Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 12 of 253
Found at i:3728083 original size:17 final size:18
Alignment explanation
Indices: 3728055--3728088 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
3728045 TATTCTCCAT
3728055 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
3728073 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
3728089 CAATTCGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:3728812 original size:12 final size:12
Alignment explanation
Indices: 3728795--3728819 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3728785 CTTGCAACGA
3728795 AGTCAACCTATT
1 AGTCAACCTATT
3728807 AGTCAACCTATT
1 AGTCAACCTATT
3728819 A
1 A
3728820 TATTCATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (12 bp):
AGTCAACCTATT
Found at i:3733671 original size:24 final size:24
Alignment explanation
Indices: 3733644--3733689 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
3733634 CTCATTGGTT
*
3733644 TTTTA-AATTATACTTTTTTTTTCA
1 TTTTAGAATT-TAATTTTTTTTTCA
*
3733668 TTTTAGTATTTAATTTTTTTTT
1 TTTTAGAATTTAATTTTTTTTT
3733690 GTTATAAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTTAGAATTTAATTTTTTTTTCA
Found at i:3738843 original size:40 final size:40
Alignment explanation
Indices: 3738797--3738921 Score: 137
Period size: 40 Copynumber: 3.1 Consensus size: 40
3738787 TTTTTTATCC
* * *
3738797 AAACGCTGCTATAGATAGAGCATTAGAGGCGCTTTTTGAA
1 AAACGCTGCTATAGGTAGAGCATTAGCGGCGCTTTATGAA
* * **
3738837 AAACGCTGCTATAGGTCGAGCATCAGCGGCGCTTTAAAAA
1 AAACGCTGCTATAGGTAGAGCATTAGCGGCGCTTTATGAA
* * *
3738877 AAACAC-GCTATAGGTCA-ACCATTAGCGGCGCTTTCTGAA
1 AAACGCTGCTATAGGT-AGAGCATTAGCGGCGCTTTATGAA
3738916 AAACGC
1 AAACGC
3738922 CGTAAAAAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
39 31 0.45
40 38 0.55
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (40 bp):
AAACGCTGCTATAGGTAGAGCATTAGCGGCGCTTTATGAA
Found at i:3738918 original size:39 final size:40
Alignment explanation
Indices: 3738817--3738919 Score: 118
Period size: 39 Copynumber: 2.6 Consensus size: 40
3738807 ATAGATAGAG
* * * * *
3738817 CATTAGAGGCGCTTTTTGAAAAACGCTGCTATAGGTCGAG
1 CATTAGCGGCGCTTTATGAAAAACACTGCTATAGGTCAAC
* **
3738857 CATCAGCGGCGCTTTAAAAAAAACAC-GCTATAGGTCAAC
1 CATTAGCGGCGCTTTATGAAAAACACTGCTATAGGTCAAC
*
3738896 CATTAGCGGCGCTTTCTGAAAAAC
1 CATTAGCGGCGCTTTATGAAAAAC
3738920 GCCGTAAAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
39 31 0.61
40 20 0.39
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (40 bp):
CATTAGCGGCGCTTTATGAAAAACACTGCTATAGGTCAAC
Found at i:3739051 original size:40 final size:40
Alignment explanation
Indices: 3738963--3739075 Score: 140
Period size: 40 Copynumber: 2.8 Consensus size: 40
3738953 AGCTTTAGTG
*
3738963 GCATTAGCGGCGCTTTTTGAAAGACGCTGCTATAGATCAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCTGCTATAGATCAA
* *
3739003 GCACTAGCGGCGCTTTTTGAAAAACGCTGCTATAGGT-AGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCTGCTATAGATCA-A
* *
3739043 GCATTAGCGTCGCCTTTTT-AAAAAGCGCCGCTA
1 GCATTAGCGGCG-CTTTTTGAAAAA-CGCTGCTA
3739076 ATGGTCGACC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.02
40 50 0.78
41 13 0.20
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCTGCTATAGATCAA
Found at i:3739295 original size:20 final size:20
Alignment explanation
Indices: 3739272--3739318 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
3739262 TTTATCTGTC
3739272 TATTTATTATTTAACT-GTTT
1 TATTTATTATTTAACTAG-TT
3739292 TATTTATTATTTAACTAGTT
1 TATTTATTATTTAACTAGTT
3739312 TATTTAT
1 TATTTAT
3739319 AGTTAGGGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (20 bp):
TATTTATTATTTAACTAGTT
Found at i:3739535 original size:21 final size:20
Alignment explanation
Indices: 3739478--3739535 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
3739468 TAATATATAT
* * *
3739478 ATTTAGGGTTTAGGGTGTAA
1 ATTTATGGTTTAGGATTTAA
* *
3739498 ATTTATGGTCTAAGATTTAA
1 ATTTATGGTTTAGGATTTAA
3739518 GATTTATGGTTTAGGATT
1 -ATTTATGGTTTAGGATT
3739536 CGGAGTTTGG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.45
Consensus pattern (20 bp):
ATTTATGGTTTAGGATTTAA
Found at i:3740206 original size:8 final size:8
Alignment explanation
Indices: 3740193--3740221 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
3740183 GATCTTCAAA
3740193 AAAATTTT
1 AAAATTTT
3740201 AAAATTTT
1 AAAATTTT
3740209 AAAATTTT
1 AAAATTTT
3740217 AAAAT
1 AAAAT
3740222 AAAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
AAAATTTT
Found at i:3740229 original size:7 final size:7
Alignment explanation
Indices: 3740217--3740265 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
3740207 TTAAAATTTT
3740217 AAAATAA
1 AAAATAA
3740224 AAAATAA
1 AAAATAA
3740231 AAAATAA
1 AAAATAA
3740238 AAAAT-A
1 AAAATAA
3740244 AAAA-AA
1 AAAATAA
*
3740250 AATA-AA
1 AAAATAA
3740256 AAAATAA
1 AAAATAA
3740263 AAA
1 AAA
3740266 TTTAATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 14 0.37
7 24 0.63
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:3740233 original size:8 final size:8
Alignment explanation
Indices: 3740217--3740265 Score: 66
Period size: 8 Copynumber: 6.2 Consensus size: 8
3740207 TTAAAATTTT
3740217 AAAAT-AA
1 AAAATAAA
3740224 AAAAT-AA
1 AAAATAAA
3740231 AAAATAAA
1 AAAATAAA
*
3740239 AAATAAAAA
1 AAA-ATAAA
3740248 AAAATAAA
1 AAAATAAA
3740256 AAAATAAA
1 AAAATAAA
3740264 AA
1 AA
3740266 TTTAATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
7 12 0.32
8 19 0.50
9 7 0.18
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:3740233 original size:21 final size:21
Alignment explanation
Indices: 3740217--3740265 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
3740207 TTAAAATTTT
3740217 AAAATAAAAAATAAAAAATAA
1 AAAATAAAAAATAAAAAATAA
*
3740238 AAAAT-AAAAA-AAAATA-AA
1 AAAATAAAAAATAAAAAATAA
3740256 AAAATAAAAA
1 AAAATAAAAA
3740266 TTTAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 7 0.27
19 9 0.35
20 5 0.19
21 5 0.19
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (21 bp):
AAAATAAAAAATAAAAAATAA
Found at i:3740272 original size:19 final size:18
Alignment explanation
Indices: 3740216--3740265 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
3740206 TTTAAAATTT
3740216 TAAAATAAA-AAATAAAAAA
1 TAAAA-AAATAAA-AAAAAA
3740235 T-AAAAAATAAAAAAAAA
1 TAAAAAAATAAAAAAAAA
3740252 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
3740266 TTTAATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.34
18 18 0.62
19 1 0.03
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (18 bp):
TAAAAAAATAAAAAAAAA
Found at i:3740409 original size:18 final size:18
Alignment explanation
Indices: 3740363--3740420 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
3740353 AAAACTTTTG
* *
3740363 AAAAAAAAATAGAAAAAT
1 AAAATAAAATTGAAAAAT
3740381 AATATATTAAAATTGAAAAAT
1 AA-A-A-TAAAATTGAAAAAT
*
3740402 AAAATAAAATTGAACAAT
1 AAAATAAAATTGAAAAAT
3740420 A
1 A
3740421 GTAGCAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 16 0.47
19 2 0.06
20 2 0.06
21 14 0.41
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (18 bp):
AAAATAAAATTGAAAAAT
Found at i:3741241 original size:18 final size:18
Alignment explanation
Indices: 3741215--3741253 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3741205 GGTCAAGTTG
* *
3741215 AATTTGAATAATTTAAAT
1 AATTCGAATAACTTAAAT
3741233 AATTCGAATAACTTAAAT
1 AATTCGAATAACTTAAAT
3741251 AAT
1 AAT
3741254 AGATTGGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTCGAATAACTTAAAT
Found at i:3779074 original size:48 final size:48
Alignment explanation
Indices: 3779017--3779113 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
3779007 ATTGTATCTT
3779017 CCTAATGATTAATATGATCATTGTCAATCAAATGATTGTGATCAATTG
1 CCTAATGATTAATATGATCATTGTCAATCAAATGATTGTGATCAATTG
3779065 CCTAATGATTAATATGATCATTGTCAATCAAATGATTGTGATCAATTG
1 CCTAATGATTAATATGATCATTGTCAATCAAATGATTGTGATCAATTG
3779113 C
1 C
3779114 TTGTTCGAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (48 bp):
CCTAATGATTAATATGATCATTGTCAATCAAATGATTGTGATCAATTG
Found at i:3779106 original size:24 final size:24
Alignment explanation
Indices: 3779031--3779108 Score: 79
Period size: 24 Copynumber: 3.2 Consensus size: 24
3779021 ATGATTAATA
3779031 TGATCATTGTCAATCAAATGATTG
1 TGATCATTGTCAATCAAATGATTG
* * * * *
3779055 TGATCAATTGCCTAAT--GATTAATA
1 TGATC-ATTGTC-AATCAAATGATTG
3779079 TGATCATTGTCAATCAAATGATTG
1 TGATCATTGTCAATCAAATGATTG
3779103 TGATCA
1 TGATCA
3779109 ATTGCTTGTT
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
22 3 0.08
23 5 0.12
24 24 0.60
25 5 0.12
26 3 0.08
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (24 bp):
TGATCATTGTCAATCAAATGATTG
Found at i:3779754 original size:17 final size:16
Alignment explanation
Indices: 3779732--3779763 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
3779722 ATCTCTCTGG
3779732 ATAAAAAATAATAAAAA
1 ATAAAAAATAA-AAAAA
3779749 ATAAAAAATAAAAAA
1 ATAAAAAATAAAAAA
3779764 TCCAAAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
ATAAAAAATAAAAAAA
Found at i:3779760 original size:14 final size:15
Alignment explanation
Indices: 3779736--3779764 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3779726 CTCTGGATAA
3779736 AAAATAATAAAAAAT
1 AAAATAATAAAAAAT
3779751 AAAA-AATAAAAAAT
1 AAAATAATAAAAAAT
3779765 CCAAAGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAATAAAAAAT
Found at i:3781299 original size:17 final size:18
Alignment explanation
Indices: 3781262--3781301 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
3781252 CCATCCCCTG
*
3781262 GCCACCCCCATACCGTCT
1 GCCACCACCATACCGTCT
*
3781280 GCCACCACCATGCC-TCT
1 GCCACCACCATACCGTCT
3781297 GCCAC
1 GCCAC
3781302 ACCTGCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.17, C:0.55, G:0.12, T:0.15
Consensus pattern (18 bp):
GCCACCACCATACCGTCT
Found at i:3792276 original size:72 final size:74
Alignment explanation
Indices: 3792168--3792313 Score: 181
Period size: 72 Copynumber: 2.0 Consensus size: 74
3792158 AATTTATGTT
* *
3792168 TCAAAATTCTACTCATATTGCGAGAAATGAGTTGAGCCACAGG-ACACG-CTGAGGTAATTTCAA
1 TCAAAATTCAACTCATATTGCGAGAAATGAGCTGAGCCACAGGTACACGTC-GAGGTAATTTCAA
3792231 TTTCTGTTTG
65 TTTCTGTTTG
** * * * *
3792241 TCAAAA-TCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGTTACATGTCGAGGTATTTTCAA
1 TCAAAATTCAACTCATATTGCGAGAAATGAGCTGAGCCACAGG-TACACGTCGAGGTAATTTCAA
3792305 TTTCTGTTT
65 TTTCTGTTT
3792314 TTTCAATTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
72 30 0.48
73 6 0.10
74 25 0.40
75 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (74 bp):
TCAAAATTCAACTCATATTGCGAGAAATGAGCTGAGCCACAGGTACACGTCGAGGTAATTTCAAT
TTCTGTTTG
