Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 15 of 373
Found at i:4341670 original size:27 final size:27
Alignment explanation
Indices: 4341631--4341717 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
4341621 AGCACCGCCA
**
4341631 CCACAACGGGAACCA-TCGGCAGAAACG
1 CCACAACCCGAACCACT-GGCAGAAACG
* * *
4341658 TCACAACCCGAACCACTGGTAGCAACG
1 CCACAACCCGAACCACTGGCAGAAACG
* *
4341685 CCACAACCCGAACC-CGTGGCTGAAACA
1 CCACAACCCGAACCAC-TGGCAGAAACG
4341712 CCACAA
1 CCACAA
4341718 GCTGATGTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
26 1 0.02
27 46 0.96
28 1 0.02
ACGTcount: A:0.36, C:0.38, G:0.20, T:0.07
Consensus pattern (27 bp):
CCACAACCCGAACCACTGGCAGAAACG
Found at i:4341856 original size:24 final size:24
Alignment explanation
Indices: 4341829--4341887 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
4341819 TGTCGAAACA
4341829 TATGCTCCGACATATCATCCAATT
1 TATGCTCCGACATATCATCCAATT
*
4341853 TATGCTCCGACATATCCTCCAATT
1 TATGCTCCGACATATCATCCAATT
4341877 TATGCTCCGAC
1 TATGCTCCGAC
4341888 GTACGCTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.25, C:0.32, G:0.10, T:0.32
Consensus pattern (24 bp):
TATGCTCCGACATATCATCCAATT
Found at i:4345506 original size:13 final size:13
Alignment explanation
Indices: 4345490--4345515 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4345480 ATAGAGTTAG
4345490 AGCATAGGACTAT
1 AGCATAGGACTAT
4345503 AGCATAGGACTAT
1 AGCATAGGACTAT
4345516 CTTTCTACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
AGCATAGGACTAT
Found at i:4348176 original size:20 final size:20
Alignment explanation
Indices: 4348153--4348205 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
4348143 TTACTGAATT
* **
4348153 TCTTATAAATTTACTAAACC
1 TCTTACAAATTTACTAAAAA
* *
4348173 TCTTGCAAAATTACTAAAAA
1 TCTTACAAATTTACTAAAAA
4348193 TCTTACAAATTTA
1 TCTTACAAATTTA
4348206 TAGCGTTTAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (20 bp):
TCTTACAAATTTACTAAAAA
Found at i:4348328 original size:70 final size:70
Alignment explanation
Indices: 4348219--4348350 Score: 167
Period size: 70 Copynumber: 1.9 Consensus size: 70
4348209 CGTTTAACTG
* * * * *
4348219 ATTTTTTACAACTTTATAAATTATTAAATATCTTCTGAAATTACTAAATTATATTTTTAATGTTG
1 ATTTCTTACAACTTTATAAACTATGAAATATCTTATGAAATTACTAAATTATATTTGTAATGTTG
4348284 GACTA
66 GACTA
* * **
4348289 ATTTCTTACAACTTTGTAAACTATGGAATCA-CTTATGAAATTGTTAAATTATATTTGTAATG
1 ATTTCTTACAACTTTATAAACTATGAAAT-ATCTTATGAAATTACTAAATTATATTTGTAATG
4348351 ATTTCAATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 51 0.98
71 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.46
Consensus pattern (70 bp):
ATTTCTTACAACTTTATAAACTATGAAATATCTTATGAAATTACTAAATTATATTTGTAATGTTG
GACTA
Found at i:4356118 original size:97 final size:88
Alignment explanation
Indices: 4356003--4356213 Score: 237
Period size: 91 Copynumber: 2.3 Consensus size: 88
4355993 ACTTCAACCC
*
4356003 AAAAAAAGTGTAAGCCCCAATGTGGAAAATATTACCAAAAAAAAGTCTAGGTCTCAATGT-AGGA
1 AAAAAAAGTCTAA-CCCCAATGTGGAAAATATTACC------AAGTCTAGGTCTCAATGTGA-GA
*
4356067 ACAATTGC-CAAGTTTAGGGCCTAATTTAGACCA
58 ACAATT-CTCAAGTTTAGGACCTAATTTAGA--A
* *
4356100 AAAAAAAGTTTAGACCCCAATGTGGAAAATGTTACCAAGTCTAGGTCTCAATGTGAGAACAATTC
1 AAAAAAAGTCTA-ACCCCAATGTGGAAAATATTACCAAGTCTAGGTCTCAATGTGAGAACAATTC
4356165 TCAAGTTTAGGACCTAATTTAGAA
65 TCAAGTTTAGGACCTAATTTAGAA
* *
4356189 AAAAAAAATCTAAACCCCAGTGTGG
1 AAAAAAAGTCT-AACCCCAATGTGG
4356214 GAGAAGTTGC
Statistics
Matches: 104, Mismatches: 6, Indels: 16
0.83 0.05 0.13
Matches are distributed among these distances:
89 21 0.20
90 2 0.02
91 47 0.45
92 1 0.01
97 32 0.31
98 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.24
Consensus pattern (88 bp):
AAAAAAAGTCTAACCCCAATGTGGAAAATATTACCAAGTCTAGGTCTCAATGTGAGAACAATTCT
CAAGTTTAGGACCTAATTTAGAA
Found at i:4356181 original size:91 final size:89
Alignment explanation
Indices: 4356045--4356213 Score: 243
Period size: 91 Copynumber: 1.9 Consensus size: 89
4356035 TACCAAAAAA
* * *
4356045 AAGTCTAGGTCTCAATGTAGGAACAATTGCCAAGTTTAGGGCCTAATTTAGACCAAAAAAAAGTT
1 AAGTCTAGGTCTCAATGTAGGAACAATTGCCAAGTTTAGGACCTAATTTAGA--AAAAAAAAATC
*
4356110 TAGACCCCAATGTGGAAAATGTTACC
64 TAAACCCCAATGTGGAAAATGTTACC
4356136 AAGTCTAGGTCTCAATGT-GAGAACAATT-CTCAAGTTTAGGACCTAATTTAGAAAAAAAAAATC
1 AAGTCTAGGTCTCAATGTAG-GAACAATTGC-CAAGTTTAGGACCTAATTTAGAAAAAAAAAATC
*
4356199 TAAACCCCAGTGTGG
64 TAAACCCCAATGTGG
4356214 GAGAAGTTGC
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
89 22 0.31
90 2 0.03
91 47 0.66
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (89 bp):
AAGTCTAGGTCTCAATGTAGGAACAATTGCCAAGTTTAGGACCTAATTTAGAAAAAAAAAATCTA
AACCCCAATGTGGAAAATGTTACC
Found at i:4357826 original size:30 final size:30
Alignment explanation
Indices: 4357792--4357852 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
4357782 TTCCCGAGCC
4357792 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
4357822 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
4357852 T
1 T
4357853 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:4363384 original size:37 final size:37
Alignment explanation
Indices: 4363334--4363406 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
4363324 GTAAGTTACT
*
4363334 TTCATCCTATAAGTCATTATCTCATTTAAAAAAAAAA
1 TTCATCCTATAAGTCATAATCTCATTTAAAAAAAAAA
*
4363371 TTCATCCTGTAAGTCATAATCTCATTTAAAAAAAAA
1 TTCATCCTATAAGTCATAATCTCATTTAAAAAAAAA
4363407 TTACTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.34
Consensus pattern (37 bp):
TTCATCCTATAAGTCATAATCTCATTTAAAAAAAAAA
Found at i:4363604 original size:39 final size:39
Alignment explanation
Indices: 4363556--4363634 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
4363546 TTAGCCGAAA
*
4363556 CACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAG
1 CACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAG
*
4363595 CACACAAGTGCTAGACGGAAGCCCGAAGGCTAACTGAAG
1 CACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAG
4363634 C
1 C
4363635 TCATCAGAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.25, G:0.27, T:0.11
Consensus pattern (39 bp):
CACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAG
Found at i:4377047 original size:19 final size:19
Alignment explanation
Indices: 4377025--4377064 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4377015 AAAAATGGGG
4377025 AATACATTTCGAAATGTGT
1 AATACATTTCGAAATGTGT
4377044 AATACATTTCGAAATGTGT
1 AATACATTTCGAAATGTGT
4377063 AA
1 AA
4377065 ATTAGTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
AATACATTTCGAAATGTGT
Found at i:4383185 original size:29 final size:29
Alignment explanation
Indices: 4383143--4383198 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
4383133 GGCAAAAGCA
4383143 CTCAAGTAGTATACAATGAAATTATTTGC
1 CTCAAGTAGTATACAATGAAATTATTTGC
4383172 CTCAAGTAGTATACAATGAAATTATTT
1 CTCAAGTAGTATACAATGAAATTATTT
4383199 TTTTTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (29 bp):
CTCAAGTAGTATACAATGAAATTATTTGC
Found at i:4383701 original size:22 final size:22
Alignment explanation
Indices: 4383675--4383719 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4383665 GTAACATTTT
4383675 AAACATAAGTAATTAAAATATA
1 AAACATAAGTAATTAAAATATA
4383697 AAACATAAGTAATTAAAATATA
1 AAACATAAGTAATTAAAATATA
4383719 A
1 A
4383720 TTTCGGGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (22 bp):
AAACATAAGTAATTAAAATATA
Found at i:4384274 original size:12 final size:12
Alignment explanation
Indices: 4384245--4384278 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4384235 ATTATTACTA
*
4384245 AATAAACGAGTC
1 AATAAACGAGCC
4384257 -ATAAACGAGCC
1 AATAAACGAGCC
4384268 AATAAACGAGC
1 AATAAACGAGC
4384279 TTGTTTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.50, C:0.21, G:0.18, T:0.12
Consensus pattern (12 bp):
AATAAACGAGCC
Found at i:4384900 original size:18 final size:18
Alignment explanation
Indices: 4384877--4384919 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4384867 ATTCAAAGTG
4384877 TAATTAATTTAAA-ATATT
1 TAATTAA-TTAAATATATT
*
4384895 TAATTAATTAAATTTATT
1 TAATTAATTAAATATATT
4384913 TAATTAA
1 TAATTAA
4384920 AAATCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTAAATATATT
Found at i:4390734 original size:39 final size:40
Alignment explanation
Indices: 4390679--4390783 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
4390669 TTCTAGCACC
** * *
4390679 AGCCTGCGGGAATTTAAACCCGG-TATA-ATACCAGC-TCGT
1 AGCCTGCGGGTCTTTAAGCCCGGATA-ACATACCAGCAT-AT
*
4390718 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATACCAGCATAT
*
4390758 AGCCTGCGAGTCTTTAAGCCCGGATA
1 AGCCTGCGGGTCTTTAAGCCCGGATA
4390784 CAATTCCTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 21 0.37
40 35 0.61
41 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATAACATACCAGCATAT
Found at i:4397036 original size:86 final size:86
Alignment explanation
Indices: 4396946--4397130 Score: 223
Period size: 87 Copynumber: 2.1 Consensus size: 86
4396936 GGCACATAAG
* *** *
4396946 GTGCATCATCGGATGAAGCG-AAGTGATCATACTGGCACAT-AGGTGCATCGT-AGGATAAACCA
1 GTGCATCATCGGATGAACCGAAACAAAT-ATACTGGCACATGA-GTGCATCATCA-GATAAACCA
*
4397008 AAGCAAATATATTGGAACACGTAA
63 AAGCAAATATATTGGAACACGAAA
*
4397032 GTGCATCATCAGATGAACCGAAACAAATATACTGGCACATGCAGTGCATCATCAGATAAACCAAA
1 GTGCATCATCGGATGAACCGAAACAAATATACTGGCACATG-AGTGCATCATCAGATAAACCAAA
* * *
4397097 GTAAATATATTGGCATACGAAA
65 GCAAATATATTGGAACACGAAA
4397119 GTGCATCATCGG
1 GTGCATCATCGG
4397131 CTAAATCAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
86 30 0.36
87 52 0.62
