Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5677467
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 24
Found at i:5036522 original size:496 final size:496
Alignment explanation
Indices: 5035589--5036573 Score: 1740
Period size: 496 Copynumber: 2.0 Consensus size: 496
5035579 TCTAGATTCA
5035589 TCCCCAAAATGATCTAGAATATTCATCCAACTTTGAACATAAGAAGACAAAGCATTCAAGTGCAT
1 TCCCCAAAATGATCTAGAATATTCATCCAACTTTGAACATAAGAAGACAAAGCATTCAAGTGCAT
5035654 TTTATTGCTAAATTGATGAGAATATTATCATCTTTTGAGTCTTTTCATATGCTTATTAGAAATAC
66 TTTATTGCTAAATTGATGAGAATATTATCATCTTTTGAGTCTTTTCATATGCTTATTAGAAATAC
* * *
5035719 TATAAATAGGCACCTTTGGGATCATTTGTAGACACACAATTTCATTTTTGAAAATAGTTTGAAAT
131 TATAAATAGGCACCTTTGGGATCATTTGTAGACACACAATTTCATTTATGAAAATACTTTGAAAG
* *
5035784 ATTGCTTTCATTTTAGTTCTTATATTAGAGCTCTATCGGTTTCTTGTCGATCTTGAAGCATTCAT
196 ATTGCTTTCATTTTAGTTATTATATTAGAACTCTATCGGTTTCTTGTCGATCTTGAAGCATTCAT
* * * *
5035849 CCATTTCATCTAGTTATAGCGTTTGTTCCTAACTCTACTATAGCTAGTGGGTCACGTTCCACCCT
261 ACATTTCATCTAGTTATAGCATTGGTTCCTAACTCTACTATAGCTAGCGGGTCACGTTCCACCCT
*
5035914 CTATTACTTCGAATCCATCTTTATTATATTGTTGGTTCCTAACTCATATATAGTTAAAGGGTCTC
326 CTATCACTTCGAATCCATCTTTATTATATTGTTGGTTCCTAACTCATATATAGTTAAAGGGTCTC
*
5035979 AATCCATCCTTTGAATTACTATCATTCTCCACGCCAACCACAAACATCCTTCACCTTTTTTGTTA
391 AATCCATCATTTGAATTACTATCATTCTCCACGCCAACCACAAACATCCTTCACCTTTTTTGTTA
5036044 CATCCATTCAACCATTATCACCACCACACTTGTTGCTATCG
456 CATCCATTCAACCATTATCACCACCACACTTGTTGCTATCG
5036085 TCCCCAAAATGATCTAGAATATTCATCCAACTTTGAACATAAGAAGACAAAGCATTCAAGTGCAT
1 TCCCCAAAATGATCTAGAATATTCATCCAACTTTGAACATAAGAAGACAAAGCATTCAAGTGCAT
* *
5036150 TTTATTGCTAAATTGATGAGAATGTTATCATCTTTTGAGTCTTTTCATATGCTTCTTAGAAATAC
66 TTTATTGCTAAATTGATGAGAATATTATCATCTTTTGAGTCTTTTCATATGCTTATTAGAAATAC
*
5036215 TATAAATAGGCACCTTTGGGATCATTTGTAGACACACAATTTGATTTATGAAAATACTTTGAAAG
131 TATAAATAGGCACCTTTGGGATCATTTGTAGACACACAATTTCATTTATGAAAATACTTTGAAAG
* *
5036280 ATTGCTTTCATTTTAGTTATTGA-ATTAGAACTCTATCGGTTTTTTGTC-AGTCTTGAAGCCTTC
196 ATTGCTTTCATTTTAGTTATT-ATATTAGAACTCTATCGGTTTCTTGTCGA-TCTTGAAGCATTC
* *
5036343 ATACATTTCATCTTGTTATAGCATTGGTTCCTAGCTCTACTATAGCTAGCGGGTCACGTTCCACC
259 ATACATTTCATCTAGTTATAGCATTGGTTCCTAACTCTACTATAGCTAGCGGGTCACGTTCCACC
* * *
5036408 CTCTATCATTTCGATTCCATCTTTATTATATTGTTGGTTCCTAACTCATATATAGTTAGAGGGTC
324 CTCTATCACTTCGAATCCATCTTTATTATATTGTTGGTTCCTAACTCATATATAGTTAAAGGGTC
*
5036473 TCAATCCATCATTTGAATTACTATCATTCTCTACGCCAACCACAAACATCCTTCACCTTTTTTGT
389 TCAATCCATCATTTGAATTACTATCATTCTCCACGCCAACCACAAACATCCTTCACCTTTTTTGT
5036538 TACATCCATTCAACCATTATCACCACCACACTTGTT
454 TACATCCATTCAACCATTATCACCACCACACTTGTT
5036574 TCATTTACAA
Statistics
Matches: 465, Mismatches: 22, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
495 1 0.00
496 463 1.00
497 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (496 bp):
TCCCCAAAATGATCTAGAATATTCATCCAACTTTGAACATAAGAAGACAAAGCATTCAAGTGCAT
TTTATTGCTAAATTGATGAGAATATTATCATCTTTTGAGTCTTTTCATATGCTTATTAGAAATAC
TATAAATAGGCACCTTTGGGATCATTTGTAGACACACAATTTCATTTATGAAAATACTTTGAAAG
ATTGCTTTCATTTTAGTTATTATATTAGAACTCTATCGGTTTCTTGTCGATCTTGAAGCATTCAT
ACATTTCATCTAGTTATAGCATTGGTTCCTAACTCTACTATAGCTAGCGGGTCACGTTCCACCCT
CTATCACTTCGAATCCATCTTTATTATATTGTTGGTTCCTAACTCATATATAGTTAAAGGGTCTC
AATCCATCATTTGAATTACTATCATTCTCCACGCCAACCACAAACATCCTTCACCTTTTTTGTTA
CATCCATTCAACCATTATCACCACCACACTTGTTGCTATCG
Found at i:5050168 original size:69 final size:70
Alignment explanation
Indices: 5050094--5050226 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
5050084 AAAGTGACTT
* * * *
5050094 TATTATCAATCGTTAGGTATATTTTATTACATTATGCTT-AAAAAAATCTTAGCCTCACGCAACT
1 TATTATCAATCATTAGGGATATTTTATTACATTATGCTTAAAAAAAATCCTAACCTCACGCAACT
5050158 CTTTA
66 CTTTA
* *
5050163 TATTATCAATCATTAGGGATATTTTATTGCGTTATGCTTAAAAAAAATCCTAACCTCACGCAAC
1 TATTATCAATCATTAGGGATATTTTATTACATTATGCTTAAAAAAAATCCTAACCTCACGCAAC
5050227 CATTTATCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 35 0.61
70 22 0.39
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.38
Consensus pattern (70 bp):
TATTATCAATCATTAGGGATATTTTATTACATTATGCTTAAAAAAAATCCTAACCTCACGCAACT
CTTTA
Found at i:5050401 original size:16 final size:16
Alignment explanation
Indices: 5050380--5050411 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5050370 AATAAATAAG
5050380 CGAACATAAACGAACA
1 CGAACATAAACGAACA
*
5050396 CGAACATAAATGAACA
1 CGAACATAAACGAACA
5050412 AAATTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.22, G:0.12, T:0.09
Consensus pattern (16 bp):
CGAACATAAACGAACA
Found at i:5050492 original size:10 final size:10
Alignment explanation
Indices: 5050477--5050551 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
5050467 CATTTAATAA
5050477 ATAAACGAAC
1 ATAAACGAAC
5050487 ATAAACGAAC
1 ATAAACGAAC
*
5050497 ----ACAAAC
1 ATAAACGAAC
5050503 ATAAACGAAC
1 ATAAACGAAC
* *
5050513 ATGAAC-ATAA
1 ATAAACGA-AC
5050523 ATGAACACGAAC
1 AT-AA-ACGAAC
5050535 ATAAACGAAC
1 ATAAACGAAC
5050545 ATAAACG
1 ATAAACG
5050552 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 5 0.10
9 1 0.02
10 36 0.71
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.59, C:0.20, G:0.11, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:5050505 original size:16 final size:16
Alignment explanation
Indices: 5050484--5050550 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
5050474 TAAATAAACG
5050484 AACATAAACGAACACA
1 AACATAAACGAACACA
**
5050500 AACATAAACGAACATG
1 AACATAAACGAACACA
* *
5050516 AACATAAATGAACACG
1 AACATAAACGAACACA
*
5050532 AACATAAACGAACATA
1 AACATAAACGAACACA
5050548 AAC
1 AAC
5050551 GTTGGAGACC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.60, C:0.21, G:0.09, T:0.10
Consensus pattern (16 bp):
AACATAAACGAACACA
Found at i:5050519 original size:32 final size:32
Alignment explanation
Indices: 5050483--5050546 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
5050473 ATAAATAAAC
5050483 GAACATAAACGAACACAAACATAAACGAACAT
1 GAACATAAACGAACACAAACATAAACGAACAT
* *
5050515 GAACATAAATGAACACGAACATAAACGAACAT
1 GAACATAAACGAACACAAACATAAACGAACAT
5050547 AAACGTTGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.58, C:0.20, G:0.11, T:0.11
Consensus pattern (32 bp):
GAACATAAACGAACACAAACATAAACGAACAT
Found at i:5051841 original size:27 final size:29
Alignment explanation
Indices: 5051775--5051841 Score: 75
Period size: 33 Copynumber: 2.2 Consensus size: 29
5051765 GAAGGGAAAG
*
5051775 AGATGAAGCTCTGTCGAATCGTTGCAGTTGA
1 AGATGAAGCTCCGTCGAATCGTTGCA--TGA
5051806 AGACTTGAAGCTCCGTCGAATCGTTGCA-GA
1 AGA--TGAAGCTCCGTCGAATCGTTGCATGA
5051836 A-ATGAA
1 AGATGAA
5051842 AATTGTGGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 4 0.12
29 1 0.03
30 3 0.09
31 3 0.09
33 22 0.67
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (29 bp):
AGATGAAGCTCCGTCGAATCGTTGCATGA
Found at i:5052127 original size:24 final size:24
Alignment explanation
Indices: 5052066--5052127 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
5052056 TATTAGGTTA
*
5052066 AACATAAATGAACGCACATAAACG
1 AACATAACTGAACGCACATAAACG
* *
5052090 AACATAACTAAACGCATATAAACG
1 AACATAACTGAACGCACATAAACG
*
5052114 AACATAACCGAACG
1 AACATAACTGAACG
5052128 TTCACTAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.53, C:0.23, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAACTGAACGCACATAAACG
Found at i:5052148 original size:34 final size:34
Alignment explanation
Indices: 5052064--5052150 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 34
5052054 AATATTAGGT
* *
5052064 TAAACATAAATGAACGCACATAAACGAACATAAC
1 TAAACGTAAATGAACGAACATAAACGAACATAAC
* * * * * *
5052098 TAAACGCATATAAACGAACATAACCGAACGTTCAC
1 TAAACGTAAATGAACGAACATAAACGAAC-ATAAC
5052133 T-AACGTAAATGAACGAAC
1 TAAACGTAAATGAACGAAC
5052151 GAGGCCTATG
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
34 37 0.90
35 4 0.10
ACGTcount: A:0.51, C:0.22, G:0.11, T:0.16
Consensus pattern (34 bp):
TAAACGTAAATGAACGAACATAAACGAACATAAC
Found at i:5055101 original size:45 final size:46
Alignment explanation
Indices: 5055052--5055142 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
5055042 GAACATTGAA
* * *
5055052 TGCATTTTATGCATCGATGCAC-ATACCATGCATCGATGTACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
*
5055097 TGCATTTGATGCATCGATGCACAAGACTATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
5055143 GCTTTTTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 21 0.51
46 20 0.49
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (46 bp):
TGCATTTGATGCATCGATGCACAAGACCATGCATCGATGCACTCAG
Found at i:5061269 original size:6 final size:6
Alignment explanation
Indices: 5061260--5061310 Score: 50
Period size: 6 Copynumber: 8.0 Consensus size: 6
5061250 AAGGTAAAGG
*
5061260 TAAAAA TAAAAGA -AAACAA TAAAAA TAAAAA TACAAAC TAAAAAA TAAAAA
1 TAAAAA TAAAA-A TAAA-AA TAAAAA TAAAAA TA-AAAA T-AAAAA TAAAAA
5061311 AATAACATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
6 24 0.63
7 13 0.34
8 1 0.03
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (6 bp):
TAAAAA
Found at i:5061289 original size:14 final size:13
Alignment explanation
Indices: 5061261--5061310 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
5061251 AGGTAAAGGT
5061261 AAAAATAAAAGA-A
1 AAAAATAAAA-ATA
*
5061274 AACAATAAAAAT-
1 AAAAATAAAAATA
*
5061286 AAAAATACAAACTA
1 AAAAATA-AAAATA
5061300 AAAAATAAAAA
1 AAAAATAAAAA
5061311 AATAACATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 7 0.23
13 16 0.53
14 7 0.23
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:5061290 original size:20 final size:21
Alignment explanation
Indices: 5061260--5061310 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
5061250 AAGGTAAAGG
5061260 TAAAAAT-AAAAGA-AAACAA
1 TAAAAATAAAAAGACAAACAA
* *
5061279 TAAAAATAAAAATACAAACTA
1 TAAAAATAAAAAGACAAACAA
5061300 -AAAAATAAAAA
1 TAAAAATAAAAA
5061311 AATAACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 7 0.25
20 16 0.57
21 5 0.18
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (21 bp):
TAAAAATAAAAAGACAAACAA
Found at i:5061423 original size:23 final size:24
Alignment explanation
Indices: 5061383--5061430 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
5061373 GTATATACAT
*
5061383 ATAAAACAAAAACGAAAA-GAATG
1 ATAAAACAAAAACAAAAAGGAATG
5061406 ATAAAACAAATAA-AAAAAGGAATG
1 ATAAAACAAA-AACAAAAAGGAATG
5061430 A
1 A
5061431 AAATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.71, C:0.06, G:0.12, T:0.10
Consensus pattern (24 bp):
ATAAAACAAAAACAAAAAGGAATG
Found at i:5067090 original size:7 final size:7
Alignment explanation
Indices: 5067078--5067102 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5067068 AATTTGAATC
5067078 AATTTAA
1 AATTTAA
5067085 AATTTAA
1 AATTTAA
5067092 AATTTAA
1 AATTTAA
5067099 AATT
1 AATT
5067103 CAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:5067134 original size:2 final size:2
Alignment explanation
Indices: 5067127--5067172 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
5067117 TTCTTGGCAT
5067127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5067169 TA TA
1 TA TA
5067173 CCAACAATCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5071280 original size:18 final size:18
