Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 48 of 356
Found at i:15541479 original size:20 final size:20
Alignment explanation
Indices: 15541454--15541495 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
15541444 AGGGATCGAA
15541454 ATTAAATTTTAATTTTTATG
1 ATTAAATTTTAATTTTTATG
15541474 ATTAAATTTTAATTTTTATG
1 ATTAAATTTTAATTTTTATG
15541494 AT
1 AT
15541496 AGTAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
ATTAAATTTTAATTTTTATG
Found at i:15542718 original size:22 final size:22
Alignment explanation
Indices: 15542678--15542721 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15542668 TAAAAGTATT
15542678 AAAATATAAATTATATATTATA
1 AAAATATAAATTATATATTATA
*
15542700 AAAACTATAAA-TATTTATTATA
1 AAAA-TATAAATTATATATTATA
15542722 GATAATTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATATAAATTATATATTATA
Found at i:15544240 original size:14 final size:15
Alignment explanation
Indices: 15544221--15544249 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15544211 TAGGAACATA
15544221 AAAATAT-TAAATTT
1 AAAATATATAAATTT
15544235 AAAATATATAAATTT
1 AAAATATATAAATTT
15544250 TAGTTTAAGG
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATATATAAATTT
Found at i:15544533 original size:10 final size:9
Alignment explanation
Indices: 15544507--15544531 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15544497 TTCTGTTATT
15544507 TATTTTTAA
1 TATTTTTAA
15544516 TATTTTTAA
1 TATTTTTAA
15544525 TATTTTT
1 TATTTTT
15544532 TAGTCAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TATTTTTAA
Found at i:15546808 original size:30 final size:30
Alignment explanation
Indices: 15546774--15546831 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
15546764 GTAAATACTC
* * * *
15546774 AAAATTTGAGGGATTAA-AGTGTAAATATG
1 AAAAATTGAAGGACTAATAGTGCAAATATG
15546803 AAAAATTGAAGGACTAATAGTGCAAATAT
1 AAAAATTGAAGGACTAATAGTGCAAATAT
15546832 TTTAAGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.28
Consensus pattern (30 bp):
AAAAATTGAAGGACTAATAGTGCAAATATG
Found at i:15547085 original size:12 final size:13
Alignment explanation
Indices: 15547061--15547096 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
15547051 ATATTAGTTT
15547061 ATTAATATTTTAA
1 ATTAATATTTTAA
15547074 ATTAAT-TTTTAA
1 ATTAATATTTTAA
15547086 A-TAATATTTTA
1 ATTAATATTTTA
15547097 TTATTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.18
12 12 0.55
13 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTAATATTTTAA
Found at i:15549630 original size:22 final size:23
Alignment explanation
Indices: 15549604--15549649 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15549594 CAACCAAACC
15549604 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
15549626 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
15549649 A
1 A
15549650 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:15549655 original size:23 final size:23
Alignment explanation
Indices: 15549611--15549655 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15549601 ACCAATTCAA
*
15549611 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
15549634 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
15549656 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:15560503 original size:24 final size:24
Alignment explanation
Indices: 15560471--15560518 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15560461 TTGCAAGCCA
* *
15560471 ACACATATAGCCAAATTAATAATT
1 ACACATATAACCAAAATAATAATT
*
15560495 ACACATATAACCAAAATATTAATT
1 ACACATATAACCAAAATAATAATT
15560519 CCTATACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (24 bp):
ACACATATAACCAAAATAATAATT
Found at i:15561571 original size:42 final size:42
Alignment explanation
Indices: 15561462--15561611 Score: 160
Period size: 42 Copynumber: 3.5 Consensus size: 42
15561452 ATACCAATTA
**
15561462 CATATCCC-AGATATGGTCTTACAT-ATAATCTCGCATCGATGC
1 CATATCCCAAG-TATGGTCTTACATGA-AATCTCATATCGATGC
* ** * * *
15561504 CAATAGCCCACCTATGATCTTACATGAAGTCTCATATCGATGT
1 C-ATATCCCAAGTATGGTCTTACATGAAATCTCATATCGATGC
* *
15561547 TATATCCTAAGTATGGTCTTACATGAAATCTCATATCGATGC
1 CATATCCCAAGTATGGTCTTACATGAAATCTCATATCGATGC
*
15561589 CATATCCCAGGTATGGTCTTACA
1 CATATCCCAAGTATGGTCTTACA
15561612 CAGAATCTCA
Statistics
Matches: 86, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
42 55 0.64
43 30 0.35
44 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
CATATCCCAAGTATGGTCTTACATGAAATCTCATATCGATGC
Found at i:15565388 original size:20 final size:19
Alignment explanation
Indices: 15565356--15565393 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
15565346 TAATAGTATT
15565356 TTATTATTTAATATTAAAA
1 TTATTATTTAATATTAAAA
15565375 TTATTATCTTAATATTAAA
1 TTATTAT-TTAATATTAAA
15565394 TTAAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATTATTTAATATTAAAA
Found at i:15565394 original size:19 final size:19
Alignment explanation
Indices: 15565340--15565396 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
15565330 AATTTAATAC
* **
15565340 TTATCTTAATAGTATTTTA
1 TTATCTTAATATTAAATTA
15565359 TTAT-TTAATATTAAAATTA
1 TTATCTTAATATT-AAATTA
15565378 TTATCTTAATATTAAATTA
1 TTATCTTAATATTAAATTA
15565397 AATTTAATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 7 0.21
19 18 0.55
20 8 0.24
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
TTATCTTAATATTAAATTA
Found at i:15565468 original size:24 final size:22
Alignment explanation
Indices: 15565438--15565485 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
15565428 TATTACTTTA
*
15565438 ATAATATTTAATGTTAAATTTAAT
1 ATAATATTT-ATATTAAA-TTAAT
15565462 ATAATATTTATATTAAATTAAT
1 ATAATATTTATATTAAATTAAT
15565484 AT
1 AT
15565486 TAAAGTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.30
23 7 0.30
24 9 0.39
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
ATAATATTTATATTAAATTAAT
Found at i:15566628 original size:22 final size:21
Alignment explanation
Indices: 15566582--15566642 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
15566572 TCTCTTTTCT
* *
15566582 TTCC-TTCTTTTCTTTTTCCAT
1 TTCCTTTCTTTT-TTTTTTCAC
15566603 TTCCATTTCTTTTTTTTTTCAC
1 TTCC-TTTCTTTTTTTTTTCAC
* *
15566625 TTCCTCTCTTGTTTTTTT
1 TTCCTTTCTTTTTTTTTT
15566643 ATTCTCACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 16 0.47
22 11 0.32
23 7 0.21
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.69
Consensus pattern (21 bp):
TTCCTTTCTTTTTTTTTTCAC
Found at i:15566634 original size:21 final size:20
Alignment explanation
Indices: 15566582--15566642 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 20
15566572 TCTCTTTTCT
* *
15566582 TTCCTTCTTTTCTTTTTCCAT
1 TTCCTTCTTTT-TTTTTTCAC
15566603 TTCCATTTCTTTTTTTTTTCAC
1 TTCC--TTCTTTTTTTTTTCAC
15566625 TTCCTCTCTTGTTTTTTT
1 TTCCT-TCTT-TTTTTTT
15566643 ATTCTCACCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 1 0.03
21 8 0.24
22 18 0.53
23 7 0.21
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.69
Consensus pattern (20 bp):
TTCCTTCTTTTTTTTTTCAC
Found at i:15567913 original size:25 final size:26
Alignment explanation
Indices: 15567883--15567945 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
15567873 GAAGAATAAT
* * *
15567883 TAATCAGAAAGCTCCGGATAGCCATA
1 TAATCAGAAAGCTCCAGAGAGCCAAA
*
15567909 T-ATCAGGAAGCTCCAGAGAGCCAAA
1 TAATCAGAAAGCTCCAGAGAGCCAAA
15567934 TAATCAGAAAGC
1 TAATCAGAAAGC
15567946 CCATGAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 21 0.68
26 10 0.32
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (26 bp):
TAATCAGAAAGCTCCAGAGAGCCAAA
Found at i:15571213 original size:20 final size:21
Alignment explanation
Indices: 15571171--15571213 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
15571161 ACTCAATTGA
* *
15571171 GATTCAAATTATTGATTATAT
1 GATTCAAATTACTGATTACAT
*
15571192 GATT-AAATTACTGTTTACAT
1 GATTCAAATTACTGATTACAT
15571212 GA
1 GA
15571214 ATGAAAGAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (21 bp):
GATTCAAATTACTGATTACAT
Found at i:15571618 original size:22 final size:22
Alignment explanation
Indices: 15571578--15571648 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
15571568 TCTATGAACA
15571578 TACTGTTCAGCTCCG-TAGAGTT
1 TACTGTTCAGCT-CGATAGAGTT
* *
15571600 TATTGTTCAGCTCGATAGAGCT
1 TACTGTTCAGCTCGATAGAGTT
* * *
15571622 TACCGTTTTAGCTCAATAGAGTT
1 TACTG-TTCAGCTCGATAGAGTT
15571645 TACT
1 TACT
15571649 ATTTATCAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