88 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (86 bp):
GTGCATCATCGGATGAACCGAAACAAATATACTGGCACATGAGTGCATCATCAGATAAACCAAAG
CAAATATATTGGAACACGAAA
Found at i:4397059 original size:44 final size:43
Alignment explanation
Indices: 4396999--4397128 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 43
4396989 TGCATCGTAG
*
4396999 GATAAACCAAAGCAAATATATTGGAACACGTAAGTGCATCATCA
1 GATAAACCAAAGCAAATATATTGGCACACG-AAGTGCATCATCA
* * * *
4397043 GATGAACCGAAA-CAAATATACTGGCACATGCAGTGCATCATCA
1 GATAAACC-AAAGCAAATATATTGGCACACGAAGTGCATCATCA
* *
4397086 GATAAACCAAAGTAAATATATTGGCATACGAAAGTGCATCATC
1 GATAAACCAAAGCAAATATATTGGCACACG-AAGTGCATCATC
4397129 GGCTAAATCA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.04
43 33 0.46
44 33 0.46
45 3 0.04
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (43 bp):
GATAAACCAAAGCAAATATATTGGCACACGAAGTGCATCATCA
Found at i:4397938 original size:20 final size:20
Alignment explanation
Indices: 4397913--4397980 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
4397903 AAGATCAACC
* *
4397913 AATTTTTTATAGTCCCTCAT
1 AATTTTTTGTACTCCCTCAT
* *
4397933 AATTTTTGGTACTTCCTCAT
1 AATTTTTTGTACTCCCTCAT
* *
4397953 AATTTTTTGGTATTCTCTCAT
1 AATTTTTT-GTACTCCCTCAT
4397974 AATTTTT
1 AATTTTT
4397981 GATACTTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 23 0.59
21 16 0.41
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.54
Consensus pattern (20 bp):
AATTTTTTGTACTCCCTCAT
Found at i:4397959 original size:21 final size:20
Alignment explanation
Indices: 4397927--4397980 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 20
4397917 TTTTATAGTC
4397927 CCTCATAA-TTTTTGGTACTT
1 CCTCATAATTTTTTGGTA-TT
4397947 CCTCATAATTTTTTGGTATT
1 CCTCATAATTTTTTGGTATT
4397967 CTCTCATAATTTTT
1 C-CTCATAATTTTT
4397981 GATACTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.20, C:0.19, G:0.07, T:0.54
Consensus pattern (20 bp):
CCTCATAATTTTTTGGTATT
Found at i:4397981 original size:20 final size:20
Alignment explanation
Indices: 4397927--4398026 Score: 96
Period size: 20 Copynumber: 5.0 Consensus size: 20
4397917 TTTTATAGTC
4397927 CCTCATAATTTTTGGTACTT
1 CCTCATAATTTTTGGTACTT
4397947 CCTCATAATTTTTTGGTA-TT
1 CCTCATAA-TTTTTGGTACTT
*
4397967 CTCTCATAATTTTTGATACTT
1 C-CTCATAATTTTTGGTACTT
** * * * *
4397988 ATTCAGAAATTTTGTTACTC
1 CCTCATAATTTTTGGTACTT
*
4398008 CCTCGT-ATTTTTGGTACTT
1 CCTCATAATTTTTGGTACTT
4398027 TCAAATAATT
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
19 10 0.16
20 35 0.56
21 18 0.29
ACGTcount: A:0.21, C:0.18, G:0.10, T:0.51
Consensus pattern (20 bp):
CCTCATAATTTTTGGTACTT
Found at i:4398280 original size:20 final size:20
Alignment explanation
Indices: 4398257--4398300 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4398247 TTTTATATTC
4398257 CCTTATAAGTTTTT-GTACTT
1 CCTTA-AAGTTTTTGGTACTT
* *
4398277 CCTTAAATTTTTTGGTATTT
1 CCTTAAAGTTTTTGGTACTT
4398297 CCTT
1 CCTT
4398301 CTTCCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.18, C:0.16, G:0.09, T:0.57
Consensus pattern (20 bp):
CCTTAAAGTTTTTGGTACTT
Found at i:4398776 original size:22 final size:21
Alignment explanation
Indices: 4398751--4398792 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4398741 GTTATATTTC
*
4398751 ATATTTTTTTAGCATTTTCTCA
1 ATATCTTTTT-GCATTTTCTCA
*
4398773 ATATCTTTTTGTATTTTCTC
1 ATATCTTTTTGCATTTTCTC
4398793 TTTTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.19, C:0.14, G:0.05, T:0.62
Consensus pattern (21 bp):
ATATCTTTTTGCATTTTCTCA
Found at i:4399238 original size:20 final size:20
Alignment explanation
Indices: 4399213--4399266 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
4399203 TTGATAACAT
* *
4399213 ATTATGAAGGAGTATTAATA
1 ATTATGAAGGAGTACTAAAA
* * *
4399233 ATTATGTAGAAATACTAAAA
1 ATTATGAAGGAGTACTAAAA
4399253 ATTATGAAGGAGTA
1 ATTATGAAGGAGTA
4399267 ATATAAGATT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.02, G:0.19, T:0.31
Consensus pattern (20 bp):
ATTATGAAGGAGTACTAAAA
Found at i:4408892 original size:22 final size:22
Alignment explanation
Indices: 4408867--4408912 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
4408857 TCGTATGGTA
4408867 ATATATTCAAAATTA-AAAAAAC
1 ATATATT-AAAATTAGAAAAAAC
*
4408889 ATATATTAACATTAGGAAAAAAC
1 ATATATTAAAATTA-GAAAAAAC
4408912 A
1 A
4408913 AAAAACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 7 0.33
23 8 0.38
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (22 bp):
ATATATTAAAATTAGAAAAAAC
Found at i:4410853 original size:36 final size:36
Alignment explanation
Indices: 4410806--4410875 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
4410796 TAAAGATTTC
4410806 AAACAATTCAATAACTATTTGTATACTTTGTAATAA
1 AAACAATTCAATAACTATTTGTATACTTTGTAATAA
4410842 AAACAATTCAATAACTATTTGTATACTTTGTAAT
1 AAACAATTCAATAACTATTTGTATACTTTGTAAT
4410876 GGTTTAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (36 bp):
AAACAATTCAATAACTATTTGTATACTTTGTAATAA
Found at i:4415315 original size:21 final size:23
Alignment explanation
Indices: 4415273--4415317 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4415263 TAAAATGATA
*
4415273 AAATACTATTTTTAAGTAATATT
1 AAATAATATTTTTAAGTAATATT
4415296 AAATAATATTTTT-A-TAATATT
1 AAATAATATTTTTAAGTAATATT
4415317 A
1 A
4415318 TTTATATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 1 0.05
23 12 0.57
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
AAATAATATTTTTAAGTAATATT
Found at i:4416983 original size:30 final size:27
Alignment explanation
Indices: 4416924--4416984 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
4416914 TTATGTTATA
*
4416924 AAATAATACTATATAATTATATATGTT
1 AAATAATACTATATAATTATATATATT
* *
4416951 AAATAATAATTATATATTTATATTTATATT
1 AAATAAT-ACTATATAATTATA--TATATT
4416981 AAAT
1 AAAT
4416985 CACTAACCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.25
28 12 0.43
30 9 0.32
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
AAATAATACTATATAATTATATATATT
Found at i:4417319 original size:28 final size:28
Alignment explanation
Indices: 4417279--4417341 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
4417269 TTTATCTTTC
4417279 TTAAACTGGATCTGATTTGAATAAAAAA
1 TTAAACTGGATCTGATTTGAATAAAAAA
4417307 TTAAACTGGATCTGATTTGAATAAAAAA
1 TTAAACTGGATCTGATTTGAATAAAAAA
*
4417335 ATAAACT
1 TTAAACT
4417342 TATTTTTCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.32
Consensus pattern (28 bp):
TTAAACTGGATCTGATTTGAATAAAAAA
Found at i:4420141 original size:9 final size:9
Alignment explanation
Indices: 4420105--4420202 Score: 62
Period size: 9 Copynumber: 10.6 Consensus size: 9
4420095 AAAATTTAGA
*
4420105 AAAATGATT
1 AAAATTATT
4420114 AAAATTGATAT
1 AAAATT-AT-T
*
4420125 AAACTTATT
1 AAAATTATT
4420134 AAAATTA-T
1 AAAATTATT
4420142 AAATATTA-T
1 AAA-ATTATT
4420151 AAAA-TATAT
1 AAAATTAT-T
4420160 AAAATT-TT
1 AAAATTATT
4420168 AATAAATTA-T
1 -A-AAATTATT
*
4420178 AAAATTAAT
1 AAAATTATT
4420187 AAAATTTATTT
1 AAAA-TTA-TT
4420198 AAAAT
1 AAAAT
4420203 AAAAAACGTA
Statistics
Matches: 73, Mismatches: 4, Indels: 23
0.73 0.04 0.23
Matches are distributed among these distances:
7 2 0.03
8 12 0.16
9 33 0.45
10 15 0.21
11 11 0.15
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (9 bp):
AAAATTATT
Found at i:4420144 original size:17 final size:17
Alignment explanation
Indices: 4420105--4420192 Score: 81
Period size: 18 Copynumber: 4.9 Consensus size: 17
4420095 AAAATTTAGA
*
4420105 AAAATGATTAAAATTGAT
1 AAAATTATTAAAATT-AT
4420123 ATAAACTTATTAAAATTAT
1 A-AAA-TTATTAAAATTAT
4420142 AAATATTA-TAAAATATAT
1 AAA-ATTATTAAAAT-TAT
4420160 AAAATT-TTAATAAATTAT
1 AAAATTATT-A-AAATTAT
*
4420178 AAAATTAATAAAATT
1 AAAATTATTAAAATT
4420193 TATTTAAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
17 15 0.25
18 23 0.38
19 12 0.20
20 10 0.17
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAATTATTAAAATTAT
Found at i:4420158 original size:7 final size:8
Alignment explanation
Indices: 4420122--4420192 Score: 70
Period size: 9 Copynumber: 8.1 Consensus size: 8
4420112 TTAAAATTGA
*
4420122 TATAAACT
1 TATAAAAT
4420130 TATTAAAAT
1 TA-TAAAAT
4420139 TATAAATAT
1 TATAAA-AT
4420148 TATAAAAT
1 TATAAAAT
4420156 ATATAAAAT
1 -TATAAAAT
*
4420165 TTTAATAAAT
1 TAT-A-AAAT
4420175 TATAAAAT
1 TATAAAAT
4420183 TAATAAAAT
1 T-ATAAAAT
4420192 T
1 T
4420193 TATTTAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
8 15 0.28
9 33 0.61
10 6 0.11
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (8 bp):
TATAAAAT
Found at i:4420179 original size:27 final size:26
Alignment explanation
Indices: 4420122--4420193 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
4420112 TTAAAATTGA
* * * *
4420122 TATAAACTTATTAAAATTATAAATAT
1 TATAAAATTAATAAAATTTTAAAAAT
4420148 TATAAAA-TATATAAAATTTTAATAAAT
1 TATAAAATTA-ATAAAATTTTAA-AAAT
4420175 TATAAAATTAATAAAATTT
1 TATAAAATTAATAAAATTT
4420194 ATTTAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 2 0.05
26 16 0.41
27 19 0.49
28 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (26 bp):
TATAAAATTAATAAAATTTTAAAAAT
Found at i:4420195 original size:18 final size:17
Alignment explanation
Indices: 4420122--4420192 Score: 74
Period size: 17 Copynumber: 4.1 Consensus size: 17
4420112 TTAAAATTGA
* *
4420122 TATAAACTTATTAAAAT
1 TATAAAATTAATAAAAT
4420139 TATAAATATT-ATAAAAT
1 TATAAA-ATTAATAAAAT
4420156 ATATAAAATTTTAAT-AAAT
1 -TATAAAA--TTAATAAAAT
4420175 TATAAAATTAATAAAAT
1 TATAAAATTAATAAAAT
4420192 T
1 T
4420193 TATTTAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
16 5 0.11
17 18 0.39
18 15 0.33