Alignment explanation
Indices: 5071257--5071300 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
5071247 TTATGCTTAT
5071257 GAAGAGAGAAATATAGAA
1 GAAGAGAGAAATATAGAA
5071275 GAAGAGAGAAATATAGAA
1 GAAGAGAGAAATATAGAA
5071293 GAAGAGAG
1 GAAGAGAG
5071301 GACAATGAAT
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:0.59, C:0.00, G:0.32, T:0.09
Consensus pattern (18 bp):
GAAGAGAGAAATATAGAA
Found at i:5071489 original size:6 final size:6
Alignment explanation
Indices: 5071480--5071510 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
5071470 TATATTATCT
*
5071480 TTATAA TTATAA TTATAA TTATAA TAATAA T
1 TTATAA TTATAA TTATAA TTATAA TTATAA T
5071511 CATTAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TTATAA
Found at i:5072888 original size:20 final size:21
Alignment explanation
Indices: 5072865--5072909 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
5072855 ATTTTCATCC
*
5072865 TTTAGTTATA-TATTTATAAA
1 TTTAGTTATATTATATATAAA
*
5072885 TTTA-TTTTATTATATATAAA
1 TTTAGTTATATTATATATAAA
5072905 TTTAG
1 TTTAG
5072910 GGAAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTAGTTATATTATATATAAA
Found at i:5073757 original size:20 final size:21
Alignment explanation
Indices: 5073734--5073778 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
5073724 ATTTTCATCC
*
5073734 TTTAGTTATA-TATTTATAAA
1 TTTAGTTATATTATATATAAA
*
5073754 TTTA-TTTTATTATATATAAA
1 TTTAGTTATATTATATATAAA
5073774 TTTAG
1 TTTAG
5073779 GGAAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTAGTTATATTATATATAAA
Found at i:5074765 original size:3 final size:3
Alignment explanation
Indices: 5074759--5074823 Score: 96
Period size: 3 Copynumber: 21.3 Consensus size: 3
5074749 AAGTTACTAC
*
5074759 TAT TAT TAT TAG TATT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
5074806 TA- TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
5074824 GCTATTTGCA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 2 0.04
3 50 0.88
4 5 0.09
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:5074780 original size:16 final size:16
Alignment explanation
Indices: 5074759--5074823 Score: 112
Period size: 16 Copynumber: 4.0 Consensus size: 16
5074749 AAGTTACTAC
*
5074759 TATTATTATTAGTATT
1 TATTATTATTATTATT
5074775 TATTATTATTATTATT
1 TATTATTATTATTATT
5074791 TATTATTATTATTATT
1 TATTATTATTATTATT
5074807 ATATTATTATTATTATT
1 -TATTATTATTATTATT
5074824 GCTATTTGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
16 31 0.66
17 16 0.34
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
TATTATTATTATTATT
Found at i:5075030 original size:27 final size:27
Alignment explanation
Indices: 5074981--5075032 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
5074971 TACAAAAGAA
* *
5074981 GGGATATGATTCATTTTGATTATGCTT
1 GGGATATGATTAATTTTAATTATGCTT
5075008 GGGATATGA-TAATTTTAATTTATGC
1 GGGATATGATTAATTTTAA-TTATGC
5075033 ATTTTAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.46
Consensus pattern (27 bp):
GGGATATGATTAATTTTAATTATGCTT
Found at i:5076374 original size:139 final size:139
Alignment explanation
Indices: 5075779--5076330 Score: 861
Period size: 139 Copynumber: 4.0 Consensus size: 139
5075769 TTGGAATCAA
* *
5075779 ATAATTGATTAAAATTAATTAGGATTAATATTAGAGTCTTCACTTTAGGCCTAATTTCAAATTTA
1 ATAATTGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTTAAATTTA
* * *
5075844 GTCCTTAAATTTAGATGAATTCTTAATTTGGTCCTCGCTTTTGCTTAAGGTTCCACTTTAATTAG
66 GTCCTTAAATTTAGGTGAATTCTTAATTTGGTCCTCGCTTTTGCTCAAGGTTCCACTTTAATTAT
* *
5075909 TCAAATTGA
131 TCGAATTGC
* * *
5075918 ATAATTGAATTAAAATTAATTATGATTAATATTAGATCCTTCACTTTAGGCCTAATTTAAAATTT
1 ATAATTG-ATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTTAAATTT
* * *
5075983 AGTTCTTAAATTTAGGTGAATTCTTATTTTGGTCCTCGCTTTTGCTTAAGGTTCCACTTTAATTA
65 AGTCCTTAAATTTAGGTGAATTCTTAATTTGGTCCTCGCTTTTGCTCAAGGTTCCACTTTAATTA
5076048 TTCGAATTGC
130 TTCGAATTGC
* *
5076058 ATAATTGATTAAAGTTAATTAGGATTAATATTAAAGCCTTCACTTTAGGCCTAATTTTAAATTTA
1 ATAATTGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTTAAATTTA
* * * * *
5076123 GTCCTCAAATTTAGGTGAATTGTTAATTTAGTCCTCGCTTTTCCTCGAGGTTCCACTTTAATTAT
66 GTCCTTAAATTTAGGTGAATTCTTAATTTGGTCCTCGCTTTTGCTCAAGGTTCCACTTTAATTAT
5076188 TCGAATTGC
131 TCGAATTGC
* **
5076197 ATAATTGAATAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAAACCTAATTTTAAATTTA
1 ATAATTGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTTAAATTTA
* * *
5076262 GTCCTTAAATTTAGGTGAATTCTTAATTTGGTCCTCACTTTTGCTCGAGGTTCCATTTTAATTAT
66 GTCCTTAAATTTAGGTGAATTCTTAATTTGGTCCTCGCTTTTGCTCAAGGTTCCACTTTAATTAT
5076327 TCGA
131 TCGA
5076331 CTCAATAATT
Statistics
Matches: 378, Mismatches: 34, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
139 249 0.66
140 129 0.34
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.43
Consensus pattern (139 bp):
ATAATTGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTTAAATTTA
GTCCTTAAATTTAGGTGAATTCTTAATTTGGTCCTCGCTTTTGCTCAAGGTTCCACTTTAATTAT
TCGAATTGC
Found at i:5089112 original size:18 final size:16
Alignment explanation
Indices: 5089089--5089125 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
5089079 TGGAAAGAGA
5089089 AAAATAAATGTCAAAAAT
1 AAAATAAAT-T-AAAAAT
5089107 AAAATAAATTAAAAAT
1 AAAATAAATTAAAAAT
5089123 AAA
1 AAA
5089126 CAAATCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 1 0.05
18 9 0.47
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAATAAATTAAAAAT
Found at i:5097367 original size:21 final size:23
Alignment explanation
Indices: 5097326--5097428 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 23
5097316 GTTGAGGGTT
5097326 TTATGTGGTCA-TTCGGGAC-AA-
1 TTATGTGG-CACTTCGGGACAAAC
* *
5097347 TTATGTGGCACTTTGGTACAAAC
1 TTATGTGGCACTTCGGGACAAAC
* *
5097370 CTATGTGGCACTTCGTG-CAAAC
1 TTATGTGGCACTTCGGGACAAAC
* ***
5097392 CTATGTGGTCA-TTCTAAAC-AA-
1 TTATGTGG-CACTTCGGGACAAAC
5097413 TTATGTGGCACTTCGG
1 TTATGTGGCACTTCGG
5097429 TGCAAATTAC
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
20 4 0.06
21 24 0.38
22 20 0.31
23 16 0.25
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (23 bp):
TTATGTGGCACTTCGGGACAAAC
Found at i:5097393 original size:22 final size:23
Alignment explanation
Indices: 5097348--5097399 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
5097338 TCGGGACAAT
*
5097348 TATGTGGCACTTTGGTACAAACC
1 TATGTGGCACTTTCGTACAAACC
*
5097371 TATGTGGCAC-TTCGTGCAAACC
1 TATGTGGCACTTTCGTACAAACC
5097393 TATGTGG
1 TATGTGG
5097400 TCATTCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (23 bp):
TATGTGGCACTTTCGTACAAACC
Found at i:5103876 original size:139 final size:139
Alignment explanation
Indices: 5103618--5104206 Score: 786
Period size: 139 Copynumber: 4.3 Consensus size: 139
5103608 TGAAAGGAAA
* * * * * *
5103618 TGATTAATATTAATTAGGATTAAAATTAAAGCCTTCACTTTAGACCTAATTTCAAAATTAGTCTT
1 TGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAATTTAGTCCT
*
5103683 TAAATTTAAGTGAATTCTTAATTTGGTCCTCGCTTTTT-CTCGTGGTTCCACTTTAATTATTCGA
66 TAAATTTAAGTGAATTCTTAATTTGGTCCTCG-TTTTTGCTCGAGGTTCCACTTTAATTATTCGA
5103747 ATTGCATAAT
130 ATTGCATAAT
* *
5103757 AGATAAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAATTTAGTCCT
1 TGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAATTTAGTCCT
* * *
5103822 TAAATTTAAGTGAATTCTTAATTTGGTCTTCGTTTTTGCTCGAGGTTTCACTTTAATTATTCGAC
66 TAAATTTAAGTGAATTCTTAATTTGGTCCTCGTTTTTGCTCGAGGTTCCACTTTAATTATTCGAA
5103887 TTGCATAAT
131 TTGCATAAT
* * * *
5103896 TGATTAAATTTAATTATGATGAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAACTTAGTCCT
1 TGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAATTTAGTCCT
* * * * *
5103961 TAGATTTATGTAAATTCTTAATTTGGTCCTCGTTTTTGCTCGAAGTTCCACTTTAATTATTTGAA
66 TAAATTTAAGTGAATTCTTAATTTGGTCCTCGTTTTTGCTCGAGGTTCCACTTTAATTATTCGAA
5104026 TTGC-----
131 TTGCATAAT
* * * * *
5104030 --A-T--AATTAATTAGGGTTAATATTAGAGCCTTCACTTTAGTCCTAATTTCAAATATACTCTT
1 TGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAATTTAGTCCT
* * *
5104090 TAAATTTAGGTGAATTCTTAATTTGGTCCTCGTTTTTGCTCAAGGTTCCACTTTAATTATTTGAA
66 TAAATTTAAGTGAATTCTTAATTTGGTCCTCGTTTTTGCTCGAGGTTCCACTTTAATTATTCGAA
* * *
5104155 TTACACAGT
131 TTGCATAAT
* *
5104164 TGATTAAAATTAATTAGGATTAATATTATAGCCTTAACTTTAG
1 TGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAG
5104207 TCCTTAAATT
Statistics
Matches: 395, Mismatches: 44, Indels: 22
0.86 0.10 0.05
Matches are distributed among these distances:
129 112 0.28
131 1 0.00
132 1 0.00
136 1 0.00
137 1 0.00
138 5 0.01
139 274 0.69
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (139 bp):
TGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAATTTAGTCCT
TAAATTTAAGTGAATTCTTAATTTGGTCCTCGTTTTTGCTCGAGGTTCCACTTTAATTATTCGAA
TTGCATAAT
Found at i:5104144 original size:268 final size:270
Alignment explanation
Indices: 5103618--5104365 Score: 793
Period size: 268 Copynumber: 2.8 Consensus size: 270
5103608 TGAAAGGAAA
* *
5103618 TGATT-AATATTAATTAGGATTAAAATTAAAGCCTTCACTTTAGACCTAATTTCAAAATTAGTCT
1 TGATTAAAT-TTAATTAGGATTAATATTAAAGCCTTCACTTTAGACCTAATTTCAAAATTAGTCC
* **
5103682 TTAAATTTAAGTGAATTCTTAATTTGGTCCTCGCTTTTTCTCGTGGTTCCACTTTAATTATTCGA
65 TTAAATTTAAGTAAATTCTTAATTTGGTCCTCGCTTTTTCTCGAAGTTCCACTTTAATTATTCGA
5103747 ATTGCATAATAGATAAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAA
130 ATTGC-----A-AT--AAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAA
* * * * *
5103812 ATTTAGTCCTTAAATTTAAGTGAATTCTTAATTTGGTCTTCGTTTTTGCTCGAGGTTTCACTTTA
187 ATATACTCCTTAAATTTAAGTGAATTCTTAATTTGGTCCTCGTTTTTGCTCAAGGTTCCACTTTA
* * *
5103877 ATTATTCGACTTGCATAAT
252 ATTATTCGAATTACACAAT
* * * * *
5103896 TGATTAAATTTAATTATGATGAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAACTTAGTCCT
1 TGATTAAATTTAATTAGGATTAATATTAAAGCCTTCACTTTAGACCTAATTTCAAAATTAGTCCT
* * *
5103961 TAGATTTATGTAAATTCTTAATTTGGTCCTCG-TTTTTGCTCGAAGTTCCACTTTAATTATTTGA
66 TAAATTTAAGTAAATTCTTAATTTGGTCCTCGCTTTTT-CTCGAAGTTCCACTTTAATTATTCGA
* *
5104025 ATTGC-AT-AATTAATTAGGGTTAATATTAGAGCCTTCACTTTAGTCCTAATTTCAAATATACTC
130 ATTGCAATAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAATATACTC
* * *
5104088 TTTAAATTTAGGTGAATTCTTAATTTGGTCCTCGTTTTTGCTCAAGGTTCCACTTTAATTATTTG
195 CTTAAATTTAAGTGAATTCTTAATTTGGTCCTCGTTTTTGCTCAAGGTTCCACTTTAATTATTCG
*
5104153 AATTACACAGT
260 AATTACACAAT
* *
5104164 TGATTAAAATTAATTAGGATTAATATTATAG----C-C-TTA-A-C-----T-----TTAGTCCT
1 TGATTAAATTTAATTAGGATTAATATTAAAGCCTTCACTTTAGACCTAATTTCAAAATTAGTCCT
* * * * * ** * * *
5104211 TAAATTTATGTGAATTCTTGATATGGTCATCGCTTTAGCTCGAGGTTACACTTTAATTATTCAAA
66 TAAATTTAAGTAAATTCTTAATTTGGTCCTCGCTTTTTCTCGAAGTTCCACTTTAATTATTCGAA
* *
5104276 TTGCATAATTGATTAAAATTAACTAGGATTAATATTAGACCCTTCACTTTAGGCCTAATTTCAAA
131 TTGC---A---A-T-AAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAA
* *
5104341 TTTACTCCTTAAATTTAGGTGAATT
188 TATACTCCTTAAATTTAAGTGAATT
5104366 GTCACACTCT
Statistics
Matches: 408, Mismatches: 49, Indels: 44
0.81 0.10 0.09
Matches are distributed among these distances:
250 62 0.15
251 3 0.01
255 1 0.00
257 1 0.00
258 1 0.00
260 69 0.17
262 3 0.01
263 1 0.00
264 1 0.00
268 145 0.36
271 2 0.00
277 5 0.01
278 111 0.27
279 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (270 bp):
