Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008603.1 Hibiscus syriacus cultivar Beakdansim tig00111558_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: 555603
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:3276 original size:12 final size:13
Alignment explanation
Indices: 3253--3286 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
3243 GCTTAACAGA
3253 CTCAACAACCATC
1 CTCAACAACCATC
3266 CTCAA-AACCATC
1 CTCAACAACCATC
3278 CTCAGACAA
1 CTCA-ACAA
3287 TAGATATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.58
13 6 0.32
14 2 0.11
ACGTcount: A:0.41, C:0.41, G:0.03, T:0.15
Consensus pattern (13 bp):
CTCAACAACCATC
Found at i:7722 original size:68 final size:68
Alignment explanation
Indices: 7637--7784 Score: 287
Period size: 68 Copynumber: 2.2 Consensus size: 68
7627 TGCCTGATCT
*
7637 TTAAGAAATGAACTGTTCATAGTTGTTTCTCTATAATATAATTAGCCTTTGCAAGCAATGCTGGT
1 TTAAGAAATGAACTGTTCATAATTGTTTCTCTATAATATAATTAGCCTTTGCAAGCAATGCTGGT
7702 CTG
66 CTG
7705 TTAAGAAATGAACTGTTCATAATTGTTTCTCTATAATATAATTAGCCTTTGCAAGCAATGCTGGT
1 TTAAGAAATGAACTGTTCATAATTGTTTCTCTATAATATAATTAGCCTTTGCAAGCAATGCTGGT
7770 CTG
66 CTG
7773 TTAAGAAATGAA
1 TTAAGAAATGAA
7785 GTTGCAAAGT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 79 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (68 bp):
TTAAGAAATGAACTGTTCATAATTGTTTCTCTATAATATAATTAGCCTTTGCAAGCAATGCTGGT
CTG
Found at i:11146 original size:16 final size:17
Alignment explanation
Indices: 11127--11159 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11117 GAACCTTTGA
11127 GAAA-TCCTAAAATTTT
1 GAAACTCCTAAAATTTT
*
11143 GAAACTCCTATAATTTT
1 GAAACTCCTAAAATTTT
11160 ATCCTGCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (17 bp):
GAAACTCCTAAAATTTT
Found at i:14799 original size:17 final size:17
Alignment explanation
Indices: 14777--14809 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14767 TGCTCAATTC
14777 TCTTTTCCTTTAACTTG
1 TCTTTTCCTTTAACTTG
*
14794 TCTTTTCGTTTAACTT
1 TCTTTTCCTTTAACTT
14810 TTGGAAGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.21, G:0.06, T:0.61
Consensus pattern (17 bp):
TCTTTTCCTTTAACTTG
Found at i:29311 original size:24 final size:24
Alignment explanation
Indices: 29284--29359 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
29274 ACATGTTCAT
*
29284 GAACACGTTCGTGAACATATAAAC
1 GAACACGTTCATGAACATATAAAC
*
29308 GAACACGTTCACGAACAT-T-AAC
1 GAACACGTTCATGAACATATAAAC
* * *
29330 GAACATGTTCATTAACATATAAGC
1 GAACACGTTCATGAACATATAAAC
29354 GAACAC
1 GAACAC
29360 ATTTGCGAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 18 0.42
23 2 0.05
24 23 0.53
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.21
Consensus pattern (24 bp):
GAACACGTTCATGAACATATAAAC
Found at i:29347 original size:46 final size:47
Alignment explanation
Indices: 29297--29408 Score: 127
Period size: 46 Copynumber: 2.3 Consensus size: 47
29287 CACGTTCGTG
* *
29297 AACATATAAACGAACACGTTCACGAACATT-AACGAACATGTTCATT
1 AACATATAAACGAACACATTCACGAACATTAAACGAACATGTTCATA
* ** * *
29343 AACATATAAGCGAACACATTTGCGAACATTAAATGAGCATGTTCATA
1 AACATATAAACGAACACATTCACGAACATTAAACGAACATGTTCATA
29390 AACAATAAATAAACGAACA
1 AAC-AT--ATAAACGAACA
29409 TGAACACGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 26 0.48
47 16 0.30
48 2 0.04
50 10 0.19
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (47 bp):
AACATATAAACGAACACATTCACGAACATTAAACGAACATGTTCATA
Found at i:29821 original size:16 final size:16
Alignment explanation
Indices: 29800--29844 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
29790 TTTAAAAAAA
29800 TTAAAACTAATTTGAT
1 TTAAAACTAATTTGAT
29816 TTAAAACTAATTTGAT
1 TTAAAACTAATTTGAT
29832 TTAAAACTAATTT
1 TTAAAACTAATTT
29845 TATTGTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (16 bp):
TTAAAACTAATTTGAT
Found at i:29939 original size:119 final size:121
Alignment explanation
Indices: 29816--30064 Score: 475
Period size: 119 Copynumber: 2.1 Consensus size: 121
29806 CTAATTTGAT
29816 TTAAAACTAATTTGATTTAAAACTAATTTTATTGTTAAATAATCATGTTTATATTAAATTTTC-A
1 TTAAAACTAATTTGATTTAAAACTAATTTTATTGTTAAATAATCATGTTTATATTAAATTTTCAA
29880 AAAAAATAAACCAATAATATCTCAAATTTACTCCATTTAATTTGATTTAAAA-AAA
66 AAAAAATAAACCAATAATATCTCAAATTTACTCCATTTAATTTGATTTAAAACAAA
*
29935 TTAAAACTAATTTGATTTAAAACTAATTTTATTGTTAAATATTCATGTTTATATTAAATTTTCAA
1 TTAAAACTAATTTGATTTAAAACTAATTTTATTGTTAAATAATCATGTTTATATTAAATTTTCAA
30000 AAAAAATAAACCAATAATATCTCAAATTTACTCCATTTAATTTGATTTAAAACAAA
66 AAAAAATAAACCAATAATATCTCAAATTTACTCCATTTAATTTGATTTAAAACAAA
30056 TTAAAACTA
1 TTAAAACTA
30065 GTTTAAACCC
Statistics
Matches: 127, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
119 62 0.49
120 53 0.42
121 12 0.09
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (121 bp):
TTAAAACTAATTTGATTTAAAACTAATTTTATTGTTAAATAATCATGTTTATATTAAATTTTCAA
AAAAAATAAACCAATAATATCTCAAATTTACTCCATTTAATTTGATTTAAAACAAA
Found at i:32246 original size:48 final size:48
Alignment explanation
Indices: 32176--32304 Score: 192
Period size: 48 Copynumber: 2.8 Consensus size: 48
32166 TTTGTTTTCG
**
32176 TTTTTCGAATAAATGCATGCGAACTAGATATCATGTGGTTAGGTATAT
1 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGTATAT
* *
32224 TTTTTCAAATAAATGCATGCGAACTAGATATCATGCAGTTAGGTTTAT
1 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGTATAT
*
32272 TTTTT-GAAT-AA-GCATGCGAATTAGATATCATGC
1 TTTTTCGAATAAATGCATGCGAACTAGATATCATGC
32305 GATTAAGATT
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
45 21 0.28
46 2 0.03
47 3 0.04
48 49 0.65
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (48 bp):
TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGTATAT
Found at i:32321 original size:45 final size:47
Alignment explanation
Indices: 32171--32322 Score: 143
Period size: 45 Copynumber: 3.2 Consensus size: 47
32161 AGTTATTTGT
* * *
32171 TTTCGTTTTTCGAATAAATGCATGCGAACTAGATATCATGTGGTTAGGTA
1 TTTC-TTTTT-GAATAAATGCATGCGAACTAGATATCATGCGATTAAG-A
** *
32221 TATT-TTTTCAAATAAATGCATGCGAACTAGATATCATGC-AGTT-AGG
1 T-TTCTTTTTGAATAAATGCATGCGAACTAGATATCATGCGA-TTAAGA
* *
32267 TTTATTTTTTGAAT-AA-GCATGCGAATTAGATATCATGCGATTAAGA
1 TTT-CTTTTTGAATAAATGCATGCGAACTAGATATCATGCGATTAAGA
32313 TTTCTTTTTG
1 TTTCTTTTTG
32323 TGAATAACAA
Statistics
Matches: 85, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
45 31 0.36
46 9 0.11
47 8 0.09
48 30 0.35
49 4 0.05
50 1 0.01
51 2 0.02
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.40
Consensus pattern (47 bp):
TTTCTTTTTGAATAAATGCATGCGAACTAGATATCATGCGATTAAGA
Found at i:38554 original size:2 final size:2
Alignment explanation
Indices: 38547--38576 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
38537 AGATCCTCTC
38547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38577 TTTTTTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42107 original size:8 final size:8
Alignment explanation
Indices: 42081--42119 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
42071 AAAATGATAG
42081 AAAAAGGA
1 AAAAAGGA
42089 AGAAAAGGA
1 A-AAAAGGA
*
42098 AAAAATGA
1 AAAAAGGA
*
42106 AAAAATGA
1 AAAAAGGA
42114 AAAAAG
1 AAAAAG
42120 AAGAAGAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (8 bp):
AAAAAGGA
Found at i:42130 original size:7 final size:7
Alignment explanation
Indices: 42116--42191 Score: 118
Period size: 7 Copynumber: 10.9 Consensus size: 7
42106 AAAAATGAAA
42116 AAAGAAG
1 AAAGAAG
42123 -AAGAAAG
1 AAAG-AAG
42130 AAAGAAG
1 AAAGAAG
42137 AAAGAAG
1 AAAGAAG
42144 AAAGAAG
1 AAAGAAG
42151 AAAGAAG
1 AAAGAAG
42158 AAAGAAG
1 AAAGAAG
42165 AAAGAAG
1 AAAGAAG
*
42172 AAAGAAA
1 AAAGAAG
*
42179 AAAGAAA
1 AAAGAAG
42186 AAAGAA
1 AAAGAA
42192 AAAAATTATG
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
6 3 0.05
7 60 0.91
8 3 0.05
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:42213 original size:7 final size:7
Alignment explanation
Indices: 42065--42195 Score: 111
Period size: 7 Copynumber: 17.7 Consensus size: 7
42055 TCGCTTGAAG
42065 AAAAAGA
1 AAAAAGA
42072 AAATGATAGA
1 AAA--A-AGA
*
42082 AAAAGGA
1 AAAAAGA
42089 AGAAAAGGA
1 A-AAAA-GA
42098 AAAAATGA
1 AAAAA-GA
42106 AAAAATGA
1 AAAAA-GA
42114 AAAAAG-
1 AAAAAGA
*
42120 AAGAAGA
1 AAAAAGA
42127 AAGAAAGA
1 AA-AAAGA
*
42135 AGAAAGA
1 AAAAAGA
*
42142 AGAAAGA
1 AAAAAGA
*
42149 AGAAAGA
1 AAAAAGA
*
42156 AGAAAGA
1 AAAAAGA
*
42163 AGAAAGA
1 AAAAAGA
*
42170 AGAAAGA
1 AAAAAGA
42177 AAAAAGA
1 AAAAAGA
42184 AAAAAGA
1 AAAAAGA
42191 AAAAA
1 AAAAA
42196 ATTATGAAAA
Statistics
Matches: 110, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
6 5 0.05
7 67 0.61
8 28 0.25
9 4 0.04
10 6 0.05
