Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 162 of 214
Found at i:48007727 original size:46 final size:46
Alignment explanation
Indices: 48007675--48007781 Score: 196
Period size: 46 Copynumber: 2.3 Consensus size: 46
48007665 CCATGGAAAA
*
48007675 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
*
48007721 TTGTGAAAAGTAGGTATGGTGTTTCAGTGATGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
48007767 TTGTGAAAAGTAGGT
1 TTGTGAAAAGTAGGT
48007782 GAAAACCATA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:48007787 original size:30 final size:30
Alignment explanation
Indices: 48007751--48007811 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
48007741 GTTTCAGTGA
48007751 TGAAAACCATACTGAGTTGTGAAAAGTAGG
1 TGAAAACCATACTGAGTTGTGAAAAGTAGG
48007781 TGAAAACCATACTGAGTTGTGAAAAGTAGG
1 TGAAAACCATACTGAGTTGTGAAAAGTAGG
48007811 T
1 T
48007812 ATGGTGTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.25
Consensus pattern (30 bp):
TGAAAACCATACTGAGTTGTGAAAAGTAGG
Found at i:48007802 original size:76 final size:76
Alignment explanation
Indices: 48007706--48007857 Score: 286
Period size: 76 Copynumber: 2.0 Consensus size: 76
48007696 TTTCAGTGAA
* *
48007706 GAAAGCCATACTGAGTTGTGAAAAGTAGGTATGGTGTTTCAGTGATGAAAACCATACTGAGTTGT
1 GAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGT
48007771 GAAAAGTAGGT
66 GAAAAGTAGGT
48007782 GAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGT
1 GAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGT
48007847 GAAAAGTAGGT
66 GAAAAGTAGGT
48007858 ATGGTATTTC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (76 bp):
GAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGTTGT
GAAAAGTAGGT
Found at i:48007834 original size:46 final size:46
Alignment explanation
Indices: 48007782--48007890 Score: 191
Period size: 46 Copynumber: 2.4 Consensus size: 46
48007772 AAAAGTAGGT
* *
48007782 GAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTGTTTCAGTGAA
1 GAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATGAA
48007828 GAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATGAA
1 GAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATGAA
*
48007874 GGAAACCATACTGAGTT
1 GAAAACCATACTGAGTT
48007891 ATAGTATTGT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.28
Consensus pattern (46 bp):
GAAAACCATACTGAGTTGTGAAAAGTAGGTATGGTATTTCAATGAA
Found at i:48010207 original size:16 final size:17
Alignment explanation
Indices: 48010186--48010219 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
48010176 TATGTTTATA
48010186 GAATGTA-TGCATATTT
1 GAATGTATTGCATATTT
*
48010202 GAATGTATTGCATTTTT
1 GAATGTATTGCATATTT
48010219 G
1 G
48010220 CACATCCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (17 bp):
GAATGTATTGCATATTT
Found at i:48012764 original size:27 final size:26
Alignment explanation
Indices: 48012734--48012818 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
48012724 TTTATTTTTT
*
48012734 AAAAAAAATAAAATTCATAAAAATATA
1 AAAAAAAATAAAA-TCATTAAAATATA
**
48012761 AAAATGAATAAAAT-ATTAAAATATTA
1 AAAAAAAATAAAATCATTAAAATA-TA
*
48012787 AAAATAATATAAAATCATTTAAAA-ATA
1 AAAA-AAAATAAAATCA-TTAAAATATA
48012814 AAAAA
1 AAAAA
48012819 TAGAATTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
25 8 0.17
26 8 0.17
27 24 0.50
28 2 0.04
29 6 0.12
ACGTcount: A:0.71, C:0.02, G:0.01, T:0.26
Consensus pattern (26 bp):
AAAAAAAATAAAATCATTAAAATATA
Found at i:48012771 original size:10 final size:8
Alignment explanation
Indices: 48012735--48012820 Score: 50
Period size: 9 Copynumber: 9.9 Consensus size: 8
48012725 TTATTTTTTA
*
48012735 AAAAAAAT
1 AAAAATAT
*
48012743 AAAATTCAT
1 AAAAAT-AT
48012752 AAAAATAT
1 AAAAATAT
48012760 AAAAATGA-
1 AAAAAT-AT
48012768 ATAAAATAT
1 A-AAAATAT
*
48012777 TAAAATATT
1 AAAAATA-T
48012786 AAAAATAAT
1 AAAAAT-AT
48012795 ATAAAATCATTT
1 A-AAAAT-A--T
48012807 AAAAATA-
1 AAAAATAT
48012814 AAAAATA
1 AAAAATA
48012821 GAATTTTAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
7 7 0.11
8 20 0.32
9 21 0.33
10 8 0.13
11 5 0.08
12 2 0.03
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (8 bp):
AAAAATAT
Found at i:48012790 original size:17 final size:18
Alignment explanation
Indices: 48012732--48012813 Score: 62
Period size: 17 Copynumber: 4.5 Consensus size: 18
48012722 TTTTTATTTT
* *
48012732 TTAAAAAAAATAAAATTCA
1 TTAAAAATATTAAAA-TCA
* *
48012751 -TAAAAATATAAAAATGA
1 TTAAAAATATTAAAATCA
*
48012768 AT-AAAATATTAAAAT-A
1 TTAAAAATATTAAAATCA
48012784 TTAAAAATAATATAAAATCA
1 TTAAAAAT-AT-TAAAATCA
48012804 TTTAAAAATA
1 -TTAAAAATA
48012814 AAAAATAGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
16 2 0.04
17 19 0.37
18 14 0.27
19 6 0.12
20 2 0.04
21 8 0.16
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.29
Consensus pattern (18 bp):
TTAAAAATATTAAAATCA
Found at i:48013264 original size:48 final size:48
Alignment explanation
Indices: 48013212--48013317 Score: 140
Period size: 48 Copynumber: 2.2 Consensus size: 48
48013202 GGAGGCGTTT
** * * * * *
48013212 GTGGGTTCACAATAGGTTGTGATGGTGGTGGTAGAATCGATGGTGTTG
1 GTGGGTTCACAATAGGAAGCGATAGAGGTGGTAGAACCGATGGTGTTA
*
48013260 GTGGGTTCACAATTGGAAGCGATAGAGGTGGTAGAACCGATGGTGTTA
1 GTGGGTTCACAATAGGAAGCGATAGAGGTGGTAGAACCGATGGTGTTA
48013308 GTGGGTTCAC
1 GTGGGTTCAC
48013318 TATTGCTGGA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (48 bp):
GTGGGTTCACAATAGGAAGCGATAGAGGTGGTAGAACCGATGGTGTTA
Found at i:48020112 original size:12 final size:12
Alignment explanation
Indices: 48020097--48020126 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48020087 TATTAAAATT
*
48020097 TAAAAGAAAAAC
1 TAAAAAAAAAAC
48020109 TAAAAAAAAAAC
1 TAAAAAAAAAAC
48020121 TAAAAA
1 TAAAAA
48020127 TTTCTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (12 bp):
TAAAAAAAAAAC
Found at i:48020550 original size:6 final size:6
Alignment explanation
Indices: 48020539--48020563 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48020529 TATTTTTCTC
48020539 CCGCCT CCGCCT CCGCCT CCGCCT C
1 CCGCCT CCGCCT CCGCCT CCGCCT C
48020564 ATCACCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.68, G:0.16, T:0.16
Consensus pattern (6 bp):
CCGCCT
Found at i:48020572 original size:6 final size:6
Alignment explanation
Indices: 48020563--48020589 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
48020553 GCCTCCGCCT
48020563 CATCAC CATCAC CATCAC CATCAC CAT
1 CATCAC CATCAC CATCAC CATCAC CAT
48020590 ACTCTTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.48, G:0.00, T:0.19
Consensus pattern (6 bp):
CATCAC
Found at i:48023375 original size:126 final size:125
Alignment explanation
Indices: 48022972--48023434 Score: 552
Period size: 126 Copynumber: 3.7 Consensus size: 125
48022962 GATAAAATCA
* * * * * * * * *
48022972 AAGCAGGATGATTTATTAGAAGGATTTTTGAAGTCGTGCCCACGTGTACGCGCTTTTACTACAGT
1 AAGCAGAATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
48023037 AGGTCCTGGAAAAATAATTTCGACTTGACATTTCTGAGCAAATAGTTTAAAAAACGCTTT
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * *
48023097 AAGCAAAATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGAATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * *
48023162 TGGTCCTGGAAGAAATAATTTCGAGTTGATGTTTTTAAGCAAATAGTTTAAAAAAATGCTTC
66 AGGTCCT-GAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTT-AAAAAACGCTTC
* * * * *
48023224 AAGCAGGATGCTTTATAAGAAGAATTTGCGAAGTCGCGCCCACGTGGACGCGCTTTTGTTACAGT
1 AAGCAGAATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
48023289 AAGTCCTGAAAAAATAAATTT-GAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
66 AGGTCCTGAAAAAAT-AATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAA-AACGCTTC
* * * *
48023350 AAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATTGTGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGAATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
*
48023414 TAGGTCCTGGAAAAATAATTT
65 TAGGTCCTGAAAAAATAATTT
48023435 ACAGTAGGTC
Statistics
Matches: 284, Mismatches: 49, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
125 68 0.24
126 137 0.48
127 79 0.28
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (125 bp):
AAGCAGAATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:48023432 original size:252 final size:252
Alignment explanation
Indices: 48022972--48023434 Score: 680
Period size: 252 Copynumber: 1.8 Consensus size: 252
48022962 GATAAAATCA
* * ** * *
48022972 AAGCAGGATGATTTATTAGAAGGATTTTTGAAGTCGTGCCCACGTGTACGCGCTTTTACTACAGT
1 AAGCAGGATGATTTATAAGAAGAATTTGCGAAGTCGCGCCCACGTGGACGCGCTTTTACTACAGT
* * * **
48023037 AGGTCCTGGAAAAATAATTTCGACTTGACATTTCTGAGCAAATAGTTTAAAAAACGCTTTAAGCA
66 AAGTCCTGAAAAAATAATTTCGACTTGACATTTCTGAGCAAATAGTATAAAAAACGCTGCAAGCA
*
48023102 AAATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTC
131 AAATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
48023167 CTGGAAGAAATAATTTCGAGTTGATGTTTTTAAGCAAATAGTTTAAAAAAATGCTTC
196 CTGGAAGAAATAATTTCGAGTTGATGTTTTTAAGCAAATAGTTTAAAAAAATGCTTC