TGATTAAATTTAATTAGGATTAATATTAAAGCCTTCACTTTAGACCTAATTTCAAAATTAGTCCT
TAAATTTAAGTAAATTCTTAATTTGGTCCTCGCTTTTTCTCGAAGTTCCACTTTAATTATTCGAA
TTGCAATAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCCTAATTTCAAATATACTCC
TTAAATTTAAGTGAATTCTTAATTTGGTCCTCGTTTTTGCTCAAGGTTCCACTTTAATTATTCGA
ATTACACAAT
Found at i:5104263 original size:121 final size:121
Alignment explanation
Indices: 5104089--5104327 Score: 325
Period size: 121 Copynumber: 2.0 Consensus size: 121
5104079 AATATACTCT
* * * * * **
5104089 TTAAATTTAGGTGAATTCTTAATTTGGTCCTCGTTTTTGCTCAAGGTTCCACTTTAATTATTTGA
1 TTAAATTTAGGTGAATTCTTAATATGGTCATCGCTTTAGCTCAAGGTTACACTTTAATTATTCAA
* * * *
5104154 ATTACACAGTTGATTAAAATTAATTAGGATTAATATTATAGCCTTAACTTTAGTCC
66 ATTACACAATTGATTAAAATTAACTAGGATTAATATTAGACCCTTAACTTTAGTCC
* * *
5104210 TTAAATTTATGTGAATTCTTGATATGGTCATCGCTTTAGCTCGAGGTTACACTTTAATTATTCAA
1 TTAAATTTAGGTGAATTCTTAATATGGTCATCGCTTTAGCTCAAGGTTACACTTTAATTATTCAA
* * *
5104275 ATTGCATAATTGATTAAAATTAACTAGGATTAATATTAGACCCTTCACTTTAG
66 ATTACACAATTGATTAAAATTAACTAGGATTAATATTAGACCCTTAACTTTAG
5104328 GCCTAATTTC
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
121 101 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (121 bp):
TTAAATTTAGGTGAATTCTTAATATGGTCATCGCTTTAGCTCAAGGTTACACTTTAATTATTCAA
ATTACACAATTGATTAAAATTAACTAGGATTAATATTAGACCCTTAACTTTAGTCC
Found at i:5106559 original size:139 final size:139
Alignment explanation
Indices: 5106310--5107055 Score: 982
Period size: 139 Copynumber: 5.4 Consensus size: 139
5106300 GGGGGTTACA
* *
5106310 TGAATTCTTAATTTGGTCCTCACTTTTGCTCGAGGTTCCAATTTAATTATTCAAATT-TATAATT
1 TGAATTCTTAATTTGGTCCTCACTTTTGCTCGAGGTTCCACTTTAATTATTCGAATTGTATAATT
* *
5106374 -ACTTAAAATTAATTAGGATTAATATTAGAGCCTTCACGTTAGGCCTAATTTCAAATTTAGTCCT
66 GA-TTAAAATTAATTAGGATTAATATTAGAACCTTCACTTTAGGCCTAATTTCAAATTTAGTCCT
5106438 TAAATTTAGG
130 TAAATTTAGG
* * * *
5106448 TGAATTCTTAATTTGGTCCTCGCCTTTGCTTGAGGTTTCC-CTTTAATTATTCGAATTGCATAAT
1 TGAATTCTTAATTTGGTCCTCACTTTTGCTCGAGG-TTCCACTTTAATTATTCGAATTGTATAAT
*
5106512 TGATTAAAATTAATTAGGATTAATATTAGAACCTTCACTTTAGGCCTAATTTAAAATTTAGTCCT
65 TGATTAAAATTAATTAGGATTAATATTAGAACCTTCACTTTAGGCCTAATTTCAAATTTAGTCCT
5106577 TAAATTTAGG
130 TAAATTTAGG
** * * * *
5106587 TGAATTCTTAATTTGGTCCTTTCTTTTCCTTGAGGTTCCACTTTAATTTATTCGAACTATATAAT
1 TGAATTCTTAATTTGGTCCTCACTTTTGCTCGAGGTTCCACTTTAA-TTATTCGAATTGTATAAT
* * ** *
5106652 TGATTAAAATTAATTAGGATTAATATTAGAGCTTTCACTTTAAACTTAATTTCAAATTTAGTCCT
65 TGATTAAAATTAATTAGGATTAATATTAGAACCTTCACTTTAGGCCTAATTTCAAATTTAGTCCT
*
5106717 TAAATTTAGA
130 TAAATTTAGG
* * * *
5106727 TGAATTCTTAATTTGGTTCTCGCTTATGCTCGAGGTTCAACTTTAATTATTCGAATTGTATAATT
1 TGAATTCTTAATTTGGTCCTCACTTTTGCTCGAGGTTCCACTTTAATTATTCGAATTGTATAATT
* * * * * *
5106792 GATTAAAATTAATTAGGATTAATTTTATATCCTTTAATTTAGGCATAATTTCAAATTTAGTCCTT
66 GATTAAAATTAATTAGGATTAATATTAGAACCTTCACTTTAGGCCTAATTTCAAATTTAGTCCTT
*
5106857 AAATTTAGA
131 AAATTTAGG
* * * * * *
5106866 TGAATCCTTAATTTGGTCATCACTTTTTCTCGAGGTTCCATTTTAATTATTCGACTCG-ATAATT
1 TGAATTCTTAATTTGGTCCTCACTTTTGCTCGAGGTTCCACTTTAATTATTCGAATTGTATAATT
* * * * **
5106930 TATTAAGAAATGACTT-GGGTTAATATTAGAGA-CTTCACTTTAAACCTAATTTCAAATTTAGTC
66 GATT-A-AAATTAATTAGGATTAATATTAGA-ACCTTCACTTTAGGCCTAATTTCAAATTTAGTC
5106993 CTTAAATTTAGG
128 CTTAAATTTAGG
* *
5107005 TGAATTCTTAATTTGGTCCTCACTTTTGCTCGAGGTTCTATTTTAATTATT
1 TGAATTCTTAATTTGGTCCTCACTTTTGCTCGAGGTTCCACTTTAATTATT
5107056 TAACTCAATC
Statistics
Matches: 532, Mismatches: 68, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
138 60 0.11
139 342 0.64
140 130 0.24
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (139 bp):
TGAATTCTTAATTTGGTCCTCACTTTTGCTCGAGGTTCCACTTTAATTATTCGAATTGTATAATT
GATTAAAATTAATTAGGATTAATATTAGAACCTTCACTTTAGGCCTAATTTCAAATTTAGTCCTT
AAATTTAGG
Found at i:5106808 original size:279 final size:274
Alignment explanation
Indices: 5106309--5107055 Score: 1023
Period size: 279 Copynumber: 2.7 Consensus size: 274
5106299 AGGGGGTTAC
* * *
5106309 ATGAATTCTTAATTTGGTCCTCACTTTTGCTCGAGGTTCCAATTTAATTATTC-AAATTTATAAT
1 ATGAATTCTTAATTTGGTCCTCACTTTTCCTCGAGGTTCCAATTTAATTATTCGAACTATATAAT
* **
5106373 TACTTAAAATTAATTAGGATTAATATTAGAGCCTTCACGTTAGGCCTAATTTCAAATTTAGTCCT
66 TA-TTAAAATTAATTAGGATTAATATTAGAG-CTTCACTTTAAACCTAATTTCAAATTTAGTCCT
* *
5106438 TAAATTTAGGTGAATTCTTAATTTGGTCCTCGCCTTTGCTTGAGGTTTCCCTTTAATTATTCGAA
129 TAAATTTAGGTGAATTCTTAATTTGGTCCTCG-CTTTGCTCGAGG-TTCACTTTAATTATTCGAA
* *
5106503 TTGCATAATTGATTAAAATTAATTAGGATTAATATTAGAACCTTCACTTTAGGCCTAATTTAAAA
192 TTGCATAATTGATTAAAATTAATTAGGATTAATATTAGAACCTTCAATTTAGGCATAATTTAAAA
5106568 TTTAGTCCTTAAATTTAG
257 TTTAGTCCTTAAATTTAG
* ** * *
5106586 GTGAATTCTTAATTTGGTCCTTTCTTTTCCTTGAGGTTCCACTTTAATTTATTCGAACTATATAA
1 ATGAATTCTTAATTTGGTCCTCACTTTTCCTCGAGGTTCCAATTTAA-TTATTCGAACTATATAA
*
5106651 TTGATTAAAATTAATTAGGATTAATATTAGAGCTTTCACTTTAAACTTAATTTCAAATTTAGTCC
65 TT-ATTAAAATTAATTAGGATTAATATTAGAGC-TTCACTTTAAACCTAATTTCAAATTTAGTCC
* *
5106716 TTAAATTTAGATGAATTCTTAATTTGGTTCTCGCTTATGCTCGAGGTTCAACTTTAATTATTCGA
128 TTAAATTTAGGTGAATTCTTAATTTGGTCCTCGCTT-TGCTCGAGGTTC-ACTTTAATTATTCGA
* * * * * *
5106781 ATTGTATAATTGATTAAAATTAATTAGGATTAATTTTATATCCTTTAATTTAGGCATAATTTCAA
191 ATTGCATAATTGATTAAAATTAATTAGGATTAATATTAGAACCTTCAATTTAGGCATAATTTAAA
5106846 ATTTAGTCCTTAAATTTAG
256 ATTTAGTCCTTAAATTTAG
* * * * **
5106865 ATGAATCCTTAATTTGGTCATCACTTTTTCTCGAGGTTCCATTTTAATTATTCG-ACTCGATAAT
1 ATGAATTCTTAATTTGGTCCTCACTTTTCCTCGAGGTTCCAATTTAATTATTCGAACTATATAA-
* * *
5106929 TTATTAAGAAATGACTT-GGGTTAATATTAGAGACTTCACTTTAAACCTAATTTCAAATTTAGTC
65 TTATT-A-AAATTAATTAGGATTAATATTAGAG-CTTCACTTTAAACCTAATTTCAAATTTAGTC
* *
5106993 CTTAAATTTAGGTGAATTCTTAATTTGGTCCTCACTTTTGCTCGAGGTTCTATTTTAATTATT
127 CTTAAATTTAGGTGAATTCTTAATTTGGTCCTCGC-TTTGCTCGAGGTTC-ACTTTAATTATT
5107056 TAACTCAATC
Statistics
Matches: 416, Mismatches: 43, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
277 51 0.12
278 121 0.29
279 243 0.58
280 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (274 bp):
ATGAATTCTTAATTTGGTCCTCACTTTTCCTCGAGGTTCCAATTTAATTATTCGAACTATATAAT
TATTAAAATTAATTAGGATTAATATTAGAGCTTCACTTTAAACCTAATTTCAAATTTAGTCCTTA
AATTTAGGTGAATTCTTAATTTGGTCCTCGCTTTGCTCGAGGTTCACTTTAATTATTCGAATTGC
ATAATTGATTAAAATTAATTAGGATTAATATTAGAACCTTCAATTTAGGCATAATTTAAAATTTA
GTCCTTAAATTTAG
Found at i:5109600 original size:15 final size:15
Alignment explanation
Indices: 5109582--5109671 Score: 73
Period size: 15 Copynumber: 6.2 Consensus size: 15
5109572 TGCAAAAATC
5109582 AAATGACTAAAATGT
1 AAATGACTAAAATGT
* *
5109597 AAATGA-TGAAATTT
1 AAATGACTAAAATGT
*
5109611 AAA-GAACTGAAATGT
1 AAATG-ACTAAAATGT
*
5109626 AAATAAC-ATAAAT-T
1 AAATGACTA-AAATGT
* *
5109640 AAATGGCAAAAATGT
1 AAATGACTAAAATGT
5109655 AAATGACTAAAAT-T
1 AAATGACTAAAATGT
5109669 AAA
1 AAA
5109672 AGAAAAAGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
13 1 0.02
14 24 0.40
15 35 0.58
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.26
Consensus pattern (15 bp):
AAATGACTAAAATGT
Found at i:5109652 original size:14 final size:14
Alignment explanation
Indices: 5109559--5109671 Score: 59
Period size: 14 Copynumber: 7.9 Consensus size: 14
5109549 ATAAAAGAAA
*
5109559 ACAAAAAGTAAAGTG
1 ACAAAAATTAAA-TG
*
5109574 -CAAAAATCAAATG
1 ACAAAAATTAAATG
*
5109587 ACTAAAATGTAAATG
1 ACAAAAAT-TAAATG
** *
5109602 ATGAAATTTAAA-G
1 ACAAAAATTAAATG
** *
5109615 AACTGAAATGTAAATA
1 -ACAAAAAT-TAAATG
*
5109631 ACATAAATTAAATG
1 ACAAAAATTAAATG
*
5109645 GCAAAAATGTAAATG
1 ACAAAAAT-TAAATG
*
5109660 ACTAAAATTAAA
1 ACAAAAATTAAA
5109672 AGAAAAAGAA
Statistics
Matches: 73, Mismatches: 19, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
13 3 0.04
14 38 0.52
15 32 0.44
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.23
Consensus pattern (14 bp):
ACAAAAATTAAATG
Found at i:5112461 original size:10 final size:10
Alignment explanation
Indices: 5112446--5112488 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
5112436 TTTATTTATT
5112446 TTTTTTTCTC
1 TTTTTTTCTC
5112456 TTTTTTTCTC
1 TTTTTTTCTC
5112466 TTTTTTT-TC
1 TTTTTTTCTC
*
5112475 TTATTTTCT-
1 TTTTTTTCTC
5112484 TTTTT
1 TTTTT
5112489 CTTCAGGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 12 0.40
10 18 0.60
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:5112469 original size:19 final size:18
Alignment explanation
Indices: 5112446--5112488 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
5112436 TTTATTTATT
*
5112446 TTTTTTTCTCTTTTTTTC
1 TTTTTTTCTCTTATTTTC
*
5112464 TCTTTTTTTTCTTATTTTC
1 T-TTTTTTCTCTTATTTTC
5112483 TTTTTT
1 TTTTTT
5112489 CTTCAGGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTCTCTTATTTTC
Found at i:5116452 original size:18 final size:20
Alignment explanation
Indices: 5116429--5116465 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
5116419 TAAAATTCAA
5116429 AAAGT-AAATGCA-ATGCAG
1 AAAGTAAAATGCATATGCAG
5116447 AAAGTAAAATGCATATGCA
1 AAAGTAAAATGCATATGCA
5116466 AAATGCAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 7 0.41
20 5 0.29
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (20 bp):
AAAGTAAAATGCATATGCAG
Found at i:5119483 original size:16 final size:16
Alignment explanation
Indices: 5119459--5119489 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5119449 AGGACCAAAT
*
5119459 TGAAGAAAATTAAAAA
1 TGAACAAAATTAAAAA
5119475 TGAACAAAATTAAAA
1 TGAACAAAATTAAAA
5119490 GCAATTAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.19
Consensus pattern (16 bp):
TGAACAAAATTAAAAA
Found at i:5119682 original size:29 final size:29
Alignment explanation
Indices: 5119650--5119723 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
5119640 CTGGAATTAG
* *
5119650 AATAACAGAAATTAAAGGGCAGAAATATA
1 AATAACAGAAATTAAAGAGCAAAAATATA
* *
5119679 AATAACAAAAATTAAAGAGCAAAAATGTA
1 AATAACAGAAATTAAAGAGCAAAAATATA
* *
5119708 AATGATAGAAATTAAA
1 AATAACAGAAATTAAA
5119724 AGAAATAGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.62, C:0.05, G:0.14, T:0.19
Consensus pattern (29 bp):
AATAACAGAAATTAAAGAGCAAAAATATA
Found at i:5119888 original size:31 final size:31
Alignment explanation
Indices: 5119850--5119946 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
5119840 AATATAAAAA
* *
5119850 TTAGCTGTTAGTAGTTAATAAATTAACAAAG
1 TTAGCTGTTAGTGGTTAATAAATTAGCAAAG
*
5119881 TTGGCTGTTAGTGGTTAATAAATTAGCAAAG
1 TTAGCTGTTAGTGGTTAATAAATTAGCAAAG
**
5119912 TTAGCAATTAGTGGTTAATAAATTAGCAAAG
1 TTAGCTGTTAGTGGTTAATAAATTAGCAAAG
5119943 TTAG
1 TTAG
5119947 AGTTTAAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (31 bp):
TTAGCTGTTAGTGGTTAATAAATTAGCAAAG
Found at i:5120175 original size:15 final size:15
Alignment explanation
Indices: 5120157--5120192 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
5120147 AAAGTAACAG
5120157 AAATAAAAGTGAC-CA
1 AAATAAAA-TGACACA
5120172 AAATAAAATGACACA
1 AAATAAAATGACACA
5120187 AAATAA
1 AAATAA
5120193 CATGTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.67, C:0.11, G:0.08, T:0.14
Consensus pattern (15 bp):
AAATAAAATGACACA
Found at i:5126810 original size:27 final size:28
Alignment explanation
Indices: 5126780--5126834 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
