment explanation
Indices: 12968--13033 Score: 61
Period size: 7 Copynumber: 9.9 Consensus size: 7
12958 GAAGAAAAAG
12968 AAAAG-A
1 AAAAGAA
12974 AAAAGAA
1 AAAAGAA
*
12981 AAGAA-AG
1 AA-AAGAA
12988 AAAAG-A
1 AAAAGAA
12994 AAAA-AA
1 AAAAGAA
13000 AAAAGAA
1 AAAAGAA
13007 AAAA-AA
1 AAAAGAA
13013 AAATAGAA
1 AAA-AGAA
*
13021 AATAGAA
1 AAAAGAA
13028 AAAAGA
1 AAAAGA
13034 GAAGAAAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
6 21 0.43
7 22 0.45
8 6 0.12
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (7 bp):
AAAAGAA
Found at i:13029 original size:20 final size:17
Alignment explanation
Indices: 12962--13047 Score: 73
Period size: 18 Copynumber: 4.6 Consensus size: 17
12952 ATGCTTGAAG
12962 AAAAAGAAAAGAAAAAGAA
1 AAAAAGAAAA-AAAAA-AA
*
12981 AAGAAAGAAAAGAAAAAA
1 AA-AAAGAAAAAAAAAAA
12999 AAAAAGAAAAAAAAAAATA
1 AAAAAG-AAAAAAAAAA-A
* *
13018 GAAAATAGAAAAAAGAGAAG
1 -AAAA-AGAAAAAA-AAAAA
13038 AAAAAGAAAA
1 AAAAAGAAAA
13048 GGGGGTCAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
17 4 0.07
18 19 0.33
19 11 0.19
20 18 0.32
21 5 0.09
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAA
Found at i:14382 original size:83 final size:82
Alignment explanation
Indices: 14153--14517 Score: 554
Period size: 83 Copynumber: 4.4 Consensus size: 82
14143 CTGTGATATC
** *
14153 GCAGAACAATCATTGAAAATGGAAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAG
1 GCAGAACAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
14218 TTATCTGACCTGGTTTA
66 TTATCTGACCTGGTTTA
*
14235 GCAGAACATTCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
1 GCAGAACAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
14300 TTATCTGACCTGGTTTA
66 TTATCTGACCTGGTTTA
*
14317 GCAGAACCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 GCAGAA-CAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGA
* * *
14382 GTTATTTGATCTGATTATA
65 GTTATCTGACCTGGTT-TA
* * *
14401 -TAGAACCAAGCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTTTTTGA
1 GCAGAA-CAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGA
* *
14465 GTTATCTGATCTGG-TTG
65 GTTATCTGACCTGGTTTA
*
14482 GATAGAACAATCATTGAATTTGGAAGATGAATTTGC
1 G-CAGAACAATCATTGAATTTGGAAGATGAATTTGC
14518 TCATAGTAAA
Statistics
Matches: 264, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
81 1 0.00
82 113 0.43
83 148 0.56
84 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (82 bp):
GCAGAACAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
TTATCTGACCTGGTTTA
Found at i:15271 original size:113 final size:113
Alignment explanation
Indices: 15046--16145 Score: 1675
Period size: 113 Copynumber: 9.7 Consensus size: 113
15036 TCAAATCCAC
*
15046 TTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCA-ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* * * ** * *
15111 AAGTTCATAATGAGAAGAACTTGTTCTACTTTTTGTTTAAATTCATCAT
65 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
* * *
15160 TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
15225 AATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCAT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
* * *
15273 TTGGTGAATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
15338 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCGTCAT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
*
15386 TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * ** * *
15451 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
* * *
15499 TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
15564 AATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCAT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
* * *
15612 TTGGTGAATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
15677 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCGTCAT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
*
15725 TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * * ** * *
15790 TGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
* * *
15838 TTGATGGATC-ACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
15902 AATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCAT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
* * *
15950 TTGGTGAATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
16015 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCAT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
* *
16063 TTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AG
1 TTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
16126 AAAGTTCATAATGAGAAGAA
65 -AAGTTCATAATGAGAAGAA
16146 CTCATCAAGA
Statistics
Matches: 891, Mismatches: 92, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
112 100 0.11
113 780 0.88
114 11 0.01
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
TTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
Found at i:15679 original size:339 final size:339
Alignment explanation
Indices: 15046--16147 Score: 2075
Period size: 339 Copynumber: 3.3 Consensus size: 339
15036 TCAAATCCAC
*
15046 TTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCA-GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
*
15111 AAGTTCATAATGAGAAGAACTTGTTCTACTTTTTGTTTAAATTCATCATTTGATGGATCAACATT
65 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATT
15176 GCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAG
130 GCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAG
15241 AATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGAATCATCTTTTCCAGAGAAAGTTCATA
195 AATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGAATCATCTTTTCCAGAGAAAGTTCATA
15306 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
260 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
15371 ACTTGAATCCGTCAT
325 ACTTGAATCCGTCAT
15386 TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
15451 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTG
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTG
15516 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
131 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
15581 ATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGAATCATCTTTTCCAGAGAAAGTTCATAA
196 ATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGAATCATCTTTTCCAGAGAAAGTTCATAA
15646 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTA
261 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTA
15711 CTTGAATCCGTCAT
326 CTTGAATCCGTCAT
15725 TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
15790 TGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATC-ACATTG
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTG
15854 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
131 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
15919 ATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGAATCATCTTTTCCAGAGAAAGTTCATAA
196 ATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGAATCATCTTTTCCAGAGAAAGTTCATAA
*
15984 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
261 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTA
* *
16049 CTTGAATTCATCAT
326 CTTGAATCCGTCAT
* * *
16063 TTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AG
1 TTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
16126 AAAGTTCATAATGAGAAGAACT
65 -AAGTTCATAATGAGAAGAACT
16148 CATCAAGAGC
Statistics
Matches: 750, Mismatches: 10, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
337 3 0.00
338 288 0.38
339 448 0.60
340 11 0.01
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (339 bp):
TTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTG
CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
ATTTGTTCAACCTTTTACCTGAATCCATCATTTGGTGAATCATCTTTTCCAGAGAAAGTTCATAA
TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTA
CTTGAATCCGTCAT
Found at i:16401 original size:3 final size:3
Alignment explanation
Indices: 16395--16472 Score: 111
Period size: 3 Copynumber: 25.7 Consensus size: 3
16385 TTTTTATCCA
* **
16395 TAT TAT TAT TAA TAT TAT TAT CCT TAT TAT TAT TAAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
*
16441 CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
16473 ATTTATATTA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:17364 original size:28 final size:28
Alignment explanation
Indices: 17326--17389 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
17316 GAGAGAGGGC
17326 AGAGAGAAATTTGTTCTCTCTCAGTTAG
1 AGAGAGAAATTTGTTCTCTCTCAGTTAG
17354 AGAGAGAAATTTGTTCTCTCTCAGTTAG
1 AGAGAGAAATTTGTTCTCTCTCAGTTAG
17382 AGAGAGAA
1 AGAGAGAA
17390 CAGAAATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (28 bp):
AGAGAGAAATTTGTTCTCTCTCAGTTAG
Found at i:20480 original size:21 final size:23
Alignment explanation
Indices: 20451--20494 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
20441 CCATTTGAAA
20451 AATTGAATT-TAAATATT-TTAT
