Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 146 of 226
Found at i:48338256 original size:34 final size:35
Alignment explanation
Indices: 48338176--48338269 Score: 120
Period size: 34 Copynumber: 2.7 Consensus size: 35
48338166 ACTTATACAA
* *
48338176 ATATTAGATCAGAATGTTATATTACCAAAAAAACAT
1 ATATGAGATCAGAATGTCATATTACC-AAAAAACAT
*
48338212 GTATTG-GATCAGAATGTCATATTACC-AAAAACAT
1 ATA-TGAGATCAGAATGTCATATTACCAAAAAACAT
*
48338246 ATATGAGATCAGAATGTCCTATTA
1 ATATGAGATCAGAATGTCATATTA
48338270 AATCAGAGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
33 2 0.04
34 27 0.53
36 21 0.41
37 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (35 bp):
ATATGAGATCAGAATGTCATATTACCAAAAAACAT
Found at i:48341272 original size:14 final size:15
Alignment explanation
Indices: 48341253--48341281 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48341243 AAATTTTACT
48341253 AAAGTG-CTAAAGTA
1 AAAGTGACTAAAGTA
48341267 AAAGTGACTAAAGTA
1 AAAGTGACTAAAGTA
48341282 TAGTTAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.21
Consensus pattern (15 bp):
AAAGTGACTAAAGTA
Found at i:48346828 original size:33 final size:33
Alignment explanation
Indices: 48346791--48346857 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
48346781 AAGTTTTATA
48346791 CATGTGTGAATATGTTTGAAAGTACAATTATGT
1 CATGTGTGAATATGTTTGAAAGTACAATTATGT
48346824 CATGTGTGAATATGTTTGAAAGTACAATTATGT
1 CATGTGTGAATATGTTTGAAAGTACAATTATGT
48346857 C
1 C
48346858 TGTTATGGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (33 bp):
CATGTGTGAATATGTTTGAAAGTACAATTATGT
Found at i:48347357 original size:29 final size:29
Alignment explanation
Indices: 48347288--48347370 Score: 114
Period size: 28 Copynumber: 2.9 Consensus size: 29
48347278 ACCGAAAAAG
* * *
48347288 GAGCCTTTATGGCTGATTCTGTTATATGA
1 GAGCCTTTGTGGCTGATTATGTTATATAA
*
48347317 GA-CCTTTGTGGCTAATTATGTTATATAA
1 GAGCCTTTGTGGCTGATTATGTTATATAA
*
48347345 GAGCCTTTGTGGCTGATTTTGTTATA
1 GAGCCTTTGTGGCTGATTATGTTATA
48347371 CGTGAGTCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 24 0.51
29 23 0.49
ACGTcount: A:0.22, C:0.12, G:0.23, T:0.43
Consensus pattern (29 bp):
GAGCCTTTGTGGCTGATTATGTTATATAA
Found at i:48347381 original size:29 final size:27
Alignment explanation
Indices: 48347288--48347391 Score: 109
Period size: 29 Copynumber: 3.7 Consensus size: 27
48347278 ACCGAAAAAG
* *
48347288 GAGCCTTTATGGCTGATTCTGTTATAT
1 GAGCCTTTGTGGCTGATTATGTTATAT
*
48347315 GAGACCTTTGTGGCTAATTATGTTATAT
1 GAG-CCTTTGTGGCTGATTATGTTATAT
*
48347343 AAGAGCCTTTGTGGCTGATTTTGTTATACGT
1 --GAGCCTTTGTGGCTGATTATGTTATA--T
* *
48347374 GAGTCTTTGTGGTTGATT
1 GAGCCTTTGTGGCTGATT
48347392 CTAATATATG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
27 3 0.05
28 21 0.32
29 37 0.57
30 3 0.05
31 1 0.02
ACGTcount: A:0.19, C:0.12, G:0.25, T:0.44
Consensus pattern (27 bp):
GAGCCTTTGTGGCTGATTATGTTATAT
Found at i:48347515 original size:28 final size:28
Alignment explanation
Indices: 48347480--48347556 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
48347470 ATCTATAAAT
*
48347480 GACGCCTTTGTGGCTATTTTTGTCTGAG
1 GACGCCTTTGTGGCTATCTTTGTCTGAG
*
48347508 GCCGCCTTTGTGGCTATCTTTGTCTGAG
1 GACGCCTTTGTGGCTATCTTTGTCTGAG
* *
48347536 GATGCCTTTGTGACTATCTTT
1 GACGCCTTTGTGGCTATCTTT
48347557 ATTTAAGGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.10, C:0.21, G:0.26, T:0.43
Consensus pattern (28 bp):
GACGCCTTTGTGGCTATCTTTGTCTGAG
Found at i:48347613 original size:29 final size:28
Alignment explanation
Indices: 48347486--48347611 Score: 99
Period size: 28 Copynumber: 4.5 Consensus size: 28
48347476 AAATGACGCC
* * * ** *
48347486 TTTGTGGCTATTTTTGTCTGAGGCCGCC
1 TTTGTGGCTATCTTTGTTTAAGGATGCA
* * *
48347514 TTTGTGGCTATCTTTGTCTGAGGATGCC
1 TTTGTGGCTATCTTTGTTTAAGGATGCA
* * **
48347542 TTTGTGACTATCTTTATTTAAGGACACA
1 TTTGTGGCTATCTTTGTTTAAGGATGCA
* *
48347570 TTTATGTCTATCTATTGTTTAAGGATGCA
1 TTTGTGGCTATCT-TTGTTTAAGGATGCA
*
48347599 TCTGTGGCTATCT
1 TTTGTGGCTATCT
48347612 ATGTCAAAAG
Statistics
Matches: 79, Mismatches: 18, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 57 0.72
29 22 0.28
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (28 bp):
TTTGTGGCTATCTTTGTTTAAGGATGCA
Found at i:48350982 original size:9 final size:9
Alignment explanation
Indices: 48350968--48351019 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
48350958 GCATATGGAT
48350968 ATAAAAATA
1 ATAAAAATA
*
48350977 ATAAAACGAAA
1 ATAAAA--ATA
*
48350988 ATAATAATA
1 ATAAAAATA
*
48350997 ATAATAATA
1 ATAAAAATA
48351006 ATAAATAATA
1 ATAAA-AATA
48351016 ATAA
1 ATAA
48351020 TACAATGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 21 0.58
10 8 0.22
11 7 0.19
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (9 bp):
ATAAAAATA
Found at i:48351036 original size:3 final size:3
Alignment explanation
Indices: 48350987--48351021 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
48350977 ATAAAACGAA
48350987 AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A
48351022 CAATGTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:48351040 original size:9 final size:10
Alignment explanation
Indices: 48350990--48351019 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
48350980 AAACGAAAAT
48350990 AATAATAAT-
1 AATAATAATA
48350999 AATAATAATA
1 AATAATAATA
48351009 AATAATAATA
1 AATAATAATA
48351019 A
1 A
48351020 TACAATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAATAATA
Found at i:48354570 original size:18 final size:19
Alignment explanation
Indices: 48354528--48354572 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
48354518 CTACATATCT
*
48354528 AATTTATTAATTTTAAAATC
1 AATTTATT-ATTTTAAAATA
*
48354548 GATTTATT-TTTTAAAATA
1 AATTTATTATTTTAAAATA
48354566 AATTTAT
1 AATTTAT
48354573 GCCGATTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
20 7 0.32
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (19 bp):
AATTTATTATTTTAAAATA
Found at i:48355001 original size:13 final size:14
Alignment explanation
Indices: 48354960--48355006 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
48354950 CCTTAAGTTG
*
48354960 TTCTACTTTTCCTTT
1 TTCT-CTTTTCATTT
48354975 TTCTCTTTAT-ATTT
1 TTCTCTTT-TCATTT
48354989 TTCT-TTTTCATTT
1 TTCTCTTTTCATTT
48355002 TTCTC
1 TTCTC
48355007 AAACAAAGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 1 0.04
13 11 0.39
14 11 0.39
15 5 0.18
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCTCTTTTCATTT
Found at i:48356323 original size:14 final size:14
Alignment explanation
Indices: 48356287--48356323 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
48356277 TGTTGTCATT
*
48356287 TTACTATTATATTG
1 TTACTATTTTATTG
48356301 TTACTATTTTATTG
1 TTACTATTTTATTG
*
48356315 TTATTATTT
1 TTACTATTT
48356324 GATTATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (14 bp):
TTACTATTTTATTG
Found at i:48356635 original size:24 final size:24
Alignment explanation
Indices: 48356586--48356635 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
48356576 ACAAAATTTT
** *
48356586 AAACCTATTATTCTAATTGAATCA
1 AAACCTAAAATTCTAATTGAACCA
48356610 AAACCTAAAATTCTATATTG-ACCA
1 AAACCTAAAATTCTA-ATTGAACCA
48356634 AA
1 AA
48356636 CTCGGCTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (24 bp):
AAACCTAAAATTCTAATTGAACCA
Found at i:48358685 original size:95 final size:96
Alignment explanation
Indices: 48358563--48358792 Score: 295
Period size: 95 Copynumber: 2.4 Consensus size: 96
48358553 TCGTGTTTAT
*
48358563 TTTTTAAGAAAAAAT-AAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATT
1 TTTTTAAGAAAAAATCAAA-TAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATT-AAAAAATT
*
48358627 TTA-AAAATTAGATTAGGGTTTAGAGTTAAGGG
64 TTATAAAACTAGATTAGGGTTTAGAGTTAAGGG
* * * * **
48358659 TTTTTAAG-GAAAATCAAATAAATTAGGGTTCAGCGTTACTTGAGTAAATTAATTATAATTTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAATTTT
* *
48358723 ATAAAACTAGATTAGGGTTTAGGGTTTAGGG
66 ATAAAACTAGATTAGGGTTTAGAGTTAAGGG
* * *
48358754 TTTTTAAGTAAAAATTCAAATAAATTTGGGTTTGGGGTT
1 TTTTTAAG-AAAAAATCAAATAAATTAGGGTTTAGGGTT
48358793 GAGGGTTACT
Statistics
Matches: 114, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
94 8 0.07
95 72 0.63
96 11 0.10
97 23 0.20
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAATTTT
ATAAAACTAGATTAGGGTTTAGAGTTAAGGG
Found at i:48359340 original size:126 final size:126
Alignment explanation
Indices: 48358825--48359364 Score: 789
Period size: 125 Copynumber: 4.3 Consensus size: 126
48358815 TTGTTAATTT
* *
48358825 AAAGAAGCTCCCACGTGGACGCACTTTTGCTACAGTAGCTCTTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* ** *
48358890 GTTTTTGAGCAAATAGTGTC-AAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTA
66 GTTTCTGAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * ** * *
48358950 AAAAAAGCTTCCACGTGGACATGCTTTTGCTACTGTAGCTCCT-AAAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* * *
48359014 GTTTCTAAGCAAATAGAATAAAAAACGCTTTAAGCAGGATGTTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * *
48359075 AAAGAAGCTCCCACGTAGACGCGTTTTTGCTACAGTAGCTCCTG-AAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
*
48359139 GTTTCTGAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGTTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
* * *
48359200 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGATTAAAT
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
* ** * * **
48359265 GTTTCCGAGCAAATAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGTAGAAGTTTTG
66 GTTTCTGAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
*
48359326 AAAGAACCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
48359365 GCATGTTTGG
Statistics
Matches: 373, Mismatches: 39, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
124 35 0.09
125 231 0.62
126 107 0.29
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAATAGAATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:48363057 original size:18 final size:18
Alignment explanation
Indices: 48363031--48363073 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
48363021 GGCTAGAAAA
* * *
48363031 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
48363049 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
48363067 AGGATAC
1 AGGATAC
48363074 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:48367842 original size:126 final size:126
Alignment explanation
Indices: 48367617--48368158 Score: 769
Period size: 126 Copynumber: 4.3 Consensus size: 126
48367607 CAAACATGCA
* ** * * * * *
48367617 CTACTGTAGCAAAAGTGTGTCCACGTGGGAGCTTCTTTCAATACTTCTACTGATAAAGCATCCAG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCTG
* * * *
48367682 CTTAAAACATTTTTGACACTATTTACTCGGAAATGTCTACTCAAAATTATTTTTTCAGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
* *
48367743 CTACTGTAGCAAAAACGCATCTACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCTG
*
48367808 CTTAAAGCATTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTATTTTTTCAGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
* * *
48367869 CTACTATAGCAAAAGCACATCCACGTGGGAGCTTCTTTTAGTACTTCTGCTAACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCTG
* * *
48367934 CTTAAAGCATTTTTGACATTATTTTCTCAAAAACGTCTACTCAAAATTATTTTTTCAGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
* * * * *
48367995 CTACTGCAGCAAAGGCGCGTCCACGTGGGAGCTTCTTTTAGTGCTTCTCCTGACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCTG
* * * * * *
48368060 CTTAAAGCGTTTTTGACACTATTTGCTTAGAAACATCTAGTCGAAATTAATTTTTCAGGAG
66 CTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
* **
48368121 CTACTGTAGCAAAAGTGCATCCTTGTGGGAGCTTCTTT
1 CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTT
48368159 AAATTAACAA
Statistics
Matches: 371, Mismatches: 45, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 371 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTTAGTACTTCTGCTGACAAAGCATCCTG
CTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
Found at i:48368371 original size:89 final size:96
Alignment explanation
Indices: 48368191--48368394 Score: 260
Period size: 89 Copynumber: 2.2 Consensus size: 96
48368181 CGTAACCCTA
* * *
48368191 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCCTAAACACTAAATCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTACATAAAAACCCTAAACACTAAACCCTAATCT-AT
*
48368256 TTTTTAAAAATTTATAATTAATTTACTCAAGT