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:43654 original size:55 final size:55
Alignment explanation
Indices: 43571--43840 Score: 327
Period size: 55 Copynumber: 5.0 Consensus size: 55
43561 GAAGCAAACT
*
43571 CGTTTGTTGAAGA---TT-GAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGTTCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGACA
* * * * * *
43622 AGTTCGTTGAAGATTGTTTGAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACT
1 CGTTTGTTGAAGATTGTTCGAGTCT-TATACTCCCTGAAGGAATAGGGAGCGGACA
* * * *
43677 CGTTT-TATGAAGATTGTTCGAGTTTTATACTCCCTGAACGAATAGGGAGCAGACC
1 CGTTTGT-TGAAGATTGTTCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGACA
* * * *
43732 CGTTTATTGAATATTGTTCGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACA
1 CGTTTGTTGAAGATTGTTCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGACA
* *
43787 CGTTTGCTGAAGATTGTTCGAGTCTTATACTCCCTAAAGGAATAGGGAGCGGAC
1 CGTTTGTTGAAGATTGTTCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGAC
43841 TCATCATTCG
Statistics
Matches: 189, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
51 11 0.06
54 4 0.02
55 172 0.91
56 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (55 bp):
CGTTTGTTGAAGATTGTTCGAGTCTTATACTCCCTGAAGGAATAGGGAGCGGACA
Found at i:47245 original size:14 final size:15
Alignment explanation
Indices: 47195--47248 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
47185 TGAATTAATA
47195 CCAA-CGTCCATGTT
1 CCAAGCGTCCATGTT
* *
47209 CCAAGCGTCTAAG-T
1 CCAAGCGTCCATGTT
47223 --AAGCGTCCATGTT
1 CCAAGCGTCCATGTT
47236 CCAA-CGTCCATGT
1 CCAAGCGTCCATGT
47249 CTTTTACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 9 0.28
13 1 0.03
14 14 0.44
15 8 0.25
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (15 bp):
CCAAGCGTCCATGTT
Found at i:48077 original size:4 final size:4
Alignment explanation
Indices: 48068--48093 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
48058 AATATGCGTT
48068 TTTG TTTG TTTG TTTG TTTG TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TT
48094 GTGGTTATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (4 bp):
TTTG
Found at i:55108 original size:18 final size:19
Alignment explanation
Indices: 55071--55141 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 19
55061 TGGTTTAGTA
**
55071 GTTTTTTTTTCCTTTCTCT
1 GTTTTTTTTTCCGGTCTCT
55090 GTTTTTTTTTCCGGT-TCT
1 GTTTTTTTTTCCGGTCTCT
* *
55108 GTCTCTCTCTTTTTTCTGTCTCT
1 GT-T-T-T-TTTTTCCGGTCTCT
55131 GTCTTTTTTTT
1 GT-TTTTTTTT
55142 TTCAGGTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
18 5 0.12
19 14 0.33
20 6 0.14
21 2 0.05
22 9 0.21
23 7 0.16
ACGTcount: A:0.00, C:0.21, G:0.10, T:0.69
Consensus pattern (19 bp):
GTTTTTTTTTCCGGTCTCT
Found at i:55126 original size:17 final size:17
Alignment explanation
Indices: 55104--55139 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
55094 TTTTTTCCGG
55104 TTCTGTCTCTCTCTTTT
1 TTCTGTCTCTCTCTTTT
*
55121 TTCTGTCTCTGTCTTTT
1 TTCTGTCTCTCTCTTTT
55138 TT
1 TT
55140 TTTTCAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.25, G:0.08, T:0.67
Consensus pattern (17 bp):
TTCTGTCTCTCTCTTTT
Found at i:55143 original size:23 final size:22
Alignment explanation
Indices: 55091--55149 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
55081 CCTTTCTCTG
55091 TTTTTTTTTCCGGTTCTGTCTC
1 TTTTTTTTTCCGGTTCTGTCTC
* *
55113 TCTCTTTTTT-CTGTCTCTGTCT-
1 T-TTTTTTTTCCGGT-TCTGTCTC
*
55135 TTTTTTTTTCAGGTT
1 TTTTTTTTTCCGGTT
55150 GGGGTGGTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
21 8 0.28
22 7 0.24
23 14 0.48
ACGTcount: A:0.02, C:0.20, G:0.12, T:0.66
Consensus pattern (22 bp):
TTTTTTTTTCCGGTTCTGTCTC
Found at i:55611 original size:3 final size:3
Alignment explanation
Indices: 55592--55657 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
55582 ATTTATATAT
* *
55592 ATA ATA TATA TTA ATA ATA ATA ATA ATG A-A ATA ATA ATA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
55637 ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
55658 TGGATAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 1 0.02
3 53 0.93
4 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:56207 original size:113 final size:112
Alignment explanation
Indices: 55970--56526 Score: 829
Period size: 113 Copynumber: 5.0 Consensus size: 112
55960 ATAGAATTAT
* * * * *
55970 GCAAAAAGTTGAAC-AGTTCTTCTTATTATGAAC--TTTCTTTCTTCTTCAGATGAATTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * *
56032 ATTATGAACTTCTCTGGGAATGCTGATCCATCAATTGAT-GAATTCA
66 ATTATGAACTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
* * *
56078 TGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 -GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCT
*
56143 CATTATGAACTTTCTCCGGAAAAGCTGATCCATCAAATGATGGATTTGA
65 CATTATGAACTTT-TCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
56192 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
56257 ATTATGAACTCTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
66 ATTATGAACT-TTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
56305 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
56370 ATTATGAACTCTTTCTGGAAAAGCTGATCCATC-AATGATGGA-TTGA
66 ATTATGAACT-TTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
*
56416 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGACGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
*** * * *
56481 ATTATGAACTCGAACTGGAAAAGCTAATCCATCAAGTAATGGATTT
66 ATTATGAACT-TTTCTGGAAAAGCTGATCCATCAAATGATGGATTT
56527 AAATCTTTGC
Statistics
Matches: 416, Mismatches: 24, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
109 12 0.03
110 18 0.04
111 97 0.23
112 53 0.13
113 229 0.55
114 7 0.02
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (112 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
Found at i:57435 original size:105 final size:105
Alignment explanation
Indices: 57253--57507 Score: 485
Period size: 105 Copynumber: 2.4 Consensus size: 105
57243 ATTTTTACCA
57253 AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGTTTCCTTATTTCTACTAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGTTTCCTTATTTCTACTAT
57318 GAGCAAATTCATCTTCCAAATTC-AATGATTGGTTCTGTCC
66 GAGCAAATTCATCTTCCAAATTCAAAT-ATTGGTTCTGTCC
57358 AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGTTTCCTTATTTCTACTAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGTTTCCTTATTTCTACTAT
57423 GAGCAAATTCATCTTCCAAATTCAAATATTGGTTCTGTCC
66 GAGCAAATTCATCTTCCAAATTCAAATATTGGTTCTGTCC
*
57463 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
1 AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTG
57508 GCAAATTCAT
Statistics
Matches: 148, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
105 145 0.98
106 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (105 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGTTTCCTTATTTCTACTAT
GAGCAAATTCATCTTCCAAATTCAAATATTGGTTCTGTCC
Found at i:57564 original size:83 final size:83
Alignment explanation
Indices: 57425--57685 Score: 479
Period size: 83 Copynumber: 3.1 Consensus size: 83
57415 TCTACTATGA
*
57425 GCAAATTCATCTTCCAAATTCAAATATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAAATATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
57490 TTCCAGAAGATGCTATTG
66 TTCCAGAAGATGCTATTG
*
57508 GCAAATTCATCTTCTAAATTC-AATGATTGGTTCTGTTCAACCAGATCAGATAACTCAAAGAACA
1 GCAAATTCATCTTCTAAATTCAAAT-ATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACA
57572 CTTCCAGAAGATGCTATTG
65 CTTCCAGAAGATGCTATTG
57591 GCAAATTCATCTTCTAAATTCAAATATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAAATATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
*
57656 TTCCAGAAGATGCTATTA
66 TTCCAGAAGATGCTATTG
57674 GCAAATTCATCT
1 GCAAATTCATCT
57686 ATTCCAGTTA
Statistics
Matches: 172, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
82 3 0.02
83 166 0.97
84 3 0.02
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (83 bp):
GCAAATTCATCTTCTAAATTCAAATATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATTG
Found at i:58507 original size:16 final size:16
Alignment explanation
Indices: 58454--58508 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
58444 CATATAAAAG
58454 AATAAATTGAATTTTCGAA
1 AATAAATTGAA-TTT-G-A
***
58473 AATAAATTGAATCACA
1 AATAAATTGAATTTGA
58489 AATAAATTGAATTTGA
1 AATAAATTGAATTTGA
58505 AATA
1 AATA
58509 GATAGAATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
16 18 0.60
18 1 0.03
19 11 0.37
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (16 bp):
AATAAATTGAATTTGA
Found at i:58833 original size:1 final size:1
Alignment explanation