21 2 0.05
22 20 0.51
23 17 0.44
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (22 bp):
TACTGTTCAGCTCGATAGAGTT
Found at i:15571886 original size:40 final size:39
Alignment explanation
Indices: 15571827--15571930 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 39
15571817 TGTTGAAATG
*
15571827 GATGAATTACT-ATTGATACGAATAAATTACT-GTTATTACT
1 GATGAATTACTGATT-ATACGAATAAACTACTGGTTA-TA-T
* * *
15571867 GATGAATTACTGGTTATACGGATAAACTATTGGTTATAT
1 GATGAATTACTGATTATACGAATAAACTACTGGTTATAT
* *
15571906 GAATGAATTACAGTTTATACGAATA
1 G-ATGAATTACTGATTATACGAATA
15571931 GAAATGAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 2 0.04
40 46 0.85
41 6 0.11
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (39 bp):
GATGAATTACTGATTATACGAATAAACTACTGGTTATAT
Found at i:15580629 original size:143 final size:143
Alignment explanation
Indices: 15580371--15580660 Score: 544
Period size: 143 Copynumber: 2.0 Consensus size: 143
15580361 TACAATAAGA
*
15580371 AAGAAGTATAAAGGAGGTAGTGATGATTGTTATAAAGGTTCTAGTCGGGATAGAGAGTTGGAGAT
1 AAGAAGTATAAAGGAGGTAGTGATGATTGTTATAAAGGTTCTAGTCGGGATAGAAAGTTGGAGAT
*
15580436 TATAAAGAGTGAAGGTGAAGAGAGCGCCAAAGCTAAGAGTTGGAGGTATGGTGACAGAGTGCATG
66 TATAAAGAGTGAAGGTGAAGAGAGCGCCAAAGCTAAGAGTTGAAGGTATGGTGACAGAGTGCATG
15580501 TATGGTATTTTTG
131 TATGGTATTTTTG
*
15580514 AAGAAGTATAAAGGAGGTAGTGATGATTGTTATGAAGGTTCTAGTCGGGATAGAAAGTTGGAGAT
1 AAGAAGTATAAAGGAGGTAGTGATGATTGTTATAAAGGTTCTAGTCGGGATAGAAAGTTGGAGAT
*
15580579 TATAAAGAGTGAAGGTGAAGAGAGGGCCAAAGCTAAGAGTTGAAGGTATGGTGACAGAGTGCATG
66 TATAAAGAGTGAAGGTGAAGAGAGCGCCAAAGCTAAGAGTTGAAGGTATGGTGACAGAGTGCATG
15580644 TATGGTATTTTTG
131 TATGGTATTTTTG
15580657 AAGA
1 AAGA
15580661 GTCAATAACT
Statistics
Matches: 143, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 143 1.00
ACGTcount: A:0.34, C:0.05, G:0.34, T:0.26
Consensus pattern (143 bp):
AAGAAGTATAAAGGAGGTAGTGATGATTGTTATAAAGGTTCTAGTCGGGATAGAAAGTTGGAGAT
TATAAAGAGTGAAGGTGAAGAGAGCGCCAAAGCTAAGAGTTGAAGGTATGGTGACAGAGTGCATG
TATGGTATTTTTG
Found at i:15581981 original size:50 final size:50
Alignment explanation
Indices: 15581924--15582024 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
15581914 AAAAAAAGTT
15581924 AACATTATAATGAACCTGACCCTAGTAAAAGAAATAATGTTAATAATTGA
1 AACATTATAATGAACCTGACCCTAGTAAAAGAAATAATGTTAATAATTGA
*
15581974 AACATTATAATGAACTTGACCCTAGTAAAAGAAATAATGTTAATAATTGA
1 AACATTATAATGAACCTGACCCTAGTAAAAGAAATAATGTTAATAATTGA
15582024 A
1 A
15582025 CTTGAATTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.29
Consensus pattern (50 bp):
AACATTATAATGAACCTGACCCTAGTAAAAGAAATAATGTTAATAATTGA
Found at i:15593230 original size:46 final size:45
Alignment explanation
Indices: 15593157--15593330 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
15593147 GTAACCCGCC
* *
15593157 CCTAAATGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
15593202 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * ** *
15593252 -CTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
15593295 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
15593331 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 12, Indels: 19
0.78 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 58 0.54
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:15593271 original size:93 final size:93
Alignment explanation
Indices: 15593164--15593334 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
15593154 GCCCCTAAAT
** *
15593164 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15593229 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
15593257 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15593322 CGAGTTCGGATGC
66 CGAGTTCGGATGC
15593335 TCAACCATCC
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:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:15601242 original size:15 final size:15
Alignment explanation
Indices: 15601222--15601252 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15601212 TTTATCCGTT
15601222 GATTTAACTAGCTTG
1 GATTTAACTAGCTTG
15601237 GATTTAACTAGCTTG
1 GATTTAACTAGCTTG
15601252 G
1 G
15601253 TGTGTGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (15 bp):
GATTTAACTAGCTTG
Found at i:15610037 original size:3 final size:3
Alignment explanation
Indices: 15610029--15610065 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
15610019 GGTAAGCATG
*
15610029 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15610066 CTGTGTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:15614896 original size:13 final size:13
Alignment explanation
Indices: 15614878--15614902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15614868 CCCTCTTCAT
15614878 ATATATATATATG
1 ATATATATATATG
15614891 ATATATATATAT
1 ATATATATATAT
15614903 TTGCATACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
ATATATATATATG
Found at i:15627290 original size:29 final size:29
Alignment explanation
Indices: 15627249--15627308 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
15627239 CGCACAGAAG
*
15627249 AAAAATTTGGTAAATTCCTT-AAATTATTA
1 AAAAATTCGGTAAATT-CTTCAAATTATTA
*
15627278 AAAAATTCGGTAAATTCTTCAAATTTTTA
1 AAAAATTCGGTAAATTCTTCAAATTATTA
15627307 AA
1 AA
15627309 GGAGCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (29 bp):
AAAAATTCGGTAAATTCTTCAAATTATTA
Found at i:15635815 original size:31 final size:30
Alignment explanation
Indices: 15635774--15635832 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
15635764 GTAAATACTC
* *
15635774 AAAATTTAAGGGGTTAA-AGTGTAAATATGA
1 AAAATTTAA-GGATCAATAGTGTAAATATGA
15635804 AAAAGTTTAAGGATCAATAGTGTAAATAT
1 AAAA-TTTAAGGATCAATAGTGTAAATAT
15635833 TTTAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (30 bp):
AAAATTTAAGGATCAATAGTGTAAATATGA
Found at i:15636084 original size:18 final size:20
Alignment explanation
Indices: 15636042--15636078 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15636032 ATATTTTATG
*
15636042 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
15636061 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
15636079 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:15638290 original size:46 final size:46
Alignment explanation
Indices: 15638238--15638557 Score: 433
Period size: 46 Copynumber: 7.0 Consensus size: 46
15638228 AGTGTGCTCT
15638238 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
15638284 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
15638330 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
15638376 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
15638422 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
15638468 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * * *
15638514 ATGACAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
15638558 TCATGTCAAA
Statistics
Matches: 250, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 250 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:15673044 original size:30 final size:30
Alignment explanation
Indices: 15673010--15673071 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
15673000 ACTTATTTTA
15673010 TTGTTAATTTTGTTATTATTTTAAAAACAT
1 TTGTTAATTTTGTTATTATTTTAAAAACAT
* *
15673040 TTGTTAATTTTGTTATTATTTTAGACACAT
1 TTGTTAATTTTGTTATTATTTTAAAAACAT
15673070 TT
1 TT
15673072 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAAACAT
Found at i:15678051 original size:31 final size:29
Alignment explanation
Indices: 15678020--15678077 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
15678010 ATTCGAACCA
* *
15678020 AAACTAAAGTTTCACATGTATAATTACACC
1 AAACTAAAG-TTCACATATACAATTACACC
* *
15678050 AAATTAAAGTTCATATATACAATTACAC
1 AAACTAAAGTTCACATATACAATTACAC
15678078 ATTAAACCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.31
Consensus pattern (29 bp):
AAACTAAAGTTCACATATACAATTACACC
Found at i:15678260 original size:15 final size:14
Alignment explanation
Indices: 15678230--15678256 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15678220 ATCAAATTTT
15678230 ATTTTTTTAATATA
1 ATTTTTTTAATATA
15678244 ATTTTTTTAATAT
1 ATTTTTTTAATAT
15678257 TAATCCCTTA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTTTTAATATA
Found at i:15682881 original size:13 final size:13
Alignment explanation
Indices: 15682865--15682903 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
15682855 TAGTAAAAAG
15682865 AAGAAAGAAAATA
1 AAGAAAGAAAATA
