Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005836.1 Hibiscus syriacus cultivar Beakdansim tig00013680_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: 991970
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 6
Found at i:152105 original size:21 final size:21
Alignment explanation
Indices: 152079--152128 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
152069 TGGAGCGTGG
152079 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTACCCTCTCATA
**
152100 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTACCCTCTCATA
152121 GGGAATCG
1 GGGAATCG
152129 ATTCCCTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (21 bp):
GGGAATCGGTACCCTCTCATA
Found at i:152352 original size:17 final size:17
Alignment explanation
Indices: 152302--152352 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
152292 CTGGAATATT
*
152302 AAAATCGGTTTTTTT--
1 AAAACCGGTTTTTTTAA
* **
152317 ATAACCGGTTTTTAAAA
1 AAAACCGGTTTTTTTAA
152334 AAAACCGGTTTTTTTAA
1 AAAACCGGTTTTTTTAA
152351 AA
1 AA
152353 CCGAAACCGG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 11 0.41
17 16 0.59
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (17 bp):
AAAACCGGTTTTTTTAA
Found at i:152354 original size:15 final size:15
Alignment explanation
Indices: 152300--152355 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
152290 ATCTGGAATA
*
152300 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
152315 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
**
152330 AAAAAAAACCGGTTTTT
1 --TTAAAACCGGTTTTT
152347 TTAAAACCG
1 TTAAAACCG
152356 AAACCGGTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
15 20 0.62
17 12 0.38
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:152472 original size:15 final size:17
Alignment explanation
Indices: 152446--152477 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
152436 TTCAATGAGA
152446 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
152462 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
152478 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:152652 original size:25 final size:27
Alignment explanation
Indices: 152606--152662 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
152596 GTAATTGGGT
**
152606 AAAAACTAAAATATTATTAAATT-TTA
1 AAAAACTAAAATATTACCAAATTATTA
*
152632 AAAAACTAAGATA-TACCAAATTATTA
1 AAAAACTAAAATATTACCAAATTATTA
*
152658 TAAAA
1 AAAAA
152663 TTTAATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAAACTAAAATATTACCAAATTATTA
Found at i:156887 original size:16 final size:14
Alignment explanation
Indices: 156861--156903 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
156851 AGTTCGTTTG
*
156861 ATATTTCGTTATAA
1 ATATTTTGTTATAA
156875 AGTAATTTTGTTAT-A
1 A-T-ATTTTGTTATAA
156890 ATATTTTGTTATAA
1 ATATTTTGTTATAA
156904 TTATATATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 10 0.40
14 3 0.12
15 3 0.12
16 9 0.36
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.53
Consensus pattern (14 bp):
ATATTTTGTTATAA
Found at i:157646 original size:24 final size:24
Alignment explanation
Indices: 157619--157673 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
157609 GGTATCGTCA
157619 CATCAACTTCAATGGGGAGACATT
1 CATCAACTTCAATGGGGAGACATT
157643 CATCAACTTCAATGGGGAGACATT
1 CATCAACTTCAATGGGGAGACATT
157667 CATCAAC
1 CATCAAC
157674 AACTCCTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (24 bp):
CATCAACTTCAATGGGGAGACATT
Found at i:161252 original size:20 final size:19
Alignment explanation
Indices: 161229--161292 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
161219 GGGGGGACAT
161229 ATTCCCCCTGGGGGGTATCG
1 ATTCCCCCT-GGGGGTATCG
*
161249 ATT-CCCC---GGG-AACAG
1 ATTCCCCCTGGGGGTATC-G
161264 ATTCCCCCTAGGGGGTATCG
1 ATTCCCCCT-GGGGGTATCG
161284 ATTCCCCCT
1 ATTCCCCCT
161293 AAATGAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
14 2 0.06
15 7 0.20
16 4 0.11
19 4 0.11
20 16 0.46
21 2 0.06
ACGTcount: A:0.16, C:0.34, G:0.27, T:0.23
Consensus pattern (19 bp):
ATTCCCCCTGGGGGTATCG
Found at i:163191 original size:32 final size:32
Alignment explanation
Indices: 163140--163201 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
163130 CCTCTATGAG
* **
163140 GGGTCATATAACTTTGTGACGGTGGCGGCGAC
1 GGGTCATAAAACTAGGTGACGGTGGCGGCGAC
163172 GGGTCATAAAACTAGGTGACGGTGGCGGCG
1 GGGTCATAAAACTAGGTGACGGTGGCGGCG
163202 GCGGCGGTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.21, C:0.18, G:0.40, T:0.21
Consensus pattern (32 bp):
GGGTCATAAAACTAGGTGACGGTGGCGGCGAC
Found at i:164703 original size:27 final size:29
Alignment explanation
Indices: 164673--164740 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 29
164663 AAAAAAATAA
*
164673 TTAAATAAAATATTAA-AAAA-ATTAAAT
1 TTAAATAAAATATTAACAAAATACTAAAT
* *
164700 TTAAATAAATTACTAACAAAATACTAAAT
1 TTAAATAAAATATTAACAAAATACTAAAT
*
164729 AT-AATAAAATAT
1 TTAAATAAAATAT
164741 ACCTTAAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 14 0.42
28 12 0.36
29 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.32
Consensus pattern (29 bp):
TTAAATAAAATATTAACAAAATACTAAAT
Found at i:164709 original size:15 final size:16
Alignment explanation
Indices: 164674--164711 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
164664 AAAAAATAAT
*
164674 TAAATAAAATATTAAA
1 TAAATTAAATATTAAA
*
164690 AAAATTAAAT-TTAAA
1 TAAATTAAATATTAAA
164705 TAAATTA
1 TAAATTA
164712 CTAACAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAATTAAATATTAAA
Found at i:165492 original size:22 final size:23
Alignment explanation
Indices: 165466--165521 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
165456 TCTTTTATAT
* *
165466 ATTATTTTTTTTCAAT-TAAATA
1 ATTATTTTTATTCAATAAAAATA
*
165488 ATTATTTTTATTGAATAAAAATA
1 ATTATTTTTATTCAATAAAAATA
165511 A-TATTTTTATT
1 ATTATTTTTATT
165522 ATTTCATGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTATTTTTATTCAATAAAAATA
Found at i:165868 original size:6 final size:6
Alignment explanation
Indices: 165856--165885 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
165846 TTCTTCTTCC
*
165856 CAGATA CATATA CAGATA CAGATA CAGATA
1 CAGATA CAGATA CAGATA CAGATA CAGATA
165886 GATAGAAGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (6 bp):
CAGATA
Found at i:170788 original size:18 final size:18
Alignment explanation
Indices: 170765--170800 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
170755 ACTTAAACTC
*
170765 CTTAAAGATTAAACCCCT
1 CTTAAAGATTAAAACCCT
170783 CTTAAAGATTAAAACCCT
1 CTTAAAGATTAAAACCCT
170801 ACCCAAGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.28
Consensus pattern (18 bp):
CTTAAAGATTAAAACCCT
Found at i:171910 original size:9 final size:8
Alignment explanation
Indices: 171867--171930 Score: 53
Period size: 8 Copynumber: 7.9 Consensus size: 8
171857 TTTTACATTT
*
171867 AAAATATT
1 AAAATATA
171875 AAAATATCA
1 AAAATAT-A
171884 AAAA-AT-
1 AAAATATA
*
171890 TAAATATA
1 AAAATATA
171898 AAAATACTA
1 AAAATA-TA
171907 AAAATA-A
1 AAAATATA
171914 ATAAATATTA
1 A-AAATA-TA
171924 AAAATAT
1 AAAATAT
171931 TATTAAAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
6 3 0.07
7 4 0.09
8 20 0.43
9 17 0.37
10 2 0.04
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (8 bp):
AAAATATA
Found at i:171927 original size:17 final size:16
Alignment explanation
Indices: 171867--171929 Score: 67
Period size: 17 Copynumber: 3.9 Consensus size: 16
171857 TTTTACATTT
*
171867 AAAATATTAAAATATCA
1 AAAATATTAAAA-ATAA
*
171884 AAAA-ATTAAATAT-A
1 AAAATATTAAAAATAA
*
171898 AAAATACTAAAAATAA
1 AAAATATTAAAAATAA
171914 ATAAATATTAAAAATA
1 A-AAATATTAAAAATA
171930 TTATTAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 5 0.13
15 9 0.23
16 8 0.21
17 17 0.44
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATATTAAAAATAA
Found at i:171939 original size:11 final size:9
Alignment explanation
Indices: 171867--171932 Score: 56
Period size: 9 Copynumber: 8.0 Consensus size: 9
171857 TTTTACATTT
171867 AAAATATT-
1 AAAATATTA
*
171875 AAAATATCA
1 AAAATATTA
171884 AAAA-ATT-
1 AAAATATTA
171891 -AAATA-TA
1 AAAATATTA
*
171898 AAAATACTA
1 AAAATATTA
171907 AAAATA--A
1 AAAATATTA
171914 ATAAATATTA
1 A-AAATATTA
171924 AAAATATTA
1 AAAATATTA
171933 TTAAAATTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
6 4 0.08
7 3 0.06
8 19 0.40
9 20 0.42
10 2 0.04
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAATATTA
Found at i:171949 original size:26 final size:25
Alignment explanation
Indices: 171868--171960 Score: 86
Period size: 26 Copynumber: 3.8 Consensus size: 25
171858 TTTACATTTA
*
171868 AAATATT-AAAATA-TCAAAAAATT
1 AAATATTAAAAATACTAAAAAAATT
*
171891 AAATA-TAAAAATACTAAAAATAAAT
1 AAATATTAAAAATACTAAAAA-AATT
* **
171916 AAATATTAAAAATATTATTAAAATT
1 AAATATTAAAAATACTAAAAAAATT
*
171941 AAATAATTAAATATAC-AAAA
1 AAAT-ATTAAAAATACTAAAA
171961 TAAGTTATAA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 1 0.02
23 11 0.20
24 5 0.09
25 17 0.31
26 21 0.38
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (25 bp):
AAATATTAAAAATACTAAAAAAATT
Found at i:171953 original size:50 final size:48
Alignment explanation
Indices: 171868--171963 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 48
171858 TTTACATTTA
171868 AAATATTAAAATATCAAAAAATTAAATATAAAAATACTA-AAAATAAAT
1 AAATATTAAAATATCAAAAAATTAAATATAAAAATA-TACAAAATAAAT
* * *
171916 AAATATTAAAAATATTATTAAAATTAAATA-ATTAAATATACAAAATAA
1 AAATATT-AAAATATCA-AAAAATTAAATATA-AAAATATACAAAATAA
171964 GTTATAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
48 7 0.17
49 11 0.27
50 23 0.56
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (48 bp):
AAATATTAAAATATCAAAAAATTAAATATAAAAATATACAAAATAAAT
Found at i:172556 original size:21 final size:21
Alignment explanation
Indices: 172525--172580 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
172515 TTTTAATATA
*
172525 AATTTACTTTTT-TTTTCAGT
1 AATTTAATTTTTATTTTCAGT
*
172545 AATTTAATTTTTATTTTGAGT
1 AATTTAATTTTTATTTTCAGT
* * *
172566 ATTTTAGTATTTATT
1 AATTTAATTTTTATT
172581 GTTTTTGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 11 0.37
21 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.64
Consensus pattern (21 bp):
AATTTAATTTTTATTTTCAGT
Found at i:183024 original size:14 final size:16
Alignment explanation
Indices: 182995--183026 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
182985 CGTTCGTGAA
182995 CGTTCGATTATATGTT
1 CGTTCGATTATATGTT
183011 CGTTC-ATT-TATGTT
1 CGTTCGATTATATGTT
183025 CG
1 CG
183027 AACAGAGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (16 bp):
CGTTCGATTATATGTT
Found at i:183307 original size:14 final size:14
