Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 38 of 259
Found at i:11443787 original size:13 final size:13
Alignment explanation
Indices: 11443762--11443795 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
11443752 TATCTCTAGA
11443762 AATTTTTTGAAAT
1 AATTTTTTGAAAT
11443775 AATTTCTTT-AAAT
1 AATTT-TTTGAAAT
11443788 AATTTTTT
1 AATTTTTT
11443796 CTCTACAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 14 0.70
14 3 0.15
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (13 bp):
AATTTTTTGAAAT
Found at i:11444034 original size:20 final size:18
Alignment explanation
Indices: 11443987--11444035 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
11443977 CAAGATAAAC
11443987 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
11444004 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
11444024 ATTAAATTAATA
1 ATTAAATTAATA
11444036 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:11444089 original size:17 final size:17
Alignment explanation
Indices: 11444054--11444086 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11444044 TTAAGATAAG
*
11444054 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
11444071 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
11444087 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:11444880 original size:36 final size:36
Alignment explanation
Indices: 11444833--11444906 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
11444823 CAGTTTGAAC
11444833 TTAGATAATCAATGAACTAATA-ATTCATTATCACAA
1 TTAGATAATCAATGAACTAATATATTC-TTATCACAA
*
11444869 TTAGATAATCAATGAACTAATATTTTCTTATCACAA
1 TTAGATAATCAATGAACTAATATATTCTTATCACAA
11444905 TT
1 TT
11444907 TCGCTATGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 33 0.92
37 3 0.08
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (36 bp):
TTAGATAATCAATGAACTAATATATTCTTATCACAA
Found at i:11449904 original size:22 final size:22
Alignment explanation
Indices: 11449876--11449920 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11449866 CCAAGGATGG
*
11449876 TCCCAATGATGATTATTTTATT
1 TCCCAATGATGATTACTTTATT
11449898 TCCCAATGATGATTACTTTATT
1 TCCCAATGATGATTACTTTATT
11449920 T
1 T
11449921 ACTTTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.49
Consensus pattern (22 bp):
TCCCAATGATGATTACTTTATT
Found at i:11463788 original size:40 final size:39
Alignment explanation
Indices: 11463608--11463817 Score: 316
Period size: 39 Copynumber: 5.3 Consensus size: 39
11463598 GGACTAAGAT
11463608 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
11463647 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
11463686 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
11463725 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* * *
11463765 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCCATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
11463805 CCGAAGGCATTTG
1 CCGAAGGCATTTG
11463818 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 114 0.72
40 45 0.28
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:11472322 original size:12 final size:12
Alignment explanation
Indices: 11472300--11472353 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
11472290 AAGTCTAAGA
*
11472300 AAATAACAATAG
1 AAATAAAAATAG
*
11472312 ACATAAAAATAG
1 AAATAAAAATAG
* *
11472324 AAATAAAACTAAA
1 AAATAAAAAT-AG
11472337 AAATAAAAATA-
1 AAATAAAAATAG
11472348 AAATAA
1 AAATAA
11472354 GATAAATGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
11 6 0.17
12 19 0.54
13 10 0.29
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.17
Consensus pattern (12 bp):
AAATAAAAATAG
Found at i:11472344 original size:6 final size:6
Alignment explanation
Indices: 11472299--11472350 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
11472289 GAAGTCTAAG
* * * * *
11472299 AAAATA ACAATA GACATA AAAATA GAAATA AAACTAA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA AAAATA
11472348 AAA
1 AAA
11472351 TAAGATAAAT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:11473370 original size:23 final size:23
Alignment explanation
Indices: 11473327--11473370 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
11473317 CCAATTCAAC
*
11473327 ATATTTTCAAGATAAATTCATGT
1 ATATTTTCAAGATAAAGTCATGT
*
11473350 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
11473371 CACATACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGT
Found at i:11481194 original size:22 final size:23
Alignment explanation
Indices: 11481169--11481214 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
11481159 CAACCAAACC
11481169 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
11481191 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
11481214 A
1 A
11481215 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:11481220 original size:23 final size:23
Alignment explanation
Indices: 11481176--11481220 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11481166 ACCAATTCAA
*
11481176 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
11481199 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
11481221 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:11485825 original size:25 final size:25
Alignment explanation
Indices: 11485797--11485846 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
11485787 TGGAAGAAAA
*
11485797 CTCAAGCATTCTAGAACTATATAGT
1 CTCAAGCATTCCAGAACTATATAGT
11485822 CTCAAGCATTCCAGAACTATATAGT
1 CTCAAGCATTCCAGAACTATATAGT
11485847 GAAACTAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (25 bp):
CTCAAGCATTCCAGAACTATATAGT
Found at i:11486152 original size:3 final size:3
Alignment explanation
Indices: 11486138--11486201 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
11486128 AGACAATTCA
*
11486138 AAT AACT AAT AAT AAG AAT AAT AAT AAAT AAT AAAT AAAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT -AAT -AAT AAT AAT AAT
* *
11486186 -AT ACT ACT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
11486202 ATAAGGAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
2 4 0.08
3 35 0.67
4 13 0.25
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:11486167 original size:26 final size:24
Alignment explanation
Indices: 11486137--11486202 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
11486127 AAGACAATTC
11486137 AAATAACTAATAATAAGAATAATAAT
1 AAATAACTAATAATAA-AATAAT-AT
11486163 AAATAA-TAAATAAATAAAATAATAT
1 AAATAACT-AAT-AATAAAATAATAT
*
11486188 -ACT-ACTAATAATAAA
1 AAATAACTAATAATAAA
11486203 TAAGGAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
22 6 0.17
23 4 0.11
24 3 0.08
25 3 0.08
26 15 0.42
27 5 0.14
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (24 bp):
AAATAACTAATAATAAAATAATAT
Found at i:11487741 original size:24 final size:24
Alignment explanation
Indices: 11487714--11487784 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
11487704 GATTTTGTGA
11487714 CACATCTCTGAATTACTTGATCTG
1 CACATCTCTGAATTACTTGATCTG
* * *
11487738 CACAT-TTTGATTTTC-TGA--T-
1 CACATCTCTGAATTACTTGATCTG
*
11487757 -ACATCTCTGAGTTACTTGATCTG
1 CACATCTCTGAATTACTTGATCTG
11487780 CACAT
1 CACAT
11487785 ACACAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 4 0.11
19 7 0.20
20 4 0.11
22 4 0.11
23 7 0.20
24 9 0.26
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.41
Consensus pattern (24 bp):
CACATCTCTGAATTACTTGATCTG
Found at i:11487762 original size:42 final size:42
Alignment explanation
Indices: 11487703--11487784 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
11487693 TACTCTCTTC
*
11487703 TGATTTTGTGACACATCTCTGAATTACTTGATCTGCACATTT
1 TGATTTTCTGACACATCTCTGAATTACTTGATCTGCACATTT
* *
11487745 TGATTTTCTGATACATCTCTGAGTTACTTGATCTGCACAT
1 TGATTTTCTGACACATCTCTGAATTACTTGATCTGCACAT
11487785 ACACAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.43
Consensus pattern (42 bp):
TGATTTTCTGACACATCTCTGAATTACTTGATCTGCACATTT
Found at i:11495770 original size:5 final size:5
Alignment explanation
Indices: 11495760--11495803 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
11495750 ATTTATCCAT
* * *
11495760 TTTTA TTTTA TTTTA TTTTA TTTTA TATT- TTTTG TTTTA ATTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
11495804 AATTTTCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 3 0.09
5 31 0.91
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:11495797 original size:19 final size:19
Alignment explanation
Indices: 11495760--11495809 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
11495750 ATTTATCCAT
*
11495760 TTTTATTTTATTTTATTTTA
1 TTTTATATT-TTTTATTTTA
*
11495780 TTTTATATTTTTTGTTTTA
1 TTTTATATTTTTTATTTTA
* *
11495799 ATTTAAATTTT
1 TTTTATATTTT
11495810 CTTTTGTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTATATTTTTTATTTTA
Found at i:11505594 original size:5 final size:5
Alignment explanation
Indices: 11505584--11505608 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11505574 TTTTTCTTGC
11505584 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