19 6 0.13
20 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAAAATTAATAAAAT
Found at i:4421126 original size:21 final size:21
Alignment explanation
Indices: 4421100--4421142 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4421090 ATATACATGC
*
4421100 CTGTGTGATCA-AGGGACACGT
1 CTGTGTGACCATA-GGACACGT
4421121 CTGTGTGACCATAGGACACGT
1 CTGTGTGACCATAGGACACGT
4421142 C
1 C
4421143 CATGCTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (21 bp):
CTGTGTGACCATAGGACACGT
Found at i:4421233 original size:181 final size:181
Alignment explanation
Indices: 4420921--4421277 Score: 554
Period size: 181 Copynumber: 2.0 Consensus size: 181
4420911 ACACACGCCC
* * *
4420921 GTGTGGTCAAGGGACACGCCTGTGTGACCATAGGACATGCCCTTGCTGTAAGCCGTGTCTGACCC
1 GTGTGATCAAGGGACACGCCTGTGTGACCATAGGACACGCCCATGCTGTAAGCCGTGTCTGACCC
* * *
4420986 ACTGTAACTCTCTGACTTGTACCACACGGCTAGCCACATGCCCGTGTGCCAGGCCATGTAATCAA
66 ACTGTAACTCTCTGACTTGTACCACACGACTAGCCACACGCCCGTGTGCCAGGCCATATAATCAA
* *
4421051 TTTAATTTTCTAAAATTAGATGTAAGTTTCACACGGCCAATATACATGCCT
131 TTTAATTTTCTAAAATTAGATGCAAGTTTCACACGGCCAAAATACATGCCT
* * *
4421102 GTGTGATCAAGGGACACGTCTGTGTGACCATAGGACACGTCCATGCTGTAAGCTGTGTCTGACCC
1 GTGTGATCAAGGGACACGCCTGTGTGACCATAGGACACGCCCATGCTGTAAGCCGTGTCTGACCC
* * * * *
4421167 AGTGTAACTCTTTGACTTGTACCACACGACTAGCCACACG-CCGTTGTGCTAGGCCGTATGATCA
66 ACTGTAACTCTCTGACTTGTACCACACGACTAGCCACACGCCCG-TGTGCCAGGCCATATAATCA
4421231 ATTTAATTTTCTAAAATTAGATGCAAGTTTCACACGGCCAAAATACA
130 ATTTAATTTTCTAAAATTAGATGCAAGTTTCACACGGCCAAAATACA
4421278 CACCCGTGTT
Statistics
Matches: 159, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
180 3 0.02
181 156 0.98
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (181 bp):
GTGTGATCAAGGGACACGCCTGTGTGACCATAGGACACGCCCATGCTGTAAGCCGTGTCTGACCC
ACTGTAACTCTCTGACTTGTACCACACGACTAGCCACACGCCCGTGTGCCAGGCCATATAATCAA
TTTAATTTTCTAAAATTAGATGCAAGTTTCACACGGCCAAAATACATGCCT
Found at i:4426526 original size:170 final size:170
Alignment explanation
Indices: 4426244--4426583 Score: 662
Period size: 170 Copynumber: 2.0 Consensus size: 170
4426234 GCTGGGCAAA
4426244 ACAAAAGATATTAAGTAAATGCTTTGAAGGAAAAATAAGGAAGTTTTTAAGGTTTTGAATCAATT
1 ACAAAAGATATTAAGTAAATGCTTTGAAGGAAAAATAAGGAAGTTTTTAAGGTTTTGAATCAATT
4426309 TAATTTATAAATCAGCACAGATCAAATATATTTTTTTAATTTTTAATAATTTATTTAATCAAACC
66 TAATTTATAAATCAGCACAGATCAAATATATTTTTTTAATTTTTAATAATTTATTTAATCAAACC
4426374 GAATCAACAAATCCATTAGCCAAAAATATTGTCTTTCCTT
131 GAATCAACAAATCCATTAGCCAAAAATATTGTCTTTCCTT
*
4426414 ACAAAAGATATTAAGTAAATGCTTTGAAGGAAAAATAATGAAGTTTTTAAGGTTTTGAATCAATT
1 ACAAAAGATATTAAGTAAATGCTTTGAAGGAAAAATAAGGAAGTTTTTAAGGTTTTGAATCAATT
*
4426479 TAATTTATAAATCAGCACAGATCAAATATTTTTTTTTAATTTTTAATAATTTATTTAATCAAACC
66 TAATTTATAAATCAGCACAGATCAAATATATTTTTTTAATTTTTAATAATTTATTTAATCAAACC
4426544 GAATCAACAAATCCATTAGCCAAAAATATTGTCTTTCCTT
131 GAATCAACAAATCCATTAGCCAAAAATATTGTCTTTCCTT
4426584 TTTTTTTTTT
Statistics
Matches: 168, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 168 1.00
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (170 bp):
ACAAAAGATATTAAGTAAATGCTTTGAAGGAAAAATAAGGAAGTTTTTAAGGTTTTGAATCAATT
TAATTTATAAATCAGCACAGATCAAATATATTTTTTTAATTTTTAATAATTTATTTAATCAAACC
GAATCAACAAATCCATTAGCCAAAAATATTGTCTTTCCTT
Found at i:4431082 original size:19 final size:19
Alignment explanation
Indices: 4431058--4431096 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4431048 AGGCTGAATC
4431058 ATTGCTGCAACTTAATTTA
1 ATTGCTGCAACTTAATTTA
4431077 ATTGCTGCAACTTAATTTA
1 ATTGCTGCAACTTAATTTA
4431096 A
1 A
4431097 CTATCTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (19 bp):
ATTGCTGCAACTTAATTTA
Found at i:4451240 original size:20 final size:21
Alignment explanation
Indices: 4451203--4451241 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
4451193 ATCATAACAA
*
4451203 GTTTTTATGATTAAATATATT
1 GTTTTTATGAATAAATATATT
*
4451224 GTTTTTAT-AATATATATA
1 GTTTTTATGAATAAATATA
4451242 ATGAATACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (21 bp):
GTTTTTATGAATAAATATATT
Found at i:4454190 original size:21 final size:21
Alignment explanation
Indices: 4454166--4454205 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4454156 ACTGACCAAT
*
4454166 CCATTGAAGATTTTTATGTAA
1 CCATTGAAGATATTTATGTAA
4454187 CCATTGAAGATATTTATGT
1 CCATTGAAGATATTTATGT
4454206 TAAGTTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (21 bp):
CCATTGAAGATATTTATGTAA
Found at i:4458006 original size:16 final size:16
Alignment explanation
Indices: 4457980--4458012 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4457970 TTTATCCAGC
4457980 TTTTGTTTAAT-TTTA
1 TTTTGTTTAATATTTA
4457995 TTTTGTTTTAATATTTA
1 TTTTG-TTTAATATTTA
4458012 T
1 T
4458013 GAGCATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 6 0.38
17 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (16 bp):
TTTTGTTTAATATTTA
Found at i:4458068 original size:20 final size:21
Alignment explanation
Indices: 4458040--4458079 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4458030 ACATAAAATA
4458040 TTTAAAGA-TATCTAATATTG
1 TTTAAAGATTATCTAATATTG
* *
4458060 TTTATAGATTTTCTAATATT
1 TTTAAAGATTATCTAATATT
4458080 TCTTTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (21 bp):
TTTAAAGATTATCTAATATTG
Found at i:4459338 original size:26 final size:26
Alignment explanation
Indices: 4459302--4459351 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
4459292 CATTTATTAC
4459302 ATTGTATATATATAAGAAAAACAAAT
1 ATTGTATATATATAAGAAAAACAAAT
4459328 ATTGTATATATATAAGAAAAACAA
1 ATTGTATATATATAAGAAAAACAA
4459352 CAATTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (26 bp):
ATTGTATATATATAAGAAAAACAAAT
Found at i:4459433 original size:27 final size:27
Alignment explanation
Indices: 4459395--4459449 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
4459385 GCGCTTCAGT
4459395 GCATTATCTTTCGATTTATGGGTTAAA
1 GCATTATCTTTCGATTTATGGGTTAAA
4459422 GCATTATCTTTCGATTTATGGGTTAAA
1 GCATTATCTTTCGATTTATGGGTTAAA
4459449 G
1 G
4459450 AGAAGTTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.44
Consensus pattern (27 bp):
GCATTATCTTTCGATTTATGGGTTAAA
Found at i:4463669 original size:16 final size:16
Alignment explanation
Indices: 4463648--4463690 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
4463638 TTTACAATTC
4463648 GGGTTTTAAGAGTTTA
1 GGGTTTTAAGAGTTTA
* *
4463664 GGGTTTTATTGTGTTTA
1 GGGTTTTA-AGAGTTTA
4463681 GGGTTTTAAG
1 GGGTTTTAAG
4463691 TTTAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.49
Consensus pattern (16 bp):
GGGTTTTAAGAGTTTA
Found at i:4463704 original size:23 final size:22
Alignment explanation
Indices: 4463678--4463721 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4463668 TTTATTGTGT
4463678 TTAGGGTTTTAA-GTTTAATTAAA
1 TTAGGG-TTTAATG-TTAATTAAA
4463701 TTAGGGTTTAATGTTAATTAA
1 TTAGGGTTTAATGTTAATTAA
4463722 TTAAATTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (22 bp):
TTAGGGTTTAATGTTAATTAAA
Found at i:4463814 original size:14 final size:14
Alignment explanation
Indices: 4463791--4463820 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4463781 ACTAATTAAA
4463791 TTAGGATTTATGGT
1 TTAGGATTTATGGT
*
4463805 TTAGGGTTTATGGT
1 TTAGGATTTATGGT
4463819 TT
1 TT
4463821 TAAGAGCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (14 bp):
TTAGGATTTATGGT
Found at i:4463896 original size:22 final size:23
Alignment explanation
Indices: 4463853--4463896 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
4463843 GTTTAGGGTT
* *
4463853 TTAGGGTTTTAGGGCTAGTTAAA
1 TTAGGGTTTTAAGGCTAATTAAA
*
4463876 TTAGGG-TTTAAGGTTAATTAA
1 TTAGGGTTTTAAGGCTAATTAA
4463897 TTAAATTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.41
Consensus pattern (23 bp):
TTAGGGTTTTAAGGCTAATTAAA
Found at i:4463992 original size:35 final size:35
Alignment explanation
Indices: 4463921--4463993 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
4463911 AATTTAAAAA
* * *
4463921 TAATTAATTAAATTAGGGATTAGGGGTTTTATGGT
1 TAATTAATTAAATTACGGATTAGGGATTTTAGGGT
* *
4463956 TAATTAATTAAATTACGGTTTA-TGATTTTAGGGGT
1 TAATTAATTAAATTACGGATTAGGGATTTTA-GGGT
4463991 TAA
1 TAA
4463994 GGTTAAGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 6 0.19
35 26 0.81
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.44
Consensus pattern (35 bp):
TAATTAATTAAATTACGGATTAGGGATTTTAGGGT
Found at i:4464042 original size:177 final size:167
Alignment explanation
Indices: 4463649--4464149 Score: 639
Period size: 175 Copynumber: 2.9 Consensus size: 167
4463639 TTACAATTCG
* * * *
4463649 GGTTTTAAGAGTTTAGGGTTTTATTGTGTTTAGGGTTTTAAGTTTAATTAAATTAGGGTTTAATG
1 GGTTTTAAGAGTTTAGGGTTTTATTATGTTTAGGGTTTTAGGATTAATTAAATTAGGGTTTAAGG
* *
4463714 TTAATTAATTAAATTAACTATTAATTTAAAAAATCAATTAAATTAAGGTTTAGGGGTTTTATGGT
66 TTAATTAATTAAATTAACTATTAATTTAAAAAATTAATTAAATTAGGGTTTAGGGGTTTTATGGT
* *
4463779 TAACTAATTAAATTAGGATTTATGGTTTAGGGTTTAT
131 TAATTAATTAAATTAGGATTTATGGTTTAGGGTTTAA
* * *
4463816 GGTTTTAAGAGCTTAGGGTTTTATTAAGTTTAGGGTTTTAGGGTTTTAGGGCTAGTTAAATTAGG
1 GGTTTTAAGAGTTTAGGGTTTTATTATGTTTAGGGTTTTA-GG-ATTA-----A-TTAAATTAGG
*
4463881 GTTTAAGGTTAATTAATTAAATTAACTATTAATTTAAAAATAATTAATTAAATTAGGGATTAGGG
58 GTTTAAGGTTAATTAATTAAATTAACTATTAATTT-AAAA-AATTAATTAAATTAGGGTTTAGGG
*
4463946 GTTTTATGGTTAATTAATTAAATTACGG-TTTATGATTTTAGGGGTTAAGGTTAA
121 GTTTTATGGTTAATTAATTAAATTA-GGATTTATG-GTTTA-GGG-T----TTAA
* * *
4464000 GGTTTTTAAGAGTTTAGTGTTTTATTATGTTTATGGTTTTAGGATTAATTAAATTAAGGTTT-AG
1 GG-TTTTAAGAGTTTAGGGTTTTATTATGTTTAGGGTTTTAGGATTAATTAAATTAGGGTTTAAG
*