Indices: 58829--58889 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
58819 TTGACCCCCC
* * * * * * * *
58829 TTTTTTTCTCTTTTTCTTTTCTTTTTTTTTCTTTTTTCTTTTTTTTTTCTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
58890 CTTCAAGCAT
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:58841 original size:10 final size:10
Alignment explanation
Indices: 58828--58892 Score: 60
Period size: 11 Copynumber: 6.3 Consensus size: 10
58818 CTTGACCCCC
58828 CTTTTTTTCT
1 CTTTTTTTCT
*
58838 CTTTTTCTTTT
1 CTTTTT-TTCT
*
58849 CTTTTTTTTT
1 CTTTTTTTCT
58859 C-TTTTTTCTT
1 CTTTTTTTC-T
*
58869 TTTTTTTTCTT
1 CTTTTTTTC-T
*
58880 CTTTTTTTTT
1 CTTTTTTTCT
58890 CTT
1 CTT
58893 CAAGCATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
9 6 0.13
10 16 0.34
11 25 0.53
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
CTTTTTTTCT
Found at i:58850 original size:13 final size:13
Alignment explanation
Indices: 58832--58891 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
58822 ACCCCCCTTT
58832 TTTTCTCTTTTTC
1 TTTTCTCTTTTTC
*
58845 TTTTCTTTTTTTTTC
1 TTTTC--TCTTTTTC
* *
58860 TTTTTTCTTTTTT
1 TTTTCTCTTTTTC
58873 TTTTCTTCTTTTT-
1 TTTTC-TCTTTTTC
58886 TTTTCT
1 TTTTCT
58892 TCAAGCATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 1 0.03
13 20 0.51
14 7 0.18
15 11 0.28
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTCTCTTTTTC
Found at i:58852 original size:21 final size:20
Alignment explanation
Indices: 58828--58892 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 20
58818 CTTGACCCCC
58828 CTTTTTTTCTCTTTTTCTTTT
1 CTTTTTTTCTCTTTTT-TTTT
*
58849 CTTTTTTTTTCTTTTTTCTTT
1 CTTTTTTTCTCTTTTTT-TTT
58870 -TTTTTTTCTTCTTTTTTTTT
1 CTTTTTTTC-TCTTTTTTTTT
58890 CTT
1 CTT
58893 CAAGCATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 11 0.28
21 28 0.72
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
CTTTTTTTCTCTTTTTTTTT
Found at i:58863 original size:28 final size:29
Alignment explanation
Indices: 58832--58887 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
58822 ACCCCCCTTT
58832 TTTTCTCTTTTTCTTTTCTT-TTTTTTTC
1 TTTTCTCTTTTTCTTTTCTTCTTTTTTTC
* *
58860 TTTTTTCTTTTTTTTTTCTTCTTTTTTT
1 TTTTCTCTTTTTCTTTTCTTCTTTTTTT
58888 TTCTTCAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (29 bp):
TTTTCTCTTTTTCTTTTCTTCTTTTTTTC
Found at i:58867 original size:17 final size:17
Alignment explanation
Indices: 58845--58892 Score: 66
Period size: 15 Copynumber: 3.0 Consensus size: 17
58835 TCTCTTTTTC
58845 TTTTCTTTTTTTTTCTT
1 TTTTCTTTTTTTTTCTT
58862 TTTTC--TTTTTTT-TT
1 TTTTCTTTTTTTTTCTT
*
58876 TCTTCTTTTTTTTTCTT
1 TTTTCTTTTTTTTTCTT
58893 CAAGCATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
16 7 0.26
17 7 0.26
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTCTTTTTTTTTCTT
Found at i:58871 original size:18 final size:18
Alignment explanation
Indices: 58845--58889 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
58835 TCTCTTTTTC
58845 TTTTC-TTTTTTTTTCTT
1 TTTTCTTTTTTTTTTCTT
58862 TTTTCTTTTTTTTTTCTT
1 TTTTCTTTTTTTTTTCTT
*
58880 CTTT-TTTTTT
1 TTTTCTTTTTT
58890 CTTCAAGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (18 bp):
TTTTCTTTTTTTTTTCTT
Found at i:58874 original size:31 final size:30
Alignment explanation
Indices: 58830--58892 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
58820 TGACCCCCCT
58830 TTTTTTCTCTTTTTCTT-TTCTTTTTTTTTC
1 TTTTTTCTCTTTTT-TTCTTCTTTTTTTTTC
*
58860 TTTTTTCTTTTTTTTTTCTTCTTTTTTTTTC
1 TTTTTTC-TCTTTTTTTCTTCTTTTTTTTTC
58891 TT
1 TT
58893 CAAGCATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (30 bp):
TTTTTTCTCTTTTTTTCTTCTTTTTTTTTC
Found at i:69522 original size:37 final size:34
Alignment explanation
Indices: 69473--69552 Score: 88
Period size: 37 Copynumber: 2.3 Consensus size: 34
69463 CAGAAAAAAT
* *
69473 AAATAATGAAATAAAATACTTGAAAAATAAAATGA
1 AAATAATAAAATAAAATACAT-AAAAATAAAATGA
* * *
69508 AACATTAATAAAATAATATACATATAAATAATATGA
1 AA-A-TAATAAAATAAAATACATAAAAATAAAATGA
69544 AAATAATAA
1 AAATAATAA
69553 GTATATATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
34 6 0.16
35 3 0.08
36 14 0.37
37 15 0.39
ACGTcount: A:0.65, C:0.04, G:0.05, T:0.26
Consensus pattern (34 bp):
AAATAATAAAATAAAATACATAAAAATAAAATGA
Found at i:70062 original size:20 final size:20
Alignment explanation
Indices: 70001--70064 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
69991 ATTATTAAAG
70001 TTTAAAAATTCA-AAAATATA
1 TTTAAAAATT-ATAAAATATA
* **
70021 TTT--AATTTATAATCCTATTA
1 TTTAAAAATTATAA-AATA-TA
70041 TTTAAAAATTATAAAATATA
1 TTTAAAAATTATAAAATATA
70061 TTTA
1 TTTA
70065 TTTATTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 1 0.03
18 6 0.18
19 2 0.06
20 14 0.42
21 2 0.06
22 8 0.24
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAAAAATTATAAAATATA
Found at i:71206 original size:21 final size:20
Alignment explanation
Indices: 71168--71206 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
71158 TGGTTTAGTA
*
71168 GTTTTTTTTTTCCTTTCTCT
1 GTTTTTTTTTTCCATTCTCT
71188 GTTTTTTTTTTCCGATTCT
1 GTTTTTTTTTTCC-ATTCT
71207 GTCTCTGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.03, C:0.18, G:0.08, T:0.72
Consensus pattern (20 bp):
GTTTTTTTTTTCCATTCTCT
Found at i:71705 original size:3 final size:3
Alignment explanation
Indices: 71697--71743 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
71687 AATATATATT
71697 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
71744 TGGATAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:79108 original size:31 final size:26
Alignment explanation
Indices: 79047--79102 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
79037 TATTATTTCG
79047 GGTCGGGTAAAAACTTGTTTTGGTCA
1 GGTCGGGTAAAAACTTGTTTTGGTCA
79073 GGTCGGGTAAAAACTTGTTTTGGTCA
1 GGTCGGGTAAAAACTTGTTTTGGTCA
79099 GGTC
1 GGTC
79103 AGGTCGAGTC
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:0.21, C:0.12, G:0.32, T:0.34
Consensus pattern (26 bp):
GGTCGGGTAAAAACTTGTTTTGGTCA
Found at i:84827 original size:15 final size:14
Alignment explanation
Indices: 84807--84836 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
84797 TATGCGGAGA
84807 TTATTATGCAGGGAT
1 TTATTA-GCAGGGAT
84822 TTATTAGCAGGGAT
1 TTATTAGCAGGGAT
84836 T
1 T
84837 ACTTCCCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (14 bp):
TTATTAGCAGGGAT
Found at i:84888 original size:4 final size:4
Alignment explanation
Indices: 84879--84905 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
84869 TTCAAATATG
84879 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
84906 ACATGCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:94042 original size:23 final size:23
Alignment explanation
Indices: 94016--94063 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
94006 ATAAAGTACA
*
94016 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
94039 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
94062 AT
1 AT
94064 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:94466 original size:21 final size:22
Alignment explanation
Indices: 94441--94492 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
94431 ACACTTTACA
*
94441 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
94464 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
94487 ATATAA
1 ATATAA
94493 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:94477 original size:23 final size:23
Alignment explanation
Indices: 94451--94513 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
94441 ATATAACCAC
94451 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
94474 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
94497 TACCTATTACATCATAT
1 TACCTATTACATTATAT
94514 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:94857 original size:25 final size:25
Alignment explanation
Indices: 94800--94865 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
94790 CACTCAAAAG
*
94800 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
94825 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
94850 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
94866 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:96541 original size:184 final size:183
Alignment explanation
Indices: 96226--96606 Score: 699
Period size: 184 Copynumber: 2.1 Consensus size: 183
96216 TTTTTATACC
*
96226 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTA
1 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTA
* *
96291 AATGTCGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGAC
66 AATGTCAACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGAC
*
96356 ACAATATTAAAAATTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCG
131 ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCG
*
96409 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTA
1 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGT-
*
96474 AAATGTCAACACTTTTTTAAATCGTATCGGCACATTTTTCTTCCAATATGGACATAAAGTACCGA
65 AAATGTCAACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGA
96539 CACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCG
130 CACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCG
96593 GTATATTTATACCG
1 GTATATTTATACCG
96607 CATTCAATCT
Statistics
Matches: 191, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
183 62 0.32
184 129 0.68
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (183 bp):
GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTA
AATGTCAACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGAC
ACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCG
Found at i:98329 original size:32 final size:32
Alignment explanation
Indices: 98287--98347 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
98277 TTAATATCAC
*
98287 CCCTTAACACCCCAACTTCTTTCACCACTTCA
1 CCCTCAACACCCCAACTTCTTTCACCACTTCA
* *
98319 CCCTCAACACCTCTACTTCTTTCACCACT
1 CCCTCAACACCCCAACTTCTTTCACCACT
98348 CCATCTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.30
Consensus pattern (32 bp):
CCCTCAACACCCCAACTTCTTTCACCACTTCA
Found at i:98420 original size:21 final size:21
Alignment explanation
Indices: 98380--98444 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
98370 CCCCTTATGC
* *
98380 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
98401 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
98422 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
98443 CT
1 CT
98445 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:100683 original size:17 final size:18
Alignment explanation
Indices: 100661--100703 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
100651 ATATATCCGG
100661 TATCATT-TTACCGGTTT
1 TATCATTGTTACCGGTTT
100678 TATCATTTTGTTACCGGTTT
1 TATCA--TTGTTACCGGTTT
100698 TATCAT
1 TATCAT
100704 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (18 bp):
TATCATTGTTACCGGTTT
Found at i:100693 original size:20 final size:20
Alignment explanation
Indices: 100666--100712 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
100656 TCCGGTATCA
100666 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
100685 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
100706 TTTTACC
1 TTTTACC
100713 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:100860 original size:20 final size:20
Alignment explanation
Indices: 100834--100879 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
100824 CACTTTTAAA
100834 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
100853 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
100874 TTTACC
1 TTTACC
100880 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:102813 original size:20 final size:21
Alignment explanation
Indices: 102788--102839 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
102778 TTTTACCAAT
*
102788 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
102808 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
102829 TCGCAATGCGA
1 TCGCAATGCGA
102840 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:102962 original size:20 final size:20
Alignment explanation
Indices: 102828--102961 Score: 144
Period size: 20 Copynumber: 6.7 Consensus size: 20
102818 AATTGGGAAA
102828 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
102848 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
102868 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
102888 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
***
102909 ATCGCAACAAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
102929 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
102949 TTCGCAACGCGAT
1 ATCGCAATGCGAT
102962 TTACATAGCG
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 83 0.84
21 12 0.12
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:103625 original size:33 final size:34
Alignment explanation
Indices: 103577--103642 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
103567 TTTTATTTCG
**
103577 CGTTGCGATTTTCATTT-CGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCCGCGTTGCGATTCTCT
103610 CGTTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 CGTTGCGATAGTCATTTCCGCGTTGCGATTCTC
103643 ATTATCTCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 15 0.50
34 15 0.50
ACGTcount: A:0.11, C:0.26, G:0.23, T:0.41
Consensus pattern (34 bp):
CGTTGCGATAGTCATTTCCGCGTTGCGATTCTCT
Found at i:103644 original size:20 final size:19
Alignment explanation
Indices: 103536--103667 Score: 148
Period size: 19 Copynumber: 7.1 Consensus size: 19
103526 GAAACCAAAA
*
103536 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
103555 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
103574 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
103593 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
103607 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
103626 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
103646 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
103666 TC
1 TC
103668 AACCAAAAGA
Statistics
Matches: 96, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
14 10 0.10
16 2 0.02
17 3 0.03
19 49 0.51
20 31 0.32
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:105525 original size:91 final size:89
Alignment explanation
Indices: 105349--105526 Score: 254
Period size: 89 Copynumber: 2.0 Consensus size: 89
105339 TAAATTGCTT
*
105349 AGTAAATTTATTCGGTTGCTGCCAAAATGCTAAAACTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCAGTTGCTGCCAAAATGCTAAAACTGTTTATTAACACTGTGAAGTTAGTATTT
105414 GTCTTTTGTTTTGTCTTTTGGTGA
66 GTCTTTTGTTTTGTCTTTTGGTGA
** *
105438 AGTAAATTTATTCAGTTGCTGCCAATTCTGCT-AAACTGTGTATCTTTAACACTG-GAAGTTAGT
1 AGTAAATTTATTCAGTTGCTGCCAA-AATGCTAAAACTGT-T-T-ATTAACACTGTGAAGTTAGT
105501 ATTTGTC-TTTGTGTTTGTCTTTTGGT
62 ATTTGTCTTTTGT-TTTGTCTTTTGGT
105527 TGAAAGTTTG
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
89 31 0.39
90 10 0.12
91 30 0.38
92 9 0.11
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (89 bp):
AGTAAATTTATTCAGTTGCTGCCAAAATGCTAAAACTGTTTATTAACACTGTGAAGTTAGTATTT
GTCTTTTGTTTTGTCTTTTGGTGA
Found at i:105820 original size:21 final size:21
Alignment explanation
Indices: 105796--105862 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
105786 TCATTCCTCG
105796 AGAGTCCCCTCCCACCATTCA
1 AGAGTCCCCTCCCACCATTCA
* * ** * * *
105817 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCATTCA
105838 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCATTCA
105859 AGAG
1 AGAG
105863 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 14, Indels: 3
0.65 0.29 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCATTCA
Found at i:105820 original size:42 final size:42
Alignment explanation
Indices: 105774--105862 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
105764 CCTGTCGTTA
*
105774 AAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCACCATTC
1 AAGAGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCACCATTC
* * *
105816 AAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCACCATTC
1 AAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCACCATTC
105858 AAGAG
1 AAGAG
105863 CCCGATTCAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 4 0.10
42 35 0.85
43 2 0.05
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.20
Consensus pattern (42 bp):
AAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCACCATTC
Found at i:107222 original size:14 final size:14
Alignment explanation
Indices: 107203--107238 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
107193 ATTGTTTAAT
107203 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
107217 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
107231 TGATTTGT
1 TGATTTGT
107239 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:107381 original size:14 final size:14
Alignment explanation
Indices: 107362--107416 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
107352 GCGAAATGAA
107362 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
107376 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
107395 AATCGCAACGAGAG
1 AATCGCAACGAGAG
107409 AATCGCAA
1 AATCGCAA
107417 TGCGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:107389 original size:33 final size:33
Alignment explanation
Indices: 107344--107433 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