65 TTTTTAAAAATTTATAATTAAATTACTCAAGT
* * * * *
48368288 AATCCTAAACCCTAATTTATTTGA-TTTTTCCAT-AAAACCTTTAACTCTAAACCCTAAT-T-TT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTACATAAAAACCCTAAACACTAAACCCTAATCTATT
*
48368349 TTTT-TAAA-TT-TAATTAAATTACTCAAGT
66 TTTTAAAAATTTATAATTAAATTACTCAAGT
48368377 AACCCTAAACCCTAATTT
1 AACCCTAAACCCTAATTT
48368395 TGAAAAATTT
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
89 34 0.35
90 2 0.02
91 3 0.03
92 6 0.06
94 1 0.01
95 21 0.22
96 7 0.07
97 22 0.23
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGAGTTTTTACATAAAAACCCTAAACACTAAACCCTAATCTATT
TTTTAAAAATTTATAATTAAATTACTCAAGT
Found at i:48369737 original size:48 final size:48
Alignment explanation
Indices: 48369604--48370201 Score: 267
Period size: 49 Copynumber: 12.5 Consensus size: 48
48369594 CAGTAAACGA
* * * ** *
48369604 AAAAAAAATTTAGGTGCTGGTCAATCAATGGCCGGCACCAGTA-TTCG
1 AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
** ** *
48369651 AAAAAAA-TTTGGGTGCTGGCCTGTCAATCACCGCCACCACCAGTACG
1 AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
* *
48369698 AAAAAAATTTTGGGTGTTGGCCAATCAATGGTCGGCACCACCAGTTA--
1 AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAG-TACG
* * * *
48369745 AAAAAAA--TT--GTGCTGG-CATGTTAATGGTCGGCACCACTAGTACG
1 AAAAAAATTTTGGGTGCTGGCCA-ATCAATGGCCGGCACCACCAGTACG
**** * * *
48369789 AAATTTTTTTTTCTTGGGTGTTGGCCAATTAATGGCCGATC-CCACCAGTACG
1 AAA---AAAATT-TTGGGTGCTGGCCAATCAATGGCCG-GCACCACCAGTACG
* * * *
48369841 AAAAAAAATTTTGGGAGCTTGCCAGTCAATGGCCAGCACCACCAGTACG
1 -AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
* * ** * * ** * *
48369890 AAAAAAAAATTTAGGTGCTGGCTTATCTATTGTTGGCACCACC-GAAACAA
1 -AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAG-TAC-G
* * * ***
48369940 AAAAATAATTTTTTTTGGGTGCAGACCAGTCAATGGCCGGCACCGGTA-TACG
1 AAAAA-AA----TTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
* * * *
48369992 AAAAAAGTTTTAGGTGCTTGCCTATCAATGGCCGGCACCACCAGTACG
1 AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
* * * ** * * *
48370040 AAAATAAATTTTAGGTTCTAGCCTTTTAATGGCTGGCACGACCAGTAC-
1 AAAA-AAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
* *** * ** *
48370088 AAAAAAATTTT-TGTGCTGGCTTGTCAATGGCCGACACCAAAAATACG
1 AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
* ** * * * **
48370135 AAAAAAAATTT-GGTGCTGGCCTGTTAATGACTGGCACCAGTA-TACG
1 AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
*
48370181 AAAAAAA-TTTAGGTGCTGGCC
1 AAAAAAATTTTGGGTGCTGGCC
48370202 TTCTGATTGT
Statistics
Matches: 412, Mismatches: 109, Indels: 61
0.71 0.19 0.10
Matches are distributed among these distances:
42 4 0.01
43 24 0.06
44 3 0.01
45 5 0.01
46 70 0.17
47 91 0.22
48 43 0.10
49 106 0.26
50 6 0.01
51 1 0.00
52 30 0.07
53 8 0.02
54 21 0.05
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (48 bp):
AAAAAAATTTTGGGTGCTGGCCAATCAATGGCCGGCACCACCAGTACG
Found at i:48370139 original size:47 final size:46
Alignment explanation
Indices: 48370088--48370202 Score: 131
Period size: 47 Copynumber: 2.5 Consensus size: 46
48370078 CGACCAGTAC
* * *
48370088 AAAAAAATTTTTGTGCTGGCTTGTCAATGGCCGACACCAAAAATACG
1 AAAAAAATTTTGGTGCTGGCCTGTCAATGACCGACACC-AAAATACG
* * * * **
48370135 AAAAAAAATTTGGTGCTGGCCTGTTAATGACTGGCACCAGTATACG
1 AAAAAAATTTTGGTGCTGGCCTGTCAATGACCGACACCAAAATACG
*
48370181 AAAAAAATTTAGGTGCTGGCCT
1 AAAAAAATTTTGGTGCTGGCCT
48370203 TCTGATTGTC
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
46 26 0.46
47 31 0.54
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (46 bp):
AAAAAAATTTTGGTGCTGGCCTGTCAATGACCGACACCAAAATACG
Found at i:48373359 original size:14 final size:13
Alignment explanation
Indices: 48373318--48373353 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
48373308 TAATTTCATT
48373318 TTTTCATTTAATA
1 TTTTCATTTAATA
48373331 TTTT-ATTTAAATA
1 TTTTCATTT-AATA
48373344 TTTTCATTTA
1 TTTTCATTTA
48373354 TTTATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.19
13 13 0.62
14 4 0.19
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTCATTTAATA
Found at i:48376586 original size:126 final size:125
Alignment explanation
Indices: 48376326--48376734 Score: 608
Period size: 126 Copynumber: 3.3 Consensus size: 125
48376316 AACAAATAAG
* *
48376326 TCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTTGAGTTGACGTT
1 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACGTT
*
48376390 TCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTG-GTAAGAATTTGTAAAA
66 TCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAG-AAGAATTTGTGAAA
* *
48376450 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTAAGTTGACATT
1 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACGTT
* * **
48376515 TCTGAGCGAATAGTATGAAAAACGCTTAGAGCAGGATGCT-TTATGAGAAGAATTTGTGAAA
66 TCTGAGCAAATAGTAT-AAAATCGCTTCTAGCAGGATGCTATT-TGAGAAGAATTTGTGAAA
* *
48376576 TCGCGACCTCGTGGACGCGCTTTTGCTACAGTAGGTCTTGGAAGAAATAATTTTGAGTTGACGTT
1 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACGTT
* * * *
48376641 TCTAAGCAAATAGTATAAAATCACTTCTAGTAGGATGCTATTTGATAAGAATTTGTGAAA
66 TCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
* * *
48376701 TCGTGCCCTCGTGGACGCGATTTTGTTACAGTAG
1 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
48376735 CATGTCTGGG
Statistics
Matches: 255, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
124 41 0.16
125 101 0.40
126 112 0.44
127 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (125 bp):
TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTTGAGTTGACGTT
TCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
Found at i:48379931 original size:22 final size:21
Alignment explanation
Indices: 48379906--48380060 Score: 222
Period size: 21 Copynumber: 7.3 Consensus size: 21
48379896 TATCAAATTA
*
48379906 TTTTAAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
*
48379927 TTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTTAAGGG-TTAGGG
*
48379949 TTTTTAAGTTAAGTGTTTAGGG
1 TTTTTAAGTTAAG-GGTTAGGG
* *
48379971 TTTTTAAGTTAAAGGTTATGG
1 TTTTTAAGTTAAGGGTTAGGG
48379992 TTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTTAAGGG-TTAGGG
48380014 -TTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGG
*
48380034 TTTTTAAGTTAAGGGTTAGTG
1 TTTTTAAGTTAAGGGTTAGGG
48380055 TTTTTA
1 TTTTTA
48380061 NNNNNNNNNN
Statistics
Matches: 120, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
20 6 0.05
21 73 0.61
22 40 0.33
23 1 0.01
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
TTTTTAAGTTAAGGGTTAGGG
Found at i:48381288 original size:22 final size:21
Alignment explanation
Indices: 48381257--48381555 Score: 303
Period size: 21 Copynumber: 14.1 Consensus size: 21
48381247 ATAAATTAGT
48381257 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
48381278 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
*
48381299 TTTAGGGTTTTTAAGTTAAAGG
1 -TTAGGGTTTTTAAGTTAAGGG
48381321 TTAGGG---TTAGAGTTAAGGG
1 TTAGGGTTTTTA-AGTTAAGGG
*
48381340 TTTATGGTTTTTAAGTTAAGGG
1 -TTAGGGTTTTTAAGTTAAGGG
* *
48381362 TAAGGG-TTTTAAATT-----
1 TTAGGGTTTTTAAGTTAAGGG
*
48381377 TAAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
* *
48381398 TTAGGATTTTTAATTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
*
48381419 TTTATGGTTTTTAAGTTAAGGG
1 -TTAGGGTTTTTAAGTTAAGGG
* *
48381441 TTAGGGTTTTAAATTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
*
48381462 TTTAGGG-TTTTAAGTTAAGAGT
1 -TTAGGGTTTTTAAGTTAAG-GG
48381484 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
*
48381505 TTTAAGGTTTTTAAGTTAAGGTTTAAGG
1 -TTAGGGTTTTTAAGTTAA-G-----GG
48381533 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
48381554 TT
1 TT
48381556 TAAGATTTGT
Statistics
Matches: 233, Mismatches: 22, Indels: 46
0.77 0.07 0.15
Matches are distributed among these distances:
15 6 0.03
16 8 0.03
18 3 0.01
19 8 0.03
20 13 0.06
21 88 0.38
22 83 0.36
23 4 0.02
26 1 0.00
27 17 0.07
28 2 0.01
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.44
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAGGG
Found at i:48381302 original size:43 final size:43
Alignment explanation
Indices: 48381255--48381557 Score: 351
Period size: 43 Copynumber: 7.1 Consensus size: 43
48381245 TAATAAATTA
48381255 GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
*
48381298 GTTTAGGGTTTTTAAGTTAAAGGTTAGGG---TTAGAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTA-AGTTAAGG
* *
48381339 GTTTATGGTTTTTAAGTTAAGGGTAAGGG-TTTT-A---AA--
1 GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
* *
48381375 -TTTAAGGGTTTTTAAGTTAAGGGTTAGGATTTTTAATTTAAGG
1 GTTT-AGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
* * *
48381418 GTTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAAGG
1 GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
*
48381461 GTTTAGGG-TTTTAAGTTAAGAGTTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGG
*
48381504 GTTTAAGGTTTTTAAGTTAAGGTTTAAGGTTAGGGTTTTTAAGTTAAGG
1 GTTTAGGGTTTTTAAGTTAA-G-----GGTTAGGGTTTTTAAGTTAAGG
48381553 GTTTA
1 GTTTA
48381558 AGATTTGTTA
Statistics
Matches: 225, Mismatches: 16, Indels: 32
0.82 0.06 0.12
Matches are distributed among these distances:
35 3 0.01
36 22 0.10
37 4 0.02
38 3 0.01
40 3 0.01
41 37 0.16
42 12 0.05
43 99 0.44
44 14 0.06
45 1 0.00
49 27 0.12
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (43 bp):
GTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGG
Found at i:48381385 original size:36 final size:36
Alignment explanation
Indices: 48381345--48381464 Score: 150
Period size: 36 Copynumber: 3.1 Consensus size: 36
48381335 AAGGGTTTAT
*
48381345 GGTTTTTAAGTTAAGGGTAAGGGTTTTAAATTTAAG
1 GGTTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAAG
* *
48381381 GGTTTTTAAGTTAAGGGTTAGGATTTTTAATTTAAGGG
1 GGTTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAA--G
48381419 TTTATGGTTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAAG
1 -----GGTTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAAG
48381460 GGTTT
1 GGTTT
48381465 AGGGTTTTAA
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
36 37 0.51
38 1 0.01
41 1 0.01
43 33 0.46
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.46
Consensus pattern (36 bp):
GGTTTTTAAGTTAAGGGTTAGGGTTTTAAATTTAAG
Found at i:48381389 original size:16 final size:15
Alignment explanation
Indices: 48381362--48381399 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
48381352 AAGTTAAGGG
* *
48381362 TAAGGGTTTTAAATT
1 TAAGGGTTTTTAAGT
48381377 TAAGGGTTTTTAAGT
1 TAAGGGTTTTTAAGT
48381392 TAAGGGTT
1 TAAGGGTT
48381400 AGGATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (15 bp):
TAAGGGTTTTTAAGT
Found at i:48381501 original size:27 final size:26
Alignment explanation
Indices: 48381429--48381551 Score: 94
Period size: 22 Copynumber: 5.2 Consensus size: 26
48381419 TTTATGGTTT
* * *
48381429 TTAAGTTAAGGGTTAGGGTTTTAAAT
1 TTAAGTTAAGGTTTAGGGTTTTTAAG
48381455 TTAAG----GGTTTAGGG-TTTTAAG
1 TTAAGTTAAGGTTTAGGGTTTTTAAG
48381476 TTAAG---A-GTTTAGGGTTTTTAAG
1 TTAAGTTAAGGTTTAGGGTTTTTAAG
*
48381498 TTAAG----GGTTTAAGGTTTTTAAG
1 TTAAGTTAAGGTTTAGGGTTTTTAAG
48381520 TTAAGGTTTAAGG-TTAGGGTTTTTAAG
1 TTAA-G-TTAAGGTTTAGGGTTTTTAAG
48381547 TTAAG
1 TTAAG
48381552 GGTTTAAGAT
Statistics
Matches: 83, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
21 18 0.22
22 39 0.47
23 1 0.01
26 6 0.07
27 17 0.20
28 2 0.02
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (26 bp):
TTAAGTTAAGGTTTAGGGTTTTTAAG
Found at i:48381525 original size:14 final size:14
Alignment explanation
Indices: 48381506--48381552 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
48381496 AGTTAAGGGT
48381506 TTAAGGTTTTTAAG
1 TTAAGGTTTTTAAG
48381520 TTAAGG--TTTAAGG
1 TTAAGGTTTTTAA-G
*
48381533 TTAGGGTTTTTAAG
1 TTAAGGTTTTTAAG
48381547 TTAAGG
1 TTAAGG
48381553 GTTTAAGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 12 0.43
15 5 0.18
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
TTAAGGTTTTTAAG
Found at i:48381546 original size:15 final size:14
Alignment explanation
Indices: 48381510--48381556 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
48381500 AAGGGTTTAA
*
48381510 GGTTTTTAAGTTAA
1 GGTTTTTAAGTTAG
48381524 GG--TTTAAGGTTAG
1 GGTTTTTAA-GTTAG
48381537 GGTTTTTAAGTTAAG
1 GGTTTTTAAGTT-AG
48381552 GGTTT
1 GGTTT