Alignment explanation
Indices: 183279--183318 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
183269 TTTTTTTTGT
183279 GTTTGTGTT-GTTC
1 GTTTGTGTTCGTTC
*
183292 GTTTATGTTCGTTC
1 GTTTGTGTTCGTTC
*
183306 GTTCGTGTTCGTT
1 GTTTGTGTTCGTT
183319 TATGTTTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.03, C:0.12, G:0.28, T:0.57
Consensus pattern (14 bp):
GTTTGTGTTCGTTC
Found at i:184748 original size:149 final size:149
Alignment explanation
Indices: 184478--184836 Score: 639
Period size: 149 Copynumber: 2.4 Consensus size: 149
184468 GTTTTATTTC
** *
184478 TGTTGTTGATTTCCCACATGATTTTTATTCTGTTGCATATGACTGTATTGAACGAATAGTTGTTG
1 TGTTGTTGCCTTCCCATATGATTTTTATTCTGTTGCATATGACTGTATTGAACGAATAGTTGTTG
*
184543 TATTCCAAAAGAATTGACAGTGTTTTATGTTGGTGCATATCAATGTAATTATTTGTTGTATTCCA
66 TATTCCAAAAGAATTGACAGTGTTTTATGCTGGTGCATATCAATGTAATTATTTGTTGTATTCCA
184608 AAAGAGTCTAAAATATGAT
131 AAAGAGTCTAAAATATGAT
184627 TGTTGTTGCCTTCCCATATGATTTTTATTCTGTTGCATATGACTGTATTGAACGAATAGTTGTTG
1 TGTTGTTGCCTTCCCATATGATTTTTATTCTGTTGCATATGACTGTATTGAACGAATAGTTGTTG
184692 TATTCCAAAAGAATTGACAGTGTTTTATGCTGGTGCATATCAATGTAATTATTTGTTGTATTCCA
66 TATTCCAAAAGAATTGACAGTGTTTTATGCTGGTGCATATCAATGTAATTATTTGTTGTATTCCA
184757 AAAGAGTCTAAAATATGAT
131 AAAGAGTCTAAAATATGAT
* * *
184776 TGTTGTTGCCTTCCCATATGATTTTTATGTCGGTT-CCTATGACTGTATTGAATGAATAGTT
1 TGTTGTTGCCTTCCCATATGATTTTTAT-TCTGTTGCATATGACTGTATTGAACGAATAGTT
184837 TATCCATATA
Statistics
Matches: 202, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
149 197 0.98
150 5 0.02
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (149 bp):
TGTTGTTGCCTTCCCATATGATTTTTATTCTGTTGCATATGACTGTATTGAACGAATAGTTGTTG
TATTCCAAAAGAATTGACAGTGTTTTATGCTGGTGCATATCAATGTAATTATTTGTTGTATTCCA
AAAGAGTCTAAAATATGAT
Found at i:189897 original size:27 final size:27
Alignment explanation
Indices: 189859--189915 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 27
189849 GAGTTTGAAA
189859 TTAAGTATTTTAAGAT-TTTGGATTATT
1 TTAAGTATTTTAA-ATATTTGGATTATT
*
189886 TTAATTATTTTAAATAAATTTGGATTATT
1 TTAAGTATTTTAAAT--ATTTGGATTATT
189915 T
1 T
189916 GGATCATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 2 0.08
27 12 0.46
29 12 0.46
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (27 bp):
TTAAGTATTTTAAATATTTGGATTATT
Found at i:199847 original size:13 final size:14
Alignment explanation
Indices: 199819--199847 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
199809 ATATTTTATA
199819 ATATTTTTACTATT
1 ATATTTTTACTATT
199833 ATATTTTTACT-TT
1 ATATTTTTACTATT
199846 AT
1 AT
199848 TTAATTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:200035 original size:110 final size:111
Alignment explanation
Indices: 199914--200126 Score: 365
Period size: 110 Copynumber: 1.9 Consensus size: 111
199904 ATATATATCT
*
199914 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATATTTAGT
1 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
* * * *
199979 T-ATTTATTTAATGCATTATTATTATATTAATAATTAAATATCTCG
66 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
*
200024 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAATAATTAGT
1 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
200089 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
200127 TATTTGTAAT
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 64 0.67
111 32 0.33
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.46
Consensus pattern (111 bp):
ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
TGATTCATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
Found at i:201629 original size:18 final size:18
Alignment explanation
Indices: 201606--201645 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
201596 CATCCTCAGC
*
201606 TGCCGCAGCCATATATGA
1 TGCCGCAACCATATATGA
201624 TGCCGCAACCATATATGA
1 TGCCGCAACCATATATGA
201642 TGCC
1 TGCC
201646 ACCATCGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (18 bp):
TGCCGCAACCATATATGA
Found at i:205880 original size:49 final size:51
Alignment explanation
Indices: 205773--205895 Score: 164
Period size: 49 Copynumber: 2.5 Consensus size: 51
205763 TTATACAAAA
* * * *
205773 CGCGGTACATGCCCCTCGCTATATAAAATTATGTCAGGAGTAAATGTATGT
1 CGCGGTACCTGTCCCGCGCTATATAAAATTATGTCAGGAGTAAAAGTATGT
205824 CGCGGTACCTGTCCCGCGCTATATAAAATTAT-T-AGGAGTAAAAGTATAGT
1 CGCGGTACCTGTCCCGCGCTATATAAAATTATGTCAGGAGTAAAAGTAT-GT
205874 -GCGGTACCTGAT-CCGCGCTATA
1 CGCGGTACCTG-TCCCGCGCTATA
205896 CCCCTACGTG
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
49 33 0.50
50 4 0.06
51 29 0.44
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (51 bp):
CGCGGTACCTGTCCCGCGCTATATAAAATTATGTCAGGAGTAAAAGTATGT
Found at i:213470 original size:59 final size:59
Alignment explanation
Indices: 213377--213488 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
213367 ATGGTTTCTA
*
213377 ATTATAGGATGTTGCTTTGTGAAGTCTCGAACTATTAAAGGTTACAAAATGATCTCCCG
1 ATTATAGGATGTTGCTTTGTGAAGTCTCGAACTATTAAAAGTTACAAAATGATCTCCCG
* * *
213436 ATTATAGGATGTTGTTTTATTGAA-TTTCTG-ACTATTAAAAGTTACAAAATGAT
1 ATTATAGGATGTTGCTTT-GTGAAGTCTC-GAACTATTAAAAGTTACAAAATGAT
213489 AATATAACTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
59 42 0.89
60 5 0.11
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (59 bp):
ATTATAGGATGTTGCTTTGTGAAGTCTCGAACTATTAAAAGTTACAAAATGATCTCCCG
Found at i:214634 original size:42 final size:42
Alignment explanation
Indices: 214535--214667 Score: 178
Period size: 42 Copynumber: 3.2 Consensus size: 42
214525 CTCGAAATCT
* * *
214535 CGTGTTTGTTTCACGCAATTTGTTTTTTGGAAAAT-CTTTTC
1 CGTGTTTGTTTCACGTAATTTGTTTTTCGGAAAATGTTTTTC
* *
214576 CGTGTTTATTTTACGTAATTTGTTTTTCGGAAAATGTTTTTC
1 CGTGTTTGTTTCACGTAATTTGTTTTTCGGAAAATGTTTTTC
* * *
214618 CTTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATGTTTTTC
1 CGTGTTTGTTTCACGTAATTTGTTTTTCGGAAAATGTTTTTC
*
214660 AGTGTTTG
1 CGTGTTTG
214668 GTTGGAGTAA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 31 0.39
42 48 0.61
ACGTcount: A:0.18, C:0.12, G:0.17, T:0.53
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTTGTTTTTCGGAAAATGTTTTTC
Found at i:214889 original size:15 final size:16
Alignment explanation
Indices: 214864--214895 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
214854 CATTTTAATC
214864 AAAATATTATTTATTA
1 AAAATATTATTTATTA
214880 AAAATA-TATTTATTA
1 AAAATATTATTTATTA
214895 A
1 A
214896 TATTTCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATATTATTTATTA
Found at i:214917 original size:17 final size:18
Alignment explanation
Indices: 214890--214923 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
214880 AAAATATATT
214890 TATTAATATTTCTAATAA
1 TATTAATATTTCTAATAA
214908 TATT-ATATTTCTAATA
1 TATTAATATTTCTAATA
214924 TTATAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTAATATTTCTAATAA
Found at i:215074 original size:27 final size:28
Alignment explanation
Indices: 215027--215079 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
215017 TAATTTCATA
215027 GAATAATATTATTAAATTA-TTAATAAT
1 GAATAATATTATTAAATTATTTAATAAT
* *
215054 GAATAATTTTATT-TATATATTTAATA
1 GAATAATATTATTAAAT-TATTTAATA
215080 TTAATATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 2 0.09
27 14 0.64
28 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (28 bp):
GAATAATATTATTAAATTATTTAATAAT
Found at i:215131 original size:23 final size:23
Alignment explanation
Indices: 215105--215157 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
215095 AATAATATTT
215105 TAATAAAAATATTTAAAATATAA
1 TAATAAAAATATTTAAAATATAA
* * *
215128 TAATTAATATTTTTAAAATATAA
1 TAATAAAAATATTTAAAATATAA
215151 T-ATAAAA
1 TAATAAAA
215158 CAATTACTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATAAAAATATTTAAAATATAA
Found at i:215535 original size:21 final size:21
Alignment explanation
Indices: 215495--215549 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
215485 GATTCTTGAC
215495 AATCGCAATGCGATAGTACA-
1 AATCGCAATGCGATAGTACAG
* **
215515 AATTCGCATTGCGATTTTACAG
1 AA-TCGCAATGCGATAGTACAG
*
215537 AATCGCAACGCGA
1 AATCGCAATGCGA
215550 ATATGAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (21 bp):
AATCGCAATGCGATAGTACAG
Found at i:215631 original size:20 final size:20
Alignment explanation
Indices: 215537--215765 Score: 239
Period size: 20 Copynumber: 11.4 Consensus size: 20
215527 GATTTTACAG
* ** *
215537 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
215557 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
215577 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
215597 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
215617 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
215637 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
215657 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
215677 AATCGCAACG-ATAATCAGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
215697 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
215717 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
215737 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
215757 AATCACAAC
1 AATCGCAAC
215766 ACTGAAATTT
Statistics
Matches: 178, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 174 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:216497 original size:24 final size:24
Alignment explanation
Indices: 216458--216504 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
216448 AAATTTGGTC
216458 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
216482 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
216505 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:216696 original size:12 final size:12
Alignment explanation
Indices: 216679--216703 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
216669 ATATAATCCT
216679 GAAGAAGAAAAA
1 GAAGAAGAAAAA
216691 GAAGAAGAAAAA
1 GAAGAAGAAAAA
216703 G
1 G
216704 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:219089 original size:72 final size:71
Alignment explanation
Indices: 218996--219229 Score: 284
Period size: 72 Copynumber: 3.3 Consensus size: 71
218986 GCAACGAGAG
218996 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAA-AAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
219061 AAATGAA
65 AAATGAA
* * *
219068 AATCGCAATGCGAAATGAAAATCGCAATGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAA-AAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
219133 AAATGAA
65 AAATGAA
* * * * * *
219140 AATCGCAACGAGAGAATCG-CAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAA--C
1 AATCGCAATGCGA-AAT-GAAAATCCCAAAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
*