1 AATTGAATTATAAATATTCTTAT
* *
20472 AATTTAATTATTAATATTCTTAT
1 AATTGAATTATAAATATTCTTAT
20495 TTCTTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
AATTGAATTATAAATATTCTTAT
Found at i:20904 original size:2 final size:2
Alignment explanation
Indices: 20897--20928 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20887 TAAATTATCA
20897 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
20929 GATAATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21305 original size:30 final size:30
Alignment explanation
Indices: 21269--21325 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
21259 GTATCCGTCG
* * *
21269 AAAGTCACTGGGAACACAATGTGTCTTTAA
1 AAAGTCACCGGAAAAACAATGTGTCTTTAA
*
21299 AAAGTCACCGGAAAAACAGTGTGTCTT
1 AAAGTCACCGGAAAAACAATGTGTCTT
21326 CAGCTTTGTT
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:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (30 bp):
AAAGTCACCGGAAAAACAATGTGTCTTTAA
Found at i:21942 original size:14 final size:14
Alignment explanation
Indices: 21923--21963 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
21913 CATATAAACG
* *
21923 TAATTTTATTTTCA
1 TAATTTTAATTTAA
21937 TAA-TTTAATTTAA
1 TAATTTTAATTTAA
21950 TAATTTTAATTTAA
1 TAATTTTAATTTAA
21964 CTCACGAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTTTAATTTAA
Found at i:30591 original size:18 final size:17
Alignment explanation
Indices: 30564--30597 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30554 TTTTTGTAGT
30564 AGTTATAAGTACAGAAC
1 AGTTATAAGTACAGAAC
*
30581 AGTTGATAAGTGCAGAA
1 AGTT-ATAAGTACAGAA
30598 AGGAAGATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.24
Consensus pattern (17 bp):
AGTTATAAGTACAGAAC
Found at i:39551 original size:21 final size:23
Alignment explanation
Indices: 39496--39552 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 23
39486 AATTTAAAAG
*
39496 AAAAGAAAATGACACCATTTTTA
1 AAAAGAAATTGACACCATTTTTA
**
39519 AAAAGATTTTGAC-CC-TTTTTA
1 AAAAGAAATTGACACCATTTTTA
39540 AAAAGAAATTGAC
1 AAAAGAAATTGAC
39553 TCTACATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 17 0.59
22 2 0.07
23 10 0.34
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (23 bp):
AAAAGAAATTGACACCATTTTTA
Found at i:39755 original size:26 final size:29
Alignment explanation
Indices: 39702--39755 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
39692 AATTAAAAAA
*
39702 ATTAAACAATATTATCTTATAATCTATTGT
1 ATTAAACAATATTATCATATAA-CTATTGT
39732 ATTAAA-AATATTAT-ATATAA-TATT
1 ATTAAACAATATTATCATATAACTATT
39756 TAACTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 4 0.17
28 5 0.22
29 8 0.35
30 6 0.26
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (29 bp):
ATTAAACAATATTATCATATAACTATTGT
Found at i:40300 original size:26 final size:25
Alignment explanation
Indices: 40270--40324 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
40260 ATAAATATTT
* *
40270 ATAATTAAATTTGAACTGAAACTCAA
1 ATAATTAAATTCGAACAG-AACTCAA
* *
40296 ATAATTTAATTCGAACAGAATTCAA
1 ATAATTAAATTCGAACAGAACTCAA
40321 ATAA
1 ATAA
40325 AATTTAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (25 bp):
ATAATTAAATTCGAACAGAACTCAA
Found at i:40801 original size:3 final size:3
Alignment explanation
Indices: 40793--40828 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
40783 AGGATTATAT
40793 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
40829 CTATATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:43180 original size:22 final size:24
Alignment explanation
Indices: 43135--43182 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
43125 ACGTATTTCC
* *
43135 TTAATAATTTAATTTTTTTTAATT
1 TTAATAATTTAATTTATTTAAATT
43159 TTAA-AATTT-ATTTATTTAAATT
1 TTAATAATTTAATTTATTTAAATT
43181 TT
1 TT
43183 TTGAGTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 5 0.23
24 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTAATAATTTAATTTATTTAAATT
Found at i:43207 original size:16 final size:16
Alignment explanation
Indices: 43188--43220 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
43178 ATTTTTTGAG
*
43188 TAATTTTTTTTATATT
1 TAATTTTTTCTATATT
43204 TAATTTTTTCTATATT
1 TAATTTTTTCTATATT
43220 T
1 T
43221 GATATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TAATTTTTTCTATATT
Found at i:43799 original size:3 final size:3
Alignment explanation
Indices: 43791--43822 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
43781 ATTGAGTTAA
43791 ATT ATT ATT ATT ATT -TT ATT ATT ATT -TT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
43823 AGAATTATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:43809 original size:11 final size:11
Alignment explanation
Indices: 43795--43822 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
43785 AGTTAAATTA
43795 TTATTATTATT
1 TTATTATTATT
43806 TTATTATTATT
1 TTATTATTATT
43817 TTATTA
1 TTATTA
43823 AGAATTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTATT
Found at i:45592 original size:18 final size:18
Alignment explanation
Indices: 45569--45612 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
45559 TAATATTTGT
45569 AAATATT-AAATTTTAAAA
1 AAATATTAAAATTTT-AAA
*
45587 AAATATTTAAAATTTTTAA
1 AAATA-TTAAAATTTTAAA
45606 AAATATT
1 AAATATT
45613 TACTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 9 0.39
20 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATTAAAATTTTAAA
Found at i:45601 original size:20 final size:19
Alignment explanation
Indices: 45576--45614 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
45566 TGTAAATATT
45576 AAATTTTAAAAAAATATTTA
1 AAATTTT-AAAAAATATTTA
*
45596 AAATTTTTAAAAATATTTA
1 AAATTTTAAAAAATATTTA
45615 CTAATTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTTTAAAAAATATTTA
Found at i:45667 original size:14 final size:14
Alignment explanation
Indices: 45657--45686 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45647 AGTATTTTAT
45657 CCGAATAATTTCAC
1 CCGAATAATTTCAC
45671 CCGAATAATTTCAC
1 CCGAATAATTTCAC
45685 CC
1 CC
45687 AACATATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (14 bp):
CCGAATAATTTCAC
Found at i:45828 original size:13 final size:13
Alignment explanation
Indices: 45789--45846 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
45779 ATTTCTATAT
45789 AAAT-AATTAATC
1 AAATCAATTAATC
*
45801 AAATCAAATT-TTC
1 AAATC-AATTAATC
45814 AAATCAATTAATC
1 AAATCAATTAATC
* *
45827 AAATTAATTGATC
1 AAATCAATTAATC
45840 AAATCAA
1 AAATCAA
45847 CTACTGAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
12 8 0.21
13 26 0.68
14 4 0.11
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (13 bp):
AAATCAATTAATC
Found at i:45841 original size:26 final size:26
Alignment explanation
Indices: 45789--45846 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
45779 ATTTCTATAT
*
45789 AAAT-AATTAATCAAATCAAATTTTC
1 AAATCAATTAATCAAATCAAATTATC
*
45814 AAATCAATTAATCAAAT-TAATTGATC
1 AAATCAATTAATCAAATCAAATT-ATC
45840 AAATCAA
1 AAATCAA
45847 CTACTGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (26 bp):
AAATCAATTAATCAAATCAAATTATC
Found at i:68778 original size:47 final size:47
Alignment explanation
Indices: 68709--68805 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
68699 AAACATTTGT
68709 AAATATTTTATAACCATACCTCAAACACAAAACAACTTAATAAGCAA
1 AAATATTTTATAACCATACCTCAAACACAAAACAACTTAATAAGCAA
68756 AAATATTTTATAACCATACCTCAAACACAAAACAACTTAATAAGCAA
1 AAATATTTTATAACCATACCTCAAACACAAAACAACTTAATAAGCAA
68803 AAA
1 AAA
68806 CACCAAGTAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.55, C:0.21, G:0.02, T:0.23
Consensus pattern (47 bp):
AAATATTTTATAACCATACCTCAAACACAAAACAACTTAATAAGCAA
Found at i:68826 original size:21 final size:21
Alignment explanation
Indices: 68795--68839 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
68785 AAACAACTTA
68795 ATAAGCAAAAACACCAAGTAGC
1 ATAAGCAAAAACACCAAGTA-C
68817 ATAA-CAAAAACACCAAGTAC
1 ATAAGCAAAAACACCAAGTAC
68837 ATA
1 ATA
68840 CACTACAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.17
21 15 0.65
22 4 0.17
ACGTcount: A:0.58, C:0.22, G:0.09, T:0.11
Consensus pattern (21 bp):
ATAAGCAAAAACACCAAGTAC
Found at i:71748 original size:20 final size:20
Alignment explanation
Indices: 71723--71777 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
71713 GCGAAATAAA
71723 AATCGCAACGCGATAT-CCAG
1 AATCGCAACGCGAT-TCCCAG
**
71743 AATCGCAAATC-AGTTCCCAG
1 AATCGCAACGCGA-TTCCCAG
71763 AATCGCAACGCGATT
1 AATCGCAACGCGATT
71778 ATGAATAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
19 2 0.07
20 25 0.89
21 1 0.04
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGATTCCCAG
Found at i:71851 original size:20 final size:20
Alignment explanation
Indices: 71826--72101 Score: 132
Period size: 20 Copynumber: 13.7 Consensus size: 20
71816 GATTTTCCAG
*
71826 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
71846 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* *