Found at i:3792409 original size:14 final size:14
Alignment explanation
Indices: 3792386--3792423 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
3792376 CGCTGAGGTA
3792386 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
*
3792400 TTTTCGATTTCTGC
1 TTTTCAATTTCTGC
3792414 TTTTCAATTT
1 TTTTCAATTT
3792424 ATATTTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.13, C:0.18, G:0.08, T:0.61
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:3792587 original size:17 final size:17
Alignment explanation
Indices: 3792565--3792599 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3792555 TGCTGAGGTA
* *
3792565 TTTTCAGTTTCTATTTT
1 TTTTCAATTTATATTTT
3792582 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
3792599 T
1 T
3792600 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTCAATTTATATTTT
Found at i:3792715 original size:71 final size:71
Alignment explanation
Indices: 3792597--3792741 Score: 193
Period size: 71 Copynumber: 2.0 Consensus size: 71
3792587 AATTTATATT
** * *
3792597 TTTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGGACATGCTGAGGTATTGTT-A
1 TTTCAAAAATCAACTCATACTGCGAGAAATGAGTCGAGCCTCAGGACATGCTGAGGTATT-TTCA
*
3792661 ATTTTTG
65 ATTTCTG
* * * *
3792668 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTTAGGACATTCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATACTGCGAGAAATGAGTCGAGCCTCAGGACATGCTGAGGTATTTTCAA
3792733 TTTCTG
66 TTTCTG
3792739 TTT
1 TTT
3792742 TTTTTCAATT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
70 2 0.03
71 62 0.97
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (71 bp):
TTTCAAAAATCAACTCATACTGCGAGAAATGAGTCGAGCCTCAGGACATGCTGAGGTATTTTCAA
TTTCTG
Found at i:3792759 original size:17 final size:17
Alignment explanation
Indices: 3792726--3792760 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3792716 TTCTGAGGTA
* *
3792726 TTTTCAATTTCTGTTTT
1 TTTTCAATTTATATTTT
3792743 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
3792760 T
1 T
3792761 CAAAAAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTCAATTTATATTTT
Found at i:3792800 original size:163 final size:163
Alignment explanation
Indices: 3792328--3793070 Score: 1010
Period size: 163 Copynumber: 4.5 Consensus size: 163
3792318 AATTTATGCT
* ** * * * *
3792328 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
1 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACATGCTGAGGTATTTTCAA
**
3792393 TTTCTGCTTTTCGATTTCTGCTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTATGAGA
66 -TT-T-C---T--ATTT-T--TTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGA
* * *
3792458 GGTGAGTTGAGCCTCAGGG-CACGCTGAGGTGCTT-TTCAAGTTCTG
120 GGTGAGTTGAGCCTC-GGGACACGCTGAGGT-ATTGTT-AATTTTTG
* ** *
3792503 CTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTT
1 --TTTC--AAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACATGCTGAGGTATTT
* *
3792568 TCAGTTTCTATTTTTTTTCAATTTATATTTTTC--AAAAATCAACTCATACTGCGAGAGGTGAGT
62 TCAATTTCTATTTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
3792631 TGAGCCTCGGGACATGCTGAGGTATTGTTAATTTTTG
127 TGAGCCTCGGGACACGCTGAGGTATTGTTAATTTTTG
* *
3792668 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTTAGGACATTCTGAGGTATTTTCAA
1 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACATGCTGAGGTATTTTCAA
*
3792733 TTTCTGTTTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 TTTCTATTTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
3792798 CCTCGGGACACGCTGAGGTATTGTTAATTTTTG
131 CCTCGGGACACGCTGAGGTATTGTTAATTTTTG
* *
3792831 TTTCAAAACTCAACTCATATTGTGAGAAATGAGTCGAGCCTCAGGACATGCTAAGGTATTTTCAA
1 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACATGCTGAGGTATTTTCAA
*
3792896 TTTTTATTTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
66 TTTCTATTTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
3792961 CCTCGGGACACGCTGAGGTATTGTTAATTTTTG
131 CCTCGGGACACGCTGAGGTATTGTTAATTTTTG
** * * *
3792994 TTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACATGCTGAGGTATTTTCAA
*
3793058 TTTCTGTTTTTTT
66 TTTCTATTTTTTT
3793071 AAAAAAATCA
Statistics
Matches: 524, Mismatches: 36, Indels: 27
0.89 0.06 0.05
Matches are distributed among these distances:
161 82 0.16
162 60 0.11
163 234 0.45
165 11 0.02
166 47 0.09
168 19 0.04
170 1 0.00
171 4 0.01
173 1 0.00
176 1 0.00
177 5 0.01
178 2 0.00
179 57 0.11
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (163 bp):
TTTCAAAACTCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACATGCTGAGGTATTTTCAA
TTTCTATTTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGGGACACGCTGAGGTATTGTTAATTTTTG
Found at i:3792847 original size:71 final size:71
Alignment explanation
Indices: 3792764--3792900 Score: 186
Period size: 71 Copynumber: 1.9 Consensus size: 71
3792754 TATTTTTCAA
** * * *
3792764 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTT-AATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACACGCTAAGGTATT-TTCAATTT
3792828 TTGTTTC
65 TTGTTTC
* * *
3792835 AAAACTCAACTCATATTGTGAGAAATGAGTCGAGCCTCAGGACATGCTAAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACACGCTAAGGTATTTTCAATTTT
3792900 T
66 T
3792901 ATTTTTTTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
70 2 0.04
71 55 0.96
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (71 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTCGAGCCTCAGGACACGCTAAGGTATTTTCAATTTT
TGTTTC
Found at i:3792911 original size:17 final size:17
Alignment explanation
Indices: 3792889--3792923 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3792879 TGCTAAGGTA
*
3792889 TTTTCAATTTTTATTTT
1 TTTTCAATTTATATTTT
3792906 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
3792923 T
1 T
3792924 CAAAAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCAATTTATATTTT
Found at i:3793104 original size:76 final size:76
Alignment explanation
Indices: 3792919--3793336 Score: 636
Period size: 76 Copynumber: 5.6 Consensus size: 76
3792909 TCAATTTATA
*
3792919 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT-ATT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
*
3792983 GTTAA-TT-T-T
66 -TCAATTTCTGT
*
3792992 TGTTTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
3793054 TCAATTTCTGT
66 TCAATTTCTGT
* *
3793065 TTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
3793130 TCAATTTCTGT
66 TCAATTTCTGT
*
3793141 TTTTTCAAACAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
3793206 TCAATTTCTGT
66 TCAATTTCTGT
* * * *
3793217 TTTTTCAAAAAAATCAACTCATTTTGCGAGATGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
*
3793282 TCGATTTCTG-
66 TCAATTTCTGT
* * * *
3793292 CTTTTCAAAAGAACCGACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
3793337 TTTAATTTCT
Statistics
Matches: 317, Mismatches: 21, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
70 54 0.17
71 5 0.02
72 1 0.00
73 10 0.03
75 39 0.12
76 208 0.66
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (76 bp):
TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGT
Found at i:3793377 original size:54 final size:56
Alignment explanation
Indices: 3793285--3793390 Score: 171
Period size: 54 Copynumber: 1.9 Consensus size: 56
3793275 GGTATTTTCG
*
3793285 ATTTCTGCTTTTCAAAAGAACCGACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
1 ATTTCTGCTTTTCAAAAGAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
* *
3793341 ATTTCTGTTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 ATTTCTGCTTTTCAAAAGAACCAACTCATATTGCGAGAGGTGAGTTGAGCCT
3793391 CGGGTCACAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
54 32 0.68
55 3 0.06
56 12 0.26
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (56 bp):
ATTTCTGCTTTTCAAAAGAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTA
Found at i:3793516 original size:89 final size:89
Alignment explanation
Indices: 3793336--3793572 Score: 275
Period size: 89 Copynumber: 2.6 Consensus size: 89
3793326 GAGTTGAGCC
*
3793336 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
*** *
3793400 TGTCGAGATATTTTTAAAATTTGT
66 CACCGAGATATTTTTAAAATTTAT
3793424 TTTTCGAATTAT-T-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTC-AATT-TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
* * *
3793487 CACACCGAGGTA-TTTTCAATTTCTAT
64 CACACCGAGATATTTTTAAAATT-TAT
** * *
3793513 TTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCACATTGCGAGAGGTGAGTTGAGCCT
1 TTTTCAATTTCTGTTTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
3793573 TGGCTCACGT
Statistics
Matches: 127, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
87 1 0.01
88 17 0.13
89 68 0.54
90 5 0.04
91 1 0.01
93 35 0.28
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (89 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
CACCGAGATATTTTTAAAATTTAT
Found at i:3793738 original size:79 final size:78
Alignment explanation
Indices: 3793533--3793738 Score: 216
Period size: 79 Copynumber: 2.6 Consensus size: 78
3793523 CTGCCTTTCA
* * * *** *
3793533 AAAAAAAATCGACTCACATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCA
1 AAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTAAGCTATTTTCA
* *
3793598 ATTTCTGTCCTTT
66 ATTTATATCCTTT
* * * * * *
3793611 AAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCTTCAGATCACACACTAAGGTGTTTTTT
1 AAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTAA-G-CTATTTT
*
3793676 CAATTTATAT-TTTT
64 CAATTTATATCCTTT
* * *
3793690 CAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACA
1 AAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGATCACA
3793739 TGTCAATGTA
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
78 44 0.43
79 46 0.45
80 13 0.13
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (78 bp):
AAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGATCACACACTAAGCTATTTTCA
ATTTATATCCTTT
Found at i:3793768 original size:14 final size:13
Alignment explanation
Indices: 3793749--3793784 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
3793739 TGTCAATGTA
3793749 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
3793762 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
3793776 TTTTCAAAA
1 TTTTCAAAA
3793785 AGCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:3793867 original size:250 final size:238
Alignment explanation
Indices: 3793423--3794059 Score: 649
Period size: 245 Copynumber: 2.6 Consensus size: 238
3793413 TTAAAATTTG
* * *
3793423 TTTTTCGAA-TTATTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTTC-AATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCA
*** ** * * * *
3793487 CACACCGAGGTATTTTCAATTTCTATTTTTCAATTTCTGCCTTTCAAAAAAAAATCGACTCACAT
65 CATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTG--TTTC----AAAAA-CAACTCATAT