* **
48023224 AAGCAGGATGCTTTATAAGAAGAATTTGCGAAGTCGCGCCCACGTGGACGCGCTTTTGTTACAGT
1 AAGCAGGATGATTTATAAGAAGAATTTGCGAAGTCGCGCCCACGTGGACGCGCTTTTACTACAGT
* *
48023289 AAGTCCTGAAAAAATAAATTT-GAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAG
66 AAGTCCTGAAAAAAT-AATTTCGACTTGACATTTCTGAGCAAATAGTATAAAA-AACGCTGCAAG
** ***
48023353 CAGCATGCTATT-TGAGAAGAATTTGTGAAATTGTGCCCTCGTGGACGCGCTTTTGCTACAGTAG
129 CAAAATGCT-TTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAG
48023417 GTCCTGGAA-AAATAATTT
193 GTCCTGGAAGAAATAATTT
48023435 ACAGTAGGTC
Statistics
Matches: 186, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
252 106 0.57
253 78 0.42
254 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (252 bp):
AAGCAGGATGATTTATAAGAAGAATTTGCGAAGTCGCGCCCACGTGGACGCGCTTTTACTACAGT
AAGTCCTGAAAAAATAATTTCGACTTGACATTTCTGAGCAAATAGTATAAAAAACGCTGCAAGCA
AAATGCTTTATGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
CTGGAAGAAATAATTTCGAGTTGATGTTTTTAAGCAAATAGTTTAAAAAAATGCTTC
Found at i:48028884 original size:59 final size:59
Alignment explanation
Indices: 48028792--48028909 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
48028782 TCTAACCCTC
48028792 AGATATGGGCTTCGTACCACTCGAAGCTACTCCTTAAACGGAGGCTTGAGCGTTACTCT
1 AGATATGGGCTTCGTACCACTCGAAGCTACTCCTTAAACGGAGGCTTGAGCGTTACTCT
48028851 AGATATGGGCTTCGTACCACTCGAAGCTACTCCTTAAACGGAGGCTTGAGCGTTACTCT
1 AGATATGGGCTTCGTACCACTCGAAGCTACTCCTTAAACGGAGGCTTGAGCGTTACTCT
48028910 CTACTTTATC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (59 bp):
AGATATGGGCTTCGTACCACTCGAAGCTACTCCTTAAACGGAGGCTTGAGCGTTACTCT
Found at i:48032762 original size:19 final size:19
Alignment explanation
Indices: 48032738--48032775 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
48032728 TAATTAAATG
48032738 AATAAAATAATTTTATTTT
1 AATAAAATAATTTTATTTT
48032757 AATAAAATAATTTTATTTT
1 AATAAAATAATTTTATTTT
48032776 CATCATCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATAAAATAATTTTATTTT
Found at i:48033275 original size:21 final size:21
Alignment explanation
Indices: 48033250--48033291 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
48033240 CTTTTGCCTA
*
48033250 AAATATGAATTGGATTGAATT
1 AAATATGAATTGGATTAAATT
*
48033271 AAATATGAATTGTATTAAATT
1 AAATATGAATTGGATTAAATT
48033292 GAGTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (21 bp):
AAATATGAATTGGATTAAATT
Found at i:48039037 original size:25 final size:25
Alignment explanation
Indices: 48038988--48039100 Score: 97
Period size: 25 Copynumber: 4.6 Consensus size: 25
48038978 TATCATATAT
48038988 GCTCATACGAGC--AATAAACGGGAA
1 GCTCATACGAGCTGAAT-AACGGGAA
* *
48039012 GCTCCTCCGAGCTGAATAACGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
** *
48039037 GCTCATGTGAGCTAAATAACAGGG-A
1 GCTCATACGAGCTGAATAAC-GGGAA
* **
48039062 GCTCATACGAGCTGAGTATTGGGAA
1 GCTCATACGAGCTGAATAACGGGAA
* *
48039087 GTTCATAAGAGCTG
1 GCTCATACGAGCTG
48039101 TGGTGTGTCC
Statistics
Matches: 71, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
24 13 0.18
25 52 0.73
26 6 0.08
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.19
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGGAA
Found at i:48042066 original size:19 final size:22
Alignment explanation
Indices: 48042042--48042088 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
48042032 AAAAATATCT
48042042 TTATT-AAAT-TAAT-TAAAAA
1 TTATTAAAATATAATATAAAAA
48042061 TTATTAAAATATAATATAAAAA
1 TTATTAAAATATAATATAAAAA
48042083 TCTATT
1 T-TATT
48042089 TTCATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.21
20 4 0.17
21 4 0.17
22 7 0.29
23 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTATTAAAATATAATATAAAAA
Found at i:48049822 original size:34 final size:34
Alignment explanation
Indices: 48049774--48049848 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
48049764 GGGATGATAC
*
48049774 TCTATCGTGTAGTTATAATCTTTAAGCAGCTCAA
1 TCTATCGTGCAGTTATAATCTTTAAGCAGCTCAA
48049808 TCTATCGTGCAGTTATAATCTTTAAGCAGCTCAA
1 TCTATCGTGCAGTTATAATCTTTAAGCAGCTCAA
48049842 TCTATCG
1 TCTATCG
48049849 ACGCTGCCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (34 bp):
TCTATCGTGCAGTTATAATCTTTAAGCAGCTCAA
Found at i:48055647 original size:23 final size:23
Alignment explanation
Indices: 48055608--48055651 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
48055598 TGATTATGTC
48055608 AATGCAGTATTTTCAGAAAACAA
1 AATGCAGTATTTTCAGAAAACAA
48055631 AATGCAG-ATTTTGCAGAAAAC
1 AATGCAGTATTTT-CAGAAAAC
48055652 TTCCTACCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (23 bp):
AATGCAGTATTTTCAGAAAACAA
Found at i:48064692 original size:21 final size:22
Alignment explanation
Indices: 48064644--48064693 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
48064634 ATTTCTAAAG
*
48064644 TTTTTAATATATATTTTTTATT
1 TTTTTAATATATATTTTTTATA
48064666 TATTTTAA-A-ATATTTTTTATGA
1 T-TTTTAATATATATTTTTTAT-A
48064688 TTTTTA
1 TTTTTA
48064694 TAAACTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 16 0.64
22 3 0.12
23 6 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTTTAATATATATTTTTTATA
Found at i:48064842 original size:18 final size:18
Alignment explanation
Indices: 48064819--48064857 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
48064809 TAGAGTGAAC
48064819 TTTTTTT-CTATAGG-TTT
1 TTTTTTTCCTA-AGGATTT
48064836 TTTTTTTCCTAAGGATTT
1 TTTTTTTCCTAAGGATTT
48064854 TTTT
1 TTTT
48064858 ACCCTTAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.13, C:0.08, G:0.10, T:0.69
Consensus pattern (18 bp):
TTTTTTTCCTAAGGATTT
Found at i:48068353 original size:17 final size:17
Alignment explanation
Indices: 48068333--48068367 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48068323 AAGTTTAGAG
48068333 AAAATAAACAA-AAATAA
1 AAAATAAA-AATAAATAA
48068350 AAAATAAAAATAAATAA
1 AAAATAAAAATAAATAA
48068367 A
1 A
48068368 GGGTAAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAATAAAAATAAATAA
Found at i:48074715 original size:7 final size:6
Alignment explanation
Indices: 48074675--48074744 Score: 50
Period size: 6 Copynumber: 10.5 Consensus size: 6
48074665 TATTTTTCGA
*
48074675 AATTTT AATTTT AATTTT AATTTTT ATGAGTTT AATTTTT AAAATTTT
1 AATTTT AATTTT AATTTT AA-TTTT A--ATTTT AA-TTTT --AATTTT
* *
48074723 AAATTT AAATTT AATTATT AAT
1 AATTTT AATTTT AATT-TT AAT
48074745 GCTGTTAATT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
6 29 0.55
7 13 0.25
8 8 0.15
9 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (6 bp):
AATTTT
Found at i:48074723 original size:15 final size:15
Alignment explanation
Indices: 48074674--48074724 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
48074664 ATATTTTTCG
48074674 AAATTTTAA-TTTT-
1 AAATTTTAATTTTTA
48074687 -AATTTTAATTTTTA
1 AAATTTTAATTTTTA
** *
48074701 TGAGTTTAATTTTTA
1 AAATTTTAATTTTTA
48074716 AAATTTTAA
1 AAATTTTAA
48074725 ATTTAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 8 0.27
13 4 0.13
15 18 0.60
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (15 bp):
AAATTTTAATTTTTA
Found at i:48075883 original size:17 final size:17
Alignment explanation
Indices: 48075861--48075962 Score: 64
Period size: 17 Copynumber: 5.7 Consensus size: 17
48075851 TATTTTTCTC
* *
48075861 ATTAAAATTATAGAATT
1 ATTAAAAATATAAAATT
48075878 ATTAAAAATATAAAATT
1 ATTAAAAATATAAAATT
* **
48075895 AATATGAACTTATAAAAATT
1 -AT-TAAAAATAT-AAAATT
*
48075915 ATTAAAAAATTATAAAAAT
1 ATT-AAAAA-TATAAAATT
*
48075934 -TTAAAAAGATAATAAATT
1 ATTAAAAATAT-A-AAATT
48075952 A-TAAAAATATA
1 ATTAAAAATATA
48075963 TACATTTAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
16 2 0.03
17 22 0.34
18 17 0.26
19 15 0.23
20 9 0.14
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (17 bp):
ATTAAAAATATAAAATT
Found at i:48075914 original size:20 final size:20
Alignment explanation
Indices: 48075864--48075934 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
48075854 TTTTCTCATT
* *
48075864 AAAATTAT-AGAATT-ATTA
1 AAAATTATAAAAATTAATAA
*
48075882 AAAA-TAT-AAAATTAATAT
1 AAAATTATAAAAATTAATAA
* * *
48075900 GAACTTATAAAAATTATTAA
1 AAAATTATAAAAATTAATAA
48075920 AAAATTATAAAAATT
1 AAAATTATAAAAATT
48075935 TAAAAAGATA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
17 8 0.20
18 8 0.20
19 3 0.07
20 22 0.54
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAATTATAAAAATTAATAA
Found at i:48075931 original size:9 final size:9
Alignment explanation
Indices: 48075864--48076057 Score: 86
Period size: 9 Copynumber: 21.3 Consensus size: 9
48075854 TTTTCTCATT
48075864 AAAATTAT-
1 AAAATTATA
*
48075872 AGAATTATTA
1 AAAATTA-TA
48075882 AAAA-TAT-
1 AAAATTATA
48075889 AAAATTAATA
1 AAAATT-ATA
* *
48075899 TGAACTTATA
1 -AAAATTATA
48075909 AAAATTATTAA
1 AAAATTA-T-A
48075920 AAAATTATA
1 AAAATTATA
48075929 AAAATT-TA
1 AAAATTATA
*
48075937 AAAA-GATA
1 AAAATTATA
48075945 ATAAATTATA
1 A-AAATTATA
48075955 AAAA-TATA
1 AAAATTATA
* *
48075963 TACATTTAATA
1 -AAAATT-ATA
* *
48075974 AATATTTTTA
1 AA-AATTATA
48075984 AAATATT-TA