48381557 AAGATTTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 5 0.18
15 12 0.43
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (14 bp):
GGTTTTTAAGTTAG
Found at i:48381606 original size:8 final size:8
Alignment explanation
Indices: 48381586--48381614 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
48381576 ATGCATTTAA
48381586 TTATAAA-
1 TTATAAAT
48381593 TTATAAAT
1 TTATAAAT
48381601 TTATAAAT
1 TTATAAAT
48381609 TTATAA
1 TTATAA
48381615 TAAATTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TTATAAAT
Found at i:48383014 original size:20 final size:20
Alignment explanation
Indices: 48382977--48383014 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48382967 TTTATTTTTA
*
48382977 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
48382997 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
48383015 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:48383343 original size:31 final size:31
Alignment explanation
Indices: 48383283--48383349 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
48383273 TAACCTCCAA
* * *
48383283 TTAACTGAAGAATATATGCTCAACTTGTCAG
1 TTAACTAAAGAATATATGCCCAACATGTCAG
* *
48383314 TTAACTAAAGAATGTATGCCCGACATGTCAG
1 TTAACTAAAGAATATATGCCCAACATGTCAG
*
48383345 ATAAC
1 TTAAC
48383350 CTCCATGACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (31 bp):
TTAACTAAAGAATATATGCCCAACATGTCAG
Found at i:48383903 original size:7 final size:7
Alignment explanation
Indices: 48383891--48383923 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
48383881 TAGTCGATTG
48383891 GTATTTA
1 GTATTTA
48383898 GTATTTA
1 GTATTTA
48383905 GTATTTA
1 GTATTTA
48383912 GTATTTA
1 GTATTTA
48383919 GTATT
1 GTATT
48383924 ATGTATATAA
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:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:48384890 original size:21 final size:21
Alignment explanation
Indices: 48384866--48384914 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
48384856 ATATACCCTA
48384866 CCGGAAGAACAAGAATCC-CCG
1 CCGGAAGAACAAGAA-CCGCCG
* * *
48384887 CCGGAGGAACCATAACCGCCG
1 CCGGAAGAACAAGAACCGCCG
48384908 CCGGAAG
1 CCGGAAG
48384915 CTGGACGAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.33, C:0.35, G:0.29, T:0.04
Consensus pattern (21 bp):
CCGGAAGAACAAGAACCGCCG
Found at i:48385123 original size:15 final size:16
Alignment explanation
Indices: 48385099--48385128 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48385089 AAACTAATTT
48385099 TTTATAAATTTATAAA
1 TTTATAAATTTATAAA
48385115 TTTAT-AATTTATAA
1 TTTATAAATTTATAA
48385129 TACATGGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTATAAATTTATAAA
Found at i:48385129 original size:7 final size:8
Alignment explanation
Indices: 48385099--48385128 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
48385089 AAACTAATTT
48385099 TTTATAAA
1 TTTATAAA
48385107 TTTATAAA
1 TTTATAAA
48385115 TTTAT-AA
1 TTTATAAA
48385122 TTTATAA
1 TTTATAA
48385129 TACATGGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTATAAA
Found at i:48387842 original size:126 final size:123
Alignment explanation
Indices: 48387579--48387973 Score: 476
Period size: 126 Copynumber: 3.3 Consensus size: 123
48387569 CCCAAACATG
* * * * *
48387579 CTACTGTAGCAAAATCGCGTCCACAAGGGCGCGATTTCACAAATTCTTATAAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAA-AGCATCCTAC
* * * *
48387644 TAGAAGCGATTTTATACTTTTTGCTCAGAAACATCAACTCAAAATTATTTCTTTCAGGAC
65 T-TAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGAC
*
48387704 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCATAAAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AAAGCATCCTAC
* * *
48387769 TTCAAGCGTTTTTCATACTATTTGCTTAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
65 TT-AAGCGATTTT-ATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGAC
* *
48387830 CTATTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTCTTAC-C---A--A----A-
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTT-CTCAAAAGCATCCTAC
48387884 -T-AGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTTCAGGAC
65 TTAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGAC
* * *
48387940 CTACTGTAGTAAAAGCGCGTACACGTGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA
48387974 CTTATTTGTT
Statistics
Matches: 242, Mismatches: 24, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
110 37 0.15
111 36 0.15
112 8 0.03
114 1 0.00
116 1 0.00
120 1 0.00
122 1 0.00
125 66 0.27
126 90 0.37
127 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAAAGCATCCTACT
TAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTTCAGGAC
Found at i:48392504 original size:61 final size:61
Alignment explanation
Indices: 48392432--48392556 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
48392422 AAATTTTCTC
48392432 TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
1 TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
*
48392493 TGTTCTTTTGGTTAGGTATTCTAATTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
1 TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
48392554 TGT
1 TGT
48392557 AACAAGTTTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.58
Consensus pattern (61 bp):
TGTTCTTTTGGTTAGGTATTCTAACTGAGATTTTATAAATTCTTGGTTATTTATTATTTTT
Found at i:48393191 original size:52 final size:52
Alignment explanation
Indices: 48393073--48393244 Score: 143
Period size: 52 Copynumber: 3.2 Consensus size: 52
48393063 GGAATTTTTG
* * * * *
48393073 TTTTGAAAACACGAGAATTTTGAAACACAATAATTTTTTGAGAACACGGAAA
1 TTTTTAAAACACGAGAATTTTGAAACACAATAAATTTCTGAAAACACGAAAA
* * *
48393125 TTTTTGAAATACGAGAATTTTAGAAACACAA-AAATTTCT-AAAACATGAAAA
1 TTTTTAAAACACGAGAATTTT-GAAACACAATAAATTTCTGAAAACACGAAAA
* * * * *
48393176 TTTTTAAAAACACGAGATTTTTTTTGAAACAC-GTAAATTTTTTAAAAACACGGAAA
1 TTTTT-AAAACACGAGA---ATTTTGAAACACAATAAA-TTTCTGAAAACACGAAAA
*
48393232 TTTTTGAAACACG
1 TTTTTAAAACACG
48393245 GAGTTTTTTT
Statistics
Matches: 96, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
51 14 0.15
52 33 0.34
53 9 0.09
54 10 0.10
55 15 0.16
56 15 0.16
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (52 bp):
TTTTTAAAACACGAGAATTTTGAAACACAATAAATTTCTGAAAACACGAAAA
Found at i:48393205 original size:19 final size:18
Alignment explanation
Indices: 48393183--48393255 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 18
48393173 AAATTTTTAA
48393183 AAACACGAGATTTTTTTTG
1 AAACACG-GATTTTTTTTG
* * **
48393202 AAACACGTAAATTTTTTAA
1 AAACACG-GATTTTTTTTG
**
48393221 AAACACGGA-AATTTTTG
1 AAACACGGATTTTTTTTG
48393238 AAACACGGAGTTTTTTTT
1 AAACACGGA-TTTTTTTT
48393256 AAAAAACAAG
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
17 13 0.32
18 1 0.03
19 26 0.65
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (18 bp):
AAACACGGATTTTTTTTG
Found at i:48393245 original size:17 final size:17
Alignment explanation
Indices: 48393073--48393246 Score: 95
Period size: 17 Copynumber: 9.8 Consensus size: 17
48393063 GGAATTTTTG
48393073 TTTTGAAAACAC-GAGAA-
1 TTTTG-AAACACGGA-AAT
*
48393090 TTTTGAAACAC-AATAATT
1 TTTTGAAACACGGA-AA-T
48393108 TTTTGAGAACACGGAAAT
1 TTTTGA-AACACGGAAAT
*
48393126 TTTTGAAATAC-GAGAAT
1 TTTTGAAACACGGA-AAT
* **
48393143 TTTAGAAACACAAAAAT
1 TTTTGAAACACGGAAAT
* * * *
48393160 TTCTAAAACATGAAAAT
1 TTTTGAAACACGGAAAT
* **
48393177 TTTTAAAAACACGAGATTTT
1 TTTT-GAAACACG-GA-AAT
*
48393197 TTTTGAAACACGTAAATT
1 TTTTGAAACACGGAAA-T
*
48393215 TTTTAAAAACACGGAAAT
1 TTTT-GAAACACGGAAAT
48393233 TTTTGAAACACGGA
1 TTTTGAAACACGGA
48393247 GTTTTTTTTA
Statistics
Matches: 122, Mismatches: 24, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
16 11 0.09
17 48 0.39
18 32 0.26
19 25 0.20
20 6 0.05
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTTGAAACACGGAAAT
Found at i:48393252 original size:17 final size:17
Alignment explanation
Indices: 48393073--48393253 Score: 80
Period size: 18 Copynumber: 10.2 Consensus size: 17
48393063 GGAATTTTTG
48393073 TTTTGAAAACACGAGAA--
1 TTTTG-AAACACG-GAATT
**
48393090 TTTTGAAACACAATAATT
1 TTTTGAAACAC-GGAATT
*
48393108 TTTTGAGAACACGGAAAT
1 TTTTGA-AACACGGAATT
*
48393126 TTTTGAAATACGAGAA-T
1 TTTTGAAACACG-GAATT
* ** *
48393143 TTTAGAAACACAAAAAT
1 TTTTGAAACACGGAATT
* * * *
48393160 TTCTAAAACATGAAAATT
1 TTTTGAAACACG-GAATT
** *
48393178 TTTAAAAACACGAGATTTT
1 TTTTGAAACACG-GA-ATT
*
48393197 TTTTGAAACACGTAAATT
1 TTTTGAAACACG-GAATT
* *
48393215 TTTTAAAAACACGGAAAT
1 TTTT-GAAACACGGAATT
*
48393233 TTTTGAAACACGGAGTT
1 TTTTGAAACACGGAATT
48393250 TTTT
1 TTTT
48393254 TTAAAAAACA
Statistics
Matches: 123, Mismatches: 32, Indels: 18
0.71 0.18 0.10
Matches are distributed among these distances:
16 10 0.08
17 42 0.34
18 46 0.37
19 25 0.20
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (17 bp):
TTTTGAAACACGGAATT
Found at i:48393254 original size:36 final size:39
Alignment explanation
Indices: 48393176--48393260 Score: 104
Period size: 36 Copynumber: 2.3 Consensus size: 39
48393166 AACATGAAAA
** *
48393176 TTTTTAAAAACACGAGATTTTTTTTGAAACACGTAA-AT
1 TTTTTAAAAACACGAGATAATTTTTGAAACACGGAATAT
* *
48393214 TTTTTAAAAACACG-GA-AATTTTTGAAACACGGAGTTT
1 TTTTTAAAAACACGAGATAATTTTTGAAACACGGAATAT
48393251 TTTTTAAAAA
1 TTTTTAAAAA
48393261 ACAAGAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 14 0.34
37 13 0.32
38 14 0.34
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (39 bp):
TTTTTAAAAACACGAGATAATTTTTGAAACACGGAATAT
Found at i:48393288 original size:107 final size:107
Alignment explanation
Indices: 48393090--48393287 Score: 233
Period size: 107 Copynumber: 1.8 Consensus size: 107
48393080 AACACGAGAA
* * * *
48393090 TTTTGAAACACAATAATTTTTTGAGAACACGGAAATTTTTGAAATACGAGAATTTTAGAAACACA
1 TTTTGAAACACAATAATTTTTTAAAAACACGGAAATTTTTGAAACACGAGAATTTTAGAAAAACA
* *
48393155 AAAATTTCTAAAACATGAAAATTTTTAAAAACACGAGATTTT
66 AAAATATCAAAAACATGAAAATTTTTAAAAACACGAGATTTT
* **
48393197 TTTTGAAACAC-GTAAATTTTTTAAAAACACGGAAATTTTTGAAACACGGAGTTTTTTTTA-AAA
1 TTTTGAAACACAAT-AATTTTTTAAAAACACGGAAATTTTTGAAACAC-GAG--AATTTTAGAAA
*
48393260 AACAAGAATAT-AAAACACATG-AAATTTT
62 AACAAAAATATCAAAA-ACATGAAAATTTT
48393288 ATTATTATTA
Statistics
Matches: 76, Mismatches: 10, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
106 1 0.01
107 41 0.54
108 13 0.17
109 16 0.21
110 5 0.07
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (107 bp):
TTTTGAAACACAATAATTTTTTAAAAACACGGAAATTTTTGAAACACGAGAATTTTAGAAAAACA
AAAATATCAAAAACATGAAAATTTTTAAAAACACGAGATTTT
Found at i:48393322 original size:17 final size:19
Alignment explanation
Indices: 48393300--48393346 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
48393290 TATTATTATA
48393300 TTTGAAACACGAG-AAA-T
1 TTTGAAACACGAGAAAATT
*
48393317 TTTGAAA-ACGTGAAAATT
1 TTTGAAACACGAGAAAATT
48393335 TTTGAAACACGA
1 TTTGAAACACGA
48393347 TTTTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 4 0.16
17 10 0.40
18 8 0.32
19 3 0.12
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.28
Consensus pattern (19 bp):
TTTGAAACACGAGAAAATT
Found at i:48393813 original size:5 final size:5
Alignment explanation
Indices: 48393803--48393859 Score: 71
Period size: 5 Copynumber: 11.4 Consensus size: 5
48393793 TAATTCGGGC
* * *
48393803 CTTTT CTTTT CTTTT CTTTT TTTCTT TTTTT CTTTT CTTCT -TTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTT-TT CTTTT CTTTT CTTTT CTTTT CTTTT
48393853 CTTTT CT
1 CTTTT CT
48393860 GCAGATTGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
4 3 0.07
5 38 0.83
6 5 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
CTTTT
Found at i:48393827 original size:8 final size:8
Alignment explanation
Indices: 48393804--48393847 Score: 61
Period size: 8 Copynumber: 5.2 Consensus size: 8
48393794 AATTCGGGCC
48393804 TTTTCTTTT
1 TTTTC-TTT
48393813 CTTTTCTTT
1 -TTTTCTTT
48393822 TTTTCTTT
1 TTTTCTTT
48393830 TTTTCTTT
1 TTTTCTTT
*
48393838 TCTTCTTT
1 TTTTCTTT
48393846 TT
1 TT
48393848 CTTTTCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
8 24 0.75
9 3 0.09
10 5 0.16
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTCTTT
Found at i:48393835 original size:21 final size:22
Alignment explanation
Indices: 48393809--48393852 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
48393799 GGGCCTTTTC
48393809 TTTTCTTTTCTT-TTTTTCTTT
1 TTTTCTTTTCTTCTTTTTCTTT
48393830 TTTTCTTTTCTTCTTTTTCTTT
1 TTTTCTTTTCTTCTTTTTCTTT
48393852 T
1 T