15682878 AAGAAA-ATAAATA
1 AAGAAAGA-AAATA
15682891 AAG-AAGAAAATA
1 AAGAAAGAAAATA
15682903 A
1 A
15682904 GGAGAACGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (13 bp):
AAGAAAGAAAATA
Found at i:15687122 original size:45 final size:45
Alignment explanation
Indices: 15687060--15687235 Score: 189
Period size: 45 Copynumber: 3.9 Consensus size: 45
15687050 GGTGCTTTCA
* *
15687060 CATGATGTCATAGCATCTTTCAGCTACGGTCTTACTCATTTCTTT
1 CATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTCTTT
* *
15687105 CATGATGCCATAACATCTTTCAGTTATGGTCTTACTCA--TCTTT
1 CATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTCTTT
* * * *
15687148 -ATGGTGACACCATAGCTTCTTTCAGCTATGGTTTTACTCATCTT-TAT
1 CATGATG---CCATAGCATCTTTCAGCTATGGTCTTACTCAT-TTCTTT
** *
15687195 CATGATTTCATAGCATCTTTCAGCTATGATCTTACTCATTT
1 CATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTT
15687236 TAAATCCACA
Statistics
Matches: 108, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
42 5 0.05
43 5 0.05
44 2 0.02
45 89 0.82
47 2 0.02
48 5 0.05
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (45 bp):
CATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTCTTT
Found at i:15687175 original size:90 final size:89
Alignment explanation
Indices: 15687068--15687237 Score: 234
Period size: 90 Copynumber: 1.9 Consensus size: 89
15687058 CACATGATGT
* *
15687068 CATAGCATCTTTCAGCTACGGTCTTACTCAT-TTCTTTCATGATGCCATAACATCTTTCAGTTAT
1 CATAGCATCTTTCAGCTACGGTCTTACTCATCTT-TATCATGATGCCATAACATCTTTCAGCTAT
*
15687132 GGTCTTACTCATCTTTATGGTGACAC
65 GATCTTACTCAT-TTTATGGTGACAC
* * * ** *
15687158 CATAGCTTCTTTCAGCTATGGTTTTACTCATCTTTATCATGATTTCATAGCATCTTTCAGCTATG
1 CATAGCATCTTTCAGCTACGGTCTTACTCATCTTTATCATGATGCCATAACATCTTTCAGCTATG
15687223 ATCTTACTCATTTTA
66 ATCTTACTCATTTTA
15687238 AATCCACAGC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
89 4 0.06
90 64 0.91
91 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (89 bp):
CATAGCATCTTTCAGCTACGGTCTTACTCATCTTTATCATGATGCCATAACATCTTTCAGCTATG
ATCTTACTCATTTTATGGTGACAC
Found at i:15694972 original size:43 final size:43
Alignment explanation
Indices: 15694881--15694972 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 43
15694871 AAATTAAAGT
* *
15694881 ATTTAATTTAAATTTAGAAGAATAAAAAATTGAAATTAATAAG
1 ATTTAATTAAAATTTAGAAGAATAAAAAATAGAAATTAATAAG
*
15694924 TTTTAATTAAAATTTAGAAGTAA-AAAGAAA-AGAAAATTAATAA-
1 ATTTAATTAAAATTTAGAAG-AATAAA-AAATAG-AAATTAATAAG
15694967 ATTTAA
1 ATTTAA
15694973 ATTTAAAGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
43 27 0.64
44 15 0.36
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.34
Consensus pattern (43 bp):
ATTTAATTAAAATTTAGAAGAATAAAAAATAGAAATTAATAAG
Found at i:15694985 original size:44 final size:42
Alignment explanation
Indices: 15694881--15694985 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 42
15694871 AAATTAAAGT
*
15694881 ATTTAATTTAAATTTAGAAGAATAAAAAATTGAAATTAATAA
1 ATTTAATTTAAATTTAGAAGAATAAAAAATAGAAATTAATAA
* *
15694923 GTTTTAATTAAAATTTAGAAGTAA-AAAGAAA-AGAAAATTAATAA
1 -ATTTAATTTAAATTTAGAAG-AATAAA-AAATAG-AAATTAATAA
*
15694967 ATTTAAATTTAAAGTTAGA
1 ATTT-AATTTAAATTTAGA
15694986 TTAAAAAAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
43 25 0.48
44 27 0.52
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (42 bp):
ATTTAATTTAAATTTAGAAGAATAAAAAATAGAAATTAATAA
Found at i:15694993 original size:44 final size:45
Alignment explanation
Indices: 15694913--15694999 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 45
15694903 TAAAAAATTG
* * *
15694913 AAATTAATAAGTTTTAATTAAAATTTAGAAGTAAAAA-GAAAAGA
1 AAATTAATAAATTTAAATTAAAAGTTAGAAGTAAAAAGGAAAAGA
* *
15694957 AAATTAATAAATTTAAATTTAAAGTTAG-ATTAAAAAAGGAAAA
1 AAATTAATAAATTTAAATTAAAAGTTAGAAGT-AAAAAGGAAAA
15695000 AAGAAAAGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 2 0.06
44 29 0.81
45 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (45 bp):
AAATTAATAAATTTAAATTAAAAGTTAGAAGTAAAAAGGAAAAGA
Found at i:15695734 original size:60 final size:60
Alignment explanation
Indices: 15695649--15695770 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
15695639 TGACAAACAT
15695649 AATGTCTAAGAATGATCTAATTGTAGAACATAGACTCAACCTACAACTTTACACATAATA
1 AATGTCTAAGAATGATCTAATTGTAGAACATAGACTCAACCTACAACTTTACACATAATA
15695709 AATGTCTAAGAATGATCTAATTGTAGAACATAGACTCAACCTACAACTTTACACATAATA
1 AATGTCTAAGAATGATCTAATTGTAGAACATAGACTCAACCTACAACTTTACACATAATA
15695769 AA
1 AA
15695771 GGACTAATAG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (60 bp):
AATGTCTAAGAATGATCTAATTGTAGAACATAGACTCAACCTACAACTTTACACATAATA
Found at i:15697916 original size:158 final size:158
Alignment explanation
Indices: 15697622--15697939 Score: 501
Period size: 158 Copynumber: 2.0 Consensus size: 158
15697612 TTTACCAAGA
15697622 AAACTCATTGGGATAAAACCTTGGTTAAAAGAAAAGAGGACAGTGTGTTTTAGACTCCCCCTAAT
1 AAACTCATTGGGATAAAACCTTGGTTAAAAGAAAAGAGGACAGTGTGTTTTAGACTCCCCCTAAT
* * *
15697687 GGCAACATCACATTATATCTTTGAGCTGCCGCATTCAATCTTGTATACTAGCCTTTCAAACATTA
66 GGCAACATCACATTATATCTTTGAACCGCCACATTCAATCTTGTATACTAGCCTTTCAAACATTA
15697752 TCGTTGGTAATGCCTTAGTAAAAAGATC
131 TCGTTGGTAATGCCTTAGTAAAAAGATC
*
15697780 AAACTCATTGGGATAAAACCTTGGTTAAAAGAAAAGAGGACAGTGTTTTTTAGACTCCCCCTAAT
1 AAACTCATTGGGATAAAACCTTGGTTAAAAGAAAAGAGGACAGTGTGTTTTAGACTCCCCCTAAT
* * * * ** *
15697845 GGCAACATCATATTATATCTTTGAACCGGCACATTCAATCTTGTATGCTAGTCTTTCAAATGTTG
66 GGCAACATCACATTATATCTTTGAACCGCCACATTCAATCTTGTATACTAGCCTTTCAAACATTA
* * * *
15697910 TGGTTGGTAATGGCTTGGTAAAAGGATC
131 TCGTTGGTAATGCCTTAGTAAAAAGATC
15697938 AA
1 AA
15697940 TCAAATTATT
Statistics
Matches: 145, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
158 145 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (158 bp):
AAACTCATTGGGATAAAACCTTGGTTAAAAGAAAAGAGGACAGTGTGTTTTAGACTCCCCCTAAT
GGCAACATCACATTATATCTTTGAACCGCCACATTCAATCTTGTATACTAGCCTTTCAAACATTA
TCGTTGGTAATGCCTTAGTAAAAAGATC
Found at i:15704904 original size:21 final size:21
Alignment explanation
Indices: 15704878--15704920 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15704868 TTTATTTTTT
* * *
15704878 ATTTAATTTATATTGATTATA
1 ATTTAAATTATAATCATTATA
15704899 ATTTAAATTATAATCATTATA
1 ATTTAAATTATAATCATTATA
15704920 A
1 A
15704921 AAAAATTAAA
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:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTTAAATTATAATCATTATA
Found at i:15705059 original size:23 final size:23
Alignment explanation
Indices: 15705029--15705076 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
15705019 TTATCACGGA
15705029 GAAAAAAATTAGTTCATGAATAT
1 GAAAAAAATTAGTTCATGAATAT
15705052 GAAAAAAATTAGTTCATGAATAT
1 GAAAAAAATTAGTTCATGAATAT
15705075 GA
1 GA
15705077 TATTTCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.29
Consensus pattern (23 bp):
GAAAAAAATTAGTTCATGAATAT
Found at i:15713768 original size:2 final size:2
Alignment explanation
Indices: 15713761--15713786 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15713751 AACTAAGCTA
15713761 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
15713787 CCTCCTCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:15733143 original size:25 final size:25
Alignment explanation
Indices: 15733115--15733191 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
15733105 CTTTTTTTCA
15733115 TTAATATTTCATGACTTCTTGGTCC
1 TTAATATTTCATGACTTCTTGGTCC
* **
15733140 TTAATAATTC-T-A--TCTTATTCAC
1 TTAATATTTCATGACTTCTTGGTC-C
*
15733162 -AAATATTTCATGACTTCTTGGTCC
1 TTAATATTTCATGACTTCTTGGTCC
15733186 TTAATA
1 TTAATA
15733192 ATTCTATCTT
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
21 13 0.34
22 2 0.05
23 2 0.05
24 2 0.05
25 19 0.50
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.47
Consensus pattern (25 bp):
TTAATATTTCATGACTTCTTGGTCC
Found at i:15733168 original size:46 final size:46
Alignment explanation
Indices: 15733117--15733209 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
15733107 TTTTTTCATT
15733117 AATATTTCATGACTTCTTGGTCCTTAATAATTCTATCTTATTCACA
1 AATATTTCATGACTTCTTGGTCCTTAATAATTCTATCTTATTCACA
15733163 AATATTTCATGACTTCTTGGTCCTTAATAATTCTATCTTATTCACA
1 AATATTTCATGACTTCTTGGTCCTTAATAATTCTATCTTATTCACA
15733209 A
1 A
15733210 CGTCTGCTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.45
Consensus pattern (46 bp):
AATATTTCATGACTTCTTGGTCCTTAATAATTCTATCTTATTCACA
Found at i:15748601 original size:13 final size:13