5126770 AAAATAGCAC
*
5126780 TATGAGAT-AAAATTACAAAAATACCCT
1 TATGAGATAAAAATGACAAAAATACCCT
* *
5126807 TATGAGGTAAAAATGACCAAAATACCCT
1 TATGAGATAAAAATGACAAAAATACCCT
5126835 CGAAGTGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (28 bp):
TATGAGATAAAAATGACAAAAATACCCT
Found at i:5131475 original size:27 final size:28
Alignment explanation
Indices: 5131445--5131501 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
5131435 GAAATAGCAC
*
5131445 TATGAAGT-AAAATTACAAAAATACCCT
1 TATGAAGTGAAAATGACAAAAATACCCT
*
5131472 TATGAGGTGAAAATGACAAAAATACCCT
1 TATGAAGTGAAAATGACAAAAATACCCT
5131500 TA
1 TA
5131502 AAGTGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (28 bp):
TATGAAGTGAAAATGACAAAAATACCCT
Found at i:5131511 original size:27 final size:27
Alignment explanation
Indices: 5131451--5131512 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
5131441 GCACTATGAA
* *
5131451 GTAAAATTACAAAAATACCCTTATGAG
1 GTAAAATGACAAAAATACCCTTATAAG
5131478 GTGAAAATGACAAAAATACCCTTA-AAG
1 GT-AAAATGACAAAAATACCCTTATAAG
5131505 TGTAAAAT
1 -GTAAAAT
5131513 AATTTATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 9 0.29
28 22 0.71
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.24
Consensus pattern (27 bp):
GTAAAATGACAAAAATACCCTTATAAG
Found at i:5133634 original size:254 final size:255
Alignment explanation
Indices: 5133328--5133837 Score: 1013
Period size: 255 Copynumber: 2.0 Consensus size: 255
5133318 TGGATTTTAT
5133328 AGGGTAGAATTCTGGAGTATGGAGGTTCAGCCCTGATCCAGCTGGTAAATCCTTACGGCCCTAAG
1 AGGGTAGAATTCTGGAGTATGGAGGTTCAGCCCTGATCCAGCTGGTAAATCCTTACGGCCCTAAG
5133393 GTGACCCTTGGGTAGGCTCTCGAGCCCCAAGGTATTCCCTTAGGGTGGCTCCCTTTGTTGTG-GC
66 GTGACCCTTGGGTAGGCTCTCGAGCCCCAAGGTATTCCCTTAGGGTGGCTCCCTTTGTTGTGTGC
5133457 TTAGGGTAAGCCCTTATGGATGTTGTTCTAGGGAACTGCATAAAGATGTTCGGTTGGAGGGTTCC
131 TTAGGGTAAGCCCTTATGGATGTTGTTCTAGGGAACTGCATAAAGATGTTCGGTTGGAGGGTTCC
5133522 ACTATGGTTTTGAAAACATGTTTAAAACAGTTACTATTCTAAAAAGATTTATATCTTTTC
196 ACTATGGTTTTGAAAACATGTTTAAAACAGTTACTATTCTAAAAAGATTTATATCTTTTC
5133582 AGGGTAGAATTCTGGAGTATGGAGGTTCAGCCCTGATCCAGCTGGTAAATCCTTACGGCCCTAAG
1 AGGGTAGAATTCTGGAGTATGGAGGTTCAGCCCTGATCCAGCTGGTAAATCCTTACGGCCCTAAG
5133647 GTGACCCTTGGGTAGGCTCTCGAGCCCCAAGGTATTCCCTTAGGGTGGCTCCCTTTGTTGTGTGC
66 GTGACCCTTGGGTAGGCTCTCGAGCCCCAAGGTATTCCCTTAGGGTGGCTCCCTTTGTTGTGTGC
5133712 TTAGGGTAAGCCCTTATGGATGTTGTTCTAGGGAACTGCATAAAGATGTTCGGTTGGAGGGTTCC
131 TTAGGGTAAGCCCTTATGGATGTTGTTCTAGGGAACTGCATAAAGATGTTCGGTTGGAGGGTTCC
5133777 ACTATGGTTTTGAAAACATGTTTAAAACAGTTACTATTCTAAAAAGATTTATATCTTTTC
196 ACTATGGTTTTGAAAACATGTTTAAAACAGTTACTATTCTAAAAAGATTTATATCTTTTC
5133837 A
1 A
5133838 CTGGTTTTGG
Statistics
Matches: 255, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
254 127 0.50
255 128 0.50
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (255 bp):
AGGGTAGAATTCTGGAGTATGGAGGTTCAGCCCTGATCCAGCTGGTAAATCCTTACGGCCCTAAG
GTGACCCTTGGGTAGGCTCTCGAGCCCCAAGGTATTCCCTTAGGGTGGCTCCCTTTGTTGTGTGC
TTAGGGTAAGCCCTTATGGATGTTGTTCTAGGGAACTGCATAAAGATGTTCGGTTGGAGGGTTCC
ACTATGGTTTTGAAAACATGTTTAAAACAGTTACTATTCTAAAAAGATTTATATCTTTTC
Found at i:5135796 original size:21 final size:21
Alignment explanation
Indices: 5135772--5135838 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
5135762 TGTAAACGTA
5135772 AATAAATTCCATTAAGAAAAG
1 AATAAATTCCATTAAGAAAAG
*
5135793 AAT-ATTTCCCAGTT-A-AAAAG
1 AATAAATT-CCA-TTAAGAAAAG
*
5135813 AAAGAAAATT-CATTAAGAAAAG
1 -AA-TAAATTCCATTAAGAAAAG
5135835 AATA
1 AATA
5135839 TTTCCCAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 15
0.65 0.07 0.28
Matches are distributed among these distances:
20 11 0.31
21 14 0.40
22 7 0.20
23 3 0.09
ACGTcount: A:0.57, C:0.09, G:0.10, T:0.24
Consensus pattern (21 bp):
AATAAATTCCATTAAGAAAAG
Found at i:5135808 original size:22 final size:22
Alignment explanation
Indices: 5135783--5135850 Score: 72
Period size: 18 Copynumber: 3.2 Consensus size: 22
5135773 ATAAATTCCA
5135783 TTAAGAAAAGAATATTTCCCAG
1 TTAAGAAAAGAATATTTCCCAG
* *
5135805 TTAAAAAGAAAGAA-AATT--CA-
1 TT-AAGA-AAAGAATATTTCCCAG
5135825 TTAAGAAAAGAATATTTCCCAG
1 TTAAGAAAAGAATATTTCCCAG
5135847 TTAA
1 TTAA
5135851 AATCAAAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
18 6 0.17
19 6 0.17
20 2 0.06
21 4 0.11
22 6 0.17
23 6 0.17
24 6 0.17
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.26
Consensus pattern (22 bp):
TTAAGAAAAGAATATTTCCCAG
Found at i:5135818 original size:24 final size:22
Alignment explanation
Indices: 5135788--5135865 Score: 65
Period size: 24 Copynumber: 3.5 Consensus size: 22
5135778 TTCCATTAAG
5135788 AAAAGAATATTTCCCAGTTAAAA
1 AAAAGAA-ATTTCCCAGTTAAAA
* *
5135811 AGAAAGAAAATT--CA-TT-AAG
1 A-AAAGAAATTTCCCAGTTAAAA
5135830 AAAAGAATATTTCCCAGTTAAAA
1 AAAAGAA-ATTTCCCAGTTAAAA
*
5135853 TCAAAGAAATTTC
1 -AAAAGAAATTTC
5135866 ATTAAGAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
18 6 0.14
19 6 0.14
20 2 0.05
21 4 0.09
22 2 0.05
23 11 0.26
24 12 0.28
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.26
Consensus pattern (22 bp):
AAAAGAAATTTCCCAGTTAAAA
Found at i:5135835 original size:42 final size:42
Alignment explanation
Indices: 5135775--5135873 Score: 162
Period size: 42 Copynumber: 2.3 Consensus size: 42
5135765 AAACGTAAAT
*
5135775 AAATTCCATTAAGAAAAGAATATTTCCCAGTTAAAAAGAAAGA
1 AAATT-CATTAAGAAAAGAATATTTCCCAGTTAAAAACAAAGA
*
5135818 AAATTCATTAAGAAAAGAATATTTCCCAGTTAAAATCAAAGA
1 AAATTCATTAAGAAAAGAATATTTCCCAGTTAAAAACAAAGA
*
5135860 AATTTCATTAAGAA
1 AAATTCATTAAGAA
5135874 GAATAATTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 48 0.91
43 5 0.09
ACGTcount: A:0.53, C:0.11, G:0.10, T:0.26
Consensus pattern (42 bp):
AAATTCATTAAGAAAAGAATATTTCCCAGTTAAAAACAAAGA
Found at i:5143024 original size:21 final size:21
Alignment explanation
Indices: 5142984--5143022 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5142974 TAATCATGAA
5142984 TAAATCTAAGCGACTCTTTCT
1 TAAATCTAAGCGACTCTTTCT
5143005 TAAATCTAAGCGA-TCTTT
1 TAAATCTAAGCGACTCTTT
5143023 TCGTAGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (21 bp):
TAAATCTAAGCGACTCTTTCT
Found at i:5143909 original size:12 final size:11
Alignment explanation
Indices: 5143867--5143909 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 11
5143857 AGATTGAGTA
5143867 AAAAAACTAAAT
1 AAAAAA-TAAAT
5143879 AAATAAATAAAT
1 AAA-AAATAAAT
5143891 AACAAAATAAAAT
1 AA-AAAAT-AAAT
5143904 AAAAAA
1 AAAAAA
5143910 GCAAATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:5145335 original size:83 final size:84
Alignment explanation
Indices: 5145178--5145337 Score: 214
Period size: 83 Copynumber: 1.9 Consensus size: 84
5145168 GTCAGTTTTT
* * * * * *
5145178 TGGCAAATAGCCCTTCTCGATTTAAGCTATGCTGCAAGTGATGTGCCTTTGAGTTGAGTGTAATC
1 TGGCAAATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATC
5145243 GAACTCAAAGGTCTTTTGG
66 GAACTCAAAGGTCTTTTGG
* * * * *
5145262 TGGCAGATAGCCCTTCTAGCCTTGAGCTATG-TGTAAATGATGTGCCTTGGAGCTGAGCGTAGTC
1 TGGCAAATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATC
5145326 GAACTCAAAGGT
66 GAACTCAAAGGT
5145338 TTGGTGTTTC
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
83 39 0.60
84 26 0.40
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (84 bp):
TGGCAAATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAATC
GAACTCAAAGGTCTTTTGG
Found at i:5145461 original size:36 final size:36
Alignment explanation
Indices: 5145372--5145662 Score: 305
Period size: 36 Copynumber: 8.2 Consensus size: 36
5145362 CAAAGGTTTT
5145372 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
5145408 CTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
5145445 TTTATTTCAAGAGAAACTGTCTTAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
5145481 TTGGTTTTCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 TTTG-TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
5145518 TTTGTTT-AATGTAAAAAATAT-TCAA-AG-G-----T
1 TTTGTTTCAA-G-AGAAACTGTCTCAAGAGAGACAAAA
* *
5145547 TTTGTTTCAA-AGGAATCTGTCTTAAGAGAGACAAAA
1 TTTGTTTCAAGA-GAAACTGTCTCAAGAGAGACAAAA
* *
5145583 TTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
5145619 TTTGTTTCAAGAGAAACTGTCTCAAGATAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
5145655 CTTTGTTT
1 -TTTGTTT
5145663 TGAGTAAATT
Statistics
Matches: 207, Mismatches: 32, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
27 1 0.00
28 4 0.02
29 10 0.05
30 4 0.02
31 1 0.00
34 1 0.00
35 3 0.01
36 105 0.51
37 78 0.38
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:5145670 original size:138 final size:138
Alignment explanation
Indices: 5145409--5145662 Score: 393
Period size: 138 Copynumber: 1.8 Consensus size: 138
5145399 GAGACAAAAC
* *
5145409 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTTAAGAGA
1 TTTGTTTCAAAGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGA
* *
5145474 GACAAAATTGGTTTTCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTAATGTAAAAAATAT
66 GACAAAATTGGTTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAATGTAAAAAATAT
5145539 TCAAAGGT
131 TCAAAGGT
* * * *
5145547 TTTGTTTCAAAGGAATCTGTCTTAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAAGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGA
* * *
5145612 GACAAAATTTG-TTTCAAGAGAAACTGTCTCAAGATAGACAAAACTTTGTTT
66 GACAAAATTGGTTTTCAAAAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTT
5145663 TGAGTAAATT
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
137 28 0.27
138 76 0.73
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (138 bp):
TTTGTTTCAAAGGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGA
GACAAAATTGGTTTTCAAAAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAATGTAAAAAATAT
TCAAAGGT
Found at i:5145680 original size:174 final size:173
Alignment explanation
Indices: 5145371--5145689 Score: 464
Period size: 174 Copynumber: 1.8 Consensus size: 173
5145361 TCAAAGGTTT
*
5145371 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTATCTCAAGA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTATTTCAAGGGAAACTATCTCAAGA
*
5145436 GAGACAAAATTTATTTCAAGAGAAACTGTCTTAAGAGAGACAAAATTGGTTTTCAAAAGAAACTG
66 GAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTGGTTTT--AAAGAAACTG
*
5145501 TCTCAAGGGAGACGAAATTTGTTTAATGTAAAAAATATTCAAAGG
129 TCTCAAGCGAGACGAAATTTGTTTAATGTAAAAAATATTCAAAGG
* * *
5145546 TTTTGTTTCAA-AGGAATCTGTCTTAAGAGAGACAAAA-TTTATTTCAAGGGAAACTGTCTCAAG
1 TTTTGTTTCAAGA-GAAACTGTCTCAAGAGAGACAAAACTTTATTTCAAGGGAAACTATCTCAAG
* * * * *
5145609 AGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGATAGACAAAACTTTGTTTT-GAGTAAATT
65 AGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTGGTTTTAAAG-AAACT
5145673 AGTCTCAAGCGAGACGA
128 -GTCTCAAGCGAGACGA
5145690 CCCCTTGTTT
Statistics
Matches: 129, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
172 2 0.02
173 4 0.03
174 83 0.64
175 40 0.31
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (173 bp):
TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTATTTCAAGGGAAACTATCTCAAGA
GAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTGGTTTTAAAGAAACTGTC
TCAAGCGAGACGAAATTTGTTTAATGTAAAAAATATTCAAAGG
Found at i:5146566 original size:110 final size:106