48393853 CTTTTCTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTCTTTTCTTCTTTTTCTTT
Found at i:48394365 original size:20 final size:19
Alignment explanation
Indices: 48394331--48394368 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
48394321 CTCTTTTCTC
*
48394331 TTTTCCTTTTTCTTCTCTT
1 TTTTCCTTTTCCTTCTCTT
48394350 TTTTCTCTTTTCCTTCTCT
1 TTTTC-CTTTTCCTTCTCT
48394369 CCTTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTCCTTTTCCTTCTCTT
Found at i:48394372 original size:34 final size:33
Alignment explanation
Indices: 48394321--48394392 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 33
48394311 CTCTTCTCTC
48394321 CTCTTTTCTCTTTTCCTTTTTCTTCTCTTTTTT
1 CTCTTTTCTCTTTTCCTTTTTCTTCTCTTTTTT
* *
48394354 CTCTTTTC-CTTCTCTCCTTTTTTTTTTCTTTTTT
1 CTCTTTTCTCTT-T-TCCTTTTTCTTCTCTTTTTT
48394388 -TCTTT
1 CTCTTT
48394393 CTTTCCTCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 3 0.09
33 14 0.40
34 18 0.51
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (33 bp):
CTCTTTTCTCTTTTCCTTTTTCTTCTCTTTTTT
Found at i:48394377 original size:26 final size:26
Alignment explanation
Indices: 48394324--48394392 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
48394314 TTCTCTCCTC
*
48394324 TTTTCTCTTTTCCTTTTTCTTCTCTT
1 TTTTCTCTTTTCCTTTTCCTTCTCTT
*
48394350 TTTTCTCTTTTCCTTCTCTCCTT-TTTT
1 TTTTCTCTTTTCCTT-T-TCCTTCTCTT
* *
48394377 TTTTCTTTTTTTCTTT
1 TTTTCTCTTTTCCTTT
48394393 CTTTCCTCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 16 0.43
27 17 0.46
28 4 0.11
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTTCTCTTTTCCTTTTCCTTCTCTT
Found at i:48394380 original size:20 final size:19
Alignment explanation
Indices: 48394326--48394405 Score: 57
Period size: 18 Copynumber: 4.4 Consensus size: 19
48394316 CTCTCCTCTT
*
48394326 TTCTC-TTTTCCTTTTT-C
1 TTCTCTTTTTTCTTTTTCC
48394343 TTCTCTTTTTTCTCTTTTCC
1 TTCTCTTTTTTCT-TTTTCC
**
48394363 TTCTCTCCTTT-TTTTT--
1 TTCTCTTTTTTCTTTTTCC
48394379 TTCT-TTTTTTCTTTCTTTCC
1 TTCTCTTTTTTC-TT-TTTCC
48394399 -TCTCTTT
1 TTCTCTTT
48394406 CTCTTCTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
15 4 0.08
16 4 0.08
17 7 0.14
18 13 0.27
19 8 0.16
20 13 0.27
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TTCTCTTTTTTCTTTTTCC
Found at i:48394383 original size:25 final size:26
Alignment explanation
Indices: 48394314--48394385 Score: 87
Period size: 25 Copynumber: 2.9 Consensus size: 26
48394304 GGTTAGTCTC
48394314 TTCTCTCCTC--TTTTCTCTTTTCCT
1 TTCTCTCCTCTTTTTTCTCTTTTCCT
* *
48394338 TTTTCTTCTCTTTTTTCTCTTTTCC-
1 TTCTCTCCTCTTTTTTCTCTTTTCCT
* *
48394363 TTCTCTCCTTTTTTTTTTCTTTT
1 TTCTCTCCTCTTTTTTCTCTTTT
48394386 TTTCTTTCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 8 0.20
25 19 0.47
26 13 0.32
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (26 bp):
TTCTCTCCTCTTTTTTCTCTTTTCCT
Found at i:48394387 original size:46 final size:49
Alignment explanation
Indices: 48394313--48394405 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 49
48394303 TGGTTAGTCT
**
48394313 CTTCTCTCCTCTTTTCTCTTTTC-CTTTTTCTTCTCTTTTTTCTCTTTTC
1 CTTCTCTCCTCTTTTCTCTTTTCTCTTTTTCTT-TCTTTCCTCTCTTTTC
*
48394362 CTTCTCTCCT-TTTT-T-TTTTCTTTTTTTCTTTCTTTCCTCTCTTT
1 CTTCTCTCCTCTTTTCTCTTTTCTCTTTTTCTTTCTTTCCTCTCTTT
48394406 CTCTTCTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
46 17 0.43
47 9 0.22
48 4 0.10
49 10 0.25
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (49 bp):
CTTCTCTCCTCTTTTCTCTTTTCTCTTTTTCTTTCTTTCCTCTCTTTTC
Found at i:48394412 original size:46 final size:50
Alignment explanation
Indices: 48394310--48394412 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 50
48394300 CGATGGTTAG
*
48394310 TCTCTTCTCTCCTCTTTTCTCTTTTCCTTTTTCTTCTCTTTTTTCTCTTT
1 TCTCTTCTCTCCTCTTTTCTCTTTTCCTTTTTCTTCTCTTTTTCCTCTTT
48394360 TC-CTTCTCTCCT-TTTT-T-TTTT-CTTTTT-TTCT-TTCTTTCCTCTCTT
1 TCTCTTCTCTCCTCTTTTCTCTTTTCCTTTTTCTTCTCTT-TTTCCTCT-TT
48394405 TCTCTTCT
1 TCTCTTCT
48394413 ATTTCGACGA
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
43 2 0.04
44 11 0.22
45 10 0.20
46 9 0.18
47 1 0.02
48 4 0.08
49 10 0.20
50 2 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (50 bp):
TCTCTTCTCTCCTCTTTTCTCTTTTCCTTTTTCTTCTCTTTTTCCTCTTT
Found at i:48394971 original size:30 final size:30
Alignment explanation
Indices: 48394932--48395018 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 30
48394922 TAATTACTTG
* *
48394932 AAAGTTTAGGGGCCCAAATGTAATTTTACAA
1 AAAG-TTAGGGGTCAAAATGTAATTTTACAA
* * * *
48394963 AATGTTAGGGGTCAAAATTTAACTTTAGAA
1 AAAGTTAGGGGTCAAAATGTAATTTTACAA
* *
48394993 AAAGTTAAGGATCAAAATGTAATTTT
1 AAAGTTAGGGGTCAAAATGTAATTTT
48395019 TGAAAAGTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 42 0.93
31 3 0.07
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.32
Consensus pattern (30 bp):
AAAGTTAGGGGTCAAAATGTAATTTTACAA
Found at i:48395024 original size:30 final size:30
Alignment explanation
Indices: 48394947--48395047 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 30
48394937 TTAGGGGCCC
* * * *
48394947 AAATGTAATTTTACAAAATGTTAGGGGTCA
1 AAATGTAATTTTAGAAAAAGTTAAGGATCA
* *
48394977 AAATTTAACTTTAGAAAAAGTTAAGGATCA
1 AAATGTAATTTTAGAAAAAGTTAAGGATCA
*
48395007 AAATGTAATTTTTG-AAAAGTTTAAGGGAT-A
1 AAATGTAATTTTAGAAAAAG-TTAA-GGATCA
48395037 AAATGTAATTT
1 AAATGTAATTT
48395048 ATATTTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
29 5 0.08
30 51 0.85
31 4 0.07
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.35
Consensus pattern (30 bp):
AAATGTAATTTTAGAAAAAGTTAAGGATCA
Found at i:48395071 original size:16 final size:17
Alignment explanation
Indices: 48395040--48395074 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
48395030 AGGGATAAAA
48395040 TGTAATTTATATTTTTT
1 TGTAATTTATATTTTTT
*
48395057 TGTATTTTATATTTTTT
1 TGTAATTTATATTTTTT
48395074 T
1 T
48395075 CAGAATTTTT
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:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTAATTTATATTTTTT
Found at i:48395488 original size:79 final size:77
Alignment explanation
Indices: 48395399--48395860 Score: 535
Period size: 79 Copynumber: 6.0 Consensus size: 77
48395389 GAGTCGATTG
* * ** *
48395399 AAAATGAAAATTGAAAAATACCTTAGTTTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAATAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
48395464 TTGATTTTTTTTGA
66 TTGA--TTTTTTGA
* * **
48395478 AAAATAAAAATTGAAAAATACCTCAGTATGCGACCCGAGGCTCAACTCACCTCT--CACCATGAG
1 AAAATAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
48395541 TCGA----TTG-
66 TTGATTTTTTGA
** *
48395548 AAAACGAAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAATAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
48395613 TTAATTTTTTTTGA
66 TTGA--TTTTTTGA
* * * *
48395627 AAAATAAAAATTGAAAAATACCTCGGTATGTGACTCGAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAATAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
48395692 TTGATTTCTTGA
66 TTGATTTTTTGA
** * *
48395704 AAAGCAAAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 AAAATAAAAA-TT-GAA-AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
48395769 GAGTTGA-TTTTTGA
63 GAGTTGATTTTTTGA
* * *
48395783 AAAGTAAAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 AAAATAAAAA-TT-GAA-AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
*
48395848 AAGTTGATTTTTT
63 GAGTTGATTTTTT
48395861 TTTGAAAAAA
Statistics
Matches: 335, Mismatches: 35, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
70 49 0.15
71 3 0.01
72 9 0.03
77 25 0.07
78 5 0.01
79 188 0.56
80 56 0.17
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (77 bp):
AAAATAAAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGA
Found at i:48395496 original size:149 final size:149
Alignment explanation
Indices: 48395343--48395840 Score: 515
Period size: 149 Copynumber: 3.3 Consensus size: 149
48395333 ATAGAGATTT
* * * *
48395343 AAAATAACTCGACG-CGCGACCCGAAACTCAATTCACCTCTCGCCATGAGTCGATTGAAAATGAA
1 AAAATACCTCGA-GACGCGACCCGAAACTCAACTCACCTCTCACCATGAGTCGATTGAAAACGAA
* ** * *
48395407 AATTGAAAAATACCTTAGTTTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
65 AATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
48395472 TTTTGAAAAATAAAAATTGA
130 TTTTGAAAAATAAAAATTGA
* **
48395492 AAAATACCTC-AGTATGCGACCCGAGGCTCAACTCACCTCTCACCATGAGTCGATTGAAAACGAA
1 AAAATACCTCGAG-ACGCGACCCGAAACTCAACTCACCTCTCACCATGAGTCGATTGAAAACGAA
48395556 AATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
65 AATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
48395621 TTTTGAAAAATAAAAATTGA
130 TTTTGAAAAATAAAAATTGA
* * * ** ** *
48395641 AAAATACCTCG-GTATGTGACTCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTCTTGAA
1 AAAATACCTCGAG-ACGCGACCCGAAACTCAACTCACCTC-T-CACCATGAGTCGA----TTGAA
* * * *
48395705 AAGCAAAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
59 AA-CGAAAA-TT-GAA-AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* * *
48395770 AGTTGA---TTTTTGAAAAGTAAAAATTTAAA
120 AGTTAATTTTTTTTGAAAAATAAAAA-TT-GA
* * **
48395799 AGAAATACCTCG-GCATGTGACCCGAGGCTCAACTCACCTCTC
1 A-AAATACCTCGAG-ACGCGACCCGAAACTCAACTCACCTCTC
48395841 GCAATATAAG
Statistics
Matches: 307, Mismatches: 26, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
147 1 0.00
148 1 0.00
149 169 0.55
150 1 0.00
151 10 0.03
155 7 0.02
156 21 0.07
157 5 0.02
158 5 0.02
159 87 0.28
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (149 bp):
AAAATACCTCGAGACGCGACCCGAAACTCAACTCACCTCTCACCATGAGTCGATTGAAAACGAAA
ATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
TTTGAAAAATAAAAATTGA
Found at i:48395749 original size:159 final size:154
Alignment explanation
Indices: 48395396--48395859 Score: 593
Period size: 149 Copynumber: 3.0 Consensus size: 154
48395386 CATGAGTCGA
** * * ** *
48395396 TTGAAAATGAAAATTGAAAAATACCTTAGTTTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAACAAAAATTAAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* *
48395461 GAGTTGATTTTTTTTGAAAAATAAAAATTGAAAAATACCTCAGTATGCGACCCGAGGCTCAACTC
66 GAGTTGATTTTTTTTGAAAAATAAAAATTGAAAAATACCTCGGTATGTGACCCGAGGCTCAACTC
** *
48395526 ACCTC-T-CACCATGAGTCGA---
131 ACCTCTTGCAATATGAGTTGATTT
* * *
48395545 TTGAAAACGAAAATTGAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAACAAAAATTAAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* *
48395610 GAGTTAATTTTTTTTGAAAAATAAAAATTGAAAAATACCTCGGTATGTGACTCGAGGCTCAACTC
66 GAGTTGATTTTTTTTGAAAAATAAAAATTGAAAAATACCTCGGTATGTGACCCGAGGCTCAACTC
48395675 ACCTCTTGCAATATGAGTTGATTT
131 ACCTCTTGCAATATGAGTTGATTT
*
48395699 CTTGAAAAGCAAAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
1 -TTGAAAA-CAAAAA-TT-AAA-AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGC
* * *
48395764 AATATGAGTTGA---TTTTTGAAAAGTAAAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGG
61 AATATGAGTTGATTTTTTTTGAAAAATAAAAA-TT-GAA-AAATACCTCGGTATGTGACCCGAGG
* *
48395826 CTCAACTCACCTCTCGCAATATAAGTTGATTT
123 CTCAACTCACCTCTTGCAATATGAGTTGATTT
48395858 TT
1 TT
48395860 TTTTGAAAAA
Statistics
Matches: 279, Mismatches: 23, Indels: 17
0.87 0.07 0.05
Matches are distributed among these distances:
149 126 0.45
150 1 0.00
151 10 0.04
155 7 0.03
156 21 0.08
157 4 0.01
158 6 0.02
159 104 0.37
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (154 bp):
TTGAAAACAAAAATTAAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTTTGAAAAATAAAAATTGAAAAATACCTCGGTATGTGACCCGAGGCTCAACTC
ACCTCTTGCAATATGAGTTGATTT
Found at i:48396781 original size:6 final size:6
Alignment explanation
Indices: 48396772--48396814 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
48396762 TATTATTATT
*
48396772 TTTTTG TTTTTT TTTTGCTG TTTTTG TTTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG TTTT--TG TTTTTG TTTTTG TTTTTG TTTTT
48396815 TTAGGCATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 28 0.85
8 5 0.15
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:48407739 original size:17 final size:17
Alignment explanation
Indices: 48407717--48407894 Score: 100
Period size: 17 Copynumber: 10.2 Consensus size: 17
48407707 GGAATTTTTG
*
48407717 TTTTGAAAACACGAGAA
1 TTTTGAAAACACGAAAA
48407734 TTTTG-AAACAC-AATAA
1 TTTTGAAAACACGAA-AA
* *
48407750 TTTTTGAGAGCACGAAAA
1 -TTTTGAAAACACGAAAA
* *
48407768 TTTTTG-AAATACGAGAA
1 -TTTTGAAAACACGAAAA
48407785 TTTT-AGAAACACGAAAA
1 TTTTGA-AAACACGAAAA
*
48407802 TTTCT-AAAACAAGAAAA
1 TTT-TGAAAACACGAAAA