71866 AATCGCAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
* * * *
71886 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * *
71907 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
*
71927 AATCGCAACGAC-AATATGTAA
1 AATCGCAACG-CGAATACG-AA
* * *
71948 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* * *
71968 AATCACAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * * *
71988 AATCACAATGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
* *
72008 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * * *
72028 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
72048 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* * * *
72069 AATTGCAACGTGTAT-CCATA
1 AATCGCAACGCGAATACGA-A
72089 AATCGCAACGCGA
1 AATCGCAACGCGA
72102 TTTTTAAAGC
Statistics
Matches: 195, Mismatches: 47, Indels: 28
0.72 0.17 0.10
Matches are distributed among these distances:
19 4 0.02
20 141 0.72
21 50 0.26
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:71932 original size:41 final size:41
Alignment explanation
Indices: 71887--72098 Score: 293
Period size: 41 Copynumber: 5.2 Consensus size: 41
71877 GATTCTGACT
* *
71887 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
71928 ATCGCAACGACAATATGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * * *
71969 ATCACAACGAGAATACGT-AAATCACAATGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
72009 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * * *
72049 ATCGCAACGACAATACGTAAAATTGCAACGTGTATCCATAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
72090 ATCGCAACG
1 ATCGCAACG
72099 CGATTTTTAA
Statistics
Matches: 152, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 73 0.48
41 79 0.52
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:72002 original size:40 final size:40
Alignment explanation
Indices: 71826--72098 Score: 280
Period size: 40 Copynumber: 6.8 Consensus size: 40
71816 GATTTTCCAG
* ** * * * **
71826 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * * *
71866 AATCGCAACGCG-ATTC-TGACTATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGTATCCGT-A-AATCGCAACGAGAATACGT-A
* *
71907 AATCGCAACGCGTATCCGTAAATCGCAACGACAATATGTAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT-A
*
71948 AATCGCAACGCGTATCCGTAAATCACAACGAGAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * *
71988 AATCACAATGCGTATCTGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* *
72028 AATCGCAATGCGTATCCGTAAATCGCAACGACAATACGTAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGT-A
* * *
72069 AATTGCAACGTGTATCCATAAATCGCAACG
1 AATCGCAACGCGTATCCGTAAATCGCAACG
72099 CGATTTTTAA
Statistics
Matches: 197, Mismatches: 30, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 97 0.49
41 92 0.47
42 4 0.02
43 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
Found at i:72684 original size:20 final size:20
Alignment explanation
Indices: 72659--72755 Score: 117
Period size: 20 Copynumber: 4.8 Consensus size: 20
72649 TTCTAAACTT
*
72659 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
72679 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
72699 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
*
72720 AAAATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
*
72739 AAAATCGCAACGCGAAA
1 AAAATCGCAACACGAAA
72756 CCAAAATCGC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
19 19 0.28
20 32 0.48
21 16 0.24
ACGTcount: A:0.51, C:0.20, G:0.19, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:72738 original size:19 final size:19
Alignment explanation
Indices: 72659--72766 Score: 108
Period size: 19 Copynumber: 5.5 Consensus size: 19
72649 TTCTAAACTT
**
72659 AAAATCGCAACATGAAAATG
1 AAAATCGCAACGCG-AAATG
*
72679 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
** *
72699 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC--GCGAAATG
72720 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
**
72739 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATG
72758 AAAATCGCA
1 AAAATCGCA
72767 TTGCGATTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
19 33 0.43
20 28 0.37
21 14 0.18
22 1 0.01
ACGTcount: A:0.50, C:0.21, G:0.18, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:72784 original size:19 final size:19
Alignment explanation
Indices: 72762--72854 Score: 97
Period size: 19 Copynumber: 5.1 Consensus size: 19
72752 GAAACCAAAA
*
72762 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
72781 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
72795 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
72814 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
72833 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
72853 TC
1 TC
72855 AACCAAAAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
14 10 0.17
16 3 0.05
17 3 0.05
19 28 0.47
20 16 0.27
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:72809 original size:33 final size:35
Alignment explanation
Indices: 72767--72854 Score: 126
Period size: 39 Copynumber: 2.5 Consensus size: 35
72757 CAAAATCGCA
72767 TTGCGATTTTCATTTCGCGTTGC-G-ATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCAGCATTCTCTCG
72800 TTGCGATTTTCATTTCGCGTTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGC---AG-CATTCTCTCG
72839 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
72855 AACCAAAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
33 23 0.47
37 1 0.02
39 25 0.51
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (35 bp):
TTGCGATTTTCATTTCGCGTTGCAGCATTCTCTCG
Found at i:72851 original size:20 final size:20
Alignment explanation
Indices: 72791--72852 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
72781 TCGCGTTGCG
72791 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
* **
72811 ATT-TCGCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATTTTC
72830 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
72850 ATT
1 ATT
72853 TCAACCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.46
20 19 0.54
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:74711 original size:94 final size:94
Alignment explanation
Indices: 74550--74929 Score: 604
Period size: 94 Copynumber: 4.1 Consensus size: 94
74540 TAGATTGCTT
* * *
74550 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTATATTCTTTAACACTGTGAAGTTAGT
*
74615 ATTTTTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
*
74644 AGTAAATTTATTCGGTTGCT-CTCAATTCTACTAAACTGTATATTCTTTAACAATGTGAAGTTAG
1 AGTAAATTTATTCGGTTGCTGC-CAATTCTACTAAACTGTATATTCTTTAACACTGTGAAGTTAG
74708 TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
** *
74738 AGTAAATTTGCTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTATATTCTTTAACACTGTGAAGTTAGT
*
74803 ATTTGTCTTTTTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
74832 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTATATTCTTTAACACTGTGAAGTTAGT
74897 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
74925 AGTAA
1 AGTAA
74930 TGCAATCCAT
Statistics
Matches: 267, Mismatches: 16, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
93 27 0.10
94 239 0.90
95 1 0.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTATATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:75051 original size:14 final size:14
Alignment explanation
Indices: 75032--75089 Score: 71
Period size: 14 Copynumber: 3.8 Consensus size: 14
75022 AACGCGAAAT
75032 GAATCGCAACGAGA
1 GAATCGCAACGAGA
75046 GAATCGCAACGAGAAA
1 GAATCGCAACGAG--A
75062 TGAAAATCGCAACGAGA
1 -G--AATCGCAACGAGA
75079 GAATCGCAACG
1 GAATCGCAACG
75090 CGAAATGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 23 0.59
16 2 0.05
17 2 0.05
19 12 0.31
ACGTcount: A:0.45, C:0.21, G:0.26, T:0.09
Consensus pattern (14 bp):
GAATCGCAACGAGA
Found at i:75071 original size:19 final size:18
Alignment explanation
Indices: 74994--75106 Score: 82
Period size: 19 Copynumber: 6.5 Consensus size: 18
74984 ACGAAACTTA
*
74994 AAATCGCAACGTGAAAAATG
1 AAATCGCAAC--GAGAAATG
* *
75014 ACCATCGCAACGCGAAATG
1 A-AATCGCAACGAGAAATG
75033 -AATCGCAACGAG--A-G
1 AAATCGCAACGAGAAATG
75047 -AATCGCAACGAGAAATG
1 AAATCGCAACGAGAAATG
75064 AAAATCGCAACGAG--A-G
1 -AAATCGCAACGAGAAATG
*
75080 -AATCGCAACGCGAAATG
1 AAATCGCAACGAGAAATG
75097 AAAATCGCAA
1 -AAATCGCAA
75107 TGACAAAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
14 24 0.32
15 1 0.01
16 3 0.04
17 13 0.17
19 26 0.34
20 1 0.01
21 8 0.11
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGAGAAATG
Found at i:75075 original size:33 final size:33
Alignment explanation
Indices: 75017--75127 Score: 172
Period size: 33 Copynumber: 3.4 Consensus size: 33
75007 AAAAATGACC
75017 ATCGCAACGCGAAATG--AATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
75048 ATCGCAACGAGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