4464064 GTTAATTAATTAAATTAACTATTAATTTTAAAAAATTAATTAAATTAGGGTTTAGGGTTTTTA-G
65 GTTAATTAATTAAATTAACTATTAA-TTTAAAAAATTAATTAAATTAGGGTTTAGGGGTTTTATG
4464128 GTTTAATTAATTAAATTAGGAT
129 G-TTAATTAATTAAATTAGGAT
4464150 GCACTATCAG
Statistics
Matches: 293, Mismatches: 19, Indels: 36
0.84 0.05 0.10
Matches are distributed among these distances:
167 37 0.13
168 1 0.00
169 4 0.01
174 5 0.02
175 89 0.30
176 35 0.12
177 67 0.23
178 7 0.02
179 3 0.01
180 1 0.00
183 3 0.01
184 7 0.02
185 34 0.12
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.46
Consensus pattern (167 bp):
GGTTTTAAGAGTTTAGGGTTTTATTATGTTTAGGGTTTTAGGATTAATTAAATTAGGGTTTAAGG
TTAATTAATTAAATTAACTATTAATTTAAAAAATTAATTAAATTAGGGTTTAGGGGTTTTATGGT
TAATTAATTAAATTAGGATTTATGGTTTAGGGTTTAA
Found at i:4464525 original size:126 final size:126
Alignment explanation
Indices: 4464145--4464586 Score: 674
Period size: 126 Copynumber: 3.5 Consensus size: 126
4464135 TAATTAAATT
* *
4464145 AGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACTCTCTTTTGCTACAATAGT
1 AGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGT
* *
4464210 ATCTGAAAAAATAATATTT-AGTAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
66 ATTTGAAAAAATAAT-TTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
* * * * * *
4464271 AGGATGCAGTGTCAACAAAATTACTTAAAAAAGCTCCCACGTGGACGCTCTTTTACTACAGTAGT
1 AGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGT
*
4464336 ATTTG-AAAAATAATTTTGAGAAGACGTTTCTAAACAAATAGTGTCCAAAACGCTTCAAGC
66 ATTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
* * *
4464396 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGAAC-CATCTTTTGCTACAGTAG
1 AGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC-TCTTTTGCTACAATAG
* * *
4464460 TATTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAATGTCTAAAACGCTTCAAAC
65 TATTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
* *
4464522 AGGATGCACTATCAGCAAAATTATTGAAAAAAGCTCCTACGTGGACGCTCTTTTGCTACAATAGT
1 AGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGT
4464587 TTCTATTTGG
Statistics
Matches: 287, Mismatches: 25, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
124 4 0.01
125 112 0.39
126 170 0.59
127 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (126 bp):
AGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGT
ATTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGC
Found at i:4466132 original size:52 final size:51
Alignment explanation
Indices: 4465982--4466134 Score: 148
Period size: 52 Copynumber: 2.9 Consensus size: 51
4465972 CATATCATAT
* * * *
4465982 CGATGCCATATCCCAGATATGGTCTTGTACGGAATCATATTATCACATCACAC
1 CGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCATA-T-TCACATCACAC
* * *
4466035 CGATGCCATAGCCTAGCTATGGTCTTATACGGGAACGCGA-A-TCACATTATAC
1 CGATGCCATAGCCCAGCTATGGTCTTATAC-GGAA-GC-ATATTCACATCACAC
* * *
4466087 CGATGTCATAGCCCGGTTATGGTCTTATACGGAAGCATATGTCACATC
1 CGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCATAT-TCACATC
4466135 TTTTCCGTCA
Statistics
Matches: 82, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
49 1 0.01
50 3 0.04
51 4 0.05
52 41 0.50
53 26 0.32
54 4 0.05
55 2 0.02
56 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (51 bp):
CGATGCCATAGCCCAGCTATGGTCTTATACGGAAGCATATTCACATCACAC
Found at i:4470206 original size:9 final size:9
Alignment explanation
Indices: 4470176--4470207 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
4470166 ATTTATATTT
4470176 TATTAAAAA
1 TATTAAAAA
*
4470185 TATAAAAAA
1 TATTAAAAA
4470194 TATTAAAAA
1 TATTAAAAA
4470203 TATTA
1 TATTA
4470208 CCTTATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TATTAAAAA
Found at i:4471366 original size:7 final size:7
Alignment explanation
Indices: 4471354--4471386 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
4471344 AGTTATATAT
4471354 AATACTA
1 AATACTA
4471361 AATACTA
1 AATACTA
4471368 AATACTA
1 AATACTA
4471375 AATACTA
1 AATACTA
4471382 AATAC
1 AATAC
4471387 GAAACAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:4477488 original size:11 final size:12
Alignment explanation
Indices: 4477467--4477492 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4477457 GGGAAGAACC
4477467 TTTCTTTTTTTT
1 TTTCTTTTTTTT
4477479 TTTCTTTTTTTT
1 TTTCTTTTTTTT
4477491 TT
1 TT
4477493 ATAGATTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTCTTTTTTTT
Found at i:4477971 original size:34 final size:33
Alignment explanation
Indices: 4477933--4478006 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 33
4477923 TATATTATTT
*
4477933 TTTATATAAAAATATTAAAAT-ATTAAAATAAATA
1 TTTATATAAAAAT-TAAAAATAATTAAAA-AAATA
*
4477967 TTTATCTAAAAATTAAAAATAAATTAAAAAAATA
1 TTTATATAAAAATTAAAAAT-AATTAAAAAAATA
4478001 TTTATA
1 TTTATA
4478007 CTTAAATGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 6 0.17
34 22 0.63
35 7 0.20
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (33 bp):
TTTATATAAAAATTAAAAATAATTAAAAAAATA
Found at i:4486891 original size:4 final size:4
Alignment explanation
Indices: 4486882--4486906 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4486872 TAAAGGAAAG
4486882 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
4486907 AACCATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:4488158 original size:18 final size:19
Alignment explanation
Indices: 4488129--4488164 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4488119 AAAAAACAAA
4488129 TTGCTCGTTTTTTCTTTCC
1 TTGCTCGTTTTTTCTTTCC
*
4488148 TTGCT-GTTTTTTGTTTC
1 TTGCTCGTTTTTTCTTTC
4488165 TTTTTTCTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.00, C:0.19, G:0.14, T:0.67
Consensus pattern (19 bp):
TTGCTCGTTTTTTCTTTCC
Found at i:4488710 original size:11 final size:11
Alignment explanation
Indices: 4488694--4488748 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
4488684 ATACATATAT
4488694 AAAAAATCTAA
1 AAAAAATCTAA
4488705 AAAAAATCTAA
1 AAAAAATCTAA
* * *
4488716 AGAACA--TAT
1 AAAAAATCTAA
* *
4488725 AAAAAATTTTA
1 AAAAAATCTAA
4488736 AAAAAATCTAA
1 AAAAAATCTAA
4488747 AA
1 AA
4488749 TAATAAATTT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
9 6 0.18
11 27 0.82
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (11 bp):
AAAAAATCTAA
Found at i:4490205 original size:16 final size:16
Alignment explanation
Indices: 4490185--4490239 Score: 85
Period size: 16 Copynumber: 3.4 Consensus size: 16
4490175 GTTTGGTTTA
4490185 CTGTAATGGAATAG-G
1 CTGTAATGGAATAGAG
*
4490200 ACTGTAATTGAATAGAG
1 -CTGTAATGGAATAGAG
4490217 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
4490233 CTGTAAT
1 CTGTAAT
4490240 TAGTAATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 35 0.97
17 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:4490306 original size:44 final size:45
Alignment explanation
Indices: 4490221--4490309 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 45
4490211 ATAGAGCTGT
*
4490221 AATGGAATAGAGCTGTAATTAGTAATTCAATTTTTTGGTTGAATGG
1 AATGAAATAGAGCTGTAATTAGTAATTC-ATTTTTTGGTTGAATGG
4490267 AATGAAATAGAGCTGTAA-TAG-AATTC-TTATGTTTGGTTGAATG
1 AATGAAATAGAGCTGTAATTAGTAATTCATT-T-TTTGGTTGAATG
4490310 AAATAGATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 2 0.05
43 1 0.03
44 17 0.43
45 3 0.08
46 17 0.43
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (45 bp):
AATGAAATAGAGCTGTAATTAGTAATTCATTTTTTGGTTGAATGG
Found at i:4490443 original size:26 final size:25
Alignment explanation
Indices: 4490394--4490444 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
4490384 ATGATTATTG
*
4490394 TTATTGTTATTAAATTTTAATAAAA
1 TTATTGTTAATAAATTTTAATAAAA
* *
4490419 TTATTGTTAAATATATTTTATTAAAA
1 TTATTGTT-AATAAATTTTAATAAAA
4490445 ATAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (25 bp):
TTATTGTTAATAAATTTTAATAAAA
Found at i:4490472 original size:58 final size:57
Alignment explanation
Indices: 4490407--4490543 Score: 170
Period size: 58 Copynumber: 2.4 Consensus size: 57
4490397 TTGTTATTAA
* * * * *
4490407 ATTTTAATAAAATTATTGTTAAATATATTTTATTAAAAATAATAA-ATAATTTAATCAT
1 ATTTTAATAAAATTATTATTAAATATAATTTAAT-AAAATAA-AATATAATTTAATAAC
*
4490465 ATTTTAATATAATTATTATTAAATATAATTTAATAAAATAAAATATAATTTAATAAC
1 ATTTTAATAAAATTATTATTAAATATAATTTAATAAAATAAAATATAATTTAATAAC
4490522 ATTCTTAATATAAA-TATTATTA
1 ATT-TTAATA-AAATTATTATTA
4490544 TACGAATTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
56 2 0.03
57 21 0.30
58 44 0.64
59 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (57 bp):
ATTTTAATAAAATTATTATTAAATATAATTTAATAAAATAAAATATAATTTAATAAC
Found at i:4490519 original size:10 final size:10
Alignment explanation
Indices: 4490452--4490519 Score: 54
Period size: 10 Copynumber: 7.1 Consensus size: 10
4490442 AAAATAATAA
4490452 ATAATTTAAT
1 ATAATTTAAT
*
4490462 CATATTTTAAT
1 -ATAATTTAAT
4490473 ATAA-TT-AT
1 ATAATTTAAT
*
4490481 -T-ATTAAAT
1 ATAATTTAAT
4490489 ATAATTTAAT
1 ATAATTTAAT
* **
4490499 AAAATAAAAT
1 ATAATTTAAT
4490509 ATAATTTAAT
1 ATAATTTAAT
4490519 A
1 A
4490520 ACATTCTTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
6 1 0.02
7 2 0.05
8 4 0.09
9 3 0.07
10 24 0.56
11 9 0.21
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (10 bp):
ATAATTTAAT
Found at i:4493179 original size:49 final size:47
Alignment explanation
Indices: 4493102--4493315 Score: 199
Period size: 48 Copynumber: 4.6 Consensus size: 47
4493092 TCCATCAAGT
*
4493102 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAA-CG-TGC
* * * *
4493151 CGATTCCATGTCTCAGACATGGTCTTACACT-AGCTCTCACAA-GTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCAAAACGTGC
* * * *