**
48407819 TTTTTGAAAACACGAGATTTT
1 -TTTTGAAAACACGA-A--AA
* *
48407840 TTTTCG-AAACAAGAAATT
1 TTTT-GAAAACACGAAA-A
48407858 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
**
48407875 TTTTTTAAACAC-AAAA
1 TTTTGAAAACACGAAAA
48407891 TTTT
1 TTTT
48407895 TTTAAAACAC
Statistics
Matches: 127, Mismatches: 19, Indels: 31
0.72 0.11 0.18
Matches are distributed among these distances:
15 1 0.01
16 20 0.16
17 51 0.40
18 39 0.31
19 4 0.03
20 11 0.09
21 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.32
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:48407818 original size:51 final size:51
Alignment explanation
Indices: 48407717--48407840 Score: 144
Period size: 52 Copynumber: 2.4 Consensus size: 51
48407707 GGAATTTTTG
* * * *
48407717 TTTTGAAAACACGAGAATTTTGAAACACAATAATTTTTGAGAGCACGAAAAT
1 TTTTG-AAACACGAGAATTTTGAAACACAATAATTTCTGAAAACAAGAAAAT
*
48407769 TTTTGAAATACGAGAATTTTAGAAACACGAA-AATTTCT-AAAACAAGAAAAT
1 TTTTGAAACACGAGAATTTT-GAAACAC-AATAATTTCTGAAAACAAGAAAAT
*
48407820 TTTTGAAAACACGAGATTTTT
1 TTTTG-AAACACGAGAATTTT
48407841 TTTCGAAACA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
51 29 0.47
52 31 0.50
53 2 0.03
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (51 bp):
TTTTGAAACACGAGAATTTTGAAACACAATAATTTCTGAAAACAAGAAAAT
Found at i:48407830 original size:18 final size:18
Alignment explanation
Indices: 48407717--48407879 Score: 90
Period size: 18 Copynumber: 9.2 Consensus size: 18
48407707 GGAATTTTTG
* *
48407717 TTTTGAAAACACGAGAA-
1 TTTTGAAAACAAGAAAAT
*
48407734 TTTTG-AAACACA-ATAAT
1 TTTTGAAAACA-AGAAAAT
* * *
48407751 TTTTGAGAGCACGAAAAT
1 TTTTGAAAACAAGAAAAT
*
48407769 TTTTGAAATAC--GAGAAT
1 TTTTGAAA-ACAAGAAAAT
* *
48407786 TTTAG-AAACACGAAAAT
1 TTTTGAAAACAAGAAAAT
*
48407803 TTCT-AAAACAAGAAAAT
1 TTTTGAAAACAAGAAAAT
***
48407820 TTTTGAAAACACGAGATTTT
1 TTTTGAAAACA--AGAAAAT
*
48407840 TTTTCG-AAACAAGAAATT
1 TTTT-GAAAACAAGAAAAT
*
48407858 TTTTGAAAACACGAAAAT
1 TTTTGAAAACAAGAAAAT
48407876 TTTT
1 TTTT
48407880 TAAACACAAA
Statistics
Matches: 111, Mismatches: 22, Indels: 25
0.70 0.14 0.16
Matches are distributed among these distances:
15 2 0.02
16 10 0.09
17 41 0.37
18 43 0.39
19 1 0.01
20 13 0.12
21 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTGAAAACAAGAAAAT
Found at i:48407853 original size:38 final size:38
Alignment explanation
Indices: 48407808--48407880 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
48407798 AAAATTTCTA
* *
48407808 AAACAAGAAAATTTTTGAAAACACGAGATTTTTTTTCG
1 AAACAAGAAAATTTTTGAAAACACGAAAATTTTTTTCG
*
48407846 AAACAAGAAATTTTTTGAAAACACGAAAATTTTTT
1 AAACAAGAAAATTTTTGAAAACACGAAAATTTTTT
48407881 AAACACAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (38 bp):
AAACAAGAAAATTTTTGAAAACACGAAAATTTTTTTCG
Found at i:48407892 original size:35 final size:34
Alignment explanation
Indices: 48407717--48407907 Score: 163
Period size: 35 Copynumber: 5.4 Consensus size: 34
48407707 GGAATTTTTG
*
48407717 TTTTGAAAACACGAGAA-TTTTGAAACACAATAAT
1 TTTTGAAAACACGAAAATTTTTGAAACACAA-AAT
* * * *
48407751 TTTTGAGAGCACGAAAATTTTTGAAATACGAGAAT
1 TTTTGAAAACACGAAAATTTTTGAAACAC-AAAAT
* * * *
48407786 TTTAG-AAACACGAAAATTTCTAAAACAAGAAAAT
1 TTTTGAAAACACGAAAATTTTTGAAAC-ACAAAAT
**
48407820 TTTTGAAAACACGAGATTTTTTTTCGAAACA-AGAAATT
1 TTTTGAAAACACGA-A-AATTTTT-GAAACACA-AAA-T
*
48407858 TTTTGAAAACACGAAAATTTTTTAAACACAAAATT
1 TTTTGAAAACACGAAAATTTTTGAAACACAAAA-T
*
48407893 TTTTTAAAACACGAA
1 TTTTGAAAACACGAA
48407908 TATAAAACAC
Statistics
Matches: 125, Mismatches: 22, Indels: 19
0.75 0.13 0.11
Matches are distributed among these distances:
34 38 0.30
35 50 0.40
36 9 0.07
37 9 0.07
38 19 0.15
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (34 bp):
TTTTGAAAACACGAAAATTTTTGAAACACAAAAT
Found at i:48407896 original size:18 final size:18
Alignment explanation
Indices: 48407853--48407904 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
48407843 TCGAAACAAG
*
48407853 AAATTTTTTGAAAACACGA
1 AAATTTTTTTAAAACAC-A
48407872 AAA-TTTTTT-AAACACA
1 AAATTTTTTTAAAACACA
48407888 AAATTTTTTTAAAACAC
1 AAATTTTTTTAAAACAC
48407905 GAATATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.13
17 12 0.40
18 11 0.37
19 3 0.10
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.37
Consensus pattern (18 bp):
AAATTTTTTTAAAACACA
Found at i:48407960 original size:17 final size:19
Alignment explanation
Indices: 48407937--48407982 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
48407927 TATTATTATT
48407937 TTTTTGAAACACGAGAA-A
1 TTTTTGAAACACGAGAACA
*
48407955 -TTTTGAAA-ACGTGAACA
1 TTTTTGAAACACGAGAACA
48407972 TTTTTGAAACA
1 TTTTTGAAACA
48407983 TGGTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 8 0.33
19 1 0.04
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (19 bp):
TTTTTGAAACACGAGAACA
Found at i:48408477 original size:20 final size:22
Alignment explanation
Indices: 48408448--48408506 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 22
48408438 TTCGGACCTA
*
48408448 TTTTTGTTTTTTTCTT-C-TCT
1 TTTTTCTTTTTTTCTTCCTTCT
48408468 TTTTTCTTTTTTTCTTTCCTTCT
1 TTTTTCTTTTTTTC-TTCCTTCT
48408491 TTTTCTCTTTTTTTCT
1 TTTT-TCTTTTTTTCT
48408507 GCAGATTGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 1 0.03
23 8 0.24
24 10 0.29
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTTCTTTTTTTCTTCCTTCT
Found at i:48408478 original size:8 final size:8
Alignment explanation
Indices: 48408456--48408506 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
48408446 TATTTTTGTT
48408456 TTTTTCTTC
1 TTTTT-TTC
48408465 TCTTTTTTC
1 T-TTTTTTC
48408474 TTTTTTTC
1 TTTTTTTC
**
48408482 TTTCCTTC
1 TTTTTTTC
*
48408490 TTTTTCTC
1 TTTTTTTC
48408498 TTTTTTTC
1 TTTTTTTC
48408506 T
1 T
48408507 GCAGATTGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
8 26 0.74
9 5 0.14
10 4 0.11
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTTC
Found at i:48408494 original size:24 final size:24
Alignment explanation
Indices: 48408454--48408506 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
48408444 CCTATTTTTG
*
48408454 TTTT-TTTCTTCTCTTTTTTCTTT
1 TTTTCTTTCTTCTCTTTTCTCTTT
48408477 TTTTCTTTCCTTCT-TTTTCTCTTT
1 TTTTCTTT-CTTCTCTTTTCTCTTT
48408501 TTTTCT
1 TTTTCT
48408507 GCAGATTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.15
24 18 0.67
25 5 0.19
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTCTTTCTTCTCTTTTCTCTTT
Found at i:48408855 original size:14 final size:14
Alignment explanation
Indices: 48408836--48408862 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48408826 TTTTTTACTT
48408836 TTTTCTCTTTTTTA
1 TTTTCTCTTTTTTA
48408850 TTTTCTCTTTTTT
1 TTTTCTCTTTTTT
48408863 TCTTTGTTCT
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:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCTCTTTTTTA
Found at i:48408875 original size:21 final size:22
Alignment explanation
Indices: 48408833--48408885 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
48408823 AAATTTTTTA
* *
48408833 CTTTTTTCTCTTTTTTATTTTCT
1 CTTTTTT-TCTTTGTTACTTTCT
48408856 CTTTTTTTCTTTGTT-CTTTCT
1 CTTTTTTTCTTTGTTACTTTCT
*
48408877 ATTTCTTTT
1 CTTT-TTTT
48408886 TTTCTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 8 0.31
22 11 0.42
23 7 0.27
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (22 bp):
CTTTTTTTCTTTGTTACTTTCT
Found at i:48408894 original size:22 final size:23
Alignment explanation
Indices: 48408833--48408895 Score: 58
Period size: 25 Copynumber: 2.7 Consensus size: 23
48408823 AAATTTTTTA
*
48408833 CTTTTTTCTCTTT-TTTATTTTCT
1 CTTTTTT-TCTTTCTTTATATTCT
*
48408856 CTTTTTTTCTTTGTTCTTTCTATT-T
1 CTTTTTTTC--T-TTCTTTATATTCT
48408881 CTTTTTTTCTTTCTT
1 CTTTTTTTCTTTCTT
48408896 CTTCTTCCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 7 0.21
23 8 0.24
24 1 0.03
25 12 0.35
26 6 0.18
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (23 bp):
CTTTTTTTCTTTCTTTATATTCT
Found at i:48409034 original size:25 final size:25
Alignment explanation
Indices: 48408978--48409057 Score: 81
Period size: 25 Copynumber: 3.1 Consensus size: 25
48408968 ATGGTCGGTC
* *
48408978 TCTCCTCTCTTATTTTCTCTCTTCCTT
1 TCTCTTCTCTT-TTTTCTCT-TTTCTT
*
48409005 CCTCTTCTCTTTTTTCTCTTTTCTT
1 TCTCTTCTCTTTTTTCTCTTTTCTT
* *
48409030 TCTCTCCT-TTTTTTCTTTTTTTCTT
1 TCTCTTCTCTTTTTTC-TCTTTTCTT
48409055 TCT
1 TCT
48409058 TACCTCTCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.15
25 22 0.48
26 8 0.17
27 9 0.20
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (25 bp):
TCTCTTCTCTTTTTTCTCTTTTCTT
Found at i:48409040 original size:22 final size:21
Alignment explanation
Indices: 48409010--48409053 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
48409000 TCCTTCCTCT
*
48409010 TCTCTTTTTTCTCTTTTCTTTC
1 TCTCCTTTTTCTCTTTT-TTTC
*
48409032 TCTCCTTTTTTTCTTTTTTTC
1 TCTCCTTTTTCTCTTTTTTTC
48409053 T
1 T
48409054 TTCTTACCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (21 bp):
TCTCCTTTTTCTCTTTTTTTC
Found at i:48409069 original size:25 final size:25
Alignment explanation
Indices: 48409023--48409070 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
48409013 CTTTTTTCTC
* *
48409023 TTTTCTTTCTCTCCTTTTTTTCTTT
1 TTTTCTTTCTCTCCTCTCTTTCTTT
48409048 TTTTCTTTCT-TACCTCTCTTTCT
1 TTTTCTTTCTCT-CCTCTCTTTCT
48409071 CTTCTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTCTTTCTCTCCTCTCTTTCTTT
Found at i:48409677 original size:30 final size:29
Alignment explanation
Indices: 48409643--48409736 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
48409633 GCTCGAATAT
*
48409643 AATTTACAAAATATTAGGGGTCAAAATGTA
1 AATTTA-AAAATATTAAGGGTCAAAATGTA
* *
48409673 AATTTAGAAATGTTAAGGGTCAAAATGTA
1 AATTTAAAAATATTAAGGGTCAAAATGTA
*
48409702 ATTTTTAAAAAGT-TTAAGGG-CTAAAATGT-
1 A-ATTTAAAAA-TATTAAGGGTC-AAAATGTA
48409731 AATTTA
1 AATTTA
48409737 TATTTTTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
28 4 0.07
29 23 0.42
30 27 0.49
31 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (29 bp):
AATTTAAAAATATTAAGGGTCAAAATGTA
Found at i:48409692 original size:29 final size:28
Alignment explanation
Indices: 48409650--48409736 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 28
48409640 TATAATTTAC
* *
48409650 AAAATATTAGGGGTCAAAATGTAAATTT
1 AAAATGTTAAGGGTCAAAATGTAAATTT
*
48409678 AGAAATGTTAAGGGTCAAAATGTAATTTTT
1 A-AAATGTTAAGGGTCAAAATGTAA-ATTT
*
48409708 AAAAAGTTTAAGGG-CTAAAATGT-AATTT
1 AAAATG-TTAAGGGTC-AAAATGTAAATTT
48409736 A
1 A
48409737 TATTTTTTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
28 5 0.10
29 27 0.54
30 18 0.36
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (28 bp):
AAAATGTTAAGGGTCAAAATGTAAATTT
Found at i:48409751 original size:18 final size:18
Alignment explanation
Indices: 48409728--48409763 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
48409718 AGGGCTAAAA
48409728 TGTAATTTATATTTTTTT
1 TGTAATTTATATTTTTTT
48409746 TGTAATTTATATTTTTTT
1 TGTAATTTATATTTTTTT
48409764 CAGAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (18 bp):
TGTAATTTATATTTTTTT
Found at i:48411996 original size:3 final size:3
Alignment explanation
Indices: 48411988--48412048 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
48411978 TTTAAAAATT
*
48411988 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48412036 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
48412049 AGAGAGTATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:48419552 original size:25 final size:23
Alignment explanation
Indices: 48419504--48419560 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
48419494 TAAACTATAT
*
48419504 ATTTTTTTCATAATGATATTTAA
1 ATTTTTTTCATAATGATATCTAA
48419527 ATTTTTTATCATTAATGAT-TCCTAA
1 ATTTTTT-TCA-TAATGATAT-CTAA
48419552 ATTATTTTT
1 ATT-TTTTT
48419561 TTCTCAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 7 0.24
24 4 0.14
25 14 0.48
26 4 0.14
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
ATTTTTTTCATAATGATATCTAA
Found at i:48420547 original size:14 final size:14
Alignment explanation
Indices: 48420528--48420555 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48420518 TGTGGATTGA
48420528 TTAAAATATATTTT
1 TTAAAATATATTTT
48420542 TTAAAATATATTTT
1 TTAAAATATATTTT
48420556 AAATTGAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAAATATATTTT
Found at i:48425203 original size:20 final size:23
Alignment explanation
