Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009397.1 Hibiscus syriacus cultivar Beakdansim tig00113302_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: 510949
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:145695 original size:51 final size:51
Alignment explanation
Indices: 145634--145744 Score: 204
Period size: 51 Copynumber: 2.2 Consensus size: 51
145624 CATATGTTAC
* *
145634 ATGATATATGTGAAAACATGTTTATGTGATAAACTATGTGAACTAGTATAG
1 ATGATCTATGTGAAAACATGTTTATGTGATAAACTATGTGAACTAGTATAA
145685 ATGATCTATGTGAAAACATGTTTATGTGATAAACTATGTGAACTAGTATAA
1 ATGATCTATGTGAAAACATGTTTATGTGATAAACTATGTGAACTAGTATAA
145736 ATGATCTAT
1 ATGATCTAT
145745 AATATTACAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (51 bp):
ATGATCTATGTGAAAACATGTTTATGTGATAAACTATGTGAACTAGTATAA
Found at i:145712 original size:16 final size:18
Alignment explanation
Indices: 145691--145723 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
145681 ATAGATGATC
145691 TATGTGA-AAAC-ATGTT
1 TATGTGATAAACTATGTT
145707 TATGTGATAAACTATGT
1 TATGTGATAAACTATGT
145724 GAACTAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.39
Consensus pattern (18 bp):
TATGTGATAAACTATGTT
Found at i:145744 original size:23 final size:23
Alignment explanation
Indices: 145667--145744 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
145657 ATGTGATAAA
*
145667 CTATGTGAACTAGTATAGATGAT
1 CTATGTGAACTAGTATAAATGAT
* **
145690 CTATGTGAAAAC-ATGTTTATGTGAT
1 CTATGTG--AACTA-GTATAAATGAT
145715 AAACTATGTGAACTAGTATAAATGAT
1 ---CTATGTGAACTAGTATAAATGAT
145741 CTAT
1 CTAT
145745 AATATTACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
23 11 0.26
24 1 0.02
25 11 0.26
26 11 0.26
27 1 0.02
28 7 0.17
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (23 bp):
CTATGTGAACTAGTATAAATGAT
Found at i:145766 original size:51 final size:51
Alignment explanation
Indices: 145660--145766 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
145650 CATGTTTATG
* * *** *
145660 TGATAAACTATGTGAACTAGTATAGATGATCTATGTGAAAACATGTTTATG
1 TGATAAACTATGTGAACTAGTATAAATGATCTATATGAAAACATGAGAATA
**
145711 TGATAAACTATGTGAACTAGTATAAATGATCTATAAT-ATTACATGAGAATA
1 TGATAAACTATGTGAACTAGTATAAATGATCTAT-ATGAAAACATGAGAATA
145762 TGATA
1 TGATA
145767 TAAGTTATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 46 0.98
52 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (51 bp):
TGATAAACTATGTGAACTAGTATAAATGATCTATATGAAAACATGAGAATA
Found at i:146106 original size:21 final size:21
Alignment explanation
Indices: 146082--146175 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
146072 TCGAGGGTTC
146082 TATGTGGTCCTTC-GAGACATA
1 TATGTGGTCCTTCGGA-ACATA
* *
146103 TATGTGATCCTTTGGAACATA
1 TATGTGGTCCTTCGGAACATA
* *
146124 TATGTGGTCATTCGGGACATA
1 TATGTGGTCCTTCGGAACATA
* * *
146145 TATTTGGTCATTTGGAACATA
1 TATGTGGTCCTTCGGAACATA
146166 TATGTGGTCC
1 TATGTGGTCC
146176 ATAGGGACAA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 59 0.97
22 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.37
Consensus pattern (21 bp):
TATGTGGTCCTTCGGAACATA
Found at i:146143 original size:42 final size:42
Alignment explanation
Indices: 146082--146174 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
146072 TCGAGGGTTC
* *
146082 TATGTGGTCCTTCGAGACATATATGTGATCCTTTGGAACATA
1 TATGTGGTCATTCGAGACATATATGTGATCATTTGGAACATA
* * *
146124 TATGTGGTCATTCGGGACATATATTTGGTCATTTGGAACATA
1 TATGTGGTCATTCGAGACATATATGTGATCATTTGGAACATA
146166 TATGTGGTC
1 TATGTGGTC
146175 CATAGGGACA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.38
Consensus pattern (42 bp):
TATGTGGTCATTCGAGACATATATGTGATCATTTGGAACATA
Found at i:146147 original size:23 final size:23
Alignment explanation
Indices: 146121--146208 Score: 80
Period size: 23 Copynumber: 4.0 Consensus size: 23
146111 CCTTTGGAAC
146121 ATATATGTGGTCATTCGGGACAT
1 ATATATGTGGTCATTCGGGACAT
* *
146144 ATAT-T-TGGTCATT-TGGA-AC
1 ATATATGTGGTCATTCGGGACAT
*
146163 ATATATGTGGTCCA-TAGGGACA-
1 ATATATGTGGT-CATTCGGGACAT
*
146185 ATTCTATGTGGTCATTCGGGACAT
1 A-TATATGTGGTCATTCGGGACAT
146209 TTCTATGCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
19 5 0.10
20 4 0.08
21 13 0.25
22 9 0.17
23 21 0.40
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (23 bp):
ATATATGTGGTCATTCGGGACAT
Found at i:146215 original size:23 final size:22
Alignment explanation
Indices: 146082--146209 Score: 104
Period size: 21 Copynumber: 6.0 Consensus size: 22
146072 TCGAGGGTTC
* *
146082 TATGTGGTCCTTCGAGACA-TA
1 TATGTGGTCATTCGGGACATTA
* * * *
146103 TATGTGATCCTTTGGAACA-TA
1 TATGTGGTCATTCGGGACATTA
146124 TATGTGGTCATTCGGGACA-TA
1 TATGTGGTCATTCGGGACATTA
* * *
146145 TATTTGGTCATTTGGAACA-TA
1 TATGTGGTCATTCGGGACATTA
* *
146166 TATGTGGTCCA-TAGGGACAATTC
1 TATGTGGT-CATTCGGGAC-ATTA
146189 TATGTGGTCATTCGGGACATT
1 TATGTGGTCATTCGGGACATT
146210 TCTATGCAGT
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
21 64 0.74
22 8 0.09
23 15 0.17
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (22 bp):
TATGTGGTCATTCGGGACATTA
Found at i:146225 original size:23 final size:23
Alignment explanation
Indices: 146179--146233 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
146169 GTGGTCCATA
* **
146179 GGGACAATTCTATGTGGTCATTC
1 GGGACATTTCTATGCAGTCATTC
*
146202 GGGACATTTCTATGCAGTCCTTC
1 GGGACATTTCTATGCAGTCATTC
*
146225 GAGACATTT
1 GGGACATTT
146234 TATATGACAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (23 bp):
GGGACATTTCTATGCAGTCATTC
Found at i:149520 original size:8 final size:8
Alignment explanation
Indices: 149507--149550 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
149497 ATTTCTGAGG
149507 AAAAAAAT
1 AAAAAAAT
149515 AAAAAAA-
1 AAAAAAAT
*
149522 AAGAAAATT
1 AA-AAAAAT
149531 AAAAAAAT
1 AAAAAAAT
*
149539 AAAATAAT
1 AAAAAAAT
149547 AAAA
1 AAAA
149551 TATAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 2 0.06
8 27 0.87
9 2 0.06
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (8 bp):
AAAAAAAT
Found at i:149550 original size:15 final size:14
Alignment explanation
Indices: 149510--149557 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
149500 TCTGAGGAAA
*
149510 AAAATAAAAAAAAAG
1 AAAAT-AAAAAAAAT
*
149525 AAAATTAAAAAAAT
1 AAAATAAAAAAAAT
*
149539 AAAATAATAAAATAT
1 AAAATAA-AAAAAAT
149554 AAAA
1 AAAA
149558 GAAATGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:150983 original size:16 final size:16
Alignment explanation
Indices: 150942--150985 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
150932 AATTTATCTT
*
150942 AAAT-TTAAAT-TTTA
1 AAATATTAAATATTCA
150956 AAATATTCAAATATTCA
1 AAATATT-AAATATTCA
150973 AAATATTAAATAT
1 AAATATTAAATAT
150986 AAAAAGTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 4 0.15
15 2 0.08
16 10 0.38
17 10 0.38
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATATTAAATATTCA
Found at i:151113 original size:17 final size:19
Alignment explanation
Indices: 151091--151131 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
151081 TTACAAACTA
151091 TAAAA-TAAAAA-ATTATT
1 TAAAATTAAAAATATTATT
*
151108 TAAAATTAAAAATATTTTT
1 TAAAATTAAAAATATTATT
151127 TAAAA
1 TAAAA
151132 CGTATATTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 6 0.29
19 10 0.48
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATTAAAAATATTATT
Found at i:151717 original size:23 final size:21
Alignment explanation
Indices: 151635--151717 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 21
151625 TTTTAACATA
* * *
151635 TATTTAATTTTTTAATAATTC
1 TATTTTATTTTTAAATATTTC
*
151656 AATTTTTATTTTT-AATATTTC
1 TA-TTTTATTTTTAAATATTTC
151677 TATATATT-TTTTTAAAATATTTTC
1 TAT-T-TTATTTTT-AAATA-TTTC
151701 TATTTTATGTTTTAAAT
1 TATTTTAT-TTTTAAAT
151718 TTAAGATAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
20 1 0.02
21 15 0.30
22 13 0.26
23 10 0.20
24 11 0.22
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (21 bp):
TATTTTATTTTTAAATATTTC
Found at i:155523 original size:24 final size:24
Alignment explanation
Indices: 155478--155527 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
155468 ATAAAGAACC
*
155478 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
155502 AAAATAAAGTTTAAACAT-CCATTA
1 AAAATAAA-CTTAAACATACCATTA
155526 AA
1 AA
155528 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:161289 original size:20 final size:17
Alignment explanation
Indices: 161264--161314 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
161254 AAATGCAAAT
161264 GTGTATCGATACCCCTATG
1 GTGTATCGATACCCC--TG
* *
161283 AGTGTATCCATA-CACTG
1 -GTGTATCGATACCCCTG
161300 GTGTATCGATACCCC
1 GTGTATCGATACCCC
161315 CTGCAGGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 10 0.38
17 4 0.15
19 2 0.08
20 10 0.38
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (17 bp):
GTGTATCGATACCCCTG
Found at i:161311 original size:36 final size:37
Alignment explanation
Indices: 161264--161334 Score: 110
Period size: 36 Copynumber: 1.9 Consensus size: 37
161254 AAATGCAAAT
161264 GTGTATCGATACCCCTATG-A-GTGTATCCATACACTG
1 GTGTATCGATACCCC-ATGCAGGTGTATCCATACACTG
*
161300 GTGTATCGATACCCCCTGCAGGTGTATCCATACAC
1 GTGTATCGATACCCCATGCAGGTGTATCCATACAC
161335 ATATGACTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 2 0.06
36 16 0.50
37 14 0.44
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (37 bp):
GTGTATCGATACCCCATGCAGGTGTATCCATACACTG
Found at i:164729 original size:20 final size:20
Alignment explanation
Indices: 164704--164743 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
164694 AATGTAAATG
* *
164704 GTGTATCGATACCCCTATGA
1 GTGTATCCATACACCTATGA
164724 GTGTATCCATACACCTATGA
1 GTGTATCCATACACCTATGA
164744 CTGCTCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (20 bp):
GTGTATCCATACACCTATGA
Found at i:164919 original size:21 final size:21
Alignment explanation
Indices: 164881--164921 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
164871 TTTGAATTTA
* *
164881 ATGAAGGTGTACTAATACCCT
1 ATGAAGGGGTACCAATACCCT
*
164902 ATGAAGGGGTACCGATACCC
1 ATGAAGGGGTACCAATACCC
164922 CATATTATGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (21 bp):
ATGAAGGGGTACCAATACCCT
Found at i:169916 original size:21 final size:21
Alignment explanation
Indices: 169891--169939 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