107334 AAAAAGTACT
107344 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
107377 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
107410 ATCGCAATGCGAAATTAAATTCGC
1 ATCGCAATGCGAAATGAAAATCGC
107434 GTTGCGATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:107403 original size:19 final size:19
Alignment explanation
Indices: 107344--107404 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
107334 AAAAAGTACT
*
107344 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
107363 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
107377 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
107396 ATCGCAACG
1 ATCGCAACG
107405 AGAGAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:107451 original size:19 final size:19
Alignment explanation
Indices: 107429--107579 Score: 62
Period size: 19 Copynumber: 8.7 Consensus size: 19
107419 CGAAATTAAA
107429 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
107448 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
107463 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
107481 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
* *
107495 TTAGTGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
107514 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
107529 -TCTCGTTGCGATTTTTAT
1 TTCGCGTTGCGATTTTCAT
* ** *
107547 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
107566 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
107580 AGACATTAAG
Statistics
Matches: 92, Mismatches: 24, Indels: 31
0.63 0.16 0.21
Matches are distributed among these distances:
14 27 0.29
16 5 0.05
17 6 0.07
19 44 0.48
20 10 0.11
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:107475 original size:33 final size:33
Alignment explanation
Indices: 107433--107559 Score: 186
Period size: 33 Copynumber: 3.8 Consensus size: 33
107423 ATTAAATTCG
*
107433 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
*
107466 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AGT
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCACT
*
107500 -GTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
*
107532 CGTTGCGATTTTTATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
107560 AGTAATTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
31 3 0.04
32 1 0.01
33 77 0.91
34 1 0.01
35 3 0.04
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:107514 original size:66 final size:66
Alignment explanation
Indices: 107434--107558 Score: 232
Period size: 66 Copynumber: 1.9 Consensus size: 66
107424 TTAAATTCGC
107434 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTAG
1 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTAG
107499 T
66 T
* *
107500 GTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTTATTTCGCATTGCGA
1 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGA
107559 TAGTAATTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (66 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTAG
T
Found at i:109850 original size:12 final size:12
Alignment explanation
Indices: 109833--109857 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109823 TCTTCGGGGA
109833 CTTTTTCTTCTT
1 CTTTTTCTTCTT
109845 CTTTTTCTTCTT
1 CTTTTTCTTCTT
109857 C
1 C
109858 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:111151 original size:20 final size:20
Alignment explanation
Indices: 111126--111180 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 20
111116 ATTCATTTGA
111126 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
111146 CTATCGCAA--C-AAAATGG
1 CTATCGCAACGCGAAAATGG
*
111163 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
111181 CGCAATGCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 16 0.52
18 1 0.03
20 14 0.45
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:111223 original size:14 final size:14
Alignment explanation
Indices: 111204--111257 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
111194 GAAAATCGCA
111204 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
111218 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
111235 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
111251 TTGCGAT
1 TTGCGAT
111258 AGCCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:111223 original size:33 final size:33
Alignment explanation
Indices: 111186--111256 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
111176 AAAATCGCAA
111186 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
111219 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
111252 TGCGA
1 TGCGA
111257 TAGCCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:111257 original size:33 final size:33
Alignment explanation
Indices: 111199--111276 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
111189 GAAATGAAAA
***
111199 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
111232 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
111265 TCGCGTTGCGAT
1 TCGCATTGCGAT
111277 AGTCTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:111383 original size:14 final size:14
Alignment explanation
Indices: 111364--111400 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
111354 CATCAATTAA
111364 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
111378 ACAAATCATCTTTT
1 ACAAATCAACATTT
111392 ACAAATCAA
1 ACAAATCAA
111401 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:113261 original size:20 final size:20
Alignment explanation
Indices: 113232--113315 Score: 73
Period size: 19 Copynumber: 4.3 Consensus size: 20
113222 GTTTACTTTT
* * *
113232 GCAACACGAAACTTAAAATC
1 GCAACGCGAAAATGAAAATC
**
113252 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGAAAATC
***
113272 GCAACGCG-AAATGGCTATC
1 GCAACGCGAAAATGAAAATC
*
113291 GCAATGCG-AAATGAAAATC
1 GCAACGCGAAAATGAAAATC
113310 GCAACG
1 GCAACG
113316 ACAAAATCGC
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
19 30 0.57
20 23 0.43
ACGTcount: A:0.42, C:0.24, G:0.20, T:0.14
Consensus pattern (20 bp):
GCAACGCGAAAATGAAAATC
Found at i:113289 original size:19 final size:19
Alignment explanation
Indices: 113249--113315 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
113239 GAAACTTAAA
113249 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
113269 ATCGCAACGCGAAATGGCT
1 ATCGCAACGCGAAATGACT
* **
113288 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
113307 ATCGCAACG
1 ATCGCAACG
113316 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:113323 original size:14 final size:14
Alignment explanation
Indices: 113304--113361 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
113294 ATGCGAAATG
113304 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
113318 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
113334 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
113350 AAAATCGCAACG
1 AAAATCGCAACG
113362 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:113346 original size:32 final size:33
Alignment explanation
Indices: 113288--113366 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
113278 CGAAATGGCT
*
113288 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
113321 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
113353 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
113367 CACAATCGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:113375 original size:18 final size:17
Alignment explanation
Indices: 113319--113376 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
113309 CGCAACGACA
*
113319 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAA-C
*
113337 AAATCGCAA--CGACA-
1 AAATCGCAACGCGAAAC
113351 AAATCGCAACGCGAAAC
1 AAATCGCAACGCGAAAC
113368 ACAATCGCA
1 A-AATCGCA
113377 TTGCGATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 9 0.26
16 8 0.24
17 1 0.03
18 16 0.47
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.09
Consensus pattern (17 bp):
AAATCGCAACGCGAAAC
Found at i:113414 original size:14 final size:14
Alignment explanation
Indices: 113395--113451 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 14
113385 TTCATTTCGT
113395 GTTGCGATTTTGTC
1 GTTGCGATTTTGTC
*
113409 GTTGCGATTTCATTTCGC
1 GTTGCGATTT--TGT--C
113427 GTTGCGATTTTGTC
1 GTTGCGATTTTGTC
113441 GTTGCGATTTT
1 GTTGCGATTTT
113452 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 22 0.59
16 4 0.11
18 11 0.30
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.49
Consensus pattern (14 bp):
GTTGCGATTTTGTC
Found at i:113458 original size:33 final size:33
Alignment explanation
Indices: 113377--113467 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