11505609 TTATTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:11509353 original size:13 final size:13
Alignment explanation
Indices: 11509335--11509360 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11509325 TTCAAACTAC
11509335 TTTTTATTTTTTA
1 TTTTTATTTTTTA
11509348 TTTTTATTTTTTA
1 TTTTTATTTTTTA
11509361 GCAGATTTAA
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:11533039 original size:24 final size:24
Alignment explanation
Indices: 11532962--11533039 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
11532952 TTTTAAATTA
* **
11532962 TTTTACATATTATTTCCTTTAAGT
1 TTTTACATATTATATATTTTAAGT
* * **
11532986 TTTTATGTACATTATATATTTTAAAC
1 TTTTA--CATATTATATATTTTAAGT
11533012 TTTTACATATTATATATTTTAAGT
1 TTTTACATATTATATATTTTAAGT
11533036 TTTT
1 TTTT
11533040 TTTTACATAT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
24 24 0.59
26 17 0.41
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTTACATATTATATATTTTAAGT
Found at i:11533041 original size:26 final size:26
Alignment explanation
Indices: 11532945--11533060 Score: 87
Period size: 28 Copynumber: 4.4 Consensus size: 26
11532935 TGTTTCATTA
* *
11532945 TATATTATTTTAAATTATTTTACATAT
1 TATA-TATTTTAAGTTTTTTTACATAT
* **
11532972 TATTTCCTTTAAGTTTTTATGTAC--AT
1 TATATATTTTAAGTTTTT-T-TACATAT
**
11532998 TATATATTTTAA--ACTTTTACATAT
1 TATATATTTTAAGTTTTTTTACATAT
11533022 TATATATTTTAAGTTTTTTTTTACATAT
1 TATATATTTTAAG--TTTTTTTACATAT
*
11533050 TATGTATTTTA
1 TATATATTTTA
11533061 TATGTTATTC
Statistics
Matches: 68, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
22 3 0.04
23 1 0.01
24 16 0.24
26 21 0.31
27 4 0.06
28 23 0.34
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.59
Consensus pattern (26 bp):
TATATATTTTAAGTTTTTTTACATAT
Found at i:11533112 original size:27 final size:27
Alignment explanation
Indices: 11533056--11533143 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
11533046 ATATTATGTA
* * *
11533056 TTTTATAT-GTTATTCATGTTAATTTTT
1 TTTTATATAG-TATTCATTTTAAATTAT
*
11533083 TTTTATATAGTATTCATTTTAAATTGT
1 TTTTATATAGTATTCATTTTAAATTAT
* * *
11533110 TTTAATACA-TATT-ATTTTGAATTAT
1 TTTTATATAGTATTCATTTTAAATTAT
11533135 TTTATATAT
1 TTT-TATAT
11533144 TAATTACTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
25 13 0.26
26 7 0.14
27 29 0.58
28 1 0.02
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (27 bp):
TTTTATATAGTATTCATTTTAAATTAT
Found at i:11533159 original size:26 final size:26
Alignment explanation
Indices: 11533120--11533170 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
11533110 TTTAATACAT
* *
11533120 ATTATTTTGAATTATTTTATATATTA
1 ATTACTTTGAATTACTTTATATATTA
* *
11533146 ATTACTTTGCATTACTTTATTTATT
1 ATTACTTTGAATTACTTTATATATT
11533171 TATTTTAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (26 bp):
ATTACTTTGAATTACTTTATATATTA
Found at i:11533497 original size:46 final size:45
Alignment explanation
Indices: 11533379--11533560 Score: 139
Period size: 46 Copynumber: 3.8 Consensus size: 45
11533369 ATGTATATTA
* * *
11533379 TTTATTTTAAATTTCTTTTTACATATTATTTATTTTAGACTTTCTATAT
1 TTTATTTTAAATTT-TTTTT--ATATTATTTATTTTA-AATTACTTTAT
* * * *
11533428 GTTATTTTAAATTGTTATATATATTATTTATTTTAAATTACTTTGT
1 TTTATTTTAAATT-TTTTTTATATTATTTATTTTAAATTACTTTAT
* * *
11533474 TTTATTTTAAATTTTTTTGTATATTAATTATTTTAGATTGCTTTAT
1 TTTATTTTAAATTTTTTT-TATATTATTTATTTTAAATTACTTTAT
* * * *
11533520 GCTATTCACTTTAAATTGCTTTTTATAATATCTATTTTAAA
1 --T-TT-ATTTTAAATT-TTTTTTATATTATTTATTTTAAA
11533561 CTTATTTTTA
Statistics
Matches: 106, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
45 3 0.03
46 42 0.40
47 15 0.14
48 1 0.01
49 17 0.16
50 24 0.23
51 4 0.04
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (45 bp):
TTTATTTTAAATTTTTTTTATATTATTTATTTTAAATTACTTTAT
Found at i:11533558 original size:26 final size:27
Alignment explanation
Indices: 11533529--11533591 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
11533519 TGCTATTCAC
*
11533529 TTTAAATTGCTTTTTA-TAATATCTAT
1 TTTAAATTGATTTTTAGTAATATCTAT
* *
11533555 TTTAAACTT-ATTTTTATGTATTATTTAT
1 TTTAAA-TTGATTTTTA-GTAATATCTAT
11533583 TTTAAATTG
1 TTTAAATTG
11533592 TCTCATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 12 0.40
27 4 0.13
28 14 0.47
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (27 bp):
TTTAAATTGATTTTTAGTAATATCTAT
Found at i:11537029 original size:19 final size:19
Alignment explanation
Indices: 11537005--11537051 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11536995 AACGTTTCTT
*
11537005 TTTGCATT-CATTTCATTCA
1 TTTGCATTACATTCCA-TCA
11537024 TTTGCATTACATTCCATCA
1 TTTGCATTACATTCCATCA
*
11537043 TATGCATTA
1 TTTGCATTA
11537052 AGTTTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (19 bp):
TTTGCATTACATTCCATCA
Found at i:11544743 original size:44 final size:44
Alignment explanation
Indices: 11544680--11544791 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 44
11544670 CATCATGGAG
* * * * *
11544680 AATCTTATCTTTTTAAAGTTGCAGCGGAGCAGATTGAAGCCACT
1 AATCTTATCTTTCTGAAGTTGCAGCGGAGCAGATTAAAACCACA
* *
11544724 AATCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTAAAACCACA
1 AATCTTATCTTTCTGAAGTTGCAGCGGAGCAGATTAAAACCACA
* *
11544768 AACCTTATCTTCCTGAAGTTGCAG
1 AATCTTATCTTTCTGAAGTTGCAG
11544792 TAAAGCAGGT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTTATCTTTCTGAAGTTGCAGCGGAGCAGATTAAAACCACA
Found at i:11544849 original size:44 final size:45
Alignment explanation
Indices: 11544765--11544891 Score: 123
Period size: 45 Copynumber: 2.8 Consensus size: 45
11544755 GATTAAAACC
* * * * *
11544765 ACAAACCTTATCTTCCTGAAGTTGCAGT-AAAGCAGGTTGAAG-TA
1 ACAAATCTCATCTCCCTAAAGTTGCAGTGAAA-CAGATTGAAGATA
** * *
11544809 ATGAATCTCATCTCCCTAAAGTTGCAGTGGAATAGATTGAAGATA
1 ACAAATCTCATCTCCCTAAAGTTGCAGTGAAACAGATTGAAGATA
* * *
11544854 ACAAATCTCATTTCCCTGAAGTTGTAGTGAAACAGATT
1 ACAAATCTCATCTCCCTAAAGTTGCAGTGAAACAGATT
11544892 AAAGCTGCAA
Statistics
Matches: 65, Mismatches: 16, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
44 30 0.46
45 35 0.54
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (45 bp):
ACAAATCTCATCTCCCTAAAGTTGCAGTGAAACAGATTGAAGATA
Found at i:11544876 original size:45 final size:45
Alignment explanation
Indices: 11544779--11544891 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
11544769 ACCTTATCTT
* ** *
11544779 CCTGAAGTTGCAGT-AAAGCAGGTTGAAG-TAATGAATCTCATCTC
1 CCTGAAGTTGCAGTGAAA-CAGATTGAAGATAACAAATCTCATTTC
* * *
11544823 CCTAAAGTTGCAGTGGAATAGATTGAAGATAACAAATCTCATTTC
1 CCTGAAGTTGCAGTGAAACAGATTGAAGATAACAAATCTCATTTC
*
11544868 CCTGAAGTTGTAGTGAAACAGATT
1 CCTGAAGTTGCAGTGAAACAGATT
11544892 AAAGCTGCAA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 21 0.38
45 35 0.62
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (45 bp):
CCTGAAGTTGCAGTGAAACAGATTGAAGATAACAAATCTCATTTC
Found at i:11545030 original size:44 final size:44
Alignment explanation
Indices: 11544960--11545076 Score: 144
Period size: 44 Copynumber: 2.7 Consensus size: 44
11544950 CCATGACGAT
* * * *
11544960 TCTTATCTCCCTGAAGTTACAATGGAGCAGACTGAAGCCACTAA
1 TCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGCCACAAA
**
11545004 TCTTATCTCCATGAAGTTGCAGTGGAGCAGGTTGAAGCCACAAA
1 TCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGCCACAAA
* * * *
11545048 CCTTACCTCCTTGAAGTTGTAGTGGAGCA
1 TCTTATCTCCATGAAGTTGCAGTGGAGCA
11545077 AGTTGAAGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGCCACAAA
Found at i:11546741 original size:26 final size:25
Alignment explanation
Indices: 11546707--11546798 Score: 96
Period size: 26 Copynumber: 3.6 Consensus size: 25
11546697 TCATTATATA
11546707 TTATTTTAAATTATTTTACATATTAT
1 TTATTTTAAATT-TTTTACATATTAT
* * * *
11546733 TTCTTTTAAGTTTTTATAGACATTAT
1 TTATTTTAAATTTTT-TACATATTAT
*
11546759 TTATTTTAAA-CTTTTACATATTAT
1 TTATTTTAAATTTTTTACATATTAT
* *
11546783 ATATTTTAAGTTTTTT
1 TTATTTTAAATTTTTT
11546799 TTTTACATAT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
24 16 0.31
25 10 0.19
26 26 0.50
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.61
Consensus pattern (25 bp):
TTATTTTAAATTTTTTACATATTAT
Found at i:11546747 original size:24 final size:24
Alignment explanation
Indices: 11546720--11546797 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
11546710 TTTTAAATTA
*
11546720 TTTTACATATTATTTCTTTTAAGTT
1 TTTTACATATTATTTATTTTAAG-T
* * **
11546745 TTTATAGACATTATTTATTTTAAAC
1 TTT-TACATATTATTTATTTTAAGT
*
11546770 TTTTACATATTATATATTTTAAGT
1 TTTTACATATTATTTATTTTAAGT
11546794 TTTT
1 TTTT
11546798 TTTTTACATA
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
24 20 0.48
25 6 0.14
26 16 0.38
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTACATATTATTTATTTTAAGT
Found at i:11546847 original size:27 final size:27
Alignment explanation
Indices: 11546815--11546871 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11546805 ATATTATGCA
* *
11546815 TTTTATAT-GTTATTCATGTTAAATTGT
1 TTTTATATAG-TATTAATGTTAAACTGT
*
11546842 TTTTATATAGTATTAATTTTAAACTGT
1 TTTTATATAGTATTAATGTTAAACTGT