75081 ATCGCAACGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
75114 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
75128 CTATAATCAC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 15 0.21
33 58 0.79
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:75179 original size:33 final size:33
Alignment explanation
Indices: 75137--75261 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
75127 ACTATAATCA
* *
75137 CGTTGCGATTTTCATTTCGCATTTCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
75170 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
75203 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
75236 CGTTGCGA--TTCATTTAGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
75262 AGTCATTTTT
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 17 0.19
33 72 0.81
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:75194 original size:19 final size:19
Alignment explanation
Indices: 75137--75231 Score: 84
Period size: 19 Copynumber: 5.5 Consensus size: 19
75127 ACTATAATCA
75137 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* * *
75156 CATTTCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
75170 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
75189 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
75203 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
75222 CGTTGCGATT
1 CGTTGCGATT
75232 CTCTCGTTGC
Statistics
Matches: 58, Mismatches: 8, Indels: 20
0.67 0.09 0.23
Matches are distributed among these distances:
14 18 0.31
16 6 0.10
17 6 0.10
19 28 0.48
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:75208 original size:14 final size:14
Alignment explanation
Indices: 75161--75246 Score: 64
Period size: 14 Copynumber: 5.4 Consensus size: 14
75151 TTTCGCATTT
75161 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
*
75175 CGATTTTCATTTCGCGTTG
1 CGA--TTC---TCTCGTTG
75194 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
*
75208 CGATTTTCATTTCGCGTTG
1 CGA--TTC---TCTCGTTG
75227 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
75241 CGATTC
1 CGATTC
75247 ATTTAGCGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 26 0.45
16 6 0.10
17 6 0.10
19 20 0.34
ACGTcount: A:0.09, C:0.26, G:0.21, T:0.44
Consensus pattern (14 bp):
CGATTCTCTCGTTG
Found at i:75762 original size:21 final size:21
Alignment explanation
Indices: 75738--75804 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
75728 TCATTCCTCG
75738 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
75759 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
75780 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
75801 AGAG
1 AGAG
75805 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:75762 original size:42 final size:42
Alignment explanation
Indices: 75686--75804 Score: 102
Period size: 42 Copynumber: 2.8 Consensus size: 42
75676 GACTCGCCTG
* * * *
75686 TCATCCCTC-AAGA-GTCCACTCCTATCATTGAAGAGGCCCCTA
1 TCAT-CCTCGAAGAGGTCC-CTCCCACCATTCAAGAGGCCACTA
* *
75728 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCA-TCCTCGAAGAGGT-CCCTCCCACCATTCAAGAGGCCACTA
* *
75770 TCATCGTTGAAGAGGTCCCTCCCACCATTCAAGAG
1 TCATCCTCGAAGAGGTCCCTCCCACCATTCAAGAG
75805 CCCGATTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
41 4 0.06
42 54 0.86
43 5 0.08
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATCCTCGAAGAGGTCCCTCCCACCATTCAAGAGGCCACTA
Found at i:77173 original size:14 final size:14
Alignment explanation
Indices: 77154--77189 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
77144 ATTGTTTAAT
77154 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
77168 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
77182 TGATTTGT
1 TGATTTGT
77190 TTAATTGATG
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:77338 original size:33 final size:33
Alignment explanation
Indices: 77296--77375 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
77286 AAAAATGACT
* *
77296 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCACAACGACAAA
*
77329 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCACAACGACAAA
*
77362 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
77376 CTAAATTCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCACAACGACAAA
Found at i:77352 original size:19 final size:19
Alignment explanation
Indices: 77296--77354 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
77286 AAAAATGACT
77296 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
77315 ATCACAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
77329 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
77348 ATCGCAA
1 ATCGCAA
77355 CGACAAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.52
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:77403 original size:19 final size:19
Alignment explanation
Indices: 77381--77523 Score: 108
Period size: 19 Copynumber: 7.9 Consensus size: 19
77371 CGAAACTAAA
*
77381 TTCGCGTTGCGATTTTTAT
1 TTCGCGTTGCGATTTTCAT
*
77400 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
77415 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
77433 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
77448 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
77466 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
*
77485 TTCCGCGTTGCGATATTCAT
1 TT-CGCGTTGCGATTTTCAT
77505 ATTCGCGTTGCGATTTTCA
1 -TTCGCGTTGCGATTTTCA
77524 CATTGCGATT
Statistics
Matches: 95, Mismatches: 17, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
14 17 0.18
16 6 0.06
17 5 0.05
19 35 0.37
20 30 0.32
21 2 0.02
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:77530 original size:106 final size:106
Alignment explanation
Indices: 77383--77592 Score: 287
Period size: 106 Copynumber: 2.0 Consensus size: 106
77373 AAACTAAATT
* * * * * *
77383 CGCGTTGCGATTTTTATTTCGCTTTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTC
1 CGCGTTGCGATATTCATTTCGCGTTGCGATTCCCACATTGCGATTTTCATTTCACATTGCGATTC
** * *
77448 TCTCGTTGCGATTTTCATTT-CGCATTGCGATAGTCATTTC
66 TCTCGTTGCGATAGTAATTTCCGCATTGCGATAGACATTTC
**
77488 CGCGTTGCGATATTCATATTCGCGTTGCGATTTTCACATTGCGATTTTCATTTCACATTGCGATT
1 CGCGTTGCGATATTCAT-TTCGCGTTGCGATTCCCACATTGCGATTTTCATTTCACATTGCGATT
*
77553 CTCTCGTTGCGATAGTAATTTCCGCGTTGCGATAGACATT
65 CTCTCGTTGCGATAGTAATTTCCGCATTGCGATAGACATT
77593 AAGATGATTG
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
105 15 0.17
106 59 0.66
107 16 0.18
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (106 bp):
CGCGTTGCGATATTCATTTCGCGTTGCGATTCCCACATTGCGATTTTCATTTCACATTGCGATTC
TCTCGTTGCGATAGTAATTTCCGCATTGCGATAGACATTTC
Found at i:77543 original size:19 final size:19
Alignment explanation
Indices: 77420--77552 Score: 115
Period size: 20 Copynumber: 7.4 Consensus size: 19
77410 GATTCCCTCG
77420 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
77439 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
77453 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
** *
77472 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
* *
77492 TTGCGATATTCATATTCGCG
1 TTGCGATTTTCAT-TTCGCA
77512 TTGCGATTTTCA-----CA
1 TTGCGATTTTCATTTCGCA
*
77526 TTGCGATTTTCATTTCACA
1 TTGCGATTTTCATTTCGCA
77545 TTGCGATT
1 TTGCGATT
77553 CTCTCGTTGC
Statistics
Matches: 94, Mismatches: 8, Indels: 24
0.75 0.06 0.19
Matches are distributed among these distances:
14 19 0.20
16 7 0.07
17 7 0.07
19 29 0.31
20 30 0.32
21 2 0.02
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:77574 original size:33 final size:33
Alignment explanation
Indices: 77385--77565 Score: 209
Period size: 33 Copynumber: 5.3 Consensus size: 33
77375 ACTAAATTCG
* * *
77385 CGTTGCGATTTTTATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
77418 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
77451 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---T-CT
* * * *
77490 CGTTGCGATATTCATATTCGCGTTGCGATTTTCA
1 CGTTGCGATTTTCAT-TTCGCATTGCGATTCTCT
* *
77524 CATTGCGATTTTCATTTCACATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
77557 CGTTGCGAT
1 CGTTGCGAT
77566 AGTAATTTCC
Statistics
Matches: 126, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
33 80 0.63
34 14 0.11
35 3 0.02
38 2 0.02
39 15 0.12
40 12 0.10
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:77631 original size:20 final size:20
Alignment explanation
Indices: 77558--77631 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 20
77548 CGATTCTCTC
* **
77558 GTTGCGATAGTAATTTCCGC
1 GTTGCGATAGTCATTTCCAT
* ***
77578 GTTGCGATAGACATTAAGAT
1 GTTGCGATAGTCATTTCCAT
*
77598 GATTGCGA-ACGTCATTTCCTT
1 G-TTGCGATA-GTCATTTCCAT
77619 GTTGCGATAGTCA
1 GTTGCGATAGTCA
77632 AATGAATGCC
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
20 25 0.64
21 14 0.36
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCAT
Found at i:80160 original size:24 final size:24