113367 CACAATCGCA
*
113377 TTGCGATTTTCATTTCGTGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
113410 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
113442 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
113468 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:113486 original size:20 final size:20
Alignment explanation
Indices: 113461--113506 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
113451 TCATTTCGCA
113461 TTGCGATAGCCATTTCCGTG
1 TTGCGATAGCCATTTCCGTG
* *
113481 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGTG
113501 TTGCGA
1 TTGCGA
113507 AAGTAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.20, G:0.26, T:0.39
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGTG
Found at i:114020 original size:18 final size:18
Alignment explanation
Indices: 113994--114038 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
113984 GTCGATCAGA
*
113994 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
114012 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
114030 TGATGGCTC
1 TGATGGCTC
114039 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:115415 original size:20 final size:20
Alignment explanation
Indices: 115367--115415 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
115357 GAAAATAAAA
*
115367 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
115387 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
115407 ATCGCAACG
1 ATCGCAACG
115416 AGAGAATCGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:115708 original size:22 final size:22
Alignment explanation
Indices: 115678--115721 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
115668 GATGGAGATA
*
115678 GACGGATTTCGTCGGAGATGGG
1 GACGAATTTCGTCGGAGATGGG
115700 GACGAATTTCGTCGGAGATGGG
1 GACGAATTTCGTCGGAGATGGG
115722 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.14, G:0.43, T:0.23
Consensus pattern (22 bp):
GACGAATTTCGTCGGAGATGGG
Found at i:115934 original size:20 final size:20
Alignment explanation
Indices: 115909--116042 Score: 153
Period size: 20 Copynumber: 6.7 Consensus size: 20
115899 GATTATGTAT
115909 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
115929 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
115949 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
115969 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
115990 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
116010 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
116030 TATCGCATTGCGA
1 TATCGCGTTGCGA
116043 TTTTCCCAAT
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
19 3 0.03
20 85 0.83
21 12 0.12
22 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:115994 original size:61 final size:61
Alignment explanation
Indices: 115929--116046 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
115919 CGAAAGTCAG
* * * *
115929 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTGTAT
1 TATCGCATTGCGAAAGTCAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTGTAT
* * *
115990 TATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTCAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
116047 CCCAATTCGC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (61 bp):
TATCGCATTGCGAAAGTCAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTGTAT
Found at i:116043 original size:20 final size:20
Alignment explanation
Indices: 115889--116043 Score: 152
Period size: 20 Copynumber: 7.7 Consensus size: 20
115879 CGCTTTGAAA
*
115889 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
115910 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* *
115930 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
115950 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
115970 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
115991 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
116011 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
116031 ATCGCATTGCGAT
1 ATCGCATTGCGAT
116044 TTTCCCAATT
Statistics
Matches: 118, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
19 5 0.04
20 88 0.75
21 23 0.19
22 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:116062 original size:61 final size:61
Alignment explanation
Indices: 115929--116064 Score: 166
Period size: 61 Copynumber: 2.2 Consensus size: 61
115919 CGAAAGTCAG
* * * * ** *
115929 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTCAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTCCAA
* * *
115990 TATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTCAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT-CCAA
116052 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
116065 TTACTTATTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 61 0.97
62 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (61 bp):
TATCGCGTTGCGATAGTCAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTCCAA
Found at i:116083 original size:81 final size:81
Alignment explanation
Indices: 115889--116042 Score: 236
Period size: 81 Copynumber: 1.9 Consensus size: 81
115879 CGCTTTGAAA
* * * *
115889 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTCAGTATCG
1 ATCGCGTTGCGATTTTGTATTATCGCATTGCGAAAGTCAGTATCGCATTGCGAAAGTCAGTATCG
*
115954 CGTTGCGAAAGTAAGT
66 CATTGCGAAAGTAAGT
* * *
115970 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCG
1 ATCGCGTTGCGATTTTGTATTATCGCATTGCGAAAGTCAGTATCGCATTGCGAAAGTCAGTATCG
116035 CATTGCGA
66 CATTGCGA
116043 TTTTCCCAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (81 bp):
ATCGCGTTGCGATTTTGTATTATCGCATTGCGAAAGTCAGTATCGCATTGCGAAAGTCAGTATCG
CATTGCGAAAGTAAGT
Found at i:117116 original size:51 final size:52
Alignment explanation
Indices: 117056--117166 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 52
117046 TGTCCCTTGA
* *
117056 ACCGCGCTATATGCTGATTTGGCG-T-CACATGGAGTATAACGCGCCCCCTG-T
1 ACCGCGCTATACGCTGA-CTGG-GTTACACATGGAGTATAACGCGCCCCCTGCT
* * *
117107 ACCGCGCTATACGCTGACTGGGTTACACGTGGGGTATAGCGCGCCCCCTGCT
1 ACCGCGCTATACGCTGACTGGGTTACACATGGAGTATAACGCGCCCCCTGCT
117159 -CCGCGCTA
1 ACCGCGCTA
117167 GAATAAGGAC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
49 1 0.02
50 4 0.08
51 46 0.88
52 1 0.02
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.23
Consensus pattern (52 bp):
ACCGCGCTATACGCTGACTGGGTTACACATGGAGTATAACGCGCCCCCTGCT
Found at i:117417 original size:17 final size:18
Alignment explanation
Indices: 117395--117430 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
117385 TCAATATATT
117395 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
117412 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
117430 A
1 A
117431 TTATATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:117490 original size:12 final size:10
Alignment explanation
Indices: 117477--117517 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
117467 TTTAAAAAGA
*
117477 GAGAGTATTT
1 GAGAGAATTT
117487 GAGAGAAATTT
1 GAGAG-AATTT
117498 -AGAGAATTT
1 GAGAGAATTT
117507 GAGAGAATTT
1 GAGAGAATTT
117517 G
1 G
117518 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:118785 original size:40 final size:40
Alignment explanation
Indices: 118735--118864 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 40
118725 TATTTTTTCA
*
118735 ATAACATTTTCGGTTGTCAACTGAAAATATTATGAAAAAT
1 ATAACATTTTCGGTTGTCAACTGAAAATATTATGAAGAAT
* * * *
118775 ATAATATTTTCGATTGTCAACTGAAAATGTTAT-AAGAAC
1 ATAACATTTTCGGTTGTCAACTGAAAATATTATGAAGAAT
* * * *
118814 ATAATATTTTCGGTTGACAACCGAAAATATTACGAAGAAT
1 ATAACATTTTCGGTTGTCAACTGAAAATATTATGAAGAAT
*
118854 GTAACATTTTC
1 ATAACATTTTC
118865 AGTTTAATCG
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 32 0.42
40 44 0.58
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (40 bp):
ATAACATTTTCGGTTGTCAACTGAAAATATTATGAAGAAT
Found at i:118840 original size:39 final size:40
Alignment explanation
Indices: 118735--118845 Score: 152
Period size: 39 Copynumber: 2.8 Consensus size: 40
118725 TATTTTTTCA
* *
118735 ATAACATTTTCGGTTGTCAACTGAAAATATTATGAAAAAT
1 ATAATATTTTCGGTTGTCAACTGAAAATATTATGAAAAAC
* * *
118775 ATAATATTTTCGATTGTCAACTGAAAATGTTAT-AAGAAC
1 ATAATATTTTCGGTTGTCAACTGAAAATATTATGAAAAAC
* *
118814 ATAATATTTTCGGTTGACAACCGAAAATATTA
1 ATAATATTTTCGGTTGTCAACTGAAAATATTA
118846 CGAAGAATGT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
39 32 0.52
40 30 0.48
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (40 bp):
ATAATATTTTCGGTTGTCAACTGAAAATATTATGAAAAAC
Found at i:123743 original size:2 final size:2
Alignment explanation
Indices: 123736--123766 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