3793552 TGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTCCTTT-AAAAA
123 TGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTCCTTTAAAAAA
* * * *
3793616 AAA-TCAACTCATATTGCGAAAGGTGAGTTGAGCTTCAGATCAC-ACA-CTAAG-GTGT
188 AAACTCAACTCATATTGCG--AGAT--GTTGAACTTC---T-ACGACAGCTAAGTGAGC
* *
3793671 TTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTC
1 TTTTTCAATTTATATTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTC
* *
3793736 ACATGTCAATGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAAGCAACTCATATTGCG
64 ACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTG-TTTCAAAAA-CAACTCATATTGCG
* **
3793801 AGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTTTTCAAAAA
127 AGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTG----TCCTTT-AAAAA
* * * * * *
3793866 AAAACTCAACTCATATTGCGAGATTTTTAATTTCTACGAGAGGTGAGTTGAGC
187 AAAACTCAACTCATATTGCGAGATGTTGAACTTCTACGACAGCTAAG-TGAGC
* * * *
3793919 CTTTT-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGTCAC
1 TTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCAC
* **
3793983 ATGTCGAGGTATTTTCAAAATCTGCTTTTCAAATTAAGTTTCAAAAACTAACTCATATTGCGAGA
66 ATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTCAAAAAC-AACTCATATTGCGAGA
*
3794048 GGTAAGTTGAGC
130 GGTGAGTTGAGC
3794060 TATTTTCAAT
Statistics
Matches: 331, Mismatches: 43, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
243 1 0.00
244 37 0.11
245 143 0.43
246 3 0.01
247 14 0.04
248 28 0.08
249 8 0.02
250 74 0.22
251 8 0.02
252 15 0.05
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (238 bp):
TTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCAC
ATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTCAAAAACAACTCATATTGCGAGAG
GTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTCCTTTAAAAAAAAACTCAA
CTCATATTGCGAGATGTTGAACTTCTACGACAGCTAAGTGAGC
Found at i:3797259 original size:49 final size:49
Alignment explanation
Indices: 3797175--3797632 Score: 697
Period size: 49 Copynumber: 9.6 Consensus size: 49
3797165 TATTTGAATA
* *
3797175 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
3797222 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
3797271 AATGTGAAAGTGTATATATATGTGGTAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
3797320 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
3797369 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
3797416 AATGTGAAAGTGTATATATATGTGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
3797465 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
3797514 AATGTGAAAGTG----TATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
3797559 AATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
3797606 GATGTAAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
3797633 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 20, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
45 45 0.12
47 104 0.27
48 1 0.00
49 233 0.61
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:3797438 original size:145 final size:145
Alignment explanation
Indices: 3797175--3797632 Score: 761
Period size: 145 Copynumber: 3.2 Consensus size: 145
3797165 TATTTGAATA
3797175 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
*
3797238 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCC
64 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
3797303 GAATGGCCAATGTGATG
129 GAATGGCCAATGTGATG
3797320 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
3797385 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTCGA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGA
3797450 ATGGCCAATGTGATG
131 ATGGCCAATGTGATG
3797465 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
3797528 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCGA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGA
* *
3797591 GTGGCCAACGTGATG
131 ATGGCCAATGTGATG
* *
3797606 GATGTAAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
3797633 TCCCGAAGGG
Statistics
Matches: 301, Mismatches: 10, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
139 10 0.03
140 1 0.00
141 45 0.15
143 43 0.14
145 155 0.51
147 47 0.16
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (145 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGA
ATGGCCAATGTGATG
Found at i:3797504 original size:194 final size:190
Alignment explanation
Indices: 3797175--3797632 Score: 767
Period size: 194 Copynumber: 2.4 Consensus size: 190
3797165 TATTTGAATA
* *
3797175 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
3797240 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGGTAAGGCCGA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGA
3797305 ATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 ATGGCCAATGTGATGAATGTGAAAGTG----TATATGTGATAAGGCCTAATGGCCGATGTGATG
3797369 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
3797434 TATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGA
*
3797499 ATGGCCGATGTGATGAATGTGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGTGATG
131 ATGGCCAATGTGATGAATGTGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
3797559 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTAAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
3797623 -ATGTGATAAG
66 TATGTGATAAG
3797633 TCCCGAAGGG
Statistics
Matches: 253, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
188 10 0.04
189 1 0.00
190 91 0.36
194 151 0.60
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (190 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAAAGTGTATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:3797512 original size:22 final size:22
Alignment explanation
Indices: 3797484--3797557 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
3797474 GTGTATATAT
3797484 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* * ***
3797506 ATGTGATGAATG--TGAAAGTGTAT
1 ATGTGAT-AAGGCCT-AATG-GCCG
3797529 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
3797551 ATGTGAT
1 ATGTGAT
3797558 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:3797889 original size:37 final size:37
Alignment explanation
Indices: 3797751--3797888 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
3797741 CCGTGCTCTA
3797751 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
3797788 AAGACCCAATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
3797825 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
3797862 AAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
3797889 TCGTCTAAGC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:3801053 original size:12 final size:12
Alignment explanation
Indices: 3801036--3801060 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3801026 ACCTATTTAC
3801036 ATTAAACCCCAA
1 ATTAAACCCCAA
3801048 ATTAAACCCCAA
1 ATTAAACCCCAA
3801060 A
1 A
3801061 CCCAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (12 bp):
ATTAAACCCCAA
Found at i:3803329 original size:14 final size:14
Alignment explanation
Indices: 3803303--3803341 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
3803293 CATTCATTCA
3803303 AAAGAAA-AAAAAG
1 AAAGAAAGAAAAAG
3803316 AAAGAAAGAAAAAG
1 AAAGAAAGAAAAAG
3803330 AAAGAAAAGAAA
1 AAAG-AAAGAAA
3803342 GTGGAGAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 7 0.29
14 10 0.42
15 7 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAAG
Found at i:3805112 original size:74 final size:75
Alignment explanation
Indices: 3804902--3805369 Score: 556
Period size: 73 Copynumber: 6.3 Consensus size: 75
3804892 TACTCTGCTG
* *
3804902 TTTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTTCAATTTCTGTTTTTC-AAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
3804965 ACGCTGAGGTA
65 ACGCTGAGGTA
* * * * * *
3804976 TTTTCAATTTCTATTTTTC-AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCC-CTGGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGCACA
3805039 CGCTGAGGTA
66 CGCTGAGGTA
* * * * *
3805049 ATTTCAATTTCTGTTTGTCAAAAAATCAACTCGTACTGCGAGAGGCGAGTTGAGCCT-TGGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGCACA
3805113 CGCTGAGGTA
66 CGCTGAGGTA
* * * * *
3805123 ATTTCAATTTCTGTTTGTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGGGCCTCAGCTCAT
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAG-GCAC
**
3805188 ATACTGAGGTA
65 ACGCTGAGGTA
* * * *
3805199 TTTTCAATTTATG--GTTC-AAAAATCAACTCTTATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGG-CAC
3805261 ACGCTGAGGTA
65 ACGCTGAGGTA
* * * * *
3805272 TTTTCAATTCTTTTTTTTTTAAAAAGTCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCA
1 TTTTCAATT-TCTGTTTTTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
3805337 CACGCCGAGGTA
64 CACGCTGAGGTA
*
3805349 TTTTCAATTTTTGTTTTTCAA
1 TTTTCAATTTCTGTTTTTCAA
3805370 TTTCTAGTTT
Statistics
Matches: 343, Mismatches: 40, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
72 3 0.01
73 121 0.35
74 112 0.33
75 14 0.04
76 33 0.10
77 60 0.17
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGCACA
CGCTGAGGTA
Found at i:3805220 original size:147 final size:149
Alignment explanation
Indices: 3804921--3805856 Score: 573
Period size: 147 Copynumber: 5.9 Consensus size: 149
3804911 CTGTTTTTCA
3804921 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGACACGCTGAGGTATTTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGACACGCTGAGGTATTTTCAATT
* * * * **
3804985 TCTATTTTTC-AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCC-CTGGGACACGCTGAGGT
65 TCTATTTTTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGTCACACGCTGAGGT
* * *
3805048 AATTTCAATTTCTGTTTGTC
130 ATTTTCAATTTATGTGTGTC
* * * * *
3805068 AAAAAATCAACTCGTACTGCGAGAGGCGAGTTGAGCCTTGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGACACGCTGAGGTATTTTCAATTT
* * * * **
3805133 CTGTTTGTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGGGCCTCAGCTCATATACTGAGGT
66 CTATTTTTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAG-TCACACGCTGAGGT
3805198 ATTTTCAATTTATG-GT-TC
130 ATTTTCAATTTATGTGTGTC
* *
3805216 -AAAAATCAACTCTTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGG-GACACGCTGAGGTATTTTCAAT
* * * * * *
3805280 TCTTTTTTTTTTAAAAAGTCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGA
64 T-TCTATTTTTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCA-GTCACACGCTGA
* *
3805345 GGTATTTTCAATTTTTGTTTTTCAATTTCTAGTTTTC
127 GGTATTTTCAA--------TTT--A--TGT-G-TGTC
*
3805382 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCA-GGACACGCTGAGGTATTTTCAAT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGACACGCTGAGGTATTTTCAAT
* * *
3805446 TTCTGTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