169881 ATACTCATAG
169891 GGGTATCGATAGTCGACCCCA
1 GGGTATCGATAGTCGACCCCA
169912 GGGTATCGATAGTCGACCCCA
1 GGGTATCGATAGTCGACCCCA
*
169933 AGGTATC
1 GGGTATC
169940 AATACTACGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (21 bp):
GGGTATCGATAGTCGACCCCA
Found at i:173499 original size:56 final size:57
Alignment explanation
Indices: 173423--173530 Score: 166
Period size: 56 Copynumber: 1.9 Consensus size: 57
173413 CATCCTTTTA
* *
173423 AAAAATTTAAATTATCATATATTTAAGATATT-TTATATTTTTTTTAAAAAATAAAAT
1 AAAAATTTAAATTATCATATATTTAAAATATTCTTAT-TTTTTATTAAAAAATAAAAT
*
173480 AAAAA-TTAAATTATTATATATTTAAAATATTCTTATTTTTTATTAAAAAAT
1 AAAAATTTAAATTATCATATATTTAAAATATTCTTATTTTTTATTAAAAAAT
173531 CTATTATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
56 38 0.81
57 9 0.19
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (57 bp):
AAAAATTTAAATTATCATATATTTAAAATATTCTTATTTTTTATTAAAAAATAAAAT
Found at i:174601 original size:2 final size:2
Alignment explanation
Indices: 174594--174618 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
174584 ATTCTTTGGG
174594 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
174619 TTACTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:183705 original size:100 final size:100
Alignment explanation
Indices: 183532--183732 Score: 332
Period size: 100 Copynumber: 2.0 Consensus size: 100
183522 TAGCAAAACG
* *
183532 AACTGCTAATGAGCCAAACTTATCACTTCATCATTAAACTAAAGAATAGGGCTGAGTAAAACACG
1 AACTGCTAATGAGCCAAACTTATCACTTCATCATTAAACTAAACAATAGGGCGGAGTAAAACACG
* *
183597 ACTCAAAAAAAATTCAAATTCAAATCGAGTTTAAA
66 ACCCAAAAAAAATTCAAATTCAAATCGAGTTAAAA
*
183632 AACTGCTAATGAGCCAAACTTATCACTTCATCCTTAAACTAAACAATAGGG-GGAGTAAAACACG
1 AACTGCTAATGAGCCAAACTTATCACTTCATCATTAAACTAAACAATAGGGCGGAGTAAAACACG
* *
183696 ACCCAAAAAAATTTCAAATTCGAATCGAGTTAAAA
66 ACCCAAAAAAAATTCAAATTCAAATCGAGTTAAAA
183731 AA
1 AA
183733 TAGATCTCTA
Statistics
Matches: 94, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 45 0.48
100 49 0.52
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (100 bp):
AACTGCTAATGAGCCAAACTTATCACTTCATCATTAAACTAAACAATAGGGCGGAGTAAAACACG
ACCCAAAAAAAATTCAAATTCAAATCGAGTTAAAA
Found at i:184929 original size:27 final size:27
Alignment explanation
Indices: 184889--184950 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
184879 GGTCAAACCA
* *
184889 ACCCGACCCAAAAATTATACATCCTCC
1 ACCCGACCCAAAAAATATACACCCTCC
* *
184916 ACCCGACCCGAAAAATATACACCCTCT
1 ACCCGACCCAAAAAATATACACCCTCC
184943 ACCCGACC
1 ACCCGACC
184951 TGAACTCGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.44, G:0.06, T:0.15
Consensus pattern (27 bp):
ACCCGACCCAAAAAATATACACCCTCC
Found at i:185917 original size:2 final size:2
Alignment explanation
Indices: 185910--185938 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
185900 TTTTAATGAT
185910 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
185939 GAAATCATTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:186128 original size:4 final size:4
Alignment explanation
Indices: 186119--186206 Score: 122
Period size: 4 Copynumber: 22.0 Consensus size: 4
186109 TGTGATTAAT
* *
186119 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
186167 ATAC ATAC ATAC ATGC ATAC ATGC ATAC ATGC GTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
186207 GTACGTACGT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 74 1.00
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:187308 original size:37 final size:36
Alignment explanation
Indices: 187236--187309 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
187226 GTTGGAAAAT
* * *
187236 ATTTATGTATTTTCTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTAAAAATCATAAA
*
187272 ATTTATATAATTTTTTTTACAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTAAAAATCATAAA
187309 A
1 A
187310 AGGTTTAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 7 0.22
37 15 0.47
38 10 0.31
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAATTAAAAATCATAAA
Found at i:190173 original size:21 final size:20
Alignment explanation
Indices: 190126--190202 Score: 100
Period size: 20 Copynumber: 3.8 Consensus size: 20
190116 TATCTTATAT
*
190126 CACTATAAATAAACTAATAG
1 CACTATAAATAAAATAATAG
190146 CACTATAAATAAAATAATAAG
1 CACTATAAATAAAATAAT-AG
* **
190167 CATTATAAATATTATAATAG
1 CACTATAAATAAAATAATAG
*
190187 CACTATGAATAAAATA
1 CACTATAAATAAAATA
190203 TAATGAAGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 31 0.65
21 17 0.35
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (20 bp):
CACTATAAATAAAATAATAG
Found at i:190856 original size:87 final size:86
Alignment explanation
Indices: 190715--190905 Score: 226
Period size: 86 Copynumber: 2.2 Consensus size: 86
190705 TTTCGGTTAT
* * * * * * **
190715 GGTGTTATTTTCGTAATTATTTTTAAAAGTGTGTTATTTTGTATTTATTTTTAAAAAGGGTTTTA
1 GGTGATATTTTGGTAATTATTATTAAAAGTGTGCTATTTTGTAATTATTGTT-AAAAGGGTGATA
190780 TTTT-GTAATTAATT-TTAAAAC
65 TTTTGGTAATT-ATTGTTAAAAC
* *
190801 GGTGATATTTTGGCAATTATTATTAAAACG-GTGCTATTTTGGTAATTATTGTTAAAATGGTGAT
1 GGTGATATTTTGGTAATTATTATTAAAA-GTGTGCTATTTT-GTAATTATTGTTAAAAGGGTGAT
190865 ATTTTGGTAATTATTGTTAAAAC
64 ATTTTGGTAATTATTGTTAAAAC
*
190888 AGTGATATTTTGGTAATT
1 GGTGATATTTTGGTAATT
190906 GTTTAAAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
86 49 0.55
87 40 0.45
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (86 bp):
GGTGATATTTTGGTAATTATTATTAAAAGTGTGCTATTTTGTAATTATTGTTAAAAGGGTGATAT
TTTGGTAATTATTGTTAAAAC
Found at i:190915 original size:29 final size:29
Alignment explanation
Indices: 190715--190905 Score: 201
Period size: 29 Copynumber: 6.6 Consensus size: 29
190705 TTTCGGTTAT
* * *
190715 GGTGTTATTTTCGTAATTATTTTTAAAA-
1 GGTGATATTTTGGTAATTATTGTTAAAAC
* * * *
190743 GTGTGTTATTTT-GTATTTATTTTTAAAAAG
1 G-GTGATATTTTGGTAATTATTGTT-AAAAC
**
190773 GGTTTTATTTT-GTAATTAATT-TTAAAAC
1 GGTGATATTTTGGTAATT-ATTGTTAAAAC
* *
190801 GGTGATATTTTGGCAATTATTATTAAAAC
1 GGTGATATTTTGGTAATTATTGTTAAAAC
* *
190830 GGTGCTATTTTGGTAATTATTGTTAAAAT
1 GGTGATATTTTGGTAATTATTGTTAAAAC
190859 GGTGATATTTTGGTAATTATTGTTAAAAC
1 GGTGATATTTTGGTAATTATTGTTAAAAC
*
190888 AGTGATATTTTGGTAATT
1 GGTGATATTTTGGTAATT
190906 GTTTAAAAAA
Statistics
Matches: 143, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
28 28 0.20
29 111 0.78
30 4 0.03
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (29 bp):
GGTGATATTTTGGTAATTATTGTTAAAAC
Found at i:197517 original size:20 final size:20
Alignment explanation
Indices: 197492--197585 Score: 118
Period size: 20 Copynumber: 4.7 Consensus size: 20
197482 TATCTTATAT
*
197492 CACTATAGATAAACTAATAG
1 CACTATAAATAAACTAATAG
197512 CACTATAAATAAACTAATAG
1 CACTATAAATAAACTAATAG
*
197532 CACTATAAATAAAATAATATG
1 CACTATAAATAAACTAATA-G
* *
197553 CATTATAAATATTA-TAATAG
1 CACTATAAATA-AACTAATAG
*
197573 CACTATGAATAAA
1 CACTATAAATAAA
197586 AAATAATAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
19 1 0.02
20 47 0.72
21 16 0.25
22 1 0.02
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (20 bp):
CACTATAAATAAACTAATAG
Found at i:197522 original size:41 final size:42
Alignment explanation
Indices: 197475--197590 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 42
197465 AATATAAAAA
* * * * *
197475 ATAAATATATCTTATATCACTATAGATAAACTAATA-GCACT
1 ATAAATATAACTAATAGCACTATAAATAAAATAATATGCACT
*
197516 ATAAATA-AACTAATAGCACTATAAATAAAATAATATGCATT
1 ATAAATATAACTAATAGCACTATAAATAAAATAATATGCACT
* *
197557 ATAAATATTA-TAATAGCACTATGAATAAAA-AATA
1 ATAAATATAACTAATAGCACTATAAATAAAATAATA
197591 ATAAAGTGGG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
40 27 0.42
41 37 0.57
42 1 0.02
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.31
Consensus pattern (42 bp):
ATAAATATAACTAATAGCACTATAAATAAAATAATATGCACT
Found at i:198133 original size:29 final size:29
Alignment explanation
Indices: 198101--198321 Score: 182
Period size: 29 Copynumber: 7.6 Consensus size: 29
198091 TTCGGTTATG
* *
198101 GTGTTATTTTCGTAATTATTTTTAAAAGT
1 GTGTTATTTTGGTAATTATTGTTAAAAGT
* * * * *
198130 GTGTTGTTTTCGTATTTATTTTTAAAAAGG
1 GTGTTATTTTGGTAATTATTGTT-AAAAGT
* *
198160 GTTTTATTTTCGTAATTAATT-TTAAAACG-
1 GTGTTATTTTGGTAATT-ATTGTTAAAA-GT
* **
198189 GTGATATTTTGGCCATTATTGTTAAAA-T
1 GTGTTATTTTGGTAATTATTGTTAAAAGT
* *
198217 GATGCTATTTTGGTAATTATTGTTAAAACAT
1 G-TGTTATTTTGGTAATTATTGTTAAAA-GT
*
198248 -TGCTATTTTGGTAATTATTGTTAAAA-T
1 GTGTTATTTTGGTAATTATTGTTAAAAGT
* **
198275 GTGATATTTTGGTAATTATTGTTAAAAACA
1 GTGTTATTTTGGTAATTATTGTT-AAAAGT
*
198305 GTGATATTTTGGTAATT
1 GTGTTATTTTGGTAATT
198322 TGTTTTTAAA
Statistics
Matches: 165, Mismatches: 16, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
27 1 0.01
28 25 0.15
29 96 0.58
30 39 0.24
31 4 0.02
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (29 bp):
GTGTTATTTTGGTAATTATTGTTAAAAGT
Found at i:198208 original size:59 final size:59
Alignment explanation
Indices: 198104--198215 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 59
198094 GGTTATGGTG
* * * * *
198104 TTATTTTCGTAATTATTTTTAAAAGTGTGTTGTTTTCGTATTTATTTTTAAAAAGGGTT
1 TTATTTTCGTAATTAATTTTAAAAGTGTGATATTTTCGCATTTATTGTTAAAAAGGGTT
*
198163 TTATTTTCGTAATTAATTTTAAAACG-GTGATATTTTGGCCA-TTATTGTTAAAA
1 TTATTTTCGTAATTAATTTTAAAA-GTGTGATATTTTCG-CATTTATTGTTAAAA
198216 TGATGCTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 43 0.96
60 2 0.04
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (59 bp):
TTATTTTCGTAATTAATTTTAAAAGTGTGATATTTTCGCATTTATTGTTAAAAAGGGTT
Found at i:198244 original size:58 final size:57
Alignment explanation
Indices: 198164--198321 Score: 210
Period size: 58 Copynumber: 2.7 Consensus size: 57
198154 AAAAGGGTTT
* * * *
198164 TATTTTCGTAATTAATT-TTAAAACGGTGATATTTTGGCCATTATTGTTAAAATGATGC
1 TATTTTGGTAATT-ATTGTTAAAACAGTGATATTTTGGCAATTATTGTTAAAATG-TGA
* * *
198222 TATTTTGGTAATTATTGTTAAAACATTGCTATTTTGGTAATTATTGTTAAAATGTGA
1 TATTTTGGTAATTATTGTTAAAACAGTGATATTTTGGCAATTATTGTTAAAATGTGA
*
198279 TATTTTGGTAATTATTGTTAAAAACAGTGATATTTTGGTAATT
1 TATTTTGGTAATTATTGTT-AAAACAGTGATATTTTGGCAATT
198322 TGTTTTTAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
57 24 0.27
58 65 0.73
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (57 bp):
TATTTTGGTAATTATTGTTAAAACAGTGATATTTTGGCAATTATTGTTAAAATGTGA
Found at i:198325 original size:28 final size:29