Alignment explanation
Indices: 15748568--15748619 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
15748558 CACTCGAATT
15748568 TTTAATAATAAAAA
1 TTTAATAA-AAAAA
* *
15748582 ATGAATAAAAAAA
1 TTTAATAAAAAAA
15748595 TTTAAT---AAAA
1 TTTAATAAAAAAA
15748605 TTTAATAAAAAAA
1 TTTAATAAAAAAA
15748618 TT
1 TT
15748620 AGTTTACTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
10 10 0.32
13 15 0.48
14 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
TTTAATAAAAAAA
Found at i:15750887 original size:5 final size:5
Alignment explanation
Indices: 15750879--15750908 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
15750869 TTATGGTGAT
15750879 ATATA ATATA ATATA ATATA ATAT- ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA A
15750909 ATACGATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:15755775 original size:135 final size:141
Alignment explanation
Indices: 15755614--15755886 Score: 396
Period size: 135 Copynumber: 1.9 Consensus size: 141
15755604 CTTTTTGTTT
* *
15755614 TAATGATTGAGCTGTAACACAAGCTTTACGAAGGCATATGATAG-T-T-A-TTCTAATCAGCATG
1 TAATGATTGAGCTGTAACACAAGCTTTACAAAAGCATATGATAGTTCTAATTTCTAATCAGCATG
*
15755675 CTCCCAAATCTTATACTAATAAGCAAA-GGCC-ATCTGTTTTGGGCCTTTCAATCAATTCAAGTT
66 CTCCCAAATCTTATACTAATAAGCAAAGGGCCTATCTGTTTTGGGCCTTTCAATCAATTCAAGAT
15755738 GTTGATTTGTG
131 GTTGATTTGTG
15755749 TAATGATTGAGCTGTAACACAAGCTTTACAAAAGCATATGATAGTTATTCTAAATTTCTAATCAG
1 TAATGATTGAGCTGTAACACAAGCTTTACAAAAGCATATGATAG---TTCT-AATTTCTAATCAG
* * * *
15755814 CTTGCTTCCGAATCTTATACTAATAAGCAAAGGGGCCTATCTGTTTTGGGTCTTTCAATCAATTC
62 CATGCTCCCAAATCTTATACTAATAAGCAAA-GGGCCTATCTGTTTTGGGCCTTTCAATCAATTC
15755879 AAGATGTT
126 AAGATGTT
15755887 TATTCTTTTG
Statistics
Matches: 120, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
135 42 0.35
139 1 0.01
140 1 0.01
142 1 0.01
143 38 0.32
145 4 0.03
146 33 0.28
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (141 bp):
TAATGATTGAGCTGTAACACAAGCTTTACAAAAGCATATGATAGTTCTAATTTCTAATCAGCATG
CTCCCAAATCTTATACTAATAAGCAAAGGGCCTATCTGTTTTGGGCCTTTCAATCAATTCAAGAT
GTTGATTTGTG
Found at i:15766946 original size:23 final size:24
Alignment explanation
Indices: 15766920--15766970 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
15766910 GCCTAAAACG
15766920 ACACACGAAGTGACTG-ATACGAC
1 ACACACGAAGTGACTGAATACGAC
* *
15766943 ACACACGAGGTGCCTGAAATACGAC
1 ACACACGAAGTGACTG-AATACGAC
15766968 ACA
1 ACA
15766971 TAAAGTGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 14 0.58
25 10 0.42
ACGTcount: A:0.39, C:0.27, G:0.22, T:0.12
Consensus pattern (24 bp):
ACACACGAAGTGACTGAATACGAC
Found at i:15766978 original size:23 final size:23
Alignment explanation
Indices: 15766893--15766982 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 23
15766883 ACCTGATCAG
*
15766893 AATACGACACATAAAGTGCCT-A
1 AATACGACACACAAAGTGCCTGA
* *
15766915 AA-ACGACACACGAAGTGACTG-
1 AATACGACACACAAAGTGCCTGA
*
15766936 -ATACGACACACACGAGGTGCCTGA
1 AATACGACACACA--AAGTGCCTGA
*
15766960 AATACGACACATAAAGTGCCTGA
1 AATACGACACACAAAGTGCCTGA
15766983 TCAGTAAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
20 1 0.02
21 24 0.44
22 2 0.04
23 16 0.30
25 11 0.20
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.14
Consensus pattern (23 bp):
AATACGACACACAAAGTGCCTGA
Found at i:15768171 original size:23 final size:21
Alignment explanation
Indices: 15768118--15768177 Score: 66
Period size: 23 Copynumber: 2.7 Consensus size: 21
15768108 GTAAATTAGT
* *
15768118 TATTTTTATTACAAGTGTAGA
1 TATTTTTATTACAAATGTAAA
15768139 TATCTATTTATTACAAATGTACCAA
1 TAT-T-TTTATTACAAATGTA--AA
15768164 TATTTTTATTACAA
1 TATTTTTATTACAA
15768178 TTGTCATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.09
22 1 0.03
23 24 0.73
24 1 0.03
25 4 0.12
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (21 bp):
TATTTTTATTACAAATGTAAA
Found at i:15768422 original size:3 final size:3
Alignment explanation
Indices: 15768414--15768471 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
15768404 ATATGAAACC
* ** *
15768414 ATA ATA ATA ATA ATA ATA AT- TTA AT- ATA A-A ACC ATA CTA ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
15768460 ATA ATA ATA ATA
1 ATA ATA ATA ATA
15768472 TCTTAGATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
2 5 0.11
3 36 0.82
4 3 0.07
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15768438 original size:33 final size:33
Alignment explanation
Indices: 15768389--15768467 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
15768379 ATACCAATTA
* * *
15768389 AATAATTATAACTTAATATGAAACCATAATAAT
1 AATAATAATAATTTAATATAAAACCATAATAAT
*
15768422 AATAATAATAATTTAATATAAAACCATACTAAT
1 AATAATAATAATTTAATATAAAACCATAATAAT
15768455 AATTAATAATAAT
1 AA-TAATAATAAT
15768468 AATATCTTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 31 0.76
34 10 0.24
ACGTcount: A:0.57, C:0.08, G:0.01, T:0.34
Consensus pattern (33 bp):
AATAATAATAATTTAATATAAAACCATAATAAT
Found at i:15776256 original size:6 final size:6
Alignment explanation
Indices: 15776245--15776270 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15776235 TTCCTCAATT
15776245 CCTTTG CCTTTG CCTTTG CCTTTG CC
1 CCTTTG CCTTTG CCTTTG CCTTTG CC
15776271 GCCGCTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.38, G:0.15, T:0.46
Consensus pattern (6 bp):
CCTTTG
Found at i:15781717 original size:18 final size:17
Alignment explanation
Indices: 15781690--15781723 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15781680 TTTGGTTAAA
*
15781690 GTATTTTTGGAAGTTTTT
1 GTATTATTGGAA-TTTTT
15781708 GTATTATTGGAATTTT
1 GTATTATTGGAATTTT
15781724 ATTAAATTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (17 bp):
GTATTATTGGAATTTTT
Found at i:15782782 original size:31 final size:29
Alignment explanation
Indices: 15782701--15782782 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 29
15782691 AAAATTGGAC
* * *
15782701 CAAAACAAAATTTCATGTATAAAATTGCA
1 CAAAACCAAAGTTCATGTATAAAATTACA
* *
15782730 CAAAATCAAAGTTCATATATAAAATTACA
1 CAAAACCAAAGTTCATGTATAAAATTACA
*
15782759 CATTAAACCATAGTTCATGTATAA
1 CA--AAACCAAAGTTCATGTATAA
15782783 TTTTGAGATT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 26 0.60
31 17 0.40
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (29 bp):
CAAAACCAAAGTTCATGTATAAAATTACA
Found at i:15787331 original size:33 final size:31
Alignment explanation
Indices: 15787255--15787346 Score: 76
Period size: 33 Copynumber: 2.7 Consensus size: 31
15787245 ATAATTTATA
* * * *
15787255 TTATTATAAATTTTTAAACAATAAAATTATTT
1 TTATTATATATTTTTAAA-ATTTAAATTAATT
*
15787287 TTATTTTTATATTTTTAAAAGTTTAAATATAATT
1 TTA-TTATATATTTTTAAAA-TTTAAAT-TAATT
15787321 TTATTATATATTAATTTAAAACTTTA
1 TTATTATATATT--TTTAAAA-TTTA
15787347 TAAATTTTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
32 4 0.08
33 26 0.54
34 7 0.15
35 11 0.23
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.54
Consensus pattern (31 bp):
TTATTATATATTTTTAAAATTTAAATTAATT
Found at i:15794439 original size:23 final size:25
Alignment explanation
Indices: 15794413--15794465 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
15794403 TGTATATTTT
*
15794413 TAATAGTTTTC-AATTTATAT-AAA
1 TAATAGTTTTCAAAGTTATATAAAA
*
15794436 TAATATTTTTCTAAAGTTATATAAAA
1 TAATAGTTTTC-AAAGTTATATAAAA
15794462 TAAT
1 TAAT
15794466 GTATATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
25 8 0.32
26 7 0.28
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (25 bp):
TAATAGTTTTCAAAGTTATATAAAA
Found at i:15802720 original size:27 final size:28
Alignment explanation
Indices: 15802673--15802730 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
15802663 TAAAATAATA
* **
15802673 TTAAATTAATATTCATTATT-ATTAAAT
1 TTAAATTAATATACACAATTAATTAAAT
15802700 TTAAATTAATATACACAATTAAATTAAAT
1 TTAAATTAATATACACAATT-AATTAAAT
15802729 TT
1 TT
15802731 TTTTTCATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 17 0.65
29 9 0.35
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAAATTAATATACACAATTAATTAAAT
Found at i:15802889 original size:11 final size:11
Alignment explanation
Indices: 15802875--15802902 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
15802865 TAGTATTTAA
15802875 AAAATTAATTT
1 AAAATTAATTT
15802886 AAAATTAATTT
1 AAAATTAATTT
15802897 AAAATT
1 AAAATT
15802903 TTTAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
AAAATTAATTT
Found at i:15807086 original size:12 final size:12