219201 G--A-GAG
64 GAAATGAA
219206 AATCGCAATGCGGAAATGAAAATC
1 AATCGCAATGC-GAAATGAAAATC
219230 GCAATGCGAA
Statistics
Matches: 140, Mismatches: 18, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
65 1 0.01
66 17 0.12
67 3 0.02
69 2 0.01
71 16 0.11
72 92 0.66
73 8 0.06
74 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCCCAAAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGA
AATGAA
Found at i:219117 original size:53 final size:52
Alignment explanation
Indices: 218982--219248 Score: 400
Period size: 53 Copynumber: 5.1 Consensus size: 52
218972 CGGAAATTAC
*
218982 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C--AA-GAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
219029 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
219087 AATCGCAATGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
219140 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
219192 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
219245 AATC
1 AATC
219249 ACATTGCGAT
Statistics
Matches: 202, Mismatches: 5, Indels: 20
0.89 0.02 0.09
Matches are distributed among these distances:
47 8 0.04
49 1 0.00
50 1 0.00
52 66 0.33
53 111 0.55
55 2 0.01
57 2 0.01
58 11 0.05
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:219230 original size:72 final size:69
Alignment explanation
Indices: 218963--219248 Score: 273
Period size: 72 Copynumber: 4.0 Consensus size: 69
218953 TGCATTGACT
** * * *
218963 ATCGCAACACGGAAATTACAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA-C-AA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATCGAA
219026 GAAA
66 GAAA
*
219030 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAA
*
219095 T-G-AGAGA
61 TCGAAGAAA
* * * * *
219102 ATCGCAATGCGGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAAT-
219164 CGAAATGAAA
62 CG-AA-GAAA
219174 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAAT-CG
219238 AAATGAAA
64 -AA-GAAA
219246 ATC
1 ATC
219249 ACATTGCGAT
Statistics
Matches: 182, Mismatches: 18, Indels: 33
0.78 0.08 0.14
Matches are distributed among these distances:
65 7 0.04
66 7 0.04
67 34 0.19
69 3 0.02
70 1 0.01
71 21 0.12
72 101 0.55
73 3 0.02
74 5 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (69 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATCGAA
GAAA
Found at i:219257 original size:19 final size:19
Alignment explanation
Indices: 218996--219248 Score: 303
Period size: 19 Copynumber: 14.2 Consensus size: 19
218986 GCAACGAGAG
218996 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
219015 AATCCCAA--C--AA-GAA
1 AATCGCAATGCGAAATGAA
219029 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
219049 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
219068 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
219087 AATCGCAAT--G--A-GAG
1 AATCGCAATGCGAAATGAA
219101 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
219121 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
219140 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
219154 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
219173 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
219192 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
219206 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
219226 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
219245 AATC
1 AATC
219249 ACATTGCGAT
Statistics
Matches: 203, Mismatches: 8, Indels: 46
0.79 0.03 0.18
Matches are distributed among these distances:
14 41 0.20
15 5 0.02
16 4 0.02
17 8 0.04
18 1 0.00
19 104 0.51
20 40 0.20
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:219271 original size:105 final size:105
Alignment explanation
Indices: 218982--219251 Score: 399
Period size: 105 Copynumber: 2.6 Consensus size: 105
218972 CGGAAATTAC
* *
218982 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C--AA-GAAAATCGCAATGCG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACAA--C-
*
219041 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
63 G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
219087 AATCGCAATGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACAACGAG
219152 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
66 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
219192 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACA
219252 TTGCGATTCT
Statistics
Matches: 154, Mismatches: 5, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
105 122 0.79
106 16 0.10
108 2 0.01
109 1 0.01
110 2 0.01
111 11 0.07
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (105 bp):
AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACAACGAG
AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:219288 original size:34 final size:33
Alignment explanation
Indices: 219250--219326 Score: 145
Period size: 34 Copynumber: 2.3 Consensus size: 33
219240 ATGAAAATCA
219250 CATTGCGATTCTCTCGTTGCGATTTTCATTTCCG
1 CATTGCGATTCTCTCGTTGCGATTTTCATTT-CG
219284 CATTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 CATTGCGATTCTCTCGTTGCGATTTTCATTTCG
219317 CATTGCGATT
1 CATTGCGATT
219327 TTCATTTCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 12 0.28
34 31 0.72
ACGTcount: A:0.13, C:0.25, G:0.18, T:0.44
Consensus pattern (33 bp):
CATTGCGATTCTCTCGTTGCGATTTTCATTTCG
Found at i:219324 original size:19 final size:19
Alignment explanation
Indices: 219266--219334 Score: 85
Period size: 19 Copynumber: 3.8 Consensus size: 19
219256 GATTCTCTCG
219266 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
219286 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
219300 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
219319 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
219335 AACATAATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
14 6 0.14
16 5 0.12
17 6 0.14
18 3 0.07
19 16 0.38
20 6 0.14
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:219444 original size:14 final size:14
Alignment explanation
Indices: 219425--219461 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
219415 CATCAATTAC
219425 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
219439 ACAAATCATCTTTT
1 ACAAATCAACTTTT
219453 ACAAATCAA
1 ACAAATCAA
219462 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:221427 original size:19 final size:19
Alignment explanation
Indices: 221385--221537 Score: 130
Period size: 19 Copynumber: 8.6 Consensus size: 19
221375 TAGTTTACTT
* *
221385 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
221405 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
221424 TCGCAACGAG-AACCAAAA
1 TCGCAACGCGAAATGAAAA
221442 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
221461 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
221475 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
221494 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
221508 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
221527 TCGCAATGCGA
1 TCGCAACGCGA
221538 TTTTGGTTTC
Statistics
Matches: 107, Mismatches: 15, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
14 18 0.17
15 1 0.01
16 7 0.07
17 7 0.07
18 15 0.14
19 47 0.44
20 12 0.11
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:221478 original size:14 final size:14
Alignment explanation
Indices: 221459--221515 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
221449 GCGAAATGAA
*
221459 AATCGCAACGACAG
1 AATCGCAACGAAAG
221473 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
221490 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
221506 AATCGCAACG
1 AATCGCAACG
221516 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:221486 original size:33 final size:33
Alignment explanation
Indices: 221403--221532 Score: 188
Period size: 33 Copynumber: 3.8 Consensus size: 33
221393 CGAAACTTAA
* *
221403 AATCGCAACGCGAAATGAGAATCGCAACGAGAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--G-A-CAG
221440 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
221473 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
221506 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
221533 TGCGATTTTG
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
33 59 0.67
34 1 0.01
35 1 0.01
37 27 0.31
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:221568 original size:14 final size:14
Alignment explanation
Indices: 221549--221607 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
221539 TTTGGTTTCG
221549 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
221563 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
221580 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
221596 CGTTGCGATTTT
1 CGTTGCGATTTT
221608 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:221575 original size:33 final size:33
Alignment explanation
Indices: 221533--221656 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
221523 AAAATCGCAA
*
221533 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
221566 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** * *
221599 TGCGATTTTCATTTCGCGTTGCGATTCTCTTGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
221632 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
221657 AAGTAAACTA
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 70 0.85
34 12 0.15
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:221587 original size:19 final size:18
Alignment explanation
Indices: 221533--221624 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
221523 AAAATCGCAA
221533 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
221552 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
221566 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
221585 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
221599 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
221618 TGCGATT
1 TGCGATT
221625 CTCTTGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:222055 original size:93 final size:93
Alignment explanation
Indices: 221754--222067 Score: 596
Period size: 93 Copynumber: 3.4 Consensus size: 93
221744 TCAGGGTATT
221754 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
221819 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
221847 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAG--AAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
221910 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
221938 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
222003 GACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
222031 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