Alignment explanation
Indices: 80109--80160 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
80099 ATCTGAGTAT
** *
80109 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
80133 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
80157 TGAC
1 TGAC
80161 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:80826 original size:20 final size:20
Alignment explanation
Indices: 80801--81049 Score: 247
Period size: 20 Copynumber: 12.4 Consensus size: 20
80791 GTCAAAATCT
80801 CGTTGCGATTTACAG-ATTCG
1 CGTTGCGATTTAC-GTATTCG
* *
80821 CATTGCAATTTACGTATTCG
1 CGTTGCGATTTACGTATTCG
* *
80841 CATTGCGATTTAGGTATTCG
1 CGTTGCGATTTACGTATTCG
*
80861 CATTGCGATTTACGTATT--
1 CGTTGCGATTTACGTATTCG
* *
80879 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGTATTCG
* *
80899 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGTATTCG
* *
80919 CGTTGTGATTTACAG-ATACG
1 CGTTGCGATTTAC-GTATTCG
*
80939 CGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGTATTCG
* *
80959 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGTATTCG
80979 CGTTGCGATTTTACGTATT-G
1 CGTTGCGA-TTTACGTATTCG
* *
80999 TCGTTGCGATTTACGGATACG
1 -CGTTGCGATTTACGTATTCG
* * *
81020 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACGTATTCG
81041 CGTTGCGAT
1 CGTTGCGAT
81050 AGTCAGAATC
Statistics
Matches: 193, Mismatches: 27, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
18 15 0.08
19 2 0.01
20 139 0.72
21 37 0.19
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTACGTATTCG
Found at i:80929 original size:78 final size:78
Alignment explanation
Indices: 80800--81049 Score: 322
Period size: 78 Copynumber: 3.1 Consensus size: 78
80790 AGTCAAAATC
* * * * * * *
80800 TCGTTGCGATTTACAGATTCGCATTGCAATTTACGTATTCGCATTGCGATTTA-GGTATTCGCAT
1 TCGTTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCGTTGCGATTTACGG-ATACGCGT
80864 TGCGATTTACGTAT
65 TGCGATTTACGTAT
* *
80878 TCGTTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCGTTGTGATTTACAGATACGCGTT
1 TCGTTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTT
80943 GCGATTTACGTATT
66 GCGATTTACGTA-T
* *
80957 CTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCG
1 -TCGTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACGCG
*
81022 TTGCGATTTTACGGATAC
64 TTGCGA-TTTAC-G-TAT
81040 TCGTTGCGAT
1 TCGTTGCGAT
81050 AGTCAGAATC
Statistics
Matches: 151, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
78 66 0.44
79 2 0.01
80 28 0.19
81 37 0.25
82 15 0.10
83 1 0.01
84 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (78 bp):
TCGTTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTT
GCGATTTACGTAT
Found at i:81071 original size:41 final size:41
Alignment explanation
Indices: 80798--81049 Score: 320
Period size: 40 Copynumber: 6.3 Consensus size: 41
80788 ATAGTCAAAA
* * * *
80798 TCTCGTTGCGATTTACAGATTCGCATTGC-AATTTACGTAT
1 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
* * * *
80838 TCGCATTGCGATTTA-GGTATTCGCATTGCGA-TTTACGTA-
1 TCTCGTTGCGATTTACGG-ATACGCGTTGCGATTTTACGTAT
*
80877 T-TCGTTGCGATTTACGGATACGCATTGCGA-TTTACGTAT
1 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
* *
80916 TCTCGTTGTGATTTACAGATACGCGTTGCGA-TTTACGTAT
1 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
80956 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
1 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
* *
80997 TGTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGAT
1 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
*
81038 ACTCGTTGCGAT
1 TCTCGTTGCGAT
81050 AGTCAGAATC
Statistics
Matches: 191, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
38 31 0.16
39 5 0.03
40 96 0.50
41 59 0.31
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (41 bp):
TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
Found at i:81081 original size:20 final size:20
Alignment explanation
Indices: 81058--81110 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
81048 ATAGTCAGAA
*
81058 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
* *
81078 TCGCTTTTCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
81098 TCGCGTTGTGATT
1 TCGCGTTGCGATT
81111 CTGGAAAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.49
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:81209 original size:20 final size:20
Alignment explanation
Indices: 81159--81213 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
81149 GATTATTCAT
81159 AATCGCGTTGCGATTCTGTG
1 AATCGCGTTGCGATTCTGTG
**
81179 AA-CTGATTTGCGATTCTG-G
1 AATC-GCGTTGCGATTCTGTG
81198 AGATCGCGTTGCGATT
1 A-ATCGCGTTGCGATT
81214 TTGTTGGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
19 3 0.11
20 24 0.86
21 1 0.04
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (20 bp):
AATCGCGTTGCGATTCTGTG
Found at i:83167 original size:20 final size:20
Alignment explanation
Indices: 83144--83185 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
83134 CAACGCGAAC
*
83144 TCCAATTTCGCAACACAGTT
1 TCCAAATTCGCAACACAGTT
*
83164 TCCAAATTCGCAACTCAGTT
1 TCCAAATTCGCAACACAGTT
83184 TC
1 TC
83186 TGCGCAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (20 bp):
TCCAAATTCGCAACACAGTT
Found at i:83311 original size:40 final size:40
Alignment explanation
Indices: 83264--83341 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
83254 GTTTCCACAA
**
83264 GATTTTCTAAATCGCAACACGAATTTTGTTTTCACAACTC
1 GATTTTCTAAATCGCAACACGAATTTTAATTTCACAACTC
*
83304 GATTTTCTAATTCGCAACACGAATTTTAATTTCACAAC
1 GATTTTCTAAATCGCAACACGAATTTTAATTTCACAAC
83342 ACAAATGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (40 bp):
GATTTTCTAAATCGCAACACGAATTTTAATTTCACAACTC
Found at i:83329 original size:21 final size:21
Alignment explanation
Indices: 83265--83330 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 21
83255 TTTCCACAAG
*
83265 ATTTTCTAAATCGCAACACGA
1 ATTTTCTAATTCGCAACACGA
* * * *
83286 ATTTTGT-TTTCACAACTCG-
1 ATTTTCTAATTCGCAACACGA
83305 ATTTTCTAATTCGCAACACGA
1 ATTTTCTAATTCGCAACACGA
83326 ATTTT
1 ATTTT
83331 AATTTCACAA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 6 0.18
20 17 0.50
21 11 0.32
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.39
Consensus pattern (21 bp):
ATTTTCTAATTCGCAACACGA
Found at i:83343 original size:20 final size:20
Alignment explanation
Indices: 83278--83343 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
83268 TTCTAAATCG
**
83278 CAACACGAATTTTGTTTTCA
1 CAACACGAATTTTAATTTCA
* * *
83298 CAACTCGATTTTCTAA-TTCG
1 CAACACGAATTT-TAATTTCA
83318 CAACACGAATTTTAATTTCA
1 CAACACGAATTTTAATTTCA
83338 CAACAC
1 CAACAC
83344 AAATGTTTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.08
20 32 0.89
21 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (20 bp):
CAACACGAATTTTAATTTCA
Found at i:86863 original size:20 final size:20
Alignment explanation
Indices: 86838--86883 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
86828 TTGCGATTGT
* *
86838 TGCGAAAGTCAAATTCGAAA
1 TGCGAAAGTAAAAATCGAAA
86858 TGCGAAAGTAAAAATCGAAA
1 TGCGAAAGTAAAAATCGAAA
*
86878 TACGAA
1 TGCGAA
86884 TTTGACTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (20 bp):
TGCGAAAGTAAAAATCGAAA
Found at i:88484 original size:21 final size:21
Alignment explanation
Indices: 88382--88499 Score: 119
Period size: 21 Copynumber: 5.6 Consensus size: 21
88372 GTGAATCGGG
*
88382 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* **
88403 CTTTTGAACGATGGGAGGTAC
1 CTCTTGAACGATGGGAGGGGC
* * * *
88424 CTCTTAAATGATGGGAGAGAC
1 CTCTTGAACGATGGGAGGGGC
*
88445 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* * *
88466 CTCTTGAATGATAGGAGGGGA
1 CTCTTGAACGATGGGAGGGGC
*
88487 CTGTTGAACGATG
1 CTCTTGAACGATG
88500 ACAGGTGAAT
Statistics
Matches: 76, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 76 1.00
ACGTcount: A:0.25, C:0.15, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:88865 original size:21 final size:21
Alignment explanation
Indices: 88841--88889 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
88831 GAGCACCATT
* *
88841 CTCATCGCGTAAAAGATC-TAC
1 CTCATCACGT-AAAGACCGTAC
*
88862 CTCACCACGTAAAGACCGTAC
1 CTCATCACGTAAAGACCGTAC
88883 CTCATCA
1 CTCATCA
88890 TGCCATGCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.33, C:0.35, G:0.12, T:0.20
Consensus pattern (21 bp):
CTCATCACGTAAAGACCGTAC
Found at i:88887 original size:42 final size:43
Alignment explanation
Indices: 88796--88889 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
88786 GTAGAGCGGC
* *
88796 TACCTCATCACGTAAAATAGATACCTCACCACGTAGAGCACCA
1 TACCTCATCACGTAAAAGAGATACCTCACCACGTAAAGCACCA
* * ** *
88839 T-TCTCATCGCGTAAAAGATCTACCTCACCACGTAAAG-ACCG
1 TACCTCATCACGTAAAAGAGATACCTCACCACGTAAAGCACCA
88880 TACCTCATCA
1 TACCTCATCA
88890 TGCCATGCAC
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
41 4 0.10
42 36 0.88
43 1 0.02