Alignment explanation
Indices: 198164--198321 Score: 187
Period size: 29 Copynumber: 5.4 Consensus size: 29
198154 AAAAGGGTTT
* *
198164 TATTTTCGTAATTAATT-TTAAAACGGTGA
1 TATTTTGGTAATT-ATTGTTAAAACAGTGA
** * *
198193 TATTTTGGCCATTATTGTTAAAA-TGATGC
1 TATTTTGGTAATTATTGTTAAAACAG-TGA
* *
198222 TATTTTGGTAATTATTGTTAAAACATTGC
1 TATTTTGGTAATTATTGTTAAAACAGTGA
*
198251 TATTTTGGTAATTATTGTTAAAA-TGTGA
1 TATTTTGGTAATTATTGTTAAAACAGTGA
198279 TATTTTGGTAATTATTGTTAAAAACAGTGA
1 TATTTTGGTAATTATTGTT-AAAACAGTGA
198309 TATTTTGGTAATT
1 TATTTTGGTAATT
198322 TGTTTTTAAA
Statistics
Matches: 111, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
28 25 0.23
29 69 0.62
30 17 0.15
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (29 bp):
TATTTTGGTAATTATTGTTAAAACAGTGA
Found at i:198342 original size:87 final size:87
Alignment explanation
Indices: 198163--198342 Score: 204
Period size: 87 Copynumber: 2.1 Consensus size: 87
198153 AAAAAGGGTT
* ** *
198163 TTATTTTCGTAATTAATTTTAAAACGGTGATATTTTGGCCATTATTGTTAAAATGATGCTATTTT
1 TTATTTTCGTAATTAATTTTAAAACGGTGATATTTTGGCAATTATTGTTAAAAACATGATATTTT
**
198228 GGTAATTATTGTTAAAACATTG
66 GGTAATTATTGTTAAAACAAAG
* * * *
198250 CTATTTTGGTAATT-ATTGTTAAAA-TGTGATATTTTGGTAATTATTGTTAAAAACAGTGATATT
1 TTATTTTCGTAATTAATT-TTAAAACGGTGATATTTTGGCAATTATTGTTAAAAACA-TGATATT
* *
198313 TTGGTAATTTGTTTTTAAAA-AAAG
64 TTGGTAA-TTATTGTTAAAACAAAG
198337 TTATTT
1 TTATTT
198343 CTATAATTTT
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
86 29 0.38
87 38 0.49
88 10 0.13
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.48
Consensus pattern (87 bp):
TTATTTTCGTAATTAATTTTAAAACGGTGATATTTTGGCAATTATTGTTAAAAACATGATATTTT
GGTAATTATTGTTAAAACAAAG
Found at i:203214 original size:29 final size:29
Alignment explanation
Indices: 203181--203236 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
203171 TCAGCGACGG
*
203181 TCAATGATCGGTCAATGATCAATGGTCAA
1 TCAATGATCGGTCAACGATCAATGGTCAA
203210 TCAATGATCGGTCAACGATCAATGGTC
1 TCAATGATCGGTCAACGATCAATGGTC
203237 GATTAACAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (29 bp):
TCAATGATCGGTCAACGATCAATGGTCAA
Found at i:207113 original size:27 final size:23
Alignment explanation
Indices: 207059--207103 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
207049 ACATATTAGG
**
207059 TAACGCTTATATAATGTAATAGA
1 TAACGCTTATATAATAAAATAGA
207082 TAACGCTTATATAATAAAATAG
1 TAACGCTTATATAATAAAATAG
207104 GTATTTAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (23 bp):
TAACGCTTATATAATAAAATAGA
Found at i:207164 original size:87 final size:86
Alignment explanation
Indices: 207018--207267 Score: 437
Period size: 87 Copynumber: 2.9 Consensus size: 86
207008 TATGTTATAT
207018 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAA-CGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
* *
207083 AACGCTTATATAATAAAATAGG
65 AGCGCTTATATAATAAAATAGA
207105 TATTTAACGAGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACG-GAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
207170 AGCGCTTATATAATAAAATAGA
65 AGCGCTTATATAATAAAATAGA
* *
207192 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAAC-GGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
207257 AGCGCTTATAT
65 AGCGCTTATAT
207268 TGACCTATTT
Statistics
Matches: 157, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
86 2 0.01
87 154 0.98
88 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (86 bp):
TATTTAACGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGATA
GCGCTTATATAATAAAATAGA
Found at i:207175 original size:23 final size:23
Alignment explanation
Indices: 207149--207193 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
207139 TATTAGGTAA
**
207149 CGCTTATATAATGTAATAGATAG
1 CGCTTATATAATAAAATAGATAG
207172 CGCTTATATAATAAAATAGATA
1 CGCTTATATAATAAAATAGATA
207194 TTTAACGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (23 bp):
CGCTTATATAATAAAATAGATAG
Found at i:210997 original size:120 final size:120
Alignment explanation
Indices: 210784--211026 Score: 423
Period size: 120 Copynumber: 2.0 Consensus size: 120
210774 TCTTCCATTA
* *
210784 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATA
1 TGGACATAAAGTACCGACACAAAATTAAAAAGTATCGACATAGGTTGTAGACCTATTCGCTAATA
210849 AAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATAATTC
66 AAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATAATTC
* *
210904 TGGACATAAAGTACCGACACAAAATTAAAAAGTATCGATATAGGTTGTAGACCTATTCGCTCATA
1 TGGACATAAAGTACCGACACAAAATTAAAAAGTATCGACATAGGTTGTAGACCTATTCGCTAATA
* * *
210969 AAACTGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTC
66 AAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATAATTC
211024 TGG
1 TGG
211027 GTTCCGATGT
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (120 bp):
TGGACATAAAGTACCGACACAAAATTAAAAAGTATCGACATAGGTTGTAGACCTATTCGCTAATA
AAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATAATTC
Found at i:211176 original size:303 final size:303
Alignment explanation
Indices: 210615--211209 Score: 1073
Period size: 303 Copynumber: 2.0 Consensus size: 303
210605 TTAAAATTAG
* * *
210615 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTTGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTATCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
210680 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
210745 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTATGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTATGGACATAAAGTACCGACACAATATT
*
210810 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGATATACTTATACCGGTTATA
210875 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
*
210918 CGACACAAAATTAAAAAGTATCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTT
1 CGACACAAAATTAAAAAGTATCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
210983 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
211048 CACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTATGGACATAAAGTACCGACACAATATT
* * * * *
211113 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGATATATTTATATCGGTTATT
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGATATACTTATACCGGTTATA
*
211178 TTACAAAATTATCTATTACATTATAATTCTGG
261 TTACAAAATTATCTAGTACATTATAATTCTGG
211210 GTTCCGATGT
Statistics
Matches: 279, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
303 279 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (303 bp):
CGACACAAAATTAAAAAGTATCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTATGGACATAAAGTACCGACACAATATT
AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGATATACTTATACCGGTTATA
TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
Found at i:211208 original size:183 final size:183
Alignment explanation
Indices: 210900--211488 Score: 1020
Period size: 183 Copynumber: 3.2 Consensus size: 183
210890 GTACATTATA
* *
210900 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTATCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
210965 CATAAAACTGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
*
211030 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
211083 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* * *
211148 CATAAAACCGATATATTTATATCGGTTATTTTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
211213 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
211266 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
211331 CATAAAACCGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* * * *
211396 CCGATGTTTTTTCAA--TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCT
131 CCGATG---TGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
211450 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
211489 GAAAACTTTG
Statistics
Matches: 387, Mismatches: 16, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
183 307 0.79
184 76 0.20
186 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:213754 original size:182 final size:180
Alignment explanation
Indices: 213314--213784 Score: 685
Period size: 182 Copynumber: 2.6 Consensus size: 180
213304 CATACTTACG
* * *
213314 AAAGTATCGACACTTTCAATATATCCGATATCGTTTTACCGGTTTTATCATTTTGATATCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
213379 TATCATATTTTTACCTGTTATATCATTGTGGATCGATA-TTTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
*
213443 AGGGCTAAAATTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 AGGGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
*
213493 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACTGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
213558 TATCATATTTTTACCTGGTATATCGTTTTGCATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
213623 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGG-GCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * **
213675 AAAGTA-CTGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTT
1 AAAGTATC-GACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTT
* * *
213739 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
213785 AATTTGGATC
Statistics
Matches: 261, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
179 95 0.36
180 26 0.10
181 43 0.16
182 97 0.37
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (180 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:213799 original size:182 final size:178
Alignment explanation
Indices: 213314--213786 Score: 669
Period size: 179 Copynumber: 2.6 Consensus size: 178
213304 CATACTTACG
* * *
213314 AAAGTATCGACACTTTCAATATATCCGATATCGTTTTACCGGTTTTATCATTTTGATATCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * **
213379 TATCATATTTTTACCTGTTATATCATTGTGGATCGATATTTTTTTTAAAGTATCGACACATTATA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATA-CATTTTTAAAGTATCGACACATTATA
*
213444 GGGCTAAAATTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
130 GGGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
*
213493 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACTGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
213558 TATCATATTTTTACCTGGTATATCGTTTTGCATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACA-TTTTT-AAAGTATCGACACATTAT
** *
213623 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
129 AGG-GCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * **
213675 AAAGTA-CTGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTT
1 AAAGTATC-GACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTT
* * *
213739 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTAA
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAA
213787 TTTGGATCGA
Statistics
Matches: 262, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
179 100 0.38
180 22 0.08
181 48 0.18
182 92 0.35
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (178 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTAAAGTATCGACACATTATAG
GGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:216246 original size:17 final size:17
Alignment explanation
Indices: 216220--216252 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
216210 TTTTGTTTTT
216220 AATTTATTTAAGTATTTA
1 AATTTATTTAA-TATTTA
216238 AATTT-TTTAATATTT
1 AATTTATTTAATATTT
216253 TATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:216254 original size:17 final size:19
Alignment explanation
Indices: 216215--216271 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 19
216205 TAATATTTTG
*
216215 TTTTTAATTTATTTAAGTA
1 TTTTAAATTTATTTAAGTA
216234 -TTTAAATTT-TTTAA-TA
1 TTTTAAATTTATTTAAGTA
* *
216250 TTTT--ATTTAATTAATTA
1 TTTTAAATTTATTTAAGTA
216267 TTTTA
1 TTTTA
216272 CAAATATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 4 0.12
16 6 0.19
17 14 0.44
18 8 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTAAATTTATTTAAGTA
Found at i:221419 original size:3 final size:3
Alignment explanation
Indices: 221396--221441 Score: 65
Period size: 3 Copynumber: 14.7 Consensus size: 3
221386 CCGGGTTTTG
*
221396 TAA TAT TAA TAAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
221442 TTAAAATGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 33 0.82
4 7 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:221701 original size:17 final size:17
Alignment explanation
Indices: 221679--221734 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
221669 TTGAATAAGC
221679 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
*
221696 TCTTCTTC-TCCTGATG-ATT
1 TCTTC-TCAT--T-ATGAACT
221715 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
221732 TCT
1 TCT
221735 CTGGAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
16 3 0.10
17 12 0.39
18 4 0.13
19 9 0.29
20 3 0.10
ACGTcount: A:0.18, C:0.25, G:0.07, T:0.50
Consensus pattern (17 bp):
TCTTCTCATTATGAACT
Found at i:221728 original size:16 final size:18
Alignment explanation
Indices: 221679--221728 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 18
221669 TTGAATAAGC
221679 TCTTCTCATTATGAACTTCT
1 TCTTCTCATTATG-AC-TCT
* *
221699 TCTTCTCCTGATGA-T-T
1 TCTTCTCATTATGACTCT
221715 TCTTCTCATTATGA
1 TCTTCTCATTATGA
221729 ACTTCTCTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 13 0.50
17 1 0.04
19 1 0.04
20 11 0.42
ACGTcount: A:0.18, C:0.24, G:0.08, T:0.50
Consensus pattern (18 bp):
TCTTCTCATTATGACTCT
Found at i:221808 original size:17 final size:17
Alignment explanation
Indices: 221786--221844 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
221776 TCTGAACAAA
221786 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
221803 TTCTTCATC-TCCTGATG-AG
1 TTCTTC-TCAT--T-ATGAAC
221822 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
221839 TTCTTC
1 TTCTTC
221845 ATCTTTCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 3 0.09
17 15 0.44
18 4 0.12
19 9 0.26
20 3 0.09
ACGTcount: A:0.19, C:0.25, G:0.08, T:0.47
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:221813 original size:20 final size:20
Alignment explanation
Indices: 221790--221848 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
221780 AACAAATTCT
221790 TCTCATTATGAACTTCTTCA
1 TCTCATTATGAACTTCTTCA
* * *
221810 TCTCCTGATG-AGTTC-T--
1 TCTCATTATGAACTTCTTCA
221826 TCTCATTATGAACTTCTTCA
1 TCTCATTATGAACTTCTTCA
221846 TCT
1 TCT
221849 TTCTTCAGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
16 8 0.28
17 4 0.14
18 2 0.07
19 4 0.14
20 11 0.38
ACGTcount: A:0.20, C:0.25, G:0.08, T:0.46
Consensus pattern (20 bp):
TCTCATTATGAACTTCTTCA
Found at i:221833 original size:36 final size:38
Alignment explanation
Indices: 221786--221879 Score: 138
Period size: 36 Copynumber: 2.5 Consensus size: 38
221776 TCTGAACAAA
*
221786 TTCTTCTCATTATGAACTTCTTCATC-TC-CTGATGAG
1 TTCTTCTCATTATGAACTTCTTCATCTTCTCAGATGAG
221822 TTCTTCTCATTATGAACTTCTTCATCTTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCATC-TTC-TCAGATGAG
*
221862 TTCTTCTCATTATAAACT
1 TTCTTCTCATTATGAACT
221880 CGAACTGGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
36 26 0.50
38 2 0.04
40 24 0.46
ACGTcount: A:0.21, C:0.23, G:0.09, T:0.47
Consensus pattern (38 bp):
TTCTTCTCATTATGAACTTCTTCATCTTCTCAGATGAG
Found at i:221947 original size:149 final size:146
Alignment explanation
Indices: 221679--221992 Score: 395
Period size: 149 Copynumber: 2.1 Consensus size: 146
221669 TTGAATAAGC
* * * *
221679 TCTTCTCATTATGAACTTCTTCTTCTCCTGATGATTTCTTCTCATTATGAACTTCTCTGGAAAAA
1 TCTTCTCATTATGAACTTCTTCTTCTCCAGATGAGTTCTTCTCATTATAAACTTCACTGGAAAAA
* * *
221744 CTGACTCATCAAGTGATGGATTTGAGCAAAAATCTGAACAAATTCTTCTCATTATGAACTTCTTC
66 CTAACTCATCAAATGATAGATTTGAGCAAAAATCTGAACAAATTCTTCTCATTATGAACTTCTTC
*
221809 ATC-TC-CTGATGAGT
131 ATCTTCTCAGATGAGT
*
221823 TCTTCTCATTATGAACTTCTTCATCTTTCTTCAGATGAGTTCTTCTCATTATAAAC-TCGAACTG
1 TCTTCTCATTATGAACTTC-T--TC-TTCTCCAGATGAGTTCTTCTCATTATAAACTTC--ACTG
* * *
221887 GAAAAGCTAA-TCTATCAAATGATAGATTTGAGCAAAAGGT-TGAACAAATTCTTCTTATTATGA
60 GAAAAACTAACTC-ATCAAATGATAGATTTGAGCAAAA-ATCTGAACAAATTCTTCTCATTATGA
221950 ACTTCTTCATCTTTCTTCAGATGAGT
123 ACTTCTTCATC-TTC-TCAGATGAGT
221976 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
221993 CGAACTGGAA
Statistics
Matches: 146, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
144 19 0.13
145 1 0.01
147 4 0.03
148 28 0.19
149 66 0.45
150 1 0.01
151 2 0.01
153 25 0.17
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (146 bp):
TCTTCTCATTATGAACTTCTTCTTCTCCAGATGAGTTCTTCTCATTATAAACTTCACTGGAAAAA
CTAACTCATCAAATGATAGATTTGAGCAAAAATCTGAACAAATTCTTCTCATTATGAACTTCTTC
ATCTTCTCAGATGAGT
Found at i:222023 original size:113 final size:113
Alignment explanation
Indices: 221822--222677 Score: 1435
Period size: 113 Copynumber: 7.6 Consensus size: 113
221812 TCCTGATGAG
* * * * ****
221822 TTCTTCTCATTATGAACTTCTTCATCTTTCTTCAGATGAGTTCTTCTCATTATAAACTCGAACTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
* * * *
221887 GAAAAGCTAATCTATCAAATGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
* * * * ****
221935 TTCTTCTTATTATGAACTTCTTCATCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
* * *
222000 GAAAAGCTAATCTATCA-AGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAGA-TGATGGATTTGAGCAAAAGGTTGAACAAA
*
222048 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
*
222113 GAAAAGTTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
222161 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
*
222226 GAAAAGCTGATCCATCATATGATGGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
222274 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
*
222339 GAAAAGCTGATTCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
222387 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
222452 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
222500 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
222565 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
*
222613 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATGTTCTTCTCATTATGAACTTCTTCT
1 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGA-GTTCTTCTCATTATGAACTTTTTCT
222678 TCCTTCTTCA
Statistics
Matches: 718, Mismatches: 22, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
112 1 0.00
113 692 0.96
114 25 0.03
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (113 bp):
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
GAAAAGCTGATCCATCAGATGATGGATTTGAGCAAAAGGTTGAACAAA
Found at i:222675 original size:41 final size:40
Alignment explanation
Indices: 222613--222712 Score: 173
Period size: 41 Copynumber: 2.5 Consensus size: 40
222603 GTTGAACAAA
* *
222613 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGATG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-AAG
222654 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAG
222694 TTCTTCTCATTATGAACTT
1 TTCTTCTCATTATGAACTT
222713 TCTCTTGAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 21 0.37
41 36 0.63
ACGTcount: A:0.19, C:0.23, G:0.08, T:0.50
Consensus pattern (40 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAG
Found at i:222685 original size:154 final size:155
Alignment explanation
Indices: 222500--222827 Score: 489
Period size: 154 Copynumber: 2.1 Consensus size: 155
222490 GTTGAACAAA
* * *
222500 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTG
* * ** * **
222565 GAAAAGCTGATCCATC-AGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
66 GAAAAGATGATCCATCGA-ATGATGAATTCAAACAAAAAATTGAACAAATTCTTCTCATTATGAA
* *
222629 TTTCTTCTTCCTTCTTCAGATGA-TG
130 CTTCTTCTTCCTTCTTCAGATGACAG
*
222654 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTG
* *
222719 GAAATGATGATCCATCGAATGATGAATTCAAACAAAAAATTGAACAAGTTCTTCTCATTATGAAC
66 GAAAAGATGATCCATCGAATGATGAATTCAAACAAAAAATTGAACAAATTCTTCTCATTATGAAC
222784 TTCTTCTTCCTTCTTCAGATGACGAG
131 TTCTTCTTCCTTCTTCAGATGAC-AG
222810 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
222828 CTACCTGGCA
Statistics
Matches: 156, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
154 136 0.87
155 1 0.01
156 19 0.12
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.41
Consensus pattern (155 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGATGATCCATCGAATGATGAATTCAAACAAAAAATTGAACAAATTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGACAG
Found at i:222846 original size:116 final size:114
Alignment explanation
Indices: 222653--222942 Score: 460
Period size: 116 Copynumber: 2.5 Consensus size: 114
222643 TTCAGATGAT
*
222653 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-AAGTTCTTCTCATTATGAACTTTCTC
1 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAAGTTCTTCTCATTATGAACTTACTC
* *
222717 TTGAAATGATGATCCATCGAATGATGAATTCAAACAAAAAATTGAACAA