4493197 CGATGTCATGTCCCAAACATGGTCTTACACTGAC-ACCTCTATACGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTA--TCAAAACGTGC
* *** *
4493245 CGATGCCATGTCCCAGACATGGTCTTATACTGAC-A-CATCTCGTAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAACGT-GC
4493291 CGATG-CATGTCCCAGACAT-GTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
4493316 TACTAGTTTT
Statistics
Matches: 138, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
44 6 0.04
45 18 0.13
46 36 0.26
47 5 0.04
48 37 0.27
49 36 0.26
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAACGTGC
Found at i:4498835 original size:26 final size:25
Alignment explanation
Indices: 4498800--4498851 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
4498790 ATTTATTATT
*
4498800 TTTTAATAAAATATATTTAACAATAA
1 TTTTAATAAAATATA-ATAACAATAA
* *
4498826 TTTTATTAAAATTTAATAACAATAA
1 TTTTAATAAAATATAATAACAATAA
4498851 T
1 T
4498852 AATAATCATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTTAATAAAATATAATAACAATAA
Found at i:4498984 original size:44 final size:46
Alignment explanation
Indices: 4498929--4499024 Score: 126
Period size: 44 Copynumber: 2.1 Consensus size: 46
4498919 TATTACAACA
4498929 TCTATTCCATTCAACCAAACACA-AGAATT-CT-ATTACAGCTCTAT
1 TCTATTCCATTCAACCAAACA-ATAGAATTACTGATTACAGCTCTAT
* * * *
4498973 TCTATTTCATTCAACCAAATAATTGAATTACTGATTCCAGCTCTAT
1 TCTATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTAT
4499019 TCTATT
1 TCTATT
4499025 ATAGCTCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 24 0.53
45 2 0.04
46 18 0.40
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (46 bp):
TCTATTCCATTCAACCAAACAATAGAATTACTGATTACAGCTCTAT
Found at i:4499032 original size:16 final size:16
Alignment explanation
Indices: 4499010--4499059 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
4499000 TTACTGATTC
*
4499010 CAGCTCTATTCTATTA
1 CAGCTCTATTCAATTA
*
4499026 TAGCTCTATTCAATTA
1 CAGCTCTATTCAATTA
* *
4499042 CAGCCCTATTCCATTA
1 CAGCTCTATTCAATTA
4499058 CA
1 CA
4499060 ATGAACCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.38
Consensus pattern (16 bp):
CAGCTCTATTCAATTA
Found at i:4500003 original size:16 final size:16
Alignment explanation
Indices: 4499984--4500015 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4499974 TTTAAATGAC
*
4499984 AATTGTTCTAAACATA
1 AATTGTCCTAAACATA
4500000 AATTGTCCTAAACATA
1 AATTGTCCTAAACATA
4500016 GTTGTTCTTG
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:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (16 bp):
AATTGTCCTAAACATA
Found at i:4503695 original size:34 final size:34
Alignment explanation
Indices: 4503657--4503724 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
4503647 AATACAAACA
4503657 ATCTTCTTCTACAAATCATTTTATGAAGATTCCC
1 ATCTTCTTCTACAAATCATTTTATGAAGATTCCC
4503691 ATCTTCTTCTACAAATCATTTTATGAAGATTCCC
1 ATCTTCTTCTACAAATCATTTTATGAAGATTCCC
4503725 CTTTCACAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (34 bp):
ATCTTCTTCTACAAATCATTTTATGAAGATTCCC
Found at i:4506390 original size:16 final size:16
Alignment explanation
Indices: 4506369--4506400 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4506359 AGACATCAAA
4506369 CTATAATTTTACCATG
1 CTATAATTTTACCATG
4506385 CTATAATTTTACCATG
1 CTATAATTTTACCATG
4506401 GGGTAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
CTATAATTTTACCATG
Found at i:4507415 original size:17 final size:17
Alignment explanation
Indices: 4507383--4507415 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4507373 AATAAACTTA
4507383 TACTAAATATATAATAC
1 TACTAAATATATAATAC
4507400 TACTATAATATA-AATA
1 TACTA-AATATATAATA
4507416 TTAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TACTAAATATATAATAC
Found at i:4507587 original size:28 final size:28
Alignment explanation
Indices: 4507555--4507613 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
4507545 TAGTCTTTTA
4507555 TAAATAGGGATGGATTTGAGAAAAAAAT
1 TAAATAGGGATGGATTTGAGAAAAAAAT
*
4507583 TAAATAGGGATGGATTTGAGAAAAAATT
1 TAAATAGGGATGGATTTGAGAAAAAAAT
4507611 TAA
1 TAA
4507614 GTCTATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (28 bp):
TAAATAGGGATGGATTTGAGAAAAAAAT
Found at i:4514336 original size:42 final size:42
Alignment explanation
Indices: 4514281--4514362 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
4514271 TATTTGGTTT
* *
4514281 TAAGCACCATAGATAGGATTGTGGAGCATAATTATTGTTTTA
1 TAAGCACCATAGATAGGATTGTGGAGCACAATTACTGTTTTA
* * * *
4514323 TAAGCGCCTTAGATAGGATTTTGGAGTACAATTACTGTTT
1 TAAGCACCATAGATAGGATTGTGGAGCACAATTACTGTTT
4514363 CATATTTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (42 bp):
TAAGCACCATAGATAGGATTGTGGAGCACAATTACTGTTTTA
Found at i:4519157 original size:6 final size:7
Alignment explanation
Indices: 4519132--4519164 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
4519122 CCAGCTCTAA
4519132 CCCTCTC
1 CCCTCTC
4519139 CCCTCTC
1 CCCTCTC
4519146 CCCTCT-
1 CCCTCTC
4519152 CCCTCTTC
1 CCCTC-TC
4519160 CCCTC
1 CCCTC
4519165 CATAGCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 5 0.21
7 14 0.58
8 5 0.21
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (7 bp):
CCCTCTC
Found at i:4532493 original size:14 final size:14
Alignment explanation
Indices: 4532474--4532524 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
4532464 ATTTTATAAT
4532474 TATATTTAAAACTA
1 TATATTTAAAACTA
* *
4532488 TATATTTGAAGCTA
1 TATATTTAAAACTA
4532502 TA-ACTTTAAAA-TA
1 TATA-TTTAAAACTA
*
4532515 AATATTTAAA
1 TATATTTAAA
4532525 TTGAAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (14 bp):
TATATTTAAAACTA
Found at i:4532524 original size:13 final size:14
Alignment explanation
Indices: 4532506--4532538 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4532496 AAGCTATAAC
4532506 TTTAAAAT-AAATA
1 TTTAAAATGAAATA
*
4532519 TTTAAATTGAAATA
1 TTTAAAATGAAATA
4532533 TTTAAA
1 TTTAAA
4532539 GTCTTTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
TTTAAAATGAAATA
Found at i:4532844 original size:20 final size:21
Alignment explanation
Indices: 4532819--4532866 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
4532809 ACATTAGAAA
4532819 ATATAAAAA-TAGAAATAA-AT
1 ATATAAAAATTAGAAA-AATAT
4532839 ATATAAAAATTTAGAAAAATAT
1 ATATAAAAA-TTAGAAAAATAT
4532861 ATATAA
1 ATATAA
4532867 TCTAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.36
21 2 0.08
22 14 0.56
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
ATATAAAAATTAGAAAAATAT
Found at i:4533061 original size:21 final size:22
Alignment explanation
Indices: 4533037--4533083 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 22
4533027 TTACTTGAAA
*
4533037 TTTAAATACATTTTTTTAA-TT
1 TTTAAATACATTATTTTAACTT
*
4533058 TTT--ATATATTATTTTAACTT
1 TTTAAATACATTATTTTAACTT
4533078 TTTAAA
1 TTTAAA
4533084 ATTTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
19 12 0.57
20 5 0.24
21 3 0.14
22 1 0.05
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTAAATACATTATTTTAACTT
Found at i:4533345 original size:28 final size:29
Alignment explanation
Indices: 4533291--4533351 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
4533281 GTTAAAAGTG
*
4533291 TTTTTTAATATTTAATATTATATTTTTCTA
1 TTTTTTAATATTAAATATTATATTTTT-TA
4533321 TTTTTTAAT-TTAAAT-TTA-ATGTTTTTA
1 TTTTTTAATATTAAATATTATAT-TTTTTA
4533348 TTTT
1 TTTT
4533352 AAATAAACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.28
28 7 0.24
29 5 0.17
30 9 0.31
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (29 bp):
TTTTTTAATATTAAATATTATATTTTTTA
Found at i:4534156 original size:28 final size:30
Alignment explanation
Indices: 4534118--4534195 Score: 117
Period size: 28 Copynumber: 2.7 Consensus size: 30
4534108 AGAGAAGAGA
4534118 TTTTTTTTGAGATTCAAGAAGAGG-TTTT-
1 TTTTTTTTGAGATTCAAGAAGAGGATTTTC
*
4534146 TTTTTTTTGAGATTCAAG-AGGGGATTTTTC
1 TTTTTTTTGAGATTCAAGAAGAGGA-TTTTC
4534176 TTTTTTTTGAGATTCAAGAA
1 TTTTTTTTGAGATTCAAGAA
4534196 CAAAAAATCA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
27 4 0.09
28 18 0.40
29 4 0.09
30 18 0.40
31 1 0.02
ACGTcount: A:0.24, C:0.05, G:0.21, T:0.50
Consensus pattern (30 bp):
TTTTTTTTGAGATTCAAGAAGAGGATTTTC
Found at i:4534180 original size:30 final size:27
Alignment explanation
Indices: 4534118--4534194 Score: 109
Period size: 30 Copynumber: 2.7 Consensus size: 27
4534108 AGAGAAGAGA
4534118 TTTTTTTTGAGATTCAAGAAGAGGTTTT
1 TTTTTTTTGAGATTCAAG-AGAGGTTTT
*
4534146 TTTTTTTTGAGATTCAAGAGGGGATTTTT
1 TTTTTTTTGAGATTCAAGAGAGG--TTTT
4534175 CTTTTTTTTGAGATTCAAGA
1 -TTTTTTTTGAGATTCAAGA
4534195 ACAAAAAATC
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
27 4 0.09
28 18 0.40
29 4 0.09
30 19 0.42
ACGTcount: A:0.23, C:0.05, G:0.21, T:0.51
Consensus pattern (27 bp):
TTTTTTTTGAGATTCAAGAGAGGTTTT
Found at i:4534928 original size:16 final size:15
Alignment explanation
Indices: 4534897--4534939 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
4534887 CCTTCATTCC
*
4534897 ATTATTATTATTACT
1 ATTATTATTTTTACT
4534912 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
4534928 ATCATTATTTTT
1 ATTATTATTTTT
4534940 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:4535064 original size:16 final size:16
Alignment explanation
Indices: 4535043--4535074 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4535033 CTATTGTTAC
4535043 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
4535059 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
4535075 ATTATTATAA
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:4535082 original size:3 final size:3
Alignment explanation
