Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_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: 5962497
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 30
Found at i:4157547 original size:24 final size:23
Alignment explanation
Indices: 4157506--4157554 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
4157496 TTTTTTTATA
*
4157506 TATTATAATATTACATATTTAAT
1 TATTATAATATTACATATTAAAT
* *
4157529 TATTAATAATTTTATATATTAAAT
1 TATT-ATAATATTACATATTAAAT
4157553 TA
1 TA
4157555 AACTAACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTATAATATTACATATTAAAT
Found at i:4158011 original size:9 final size:9
Alignment explanation
Indices: 4157997--4158034 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
4157987 AGCTTAAAAT
4157997 ATATATTTA
1 ATATATTTA
*
4158006 ATATATATA
1 ATATATTTA
4158015 ATAT-TTTA
1 ATATATTTA
4158023 A-ATATTTA
1 ATATATTTA
4158031 ATAT
1 ATAT
4158035 TTTCATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
7 2 0.08
8 9 0.36
9 14 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
ATATATTTA
Found at i:4158020 original size:16 final size:15
Alignment explanation
Indices: 4157990--4158036 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
4157980 CTGTTTGAGC
4157990 TTAAA-ATAT-ATAT
1 TTAAATATATAATAT
4158003 TTAATATATATAATATT
1 TTAA-ATATATAATA-T
*
4158020 TTAAATATTTAATAT
1 TTAAATATATAATAT
4158035 TT
1 TT
4158037 TCATTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 4 0.14
14 1 0.03
15 7 0.24
16 12 0.41
17 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAAATATATAATAT
Found at i:4158037 original size:16 final size:17
Alignment explanation
Indices: 4157997--4158037 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
4157987 AGCTTAAAAT
4157997 ATATATTTAATATATATA
1 ATAT-TTTAATATATATA
*
4158015 ATATTTTAA-ATATTTA
1 ATATTTTAATATATATA
4158031 ATATTTT
1 ATATTTT
4158038 CATTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.59
17 5 0.23
18 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTTTAATATATATA
Found at i:4162797 original size:2 final size:2
Alignment explanation
Indices: 4162790--4162862 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
4162780 TTCATACTCA
4162790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4162832 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 A
4162863 AATGTGACAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4163659 original size:37 final size:35
Alignment explanation
Indices: 4163608--4163702 Score: 127
Period size: 36 Copynumber: 2.7 Consensus size: 35
4163598 TCGATCGGTC
*
4163608 TGAACCTATATAAGGAATTACTAGTTTGATCGAAGT
1 TGAACCTATATAAGGAATTACCAG-TTGATCGAAGT
* **
4163644 TGAACCTGTTATAAGGAATTACCAGTTGATCGGTGT
1 TGAACCT-ATATAAGGAATTACCAGTTGATCGAAGT
*
4163680 TGAACCTATATAAAGAATTACCA
1 TGAACCTATATAAGGAATTACCA
4163703 ACTTGATCAG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
35 14 0.27
36 23 0.44
37 15 0.29
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (35 bp):
TGAACCTATATAAGGAATTACCAGTTGATCGAAGT
Found at i:4163699 original size:35 final size:36
Alignment explanation
Indices: 4163582--4163710 Score: 136
Period size: 35 Copynumber: 3.6 Consensus size: 36
4163572 TCTTAGGTCC
* * *
4163582 ATAAAGAATCACCAGCTCGATCGGT-CTGAACCTAT
1 ATAAAGAATTACCAGCTTGATCGGTGTTGAACCTAT
* * * ** *
4163617 ATAAGGAATTACTAGTTTGATCGAAGTTGAACCTGTT
1 ATAAAGAATTACCAGCTTGATCGGTGTTGAACCT-AT
*
4163654 ATAAGGAATTACCAG-TTGATCGGTGTTGAACCTAT
1 ATAAAGAATTACCAGCTTGATCGGTGTTGAACCTAT
*
4163689 ATAAAGAATTACCAACTTGATC
1 ATAAAGAATTACCAGCTTGATC
4163711 AGAACTGAAC
Statistics
Matches: 76, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
35 32 0.42
36 29 0.38
37 15 0.20
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (36 bp):
ATAAAGAATTACCAGCTTGATCGGTGTTGAACCTAT
Found at i:4163720 original size:36 final size:35
Alignment explanation
Indices: 4163607--4163720 Score: 95
Period size: 36 Copynumber: 3.2 Consensus size: 35
4163597 CTCGATCGGT
* **
4163607 CTGAACCTATATAAGGAATTACTAGTTTGATCGAA
1 CTGAACCTATATAAGGAATTACCAACTTGATCGAA
* * * **
4163642 GTTGAACCTGTTATAAGGAATTACC-AGTTGATCGGTG
1 -CTGAACCT-ATATAAGGAATTACCAACTTGATC-GAA
* *
4163679 TTGAACCTATATAAAGAATTACCAACTTGATCAGAA
1 CTGAACCTATATAAGGAATTACCAACTTGATC-GAA
4163715 CTGAAC
1 CTGAAC
4163721 ATACAGAGAC
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
35 13 0.21
36 34 0.56
37 14 0.23
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (35 bp):
CTGAACCTATATAAGGAATTACCAACTTGATCGAA
Found at i:4163720 original size:72 final size:72
Alignment explanation
Indices: 4163582--4163720 Score: 165
Period size: 72 Copynumber: 1.9 Consensus size: 72
4163572 TCTTAGGTCC
* * ** *
4163582 ATAAAGAATCACCAGCTCGATCGGTCTGAACCTATATAAGGAATTACTAGTTTGATCGAAGTTGA
1 ATAAAGAATCACCAGCTCGATCGGTCTGAACCTATATAAAGAATTACCAACTTGATCGAAGCTGA
4163647 ACCTGTT
66 ACCTGTT
* * * *
4163654 ATAAGGAATTACCAG-TTGATCGGTGTTGAACCTATATAAAGAATTACCAACTTGATCAGAA-CT
1 ATAAAGAATCACCAGCTCGATCGGT-CTGAACCTATATAAAGAATTACCAACTTGATC-GAAGCT
4163717 GAAC
64 GAAC
4163721 ATACAGAGAC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
71 8 0.14
72 45 0.80
73 3 0.05
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (72 bp):
ATAAAGAATCACCAGCTCGATCGGTCTGAACCTATATAAAGAATTACCAACTTGATCGAAGCTGA
ACCTGTT
Found at i:4165441 original size:19 final size:19
Alignment explanation
Indices: 4165417--4165498 Score: 137
Period size: 19 Copynumber: 4.3 Consensus size: 19
4165407 AACAGTCAAC
* *
4165417 TCGGGTCAAAGTTAATAGG
1 TCGGGTCAAAGTCAACAGG
4165436 TCGGGTCAAAGTCAACAGG
1 TCGGGTCAAAGTCAACAGG
4165455 TCGGGTCAAAGTCAACAGG
1 TCGGGTCAAAGTCAACAGG
*
4165474 TCGGGTCAAAGTCAACGGG
1 TCGGGTCAAAGTCAACAGG
4165493 TCGGGT
1 TCGGGT
4165499 TGGGTTAACT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 60 1.00
ACGTcount: A:0.28, C:0.18, G:0.34, T:0.20
Consensus pattern (19 bp):
TCGGGTCAAAGTCAACAGG
Found at i:4166098 original size:14 final size:14
Alignment explanation
Indices: 4166079--4166113 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4166069 GCAGCTAGAG
4166079 TTGGGGTAGGAAAT
1 TTGGGGTAGGAAAT
*
4166093 TTGGGGTAGGGAAT
1 TTGGGGTAGGAAAT
4166107 TTGGGGT
1 TTGGGGT
4166114 TGGTTTCTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.49, T:0.31
Consensus pattern (14 bp):
TTGGGGTAGGAAAT
Found at i:4172109 original size:20 final size:21
Alignment explanation
Indices: 4172071--4172115 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
4172061 ACTGAGGAAA
4172071 AAAATATTTTCTAAGGAG-AG
1 AAAATATTTTCTAAGGAGAAG
*
4172091 AAAATATTTTTTCAA-GAGAAG
1 AAAATATTTTCT-AAGGAGAAG
4172112 AAAA
1 AAAA
4172116 GTTCTTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.51, C:0.04, G:0.16, T:0.29
Consensus pattern (21 bp):
AAAATATTTTCTAAGGAGAAG
Found at i:4172239 original size:34 final size:36
Alignment explanation
Indices: 4172196--4172263 Score: 95
Period size: 34 Copynumber: 1.9 Consensus size: 36
4172186 TTTACTACCA
**
4172196 AATATCTTTTAGTA-TCTAAAT-TTAAACAGATAAT
1 AATATCTTTTAAAATTCTAAATATTAAACAGATAAT
*
4172230 AATATCTTTTAAAATTCTAAATATTAAATAGATA
1 AATATCTTTTAAAATTCTAAATATTAAACAGATA
4172264 TACACTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 12 0.41
35 7 0.24
36 10 0.34
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.41
Consensus pattern (36 bp):
AATATCTTTTAAAATTCTAAATATTAAACAGATAAT
Found at i:4177226 original size:41 final size:41
Alignment explanation
Indices: 4177181--4177296 Score: 146
Period size: 39 Copynumber: 2.9 Consensus size: 41
4177171 AAATTATACC
* * **
4177181 TAAAAAGTTTAGTGTTTGTTTCATTTTAGTACCTCCACGGT
1 TAAAAACTTTAGTTTTTGTTTCATTTTAGTACCTCCACAAT
* **
4177222 TAAAAACTTTAATTTTTGTTTCATTAAAGTA-CT-CACAAT
1 TAAAAACTTTAGTTTTTGTTTCATTTTAGTACCTCCACAAT
*
4177261 TAAAAACTTTAGTTTTTGTTTTATTTTAGTACCTCC
1 TAAAAACTTTAGTTTTTGTTTCATTTTAGTACCTCC
4177297 CATTCAAAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.50
40 4 0.06
41 27 0.44
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (41 bp):
TAAAAACTTTAGTTTTTGTTTCATTTTAGTACCTCCACAAT
Found at i:4177370 original size:31 final size:31
Alignment explanation
Indices: 4177332--4177404 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
4177322 GAAAAAATTG
4177332 AAAGTTTAGGTGCTTAAAC-GTATCAAAACTA
1 AAAGTTTAGGTGCTTAAACGGT-TCAAAACTA
* *
4177363 AAAGTTTAAGTGCTTAAACGGTTCAAAACTG
1 AAAGTTTAGGTGCTTAAACGGTTCAAAACTA
*
4177394 ATAGTTTAGGT
1 AAAGTTTAGGT
4177405 ATTGAATACT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 35 0.95
32 2 0.05
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (31 bp):
AAAGTTTAGGTGCTTAAACGGTTCAAAACTA
Found at i:4185667 original size:12 final size:12
Alignment explanation
Indices: 4185650--4185676 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4185640 CATATTTATT
4185650 AAGTTTTGAACG
1 AAGTTTTGAACG
4185662 AAGTTTTGAACG
1 AAGTTTTGAACG
4185674 AAG
1 AAG
4185677 GAAGTGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (12 bp):
AAGTTTTGAACG
Found at i:4191754 original size:23 final size:23
Alignment explanation
Indices: 4191723--4191775 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
4191713 GTTTTTATTT
* *
4191723 TCATT-ATATGATTTATTTTATG
1 TCATTGATATGATTTACTTTATA
* *
4191745 TCATTGATATGTTTTACTTTGTA
1 TCATTGATATGATTTACTTTATA
4191768 TCATTGAT
1 TCATTGAT
4191776 CATGCCTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.57
Consensus pattern (23 bp):
TCATTGATATGATTTACTTTATA
Found at i:4192051 original size:13 final size:12
Alignment explanation
Indices: 4192029--4192077 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
4192019 GATTTTGATT
4192029 TTAATTTTAATA
1 TTAATTTTAATA
4192041 TTAATTTTTAATA
1 TTAA-TTTTAATA
*
4192054 TTATATTATAGATA
1 TTA-ATTTTA-ATA
4192068 TTTAATTTTA
1 -TTAATTTTA
4192078 TATCATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 4 0.13
13 15 0.48
14 9 0.29
15 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:4192132 original size:20 final size:19
Alignment explanation
Indices: 4192072--4192133 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
4192062 TAGATATTTA
*
4192072 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
4192091 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
4192109 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
4192129 ATTTT
1 ATTTT
4192134 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:4194392 original size:12 final size:12
Alignment explanation
Indices: 4194360--4194399 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
4194350 TTCAAAGAAA
4194360 TTAAAA-TTA-T
1 TTAAAATTTATT
*
4194370 TT-AAATCTATT
1 TTAAAATTTATT
4194381 TTAAAATTTATT
1 TTAAAATTTATT
4194393 TTAAAAT
1 TTAAAAT
4194400 ATTGATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 3 0.12
10 4 0.16
11 3 0.12
12 15 0.60
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAAAATTTATT
Found at i:4194621 original size:22 final size:22
Alignment explanation
Indices: 4194386--4194640 Score: 404
Period size: 22 Copynumber: 11.6 Consensus size: 22
4194376 CTATTTTAAA
*
4194386 ATTTATTTTAAAATATTGATTG
1 ATTTATTTTAAAATATAGATTG
*
4194408 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
4194430 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATAGATTG
*
4194452 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