66 TGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAATTGAACAA
222766 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTA
1 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA--AGTTCTTCTCATTATGAACT-TA
* * * *
222831 C-CTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAA
63 CTCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAATTGAACAA
222882 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATA-TTCTTCTCATTATGAACTT
1 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA-AGTTCTTCTCATTATGAACTT
222943 CTTCTTCCTT
Statistics
Matches: 165, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
113 39 0.24
114 19 0.12
115 1 0.01
116 104 0.63
117 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.40
Consensus pattern (114 bp):
GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAAGTTCTTCTCATTATGAACTTACTC
TGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAATTGAACAA
Found at i:222928 original size:41 final size:40
Alignment explanation
Indices: 222883--222982 Score: 182
Period size: 41 Copynumber: 2.5 Consensus size: 40
222873 GTTGAACAAG
*
222883 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAT
222923 ATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAT
1 -TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAT
222964 TTCTTCTCATTATGAACTT
1 TTCTTCTCATTATGAACTT
222983 TCTCTTGAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
40 19 0.33
41 39 0.67
ACGTcount: A:0.20, C:0.24, G:0.06, T:0.50
Consensus pattern (40 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAT
Found at i:222955 original size:270 final size:270
Alignment explanation
Indices: 222387--223482 Score: 1858
Period size: 270 Copynumber: 4.1 Consensus size: 270
222377 GTTGAACAAA
* * * *
222387 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTT
* * * ** * * *
222452 GAAAAGCTGATCCATC-AGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
66 GAAATGATGATCCATCGA-ATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAA
* * ** * * *
222516 TTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCC
130 CTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCC
* * * * * * *
222578 ATCAGATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTC
195 ATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
222643 TTCAGATGATG
260 TTCAGATGATG
222654 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTT
*
222719 GAAATGATGATCCATCGAATGATGAATTCAAACAAAAAATTGAACAAGTTCTTCTCATTATGAAC
66 GAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
222784 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCA
131 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCA
222849 TCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCT
196 TCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCT
*
222914 TCAGATGATA
261 TCAGATGATG
*
222924 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAATTTCTTCTCATTATGAACTTTCTCTT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTT
222989 GAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
66 GAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
*
223054 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATCTTGATCCA
131 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCA
223119 TCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCT
196 TCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCT
*
223184 TCAGATAATG
261 TCAGATGATG
*
223194 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAATTTCTTCTCATTATGAACTTTCTCTT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTT
223259 GAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
66 GAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
223324 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCA
131 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCA
223389 TCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCT
196 TCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCT
*
223454 TTAGATGATG
261 TCAGATGATG
223464 TTCTTCTCATTATGAACTT
1 TTCTTCTCATTATGAACTT
223483 GACCTAGTAA
Statistics
Matches: 789, Mismatches: 36, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
267 134 0.17
268 1 0.00
270 654 0.83
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (270 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTT
GAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCA
TCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCT
TCAGATGATG
Found at i:223057 original size:154 final size:158
Alignment explanation
Indices: 222765--223097 Score: 541
Period size: 154 Copynumber: 2.1 Consensus size: 158
222755 AAATTGAACA
222765 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC-AGTTCTTCTCATTATGAACTCT
* * *
222830 ACCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTA
65 ACCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTA
*
222895 TGAACTTCTTCTTCCTTCTTCAGATGA-T
130 TGAACTTCTTCTTCCTTCTTCAGATGACG
* *
222923 A-TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-ATTTCTTCTCATTATGAACT-TT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACAGTTCTTCTCATTATGAACTCTA
* *
222984 CTCTTGAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTA
66 C-CTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTA
223049 TGAACTTCTTCTTCCTTCTTCAGATGACG
130 TGAACTTCTTCTTCCTTCTTCAGATGACG
223078 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
223098 CTACCTGGCA
Statistics
Matches: 164, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
153 2 0.01
154 104 0.63
155 1 0.01
156 19 0.12
157 37 0.23
158 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.40
Consensus pattern (158 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACAGTTCTTCTCATTATGAACTCTA
CCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTAT
GAACTTCTTCTTCCTTCTTCAGATGACG
Found at i:223118 original size:116 final size:113
Alignment explanation
Indices: 222924--223212 Score: 454
Period size: 116 Copynumber: 2.5 Consensus size: 113
222914 TCAGATGATA
* * *
222924 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAATTTCTTCTCATTATGAACTTTCTCTT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTACTCTG
* *
222989 GAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAG
66 GAAATCATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAG
223037 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A--AGTTCTTCTCATTATGAACT-TAC
* * *
223102 -CTGGCAATCTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAG
62 TCTGGAAATCATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAG
223153 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAATGTTCTTCTCATTATGAACTT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAA-GTTCTTCTCATTATGAACTT
223213 CTTCTTCCTT
Statistics
Matches: 163, Mismatches: 8, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
113 39 0.24
114 20 0.12
115 1 0.01
116 101 0.62
117 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.40
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTACTCTG
GAAATCATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAG
Found at i:223197 original size:41 final size:41
Alignment explanation
Indices: 223152--223252 Score: 195
Period size: 41 Copynumber: 2.5 Consensus size: 41
223142 AGTTGAACAA
223152 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAT
1 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAT
223193 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAT
1 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAT
223234 -TTCTTCTCATTATGAACTT
1 GTTCTTCTCATTATGAACTT
223253 TCTCTTGAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 19 0.32
41 41 0.68
ACGTcount: A:0.20, C:0.24, G:0.07, T:0.50
Consensus pattern (41 bp):
GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAT
Found at i:223319 original size:113 final size:112
Alignment explanation
Indices: 223193--223512 Score: 451
Period size: 116 Copynumber: 2.8 Consensus size: 112
223183 TTCAGATAAT
*
223193 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAATTTCTTCTCATTATGAACTTTCTCT
1 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAATTTCTTCTCATTATGAACTTAC-CT
* *
223258 TGAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAA
65 GGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
*
223306 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTA
1 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A--ATTTCTTCTCATTATGAACT-TA
* * *
223371 CCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAA
62 CCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
* *
223422 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGATGTTCTTCTCATTATGAACTTGACC
1 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAT-TTCTTCTCATTATGAACTT-ACC
* * * **
223487 TAGTAATGTTGATCCATTGAATGATG
64 TGGAAATGATGATCCATCAAATGATG
223513 GATTTGAACT
Statistics
Matches: 187, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
113 40 0.21
114 44 0.24
116 101 0.54
117 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (112 bp):
GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAATTTCTTCTCATTATGAACTTACCTG
GAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
Found at i:223327 original size:154 final size:157
Alignment explanation
Indices: 223035--223367 Score: 523
Period size: 154 Copynumber: 2.1 Consensus size: 157
223025 AAGTTGAACA
223035 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC-AGTTCTTCTCATTATGAACTCT
* * *
223100 ACCTGGCAATCTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTA
65 ACCTGGAAATCATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTA
223165 TGAACTTCTTCTTCCTTCTTCAGAT-A-
130 TGAACTTCTTCTTCCTTCTTCAGATGAC
*
223191 ATGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-ATTTCTTCTCATTATGAACT-T
1 A-GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACAGTTCTTCTCATTATGAACTCT
* * * *
223253 TCTCTTGAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATT
65 AC-CTGGAAATCATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATT
223318 ATGAACTTCTTCTTCCTTCTTCAGATGAC
129 ATGAACTTCTTCTTCCTTCTTCAGATGAC
223347 GAGTTCTTCTCATTATGAACT
1 -AGTTCTTCTCATTATGAACT
223368 CTACCTGGCA
Statistics
Matches: 164, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
153 2 0.01
154 101 0.62
155 1 0.01
156 21 0.13