222068 AAGCAATCTA
Statistics
Matches: 217, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
91 91 0.42
93 126 0.58
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:223806 original size:21 final size:21
Alignment explanation
Indices: 223752--223816 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
223742 TCTTTTGGTT
*
223752 GAAATGAAAATCGCAATGAGA
1 GAAATGAAAATCGCAACGAGA
***
223773 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
223793 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
223814 GAA
1 GAA
223817 TCGCAACGCG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.48, C:0.14, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:223820 original size:14 final size:14
Alignment explanation
Indices: 223801--223857 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
223791 GAGAAATGAA
223801 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
223815 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
223834 AATCGCAACGAGAG
1 AATCGCAACGAGAG
223848 AATCGCAACG
1 AATCGCAACG
223858 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:223833 original size:33 final size:33
Alignment explanation
Indices: 223793--223874 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
223783 CGCAACGAGA
223793 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
223826 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
223859 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
223875 TGCGATTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.48, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:223910 original size:14 final size:14
Alignment explanation
Indices: 223891--223947 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
223881 TTTGGTTTCG
223891 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
223905 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
223924 CGTTGTGATTCTCT
1 CGTTGCGATTCTCT
223938 CGTTGCGATT
1 CGTTGCGATT
223948 TTCATTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:223923 original size:33 final size:33
Alignment explanation
Indices: 223875--223954 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
223865 AAAATCGCAA
**
223875 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
223908 TGCGATTTTCATTTCGCGTTGTGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
223941 TGCGATTTTCATTT
1 TGCGATTTTCATTT
223955 TTCTCGTTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.09, C:0.20, G:0.23, T:0.49
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:223960 original size:21 final size:21
Alignment explanation
Indices: 223935--224008 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
223925 GTTGTGATTC
223935 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
223956 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
223977 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
223998 TCTCGTTGCGA
1 TCTCGTTGCGA
224009 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:224130 original size:33 final size:33
Alignment explanation
Indices: 224088--224158 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
224078 AATACTAACT
224088 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
224121 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
224154 TGAAA
1 TGAAA
224159 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:224563 original size:20 final size:20
Alignment explanation
Indices: 224538--224729 Score: 253
Period size: 20 Copynumber: 9.6 Consensus size: 20
224528 CTTTAAAAAT
224538 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
224558 CGCGTTGCGATTTACTGATTA
1 CGCGTTGCGATTTACGGA-TA
*
224579 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
224598 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
224618 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
224638 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
224658 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
224678 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
224698 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
224718 CGCGTTGCGATT
1 CGCGTTGCGATT
224730 CTGTAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
19 2 0.01
20 147 0.97
21 3 0.02
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:224747 original size:21 final size:20
Alignment explanation
Indices: 224723--224793 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
224713 ATATTCGCGT
224723 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
224744 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
**
224765 TGCGA-TTGTCAAGAATCGCGT
1 TGCGATTTGT-AA-AATCGCAA
224786 TGCGATTT
1 TGCGATTT
224794 TGGAAACTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
19 4 0.10
20 2 0.05
21 29 0.73
22 5 0.12
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:225122 original size:14 final size:15
Alignment explanation
Indices: 225101--225141 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
225091 TTCCAGAAAT
225101 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
225116 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
225130 GTAATTCATTTT
1 GTAATTCATTTT
225142 TCACAGTTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.44
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:225126 original size:20 final size:20
Alignment explanation
Indices: 225089--225127 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
225079 CCATAAAACG
**
225089 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
225109 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
225128 CAGTAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:236229 original size:15 final size:14
Alignment explanation
Indices: 236203--236238 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
236193 AAAAAGAAAC
*
236203 AAAAAGAGAAAAAG
1 AAAAAGAAAAAAAG
236217 AAAGAAGAAAAAAAG
1 AAA-AAGAAAAAAAG
236232 AAAAAGA
1 AAAAAGA
236239 CTCCTACATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:244754 original size:31 final size:31
Alignment explanation
Indices: 244716--244840 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
244706 CCCGAAGGAC
* * *
244716 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
244747 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
244778 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
244809 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
244840 C
1 C
244841 CCTCGACCCT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:245666 original size:21 final size:21
Alignment explanation
Indices: 245642--245686 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
245632 TGTTGTTCGT
* *
245642 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
245663 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
245684 TTG
1 TTG
245687 CCCATAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:248873 original size:31 final size:31
Alignment explanation
Indices: 248835--248959 Score: 189
Period size: 31 Copynumber: 4.0 Consensus size: 31
248825 CCCGAAGGAC
* * * *
248835 CAGTCCATA-GATTCCGAAGAACCTATGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
248866 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
248897 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
248928 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
248959 C
1 C
248960 CCTCGATCCT
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 86 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:249787 original size:21 final size:21
Alignment explanation
Indices: 249763--249807 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
249753 TGTTGTTCGT
* *
249763 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
249784 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
249805 TTG
1 TTG
249808 CCCATAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:250608 original size:21 final size:21
Alignment explanation
Indices: 250583--250623 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
250573 GCAAAAATTG
250583 TGCATCGATGCACTGCTACAA
1 TGCATCGATGCACTGCTACAA
*
250604 TGCATCGGTGCACTGCTACA
1 TGCATCGATGCACTGCTACA
250624 GTGACTTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (21 bp):
TGCATCGATGCACTGCTACAA
Found at i:251478 original size:31 final size:31
Alignment explanation
Indices: 251406--251530 Score: 142
Period size: 31 Copynumber: 4.0 Consensus size: 31
251396 CCCGAAGGAC
* * * *
251406 CAGTCCATAGGTTCCGAAGAACTTAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* ***
251437 CAATCCATATGTTATGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
251468 CAGTCAATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
251499 TAGTCCATATGTCCCGAATAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
251530 C
1 C
251531 CCTCGACCAT
Statistics
Matches: 77, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:259231 original size:29 final size:29
Alignment explanation
Indices: 259189--259248 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
259179 CTACAGTGGT
259189 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
259218 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
259247 CT
1 CT
259249 GTGTGTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.13, C:0.32, G:0.37, T:0.18
Consensus pattern (29 bp):
CTTGGAGGTCGCCATGGCATCCGGGCGAC
Found at i:259293 original size:18 final size:18
Alignment explanation
Indices: 259270--259306 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
259260 AGAATAGGGC
259270 CATGCAATCAACATGGGA
1 CATGCAATCAACATGGGA
259288 CATGCAATCAACATGGGA
1 CATGCAATCAACATGGGA
259306 C
1 C
259307 GTGGGAATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (18 bp):
CATGCAATCAACATGGGA
Found at i:259336 original size:44 final size:44
Alignment explanation
Indices: 259288--259379 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
259278 CAACATGGGA
259288 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
259332 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
259376 CATG
1 CATG
259380 GGGTGGGAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.27, C:0.14, G:0.42, T:0.16
Consensus pattern (44 bp):
CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATG
Found at i:259378 original size:16 final size:16
Alignment explanation
Indices: 259353--259483 Score: 117
Period size: 16 Copynumber: 8.2 Consensus size: 16
259343 CATGGGACGT
259353 GGGAATGCATGGGGGA
1 GGGAATGCATGGGGGA
* *
259369 GGGGATGCAT-GGGGT
1 GGGAATGCATGGGGGA
259384 GGGAATGCAT-GGGGA
1 GGGAATGCATGGGGGA
* * *
259399 GGG-ATCAACATGGGATGT
1 GGGAAT--GCATGGG-GGA