ACGTcount: A:0.34, C:0.33, G:0.12, T:0.21
Consensus pattern (43 bp):
TACCTCATCACGTAAAAGAGATACCTCACCACGTAAAGCACCA
Found at i:88938 original size:21 final size:21
Alignment explanation
Indices: 88908--88954 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
88898 ACCATTGTCG
* * *
88908 TCACGTAAAGTACTGACCTCA
1 TCACGCAAAGCACTAACCTCA
88929 TCACGCAAAGCACTAACCTCA
1 TCACGCAAAGCACTAACCTCA
88950 TCACG
1 TCACG
88955 TAACTCCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.34, G:0.13, T:0.19
Consensus pattern (21 bp):
TCACGCAAAGCACTAACCTCA
Found at i:89143 original size:42 final size:42
Alignment explanation
Indices: 89051--89158 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 42
89041 GTGGAGAAGA
* * * * * * *
89051 GGCTCGATGATGTGATGGATCTCGGTGTGGAGGTGTATAATC
1 GGCTCGATCAGGTGATGGCTCTCAGTGTCGAGCTGTAGAATC
* * *
89093 GGCCCGATCAGGTGATGGCTCTCAGTTTCGAGCTGTAGAATT
1 GGCTCGATCAGGTGATGGCTCTCAGTGTCGAGCTGTAGAATC
89135 GGCTCGATCAGGTGATGGCTCTCA
1 GGCTCGATCAGGTGATGGCTCTCA
89159 AAGTGGGGGG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (42 bp):
GGCTCGATCAGGTGATGGCTCTCAGTGTCGAGCTGTAGAATC
Found at i:91101 original size:22 final size:22
Alignment explanation
Indices: 91071--91182 Score: 161
Period size: 22 Copynumber: 5.1 Consensus size: 22
91061 GGGGGGTCAT
* *
91071 CGGATATGGGGACGGATGTCGT
1 CGGAGATGGGGACGGATGTCGC
*
91093 CGGAGATGGGGACAGATGTCGC
1 CGGAGATGGGGACGGATGTCGC
*
91115 TGGAGATGGGGACGGATGTCGC
1 CGGAGATGGGGACGGATGTCGC
* *
91137 CGGAGATTGGGACGGATGTTGC
1 CGGAGATGGGGACGGATGTCGC
*
91159 CGGAGATGGGCACGGATGTCGC
1 CGGAGATGGGGACGGATGTCGC
91181 CG
1 CG
91183 TACAGAGTGA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 79 1.00
ACGTcount: A:0.19, C:0.17, G:0.46, T:0.18
Consensus pattern (22 bp):
CGGAGATGGGGACGGATGTCGC
Found at i:92078 original size:20 final size:20
Alignment explanation
Indices: 92055--92134 Score: 142
Period size: 20 Copynumber: 4.0 Consensus size: 20
92045 ACTATCACAT
* *
92055 TGCGATTACATAAATCGCAA
1 TGCGAATACGTAAATCGCAA
92075 TGCGAATACGTAAATCGCAA
1 TGCGAATACGTAAATCGCAA
92095 TGCGAATACGTAAATCGCAA
1 TGCGAATACGTAAATCGCAA
92115 TGCGAATACGTAAATCGCAA
1 TGCGAATACGTAAATCGCAA
92135 CGTGTTGTGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (20 bp):
TGCGAATACGTAAATCGCAA
Found at i:92871 original size:20 final size:20
Alignment explanation
Indices: 92834--92922 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
92824 CAACGCGGAA
92834 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
* *
92854 ATTGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
92874 ATCGCAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
92894 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
92914 ATCGCAACG
1 ATCGCAACG
92923 AGAGAATCGC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 57 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:92955 original size:19 final size:19
Alignment explanation
Indices: 92927--93014 Score: 96
Period size: 19 Copynumber: 4.8 Consensus size: 19
92917 GCAACGAGAG
92927 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
92946 AATTGCAATGCGAAATAAA
1 AATCGCAATGCGAAATGAA
*
92965 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
92979 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
92999 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
93015 TAGTTTTGCG
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 8 0.14
16 4 0.07
17 2 0.04
18 3 0.05
19 28 0.50
20 11 0.20
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:92971 original size:52 final size:53
Alignment explanation
Indices: 92874--93014 Score: 176
Period size: 53 Copynumber: 2.7 Consensus size: 53
92864 GGAAATGACT
* * ** * **
92874 ATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGC-GAAATAAAAATCGCAACGAGAGA
* * *
92928 ATCGCAATGCG-AAATGAAAATTGCAATGCGAAATAAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGAGAGA
92980 ATCGCAATGCGAAAATGAAAATCGCAACGCGAAAT
1 ATCGCAATGCGAAAATGAAAATCGCAACGCGAAAT
93015 TAGTTTTGCG
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
52 30 0.40
53 34 0.45
54 11 0.15
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (53 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGAGAGA
Found at i:93050 original size:20 final size:19
Alignment explanation
Indices: 93025--93104 Score: 71
Period size: 20 Copynumber: 4.4 Consensus size: 19
93015 TAGTTTTGCG
93025 TTGCGATTTTCATTTTCGCA
1 TTGCGATTTTCA-TTTCGCA
*
93045 TTGCGA--TTCA-CTCG--
1 TTGCGATTTTCATTTCGCA
93059 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
** *
93078 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
93098 TTGCGAT
1 TTGCGAT
93105 AGTCTGTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
14 6 0.12
16 7 0.14
17 3 0.06
18 4 0.08
19 13 0.27
20 16 0.33
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:93105 original size:20 final size:19
Alignment explanation
Indices: 93057--93108 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
93047 GCGATTCACT
**
93057 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
93076 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
93096 CGTTGCGATAGTC
1 CGTTGCGATAGTC
93109 TGTTTTGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:93225 original size:14 final size:14
Alignment explanation
Indices: 93206--93242 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
93196 CATTAATTAA
93206 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
93220 ACAAATCATCTTTT
1 ACAAATCAACATTT
93234 ACAAATCAA
1 ACAAATCAA
93243 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:95262 original size:20 final size:20
Alignment explanation
Indices: 95236--95415 Score: 185
Period size: 20 Copynumber: 9.3 Consensus size: 20
95226 GAAACTTAAA
* *
95236 ATCGCAACGCGAAAATAACT
1 ATCGCAATGCGAAAATGACT
* *
95256 ATTGCAATTCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
95276 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
95296 ATTGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
** *
95316 ATCGCAATGCGAATTTGGCT
1 ATCGCAATGCGAAAATGACT
*
95336 ATCGCAA--CG-AGA-GA--
1 ATCGCAATGCGAAAATGACT
**
95350 ATCGCAATGCG-AAATGAAA
1 ATCGCAATGCGAAAATGACT
*
95369 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
95389 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
95409 ATCGCAA
1 ATCGCAA
95416 CGAGAGAATC
Statistics
Matches: 133, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
14 7 0.05
16 5 0.04
17 3 0.02
18 2 0.02
19 10 0.08
20 106 0.80
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:95359 original size:34 final size:34
Alignment explanation
Indices: 95316--95434 Score: 132
Period size: 34 Copynumber: 3.4 Consensus size: 34
95306 GAAAATGACT
*
95316 ATCGCAATGCGAATTTGGCTATCGCAACGAGAGA
1 ATCGCAATGCGAATTTGACTATCGCAACGAGAGA
* ** *
95350 ATCGCAATGCGAA-ATGAAAATCGCAACGCGAAAATGA
1 ATCGCAATGCGAATTTGACTATCGCAA--CG-AGA-GA
95387 CTATCGCAATGCGAATTTGACTATCGCAACGAGAGA
1 --ATCGCAATGCGAATTTGACTATCGCAACGAGAGA
95423 ATCGCAATGCGA
1 ATCGCAATGCGA
95435 TTTTCATTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
33 9 0.13
34 25 0.36
35 2 0.03
36 4 0.06
37 4 0.06
38 2 0.03
39 13 0.19
40 10 0.14
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (34 bp):
ATCGCAATGCGAATTTGACTATCGCAACGAGAGA
Found at i:95447 original size:73 final size:73
Alignment explanation
Indices: 95276--95434 Score: 264
Period size: 73 Copynumber: 2.2 Consensus size: 73
95266 GAAAATGACT
** * * *
95276 ATCGCAATGCGAAAATGACTATTGCAATGCGAAAATGACTATCGCAATGCGAATTTGGCTATCGC
1 ATCGCAATGCG-AAATGAAAATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGC
95341 AACGAGAGA
65 AACGAGAGA
95350 ATCGCAATGCGAAATGAAAATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCA
95415 ACGAGAGA
66 ACGAGAGA
95423 ATCGCAATGCGA
1 ATCGCAATGCGA
95435 TTTTCATTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 69 0.86
74 11 0.14
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (73 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCA
ACGAGAGA
Found at i:95487 original size:20 final size:20
Alignment explanation
Indices: 95462--95611 Score: 237
Period size: 20 Copynumber: 7.5 Consensus size: 20
95452 GATTCTTTCG
**
95462 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
95482 TTGCGATAGTTATTTTCGTA
1 TTGCGATAGTCATTTTCGCA
95502 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
95522 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
95542 TTGCGATAGTCATTTTCACA
1 TTGCGATAGTCATTTTCGCA
95562 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
95582 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
95602 TTACGATAGT
1 TTGCGATAGT
95612 AAACTATTCT
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 120 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:95510 original size:40 final size:40
Alignment explanation
Indices: 95424--95611 Score: 237