11546869 TTT
1 TTT
11546872 AATACATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.60
Consensus pattern (27 bp):
TTTTATATAGTATTAATGTTAAACTGT
Found at i:11546881 original size:26 final size:26
Alignment explanation
Indices: 11546833--11546886 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
11546823 GTTATTCATG
* * *
11546833 TTAAATTGTTTTTATATAGTATTAATT
1 TTAAACTGTTTTAATACAGTATT-ATT
11546860 TTAAACTGTTTTAATACA-TATTATT
1 TTAAACTGTTTTAATACAGTATTATT
11546885 TT
1 TT
11546887 GAATTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.21
26 4 0.17
27 15 0.62
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (26 bp):
TTAAACTGTTTTAATACAGTATTATT
Found at i:11547152 original size:36 final size:35
Alignment explanation
Indices: 11547045--11547136 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 35
11547035 TTATTTTCAA
* *
11547045 ATTTT-TGTATATTATTTATCTTAAACTCTTTTAT
1 ATTTTATGTATATTATTTATATTAAACTCTTTTTT
*
11547079 ACGTTATTATATATATTATTTATATTAAACAGT-TTTTTT
1 A--TT-TTATGTATATTATTTATATTAAAC--TCTTTTTT
11547118 ATTTTATGTATATTATTTA
1 ATTTTATGTATATTATTTA
11547137 CTTTAAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
34 1 0.02
36 17 0.35
37 4 0.08
38 19 0.40
39 6 0.12
40 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.60
Consensus pattern (35 bp):
ATTTTATGTATATTATTTATATTAAACTCTTTTTT
Found at i:11547208 original size:22 final size:21
Alignment explanation
Indices: 11547150--11547210 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
11547140 TAAATTTCTT
*
11547150 TTTATATATTATTTATTTTAGAC
1 TTTATATA-TA-TTATTTTAAAC
* * *
11547173 TTTCTATATGTTATTTTAAAT
1 TTTATATATATTATTTTAAAC
11547194 TGTTATATATATTATTT
1 T-TTATATATATTATTT
11547211 ATTTTAAGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 10 0.32
22 14 0.45
23 7 0.23
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTATATATATTATTTTAAAC
Found at i:11551146 original size:15 final size:16
Alignment explanation
Indices: 11551114--11551147 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11551104 ACAAAAGATA
*
11551114 AATAAAGGAATCAAAG
1 AATAAAGGAATAAAAG
11551130 AATAAAGGAA-AAAAG
1 AATAAAGGAATAAAAG
11551145 AAT
1 AAT
11551148 GCTCGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.68, C:0.03, G:0.18, T:0.12
Consensus pattern (16 bp):
AATAAAGGAATAAAAG
Found at i:11554854 original size:39 final size:39
Alignment explanation
Indices: 11554811--11554889 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
11554801 TACAAATAAA
*
11554811 TAACTTAAAATTTTTGTTTATTTAAATTTTCAAAAATAT
1 TAACTTAAAAATTTTGTTTATTTAAATTTTCAAAAATAT
11554850 TAACTTAAAAATTTTGTTTATTTAAATTTTCAAAAATAT
1 TAACTTAAAAATTTTGTTTATTTAAATTTTCAAAAATAT
11554889 T
1 T
11554890 CTCTAATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (39 bp):
TAACTTAAAAATTTTGTTTATTTAAATTTTCAAAAATAT
Found at i:11561597 original size:50 final size:50
Alignment explanation
Indices: 11561537--11561865 Score: 335
Period size: 50 Copynumber: 6.6 Consensus size: 50
11561527 GATTAACTGG
* * * * * *
11561537 AAAGCCTTTGTGCCATAATATCTAGAAAGCCTTTGTAGTTAATCTTATGA
1 AAAGCCTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCTAATCTTATGA
* * *
11561587 AAAGCTTTTGTGGTGTATTGTCTGGAAAGCCTTTGTGGCTAATCTTATGA
1 AAAGCCTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCTAATCTTATGA
* * * * *
11561637 AAAACCTTTATGGCATATTATTTGGAAAGCCTTTATGGCTAATCTTATGA
1 AAAGCCTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCTAATCTTATGA
* * *
11561687 AAA-CTCTTTGTGGCGTATTATATGTAAATCCTTTGTGGCTTATTATC-TA-G-
1 AAAGC-CTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGC-TA--ATCTTATGA
* * * *
11561737 AAAGCCTTTGTGGCGTATTATCTAGAAAGCCTTTGTCGCTAATATTAAGA
1 AAAGCCTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCTAATCTTATGA
* * *
11561787 GAAGCCTTTGTGGCGTATTGTCTGGAAAGCCTTTGTGGCTAATCTTATGC
1 AAAGCCTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCTAATCTTATGA
* * *
11561837 AAAG-CTATTGTGGCATATTGTATGGAAAG
1 AAAGCCT-TTGTGGCGTATTATCTGGAAAG
11561866 ATTGTTGATG
Statistics
Matches: 231, Mismatches: 39, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 6 0.03
50 212 0.92
51 4 0.02
52 2 0.01
53 3 0.01
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (50 bp):
AAAGCCTTTGTGGCGTATTATCTGGAAAGCCTTTGTGGCTAATCTTATGA
Found at i:11561758 original size:25 final size:25
Alignment explanation
Indices: 11561536--11561825 Score: 181
Period size: 25 Copynumber: 11.6 Consensus size: 25
11561526 GGATTAACTG
* * *
11561536 GAAAGCCTTTGTGCCATAATATCTA
1 GAAAGCCTTTGTGGCGTATTATCTA
* *
11561561 GAAAGCCTTTGT--AGT-TAATCTTA
1 GAAAGCCTTTGTGGCGTATTATC-TA
* * * *
11561584 TGAAAAGCTTTTGTGGTGTATTGTCTG
1 -G-AAAGCCTTTGTGGCGTATTATCTA
11561611 GAAAGCCTTTGTGGC-TA--ATCTTA
1 GAAAGCCTTTGTGGCGTATTATC-TA
* * * * *
11561634 TGAAAAACCTTTATGGCATATTATTTG
1 -G-AAAGCCTTTGTGGCGTATTATCTA
*
11561661 GAAAGCCTTTATGGC-TA--ATCTTA
1 GAAAGCCTTTGTGGCGTATTATC-TA
* *
11561684 TGAAAACTCTTTGTGGCGTATTATAT-
1 -GAAAGC-CTTTGTGGCGTATTATCTA
* *
11561710 GTAAATCCTTTGTGGCTTATTATCTA
1 G-AAAGCCTTTGTGGCGTATTATCTA
11561736 GAAAGCCTTTGTGGCGTATTATCTA
1 GAAAGCCTTTGTGGCGTATTATCTA
* *
11561761 GAAAGCCTTTGTCGC-TAATAT-TAA
1 GAAAGCCTTTGTGGCGTATTATCT-A
* *
11561785 GAGAAGCCTTTGTGGCGTATTGTCTG
1 GA-AAGCCTTTGTGGCGTATTATCTA
11561811 GAAAGCCTTTGTGGC
1 GAAAGCCTTTGTGGC
11561826 TAATCTTATG
Statistics
Matches: 207, Mismatches: 34, Indels: 48
0.72 0.12 0.17
Matches are distributed among these distances:
22 7 0.03
23 6 0.03
24 19 0.09
25 145 0.70
26 17 0.08
27 6 0.03
28 7 0.03
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (25 bp):
GAAAGCCTTTGTGGCGTATTATCTA
Found at i:11561825 original size:75 final size:74
Alignment explanation
Indices: 11561587--11561825 Score: 225
Period size: 75 Copynumber: 3.2 Consensus size: 74
11561577 AATCTTATGA
* * * * * *
11561587 AAAGCTTTTGTGGTGTATTGTCTGGAAAGCCTTTGTGGCTAATCTTATGAAAAACCTTTATGGCA
1 AAAGCCTTTGTGGCGTATTATCTAGAAAGCCTTTGTGGCTAATATTATG-AAAACCTTTGTGGCA
*
11561652 TATTATTTGG
65 TATTATCTGG
* * * *
11561662 AAAGCCTTTATGGC-TA--ATCTTATGAAAACTCTTTGTGGCGTATTA-TATGTAAATCCTTTGT
1 AAAGCCTTTGTGGCGTATTATC-TA-GAAAGC-CTTTGTGGC-TAATATTATG-AAAACCTTTGT
* *
11561723 GGCTTATTATCTAG
61 GGCATATTATCTGG
* * * *
11561737 AAAGCCTTTGTGGCGTATTATCTAGAAAGCCTTTGTCGCTAATATTAAGAGAAGCCTTTGTGGCG
1 AAAGCCTTTGTGGCGTATTATCTAGAAAGCCTTTGTGGCTAATATTATGA-AAACCTTTGTGGCA
*
11561802 TATTGTCTGG
65 TATTATCTGG
11561812 AAAGCCTTTGTGGC
1 AAAGCCTTTGTGGC
11561826 TAATCTTATG
Statistics
Matches: 132, Mismatches: 23, Indels: 18
0.76 0.13 0.10
Matches are distributed among these distances:
72 2 0.02
73 1 0.01
74 12 0.09
75 102 0.77
76 10 0.08
77 2 0.02
78 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (74 bp):
AAAGCCTTTGTGGCGTATTATCTAGAAAGCCTTTGTGGCTAATATTATGAAAACCTTTGTGGCAT
ATTATCTGG
Found at i:11561841 original size:75 final size:73
Alignment explanation
Indices: 11561611--11561850 Score: 236
Period size: 75 Copynumber: 3.2 Consensus size: 73
11561601 GTATTGTCTG
* * * *
11561611 GAAAGCCTTTGTGGCTAATCTTATGAAAAACCTTTATGGCATATTATTTGGAAAGCCTTTATGGC
1 GAAAGCCTTTGTGGCTAATATTATG-AAAACCTTTGTGGCATATTATCTGGAAAGCCTTTGTGGC
11561676 TAATCTTAT
65 TAATCTTAT
* * * * *
11561685 GAAAACTCTTTGTGGCGTATTA-TATGTAAATCCTTTGTGGCTTATTATCTAGAAAGCCTTTGTG
1 GAAAGC-CTTTGTGGC-TAATATTATG-AAAACCTTTGTGGCATATTATCTGGAAAGCCTTTGTG
11561749 GCGTATTATC-TA-
63 GC-TA--ATCTTAT
* * * * *
11561761 GAAAGCCTTTGTCGCTAATATTAAGAGAAGCCTTTGTGGCGTATTGTCTGGAAAGCCTTTGTGGC
1 GAAAGCCTTTGTGGCTAATATTATGA-AAACCTTTGTGGCATATTATCTGGAAAGCCTTTGTGGC
11561826 TAATCTTAT
65 TAATCTTAT
11561835 GCAAAG-CTATTGTGGC
1 G-AAAGCCT-TTGTGGC
11561851 ATATTGTATG
Statistics
Matches: 136, Mismatches: 19, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
72 3 0.02
73 2 0.01
74 15 0.11
75 101 0.74
76 10 0.07
77 2 0.01
78 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.37
Consensus pattern (73 bp):
GAAAGCCTTTGTGGCTAATATTATGAAAACCTTTGTGGCATATTATCTGGAAAGCCTTTGTGGCT
AATCTTAT
Found at i:11561860 original size:25 final size:24
Alignment explanation
Indices: 11561582--11561865 Score: 141
Period size: 25 Copynumber: 11.4 Consensus size: 24
11561572 TAGTTAATCT
* * *
11561582 TATGAAAAGCTTTTGTGGTGTATTG
1 TATGGAAAGCCTTTGTGG-CTATTG
*
11561607 TCTGGAAAGCCTTTGTGGCTAATCT-
1 TATGGAAAGCCTTTGTGGCT-AT-TG
* * * *
11561632 TATGAAAAACCTTTATGGCATATTA
1 TATGGAAAGCCTTTGTGGC-TATTG
* *
11561657 TTTGGAAAGCCTTTATGGCTAATCT-
1 TATGGAAAGCCTTTGTGGCT-AT-TG
* *
11561682 TAT-GAAAACTCTTTGTGGCGTATTA
1 TATGGAAAGC-CTTTGTGGC-TATTG
* * *
11561707 TATGTAAATCCTTTGTGGCTTATTA
1 TATGGAAAGCCTTTGTGGC-TATTG
* * *
11561732 TCTAGAAAGCCTTTGTGGCGTATTA
1 TATGGAAAGCCTTTGTGGC-TATTG
* * *
11561757 TCTAGAAAGCCTTTGTCGCTAATAT-
1 TATGGAAAGCCTTTGTGGCT-AT-TG
*
11561782 TA-AGAGAAGCCTTTGTGGCGTATTG
1 TATGGA-AAGCCTTTGTGGC-TATTG
*
11561807 TCTGGAAAGCCTTTGTGGCTAATCT-
1 TATGGAAAGCCTTTGTGGCT-AT-TG
*
11561832 TATGCAAAG-CTATTGTGGCATATTG
1 TATGGAAAGCCT-TTGTGGC-TATTG
11561857 TATGGAAAG
1 TATGGAAAG
11561866 ATTGTTGATG
Statistics