259417 GGGAATGCATGGGGGA
1 GGGAATGCATGGGGGA
* * *
259433 GGGGATGCATGGGACGT
1 GGGAATGCATGGG-GGA
*
259450 GGGAATGCAT-GGGGT
1 GGGAATGCATGGGGGA
259465 GGGAATGCATGGGGGA
1 GGGAATGCATGGGGGA
259481 GGG
1 GGG
259484 GATGGTGCAT
Statistics
Matches: 92, Mismatches: 16, Indels: 14
0.75 0.13 0.11
Matches are distributed among these distances:
14 2 0.02
15 32 0.35
16 34 0.37
17 18 0.20
18 4 0.04
19 2 0.02
ACGTcount: A:0.22, C:0.08, G:0.54, T:0.16
Consensus pattern (16 bp):
GGGAATGCATGGGGGA
Found at i:259380 original size:33 final size:32
Alignment explanation
Indices: 259343--259477 Score: 177
Period size: 33 Copynumber: 4.2 Consensus size: 32
259333 ATGCAATCAA
259343 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGGGACGTGGGAATGCAT-GGGGAGGGGATG
*
259376 CATGGG--GTGGGAATGCATGGGGA-GGGATCAA
1 CATGGGACGTGGGAATGCATGGGGAGGGGAT--G
*
259407 CATGGGATGTGGGAATGCATGGGGGAGGGGATG
1 CATGGGACGTGGGAATGCAT-GGGGAGGGGATG
* *
259440 CATGGGACGTGGGAATGCATGGGGTGGGAATG
1 CATGGGACGTGGGAATGCATGGGGAGGGGATG
259472 CATGGG
1 CATGGG
259478 GGAGGGGATG
Statistics
Matches: 91, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
29 5 0.05
30 5 0.05
31 18 0.20
32 16 0.18
33 37 0.41
34 5 0.05
35 5 0.05
ACGTcount: A:0.22, C:0.09, G:0.52, T:0.17
Consensus pattern (32 bp):
CATGGGACGTGGGAATGCATGGGGAGGGGATG
Found at i:259391 original size:15 final size:15
Alignment explanation
Indices: 259351--259478 Score: 123
Period size: 15 Copynumber: 8.1 Consensus size: 15
259341 AACATGGGAC
259351 GTGGGAATGCATGGGG
1 GTGGGAATGCAT-GGG
* *
259367 GAGGGGATGCATGGG
1 GTGGGAATGCATGGG
259382 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
* *
259397 GAGGG-ATCAACATGGG
1 GTGGGAAT--GCATGGG
259413 ATGTGGGAATGCATGGGG
1 --GTGGGAATGCAT-GGG
* *
259431 GAGGGGATGCATGGG
1 GTGGGAATGCATGGG
259446 ACGTGGGAATGCATGGG
1 --GTGGGAATGCATGGG
259463 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
259478 G
1 G
259479 GAGGGGATGG
Statistics
Matches: 92, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
14 2 0.02
15 39 0.42
16 26 0.28
17 16 0.17
18 7 0.08
19 2 0.02
ACGTcount: A:0.22, C:0.08, G:0.53, T:0.17
Consensus pattern (15 bp):
GTGGGAATGCATGGG
Found at i:259412 original size:64 final size:65
Alignment explanation
Indices: 259338--259468 Score: 228
Period size: 64 Copynumber: 2.0 Consensus size: 65
259328 GATGCATGCA
259338 ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGG-GTGGGAATGCATGGGGAGGG
1 ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGGAGTGGGAATGCATGGGGAGGG
* *
259402 ATCAACATGGGATGTGGGAATGCATGGGGGAGGGGATGCATGGGACGTGGGAATGCATGGGGTGG
1 ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGGA-GTGGGAATGCATGGGGAGG
259467 G
65 G
259468 A
1 A
259469 ATGCATGGGG
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 43 0.68
66 20 0.32
ACGTcount: A:0.24, C:0.09, G:0.50, T:0.17
Consensus pattern (65 bp):
ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGGAGTGGGAATGCATGGGGAGGG
Found at i:259467 original size:48 final size:48
Alignment explanation
Indices: 259343--259505 Score: 163
Period size: 48 Copynumber: 3.3 Consensus size: 48
259333 ATGCAATCAA
* * * *
259343 CATGGGACGTGGGAATGCATGGGGGAGGGGATGCAT-GGGGTGGGAATG
1 CATGGGACGTGGGAATGCAT-GGGGTGGGAATGCATGGGGGAGGGGATG
* *
259391 CATGGG--GAGGG-ATCAACATGGGATGTGGGAATGCATGGGGGAGGGGATG
1 CATGGGACGTGGGAAT--GCATGGG--GTGGGAATGCATGGGGGAGGGGATG
259440 CATGGGACGTGGGAATGCATGGGGTGGGAATGCATGGGGGAGGGGATGGTG
1 CATGGGACGTGGGAATGCATGGGGTGGGAATGCATGGGGGAGGGGA---TG
*
259491 CATTGGACGTGGGAA
1 CATGGGACGTGGGAA
259506 CTGTGCATGG
Statistics
Matches: 95, Mismatches: 9, Indels: 19
0.77 0.07 0.15
Matches are distributed among these distances:
45 2 0.02
46 7 0.07
47 3 0.03
48 39 0.41
49 16 0.17
50 6 0.06
51 20 0.21
52 2 0.02
ACGTcount: A:0.22, C:0.09, G:0.52, T:0.17
Consensus pattern (48 bp):
CATGGGACGTGGGAATGCATGGGGTGGGAATGCATGGGGGAGGGGATG
Found at i:259619 original size:32 final size:32
Alignment explanation
Indices: 259578--259641 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
259568 AAGGTCCTGC
259578 TGCATGCATGCGTTGCATCATAGCTCATAGCT
1 TGCATGCATGCGTTGCATCATAGCTCATAGCT
259610 TGCATGCATGCGTTGCATCATAGCTCATAGCT
1 TGCATGCATGCGTTGCATCATAGCTCATAGCT
259642 CAGAGATTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (32 bp):
TGCATGCATGCGTTGCATCATAGCTCATAGCT
Found at i:259999 original size:21 final size:21
Alignment explanation
Indices: 259951--259999 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
259941 ACTAAAATCT
*
259951 AGTTAATTAGTTTGTTAGTATA
1 AGTT-ATTAGTTTGTAAGTATA
* *
259973 AATTATTAGTTTGTAAGTTTA
1 AGTTATTAGTTTGTAAGTATA
259994 AGTTAT
1 AGTTAT
260000 ATTATATTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (21 bp):
AGTTATTAGTTTGTAAGTATA
Found at i:260035 original size:28 final size:28
Alignment explanation
Indices: 259969--260035 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
259959 AGTTTGTTAG
* *
259969 TATAAATTATTAGTTTGTAAGTTTAAGT
1 TATATATTATTAGTTTATAAGTTTAAGT
*
259997 TATAT-TATATTAGTTTATTAGTTTAAGT
1 TATATAT-TATTAGTTTATAAGTTTAAGT
260025 TATATATTATT
1 TATATATTATT
260036 TATATAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.03
28 32 0.94
29 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (28 bp):
TATATATTATTAGTTTATAAGTTTAAGT
Found at i:260867 original size:26 final size:25
Alignment explanation
Indices: 260838--260896 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
260828 AAATCATATT
*
260838 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
260864 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
260890 ATTATTA
1 ATTATTA
260897 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:263167 original size:43 final size:43
Alignment explanation
Indices: 263106--263269 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 43
263096 GGCTGCATGG
263106 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
1 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
***
263149 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCG--
1 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
* * **
263190 C-A-CTC-GTATGGCTCGTA-TGCATGGGGACCTCGCATGGGGAGAA
1 CGACCTCTCTAT---TC-CACTGCATGGCCACCTCGCATGGGGAGAA
263233 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGG
1 CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGG
263270 CTCGCACTCG
Statistics
Matches: 97, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
38 3 0.03
39 3 0.03
40 1 0.01
41 22 0.23
42 2 0.02
43 59 0.61
44 1 0.01
45 3 0.03
46 3 0.03
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.23
Consensus pattern (43 bp):
CGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGGGAGAA
Found at i:263223 original size:41 final size:41
Alignment explanation
Indices: 263166--263297 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 41
263156 TCTATTCCAC
263166 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
** *** * *
263207 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTAT---TC-CA
1 TGCATGGCCACCTCGCATGGCTCG--C-A-CTC-GTATGGCTCGTA
263249 CTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1 -TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
263291 TGCATGG
1 TGCATGG
263298 GGAGAACCAT
Statistics
Matches: 67, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
38 3 0.04
39 3 0.04
40 1 0.01
41 29 0.43
42 2 0.03
43 22 0.33
44 1 0.01
45 3 0.04
46 3 0.04
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.23
Consensus pattern (41 bp):
TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
Found at i:263264 original size:84 final size:84
Alignment explanation
Indices: 263123--263300 Score: 338
Period size: 84 Copynumber: 2.1 Consensus size: 84
263113 TCTATTCCAC
**
263123 TGCATGGCCACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
1 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
263188 CGCACTCGTATGGCTCGTA
66 CGCACTCGTATGGCTCGTA
263207 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
1 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
263272 CGCACTCGTATGGCTCGTA
66 CGCACTCGTATGGCTCGTA
263291 TGCATGGGGA
1 TGCATGGGGA
263301 GAACCATTGG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.18, C:0.32, G:0.28, T:0.22
Consensus pattern (84 bp):
TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCT
CGCACTCGTATGGCTCGTA
Found at i:263322 original size:35 final size:35
Alignment explanation
Indices: 263276--263353 Score: 156
Period size: 35 Copynumber: 2.2 Consensus size: 35
263266 ATGGCTCGCA
263276 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
1 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
263311 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
1 CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
263346 CTCGTATG
1 CTCGTATG
263354 TTCCCGTATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.27
Consensus pattern (35 bp):
CTCGTATGGCTCGTATGCATGGGGAGAACCATTGG
Found at i:263406 original size:29 final size:29
Alignment explanation
Indices: 263364--263445 Score: 164
Period size: 29 Copynumber: 2.8 Consensus size: 29
263354 TTCCCGTATG
263364 TCGCCTGGATTGCATGGCGTCCTACAAGA
1 TCGCCTGGATTGCATGGCGTCCTACAAGA
263393 TCGCCTGGATTGCATGGCGTCCTACAAGA
1 TCGCCTGGATTGCATGGCGTCCTACAAGA
263422 TCGCCTGGATTGCATGGCGTCCTA
1 TCGCCTGGATTGCATGGCGTCCTA
263446 TGGCATCACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (29 bp):
TCGCCTGGATTGCATGGCGTCCTACAAGA
Found at i:266853 original size:13 final size:13
Alignment explanation
Indices: 266835--266865 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
266825 TTTTATTATT
266835 ATTATATTATATA
1 ATTATATTATATA
266848 ATTATATTATATA
1 ATTATATTATATA
266861 ATTAT
1 ATTAT
266866 TTACGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTATATTATATA
Found at i:268132 original size:106 final size:106
Alignment explanation
Indices: 267945--268206 Score: 364
Period size: 106 Copynumber: 2.5 Consensus size: 106
267935 ACGAAAGGGC
* *
267945 TTCCCAATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTT
1 TTCCCAGTTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTT
* *
268010 CAACTTCACAGCGAAGGGA-TGACTGGTTGTCAACAAACAAT
66 CAACTTCACAGCGAAGGGACAG-CTGGTTGGCAACAAACAAT
* *
268051 TTCCCAGTTTCAAAACCAATTTCAACTTCACAATGAAGGATATTGGACTCGAGACAACACAAGTT
1 TTCCCAGTTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTT
* * * *
268116 TAACTTCATAGTGAAGGGACAGCTGGTTGGCAACAAACGAT
66 CAACTTCACAGCGAAGGGACAGCTGGTTGGCAACAAACAAT
* * * * * *
268157 TTCCCAGTTCCAGAGTCAATTTTAACTTCACGACGGAGGATATTGGACTC
1 TTCCCAGTTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
268207 AGAACAATAC
Statistics