123726 AGCGTTCCGC
123736 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
123767 GATGTCCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:123865 original size:2 final size:2
Alignment explanation
Indices: 123858--123882 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
123848 TCAAGCAAAA
123858 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
123883 CACTGCTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:132820 original size:19 final size:19
Alignment explanation
Indices: 132778--132814 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
132768 AAAAAATACC
132778 ATTTTATATAAATCATATT
1 ATTTTATATAAATCATATT
*
132797 ATTTTATTTAAATCATAT
1 ATTTTATATAAATCATAT
132815 AGTTTTCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATATAAATCATATT
Found at i:134814 original size:198 final size:198
Alignment explanation
Indices: 134457--134852 Score: 697
Period size: 198 Copynumber: 2.0 Consensus size: 198
134447 TGGTCCGTTT
*
134457 TAGTATCTAAACTTTTAATTTTTTTCAAAATCAACCTAAAGTTTAATTTTTATTTTATTTTAGTA
1 TAGTATCTAAACTTTTAATTTTTTTCAAAATCAACCTAAAGTTTAATTTTTAATTTATTTTAGTA
134522 CTCCATTCAAAATTTAATGTTAATTTTGTTAAAAAAATGAAAGTTTAGGTATTAAAACATACTAA
66 CTCCATTCAAAATTTAATGTTAATTTTGTTAAAAAAATGAAAGTTTAGGTATTAAAACATACTAA
* ** *
134587 AACTAAAGTTTAGGTACTAAACGCGTTAAGTTTTTAATGGTTGGATATTAAAACGAAACAAAAAC
131 AACTAAAGTTTAGGTACTAAACGCGTTAAGTTTTTAACGACTGAATATTAAAACGAAACAAAAAC
134652 TAA
196 TAA
*
134655 TAGTATCTAAACTTTTGATTTTTTTCAAAATCAACCTAAAGTTTAATTTTTAATTTATTTTAGTA
1 TAGTATCTAAACTTTTAATTTTTTTCAAAATCAACCTAAAGTTTAATTTTTAATTTATTTTAGTA
134720 CTCCATTCAAAATTTAATGTTAATTTT-TTAAAAAAAATGAAAGTTTAGGTATTAAAACATACTA
66 CTCCATTCAAAATTTAATGTTAATTTTGTT-AAAAAAATGAAAGTTTAGGTATTAAAACATACTA
*
134784 AAACTAATAGTTTGGGTACTAAAC-CGTTAAGTTTTTAACGACTGAATATTAAAACGAAACAAAA
130 AAACTAA-AGTTTAGGTACTAAACGCGTTAAGTTTTTAACGACTGAATATTAAAACGAAACAAAA
134848 ACTAA
194 ACTAA
134853 ACGTTAGGGA
Statistics
Matches: 189, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
197 2 0.01
198 172 0.91
199 15 0.08
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (198 bp):
TAGTATCTAAACTTTTAATTTTTTTCAAAATCAACCTAAAGTTTAATTTTTAATTTATTTTAGTA
CTCCATTCAAAATTTAATGTTAATTTTGTTAAAAAAATGAAAGTTTAGGTATTAAAACATACTAA
AACTAAAGTTTAGGTACTAAACGCGTTAAGTTTTTAACGACTGAATATTAAAACGAAACAAAAAC
TAA
Found at i:139692 original size:23 final size:22
Alignment explanation
Indices: 139660--139705 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
139650 TTGATAAAGA
139660 AAAGAAAAGA-AAATAAAGAAAT
1 AAAGAAAAGAGAAA-AAAGAAAT
*
139682 AAAGAGAAAGAGACAAAAGAAAT
1 AAAGA-AAAGAGAAAAAAGAAAT
139705 A
1 A
139706 CTATTGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 14 0.67
24 2 0.10
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (22 bp):
AAAGAAAAGAGAAAAAAGAAAT
Found at i:140619 original size:31 final size:31
Alignment explanation
Indices: 140549--140626 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
140539 CTTTTAAAAC
**
140549 TTGCAATAAAATCCCCCAATATTTAGTCCGT
1 TTGCAATATGATCCCCCAATATTTAGTCCGT
140580 TTGCAATATGATCCCCCAATATTTAGTCCGT
1 TTGCAATATGATCCCCCAATATTTAGTCCGT
*
140611 TTGCAATATGGTCCCC
1 TTGCAATATGATCCCC
140627 AACGTAACTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (31 bp):
TTGCAATATGATCCCCCAATATTTAGTCCGT
Found at i:142594 original size:3 final size:3
Alignment explanation
Indices: 142580--142614 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
142570 CACGATGGCG
* *
142580 AGA AGG AGA AGA AGA AGA AGA AGG AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
142615 CACGAAGATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:144361 original size:38 final size:38
Alignment explanation
Indices: 144310--144383 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
144300 CGTACCACCT
*
144310 GCCCTGTCTAAGTACATCCCTATAATACGGTTAATCCC
1 GCCCTGTCTAAGTACATCCCTATAATACGATTAATCCC
144348 GCCCTGTCTAAGTACATCCCTATAATACGATTAATC
1 GCCCTGTCTAAGTACATCCCTATAATACGATTAATC
144384 TTATATTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (38 bp):
GCCCTGTCTAAGTACATCCCTATAATACGATTAATCCC
Found at i:148945 original size:9 final size:9
Alignment explanation
Indices: 148933--148966 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
148923 TAATATTTTG
148933 TATTTAATT
1 TATTTAATT
*
148942 TATTTAA-G
1 TATTTAATT
148950 TATTTAATT
1 TATTTAATT
148959 TATTTAAT
1 TATTTAAT
148967 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:148954 original size:17 final size:16
Alignment explanation
Indices: 148933--148986 Score: 81
Period size: 16 Copynumber: 3.3 Consensus size: 16
148923 TAATATTTTG
148933 TATTTAATTTATTTAA
1 TATTTAATTTATTTAA
148949 GTATTTAATTTATTTAA
1 -TATTTAATTTATTTAA
* *
148966 TATTTTACTTATTTAA
1 TATTTAATTTATTTAA
148982 TATTT
1 TATTT
148987 TTGCAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
16 19 0.54
17 16 0.46
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (16 bp):
TATTTAATTTATTTAA
Found at i:157665 original size:58 final size:58
Alignment explanation
Indices: 157597--157726 Score: 154
Period size: 58 Copynumber: 2.2 Consensus size: 58
157587 ACTATAATCT
* * *
157597 TCATTCTAAATTGATCCTTAAACTTTTGAATATTTCAATTTCATTCCC-AAATTATGAC
1 TCATTCTAAATTAATCCTTAAACTTTTGAACATTTCAACTTCA-TCCCTAAATTATGAC
* * **
157655 TCATTTTAAATTAATCCTTAAAGTTTTGAACATTTTGACTTCATCCCTAAATTATGACCC
1 TCATTCTAAATTAATCCTTAAACTTTTGAACATTTCAACTTCATCCCTAAATTATGA--C
*
157715 TCTTTCTAAATT
1 TCATTCTAAATT
157727 GGTCCCCACA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 4 0.07
58 45 0.75
60 11 0.18
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.44
Consensus pattern (58 bp):
TCATTCTAAATTAATCCTTAAACTTTTGAACATTTCAACTTCATCCCTAAATTATGAC
Found at i:165576 original size:40 final size:40
Alignment explanation
Indices: 165532--165630 Score: 180
Period size: 40 Copynumber: 2.5 Consensus size: 40
165522 ATACCTAAAG
165532 TTTAGTTTTTGTTTCATTTTAGTACCCCACCGTTAAAAAC
1 TTTAGTTTTTGTTTCATTTTAGTACCCCACCGTTAAAAAC
* *
165572 TTTAGTTTTTGTTTTATTTTAGTATCCCACCGTTAAAAAC
1 TTTAGTTTTTGTTTCATTTTAGTACCCCACCGTTAAAAAC
165612 TTTAGTTTTTGTTTCATTT
1 TTTAGTTTTTGTTTCATTT
165631 CGGTACACAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.22, C:0.15, G:0.10, T:0.53
Consensus pattern (40 bp):
TTTAGTTTTTGTTTCATTTTAGTACCCCACCGTTAAAAAC
Found at i:166885 original size:41 final size:41
Alignment explanation
Indices: 166840--166991 Score: 268
Period size: 41 Copynumber: 3.7 Consensus size: 41
166830 ACGCAATAGT
*
166840 CGAAGTTCGCGTTGCGATTCATTCCAAATCGTTGCGATAGG
1 CGAAGTTCGCGTTGCGATTCATTCCAAATCGTTGCGACAGG
*
166881 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCGTTGCGATTCATTCCAAATCGTTGCGACAGG
* *
166922 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCGTTGCGATTCATTCCAAATCGTTGCGACAGG
166963 CGAAGTTCGCGTTGCGATTCATTCCAAAT
1 CGAAGTTCGCGTTGCGATTCATTCCAAAT
166992 ATTGCATTTG
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 106 1.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.30
Consensus pattern (41 bp):
CGAAGTTCGCGTTGCGATTCATTCCAAATCGTTGCGACAGG
Found at i:166895 original size:21 final size:21
Alignment explanation
Indices: 166869--166980 Score: 65
Period size: 21 Copynumber: 5.4 Consensus size: 21
166859 CATTCCAAAT
166869 CGTTGCGATAGGCGAAGTTCG
1 CGTTGCGATAGGCGAAGTTCG
** *
166890 CGTTGCGATTCATTCCAA-TT--
1 CGTTGCGA-T-AGGCGAAGTTCG
*
166910 CGTTGCGACAGGCGAAGTTCG
1 CGTTGCGATAGGCGAAGTTCG
* ** *
166931 CATTGCGATTCATTCCAA-TT--
1 CGTTGCGA-T-AGGCGAAGTTCG
*
166951 CGTTGCGACAGGCGAAGTTCG
1 CGTTGCGATAGGCGAAGTTCG
166972 CGTTGCGAT
1 CGTTGCGAT
166981 TCATTCCAAA
Statistics
Matches: 63, Mismatches: 18, Indels: 20
0.62 0.18 0.20
Matches are distributed among these distances:
18 8 0.13
19 4 0.06
20 15 0.24
21 23 0.37
22 5 0.08
23 8 0.13
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (21 bp):
CGTTGCGATAGGCGAAGTTCG
Found at i:166915 original size:20 final size:20
Alignment explanation
Indices: 166849--166958 Score: 75
Period size: 20 Copynumber: 5.4 Consensus size: 20
166839 TCGAAGTTCG
*
166849 CGTTGCGATTCATTCCAAAT
1 CGTTGCGATTCATTCCAATT
** *
166869 CGTTGCGA-T-AGGCGAAGTT
1 CGTTGCGATTCATTCCAA-TT
166888 CGCGTTGCGATTCATTCCAATT
1 --CGTTGCGATTCATTCCAATT
** *
166910 CGTTGCGA--CAGGCGAAGTT
1 CGTTGCGATTCATTCCAA-TT
166929 CGCATTGCGATTCATTCCAATT
1 CG--TTGCGATTCATTCCAATT
166951 CGTTGCGA
1 CGTTGCGA
166959 CAGGCGAAGT
Statistics
Matches: 67, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
18 9 0.13
19 6 0.09
20 22 0.33
21 14 0.21
22 7 0.10
23 9 0.13
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.31
Consensus pattern (20 bp):
CGTTGCGATTCATTCCAATT