Matches: 208, Mismatches: 30, Indels: 42
0.74 0.11 0.15
Matches are distributed among these distances:
24 18 0.09
25 176 0.85
26 14 0.07
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (24 bp):
TATGGAAAGCCTTTGTGGCTATTG
Found at i:11563743 original size:79 final size:81
Alignment explanation
Indices: 11563611--11563790 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 81
11563601 TGATGTCCAG
*
11563611 GCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGC
1 GCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGC
*
11563675 GAGATACTA-ATTCCGA
66 GAGATACTATA-ACCGA
* * * **
11563691 GCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTG
1 GCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTG
* *
11563753 CGAGTTACTATAACCGG
65 CGAGATACTATAACCGA
*
11563770 GCTATGTCCCGAAGGCATTTG
1 GCTAAGTCCCGAAGGCATTTG
11563791 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 57 0.66
80 28 0.33
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
GCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGC
GAGATACTATAACCGA
Found at i:11563797 original size:40 final size:40
Alignment explanation
Indices: 11563610--11563790 Score: 217
Period size: 40 Copynumber: 4.5 Consensus size: 40
11563600 ATGATGTCCA
* * * *
11563610 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCG
* * *
11563650 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
11563690 AGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
11563729 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
11563769 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
11563791 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:11563812 original size:79 final size:79
Alignment explanation
Indices: 11563659--11563823 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
11563649 GGACTAAGAT
* **
11563659 CCGAAGGCATTTGTGCGAGATACTAATTCCGAGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
11563724 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
11563738 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* * *
11563801 TATATTC-GGTTAAATT
63 TAAATCCGGGTTAAATC
11563817 CCGAAGG
1 CCGAAGG
11563824 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:11568108 original size:46 final size:46
Alignment explanation
Indices: 11568055--11568230 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
11568045 TATTTGGGCA
11568055 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
** * * * *
11568101 TCCGAACTCGTTGAGTTGAGTATGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
11568146 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
11568194 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11568231 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 61 0.57
47 27 0.25
48 4 0.04
50 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:11568210 original size:93 final size:93
Alignment explanation
Indices: 11568051--11568223 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
11568041 GGGATATTTG
*
11568051 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
*
11568116 TTGAGTATGAGTTCGTGAGATGTAACTA
66 TTGAGTACGAGTTCGTGAGATGTAACTA
* * * *
11568144 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
*
11568209 TTGAGTCCGAGTTCG
66 TTGAGTACGAGTTCG
11568224 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTACGAGTTCGTGAGATGTAACTA
Found at i:11571194 original size:15 final size:15
Alignment explanation
Indices: 11571155--11571234 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
11571145 GTATCTTGGG
* *
11571155 TTTCTTTATCCTAGA
1 TTTCTTTATTCTGGA
*
11571170 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
11571185 TTTCTTTATTCCGGGA
1 TTTCTTTATT-CTGGA
*
11571201 -TTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
11571215 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
11571229 TTTCTT
1 TTTCTT
11571235 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
13 1 0.02
14 12 0.23
15 33 0.63
16 6 0.12
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:11571224 original size:30 final size:31
Alignment explanation
Indices: 11571146--11571225 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
11571136 CATAGTATCG
* * *
11571146 TATCTTGGGTTTCTTTA-TCCTAGATCTCTT
1 TATCTTGGATTTCTTTATTCCGAGATCTCTC
*
11571176 TAT-TCTGGATTTCTTTATTCCGGGAT-TCTC
1 TATCT-TGGATTTCTTTATTCCGAGATCTCTC
11571206 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
11571226 GGTTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 35 0.81
31 7 0.16
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.54
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCGAGATCTCTC
Found at i:11573778 original size:93 final size:93
Alignment explanation
Indices: 11573619--11573791 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
11573609 GGGATATTTG
* * * * *
11573619 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
11573684 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * **
11573712 GGCATCCGATCTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGGTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
11573777 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
11573792 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:11573790 original size:46 final size:46
Alignment explanation
Indices: 11573624--11573798 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
11573614 ATTTGGGCAT
* * *
11573624 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * * *
11573670 CTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
* * * *
11573715 ATCCGATCTTGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
** *
11573763 CCGAGGTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11573799 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 58 0.57
47 24 0.24
48 5 0.05
50 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:11585041 original size:31 final size:30
Alignment explanation
Indices: 11584996--11585078 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 30
11584986 TTTGTGAGAG
* *
11584996 TACAGGGTATAAATATGCAAATGTGATAGAT
1 TACAAGGTA-AAATATGCAAATATGATAGAT
*
11585027 TACAAGGTACAAATATGAAAATATGATAGAT
1 TACAAGGTA-AAATATGCAAATATGATAGAT
* * *
11585058 CACATGGTATAATATGCAAAT
1 TACAAGGTAAAATATGCAAAT
11585079 CTAAATGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 10 0.23
31 34 0.77
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (30 bp):
TACAAGGTAAAATATGCAAATATGATAGAT
Found at i:11590518 original size:21 final size:20
Alignment explanation
Indices: 11590494--11590533 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11590484 ACTTGTATAA
*
11590494 CTATCATCAAACATTCAAAAT
1 CTATCAACAAAC-TTCAAAAT
*
11590515 CTATCAAGAAACTTCAAAA
1 CTATCAACAAACTTCAAAA
11590534 CTCATGGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.50, C:0.23, G:0.03, T:0.25
Consensus pattern (20 bp):
CTATCAACAAACTTCAAAAT
Found at i:11590791 original size:12 final size:12
Alignment explanation
Indices: 11590774--11590800 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11590764 TTCAGTTTTG
11590774 TTTTAATTATCA
1 TTTTAATTATCA
11590786 TTTTAATTATCA
1 TTTTAATTATCA
11590798 TTT
1 TTT
11590801 ACCATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTAATTATCA
Found at i:11593068 original size:5 final size:5
Alignment explanation
Indices: 11593058--11593095 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
11593048 TTTGTTTTAG
*
11593058 ATTTT ATTTT ATTTT ATTTT A-TTT -TTGT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
11593096 TGGAAGTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 5 0.17
5 24 0.83
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:11593090 original size:13 final size:13
Alignment explanation
Indices: 11593058--11593097 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
11593048 TTTGTTTTAG
*
11593058 ATTTTATTTTATTTT
1 ATTTTA-TTT-TTGT
11593073 ATTTTATTTTTGT
1 ATTTTATTTTTGT
11593086 ATTTTATTTTTG
1 ATTTTATTTTTG
11593098 GAAGTGAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 15 0.62
14 3 0.12
15 6 0.25
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (13 bp):
ATTTTATTTTTGT
Found at i:11593781 original size:21 final size:21
Alignment explanation
Indices: 11593757--11593800 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11593747 ACCCTCATAC
11593757 GGGCGTGTCCCTGCT-TCACAT
1 GGGCGTGTCCCT-CTATCACAT
*
11593778 GGGCGTGTGCCTCTATCACAT
1 GGGCGTGTCCCTCTATCACAT
11593799 GG
1 GG
11593801 CCATGTGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.11, C:0.30, G:0.32, T:0.27
Consensus pattern (21 bp):
GGGCGTGTCCCTCTATCACAT
Found at i:11599333 original size:23 final size:23
Alignment explanation
Indices: 11599305--11599398 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
11599295 ATGTGTGTAT
* *
11599305 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
11599328 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
11599351 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