Period size: 40 Copynumber: 4.9 Consensus size: 40
95414 AACGAGAGAA
* **
95424 TCGCAATGCGATTTTCA-TTTCGCATTGCGAT--TC--TT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
** *
95459 TCG--TTGCGATAGTCAAATTCGCATTGCGATAGTTATTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
*
95497 TCGTATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
*
95537 TCGCATTGCGATAGTCATTTTCACATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
* *
95577 TCGCATTGCGATAGTCATTTTCGCGTTACGATAGT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGT
95612 AAACTATTCT
Statistics
Matches: 133, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
33 9 0.07
34 13 0.10
35 3 0.02
36 1 0.01
38 5 0.04
40 102 0.77
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (40 bp):
TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
Found at i:97589 original size:20 final size:20
Alignment explanation
Indices: 97564--97610 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
97554 GATTCTCTCG
97564 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
97584 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
97604 TTGCGAT
1 TTGCGAT
97611 TCACTCGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:98002 original size:22 final size:22
Alignment explanation
Indices: 97942--98003 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
97932 TGACCGTGAA
* *
97942 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
97964 TG-TTATCGTC----ATGGGGAC
1 TGATT-TCGTCGGAGATGGGGAC
97982 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
98004 GGATGTCGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
21 2 0.06
22 14 0.44
ACGTcount: A:0.19, C:0.16, G:0.37, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:98222 original size:20 final size:20
Alignment explanation
Indices: 98199--98272 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
98189 TGATAGTCAG
*
98199 ATTCGCATTGCGATTTGCGT
1 ATTCGCATTGCGATTTACGT
* **
98219 ATTCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
* *
98240 ATTCGCGTTGCAATTTACGT
1 ATTCGCATTGCGATTTACGT
98260 ATTCGCATTGCGA
1 ATTCGCATTGCGA
98273 ATTAGGAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:98286 original size:21 final size:21
Alignment explanation
Indices: 98262--98314 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
98252 ATTTACGTAT
*
98262 TCGCATTGCGAA-TTAGGAAAA
1 TCGCAATGCGAATTTAGG-AAA
*
98283 TCGCAACGCGAATTTAGGAAA
1 TCGCAATGCGAATTTAGGAAA
98304 TCGCAATGCGA
1 TCGCAATGCGA
98315 TAGTCAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTTAGGAAA
Found at i:99739 original size:2 final size:2
Alignment explanation
Indices: 99734--99763 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
99724 TTGTTATATA
99734 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
99764 AAGTCAGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:101738 original size:35 final size:35
Alignment explanation
Indices: 101693--101759 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
101683 ACTTCTATTG
*
101693 GAAAAGATGCTCAAAGGCAGTATCCCCGATTCTAT
1 GAAAACATGCTCAAAGGCAGTATCCCCGATTCTAT
101728 GAAAACATGCTCAAAGGCAGTATCCCCGATTC
1 GAAAACATGCTCAAAGGCAGTATCCCCGATTC
101760 ATATCCGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (35 bp):
GAAAACATGCTCAAAGGCAGTATCCCCGATTCTAT
Found at i:105842 original size:3 final size:3
Alignment explanation
Indices: 105834--105951 Score: 182
Period size: 3 Copynumber: 38.7 Consensus size: 3
105824 TTTTTATTCA
* *
105834 TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
105882 TAT TAT TAT TAT TAT TAT TAT TATT TAT TATT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT
* *
105929 TAT TAT TTT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
105952 AATATATTAA
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
3 99 0.94
4 6 0.06
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:106465 original size:15 final size:16
Alignment explanation
Indices: 106445--106474 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
106435 ACAGAACCGG
106445 AGAGAAAA-AAAAAAC
1 AGAGAAAAGAAAAAAC
106460 AGAGAAAAGAAAAAA
1 AGAGAAAAGAAAAAA
106475 AAAACAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (16 bp):
AGAGAAAAGAAAAAAC
Found at i:107382 original size:18 final size:19
Alignment explanation
Indices: 107345--107385 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
107335 TGTTTTAGTG
**
107345 ATATTTTTATATTTGTTAA
1 ATATTTTTATATTTCATAA
107364 ATATTTTTATA-TTCATAA
1 ATATTTTTATATTTCATAA
107382 ATAT
1 ATAT
107386 ACATATAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
ATATTTTTATATTTCATAA
Found at i:108097 original size:18 final size:18
Alignment explanation
Indices: 108049--108098 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
108039 TTCTTTTCAA
108049 ATTTTTA-TTTATTTATT
1 ATTTTTATTTTATTTATT
**
108066 ATTTTTATAATATTTA-T
1 ATTTTTATTTTATTTATT
108083 ATGTTTTATTTTATTT
1 AT-TTTTATTTTATTT
108099 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 10 0.37
18 17 0.63
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (18 bp):
ATTTTTATTTTATTTATT
Found at i:108120 original size:13 final size:15
Alignment explanation
Indices: 108089--108125 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
108079 TTATATGTTT
108089 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
108104 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
108117 TA-TTTATTT
1 TATTTTATTT
108126 TTTGTCTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:119104 original size:18 final size:18
Alignment explanation
Indices: 119068--119112 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
119058 CTATTTCAAG
*
119068 TTCAATTTA--TTTGAGA
1 TTCAATTTATTTTTGAAA
119084 TTCAATTTATTTTTGAAA
1 TTCAATTTATTTTTGAAA
119102 TTCAATTTATT
1 TTCAATTTATT
119113 CTTTTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 9 0.35
18 17 0.65
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (18 bp):
TTCAATTTATTTTTGAAA
Found at i:120095 original size:133 final size:133
Alignment explanation
Indices: 119857--120443 Score: 1084
Period size: 133 Copynumber: 4.4 Consensus size: 133
119847 CATTAAATGA
*
119857 AAGATGAATTTACCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
*
119922 ATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAAAACCAATCAGTGAATT
66 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAAAACCAATCAGTGAATT
119987 TAG
131 TAG
119990 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
120055 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAAAACCAATCAGTGAATT
66 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAAAACCAATCAGTGAATT
120120 TAG
131 TAG
*
120123 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
*
120188 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAGAACCAATCAGTGAATT
66 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAAAACCAATCAGTGAATT
120253 TAG
131 TAG
120256 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
** * *
120321 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATT
66 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAAAACCAATCAGTGAATT
120386 TAG
131 TAG
**
120389 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
120444 GTTTGGTAAG
Statistics
Matches: 444, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 444 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.37
Consensus pattern (133 bp):
AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAACAAAACCAATCAGTGAATT
TAG
Found at i:121300 original size:113 final size:113
Alignment explanation
Indices: 121102--121655 Score: 968
Period size: 113 Copynumber: 4.9 Consensus size: 113
121092 TCAAATCCAC
* * *
121102 TTGATGGATCATTCATTACCAGA-TAAGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAAGAAG
1 TTGATGGATCA-ACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
121166 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
65 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
*
121215 TTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
121280 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
* *
121328 TTGATGGATCAACATTACCAGAGAAGGTTCGTAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
121393 GGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
*
121441 TTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
121506 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
* *
121554 TTGATGGATCAACATTGCCAGAGAAAGTTCATAAATGAGAAGAACTTATCTGAAGAAGGAAGAAG
1 TTGATGGATCAACATTACCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* *
121619 AAGTTCATAATGAGAAGAGCTTGTTCAAC-CTTTGTTT
65 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTT
121656 GATATTATCT
Statistics
Matches: 422, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
112 10 0.02
113 354 0.84
114 58 0.14