4194474 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATAGATTG
*
4194496 ATTTATTTTAAAACATAGATTG
1 ATTTATTTTAAAATATAGATTG
4194518 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATAGATTG
*
4194540 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATAGATTG
***
4194562 ATTTATTTTAAAATATA-AAAA
1 ATTTATTTTAAAATATAGATTG
* *
4194583 AATTATTTTAAAATATAAATTG
1 ATTTATTTTAAAATATAGATTG
4194605 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATAGATTG
4194627 ATTTATTTTTAAAA
1 ATTTA-TTTTAAAA
4194641 AAATTATTAT
Statistics
Matches: 214, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
21 17 0.08
22 189 0.88
23 8 0.04
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (22 bp):
ATTTATTTTAAAATATAGATTG
Found at i:4195716 original size:15 final size:15
Alignment explanation
Indices: 4195692--4195731 Score: 71
Period size: 15 Copynumber: 2.6 Consensus size: 15
4195682 AATGTGAAAT
4195692 AATTTAAGAAATTAAA
1 AATTT-AGAAATTAAA
4195708 AATTTAGAAATTAAA
1 AATTTAGAAATTAAA
4195723 AATTTAGAA
1 AATTTAGAA
4195732 TGTTGTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
AATTTAGAAATTAAA
Found at i:4195789 original size:39 final size:39
Alignment explanation
Indices: 4195705--4195791 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
4195695 TTAAGAAATT
*
4195705 AAAAATTT-AGAAATTAAAAATTTAGAATGTTGTGATAG
1 AAAAATTTAAGAAATTAAAAATTTAGAATGTTGAGATAG
* *
4195743 CAAAATTTAAGAAATTAAGAATTTAGAATGTT-AGAGT-G
1 AAAAATTTAAGAAATTAAAAATTTAGAATGTTGAGA-TAG
4195781 AAATAATTTAA
1 AAA-AATTTAA
4195792 CAATTATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 12 0.29
39 30 0.71
ACGTcount: A:0.51, C:0.01, G:0.15, T:0.33
Consensus pattern (39 bp):
AAAAATTTAAGAAATTAAAAATTTAGAATGTTGAGATAG
Found at i:4195841 original size:20 final size:17
Alignment explanation
Indices: 4195796--4195843 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
4195786 ATTTAACAAT
*
4195796 TATAAATAAAAATTTAA
1 TATAAATAAAAATATAA
4195813 TATACAATAAAAATAATATA
1 TATA-AATAAAAAT-ATA-A
4195833 TATATAATAAA
1 TATA-AATAAA
4195844 CTGGGTATCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 4 0.15
18 9 0.35
19 2 0.08
20 11 0.42
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAATAAAAATATAA
Found at i:4197232 original size:16 final size:17
Alignment explanation
Indices: 4197207--4197239 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4197197 GATATATTTA
4197207 TTATTAAT-AAAATATT
1 TTATTAATAAAAATATT
*
4197223 TTATTTATAAAAATATT
1 TTATTAATAAAAATATT
4197240 ATTAATGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATTAATAAAAATATT
Found at i:4197528 original size:12 final size:12
Alignment explanation
Indices: 4197513--4197543 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4197503 GTTATTTAAA
*
4197513 CGGGTTTCGGGC
1 CGGGTATCGGGC
4197525 CGGGTATCGGGC
1 CGGGTATCGGGC
4197537 CGGGTAT
1 CGGGTAT
4197544 ATATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.23, G:0.48, T:0.23
Consensus pattern (12 bp):
CGGGTATCGGGC
Found at i:4197548 original size:2 final size:2
Alignment explanation
Indices: 4197541--4197591 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
4197531 TCGGGCCGGG
* * * *
4197541 TA TA TA TA TT TA AA T- TA AA TA TA TA AA TA T- 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
4197581 TA TA TA TA TA T
1 TA TA TA TA TA T
4197592 TTTAATTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4197640 original size:42 final size:46
Alignment explanation
Indices: 4197541--4197632 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 46
4197531 TCGGGCCGGG
4197541 TATATA-T-ATTTAAATTAAATATATAAATATTATATATATATATA
1 TATATATTAATTTAAATTAAATATATAAATATTATATATATATATA
* *
4197585 TATATATTTTAATTTAAATTAAATTTATTAATATTATATATATATATA
1 TATATA--TTAATTTAAATTAAATATATAAATATTATATATATATATA
4197633 AAATAATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 6 0.14
47 1 0.02
48 35 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (46 bp):
TATATATTAATTTAAATTAAATATATAAATATTATATATATATATA
Found at i:4197733 original size:36 final size:36
Alignment explanation
Indices: 4197693--4197774 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
4197683 CTAAACCCGT
4197693 CCCGTCCCCGTCCCCGTTTAACATAAACGGTTTTTC
1 CCCGTCCCCGTCCCCGTTTAACATAAACGGTTTTTC
* * *
4197729 CCCGTCCCCATCCCCGTTTAGCATAAATGGTTTTTC
1 CCCGTCCCCGTCCCCGTTTAACATAAACGGTTTTTC
*
4197765 CTCGTCCCCG
1 CCCGTCCCCG
4197775 CTTAATTCGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.15, C:0.40, G:0.15, T:0.30
Consensus pattern (36 bp):
CCCGTCCCCGTCCCCGTTTAACATAAACGGTTTTTC
Found at i:4211782 original size:20 final size:20
Alignment explanation
Indices: 4211757--4211799 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
4211747 TCATTTGTAG
4211757 TATTTAAACAGTTTGCAGTC
1 TATTTAAACAGTTTGCAGTC
*
4211777 TATTTAAACAGTTTGTAGTC
1 TATTTAAACAGTTTGCAGTC
4211797 TAT
1 TAT
4211800 GTATCAACCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (20 bp):
TATTTAAACAGTTTGCAGTC
Found at i:4214045 original size:65 final size:64
Alignment explanation
Indices: 4213850--4214056 Score: 226
Period size: 65 Copynumber: 3.2 Consensus size: 64
4213840 ACTAAGAGTA
* * * * *
4213850 CATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-ATCCAGAGTGCATCAATGCATGGCTGGTG
1 CATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCATGGTTGGTG
* *
4213914 CATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGGTGCATGGTAT-
1 CATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGGT-TG
4213976 GTG
62 GTG
* *
4213979 CATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATTGGT
1 CATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGG-TTGGT
4214043 G
64 G
*
4214044 CATCGGTGCATCA
1 CATCGATGCATCA
4214057 CTCTAAAAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 48 0.40
65 63 0.52
66 1 0.01
67 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (64 bp):
CATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGGTTGGTG
Found at i:4219111 original size:13 final size:13
Alignment explanation
Indices: 4219074--4219113 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
4219064 TCGATATTGA
4219074 AAAATAAATA-TT
1 AAAATAAATATTT
*
4219086 AAAATAATTTATTT
1 AAAATAA-ATATTT
4219100 AAAATAAATATTT
1 AAAATAAATATTT
4219113 A
1 A
4219114 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:4219127 original size:17 final size:17
Alignment explanation
Indices: 4219087--4219135 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
4219077 ATAAATATTA
*
4219087 AAATAATTTATTTAAAAT
1 AAAT-ATTTATTTATAAT
*
4219105 AAATATTTATTTATTAT
1 AAATATTTATTTATAAT
* *
4219122 ATATATATATTTAT
1 AAATATTTATTTAT
4219136 GACTATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATATTTATTTATAAT
Found at i:4220567 original size:11 final size:11
Alignment explanation
Indices: 4220544--4220575 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
4220534 TGTAATTAAT
4220544 TATTTATATATA
1 TATTTA-ATATA
4220556 TATTTAATATA
1 TATTTAATATA
4220567 TATTTAATA
1 TATTTAATA
4220576 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTAATATA
Found at i:4220579 original size:3 final size:3
Alignment explanation
Indices: 4220571--4220653 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
4220561 AATATATATT
*
4220571 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4220619 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4220654 TGGATAAAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4221236 original size:114 final size:114
Alignment explanation
Indices: 4220971--4221646 Score: 950
Period size: 114 Copynumber: 5.9 Consensus size: 114
4220961 ATAGAATTAT
* * * * * *
4220971 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTATT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
4221036 ATTATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGATGAATTC-AA
66 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAAA
*
4221083 GTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
4221148 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCAAA
66 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAAA
* *
4221197 CCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
4221262 ATTATGAACTTTCTCTGGAAAAAATAATCCATCAATTTGATGAATT-TAG
66 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAA-TTGATGAATTCAAA
* *
4221311 GTAAAAGGTTGAACGAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* * * * * *
4221376 CTCATTATGAACTCTTC-CTGGCAATGTTGATCCCTCAAATGATGAATTCAAA
63 CTCATTATGAACT-TTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAAA
* * *
4221428 CCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
4221493 ATTATGAACTTTCTCTGAAAAAAATAATCCATCAATTTGATGAATT-TAG
66 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAA-TTGATGAATTCAAA
*
4221542 GTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
4221607 ATTATGAACCTTT-TCTGGAAAAGCTAATCTATCAAGTGAT
66 ATTATGAA-CTTTCTCTGGAAAAGATAATCCATCAATTGAT
4221647 AGATTTGAAT
Statistics
Matches: 499, Mismatches: 54, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
112 67 0.13
113 41 0.08
114 270 0.54
115 23 0.05
116 9 0.02
117 86 0.17
118 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (114 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAAA
Found at i:4221451 original size:231 final size:228
Alignment explanation
Indices: 4220972--4221646 Score: 1106
Period size: 231 Copynumber: 3.0 Consensus size: 228
4220962 TAGAATTATG
* * * * *
4220972 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTATTA
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
4221037 TTATGAAC-TTCTCTGGAAAAGATAATCCATCAA-TTGATGAATTCAAGTAAAAGGTTGAACAAA
66 TTATGAACTTTCTCTGGAAAAAATAATCCATCAATTTGATGAATTTAGGTAAAAGGTTGAACAAA
4221100 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
131 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
4221165 GAAAAGCTGATCCATCAATTGATGAATTCAAAC
196 GAAAAGCTGATCCATCAAATGATGAATTCAAAC
4221198 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
4221263 TTATGAACTTTCTCTGGAAAAAATAATCCATCAATTTGATGAATTTAGGTAAAAGGTTGAACGAA
66 TTATGAACTTTCTCTGGAAAAAATAATCCATCAATTTGATGAATTTAGGTAAAAGGTTGAACAAA
4221328 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
131 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTC
* * * *
4221393 -CTGGCAATGTTGATCCCTCAAATGATGAATTCAAAC
192 TCTGGAAAAGCTGATCCATCAAATGATGAATTCAAAC
*
4221429 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
4221494 TTATGAACTTTCTCTGAAAAAAATAATCCATCAATTTGATGAATTTAGGTAAAAGGTTGAACAAA
66 TTATGAACTTTCTCTGGAAAAAATAATCCATCAATTTGATGAATTTAGGTAAAAGGTTGAACAAA
4221559 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTT-TCT
131 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTTCTCT
* * *
4221623 GGAAAAGCTAATCTATCAAGTGAT
195 GGAAAAGCTGATCCATCAAATGAT
4221647 AGATTTGAAT
Statistics
Matches: 417, Mismatches: 24, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
226 68 0.16
227 24 0.06
228 104 0.25
229 2 0.00
231 216 0.52
232 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (228 bp):
CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAAATAATCCATCAATTTGATGAATTTAGGTAAAAGGTTGAACAAA
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAATGATGAATTCAAAC
Found at i:4221604 original size:345 final size:340