11599374 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
11599397 CT
1 CT
11599399 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:11603839 original size:23 final size:23
Alignment explanation
Indices: 11603811--11603904 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
11603801 ATGTGTGTAT
* *
11603811 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
11603834 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
11603857 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
11603880 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
11603903 CT
1 CT
11603905 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:11605603 original size:14 final size:15
Alignment explanation
Indices: 11605584--11605612 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11605574 TAAAATGTTG
11605584 AAAAAAA-TATTTTT
1 AAAAAAATTATTTTT
11605598 AAAAAAATTATTTTT
1 AAAAAAATTATTTTT
11605613 GTATACATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAAAAAATTATTTTT
Found at i:11609726 original size:15 final size:15
Alignment explanation
Indices: 11609708--11609738 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11609698 TAAAAATATA
11609708 ATAATAGTAACAAAT
1 ATAATAGTAACAAAT
*
11609723 ATAATAGTAATAAAT
1 ATAATAGTAACAAAT
11609738 A
1 A
11609739 GAAAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (15 bp):
ATAATAGTAACAAAT
Found at i:11609888 original size:21 final size:21
Alignment explanation
Indices: 11609863--11609911 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
11609853 ATAAAAATAA
11609863 AATAAAAATAAAAATAATAGT
1 AATAAAAATAAAAATAATAGT
** **
11609884 AATAATGATATTAATAATAGT
1 AATAAAAATAAAAATAATAGT
11609905 AATAAAA
1 AATAAAA
11609912 CAGAGAAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
AATAAAAATAAAAATAATAGT
Found at i:11610028 original size:3 final size:3
Alignment explanation
Indices: 11610022--11610140 Score: 91
Period size: 3 Copynumber: 39.7 Consensus size: 3
11610012 ATAGTTGTAG
* * * * * * *
11610022 TAA TAA TAA TAG TAA GAA AAA TAG TGA TAA T-A TAA CAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
11610069 T-A TAA CAA -AA TAA TAA TAA TAG TCACG GAGA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-A-A TA-A TAA TAA TAA TAA TAA
11610115 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
11610141 TAAATAAAAA
Statistics
Matches: 92, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
2 6 0.07
3 82 0.89
4 3 0.03
5 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:11610066 original size:20 final size:21
Alignment explanation
Indices: 11610027--11610066 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11610017 TGTAGTAATA
*
11610027 ATAATAGTAAGAAAAATAGTG
1 ATAATAGTAACAAAAATAGTG
*
11610048 ATAATA-TAACAATAATAGT
1 ATAATAGTAACAAAAATAGT
11610067 AATATAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAATAGTAACAAAAATAGTG
Found at i:11610069 original size:17 final size:16
Alignment explanation
Indices: 11610048--11610086 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
11610038 AAAAATAGTG
11610048 ATAATATAACAATAATA
1 ATAATATAACAA-AATA
*
11610065 GTAATATAACAAAATA
1 ATAATATAACAAAATA
11610081 ATAATA
1 ATAATA
11610087 ATAGTCACGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (16 bp):
ATAATATAACAAAATA
Found at i:11610082 original size:19 final size:17
Alignment explanation
Indices: 11610048--11610152 Score: 79
Period size: 18 Copynumber: 5.8 Consensus size: 17
11610038 AAAAATAGTG
11610048 ATAATATAACAATAATA
1 ATAATATAACAATAATA
*
11610065 GTAATATAACAAAATAATA
1 ATAATATAAC--AATAATA
*
11610084 ATAATAGTCACGGAGATAATA
1 ATAATA-TAAC--A-ATAATA
*
11610105 ATAATAATAATAATAATA
1 ATAAT-ATAACAATAATA
*
11610123 ATAATAATAATAATAAT-
1 ATAAT-ATAACAATAATA
*
11610140 ATAA-ATAAAAATA
1 ATAATATAACAATA
11610153 TAAACAACAA
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
15 8 0.11
17 13 0.17
18 23 0.31
19 13 0.17
20 4 0.05
21 13 0.17
22 1 0.01
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.29
Consensus pattern (17 bp):
ATAATATAACAATAATA
Found at i:11610929 original size:12 final size:12
Alignment explanation
Indices: 11610912--11610936 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11610902 TTGGGTTAGT
11610912 GTTTTGGGCTAA
1 GTTTTGGGCTAA
11610924 GTTTTGGGCTAA
1 GTTTTGGGCTAA
11610936 G
1 G
11610937 GGTTTTGGGT
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:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:11611161 original size:12 final size:13
Alignment explanation
Indices: 11611141--11611177 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
11611131 TTATTTTACA
11611141 TATTATTTATTTT
1 TATTATTTATTTT
11611154 TATT-TTTA-TTT
1 TATTATTTATTTT
*
11611165 TATAATTTATTTT
1 TATTATTTATTTT
11611178 AAATTTGTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 6 0.29
12 8 0.38
13 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTATTTATTTT
Found at i:11611353 original size:15 final size:18
Alignment explanation
Indices: 11611315--11611358 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
11611305 CTTATCACAT
11611315 TTTATTTATTTTAATTTGG
1 TTTATTT-TTTTAATTTGG
11611334 TTTATTTTTTT-ATTT-G
1 TTTATTTTTTTAATTTGG
11611350 TTATATTTT
1 TT-TATTTT
11611359 AAAATTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.12
17 10 0.42
18 4 0.17
19 7 0.29
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (18 bp):
TTTATTTTTTTAATTTGG
Found at i:11613423 original size:24 final size:24
Alignment explanation
Indices: 11613396--11613442 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
11613386 ATCAAAGGGT
* *
11613396 AGAAAAACTAGAGCAACTTCAAAG
1 AGAAAAACAAGAGCAACTGCAAAG
**
11613420 AGAAATGCAAGAGCAACTGCAAA
1 AGAAAAACAAGAGCAACTGCAAA
11613443 TGCAAATGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.53, C:0.17, G:0.19, T:0.11
Consensus pattern (24 bp):
AGAAAAACAAGAGCAACTGCAAAG
Found at i:11613449 original size:24 final size:24
Alignment explanation
Indices: 11613405--11613450 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11613395 TAGAAAAACT
* *
11613405 AGAGCAACTTCAAAGAGAAATGCA
1 AGAGCAACTGCAAAGACAAATGCA
11613429 AGAGCAACTGCAAATG-CAAATG
1 AGAGCAACTGCAAA-GACAAATG
11613451 TAAATGCAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (24 bp):
AGAGCAACTGCAAAGACAAATGCA
Found at i:11616668 original size:9 final size:9
Alignment explanation
Indices: 11616656--11616703 Score: 80
Period size: 9 Copynumber: 5.3 Consensus size: 9
11616646 AAAAAAAATC
11616656 AAAAATTAA
1 AAAAATTAA
11616665 AAAAATTAA
1 AAAAATTAA
11616674 AAAAATTAA
1 AAAAATTAA
11616683 AAAAATTAA
1 AAAAATTAA
11616692 AAATAA-TAA
1 AAA-AATTAA
11616701 AAA
1 AAA
11616704 CAAAACAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
9 36 0.95
10 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATTAA
Found at i:11616668 original size:16 final size:16
Alignment explanation
Indices: 11616647--11616708 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
11616637 TTGAGACCCA
11616647 AAAAAAATCAAAAATT
1 AAAAAAATCAAAAATT
*
11616663 AAAAAAATTAAAAAAATT
1 AAAAAAA-T-CAAAAATT
*
11616681 AAAAAAATTAAAAA-T
1 AAAAAAATCAAAAATT
11616696 AATAAAAA-CAAAA
1 AA-AAAAATCAAAA
11616709 CAAAAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 7 0.17
16 17 0.43
17 2 0.05
18 14 0.35
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAAATCAAAAATT
Found at i:11616669 original size:18 final size:17
Alignment explanation
Indices: 11616646--11616703 Score: 71
Period size: 18 Copynumber: 3.3 Consensus size: 17
11616636 CTTGAGACCC
* * *
11616646 AAAAAAAATCAAAAATT
1 AAAAAAATTAAAAAAAT
11616663 AAAAAAATTAAAAAAATT
1 AAAAAAATTAAAAAAA-T
11616681 AAAAAAATTAAAAATAAT
1 AAAAAAATTAAAAA-AAT
11616699 AAAAA
1 AAAAA
11616704 CAAAACAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
17 13 0.36
18 21 0.58
19 2 0.06
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAAAATTAAAAAAAT
Found at i:11616713 original size:27 final size:26
Alignment explanation
Indices: 11616646--11616724 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 26
11616636 CTTGAGACCC
*
11616646 AAAAAAAATCAAAAATTAAAAAAATT
1 AAAAAAAAACAAAAATTAAAAAAATT
11616672 AAAAAAATTAA-AAAAATTAAAAATAA-T
1 AAAAAAA--AACAAAAATTAAAAA-AATT
*
11616699 AAAAACAAAACAAAAAATAATAAAAA
1 AAAAA-AAAACAAAAATTAA-AAAAA
11616725 GGAAGAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
26 9 0.20
27 28 0.62
28 8 0.18
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (26 bp):
AAAAAAAAACAAAAATTAAAAAAATT
Found at i:11616723 original size:10 final size:9
Alignment explanation
Indices: 11616646--11616724 Score: 63
Period size: 9 Copynumber: 8.8 Consensus size: 9
11616636 CTTGAGACCC
11616646 AAAAAAAAT
1 AAAAAAAAT
* *
11616655 -CAAAAATT
1 AAAAAAAAT
*
11616663 AAAAAAATT
1 AAAAAAAAT
*
11616672 AAAAAAATT
1 AAAAAAAAT
*
11616681 AAAAAAATT
1 AAAAAAAAT
*
11616690 AAAAATAAT
1 AAAAAAAAT
11616699 AAAAACAAA-
1 AAAAA-AAAT
*
11616708 ACAAAAAAT
1 AAAAAAAAT
11616717 AATAAAAA
1 AA-AAAAA