1 AAA-ATTATA
*
48075993 AAATTTTATA
1 AAA-ATTATA
*
48076003 AAAAATATA
1 AAAATTATA
48076012 AAAACTTATA
1 AAAA-TTATA
48076022 AATAA-TAT-
1 AA-AATTATA
48076030 -AAATT-TA
1 AAAATTATA
**
48076037 AAAAAAATA
1 AAAATTATA
48076046 AAAATTATA
1 AAAATTATA
48076055 AAA
1 AAA
48076058 GGAAAGTCAT
Statistics
Matches: 142, Mismatches: 21, Indels: 45
0.68 0.10 0.22
Matches are distributed among these distances:
6 3 0.02
7 6 0.04
8 24 0.17
9 57 0.40
10 31 0.22
11 21 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:48075972 original size:26 final size:26
Alignment explanation
Indices: 48075916--48075976 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
48075906 ATAAAAATTA
* *
48075916 TTAAAAAATTATAAAAATTTAAAAAG
1 TTAATAAATTATAAAAATATAAAAAG
* * * *
48075942 ATAATAAATTATAAAAATATATACAT
1 TTAATAAATTATAAAAATATAAAAAG
48075968 TTAATAAAT
1 TTAATAAAT
48075977 ATTTTTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
TTAATAAATTATAAAAATATAAAAAG
Found at i:48076013 original size:19 final size:19
Alignment explanation
Indices: 48075971--48076051 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 19
48075961 TATACATTTA
*
48075971 ATAAATATTTT-TAAAATAT
1 ATAAA-ATTTTATAAAAAAT
*
48075990 TTAAAATTTTATAAAAAAT
1 ATAAAATTTTATAAAAAAT
** *
48076009 ATAAAAACTTATAAATAAT
1 ATAAAATTTTATAAAAAAT
*
48076028 AT-AAA-TTTAAAAAAAAT
1 ATAAAATTTTATAAAAAAT
48076045 A-AAAATT
1 ATAAAATT
48076052 ATAAAAGGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
17 13 0.26
18 9 0.18
19 28 0.56
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAAAATTTTATAAAAAAT
Found at i:48076050 original size:17 final size:17
Alignment explanation
Indices: 48075991--48076057 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
48075981 TTAAAATATT
*
48075991 TAAAATTTTATAAAAAATA
1 TAAAAATTTA-AAAAAA-A
* * *
48076010 TAAAAACTTATAAATAA
1 TAAAAATTTAAAAAAAA
*
48076027 TATAAATTTAAAAAAAA
1 TAAAAATTTAAAAAAAA
48076044 TAAAAATTATAAAA
1 TAAAAATT-TAAAA
48076058 GGAAAGTCAT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
17 21 0.55
18 9 0.24
19 8 0.21
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAATTTAAAAAAAA
Found at i:48076542 original size:58 final size:55
Alignment explanation
Indices: 48076444--48076578 Score: 135
Period size: 58 Copynumber: 2.4 Consensus size: 55
48076434 AGGAAGAAAC
* * * * ** **
48076444 AAATGAATTTTTATAATTTATTAACTGGTTTTGAATTTTTTATTAGTTTTATAATTAT
1 AAATAAATTTTTATAATTT-TTAAATAGTTTTGAAGTTTTTACCACATTTAT-ATT-T
* *
48076502 AGATAAATTTTTATAATTTTTAAATATTTTTAGAAGTTTTTACCACATTTATATTT
1 AAATAAATTTTTATAATTTTTAAATAGTTTT-GAAGTTTTTACCACATTTATATTT
48076558 AAATAAATTTTTTATAATTTT
1 AAATAAA-TTTTTATAATTTT
48076579 CATAAATTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
56 7 0.11
57 25 0.39
58 32 0.50
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.56
Consensus pattern (55 bp):
AAATAAATTTTTATAATTTTTAAATAGTTTTGAAGTTTTTACCACATTTATATTT
Found at i:48076571 original size:19 final size:20
Alignment explanation
Indices: 48076549--48076587 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48076539 TTTTACCACA
48076549 TTTAT-ATTTAAATAAATTT
1 TTTATAATTTAAATAAATTT
**
48076568 TTTATAATTTTCATAAATTT
1 TTTATAATTTAAATAAATTT
48076588 ATAGAAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTATAATTTAAATAAATTT
Found at i:48081343 original size:21 final size:21
Alignment explanation
Indices: 48081319--48081533 Score: 177
Period size: 21 Copynumber: 10.3 Consensus size: 21
48081309 ATGCTTTACT
*
48081319 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * *
48081340 TTCTGTTTAACTCTTATGAGT
1 TTCTGTTCAGCTCTTATGAGC
* *
48081361 TTCCGTTTAGCTCTT-TCGAGC
1 TTCTGTTCAGCTCTTAT-GAGC
* * * *
48081382 TTCTATTCAACTCATATGAGT
1 TTCTGTTCAGCTCTTATGAGC
*
48081403 TTCTATTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * *
48081424 TTCTGTTCA-ATCCTTATGGGT
1 TTCTGTTCAGCT-CTTATGAGC
* *
48081445 TTCTGTTTAGCTCTTATAAGC
1 TTCTGTTCAGCTCTTATGAGC
* * * * *
48081466 TTTTGTTTAGTTCTCATAAGC
1 TTCTGTTCAGCTCTTATGAGC
*
48081487 TTCTGTTCAGCTCTTATGAGT
1 TTCTGTTCAGCTCTTATGAGC
*
48081508 TTCTGTTCAGCT-TT-CGAGC
1 TTCTGTTCAGCTCTTATGAGC
48081527 TTCTGTT
1 TTCTGTT
48081534 AATGATGTAC
Statistics
Matches: 154, Mismatches: 36, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
19 10 0.06
20 4 0.03
21 138 0.90
22 2 0.01
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:48081467 original size:84 final size:83
Alignment explanation
Indices: 48081318--48081516 Score: 224
Period size: 84 Copynumber: 2.4 Consensus size: 83
48081308 CATGCTTTAC
* * *
48081318 TTTCTGTTCAGCTCTTACGAGCTTCTGTTTAACTCTTATGAGTTTCCGTTTAGCTCTTTCGAGCT
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACTCTTATGAGTTTCCGTTTAGCTCTTTCAAGCT
48081383 TCTATTCA-ACTCATATGAG
66 TCTATTCAGACTCATA--AG
* * *
48081402 TTTCTATTCAGCTCTTATGAGCTTCTGTTCAA-TCCTTATGGGTTTCTGTTTAGCTCTTAT-AAG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACT-CTTATGAGTTTCCGTTTAGCTCTT-TCAAG
* * * *
48081465 CTTTTGTTTAGTTCTCATAAG
64 CTTCTATTCAG-ACTCATAAG
* *
48081486 CTTCTGTTCAGCTCTTATGAGTTTCTGTTCA
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTCA
48081517 GCTTTCGAGC
Statistics
Matches: 98, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
83 1 0.01
84 90 0.92
85 1 0.01
86 6 0.06
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.47
Consensus pattern (83 bp):
TTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACTCTTATGAGTTTCCGTTTAGCTCTTTCAAGCT
TCTATTCAGACTCATAAG
Found at i:48082038 original size:25 final size:26
Alignment explanation
Indices: 48081985--48082044 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 26
48081975 TTATGTTTGC
*
48081985 ATGCAT-TAGCTTATGGCTATGGTGGT
1 ATGCATAT-GCTTATGACTATGGTGGT
*
48082011 ATG-ATATGCTTATGACT-TGTGTGTT
1 ATGCATATGCTTATGACTATG-GTGGT
48082036 ATGCATATG
1 ATGCATATG
48082045 GAATGACTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 2 0.07
25 18 0.62
26 9 0.31
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.42
Consensus pattern (26 bp):
ATGCATATGCTTATGACTATGGTGGT
Found at i:48083932 original size:21 final size:21
Alignment explanation
Indices: 48083907--48083949 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
48083897 CAAATTTGAC
* *
48083907 TCAATTTAATACAATTTATAT
1 TCAATTCAATACAATTCATAT
*
48083928 TCAATTCAATCCAATTCATAT
1 TCAATTCAATACAATTCATAT
48083949 T
1 T
48083950 TTAGGCAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:48094421 original size:77 final size:77
Alignment explanation
Indices: 48094289--48094474 Score: 212
Period size: 77 Copynumber: 2.4 Consensus size: 77
48094279 ATTAGTTAAT
* * * * * *
48094289 ACATGAAAAGTTTTCTAAAAAATTAAATAATTCGTAAATCACAAAACAATTACTTAATACATGAA
1 ACATGAAATGGTTTCTTAAAAATTAAGTAATTCATAAATCACAAAACAATCACTTAATACATGAA
48094354 ATGTTACATAAA
66 ATGTTACATAAA
* *** *
48094366 ATATGAAATGGTTTCTTAAAAATTAAGTAATTCATAAATCATGGAAGAATCACTTAATACATGAA
1 ACATGAAATGGTTTCTTAAAAATTAAGTAATTCATAAATCACAAAACAATCACTTAATACATGAA
* ** *
48094431 ATTTTATTTGAA
66 ATGTTACATAAA
*
48094443 ACATGACATGGTTT-TTAAGAAATTAAGTAATT
1 ACATGAAATGGTTTCTTAA-AAATTAAGTAATT
48094475 TTTTAATCAT
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
76 4 0.04
77 87 0.96
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (77 bp):
ACATGAAATGGTTTCTTAAAAATTAAGTAATTCATAAATCACAAAACAATCACTTAATACATGAA
ATGTTACATAAA
Found at i:48094483 original size:77 final size:76
Alignment explanation
Indices: 48094289--48094498 Score: 206
Period size: 77 Copynumber: 2.7 Consensus size: 76
48094279 ATTAGTTAAT
* * * * * ** * *
48094289 ACATGAAAAGTTTTCTAAAAAATTAAATAATTCGTAAATCACAAAACAATTACTTAATACATGAA
1 ACATGAAATGGTTTCTTAAAAATTAAGTAATTCATAAATCA-TGAAGAATCACTTAATACATGAA
48094354 ATGTTACATAAA
65 ATGTTACATAAA
*
48094366 ATATGAAATGGTTTCTTAAAAATTAAGTAATTCATAAATCATGGAAGAATCACTTAATACATGAA
1 ACATGAAATGGTTTCTTAAAAATTAAGTAATTCATAAATCAT-GAAGAATCACTTAATACATGAA
* ** *
48094431 ATTTTATTTGAA
65 ATGTTACATAAA
* ** * * *
48094443 ACATGACATGGTTT-TTAAGAAATTAAGTAATTTTTTAATCATGAATAATTACTTAA
1 ACATGAAATGGTTTCTTAA-AAATTAAGTAATTCATAAATCATGAAGAATCACTTAA
48094499 AAGCAGACTT
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
76 16 0.15
77 94 0.85
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.35
Consensus pattern (76 bp):
ACATGAAATGGTTTCTTAAAAATTAAGTAATTCATAAATCATGAAGAATCACTTAATACATGAAA
TGTTACATAAA
Found at i:48106887 original size:28 final size:28
Alignment explanation
Indices: 48106827--48106887 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
48106817 CTTTTAGTTG
* * **
48106827 TTATAATAGTAATTTTAGTCCTTTCTGT
1 TTATAACAATAATTTTAGTCCTTAATGT
* *
48106855 CTATAACAATAATTTTAGTCCTTAATTT
1 TTATAACAATAATTTTAGTCCTTAATGT
48106883 TTATA
1 TTATA
48106888 CTTTCTATCA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (28 bp):
TTATAACAATAATTTTAGTCCTTAATGT
Found at i:48113031 original size:2 final size:2
Alignment explanation
Indices: 48113024--48113050 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48113014 CTTCTTCCTC