Alignment explanation
Indices: 4220973--4221628 Score: 987
Period size: 345 Copynumber: 1.9 Consensus size: 340
4220963 AGAATTATGC
* * *
4220973 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTATTAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTATCAT
* **
4221038 TATGAACTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAAGTAAAAGGTTGAACAAATTC
66 TATGAACTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAACCAAAAGGTTGAACAAATTC
* *
4221103 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAA
131 TTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGAAA
** * *
4221168 AAGCTGATCCATCAATTGATGAATTCAAACCAAAAGGTTGAACAAATTCTTCTTATTATGAACTT
196 AAAATAATCCATCAATTGATGAATTCAAACCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
4221233 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTTCTCTGGAAAAAATAATCCATCAA
261 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTT-TCTGGAAAAAATAATCCATCAA
4221297 TTTGATGAATTTAGGT
325 TTTGATGAATTTAGGT
* *
4221313 AAAAGGTTGAACGAA-TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 AAAAAGTTGAAC-AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTA
* * * * *
4221377 TCATTATGAAC-TCTTCCTGGCAATGTTGATCCCTCAAATGATGAATTCAAACCAAAAGGTTGAA
62 TCATTATGAACTTC-T-CTGGAAAAGATAATCCATCAAATGATGAATTC-AACCAAAAGGTTGAA
*
4221441 CAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTC
124 CAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTC
* ***
4221506 TCTGAAAAAAATAATCCATCAATTTGATGAATT-TAGGTAAAAGGTTGAACAAATTCTTCTCATT
189 TCTGAAAAAAATAATCCATCAA-TTGATGAATTCAAACCAAAAGGTTGAACAAATTCTTCTCATT
4221570 ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTTTCTGGAAAA
253 ATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTTTCTGGAAAA
4221629 GCTAATCTAT
Statistics
Matches: 283, Mismatches: 24, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
340 46 0.16
341 2 0.01
342 2 0.01
343 19 0.07
344 26 0.09
345 174 0.61
346 14 0.05
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (340 bp):
AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTATCAT
TATGAACTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAACCAAAAGGTTGAACAAATTC
TTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGAAA
AAAATAATCCATCAATTGATGAATTCAAACCAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTTTCTGGAAAAAATAATCCATCAAT
TTGATGAATTTAGGT
Found at i:4222454 original size:86 final size:85
Alignment explanation
Indices: 4222360--4222752 Score: 553
Period size: 86 Copynumber: 4.6 Consensus size: 85
4222350 CCTACTGAAT
* * *
4222360 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTCCTTCATCTTTCTAAATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAG-CACATTCATCTTTCTAAATT
4222425 CAATAACTAGTTTTACCAAAC
65 CAATAACTAGTTTTACCAAAC
*
4222446 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTTCAAAATTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTTCTAAATTC
* * * * ** *
4222510 AATGATTGGTTCTGTCTAAC
66 AATAACTAGTTTTACCAAAC
4222530 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATC-TTCTAAATTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTTCTAAATTC
* * ** *
4222593 AATGA-TTGTTTCTGTCTAAC
66 AATAACTAGTTT-TACCAAAC
* * *
4222613 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTCCTTCATCTTTCTAAATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAG-CACATTCATCTTTCTAAATT
4222678 CAATAACTAGTTTTACCAAAC
65 CAATAACTAGTTTTACCAAAC
4222699 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCT
4222753 GTTCCAGTTA
Statistics
Matches: 277, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
82 4 0.01
83 61 0.22
84 96 0.35
85 14 0.05
86 97 0.35
87 5 0.02
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.29
Consensus pattern (85 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTTCTAAATTC
AATAACTAGTTTTACCAAAC
Found at i:4223907 original size:9 final size:9
Alignment explanation
Indices: 4223895--4223987 Score: 57
Period size: 7 Copynumber: 11.3 Consensus size: 9
4223885 TTGACCCCCT
4223895 TTCTTTTTC
1 TTCTTTTTC
4223904 TTCTTTTTC
1 TTCTTTTTC
4223913 -TC-TTTT-
1 TTCTTTTTC
4223919 TTC-TTTT-
1 TTCTTTTTC
4223926 TTCTATTTT-
1 TTCT-TTTTC
*
4223935 TT-TTATTTA
1 TTCTT-TTTC
4223944 TT-TTTTT-
1 TTCTTTTTC
*
4223951 TTCTTTTTT
1 TTCTTTTTC
4223960 TTC-TTTTC
1 TTCTTTTTC
4223968 -T-TTTTTC
1 TTCTTTTTC
4223975 TTCTTTTTTC
1 TTC-TTTTTC
4223985 TTC
1 TTC
4223988 AAGCATAATA
Statistics
Matches: 72, Mismatches: 1, Indels: 21
0.77 0.01 0.22
Matches are distributed among these distances:
7 22 0.31
8 19 0.26
9 22 0.31
10 9 0.12
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:4223922 original size:24 final size:22
Alignment explanation
Indices: 4223894--4223986 Score: 89
Period size: 25 Copynumber: 4.0 Consensus size: 22
4223884 CTTGACCCCC
4223894 TTTCTTTTTCTTCTTTTTCTCTTT
1 TTTCTTTTTCTT-TTTTT-TCTTT
*
4223918 TTTCTTTTTTCTATTTTTTTTATTT
1 TTTC-TTTTTC--TTTTTTTTCTTT
*
4223943 ATTTTTTTTTCTTTTTTTTCTTT
1 -TTTCTTTTTCTTTTTTTTCTTT
*
4223966 TCT-TTTTTCTTCTTTTTTCTT
1 TTTCTTTTTCTT-TTTTTTCTT
4223987 CAAGCATAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
21 8 0.13
22 11 0.18
23 11 0.18
24 4 0.07
25 16 0.27
26 8 0.13
27 2 0.03
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTCTTTTTCTTTTTTTTCTTT
Found at i:4223934 original size:14 final size:14
Alignment explanation
Indices: 4223904--4223981 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
4223894 TTTCTTTTTC
*
4223904 TTCTTTTTCTCTTTT
1 TTCTTTTT-TCTATT
4223919 TTCTTTTTTCTATT
1 TTCTTTTTTCTATT
4223933 TT-TTTTATT-TA-T
1 TTCTTTT-TTCTATT
4223945 TT-TTTTTTCT-TT
1 TTCTTTTTTCTATT
* *
4223957 TTTTTCTTTTCTTTT
1 TTCTT-TTTTCTATT
4223972 TTCTTCTTTT
1 TTCTT-TTTT
4223982 TTCTTCAAGC
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
11 2 0.04
12 11 0.20
13 8 0.15
14 15 0.27
15 19 0.35
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTTTTTTCTATT
Found at i:4223982 original size:10 final size:10
Alignment explanation
Indices: 4223898--4223987 Score: 71
Period size: 9 Copynumber: 8.9 Consensus size: 10
4223888 ACCCCCTTTC
4223898 TTTTTCTTC-
1 TTTTTCTTCT
4223907 TTTTTC-TCT
1 TTTTTCTTCT
4223916 TTTTTCTT-T
1 TTTTTCTTCT
* *
4223925 TTTCTATTTTTT
1 TTT-T-TCTTCT
* *
4223937 TTATTTATTTT
1 TT-TTTCTTCT
4223948 TTTTTCTT-T
1 TTTTTCTTCT
4223957 TTTTTCTTTTCT
1 TTTTTC--TTCT
4223969 TTTTTCTTCT
1 TTTTTCTTCT
4223979 TTTTTCTTC
1 TTTTTCTTC
4223988 AAGCATAATA
Statistics
Matches: 69, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
8 2 0.03
9 23 0.33
10 20 0.29
11 12 0.17
12 11 0.16
13 1 0.01
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:4235293 original size:91 final size:91
Alignment explanation
Indices: 4235138--4235315 Score: 214
Period size: 91 Copynumber: 2.0 Consensus size: 91
4235128 TTATTTCAAA
* * * *
4235138 ATTATATATAAAAAAATATTTATTTATTTTAAAATATCAGAAAAGAACTTCTAGGTGCCTTAAGA
1 ATTATATATAAAAAAATATTTATTTATTTTAAAATACCAGAAAAGAACATCCAGGTGCATTAAGA
*
4235203 CAG-CTCTTTTCTTTGATATTGATAAT
66 CAGTC-CTTTTCTTCGATATTGATAAT
* * * * * * * *
4235229 ATTATATATATATATATATTTTTTTATTTTAAAATACCAGAATAGGACATCCAGTTGTATTAAGA
1 ATTATATATAAAAAAATATTTATTTATTTTAAAATACCAGAAAAGAACATCCAGGTGCATTAAGA
*
4235294 CTGTCCTTTTCTTCGATATTGA
66 CAGTCCTTTTCTTCGATATTGA
4235316 AAAATAAATA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
91 71 0.99
92 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.43
Consensus pattern (91 bp):
ATTATATATAAAAAAATATTTATTTATTTTAAAATACCAGAAAAGAACATCCAGGTGCATTAAGA
CAGTCCTTTTCTTCGATATTGATAAT
Found at i:4235353 original size:13 final size:13
Alignment explanation
Indices: 4235316--4235355 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
4235306 TCGATATTGA
4235316 AAAATAAATA-TT
1 AAAATAAATATTT
*
4235328 AAAATAATTTATTT
1 AAAATAA-ATATTT
4235342 AAAATAAATATTT
1 AAAATAAATATTT
4235355 A
1 A
4235356 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:4235369 original size:17 final size:17
Alignment explanation
Indices: 4235329--4235377 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
4235319 ATAAATATTA
*
4235329 AAATAATTTATTTAAAAT
1 AAAT-ATTTATTTATAAT
*
4235347 AAATATTTATTTATTAT
1 AAATATTTATTTATAAT
* *
4235364 ATATATATATTTAT
1 AAATATTTATTTAT
4235378 GACTATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATATTTATTTATAAT
Found at i:4236825 original size:11 final size:11
Alignment explanation
Indices: 4236809--4236833 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4236799 ATTTATATAT
4236809 ATATATATTTA
1 ATATATATTTA
4236820 ATATATATTTA
1 ATATATATTTA
4236831 ATA
1 ATA
4236834 ATAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATATATATTTA
Found at i:4236837 original size:3 final size:3
Alignment explanation
Indices: 4236829--4236913 Score: 154
Period size: 3 Copynumber: 28.7 Consensus size: 3
4236819 AATATATATT
*
4236829 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4236877 TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4236914 TGGATAAAAA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
2 2 0.03
3 77 0.97
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4239664 original size:63 final size:63
Alignment explanation
Indices: 4239534--4239670 Score: 147
Period size: 63 Copynumber: 2.2 Consensus size: 63
4239524 GCACTAAGAG
* * * * **
4239534 TGCATTGATGCATCAAGTGTATTCGATGTTCAAAATAGCTAGAGTGCATCGATGCATGGATGG
1 TGCATTGATGCATCAAATGCATTCGATGTTCAAAATACCTACAGTGCATCGATGCATGGATAA
4239597 TGCATTGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCT-CAGTGCATCGATGCAT-GA-
1 TGCATTGATGCATCAAATGCATTCGATG--TTCA-AAATA-CCTACAGTGCATCGATGCATGGAT
4239658 AA
62 AA
4239660 TGCATTTGATG
1 TGCA-TTGATG
4239671 TTCAATTTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
63 30 0.48
64 8 0.13
65 20 0.32
66 5 0.08
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (63 bp):
TGCATTGATGCATCAAATGCATTCGATGTTCAAAATACCTACAGTGCATCGATGCATGGATAA
Found at i:4241186 original size:19 final size:19
Alignment explanation
Indices: 4241158--4241267 Score: 121
Period size: 19 Copynumber: 5.8 Consensus size: 19
4241148 CATTGGGATG
*
4241158 TGAATTTGAAAATAAGCTA
1 TGAATCTGAAAATAAGCTA
* *
4241177 TGACTTTGAAAATAAGCTA
1 TGAATCTGAAAATAAGCTA
* *
4241196 TGAATCTGACAGTAAGCTA
1 TGAATCTGAAAATAAGCTA
* *
4241215 TGAGTCTGAAAATAAGTTA
1 TGAATCTGAAAATAAGCTA
* *
4241234 TGAATCTGGAAATAAGTTA
1 TGAATCTGAAAATAAGCTA
* *
4241253 TGATTCAGAAAATAA
1 TGAATCTGAAAATAA
4241268 ATTCTGAAAC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 77 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (19 bp):
TGAATCTGAAAATAAGCTA
Found at i:4243345 original size:2 final size:2
Alignment explanation
Indices: 4243338--4243367 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4243328 ATACATGCAT
*
4243338 AC AC AC AC AC AC AT AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
4243368 TTACATTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:4243354 original size:14 final size:14
Alignment explanation
Indices: 4243335--4243364 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4243325 AAAATACATG
4243335 CATACACACACACA
1 CATACACACACACA
4243349 CATACACACACACA
1 CATACACACACACA
4243363 CA
1 CA
4243365 CACTTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.43, G:0.00, T:0.07
Consensus pattern (14 bp):
CATACACACACACA
Found at i:4245251 original size:4 final size:4