11616725 GGAAGAAAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
8 9 0.16
9 42 0.72
10 7 0.12
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:11616738 original size:24 final size:21
Alignment explanation
Indices: 11616681--11616724 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11616671 TAAAAAAATT
**
11616681 AAAAAAATTAAAAATAATAAA
1 AAAAAAACAAAAAATAATAAA
*
11616702 AACAAAACAAAAAATAATAAA
1 AAAAAAACAAAAAATAATAAA
11616723 AA
1 AA
11616725 GGAAGAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.14
Consensus pattern (21 bp):
AAAAAAACAAAAAATAATAAA
Found at i:11618183 original size:44 final size:44
Alignment explanation
Indices: 11618134--11618318 Score: 221
Period size: 44 Copynumber: 4.2 Consensus size: 44
11618124 TAGCCACTAG
* * *
11618134 CTTATCTCTCTGAGGTAGCAAAGGAGCATACTAAAGATTGTAGC
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGT
* * *
11618178 CTTATCTCTCTGAGGTAGCAAGGGAACAGGCTGAAA-ATTATAGT
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACT-AAAGATTGTAGT
*
11618222 CTTATCT-TCCTGAGGTAGCAAGGGAGCAGGCTAAAGATTGTAGT
1 CTTATCTCT-CTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGT
* * * *
11618266 CTTATCTTTCTGAGGTAACAAGGGAGCAGACTGAGGATTGTAGAT
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAG-T
*
11618311 CTTGTCTC
1 CTTATCTC
11618319 CTCGAGATAG
Statistics
Matches: 122, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
43 4 0.03
44 107 0.88
45 11 0.09
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTAAAGATTGTAGT
Found at i:11618248 original size:88 final size:88
Alignment explanation
Indices: 11618134--11618299 Score: 244
Period size: 88 Copynumber: 1.9 Consensus size: 88
11618124 TAGCCACTAG
* *
11618134 CTTATCTCTCTGAGGTAGCAAAGGAGCATACTAAAGATTGTAGCCTTATCTCTCTGAGGTAGCAA
1 CTTATCTCTCTGAGGTAGCAAAGGAGCAGACTAAAGATTGTAGCCTTATCTCTCTGAGGTAACAA
*
11618199 GGGAACAGGCTGAAAATTATAGT
66 GGGAACAGACTGAAAATTATAGT
* * * *
11618222 CTTATCT-TCCTGAGGTAGCAAGGGAGCAGGCTAAAGATTGTAGTCTTATCTTTCTGAGGTAACA
1 CTTATCTCT-CTGAGGTAGCAAAGGAGCAGACTAAAGATTGTAGCCTTATCTCTCTGAGGTAACA
*
11618286 AGGGAGCAGACTGA
65 AGGGAACAGACTGA
11618300 GGATTGTAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
87 1 0.01
88 68 0.99
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (88 bp):
CTTATCTCTCTGAGGTAGCAAAGGAGCAGACTAAAGATTGTAGCCTTATCTCTCTGAGGTAACAA
GGGAACAGACTGAAAATTATAGT
Found at i:11618432 original size:44 final size:44
Alignment explanation
Indices: 11618369--11618469 Score: 175
Period size: 44 Copynumber: 2.3 Consensus size: 44
11618359 ATCTTTCCGA
*
11618369 GGTAGTAAGGGAGTAGGTTTTAGCCACCAGCCTTTTCTCTCTAG
1 GGTAGCAAGGGAGTAGGTTTTAGCCACCAGCCTTTTCTCTCTAG
* *
11618413 GGTAGCAAGGGCGTAGGTTTTAGCCACCAGCCTTTTCTCTCTGG
1 GGTAGCAAGGGAGTAGGTTTTAGCCACCAGCCTTTTCTCTCTAG
11618457 GGTAGCAAGGGAG
1 GGTAGCAAGGGAG
11618470 CAAGCTGAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.20, C:0.21, G:0.32, T:0.28
Consensus pattern (44 bp):
GGTAGCAAGGGAGTAGGTTTTAGCCACCAGCCTTTTCTCTCTAG
Found at i:11618727 original size:177 final size:176
Alignment explanation
Indices: 11618431--11618964 Score: 573
Period size: 177 Copynumber: 3.0 Consensus size: 176
11618421 GGGCGTAGGT
* * * *
11618431 TTTAGCCACCAGCCTTTTC-TCTCTGGGGTAGCAAGGGAGCAAGCTGAAGATTGTAGC-CTTACC
1 TTTAGCCACCAGCCTTATCTTC-CTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTA-CTCTTATC
* *
11618494 TTCCTAAGGTAGCAAGGGAGAAGACTGAGGATTGTAGATCTTGTCTCCTCGAGATAGTAGTGGGG
64 TTCCTAAGGTAGCAAGGGAGTAGACTGAAGATTGTAGATCTTGTCTCCTCGAGATAGTAGTGGGG
* *
11618559 TAGATTGAAAATGGCGAATCTTATCTTTCCAAGGTAGCAATGGAGCAGA
129 AAGATTGAAAATGGCGAATCTTATCTTCCCAAGGTAG-AATGGAGCAGA
* * * *
11618608 TTTAGCCACCTGCCTTATCTTCCTGAGGTAGTAAAGGAGCAGGCCGAAGATTGTACTCTTATCTT
1 TTTAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTACTCTTATCTT
** * * * * *
11618673 CCTAAGGTAGCAAGAAAGTAGATTGAAGATTGTAGATCTTATCTCC-CTGAGATAGCAGTGGAGC
66 CCTAAGGTAGCAAGGGAGTAGACTGAAGATTGTAGATCTTGTCTCCTC-GAGATAGTAGTGGGGA
* * *
11618737 AGA-TCAAAGATAGCGAATCTTATCTTCCCGAAGTTGTAG--GGGAGCAGA
130 AGATTGAAA-ATGGCGAATCTTATCTTCCC-AAG--GTAGAATGGAGCAGA
* * *
11618785 TTTTAGCCACCAGCCTTAT-TTCCCTGAGGTAGCAAGGGAACAGGCTGAAGATTGTAGTATTATC
1 -TTTAGCCACCAGCCTTATCTT-CCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTACTCTTATC
* * * * * *
11618849 TTCTTGAGGTAGCAAGGGAGTAGACTGATGATT-CAGAT-TTGGTCTCTTCAAGATAGTAGTGGG
64 TTCCTAAGGTAGCAAGGGAGTAGACTGAAGATTGTAGATCTT-GTCTCCTCGAGATAGTAGTGGG
* * * * *
11618912 AAAGATCGAAAGTGACGAATCTTATCTTCCCAAGGTAGTATGGGAGCAGA
128 GAAGATTGAAAATGGCGAATCTTATCTTCCCAAGGTAGAAT-GGAGCAGA
11618962 TTT
1 TTT
11618965 TAAGTCAGTA
Statistics
Matches: 294, Mismatches: 48, Indels: 31
0.79 0.13 0.08
Matches are distributed among these distances:
174 4 0.01
176 14 0.05
177 183 0.62
178 89 0.30
180 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (176 bp):
TTTAGCCACCAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTACTCTTATCTT
CCTAAGGTAGCAAGGGAGTAGACTGAAGATTGTAGATCTTGTCTCCTCGAGATAGTAGTGGGGAA
GATTGAAAATGGCGAATCTTATCTTCCCAAGGTAGAATGGAGCAGA
Found at i:11619067 original size:133 final size:131
Alignment explanation
Indices: 11618928--11619408 Score: 497
Period size: 132 Copynumber: 3.6 Consensus size: 131
11618918 CGAAAGTGAC
* * * *
11618928 GAATCTTATCTTCCCAAGGTAGTATGGGAGCAGATTTTAAGTCAGTAGCCTTGTCTCCCTGAGCA
1 GAATCTTATCTTCCCAAGGTAGTAGGGGAGCAGA-TTTAAGCCACTAGCCTTATCTCCCTGAGCA
* *
11618993 ACAGTGGAGTAAGCTAAAGATTGTAGAAATTTTCTCCCTGAGCAGCAGTGGAGCAGATCAAAGAC
65 ACAGTGGAG-AAGCTGAAGATTGTAGAAATTTTCTCCCTGAGCAGCAGTGGAGCAGATCGAAGAC
11619058 GGT
129 GGT
*
11619061 GAATCTTATCTT-CCAGAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCA
1 GAATCTTATCTTCCCA-AGGTAGTAGGGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCA
* ** * * * * *
11619125 ACAGTGGAGCAGGCTGAAGATTGTAGATCTTATCT-CTTGAAGCAGTAATGGAGTAGATCGAAGA
65 ACAGTGGAG-AAGCTGAAGATTGTAGAAATTTTCTCCCTG-AGCAGCAGTGGAGCAGATCGAAGA
*
11619189 TGGT
128 CGGT
* * * * ** * *
11619193 GAATCTTATCTTCTCGAGGTAGTAGGGGAGTAGATTTAAGCCACCAATCTTATCTTCCTGAAGTA
1 GAATCTTATCTTCCCAAGGTAGTAGGGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTG-AGCA
* *
11619258 GCAAG-GGAGCAGACTGAAGATTGT--AAATCTTATCTCCCTGAGCAGCAGTGGAGCAGATCGAA
65 AC-AGTGGAGAAG-CTGAAGATTGTAGAAAT-TT-TCTCCCTGAGCAGCAGTGGAGCAGATCGAA
***
11619320 GACAAC
126 GACGGT
**
11619326 GAATCTTATCTTCCTGAGGTAGTAGGGGAGCA-ATTTGAAGCCACTAGCCTTATCTCCCTAGAGC
1 GAATCTTATCTTCCCAAGGTAGTAGGGGAGCAGATTT-AAGCCACTAGCCTTATCTCCCT-GAGC
** *
11619390 TGCAGTGGAGCAAGGTGAA
64 AACAGTGGAG-AAGCTGAA
11619409 ATTACCAGTT
Statistics
Matches: 284, Mismatches: 51, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
131 5 0.02
132 140 0.49
133 131 0.46
134 8 0.03
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (131 bp):
GAATCTTATCTTCCCAAGGTAGTAGGGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAA
CAGTGGAGAAGCTGAAGATTGTAGAAATTTTCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACGG
T
Found at i:11619532 original size:44 final size:44
Alignment explanation
Indices: 11619429--11619535 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 44
11619419 TTTATTTCCT
* *
11619429 TGAAATTCCAGTGGAGTAGATTGAAGCTACAAATCTCTTCTCCC
1 TGAAATTGCAGTGGAGCAGATTGAAGCTACAAATCTCTTCTCCC
* * *
11619473 TGAAATTGTATTGGAGCAGATTGAAG-T-CACAATCTTTATCTCCC
1 TGAAATTGCAGTGGAGCAGATTGAAGCTACA-AATCTCT-TCTCCC
* *
11619517 TGAAGTTGCCGTGGAGCAG
1 TGAAATTGCAGTGGAGCAG
11619536 GAAAATAAAC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 2 0.04
43 7 0.13
44 43 0.83
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
TGAAATTGCAGTGGAGCAGATTGAAGCTACAAATCTCTTCTCCC
Found at i:11620281 original size:27 final size:27
Alignment explanation
Indices: 11620226--11620277 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
11620216 GAAACCAAAT
*
11620226 AAATACAACACAGCAAATAACAACAAG
1 AAATACAACACAGCAAATAACAAAAAG
* *
11620253 AAATACAGCAGAG-AAATAACAAAAA
1 AAATACAACACAGCAAATAACAAAAA
11620278 AGAAGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.65, C:0.17, G:0.10, T:0.08
Consensus pattern (27 bp):
AAATACAACACAGCAAATAACAAAAAG
Found at i:11626361 original size:29 final size:28
Alignment explanation
Indices: 11626328--11626383 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
11626318 ACAGGGGTTT
* * *
11626328 TCACATGGTCGAGCACATGCCCATGTCCC
1 TCACACGGCCGAG-ACACGCCCATGTCCC
*
11626357 TCACACGGCCTAGACACGCCCATGTCC
1 TCACACGGCCGAGACACGCCCATGTCC
11626384 TCGCCCATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.21, C:0.41, G:0.20, T:0.18
Consensus pattern (28 bp):
TCACACGGCCGAGACACGCCCATGTCCC
Found at i:11626390 original size:12 final size:12
Alignment explanation
Indices: 11626373--11626407 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
11626363 GGCCTAGACA
11626373 CGCCCATGTCCT
1 CGCCCATGTCCT
11626385 CGCCCATGTCCT
1 CGCCCATGTCCT
* *
11626397 CACCCGTGTCC
1 CGCCCATGTCC
11626408 AAAAACCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.51, G:0.17, T:0.23
Consensus pattern (12 bp):
CGCCCATGTCCT
Found at i:11641954 original size:12 final size:12