64 TTC--TATTTTTC-------A------AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTC
* * ** * * * *
3805511 GGGTCACATG-TCGAGGTATTTGAAAAATTTTCTTTTCAAATTAAGTTAA
114 -AGTCACACGCT-GAGGTATTT--TCAA-TTT-ATGT----GT--G-T-C
* * * * *
3805560 AAAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTCGGCTCACATGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG--GACACGCTGAGGTATTTTCAAT
* * * * *
3805625 TTCTGTTTTTCAATTCACGTTTTCAAAAATCAACGCATATTGCGAGAGGTGAGTTGAGTCTCAG-
64 TTC--TATTT---TTCA-------AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGT
* * * * *
3805689 GACATGCTGAGGTAATTTCAATTTCTGTTTGTC
117 CACACGCTGAGGTATTTTCAATTTATGTGTGTC
*
3805722 -AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGACACGCTGAGGTAATTTT-AAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGACACGCTGAGGT-ATTTTCAAT
* * * * * * * *
3805784 TTCTGTTCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTTAGCCTCCGCTCACATGCTGA
64 TTCTATTTTTC-AAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAG-TCACACGCTGA
3805849 GGTATTTT
127 GGTATTTT
3805857 TAGTTTCTAT
Statistics
Matches: 636, Mismatches: 88, Indels: 127
0.75 0.10 0.15
Matches are distributed among these distances:
147 100 0.16
148 71 0.11
149 24 0.04
150 98 0.15
151 1 0.00
154 3 0.00
155 1 0.00
157 3 0.00
158 3 0.00
159 17 0.03
160 6 0.01
161 35 0.06
162 1 0.00
163 1 0.00
164 2 0.00
165 2 0.00
166 26 0.04
167 8 0.01
168 37 0.06
170 2 0.00
171 3 0.00
172 4 0.01
174 15 0.02
175 8 0.01
176 41 0.06
177 39 0.06
179 30 0.05
180 50 0.08
182 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGACACGCTGAGGTATTTTCAATTT
CTATTTTTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGTCACACGCTGAGGTA
TTTTCAATTTATGTGTGTC
Found at i:3805470 original size:16 final size:16
Alignment explanation
Indices: 3805438--3805471 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3805428 CGCTGAGGTA
* *
3805438 TTTTCAATTTCTGTTT
1 TTTTCAATTTATATTT
3805454 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
3805470 TT
1 TT
3805472 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:3805487 original size:89 final size:90
Alignment explanation
Indices: 3805287--3805718 Score: 465
Period size: 88 Copynumber: 4.8 Consensus size: 90
3805277 AATTCTTTTT
* * * * *
3805287 TTTTTAAAAAGTCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
1 TTTTCAAAAA-TCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-CACATGCTGAGGTATTT
* *
3805352 TCAATTT-T-TGTTTTTCAATTTCTAG
64 TCAATTTCTGTTTTTTTCAATTTATAG
*
3805377 TTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTT
1 TTTTC--AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGCACATGCTGAGGTATTT
*
3805441 TCAATTTCTGTTTTTTTCAATTTATAT
64 TCAATTTCTGTTTTTTTCAATTTATAG
* *
3805468 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-CACATGCT-GAGGTATTT
** ** * *
3805532 GAAAAAT-T-TTCTTTTCAAATTA-AG
64 TCAATTTCTGTTTTTTTCAATTTATAG
*** *
3805556 TTAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTAAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG--CACATGCTGAGGTATTT
* *
3805620 TCAATTTCTG--TTTTTCAATTCA-CG
64 TCAATTTCTGTTTTTTTCAATTTATAG
* * * *
3805644 TTTTCAAAAATCAACGCATATTGCGAGAGGTGAGTTGAGTCTCAGG-ACATGCTGAGGTAATTTC
1 TTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGCACATGCTGAGGTATTTTC
3805708 AATTTCTGTTT
66 AATTTCTGTTT
3805719 GTCAAAAATT
Statistics
Matches: 290, Mismatches: 38, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
86 25 0.09
87 2 0.01
88 105 0.36
89 77 0.27
90 7 0.02
91 69 0.24
92 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (90 bp):
TTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGCACATGCTGAGGTATTTTC
AATTTCTGTTTTTTTCAATTTATAG
Found at i:3805750 original size:73 final size:72
Alignment explanation
Indices: 3805643--3805834 Score: 285
Period size: 73 Copynumber: 2.6 Consensus size: 72
3805633 TTCAATTCAC
* * *
3805643 GTTTTCAAAAATCAACGCATATTGCGAGAGGTGAGTTGAGTCTCAGGACATGCTGAGGTAATTTC
1 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
3805708 AATTTCT
66 AATTTCT
*
3805715 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 GTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
*
3805780 TAATTTCT
65 CAATTTCT
* *
3805788 GTTCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTTAGCCTC
1 GTT-TTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
3805835 CGCTCACATG
Statistics
Matches: 108, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
72 4 0.04
73 68 0.63
74 1 0.01
75 35 0.32
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (72 bp):
GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
AATTTCT
Found at i:3805938 original size:93 final size:90
Alignment explanation
Indices: 3805777--3805962 Score: 282
Period size: 93 Copynumber: 2.0 Consensus size: 90
3805767 GCTGAGGTAA
* *
3805777 TTTTAATTTCTGTTCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTTAGCCTCCGCTCAC
1 TTTTAATTTCTGTTCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCATCCGCTCAC
* *
3805842 ATGCTGAGGTATTTTTAGTTTCTAT
66 ATGCTGAGGTATTTTCAATTTCTAT
* * *
3805867 TTTTCAATTTTTGTTCTTCAAAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGCT
1 TTTT-AATTTCTGTTCTTC-AAAAA-AATCAACTCATATTGCGAAAGGTGAGTTGAGCATCCGCT
3805932 CACATGCTGAGGTATTTTCAATTTCTAT
63 CACATGCTGAGGTATTTTCAATTTCTAT
3805960 TTT
1 TTT
3805963 GTAAAAAAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
90 4 0.05
91 13 0.15
92 5 0.06
93 64 0.74
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (90 bp):
TTTTAATTTCTGTTCTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCATCCGCTCAC
ATGCTGAGGTATTTTCAATTTCTAT
Found at i:3806219 original size:44 final size:44
Alignment explanation
Indices: 3806152--3806249 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
3806142 TTGCCTCCTC
**
3806152 GAAGTTACAGTGAAGCAGGTTGAAGTTACA-AGTCTTATCTCCCT
1 GAAGTTACAGTGAAGCACATTGAAGTTACAGA-TCTTATCTCCCT
* * *
3806196 GAAGTTGCAGTGGAGCACATTGAAGTTACAGATCTTATCTTCCT
1 GAAGTTACAGTGAAGCACATTGAAGTTACAGATCTTATCTCCCT
*
3806240 GAAGATACAG
1 GAAGTTACAG
3806250 CAGAGGAGCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
44 45 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (44 bp):
GAAGTTACAGTGAAGCACATTGAAGTTACAGATCTTATCTCCCT
Found at i:3807699 original size:3 final size:3
Alignment explanation
Indices: 3807693--3807845 Score: 55
Period size: 3 Copynumber: 48.7 Consensus size: 3
3807683 TTTTTTAATG
* * * *
3807693 TAT TAT TAT TACT AAT TAT TAT TAT TAC TAG TAT TGT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
3807739 TAA TCT TAGT GTAT GTTT TAT TAT ACAT GTAT GTA- TAT ATAT TTT TAT
1 TAT TAT TA-T -TAT -TAT TAT TAT -TAT -TAT -TAT TAT -TAT TAT TAT
* * *
3807787 ATAT CGTAT TAT T-T TAAT TAC T-T TAT T-C TAA TAT TAT TA- TAT TAT
1 -TAT --TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3807832 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
3807846 CATTTATTTT
Statistics
Matches: 113, Mismatches: 24, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
2 8 0.07
3 78 0.69
4 22 0.19
5 5 0.04
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:3807865 original size:24 final size:22
Alignment explanation
Indices: 3807818--3807901 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 22
3807808 TTTATTCTAA
*
3807818 TATTATTATATTATTATTAT---
1 TATTATTAT-TTATTTTTATCCC
3807838 TATTATTACATTTATTTTTATCCC
1 TATTATT--ATTTATTTTTATCCC
3807862 TATTA-TATTTATTATTT-TCCC
1 TATTATTATTTATT-TTTATCCC
3807883 TATTATTA-TTATTTTTATC
1 TATTATTATTTATTTTTATC
3807902 ATTATTATAC
Statistics
Matches: 55, Mismatches: 1, Indels: 15
0.77 0.01 0.21
Matches are distributed among these distances:
20 10 0.18
21 32 0.58
22 7 0.13
23 1 0.02
24 5 0.09
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTATTATTTATTTTTATCCC
Found at i:3808072 original size:16 final size:15
Alignment explanation
Indices: 3808044--3808081 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
3808034 TATATTATGT
3808044 ATATTATTTTTTTAA
1 ATATTATTTTTTTAA
*
3808059 ATATTATATTTTTTAT
1 ATATTAT-TTTTTTAA
3808075 ATATTAT
1 ATATTAT
3808082 GTAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATTATTTTTTTAA
Found at i:3808075 original size:29 final size:30
Alignment explanation
Indices: 3808007--3808081 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 30
3807997 CTTCATTAAT
3808007 TTTTTTAT-TTATTATTTTAAATACTCTTATA
1 TTTTTTATATTATTATTTTAAATA--CTTATA
* * *
3808038 TTATGTATATTATTTTTTTAAATA-TTATA
1 TTTTTTATATTATTATTTTAAATACTTATA
3808067 TTTTTTATA-TATTAT
1 TTTTTTATATTATTAT
3808082 GTAAATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
28 5 0.14
29 12 0.32
31 6 0.16
32 14 0.38
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (30 bp):
TTTTTTATATTATTATTTTAAATACTTATA
Found at i:3808081 original size:31 final size:30
Alignment explanation
Indices: 3808001--3808081 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 30
3807991 CTCATTCTTC
3808001 ATTA-ATTTTTTTAT-TTATTATTTTAAAT
1 ATTATATTTTTTTATATTATTATTTTAAAT
* * *
3808029 ACTCT-TATATTATGTATATTATTTTTTTAAAT
1 A-T-TATAT-TTTTTTATATTATTATTTTAAAT
3808061 ATTATATTTTTTATATATTAT
1 ATTATATTTTTT-TATATTAT
3808082 GTAAATTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
28 1 0.02
29 1 0.02
30 7 0.17
31 18 0.44
32 14 0.34
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (30 bp):
ATTATATTTTTTTATATTATTATTTTAAAT
Found at i:3808454 original size:26 final size:26
Alignment explanation
Indices: 3808404--3808497 Score: 91
Period size: 26 Copynumber: 3.7 Consensus size: 26
3808394 ATACTATATC
* * * *
3808404 ATATTTTTTTATATTATCTTCTGTAT
1 ATATTTTTTAATACTATATTATGTAT
3808430 ATATTTTTTAATACTATATTATGTAT
1 ATATTTTTTAATACTATATTATGTAT
* * ** *
3808456 GTATTTTTCAACGCCATATTATGTAT
1 ATATTTTTTAATACTATATTATGTAT
*
3808482 ATA-TTTTTAATGCTAT
1 ATATTTTTTAATACTAT
3808498 GTATACAATT
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
25 10 0.18
26 45 0.82
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (26 bp):
ATATTTTTTAATACTATATTATGTAT
Found at i:3808513 original size:21 final size:20
Alignment explanation
Indices: 3808475--3808518 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
3808465 AACGCCATAT
* * *
3808475 TATGTATATATTTTTAATGC
1 TATGTATAAATTTGTAATAC
3808495 TATGTATACAATTTGTAATAC
1 TATGTATA-AATTTGTAATAC
3808516 TAT
1 TAT
3808519 TATTACGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (20 bp):
TATGTATAAATTTGTAATAC
Found at i:3808828 original size:6 final size:6
Alignment explanation
Indices: 3808814--3808845 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
3808804 CCCAATACCC
*
3808814 AAAACA AAAAGA AAAAGA AAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