Alignment explanation
Indices: 4243414--4245246 Score: 1820
Period size: 4 Copynumber: 463.5 Consensus size: 4
4243404 TAGGGAATGT
* * * * * * * *
4243414 CACA CACA CACA CACA CACA CATA CACA CACA TATA TACA TATA TATA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * *
4243462 CATA CATA CACA CACA CACA TACA CATA CATA CACA AACA TACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *
4243510 TACA TACA CACA CACA CATA TATA TACA CATA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *
4243558 CACA CACA TACA CACA TACA TACA TACA CACA TACA CACA TACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *
4243606 TACA CACA TACA GACA CACA TACA TACA TACA TACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * *
4243654 CACA CACA CACA CACA CACA CACA CACA TACA TACA TACA TACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * *
4243702 CACA CACA CACA CACA CACA CACA CACA TACA TACA TACA TACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * * * * * *
4243750 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TATA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * * * * *
4243798 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * * * * *
4243846 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA CATA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * *
4243894 TACA CACA TACA TACA TACA TACA TACA TACA CACA TACA CACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *
4243942 TACA CACA TACA CACA TACA TACA CACA TACA CACA TACA TACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * * *
4243990 TACA TACA CACA TACA CACA TACA TACA CATA TACA TACA TACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * *
4244038 TACA CACA TACA TACA CACA TACA TACA TACA TACA CACA TACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * *
4244086 CACA TACA TACA TACA TACA CACA TACA TACA TACA TACA CACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * *
4244134 TACA CACA TACA TACA CACA TACA CACA TACA TACA CACA TACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * *
4244182 CACA TACA CACA TACA TACA CACA TACA CACA CATA CATA CATA CATA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * * *
4244230 CATA CATA CACA CATA CACA CATA CATA CATA CATA CATA CATA CATA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * * * * * *
4244278 TATA CATA CATA CATA CATA CATA CATA CACA CACA CATA CATA TATA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * *
4244326 CATA CACA CATA CACA CACA CACA CACA CACA CACA TACA TACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * * * *
4244374 TACA CACA TACA TACA CACA TACA CACA TACA TACA CACA TACA TACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
* * * * * *
4244422 TACA TACA TACA TACA CACTA CATA CATA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CAC-A CACA CACA CACA CACA CACA CACA CACA
4244471 CACA CACA CACA CACA CACA CACA CACA C-CA CACA CACA CACA CAC-
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
4244517 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
4244565 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
4244613 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
4244661 CACA CACA CACA CACA CACA -ACA CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
4244708 CACA CACA CACA CACA CACA CACA -ACA CACA CACA -ACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
*
4244754 CACA CACA CACA -ACA CACA CACA GACA CACA CACA -ACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
*
4244800 GACA CACA CACA CACA -ACA CACA C-CA CACA CACA CACA CACA CA-A
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
4244845 CACA CACA CACA CACA CACA CA-A CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
4244892 CACA CACA CACA -ACA CACA CACA CACA CACA CACA -ACA CACA CA-A
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
4244937 CACA CACA CACA -ACA CACA CACA CACA CACA CACA CACA -ACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
*
4244983 CACA CA-A CACA CACA CAC- CACA CACA CACA CACA CACA CACA CCCA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
4245029 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
4245077 CACA CACA CACA CACA -ACA CACA C-CA CACA CACA CACA CACA CAC-
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
4245122 CACA CACA CACA CACA CACA C-CA CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
4245169 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
1 CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA CACA
*
4245217 CACA CACA CACA CATA CACA CACA CACA CA
1 CACA CACA CACA CACA CACA CACA CACA CA
4245247 TACATGTGTA
Statistics
Matches: 1676, Mismatches: 130, Indels: 46
0.90 0.07 0.02
Matches are distributed among these distances:
3 66 0.04
4 1607 0.96
5 3 0.00
ACGTcount: A:0.50, C:0.40, G:0.00, T:0.10
Consensus pattern (4 bp):
CACA
Found at i:4245273 original size:2 final size:2
Alignment explanation
Indices: 4245266--4245347 Score: 139
Period size: 2 Copynumber: 41.0 Consensus size: 2
4245256 ACATAAATGC
4245266 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4245308 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT ACT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
4245348 GCATATGTGC
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
1 1 0.01
2 74 0.97
3 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4245957 original size:54 final size:54
Alignment explanation
Indices: 4245869--4246432 Score: 684
Period size: 54 Copynumber: 10.4 Consensus size: 54
4245859 ACAAGTTCTT
* * *
4245869 TGGGGTGCACA-TGTAGTGCCGATACGGTCGTTCATAAATTTATTATGAATTTCA
1 TGGGTTGCACACT-TAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCG
** ** *
4245923 TGGGTTGCACACTTAGTGTTGATACGGTAATTCATAAACTTATTACGAATTTCG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCG
* * *
4245977 TGGGTTGCACACTTAGTGCTGATACGGTTGTTCATAAACTTATTATGAATTACG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCG
* * * *
4246031 TGGGTTGCACACTTAGTGCCGATACGATCATTTATAAACTTATTATGAATTCCG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCG
* * * * *
4246085 TGGGTTGTACACTTAGTGTCGATACAGTCGTTCATAAGCTTATTATGAATTCCG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCG
* * *
4246139 TGGGTTGCACACTTAGTGCCGATACGGCCGTTCATAAACTTATTATGAATTCCT
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCG
** *
4246193 TGGGTTGCACGGTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAA-TTCTG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTC-G
* * * * * *
4246247 TGGGTTGCACACTTAGTGTCAATACGGTCATTCGTAAAATTACTATGAATTTCG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCG
* * * *
4246301 TGGGTTGCGCACTTAGTGCCGATACGATCTTTCATAAACTTATTATGAATTTTG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCG
* * * ** * *
4246355 TGGG-TGTTACACTAAGTGCAGATACAATCATTCATAAACTTATTATGAAATTCG
1 TGGGTTG-CACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCG
*
4246409 TGGGTTGCACACTTAGTGTCGATA
1 TGGGTTGCACACTTAGTGCCGATA
4246433 ATACATATAG
Statistics
Matches: 439, Mismatches: 66, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
53 4 0.01
54 429 0.98
55 6 0.01
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.36
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCG
Found at i:4252535 original size:54 final size:54
Alignment explanation
Indices: 4252496--4252873 Score: 522
Period size: 54 Copynumber: 7.0 Consensus size: 54
4252486 ACGTAGTGTT
* *
4252496 GATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGGTGCACACTTAGTGCC
1 GATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCC
* * * * * * **
4252550 AATACGATCATTCATAAACTTATTAAGAATTTCATGGGTTGCACACTTAGTTTC
1 GATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCC
* * *
4252604 GATATGGTTGTTCATAAACTTATTATGCATTCCGTGGGTTGCACACTTAGTGCC
1 GATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCC
*
4252658 GATACGGTTGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCC
1 GATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCC
* * * * *
4252712 GATACGATCGTTCATAAATTTATTATGCATTCCATGGGTTGCATACTTAGTGCC
1 GATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCC
* * *
4252766 GATACGGTCATTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGCT
1 GATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCC
** * *
4252820 GATACAATCGTTCATAAACTTATTATGAATTCCATGGGTTGCATACTTAGTGCC
1 GATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCC
4252874 AATAGTACAC
Statistics
Matches: 282, Mismatches: 42, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 282 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (54 bp):
GATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCC
Found at i:4254178 original size:11 final size:11
Alignment explanation
Indices: 4254149--4254391 Score: 105
Period size: 11 Copynumber: 22.0 Consensus size: 11
4254139 GGGGTATTAC
4254149 AGTTTATATAT
1 AGTTTATATAT
***
4254160 ACAATATATAT
1 AGTTTATATAT
4254171 AGTTTATATAT
1 AGTTTATATAT
***
4254182 AAACTATATA-
1 AGTTTATATAT
*
4254192 A--TT-TAGAT
1 AGTTTATATAT
4254200 AGTGTT-TATAT
1 AGT-TTATATAT
4254211 AGTTATAAATTATAT
1 AGTT-T--A-TATAT
*
4254226 AGTTTTTATAT
1 AGTTTATATAT
4254237 A-TTTCATATAT
1 AGTTT-ATATAT
*
4254248 AGTTTAACCATAT
1 AGTTT-A-TATAT
4254261 AGTTTATATAT
1 AGTTTATATAT
*
4254272 A-TGCTATATAGT
1 AGT-TTATATA-T
4254284 A-TATTATATAT
1 AGT-TTATATAT
4254295 AGTTTATATAT
1 AGTTTATATAT
** *
4254306 AGTTCGTGTAT
1 AGTTTATATAT
*
4254317 AGTTTGTATAT
1 AGTTTATATAT
**
4254328 AAATTATAT-T
1 AGTTTATATAT
4254338 -GTTTATATATAT
1 AG-TT-TATATAT
**
4254350 AGTACATATAT
1 AGTTTATATAT
*
4254361 AGTTTATACAT
1 AGTTTATATAT
*
4254372 A--CTATATAT
1 AGTTTATATAT
4254381 AGTTTATATAT
1 AGTTTATATAT
4254392 TGTATAGAAA
Statistics
Matches: 173, Mismatches: 38, Indels: 42
0.68 0.15 0.17
Matches are distributed among these distances:
7 3 0.02
8 2 0.01
9 7 0.04
10 8 0.05
11 116 0.67
12 17 0.10
13 10 0.06
14 1 0.01
15 9 0.05
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (11 bp):
AGTTTATATAT
Found at i:4254227 original size:26 final size:26
Alignment explanation
Indices: 4254188--4254237 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
4254178 ATATAAACTA
*
4254188 TATAATTTAGATAGTGTTTATATAGT
1 TATAAATTAGATAGTGTTTATATAGT
* *
4254214 TATAAATTATATAGTTTTTATATA
1 TATAAATTAGATAGTGTTTATATA
4254238 TTTCATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (26 bp):
TATAAATTAGATAGTGTTTATATAGT
Found at i:4254350 original size:24 final size:23
Alignment explanation
Indices: 4254323--4254388 Score: 57
Period size: 24 Copynumber: 2.9 Consensus size: 23
4254313 GTATAGTTTG
* *
4254323 TATATAAATTATATTGTTTATATA
1 TATATAAA-TATATAGTTTATACA
*
4254347 TATAGTACATATATAGTTTATACA
1 TATA-TAAATATATAGTTTATACA
*
4254371 TA-CT--ATATATAGTTTATA
1 TATATAAATATATAGTTTATA
4254389 TATTGTATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 14 0.38
22 1 0.03
24 19 0.51
25 3 0.08
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (23 bp):
TATATAAATATATAGTTTATACA
Found at i:4254426 original size:2 final size:2
Alignment explanation
Indices: 4254419--4254492 Score: 73
Period size: 2 Copynumber: 37.0 Consensus size: 2
4254409 TACATAGTTC
*
4254419 TA TA TA TA CTA TA T- TT TA TA TA TA -A 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