Found at i:167592 original size:41 final size:42
Alignment explanation
Indices: 167535--167631 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
167525 GTCCCGTCCC
*
167535 ACTTCGCCTATCGCAACGAA-TTGGAATGAATCGCAACGCGA
1 ACTTCGCCTATCGCAACGAATTTGGAATAAATCGCAACGCGA
*
167576 ACTTCGCCTATCGCAACGAATTTGGAATAAATCGCAATGCGA
1 ACTTCGCCTATCGCAACGAATTTGGAATAAATCGCAACGCGA
*
167618 ACTTCGACTATCGC
1 ACTTCGCCTATCGC
167632 GTTGCGAATC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 20 0.38
42 32 0.62
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (42 bp):
ACTTCGCCTATCGCAACGAATTTGGAATAAATCGCAACGCGA
Found at i:167630 original size:21 final size:20
Alignment explanation
Indices: 167564--167631 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
167554 ATTGGAATGA
*
167564 ATCGCAACGCGAACTTCGCCT
1 ATCGCAA-GCGAACTTCGACT
* * *
167585 ATCGCAA-CGAATTTGGAAT
1 ATCGCAAGCGAACTTCGACT
167604 AAATCGCAATGCGAACTTCGACT
1 --ATCGCAA-GCGAACTTCGACT
167627 ATCGC
1 ATCGC
167632 GTTGCGAATC
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
19 8 0.22
21 19 0.53
23 9 0.25
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAAGCGAACTTCGACT
Found at i:168961 original size:20 final size:20
Alignment explanation
Indices: 168924--168961 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
168914 TTGTACGGTG
*
168924 TTTCTTCGATCGGGAGATAC
1 TTTCTTCGATCGGAAGATAC
168944 TTTCTTCGA-CGTGAAGAT
1 TTTCTTCGATCG-GAAGAT
168962 GGAATCTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
TTTCTTCGATCGGAAGATAC
Found at i:172551 original size:80 final size:78
Alignment explanation
Indices: 172400--172556 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 78
172390 TAAAAATTAT
* * *
172400 ATTATAGGTAGCGCCCAATATTAACTTTCCATTAGAAAAAATAATTTTTTAGGTAAAGTTTTACC
1 ATTATAGGTAGCGCCCAATATTAACTTTCCATTAGAAAAAATAATATTTTAGATAAAGCTTTACC
*
172465 AGAAATATTAAAC
66 AAAAATATTAAAC
** *
172478 ATTATAGGTAGTTCTCAATATTAACATTTCCGA-TAGAAAAAAATAATATTTTAGATAACA-CTT
1 ATTATAGGTAGCGCCCAATATTAAC-TTTCC-ATTAG-AAAAAATAATATTTTAGATAA-AGCTT
*
172541 TACTAAAAATATTAAA
62 TACCAAAAATATTAAA
172557 AAAAGTATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 22 0.33
79 8 0.12
80 36 0.54
81 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (78 bp):
ATTATAGGTAGCGCCCAATATTAACTTTCCATTAGAAAAAATAATATTTTAGATAAAGCTTTACC
AAAAATATTAAAC
Found at i:174109 original size:29 final size:29
Alignment explanation
Indices: 174053--174109 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
174043 CTTCTGAAAT
* *
174053 TATATACGGAGGATTTTTTCTTTGATTGC
1 TATATACGGAGGATTTTTACTCTGATTGC
*
174082 TATATATGGAGGATTTTGTACTCT-ATTG
1 TATATACGGAGGATTTT-TACTCTGATTG
174110 GATTGCAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.23, C:0.09, G:0.21, T:0.47
Consensus pattern (29 bp):
TATATACGGAGGATTTTTACTCTGATTGC
Found at i:178974 original size:16 final size:16
Alignment explanation
Indices: 178953--178990 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
178943 GATGCTAATG
178953 TGTCACCACATGATAA
1 TGTCACCACATGATAA
178969 TGTCACCACATGATAA
1 TGTCACCACATGATAA
178985 TGTCAC
1 TGTCAC
178991 GTCATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (16 bp):
TGTCACCACATGATAA
Found at i:179420 original size:13 final size:13
Alignment explanation
Indices: 179402--179426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
179392 TAGTTGAATA
179402 ATCTTCATATGCC
1 ATCTTCATATGCC
179415 ATCTTCATATGC
1 ATCTTCATATGC
179427 ACGACTGCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (13 bp):
ATCTTCATATGCC
Found at i:184771 original size:17 final size:19
Alignment explanation
Indices: 184743--184778 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
184733 CACCTTCGAC
184743 TCTTTATCCTT-CTTTTTT
1 TCTTTATCCTTCCTTTTTT
184761 TCTTT-TCCTTCCTTTTTT
1 TCTTTATCCTTCCTTTTTT
184779 ATCGTTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (19 bp):
TCTTTATCCTTCCTTTTTT
Found at i:194289 original size:15 final size:15
Alignment explanation
Indices: 194269--194298 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
194259 CAGGGGAGTT
194269 GATCGCTCCGGCGAA
1 GATCGCTCCGGCGAA
*
194284 GATCGCTCTGGCGAA
1 GATCGCTCCGGCGAA
194299 AAACGCCAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (15 bp):
GATCGCTCCGGCGAA
Found at i:201046 original size:21 final size:21
Alignment explanation
Indices: 201016--201226 Score: 173
Period size: 21 Copynumber: 10.0 Consensus size: 21
201006 GATTTACATA
*
201016 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
201037 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * ** * *
201058 TTCACATTGCGATTTTTCAAA
1 TTCGCGTTGCGATAGTCCAAG
201079 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
201098 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
201121 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
201140 TTCTCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
201163 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
* *
201186 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
201209 TTC-C-TTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
201227 AATCGCAACG
Statistics
Matches: 160, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
19 30 0.19
21 65 0.41
22 1 0.01
23 64 0.40
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:201122 original size:23 final size:23
Alignment explanation
Indices: 201031--201219 Score: 190
Period size: 23 Copynumber: 8.8 Consensus size: 23
201021 ATTGCGATAG
*
201031 TCCAAGTTCGCGTTGCGA--TAG
1 TCCAAGTTCGCGTTGCGATTTAT
* * *
201052 TCGAAGTTCACATTGCGATTT-T
1 TCCAAGTTCGCGTTGCGATTTAT
* *
201074 T-CAAATT--CGTTGCGA--TAG
1 TCCAAGTTCGCGTTGCGATTTAT
201092 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTAT
*
201115 TCCAAGTT--CGTTGCGA--TAG
1 TCCAAGTTCGCGTTGCGATTTAT
* *
201134 TCGAAGTTCTCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTAT
201157 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTAT
201180 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTCGCGTTGCGATTTAT
*
201203 TCCAAATTC-C-TTGCGAT
1 TCCAAGTTCGCGTTGCGAT
201220 AGTCCAAAAT
Statistics
Matches: 140, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
17 1 0.01
18 1 0.01
19 21 0.15
21 50 0.36
22 2 0.01
23 65 0.46
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (23 bp):
TCCAAGTTCGCGTTGCGATTTAT
Found at i:201217 original size:88 final size:82
Alignment explanation
Indices: 201043--201223 Score: 254
Period size: 88 Copynumber: 2.1 Consensus size: 82
201033 CAAGTTCGCG
201043 TTGCGATAGTCGAAGTTCACATTGCGATTTTTCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGC
1 TTGCGATAGTCGAAGTTCACATTGCGATTTTTCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGC
* *
201108 GATTTATTCCAAGTTCG
66 GATTTATTCCAAATTCC
* * * *
201125 TTGCGATAGTCGAAGTTCTCGTTGCGATTTATTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCACATTGCGATTT-TT-CAAATT--CGTTGCGA--TAGTCCAAGTTCG
201190 CGTTGCGATTTATTCCAAATTCC
60 CGTTGCGATTTATTCCAAATTCC
201213 TTGCGATAGTC
1 TTGCGATAGTC
201224 CAAAATCGCA
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
82 28 0.32
83 2 0.02
84 5 0.06
86 8 0.09
88 44 0.51
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (82 bp):
TTGCGATAGTCGAAGTTCACATTGCGATTTTTCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGC
GATTTATTCCAAATTCC
Found at i:213225 original size:30 final size:30
Alignment explanation
Indices: 213191--213261 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
213181 TGAATGATTG
* *
213191 ATTAACTAAATTATTATATAAAAGTTTAT-A
1 ATTAAATAAATT-TTATATAAAAGATTATAA
* *
213221 ATTAAATAAGCTTTTATTTAAAAGATTATAA
1 ATTAAATAA-ATTTTATATAAAAGATTATAA
213252 ATTAAATAAA
1 ATTAAATAAA
213262 AAATTTATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
30 22 0.65
31 12 0.35
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (30 bp):
ATTAAATAAATTTTATATAAAAGATTATAA
Found at i:215907 original size:60 final size:60
Alignment explanation
Indices: 215794--215930 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 60
215784 ATAGTTAAGT
* * * *
215794 GATCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAGCTTCCTATAGTCGAAG
1 GATCATTTTGTAACTTTTAACAGTCAAGGGACTCAACAAAGCAGATTACTATAGTCGAAG
* * * **
215854 GATCATTTTGTAACTTTTAACAGTCAAGGGACTCAATAAAGTA-ATATATTATAGTCGGGG
1 GATCATTTTGTAACTTTTAACAGTCAAGGGACTCAACAAAGCAGAT-TACTATAGTCGAAG
215914 GATCA-TTTGTATACTTT
1 GATCATTTTGTA-ACTTT
215931 ACCCTATTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 7 0.11
60 59 0.89
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (60 bp):
GATCATTTTGTAACTTTTAACAGTCAAGGGACTCAACAAAGCAGATTACTATAGTCGAAG
Done.