3808846 CCCTAAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.03, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:3809084 original size:26 final size:26
Alignment explanation
Indices: 3809054--3809124 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
3809044 TATTTTGGAG
*
3809054 AGAAGAGATTTTTTTTTTGAGATTTA
1 AGAAGAGATTTTTTTTTTGAGATTCA
3809080 AGAAGAGATTTTTTTTTTGAGATTCA
1 AGAAGAGATTTTTTTTTTGAGATTCA
* *
3809106 AGAGGGGATTTTTCTTTTT
1 AGAAGAGATTTTT-TTTTT
3809125 TTTTTTGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 36 0.88
27 5 0.12
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.49
Consensus pattern (26 bp):
AGAAGAGATTTTTTTTTTGAGATTCA
Found at i:3809872 original size:16 final size:15
Alignment explanation
Indices: 3809841--3809883 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
3809831 CCTTCATTCC
*
3809841 ATTATTATTATTACT
1 ATTATTATTTTTACT
3809856 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
3809872 ATCATTATTTTT
1 ATTATTATTTTT
3809884 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:3811034 original size:40 final size:39
Alignment explanation
Indices: 3810991--3811144 Score: 229
Period size: 40 Copynumber: 3.9 Consensus size: 39
3810981 ATAAAGTATG
*
3810991 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
**
3811031 GTTTTAATTAATAATAAAAACAAAATAGTACCGGGGAATA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
*
3811071 GTTTTAATTAATAATAAAACAAAATAGTAT-GGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
* *
3811109 GTTTTAATTAATAATAAAACAAAGTAGCATGGGGGA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGA
3811145 GTGGAATCAA
Statistics
Matches: 106, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 35 0.33
39 19 0.18
40 52 0.49
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.29
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
Found at i:3811050 original size:78 final size:76
Alignment explanation
Indices: 3810966--3811132 Score: 185
Period size: 78 Copynumber: 2.1 Consensus size: 76
3810956 TTTTTTTATG
* *
3810966 ATAAAAAAAGAGAAAATA-AAGTATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAAT
1 ATAAAAAAAGA-AAAATACAAGAATAGTTTTAATTAATAAT-AAAACAAAATAGTAT-GGGGAAT
*
3811030 GGTTTTAATTAATA
63 AGTTTTAATTAATA
* * ** *
3811044 ATAAAAACAA-AATAGTACCGGGGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGGAGT
1 ATAAAAA-AAGAAAAATA-C-AAGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGGAAT
3811108 AGTTTTAATTAATA
63 AGTTTTAATTAATA
3811122 ATAAAACAAAG
1 ATAAAA-AAAG
3811133 TAGCATGGGG
Statistics
Matches: 75, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
77 4 0.05
78 35 0.47
79 18 0.24
80 18 0.24
ACGTcount: A:0.52, C:0.04, G:0.16, T:0.28
Consensus pattern (76 bp):
ATAAAAAAAGAAAAATACAAGAATAGTTTTAATTAATAATAAAACAAAATAGTATGGGGAATAGT
TTTAATTAATA
Found at i:3815627 original size:14 final size:14
Alignment explanation
Indices: 3815608--3815634 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3815598 TTTACTTTCC
3815608 AGAGAGGTAGAAAG
1 AGAGAGGTAGAAAG
3815622 AGAGAGGTAGAAA
1 AGAGAGGTAGAAA
3815635 AGAAAATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.41, T:0.07
Consensus pattern (14 bp):
AGAGAGGTAGAAAG
Found at i:3823936 original size:204 final size:203
Alignment explanation
Indices: 3823581--3824356 Score: 1372
Period size: 204 Copynumber: 3.8 Consensus size: 203
3823571 AATAGGGCAG
* *
3823581 CATAACAGATCTGGCCTTCAGATG-TTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
3823645 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
65 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAGCAAATCT
3823710 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
129 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
3823775 AGAGCAGACA
194 AGAGCAGACA
3823785 CATAGCAGATCT-GCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
3823849 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
65 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAGCAAATCT
3823914 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
129 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
3823979 AGAGCAGACA
194 AGAGCAGACA
3823989 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATGATTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
3824054 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAGCAAATCTA
65 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAGCAAATCTA
3824119 AGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGA
130 AGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGA
3824184 GAGCAGACA
195 GAGCAGACA
*
3824193 CATAGCAGATCTCGCCTTC--A-GATTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGC
1 CATAGCAGATCTCGCCTTCAGATGATTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
*
3824255 TTACAAGGAACAAATCG-A-ACATAGCTGATTTGGCTTTCACGTGCTTACGA-AAGCAAATCTAA
66 TTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAGCAAATCTAA
* * *
3824317 GATGATTTG-CATCTCTGTATTGTCAGGGAACAAATCGAAG
131 GATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAG
3824357 AAATAGATTT
Statistics
Matches: 562, Mismatches: 7, Indels: 14
0.96 0.01 0.02
Matches are distributed among these distances:
196 28 0.05
197 21 0.04
198 31 0.06
199 1 0.00
200 53 0.09
201 5 0.01
202 1 0.00
203 12 0.02
204 305 0.54
205 105 0.19
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (203 bp):
CATAGCAGATCTCGCCTTCAGATGATTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
TTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAGCAAATCTAA
GATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAG
AGCAGACA
Found at i:3824717 original size:44 final size:42
Alignment explanation
Indices: 3824635--3824870 Score: 168
Period size: 44 Copynumber: 5.6 Consensus size: 42
3824625 CTGTATTGTC
* * * *
3824635 AGGGAACAG-TTGAAAACAGCAGATTTGGCATCCATGTGCTAAT
1 AGGGAACAGATCGAAGATAGCAGA-TTGGCATCCCTGTGCT-AT
* *
3824678 AGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCT-T
1 AGGGAACAGATCGAAGATAGCAGAT-TGGCATCCCTGTGCTAT
* ** * *
3824720 ACGGTGAAGCAGATCAAAGATTTCAGCA-TGGAATCCCTGTGCTTT
1 A-GG-GAA-CAGATCGAAGATAGCAG-ATTGGCATCCCTGTGCTAT
* *
3824765 AGGG-ACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTAT
1 AGGGAACAGA-TCGAAGATAGCAGA-TTGGCATCCCTGTGCTAT
* *
3824807 AGGG-ACA-AGT-GAAGACAGCAGATTGGCATCCCTGTG-TTT
1 AGGGAACAGA-TCGAAGATAGCAGATTGGCATCCCTGTGCTAT
3824846 ATGGGAACAGATCGAAGAT-GCAGAT
1 A-GGGAACAGATCGAAGATAGCAGAT
3824871 CAGAACTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 30
0.75 0.11 0.14
Matches are distributed among these distances:
39 3 0.02
40 19 0.12
41 32 0.20
42 33 0.21
43 13 0.08
44 40 0.25
45 16 0.10
46 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (42 bp):
AGGGAACAGATCGAAGATAGCAGATTGGCATCCCTGTGCTAT
Found at i:3824844 original size:40 final size:41
Alignment explanation
Indices: 3824752--3824851 Score: 150
Period size: 40 Copynumber: 2.4 Consensus size: 41
3824742 TCAGCATGGA
*
3824752 ATCCCTGTGCTTTAGGGACAAGTTGAAGATAGCAGATTTGGC
1 ATCCCTGTG-TTTAGGGACAAGTTGAAGACAGCAGATTTGGC
3824794 ATCCCTGTGTTATAGGGACAAG-TGAAGACAGCAGA-TTGGC
1 ATCCCTGTGTT-TAGGGACAAGTTGAAGACAGCAGATTTGGC
3824834 ATCCCTGTGTTTATGGGA
1 ATCCCTGTGTTTA-GGGA
3824852 ACAGATCGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
39 2 0.04
40 20 0.36
41 14 0.25
42 19 0.35
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (41 bp):
ATCCCTGTGTTTAGGGACAAGTTGAAGACAGCAGATTTGGC
Found at i:3824869 original size:41 final size:41
Alignment explanation
Indices: 3824653--3824870 Score: 146
Period size: 41 Copynumber: 5.1 Consensus size: 41
3824643 GTTGAAAACA
* *
3824653 GCAGATTTGGCATCCATGTGCTAATAGGGAACAGATCGAAGAT
1 GCAGA-TTGGCATCCCTGTGCTTAT-GGGAACAGATCGAAGAT
* * * *
3824696 AGCAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCAAAGATT
1 -GCAGAT-TGGCATCCCTGTGCTTATGG-GAA-CAGATCGAAGA-T
* * *
3824742 TCAGCA-TGGAATCCCTGTGCTT-TAGGG-ACA-AGTTGAAGAT
1 GCAG-ATTGGCATCCCTGTGCTTAT-GGGAACAGA-TCGAAGAT
*
3824782 AGCAGATTTGGCATCCCTGTG-TTATAGGG-ACA-AGT-GAAGACA
1 -GCAGA-TTGGCATCCCTGTGCTTAT-GGGAACAGA-TCGAAGA-T
*
3824824 GCAGATTGGCATCCCTGTGTTTATGGGAACAGATCGAAGAT
1 GCAGATTGGCATCCCTGTGCTTATGGGAACAGATCGAAGAT
3824865 GCAGAT
1 GCAGAT
3824871 CAGAACTCAA
Statistics
Matches: 141, Mismatches: 17, Indels: 35
0.73 0.09 0.18
Matches are distributed among these distances:
40 20 0.14
41 36 0.26
42 30 0.21
43 4 0.03
44 36 0.26
45 13 0.09
46 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (41 bp):
GCAGATTGGCATCCCTGTGCTTATGGGAACAGATCGAAGAT
Found at i:3825916 original size:3 final size:3
Alignment explanation
Indices: 3825908--3825954 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
3825898 TTGCTCTTTG
3825908 TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TA- TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3825953 TA
1 TA
3825955 AATTGGTAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.15
3 35 0.85
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:3825927 original size:11 final size:11
Alignment explanation
Indices: 3825911--3825954 Score: 61
Period size: 11 Copynumber: 3.7 Consensus size: 11
3825901 CTCTTTGTAT
3825911 TATTATTATTA
1 TATTATTATTA
3825922 TATTATTATTA
1 TATTATTATTA
3825933 TTATTATATTATTA
1 -TA-T-TATTATTA
3825947 TATTATTA
1 TATTATTA
3825955 AATTGGTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 16 0.53
12 3 0.10
13 3 0.10
14 8 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTATTATTA
Found at i:3825927 original size:14 final size:14
Alignment explanation
Indices: 3825908--3825954 Score: 73
Period size: 14 Copynumber: 3.6 Consensus size: 14
3825898 TTGCTCTTTG
3825908 TATTATTATTATTA
1 TATTATTATTATTA
3825922 TATTATTATTA-T-
1 TATTATTATTATTA
3825934 TATTA-TATTATTA
1 TATTATTATTATTA
3825947 TATTATTA
1 TATTATTA
3825955 AATTGGTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.17
12 6 0.20
13 6 0.20
14 13 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:3825930 original size:17 final size:17
Alignment explanation
Indices: 3825908--3825954 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
3825898 TTGCTCTTTG
3825908 TATTATTATTATTATAT
1 TATTATTATTATTATAT
3825925 TATTATTATTATTATAT
1 TATTATTATTATTATAT
3825942 TATTA-TATTATTA
1 TATTATTATTATTA
3825955 AATTGGTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 8 0.27
17 22 0.73
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTATTATTATTATAT
Found at i:3826212 original size:16 final size:16
Alignment explanation
Indices: 3826191--3826222 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3826181 CTATTGTTAC
3826191 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
3826207 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