Alignment explanation
Indices: 11641937--11641961 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11641927 AGTGTCGTAT
11641937 CGATAACAGTAA
1 CGATAACAGTAA
11641949 CGATAACAGTAA
1 CGATAACAGTAA
11641961 C
1 C
11641962 AGTAATCGGC
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:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (12 bp):
CGATAACAGTAA
Found at i:11649685 original size:6 final size:6
Alignment explanation
Indices: 11649659--11649708 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
11649649 ACAGTACCTA
* * *
11649659 AACAGT AATCAAT AACAGT AGCAGT AGCAGT AACAGT AACAGT AACAGT
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
11649708 A
1 A
11649709 TTCAACATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:11649766 original size:45 final size:45
Alignment explanation
Indices: 11649688--11649789 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 45
11649678 AGCAGTAGCA
* * * * *
11649688 GTAACAGTAACAGTAACAGTATTCAACATACAAAGTG-CTGAATCT
1 GTAACAGTAACGGCAACAATATTCAACACACAAAGTGTC-GAATCG
* *
11649733 GTAATAGTAACGGCAACAATATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACGGCAACAATATTCAACACACAAAGTGTCGAATCG
11649778 GTAACAGTAACG
1 GTAACAGTAACG
11649790 ATAACAGAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 47 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (45 bp):
GTAACAGTAACGGCAACAATATTCAACACACAAAGTGTCGAATCG
Found at i:11650059 original size:40 final size:40
Alignment explanation
Indices: 11649999--11650082 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
11649989 AATTCATTGC
* * * * *
11649999 TTCAGTAATTTCACAGTTCAATGCAGTACACATAACAATA
1 TTCAATAACTTCACAATTCAATGCAATACACAAAACAATA
* *
11650039 TTCAATAACTTCACAATTCAATTCAATACTCAAAACAATA
1 TTCAATAACTTCACAATTCAATGCAATACACAAAACAATA
11650079 TTCA
1 TTCA
11650083 GTATTCTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (40 bp):
TTCAATAACTTCACAATTCAATGCAATACACAAAACAATA
Found at i:11650853 original size:4 final size:4
Alignment explanation
Indices: 11650844--11650868 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11650834 CTCTGTTTCT
11650844 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
11650869 GCTTTAGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:11656974 original size:28 final size:28
Alignment explanation
Indices: 11656943--11656999 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11656933 CTAATTAAAT
11656943 TGAAATGGATAAACTTCTTTCATTATAA
1 TGAAATGGATAAACTTCTTTCATTATAA
*
11656971 TGAAATGGATAAACTTCTTTCGTTATAA
1 TGAAATGGATAAACTTCTTTCATTATAA
11656999 T
1 T
11657000 TCTTAGACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (28 bp):
TGAAATGGATAAACTTCTTTCATTATAA
Found at i:11657547 original size:6 final size:6
Alignment explanation
Indices: 11657514--11657563 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
11657504 ACAGTACCTA
* *
11657514 AACAGT AATCAGT AACAGT AGCAAT AACAGT AACAGT AACAGT AACAGT
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
11657563 A
1 A
11657564 TTCAACACAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 33 0.85
7 6 0.15
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:11657604 original size:45 final size:45
Alignment explanation
Indices: 11657543--11657651 Score: 166
Period size: 45 Copynumber: 2.4 Consensus size: 45
11657533 AGCAATAACA
* *
11657543 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCT-
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAAT-TG
* *
11657588 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATTG
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATTG
11657633 GTAACAGTAACGGTAACAG
1 GTAACAGTAACGGTAACAG
11657652 AAACAGTAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.02
45 57 0.98
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATTG
Found at i:11657604 original size:51 final size:50
Alignment explanation
Indices: 11657538--11657668 Score: 148
Period size: 45 Copynumber: 2.7 Consensus size: 50
11657528 ACAGTAGCAA
* *
11657538 TAACAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCT-G
1 TAACAGTAAC-GTAACAGTAACAGTATTCGACACACAAAGTGTCGAAT-TGG
*
11657589 T-A-A-T-A-GTAACGGTAACAGTATTCGACACACAAAGTGTCGAATTGG
1 TAACAGTAACGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATTGG
* *
11657634 TAACAGTAACGGTAACAGAAACAGTAGTCGACACA
1 TAACAGTAAC-GTAACAGTAACAGTATTCGACACA
11657669 TAAGTGCCTG
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
44 1 0.01
45 36 0.54
46 1 0.01
47 2 0.03
48 2 0.03
49 2 0.03
50 1 0.01
51 22 0.33
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (50 bp):
TAACAGTAACGTAACAGTAACAGTATTCGACACACAAAGTGTCGAATTGG
Found at i:11657936 original size:40 final size:40
Alignment explanation
Indices: 11657859--11657937 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
11657849 AATTCATTGC
* * * * *
11657859 TTCAGTAATTTCACAGTTCAATGCAGTAGACATAACAATA
1 TTCAATAACTTCACAATTCAATGCAGTACACAAAACAATA
* *
11657899 TTCAATAACTTCACAATTCAATTCAGTACTCAAAACAAT
1 TTCAATAACTTCACAATTCAATGCAGTACACAAAACAAT
11657938 TCTATAATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (40 bp):
TTCAATAACTTCACAATTCAATGCAGTACACAAAACAATA
Found at i:11661627 original size:4 final size:4
Alignment explanation
Indices: 11661618--11661642 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11661608 CTCTGTTTCT
11661618 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
11661643 GCTTTAGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:11682819 original size:130 final size:129
Alignment explanation
Indices: 11682499--11682852 Score: 352
Period size: 130 Copynumber: 2.7 Consensus size: 129
11682489 ATTAAAATAC
* * * **
11682499 ATAACATTTTAAAGTTGTTGCTAATATTTTAATGTTTAGTAACAATTTATTTTGTCATTGCAAAT
1 ATAACATTTTAAAGTTGTTGTTAATATTTTAATGTTTA-AAACAATTTA-TTTGTCGTTATAAAT
** * ** * * * * *
11682564 TTTATTAATAATTCAAAATGACTAATCATGCCATTGCTATTACTAAGTAGAAAACTTAATTATGT
64 TTTATTAATAATTCAAAACAACAAATTGTGCCATTGCTATTAATAAGTAAAAAAATAAATTATAT
11682629 A
129 A
* * ** * * *
11682630 ATAATATTTTAAAGTTGGTGTTAATATTTTAACATTTATAAA-AACTTAATTTTTAGTTATAAAT
1 ATAACATTTTAAAGTTGTTGTTAATATTTTAATGTTTA-AAACAA-TTTATTTGTCGTTATAAAT
* * *
11682694 TTTATTAATAATTCATAACAACAAATTGTGTCATTGCTTTTAATAAG-AAAAAAATAAATTATAT
64 TTTATTAATAATTCAAAACAACAAATTGTGCCATTGCTATTAATAAGTAAAAAAATAAATTATAT
11682758 A
129 A
* * * * *
11682759 ATGACGTTTTAAAGTTGTTATTATTATTTTAATGTTTAACAACAATTTATTTAGTCGTTATACAT
1 ATAACATTTTAAAGTTGTTGTTAATATTTTAATGTTTAA-AACAATTTATTT-GTCGTTATAAAT
* *
11682824 TTTATTAATAATTTACAACAACAAATTGT
64 TTTATTAATAATTCAAAACAACAAATTGT
11682853 ATTGTTAGAA
Statistics
Matches: 179, Mismatches: 40, Indels: 9
0.79 0.18 0.04
Matches are distributed among these distances:
128 1 0.01
129 52 0.29
130 88 0.49
131 38 0.21
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (129 bp):
ATAACATTTTAAAGTTGTTGTTAATATTTTAATGTTTAAAACAATTTATTTGTCGTTATAAATTT
TATTAATAATTCAAAACAACAAATTGTGCCATTGCTATTAATAAGTAAAAAAATAAATTATATA
Found at i:11686524 original size:39 final size:40
Alignment explanation
Indices: 11686373--11686542 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
11686363 GGACTAAGAT
* * *
11686373 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
11686413 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
11686453 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
11686493 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
11686532 CCGAAGGCATT
1 CCGAAGGCATT
11686543 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:11686562 original size:79 final size:80
Alignment explanation
Indices: 11686395--11686577 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
11686385 GTGCGAGATA
* * * *
11686395 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
11686460 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
11686475 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
11686539 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
11686554 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
11686578 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:11697759 original size:143 final size:143
Alignment explanation
Indices: 11697501--11697815 Score: 533
Period size: 143 Copynumber: 2.2 Consensus size: 143
11697491 ATAGCTTGTT
* *
11697501 TAATTTGT-CTAAGCTTAGGACACTTTAAATGCATGTATTAATTCAGACACATTGATTCTATATA
1 TAATTTGTCCTAA-CTAAAGACACTTTAAATGCATGTATTAATTCAGACACATTGATTCTATATA
* * *
11697565 CTTACTAGGACACATTAAAACATGTCATAGATTAAGACAACAAATTAAATTCTGCTAGAATTAAT
65 CTTACTAAGACACATTAAAACATGTCATAGATTAAGAAAACAAATTAAATTCGGCTAGAATTAAT
11697630 TTTTATCATGAAAC
130 TTTTATCATGAAAC
*
11697644 TAATTTGTCCTAACTAAAGACACTTTAAATGCATGTATTAATTCAGACACATTGATTCTATGTAC
1 TAATTTGTCCTAACTAAAGACACTTTAAATGCATGTATTAATTCAGACACATTGATTCTATATAC
11697709 TTACTAAGACACATTAAAACATGTCATAGATTAAGAAAACAAATTAAATTCGGCTAGAATTAATT
66 TTACTAAGACACATTAAAACATGTCATAGATTAAGAAAACAAATTAAATTCGGCTAGAATTAATT
* *
11697774 TTTATCATGGAAT
131 TTTATCATGAAAC
*
11697787 TAATTTGTCCTAACTAAAGACACATTAAA