48113024 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 C
48113051 CATTCAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:48118214 original size:10 final size:10
Alignment explanation
Indices: 48118199--48118229 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
48118189 TTAAAACTTG
48118199 ACTATTTGAA
1 ACTATTTGAA
48118209 ACTATTTG-A
1 ACTATTTGAA
48118218 ACTATTTGAA
1 ACTATTTGAA
48118228 AC
1 AC
48118230 ACCCCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (10 bp):
ACTATTTGAA
Found at i:48125073 original size:24 final size:24
Alignment explanation
Indices: 48125046--48125097 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
48125036 TTAGTAAGTC
*
48125046 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
48125070 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
48125094 AAAT
1 AAAT
48125098 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:48127043 original size:24 final size:24
Alignment explanation
Indices: 48127016--48127067 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
48127006 TTAGTAAGTC
*
48127016 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
48127040 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
48127064 AAAT
1 AAAT
48127068 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:48130072 original size:21 final size:21
Alignment explanation
Indices: 48130048--48130088 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48130038 AAAAAAAACC
48130048 AACAACAAAACAGTAAAAAAT
1 AACAACAAAACAGTAAAAAAT
* *
48130069 AACAAGAAAATAGTAAAAAA
1 AACAACAAAACAGTAAAAAA
48130089 AAAAGGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (21 bp):
AACAACAAAACAGTAAAAAAT
Found at i:48131398 original size:21 final size:20
Alignment explanation
Indices: 48131374--48131427 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
48131364 AAAAATTACA
48131374 AAATAATTCAAAATAATTTTC
1 AAAT-ATTCAAAATAATTTTC
* *
48131395 AAATATTTAAAATAATTTTT
1 AAATATTCAAAATAATTTTC
*
48131415 AAA-ATTCTAAATA
1 AAATATTCAAAATA
48131428 TTTATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 8 0.28
20 17 0.59
21 4 0.14
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATATTCAAAATAATTTTC
Found at i:48131425 original size:20 final size:20
Alignment explanation
Indices: 48131378--48131444 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 20
48131368 ATTACAAAAT
48131378 AATTC-AAAATAATTTTCAAA
1 AATTCTAAAATAATTTT-AAA
* *
48131398 TATT-TAAAATAATTTTTAA
1 AATTCTAAAATAATTTTAAA
48131417 AATTCT-AAAT-ATTTATAAA
1 AATTCTAAAATAATTT-TAAA
48131436 AATTCTAAA
1 AATTCTAAA
48131445 TTTTACATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.10
19 18 0.46
20 17 0.44
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTCTAAAATAATTTTAAA
Found at i:48133840 original size:18 final size:18
Alignment explanation
Indices: 48133817--48133854 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
48133807 TTTCAAGGTA
48133817 TGTTTTGCTTTAACAGCT
1 TGTTTTGCTTTAACAGCT
48133835 TGTTTTGCTTTAACAGCT
1 TGTTTTGCTTTAACAGCT
48133853 TG
1 TG
48133855 AAAGTTGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.50
Consensus pattern (18 bp):
TGTTTTGCTTTAACAGCT
Found at i:48135286 original size:2 final size:2
Alignment explanation
Indices: 48135279--48135316 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
48135269 ATAACAACAG
48135279 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC -C TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
48135317 TTTCTTAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:48135888 original size:16 final size:16
Alignment explanation
Indices: 48135835--48135891 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
48135825 TGGGAGCAGA
* * *
48135835 GTGGCGAGCAAGCAGA
1 GTGGCGAGCTAGCGGG
* * *
48135851 GTGGCAAACTAGTGGG
1 GTGGCGAGCTAGCGGG
48135867 GTGGCGAGCTAGCGGG
1 GTGGCGAGCTAGCGGG
48135883 GTGGCGAGC
1 GTGGCGAGC
48135892 CGAATGACAT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.21, C:0.18, G:0.49, T:0.12
Consensus pattern (16 bp):
GTGGCGAGCTAGCGGG
Found at i:48152771 original size:23 final size:23
Alignment explanation
Indices: 48152745--48152866 Score: 172
Period size: 23 Copynumber: 5.3 Consensus size: 23
48152735 ATAAGTGCCA
48152745 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
** * *
48152768 CACTGATACATAGCTGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
48152791 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
48152814 CACTGATATGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
48152837 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
48152860 CACTGAT
1 CACTGAT
48152867 CAATAACACT
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 83 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:48152802 original size:46 final size:46
Alignment explanation
Indices: 48152745--48152866 Score: 201
Period size: 46 Copynumber: 2.7 Consensus size: 46
48152735 ATAAGTGCCA
*
48152745 CACTGATATGTAGCCGAAGCTACCACTGATACATAG-CTGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACATAGTC-GTAGCTAC
**
48152791 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGTCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACATAGTCGTAGCTAC
48152837 CACTGAAATGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
48152867 CAATAACACT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
46 71 0.99
47 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACATAGTCGTAGCTAC
Found at i:48153110 original size:18 final size:17
Alignment explanation
Indices: 48153084--48153122 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
48153074 ATTTTCCTTC
48153084 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
48153101 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
48153119 CACA
1 CACA
48153123 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:48157626 original size:15 final size:15
Alignment explanation
Indices: 48157601--48157635 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
48157591 AACTCTATTT
*
48157601 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
48157615 TAATTAATATTAAGA
1 TAATTAATATTAAGA
48157630 TAATTA
1 TAATTA
48157636 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:48160543 original size:26 final size:25
Alignment explanation
Indices: 48160509--48160561 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
48160499 AATCAAAAGT
*
48160509 TCACAAAGAACTTTTAATCAGGAAGC
1 TCACAAAGAACCTTTAATCAGG-AGC
* *
48160535 TCACGAAGAGCCTTTAATCAGGAGC
1 TCACAAAGAACCTTTAATCAGGAGC
48160560 TC
1 TC
48160562 CGGATAGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (25 bp):
TCACAAAGAACCTTTAATCAGGAGC
Found at i:48163276 original size:22 final size:22
Alignment explanation
Indices: 48163235--48163276 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
48163225 TTCATCTCAT
*
48163235 TAAGCTTTAGTGACACAACACC
1 TAAGCTTTAGTGACAAAACACC
* *
48163257 TAAGCTTTGGTGTCAAAACA
1 TAAGCTTTAGTGACAAAACA
48163277 TCCTCGGTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (22 bp):
TAAGCTTTAGTGACAAAACACC
Found at i:48167759 original size:18 final size:18
Alignment explanation
Indices: 48167728--48167765 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
48167718 AAAAAATCAC
*
48167728 ATTTTTTATATTTAATAT
1 ATTTTTTATATTTAAAAT
48167746 ATTTTTTA-ATTTTAAAAT
1 ATTTTTTATA-TTTAAAAT
48167764 AT
1 AT
48167766 ATTGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTTTATATTTAAAAT
Found at i:48169114 original size:16 final size:16
Alignment explanation
Indices: 48169072--48169123 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 16
48169062 GGGTGAGAAG
48169072 TAAAAGTTTAGGGGGAAAA
1 TAAAAGTTT-GGGGG--AA
*
48169091 TAAAAAGTTTTGGGGAA
1 T-AAAAGTTTGGGGGAA
48169108 TAAAAGTTTGGGGGAA
1 TAAAAGTTTGGGGGAA
48169124 AGTAAATACG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 14 0.47
17 3 0.10
19 5 0.17
20 8 0.27
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (16 bp):
TAAAAGTTTGGGGGAA
Found at i:48169414 original size:30 final size:31
Alignment explanation
Indices: 48169372--48169432 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
48169362 GGGTTGGGAG
* *
48169372 GGGAAGGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
48169403 GGGAA-GGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
48169433 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (31 bp):
GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:48169498 original size:9 final size:9
Alignment explanation
Indices: 48169481--48169517 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
48169471 TATAGTTTGA
*
48169481 TATTTGAAT
1 TATTCGAAT
48169490 TATTCGAAT
1 TATTCGAAT
*
48169499 TATTCGAGT
1 TATTCGAAT
48169508 TATTCGAAT
1 TATTCGAAT
48169517 T
1 T
48169518 CGAAAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:48175388 original size:41 final size:41
Alignment explanation