Indices: 48425175--48425225 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
48425165 GTTTTTTATT
*
48425175 AAAATAATA-TAAAAGAA-ATA-
1 AAAAAAATATTAAAAGAATATAC
*
48425195 AAAAAAATATTAAAATAATATAC
1 AAAAAAATATTAAAAGAATATAC
48425218 AAAAAAAT
1 AAAAAAAT
48425226 TTATTTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.31
21 7 0.27
22 3 0.12
23 8 0.31
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAAAATATTAAAAGAATATAC
Found at i:48426285 original size:22 final size:22
Alignment explanation
Indices: 48426260--48426305 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
48426250 ATAATTTATT
*
48426260 TTAAATTAGTAT-TTTATTTTTA
1 TTAAATTA-TATGTTTATTGTTA
48426282 TTAAATTATATGTTTATTGTTA
1 TTAAATTATATGTTTATTGTTA
48426304 TT
1 TT
48426306 TGAAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TTAAATTATATGTTTATTGTTA
Found at i:48429451 original size:13 final size:13
Alignment explanation
Indices: 48429399--48429449 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
48429389 TTTAAATTAA
48429399 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
48429412 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * *
48429425 ACTTTTCCACAGT
1 ACTTTTCAAAAGC
48429438 ACTTTTCAAAAG
1 ACTTTTCAAAAG
48429450 TATTGCCAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:48430199 original size:29 final size:30
Alignment explanation
Indices: 48430155--48430218 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
48430145 ATTTGGGCCT
* * *
48430155 AATTGTTTCTTTTTAATGGTATAGGGACTA
1 AATTGTTTCTATTTAATGATAAAGGGACTA
*
48430185 AATTGTTTC-ATTTAATGATAAATGGACTA
1 AATTGTTTCTATTTAATGATAAAGGGACTA
48430214 AATTG
1 AATTG
48430219 ATACAATCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (30 bp):
AATTGTTTCTATTTAATGATAAAGGGACTA
Found at i:48452347 original size:47 final size:47
Alignment explanation
Indices: 48452278--48452374 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
48452268 AACAGTAGGT
48452278 TAACCTAAACTTAACCTACTACCACTAACACACATAGTAACTTGTGC
1 TAACCTAAACTTAACCTACTACCACTAACACACATAGTAACTTGTGC
*
48452325 TAACCTAAACTTAACCTACTACCACTAACACACATGGTAACTTGTGC
1 TAACCTAAACTTAACCTACTACCACTAACACACATAGTAACTTGTGC
48452372 TAA
1 TAA
48452375 TTAACTTGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.38, C:0.29, G:0.07, T:0.26
Consensus pattern (47 bp):
TAACCTAAACTTAACCTACTACCACTAACACACATAGTAACTTGTGC
Found at i:48457591 original size:13 final size:13
Alignment explanation
Indices: 48457573--48457636 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
48457563 AGTTCTTCAA
48457573 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
48457586 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
48457599 TG-ATGTGAAAAAG
1 TGCTTTTG-AAAAG
**
48457612 TGCTTTTGAGGAG
1 TGCTTTTGAAAAG
*
48457625 TGCTGTTGAAAA
1 TGCTTTTGAAAA
48457637 ATTTGAGTGT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 3 0.08
13 34 0.85
14 3 0.08
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:48457626 original size:26 final size:27
Alignment explanation
Indices: 48457581--48457637 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
48457571 AATGCTTTTG
48457581 AAAAGTGCTTTTGAAAAGTGATG-TGA
1 AAAAGTGCTTTTGAAAAGTGATGTTGA
** *
48457607 AAAAGTGCTTTTGAGGAGTGCTGTTGA
1 AAAAGTGCTTTTGAAAAGTGATGTTGA
48457634 AAAA
1 AAAA
48457638 TTTGAGTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.30
Consensus pattern (27 bp):
AAAAGTGCTTTTGAAAAGTGATGTTGA
Found at i:48460292 original size:3 final size:3
Alignment explanation
Indices: 48460284--48460322 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
48460274 ATGTATAGGT
48460284 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48460323 GTAAATAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48461843 original size:50 final size:50
Alignment explanation
Indices: 48461763--48462334 Score: 369
Period size: 50 Copynumber: 11.4 Consensus size: 50
48461753 GGATTAATTT
* * * * * * *
48461763 CTTCAATTTGTTCAACTGCAATGTCGGGGAAACCAGATCCGCCATCGTAG
1 CTTCAATCTGTTCCATTGCACTGTCAGGGAAACAAGATCCGCCGTCGTAG
** * ** * * *
48461813 CTTCAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCCACCGTTGTGG
1 CTTCAATCTGTTCCATTGCACTGTCAGGGAAACAAGATCCGCCGTCGTAG
* ** * * *
48461863 CTTCAATCTTTTAAATTGCAATGTCAGGAAAACTAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCCATTGCACTGTCAGGGAAACAAGATCCGCCGTCGTAG
* * ** * * *
48461913 CTTCAATCTATTCCATTGCACTG-CTAAGGAAGTAAGATCCACCGTTGTGG
1 CTTCAATCTGTTCCATTGCACTGTC-AGGGAAACAAGATCCGCCGTCGTAG
* ** * * * * *
48461963 CTTCAATCTTTTTAATTGCAATATCAGGGAAACCAGATCCGTCGTCATAG
1 CTTCAATCTGTTCCATTGCACTGTCAGGGAAACAAGATCCGCCGTCGTAG
* * * ** * * * *
48462013 CTTCAATCTGTTCCACTACACTG-CTAAGGAAGTAAGATCCACCATTGTGG
1 CTTCAATCTGTTCCATTGCACTGTC-AGGGAAACAAGATCCGCCGTCGTAG
* ** * * *
48462063 CTTCAATCTTTTTGATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCCATTGCACTGTCAGGGAAACAAGATCCGCCGTCGTAG
* * * ** * *
48462113 CTTCAATTTGTTCCACTGCACTG-CTAAGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCCATTGCACTGTC-AGGGAAACAAGATCCGCCGTCGTAG
* ** * * * *
48462163 CTTCAATCTTTTTGATTGCAATATCAGGGAAACCACATCCGCCGTCGTAG
1 CTTCAATCTGTTCCATTGCACTGTCAGGGAAACAAGATCCGCCGTCGTAG
* * ** * *
48462213 CTTCAATCTGTTCCACTGCACTG-CTAAGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCCATTGCACTGTC-AGGGAAACAAGATCCGCCGTCGTAG
* ** * * * *
48462263 CTTCAATCTTTTTGATTGCAATATCAGGGAAACCAGATCCGCCATCGTAG
1 CTTCAATCTGTTCCATTGCACTGTCAGGGAAACAAGATCCGCCGTCGTAG
*
48462313 CTTCAATCTGTTCCACTGCACT
1 CTTCAATCTGTTCCATTGCACT
48462335 ACTAAGGAAG
Statistics
Matches: 371, Mismatches: 143, Indels: 16
0.70 0.27 0.03
Matches are distributed among these distances:
49 4 0.01
50 363 0.98
51 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (50 bp):
CTTCAATCTGTTCCATTGCACTGTCAGGGAAACAAGATCCGCCGTCGTAG
Found at i:48461944 original size:100 final size:100
Alignment explanation
Indices: 48461779--48462351 Score: 905
Period size: 100 Copynumber: 5.7 Consensus size: 100
48461769 TTTGTTCAAC
* * * * * *
48461779 TGCAATGTCGGGGAAACCAGATCCGCCATCGTAGCTTCAATCTGTTCCACCGCACCG-TCAGGGA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGA
**
48461843 AGTAAGATCCACCGTTGTGGCTTCAATCTTTTAAAT
65 AGTAAGATCCACCGTTGTGGCTTCAATCTTTTTGAT
* * * * *
48461879 TGCAATGTCAGGAAAACTAGATCCGCCGTCGTAGCTTCAATCTATTCCATTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
48461944 GTAAGATCCACCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCACCGTTGTGGCTTCAATCTTTTTGAT
* * *
48461979 TGCAATATCAGGGAAACCAGATCCGTCGTCATAGCTTCAATCTGTTCCACTACACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
48462044 GTAAGATCCACCATTGTGGCTTCAATCTTTTTGAT
66 GTAAGATCCACCGTTGTGGCTTCAATCTTTTTGAT
*
48462079 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATTTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
48462144 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTGAT
66 GTAAGATCCACCGTTGTGGCTTCAATCTTTTTGAT
*
48462179 TGCAATATCAGGGAAACCACATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
48462244 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTGAT
66 GTAAGATCCACCGTTGTGGCTTCAATCTTTTTGAT
* *
48462279 TGCAATATCAGGGAAACCAGATCCGCCATCGTAGCTTCAATCTGTTCCACTGCACTACTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
48462344 GTTAAGAT
66 G-TAAGAT
48462352 TACTGGCTTC
Statistics
Matches: 440, Mismatches: 31, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
100 433 0.98
101 7 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (100 bp):
TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
GTAAGATCCACCGTTGTGGCTTCAATCTTTTTGAT
Found at i:48462711 original size:89 final size:89
Alignment explanation
Indices: 48462539--48462801 Score: 418
Period size: 89 Copynumber: 2.9 Consensus size: 89
48462529 TATCATCTTC
* * * *
48462539 GATCTACTTCAAGCCAATACATGAAGACAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACCAG
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--TTT-CTTTGATCTGCTTCGCCACCAG
48462604 TATGGGAAGGCAAGATCTGTTATCTCT
63 TATGGGAAGGCAAGATCTGTTATCTCT
*
48462631 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGTTTCGCCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTAT
* *
48462696 GGGAAGACAAGATCTGTTATCTTT
66 GGGAAGGCAAGATCTGTTATCTCT
* *
48462720 GATCTACTTCACACCAGTACATGAAGACAAGCTCTGCTTTCTTTGATCTGCTTCGCCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTAT
48462785 GGGAAGGCAAGATCTGT
66 GGGAAGGCAAGATCTGT
48462802 ATATTCGATC
Statistics
Matches: 160, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
89 122 0.76
90 3 0.02
92 35 0.22
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTAT
GGGAAGGCAAGATCTGTTATCTCT
Found at i:48462835 original size:89 final size:88
Alignment explanation
Indices: 48462536--48462951 Score: 390
Period size: 89 Copynumber: 4.6 Consensus size: 88
48462526 ATCTATCATC
* *
48462536 TTCGATCTACTTCA-AGCCAATACATGAAGACAAGATCTGCTTTTTCCTTCGATCTACTTCGCCA
1 TTCGATCTACTTCACA-CCAGTACATGAAGACAAGATCTGC--TTT-CTTTGATCTACTTCGCCA
48462600 CCAGTATGGGAAGGCAAGATCTGT-TA
62 CCAGTATGGGAAGGCAAGATCTGTATA
* **
48462626 TCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTGTTTCGCCACC
1 T-TC-GATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACC
* *
48462691 AGTATGGGAAGACAAGATCTGTTATC
64 AGTATGGGAAGGCAAGATCTG-TATA
* * *
48462717 TTTGATCTACTTCACACCAGTACATGAAGACAAGCTCTGCTTTCTTTGATCTGCTTCGCCACCAG
1 TTCGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAG
48462782 TATGGGAAGGCAAGATCTGTATA
66 TATGGGAAGGCAAGATCTGTATA
* ** * * * * * * * * *
48462805 TTCGATCCACTTTGCTACTAATATAGGAAGACAGGATCTGGTATCTTTGATCTACTTC-ACGCCA
1 TTCGATCTACTTCAC-ACCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCA
*** * * *
48462869 GTACATGAAGACAAGATCTGTTTTC
65 GTATGGGAAGGCAAGATCTG-TATA
* *** * * *
48462894 TTCGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTAG-TATCTCTGATCTACTTC
1 TTCGATCTACTTC-ACACCAGTACATGAAGACAAGATCT-GCTTTCTTTGATCTACTTC
48462952 ACGCCAGTAC
Statistics
Matches: 274, Mismatches: 43, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
88 34 0.12
89 194 0.71
90 8 0.03
91 4 0.01
92 34 0.12
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (88 bp):
TTCGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAG
TATGGGAAGGCAAGATCTGTATA
Found at i:48462843 original size:133 final size:134
Alignment explanation
Indices: 48462697--48462937 Score: 412
Period size: 133 Copynumber: 1.8 Consensus size: 134
48462687 CACCAGTATG
* *
48462697 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGCTCTGCTTTCT
1 GGAAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCT
* *
48462762 TTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCT-GTATATTCGATCCACTTTGCTACTAA
66 TCGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTAGTATATTCGATCCACTTTGCTACTAA
48462826 TATA
131 TATA
* * *
48462830 GGAAGACAGGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCT
1 GGAAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCT
48462895 TCGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTAGTAT
66 TCGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTAGTAT
48462938 CTCTGATCTA
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
133 96 0.96
134 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (134 bp):
GGAAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCT
TCGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTAGTATATTCGATCCACTTTGCTACTAA
TATA
Found at i:48462968 original size:133 final size:133
Alignment explanation
Indices: 48462697--48462977 Score: 377
Period size: 133 Copynumber: 2.1 Consensus size: 133
48462687 CACCAGTATG
* *
48462697 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGCTCTGCTTTCT
1 GGAAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCT
* * ** *
48462762 TTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTATATTCGATCCACTTTGCTACTAAT
66 TCGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTGTATATTCGATCCACTTCACTACCAAT
*
48462827 ATA
131 ACA
* * *
48462830 GGAAGACAGGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCT
1 GGAAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCT
* * *
48462895 TCGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTAGTAT-CTCTGATCTACTTCAC-GCCA
66 TCGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCT-GTATATTC-GATCCACTTCACTACCA
*
48462958 GTACA
129 ATACA
* *
48462963 TGAAGATAAGATCTG
1 GGAAGACAAGATCTG
48462978 CTTTTTCCTT