3826223 ATTATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:3826230 original size:3 final size:3
Alignment explanation
Indices: 3826222--3826324 Score: 54
Period size: 3 Copynumber: 34.7 Consensus size: 3
3826212 TTCTCATCAC
*
3826222 TAT TAT TAT ATAT T-T TAT T-T TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
3826266 CTAA TA- TAT CAT CAT TAT CAT TAT T-T CAT TAT AAT TAA TAGA TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
3826311 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
3826325 GAACTACTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 18
0.72 0.12 0.17
Matches are distributed among these distances:
2 9 0.12
3 58 0.74
4 11 0.14
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:3826365 original size:11 final size:12
Alignment explanation
Indices: 3826151--3826366 Score: 70
Period size: 12 Copynumber: 17.5 Consensus size: 12
3826141 TTTACTACCT
3826151 CTATTATGTATTA
1 CTATTAT-TATTA
3826164 CTAATATATTATTA
1 CT-AT-TATTATTA
* *
3826178 CTACTATTGTTA
1 CTATTATTATTA
*
3826190 CTGTTATTATCATCA
1 CTATTATTAT--T-A
* *
3826205 CTTGTTATTCTCATCA
1 C-TATTA-T-T-ATTA
3826221 CTATTATTATATA
1 CTATTATTAT-TA
*
3826234 -TTTTATT-TTA
1 CTATTATTATTA
3826244 CTTATTATT-TTA
1 C-TATTATTATTA
3826256 CTATTATTATCTA
1 CTATTATTAT-TA
* * *
3826269 ATA-TATCATCA
1 CTATTATTATTA
* * *
3826280 TTATCATTATTT
1 CTATTATTATTA
*
3826292 C-ATTATAATTA
1 CTATTATTATTA
* *
3826303 ATAGATATTATTA
1 CTA-TTATTATTA
* **
3826316 TTATTATTAGAA
1 CTATTATTATTA
*
3826328 CTACT-TTATTA
1 CTATTATTATTA
*
3826339 CTATTATTAATA
1 CTATTATTATTA
3826351 -TATTATT-TTA
1 CTATTATTATTA
3826361 CTATTA
1 CTATTA
3826367 ATCGTCATTG
Statistics
Matches: 148, Mismatches: 36, Indels: 40
0.66 0.16 0.18
Matches are distributed among these distances:
10 4 0.03
11 38 0.26
12 57 0.39
13 18 0.12
14 11 0.07
15 9 0.06
16 7 0.05
17 1 0.01
18 1 0.01
19 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.03, T:0.54
Consensus pattern (12 bp):
CTATTATTATTA
Found at i:3826440 original size:20 final size:20
Alignment explanation
Indices: 3826399--3826454 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
3826389 TTATATTATG
* *
3826399 TTATTATTCT-TTTACTATTA
1 TTATTATTATATTTTCTA-TA
* *
3826419 TTATTGTTGTATTTTCTATA
1 TTATTATTATATTTTCTATA
*
3826439 TTGTTATTATATTTTC
1 TTATTATTATATTTTC
3826455 CTTTTTTTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 23 0.79
21 6 0.21
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.66
Consensus pattern (20 bp):
TTATTATTATATTTTCTATA
Found at i:3826736 original size:17 final size:16
Alignment explanation
Indices: 3826709--3826740 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
3826699 TCCTGTTATG
3826709 GTTATCATTTTTATTT
1 GTTATCATTTTTATTT
3826725 GTTATGCATTTTTATT
1 GTTAT-CATTTTTATT
3826741 ATCTCGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.06, G:0.09, T:0.66
Consensus pattern (16 bp):
GTTATCATTTTTATTT
Found at i:3827722 original size:12 final size:12
Alignment explanation
Indices: 3827705--3827729 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3827695 ACCCAAAACC
3827705 CTTAGCCCAAAA
1 CTTAGCCCAAAA
3827717 CTTAGCCCAAAA
1 CTTAGCCCAAAA
3827729 C
1 C
3827730 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:3827814 original size:38 final size:38
Alignment explanation
Indices: 3827763--3827852 Score: 162
Period size: 38 Copynumber: 2.4 Consensus size: 38
3827753 AAACCCTAAT
*
3827763 GCCACCTACTCCACCACCCTTGTTGGCTACCCACCTTG
1 GCCACCTACTCCACCACCCTTGTTGGCCACCCACCTTG
3827801 GCCACCTACTCCACCACCCTTGTTGGCCACCCACCTTG
1 GCCACCTACTCCACCACCCTTGTTGGCCACCCACCTTG
*
3827839 GCCACCTACACCAC
1 GCCACCTACTCCAC
3827853 TATGCCACCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.18, C:0.50, G:0.12, T:0.20
Consensus pattern (38 bp):
GCCACCTACTCCACCACCCTTGTTGGCCACCCACCTTG
Found at i:3828106 original size:9 final size:9
Alignment explanation
Indices: 3828094--3828118 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
3828084 TTTTCTTCTT
3828094 TTTTTTTTA
1 TTTTTTTTA
3828103 TTTTTTTTA
1 TTTTTTTTA
3828112 TTTTTTT
1 TTTTTTT
3828119 GAATCTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:3828927 original size:22 final size:22
Alignment explanation
Indices: 3828902--3828943 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
3828892 TAACGTGCTA
* *
3828902 TTATTACTATTATTTTTATTTG
1 TTATTACCATTATTGTTATTTG
3828924 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
3828944 GTAATTATAT
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:0.24, C:0.07, G:0.05, T:0.64
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTG
Found at i:3831089 original size:12 final size:12
Alignment explanation
Indices: 3831072--3831099 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3831062 TTTTTTTAAA
3831072 ATATATAAAATT
1 ATATATAAAATT
3831084 ATATATAAAATT
1 ATATATAAAATT
3831096 ATAT
1 ATAT
3831100 TAACATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATATAAAATT
Found at i:3836997 original size:22 final size:22
Alignment explanation
Indices: 3836952--3836998 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
3836942 AATTGATTTA
*
3836952 AATAAAAAATTGATTTAAATTC
1 AATAAAAAATTGATTCAAATTC
3836974 AATAAAAAATTGAATTCAAA-TC
1 AATAAAAAATTG-ATTCAAATTC
3836996 AAT
1 AAT
3836999 TTTCAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.32
Consensus pattern (22 bp):
AATAAAAAATTGATTCAAATTC
Found at i:3841521 original size:38 final size:38
Alignment explanation
Indices: 3841479--3841554 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
3841469 AGTAACGGAG
3841479 ATAGGGCGATGCGCATTCCATTGCCTGGTTTGTCACAT
1 ATAGGGCGATGCGCATTCCATTGCCTGGTTTGTCACAT
3841517 ATAGGGCGATGCGCATTCCATTGCCTGGTTTGTCACAT
1 ATAGGGCGATGCGCATTCCATTGCCTGGTTTGTCACAT
3841555 TTTCGACAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (38 bp):
ATAGGGCGATGCGCATTCCATTGCCTGGTTTGTCACAT
Found at i:3842391 original size:157 final size:155
Alignment explanation
Indices: 3842074--3842360 Score: 387
Period size: 157 Copynumber: 1.8 Consensus size: 155
3842064 AAAAAAGAAT
* *
3842074 TTTTTTCCCCTTAATTGAGACAGAATAGAAGAAATTGTGAAAACTGAAAAACAAAGAGTGAAAAC
1 TTTTTTCCCCTTAATTGAGACAGAATACAAGAAAATGTGAAAACTGAAAAACAAAGAGTGAAAAC
*
3842139 GATCAGAAACACAGATTTGAGAATTTGAAAGCAAAAAACAATTCGGATGATGAAAAAACAATGGA
66 GATCAGAAACACAGATTTGAGAATTTGAAAGCAAAAAACAATTCGGATGAAGAAAAAACAATGGA
* * * ** *
3842204 TTGGAAAGCAGGTTT-TTTTTTTGTT
131 TAGGAAAG-AGGTTTACTTTATAATG
* * *
3842229 TTTTTTTCCCTTAATTGACAGACAGAATACAAGAAAATGTGAAAATTGAAAAACAAAGAGTGGAA
1 TTTTTTCCCCTTAATTG--AGACAGAATACAAGAAAATGTGAAAACTGAAAAACAAAGAGTGAAA
* * * *
3842294 ATGATCAGAAACACAGATTTGAGAATTTGAAAGCAAAAAAGACTTTTGGATGAAGAAAAAACAAT
64 ACGATCAGAAACACAGATTTGAGAATTTGAAAGCAAAAAACA-ATTCGGATGAAGAAAAAACAAT
3842359 GG
128 GG
3842361 CAAGTCTTGG
Statistics
Matches: 119, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
155 16 0.13
157 82 0.69
158 21 0.18
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.25
Consensus pattern (155 bp):
TTTTTTCCCCTTAATTGAGACAGAATACAAGAAAATGTGAAAACTGAAAAACAAAGAGTGAAAAC
GATCAGAAACACAGATTTGAGAATTTGAAAGCAAAAAACAATTCGGATGAAGAAAAAACAATGGA
TAGGAAAGAGGTTTACTTTATAATG
Found at i:3849508 original size:19 final size:20
Alignment explanation
Indices: 3849479--3849518 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3849469 ATTTAGTCTT
**
3849479 AATTATAAAAAGTATTAAAA
1 AATTATAAAAAAAATTAAAA
3849499 AATT-TAAAAAAAATTAAAA
1 AATTATAAAAAAAATTAAAA
3849518 A
1 A
3849519 GAAAGTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
AATTATAAAAAAAATTAAAA
Found at i:3849976 original size:20 final size:20
Alignment explanation
Indices: 3849948--3849989 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3849938 AAGGTAAATA
3849948 TAAAAATATTTTAATA-TTTT
1 TAAAAATATTTT-ATACTTTT
*
3849968 TAAATATATTTTATACTTTT
1 TAAAAATATTTTATACTTTT
3849988 TA
1 TA
3849990 GAATTCGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TAAAAATATTTTATACTTTT
Found at i:3852982 original size:30 final size:30
Alignment explanation
Indices: 3852928--3852990 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
3852918 TGACGAAAAT
* *
3852928 ATGAGAGAATAAGAAACGTAAATAACTAAGTA
1 ATGAGAAAATAAGAAAAGTAAATAA-TAA-TA
3852960 ATGAGAAAATAA-AAAAGT-AATAATAATA
1 ATGAGAAAATAAGAAAAGTAAATAATAATA
3852988 ATG
1 ATG
3852991 CAATGATAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 5 0.17
29 3 0.10
30 5 0.17
31 5 0.17
32 11 0.38
ACGTcount: A:0.60, C:0.03, G:0.16, T:0.21
Consensus pattern (30 bp):
ATGAGAAAATAAGAAAAGTAAATAATAATA
Found at i:3862513 original size:19 final size:19
Alignment explanation
Indices: 3862489--3862525 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
3862479 AGAAGATTAT
3862489 CAATTGTGACAAATAAAAG
1 CAATTGTGACAAATAAAAG
3862508 CAATTGTGACAAATAAAA
1 CAATTGTGACAAATAAAA
3862526 TGGAATGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.22
Consensus pattern (19 bp):
CAATTGTGACAAATAAAAG
Found at i:3864700 original size:16 final size:15
Alignment explanation
Indices: 3864679--3864726 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
3864669 GATGTGAATA
3864679 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
3864695 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
3864710 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
3864726 A
1 A
3864727 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:3864702 original size:24 final size:24
Alignment explanation
Indices: 3864675--3864730 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
3864665 TAATGATGTG
*
3864675 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
3864699 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
3864723 AATAATAA
1 AATAATAA
3864731 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:3864709 original size:8 final size:8
Alignment explanation
Indices: 3864675--3864726 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3864665 TAATGATGTG
*
3864675 AATAATAA
1 AATATTAA
3864683 AATATATAA
1 AATAT-TAA
3864692 AATA-TAA
1 AATATTAA
3864699 AATATTAA
1 AATATTAA
*
3864707 AATATCAA
1 AATATTAA
*
3864715 AATATTAG
1 AATATTAA
3864723 AATA
1 AATA
3864727 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:3864902 original size:25 final size:25
Alignment explanation
Indices: 3864874--3865085 Score: 147
Period size: 25 Copynumber: 8.7 Consensus size: 25
3864864 TAAATACGTG
*
3864874 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
* *
3864899 ATAGTGTTAAAAATACATACATAAT
1 ATAGTATTAAAAATATATACATAAT
* *
3864924 ATAG--TT-AAGATATATACATAAG
1 ATAGTATTAAAAATATATACATAAT
** *
3864946 ATAACATGTAAAATATATATAAATAAT
1 ATAGTAT-TAAAA-ATATATACATAAT
* * *
3864973 ATAATATTAAAGATATATACATAAA