* *
4254460 TA TA TA -A TC TA TA TA CTA TA TA GTT TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
4254493 GCTTATGTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
1 3 0.05
2 53 0.87
3 5 0.08
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4254440 original size:16 final size:16
Alignment explanation
Indices: 4254419--4254553 Score: 91
Period size: 16 Copynumber: 8.4 Consensus size: 16
4254409 TACATAGTTC
4254419 TATATATACTATATTT
1 TATATATACTATATTT
* *
4254435 TATATATAATATATATA
1 TATATATACTATAT-TT
**
4254452 TATATATA-TATATAA
1 TATATATACTATATTT
*
4254467 TCTATATACTATATAGTT
1 TATATATACTATAT--TT
*
4254485 TATATATAGCT-TATGT
1 TATATATA-CTATATTT
*
4254501 TAT-TAT-GTATATTT
1 TATATATACTATATTT
*
4254515 TATAATATA-TATAGTT
1 TAT-ATATACTATATTT
* *
4254531 TATACATATTATATTAT
1 TATATATACTATATT-T
4254548 TATATA
1 TATATA
4254554 GTTTGCATAT
Statistics
Matches: 94, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
13 1 0.01
14 7 0.07
15 15 0.16
16 44 0.47
17 15 0.16
18 10 0.11
19 2 0.02
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (16 bp):
TATATATACTATATTT
Found at i:4254556 original size:26 final size:27
Alignment explanation
Indices: 4254514--4254588 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 27
4254504 TATGTATATT
*
4254514 TTATAATA-TATATAGTTT-ATACATA
1 TTATATTATTATATAGTTTCATACATA
*
4254539 TTATATTATTATATAGTTTGCATATATA
1 TTATATTATTATATAGTTT-CATACATA
*
4254567 TTA-ATATATTATAATTGTTTCA
1 TTATAT-TATTAT-ATAGTTTCA
4254589 ATTTTCCCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
25 7 0.17
26 10 0.24
27 2 0.05
28 17 0.40
29 6 0.14
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.52
Consensus pattern (27 bp):
TTATATTATTATATAGTTTCATACATA
Found at i:4254569 original size:28 final size:26
Alignment explanation
Indices: 4254428--4254552 Score: 50
Period size: 25 Copynumber: 4.8 Consensus size: 26
4254418 CTATATATAC
* *
4254428 TATATTTTATATATAATATA-TA-TA
1 TATAGTTTATATATATTATATTATTA
* *
4254452 TATA-TATATATATAATCTATA-TACTA
1 TATAGTTTATATAT-AT-TATATTATTA
*
4254478 TATAGTTTATATATAGCTTATGTTATTA
1 TATAGTTTATATATA--TTATATTATTA
* *
4254506 TGTATATTTTATA-ATATATATAGT-TTA
1 --TATAGTTTATATATAT-TATATTATTA
*
4254533 TACA-TATTATAT-TATTATAT
1 TATAGT-TTATATATATTATAT
4254553 AGTTTGCATA
Statistics
Matches: 79, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
23 8 0.10
24 10 0.13
25 17 0.22
26 7 0.09
27 15 0.19
28 9 0.11
29 3 0.04
30 10 0.13
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (26 bp):
TATAGTTTATATATATTATATTATTA
Found at i:4258101 original size:18 final size:19
Alignment explanation
Indices: 4258075--4258112 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
4258065 AACTAAATCA
4258075 ACATGAAAACAAAAATAAT
1 ACATGAAAACAAAAATAAT
* *
4258094 ACAT-AAAAGATAAATAAT
1 ACATGAAAACAAAAATAAT
4258112 A
1 A
4258113 ATGTCTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.18
Consensus pattern (19 bp):
ACATGAAAACAAAAATAAT
Found at i:4258168 original size:45 final size:45
Alignment explanation
Indices: 4258127--4258215 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
4258117 CTACTATTTC
4258127 TTTAAAAAATTATATAATATATA-ATATATTTTCAAAAACTATATAT
1 TTTAAAAAATTATAT-ATAT-TACATATATTTTCAAAAACTATATAT
* * *
4258173 TTTCAAAAATTATATATATTACATATGTTTTCAAAAATTATAT
1 TTTAAAAAATTATATATATTACATATATTTTCAAAAACTATAT
4258216 GCATATGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 2 0.05
45 23 0.59
46 14 0.36
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (45 bp):
TTTAAAAAATTATATATATTACATATATTTTCAAAAACTATATAT
Found at i:4258186 original size:15 final size:17
Alignment explanation
Indices: 4258150--4258189 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
4258140 ATAATATATA
4258150 ATATATTTTCAAAAACT
1 ATATATTTTCAAAAACT
*
4258167 ATATATTTTCAAAAATT
1 ATATATTTTCAAAAACT
4258184 ATATAT
1 ATATAT
4258190 ATTACATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATTTTCAAAAACT
Found at i:4258247 original size:21 final size:21
Alignment explanation
Indices: 4258218--4258274 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
4258208 AATTATATGC
* *
4258218 ATATGTTTTCAAAACTGTATA
1 ATATATTTTAAAAACTGTATA
* *
4258239 ATATATTTTAAAAAATTGTATT
1 ATATATTTT-AAAAACTGTATA
4258261 ATATATTTTAAAAA
1 ATATATTTTAAAAA
4258275 ATTATATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (21 bp):
ATATATTTTAAAAACTGTATA
Found at i:4258258 original size:22 final size:22
Alignment explanation
Indices: 4258228--4258296 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
4258218 ATATGTTTTC
*
4258228 AAAACTGTATAATATATTTTAA
1 AAAATTGTATAATATATTTTAA
*
4258250 AAAATTGTATTATATATTTTAA
1 AAAATTGTATAATATATTTTAA
* * *
4258272 AAAATTATATAATATGTTTTTA
1 AAAATTGTATAATATATTTTAA
4258294 AAA
1 AAA
4258297 GTCATATATG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (22 bp):
AAAATTGTATAATATATTTTAA
Found at i:4258328 original size:41 final size:41
Alignment explanation
Indices: 4258260--4258356 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
4258250 AAAATTGTAT
* * * * * *
4258260 TATATATTTTAAAAAATTATATAATATGTTTTTAAAAGTCA
1 TATATATTTTCAAAAAGTATACAATATGCTTTCAAAAATCA
* * *
4258301 TATATGTTTTCAAAAAGTATACGATATGCTTTCAAAAATTA
1 TATATATTTTCAAAAAGTATACAATATGCTTTCAAAAATCA
4258342 TATATTATTTTCAAA
1 TATA-TATTTTCAAA
4258357 CAAAATTATA
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 36 0.80
42 9 0.20
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (41 bp):
TATATATTTTCAAAAAGTATACAATATGCTTTCAAAAATCA
Found at i:4258333 original size:22 final size:22
Alignment explanation
Indices: 4258302--4258343 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4258292 TAAAAGTCAT
*
4258302 ATATGTTTTCAAAAAGTATACG
1 ATATGCTTTCAAAAAGTATACG
*
4258324 ATATGCTTTCAAAAATTATA
1 ATATGCTTTCAAAAAGTATA
4258344 TATTATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (22 bp):
ATATGCTTTCAAAAAGTATACG
Found at i:4258378 original size:28 final size:28
Alignment explanation
Indices: 4258338--4258406 Score: 129
Period size: 28 Copynumber: 2.5 Consensus size: 28
4258328 GCTTTCAAAA
*
4258338 ATTATATATTATTTTCAAACAAAATTAT
1 ATTATATATTATTTTCAAACAAAACTAT
4258366 ATTATATATTATTTTCAAACAAAACTAT
1 ATTATATATTATTTTCAAACAAAACTAT
4258394 ATTATATATTATT
1 ATTATATATTATT
4258407 CTATATACTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTATATATTATTTTCAAACAAAACTAT
Found at i:4261113 original size:72 final size:72
Alignment explanation
Indices: 4261037--4261217 Score: 190
Period size: 72 Copynumber: 2.5 Consensus size: 72
4261027 TTCTTCATGA
** * **
4261037 TTTAAGTCAGTCACGATTCTTTAGATGACTCCCCTTCACGGGAGATTC-AAGT-GAGACAACTCC
1 TTTAAGTCAGTCTTGATTCTTTGGATGACTCCCCTTCACGGGA-AAGCGAAGTGGA-ACAACTCC
*
4261100 CCTTTGCAG
64 CCTTCGCAG
* * * * *
4261109 TTTAAGTC-GATCTTGAATCTTTGGAAGACTCCCCTTCATGGGAAAGCGAGGTGGAACGACTCCC
1 TTTAAGTCAG-TCTTGATTCTTTGGATGACTCCCCTTCACGGGAAAGCGAAGTGGAACAACTCCC
*
4261173 CTTCGCGG
65 CTTCGCAG
*
4261181 TTTAAGTCAATCTTGATTCTTTGGATGAC-CCCCTTCA
1 TTTAAGTCAGTCTTGATTCTTTGGATGACTCCCCTTCA
4261218 TAAAAAAGCC
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
71 11 0.12
72 77 0.86
73 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (72 bp):
TTTAAGTCAGTCTTGATTCTTTGGATGACTCCCCTTCACGGGAAAGCGAAGTGGAACAACTCCCC
TTCGCAG
Found at i:4266920 original size:183 final size:183
Alignment explanation
Indices: 4266623--4266993 Score: 584
Period size: 183 Copynumber: 2.0 Consensus size: 183
4266613 TAAATATTAA
* * *
4266623 ATATATAACATATGGGCTCAGCCCAAACTATTTAAAACCCAATTAACAATTTAAGATCCAATAAC
1 ATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAACAATTTAAGATCAAATAAC
*
4266688 TTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTACATAAAATTTTTATTTTATAATTGTA
66 TTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTACATAAAATTTTTATTTTATAATTATA
* * * *
4266753 TATTATTTCAATTAATTGTAAACTTTTTTTT-AGTTAAAAATATTAAATATATT
131 TATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAAAACATTAAAT-TATT
* *
4266806 ATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCTAATTAATAATTTAAGATCAAATAAC
1 ATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAACAATTTAAGATCAAATAAC
* *
4266871 TTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATC-TGAAATTTTTATTTTATAATTAT
66 TTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTA-CATAAAATTTTTATTTTATAATTAT
* *
4266935 ATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAAAACATTTAATTTTT
130 ATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAAAACATTAAATTATT
4266989 ATATA
1 ATATA
4266994 AATTAGAAAA
Statistics
Matches: 172, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
183 157 0.91
184 15 0.09
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (183 bp):
ATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAACAATTTAAGATCAAATAAC
TTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTACATAAAATTTTTATTTTATAATTATA
TATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAAAACATTAAATTATT
Found at i:4267875 original size:37 final size:36
Alignment explanation
Indices: 4267812--4267895 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 36
4267802 TGGCAACCAA
4267812 CTTTGAAAAATGGTTTTCAAAGTTTGGCAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGCAAATGTTT
* * *
4267848 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGCAAATGTTT
*
4267885 -GTTGAAAAATG
1 CTTTGAAAAATG
4267896 ATAATGGGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
35 1 0.02
36 20 0.47
37 22 0.51
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGCAAATGTTT
Found at i:4270722 original size:37 final size:38
Alignment explanation
Indices: 4270667--4270750 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 38
4270657 TGGCAACCAA
4270667 CTTTGAAAAA-ATGGTTTTCAAAGTTAGGTAAATGTTT
1 CTTTGAAAAATATGGTTTTCAAAGTTAGGTAAATGTTT
* * *
4270704 CTTTGAAAAATA-GTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATATGGTTTTCAAAGTTAGGTAAATGTTT
*
4270741 -GTTGAAAAAT
1 CTTTGAAAAAT
4270751 GATAATGGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 9 0.21
37 32 0.76
38 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.42
Consensus pattern (38 bp):
CTTTGAAAAATATGGTTTTCAAAGTTAGGTAAATGTTT
Found at i:4272329 original size:24 final size:23
Alignment explanation
Indices: 4272302--4272355 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
4272292 TTTTAAGAAG
* *
4272302 TGAAAATAGATTATCAATAAAAAA
1 TGAAAATAAAATAT-AATAAAAAA
*
4272326 TGAATATTAAAATATAATAAAAAA
1 TGAA-AATAAAATATAATAAAAAA
*
4272350 TTAAAA
1 TGAAAA
4272356 ATTTTAAACG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.04
24 16 0.67
25 7 0.29
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (23 bp):
TGAAAATAAAATATAATAAAAAA
Found at i:4278312 original size:18 final size:18
Alignment explanation
Indices: 4278286--4278323 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
4278276 TATTTATCAC
*
4278286 ATTTATATTTTTTTTGAA
1 ATTTATATTTTTTTTAAA
*
4278304 ATTTTTATTTTTTTTAAA
1 ATTTATATTTTTTTTAAA
4278322 AT
1 AT
4278324 AAAAATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTATATTTTTTTTAAA
Found at i:4278350 original size:23 final size:23
Alignment explanation
Indices: 4278323--4278369 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
4278313 TTTTTTAAAA