Indices: 48175331--48175413 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
48175321 TTCTATGCTC
48175331 ACATTTGGGATTTAGGTTTTATATTTTAATTTGATTTTCTG
1 ACATTTGGGATTTAGGTTTTATATTTTAATTTGATTTTCTG
48175372 ACATTTGGGATTTAGGTTTTATATTTTAATTTGATTTTCTG
1 ACATTTGGGATTTAGGTTTTATATTTTAATTTGATTTTCTG
48175413 A
1 A
48175414 TTTTATAACG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.23, C:0.05, G:0.17, T:0.55
Consensus pattern (41 bp):
ACATTTGGGATTTAGGTTTTATATTTTAATTTGATTTTCTG
Found at i:48179570 original size:7 final size:7
Alignment explanation
Indices: 48179544--48179590 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
48179534 TTGCTATTAG
48179544 TATTTA-
1 TATTTAT
*
48179550 TATTCTAA
1 TATT-TAT
48179558 TATTTAT
1 TATTTAT
48179565 TATTTAT
1 TATTTAT
48179572 TATTTAT
1 TATTTAT
48179579 TATTTAT
1 TATTTAT
*
48179586 CATTT
1 TATTT
48179591 TAAATAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 4 0.11
7 29 0.78
8 4 0.11
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (7 bp):
TATTTAT
Found at i:48184282 original size:21 final size:22
Alignment explanation
Indices: 48184256--48184302 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
48184246 CTCTGCTCAA
*
48184256 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
48184277 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
48184299 ACTC
1 ACTC
48184303 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:48190904 original size:18 final size:18
Alignment explanation
Indices: 48190881--48190918 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
48190871 TTCAATTAAG
*
48190881 TCTTTCATT-AAGTGTTTT
1 TCTTTC-TTCAAGTATTTT
48190899 TCTTTCTTCAAGTATTTT
1 TCTTTCTTCAAGTATTTT
48190917 TC
1 TC
48190919 ATCTAGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.61
Consensus pattern (18 bp):
TCTTTCTTCAAGTATTTT
Found at i:48190966 original size:12 final size:12
Alignment explanation
Indices: 48190906--48191036 Score: 55
Period size: 12 Copynumber: 10.2 Consensus size: 12
48190896 TTTTCTTTCT
48190906 TCAAGTATTTTTCA
1 TCAAGT-TTTTT-A
*
48190920 TCTAGTTCTTTTA
1 TCAAGTT-TTTTA
*
48190933 ACAAGTTTTTAATTA
1 TCAAG-TTTT--TTA
*
48190948 CCAAGTTTTTTA
1 TCAAGTTTTTTA
**
48190960 TCAAGTTTTGCA
1 TCAAGTTTTTTA
* *
48190972 GCAAGTTCTTTTT
1 TCAAGTT-TTTTA
* *
48190985 TAAAGTTTTTCA
1 TCAAGTTTTTTA
*
48190997 TCAAGTCTTTTCA
1 TCAAGT-TTTTTA
* * **
48191010 TAAAATTTTCCA
1 TCAAGTTTTTTA
*
48191022 TCAAGTTTTTAA
1 TCAAGTTTTTTA
48191034 TCA
1 TCA
48191037 TTTCGTTTTT
Statistics
Matches: 88, Mismatches: 23, Indels: 14
0.70 0.18 0.11
Matches are distributed among these distances:
12 42 0.48
13 24 0.27
14 15 0.17
15 7 0.08
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (12 bp):
TCAAGTTTTTTA
Found at i:48190990 original size:25 final size:25
Alignment explanation
Indices: 48190949--48191028 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
48190939 TTTTAATTAC
*
48190949 CAAGTT-TTTTATCAAGTTTTGCAG
1 CAAGTTCTTTTATAAAGTTTTGCAG
* * *
48190973 CAAGTTCTTTTTTAAAGTTTTTCAT
1 CAAGTTCTTTTATAAAGTTTTGCAG
* * *
48190998 CAAG-TCTTTTCATAAAATTTTCCAT
1 CAAGTTCTTTT-ATAAAGTTTTGCAG
48191023 CAAGTT
1 CAAGTT
48191029 TTTAATCATT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 12 0.26
25 33 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (25 bp):
CAAGTTCTTTTATAAAGTTTTGCAG
Found at i:48192651 original size:9 final size:9
Alignment explanation
Indices: 48192597--48192655 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
48192587 TTTGGTTAAA
48192597 AATTACCCG
1 AATTACCCG
*
48192606 AATTAACCG
1 AATTACCCG
*
48192615 AATTAACCG
1 AATTACCCG
*
48192624 AATTA-TCG
1 AATTACCCG
*
48192632 AAAAATACCCG
1 --AATTACCCG
48192643 AATTACCCG
1 AATTACCCG
48192652 AATT
1 AATT
48192656 TTTTTATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
8 2 0.05
9 34 0.81
10 4 0.10
11 2 0.05
ACGTcount: A:0.42, C:0.24, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:48193464 original size:246 final size:246
Alignment explanation
Indices: 48193030--48193477 Score: 869
Period size: 246 Copynumber: 1.8 Consensus size: 246
48193020 CACACCCCTA
*
48193030 GTTATAATGAACCGTTGAATGCAAAAATATTAAATATATTTTCTCATAGATTCTTTTACGGTAAA
1 GTTATAATGAACCGTTGAATGCAAAAATATTAAATATATTTTCTCATAGATTCTTTTACGATAAA
*
48193095 GTTGTCACGATTTTAACGAAATTAGAATTGAGTTGATAAAATTATTTAATTGGAAATATATTGAA
66 GTCGTCACGATTTTAACGAAATTAGAATTGAGTTGATAAAATTATTTAATTGGAAATATATTGAA
48193160 GTTTATTTTTGAGAAATAGAAAAAAAAATATTGGGTTGGATCAAATTATAAAAATACTGGGTTAA
131 GTTTATTTTTGAGAAATAGAAAAAAAAATATTGGGTTGGATCAAATTATAAAAATACTGGGTTAA
48193225 AAGTCTGTTTTTTGAATTAAATGAAGTTCGAAAATGGAAATAAATCATTTG
196 AAGTCTGTTTTTTGAATTAAATGAAGTTCGAAAATGGAAATAAATCATTTG
48193276 GTTATAATGAACCGTTGAATGCAAAAATATTAAATATATTTTCTCATAGATTCTTTTACGATAAA
1 GTTATAATGAACCGTTGAATGCAAAAATATTAAATATATTTTCTCATAGATTCTTTTACGATAAA
48193341 GTCGTCACGATTTTAACGAAATTAGAATTGAGTTGATAAAATTATTTAATTGGAAATATATTGAA
66 GTCGTCACGATTTTAACGAAATTAGAATTGAGTTGATAAAATTATTTAATTGGAAATATATTGAA
48193406 GTTTATTTTTGAGAAATAGAAAAAAAAATATTGGGTTGGATCAAATTATAAAAATACTGGGTTAA
131 GTTTATTTTTGAGAAATAGAAAAAAAAATATTGGGTTGGATCAAATTATAAAAATACTGGGTTAA
*
48193471 TAGTCTG
196 AAGTCTG
48193478 AGAAGTACTT
Statistics
Matches: 199, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
246 199 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (246 bp):
GTTATAATGAACCGTTGAATGCAAAAATATTAAATATATTTTCTCATAGATTCTTTTACGATAAA
GTCGTCACGATTTTAACGAAATTAGAATTGAGTTGATAAAATTATTTAATTGGAAATATATTGAA
GTTTATTTTTGAGAAATAGAAAAAAAAATATTGGGTTGGATCAAATTATAAAAATACTGGGTTAA
AAGTCTGTTTTTTGAATTAAATGAAGTTCGAAAATGGAAATAAATCATTTG
Found at i:48195422 original size:14 final size:14
Alignment explanation
Indices: 48195403--48195429 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48195393 AATCATAAAG
48195403 AAATGATGAATTGA
1 AAATGATGAATTGA
48195417 AAATGATGAATTG
1 AAATGATGAATTG
48195430 TAATTTGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (14 bp):
AAATGATGAATTGA
Found at i:48197418 original size:18 final size:18
Alignment explanation
Indices: 48197384--48197418 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48197374 ACATAACCGC
**
48197384 AAATTAGTATCGGTACTA
1 AAATTAGTATCAATACTA
48197402 AAATTAGTATCAATACT
1 AAATTAGTATCAATACT
48197419 TTATAGAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (18 bp):
AAATTAGTATCAATACTA
Found at i:48202267 original size:342 final size:343
Alignment explanation
Indices: 48201651--48202321 Score: 1182
Period size: 342 Copynumber: 2.0 Consensus size: 343
48201641 AGTTGGTACG
* *
48201651 AATATTTGAATAAGTAAATGGTAATGACTTGGTTGAGTTTCAGAGCATGGTTTGTAATGCGAATT
1 AATATTTAAATAAGTAAATGGTAATGACTTGGTTGAATTTCAGAGCATGGTTTGTAATGCGAATT
*
48201716 TGGTTTATGTAATTGAGTGAATTATGTCTACTTGGTTCATGAATGATTCATGATTTATTTAATGG
66 TGGTTTATGTAATTGAGTGAATTATGGCTACTTGGTTCATGAATGATTCATGATTTATTTAATGG
48201781 GATATGTGATATATATATATGTAATGACTTGACATTTATGTATAATTAATGAGATGTTATTTGAG
131 GATATGTGA-ATATATATATGTAATGACTTGACATTTATGTATAATTAATGAGATGTTATTTGAG
*
48201846 CTTGAGAACTTTGATAAAGAAGTTGATAAAATTTTATACATGAATTGTAATAAGTGATTGTTCTG
195 CTTGAGAACTTTGATAAAGAAGTTGATAAAATTTTATACATGAATTGTAATAAGTGATTATTCTG
* * *
48201911 ATCTGTACTTATGTTCAGTAATGTCTCGTGACCCTAATCTGGCGACGGATACGGGTTTGGGGTAT
260 ATCTGTACTTATGTTCAGTAATGCCTCGTGACCCTAATCTGGCGACGGATACGAGTTTAGGGTAT
48201976 TACATTTGGTTGGTATCAC
325 TACATTTGGTTGGTATCAC
48201995 AATATTTAAATAAGTAAATGGTAATGACTTGGTTGAATTTCAGAGCATGGTTTGTAATGCGAATT
1 AATATTTAAATAAGTAAATGGTAATGACTTGGTTGAATTTCAGAGCATGGTTTGTAATGCGAATT
*
48202060 TGGTTTATGTAATTGAGTGAATTATGGCTACTTGGTTCGTGAATGATTCATGATTTATTTAATGG
66 TGGTTTATGTAATTGAGTGAATTATGGCTACTTGGTTCATGAATGATTCATGATTTATTTAATGG
* * * *
48202125 GATATGTG-ATATATATATGTAATTACTTGACATTTATGTATGATTAGTGATATGTTATTTGAGC
131 GATATGTGAATATATATATGTAATGACTTGACATTTATGTATAATTAATGAGATGTTATTTGAGC
48202189 TTGAGAACTTTGATAAAGAAGTTGATAAAATTTTATACATGAATTGTAATAAGTGATTATTCTGA
196 TTGAGAACTTTGATAAAGAAGTTGATAAAATTTTATACATGAATTGTAATAAGTGATTATTCTGA
* * * *
48202254 TTTGTACTTATGTTCAGTAATGCCTCGTGACCCTAATCTTGCTACGGATACGAGTTTAGGGTGTT
261 TCTGTACTTATGTTCAGTAATGCCTCGTGACCCTAATCTGGCGACGGATACGAGTTTAGGGTATT
48202319 ACA
326 ACA
48202322 ATAAATGTCG
Statistics
Matches: 311, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
342 177 0.57
344 134 0.43
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (343 bp):
AATATTTAAATAAGTAAATGGTAATGACTTGGTTGAATTTCAGAGCATGGTTTGTAATGCGAATT
TGGTTTATGTAATTGAGTGAATTATGGCTACTTGGTTCATGAATGATTCATGATTTATTTAATGG
GATATGTGAATATATATATGTAATGACTTGACATTTATGTATAATTAATGAGATGTTATTTGAGC
TTGAGAACTTTGATAAAGAAGTTGATAAAATTTTATACATGAATTGTAATAAGTGATTATTCTGA
TCTGTACTTATGTTCAGTAATGCCTCGTGACCCTAATCTGGCGACGGATACGAGTTTAGGGTATT
ACATTTGGTTGGTATCAC
Found at i:48204108 original size:23 final size:23
Alignment explanation
Indices: 48204082--48204125 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
48204072 AGCAAATTGA
48204082 AAAT-ACATTAAGCAAAGTTACTT
1 AAATAACATTAA-CAAAGTTACTT
*
48204105 AAATAACATTAACATAGTTAC
1 AAATAACATTAACAAAGTTAC