1 ATAGTATTAAAAATATATACATAAT
* *
3864998 ATAGTA-TAATATATATATACGTAAT
1 ATAGTATTAA-AAATATATACATAAT
* * *
3865023 ATAGAATT-TAAA-ATATACCT-A-
1 ATAGTATTAAAAATATATACATAAT
*
3865044 ATA-TATTAAAAGA-ATATATATAAT
1 ATAGTATTAAAA-ATATATACATAAT
*
3865068 ATAATATTAAGAAATATA
1 ATAGTATTAA-AAATATA
3865086 ATAATAACAA
Statistics
Matches: 147, Mismatches: 26, Indels: 27
0.74 0.13 0.14
Matches are distributed among these distances:
20 3 0.02
21 5 0.03
22 24 0.16
23 10 0.07
24 9 0.06
25 67 0.46
26 12 0.08
27 17 0.12
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:3865000 original size:27 final size:26
Alignment explanation
Indices: 3864930--3865000 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
3864920 TAATATAGTT
*
3864930 AAGATATATACATAAGATAACATGTAA
1 AAGATATATACATAAAATAACATGT-A
* * * *
3864957 AATATATATAAATAATATAATAT-TA
1 AAGATATATACATAAAATAACATGTA
3864982 AAGATATATACATAAAATA
1 AAGATATATACATAAAATA
3865001 GTATAATATA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 17 0.46
26 1 0.03
27 19 0.51
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
AAGATATATACATAAAATAACATGTA
Found at i:3865635 original size:29 final size:30
Alignment explanation
Indices: 3865581--3865753 Score: 296
Period size: 30 Copynumber: 5.8 Consensus size: 30
3865571 TAGGTACAAG
*
3865581 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
3865611 TGGTGGTGGAAAAAG-GTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
3865640 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
3865670 TGGTGGTGGAAAA-GAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
3865699 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
3865729 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
3865754 TGAGAAAAGT
Statistics
Matches: 135, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
29 56 0.41
30 79 0.59
ACGTcount: A:0.21, C:0.03, G:0.50, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:3865673 original size:59 final size:60
Alignment explanation
Indices: 3865581--3865753 Score: 314
Period size: 59 Copynumber: 2.9 Consensus size: 60
3865571 TAGGTACAAG
*
3865581 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAG-GTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
3865640 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGG-AAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
3865699 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
3865754 TGAGAAAAGT
Statistics
Matches: 110, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
58 5 0.05
59 91 0.83
60 14 0.13
ACGTcount: A:0.21, C:0.03, G:0.50, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:3866523 original size:14 final size:14
Alignment explanation
Indices: 3866504--3866552 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
3866494 GAGTTGATTT
* *
3866504 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
3866518 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
* *
3866532 TTGAAAAGCAAAAA
1 TTGAAAAACAGAAA
3866546 TT-AAAAA
1 TTGAAAAA
3866553 GACCTCAGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 4 0.13
14 26 0.87
ACGTcount: A:0.65, C:0.04, G:0.10, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:3866692 original size:75 final size:75
Alignment explanation
Indices: 3866569--3866821 Score: 339
Period size: 76 Copynumber: 3.4 Consensus size: 75
3866559 AGCATGTGAG
* * *
3866569 CCGAGACTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTGACAAACAGAAATTGAAATTACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACC
3866632 TCAGCGTGTC
66 TCAGCGTGTC
* * * *
3866642 CCGAGGCTCAACTCACCTTTCGAAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAA-TTGAAAATAC
3866707 CTCAGCGTGTC
65 CTCAGCGTGTC
* * * *
3866718 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACGAACAGAAATTGAAAAGACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACC
**
3866783 TCAGCATGTGAG
66 TCAGC--GTGTC
*
3866795 CCAAGGCTCAACTCACCTCTCGCAATA
1 CCGAGGCTCAACTCACCTCTCGCAATA
3866822 AGGTTAATTT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
73 30 0.19
74 1 0.01
75 30 0.19
76 67 0.43
77 28 0.18
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (75 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACC
TCAGCGTGTC
Found at i:3866832 original size:76 final size:75
Alignment explanation
Indices: 3866543--3866832 Score: 336
Period size: 76 Copynumber: 3.8 Consensus size: 75
3866533 TGAAAAGCAA
*
3866543 AAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATATGAGTTAA--TT
1 AAATTAAAAAGACCTCAGC--GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
3866606 TTTGACAAACAG
64 TTTGACAAACAG
* ** ** * * *
3866618 AAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGAAATATGAGTTGATTTTTT
1 AAATTAAAAAGACCTCAGCGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTT
*
3866683 TGAAAAACAG
66 TGACAAACAG
* * *
3866693 AAATTTAAAAATACCTCAGCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAA-TTAAAAAGACCTCAGCGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
* *
3866757 TTTTACGAACAG
64 TTTGACAAACAG
* * *
3866769 AAATTGAAAAGACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATAAG-GTTAATTTT
1 AAATTAAAAAGACCTCAGC--GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
3866833 GAAAATACCT
Statistics
Matches: 184, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
73 34 0.18
75 48 0.26
76 72 0.39
77 28 0.15
78 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (75 bp):
AAATTAAAAAGACCTCAGCGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTT
TGACAAACAG
Found at i:3866944 original size:14 final size:14
Alignment explanation
Indices: 3866905--3866944 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
3866895 TGAAAAATAT
*
3866905 AAATTAAAAAAACAG
1 AAATT-AAAAAGCAG
*
3866920 AAATTGAAAAGCAG
1 AAATTAAAAAGCAG
3866934 AAATTAAAAAG
1 AAATTAAAAAG
3866945 ACCTCAGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (14 bp):
AAATTAAAAAGCAG
Found at i:3867094 original size:14 final size:14
Alignment explanation
Indices: 3867072--3867103 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3867062 AGTTGATTTT
3867072 AAAAACAGAAATTG
1 AAAAACAGAAATTG
*
3867086 AAAACCAGAAATTG
1 AAAAACAGAAATTG
3867100 AAAA
1 AAAA
3867104 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.09, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAAACAGAAATTG
Found at i:3867132 original size:160 final size:160
Alignment explanation
Indices: 3866912--3867231 Score: 487
Period size: 160 Copynumber: 2.0 Consensus size: 160
3866902 TATAAATTAA
* *
3866912 AAAAACAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACC
1 AAAAACAGAAATTGAAAACCAGAAATTAAAAAGACCTCAGCATGTGAGCCAAGACTCAACTCACC
* * * ** *
3866977 TCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCCGAGGCTC
66 TCTCGCAATATGAGCTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTC
3867042 AACTCACCTCTCGCAATATGAGTTGATTTT
131 AACTCACCTCTCGCAATATGAGTTGATTTT
* * * *
3867072 AAAAACAGAAATTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACC
1 AAAAACAGAAATTGAAAACCAGAAATTAAAAAGACCTCAGCATGTGAGCCAAGACTCAACTCACC
* ** * *
3867137 TCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTC
66 TCTCGCAATATGAGCTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTC
3867202 AACTCACCTCTCGCAATATGAGTTGATTTT
131 AACTCACCTCTCGCAATATGAGTTGATTTT
3867232 TTTGAAAATC
Statistics
Matches: 143, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
160 143 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (160 bp):
AAAAACAGAAATTGAAAACCAGAAATTAAAAAGACCTCAGCATGTGAGCCAAGACTCAACTCACC
TCTCGCAATATGAGCTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTT
Found at i:3867158 original size:87 final size:85
Alignment explanation
Indices: 3866998--3867158 Score: 225
Period size: 87 Copynumber: 1.9 Consensus size: 85
3866988 GAGTTGATTT
* * *
3866998 TTGACAAACAGAAATTGAAATTACCTCAGTGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGA
* *
3867063 GTTGATTTTAAAAACAGAAA
66 GCTAATTTTAAAAACAGAAA
* *
3867083 TTGA-AAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATA
1 TTGACAAA-CAGAAATTGAAAATACCTCA--GTGTGACCCAAGGCTCAACTCACCTCTCGCAATA
3867147 TGAGCTAATTTT
63 TGAGCTAATTTT
3867159 TGATGAACAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
84 3 0.05
85 23 0.35
87 40 0.61
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (85 bp):
TTGACAAACAGAAATTGAAAATACCTCAGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGA
GCTAATTTTAAAAACAGAAA
Found at i:3875548 original size:12 final size:12
Alignment explanation
Indices: 3875528--3875563 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
3875518 TGGGATATGC
*
3875528 AATGTATGAATG
1 AATGCATGAATG
3875540 AATGCATGAATG
1 AATGCATGAATG
3875552 AATGCATGAATG
1 AATGCATGAATG
3875564 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:3877112 original size:8 final size:8
Alignment explanation
Indices: 3877087--3877138 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3877077 TAATGATGTG
*
3877087 AATAATAA
1 AATATTAA
3877095 AATATATAA
1 AATAT-TAA
3877104 AATATT-A
1 AATATTAA
3877111 AATATTAA
1 AATATTAA
*
3877119 AATATCAA
1 AATATTAA
*
3877127 AATATTAG
1 AATATTAA
3877135 AATA
1 AATA
3877139 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (8 bp):
AATATTAA
Found at i:3877114 original size:24 final size:24
Alignment explanation
Indices: 3877086--3877142 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
3877076 ATAATGATGT
*
3877086 GAATAATAAAATATATAAAATATTA
1 GAATAATAAAATAT-CAAAATATTA
*
3877111 -AATATTAAAATATCAAAATATTA
1 GAATAATAAAATATCAAAATATTA
3877134 GAATAATAA
1 GAATAATAA
3877143 TAATTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (24 bp):
GAATAATAAAATATCAAAATATTA
Found at i:3877319 original size:25 final size:25
Alignment explanation
Indices: 3877285--3877406 Score: 117
Period size: 25 Copynumber: 5.0 Consensus size: 25
3877275 TAAATACGTA
* *
3877285 ATAATATTAAAAATATGTACATAAT
1 ATAATGTTAAAAATATATACATAAT
* *
3877310 ATAGTGTTAAAAATACATACATAAT
1 ATAATGTTAAAAATATATACATAAT
* *
3877335 AT-A-GTT-AAGATATATACATAAG
1 ATAATGTTAAAAATATATACATAAT
*
3877357 ATAACATG-TAAAAATATATATATAAT
1 AT-A-ATGTTAAAAATATATACATAAT
* *
3877383 ATAATATTAAAGATATATACATAA
1 ATAATGTTAAAAATATATACATAA
3877407 AATAGTATAA
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
22 15 0.19
23 3 0.04
24 2 0.03
25 41 0.53
26 16 0.21
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (25 bp):
ATAATGTTAAAAATATATACATAAT
Found at i:3877423 original size:25 final size:22
Alignment explanation
Indices: 3877369--3877424 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
3877359 AACATGTAAA
*
3877369 AATATATATATAATATAATATT
1 AATATATATATAATAAAATATT