4278323 TAAAAAT-ATTATTATTATTATT
1 TAAAAATCATTATTATTATTATT
* *
4278345 TAAAAATCATTTTTATTTTTATT
1 TAAAAATCATTATTATTATTATT
4278368 TA
1 TA
4278370 CCTCCTCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TAAAAATCATTATTATTATTATT
Found at i:4279776 original size:62 final size:62
Alignment explanation
Indices: 4279679--4279803 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
4279669 TCCTTACACC
4279679 ACAACTTGTTCCTTTCCTTTGCCTACGTGTGAAACAATCACACGCTAAGTAAAAACTTAGCG
1 ACAACTTGTTCCTTTCCTTTGCCTACGTGTGAAACAATCACACGCTAAGTAAAAACTTAGCG
4279741 ACAACTTGTTCCTTTCCTTTGCCTACGTGTGAAACAATCACACGCTAAGTAAAAACTTAGCG
1 ACAACTTGTTCCTTTCCTTTGCCTACGTGTGAAACAATCACACGCTAAGTAAAAACTTAGCG
4279803 A
1 A
4279804 GACATATATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (62 bp):
ACAACTTGTTCCTTTCCTTTGCCTACGTGTGAAACAATCACACGCTAAGTAAAAACTTAGCG
Found at i:4281611 original size:35 final size:35
Alignment explanation
Indices: 4281565--4281642 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
4281555 CAAATCCAAT
4281565 CCAAAATCAAACTTTCCTACAAACCCTAGTCTTAG
1 CCAAAATCAAACTTTCCTACAAACCCTAGTCTTAG
*
4281600 CCAAAATCAAACTTTCCTACAAACCCTAGTTTTAG
1 CCAAAATCAAACTTTCCTACAAACCCTAGTCTTAG
4281635 CCAAAATC
1 CCAAAATC
4281643 TTATTAATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.38, C:0.31, G:0.05, T:0.26
Consensus pattern (35 bp):
CCAAAATCAAACTTTCCTACAAACCCTAGTCTTAG
Found at i:4285639 original size:82 final size:82
Alignment explanation
Indices: 4285511--4285785 Score: 286
Period size: 82 Copynumber: 3.4 Consensus size: 82
4285501 ATAGTAGCAA
* * * * * * *
4285511 CATGCAATAATTCACCATTCGACTT-AATTTGATCACGGTAGAATGCAATAATTCACAATTCGAT
1 CATGCAATAATTCACAATTC-AATTCAATTCGATCATGGCAGTATGCAATAATTCACAATTCAAT
4285575 TCAATTCAATCATGGTAG
65 TCAATTCAATCATGGTAG
* * *
4285593 CATGCAATAATTCACCATTCAATTCAATTCAATCATGGCGGTATGCAATAATTCACAATTCAACT
1 CATGCAATAATTCACAATTCAATTCAATTCGATCATGGCAGTATGCAATAATTCACAATTCAA-T
* *
4285658 T-AATTCGATCATGGCAG
65 TCAATTCAATCATGGTAG
* * * * * **
4285675 CATGCAATAATCCATAATTCAATTCAATTCGATCATGGCAATATGCATTTATTCACAAACCAATT
1 CATGCAATAATTCACAATTCAATTCAATTCGATCATGGCAGTATGCAATAATTCACAATTCAATT
*
4285740 CAATT-ATATCATGGTAA
66 CAATTCA-ATCATGGTAG
* * * *
4285757 CATGTATTAATTCATAATCCAATTCAATT
1 CATGCAATAATTCACAATTCAATTCAATT
4285786 TAAATCAAGG
Statistics
Matches: 162, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
81 5 0.03
82 155 0.96
83 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.33
Consensus pattern (82 bp):
CATGCAATAATTCACAATTCAATTCAATTCGATCATGGCAGTATGCAATAATTCACAATTCAATT
CAATTCAATCATGGTAG
Found at i:4285721 original size:123 final size:123
Alignment explanation
Indices: 4285512--4285753 Score: 306
Period size: 123 Copynumber: 2.0 Consensus size: 123
4285502 TAGTAGCAAC
* * * * * *
4285512 ATGCAATAATTCACCATTCGACTTAATTTGATCACGGTAGAATGCAATAATTCACAATTCGATTC
1 ATGCAATAATTCACAATTCAACTTAATTCGATCACGGCAGAATGCAATAATCCACAATTCAATTC
* * * **
4285577 AATTCAATCATGGTAGCATGCAATAATTCACCATTCAATTCAATTCA-ATCATGGCGGT
66 AATTCAATCATGGCAACATGCAATAATTCACAAACCAATTCAATT-ATATCATGGCGGT
* * *
4285635 ATGCAATAATTCACAATTCAACTTAATTCGATCATGGCAGCATGCAATAATCCATAATTCAATTC
1 ATGCAATAATTCACAATTCAACTTAATTCGATCACGGCAGAATGCAATAATCCACAATTCAATTC
* * * *
4285700 AATTCGATCATGGCAATATGCATTTATTCACAAACCAATTCAATTATATCATGG
66 AATTCAATCATGGCAACATGCAATAATTCACAAACCAATTCAATTATATCATGG
4285754 TAACATGTAT
Statistics
Matches: 100, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
122 1 0.01
123 99 0.99
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (123 bp):
ATGCAATAATTCACAATTCAACTTAATTCGATCACGGCAGAATGCAATAATCCACAATTCAATTC
AATTCAATCATGGCAACATGCAATAATTCACAAACCAATTCAATTATATCATGGCGGT
Found at i:4285739 original size:41 final size:41
Alignment explanation
Indices: 4285454--4285808 Score: 232
Period size: 41 Copynumber: 8.6 Consensus size: 41
4285444 AATTCAATCG
* * * * ***
4285454 AATTCGATCTTGGCTACATACACTAATTCACAATTTGATTC
1 AATTCGATCATGGCAACATGCAATAATTCACAATCCAATTC
* * * * * *
4285495 AGTTCTAT-AGTAGCAACATGCAATAATTCACCATTCGACTT-
1 AATTCGATCA-TGGCAACATGCAATAATTCA-CAATCCAATTC
* * * * *
4285536 AATTTGATCACGGTAGA-ATGCAATAATTCACAATTCGATTC
1 AATTCGATCATGGCA-ACATGCAATAATTCACAATCCAATTC
* * * * *
4285577 AATTCAATCATGGTAGCATGCAATAATTCACCATTCAATTC
1 AATTCGATCATGGCAACATGCAATAATTCACAATCCAATTC
* *** *
4285618 AATTCAATCATGGCGGTATGCAATAATTCACAATTCAACTT-
1 AATTCGATCATGGCAACATGCAATAATTCACAATCCAA-TTC
* * * *
4285659 AATTCGATCATGGCAGCATGCAATAATCCATAATTCAATTC
1 AATTCGATCATGGCAACATGCAATAATTCACAATCCAATTC
* * * *
4285700 AATTCGATCATGGCAATATGCATTTATTCACAAACCAATTC
1 AATTCGATCATGGCAACATGCAATAATTCACAATCCAATTC
** * * * *
4285741 AATTATATCATGGTAACATGTATTAATTCATAATCCAATTC
1 AATTCGATCATGGCAACATGCAATAATTCACAATCCAATTC
** *
4285782 AATTTAAATCAAGGCAACATGCAATAA
1 AA-TTCGATCATGGCAACATGCAATAA
4285809 CTAATTTTAC
Statistics
Matches: 246, Mismatches: 59, Indels: 17
0.76 0.18 0.05
Matches are distributed among these distances:
40 7 0.03
41 211 0.86
42 28 0.11
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (41 bp):
AATTCGATCATGGCAACATGCAATAATTCACAATCCAATTC
Found at i:4293005 original size:93 final size:93
Alignment explanation
Indices: 4292846--4293018 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
4292836 ATACCGACGA
* * * *
4292846 GGTAGTATCGATACCATGGTAAGGGTATCGATTCCAAGCAACATCGAATCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGAACCTAAAATTGATATCGA
*
4292911 TACCGGAAGGGGGTATCAATAATAGTAT
66 TACCAGAAGGGGGTATCAATAATAGTAT
* * *
4292939 GGTAGTATCGATACCATGATAAGGGTATCGATACTAGGCAACTTCGAACCTAAAATTGATATCGA
1 GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGAACCTAAAATTGATATCGA
*
4293004 TACCATAAGGGGGTA
66 TACCAGAAGGGGGTA
4293019 ACGATAACAT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (93 bp):
GGTAGTATCGATACCATGATAAGGGTATCGATACCAAGCAACATCGAACCTAAAATTGATATCGA
TACCAGAAGGGGGTATCAATAATAGTAT
Found at i:4293427 original size:59 final size:59
Alignment explanation
Indices: 4293359--4293518 Score: 176
Period size: 59 Copynumber: 2.7 Consensus size: 59
4293349 ATGGCACTCA
* *
4293359 GTGTGCTAAAATGTTAACAAATTCATACTTAGTGTATGAATTACCGTATAGGGCACTTT
1 GTGTGCTAAAATGTTAACAAATTCATACTAAGTGTATGAATTACCGTATAGGGCACCTT
* * ** *** *
4293418 GTGTACTAAATTGTTAGGAAATTCATACTAAGTGTATGAATTTTTGTATTGGGCACCTT
1 GTGTGCTAAAATGTTAACAAATTCATACTAAGTGTATGAATTACCGTATAGGGCACCTT
** * * * *
4293477 GTGTGCTAAAATCATAAGAGATTCATACTAAATGTATAAATT
1 GTGTGCTAAAATGTTAACAAATTCATACTAAGTGTATGAATT
4293519 TCCATATGAG
Statistics
Matches: 83, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
59 83 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (59 bp):
GTGTGCTAAAATGTTAACAAATTCATACTAAGTGTATGAATTACCGTATAGGGCACCTT
Found at i:4294051 original size:136 final size:136
Alignment explanation
Indices: 4293807--4294691 Score: 993
Period size: 136 Copynumber: 6.4 Consensus size: 136
4293797 AAGATTATTT
*
4293807 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
* * * * **
4293872 GAGGCCTAACTGTGTATATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGAGAT
66 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCC
4293937 TTTGAG
131 TTTGAG
4293943 GCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
* *
4294008 GAGGCCTAACTGTGCATTTGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCC
66 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCC
4294073 TTTGAG
131 TTTGAG
* * * * * *
4294079 GCCTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACA-GTTAAGTACCGT
1 GCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAA-AGGCTAAGTGCC-T
* * * *
4294143 TGAGTAAAAGAATAATGGCCTAATTGTGCATATGATAGAAATGTTTCATTTATGCCAGTTAGATG
64 T---T----G----A-GGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATG
4294208 AAAGGCTAAGTGCCTTTGAG
117 AAAGGCTAAGTGCCTTTGAG
* * *
4294228 GCCTAA-TAGTGCATATGACAGAAAGGTGTCATTTATACCAGTTAGATGAAAGGCTAA-TCGCTT
1 GCCTAACT-GTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT-GCCT
* *
4294291 TTGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCCAAGTG
64 TTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTG
4294356 CCTTTGA-
129 CCTTTGAG
* * * * * * *
4294363 G------TGTGCATTTGATAGAAAGGTTTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGTT
1 GCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCC---
* * *
4294422 GAGTAAAATAATAATGGCCTAACTGTGCATATGACAGAAAGGTATCATTTATGCTAGTTAGATGA
63 ---T----T--TGA-GGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGA
*
4294487 AAGGCTAAATGCCTTTGAG
118 AAGGCTAAGTGCCTTTGAG
* * *
4294506 GCCTAACGGTGTATATGACAA-AAAGGTGT-ATTTTATGCCAGTTAGATGAAAGGCTAAGTGCTT
1 GCCTAACTGTGCATATGA-AAGAAAGGTGTCA-TTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
* ** *
4294569 TTGAGGTCTAACTGTGCATATGACAGAAAGGTGTCATTTATGTTAGTTATATGAAAGGCTAAGTG
64 TTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTG
4294634 CCTTTGAG
129 CCTTTGAG
* * * *
4294642 GCCTAACTGTGCATTTGAAAGAAATGTGTCAGTTATGCCGGTTAGATGAA
1 GCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAA
4294692 CGATTAAGTA
Statistics
Matches: 641, Mismatches: 66, Indels: 84
0.81 0.08 0.11
Matches are distributed among these distances:
129 43 0.07
130 2 0.00
135 4 0.01
136 348 0.54
137 7 0.01
139 2 0.00
140 1 0.00
141 3 0.00
142 63 0.10
143 2 0.00
144 1 0.00
145 1 0.00
148 7 0.01
149 156 0.24
150 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (136 bp):
GCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCC
TTTGAG
Found at i:4294146 original size:68 final size:68
Alignment explanation
Indices: 4293807--4294128 Score: 536
Period size: 68 Copynumber: 4.7 Consensus size: 68
4293797 AAGATTATTT
4293807 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
4293872 GAG
66 GAG
* * * * **
4293875 GCCTAACTGTGTATATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGAGATTTT
1 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
4293940 GAG
66 GAG
*
4293943 GCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
4294008 GAG
66 GAG
* *
4294011 GCCTAACTGTGCATTTGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
4294076 GAG
66 GAG
* * *
4294079 GCCTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
4294129 CAGTTAAGTA
Statistics
Matches: 236, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 236 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (68 bp):
GCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:4294218 original size:81 final size:81
Alignment explanation
Indices: 4294078--4294227 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 81
4294068 GTGCCTTTGA
* *
4294078 GGCCTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAGTACCGT
1 GGCCTAATTGTGCATATGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGCTAAGTACCGT
4294143 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * *
4294159 GGCCTAATTGTGCATATGATAGAAATGTTTCATTTATGCCAGTTAGATGAA-AGGCTAAGTGCCT
1 GGCCTAATTGTGCATATGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACA-GCTAAGTACCG
4294223 TTGAG
65 TTGAG
4294228 GCCTAATAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.02
81 59 0.98
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.31
Consensus pattern (81 bp):
GGCCTAATTGTGCATATGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGCTAAGTACCGT
TGAGTAAAAGAATAAT
Found at i:4294244 original size:68 final size:67