Alignment explanation
Indices: 5146401--5146601 Score: 321
Period size: 110 Copynumber: 1.9 Consensus size: 106
5146391 TATTGTTTCA
* * *
5146401 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGAAACTGAGAAGTTGTTTGTTGA
1 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGA
5146466 CAGTCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCG
66 CA---A-TCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCG
5146511 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGA
1 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGA
* *
5146576 CAATCGCCTCTTCTTTGTGAAGTTGA
66 CAATCGCCCCTTCGTTGTGAAGTTGA
5146602 TCAACTATCA
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
106 21 0.24
107 1 0.01
110 64 0.74
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.36
Consensus pattern (106 bp):
AGTCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGA
CAATCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCG
Found at i:5149399 original size:110 final size:109
Alignment explanation
Indices: 5149202--5149417 Score: 378
Period size: 110 Copynumber: 2.0 Consensus size: 109
5149192 AGAATAAAAA
* *
5149202 GAGTTTGTGAGGTAAACCAAAATAAAAAAAATAAAAAATCCTACCCCACATGATATCTACCCCAC
1 GAGTTAGTGAGGTAAACCAAAATAAAAAAAATAAAAAATCCTACCCCACATGATATCTAACCCAC
* *
5149267 ATGCTTTAATTCCTACCCGAACATGATCTTTATCCCGCATGCTT
66 ATGCTTTAATTCCTACCAGAACATGATCTCTATCCCGCATGCTT
*
5149311 GAGTTAGTGAGGTAAATCAAAATAATAAAAAATAAAAAATCCTACCCCACATGATATCTAACCCA
1 GAGTTAGTGAGGTAAACCAAAATAA-AAAAAATAAAAAATCCTACCCCACATGATATCTAACCCA
5149376 CATGCTTTAATTCCTACCAGAACATGATCTCTATCCCGCATG
65 CATGCTTTAATTCCTACCAGAACATGATCTCTATCCCGCATG
5149418 TTAATTTCAA
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
109 23 0.23
110 78 0.77
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (109 bp):
GAGTTAGTGAGGTAAACCAAAATAAAAAAAATAAAAAATCCTACCCCACATGATATCTAACCCAC
ATGCTTTAATTCCTACCAGAACATGATCTCTATCCCGCATGCTT
Found at i:5150493 original size:12 final size:12
Alignment explanation
Indices: 5150455--5150485 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
5150445 TGAGTAAAAT
5150455 AAATAAATAACA
1 AAATAAATAACA
5150467 AAATAAATAACA
1 AAATAAATAACA
5150479 AAATAAA
1 AAATAAA
5150486 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAAATAACA
Found at i:5151394 original size:17 final size:18
Alignment explanation
Indices: 5151374--5151410 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
5151364 TGATATGAAC
5151374 GGGGT-TGAGATAATGGT
1 GGGGTATGAGATAATGGT
5151391 GGGGTAGTGAGATAATGGT
1 GGGGTA-TGAGATAATGGT
5151410 G
1 G
5151411 AGAAAAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
19 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.49, T:0.27
Consensus pattern (18 bp):
GGGGTATGAGATAATGGT
Found at i:5151467 original size:3 final size:3
Alignment explanation
Indices: 5151459--5151511 Score: 79
Period size: 3 Copynumber: 16.7 Consensus size: 3
5151449 GATTAAAAAT
5151459 TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA T-AA TAA T-AA TAA
5151507 TAA TA
1 TAA TA
5151512 TTTTTTTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
3 38 0.81
4 9 0.19
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:5151490 original size:10 final size:10
Alignment explanation
Indices: 5151459--5151511 Score: 76
Period size: 10 Copynumber: 5.5 Consensus size: 10
5151449 GATTAAAAAT
5151459 TAATAAT-AA
1 TAATAATAAA
5151468 TAATAAT-AA
1 TAATAATAAA
5151477 TAATAATAAA
1 TAATAATAAA
5151487 TAATAATAAA
1 TAATAATAAA
5151497 TAATAA-ATAA
1 TAATAATA-AA
5151507 TAATA
1 TAATA
5151512 TTTTTTTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
9 17 0.40
10 25 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TAATAATAAA
Found at i:5152274 original size:17 final size:17
Alignment explanation
Indices: 5152252--5152291 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
5152242 TTTTTCTCTC
5152252 TTTTTTCATTTCATCATT
1 TTTTTTCATTT-ATCATT
*
5152270 TTTTTTCATTTTTCATT
1 TTTTTTCATTTATCATT
5152287 TTTTT
1 TTTTT
5152292 ACTTATTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTTCATTTATCATT
Found at i:5155893 original size:2 final size:2
Alignment explanation
Indices: 5155886--5155922 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
5155876 GAATGAAATA
5155886 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5155923 ATAAAGAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5158909 original size:21 final size:21
Alignment explanation
Indices: 5158883--5159070 Score: 133
Period size: 21 Copynumber: 8.8 Consensus size: 21
5158873 AATATAAAAT
*
5158883 TGTCCCGAAGGACCACATATA
1 TGTCCCAAAGGACCACATATA
5158904 TGTCCCAAAGGACCACATATA
1 TGTCCCAAAGGACCACATATA
* * * * *
5158925 TGTACCGAATGACCATATAGAAA
1 TGTCCCAAAGGACCACAT--ATA
* * *
5158948 TGTCCCTAAGAACCATATATATA
1 TGTCCCAAAGGACC--ACATATA
* * *
5158971 TATTCCAAAGGACCAAATATA
1 TGTCCCAAAGGACCACATATA
* **
5158992 TGTCTCAAAGGACTGCATATA
1 TGTCCCAAAGGACCACATATA
* * * *
5159013 TGTTCCGAATGACCGCATATA
1 TGTCCCAAAGGACCACATATA
* * *
5159034 TGTTCTAAAGGATCACATATA
1 TGTCCCAAAGGACCACATATA
*
5159055 TGTCCCGAAGGACCAC
1 TGTCCCAAAGGACCAC
5159071 GTAGAACCCT
Statistics
Matches: 127, Mismatches: 36, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
21 99 0.78
23 24 0.19
25 4 0.03
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (21 bp):
TGTCCCAAAGGACCACATATA
Found at i:5158939 original size:42 final size:42
Alignment explanation
Indices: 5158887--5159070 Score: 161
Period size: 42 Copynumber: 4.3 Consensus size: 42
5158877 TAAAATTGTC
5158887 CCGAAGGACCACATATATGTCCCAAAGGACCACATATATGTA
1 CCGAAGGACCACATATATGTCCCAAAGGACCACATATATGTA
* * * * * * *
5158929 CCGAATGACCATATAGAAATGTCCCTAAGAACCATATATATATA
1 CCGAAGGACCACAT--ATATGTCCCAAAGGACCACATATATGTA
* * * ** *
5158973 TTCCAAAGGACCAAATATATGTCTCAAAGGACTGCATATATGTT
1 --CCGAAGGACCACATATATGTCCCAAAGGACCACATATATGTA
* * * * * *
5159017 CCGAATGACCGCATATATGTTCTAAAGGATCACATATATGTC
1 CCGAAGGACCACATATATGTCCCAAAGGACCACATATATGTA
5159059 CCGAAGGACCAC
1 CCGAAGGACCAC
5159071 GTAGAACCCT
Statistics
Matches: 106, Mismatches: 32, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
42 53 0.50
44 42 0.40
46 11 0.10
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (42 bp):
CCGAAGGACCACATATATGTCCCAAAGGACCACATATATGTA
Found at i:5159873 original size:18 final size:20
Alignment explanation
Indices: 5159826--5159876 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 20
5159816 TCTTACTATA
5159826 GTACCGATACTACCCTCTTATG
1 GTACCGATAC--CCCTCTTATG
*
5159848 GTATCGATACCCC-CTTA-G
1 GTACCGATACCCCTCTTATG
5159866 GTACCGATACC
1 GTACCGATACC
5159877 ATTTTGACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.41
19 4 0.15
20 3 0.11
22 9 0.33
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (20 bp):
GTACCGATACCCCTCTTATG
Found at i:5168838 original size:13 final size:14
Alignment explanation
Indices: 5168813--5168845 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
5168803 ACTAAATTGA
5168813 ACAAATATAAAATT
1 ACAAATATAAAATT
5168827 ACAAAT-TAAAATT
1 ACAAATATAAAATT
5168840 A-AAATA
1 ACAAATA
5168846 CAACAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 8 0.44
14 6 0.33
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (14 bp):
ACAAATATAAAATT
Found at i:5169064 original size:2 final size:2
Alignment explanation
Indices: 5169057--5169466 Score: 237
Period size: 2 Copynumber: 204.0 Consensus size: 2
5169047 AGTATATGCT
5169057 TA TA TA TA TA TA TA TA TA TA CT- TA TA TA TA TA -A T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * *
5169097 TA AA TA TA -A GTA TA TA TA -A TA -A CA TA -A AA GTA TA TA TA CA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* *
5169137 TA TA AA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
5169179 TA TA TA TA TA TA TA TG TA TA TA -A GTA TT TA TA -A CTA TA AA GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA -TA
* * * * *
5169222 TA TA TT TT TA -A TA TA TA TA TA AA CTA TA AA GTA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* * *
5169265 AA GTA TA -A GTA TA T- TA TA TA TA -A GTA TA -A T- TA TA AA GA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * *
5169303 CTA AA GTG TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 -TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
5169347 TA TA TA TA TA TA TA TA TA TA TA TA TA GTA T- TA AA GTA TA -A GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA
* * * * * *
5169390 TA TA AA GTA CA CA CA TA TA TA TA TA TA TA TA TA AA GT- TT TA GTA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* *
5169434 TA AA GTA TA TA TA CA TA T- TA TA TA TA TA GTA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
5169467 ATTAAGTATA
Statistics
Matches: 322, Mismatches: 46, Indels: 80
0.72 0.10 0.18
Matches are distributed among these distances:
1 19 0.06
2 281 0.87
3 22 0.07
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (2 bp):
TA
Found at i:5169475 original size:41 final size:43
Alignment explanation
Indices: 5169312--5169509 Score: 154
Period size: 44 Copynumber: 4.8 Consensus size: 43
5169302 ACTAAAGTGT
* * *
5169312 GTATATATATATATATATATATATATATATA--T-A-TATATA
1 GTATATATACATATATATATATATATATAAAGTTAAGTATAAA
*
5169351 -TATATATATATATATATATATAGTAT-TAAAGTATAAGTATATAA
1 GTATATATACATATATATATATA-TATATAAAGT-TAAGTATA-AA
* * *
5169395 --AGTACACACATATATATATATATATATAAAGTTTTAGTATAAA
1 GTA-TATATACATATATATATATATATATAAAG-TTAAGTATAAA
5169438 GTATATATACATAT-TATATATATAGTAT-AA-TTAAGTATAAA
1 GTATATATACATATATATATATATA-TATAAAGTTAAGTATAAA
* *
5169479 GTAT-TA-A-AGTATAAATATAAATATATAAAGT
1 GTATATATACA-TATATATATATATATATAAAGT
5169510 ATCAAAGTAT
Statistics
Matches: 131, Mismatches: 11, Indels: 32
0.75 0.06 0.18
Matches are distributed among these distances:
38 26 0.20
39 10 0.08
40 12 0.09
41 16 0.12
42 1 0.01
43 22 0.17
44 42 0.32
45 2 0.02
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (43 bp):
GTATATATACATATATATATATATATATAAAGTTAAGTATAAA
Found at i:5169480 original size:7 final size:7
Alignment explanation
Indices: 5169470--5169573 Score: 63
Period size: 8 Copynumber: 14.3 Consensus size: 7
5169460 TAGTATAATT
5169470 AAGTATA
1 AAGTATA
5169477 AAGTATTA
1 AAGTA-TA
5169485 AAGTATA
1 AAGTATA
5169492 AA-TATA
1 AAGTATA
*
5169498 AATATATA
1 AA-GTATA
5169506 AAGTATCA
1 AAGTAT-A
5169514 AAGTATA
1 AAGTATA
5169521 CAA-TATA
1 -AAGTATA
*
5169528 AAATATTAA
1 AAGTA-T-A
*
5169537 AACATATA
1 AA-GTATA
5169545 AA-TAT-
1 AAGTATA
*
5169550 AAGTATT
1 AAGTATA
5169557 AAGTATTA
1 AAGTA-TA
*
5169565 AATTATA
1 AAGTATA
5169572 AA
1 AA
5169574 TACATAGGAT
Statistics
Matches: 82, Mismatches: 3, Indels: 24
0.75 0.03 0.22
Matches are distributed among these distances:
5 2 0.02
6 14 0.17
7 28 0.34
8 31 0.38
9 4 0.05
10 3 0.04
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.33
Consensus pattern (7 bp):
AAGTATA
Found at i:5169511 original size:29 final size:29
Alignment explanation
Indices: 5169473--5169533 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
5169463 TATAATTAAG
*
5169473 TATAAAGTATTAAAGTATA-AATATAAATA
1 TATAAAGTATCAAAGTATACAATATAAA-A
5169502 TATAAAGTATCAAAGTATACAATATAAAA
1 TATAAAGTATCAAAGTATACAATATAAAA