*
3877391 AA-AGATATATACATAAAATAGTAT
1 AATATATATATA-ATAAAATA-T-T
3877415 AATATATATA
1 AATATATATA
3877425 CGTAATATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 8 0.30
22 9 0.33
23 1 0.04
24 3 0.11
25 6 0.22
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
AATATATATATAATAAAATATT
Found at i:3877444 original size:73 final size:71
Alignment explanation
Indices: 3877278--3877447 Score: 189
Period size: 73 Copynumber: 2.4 Consensus size: 71
3877268 AAAAAAATAA
* * * * *
3877278 ATACGTAATA-ATATTAAAAATATGTACATAATATAGTGTTAAAAATACATACATAATATAGTTA
1 ATACGTAATATAAATTAAAAATATATACATAATATAATATTAAAAATACATACATAAAATAGTTA
3877342 AGATAT
66 AGATAT
* * * * *
3877348 ATACATAAGATAACATGTAAAAATATATATATAATATAATATTAAAGATATATACATAAAATAGT
1 ATACGTAATATAA-AT-TAAAAATATATACATAATATAATATTAAAAATACATACATAAAATAGT
*
3877413 ATAATATAT
64 -TAAGATAT
*
3877422 ATACGTAATATAGAATTTAAAATATA
1 ATACGTAATATA-AATTAAAAATATA
3877448 CCTAATATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
70 8 0.10
71 1 0.01
72 2 0.02
73 50 0.62
74 19 0.23
75 1 0.01
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (71 bp):
ATACGTAATATAAATTAAAAATATATACATAATATAATATTAAAAATACATACATAAAATAGTTA
AGATAT
Found at i:3877446 original size:25 final size:25
Alignment explanation
Indices: 3877294--3877447 Score: 99
Period size: 25 Copynumber: 6.3 Consensus size: 25
3877284 AATAATATTA
* ** *
3877294 AAAATATGTACATAATATAGTGTTA
1 AAAATATATACATAATATAGAATTT
*
3877319 AAAATACATACATAATATAG---TT
1 AAAATATATACATAATATAGAATTT
* * *
3877341 AAGATATATACATAAGATA-ACATGTA
1 AAAATATATACATAATATAGA-AT-TT
*
3877367 AAAATATATATATAATAT--AATATT
1 AAAATATATACATAATATAGAAT-TT
* *
3877391 AAAGATATATACATAAAATAG--TAT
1 AAA-ATATATACATAATATAGAATTT
* *
3877415 AATATATATACGTAATATAGAATTT
1 AAAATATATACATAATATAGAATTT
3877440 AAAATATA
1 AAAATATA
3877448 CCTAATATAT
Statistics
Matches: 99, Mismatches: 20, Indels: 20
0.71 0.14 0.14
Matches are distributed among these distances:
22 17 0.17
23 15 0.15
24 9 0.09
25 42 0.42
26 16 0.16
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (25 bp):
AAAATATATACATAATATAGAATTT
Found at i:3877497 original size:23 final size:24
Alignment explanation
Indices: 3877285--3877499 Score: 117
Period size: 23 Copynumber: 9.0 Consensus size: 24
3877275 TAAATACGTA
3877285 ATAATATTAA-AAATATGTACATAAT
1 ATAATATTAAGAAATA--TACATAAT
* *
3877310 ATAGTGTTAA-AAATACATACATAAT
1 ATAATATTAAGAAAT--ATACATAAT
* * *
3877335 AT-A-GTTAAGATATATACATAAG
1 ATAATATTAAGAAATATACATAAT
* * *
3877357 ATAACATGTAAAAATATATATATAAT
1 ATAATAT-TAAGAA-ATATACATAAT
* *
3877383 ATAATATTAAAGATATATACATAAA
1 ATAATATT-AAGAAATATACATAAT
* * * *
3877408 ATAGTA-TAATATATATACGTAAT
1 ATAATATTAAGAAATATACATAAT
* *
3877431 ATAGA-ATTTA-AAATATACCTAAT
1 ATA-ATATTAAGAAATATACATAAT
* * *
3877454 ATATTA-AAAG-AATATATATAAT
1 ATAATATTAAGAAATATACATAAT
3877476 ATAATATTAAGAAATATA-ATAAT
1 ATAATATTAAGAAATATACATAAT
3877499 A
1 A
3877500 ACAAAAAAGG
Statistics
Matches: 146, Mismatches: 30, Indels: 30
0.71 0.15 0.15
Matches are distributed among these distances:
22 26 0.18
23 47 0.32
24 13 0.09
25 41 0.28
26 18 0.12
27 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (24 bp):
ATAATATTAAGAAATATACATAAT
Found at i:3878026 original size:30 final size:30
Alignment explanation
Indices: 3877990--3878074 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
3877980 TAGGTACAAG
*
3877990 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
3878020 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
3878050 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
3878075 TGAGAAAAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.20, C:0.04, G:0.51, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:3880096 original size:22 final size:22
Alignment explanation
Indices: 3880069--3880125 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
3880059 CGGGGTGACA
3880069 ACACAGGCGTGTGACCTAGGCC
1 ACACAGGCGTGTGACCTAGGCC
3880091 ACACAGGCGTGTGACCTAGGCC
1 ACACAGGCGTGTGACCTAGGCC
3880113 ACACAGGCGTGTG
1 ACACAGGCGTGTG
3880126 GTACTGTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.23, C:0.30, G:0.33, T:0.14
Consensus pattern (22 bp):
ACACAGGCGTGTGACCTAGGCC
Found at i:3892151 original size:6 final size:6
Alignment explanation
Indices: 3892142--3892208 Score: 127
Period size: 6 Copynumber: 11.3 Consensus size: 6
3892132 TGTCTTTAGA
3892142 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
3892190 TTTATT TTTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TT
3892209 ATCCTTATAT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.08
6 55 0.92
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:3900419 original size:15 final size:15
Alignment explanation
Indices: 3900399--3900447 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
3900389 AATAACGACC
**
3900399 ATTTAAAATTTTAAA
1 ATTTAAAAAATTAAA
3900414 ATTTAAAAAATTAAA
1 ATTTAAAAAATTAAA
* *
3900429 AATTAAAAATAATAAA
1 ATTTAAAAA-ATTAAA
3900445 ATT
1 ATT
3900448 AAAGAAAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 21 0.75
16 7 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTTAAAAAATTAAA
Found at i:3900830 original size:20 final size:20
Alignment explanation
Indices: 3900787--3900831 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
3900777 TTCATTTTTT
*
3900787 TATTTTTTTAATATTTTCTG
1 TATTTTTTGAATATTTTCTG
3900807 -ATTTTTTGAA-ATTCTTCTG
1 TATTTTTTGAATATT-TTCTG
3900826 TATTTT
1 TATTTT
3900832 ATCTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.14
19 14 0.64
20 5 0.23
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (20 bp):
TATTTTTTGAATATTTTCTG
Found at i:3905135 original size:23 final size:21
Alignment explanation
Indices: 3905097--3905139 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3905087 AGATTTTAAT
*
3905097 AATTAAAAACATTAAATATTA
1 AATTAAAAAAATTAAATATTA
3905118 AATTAAAAATAATATAAATATT
1 AATTAAAAA-AAT-TAAATATT
3905140 TCAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 2 0.11
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AATTAAAAAAATTAAATATTA
Found at i:3906308 original size:3 final size:3
Alignment explanation
Indices: 3906300--3906331 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3906290 ATATAGATAG
3906300 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3906332 GGTAGTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3907734 original size:20 final size:20
Alignment explanation
Indices: 3907705--3907747 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3907695 GTTCCTGCTC
* * *
3907705 TGCTTTGTTTCTGTCTTGTT
1 TGCTTCGTTTCTATCTCGTT
3907725 TGCTTCGTTTCTATCTCGTT
1 TGCTTCGTTTCTATCTCGTT
3907745 TGC
1 TGC
3907748 AGGCGTTGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.02, C:0.21, G:0.19, T:0.58
Consensus pattern (20 bp):
TGCTTCGTTTCTATCTCGTT
Found at i:3920947 original size:350 final size:341
Alignment explanation
Indices: 3920288--3920947 Score: 907
Period size: 350 Copynumber: 1.9 Consensus size: 341
3920278 TACTTATATT
* *
3920288 ACTGTTACAAATTCTTAGGCTTAATTCTATGATTTTATTTTATTTTTTCTTTATTTAGACTTGTT
1 ACTGTTACAAACTCTTAGGCTTAATTCTAGGATTTTATTTTATTTTTTCTTTATTTAGACTTGTT
3920353 GTGAATATAAAAATAGATAAATCATGTTAGAGTTTATATTAATGCCTACTTCTTTACCTAGTTAA
66 GTGAATATAAAAATAGATAAATCATGTTAGAGTTTATATTAATGCCTACTTCTTTACCTAGTTAA
* *
3920418 ACTCTTGTAACTTGTACAATGTTCCCATGAGTAAATCTATGAGGTTTTCTTTCAAATTCTACTTT
131 ACTCTTGTAACTTGTACAATGTTCCCATGAGTAAATCTATAAGGTTTTCTCTCAAATTCTACTTT
* *
3920483 CGTTACATGGAATCAAAGCTAAGGGATCGATTTTAGAGTATAAGTCTCATCGAATTAATCGCAAA
196 CATTACATGGAATCAAAGCTAAGGGATCAATTTTAGAGTATAAGTCTCATCGAATTAATCGCAAA
* **
3920548 ATAGTGAGTTTTTAGGGTATTTTCGTTAACTACCAAGGGTTGTCCTTTTTATCTCACCACCAGCC
261 ATAGCGAGTTTAGAGGGTATTTTCGTTAACTACCAAGGGTTGTCCTTTTTATCTCACCACCAGCC
3920613 TAGGGAGGTGCGCAAG
326 TAGGGAGGTGCGCAAG
3920629 ACTGTTACAAACTCTTAGGCTTAATTCTAGGATTTTATTTTATTTTCTT-TTCGTATTTAGACTT
1 ACTGTTACAAACTCTTAGGCTTAATTCTAGGATTTTATTTTATTTT-TTCTT--TATTTAGACTT
* * * * * **
3920693 GTTGTGAATATAATATTAGATATATCATGTTCGGGTTTATATTAACT-TTTACTTCTTT-CTCTA
63 GTTGTGAATATAAAAATAGATAAATCATGTTAGAGTTTATATTAA-TGCCTACTTCTTTAC-CTA
* *
3920756 GTTAAACTCTTGTAACTTGTATATATGTAAATATTCCCATGTGTAAATCTATAAGGTTTTCTCTC
126 GTTAAACTCTTGTAACTTGTACA-ATG------TTCCCATGAGTAAATCTATAAGGTTTTCTCTC
* ** * * * *
3920821 AAATTCTACTTTCATTACATGGTA-CTGGAGCTAAGGGATCAATTTTAGAGTCTGAGTTTCATTG
184 AAATTCTACTTTCATTACATGGAATC-AAAGCTAAGGGATCAATTTTAGAGTATAAGTCTCATCG
* * *
3920885 AATTTATCGCAAAATAGCGAGTTCTAGAGGGTATTTTTGTTGACTACCAAGGGTTG-CCTTTTT
248 AATTAATCGCAAAATAGCGAGTT-TAGAGGGTATTTTCGTTAACTACCAAGGGTTGTCCTTTTT
3920948 TAATCTCATC
Statistics
Matches: 277, Mismatches: 28, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
341 46 0.17
342 3 0.01
343 85 0.31
344 4 0.01
349 1 0.00
350 110 0.40
351 28 0.10
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (341 bp):
ACTGTTACAAACTCTTAGGCTTAATTCTAGGATTTTATTTTATTTTTTCTTTATTTAGACTTGTT
GTGAATATAAAAATAGATAAATCATGTTAGAGTTTATATTAATGCCTACTTCTTTACCTAGTTAA
ACTCTTGTAACTTGTACAATGTTCCCATGAGTAAATCTATAAGGTTTTCTCTCAAATTCTACTTT
CATTACATGGAATCAAAGCTAAGGGATCAATTTTAGAGTATAAGTCTCATCGAATTAATCGCAAA
ATAGCGAGTTTAGAGGGTATTTTCGTTAACTACCAAGGGTTGTCCTTTTTATCTCACCACCAGCC
TAGGGAGGTGCGCAAG
Found at i:3922835 original size:42 final size:42
Alignment explanation
Indices: 3922788--3922876 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
3922778 TCCTAATTGG
*
3922788 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
3922830 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
3922872 TAAAA
1 GAAAA
3922877 ATATTTCTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:3922896 original size:43 final size:42
Alignment explanation
Indices: 3922803--3922898 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
3922793 TAGTTCCCTT
* * ***
3922803 ATTCTAATAAACTACTAAAATATAAAAGAAAATAGTTCTCTT
1 ATTCTAATAAACTACTAAAAGATAAAAAAAAATAGTTCTAGA
*
3922845 ATTCTAATAAACTACTAAAAGATAAAATAAAAATATTTCTAGA
1 ATTCTAATAAACTACTAAAAGATAAAA-AAAAATAGTTCTAGA
3922888 ATAT-TAATAAA
1 AT-TCTAATAAA
3922899 ACTTGTCTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 26 0.57
43 19 0.41
44 1 0.02
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.32
Consensus pattern (42 bp):
ATTCTAATAAACTACTAAAAGATAAAAAAAAATAGTTCTAGA
Found at i:3922926 original size:19 final size:18
Alignment explanation
Indices: 3922904--3922940 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
3922894 ATAAAACTTG
3922904 TCTACCTAAATAAGATTTA
1 TCTACCTAAATAA-ATTTA
3922923 TCTACCTAAATAAATTTA
1 TCTACCTAAATAAATTTA
3922941 AAATATATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (18 bp):
TCTACCTAAATAAATTTA
Done.