Matches: 137, Mismatches: 18, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
106 136 0.99
107 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (106 bp):
TTCCCAGTTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTT
CAACTTCACAGCGAAGGGACAGCTGGTTGGCAACAAACAAT
Found at i:268510 original size:102 final size:102
Alignment explanation
Indices: 268331--268567 Score: 273
Period size: 102 Copynumber: 2.3 Consensus size: 102
268321 GTGCTCACCA
* * * *
268331 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATCTTTGAATATCTTTTCATTGAAACAAAT
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATCATTGAATAACTTTCCATTGAAACAAAT
* ** *
268395 TTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTT
66 TTCGTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAGTT
* * **
268433 TTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTGAA-AACATTTCCCTTGAAATGAA
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATCATTGAATAAC-TTTCCATTGAAACAAA
* * * *
268496 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAATTT
65 TTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAGTT
* *
268534 TTGTCTCCCTTGAGACAGTTTCTCTTGAAGCATA
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATA
268568 TTTTGTCTCC
Statistics
Matches: 114, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
101 37 0.32
102 74 0.65
103 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (102 bp):
TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATCATTGAATAACTTTCCATTGAAACAAAT
TTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAGTT
Found at i:268527 original size:36 final size:35
Alignment explanation
Indices: 268480--268598 Score: 150
Period size: 36 Copynumber: 3.3 Consensus size: 35
268470 ATTGAAAACA
* *
268480 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAA-GAATTTTGTCTCCCTTGAGACAG
*
268516 TTTCCCTTGAAACAATTTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAAGAA-TTTTGTCTCCCTTGAGACAG
*
268552 TTTCTCTTG-AAGCATATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAAG-A-ATTTTGTCTCCCTTGAGACAG
*
268588 TTTCTCTTGAA
1 TTTCCCTTGAA
268599 GCATAAACTT
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
35 4 0.05
36 68 0.92
37 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (35 bp):
TTTCCCTTGAAAGAATTTTGTCTCCCTTGAGACAG
Found at i:268599 original size:36 final size:36
Alignment explanation
Indices: 268495--268603 Score: 166
Period size: 36 Copynumber: 3.0 Consensus size: 36
268485 CTTGAAATGA
* * * *
268495 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA-
1 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCAT
268530 ATTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCAT
1 A-TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCAT
268567 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCAT
1 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCAT
268603 A
1 A
268604 AACTTTGAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
35 1 0.01
36 66 0.97
37 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (36 bp):
ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCAT
Found at i:268935 original size:84 final size:82
Alignment explanation
Indices: 268748--269571 Score: 757
Period size: 84 Copynumber: 10.0 Consensus size: 82
268738 TCTTGAAACG
* * ** * *
268748 CAAAGACCTTCGAGTTCGATTGCATTCAGCT-CAGAGGCATATCAAATTTACAGCATAACTCAAG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA-AGGCACATC--ATTTACAGCATAACTTAAG
* * *
268812 GCTAGAAGGGTTATCTGTCTC
63 TCGAGAAGGGTTATCTG-CAC
* * **
268833 CAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGTAGCATAACTTAAGTC
1 C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTC
268898 GAGAAGGGTTATCTGCCAAC
65 GAGAAGGGTTATCTG-C-AC
* * *
268918 CAAAGAGCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
*
268983 AGAAGGGCTATCTG--C
66 AGAAGGGTTATCTGCAC
* * * * * *
268998 CAAAGACCCTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATTATTTACAGCATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGTC
*
269063 TAGAAGGGTTATCTGTCAC
65 GAGAAGGGTTATCTG-CAC
* * * * *
269082 CAAAGACCTTTGAGTTCGACTAAGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
** *
269147 AGAAGGACTATTTG--C
66 AGAAGGGTTATCTGCAC
* * * * **
269162 CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACCAACATTTTTAGCATAACTTAAGTC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTACAGCATAACTTAAGTC
* *
269227 GAAAAGGGTTATCTACTAAC
65 GAGAAGGGTTATCTGC--AC
* * * ** *
269247 CAAAGACCTTCGAGTTCGATTACGCTCAACTCCAATGCACATCATTTGTAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
*
269312 AGAAGGGCTATCTG--C
66 AGAAGGGTTATCTGCAC
* * ** *
269327 CAAAGACCTTTGAGTTCGATTATACTCAGCTCAAAGGCACCATCATTTACAGCATAACTTAAGTC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTACAGCATAACTTAAGTC
*
269392 GAGAAGGGTTATCTACCAAC
65 GAGAAGGGTTATCT-GC-AC
* * * * * * * *
269412 CAAAGACATTCGAGTTCGACTACACTCAGCTCCAAAGCGCATCGTTTGCAGTATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
*
269477 AGAAGGGTTATCT--TC
66 AGAAGGGTTATCTGCAC
* * * * * * * * * * * *
269492 TAAAGACCCTCGAGTTCGATTACACTCAGTTTCGAGGGTACATTATTTACAACATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACGCTCAG-CTCCAAGGCACATCATTTACAGCATAACTTAAGTC
* *
269557 TAGAAAGGTTATCTG
65 GAGAAGGGTTATCTG
269572 TCAATAAAAT
Statistics
Matches: 608, Mismatches: 112, Indels: 41
0.80 0.15 0.05
Matches are distributed among these distances:
80 123 0.20
81 140 0.23
83 38 0.06
84 199 0.33
85 72 0.12
86 35 0.06
87 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (82 bp):
CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
AGAAGGGTTATCTGCAC
Found at i:269316 original size:165 final size:164
Alignment explanation
Indices: 268748--269570 Score: 921
Period size: 165 Copynumber: 5.0 Consensus size: 164
268738 TCTTGAAACG
* * ** * * * *
268748 CAAAGACCTTCGAGTTCGATTGCATTCAGCT-CAGAGGCATATCAAATTTACAGCATAACTCAAG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA-AGGCACATC--ATTTGCAGCATAGCTTAAG
* * * * * * *
268812 GCTAGAAGGGTTATCTGTCTCCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATC
63 TCGAGAAGGGCTATCTG---CC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
** *
268877 ATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
124 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTACCAAC
* * *
268918 CAAAGAGCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* * * * * *
268983 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATTATTTAC
66 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACATCATTTAC
* * * **
269048 AGCATAACTCAAGGCTAGAAGGGTTATCTGTC-AC
130 AGCATAACTTAAGTCGAGAAGGGTTATCTACCAAC
* * *
269082 CAAAGACCTTTGAGTTCGACTAAGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* * * **
269147 AGAAGGACTATTTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACCAACATTTTT
66 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATCATTTAC
* *
269212 AGCATAACTTAAGTCGAAAAGGGTTATCTACTAAC
130 AGCATAACTTAAGTCGAGAAGGGTTATCTACCAAC
* * * *
269247 CAAAGACCTTCGAGTTCGATTACGCTCAACTCCAATGCACATCATTTGTAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* *
269312 AGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGATTATACTCAGCTCAAAGGCACCATCATTTAC
66 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATCATTTAC
269377 AGCATAACTTAAGTCGAGAAGGGTTATCTACCAAC
130 AGCATAACTTAAGTCGAGAAGGGTTATCTACCAAC
* * * * * *
269412 CAAAGACATTCGAGTTCGACTACACTCAGCTCCAAAGCGCATCGTTTGCAGTATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* * * * * * * * *
269477 AGAAGGGTTATCTTCTAAAGACCCTCGAGTTCGATTACACTCAGTTTCGAGGGTACATTATTTAC
66 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAG-CTCAAAGGCACATCATTTAC
* * * * *
269542 AACATAACTCAAGGCTAGAAAGGTTATCT
130 AGCATAACTTAAGTCGAGAAGGGTTATCT
269571 GTCAATAAAA
Statistics
Matches: 562, Mismatches: 86, Indels: 15
0.85 0.13 0.02
Matches are distributed among these distances:
163 7 0.01
164 162 0.29
165 321 0.57
166 6 0.01
168 31 0.06
170 33 0.06
171 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (164 bp):
CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACA
GCATAACTTAAGTCGAGAAGGGTTATCTACCAAC
Found at i:269377 original size:329 final size:329
Alignment explanation
Indices: 268835--269520 Score: 948
Period size: 329 Copynumber: 2.1 Consensus size: 329
268825 TCTGTCTCCA
* * * * *
268835 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGTAGCATAACTTAAGTCGA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACATTTGTAGCATAACTTAAGTCGA
* * * * *
268900 GAAGGGTTATCTGCCAACCAAAGAGCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
66 AAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTT
*
268965 ACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACGCTCAGCTT
131 ACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAGCTT
* * * * ** * *
269030 CGAGGGCACATTATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTTG
196 CAAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTACCAACCAAAGACATTCG
* *
269094 AGTTCGACTA-AGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGACTAT
261 AGTTCGACTACA-CTCAGCTCCAAAGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGACTAT
269158 -TTGCC
325 CTT-CC
*
269163 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACCAACATTTTTAGCATAACTTAAGTCG
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CAACATTTGTAGCATAACTTAAGTCG
* * *
269228 AAAAGGGTTATCTACTAACCAAAGACCTTCGAGTTCGATTACGCTCAACTCCAATGCACATCATT
65 AAAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATT
** * * * *
269293 TGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGATTATACTCAGC-
130 TACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAGCT
* *
269357 TCAAAGGCACCATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACATT
195 TCAAAGGCA-CATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTACCAACCAAAGACATT
* * * **
269422 CGAGTTCGACTACACTCAGCTCCAAAGCGCATCGTTTGCAGTATAGCTTAAGTCGAGAAGGGTTA
259 CGAGTTCGACTACACTCAGCTCCAAAGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGACTA
*
269487 TCTTCT
324 TCTTCC
*
269493 AAAGACCCTCGAGTTCGATTACACTCAG
1 AAAGACCTTCGAGTTCGATTACACTCAG
269521 TTTCGAGGGT
Statistics
Matches: 313, Mismatches: 40, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
328 42 0.13
329 173 0.55
330 95 0.30
331 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (329 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACATTTGTAGCATAACTTAAGTCGA
AAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTT
ACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAGCTT
CAAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTACCAACCAAAGACATTCG
AGTTCGACTACACTCAGCTCCAAAGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGACTATC
TTCC
Found at i:270903 original size:23 final size:23
Alignment explanation
Indices: 270877--270922 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
270867 CACCACAGCT
*
270877 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
270900 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
270923 TATAATGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:272744 original size:64 final size:64
Alignment explanation
Indices: 272636--272792 Score: 157
Period size: 64 Copynumber: 2.5 Consensus size: 64
272626 TAATGAAGGT
* * *
272636 ATGCATCGATGCACTACACCATGCATC---G-ATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACTCCA-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
272695 AG
63 AC
* *
272697 ATGCATCGATGCACTCCTTATGCATCGATGCATAAAT-CTCATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCCATATGCATCGATGCATAAATCCT-ATTCGATGTTTTCTATTTAAATAC
* *
272761 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTCCATATGCATCGATGCA
272793 CCTTAAACAA
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
60 7 0.09
61 16 0.20
63 3 0.04
64 43 0.54
65 8 0.10
66 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTCCATATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATAC
Found at i:274660 original size:25 final size:24
Alignment explanation
Indices: 274606--274672 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 24
274596 AGTACTTTCA
*
274606 TTTTTTTATATTTTAGTCATTTAACCT
1 TTTTTTTAT-TTTTA-TCATTT-ACAT
*
274633 TTTTTCTATTTTTATCATTTACAT
1 TTTTTTTATTTTTATCATTTACAT
274657 TTTTATTTATTTTTAT
1 TTTT-TTTATTTTTAT
274673 ATTCGATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 7 0.19
25 16 0.44
26 5 0.14
27 8 0.22
ACGTcount: A:0.21, C:0.09, G:0.01, T:0.69
Consensus pattern (24 bp):
TTTTTTTATTTTTATCATTTACAT
Found at i:276459 original size:25 final size:25
Alignment explanation
Indices: 276421--276470 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
276411 ATACCTCGAA
276421 CATCTCATGCATTTTT-GCATTTTG
1 CATCTCATGCATTTTTAGCATTTTG
*
276445 CATCTACATTCATTTTTAAGCATTTT
1 CATCT-CATGCATTTTT-AGCATTTT
276471 CATAAGCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 10 0.45
27 7 0.32
ACGTcount: A:0.22, C:0.20, G:0.08, T:0.50
Consensus pattern (25 bp):
CATCTCATGCATTTTTAGCATTTTG
Found at i:277668 original size:12 final size:12
Alignment explanation
Indices: 277651--277709 Score: 72
Period size: 12 Copynumber: 5.1 Consensus size: 12
277641 CAATCAGAAC
277651 AAAAAGAGAAAA
1 AAAAAGAGAAAA
277663 AAAAAGAG---A
1 AAAAAGAGAAAA
277672 AAAAAGAGAAAA
1 AAAAAGAGAAAA
277684 TAAAAAGAGAAAA
1 -AAAAAGAGAAAA
277697 AAACAA-AGAAAA
1 AAA-AAGAGAAAA
277709 A
1 A
277710 TTGAAGAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
9 9 0.21
12 19 0.45
13 14 0.33
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (12 bp):
AAAAAGAGAAAA
Found at i:277677 original size:21 final size:22
Alignment explanation
Indices: 277651--277698 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
277641 CAATCAGAAC
277651 AAAAAGAGAAAA-AAAAAGAGA
1 AAAAAGAGAAAATAAAAAGAGA
277672 AAAAAGAGAAAATAAAAAGAGA
1 AAAAAGAGAAAATAAAAAGAGA
277694 AAAAA
1 AAAAA
277699 ACAAAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAAAGAGAAAATAAAAAGAGA
Found at i:277688 original size:14 final size:14
Alignment explanation
Indices: 277671--277710 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
277661 AAAAAAAGAG
277671 AAAAAAGAGAAAAT
1 AAAAAAGAGAAAAT
277685 -AAAAAGAGAAAA-
1 AAAAAAGAGAAAAT
277697 AAACAAAGA-AAAAT
1 AAA-AAAGAGAAAAT
277711 TGAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.80, C:0.03, G:0.12, T:0.05
Consensus pattern (14 bp):
AAAAAAGAGAAAAT
Found at i:277893 original size:69 final size:69
Alignment explanation
Indices: 277782--277919 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
277772 GATTCAAACT
* *
277782 ATGAGATTGATCAAGCACAATCATTTTCGAAACACTGAATCACTTCACTCGAAGATCATAGAGTA
1 ATGAGATTGATCAAGCACAATCATTTCCGAAACACTGAATCACTTCACTCGAAGATCATAGAGCA
277847 TCAA
66 TCAA
*
277851 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAAACACTGAATCACTTCACTCGAAGATCATAGAGCA
277916 TCAA
66 TCAA
277920 GAGAGAGATA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCGAAACACTGAATCACTTCACTCGAAGATCATAGAGCA
TCAA
Found at i:278882 original size:32 final size:32
Alignment explanation
Indices: 278846--278964 Score: 143
Period size: 32 Copynumber: 3.8 Consensus size: 32
278836 GGAACAATGA
* *
278846 GGGCATCTTTGAAGATTCAACATCAAATATTG
1 GGGCATCTTTGTAGATTCAACATCGAATATTG
*
278878 GGGCAT-TTTTTAGATTCAACATCGAATATTG
1 GGGCATCTTTGTAGATTCAACATCGAATATTG
* * * *
278909 GGACATTTTTTTAGATTCAACATCGAATATTA
1 GGGCATCTTTGTAGATTCAACATCGAATATTG
*
278941 GGGCATCTTTG-GGAATTCAACATC
1 GGGCATCTTTGTAG-ATTCAACATC
278965 CTGATGCGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
31 28 0.37
32 48 0.63
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (32 bp):
GGGCATCTTTGTAGATTCAACATCGAATATTG
Found at i:279813 original size:106 final size:106
Alignment explanation
Indices: 279626--279887 Score: 389
Period size: 106 Copynumber: 2.5 Consensus size: 106
279616 ACGAAAGGGC
* *
279626 TTCCCAATTTCATAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTT
1 TTCCCAGTTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTT
**
279691 CAACTTCACAGCGAAGGGATGACTGGTTGTCAACAAACAAT
66 CAACTTCACAGCGAAGGGACAACTGGTTGTCAACAAACAAT
* *
279732 TTCCCAGTTTCAAAACCAATTTCAACTTCACAATGAAGGATATTGGACTCGAGACAACACAAGTT
1 TTCCCAGTTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTT
* * * *
279797 TAACTTCATAGTGAAGGGACAACTGGTTGTCAACAAACGAT
66 CAACTTCACAGCGAAGGGACAACTGGTTGTCAACAAACAAT
* * * * *
279838 TTCCCAGTTCCAGAGCCAATTTTAACTTCACGACGGAGGATATTGGACTC
1 TTCCCAGTTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
279888 AGAACAATAC
Statistics
Matches: 139, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 139 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (106 bp):
TTCCCAGTTTCAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTT
CAACTTCACAGCGAAGGGACAACTGGTTGTCAACAAACAAT
Found at i:280191 original size:102 final size:102
Alignment explanation
Indices: 280012--280248 Score: 273
Period size: 102 Copynumber: 2.3 Consensus size: 102
280002 GTGCTCACCA
* * * *
280012 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATCTTTGAATATCTTTTCATTGAAACAAAT
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATCATTGAATAACTTTCCATTGAAACAAAT
* ** *
280076 TTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTT
66 TTCGTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAGTT
* * **
280114 TTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTGAA-AACATTTCCCTTGAAATGAA
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATCATTGAATAAC-TTTCCATTGAAACAAA
* * * *
280177 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAATTT
65 TTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAGTT
* *
280215 TTGTCTCCCTTGAGACAGTTTCTCTTGAAGCATA
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATA
280249 TTTTGTCTCC
Statistics
Matches: 114, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
101 37 0.32
102 74 0.65
103 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (102 bp):
TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATCATTGAATAACTTTCCATTGAAACAAAT
TTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAGTT
Found at i:280208 original size:36 final size:35
Alignment explanation
Indices: 280161--280279 Score: 150
Period size: 36 Copynumber: 3.3 Consensus size: 35
280151 ATTGAAAACA
* *
280161 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAA-GAATTTTGTCTCCCTTGAGACAG
*
280197 TTTCCCTTGAAACAATTTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAAGAA-TTTTGTCTCCCTTGAGACAG
*
280233 TTTCTCTTG-AAGCATATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAAG-A-ATTTTGTCTCCCTTGAGACAG
*
280269 TTTCTCTTGAA
1 TTTCCCTTGAA
280280 GCATAAACTT
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
35 4 0.05
36 68 0.92
37 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (35 bp):
TTTCCCTTGAAAGAATTTTGTCTCCCTTGAGACAG
Found at i:280280 original size:36 final size:36
Alignment explanation
Indices: 280176--280284 Score: 166
Period size: 36 Copynumber: 3.0 Consensus size: 36
280166 CTTGAAATGA
* * * *
280176 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA-
1 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCAT
280211 ATTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCAT
1 A-TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCAT
280248 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCAT
1 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCAT
280284 A
1 A
280285 AACTTTGAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
35 1 0.01
36 66 0.97
37 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (36 bp):
ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCAT
Found at i:280617 original size:84 final size:82
Alignment explanation
Indices: 280429--281252 Score: 759
Period size: 84 Copynumber: 10.0 Consensus size: 82
280419 TCTTGAAACG
* * * * *
280429 CAAAGACCTTCGAGTTCGATTGCATTCAGCT-CAGAGGCATATCAAATTTACAGCATAACTCAAG
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCCA-AGGCACATC--ATTTACAGCATAACTTAAG
* * *
280493 GCTAGAAGGGTTATCTGTCTC
63 TCGAGAAGGGTTATCTG-CAC
* * * * **
280514 CAAAATACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGTAGCATAACTTAAGTC
1 C-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTC
280579 GAGAAGGGTTATCTGCCAAC
65 GAGAAGGGTTATCTG-C-AC
* * * *
280599 CAAAGAGCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
*
280664 AGAAGGGCTATCTG--C
66 AGAAGGGTTATCTGCAC
* * * * * *
280679 CAAAGACCCTCGAGTTCGACTACACTCAGCTTCGAGGGCACATTATTTACAGCATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGTC
*
280744 TAGAAGGGTTATCTGTCAC
65 GAGAAGGGTTATCTG-CAC
* * * *
280763 CAAAGACCTTTGAGTTCGACTA-AGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTC
1 CAAAGACCTTCGAGTTCGACTACA-CTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTC
** *
280827 GAGAAGGACTATTTG--C
65 GAGAAGGGTTATCTGCAC
* * * **
280843 CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACCAACATTTTTAGCATAACTTAAGTC
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCA-CATCATTTACAGCATAACTTAAGTC
* *
280908 GAAAAGGGTTATCTACTAAC
65 GAGAAGGGTTATCTGC--AC
* * * * ** *
280928 CAAAGACCTTCGAGTTCGATTACGCTCAACTCCAATGCACATCATTTGTAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
*
280993 AGAAGGGCTATCTG--C