Indices: 4535074--4535202 Score: 86
Period size: 3 Copynumber: 42.7 Consensus size: 3
4535064 TTCTCATCAC
* * * *
4535074 TAT TAT TAT AATT TAT CAT TGT TAAT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
4535120 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
4535165 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4535203 GCACTACTTT
Statistics
Matches: 99, Mismatches: 18, Indels: 18
0.73 0.13 0.13
Matches are distributed among these distances:
2 7 0.07
3 82 0.83
4 10 0.10
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:4535219 original size:9 final size:9
Alignment explanation
Indices: 4535165--4535225 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
4535155 CTTAATAGAT
*
4535165 TATTATTAT
1 TATTATTAC
*
4535174 TATTATTAT
1 TATTATTAC
*
4535183 TATTATTAT
1 TATTATTAC
*
4535192 TATTATTAT
1 TATTATTAC
** *
4535201 TAGCACTAC
1 TATTATTAC
*
4535210 TTTTATTAC
1 TATTATTAC
4535219 TATTATT
1 TATTATT
4535226 TAATATATTA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.61
Consensus pattern (9 bp):
TATTATTAC
Found at i:4535246 original size:12 final size:13
Alignment explanation
Indices: 4535164--4535248 Score: 65
Period size: 12 Copynumber: 7.0 Consensus size: 13
4535154 ACTTAATAGA
*
4535164 TTATTATTATTA-
1 TTATTACTATTAT
*
4535176 TTATTATTATTA-
1 TTATTACTATTAT
*
4535188 TTATTATTATTA-
1 TTATTACTATTAT
** *
4535200 TTAGCACTACT-T
1 TTATTACTATTAT
4535212 TTATTACTATTAT
1 TTATTACTATTAT
*
4535225 TTAATA-TATTAT
1 TTATTACTATTAT
4535237 TT-TTACTATTAT
1 TTATTACTATTAT
4535249 CGTCATATTG
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
11 2 0.03
12 53 0.87
13 6 0.10
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (13 bp):
TTATTACTATTAT
Found at i:4535324 original size:22 final size:22
Alignment explanation
Indices: 4535294--4535354 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
4535284 TTATTATATC
*
4535294 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
4535316 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
4535338 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
4535355 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:4550911 original size:85 final size:85
Alignment explanation
Indices: 4550784--4550948 Score: 312
Period size: 85 Copynumber: 1.9 Consensus size: 85
4550774 GAGAGGCCAA
4550784 GGTGAAAACCCGCAAAGGGCACCTTGTGACCAAAAGGATTTTGAGTTGAAAACCTATAAAGGCAG
1 GGTGAAAACCCGCAAAGGGCACCTTGTGACCAAAAGGATTTTGAGTTGAAAACCTATAAAGGCAG
4550849 CTCAAATTTTGAAGATCACT
66 CTCAAATTTTGAAGATCACT
* *
4550869 GGTGAAAACCCGCAAAGGGCACCTTGTGACCAAAAGGGTTTTGAGTTGAAAACCTATAAGGGCAG
1 GGTGAAAACCCGCAAAGGGCACCTTGTGACCAAAAGGATTTTGAGTTGAAAACCTATAAAGGCAG
4550934 CTCAAATTTTGAAGA
66 CTCAAATTTTGAAGA
4550949 GTACACAGTG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (85 bp):
GGTGAAAACCCGCAAAGGGCACCTTGTGACCAAAAGGATTTTGAGTTGAAAACCTATAAAGGCAG
CTCAAATTTTGAAGATCACT
Found at i:4552086 original size:205 final size:205
Alignment explanation
Indices: 4551734--4552460 Score: 1346
Period size: 205 Copynumber: 3.5 Consensus size: 205
4551724 CAGATGTTAT
*
4551734 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
*
4551799 GATTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
4551864 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
4551929 AGATGATTTC
196 AGATGATTTC
*
4551939 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* *
4552004 GATTTGTCTTTCACGTGATTATGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
4552069 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
4552134 AGATGATTTC
196 AGATGATTTC
*
4552144 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCAAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* *
4552209 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTGGTCTTTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* * * *
4552274 AGAACGAATCGAAGTTTGGTATCTTCACTTTGATGGAGAGCAAACACATAGCAGATCTCGCCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
4552339 AGATGATTTC
196 AGATGATTTC
4552349 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
4552414 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTG
4552461 GCATCCTAGT
Statistics
Matches: 508, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
205 508 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (205 bp):
ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
AGATGATTTC
Found at i:4552465 original size:87 final size:87
Alignment explanation
Indices: 4552351--4552546 Score: 338
Period size: 87 Copynumber: 2.3 Consensus size: 87
4552341 ATGATTTCAC
* * * *
4552351 TGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGA
1 TGAAGCAAATCTAAGATGATTTGGCATCCTAGTGTTTACAAGGAACAAATCGAAGACATAGCTGA
4552416 TTTGGCTTTCACGTGATTACGA
66 TTTGGCTTTCACGTGATTACGA
*
4552438 TGAAGCAAATCTAAGATGATTTGGCATCCTAGTGTTTACAAGGAGCAAATCGAAGACATAGCTGA
1 TGAAGCAAATCTAAGATGATTTGGCATCCTAGTGTTTACAAGGAACAAATCGAAGACATAGCTGA
4552503 TTTGGCTTTCACGTGATTACGA
66 TTTGGCTTTCACGTGATTACGA
*
4552525 TAAAGCAAATCTAAGATGATTT
1 TGAAGCAAATCTAAGATGATTT
4552547 ATCGTCTCTG
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 103 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (87 bp):
TGAAGCAAATCTAAGATGATTTGGCATCCTAGTGTTTACAAGGAACAAATCGAAGACATAGCTGA
TTTGGCTTTCACGTGATTACGA
Found at i:4552510 original size:292 final size:292
Alignment explanation
Indices: 4552146--4552752 Score: 1052
Period size: 292 Copynumber: 2.1 Consensus size: 292
4552136 ATGATTTCAC
* * * *
4552146 TGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCAAAGACATAGCTGA
1 TGAAGCAAATCTAAGATGATTTGGCATCCTAGTGTTTACAAGGAACAAATCAAAGACATAGCTGA
* * * *
4552211 TTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTGGTCTTTGTATTGTCAGAG
66 TTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAG
* * * *
4552276 AACGAATCGAAGTTTGGTATCTTCACTTTGATGGAGAGCAAACACATAGCAGATCTCGCCTTCAG
131 AACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAAACACATAGCAGATCTCACATTCAG
*
4552341 ATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAG
196 ATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAG
4552406 ACATAGCTGATTTGGCTTTCACGTGATTACGA
261 ACATAGCTGATTTGGCTTTCACGTGATTACGA
* *
4552438 TGAAGCAAATCTAAGATGATTTGGCATCCTAGTGTTTACAAGGAGCAAATCGAAGACATAGCTGA
1 TGAAGCAAATCTAAGATGATTTGGCATCCTAGTGTTTACAAGGAACAAATCAAAGACATAGCTGA
4552503 TTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAG
66 TTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAG
*
4552568 AACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACATTCAG
131 AACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAAACACATAGCAGATCTCACATTCAG
* *
4552633 ATGATTTCACTGAAGCAGATCTAAGATGATTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAG
196 ATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAG
4552698 ACATAGCTGATTTGGCTTTCACGTGATTACGA
261 ACATAGCTGATTTGGCTTTCACGTGATTACGA
4552730 TGAAGCAAATCTAAGATGATTTG
1 TGAAGCAAATCTAAGATGATTTG
4552753 TCGTCTCTGT
Statistics
Matches: 297, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
292 297 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (292 bp):
TGAAGCAAATCTAAGATGATTTGGCATCCTAGTGTTTACAAGGAACAAATCAAAGACATAGCTGA
TTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAG
AACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAAACACATAGCAGATCTCACATTCAG
ATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAG
ACATAGCTGATTTGGCTTTCACGTGATTACGA
Found at i:4552670 original size:497 final size:497
Alignment explanation
Indices: 4551941--4552928 Score: 1796
Period size: 497 Copynumber: 2.0 Consensus size: 497
4551931 ATGATTTCAC
* * *
4551941 TGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGCTGA
1 TGAAGCAAATCCAAGATGATTTGGCATCCTAGTGTTTACAAGGAGCAAATCGAAGACATAGCTGA
* * * *
4552006 TTTGTCTTTCACGTGATTATGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
66 TTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAG
*
4552071 AACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTCAG
131 AACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACATTCAG
*
4552136 ATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCAAAG
196 ATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCAAAG
* *
4552201 ACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTGGTCTTTGT
261 ACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGT
* *
4552266 ATTGTCAGAGAACGAATCGAAGTTTGGTATCTTCACTTTGATGGAGAGCAAACACATAGCAGATC
326 ATTGTCAGAGAACGAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAAACACATAGCAGATC
*
4552331 TCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAA
391 TCGCCTTCAGATAATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAA
4552396 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA
456 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA
*
4552438 TGAAGCAAATCTAAGATGATTTGGCATCCTAGTGTTTACAAGGAGCAAATCGAAGACATAGCTGA
1 TGAAGCAAATCCAAGATGATTTGGCATCCTAGTGTTTACAAGGAGCAAATCGAAGACATAGCTGA
4552503 TTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAG
66 TTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAG
4552568 AACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACATTCAG
131 AACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACATTCAG
* * *
4552633 ATGATTTCACTGAAGCAGATCTAAGATGATTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAG
196 ATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCAAAG
4552698 ACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGT
261 ACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGT
* *