157 39 0.24
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (157 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACAGTTCTTCTCATTATGAACTCTA
CCTGGAAATCATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTAT
GAACTTCTTCTTCCTTCTTCAGATGAC
Found at i:223944 original size:22 final size:22
Alignment explanation
Indices: 223919--223973 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
223909 GATAAAGCTT
*
223919 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
223941 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
223963 TCATCTTTGAA
1 TCATCTTTGAA
223974 GAGTGTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:224424 original size:54 final size:54
Alignment explanation
Indices: 224342--224551 Score: 366
Period size: 54 Copynumber: 3.9 Consensus size: 54
224332 AGAATAGCAG
* ** *
224342 GTTCGTAAAACATTTGACAGCGTATTCATCCTTTCATGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
224396 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
*
224450 GTTCGTAAAATATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
*
224504 GTTCGTAAAATATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
224552 CAAGATTTCT
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 151 1.00
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Found at i:229009 original size:16 final size:18
Alignment explanation
Indices: 228983--229019 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
228973 ATTCAATTTT
228983 TTTTCTTTTTCTTC-TTC
1 TTTTCTTTTTCTTCTTTC
229000 TTTT-TTTTTCTTCTTTC
1 TTTTCTTTTTCTTCTTTC
229017 TTT
1 TTT
229020 GCTGGATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTCTTTTTCTTCTTTC
Found at i:232239 original size:14 final size:14
Alignment explanation
Indices: 232219--232256 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
232209 TGCCAAATGC
232219 AAATGTAAATATGT
1 AAATGTAAATATGT
* *
232233 GAATGTAAAAATGT
1 AAATGTAAATATGT
232247 AAATGTAAAT
1 AAATGTAAAT
232257 TATTTAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (14 bp):
AAATGTAAATATGT
Found at i:233973 original size:19 final size:19
Alignment explanation
Indices: 233932--233974 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
233922 TATTAATAAG
* *
233932 AAAATATATAAATACTATG
1 AAAATATATAAATAATATA
233951 AAAATA-ATAAATATATATA
1 AAAATATATAAATA-ATATA
233970 AAAAT
1 AAAAT
233975 TTTGAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATATATAAATAATATA
Found at i:233980 original size:28 final size:27
Alignment explanation
Indices: 233926--233982 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
233916 ATGAAATATT
*
233926 AATAAGAAAATATATAAATACTATGAA
1 AATAAGAAAATATATAAAAACTATGAA
* * *
233953 AATAATAAATATATATAAAAATTTTGAA
1 AATAAGAAA-ATATATAAAAACTATGAA
233981 AA
1 AA
233983 GAAAGAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (27 bp):
AATAAGAAAATATATAAAAACTATGAA
Found at i:236269 original size:21 final size:21
Alignment explanation
Indices: 236245--236308 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
236235 AACAATTAGT
236245 ATAATATTTTTTCATATAATC
1 ATAATATTTTTTCATATAATC
**
236266 ATAATA----AACA-ATAAGT-
1 ATAATATTTTTTCATATAA-TC
236282 ATAATATTTTTTCATATAATC
1 ATAATATTTTTTCATATAATC
236303 ATAATA
1 ATAATA
236309 AACAATAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
16 10 0.31
17 3 0.09
20 3 0.09
21 16 0.50
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAATATTTTTTCATATAATC
Found at i:236284 original size:37 final size:37
Alignment explanation
Indices: 236234--236324 Score: 173
Period size: 37 Copynumber: 2.5 Consensus size: 37
236224 AATTAATTGA
*
236234 AAACAATTAGTATAATATTTTTTCATATAATCATAAT
1 AAACAATAAGTATAATATTTTTTCATATAATCATAAT
236271 AAACAATAAGTATAATATTTTTTCATATAATCATAAT
1 AAACAATAAGTATAATATTTTTTCATATAATCATAAT
236308 AAACAATAAGTATAATA
1 AAACAATAAGTATAATA
236325 AAAAATATTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (37 bp):
AAACAATAAGTATAATATTTTTTCATATAATCATAAT
Found at i:238931 original size:48 final size:48
Alignment explanation
Indices: 238860--238956 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
238850 ACACCCTAAA
238860 CCCAATGTGTCAACACTAGGCTTAAAGTGCCACATTTGGACCCGAGAG
1 CCCAATGTGTCAACACTAGGCTTAAAGTGCCACATTTGGACCCGAGAG
238908 CCCAATGTGTCAACACTAGGCTTAAAGTGCCACATTTGGACCCGAGAG
1 CCCAATGTGTCAACACTAGGCTTAAAGTGCCACATTTGGACCCGAGAG
238956 C
1 C
238957 GACCCAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (48 bp):
CCCAATGTGTCAACACTAGGCTTAAAGTGCCACATTTGGACCCGAGAG
Found at i:242015 original size:40 final size:40
Alignment explanation
Indices: 241971--242072 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 40
241961 TTCTTATAGA
*
241971 TAGGTGTGTATCTCATACAGTATATCAC-TATTAATATACT
1 TAGGTGTGTATCTCATACAATATATCACAT-TTAATATACT
* ** * *
242011 TAGGTGTGTATCTCGTGA-AATATATCACATTTCTTGTATT
1 TAGGTGTGTATCTCAT-ACAATATATCACATTTAATATACT
242051 TAGGTGTGTATCTCATACAATA
1 TAGGTGTGTATCTCATACAATA
242073 CACTGTTACT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 49 0.94
41 2 0.04
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (40 bp):
TAGGTGTGTATCTCATACAATATATCACATTTAATATACT
Found at i:242103 original size:80 final size:77
Alignment explanation
Indices: 241971--242154 Score: 217
Period size: 80 Copynumber: 2.3 Consensus size: 77
241961 TTCTTATAGA
* * * *
241971 TAGGTGTGTATCTCATACAGTATATCACTATTAATATACTTAGGTGTGTATCTCGTGAAATATAT
1 TAGGTGTGTATCTCATACA--ATA-CACTATTAATATACTTAGATGTATATCTCATGAAATACAT
242036 CACATTTCTTGTATT
63 CACATTTCTTGTATT
* * * *
242051 TAGGTGTGTATCTCATACAATACACTGTTACTCTCATATTTAGATGTATATCTCATGTAATACAT
1 TAGGTGTGTATCTCATACAATACACTATTA--AT-ATACTTAGATGTATATCTCATGAAATACAT
242116 CACATTTCTTGTATT
63 CACATTTCTTGTATT
*
242131 T-GAGTGTGTATCTCGTACAATACA
1 TAG-GTGTGTATCTCATACAATACA
242155 TCACCATTGT
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
77 7 0.08
78 3 0.03
79 2 0.02
80 79 0.87
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (77 bp):
TAGGTGTGTATCTCATACAATACACTATTAATATACTTAGATGTATATCTCATGAAATACATCAC
ATTTCTTGTATT
Found at i:242131 original size:40 final size:40
Alignment explanation
Indices: 242010--242208 Score: 172
Period size: 40 Copynumber: 5.0 Consensus size: 40
242000 ATTAATATAC
* *
242010 TTAGGTGTGTATCTCGTGAAATATATCACATTTCTTGTAT
1 TTAGGTGTGTATCTCGTGCAATACATCACATTTCTTGTAT
* * ** **
242050 TTAGGTGTGTATCTCATACAATACA-C-TGTTACTCTCATAT
1 TTAGGTGTGTATCTCGTGCAATACATCACATT--TCTTGTAT
* * * *
242090 TTAGATGTATATCTCATGTAATACATCACATTTCTTGTAT
1 TTAGGTGTGTATCTCGTGCAATACATCACATTTCTTGTAT
* * * *
242130 TT-GAGTGTGTATCTCGTACAATACATCACCA-TTGTGGTTT
1 TTAG-GTGTGTATCTCGTGCAATACATCA-CATTTCTTGTAT
* *
242170 TTAGGTGTGTATCTCGTGTAATACATCACATTTATTGTA
1 TTAGGTGTGTATCTCGTGCAATACATCACATTTCTTGTA
242209 ATTATCCTAG
Statistics
Matches: 122, Mismatches: 29, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
38 2 0.02
39 4 0.03
40 110 0.90
41 4 0.03
42 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.43
Consensus pattern (40 bp):
TTAGGTGTGTATCTCGTGCAATACATCACATTTCTTGTAT
Found at i:242173 original size:80 final size:80
Alignment explanation
Indices: 242010--242208 Score: 231
Period size: 80 Copynumber: 2.5 Consensus size: 80
242000 ATTAATATAC
* *
242010 TTAGGTGTGTATCTCGTGAAATATATCACATTTCTTGTATTTAGGTGTGTATCTCATACAATACA
1 TTAGGTGTGTATCTCGTGTAATACATCACATTTCTTGTATTTAGGTGTGTATCTCATACAATACA
***
242075 CTGTTACTCTCATAT
66 CTACCACTCTCATAT
* * * *
242090 TTAGATGTATATCTCATGTAATACATCACATTTCTTGTATTT-GAGTGTGTATCTCGTACAATAC
1 TTAGGTGTGTATCTCGTGTAATACATCACATTTCTTGTATTTAG-GTGTGTATCTCATACAATAC
* * ** *
242154 A-TCACCATTGTGGTTT
65 ACT-ACCACTCTCATAT
*
242170 TTAGGTGTGTATCTCGTGTAATACATCACATTTATTGTA
1 TTAGGTGTGTATCTCGTGTAATACATCACATTTCTTGTA
242209 ATTATCCTAG
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.02
80 97 0.98
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.43
Consensus pattern (80 bp):
TTAGGTGTGTATCTCGTGTAATACATCACATTTCTTGTATTTAGGTGTGTATCTCATACAATACA
CTACCACTCTCATAT
Found at i:247259 original size:17 final size:18
Alignment explanation
Indices: 247218--247253 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
247208 ATTAACATGC
*
247218 TTATCATTACTTATTTTA
1 TTATCATTAATTATTTTA
247236 TTATCATTAATTCATTTT
1 TTATCATTAATT-ATTTT
247254 TATCATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATCATTAATTATTTTA
Found at i:248522 original size:55 final size:55
Alignment explanation
Indices: 248438--248582 Score: 200
Period size: 55 Copynumber: 2.6 Consensus size: 55
248428 TTCATACTTG
* * *
248438 GGGTATCGATACATTCCCCAGTGTACCGATACATAAATAACACTCGATGTTTTTA
1 GGGTATCGATACACTCCCCAGTGTACCGATACACAAATAACACTCGATGTTTTGA
* ** **
248493 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGGCTTTCGATGTTTTGA
1 GGGTATCGATACACTCCCCAGTGTACCGATACACAAATAACACTCGATGTTTTGA
* *
248548 AGGTATCGATACACTCCCCAGTGTACCAATACACA
1 GGGTATCGATACACTCCCCAGTGTACCGATACACA
248583 CTCATACAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 79 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (55 bp):
GGGTATCGATACACTCCCCAGTGTACCGATACACAAATAACACTCGATGTTTTGA
Found at i:254372 original size:10 final size:10
Alignment explanation
Indices: 254357--254390 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
254347 CTTTCTCCTA
254357 TTTTATTTTG
1 TTTTATTTTG
254367 TTTTA-TTTG
1 TTTTATTTTG
254376 TTTTTATTTTG
1 -TTTTATTTTG
254387 TTTT
1 TTTT
254391 TGTTGCATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 4 0.18
10 14 0.64
11 4 0.18
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (10 bp):
TTTTATTTTG
Found at i:258202 original size:19 final size:19
Alignment explanation
Indices: 258175--258211 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
258165 ATATTTTAAA
258175 AAAAGTTATAAATAAAAAT
1 AAAAGTTATAAATAAAAAT
*
258194 AAAATTTATAAATAAAAA
1 AAAAGTTATAAATAAAAA
258212 ATAGGTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (19 bp):
AAAAGTTATAAATAAAAAT
Found at i:259297 original size:16 final size:19
Alignment explanation
Indices: 259262--259300 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
259252 TAAATTTACT
259262 TTTTTATTTGTTTAAAATA
1 TTTTTATTTGTTTAAAATA
259281 TTTTTA-TT-TTT-AAATA
1 TTTTTATTTGTTTAAAATA
259297 TTTT
1 TTTT
259301 AGATGGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 3 0.15
18 2 0.10