66 AGAAGGGTTATCTGCAC
* * * *
281008 CAAAGACCTTTGAGTTCGATTATACTCAGCTCAAAGGCACCATCATTTACAGCATAACTTAAGTC
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCA-CATCATTTACAGCATAACTTAAGTC
*
281073 GAGAAGGGTTATCTACCAAC
65 GAGAAGGGTTATCT-GC-AC
* * * * * * *
281093 CAAAGACATTCGAGTTCGACTACACTCAGCTCCAAAGCGCATCGTTTGCAGTATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
*
281158 AGAAGGGTTATCT--TC
66 AGAAGGGTTATCTGCAC
* * * * * * * * * * *
281173 TAAAGACCCTCGAGTTCGATTACACTCAGTTTCGAGGGTACATTATTTACAACATAACTCAAGGC
1 CAAAGACCTTCGAGTTCGACTACACTCAG-CTCCAAGGCACATCATTTACAGCATAACTTAAGTC
* *
281238 TAGAAAGGTTATCTG
65 GAGAAGGGTTATCTG
281253 TCAATAAAAT
Statistics
Matches: 606, Mismatches: 112, Indels: 45
0.79 0.15 0.06
Matches are distributed among these distances:
80 122 0.20
81 141 0.23
83 39 0.06
84 197 0.33
85 72 0.12
86 34 0.06
87 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (82 bp):
CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCG
AGAAGGGTTATCTGCAC
Found at i:280756 original size:165 final size:164
Alignment explanation
Indices: 280429--281252 Score: 923
Period size: 165 Copynumber: 5.0 Consensus size: 164
280419 TCTTGAAACG
* * ** * * * *
280429 CAAAGACCTTCGAGTTCGATTGCATTCAGCT-CAGAGGCATATCAAATTTACAGCATAACTCAAG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA-AGGCACATC--ATTTGCAGCATAGCTTAAG
* * * * * * * *
280493 GCTAGAAGGGTTATCTGTCTCCAAAATACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATC
63 TCGAGAAGGGCTATCTG---CC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
**
280558 ATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
124 ATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
* * *
280599 CAAAGAGCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* * * * *
280664 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAGCTTCGAGGGCACATTATTTAC
66 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACATCATTTAC
* * * *
280729 AGCATAACTCAAGGCTAGAAGGGTTATCTGTC-AC
130 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
* * *
280763 CAAAGACCTTTGAGTTCGACTAAGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* * * **
280828 AGAAGGACTATTTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACCAACATTTTT
66 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATCATTTAC
* * *
280893 AGCATAACTTAAGTCGAAAAGGGTTATCTACTAAC
130 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
* * * *
280928 CAAAGACCTTCGAGTTCGATTACGCTCAACTCCAATGCACATCATTTGTAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* *
280993 AGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGATTATACTCAGCTCAAAGGCACCATCATTTAC
66 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATCATTTAC
*
281058 AGCATAACTTAAGTCGAGAAGGGTTATCTACCAAC
130 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
* * * * * *
281093 CAAAGACATTCGAGTTCGACTACACTCAGCTCCAAAGCGCATCGTTTGCAGTATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* * * * * * * * *
281158 AGAAGGGTTATCTTCTAAAGACCCTCGAGTTCGATTACACTCAGTTTCGAGGGTACATTATTTAC
66 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAG-CTCAAAGGCACATCATTTAC
* * * * *
281223 AACATAACTCAAGGCTAGAAAGGTTATCTG
130 AGCATAACTTAAGTCGAGAAGGGTTATCTG
281253 TCAATAAAAT
Statistics
Matches: 561, Mismatches: 88, Indels: 15
0.84 0.13 0.02
Matches are distributed among these distances:
163 7 0.01
164 161 0.29
165 321 0.57
166 6 0.01
168 31 0.06
170 33 0.06
171 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (164 bp):
CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACA
GCATAACTTAAGTCGAGAAGGGTTATCTGCCAAC
Found at i:281058 original size:329 final size:329
Alignment explanation
Indices: 280520--281201 Score: 949
Period size: 329 Copynumber: 2.1 Consensus size: 329
280510 TCTCCAAAAT
* * * * * *
280520 ACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGTAGCATAACTTAAGTCGAGAAG
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACATTTGTAGCATAACTTAAGTCGAAAAG
* * * *
280585 GGTTATCTGCCAACCAAAGAGCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAG
66 GGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTACAG
* *
280650 CATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAGCTTCGAG
131 CATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAGCTTCAAA
* * ** * *
280715 GGCACATTATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTTGAGTT
196 GGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTACCAACCAAAGACATTCGAGTT
* *
280779 CGACTA-AGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGACTAT-TTG
261 CGACTACA-CTCAGCTCCAAAGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGACTATCTT-
280842 CCAAAG
324 CCAAAG
*
280848 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACCAACATTTTTAGCATAACTTAAGTCGAAAA
1 ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CAACATTTGTAGCATAACTTAAGTCGAAAA
* * * **
280913 GGGTTATCTACTAACCAAAGACCTTCGAGTTCGATTACGCTCAACTCCAATGCACATCATTTGTA
65 GGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTACA
* * * *
280978 GCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGATTATACTCAGC-TCAA
130 GCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAGCTTCAA
* *
281042 AGGCACCATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACATTCGAG
195 AGGCA-CATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTACCAACCAAAGACATTCGAG
* * * **
281107 TTCGACTACACTCAGCTCCAAAGCGCATCGTTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTT
259 TTCGACTACACTCAGCTCCAAAGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGACTATCTT
*
281172 CTAAAG
324 CCAAAG
*
281178 ACCCTCGAGTTCGATTACACTCAG
1 ACCTTCGAGTTCGATTACACTCAG
281202 TTTCGAGGGT
Statistics
Matches: 310, Mismatches: 39, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
328 38 0.12
329 174 0.56
330 95 0.31
331 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (329 bp):
ACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAACATTTGTAGCATAACTTAAGTCGAAAAG
GGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTACAG
CATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCAGCTTCAAA
GGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTACCAACCAAAGACATTCGAGTT
CGACTACACTCAGCTCCAAAGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGACTATCTTCC
AAAG
Found at i:282589 original size:23 final size:23
Alignment explanation
Indices: 282563--282608 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
282553 CACCACAGCT
*
282563 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
282586 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
282609 TATAATGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:282753 original size:25 final size:25
Alignment explanation
Indices: 282722--282790 Score: 129
Period size: 25 Copynumber: 2.8 Consensus size: 25
282712 TATATATATA
282722 TCCCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
*
282747 TCTCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
282772 TCCCGAAGGACCGCGTAGA
1 TCCCGAAGGACCGCGTAGA
282791 CCCTCTACTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.28, C:0.25, G:0.29, T:0.19
Consensus pattern (25 bp):
TCCCGAAGGACCGCGTAGAATATTG
Found at i:284468 original size:64 final size:64
Alignment explanation
Indices: 284360--284516 Score: 157
Period size: 64 Copynumber: 2.5 Consensus size: 64
284350 TAATGAAGGT
* * *
284360 ATGCATCGATGCACTACACCATGCATC---G-ATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACTCCA-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
284419 AG
63 AC
* *
284421 ATGCATCGATGCACTCCTTATGCATCGATGCATAAAT-CTCATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCCATATGCATCGATGCATAAATCCT-ATTCGATGTTTTCTATTTAAATAC
* *
284485 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTCCATATGCATCGATGCA
284517 CCTTAAACAA
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
60 7 0.09
61 16 0.20
63 3 0.04
64 43 0.54
65 8 0.10
66 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTCCATATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATAC
Found at i:286380 original size:25 final size:26
Alignment explanation
Indices: 286326--286382 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
286316 TTTTTGTTGA
*
286326 TATTTTAGTCATTTAACCTTTTTTTC
1 TATTTTAGTCATTTAACATTTTTTTC
286352 TATTTT-GATCATTT-ACATTTTTATT-
1 TATTTTAG-TCATTTAACATTTTT-TTC
286377 TATTTT
1 TATTTT
286383 TATATTTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.21, C:0.11, G:0.04, T:0.65
Consensus pattern (26 bp):
TATTTTAGTCATTTAACATTTTTTTC
Found at i:286391 original size:32 final size:32
Alignment explanation
Indices: 286344--286413 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
286334 TCATTTAACC
* *
286344 TTTTTTTCTATTTTGA-TCATTTACATTTTTAT
1 TTTTTTTATATTTTGATTCATTTA-ATATTTAT
*
286376 TTATTTTTATA-TTTGATTTATTTAATATTTAT
1 TT-TTTTTATATTTTGATTCATTTAATATTTAT
286408 TTTTTT
1 TTTTTT
286414 CTAACCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
31 4 0.12
32 16 0.48
33 13 0.39
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.71
Consensus pattern (32 bp):
TTTTTTTATATTTTGATTCATTTAATATTTAT
Found at i:287377 original size:26 final size:26
Alignment explanation
Indices: 287341--287396 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
287331 ATCTTTGCCT
287341 TAAAAAAAATTAACAGCATACATTAG
1 TAAAAAAAATTAACAGCATACATTAG
287367 TAAAAAAAATTAACAGCATACATTAG
1 TAAAAAAAATTAACAGCATACATTAG
287393 TAAA
1 TAAA
287397 CGTAGAAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.23
Consensus pattern (26 bp):
TAAAAAAAATTAACAGCATACATTAG
Found at i:287600 original size:20 final size:20
Alignment explanation
Indices: 287577--287623 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
287567 GTTTCCAAAT
287577 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATCTGTAAA
* *
287597 TCGCAATGCGAATTTGTAAA
1 TCGCAACGCGAATCTGTAAA
287617 TCGCAAC
1 TCGCAAC
287624 ACAGAAGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGAATCTGTAAA
Found at i:287640 original size:20 final size:20
Alignment explanation
Indices: 287617--287704 Score: 106
Period size: 20 Copynumber: 4.3 Consensus size: 20
287607 AATTTGTAAA
287617 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
287637 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
287657 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* * *
287677 TCGCAACGCGGAATTTCAAAT
1 TCGCAACACAGAA-GTCAAAT
287698 TCGCAAC
1 TCGCAAC
287705 TGAATTTCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.03
20 42 0.72
21 14 0.24
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.18
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Done.