Alignment explanation
Indices: 4294159--4294424 Score: 330
Period size: 68 Copynumber: 4.0 Consensus size: 67
4294149 AAAGAATAAT
* *
4294159 GGCCTAATTGTGCATATGATAGAAATGTTTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAA-TGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4294224 TGA
65 TGA
* * *
4294227 GGCCTAATAGTGCATATGACAGAAAGGTGTCATTTATACCAGTTAGATGAAAGGCTAA-TCGCTT
1 GGCCTAAT-GTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT-GCCT
4294291 TTGA
64 TTGA
*
4294295 GGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCCAAGTGCCTT
1 GGCCTAA-TGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4294360 TGA
65 TGA
* * * * * * *
4294363 -G-----TGTGCATTTGATAGAAAGGTTTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGTT
1 GGCCTAATGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
4294422 GA
66 GA
4294424 G
1 G
4294425 TAAAATAATA
Statistics
Matches: 176, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
61 52 0.30
67 3 0.02
68 119 0.68
69 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (67 bp):
GGCCTAATGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GA
Found at i:4294321 original size:217 final size:217
Alignment explanation
Indices: 4293942--4294345 Score: 668
Period size: 217 Copynumber: 1.9 Consensus size: 217
4293932 GAGATTTTGA
4293942 GGCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * *
4294007 TGAGGCCTAACTGTGCATTTGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATACCAGTTAGATGAAAGGCTAAGTGC
* *
4294072 CTTTGAGGCCTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAG
131 CTTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAG
4294137 TACCGTTGAGTAAAAGAATAAT
196 TACCGTTGAGTAAAAGAATAAT
* * * *
4294159 GGCCTAATTGTGCATATGATAGAAATGTTTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4294224 TGAGGCCTAA-TAGTGCATATGACAGAAAGGTGTCATTTATACCAGTTAGATGAAAGGCTAA-TC
66 TGAGGCCTAACT-GTGCATATGACAGAAAGGTGTCATTTATACCAGTTAGATGAAAGGCTAAGT-
* * *
4294287 GCTTTTGAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAA
129 GCCTTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
4294346 AGGCCAAGTG
Statistics
Matches: 173, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
216 2 0.01
217 171 0.99
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (217 bp):
GGCCTAACTGTGCATATGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATACCAGTTAGATGAAAGGCTAAGTGC
CTTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAG
TACCGTTGAGTAAAAGAATAAT
Found at i:4294424 original size:61 final size:61
Alignment explanation
Indices: 4294303--4294425 Score: 174
Period size: 61 Copynumber: 2.0 Consensus size: 61
4294293 GAGGCCTAAC
* * *
4294303 TGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCCAAGTGCCTTTGAG
1 TGTGCATATGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCCAAGTACCGTTGAG
* * * **
4294364 TGTGCATTTGATAGAAAGGTTTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGTTGAG
1 TGTGCATATGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCCAAGTACCGTTGAG
4294425 T
1 T
4294426 AAAATAATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (61 bp):
TGTGCATATGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCCAAGTACCGTTGAG
Found at i:4294549 original size:68 final size:68
Alignment explanation
Indices: 4294437--4294691 Score: 334
Period size: 68 Copynumber: 3.8 Consensus size: 68
4294427 AAATAATAAT
* * * *
4294437 GGCCTAACTGTGCATATGACAGAAAGGTATCATTTATGCTAGTTAGATGAAAGGCTAAATGCCTT
1 GGCCTAACTGTGCATATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4294502 TGA
66 TGA
* * *
4294505 GGCCTAACGGTGTATATGACAAAAAGGTGT-ATTTTATGCCAGTTAGATGAAAGGCTAAGTGCTT
1 GGCCTAACTGTGCATATGACAAAAAGGTGTCA-TTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4294569 TTGA
65 TTGA
* * ** *
4294573 GGTCTAACTGTGCATATGACAGAAAGGTGTCATTTATGTTAGTTATATGAAAGGCTAAGTGCCTT
1 GGCCTAACTGTGCATATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
4294638 TGA
66 TGA
* * * *
4294641 GGCCTAACTGTGCATTTGA-AAGAAATGTGTCAGTTATGCCGGTTAGATGAA
1 GGCCTAACTGTGCATATGACAA-AAAGGTGTCATTTATGCCAGTTAGATGAA
4294692 CGATTAAGTA
Statistics
Matches: 160, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
67 2 0.01
68 157 0.98
69 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (68 bp):
GGCCTAACTGTGCATATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:4294810 original size:29 final size:30
Alignment explanation
Indices: 4294776--4294838 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
4294766 AGATGAACGG
*
4294776 TTAAACACTGTTGAGTAAAA-CATGAATG-A
1 TTAAACACTGTTGAATAAAAGCAT-AATGTA
*
4294805 TTAAACATTGTTGAATAAAAGCATAATGTA
1 TTAAACACTGTTGAATAAAAGCATAATGTA
4294835 TTAA
1 TTAA
4294839 CTGTACATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (30 bp):
TTAAACACTGTTGAATAAAAGCATAATGTA
Found at i:4302574 original size:27 final size:27
Alignment explanation
Indices: 4302527--4302593 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
4302517 ATACATATAT
4302527 AATATATAG-TTTTTAAATGTTTCAAA
1 AATATATAGTTTTTTAAATGTTTCAAA
4302553 AATATATAGTTTTTTAAATGTTTCAAA
1 AATATATAGTTTTTTAAATGTTTCAAA
4302580 AATATATAGTTTTT
1 AATATATAGTTTTT
4302594 GAAAATATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 9 0.22
27 31 0.77
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (27 bp):
AATATATAGTTTTTTAAATGTTTCAAA
Found at i:4302647 original size:26 final size:26
Alignment explanation
Indices: 4302601--4302663 Score: 108
Period size: 26 Copynumber: 2.3 Consensus size: 26
4302591 TTTGAAAATA
4302601 TTTTGAAAATATATATATAATATATAGT
1 TTTTG-AAA-ATATATATAATATATAGT
4302629 TTTTGAAAATATATATAATATATAGT
1 TTTTGAAAATATATATAATATATAGT
4302655 TTTTGAAAA
1 TTTTGAAAA
4302664 CATTTTTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 27 0.77
27 3 0.09
28 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (26 bp):
TTTTGAAAATATATATAATATATAGT
Found at i:4302649 original size:37 final size:37
Alignment explanation
Indices: 4302580--4302951 Score: 437
Period size: 37 Copynumber: 10.2 Consensus size: 37
4302570 ATGTTTCAAA
4302580 AATATATAGTTTTTGAAAATATTTTGAAAATATATATAT
1 AATATATAGTTTTTGAAAATATTTTG--AATATATATAT
4302619 AATATATAGTTTTTG-----A-----AA-ATATATAT
1 AATATATAGTTTTTGAAAATATTTTGAATATATATAT
*
4302645 AATATATAGTTTTTGAAAACATTTTTG-A-ATATATAT
1 AATATATAGTTTTTGAAAATA-TTTTGAATATATATAT
*
4302681 AATATATAGTTTTTGAAAACATTTTGAATATATATGTAT
1 AATATATAGTTTTTGAAAATATTTTGAATATATA--TAT
*
4302720 AATATATAGTTTTTGAAAATATTTTGAAAATATATAT
1 AATATATAGTTTTTGAAAATATTTTGAATATATATAT
* * *
4302757 AATATATCGTTTTTGAAAATATTTTGAAAGCATGTATAT
1 AATATATAGTTTTTGAAAATATTTTG-AA-TATATATAT
4302796 AATATATAGTTTTTGAAAATATTTTGAAAATATATATAT
1 AATATATAGTTTTTGAAAATATTTTG--AATATATATAT
* *
4302835 AATATATAGTTTTTGAAAATATTTTGAAAATATTTAT
1 AATATATAGTTTTTGAAAATATTTTGAATATATATAT
* * *
4302872 AATATATAGTTTTCGAAAACATTTTGAAAATATATAT
1 AATATATAGTTTTTGAAAATATTTTGAATATATATAT
* * *
4302909 AATATATAGTTTTTGAAAACATTTTGAAAATATGTAT
1 AATATATAGTTTTTGAAAATATTTTGAATATATATAT
*
4302946 TATATA
1 AATATA
4302952 AAATATTTAT
Statistics
Matches: 299, Mismatches: 16, Indels: 38
0.85 0.05 0.11
Matches are distributed among these distances:
26 23 0.08
27 2 0.01
31 1 0.00
34 1 0.00
35 5 0.02
36 31 0.10
37 116 0.39
38 2 0.01
39 115 0.38
40 3 0.01
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (37 bp):
AATATATAGTTTTTGAAAATATTTTGAATATATATAT
Found at i:4302698 original size:62 final size:63
Alignment explanation
Indices: 4302580--4302699 Score: 190
Period size: 62 Copynumber: 1.9 Consensus size: 63
4302570 ATGTTTCAAA
*
4302580 AATATATAGTTTTTGAAAATATTTTGAAAATATATATATAATATATAGTTTTTGAAAATATATAT
1 AATATATAGTTTTTGAAAACATTTTG--AATATATATATAATATATAGTTTTTGAAAATATATAT
4302645 AATATATAGTTTTTGAAAACATTTTTG-A-ATATATATAATATATAGTTTTTGAAAA
1 AATATATAGTTTTTGAAAACA-TTTTGAATATATATATAATATATAGTTTTTGAAAA
4302700 CATTTTGAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
62 27 0.51
63 1 0.02
65 20 0.38
66 5 0.09
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.46
Consensus pattern (63 bp):
AATATATAGTTTTTGAAAACATTTTGAATATATATATAATATATAGTTTTTGAAAATATATAT
Found at i:4302732 original size:39 final size:37
Alignment explanation
Indices: 4302629--4302951 Score: 470
Period size: 37 Copynumber: 8.6 Consensus size: 37
4302619 AATATATAGT
4302629 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
4302666 TTTTTG--AATATATATAATATATAGTTTTTGAAAACA
1 -TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
* *
4302702 TTTTGAATATATATGTATAATATATAGTTTTTGAAAATA
1 TTTTGAA-A-ATATATATAATATATAGTTTTTGAAAACA
* *
4302741 TTTTGAAAATATATATAATATATCGTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
* *
4302778 TTTTGAAAGCATGTATATAATATATAGTTTTTGAAAATA
1 TTTTGAAA--ATATATATAATATATAGTTTTTGAAAACA
*
4302817 TTTTGAAAATATATATATAATATATAGTTTTTGAAAATA
1 TTTTG-AAA-ATATATATAATATATAGTTTTTGAAAACA
* *
4302856 TTTTGAAAATATTTATAATATATAGTTTTCGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
4302893 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
* *
4302930 TTTTGAAAATATGTATTATATA
1 TTTTGAAAATATATATAATATA
4302952 AAATATTTAT
Statistics
Matches: 263, Mismatches: 15, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
35 5 0.02
36 30 0.11
37 116 0.44
38 10 0.04
39 99 0.38
40 3 0.01
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:4302775 original size:76 final size:74
Alignment explanation
Indices: 4302629--4302951 Score: 470
Period size: 76 Copynumber: 4.3 Consensus size: 74
4302619 AATATATAGT
4302629 TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTTG--AATATATATAATATATAGTT
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA-TTTTGAAAATATATATAATATATAGTT
4302692 TTTGAAAACA
65 TTTGAAAACA
* * *
4302702 TTTTGAATATATATGTATAATATATAGTTTTTGAAAATATTTTGAAAATATATATAATATATCGT
1 TTTTGAA-A-ATATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGT
*
4302767 TTTTGAAAATA
64 TTTTGAAAACA
* *
4302778 TTTTGAAAGCATGTATATAATATATAGTTTTTGAAAATATTTTGAAAATATATATATAATATATA
1 TTTTGAAA--ATATATATAATATATAGTTTTTGAAAACATTTTG-AAA-ATATATATAATATATA
*
4302843 GTTTTTGAAAATA
62 GTTTTTGAAAACA
* *
4302856 TTTTGAAAATATTTATAATATATAGTTTTCGAAAACATTTTGAAAATATATATAATATATAGTTT
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTT
4302921 TTGAAAACA
66 TTGAAAACA
* *
4302930 TTTTGAAAATATGTATTATATA
1 TTTTGAAAATATATATAATATA
4302952 AAATATTTAT
Statistics
Matches: 228, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
73 7 0.03
74 54 0.24
75 31 0.14
76 97 0.43
77 3 0.01
78 36 0.16
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (74 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTT
TTGAAAACA
Found at i:4302992 original size:15 final size:15
Alignment explanation
Indices: 4302972--4303010 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
4302962 GTATTATATT
4302972 TTATTATTTATTATC
1 TTATTATTTATTATC
*
4302987 TTATTATTTATTTTC
1 TTATTATTTATTATC
*
4303002 TTTTTATTT
1 TTATTATTT
4303011 TGTTCCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTATTTATTATC
Found at i:4303762 original size:22 final size:23
Alignment explanation
Indices: 4303721--4303765 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
4303711 ACATTTGCTA
* *
4303721 TTTATTTATTTTTTTCATTATTT
1 TTTATTTATTGTTTTAATTATTT
4303744 TTTATTT-TTGTTTTAATTATTT