Alignment explanation
Indices: 15807063--15807095 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15807053 AAAACGAAAC
15807063 AGAAAG-AAAAA
1 AGAAAGAAAAAA
*
15807074 AGGAAGAAAAAA
1 AGAAAGAAAAAA
15807086 AGAAAGAAAA
1 AGAAAGAAAA
15807096 GGGAGAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAA
Found at i:15813436 original size:79 final size:81
Alignment explanation
Indices: 15813294--15813474 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 81
15813284 ATGATGTCCG
* *
15813294 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTG
*
15813358 CGAGATACTA-ATTCCA
66 CGAGATACTATA-ACCA
* * * ** *
15813374 GGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGACGGCAATTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAATTGT
* *
15813436 GCGAGTTACTATAACCG
65 GCGAGATACTATAACCA
*
15813453 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
15813475 AACGAGTAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 55 0.65
80 29 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTG
CGAGATACTATAACCA
Found at i:15813481 original size:40 final size:40
Alignment explanation
Indices: 15813290--15813474 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
15813280 TTGAATGATG
* * * *
15813290 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
15813330 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15813370 TCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
15813409 TCCGGGTTAAGTCCCGACGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15813450 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15813475 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 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:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15821344 original size:79 final size:81
Alignment explanation
Indices: 15821208--15821392 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
15821198 TTGAATGATG
* *
15821208 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
15821272 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
15821287 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
15821349 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
15821367 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15821393 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:15821406 original size:40 final size:40
Alignment explanation
Indices: 15821209--15821392 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
15821199 TGAATGATGT
* * * *
15821209 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
15821249 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
15821289 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
15821327 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
15821368 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
15821393 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:15821414 original size:79 final size:79
Alignment explanation
Indices: 15821261--15821425 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
15821251 GGACTAAGAT
* * **
15821261 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
15821326 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
15821340 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
15821403 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
15821419 CCGAAGG
1 CCGAAGG
15821426 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:15845356 original size:21 final size:22
Alignment explanation
Indices: 15845332--15845376 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
15845322 TTAAATCTCA
15845332 AAATT-TTAAAAATAAAAAATT
1 AAATTCTTAAAAATAAAAAATT
* *
15845353 AAATTCTTGAAAATAAAAATTT
1 AAATTCTTAAAAATAAAAAATT
15845375 AA
1 AA
15845377 TCACTAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
AAATTCTTAAAAATAAAAAATT
Found at i:15849854 original size:31 final size:30
Alignment explanation
Indices: 15849797--15849855 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
15849787 GTAAATACTC
* *
15849797 AAAATTTGAGGGATTAAAGTGTAAATATGA
1 AAAAGTTGAGGGATTAAAGTGAAAATATGA
15849827 AAAAGTTGAAGGGA-TAATAGTGAAAATAT
1 AAAAGTTG-AGGGATTAA-AGTGAAAATAT
15849856 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (30 bp):
AAAAGTTGAGGGATTAAAGTGAAAATATGA
Found at i:15850142 original size:11 final size:11
Alignment explanation
Indices: 15850126--15850150 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15850116 ATATAATATT
15850126 TTATTATTTTA
1 TTATTATTTTA
15850137 TTATTATTTTA
1 TTATTATTTTA
15850148 TTA
1 TTA
15850151 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:15850146 original size:19 final size:20
Alignment explanation
Indices: 15850112--15850160 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
15850102 AATTTGATTT
15850112 TTTTATATAATATTTTATTA
1 TTTTATATAATATTTTATTA
*
15850132 TTTTAT-TATTATTTTATTA
1 TTTTATATAATATTTTATTA
* *
15850151 GTATATATAA
1 TTTTATATAA
15850161 AGAAAGAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATATAATATTTTATTA
Found at i:15855742 original size:23 final size:23
Alignment explanation
Indices: 15855716--15855763 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
15855706 CTCCAATATC
*
15855716 AACAACAATGAC-AATAATAGAAT
1 AACAACAATAACAAATAA-AGAAT
15855739 AACAACAATAACAAATAAAGAAT
1 AACAACAATAACAAATAAAGAAT
15855762 AA
1 AA
15855764 TAATGATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.67, C:0.12, G:0.06, T:0.15
Consensus pattern (23 bp):
AACAACAATAACAAATAAAGAAT
Found at i:15857640 original size:132 final size:132
Alignment explanation
Indices: 15857398--15858257 Score: 1293
Period size: 132 Copynumber: 6.5 Consensus size: 132
15857388 TGCCATCGTC
* * * * *
15857398 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * *
15857463 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAT
66 TTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
15857528 AA
131 AA
*
15857530 GATCTGCTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
15857595 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
15857660 AA
131 AA
*
15857662 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* ** * *
15857727 TTCCTACCGATATAGGAAGATAGGATCTTATATCTTCGATCTACTTCACACCAATACATGAAGAG
66 TTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
15857792 AA
131 AA
* *
15857794 GATCTACTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
15857859 TTCCTACCGATATAGGAAGATAGGATCTGCTA-CATTCGATCTACTTCACGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGATAGGATCTGCTATC-TTCGATCTACTTCACGCCAATACATGAAGA
*
15857923 TAA
130 CAA
*
15857926 GATCTGCTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCAT-TCTCGATCCA
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCT-TCGATCCA
*
15857990 CTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGA
65 CTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
15858055 CAA
130 CAA
15858058 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * *
15858123 TTCCTACCGATATAGGAAGATAGGATTTGCTA-CATTCGATCTACTT--CGCCACTAATATGGGA
66 TTCCTACCAATATAGGAAGATAGGATCTGCTATC-TTCGATCTACTTCACGCCAAT-ACAT--GA
15858185 AGACAA
127 AGACAA
* * * * * * * * *
15858191 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTA
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-CATCTTCGATCCA
15858254 CTTC
65 CTTC
15858258 ACGCCAATAC
Statistics
Matches: 679, Mismatches: 40, Indels: 18
0.92 0.05 0.02
Matches are distributed among these distances:
130 6 0.01
131 28 0.04
132 628 0.92
133 17 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:15858036 original size:220 final size:221
Alignment explanation
Indices: 15857411--15858282 Score: 681
Period size: 220 Copynumber: 4.0 Consensus size: 221
15857401 CGGCTTTCTT
* * * * * *
15857411 CGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATAT
1 CGATCCACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATAC
* * * * * * *** * *
15857476 AGGAAGACAGGACCTGCTATC-TTCGATCTACTTC-ACGCCAATACATGAAGATAAGATCTGCTT
66 AGGAAGATAAGATCTGCTA-CATGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-A
* * * * * *
15857539 TCTGCGATCTACTTTGCC-ACCAATATGGGAAGACAAGATCTGCAT--CTTCGATCCAC-TTC-C
129 TCTTCGATCCAC-TT-CCTACCAATATAGGAAGATAGGATCTG-ATACCTTCGATCTACTTTCAC
* * * * *
15857599 TACCAATATAGGAAGATAGGATCTGATATCTT
191 -ACCAATACAGGAAGACAAGATCTGCTATCTG
* * * * * * * *
15857631 CGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAAT
1 CGATCCACTTCGCCACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAAT
** * * * * * * * * *
15857695 ATGGGAAGACAAGATCTGC-ATC-TTCGATCCACTTC-CTACCGATATAGGAAGATAGGATCTTA
64 ACAGGAAGATAAGATCTGCTA-CATGCGATCTACTTCGCCACCAATATGGGAAGACAAGATC-TG
* * * * * * ** *
15857757 TATCTTCGATCTACTTCAC-ACCAATACATGAAGAGAAGATCT-ACTTTCTGCGATCTACTTTGC
127 CATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGA-TACCTTCGATCTACTTT-C
** *
15857820 -CACCAATATGGGAAGACAAGATCTGC-ATCTT
189 ACACCAATACAGGAAGACAAGATCTGCTATCTG
* * * * * *
15857851 CGATCCACTTC-CTACCGATATAGGAAGATAGGATCTGC-TACATTCGATCTACTTCAC-GCCAA
1 CGATCCACTTCGCCACCAATATAGGAAGACAAGATCTGCAT-C-TTCGATCCACTTC-CTACCAA
* * *
15857913 TACATGAAGATAAGATCTGCTTTC-TGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTG
63 TACAGGAAGATAAGATCTGC-TACATGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
*
15857977 CAT-TCTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTAC-TTCAC
127 CATCT-TCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATACCTTCGATCTACTTTCAC
* * *
15858040 GCCAATACATGAAGACAAGATCTGCTTTCTG
191 ACCAATACAGGAAGACAAGATCTGCTATCTG
* * * *
15858071 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCGATAT
1 CGATCCACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATAC
* * * *
15858136 AGGAAGATAGGATTTGCTACATTCGATCTACTTCGCCACTAATATGGGAAGACAAGATCTGCATC
66 AGGAAGATAAGATCTGCTACATGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
* *
15858201 TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTAC-TTCACGCCAA
131 TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATACCTTCGATCTACTTTCACACCAA
*
15858265 TACATGAAGACAAGATCT
196 TACAGGAAGACAAGATCT
15858283 ACTTTAATGA
Statistics
Matches: 533, Mismatches: 95, Indels: 48
0.79 0.14 0.07
Matches are distributed among these distances:
217 1 0.00
218 4 0.01
219 93 0.17
220 342 0.64
221 90 0.17
222 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (221 bp):
CGATCCACTTCGCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATAC
AGGAAGATAAGATCTGCTACATGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATACCTTCGATCTACTTTCACACCAA
TACAGGAAGACAAGATCTGCTATCTG
Found at i:15878092 original size:1 final size:1
Alignment explanation
Indices: 15878086--15878152 Score: 134
Period size: 1 Copynumber: 67.0 Consensus size: 1
15878076 ATCAACTTGG
15878086 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15878151 TT
1 TT
15878153 ATTTACATTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15886822 original size:43 final size:43
Alignment explanation
Indices: 15886761--15886848 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
15886751 AAAGTCATGC
15886761 AAAGATTGGCCTCAAATTTCTTGTAACATCATATTATTACATT
1 AAAGATTGGCCTCAAATTTCTTGTAACATCATATTATTACATT
15886804 AAAGATTGGCCTCAAATTTCTTGTAACATCATATTATTACATT
1 AAAGATTGGCCTCAAATTTCTTGTAACATCATATTATTACATT
15886847 AA
1 AA
15886849 CATGAACAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (43 bp):
AAAGATTGGCCTCAAATTTCTTGTAACATCATATTATTACATT
Found at i:15891179 original size:16 final size:16
Alignment explanation
Indices: 15891158--15891196 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
15891148 GTTTGGTTCA
15891158 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
15891174 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
15891190 CTGTAAT
1 CTGTAAT
15891197 AAGTTATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:15891243 original size:46 final size:44
Alignment explanation
Indices: 15891182--15891269 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
15891172 AGCTGTAATG
* *
15891182 GAATAGAGCTGTAATAAGTTATTC-AACTGTTTGGTTGAATGGAATT
1 GAATAGAACTCTAAT-AG-TATTCTAA-TGTTTGGTTGAATGGAATT
*
15891228 GAATAGAACTCTAATAGTATTCTTATGTTTGGTTGAATGGAA
1 GAATAGAACTCTAATAGTATTCTAATGTTTGGTTGAATGGAA
15891270 GGATGTTGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 22 0.58
45 3 0.08
46 13 0.34
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.38
Consensus pattern (44 bp):
GAATAGAACTCTAATAGTATTCTAATGTTTGGTTGAATGGAATT
Found at i:15903649 original size:3 final size:3
Alignment explanation
Indices: 15903641--15903676 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
15903631 CCAGGGCAAA
15903641 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
15903677 GGTTTATATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:15909906 original size:17 final size:18
Alignment explanation
Indices: 15909884--15909918 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
15909874 TCGGTTGGGA
15909884 GTGGCTATAGAT-ATTTT
1 GTGGCTATAGATAATTTT
15909901 GTGGCTATAGATAATTTT
1 GTGGCTATAGATAATTTT
15909919 AATATTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.46
Consensus pattern (18 bp):
GTGGCTATAGATAATTTT
Found at i:15912035 original size:22 final size:22
Alignment explanation
Indices: 15912007--15912050 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15911997 CTCACCCCAC
15912007 TCAAAATTATCCTTATATCACG
1 TCAAAATTATCCTTATATCACG
15912029 TCAAAATTATCCTTATATCACG
1 TCAAAATTATCCTTATATCACG
15912051 AGTAAGGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (22 bp):
TCAAAATTATCCTTATATCACG
Found at i:15916100 original size:32 final size:32
Alignment explanation
Indices: 15916064--15916130 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
15916054 CACTGCAATT
15916064 TTAGTACCGATTTAAGACTGGAACAATATGTA
1 TTAGTACCGATTTAAGACTGGAACAATATGTA
* *
15916096 TTAGTACTGATTTAAGACTGGAACAGTATGTA
1 TTAGTACCGATTTAAGACTGGAACAATATGTA
15916128 TTA
1 TTA
15916131 ACCGGTACCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (32 bp):
TTAGTACCGATTTAAGACTGGAACAATATGTA
Found at i:15917798 original size:22 final size:22
Alignment explanation
Indices: 15917770--15917812 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15917760 GAGATTTCAG
*
15917770 GTTTTCAATGTATAAGTCAACA
1 GTTTTCAATGTATAAGCCAACA
*
15917792 GTTTTCATTGTATAAGCCAAC
1 GTTTTCAATGTATAAGCCAAC
15917813 CTTAAAGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
GTTTTCAATGTATAAGCCAACA
Found at i:15919078 original size:27 final size:27
Alignment explanation
Indices: 15919048--15919100 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
15919038 ACAGCTACAA
15919048 CTAAAAGAACTTCCTCGCCGGATCACT
1 CTAAAAGAACTTCCTCGCCGGATCACT
15919075 CTAAAAGAACTTCCTCGCCGGATCAC
1 CTAAAAGAACTTCCTCGCCGGATCAC
15919101 AGAAGCAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.21
Consensus pattern (27 bp):
CTAAAAGAACTTCCTCGCCGGATCACT
Found at i:15923540 original size:14 final size:13
Alignment explanation
Indices: 15923511--15923562 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
15923501 ATTTTAAAAT
15923511 TTAAATTTAATTA
1 TTAAATTTAATTA
*
15923524 TTAAATTTATTTTA
1 TTAAATTTA-ATTA
15923538 TTAAATTTAGATTCA
1 TTAAATTTA-ATT-A
*
15923553 TTAATTTTAA
1 TTAAATTTAA
15923563 AATCAACGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 9 0.27
14 15 0.45
15 9 0.27
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (13 bp):
TTAAATTTAATTA
Found at i:15924656 original size:71 final size:71
Alignment explanation
Indices: 15924576--15924726 Score: 248
Period size: 71 Copynumber: 2.1 Consensus size: 71
15924566 GCCCAAACGG
*
15924576 GTAACCTAATCTGTACTTTACAGCTTTGGCCAAGTTATTTGATGTGTCATTAAAAGGTTTAGCCC
1 GTAACCTAATCTGTACTTTACAGCTTTGGCCAAGTTATTTGACGTGTCATTAAAAGGTTTAGCCC
15924641 GGGCAA
66 GGGCAA
* * *
15924647 GTAATCTAATCTGTACTTTATAGCTTTGGCCAAGTTATTTGACGTGTCATTAAAAGTTTTAGCCC
1 GTAACCTAATCTGTACTTTACAGCTTTGGCCAAGTTATTTGACGTGTCATTAAAAGGTTTAGCCC
* *
15924712 GGACAG
66 GGGCAA
15924718 GTAACCTAA
1 GTAACCTAA
15924727 CACAAATGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (71 bp):
GTAACCTAATCTGTACTTTACAGCTTTGGCCAAGTTATTTGACGTGTCATTAAAAGGTTTAGCCC
GGGCAA
Found at i:15928158 original size:16 final size:18
Alignment explanation
Indices: 15928139--15928185 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
15928129 TCTTTTATGT
15928139 TTTATTATATT-T-TTAA
1 TTTATTATATTATATTAA
15928155 TTTATTATATTATATTAA
1 TTTATTATATTATATTAA
*
15928173 TATATTATTATTA
1 TTTATTA-TATTA
15928186 ATTTCTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 11 0.41
17 1 0.04
18 10 0.37
19 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTATTATATTATATTAA
Found at i:15928236 original size:28 final size:28
Alignment explanation
Indices: 15928202--15928261 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