48204126 AAATTAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.30
Consensus pattern (23 bp):
AAATAACATTAACAAAGTTACTT
Found at i:48204219 original size:49 final size:48
Alignment explanation
Indices: 48204106--48204225 Score: 111
Period size: 49 Copynumber: 2.5 Consensus size: 48
48204096 AAGTTACTTA
* * * * *
48204106 AATAACATTAACATAGTTACAAATTAGCAAGCAAATGCCTCTTAAAAT
1 AATAACAATAAAATAGTTACAAATTAGCAAGCAAATACATATTAAAAT
*
48204154 AGTATTAA-AAT-TAATAGTTACAAATTAGCAAGCAAATACAATATCT-AAAT
1 A--A-TAACAATAAAATAGTTACAAATTAGCAAGCAAATAC-ATAT-TAAAAT
*
48204204 AATAACAATAAAATAGTAACAA
1 AATAACAATAAAATAGTTACAA
48204226 TATAATAGCA
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
47 3 0.05
48 5 0.09
49 35 0.61
50 10 0.18
51 4 0.07
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.27
Consensus pattern (48 bp):
AATAACAATAAAATAGTTACAAATTAGCAAGCAAATACATATTAAAAT
Found at i:48204223 original size:14 final size:14
Alignment explanation
Indices: 48204200--48204233 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
48204190 TACAATATCT
*
48204200 AAATAATAACAATA
1 AAATAGTAACAATA
48204214 AAATAGTAACAATA
1 AAATAGTAACAATA
*
48204228 TAATAG
1 AAATAG
48204234 CAAATAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (14 bp):
AAATAGTAACAATA
Found at i:48205234 original size:33 final size:33
Alignment explanation
Indices: 48205197--48205327 Score: 190
Period size: 33 Copynumber: 4.0 Consensus size: 33
48205187 TGGGACCCTG
* * *
48205197 ATTTCCAGGTATTCTAATTCTTGTTGGATCTCT
1 ATTTCCAGGCATTCTAATTCCTGTTGGATCTCC
* * *
48205230 ATTTCCAGGGATTCTAATTCCTGTAGGAGCTCC
1 ATTTCCAGGCATTCTAATTCCTGTTGGATCTCC
*
48205263 ATTTCCAGGCATTCCAATTCCTGTTGGATCTCC
1 ATTTCCAGGCATTCTAATTCCTGTTGGATCTCC
*
48205296 ATTTCCAGGCATTCTAATTTCTGTTGGATCTC
1 ATTTCCAGGCATTCTAATTCCTGTTGGATCTC
48205328 TATGATCTCC
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 87 1.00
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (33 bp):
ATTTCCAGGCATTCTAATTCCTGTTGGATCTCC
Found at i:48212407 original size:26 final size:26
Alignment explanation
Indices: 48212372--48212421 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
48212362 TATAAAGATA
48212372 CAAATAATAAAAA-AGTTTTAAAATT
1 CAAATAATAAAAATAGTTTTAAAATT
*
48212397 CAAATATATAAAAATATTTTTAAAA
1 CAAATA-ATAAAAATAGTTTTAAAA
48212422 ATAAAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 7 0.32
27 9 0.41
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (26 bp):
CAAATAATAAAAATAGTTTTAAAATT
Found at i:48216794 original size:14 final size:14
Alignment explanation
Indices: 48216775--48216801 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48216765 ATTATTTCAA
48216775 ATTTCTTTTCTCTC
1 ATTTCTTTTCTCTC
48216789 ATTTCTTTTCTCT
1 ATTTCTTTTCTCT
48216802 TTTCAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTCTTTTCTCTC
Found at i:48226547 original size:46 final size:45
Alignment explanation
Indices: 48226480--48226632 Score: 175
Period size: 46 Copynumber: 3.6 Consensus size: 45
48226470 TTTGAGTACT
* *
48226480 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
48226526 TCTGATCAAGTGACAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
48226562 TCTGATCAAGTGACAAAGTGATAAATGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
48226608 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
48226633 ATCATACGTA
Statistics
Matches: 93, Mismatches: 4, Indels: 22
0.78 0.03 0.18
Matches are distributed among these distances:
36 32 0.34
37 2 0.02
40 2 0.02
42 2 0.02
44 11 0.12
45 7 0.08
46 37 0.40
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:48226557 original size:36 final size:36
Alignment explanation
Indices: 48226516--48226585 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
48226506 GGTAGCTTTA
48226516 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
48226552 GCTACACTTATCTGATCAAGTGACAAAGTGATAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAA
48226586 ATGGTAGCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:48227983 original size:13 final size:13
Alignment explanation
Indices: 48227965--48227990 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48227955 TTCTATTTCA
48227965 TTTTATTATACTT
1 TTTTATTATACTT
48227978 TTTTATTATACTT
1 TTTTATTATACTT
48227991 AATATTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTATACTT
Found at i:48227998 original size:16 final size:15
Alignment explanation
Indices: 48227966--48228019 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
48227956 TCTATTTCAT
48227966 TTTATTATACTT-T-
1 TTTATTATACTTATA
48227979 TTTATTATACTTAATA
1 TTTATTATACTT-ATA
*
48227995 TTTATT-TATCATATTA
1 TTTATTATA-CTTA-TA
48228011 TTTATTATA
1 TTTATTATA
48228020 ATACATATAC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
13 12 0.35
15 4 0.12
16 16 0.47
17 2 0.06
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTATTATACTTATA
Found at i:48229505 original size:41 final size:41
Alignment explanation
Indices: 48229460--48229662 Score: 250
Period size: 41 Copynumber: 5.0 Consensus size: 41
48229450 TTGTATAAAA
* * * * * *
48229460 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTC
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
* *
48229501 CACCGGCACAAAGCCTGCTAGATATAAAGTCTGTTACATTT
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
48229542 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
*
48229583 CACCGGCACTAAGCCTGCTAGACATAAAGTCTGAAGTA-A-TT
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTG-A-TACATTT
* * *
48229624 CACCGGCATC-AAGCATGCTAGACGTAAAGTCTGAAACAT
1 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGATACAT
48229663 CTTATTTTCA
Statistics
Matches: 143, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 2 0.01
41 135 0.94
42 3 0.02
43 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
Found at i:48230333 original size:16 final size:17
Alignment explanation
Indices: 48230312--48230346 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48230302 ATCTAATAAT
48230312 TTATACAT-GTATATAC
1 TTATACATCGTATATAC
*
48230328 TTATACATCGTTTATAC
1 TTATACATCGTATATAC
48230345 TT
1 TT
48230347 CAACTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (17 bp):
TTATACATCGTATATAC
Found at i:48251225 original size:25 final size:25
Alignment explanation
Indices: 48251184--48251240 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
48251174 ACAATCCATG
** * *
48251184 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAATCATATAACATT
48251209 TAAATCATGTAAATCATATAACATT
1 TAAATCATGTAAATCATATAACATT
*
48251234 TATATCA
1 TAAATCA
48251241 ATTCTTTCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (25 bp):
TAAATCATGTAAATCATATAACATT
Found at i:48251531 original size:23 final size:23
Alignment explanation
Indices: 48251478--48251559 Score: 94
Period size: 23 Copynumber: 3.4 Consensus size: 23
48251468 GAGCCATGAT
48251478 CGGTAAGCTC-ATTCCGAGCTGATAAA
1 CGGTAAGCTCTATT--GAGCTG--AAA
48251504 CGGTAAGCTCTATTGAGCTGAAA
1 CGGTAAGCTCTATTGAGCTGAAA
* * *
48251527 CGGTAAGCTTTGTAGAGCTGAAA
1 CGGTAAGCTCTATTGAGCTGAAA
48251550 CGGTAAGCTC
1 CGGTAAGCTC
48251560 ATACGAGCTG
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 32 0.63
25 6 0.12
26 10 0.20
27 3 0.06
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (23 bp):
CGGTAAGCTCTATTGAGCTGAAA
Found at i:48251567 original size:23 final size:23
Alignment explanation
Indices: 48251478--48251569 Score: 89
Period size: 23 Copynumber: 3.9 Consensus size: 23
48251468 GAGCCATGAT
*
48251478 CGGTAAGCTCATTCCGAGCTGATAAA
1 CGGTAAGCTCA-TACGAGCTG--AAA
*
48251504 CGGTAAGCTC-TATTGAGCTGAAA
1 CGGTAAGCTCATA-CGAGCTGAAA
**
48251527 CGGTAAGCTTTGTA-GAGCTGAAA
1 CGGTAAGC-TCATACGAGCTGAAA
48251550 CGGTAAGCTCATACGAGCTG
1 CGGTAAGCTCATACGAGCTG
48251570 TGGTGAGTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
22 3 0.05
23 34 0.60
24 2 0.04
25 8 0.14
26 10 0.18
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (23 bp):
CGGTAAGCTCATACGAGCTGAAA
Found at i:48257450 original size:54 final size:49
Alignment explanation
Indices: 48257427--48257545 Score: 114
Period size: 53 Copynumber: 2.3 Consensus size: 49
48257417 TATTTCATTA
* *
48257427 TTATTTACTTATTTATTTAATTTCAACTTTTCATTATTTTTTCCTTTTT
1 TTATTTACTTATTTATTTAATTTCAACTCTTCATTATTTTTTCATTTTT
* * * **
48257476 TTATTTACTTATTTATTATGGCAATTTCAGCCTTTTCATGATTTTTT-ATTTGC
1 TTATTTACTTATTTATT-T---AATTTCA-ACTCTTCATTATTTTTTCATTTTT
*
48257529 TTATTTATTTATTTATT
1 TTATTTACTTATTTATT
48257546 GTTGCCTTGC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
49 17 0.29
50 1 0.02
53 26 0.44
54 15 0.25
ACGTcount: A:0.21, C:0.11, G:0.04, T:0.64
Consensus pattern (49 bp):
TTATTTACTTATTTATTTAATTTCAACTCTTCATTATTTTTTCATTTTT
Found at i:48257503 original size:53 final size:49
Alignment explanation
Indices: 48257376--48257545 Score: 132
Period size: 54 Copynumber: 3.3 Consensus size: 49
48257366 TTTCAATTTA
* *
48257376 ATTT-CTTATTTATTTAATTTCAG-CTCTTCATTAAATTTTTTTATTT-CATTATT