19 6 0.30
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTATTTGTTTAAAATA
Found at i:260666 original size:5 final size:6
Alignment explanation
Indices: 260627--260663 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
260617 TTCCACCTAA
*
260627 TATTTT TATTTAT AATTTT TATTTT TATTTT TATTTT
1 TATTTT TATTT-T TATTTT TATTTT TATTTT TATTTT
260664 ATTAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:260790 original size:98 final size:97
Alignment explanation
Indices: 260669--260857 Score: 326
Period size: 98 Copynumber: 1.9 Consensus size: 97
260659 ATTTTATTAA
*
260669 AAAATTATTTTTAATAAACTCGTCATCTCGACGTAATGAGTCATATTGATGATAATAAAATAATG
1 AAAATTATTTTTAATAAACTCGTCACCTCGACGTAATGAGTCATATTGATGATAATAAAATAATG
*
260734 GCCTACATGGGGCCCCCACTCGGGGATCATTT
66 GCCTACATGGAGCCCCCACTCGGGGATCATTT
*
260766 AAAATTATATTTT-ATGGAACTCGTCACCTCGACGTAATGAGTCATATTGATGATAATAAAATAA
1 AAAATTAT-TTTTAAT-AAACTCGTCACCTCGACGTAATGAGTCATATTGATGATAATAAAATAA
260830 TGGCCTACATGGAGCCCCCACTCGGGGA
64 TGGCCTACATGGAGCCCCCACTCGGGGA
260858 CCCCACTCGA
Statistics
Matches: 87, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
97 10 0.11
98 77 0.89
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (97 bp):
AAAATTATTTTTAATAAACTCGTCACCTCGACGTAATGAGTCATATTGATGATAATAAAATAATG
GCCTACATGGAGCCCCCACTCGGGGATCATTT
Found at i:261189 original size:101 final size:101
Alignment explanation
Indices: 261014--261216 Score: 388
Period size: 101 Copynumber: 2.0 Consensus size: 101
261004 AGAAAAAACC
261014 AAATTCCACATGACGAGATCTAGACTCACAAGACATTGTACCCTTAGGACCAAATCACACCTATT
1 AAATTCCACATGACGAGATCTAGACTCACAAGACATTGTACCCTTAGGACCAAATCACACCTATT
261079 TAGTGAAAGAGGTGAATTCGAAACTATGAGGTCTAA
66 TAGTGAAAGAGGTGAATTCGAAACTATGAGGTCTAA
* *
261115 AAATTCCACATGACGAGGTCTGGACTCACAAGACATTGTACCCTTAGGACCAAATCACACCTATT
1 AAATTCCACATGACGAGATCTAGACTCACAAGACATTGTACCCTTAGGACCAAATCACACCTATT
261180 TAGTGAAAGAGGTGAATTCGAAACTATGAGGTCTAA
66 TAGTGAAAGAGGTGAATTCGAAACTATGAGGTCTAA
261216 A
1 A
261217 CCCACAGACC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (101 bp):
AAATTCCACATGACGAGATCTAGACTCACAAGACATTGTACCCTTAGGACCAAATCACACCTATT
TAGTGAAAGAGGTGAATTCGAAACTATGAGGTCTAA
Found at i:264860 original size:16 final size:17
Alignment explanation
Indices: 264839--264870 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
264829 AAAGTACAAG
264839 ACGTGGAAG-CTACCAC
1 ACGTGGAAGACTACCAC
264855 ACGTGGAAGACTACCA
1 ACGTGGAAGACTACCA
264871 AGGCGGACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.34, C:0.28, G:0.25, T:0.12
Consensus pattern (17 bp):
ACGTGGAAGACTACCAC
Found at i:265077 original size:13 final size:13
Alignment explanation
Indices: 265059--265083 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
265049 TATCACCATC
265059 CTTGTGTAAAATA
1 CTTGTGTAAAATA
265072 CTTGTGTAAAAT
1 CTTGTGTAAAAT
265084 CGTTTCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
CTTGTGTAAAATA
Found at i:267511 original size:24 final size:21
Alignment explanation
Indices: 267467--267512 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
267457 TTAAATATGA
*
267467 TCTAGATTATTAATATTTTCT
1 TCTAGAATATTAATATTTTCT
*
267488 TCTAGAATATTAATATTCTCT
1 TCTAGAATATTAATATTTTCT
267509 TCTA
1 TCTA
267513 TTGAAGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.52
Consensus pattern (21 bp):
TCTAGAATATTAATATTTTCT
Found at i:271095 original size:314 final size:314
Alignment explanation
Indices: 270495--271123 Score: 1110
Period size: 314 Copynumber: 2.0 Consensus size: 314
270485 TTCCATTTCC
270495 ATAATATAAAGGACTAAATCTATATCATCTTATTGTTTAAAAGATATCACAACTTGATCTAATTA
1 ATAATATAAAGGACTAAATCTATATCATCTTATTGTTTAAAAGATATCACAACTTGA-CTAATTA
270560 TTATTAATATCAGATAATAATTTTTTAGATTTACCATTTAAATCCATTTCAGTTACCTCTCCAAG
65 TTATTAATATCAGATAATAATTTTTTAGATTTACCATTTAAATCCATTTCAGTTACCTCTCCAAG
270625 ATTAAATATTTTGTTCTATGTATTAACTTTATTATACATCTTATTAAAAATATAGAGGGTCATAT
130 ATTAAATATTTTGTTCTATGTATTAACTTTATTATACATCTTATTAAAAATATAGAGGGTCATAT
270690 CTATTAAACTATTAAAACCTTTACTGATATAAGTAGTATATTTTCGTTCCTAGAGGATATATGCA
195 CTATTAAACTATTAAAACCTTTACTGATATAAGTAGTATATTTTCGTTCCTAGAGGATATATGCA
270755 TAGTATGATTGCAATTTTTATCTTTAATC-AAACAGTCTGTTTCTTCCATGATTT
260 TAGTATGATTGCAATTTTTATCTTTAATCAAAACAGTCTGTTTCTTCCATGATTT
270809 ATAATAT-AAGGACCTAAATCTATATCATCTTATTGTTTAAAAGATATCACAACTTGA-TAATT-
1 ATAATATAAAGGA-CTAAATCTATATCATCTTATTGTTTAAAAGATATCACAACTTGACTAATTA
*
270871 TTATTAATATCAGATACTAATTTTTTAGATTTACCATTTAAATCCATTTCAGTTACCTCTCCAAG
65 TTATTAATATCAGATAATAATTTTTTAGATTTACCATTTAAATCCATTTCAGTTACCTCTCCAAG
*
270936 ATTACTAATATTTTGTTCTATTTTATTAACTTTATTATACATCTTATTAAAAAATATAGA-GGTC
130 ATTA--AATATTTTGTTCTA-TGTATTAACTTTATTATACATCTTATT-AAAAATATAGAGGGTC
*
271000 GTATCTATTAAACTATTAAAACCTTTACTGATATAAGTAGTATTATTTTCGTTCCTAGA-GACTA
191 ATATCTATTAAACTATTAAAACCTTTACTGATATAAGTAGTA-TATTTTCGTTCCTAGAGGA-TA
271064 TATGCATAGTATGATTGCAATTTTT-TCTTTAATCAAAACAGTCTGTTTCTTCCATGATTT
254 TATGCATAGTATGATTGCAATTTTTATCTTTAATCAAAACAGTCTGTTTCTTCCATGATTT
271124 TATATTTGGT
Statistics
Matches: 304, Mismatches: 3, Indels: 15
0.94 0.01 0.05
Matches are distributed among these distances:
311 68 0.22
312 5 0.02
313 19 0.06
314 133 0.44
315 79 0.26
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (314 bp):
ATAATATAAAGGACTAAATCTATATCATCTTATTGTTTAAAAGATATCACAACTTGACTAATTAT
TATTAATATCAGATAATAATTTTTTAGATTTACCATTTAAATCCATTTCAGTTACCTCTCCAAGA
TTAAATATTTTGTTCTATGTATTAACTTTATTATACATCTTATTAAAAATATAGAGGGTCATATC
TATTAAACTATTAAAACCTTTACTGATATAAGTAGTATATTTTCGTTCCTAGAGGATATATGCAT
AGTATGATTGCAATTTTTATCTTTAATCAAAACAGTCTGTTTCTTCCATGATTT
Found at i:271383 original size:11 final size:11
Alignment explanation
Indices: 271367--271391 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
271357 CAAAGTTTTA
271367 AAAAATATTTC
1 AAAAATATTTC
271378 AAAAATATTTC
1 AAAAATATTTC
271389 AAA
1 AAA
271392 GTCCATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAAATATTTC
Found at i:271467 original size:20 final size:18
Alignment explanation
Indices: 271439--271509 Score: 58
Period size: 20 Copynumber: 3.8 Consensus size: 18
271429 GTATCAAAGG
*
271439 GTATTCATACACTCTGCAGT
1 GTATCCATACAC-CTG-AGT
271459 GTATCCATACA-CTG-GT
1 GTATCCATACACCTGAGT
271475 GTA-CCGATACACCCTGTAGGT
1 GTATCC-ATACA-CCTG-A-GT
271496 GTATCCATACACCT
1 GTATCCATACACCT
271510 ATGACTGCTC
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
15 2 0.05
16 10 0.23
18 6 0.14
20 13 0.30
21 10 0.23
22 2 0.05
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (18 bp):
GTATCCATACACCTGAGT
Found at i:272018 original size:33 final size:33
Alignment explanation
Indices: 271960--272029 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
271950 TTTTGTAAAG
* * **
271960 GGGAAAGGTTCTAGCTAATCTCGTGAAACGCTA
1 GGGAAAGGTTCTAGCTAAGCCCGTGAAAAACTA
* *
271993 GGGAAAGGTTCTAGTTTAGCCCGTGAAAAACTA
1 GGGAAAGGTTCTAGCTAAGCCCGTGAAAAACTA
272026 GGGA
1 GGGA
272030 GTTTGTAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTAAGCCCGTGAAAAACTA
Found at i:275947 original size:24 final size:21
Alignment explanation
Indices: 275903--275948 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
275893 TTAAATATGA
*
275903 TCTAGATTATTAATATTTTCT
1 TCTAGAATATTAATATTTTCT
*
275924 TCTAGAATATTAATATTCTCT
1 TCTAGAATATTAATATTTTCT
275945 TCTA
1 TCTA
275949 TTGAAGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.52
Consensus pattern (21 bp):
TCTAGAATATTAATATTTTCT
Found at i:280236 original size:33 final size:33
Alignment explanation
Indices: 280169--280236 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
280159 CTTTGTAAAG
* * **
280169 GGGAAAGGTTCTAGCTAATCTCGTGAAACGCTA
1 GGGAAAGGTTCTAGCTAAGCCCGTGAAAAACTA
* *
280202 GGGAAAGGTTCTAGTTTAGCCCGTGAAAAACTA
1 GGGAAAGGTTCTAGCTAAGCCCGTGAAAAACTA
280235 GG
1 GG
280237 AGTTGTAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTAAGCCCGTGAAAAACTA
Found at i:284048 original size:24 final size:21
Alignment explanation
Indices: 284004--284049 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
283994 TTAAATATGA
*
284004 TCTAGATTATTAATATTTTCT
1 TCTAGAATATTAATATTTTCT
*
284025 TCTAGAATATTAATATTCTCT
1 TCTAGAATATTAATATTTTCT
284046 TCTA
1 TCTA
284050 TTGAAGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.52
Consensus pattern (21 bp):
TCTAGAATATTAATATTTTCT
Found at i:287770 original size:20 final size:19
Alignment explanation
Indices: 287742--287812 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 19
287732 GTATCAAAGG
*
287742 GTATTCATACACTCTGTAGT
1 GTATCCATACAC-CTGTAGT
287762 GTATCCATACA-CTG--GT
1 GTATCCATACACCTGTAGT
287778 GTA-CCGATACACCCTGTAGGT
1 GTATCC-ATACA-CCTGTA-GT
*
287799 ATATCCATACACCT
1 GTATCCATACACCT
287813 ATGACTGCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
15 2 0.05
16 10 0.24
18 6 0.14
20 13 0.31
21 9 0.21
22 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (19 bp):
GTATCCATACACCTGTAGT
Found at i:288321 original size:33 final size:32
Alignment explanation
Indices: 288263--288331 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
288253 TTTTGTAAAG
* * *
288263 GGGAAAGGTTCTAGCTAATCTCGTGAAACGCTA
1 GGGAAAGGTTCTAGCTAAGCCCGTGAAA-ACTA
* *
288296 GGGAAAGGTTCTAGTTTAGCCCGTGAAAACTA
1 GGGAAAGGTTCTAGCTAAGCCCGTGAAAACTA
288328 GGGA
1 GGGA
288332 GTTTGTAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
32 7 0.23
33 24 0.77
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTAAGCCCGTGAAAACTA
Found at i:292277 original size:24 final size:21
Alignment explanation
Indices: 292233--292278 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
292223 TTAAATATGA
*
292233 TCTAGATTATTAATATTTTCT
1 TCTAGAATATTAATATTTTCT
*
292254 TCTAGAATATTAATATTCTCT
1 TCTAGAATATTAATATTTTCT
292275 TCTA
1 TCTA
292279 TTGAAGGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.04, T:0.52
Consensus pattern (21 bp):
TCTAGAATATTAATATTTTCT
Found at i:296594 original size:33 final size:32
Alignment explanation
Indices: 296536--296604 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
296526 TTTTGTAAAG
* * *
296536 GGGAAAGGTTCTAGCTAATCTCGTGAAACGCTA
1 GGGAAAGGTTCTAGCTAAGCCCGTGAAA-ACTA
* *
296569 GGGAAAGGTTCTAGTTTAGCCCGTGAAAACTA
1 GGGAAAGGTTCTAGCTAAGCCCGTGAAAACTA
296601 GGGA
1 GGGA
296605 GTTTGTAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
32 7 0.23