4552763 ATTGTCAGAGAACGAATCAAAGTTTGGCATCTTCACTTTGATGTAGAGCAGACACATAGCAGATC
326 ATTGTCAGAGAACGAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAAACACATAGCAGATC
4552828 TCGCCTTCAGATAATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAA
391 TCGCCTTCAGATAATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAA
4552893 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGA
456 CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGA
4552929 AAGCAAATCT
Statistics
Matches: 471, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
497 471 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (497 bp):
TGAAGCAAATCCAAGATGATTTGGCATCCTAGTGTTTACAAGGAGCAAATCGAAGACATAGCTGA
TTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAG
AACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACATTCAG
ATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCAAAG
ACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGT
ATTGTCAGAGAACGAATCAAAGTTTGGCATCTTCACTTTGATGGAGAGCAAACACATAGCAGATC
TCGCCTTCAGATAATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAA
CAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA
Found at i:4553171 original size:403 final size:406
Alignment explanation
Indices: 4552438--4553326 Score: 1349
Period size: 403 Copynumber: 2.2 Consensus size: 406
4552428 GTGATTACGA
* * * *
4552438 TGAAGCAAATCTAAGATGATTTGGCATCCTAGTGTTTACAAGGAGCAAATCGAAGACATAGCTGA
1 TGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGA
4552503 TTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAG
66 TTTGGCTTTCACG-GA-TA-GA-AAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAG
* * **
4552568 AACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACATTCAG
127 AACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCTCACATTCAG
* * *
4552633 ATGATTTCACTGAAGCAGATCTAAGATGATTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAG
192 ATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAG
4552698 ACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGT
257 ACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGT
* * * ** *
4552763 ATTGTCAGAGAACGAATCAAAGTTTGGCATCTTCACTTTGATGTAGAGCAGACACATAGCAGATC
322 ATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATC
**
4552828 TCGCCTTCAGATAATTT-CAC
387 TAACCTTCAGAT-ATTTACAC
*
4552848 TGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGA
1 TGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGA
* *
4552913 TTTGGCTTTCAC-G-T-G-AAAGCAAATCTAAGATGATTTGTGGTCTCTGTATTGTCAGAGAACA
66 TTTGGCTTTCACGGATAGAAAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAGAACA
* * *
4552974 AATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAGCAGATCTGACCTTCAGATG-
131 AATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCTCACATTCAGATGA
* *
4553038 TTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGAC
196 TTT-CACTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGAC
*
4553103 ATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTGGTCTCTGTAT
259 ATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTAT
* * *
4553168 TGTCAGAGAACAAATCGAAGTCTGGTATCTCCACTTCAATGGAGAGCAGATACATAGCAGATCTA
324 TGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCTA
*
4553233 ACCTTCAGATATTTATAC
389 ACCTTCAGATATTTACAC
* *
4553251 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCAG
1 TGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
*
4553316 ATTTGACTTTC
65 ATTTGGCTTTC
4553327 GGATGTTCCA
Statistics
Matches: 439, Mismatches: 36, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
401 3 0.01
402 113 0.26
403 183 0.42
404 66 0.15
406 1 0.00
408 1 0.00
410 72 0.16
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (406 bp):
TGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTGA
TTTGGCTTTCACGGATAGAAAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGAGAACA
AATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCTCACATTCAGATGA
TTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACAT
AGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTG
TCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCTAAC
CTTCAGATATTTACAC
Found at i:4553204 original size:206 final size:205
Alignment explanation
Indices: 4552438--4553326 Score: 1334
Period size: 205 Copynumber: 4.4 Consensus size: 205
4552428 GTGATTACGA
* * *
4552438 TGAAGCAA-ATCTAAGATGATTTGGCATCCTAGTGTTTACAAGGAGCAAATCGAAGACATAGCTG
1 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
* *
4552502 ATTTGGCTTTCACGTGATTACGATAAAGCAAATCTAAGATGATTTATCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * ** * *
4552567 GAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACATTCA
131 GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCTGACCTTCA
4552632 GATGATTTCAC
196 GAT-ATTTCAC
* *
4552643 TGAAGC-AGATCTAAGATGATTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGCTG
1 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
4552707 ATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * * ** *
4552772 GAACGAATCAAAGTTTGGCATCTTCACTTTGATGTAGAGCAGACACATAGCAGATCTCG-CCTTC
131 GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCT-GACCTTC
4552836 AGATAATTTCAC
195 AGAT-ATTTCAC
*
4552848 TGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
1 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
*
4552912 ATTTGGCTTTCAC--G--T--GA--AAGCAAATCTAAGATGATTTGTGGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
4552969 GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAGCAGATCTGACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCTGACCTTCA
* *
4553034 GATGTTTATAC
196 GATATTT-CAC
* *
4553045 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGACATAGCTG
1 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
*
4553110 ATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTGGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * *
4553175 GAACAAATCGAAGTCTGGTATCTCCACTTCAATGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCTGACCTTCA
*
4553240 GATATTTATAC
196 GATATTT-CAC
* *
4553251 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCAG
1 TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
*
4553316 ATTTGACTTTC
66 ATTTGGCTTTC
4553327 GGATGTTCCA
Statistics
Matches: 639, Mismatches: 32, Indels: 25
0.92 0.05 0.04
Matches are distributed among these distances:
196 4 0.01
197 105 0.16
198 68 0.11
199 2 0.00
200 1 0.00
201 1 0.00
202 1 0.00
203 1 0.00
204 3 0.00
205 267 0.42
206 186 0.29
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
TGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCTGACCTTCA
GATATTTCAC
Found at i:4553632 original size:44 final size:44
Alignment explanation
Indices: 4553584--4553709 Score: 148
Period size: 44 Copynumber: 2.9 Consensus size: 44
4553574 TCAGCATGGA
* * * *
4553584 ATCCCTGTGCTTATAGGGAACAAGTTTAATATAGCAGATTTGGC
1 ATCCCTGTGTTTATAGGGAACAAGTTGAAGACAGCAGATTTGGC
* * *
4553628 ATCCCTATGTTTATAAGAAACAAGTTGAAGACAGCAGATTTGGC
1 ATCCCTGTGTTTATAGGGAACAAGTTGAAGACAGCAGATTTGGC
* *
4553672 ATCCCTGTGTTTATGGGGAAC-AGATCGAAGA-AGCAGAT
1 ATCCCTGTGTTTATAGGGAACAAG-TTGAAGACAGCAGAT
4553710 CAAGAACTCA
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 9 0.13
44 60 0.87
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (44 bp):
ATCCCTGTGTTTATAGGGAACAAGTTGAAGACAGCAGATTTGGC
Found at i:4553658 original size:132 final size:131
Alignment explanation
Indices: 4553466--4553702 Score: 305
Period size: 132 Copynumber: 1.8 Consensus size: 131
4553456 CCGTATTGTC
* * * *
4553466 AGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTTTGCTTATAAGGAATAGATCGAAGATAGC
1 AGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTATGCTTATAAGAAAAAGATCGAAGACAGC
* *
4553531 AGAACTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTT
66 AGAACTGACATCCCTGTGCTTACGGGGAA-CAGATCGAAGATTTCAGCATGGAATCCCTGTGCTT
4553596 AT
130 AT
* * * * *
4553598 AGGGAACAAGTTTAATATAGCAGATTTGGCATCCCTATGTTTATAAGAAACAAG-TTGAAGACAG
1 AGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTATGCTTATAAGAAA-AAGATCGAAGACAG
** * * *
4553662 CAGATTTGGCATCCCTGTGTTTATGGGGAACAGATCGAAGA
65 CAGAACTGACATCCCTGTGCTTACGGGGAACAGATCGAAGA
4553703 AGCAGATCAA
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
131 11 0.12
132 75 0.85
133 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (131 bp):
AGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTATGCTTATAAGAAAAAGATCGAAGACAGC
AGAACTGACATCCCTGTGCTTACGGGGAACAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTA
T
Found at i:4554199 original size:27 final size:27
Alignment explanation
Indices: 4554162--4554223 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
4554152 AGAGAAGCGA
4554162 TTTTTTTGAGATTCAAGAAGAGATTTT
1 TTTTTTTGAGATTCAAGAAGAGATTTT
* *
4554189 TTTTTTTGAGATTCAAGAGGGGATTTT
1 TTTTTTTGAGATTCAAGAAGAGATTTT
4554216 TCTTTTTT
1 T-TTTTTT
4554224 TTTTGAGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 26 0.81
28 6 0.19
ACGTcount: A:0.23, C:0.05, G:0.19, T:0.53
Consensus pattern (27 bp):
TTTTTTTGAGATTCAAGAAGAGATTTT
Found at i:4554822 original size:3 final size:3
Alignment explanation
Indices: 4554814--4554849 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4554804 TGTATTTCTA
4554814 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4554850 ATGGTAGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4554975 original size:16 final size:15
Alignment explanation
Indices: 4554944--4554986 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
4554934 CCTTCATTCC
*
4554944 ATTATTATTATTACT
1 ATTATTATTTTTACT