1 ATTTACTTATTTATTTAATTTCAGACTTTTCA-T-GA-TTTTTTATTTGC----TT
* * **
48257429 ATTTACTTATTTATTTAATTTCA-ACTTTTCATTATTTTTTCCTTTTTTT
1 ATTTACTTATTTATTTAATTTCAGACTTTTCATGATTTTTT-ATTTGCTT
*
48257478 ATTTACTTATTTATTATGGCAATTTCAGCCTTTTCATGATTTTTTATTTGCTT
1 ATTTACTTATTTATT-T---AATTTCAGACTTTTCATGATTTTTTATTTGCTT
*
48257531 ATTTATTTATTTATT
1 ATTTACTTATTTATT
48257546 GTTGCCTTGC
Statistics
Matches: 98, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
49 17 0.17
50 1 0.01
51 6 0.06
52 4 0.04
53 31 0.32
54 39 0.40
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.63
Consensus pattern (49 bp):
ATTTACTTATTTATTTAATTTCAGACTTTTCATGATTTTTTATTTGCTT
Found at i:48257947 original size:20 final size:20
Alignment explanation
Indices: 48257904--48257948 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
48257894 TAGTACCATT
*
48257904 ATTATAAAATTGATATTATT
1 ATTATAAAATTGATATTATA
* *
48257924 ATTATAAAATTGGTATTCTA
1 ATTATAAAATTGATATTATA
48257944 ATTAT
1 ATTAT
48257949 TATTGTAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (20 bp):
ATTATAAAATTGATATTATA
Found at i:48257951 original size:23 final size:20
Alignment explanation
Indices: 48257901--48257940 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
48257891 GATTAGTACC
48257901 ATTATTATAAAATTGATATT
1 ATTATTATAAAATTGATATT
*
48257921 ATTATTATAAAATTGGTATT
1 ATTATTATAAAATTGATATT
48257941 CTAATTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
ATTATTATAAAATTGATATT
Found at i:48258940 original size:10 final size:10
Alignment explanation
Indices: 48258927--48258967 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
48258917 CATATTTTTA
48258927 ATCTCAATTT
1 ATCTCAATTT
48258937 ATCTCATATTT
1 ATCTCA-ATTT
48258948 -TACT-AATTT
1 AT-CTCAATTT
48258957 ATCTCAATTT
1 ATCTCAATTT
48258967 A
1 A
48258968 ATTCTACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.22
10 15 0.56
11 6 0.22
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (10 bp):
ATCTCAATTT
Found at i:48261687 original size:24 final size:24
Alignment explanation
Indices: 48261642--48261698 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
48261632 AATTAGTTCG
* *
48261642 TAATTTTATTGTGTTATAATAATT
1 TAATTTTATAGTGTTATAATAAAT
*
48261666 TAATTTTATAGT-TTGATTATAAAT
1 TAATTTTATAGTGTT-ATAATAAAT
*
48261690 TAATGTTAT
1 TAATTTTAT
48261699 TATGGTTACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (24 bp):
TAATTTTATAGTGTTATAATAAAT
Found at i:48274270 original size:8 final size:8
Alignment explanation
Indices: 48274251--48274288 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
48274241 ATAGCATAGA
48274251 AATAATATG
1 AATAA-ATG
48274260 AATAAATG
1 AATAAATG
48274268 AATAAATG
1 AATAAATG
*
48274276 AATAAATA
1 AATAAATG
48274284 AATAA
1 AATAA
48274289 TTATGACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 23 0.82
9 5 0.18
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (8 bp):
AATAAATG
Found at i:48274278 original size:16 final size:17
Alignment explanation
Indices: 48274250--48274294 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
48274240 AATAGCATAG
48274250 AAATAATATGAATAAAT
1 AAATAATATGAATAAAT
*
48274267 GAATAA-ATGAATAAAT
1 AAATAATATGAATAAAT
48274283 AAATAATTATGA
1 AAATAA-TATGA
48274295 CATACAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 15 0.62
17 5 0.21
18 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (17 bp):
AAATAATATGAATAAAT
Found at i:48275162 original size:23 final size:22
Alignment explanation
Indices: 48275119--48275176 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
48275109 AAAGAGTATC
* *
48275119 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
48275140 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
48275163 TACATATCATATCT
1 TACAAATCATATCT
48275177 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:48276814 original size:20 final size:19
Alignment explanation
Indices: 48276781--48276823 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
48276771 AGACTATGGC
48276781 ATTA-TTTTATGAATAAATAT
1 ATTATTTTTATGAAT--ATAT
48276801 ATTATTTTTA-GAATATAT
1 ATTATTTTTATGAATATAT
48276819 ATTAT
1 ATTAT
48276824 GACATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.41
20 8 0.36
21 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTATTTTTATGAATATAT
Found at i:48280426 original size:14 final size:13
Alignment explanation
Indices: 48280407--48280436 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
48280397 TGATTATCAT
*
48280407 AAAAAAACATTAA
1 AAAAAAACATGAA
48280420 AAAAAAACATGAA
1 AAAAAAACATGAA
48280433 AAAA
1 AAAA
48280437 GAAAATATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (13 bp):
AAAAAAACATGAA
Found at i:48291291 original size:126 final size:125
Alignment explanation
Indices: 48291101--48291342 Score: 421
Period size: 126 Copynumber: 1.9 Consensus size: 125
48291091 CCTCTAGCAG
* ** *
48291101 GATGCTATTTGAGAAGAAATTGTGAAATCGTGCCCTCGTGGACGCGATTTCGCTATAGTTGGTCA
1 GATGCTATATGAGAAGAAATTGTGAAATCGCACCCTCGTGGACGCGATTTCGCTACAGTTGGTCA
48291166 TGTAGGAAATAATTATTTTTTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAA
66 TGTAGGAAATAATTATTTTTTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCAA
48291227 GATGCTATATGAGAAGAAATTGTGAAATCGCACCCTCGTGGACGCGATTTCGCTACAGTTGGTCA
1 GATGCTATATGAGAAGAAATTGTGAAATCGCACCCTCGTGGACGCGATTTCGCTACAGTTGGTCA
* *
48291292 TGTAGGAAATAATTATTTTTTGACGTTTCTGAGCAAATAGTGTCAAATCGC
66 TGTAGGAAATAATTATTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGC
48291343 GCTCTCGTGG
Statistics
Matches: 110, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
125 24 0.22
126 86 0.78
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (125 bp):
GATGCTATATGAGAAGAAATTGTGAAATCGCACCCTCGTGGACGCGATTTCGCTACAGTTGGTCA
TGTAGGAAATAATTATTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAA
Found at i:48292828 original size:7 final size:7
Alignment explanation
Indices: 48292818--48292854 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
48292808 AATTAAAAAT
48292818 AATAATA
1 AATAATA
48292825 AATAATA
1 AATAATA
48292832 AATAATA
1 AATAATA
48292839 AAT--TA
1 AATAATA
48292844 AATATATA
1 AATA-ATA
48292852 AAT
1 AAT
48292855 TATTGGTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.19
7 17 0.63
8 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATAATA
Found at i:48295084 original size:4 final size:4
Alignment explanation
Indices: 48295075--48295101 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
48295065 ATAAAAAATA
48295075 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
48295102 ATAAGCTAAA
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:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:48295088 original size:47 final size:46
Alignment explanation
Indices: 48295006--48295095 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 46
48294996 AAATGAGTAA
48295006 AATTATAAAAATAAAAAAGATATATATATATATGTACGTATGTTAG
1 AATTATAAAAATAAAAAAGATATATATATATATGTACGTATGTTAG
* * * *
48295052 AATTATAAAGTATATAAAAA-ATATATGTATGTATGTATGTATGT
1 AATTATAAA-AATA-AAAAAGATATATATATATATGTACGTATGT
48295096 ATGTATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
46 9 0.24
47 24 0.63
48 5 0.13
ACGTcount: A:0.49, C:0.01, G:0.12, T:0.38
Consensus pattern (46 bp):
AATTATAAAAATAAAAAAGATATATATATATATGTACGTATGTTAG
Found at i:48295148 original size:8 final size:8
Alignment explanation
Indices: 48295127--48295197 Score: 58
Period size: 8 Copynumber: 9.1 Consensus size: 8
48295117 GTTTATAAAG
*
48295127 AGATATGT
1 AGATATAT
*
48295135 ATATATAT
1 AGATATAT
*
48295143 ACATATAT
1 AGATATAT
*
48295151 ATATA-AT
1 AGATATAT
48295158 AAGATATAT
1 -AGATATAT
48295167 AGATATAT
1 AGATATAT
*
48295175 ATA-ATA-
1 AGATATAT
*
48295181 AGATATAA
1 AGATATAT
48295189 AGATATAT
1 AGATATAT
48295197 A
1 A
48295198 AATAAATATA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
6 2 0.04
7 8 0.16
8 39 0.76
9 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (8 bp):
AGATATAT
Found at i:48295151 original size:12 final size:11
Alignment explanation
Indices: 48295134--48295210 Score: 63
Period size: 10 Copynumber: 7.2 Consensus size: 11
48295124 AAGAGATATG
48295134 TATATATATACA
1 TATATATATA-A
48295146 TATATATATAA
1 TATATATATAA
*
48295157 TA-AGATATATA
1 TATATATATA-A
*
48295168 GATATATATAA
1 TATATATATAA
*
48295179 TA-AGATATAA
1 TATATATATAA
*
48295189 -AGATATATAA
1 TATATATATAA
*
48295199 -ATAAATATAA
1 TATATATATAA
48295209 TA
1 TA
48295211 GTAATAACAA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
9 1 0.02
10 28 0.53
11 8 0.15
12 16 0.30
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.36
Consensus pattern (11 bp):
TATATATATAA
Found at i:48295164 original size:22 final size:22
Alignment explanation
Indices: 48295147--48295208 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
48295137 ATATATACAT
*
48295147 ATATATATAATAAGATATATAG
1 ATATATATAATAAGATATAAAG
48295169 ATATATATAATAAGATATAAAG
1 ATATATATAATAAGATATAAAG