15928192 TAAATACTAA
15928202 ATATATAATATATGTATATTATACATAC
1 ATATATAATATATGTATATTATACATAC
15928230 ATATATAATATATGTATATTATACATAC
1 ATATATAATATATGTATATTATACATAC
15928258 ATAT
1 ATAT
15928262 GGAATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (28 bp):
ATATATAATATATGTATATTATACATAC
Found at i:15930706 original size:9 final size:9
Alignment explanation
Indices: 15930692--15930716 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15930682 TTGATTGTAA
15930692 GAAGTTTAT
1 GAAGTTTAT
15930701 GAAGTTTAT
1 GAAGTTTAT
15930710 GAAGTTT
1 GAAGTTT
15930717 CTAAAGATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (9 bp):
GAAGTTTAT
Found at i:15941806 original size:15 final size:15
Alignment explanation
Indices: 15941786--15941835 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
15941776 ACAGCACGGT
15941786 AATATAAGTGACTAA
1 AATATAAGTGACTAA
* * *
15941801 AATATAAAT--TTCA
1 AATATAAGTGACTAA
*
15941814 AACATAAGTGACTAA
1 AATATAAGTGACTAA
15941829 AATATAA
1 AATATAA
15941836 TCAAAGGGAA
Statistics
Matches: 25, Mismatches: 8, Indels: 4
0.68 0.22 0.11
Matches are distributed among these distances:
13 9 0.36
15 16 0.64
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (15 bp):
AATATAAGTGACTAA
Found at i:15945818 original size:31 final size:33
Alignment explanation
Indices: 15945777--15945841 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
15945767 CTTCGAGCTT
*
15945777 CTTAATTTGCACA-TTG-AAGCAATCATTTGAG
1 CTTAATTTGCACATTTGAAAGCAAGCATTTGAG
*
15945808 CTTATTTTGCACATTTGAAAAGCAAGCATTTGAG
1 CTTAATTTGCACATTTG-AAAGCAAGCATTTGAG
15945842 GGATAACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 12 0.41
32 3 0.10
34 14 0.48
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (33 bp):
CTTAATTTGCACATTTGAAAGCAAGCATTTGAG
Found at i:15955653 original size:8 final size:9
Alignment explanation
Indices: 15955592--15955860 Score: 101
Period size: 9 Copynumber: 28.8 Consensus size: 9
15955582 TTTATAAATT
15955592 TTTTTATAA
1 TTTTTATAA
15955601 TTTTATATTAA
1 TTTT-TA-TAA
*
15955612 TTTTAATACA
1 TTTTTATA-A
15955622 TTTTTTATAA
1 -TTTTTATAA
**
15955632 TATTTTATGG
1 T-TTTTATAA
15955642 TTTTTAT-A
1 TTTTTATAA
15955650 TTTTTATAAAA
1 TTTTTAT--AA
*
15955661 TTTTTAAATA
1 TTTTTATA-A
*
15955671 TGTTTTGTTAA
1 T-TTTT-ATAA
15955682 -TTTTATAA
1 TTTTTATAA
15955690 TTTTTTTATAA
1 --TTTTTATAA
* *
15955701 TTGATTAGAA
1 TT-TTTATAA
*
15955711 TTTTT-GAA
1 TTTTTATAA
*
15955719 TTTTAAT-A
1 TTTTTATAA
15955727 TTTTTAATAA
1 TTTTT-ATAA
*
15955737 TATTTATAA
1 TTTTTATAA
*
15955746 ATTTT-T-A
1 TTTTTATAA
15955753 TTTTTATAA
1 TTTTTATAA
15955762 TTTTTATAA
1 TTTTTATAA
*
15955771 GTTTATATAA
1 -TTTTTATAA
* *
15955781 -CTTGA-AA
1 TTTTTATAA
15955788 TTTTTCATTGAA
1 TTTTT-A-T-AA
15955800 TATTTTA-AA
1 T-TTTTATAA
* *
15955809 TATTAATAA
1 TTTTTATAA
15955818 TTTTT-TAA
1 TTTTTATAA
*
15955826 TTTTTA-ATT
1 TTTTTATA-A
15955835 TTTTTATAA
1 TTTTTATAA
* *
15955844 TTTCTAATGA
1 TTT-TTATAA
15955854 TTTTTAT
1 TTTTTAT
15955861 GAGAAAATAT
Statistics
Matches: 194, Mismatches: 34, Indels: 64
0.66 0.12 0.22
Matches are distributed among these distances:
7 7 0.04
8 40 0.21
9 62 0.32
10 42 0.22
11 34 0.18
12 5 0.03
13 4 0.02
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15955765 original size:15 final size:16
Alignment explanation
Indices: 15955739--15955768 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15955729 TTTAATAATA
15955739 TTTATAAATTTTTATT
1 TTTATAAATTTTTATT
15955755 TTTAT-AATTTTTAT
1 TTTATAAATTTTTAT
15955769 AAGTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATAAATTTTTATT
Found at i:15955780 original size:35 final size:35
Alignment explanation
Indices: 15955680--15955780 Score: 93
Period size: 35 Copynumber: 2.8 Consensus size: 35
15955670 ATGTTTTGTT
*
15955680 AATTTTATAATTTTTTTATAATTGAT-TAGAATTTTTG
1 AATTTTATAA--TTTTTATAATTTATATA-AATTTTTG
15955717 AATTTTA-ATATTTTTAATAATATT-TATAAATTTTT-
1 AATTTTATA-ATTTTT-ATAAT-TTATATAAATTTTTG
*
15955752 ATTTTTATAATTTTTATAAGTTTATATAA
1 AATTTTATAATTTTTATAA-TTTATATAA
15955781 CTTGAAATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
34 6 0.11
35 23 0.42
36 15 0.27
37 11 0.20
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (35 bp):
AATTTTATAATTTTTATAATTTATATAAATTTTTG
Found at i:15965825 original size:24 final size:23
Alignment explanation
Indices: 15965781--15965826 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
15965771 AACTTTTTAC
15965781 TAAATTTATATATTTTAAATTTT
1 TAAATTTATATATTTTAAATTTT
* *
15965804 TAAATTTTTTATATTTTTAATTT
1 TAAA-TTTATATATTTTAAATTT
15965827 CAAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TAAATTTATATATTTTAAATTTT
Found at i:15967720 original size:17 final size:17
Alignment explanation
Indices: 15967698--15967737 Score: 71
Period size: 17 Copynumber: 2.3 Consensus size: 17
15967688 CATGTTACAC
15967698 ATAAATCATCACACCAA
1 ATAAATCATCACACCAA
15967715 ATAAATCATCACACCAA
1 ATAAATCATCACACCAA
15967732 ACTAAA
1 A-TAAA
15967738 ATTTCAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (17 bp):
ATAAATCATCACACCAA
Found at i:15968005 original size:21 final size:22
Alignment explanation
Indices: 15967958--15968008 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
15967948 CGATTAAAGA
15967958 ATTAAAATATTACATATATAAT
1 ATTAAAATATTACATATATAAT
* *
15967980 TTTAAAATATT-GATA-ATTAAT
1 ATTAAAATATTACATATA-TAAT
15968001 ATTAAAAT
1 ATTAAAAT
15968009 GATAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.56
22 10 0.40
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTAAAATATTACATATATAAT
Found at i:15979747 original size:46 final size:44
Alignment explanation
Indices: 15979643--15979750 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
15979633 TGTCTTTAAC
** * * *
15979643 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
15979687 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
15979733 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
15979751 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:15980149 original size:40 final size:40
Alignment explanation
Indices: 15980087--15980181 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
15980077 CTTTTCTTTC
* *
15980087 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
15980128 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
15980168 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
15980182 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:15980206 original size:8 final size:8
Alignment explanation
Indices: 15980195--15980226 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
15980185 TTTGTCATAT
15980195 ATATAATA
1 ATATAATA
15980203 ATATAATA
1 ATATAATA
15980211 ATATAATA
1 ATATAATA
15980219 ATATAATA
1 ATATAATA
15980227 TAAAACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:15985389 original size:5 final size:5
Alignment explanation
Indices: 15985379--15985405 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15985369 CTTACAAGGA
15985379 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
15985406 TATAATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:15985428 original size:23 final size:22
Alignment explanation
Indices: 15985402--15985452 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
15985392 TTTTATTTTA
*
15985402 TTTTTATAATT-TGTTTTTGATT
1 TTTTTATAATTAT-CTTTTGATT
*
15985424 CTTTTCATAATTATCTTTTGATT
1 -TTTTTATAATTATCTTTTGATT
15985447 TTTTTA
1 TTTTTA
15985453 GTTTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTTTATAATTATCTTTTGATT
Found at i:15998591 original size:16 final size:15
Alignment explanation
Indices: 15998565--15998599 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
15998555 TGATGTGAAT
15998565 AATATAAAATATTAA
1 AATATAAAATATTAA
*
15998580 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
15998596 AATA
1 AATA
15998600 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:15998787 original size:21 final size:21
Alignment explanation
Indices: 15998745--15998787 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
15998735 CCTTTTTTAG
*
15998745 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACGAA
*
15998766 AATAAT-ATTATATACACAGAA
1 AATAATAATTAAATACAC-GAA
15998787 A
1 A
15998788 GGTATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACGAA
Found at i:15999003 original size:11 final size:11
Alignment explanation