1 TTTATTTATTGTTTTAATTATTT
4303766 AATTTTTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTATTTATTGTTTTAATTATTT
Found at i:4303766 original size:19 final size:19
Alignment explanation
Indices: 4303722--4303774 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
4303712 CATTTGCTAT
4303722 TTATTTATTTTT-TTCATTA
1 TTATTTATTTTTGTT-ATTA
*
4303741 TTTTTTATTTTTGTT-TTAA
1 TTATTTATTTTTGTTATT-A
4303760 TTATTTAATTTTTGT
1 TTATTT-ATTTTTGT
4303775 CTTTGTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 2 0.07
19 17 0.59
20 10 0.34
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (19 bp):
TTATTTATTTTTGTTATTA
Found at i:4306431 original size:13 final size:13
Alignment explanation
Indices: 4306413--4306441 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4306403 ACATATAAGA
4306413 TAATCAACATGGG
1 TAATCAACATGGG
4306426 TAATCAACATGGG
1 TAATCAACATGGG
4306439 TAA
1 TAA
4306442 ACAAGCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (13 bp):
TAATCAACATGGG
Found at i:4308114 original size:22 final size:21
Alignment explanation
Indices: 4308075--4308122 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
4308065 ACATGTCAAG
* *
4308075 AAATAGAAATTAACATAATGGA
1 AAATAGAAATAAACATAA-GAA
*
4308097 AAATAGAAATAAATATAAGAA
1 AAATAGAAATAAACATAAGAA
4308118 AAATA
1 AAATA
4308123 AATCACACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (21 bp):
AAATAGAAATAAACATAAGAA
Found at i:4308261 original size:28 final size:29
Alignment explanation
Indices: 4308215--4308270 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
4308205 ATGTATAAAC
*
4308215 AAAGACAAAAATTAAATAATTAAAAAATG
1 AAAGACAAAAATTAAATAAATAAAAAATG
*
4308244 AAAGA-AAAAA-TAATATAAATAATAAAT
1 AAAGACAAAAATTAA-ATAAATAAAAAAT
4308271 AAATAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.12
28 16 0.67
29 5 0.21
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (29 bp):
AAAGACAAAAATTAAATAAATAAAAAATG
Found at i:4308265 original size:4 final size:4
Alignment explanation
Indices: 4308227--4308287 Score: 56
Period size: 4 Copynumber: 15.5 Consensus size: 4
4308217 AGACAAAAAT
* *
4308227 TAAA TAAT TAAA -AAA TGAAA GAAA -AAA TAATA TAAA T-AA TAAA TAAA
1 TAAA TAAA TAAA TAAA T-AAA TAAA TAAA TAA-A TAAA TAAA TAAA TAAA
*
4308274 TAAA TAAG TAAA TA
1 TAAA TAAA TAAA TA
4308288 GCAAATGTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
3 9 0.19
4 31 0.66
5 7 0.15
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:4309508 original size:6 final size:6
Alignment explanation
Indices: 4309490--4309535 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
4309480 TATTTGGACC
4309490 AAAAT- AAAA-A AAAATA AAAATA AAAATA AATAATA ATATAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA A-A-AATA AAA
4309536 TAATAAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
5 8 0.22
6 16 0.43
7 6 0.16
8 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:4309511 original size:16 final size:17
Alignment explanation
Indices: 4309493--4309548 Score: 69
Period size: 16 Copynumber: 3.2 Consensus size: 17
4309483 TTGGACCAAA
4309493 ATAAAAAAAAATAAAA-
1 ATAAAAAAAAATAAAAT
*
4309509 ATAAAAATAAATAATAAT
1 ATAAAAAAAAATAA-AAT
*
4309527 ATAATAAAATAATAAAAT
1 ATAA-AAAAAAATAAAAT
4309545 ATAA
1 ATAA
4309549 TACATAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 13 0.38
17 2 0.06
18 11 0.32
19 8 0.24
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
ATAAAAAAAAATAAAAT
Found at i:4309548 original size:26 final size:26
Alignment explanation
Indices: 4309501--4309558 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
4309491 AAATAAAAAA
4309501 AAATAAAAATAAAAATAAATAATA-AT
1 AAAT-AAAATAAAAATAAATAATACAT
*
4309527 ATAATAAAATAATAAA-ATATAATACAT
1 A-AATAAAATAA-AAATAAATAATACAT
4309554 AAATA
1 AAATA
4309559 TTTTATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (26 bp):
AAATAAAATAAAAATAAATAATACAT
Found at i:4309558 original size:8 final size:7
Alignment explanation
Indices: 4309491--4309542 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
4309481 ATTTGGACCA
*
4309491 AAATAAA
1 AAATAAT
*
4309498 AAAAAAT
1 AAATAAT
4309505 AAA-AAT
1 AAATAAT
4309511 AAA-AAT
1 AAATAAT
4309517 AAATAAT
1 AAATAAT
4309524 AATATAAT
1 AA-ATAAT
4309532 AAAATAAT
1 -AAATAAT
4309540 AAA
1 AAA
4309543 ATATAATACA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
6 12 0.30
7 16 0.40
8 10 0.25
9 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
AAATAAT
Found at i:4309650 original size:39 final size:39
Alignment explanation
Indices: 4309568--4309841 Score: 346
Period size: 37 Copynumber: 7.1 Consensus size: 39
4309558 ATTTTATATA
*
4309568 ATATATATTTTCAAAATG-TTTCAAAAATTATATATTAT
1 ATATATATTTTCAAAATGTTTTCAAAAACTATATATTAT
*
4309606 ATATATATTTTCAAAATGTTTTCGAAAACTATATA-T-T
1 ATATATATTTTCAAAATGTTTTCAAAAACTATATATTAT
4309643 ATATATATTTTCAAAATGTTTTCAAAAACTATATATTAT
1 ATATATATTTTCAAAATGTTTTCAAAAACTATATATTAT
*
4309682 ATA-A-ATTTTCAAAATATTTTCAAAAACTATATATTAT
1 ATATATATTTTCAAAATGTTTTCAAAAACTATATATTAT
** *
4309719 ATATATGCTTTCAAAATGTTTTCAAAAAGTATTATATATAT
1 ATATATATTTTCAAAATGTTTTCAAAAACTA-TATAT-TAT
* * *
4309760 ATATATATATATTCAAAATATTTTTAACAACTATATATTAT
1 ATATATAT-T-TTCAAAATGTTTTCAAAAACTATATATTAT
* * * *
4309801 ATATATGTTTTCGAAACG-TTT-AAAAATTATATATTAT
1 ATATATATTTTCAAAATGTTTTCAAAAACTATATATTAT
4309838 ATAT
1 ATAT
4309842 GTATATTATT
Statistics
Matches: 207, Mismatches: 20, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
37 88 0.43
38 25 0.12
39 45 0.22
40 6 0.03
41 19 0.09
42 6 0.03
43 18 0.09
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (39 bp):
ATATATATTTTCAAAATGTTTTCAAAAACTATATATTAT
Found at i:4322574 original size:23 final size:23
Alignment explanation
Indices: 4322525--4322585 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
4322515 AAAACTACAA
* *
4322525 AAAGGCAGAGAAAAACATGTCAC
1 AAAGGCAGAGATAAACATGCCAC
* *
4322548 AAAGGCAGAGATAAACGTGCCAT
1 AAAGGCAGAGATAAACATGCCAC
* *
4322571 AAAGACAGGGATAAA
1 AAAGGCAGAGATAAA
4322586 TGTGTCGCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.51, C:0.15, G:0.25, T:0.10
Consensus pattern (23 bp):
AAAGGCAGAGATAAACATGCCAC
Found at i:4323889 original size:27 final size:27
Alignment explanation
Indices: 4323859--4323950 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 27
4323849 TTAATTTTAA
4323859 TATTATTTTTTTAAATAAATTAAATAT
1 TATTATTTTTTTAAATAAATTAAATAT
* * *
4323886 TATTTTTTATTATTATATTATAGATATTAATTTTAA
1 TATTATTT-TT-TTA-A--ATA-A-ATTAA--ATAT
*
4323922 TATTAATTTTTTAAATAAATTAAATAT
1 TATTATTTTTTTAAATAAATTAAATAT
4323949 TA
1 TA
4323951 ATTTTTAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 18
0.66 0.09 0.24
Matches are distributed among these distances:
27 11 0.22
28 2 0.04
29 8 0.16
30 2 0.04
31 3 0.06
32 3 0.06
33 2 0.04
34 8 0.16
35 2 0.04
36 8 0.16
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (27 bp):
TATTATTTTTTTAAATAAATTAAATAT
Found at i:4323918 original size:63 final size:62
Alignment explanation
Indices: 4323826--4323984 Score: 243
Period size: 63 Copynumber: 2.6 Consensus size: 62
4323816 GGTTTTATAT
* *
4323826 TTAA-TTTTATATTATATT-T-GATTTTAATTTTAATATTATTTTTTTAAATAAATTAAATA
1 TTAATTTTTATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATA
*
4323885 TTATTTTTTATTATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATA
1 TTAATTTTTA-TATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATA
4323948 TTAATTTTTAATATTATATTATAGATATTTAATTTTA
1 TTAATTTTT-ATATTATATTATAGATA-TTAATTTTA
4323985 TATCATATAA
Statistics
Matches: 90, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
59 3 0.03
60 5 0.06
61 9 0.10
62 1 0.01
63 62 0.69
64 10 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (62 bp):
TTAATTTTTATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATA
Found at i:4323960 original size:13 final size:13
Alignment explanation
Indices: 4323881--4323963 Score: 59
Period size: 13 Copynumber: 6.5 Consensus size: 13
4323871 AAATAAATTA
*
4323881 AATATTATTTTTT
1 AATATTAATTTTT
* *
4323894 ATTATT-ATATTAT
1 AATATTAAT-TTTT
4323907 AGATATTAA-TTTT
1 A-ATATTAATTTTT
4323920 AATATTAATTTTTT
1 AATATTAA-TTTTT
* *
4323934 AA-A-TAA-ATTA
1 AATATTAATTTTT
4323944 AATATTAATTTTT
1 AATATTAATTTTT
4323957 AATATTA
1 AATATTA
4323964 TATTATAGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
10 4 0.08
11 1 0.02
12 14 0.26
13 23 0.43
14 10 0.19
15 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (13 bp):
AATATTAATTTTT
Found at i:4324025 original size:63 final size:60
Alignment explanation
Indices: 4323828--4324029 Score: 182
Period size: 63 Copynumber: 3.3 Consensus size: 60
4323818 TTTTATATTT
* * *
4323828 AATTTTATATTATATT-T-GATTTTAATTTTAATATTATTTTTTTAAATAAATTAAATATTA
1 AATTTTATATTATATTATAGATATTAATTTTAATATTAATTTTTT-AATAAATT-AATATAA
** *
4323888 TTTTTTATTATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTA
1 AATTTTA-TATTATATTATAGATATTAATTTTAATATTAATTTTTT-AATAAATT-AATATAA
* *
4323951 ATTTTTAATATTATATTATAGATATTTAATTTTATATCATATAAATTATTTT-ATATATT-AT-T
1 AATTTT-ATATTATATTATAGATA-TTAATTTTA-AT-AT-T-AATT-TTTTAATAAATTAATAT
4324013 AA
59 AA
4324015 AATTTTATATT-TATT
1 AATTTTATATTATATT
4324030 TTAATTATTT
Statistics
Matches: 124, Mismatches: 8, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
60 5 0.04
61 9 0.07
62 5 0.04
63 67 0.54
64 17 0.14
65 4 0.03
66 2 0.02
67 7 0.06
68 4 0.03
69 4 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (60 bp):
AATTTTATATTATATTATAGATATTAATTTTAATATTAATTTTTTAATAAATTAATATAA
Found at i:4324039 original size:20 final size:19
Alignment explanation
Indices: 4323979--4324040 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
4323969 TAGATATTTA
*
4323979 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
4323998 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
4324016 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
4324036 ATTTT
1 ATTTT
4324041 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:4324531 original size:31 final size:31
Alignment explanation
Indices: 4324494--4324553 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
4324484 TAGTTGTATG
* * *
4324494 AATTATTTGAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
4324525 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
4324554 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:4327413 original size:3 final size:3
Alignment explanation
Indices: 4327405--4327486 Score: 146
Period size: 3 Copynumber: 27.3 Consensus size: 3
4327395 TACCCATATC
*
4327405 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
4327453 ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4327487 AATATATTAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:4328027 original size:42 final size:41
Alignment explanation
Indices: 4327948--4328027 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 41
4327938 CCTGAAAAAA
* * ** *
4327948 AAAAAAAGGAAGAGACAGAAACAGGAGAGACACAGAGACAG
1 AAAAAAAGGAAGAAAAAGAAACAACAGAAACACAGAGACAG
*
4327989 AAAAAAAGGAAAGAAAAAGAAACAACAGAAACAGAGAGA
1 AAAAAAAGG-AAGAAAAAGAAACAACAGAAACACAGAGA
4328028 GATACAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 9 0.28
42 23 0.72
ACGTcount: A:0.65, C:0.10, G:0.25, T:0.00
Consensus pattern (41 bp):
AAAAAAAGGAAGAAAAAGAAACAACAGAAACACAGAGACAG
Done.