1 TAATTTGTCCTAACTAAAGACACTTTAAA
11697816 CTTTAATTAA
Statistics
Matches: 162, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
143 158 0.98
144 4 0.02
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (143 bp):
TAATTTGTCCTAACTAAAGACACTTTAAATGCATGTATTAATTCAGACACATTGATTCTATATAC
TTACTAAGACACATTAAAACATGTCATAGATTAAGAAAACAAATTAAATTCGGCTAGAATTAATT
TTTATCATGAAAC
Found at i:11704077 original size:7 final size:7
Alignment explanation
Indices: 11704067--11704093 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11704057 ATTATTATGA
11704067 AAATTTT
1 AAATTTT
11704074 AAATTTT
1 AAATTTT
11704081 AAATTTT
1 AAATTTT
11704088 AAATTT
1 AAATTT
11704094 GAATATTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:11709481 original size:15 final size:15
Alignment explanation
Indices: 11709444--11709512 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 15
11709434 ATCTTGGGTT
* *
11709444 TCTTTATCCTAGATC
1 TCTTTATTCTGGATC
11709459 TCTTTATTCTGGATC
1 TCTTTATTCTGGATC
* *
11709474 TCTTTATTCTGGGTT
1 TCTTTATTCTGGATC
* *
11709489 TCTCTA-TCTTGGATT
1 TCTTTATTC-TGGATC
11709504 TCTTTATTC
1 TCTTTATTC
11709513 GGTTTTCTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
14 2 0.04
15 41 0.91
16 2 0.04
ACGTcount: A:0.13, C:0.20, G:0.12, T:0.55
Consensus pattern (15 bp):
TCTTTATTCTGGATC
Found at i:11711960 original size:46 final size:45
Alignment explanation
Indices: 11711910--11712085 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
11711900 TGGTTGAGCA
11711910 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
11711956 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
11712003 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
11712049 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11712086 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 69 0.63
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:11712066 original size:93 final size:93
Alignment explanation
Indices: 11711907--11712077 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
11711897 GGATGGTTGA
* * *
11711907 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
11711972 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
11712000 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
11712065 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
11712078 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:11717116 original size:21 final size:21
Alignment explanation
Indices: 11717092--11717134 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11717082 TATTAAATAA
11717092 AAAAATATAATAGATTATATG
1 AAAAATATAATAGATTATATG
* ** *
11717113 AAAATTATTTTATATTATATG
1 AAAAATATAATAGATTATATG
11717134 A
1 A
11717135 TATTTGAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
AAAAATATAATAGATTATATG
Found at i:11723760 original size:12 final size:12
Alignment explanation
Indices: 11723743--11723785 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
11723733 TTCCTTTACA
*
11723743 TTATTTCTCTTT
1 TTATTTCTATTT
*
11723755 TTATTTTTATTT
1 TTATTTCTATTT
*
11723767 TTATTTTTATTTT
1 TTATTTCTA-TTT
11723780 TTATTT
1 TTATTT
11723786 TTCATTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (12 bp):
TTATTTCTATTT
Found at i:11723766 original size:18 final size:19
Alignment explanation
Indices: 11723743--11723785 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
11723733 TTCCTTTACA
*
11723743 TTATTTCTCTTTTTA-TTT
1 TTATTTCTATTTTTATTTT
*
11723761 TTATTTTTATTTTTATTTT
1 TTATTTCTATTTTTATTTT
11723780 TTATTT
1 TTATTT
11723786 TTCATTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (19 bp):
TTATTTCTATTTTTATTTT
Found at i:11723768 original size:7 final size:6
Alignment explanation
Indices: 11723752--11723792 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
11723742 ATTATTTCTC
11723752 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTTA TTTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTT-A TTT
11723793 CTTCCTCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 23 0.70
7 10 0.30
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:11723786 original size:12 final size:12
Alignment explanation
Indices: 11723752--11723792 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 12
11723742 ATTATTTCTC
11723752 TTTTTATTTTTA
1 TTTTTATTTTTA
11723764 TTTTTATTTTTA
1 TTTTTATTTTTA
11723776 TTTTTTATTTTTCA
1 -TTTTTATTTTT-A
11723790 TTT
1 TTT
11723793 CTTCCTCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.44
13 14 0.52
14 1 0.04
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:11723786 original size:18 final size:18
Alignment explanation
Indices: 11723752--11723792 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
11723742 ATTATTTCTC
11723752 TTTTTATTTTTATTTTTA
1 TTTTTATTTTTATTTTTA
11723770 TTTTTATTTTTTATTTTTCA
1 TTTTTA-TTTTTATTTTT-A
11723790 TTT
1 TTT
11723793 CTTCCTCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTATTTTTATTTTTA
Found at i:11725720 original size:23 final size:22
Alignment explanation
Indices: 11725678--11725722 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
11725668 AAATAAGTCA
* *
11725678 AGTATAATAATATAATATAAAT
1 AGTATAATAATAAAAGATAAAT
11725700 AGTATATATAATAAAAGATAAAT
1 AGTATA-ATAATAAAAGATAAAT
11725723 TTTTTATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (22 bp):
AGTATAATAATAAAAGATAAAT
Found at i:11725848 original size:26 final size:26
Alignment explanation
Indices: 11725789--11725850 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
11725779 CCAATTTTAA
* *
11725789 AAATTATATAATAAGTAATTTAAAAT
1 AAATAATATAATAAGTAATATAAAAT
*
11725815 AAACAATATAATAA-T-ATATAAATAT
1 AAATAATATAATAAGTAATATAAA-AT
11725840 GAAATAATATA
1 -AAATAATATA
11725851 GGAAAATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 6 0.20
25 3 0.10
26 21 0.70
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (26 bp):
AAATAATATAATAAGTAATATAAAAT
Found at i:11725991 original size:15 final size:16
Alignment explanation
Indices: 11725967--11726017 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
11725957 TATATAGTAA
*
11725967 AATATAATATGTAATA-
1 AATAT-ATATGAAATAG
11725983 AATATATAT-AAATAG
1 AATATATATGAAATAG
*
11725998 AATATA-ATGAAATAT
1 AATATATATGAAATAG
11726013 AATAT
1 AATAT
11726018 GATAAGGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.19
15 20 0.65
16 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
AATATATATGAAATAG
Found at i:11726145 original size:35 final size:40
Alignment explanation
Indices: 11726065--11726145 Score: 91
Period size: 41 Copynumber: 2.1 Consensus size: 40
11726055 AGTATTCTAC
* * *
11726065 ATATAAAAATACAGTAACATAAATAGTATATAATATATTAC
1 ATATAAAAAAACAG-AACATAAATAGTATATAATATATAAA
11726106 ATATAAAAAAACAG-A-ATAAATA-TATAT-ATA-ATAAA
1 ATATAAAAAAACAGAACATAAATAGTATATAATATATAAA
11726141 ATATA
1 ATATA
11726146 TAATAAAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
35 8 0.22
36 3 0.08
37 5 0.14
38 7 0.19
39 1 0.03
41 13 0.35
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.30
Consensus pattern (40 bp):
ATATAAAAAAACAGAACATAAATAGTATATAATATATAAA
Found at i:11730713 original size:72 final size:72
Alignment explanation
Indices: 11730625--11730770 Score: 292
Period size: 72 Copynumber: 2.0 Consensus size: 72
11730615 CCCCAACCTA
11730625 AGAATCCAACCATCCTTTATAAAGCTGCCAGATTTACCATTTCCTAGACTCTAATACAGTCGCTG
1 AGAATCCAACCATCCTTTATAAAGCTGCCAGATTTACCATTTCCTAGACTCTAATACAGTCGCTG
11730690 GAGAAAT
66 GAGAAAT
11730697 AGAATCCAACCATCCTTTATAAAGCTGCCAGATTTACCATTTCCTAGACTCTAATACAGTCGCTG
1 AGAATCCAACCATCCTTTATAAAGCTGCCAGATTTACCATTTCCTAGACTCTAATACAGTCGCTG
11730762 GAGAAAT
66 GAGAAAT
11730769 AG
1 AG
11730771 TTTCCATACT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (72 bp):
AGAATCCAACCATCCTTTATAAAGCTGCCAGATTTACCATTTCCTAGACTCTAATACAGTCGCTG
GAGAAAT
Found at i:11742822 original size:53 final size:53
Alignment explanation
Indices: 11742742--11742903 Score: 216
Period size: 53 Copynumber: 3.1 Consensus size: 53
11742732 GTATTTTTCA
* *
11742742 ATTTGTAAGACACAATACTGTCAGTCTTGAACAAAATCGTTTAATTATCTTTT
1 ATTTGTAAGACACAATATTGTCGGTCTTGAACAAAATCGTTTAATTATCTTTT
* * * * *
11742795 ATTTGTAAGACAGAATGTTGTCGGTCTTGAACAAAATCATTTAATTATGTATT
1 ATTTGTAAGACACAATATTGTCGGTCTTGAACAAAATCGTTTAATTATCTTTT
* * * * *
11742848 ATTTGTAAGACCCAATATTGTCGATCTTGAACAAAATAGTTTAATTTTTTTTT
1 ATTTGTAAGACACAATATTGTCGGTCTTGAACAAAATCGTTTAATTATCTTTT
11742901 ATT
1 ATT
11742904 ATTGAGAAAG
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 93 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (53 bp):
ATTTGTAAGACACAATATTGTCGGTCTTGAACAAAATCGTTTAATTATCTTTT
Found at i:11747107 original size:20 final size:20
Alignment explanation
Indices: 11747084--11747121 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11747074 TCAATTTTAA
* *
11747084 TTTTAAATTTAAAAAATCAC
1 TTTTAAACTAAAAAAATCAC
11747104 TTTTAAACTAAAAAAATC
1 TTTTAAACTAAAAAAATC
11747122 TGACATTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTTAAACTAAAAAAATCAC
Done.