Indices: 15998987--15999016 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15998977 TAACATTAAG
15998987 AATATATATAT
1 AATATATATAT
*
15998998 AATATAAATAT
1 AATATATATAT
15999009 AATATATA
1 AATATATA
15999017 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:15999479 original size:11 final size:12
Alignment explanation
Indices: 15999438--15999488 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
15999428 GGAAAAGGTA
15999438 ATTTTTT-TTAT
1 ATTTTTTATTAT
*
15999449 ATTTGTTTTGTATAT
1 A-TT-TTTTAT-TAT
15999464 ATATTTTTATTAT
1 AT-TTTTTATTAT
15999477 ATTTTTTATTAT
1 ATTTTTTATTAT
15999489 GATGTATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
11 1 0.03
12 12 0.35
13 9 0.26
14 7 0.21
15 5 0.15
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (12 bp):
ATTTTTTATTAT
Found at i:16004030 original size:87 final size:86
Alignment explanation
Indices: 16003881--16004043 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 86
16003871 AAGTTTGGTG
* * *
16003881 AATTCATCAAGTCCATCTCAATAGGACCACCCAAACTCTAGTATATGAACTCATTAAGAGTAAGA
1 AATTCATCAAGTCCATCTCAATAAGACCACCCAAACTCTAGGATATGAACTCATTAAAAGTAA-A
*
16003946 AACTCAACCTTACACGTCAGTA
65 AACTAAACCTTACACGTCAGTA
** * * * * * *
16003968 AATTCATCAAGTCTGTCTTAATAATACCGCCCAAACTCTAGGCTATGAATTCATTAAAAGTAATA
1 AATTCATCAAGTCCATCTCAATAAGACCACCCAAACTCTAGGATATGAACTCATTAAAAGTAAAA
16004033 ACTAAACCTTA
66 ACTAAACCTTA
16004044 TGCATGTACA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
86 11 0.17
87 53 0.83
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.27
Consensus pattern (86 bp):
AATTCATCAAGTCCATCTCAATAAGACCACCCAAACTCTAGGATATGAACTCATTAAAAGTAAAA
ACTAAACCTTACACGTCAGTA
Found at i:16016002 original size:43 final size:45
Alignment explanation
Indices: 16015917--16016004 Score: 153
Period size: 43 Copynumber: 2.0 Consensus size: 45
16015907 AACAAATATA
16015917 TTTATTAAAAATTATTATAAAAATAAATTAAACTTTAATTAAAAT
1 TTTATTAAAAATTATTATAAAAATAAATTAAACTTTAATTAAAAT
*
16015962 TTTATTAAAAATTATTAT-AAAA-AAATTAAACTTTAGTTAAAAT
1 TTTATTAAAAATTATTATAAAAATAAATTAAACTTTAATTAAAAT
16016005 CATAATATTG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 20 0.48
44 4 0.10
45 18 0.43
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (45 bp):
TTTATTAAAAATTATTATAAAAATAAATTAAACTTTAATTAAAAT
Found at i:16017122 original size:27 final size:23
Alignment explanation
Indices: 16017083--16017135 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 23
16017073 ATTCATGTCC
*
16017083 TTTTTGTCCATTTCCGCTTGATTTTT
1 TTTTTGTCAATTT-CG-TTG-TTTTT
16017109 TTTTTGGTCAATTTCGTTGTTTTT
1 TTTTT-GTCAATTTCGTTGTTTTT
16017133 TTT
1 TTT
16017136 AACAACAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 8 0.32
25 3 0.12
26 7 0.28
27 7 0.28
ACGTcount: A:0.08, C:0.13, G:0.13, T:0.66
Consensus pattern (23 bp):
TTTTTGTCAATTTCGTTGTTTTT
Found at i:16024888 original size:37 final size:37
Alignment explanation
Indices: 16024838--16024912 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
16024828 CATTGTTCAC
16024838 ATTCCAGTAACGTTGGAAAACATCAAGCTTTGAACCA
1 ATTCCAGTAACGTTGGAAAACATCAAGCTTTGAACCA
16024875 ATTCCAGTAACGTTGGAAAACATCAAGCTTTGAACCA
1 ATTCCAGTAACGTTGGAAAACATCAAGCTTTGAACCA
16024912 A
1 A
16024913 GACATGTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (37 bp):
ATTCCAGTAACGTTGGAAAACATCAAGCTTTGAACCA
Found at i:16040235 original size:18 final size:18
Alignment explanation
Indices: 16040212--16040255 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
16040202 TTATAGTCCA
16040212 CCTCCACCACCTTCTTCG
1 CCTCCACCACCTTCTTCG
16040230 CCTCCACCACCTTCTTCG
1 CCTCCACCACCTTCTTCG
16040248 CCTCCACC
1 CCTCCACC
16040256 TGTTAGACGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.11, C:0.59, G:0.05, T:0.25
Consensus pattern (18 bp):
CCTCCACCACCTTCTTCG
Found at i:16050621 original size:34 final size:34
Alignment explanation
Indices: 16050573--16050700 Score: 118
Period size: 34 Copynumber: 3.7 Consensus size: 34
16050563 AGTATTCACC
* *
16050573 AAAATGAAACAAAAATGATAAGGCTTAAAACTAA
1 AAAATGAAACAAAAATAATAAGACTTAAAACTAA
*
16050607 AAAATGAAATAAAAATAATAAGACTTAAAACTCTAA
1 AAAATGAAACAAAAATAATAAGACTTAAAA--CTAA
* ** * *
16050643 CAAGA-GAAACACTACTAATAAGATTTAAAACTAA
1 -AAAATGAAACAAAAATAATAAGACTTAAAACTAA
16050677 AAAATGGAAA-AAAAATTAA-AAGAC
1 AAAAT-GAAACAAAAA-TAATAAGAC
16050701 CTACAATTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
33 3 0.04
34 37 0.50
35 7 0.09
36 24 0.32
37 3 0.04
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.19
Consensus pattern (34 bp):
AAAATGAAACAAAAATAATAAGACTTAAAACTAA
Found at i:16052784 original size:58 final size:58
Alignment explanation
Indices: 16052694--16052803 Score: 166
Period size: 58 Copynumber: 1.9 Consensus size: 58
16052684 ATATACTTTG
* * * *
16052694 ATGCTCACATAGAGCTACTGTAGTCCACAACTTATGCGGAATTACTGCCAATACATTA
1 ATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGGAATTACTACCAATACATTA
* *
16052752 ATGCTCACACAGAGCTACGGTAGCCCACAACTTATGTGGAATTGCTACCAAT
1 ATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGGAATTACTACCAAT
16052804 CACTATATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (58 bp):
ATGCTCACACAGAGCTACGGTAGCCCACAACTTATGCGGAATTACTACCAATACATTA
Found at i:16053706 original size:4 final size:4
Alignment explanation
Indices: 16053697--16053721 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
16053687 CCTTTTTCTT
16053697 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
16053722 CTCCTGTTCG
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:16053773 original size:8 final size:8
Alignment explanation
Indices: 16053755--16053835 Score: 69
Period size: 8 Copynumber: 9.9 Consensus size: 8
16053745 TGTTTCTTAT
16053755 TATATATAA
1 TATA-ATAA
16053764 TATAATAA
1 TATAATAA
16053772 TATAATAA
1 TATAATAA
16053780 TATAATAA
1 TATAATAA
16053788 TATAAATTAA
1 TAT-AA-TAA
* *
16053798 TATATTAC
1 TATAATAA
*
16053806 T-TAATTA
1 TATAATAA
16053813 T-TAAGTTAA
1 TATAA--TAA
16053822 TATAAT-A
1 TATAATAA
16053829 TATAATA
1 TATAATA
16053836 TATTTTTTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
7 14 0.23
8 27 0.45
9 10 0.17
10 9 0.15
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (8 bp):
TATAATAA
Found at i:16055418 original size:22 final size:23
Alignment explanation
Indices: 16055393--16055438 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16055383 CAACCAATTC
16055393 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
16055415 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
16055438 A
1 A
16055439 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:16055444 original size:23 final size:23
Alignment explanation
Indices: 16055400--16055444 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16055390 TTCAATTCAA
*
16055400 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
16055423 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
16055445 CACATATCTA
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:16063041 original size:22 final size:23
Alignment explanation
Indices: 16063016--16063061 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
16063006 CAACCAATTC
16063016 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
16063038 AATTCATACATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
16063061 A
1 A
16063062 CGCCACCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:16068701 original size:3 final size:3
Alignment explanation
Indices: 16068693--16068768 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
16068683 TTAATTTATT
* * ** *
16068693 TAA TAA TAA TAC TAA TAA TAA TAA T-C TAA T-A TAA -AA CCA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
16068738 TAA TTAA TAA TTA TAA TAA TTA TATA TAA TA
1 TAA -TAA TAA TAA TAA TAA TAA TA-A TAA TA
16068769 TTTAAATATA
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
2 5 0.09
3 44 0.80
4 6 0.11
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:16072533 original size:21 final size:21
Alignment explanation
Indices: 16072478--16072537 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
16072468 AAAAACTGTA
* *
16072478 GTTTTTTTTTTCTGTTTT-TT
1 GTTTTTTTTTACTATTTTGTT
* * * *
16072498 ATTATCTTTTGCTATTTTGTT
1 GTTTTTTTTTACTATTTTGTT
16072519 GTTTTTTTTTACTATTTTG
1 GTTTTTTTTTACTATTTTG
16072538 CTACCATTTC
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.08, C:0.07, G:0.10, T:0.75
Consensus pattern (21 bp):
GTTTTTTTTTACTATTTTGTT
Done.