33 24 0.77
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTAAGCCCGTGAAAACTA
Found at i:299537 original size:36 final size:36
Alignment explanation
Indices: 299480--299548 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
299470 TGCAAAAAGG
299480 GTACCGATACCCCTATGAGTGTATACATACACTGGT
1 GTACCGATACCCCTATGAGTGTATACATACACTGGT
* *
299516 GTACCGATACACCCTGT-AGTGTATCCATACACT
1 GTACCGATAC-CCCTATGAGTGTATACATACACT
299549 CTGGCTGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 25 0.83
37 5 0.17
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (36 bp):
GTACCGATACCCCTATGAGTGTATACATACACTGGT
Found at i:299918 original size:33 final size:33
Alignment explanation
Indices: 299881--299951 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
299871 TCTTTTGTAA
* * * * *
299881 AGGGAAAGGTTCTAGTTGATCCCGTGAAAAGCT
1 AGGGAAAGATTATAGTTGAGCCCATGAAAAACT
*
299914 AGGGAAAGATTATAGTTTAGCCCATGAAAAACT
1 AGGGAAAGATTATAGTTGAGCCCATGAAAAACT
299947 AGGGA
1 AGGGA
299952 GTTTGTAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.23
Consensus pattern (33 bp):
AGGGAAAGATTATAGTTGAGCCCATGAAAAACT
Found at i:310221 original size:18 final size:16
Alignment explanation
Indices: 310181--310224 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
310171 ACTTAATTGT
*
310181 TATAAATATATTTTTTA
1 TATAAA-ATATTTTCTA
310198 TATAAAATATTTTCCTA
1 TATAAAATATTTT-CTA
310215 TATTAAAATA
1 TA-TAAAATA
310225 GAATGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 10 0.42
18 7 0.29
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
TATAAAATATTTTCTA
Found at i:318276 original size:35 final size:35
Alignment explanation
Indices: 318236--318365 Score: 170
Period size: 35 Copynumber: 3.7 Consensus size: 35
318226 AGATGAACAA
** * *
318236 TTGAATCGAAAGTGTTGATGTTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCAC
* * * *
318271 TTGAATCGAAAATGCCGATGCTTCATTTTGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC-AC
*
318307 TTGAATCGAAATTGCCGATGCTTCCTTTCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCAC
318342 TTGAATCGAAAGTGCCGATGCTTC
1 TTGAATCGAAAGTGCCGATGCTTC
318366 ATTTATTTCT
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
35 50 0.62
36 31 0.38
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (35 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCAC
Found at i:318376 original size:71 final size:71
Alignment explanation
Indices: 318236--318369 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
318226 AGATGAACAA
** *
318236 TTGAATCGAAAGTGTTGATGTTTCCTTCCGTTCACTTGAATCGAAAATGCCGATGCTTCATTTTG
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTGAATCGAAAATGCCGATGCTTCATTTTG
318301 TTCTTC
66 TTCTTC
* * *
318307 TTGAATCGAAATTGCCGATGCTTCCTTTCGTTCACTTGAATCGAAAGTGCCGATGCTTCATTT
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTGAATCGAAAATGCCGATGCTTCATTT
318370 ATTTCTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.39
Consensus pattern (71 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTGAATCGAAAATGCCGATGCTTCATTTTG
TTCTTC
Found at i:320333 original size:19 final size:20
Alignment explanation
Indices: 320292--320335 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
320282 ATTACATAAT
*
320292 TCAATTTATTTATTATTTCA
1 TCAATATATTTATTATTTCA
320312 TCAATATATTT-TTATGTT-A
1 TCAATATATTTATTAT-TTCA
320331 TCAAT
1 TCAAT
320336 GAAAAATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (20 bp):
TCAATATATTTATTATTTCA
Found at i:321335 original size:16 final size:16
Alignment explanation
Indices: 321280--321356 Score: 66
Period size: 16 Copynumber: 4.8 Consensus size: 16
321270 TAAATTTGGG
*
321280 TCGAGTTACTTTCGTT
1 TCGAGTTACTTTCGAT
* *
321296 TCGGGTTGCTTTCGAT
1 TCGAGTTACTTTCGAT
* *
321312 TTGGGTTACTTTC-AGT
1 TCGAGTTACTTTCGA-T
* *
321328 TCGAGTTAATTTCAAT
1 TCGAGTTACTTTCGAT
*
321344 TCGAGTTGCTTTC
1 TCGAGTTACTTTC
321357 TGTTTGAGTC
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
15 1 0.02
16 47 0.96
17 1 0.02
ACGTcount: A:0.14, C:0.17, G:0.22, T:0.47
Consensus pattern (16 bp):
TCGAGTTACTTTCGAT
Found at i:323958 original size:2 final size:2
Alignment explanation
Indices: 323951--323990 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
323941 ATCAGAAAAG
323951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
323991 TTCTAATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:327262 original size:18 final size:17
Alignment explanation
Indices: 327239--327274 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
327229 GAGAACAGTA
*
327239 GTTTCTGATAAAACTTGG
1 GTTTCTAATAAAA-TTGG
327257 GTTTCTAATAAAATTGG
1 GTTTCTAATAAAATTGG
327274 G
1 G
327275 GGTTTTAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (17 bp):
GTTTCTAATAAAATTGG
Found at i:357353 original size:60 final size:61
Alignment explanation
Indices: 357273--357393 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 61
357263 CAAAAAGAGA
*
357273 ACAATCCTTCATGAAACAACTCAAACTCAGTTTAAC-AACAAATGCTCAGCAAAGCTTCTT
1 ACAATCCTTCATGAAACAACTCAAACTCAGTTTAACAAAAAAATGCTCAGCAAAGCTTCTT
357333 ACAATCCTTCATGAAACAACTCAAACTCAGTTTAACAAAAAAATGCTCAGCAAAGCTTCTT
1 ACAATCCTTCATGAAACAACTCAAACTCAGTTTAACAAAAAAATGCTCAGCAAAGCTTCTT
357394 CATGCTATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 36 0.61
61 23 0.39
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (61 bp):
ACAATCCTTCATGAAACAACTCAAACTCAGTTTAACAAAAAAATGCTCAGCAAAGCTTCTT
Found at i:358348 original size:2 final size:2
Alignment explanation
Indices: 358341--358374 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
358331 AAATAATTAT
358341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
358375 TAATAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:363446 original size:60 final size:59
Alignment explanation
Indices: 363309--363446 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
363299 TAAATAACGC
* * * **
363309 AAATGGTTCCTCGATTATAGGGTACTGCTTTATTAAGTCTTTCGATTATTAAAAGTTATA
1 AAATGGTTCC-CGACTATAGAGTACTGCTTTATTAAGTCTCTCGACCATTAAAAGTTATA
* * * * *
363369 AAATGG-TCGTTCAACTATAGAGTATTGCTTTGTTGAGTCTCTCGACCATTAAAAGTTATA
1 AAATGGTTC--CCGACTATAGAGTACTGCTTTATTAAGTCTCTCGACCATTAAAAGTTATA
363429 AAATGGTATCCCGACTAT
1 AAATGGT-TCCCGACTAT
363447 TCATTATGTT
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
59 2 0.03
60 58 0.94
62 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (59 bp):
AAATGGTTCCCGACTATAGAGTACTGCTTTATTAAGTCTCTCGACCATTAAAAGTTATA
Found at i:363781 original size:60 final size:60
Alignment explanation
Indices: 363654--363781 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
363644 ATAGTTGGGT
* * *
363654 GACCATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAACAACACTCTATAGTCAAAG
1 GACCATTTTATAACTTTTAATAATCGAGAGACTCAACAAAACAACACCCTATAGTCAAAG
* * * * * * * * *
363714 GATCATTTTGTAACTTTTAATAATTGAGAGACTTAATAAAATAATACCCTATAGTCGAGG
1 GACCATTTTATAACTTTTAATAATCGAGAGACTCAACAAAACAACACCCTATAGTCAAAG
363774 GACCATTT
1 GACCATTT
363782 GTGTTCTTTA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (60 bp):
GACCATTTTATAACTTTTAATAATCGAGAGACTCAACAAAACAACACCCTATAGTCAAAG
Found at i:363911 original size:2 final size:2
Alignment explanation
Indices: 363900--363936 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
363890 TGTTAATTGA
363900 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
363937 TCTCTTTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:364657 original size:60 final size:58
Alignment explanation
Indices: 364588--364716 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 58
364578 TAACCGTTTG
* * *
364588 GGACTAATTTAGAAAGAGGGTCATAGTTTATGGATGAAATTATAATATTT-AAAGGTTTAA
1 GGACTAATTTAGAAAGAGAGTCATA-ATT-T-GATGAAATTATAATATTTCAAAAGTTTAA
* *
364648 GGACTAATTTAGAATGAGAGTCATAATTTGATGAAATTGTAATATTTCAAAAGTTTAA
1 GGACTAATTTAGAAAGAGAGTCATAATTTGATGAAATTATAATATTTCAAAAGTTTAA
*
364706 GTACTAATTTA
1 GGACTAATTTA
364717 AAATAAAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
57 17 0.27
58 20 0.32
59 2 0.03
60 23 0.37
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (58 bp):
GGACTAATTTAGAAAGAGAGTCATAATTTGATGAAATTATAATATTTCAAAAGTTTAA
Found at i:364732 original size:58 final size:57
Alignment explanation
Indices: 364620--364735 Score: 151
Period size: 58 Copynumber: 2.0 Consensus size: 57
364610 ATAGTTTATG
* * * * *
364620 GATGAAATTATAATATTTAAAGGTTTAAGGACTAATTTAGAATGAGAGTCATAATTT
1 GATGAAATTATAATATTTAAAAGTTTAAGGACTAATTTAAAATAAAAATCATAATTT
* * *
364677 GATGAAATTGTAATATTTCAAAAGTTTAAGTACTAATTTAAAATAAAAATTATAATTT
1 GATGAAATTATAATATTT-AAAAGTTTAAGGACTAATTTAAAATAAAAATCATAATTT
364735 G
1 G
364736 GAGACATATG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
57 17 0.34
58 33 0.66
ACGTcount: A:0.45, C:0.03, G:0.14, T:0.38
Consensus pattern (57 bp):
GATGAAATTATAATATTTAAAAGTTTAAGGACTAATTTAAAATAAAAATCATAATTT
Found at i:369771 original size:20 final size:20
Alignment explanation
Indices: 369746--369838 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
369736 TTTTCCCAAT
369746 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
369766 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
369786 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
369807 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
369828 TCGCAATGCGA
1 TCGCAATGCGA
369839 TACTGACTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.46
21 32 0.54
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:369788 original size:41 final size:41
Alignment explanation
Indices: 369743--369838 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
369733 CGATTTTCCC
*
369743 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
369784 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
369825 AAATCGCAATGCGA
1 AATTCGCAATGCGA
369839 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:369851 original size:41 final size:41
Alignment explanation
Indices: 369765--369899 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
369755 GAATAAGTAA
* * * *
369765 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
369806 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * *
369847 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
369888 TTCGCAACGCGA
1 ATCGCAACGCGA
369900 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Done.