48295191 ATATATA-AATAA-ATATAA
1 ATATATATAATAAGATATAA
48295209 TAGTAATAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
20 6 0.15
21 5 0.13
22 28 0.72
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (22 bp):
ATATATATAATAAGATATAAAG
Found at i:48295192 original size:30 final size:31
Alignment explanation
Indices: 48295120--48295210 Score: 96
Period size: 30 Copynumber: 2.9 Consensus size: 31
48295110 AAAAAATGTT
* *
48295120 TATAAAGAGATAT-GTATATATATACATATATA
1 TATAAAGATATATAG-ATATATATA-ATATAGA
48295152 TATAATAAGATATATAGATATATATAATA-AGA
1 TAT-A-AAGATATATAGATATATATAATATAGA
* *
48295184 TATAAAGATATATAAATAAATATAATA
1 TATAAAGATATATAGATATATATAATA
48295211 GTAATAACAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
30 21 0.40
31 1 0.02
32 8 0.15
33 4 0.08
34 17 0.33
35 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.08, T:0.35
Consensus pattern (31 bp):
TATAAAGATATATAGATATATATAATATAGA
Found at i:48296960 original size:46 final size:46
Alignment explanation
Indices: 48296893--48297467 Score: 757
Period size: 46 Copynumber: 12.5 Consensus size: 46
48296883 TACTGTATTG
* * ** * *
48296893 GGAAGACAAGAT-TCACCATCTTCGATCTCCTTTGCTGCTAGATACA
1 GGAAGACAAGATCT-GCTATCTTCGATCTCCTCCGCTGCCAAATACA
* * *
48296939 GGAAGAAAAGATCTTG-TATCTTTGATCTCTTCCGCTGCCAAATACA
1 GGAAGACAAGATC-TGCTATCTTCGATCTCCTCCGCTGCCAAATACA
* *
48296985 GGAAGACAAGATCTTG-TATCTTCGATCTCCTTCGTTGCCAAATACA
1 GGAAGACAAGATC-TGCTATCTTCGATCTCCTCCGCTGCCAAATACA
*
48297031 GGAAGACAAGATCTGCCATCTTCGATCTCCTCCGCTGCCAAATACA
1 GGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACA
48297077 GGAAGACAAGATCTG-TCATCTTCGATCTCCTCCGCTGCCAAATACA
1 GGAAGACAAGATCTGCT-ATCTTCGATCTCCTCCGCTGCCAAATACA
* **
48297123 GGAAGACAAGATCTGTTATCTTCGATCTCC-CTCGCTG-CATTTACA
1 GGAAGACAAGATCTGCTATCTTCGATCTCCTC-CGCTGCCAAATACA
*
48297168 TGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACA
1 GGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACA
* * * * *
48297214 AGAAGACAAGATCTACTATCTTCGGTCTCCTCCGCTGCCAGATATA
1 GGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACA
* ** * *
48297260 GGAAGACAAGATCTGCTATCTTCGATCTCCCCCATTGCTAAATATA
1 GGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACA
** *
48297306 GGAAGACAAGATCTGCTATCTTCGATCTTTTCCACTGCCAAATACA
1 GGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACA
* * * *
48297352 AGAAGACAAGATCTGCTATCTTCGATCTTCTTCACTGCCAAATACA
1 GGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACA
*
48297398 GGAAGACAAGATCTGCTATCTTCGATCTCCTCCGTTGCCAAATACA
1 GGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACA
48297444 GGAAGACAAGATCTGCTATCTTCG
1 GGAAGACAAGATCTGCTATCTTCG
48297468 TTGATCTGTT
Statistics
Matches: 470, Mismatches: 51, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
45 42 0.09
46 426 0.91
47 1 0.00
48 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (46 bp):
GGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATACA
Found at i:48298617 original size:43 final size:44
Alignment explanation
Indices: 48298559--48298672 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 44
48298549 AGATCATCAT
* *
48298559 ATGCCCCGATCTGAT-CAAAATTTGAGCT-GCTCTGATCACCACC
1 ATGCCCCAATTTGATCCAAAATTTGAGCTCGCTCTGATCA-CACC
* **
48298602 ATGCCCCAATTTGATCCAAAATTTAAG-TCGCTCTGATCACTTC
1 ATGCCCCAATTTGATCCAAAATTTGAGCTCGCTCTGATCACACC
* * *
48298645 GTGCCCCATTTTGTTCCAAAATTTGAGC
1 ATGCCCCAATTTGATCCAAAATTTGAGC
48298673 CGCCCTTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 39 0.66
44 20 0.34
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (44 bp):
ATGCCCCAATTTGATCCAAAATTTGAGCTCGCTCTGATCACACC
Found at i:48300607 original size:17 final size:18
Alignment explanation
Indices: 48300575--48300611 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
48300565 TCTGCACAGT
48300575 ATGATTATGAATGAAAGA
1 ATGATTATGAATGAAAGA
*
48300593 ATGATT-TGGATGAAAGA
1 ATGATTATGAATGAAAGA
48300610 AT
1 AT
48300612 AAAAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (18 bp):
ATGATTATGAATGAAAGA
Found at i:48304694 original size:4 final size:4
Alignment explanation
Indices: 48304685--48304715 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
48304675 ATAAAAAATA
*
48304685 TATG TATG TATG TATT TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
48304716 ATAAGCTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (4 bp):
TATG
Found at i:48304706 original size:16 final size:16
Alignment explanation
Indices: 48304685--48304715 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
48304675 ATAAAAAATA
48304685 TATGTATGTATGTATT
1 TATGTATGTATGTATT
48304701 TATGTATGTATGTAT
1 TATGTATGTATGTAT
48304716 ATAAGCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (16 bp):
TATGTATGTATGTATT
Found at i:48304776 original size:20 final size:20
Alignment explanation
Indices: 48304759--48304798 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
48304749 ATATATATAC
48304759 ATATATATAATAAGATATAAAG
1 ATATATA-AATAA-ATATAAAG
48304781 ATATATAAATAAATATAA
1 ATATATAAATAAATATAA
48304799 TAGTAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
ATATATAAATAAATATAAAG
Found at i:48307960 original size:13 final size:11
Alignment explanation
Indices: 48307928--48307984 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 11
48307918 CCATTTTTTA
*
48307928 AATAAAATAAT
1 AATAAAATATT
48307939 AAT-AAATATCT
1 AATAAAATAT-T
48307950 AAGTAAAATATT
1 AA-TAAAATATT
48307962 AATAAAATAATATT
1 AAT--AA-AATATT
48307976 AATAAAATA
1 AATAAAATA
48307985 ATATTTAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
10 5 0.13
11 11 0.28
12 6 0.15
13 8 0.21
14 9 0.23
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (11 bp):
AATAAAATATT
Found at i:48307975 original size:14 final size:14
Alignment explanation
Indices: 48307956--48307989 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
48307946 ATCTAAGTAA
48307956 AATATTAATAAAAT
1 AATATTAATAAAAT
48307970 AATATTAATAAAAT
1 AATATTAATAAAAT
48307984 AATATT
1 AATATT
48307990 TAACTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATTAATAAAAT
Found at i:48308894 original size:19 final size:20
Alignment explanation
Indices: 48308859--48308899 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48308849 AAAAGTATTT
*
48308859 AAAAATTATTAAGAATTATA
1 AAAAATTACTAAGAATTATA
*
48308879 AAAAATTACTAA-AATTTTA
1 AAAAATTACTAAGAATTATA
48308898 AA
1 AA
48308900 TTAATGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAATTACTAAGAATTATA
Found at i:48309288 original size:31 final size:30
Alignment explanation
Indices: 48309210--48309289 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 30
48309200 TTTTTAATAA
48309210 ATTTTCAATAATTTTT-AATAATATCTTATC
1 ATTTT-AATAATTTTTAAATAATATCTTATC
* * *
48309240 ATTCTTATTAATTTTTAAATAACTTTTTTAT-
1 ATT-TTAATAATTTTTAAATAA-TATCTTATC
48309271 ATTTTAATAATTATTTAAA
1 ATTTTAATAATT-TTTAAA
48309290 AATTTATATG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
30 20 0.48
31 16 0.38
32 6 0.14
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTTTAATAATTTTTAAATAATATCTTATC
Found at i:48312514 original size:30 final size:29
Alignment explanation
Indices: 48312480--48312539 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
48312470 ACAATTTTCC
* *
48312480 CAAGTTGGTGCTGAAACTTTTTCTT-GGTTA
1 CAAG-TGGTACTGAAAC-TATTCTTCGGTTA
*
48312510 CAAGTGGTACTTAAACTATTCTTCGGTTA
1 CAAGTGGTACTGAAACTATTCTTCGGTTA
48312539 C
1 C
48312540 TCATTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 6 0.23
29 16 0.62
30 4 0.15
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (29 bp):
CAAGTGGTACTGAAACTATTCTTCGGTTA
Found at i:48313753 original size:29 final size:29
Alignment explanation
Indices: 48313721--48313776 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
48313711 AAAAAGCCCA
48313721 TTTTTTAAAAAATTACCGAAATGGGCCGG
1 TTTTTTAAAAAATTACCGAAATGGGCCGG
** * *
48313750 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAAAAAATTACCGAAATGGGCC
48313777 ATTTTCCGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (29 bp):
TTTTTTAAAAAATTACCGAAATGGGCCGG
Found at i:48313781 original size:28 final size:28
Alignment explanation
Indices: 48313718--48313781 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
48313708 CAAAAAAAGC
48313718 CCATTTTTTAAAAAATTACCGAAATGGG
1 CCATTTTTTAAAAAATTACCGAAATGGG
* ** * *
48313746 CCGGTTTTTTAATTATTTACCGGAATGGG
1 CC-ATTTTTTAAAAAATTACCGAAATGGG
48313775 CCATTTT
1 CCATTTT
48313782 CCGCGAAATC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (28 bp):
CCATTTTTTAAAAAATTACCGAAATGGG
Found at i:48317611 original size:23 final size:23
Alignment explanation
Indices: 48317581--48317625 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
48317571 TAGGGTTAGG
48317581 GTTAGGGTTTTTAACTAAATTAT
1 GTTAGGGTTTTTAACTAAATTAT
*
48317604 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAACTAAATTA
48317626 AATTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (23 bp):
GTTAGGGTTTTTAACTAAATTAT
Done.