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (113 bp):
TTGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
Found at i:121954 original size:3 final size:3
Alignment explanation
Indices: 121946--122056 Score: 177
Period size: 3 Copynumber: 36.7 Consensus size: 3
121936 TTTTTATCCA
* *
121946 TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
121994 TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* *
122040 TTT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
122057 AATATATTAA
Statistics
Matches: 99, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
3 96 0.97
4 3 0.03
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:122570 original size:15 final size:15
Alignment explanation
Indices: 122550--122580 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
122540 ACAGAACCGG
122550 AGAGAAAAAAAAAAC
1 AGAGAAAAAAAAAAC
*
122565 AGAGAAAAGAAAAAC
1 AGAGAAAAAAAAAAC
122580 A
1 A
122581 AACAAACTAA
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:0.77, C:0.06, G:0.16, T:0.00
Consensus pattern (15 bp):
AGAGAAAAAAAAAAC
Found at i:123489 original size:18 final size:19
Alignment explanation
Indices: 123452--123492 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
123442 TGTTTTAGTG
**
123452 ATATTTTTATATTTGTTAA
1 ATATTTTTATATTTCATAA
123471 ATATTTTTATA-TTCATAA
1 ATATTTTTATATTTCATAA
123489 ATAT
1 ATAT
123493 ACATATAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
ATATTTTTATATTTCATAA
Found at i:125042 original size:24 final size:24
Alignment explanation
Indices: 124992--125041 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
124982 ATAACATAAA
*
124992 TTTCATAATTATTAGATATTAATT
1 TTTCATAATTATTAAATATTAATT
125016 TTTC-TAATTACTTAAATA-TAATT
1 TTTCATAATTA-TTAAATATTAATT
125039 TTT
1 TTT
125042 TTGACATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTCATAATTATTAAATATTAATT
Found at i:125827 original size:18 final size:18
Alignment explanation
Indices: 125804--125839 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
125794 TCACTCGTTG
125804 ATGTTCATGTTAATATTC
1 ATGTTCATGTTAATATTC
* *
125822 ATGTTCGTGTTTATATTC
1 ATGTTCATGTTAATATTC
125840 GTATCCGTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.11, G:0.14, T:0.53
Consensus pattern (18 bp):
ATGTTCATGTTAATATTC
Found at i:128138 original size:32 final size:31
Alignment explanation
Indices: 127987--128138 Score: 92
Period size: 32 Copynumber: 4.8 Consensus size: 31
127977 GTTTAATTGA
* * * *
127987 TGACGTGATATATATCACGTCATAATTTTGTG
1 TGACGTGACACATATCACATCATCATTTTG-G
* * * *
128019 TGACATGACACATACCAAATCATCACTTTGG
1 TGACGTGACACATATCACATCATCATTTTGG
* * * * *
128050 TGATGTGGCACATGTCACACCATCATTCTAGG
1 TGACGTGACACATATCACATCATCATT-TTGG
* **
128082 TGACGT-A-AAATATGTCATGCCATCATTTTGG
1 TGACGTGACACATATCACAT--CATCATTTTGG
*
128113 CTGACGTGACACATATCATATCATCA
1 -TGACGTGACACATATCACATCATCA
128139 ACTAAACACA
Statistics
Matches: 85, Mismatches: 29, Indels: 12
0.67 0.23 0.10
Matches are distributed among these distances:
30 6 0.07
31 23 0.27
32 48 0.56
33 1 0.01
34 7 0.08
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (31 bp):
TGACGTGACACATATCACATCATCATTTTGG
Found at i:129369 original size:20 final size:20
Alignment explanation
Indices: 129332--129370 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
129322 TGGTTTTCAC
* * *
129332 TCACTTTACCTTTCCATCCT
1 TCACCTTACCGTTACATCCT
129352 TCACCTTACCGTTACATCC
1 TCACCTTACCGTTACATCC
129371 ATGGATACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.41, G:0.03, T:0.38
Consensus pattern (20 bp):
TCACCTTACCGTTACATCCT
Found at i:137557 original size:19 final size:20
Alignment explanation
Indices: 137528--137569 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
137518 TACACTTTTC
*
137528 ATTTCATATCAATTTGTTTA
1 ATTTCATATCAATTTATTTA
*
137548 ATTT-ATATCATTTTATTTA
1 ATTTCATATCAATTTATTTA
137567 ATT
1 ATT
137570 ATCCCAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTCATATCAATTTATTTA
Found at i:137683 original size:21 final size:23
Alignment explanation
Indices: 137645--137707 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 23
137635 CACTACTGCT
*
137645 CACATAATTTG-CACCGAAGTG-C
1 CACATAGTTTGTC-CCGAAGTGAC
*
137667 CACATA-TTTGTCTCGAA-TGAC
1 CACATAGTTTGTCCCGAAGTGAC
137688 CACATAGGTTTGTCCCGAAG
1 CACATA-GTTTGTCCCGAAG
137708 AACCGCATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 2 0.06
21 15 0.44
22 7 0.21
23 10 0.29
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (23 bp):
CACATAGTTTGTCCCGAAGTGAC
Found at i:141391 original size:12 final size:12
Alignment explanation
Indices: 141369--141415 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
141359 AGTGAATGAT
141369 GGTCAAAGTCAAC
1 GGTC-AAGTCAAC
141382 GGTCAAGTCAAC
1 GGTCAAGTCAAC
* *
141394 AGTCAAGTCAAT
1 GGTCAAGTCAAC
141406 GGTC-AGTCAA
1 GGTCAAGTCAA
141416 AGTCAACGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 6 0.19
12 21 0.68
13 4 0.13
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (12 bp):
GGTCAAGTCAAC
Found at i:141403 original size:24 final size:22
Alignment explanation
Indices: 141374--141421 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
141364 ATGATGGTCA
141374 AAGTCAACGGTCAAGTCAACAGTC
1 AAGTCAACGGTC-AGTCAA-AGTC
*
141398 AAGTCAATGGTCAGTCAAAGTC
1 AAGTCAACGGTCAGTCAAAGTC
141420 AA
1 AA
141422 CGAGTTGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.26
23 6 0.26
24 11 0.48
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (22 bp):
AAGTCAACGGTCAGTCAAAGTC
Found at i:144571 original size:23 final size:24
Alignment explanation
Indices: 144542--144589 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
144532 TAAAATGATT
144542 TTTTAATTA-TAAAATATTA-AAAA
1 TTTTAATTATTAAAA-ATTATAAAA
144565 TTTTAATTATTAAAAATTATAAAA
1 TTTTAATTATTAAAAATTATAAAA
144589 T
1 T
144590 AATCATTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTTAATTATTAAAAATTATAAAA
Found at i:145034 original size:21 final size:20
Alignment explanation
Indices: 145010--145064 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
145000 TATTAATTTT
*
145010 TTAAATATAATAAAATTATTA
1 TTAAA-ATAATAAAATTATAA
*
145031 TTAAAA-GATAAAATTATAA
1 TTAAAATAATAAAATTATAA
*
145050 TCTCAAATAATAAAA
1 T-TAAAATAATAAAA
145065 CAGATATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 12 0.43
20 5 0.18
21 11 0.39
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
TTAAAATAATAAAATTATAA
Found at i:145118 original size:14 final size:15
Alignment explanation
Indices: 145099--145127 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
145089 ATACAAAGTA
145099 AAATTTTTCC-TATT
1 AAATTTTTCCATATT
145113 AAATTTTTCCATATT
1 AAATTTTTCCATATT
145128 GATACATGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (15 bp):
AAATTTTTCCATATT
Found at i:148412 original size:29 final size:27
Alignment explanation
Indices: 148380--148441 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
148370 TACAATTCGG
* * *
148380 TTAATTATTATAATAGTCATTAAATTTTA
1 TTAATTATAAT-ATAATCATTAAA-ATTA
*
148409 TTAATTATAATTTAATCATTAAAATTA
1 TTAATTATAATATAATCATTAAAATTA
148436 TTAATT
1 TTAATT
148442 GTTGTTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 9 0.31
28 10 0.34
29 10 0.34
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (27 bp):
TTAATTATAATATAATCATTAAAATTA
Found at i:149730 original size:19 final size:19
Alignment explanation
Indices: 149706--149743 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
149696 TTATCTATTG
149706 AGATTTTAAATTTAAACAC
1 AGATTTTAAATTTAAACAC
149725 AGATTTTAAATTTAAACAC
1 AGATTTTAAATTTAAACAC
149744 TAAATACTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (19 bp):
AGATTTTAAATTTAAACAC
Found at i:153839 original size:36 final size:38
Alignment explanation
Indices: 153797--153872 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
153787 TTCATTAAAC
* *
153797 ATTTTAT-ATTTTCAATTT-TATAAA-AAATATATATAA
1 ATTTTATGAATTTAAATTTCTATAAAGAAA-ATATATAA
*
153833 ATTTTATGAATTTAAATTTCTTTAAAGAAAATATATAA
1 ATTTTATGAATTTAAATTTCTATAAAGAAAATATATAA
153871 AT
1 AT
153873 ATTTTCCAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 7 0.21
37 9 0.26
38 15 0.44
39 3 0.09
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (38 bp):
ATTTTATGAATTTAAATTTCTATAAAGAAAATATATAA
Found at i:154038 original size:16 final size:18
Alignment explanation
Indices: 154017--154080 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 18
154007 ACATTCACAG
154017 TAATCTTATTC-C-CTGA
1 TAATCTTATTCTCACTGA
154033 TAATCTTACATTCTCACTGA
1 TAATCTT--ATTCTCACTGA
* *
154053 TAATCTTACATTCCCACTGG
1 TAATCTT--ATTCTCACTGA
154073 TAATCTTA
1 TAATCTTA
154081 CATTTCGTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
16 7 0.17
18 5 0.12
19 1 0.02
20 29 0.69
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.41
Consensus pattern (18 bp):
TAATCTTATTCTCACTGA
Done.