5169531 TAT
1 TAT
5169534 TAAAACATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (29 bp):
TATAAAGTATCAAAGTATACAATATAAAA
Found at i:5169518 original size:44 final size:43
Alignment explanation
Indices: 5169232--5169575 Score: 170
Period size: 43 Copynumber: 8.0 Consensus size: 43
5169222 TATATTTTTA
* * ** *
5169232 ATATATATATAAACTATAAAGTATGTA-TATATAAAGTATAAGT
1 ATATATATATATAGTATAAAGTATAAAGTAT-TAAAGTATAAAT
* * *
5169275 ATAT-TATATATAAGTAT-AATTATAAAG-ACTAAAGTGTGTATATAT
1 ATATATATATAT-AGTATAAAGTATAAAGTATTAAA----GTATAAAT
* * * *
5169320 ATATATATATATA-TATATA-TATATA-TATATATA-TATATAT
1 ATATATATATATAGTATAAAGTATAAAGTAT-TAAAGTATAAAT
*
5169360 ATATATATATATAGTATTAAAGTAT-AAGTATATAAAGTACACACAT
1 ATATATATATATAGTA-TAAAGTATAAAGTAT-TAAAGTATA-A-AT
** *
5169406 ATATATATATATA-TATAAAGT-TTTAGTA-TAAAGTATATATAC
1 ATATATATATATAGTATAAAGTATAAAGTATTAAAGTATA-A-AT
5169448 ATATTATATATATAGTATAATTAAGTATAAAGTATTAAAGTATAAAT
1 ATA-TATATATATAGTAT-A--AAGTATAAAGTATTAAAGTATAAAT
* * * *
5169495 ATAAATATATAAAGTATCAAAGTATACAA-TA-TAAAATATTAA-
1 ATATATATATATAGTAT-AAAGTATA-AAGTATTAAAGTATAAAT
* * *
5169537 A-ACATATA-A-A-TAT-AAGTATTAAGTATTAAATTATAAAT
1 ATATATATATATAGTATAAAGTATAAAGTATTAAAGTATAAAT
5169575 A
1 A
5169576 CATAGGATCA
Statistics
Matches: 238, Mismatches: 34, Indels: 63
0.71 0.10 0.19
Matches are distributed among these distances:
35 2 0.01
36 8 0.03
37 9 0.04
38 4 0.02
39 1 0.00
40 21 0.09
41 12 0.05
42 31 0.13
43 38 0.16
44 34 0.14
45 20 0.08
46 35 0.15
47 8 0.03
48 6 0.03
49 9 0.04
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (43 bp):
ATATATATATATAGTATAAAGTATAAAGTATTAAAGTATAAAT
Found at i:5169832 original size:37 final size:37
Alignment explanation
Indices: 5169778--5169865 Score: 167
Period size: 37 Copynumber: 2.4 Consensus size: 37
5169768 CATTTTGATA
*
5169778 TCTCTCTAGAATCCGTTTATCTCAAAATTCTCTGCAT
1 TCTCTCTAGAATTCGTTTATCTCAAAATTCTCTGCAT
5169815 TCTCTCTAGAATTCGTTTATCTCAAAATTCTCTGCAT
1 TCTCTCTAGAATTCGTTTATCTCAAAATTCTCTGCAT
5169852 TCTCTCTAGAATTC
1 TCTCTCTAGAATTC
5169866 TTAGCCACAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.24, C:0.26, G:0.08, T:0.42
Consensus pattern (37 bp):
TCTCTCTAGAATTCGTTTATCTCAAAATTCTCTGCAT
Found at i:5170674 original size:29 final size:29
Alignment explanation
Indices: 5170632--5170688 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
5170622 ACACTATTCA
5170632 TCTTCTTCTATAACTGAGACTCTTCCCCT
1 TCTTCTTCTATAACTGAGACTCTTCCCCT
*
5170661 TCTTCTTCTCTAACTGAGACTCTTCCCC
1 TCTTCTTCTATAACTGAGACTCTTCCCC
5170689 ATTTGAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.37, G:0.07, T:0.40
Consensus pattern (29 bp):
TCTTCTTCTATAACTGAGACTCTTCCCCT
Found at i:5171851 original size:38 final size:38
Alignment explanation
Indices: 5171796--5171871 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
5171786 GGTTTAAAGG
* *
5171796 TAATTGATTCTTTTGTTATTAAATTGCGTGAAATTGTT
1 TAATTGATTCTTCTGTTATTAAATTACGTGAAATTGTT
*
5171834 TAATTGATTCTTCTGTTATTATATTACGTGAAATTGTT
1 TAATTGATTCTTCTGTTATTAAATTACGTGAAATTGTT
5171872 AAGTTTATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (38 bp):
TAATTGATTCTTCTGTTATTAAATTACGTGAAATTGTT
Found at i:5172593 original size:23 final size:23
Alignment explanation
Indices: 5172567--5172611 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
5172557 CAGAATTTAA
*
5172567 TATTCAATTTTTTTAATTTATTG
1 TATTCAATTTTTATAATTTATTG
***
5172590 TATTTTGTTTTTATAATTTATT
1 TATTCAATTTTTATAATTTATT
5172612 AATTTTATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (23 bp):
TATTCAATTTTTATAATTTATTG
Found at i:5172616 original size:22 final size:23
Alignment explanation
Indices: 5172573--5172622 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
5172563 TTAATATTCA
* *
5172573 ATTTTTTTAATTTATTGTATTTT
1 ATTTTTATAATTTATTGAATTTT
*
5172596 GTTTTTATAATTTATT-AATTTT
1 ATTTTTATAATTTATTGAATTTT
5172618 ATTTT
1 ATTTT
5172623 CATTTTTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (23 bp):
ATTTTTATAATTTATTGAATTTT
Found at i:5173300 original size:20 final size:20
Alignment explanation
Indices: 5173275--5173329 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
5173265 TTTATTATGC
* *
5173275 TTGATATTGTTTGCTTCTAT
1 TTGATATTGCTTGATTCTAT
*
5173295 TTGATATTGCTTGATTCTGT
1 TTGATATTGCTTGATTCTAT
*
5173315 TTGATTTTGCTTGAT
1 TTGATATTGCTTGAT
5173330 ATTTGTAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.15, C:0.09, G:0.18, T:0.58
Consensus pattern (20 bp):
TTGATATTGCTTGATTCTAT
Found at i:5173477 original size:23 final size:24
Alignment explanation
Indices: 5173425--5173478 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
5173415 TTGAATGCAG
*
5173425 GATGC-TGACTGAATTGATGCAAT
1 GATGCTTGACTGAATTGATACAAT
5173448 GATGCTTG-CTGAATTGATACAAT
1 GATGCTTGACTGAATTGATACAAT
5173471 GATGCTTG
1 GATGCTTG
5173479 GTGATTGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 27 0.93
24 2 0.07
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (24 bp):
GATGCTTGACTGAATTGATACAAT
Found at i:5173942 original size:22 final size:24
Alignment explanation
Indices: 5173904--5173948 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
5173894 CATTTCATCT
5173904 TTAATATATATTAAAATT-TTAAG
1 TTAATATATATTAAAATTATTAAG
*
5173927 TTAAT-TATATTTAAATTATTAA
1 TTAATATATATTAAAATTATTAA
5173949 TCAATTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTAATATATATTAAAATTATTAAG
Found at i:5173954 original size:22 final size:22
Alignment explanation
Indices: 5173910--5173954 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
5173900 ATCTTTAATA
*
5173910 TATATTAAAATTTTAAGTTAAT
1 TATATTAAAATTTTAAGTCAAT
*
5173932 TATATTTAAATTATTAA-TCAAT
1 TATATTAAAATT-TTAAGTCAAT
5173954 T
1 T
5173955 TTCACATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATTAAAATTTTAAGTCAAT
Found at i:5175713 original size:44 final size:42
Alignment explanation
Indices: 5175614--5175714 Score: 150
Period size: 42 Copynumber: 2.4 Consensus size: 42
5175604 AAATTTAGTG
* *
5175614 GAAATTTTATTGAATGAGATAAACCACTAGTAAAAGTTTAAT
1 GAAATTTTATGGAATGAGATAAACCACTAGTAAAAGTTTAAC
5175656 GAAATTTTATGGAATGAGATAAACCACTAGTAAAAGTATTTAAAC
1 GAAATTTTATGGAATGAGATAAACCACTAGTAAAAG--TTT-AAC
5175701 G-AATTTTATGGAAT
1 GAAATTTTATGGAAT
5175715 TAGTAAAAGT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
42 35 0.65
44 16 0.30
45 3 0.06
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.33
Consensus pattern (42 bp):
GAAATTTTATGGAATGAGATAAACCACTAGTAAAAGTTTAAC
Found at i:5184757 original size:24 final size:22
Alignment explanation
Indices: 5184726--5184771 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
5184716 TTCAATATTT
*
5184726 AAAAAATAATAACTCATGCATAA
1 AAAAAATAAAAACTCAT-CATAA
*
5184749 AAAATAATAAAAATTCATCATAA
1 AAAA-AATAAAAACTCATCATAA
5184772 GTATTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.63, C:0.11, G:0.02, T:0.24
Consensus pattern (22 bp):
AAAAAATAAAAACTCATCATAA
Found at i:5185836 original size:20 final size:19
Alignment explanation
Indices: 5185813--5185859 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
5185803 CGATATACCA
5185813 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
5185833 GGTAAGAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
*
5185853 GATAAAA
1 GGTAAAA
5185860 CGTTACCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:5185969 original size:181 final size:182
Alignment explanation
Indices: 5185600--5186073 Score: 686
Period size: 181 Copynumber: 2.6 Consensus size: 182
5185590 CGATCCAAAT
* * *
5185600 AAAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCAGTATTG-AAATGA
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTA-TGAAAATGA
* * * * *
5185664 TAAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACT
65 TAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACT
* *
5185729 TCGTGAATTTAAAAGAGAAGCAGTTTTAAGTCCTATAAAGTGTCGATACTTTT
130 TCGTGAATTTAAAAGAGAAGCAGTTTTAAGGCCTATAAAGTGTCGATACTTTA
* * *
5185782 AAAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAAGAAAATGAT
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATGAAAATGAT
* * *
5185847 AAAACCGATAAAACGTTACCAGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTT
66 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
5185911 TGTGAATTTAAAAGAGAATCAGTTTT-AGCGCCTATAATGTGTCGATACTTTA
131 CGTGAATTTAAAAGAGAAGCAGTTTTAAG-GCCTATAAAGTGTCGATACTTTA
* * *
5185963 AAAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAA-CATGTATCAAAATGA
1 AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCA-GTATGAAAATGA
*
5186027 TAAAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
65 TAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
5186074 CGTAAGTACG
Statistics
Matches: 261, Mismatches: 28, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
180 3 0.01
181 162 0.62
182 96 0.37
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATGAAAATGAT
AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
CGTGAATTTAAAAGAGAAGCAGTTTTAAGGCCTATAAAGTGTCGATACTTTA
Found at i:5186013 original size:20 final size:19
Alignment explanation
Indices: 5185985--5186040 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
5185975 GATCCACAAC
*
5185985 GATATAACAGGTAAAAATAT
1 GATAAAACAGGTAAAAA-AT
* *
5186005 GATAAAACATGTATCAAAAT
1 GATAAAACAGGTA-AAAAAT
*
5186025 GATAAAACCGGTAAAA
1 GATAAAACAGGTAAAA
5186041 TGATACCGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.21
Consensus pattern (19 bp):
GATAAAACAGGTAAAAAAT
Found at i:5188256 original size:21 final size:21
Alignment explanation
Indices: 5188230--5188294 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
5188220 AAGACAATCA
*
5188230 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
5188251 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
5188272 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
5188293 AG
1 AG
5188295 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:5188370 original size:33 final size:33
Alignment explanation
Indices: 5188328--5188393 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
5188318 AAATAGATGG
*
5188328 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
5188361 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
5188394 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:5190637 original size:3 final size:3
Alignment explanation
Indices: 5190629--5190685 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
5190619 TAAAGCTGAC
* * * * * * *
5190629 GAT GAT GAT AAC GAT GAA GCT GAC GAT GAA GAT GAT GAC GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
5190677 GAT GAT GAT
1 GAT GAT GAT
5190686 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.07, G:0.32, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:5190654 original size:12 final size:12
Alignment explanation
Indices: 5190621--5190659 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
5190611 AATGAAGATA
5190621 AAGCTGACGATG
1 AAGCTGACGATG
* * *
5190633 ATGATAACGATG
1 AAGCTGACGATG
5190645 AAGCTGACGATG
1 AAGCTGACGATG
5190657 AAG
1 AAG
5190660 ATGATGACGA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.31, T:0.18
Consensus pattern (12 bp):