4554959 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
4554975 ATCATTATTTTT
1 ATTATTATTTTT
4554987 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:4555111 original size:16 final size:16
Alignment explanation
Indices: 4555090--4555121 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4555080 CTATTGTTAC
4555090 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
4555106 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
4555122 ATTATTATAA
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:4555342 original size:22 final size:22
Alignment explanation
Indices: 4555312--4555372 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
4555302 TTATTATATC
*
4555312 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
4555334 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* *
4555356 TTTTCCT-TTATTTTTGT
1 TTTTACTATTATTATTGT
4555373 ATTTACTTAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:4566051 original size:16 final size:16
Alignment explanation
Indices: 4566032--4566087 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
4566022 GGATTCAGAA
4566032 TTTTTTGGGCTTAAGT
1 TTTTTTGGGCTTAAGT
*
4566048 TTTTTTCGGGATT-AGAT
1 TTTTTT-GGGCTTAAG-T
* *
4566065 TTTTTTGGGCTCAATT
1 TTTTTTGGGCTTAAGT
4566081 TTTTTTG
1 TTTTTTG
4566088 TGCTCGGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.12, C:0.07, G:0.21, T:0.59
Consensus pattern (16 bp):
TTTTTTGGGCTTAAGT
Found at i:4566074 original size:33 final size:34
Alignment explanation
Indices: 4566022--4566086 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
4566012 AATTTTCTTT
*
4566022 GGATTCAGAATTTTTTGGGCTTAAGTTTTTTTCG
1 GGATTCAGAATTTTTTGGGCTCAAGTTTTTTTCG
* *
4566056 GGATT-AGATTTTTTTGGGCTCAATTTTTTTT
1 GGATTCAGAATTTTTTGGGCTCAAGTTTTTTT
4566087 GTGCTCGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.17, C:0.08, G:0.22, T:0.54
Consensus pattern (34 bp):
GGATTCAGAATTTTTTGGGCTCAAGTTTTTTTCG
Found at i:4566349 original size:13 final size:13
Alignment explanation
Indices: 4566331--4566364 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
4566321 TGTAAAATTC
4566331 ATTATATT-TTATT
1 ATTATATTATTA-T
4566344 ATTATATTATTAT
1 ATTATATTATTAT
4566357 ATTATATT
1 ATTATATT
4566365 GTCAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTATATTATTAT
Found at i:4567711 original size:24 final size:24
Alignment explanation
Indices: 4567655--4567711 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
4567645 GCAATTGCAG
4567655 TTCAGATACAGAGTTAGATGCAAA
1 TTCAGATACAGAGTTAGATGCAAA
* * * * *
4567679 ATCATATACATATTTAGATGCATA
1 TTCAGATACAGAGTTAGATGCAAA
4567703 TTCAGATAC
1 TTCAGATAC
4567712 TACCATCATC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (24 bp):
TTCAGATACAGAGTTAGATGCAAA
Found at i:4572846 original size:16 final size:15
Alignment explanation
Indices: 4572827--4572865 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
4572817 GTGTGATCTC
*
4572827 AAATTTAAATATTCTT
1 AAATTTAAATATT-TA
*
4572843 AAATTCAAATATTTA
1 AAATTTAAATATTTA
4572858 AAATTTAA
1 AAATTTAA
4572866 CTTTTGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATTTAAATATTTA
Found at i:4580253 original size:16 final size:16
Alignment explanation
Indices: 4580233--4580288 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
4580223 CGTTTGGTTG
4580233 GCTGTAATGGAATA-A
1 GCTGTAATGGAATAGA
*
4580248 GGCTGTAATTGAATAGA
1 -GCTGTAATGGAATAGA
*
4580265 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
4580281 GCTGTAAT
1 GCTGTAAT
4580289 AAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 34 0.97
17 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:4580363 original size:44 final size:46
Alignment explanation
Indices: 4580270--4580363 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
4580260 ATAGAGTTGT
*
4580270 AATGGAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
***
4580316 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
4580360 AATG
1 AATG
4580364 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
Found at i:4580513 original size:58 final size:58
Alignment explanation
Indices: 4580450--4580569 Score: 143
Period size: 58 Copynumber: 2.1 Consensus size: 58
4580440 ATTGTTATTC
* *
4580450 TTATTAAAAATAATTTAATAAATATAATAAATAATTTAATCATATT-TTAACATAATTA
1 TTATTAAAAATAATTTAATAAA-ATAATAAATAATTTAATAAAATTCTTAACATAATTA
** ** * **
4580508 TTATTAATTATAATTTAATAAAATGGTATATAATTTAATAAAATTCTTAATGTAATTA
1 TTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATAATTA
4580566 TTAT
1 TTAT
4580570 ATGAATTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 18 0.35
58 34 0.65
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (58 bp):
TTATTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATAATTA
Found at i:4583679 original size:33 final size:33
Alignment explanation
Indices: 4583642--4583706 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
4583632 ATGAAGGAAA
*
4583642 GAAGAAAGCTCCAGACGTGAGAAAGAAATGGAT
1 GAAGAAAGCTCCAGACGTAAGAAAGAAATGGAT
*
4583675 GAAGAAAGGTCCAGACGTAAGAAAGAAATGGA
1 GAAGAAAGCTCCAGACGTAAGAAAGAAATGGA
4583707 AGGGTAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.48, C:0.11, G:0.31, T:0.11
Consensus pattern (33 bp):
GAAGAAAGCTCCAGACGTAAGAAAGAAATGGAT
Found at i:4588162 original size:20 final size:20
Alignment explanation
Indices: 4588124--4588162 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4588114 AAATAAAAAA
*
4588124 ATAAAAAAAAATATTTTAAT
1 ATAAAAAAAAATATATTAAT
* *
4588144 ATAAAAATAATTATATTAA
1 ATAAAAAAAAATATATTAA
4588163 GAATGTTGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAAAAAAAATATATTAAT
Found at i:4588389 original size:16 final size:16
Alignment explanation
Indices: 4588368--4588419 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
4588358 CAATAATGCT
*
4588368 ATTACAGCTCTATTCC
1 ATTACAGTTCTATTCC
* *
4588384 ATTACAGTTTTATTTC
1 ATTACAGTTCTATTCC
* *
4588400 ATTACAATTGTATTCC
1 ATTACAGTTCTATTCC
4588416 ATTA
1 ATTA
4588420 TAATCTTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:4588429 original size:16 final size:15
Alignment explanation
Indices: 4588378--4588434 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 15
4588368 ATTACAGCTC
*
4588378 TATTCCATTACAGTTT
1 TATTCCATTACA-ATT
*
4588394 TATTTCATTACAATT
1 TATTCCATTACAATT
*
4588409 GTATTCCATTATAATCT
1 -TATTCCATTACAAT-T
4588426 TATTCCATT
1 TATTCCATT
4588435 CCAGTGAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 2 0.06
16 32 0.91
17 1 0.03
ACGTcount: A:0.28, C:0.18, G:0.04, T:0.51
Consensus pattern (15 bp):
TATTCCATTACAATT
Found at i:4594518 original size:21 final size:20
Alignment explanation
Indices: 4594494--4594549 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
4594484 TTCCCTCAAC
*
4594494 AAAAATATTTAAAATATTTA
1 AAAAATATTTAAAATAGTTA
* *
4594514 TAAAAATATATAAAGAAAGTTA
1 -AAAAATATTTAAA-ATAGTTA
4594536 AAAAAT-TTTAAAAT
1 AAAAATATTTAAAAT
4594550 TTCTAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.03
20 5 0.17
21 18 0.62
22 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (20 bp):
AAAAATATTTAAAATAGTTA
Found at i:4595658 original size:27 final size:28
Alignment explanation
Indices: 4595627--4595696 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
4595617 TAAAAATTAT
*
4595627 TAAAATATTATAATA-ATT-TAAAAACA
1 TAAAAAATTATAATATATTATAAAAACA
* *
4595653 TAAAAAATTATTAATATATTATGAAAATA
1 TAAAAAATTA-TAATATATTATAAAAACA
*
4595682 TGAAAACATTATAAT
1 T-AAAAAATTATAAT
4595697 TTTTTAGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 9 0.25
27 5 0.14
28 3 0.08
29 11 0.31
30 8 0.22
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (28 bp):
TAAAAAATTATAATATATTATAAAAACA
Found at i:4595688 original size:37 final size:37
Alignment explanation
Indices: 4595618--4595690 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
4595608 ATTTAAACTT
*
4595618 AAAAATTATTAAAATATTATAATAATTTAAAAACATA
1 AAAAATTATTAAAATATTATAATAATATAAAAACATA
* *
4595655 AAAAATTATTAATATATTATGAA-AATATGAAAACAT
1 AAAAATTATTAAAATATTAT-AATAATATAAAAACAT
4595691 TATAATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 30 0.94
38 2 0.06
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (37 bp):
AAAAATTATTAAAATATTATAATAATATAAAAACATA
Found at i:4596102 original size:19 final size:20
Alignment explanation
Indices: 4596060--4596107 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
4596050 TTTTTTACTA
**
4596060 TTTTAATATTTTTATATAAC
1 TTTTAATAACTTTATATAAC
* *
4596080 TTTTTATAACTTTA-ATAAT
1 TTTTAATAACTTTATATAAC
4596099 TTTTAATAA
1 TTTTAATAA
4596108 TAAGTTTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAATAACTTTATATAAC
Found at i:4596103 original size:10 final size:10
Alignment explanation
Indices: 4596060--4596108 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
4596050 TTTTTTACTA
4596060 TTTTAAT-AT
1 TTTTAATAAT
4596069 TTTTATATAACT
1 TTTTA-ATAA-T
4596081 TTTT-ATAA-
1 TTTTAATAAT
*
4596089 CTTTAATAAT
1 TTTTAATAAT
4596099 TTTTAATAAT
1 TTTTAATAAT
4596109 AAGTTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
8 3 0.09
9 9 0.27
10 15 0.45
11 1 0.03
12 5 0.15
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:4598620 original size:18 final size:18
Alignment explanation
Indices: 4598599--4598636 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
4598589 AATGACTGAC
4598599 TGTTATTGAATAATTGAT
1 TGTTATTGAATAATTGAT
4598617 TGTTATTGAATAATTGAT
1 TGTTATTGAATAATTGAT
4598635 TG
1 TG
4598637 CTACTGGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (18 bp):
TGTTATTGAATAATTGAT
Done.