Statistics
Matches: 128, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
133 115 0.90
134 13 0.10
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (133 bp):
GGAAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTCT
TCGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTGTATATTCGATCCACTTCACTACCAAT
ACA
Found at i:48462980 original size:222 final size:225
Alignment explanation
Indices: 48462608--48463029 Score: 663
Period size: 222 Copynumber: 1.9 Consensus size: 225
48462598 CACCAGTATG
* *
48462608 GGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
1 GGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
* ** *
48462673 TTGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGT
66 TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTCTGATCTACTTCACACCAGT
* *
48462738 ACATGAAGACAAGCTCTGC-TTT-CTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCT-
131 ACATGAAGACAAGATCTGCTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTA
48462800 GTATATTCGATCCACTTTGCTACTAATATA
196 GTATATTCGATCCACTTTGCTACTAATATA
* * *
48462830 GGAAGACAGGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCT
1 GGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
* *
48462895 TCGATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTAG-TATCTCTGATCTACTTCACGCCAG
66 TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT-GTTATCTCTGATCTACTTCACACCAG
* *
48462959 TACATGAAGATAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAATGCAAGATC
130 TACATGAAGACAAGATCTGC-TTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATC
48463024 TAGTAT
194 TAGTAT
48463030 CTCTGATCTA
Statistics
Matches: 180, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
222 134 0.74
223 1 0.01
224 3 0.02
225 38 0.21
226 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (225 bp):
GGAAGACAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTCTGATCTACTTCACACCAGT
ACATGAAGACAAGATCTGCTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTA
GTATATTCGATCCACTTTGCTACTAATATA
Found at i:48463108 original size:314 final size:313
Alignment explanation
Indices: 48462533--48463166 Score: 972
Period size: 314 Copynumber: 2.0 Consensus size: 313
48462523 AAAATCTATC
*
48462533 ATCTTCGATCTACTTCAAGCCAATACATGAAGACAAGATCTGCTTTTTCCTTCGATCTACTTCGC
1 ATCTTTGATCTACTTCAAGCCAATACATGAAGACAAGATCTGC-TTTTCCTTCGATCTACTTCGC
48462598 CACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGA
65 CACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGA
* * *
48462663 TCTGCTTTCTTTGATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACT
130 TCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTCTGATCTACT
* * * *
48462728 TCACACCAGTACATGAAGACAAGCTCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGC
195 TCACACCAGTACATAAAGACAAGATCTGCTCTCTTTGATCTACTTCGCCACCAGTATGGGAAGGC
* * * *
48462793 AAGATCTGTATATTCGATCCACTTTGCTACTAATATAGGAAGACAGGATCTGGT
260 AAGATCTGCATATTCGATCCACTTCGCTACCAACATAGGAAGACAGGATCTGGT
* *
48462847 ATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTTT-CTTCGATCTACTTCGCC
1 ATCTTTGATCTACTTCAAGCCAATACATGAAGACAAGATCTGCTTTTCCTTCGATCTACTTCGCC
*
48462910 ACCAGTATGGGAAGGCAAGATCTAG-TATCTCTGATCTACTTCACGCCAGTACATGAAGATAAGA
66 ACCAGTATGGGAAGGCAAGATCT-GTTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGA
48462974 TCTGCTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAATG-CAAGATCTAG-TATCTCTGAT
130 TCTGC--TTT-CTTCGATCTGCTTCGCCACCAGTATGGGAA-GACAAGATCT-GTTATCTCTGAT
* * *
48463037 CTACTTCACGCCAGTACATAAAGACAAGATTTGCTCTCTTTGATCTATTTCGCCACCAGTATGGG
190 CTACTTCACACCAGTACATAAAGACAAGATCTGCTCTCTTTGATCTACTTCGCCACCAGTATGGG
* * * *
48463102 AAGGCAAGATCTGCATCTTTGATCCACTTCGCTACCAGCATAGGAAGACAGGATCTGTT
255 AAGGCAAGATCTGCATATTCGATCCACTTCGCTACCAACATAGGAAGACAGGATCTGGT
48463161 ATCTTT
1 ATCTTT
48463167 CAACCTGCTC
Statistics
Matches: 292, Mismatches: 22, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
311 83 0.28
312 5 0.02
313 3 0.01
314 199 0.68
315 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (313 bp):
ATCTTTGATCTACTTCAAGCCAATACATGAAGACAAGATCTGCTTTTCCTTCGATCTACTTCGCC
ACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGAT
CTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTCTGATCTACTT
CACACCAGTACATAAAGACAAGATCTGCTCTCTTTGATCTACTTCGCCACCAGTATGGGAAGGCA
AGATCTGCATATTCGATCCACTTCGCTACCAACATAGGAAGACAGGATCTGGT
Found at i:48463121 original size:44 final size:44
Alignment explanation
Indices: 48462586--48463166 Score: 436
Period size: 44 Copynumber: 13.0 Consensus size: 44
48462576 TTTTTCCTTC
* * *
48462586 GATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCT
1 GATCTACTTCGCCACCAGTATAGGAAGACAAGATCTG-TATCTTT
* * * * *
48462631 GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTCTTT
1 GATCTACTTCGCCACCAGTATAGGAAGACAAGATCTG-TATCTTT
** *
48462675 GATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTT
1 GATCTACTTCGCCACCAGTATAGGAAGACAAGATCTG-TATCTTT
* * * * *
48462720 GATCTACTTC-ACACCAGTACATGAAGACAAGCTCTGCTTTCTTT
1 GATCTACTTCGCCACCAGTATAGGAAGACAAGATCTG-TATCTTT
* * * * *
48462764 GATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTATATTC
1 GATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGTATCTTT
* * * * * *
48462808 GATCCACTTTGCTACTAATATAGGAAGACAGGATCTGGTATCTTT
1 GATCTACTTCGCCACCAGTATAGGAAGACAAGATCT-GTATCTTT
* * * * * *
48462853 GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTTTCTTC
1 GATCTACTTCGCCACCAGTATAGGAAGACAAGATCTG-TATCTTT
* * *
48462897 GATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTAGTATCTCT
1 GATCTACTTCGCCACCAGTATAGGAAGACAAGATCT-GTATCTTT
* * * * * * *
48462942 GATCTACTTC-ACGCCAGTACATGAAGATAAGATCTGCTTTTTCCTTC
1 GATCTACTTCGCCACCAGTATAGGAAGACAAGATCTG---TAT-CTTT
* * *
48462989 GATCTGCTTCGCCACCAGTATGGGAATG-CAAGATCTAGTATCTCT
1 GATCTACTTCGCCACCAGTATAGGAA-GACAAGATCT-GTATCTTT
* * * ** * *
48463034 GATCTACTTC-ACGCCAGTACATAAAGACAAGATTTGCTCTCTTT
1 GATCTACTTCGCCACCAGTATAGGAAGACAAGATCTG-TATCTTT
* * * *
48463078 GATCTATTTCGCCACCAGTATGGGAAGGCAAGATCTGCATCTTT
1 GATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGTATCTTT
* * * *
48463122 GATCCACTTCGCTACCAGCATAGGAAGACAGGATCTGTTATCTTT
1 GATCTACTTCGCCACCAGTATAGGAAGACAAGATCTG-TATCTTT
48463167 CAACCTGCTC
Statistics
Matches: 401, Mismatches: 118, Indels: 34
0.73 0.21 0.06
Matches are distributed among these distances:
43 4 0.01
44 215 0.54
45 147 0.37
46 5 0.01
47 11 0.03
48 17 0.04
49 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
GATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGTATCTTT
Found at i:48463166 original size:89 final size:89
Alignment explanation
Indices: 48462586--48463166 Score: 447
Period size: 89 Copynumber: 6.5 Consensus size: 89
48462576 TTTTTCCTTC
* * * * *
48462586 GATCTACTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTC-ACGCCAGTA
1 GATCTACTTCG-CACCAGTATAGGAAGACAAGATCTGTTATCTTTGATCTACTTCGCCACCAGTA
* * *
48462650 CATGAAGACAAGATCT-GCTTTCTTT
65 TAGGAAGACAAGATCTAGC-ATCTTT
** * *
48462675 GATCTGTTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTC-ACACCAGTA
1 GATCTACTTCG-CACCAGTATAGGAAGACAAGATCTGTTATCTTTGATCTACTTCGCCACCAGTA
* * * *
48462739 CATGAAGACAAGCTCT-GCTTTCTTT
65 TAGGAAGACAAGATCTAGC-ATCTTT
* * * * * * * * * *
48462764 GATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTG-TATATTCGATCCACTTTGCTACTAATA
1 GATCTACTTCG-CACCAGTATAGGAAGACAAGATCTGTTATCTTTGATCTACTTCGCCACCAGTA
* * *
48462828 TAGGAAGACAGGATCTGGTATCTTT
65 TAGGAAGACAAGATCTAGCATCTTT
* * * * * *
48462853 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
1 GATCTACTTCGCACCAGTATAGGAAGACAAGATCTGTTATCTTTGATCTACTTCGCCACCAGTAT
* * * *
48462918 GGGAAGGCAAGATCTAGTATCTCT
66 AGGAAGACAAGATCTAGCATCTTT
* * * * * * * *
48462942 GATCTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAG
1 GATCTACTTCGCACCAGTATAGGAAGACAAGATCTG--TTAT-CTTTGATCTACTTCGCCACCAG
* * *
48463007 TATGGGAATG-CAAGATCTAGTATCTCT
63 TATAGGAA-GACAAGATCTAGCATCTTT
* * * ** * * * *
48463034 GATCTACTTCACGCCAGTACATAAAGACAAGATTTGCTCTCTTTGATCTATTTCGCCACCAGTAT
1 GATCTACTTCGCACCAGTATAGGAAGACAAGATCTGTTATCTTTGATCTACTTCGCCACCAGTAT
* *
48463099 GGGAAGGCAAGATCT-GCATCTTT
66 AGGAAGACAAGATCTAGCATCTTT
* * *
48463122 GATCCACTTCGCTACCAGCATAGGAAGACAGGATCTGTTATCTTT
1 GATCTACTTCGC-ACCAGTATAGGAAGACAAGATCTGTTATCTTT
48463167 CAACCTGCTC
Statistics
Matches: 419, Mismatches: 64, Indels: 18
0.84 0.13 0.04
Matches are distributed among these distances:
88 50 0.12
89 282 0.67
90 3 0.01
91 4 0.01
92 79 0.19
93 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (89 bp):
GATCTACTTCGCACCAGTATAGGAAGACAAGATCTGTTATCTTTGATCTACTTCGCCACCAGTAT
AGGAAGACAAGATCTAGCATCTTT
Found at i:48469493 original size:3 final size:3
Alignment explanation
Indices: 48469485--48469535 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
48469475 ATGTATAGGT
48469485 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48469533 ATA
1 ATA
48469536 GTAAATAGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48491746 original size:44 final size:44
Alignment explanation
Indices: 48491696--48492120 Score: 372
Period size: 44 Copynumber: 9.5 Consensus size: 44
48491686 GTCACCGTAC
* ***
48491696 CAAATCTTATCTCCCTAAAGTTGCAGTGGATTGGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * *
48491740 CAAATCTTATCTTCCTAAAGTTGCAGTGGAGTAGATTAAAGCCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* *
48491784 CAAAT-TTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCA
1 CAAATCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * *
48491828 CAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAAATTAAAACCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
**
48491872 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * * *
48491916 CAAATATTATCTCCCTAAAGTTACAGCGGAGCAGATTGAGGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* * * * *
48491960 TCGAATCGTATCTCCCT-AGAGTTACAGTGGAACAGATTGAAGCGA
1 -CAAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGAAGCTA
* * * * * *
48492005 CAAATCATATAC-CTCTGAAGTTACAGTGG-GTCGGATTAAATCTA
1 CAAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGCTA
* *
48492049 CCATAGCGAGTTTTATCTCCCTCAAGTTGCAGTGGAGCAGATTGAAGCTA
1 -CA-A---A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
* *
48492099 CGAATCTCATCTCCCTGAAGTT
1 CAAATCTTATCTCCCTGAAGTT
48492121 TTAGTGGGTT
Statistics
Matches: 310, Mismatches: 56, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
43 2 0.01
44 233 0.75
45 41 0.13
46 1 0.00
48 1 0.00
49 3 0.01
50 28 0.09
51 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA
Found at i:48492319 original size:14 final size:13
Alignment explanation
Indices: 48492282--48492328 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
48492272 TCGTCTGATG
48492282 AAAAACCAAAAAT
1 AAAAACCAAAAAT
*
48492295 AAATAAACAAAATAT
1 AAA-AACCAAAA-AT
48492310 AAAAACCAAAAAAT
1 AAAAACC-AAAAAT
48492324 AAAAA
1 AAAAA
48492329 AGTCCATCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 3 0.10
14 17 0.59
15 9 0.31
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (13 bp):
AAAAACCAAAAAT
Found at i:48495715 original size:40 final size:40
Alignment explanation
Indices: 48495647--48495776 Score: 188
Period size: 40 Copynumber: 3.2 Consensus size: 40
48495637 AGCGGCACTT
*
48495647 TTAGCGGCGTTTGGAGCAAAAGCGCCGCTAAAGAGTGAGCA
1 TTAGCGGCGTTT-AAGCAAAAGCGCCGCTAAAGAGTGAGCA
*
48495688 TTAGCGGCGTTTAAGTAAAAGCGCCGCTAAAGAGTGAGCA
1 TTAGCGGCGTTTAAGCAAAAGCGCCGCTAAAGAGTGAGCA
* * * *
48495728 TTAGTGGCGTTTAAGGAAAAGTGCCGCTAAAGAGTGAGCG
1 TTAGCGGCGTTTAAGCAAAAGCGCCGCTAAAGAGTGAGCA
*
48495768 TTAGTGGCG
1 TTAGCGGCG
48495777 GTTATAAAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 71 0.86
41 12 0.14
ACGTcount: A:0.29, C:0.16, G:0.34, T:0.21
Consensus pattern (40 bp):
TTAGCGGCGTTTAAGCAAAAGCGCCGCTAAAGAGTGAGCA
Found at i:48495926 original size:113 final size:112
Alignment explanation
Indices: 48495727--48496223 Score: 775
Period size: 112 Copynumber: 4.4 Consensus size: 112
48495717 AAGAGTGAGC
** * * * * ** * *
48495727 ATTAGTGGCGTTTAAGGAAAAGTGCCGCTAAAGAGTGAGCGTTAGTGGCGGTTATAAAAAACGTC
1 ATTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCC
*
48495792 GCAAATAATACACTCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGGA
66 GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGGA
* *