AAGCTGACGATG
Found at i:5190669 original size:15 final size:15
Alignment explanation
Indices: 5190649--5190681 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
5190639 ACGATGAAGC
5190649 TGACGATGAAGATGA
1 TGACGATGAAGATGA
*
5190664 TGACGATGATGATGA
1 TGACGATGAAGATGA
5190679 TGA
1 TGA
5190682 TGATCCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (15 bp):
TGACGATGAAGATGA
Found at i:5190674 original size:12 final size:12
Alignment explanation
Indices: 5190625--5190685 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 12
5190615 AAGATAAAGC
5190625 TGACGATGATGA
1 TGACGATGATGA
* * *
5190637 TAACGATGAAGC
1 TGACGATGATGA
*
5190649 TGACGATGAAGA
1 TGACGATGATGA
* *
5190661 TGATGACGATGA
1 TGACGATGATGA
*
5190673 TGATGATGATGA
1 TGACGATGATGA
5190685 T
1 T
5190686 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.36, C:0.08, G:0.31, T:0.25
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:5192243 original size:183 final size:183
Alignment explanation
Indices: 5191887--5192827 Score: 1647
Period size: 183 Copynumber: 5.1 Consensus size: 183
5191877 ACAAAGTTTT
* * *
5191887 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* * *
5191952 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATGATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
* *
5192015 TATAACCGGTATAAATATACCGGTTTTATAAGCGAATATGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
5192071 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
5192136 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
5192201 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
5192254 ACACTTTCTAATATTGTGTCAGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-
* *
5192318 TCAAAAAGTGTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
65 TAAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
* *
5192383 TAACCGGTATAAATATACCGGTTTTAAGAGCGAATATGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
5192437 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
5192502 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
5192567 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
5192620 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATATCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
5192685 AAAAAAGTGTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
5192750 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTC-TACAACCTATATCG
5192804 ACACGTTT-TAATATTGTGTCGGTA
1 ACAC-TTTCTAATATTGTGTCGGTA
5192828 ATTTTAAGTA
Statistics
Matches: 727, Mismatches: 24, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
182 4 0.01
183 605 0.83
184 112 0.15
185 3 0.00
186 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (183 bp):
ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:5195699 original size:23 final size:23
Alignment explanation
Indices: 5195668--5195740 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
5195658 ATAGGTAAAA
*
5195668 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
5195691 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
5195714 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
5195737 ATAT
1 ATAT
5195741 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:5196222 original size:23 final size:23
Alignment explanation
Indices: 5196158--5196230 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
5196148 ATAGGTAAAA
* * *
5196158 ATATGATGTAATAGGTAGCGTTA
1 ATATAATGTAATAGGTAGTGTTT
5196181 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGTGTTT
*
5196204 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGTTT
5196227 ATAT
1 ATAT
5196231 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGTTT
Found at i:5196241 original size:490 final size:490
Alignment explanation
Indices: 5195321--5196630 Score: 2486
Period size: 490 Copynumber: 2.7 Consensus size: 490
5195311 AGGTATGTAC
5195321 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
5195386 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
5195451 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
5195516 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
5195581 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
5195646 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
*
5195711 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCAT
391 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTACAT
5195776 ACTTTTTTCACTGTGGAAAACATTCATTTAAGGTT
456 ACTTTTTTCACTGTGGAAAACATTCATTTAAGGTT
5195811 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
5195876 GTTATGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
5195941 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
5196006 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
5196071 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
*
5196136 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCG-TTAATATAATGTAATAGGTAGT
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT-ATATAATGTAATAGGTAGC
5196200 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTACA
390 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTACA
5196265 TACTTTTTTCACTGTGGAAAACATTCATTTAAGGTT
455 TACTTTTTTCACTGTGGAAAACATTCATTTAAGGTT
5196301 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
* *
5196366 GTTACGGTAAATGTTATTATTAAATTAAAAACAATAAAC--ATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
* *
5196429 TTTGATTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATTAAATA
131 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
5196494 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT--AA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* *
5196557 AAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCTTTTTTATAAAAAAGTATAGA
261 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-AAAAAGTATAGA
5196622 CACTTTCAA
325 CACTTTCAA
5196631 CATATTATAA
Statistics
Matches: 808, Mismatches: 10, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
486 52 0.06
487 21 0.03
488 148 0.18
489 2 0.00
490 585 0.72
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (490 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTACAT
ACTTTTTTCACTGTGGAAAACATTCATTTAAGGTT
Found at i:5211438 original size:23 final size:23
Alignment explanation
Indices: 5211411--5211486 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 23
5211401 ATATTAAAAT
5211411 ATATTAAATCAAATTAATAGATG
1 ATATTAAATCAAATTAATAGATG
* * *
5211434 ATATTAAAT-TATTTAATATTATG
1 ATATTAAATCAAATTAATA-GATG
5211457 ATATATAAACATCAAATTAATAGATG
1 ATAT-T-AA-ATCAAATTAATAGATG
5211483 ATAT
1 ATAT
5211487 ATATGATCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
22 7 0.17
23 16 0.38
24 1 0.02
25 2 0.05
26 9 0.21
27 7 0.17
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (23 bp):
ATATTAAATCAAATTAATAGATG
Found at i:5211485 original size:26 final size:25
Alignment explanation
Indices: 5211409--5211489 Score: 87
Period size: 26 Copynumber: 3.3 Consensus size: 25
5211399 ATATATTAAA
*
5211409 ATATATTAAATCAAATTAATAGATG
1 ATATATAAAATCAAATTAATAGATG
* * *
5211434 ATAT-T-AAAT-TATTTAATATTATG
1 ATATATAAAATCAAATTAATA-GATG
5211457 ATATATAAACATCAAATTAATAGATG
1 ATATATAAA-ATCAAATTAATAGATG
5211483 ATATATA
1 ATATATA
5211490 TGATCTTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
22 7 0.16
23 11 0.24
24 2 0.04
25 6 0.13
26 12 0.27
27 7 0.16
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (25 bp):
ATATATAAAATCAAATTAATAGATG
Found at i:5211967 original size:28 final size:28
Alignment explanation
Indices: 5211923--5211977 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
5211913 AAAATTTTAG
* * *
5211923 AAAAAGCCAAAAAATTGGAAATCTTAAA
1 AAAAACCCAAAAAATTGAAAAACTTAAA
*
5211951 AAAAACCCAAAATATTGAAAAACTTAA
1 AAAAACCCAAAAAATTGAAAAACTTAA
5211978 TTTTAAATCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.62, C:0.13, G:0.07, T:0.18
Consensus pattern (28 bp):
AAAAACCCAAAAAATTGAAAAACTTAAA
Found at i:5213185 original size:42 final size:42
Alignment explanation
Indices: 5213138--5213219 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
5213128 ATACCATCAG
*
5213138 ATTAGCTATGAACTGTGAAGCATCTGAGATAAGGGCACAAAA
1 ATTAGCTATGAACTGTGAAGCATCTGAGATAAGGGAACAAAA
* * *
5213180 ATTAGCTATGCACTTTGAAGCATCTTAGATAAGGGAACAA
1 ATTAGCTATGAACTGTGAAGCATCTGAGATAAGGGAACAA
5213220 TTTAAGTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (42 bp):
ATTAGCTATGAACTGTGAAGCATCTGAGATAAGGGAACAAAA
Found at i:5218068 original size:20 final size:20
Alignment explanation
Indices: 5218043--5218097 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
5218033 GCGAAATAAA
5218043 AATCGCAACGCGATCTCC-AG
1 AATCGCAACGCGAT-TCCTAG
**
5218063 AATCGCAAATC-AGTTCCTAG
1 AATCGCAACGCGA-TTCCTAG
5218083 AATCGCAACGCGATT
1 AATCGCAACGCGATT
5218098 ATGAAGAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
19 4 0.14
20 23 0.82
21 1 0.04
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGATTCCTAG
Found at i:5218107 original size:21 final size:21
Alignment explanation
Indices: 5218081--5218178 Score: 69
Period size: 21 Copynumber: 4.7 Consensus size: 21
5218071 ATCAGTTCCT
5218081 AGAATCGCAACGCGATTATGA
1 AGAATCGCAACGCGATTATGA
**
5218102 AGAATCGCAATACGA-TA-GTA
1 AGAATCGCAACGCGATTATG-A
** * **
5218122 CA-AATTCGCATTGCGATTTTCC
1 -AGAA-TCGCAACGCGATTATGA
*
5218144 AGAATCGCAACGCGAATATGA
1 AGAATCGCAACGCGATTATGA
5218165 A-AATCGCAACGCGA
1 AGAATCGCAACGCGA
5218179 ACATATAAAT
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
19 1 0.02
20 18 0.31
21 36 0.62
22 3 0.05
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.20
Consensus pattern (21 bp):
AGAATCGCAACGCGATTATGA
Found at i:5218171 original size:20 final size:20
Alignment explanation
Indices: 5218146--5218481 Score: 163
Period size: 20 Copynumber: 16.6 Consensus size: 20
5218136 GATTTTCCAG
*
5218146 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
5218166 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* * *
5218186 AATCACAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
** * * *
5218206 TTTCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * *
5218227 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
5218247 AATCGCAACG-GCAATACGTAA
1 AATCGCAACGCG-AATACG-AA
* * *
5218268 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* *
5218288 AATCGCAATGAGAATAC-ATA
1 AATCGCAACGCGAATACGA-A
* * *
5218308 AATCGCAACGTGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
* * *
5218328 AATCGTAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* *
5218348 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
* *
5218368 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
** * *
5218388 AATCGCAATAC-ATATCCGTA
1 AATCGCAACGCGA-ATACGAA
5218408 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
5218429 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
5218450 AATCGCAACGCG-AT-CGATA
1 AATCGCAACGCGAATACGA-A
*
5218469 ATTCGCAACGCGA
1 AATCGCAACGCGA
5218482 TCTCCGGTAT
Statistics
Matches: 247, Mismatches: 49, Indels: 40
0.74 0.15 0.12
Matches are distributed among these distances:
18 1 0.00
19 20 0.08
20 154 0.62
21 71 0.29
22 1 0.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:5218323 original size:40 final size:40
Alignment explanation
Indices: 5218208--5218480 Score: 311
Period size: 40 Copynumber: 6.8 Consensus size: 40
5218198 ATTCTGACTT
* *
5218208 TCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAA
1 TCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAAA
5218249 TCGCAACG-GCAATACGTAAAATCGCAACGCGTATCCGTAAA
1 TCGCAACGAG-AATACGT-AAATCGCAACGCGTATCCGTAAA
* * * *
5218290 TCGCAATGAGAATACATAAATCGCAACGTGTATCTGTAAA
1 TCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAAA
* *
5218330 TCGTAACGAGAATACGTAAATCGCAACGCGTATCTGTAAA
1 TCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAAA
** *
5218370 TCGCAACGAGAATACGTAAATCGCAATACATATCCGTAAA
1 TCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAAA
* * *
5218410 TCGCAACGACAATACGTAAAATCGCAACGAC-AATACGTAAAA
1 TCGCAACGAGAATACGT-AAATCGCAACG-CGTATCCGT-AAA
* *
5218452 TCGCAACGCG-AT-CGATAATTCGCAACGCG
1 TCGCAACGAGAATACG-TAAATCGCAACGCG
5218481 ATCTCCGGTA
Statistics
Matches: 202, Mismatches: 23, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.00
40 121 0.60
41 67 0.33
42 13 0.06
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.19
Consensus pattern (40 bp):
TCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAAA
Found at i:5219363 original size:24 final size:24
Alignment explanation
Indices: 5219336--5219389 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
5219326 GTATTCGAAA
5219336 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
5219360 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
5219384 TTTGAT
1 TTTGAT
5219390 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:5221827 original size:14 final size:14
Alignment explanation
Indices: 5221808--5221848 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
5221798 TCATTTGACT
*
5221808 ATCGCAACGTGAAA
1 ATCGCAACGCGAAA
5221822 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
5221836 ATCGCAACGCGAA
1 ATCGCAACGCGAA
5221849 TATGACTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.41, C:0.27, G:0.22, T:0.10
Consensus pattern (14 bp):
ATCGCAACGCGAAA
Found at i:5221861 original size:20 final size:21
Alignment explanation
Indices: 5221836--5221924 Score: 96
Period size: 20 Copynumber: 4.4 Consensus size: 21
5221826 CAACGCGAAA
5221836 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAATATGACT
* *
5221856 ATCGCAACACTGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
*
5221876 ATCGCAATGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
** *
5221896 ATCGCAAATC-GAAAATGACT
1 ATCGCAACGCGGAATATGACT
5221916 ATCGCAACG
1 ATCGCAACG
5221925 AGAGAATCGC
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 51 0.89
21 3 0.05
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:5221895 original size:40 final size:40
Alignment explanation
Indices: 5221836--5221924 Score: 121
Period size: 40 Copynumber: 2.2 Consensus size: 40
5221826 CAACGCGAAA
5221836 ATCGCAACGCGAATATGACTATCGCAACA-CTG-AAATGACT
1 ATCGCAACGCGAATATGACTATCGCAA-ATC-GAAAATGACT
*
5221876 ATCGCAATGCGGAAT-TGACTATCGCAAATCGAAAATGACT
1 ATCGCAACGC-GAATATGACTATCGCAAATCGAAAATGACT
5221916 ATCGCAACG
1 ATCGCAACG
5221925 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
39 2 0.05
40 38 0.86
41 4 0.09
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACTATCGCAAATCGAAAATGACT
Found at i:5221965 original size:20 final size:19
Alignment explanation
Indices: 5221929--5221975 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
5221919 GCAACGAGAG
5221929 AATCGCAATGCAAAATGAA
1 AATCGCAATGCAAAATGAA
*
5221948 AATTGCAATGCGAAAATGAA
1 AATCGCAATGC-AAAATGAA
5221968 AATCGCAA
1 AATCGCAA
5221976 CGTGAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
AATCGCAATGCAAAATGAA
Found at i:5221982 original size:20 final size:20
Alignment explanation
Indices: 5221929--5221982 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
5221919 GCAACGAGAG
*
5221929 AATCGCAATGC-AAAATGAA
1 AATCGCAACGCGAAAATGAA
* *
5221948 AATTGCAATGCGAAAATGAA
1 AATCGCAACGCGAAAATGAA
*
5221968 AATCGCAACGTGAAA
1 AATCGCAACGCGAAA
5221983 TTAGTTTCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.50, C:0.15, G:0.19, T:0.17
Consensus pattern (20 bp):
AATCGCAACGCGAAAATGAA
Found at i:5222017 original size:20 final size:19
Alignment explanation
Indices: 5221994--5222086 Score: 80
Period size: 16 Copynumber: 5.3 Consensus size: 19
5221984 TAGTTTCGAG
5221994 TTGCGATTTTCATTTTCGCA
1 TTGCGATTTTCA-TTTCGCA
*
5222014 TTGCGA--TTCA-CTCG--
1 TTGCGATTTTCATTTCGCA
5222028 TTGCGATTTTCATTTTCGCA
1 TTGCGATTTTCA-TTTCGCA
*
5222048 TTGCGA--TTCA-CTCG--
1 TTGCGATTTTCATTTCGCA
5222062 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
5222081 TTGCGA
1 TTGCGA
5222087 ATTCTCTCGT
Statistics
Matches: 58, Mismatches: 4, Indels: 23
0.68 0.05 0.27
Matches are distributed among these distances:
14 12 0.21
16 14 0.24
17 3 0.05
18 11 0.19
19 6 0.10
20 12 0.21
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:5222036 original size:34 final size:34
Alignment explanation
Indices: 5221993--5222122 Score: 199
Period size: 34 Copynumber: 3.8 Consensus size: 34
5221983 TTAGTTTCGA
5221993 GTTGCGATTTTCATTTTCGCATTGCGATTCACTC
1 GTTGCGATTTTCATTTTCGCATTGCGATTCACTC
5222027 GTTGCGATTTTCATTTTCGCATTGCGATTCACTC
1 GTTGCGATTTTCATTTTCGCATTGCGATTCACTC
*
5222061 GTTGCGATTTTCA-TTTCGCATTGCGAATTCTCTC
1 GTTGCGATTTTCATTTTCGCATTGCG-ATTCACTC
** * *
5222095 GTTGCGATAGTCATTTCCGCGTTGCGAT
1 GTTGCGATTTTCATTTTCGCATTGCGAT
5222123 AGTCTGTTTT
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
33 12 0.13
34 67 0.75
35 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (34 bp):
GTTGCGATTTTCATTTTCGCATTGCGATTCACTC
Found at i:5222243 original size:14 final size:14
Alignment explanation
Indices: 5222224--5222260 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5222214 CATCAATTAA
5222224 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
5222238 ACAAATCATCTTTT
1 ACAAATCAACATTT
5222252 ACAAATCAA
1 ACAAATCAA
5222261 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:5224230 original size:20 final size:20
Alignment explanation
Indices: 5224207--5224275 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
5224197 GAAACTTAAA
5224207 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
5224227 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
5224247 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
5224267 ATCGCAACG
1 ATCGCAACG
5224276 AGAGAATCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:5224649 original size:93 final size:94
Alignment explanation
Indices: 5224419--5224797 Score: 629
Period size: 94 Copynumber: 4.1 Consensus size: 94
5224409 ATGGATTGCA
* *
5224419 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
5224483 TTAGTAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
5224512 TTACTTTCAACCAAAAGACAAAACAAAGATAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
5224577 TTAGCAGAATTGGCAGCAACCG-ACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
5224605 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAAT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
5224670 TTAGCAGAATTGGTAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
5224699 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* * *
5224763 TTTAGCAGTATTGGTAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
5224793 TTACT
1 TTACT
5224798 AAGCAATCTA
Statistics
Matches: 271, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
93 113 0.42
94 158 0.58
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:5224738 original size:187 final size:188
Alignment explanation
Indices: 5224419--5224797 Score: 629
Period size: 187 Copynumber: 2.0 Consensus size: 188
5224409 ATGGATTGCA
* *
5224419 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTATTAAAGAATACACAAT
* *
5224483 TTAGTAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGATAAATAC
66 TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
*
5224548 TAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCG-ACAAAT
131 TAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
*
5224605 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAAT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTATTAAAGAATACACAAT
* *
5224670 TTAGCAGAATTGGTAGCAACCGAATAAATTTAC-TTCAACCAAAAGACAAAACAAAAGACAAATA
66 TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAAC-AAAGACAAATA
* * *
5224734 CTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGTATTGGTAGCAACCGAATAAAT
130 CTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
5224793 TTACT
1 TTACT
5224798 AAGCAATCTA
Statistics
Matches: 179, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
186 23 0.13
187 146 0.82
188 10 0.06
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (188 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTATTAAAGAATACACAAT
TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
TAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:5225185 original size:21 final size:21
Alignment explanation
Indices: 5225161--5225244 Score: 52
Period size: 21 Copynumber: 4.1 Consensus size: 21
5225151 GTGACAGGAT
5225161 AGGTGATGGCTCTCGTTGTAG
1 AGGTGATGGCTCTCGTTGTAG
* ** *
5225182 AGGTGTATAG-TCGGGTTG-ATC
1 AGGTG-ATGGCTCTCGTTGTA-G
*
5225203 AGGTGATGGCTCT-G-GGT-G
1 AGGTGATGGCTCTCGTTGTAG
**
5225221 AGGTGATGGCTCTCGAAGTAG
1 AGGTGATGGCTCTCGTTGTAG
5225242 AGG
1 AGG
5225245 AAGTGGAGGG
Statistics
Matches: 47, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
18 13 0.28
19 2 0.04
20 7 0.15
21 22 0.47
22 3 0.06
ACGTcount: A:0.18, C:0.12, G:0.42, T:0.29
Consensus pattern (21 bp):
AGGTGATGGCTCTCGTTGTAG
Found at i:5226524 original size:20 final size:20
Alignment explanation
Indices: 5226501--5226556 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
5226491 TGAAATGAAA
5226501 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
* *
5226521 ATCGTAATGCAGA-AATGACT
1 ATCGCAACG-AGAGAATGACT
5226541 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
5226557 TGCAACGCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.10
20 24 0.80
21 3 0.10
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:5226569 original size:33 final size:33
Alignment explanation
Indices: 5226532--5226613 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
5226522 TCGTAATGCA
** *
5226532 GAAATGACTATCGCAACGAGAGAATTGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
5226565 GAAATTAAAATTGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5226598 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
5226614 TGCGATTTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:5226662 original size:33 final size:33
Alignment explanation
Indices: 5226614--5226694 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
5226604 AAAATCGCAA
**
5226614 TGCGATTTTGGTTTCGCGTTGCGATTATCTAAT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTAAT
* **
5226647 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTAAT
*
5226680 TGCAATTTTCATTTC
1 TGCGATTTTCATTTC
5226695 TCTCGTTGCG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTAAT
Done.