48495840 CTTAGTGGCGTTTATTGTAAAGCACCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCC
1 ATTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCC
48495905 GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGA
66 GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGA
*
48495952 ATTAGTGGCGTTTATT-TCAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAATGC
1 ATTAGTGGCGTTTATTGT-AAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGC
* * * *
48496016 CGCAAATAATACACCCAAACGATGTCGTTTTGTGGCATTTGGGGGGGA
65 CGCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGA
48496064 ATTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCC
1 ATTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCC
*
48496129 GTAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTT-GGGGGGA
66 GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGA
48496175 ATTAGTGGCGTTTATT-TCAAAGCGCCGCTAAAGAGTGAACATTAGCAGC
1 ATTAGTGGCGTTTATTGT-AAAGCGCCGCTAAAGAGTGAACATTAGCAGC
48496224 NNNNNNNNNN
Statistics
Matches: 355, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
110 1 0.00
111 55 0.15
112 207 0.58
113 92 0.26
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (112 bp):
ATTAGTGGCGTTTATTGTAAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAAACGCC
GCAAATAATACACCCAGACGGTGCCGTTTTGTGGCCTTTGGGGGGGA
Found at i:48499234 original size:17 final size:17
Alignment explanation
Indices: 48499212--48499557 Score: 176
Period size: 17 Copynumber: 19.6 Consensus size: 17
48499202 GTTAAATTTA
48499212 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
48499229 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
* ** *
48499246 TTATTGAATGTTAAATTTA-
1 TTACT-AA-AATACA-TTAC
48499265 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
48499282 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
48499299 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
48499322 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
48499339 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
* *
48499356 TTACATAAATTTGTTTAAATTTA-
1 TTAC-TAAA-----ATACA-TTAC
*
48499379 TTTCTAAAATACATTAC
1 TTACTAAAATACATTAC
* *
48499396 TTACTAAAATAAATTAT
1 TTACTAAAATACATTAC
*** *
48499413 TTACTAAAATTTGTTTAAAT
1 TTACTAAAA-TACATT--AC
**
48499433 TTA-TAGTTTAAATTTATTTA-
1 TTACTA----AAATACA-TTAC
48499453 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
48499470 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
48499487 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
48499500 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
48499514 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
48499531 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
48499548 TTACTAAAAT
1 TTACTAAAAT
48499558 TTGTTTAAAT
Statistics
Matches: 261, Mismatches: 31, Indels: 74
0.71 0.08 0.20
Matches are distributed among these distances:
10 4 0.02
11 1 0.00
13 4 0.02
14 4 0.02
16 13 0.05
17 164 0.63
18 11 0.04
19 10 0.04
20 11 0.04
21 3 0.01
22 6 0.02
23 24 0.09
24 6 0.02
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:48499320 original size:57 final size:57
Alignment explanation
Indices: 48499203--48499479 Score: 388
Period size: 57 Copynumber: 4.9 Consensus size: 57
48499193 CGATTGAATG
**
48499203 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTA-TTGAA--TG-
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
48499256 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
*
48499313 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTAC-ATAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTA-AAATTTGT
* *
48499370 TTAAATTTATTTCTAAAATACATTACTTACTAAAATAAATTATTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
* * ** *
48499427 TTAAATTTA-TAGTTTAAATTTATTTA-TTACTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTA-CTAAAATACA-TTACTTACTAAAATAAATTACTTACTAAAAT
48499480 ACATTACTTA
Statistics
Matches: 203, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
53 46 0.23
54 3 0.01
56 4 0.02
57 146 0.72
58 4 0.02
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
Found at i:48499400 original size:74 final size:73
Alignment explanation
Indices: 48499322--48499557 Score: 228
Period size: 74 Copynumber: 3.1 Consensus size: 73
48499312 TTTAAATTTA
* *
48499322 TTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGTTTAAATTTA-T-TT-CT
1 TTACTAAAATACATTACTTACTAAAAT---TTACTTAAATAAA-TAGTTTAAATTTATTATTACT
48499384 AAAATACATTAC
62 AAAATACATTAC
* * ** **
48499396 TTACTAAAATAAATTATTTACTAAAATTTGTTTAAATTTATAGTTTAAATTTATTTATTACTAAA
1 TTACTAAAATACATTACTTACTAAAATTTACTTAAATAAATAGTTTAAATTTA-TTATTACTAAA
48499461 ATACATTAC
65 ATACATTAC
** * **
48499470 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTA-CTTAAATACATTACTTA
1 TTACTAAAATACATTACTTACTAAAATTTACTTAAA--TA--AA-TAGTTTAAATTTATTA-TTA
48499534 CTAAAATACATTAC
60 CTAAAATACATTAC
48499548 TTACTAAAAT
1 TTACTAAAAT
48499558 TTGTTTAAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 16
0.82 0.09 0.10
Matches are distributed among these distances:
70 12 0.09
71 8 0.06
72 1 0.01
73 2 0.01
74 73 0.53
76 1 0.01
77 3 0.02
78 35 0.26
79 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.44
Consensus pattern (73 bp):
TTACTAAAATACATTACTTACTAAAATTTACTTAAATAAATAGTTTAAATTTATTATTACTAAAA
TACATTAC
Found at i:48499441 original size:13 final size:13
Alignment explanation
Indices: 48499425--48499449 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48499415 ACTAAAATTT
48499425 GTTTAAATTTATA
1 GTTTAAATTTATA
48499438 GTTTAAATTTAT
1 GTTTAAATTTAT
48499450 TTATTACTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
GTTTAAATTTATA
Found at i:48499509 original size:57 final size:57
Alignment explanation
Indices: 48499448--48499590 Score: 196
Period size: 61 Copynumber: 2.4 Consensus size: 57
48499438 GTTTAAATTT
*
48499448 ATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAA
1 ATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAA
* *
48499505 ATTTATTAATTACTTAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAA
1 A--T-TT-ATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAA
* **
48499566 ATTTATTACTTAAATATGTTACTTA
1 ATTTATTACTAAAATACATTACTTA
48499591 AATTTATTAC
Statistics
Matches: 79, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
57 20 0.25
58 2 0.03
59 2 0.03
60 2 0.03
61 53 0.67
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (57 bp):
ATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAA
Found at i:48499580 original size:13 final size:13
Alignment explanation
Indices: 48499562--48499606 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
48499552 TAAAATTTGT
48499562 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
48499575 TTAAATATGTTAC
1 TTAAATTTATTAC
48499588 TTAAATTTATTAC
1 TTAAATTTATTAC
48499601 TTAAAT
1 TTAAAT
48499607 AATTATAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:48499836 original size:73 final size:73
Alignment explanation
Indices: 48499753--48499975 Score: 437
Period size: 73 Copynumber: 3.1 Consensus size: 73
48499743 TAAAATAAAA
48499753 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
48499818 TTAATAAT
66 TTAATAAT
48499826 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
48499891 TTAATAAT
66 TTAATAAT
*
48499899 TATAAAAAAAGATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
48499964 TTAATAAT
66 TTAATAAT
48499972 TATA
1 TATA
48499976 TTAGTAATGT
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 149 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (73 bp):
TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
TTAATAAT
Found at i:48499869 original size:38 final size:38
Alignment explanation
Indices: 48499754--48499943 Score: 139
Period size: 38 Copynumber: 5.2 Consensus size: 38
48499744 AAAATAAAAT
48499754 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
*** * * * *
48499792 ATAAAATGTTAT-T---TTATTAAATATT-ATTAATAATT
1 ATAAAAAAATATGTGGAATATTAAA-ATTGACTATTAA-A
48499827 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
*** * * * *
48499865 ATAAAATGTTAT-T---TTATTAAATATT-ATTAATAATT
1 ATAAAAAAATATGTGGAATATTAAA-ATTGACTATTAA-A
*
48499900 ATAAAAAAAGATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
48499938 ATAAAA
1 ATAAAA
48499944 TGTTATTTTA
Statistics
Matches: 109, Mismatches: 29, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
34 26 0.24
35 23 0.21
36 2 0.02
37 2 0.02
38 30 0.28
39 26 0.24
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.38
Consensus pattern (38 bp):
ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
Found at i:48500156 original size:51 final size:50
Alignment explanation
Indices: 48500152--48500439 Score: 486
Period size: 51 Copynumber: 5.7 Consensus size: 50
48500142 CAATACATAA
*
48500152 TAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAA
1 TAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACAT-T
* *
48500203 TAACTTACAACTTACACAATACATTTAACTTACAACTTACATAATACATAA
1 TAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACAT-T
48500254 TAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATT
1 TAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATT
* *
48500304 TAACTTACAACTTACATAATACATAATAACTTACAACTTACACAATACATT
1 TAACTTACAACTTACATAATACAT-TTAACTTACAACTTACATAATACATT
*
48500355 TAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATT
1 TAACTTACAACTTACATAATACAT-TTAACTTACAACTTACATAATACATT
48500406 TAACTTACAACTTACATAATACATTTAACTTACA
1 TAACTTACAACTTACATAATACATTTAACTTACA
48500440 TAACTTACGT
Statistics
Matches: 229, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
50 33 0.14
51 196 0.86
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.33
Consensus pattern (50 bp):
TAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATT
Found at i:48500168 original size:76 final size:77
Alignment explanation
Indices: 48500012--48500439 Score: 713
Period size: 76 Copynumber: 5.6 Consensus size: 77
48500002 ATTTTATTAA
48500012 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACATAACTTACATAATACATAAT
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTAC--AACTTACATAATACATAAT
48500077 AACTTACAACTTAC
64 AACTTACAACTTAC
* *
48500091 ATAATACAT-TTAACTTACAACTTACATAATACATTTAACTTACAACTTACACAATACATAATAA
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAA
48500155 CTTACAACTTAC
66 CTTACAACTTAC
* * * *
48500167 ATAATACAT-TTAACTTACAACTTACATAATACATAATAACTTACAACTTACACAATACAT-TTA
1 ATAATACATAATAACTTACAACTTACATAATACAT-TTAACTTACAACTTACATAATACATAATA
48500230 ACTTACAACTTAC
65 ACTTACAACTTAC
*
48500243 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACAT-TTAA
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAA
48500307 CTTACAACTTAC
66 CTTACAACTTAC
*
48500319 ATAATACATAATAACTTACAACTTACACAATACATTTAACTTACAACTTACATAATACATAATAA
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAA
48500384 CTTACAACTTAC
66 CTTACAACTTAC
*
48500396 ATAATACAT-TTAACTTACAACTTACATAATACATTTAACTTACA
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACA
48500440 TAACTTACGT
Statistics
Matches: 335, Mismatches: 11, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
76 221 0.66
77 72 0.21
78 33 0.10
79 9 0.03
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (77 bp):
ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAA
CTTACAACTTAC
Found at i:48500351 original size:127 final size:128
Alignment explanation
Indices: 48500012--48500439 Score: 772
Period size: 127 Copynumber: 3.4 Consensus size: 128
48500002 ATTTTATTAA
48500012 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACATAACTTACATAATACATAAT
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTAC--AACTTACATAATACATAAT
* *
48500077 AACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACAT-TTAACTTACAACTTAC
64 AACTTACAACTTACACAATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTAC
*
48500141 ACAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAA
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAA
48500206 CTTACAACTTACACAATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTAC
66 CTTACAACTTACACAATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTAC
*
48500269 ATAATACAT-TTAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAA
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAA
48500333 CTTACAACTTACACAATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTAC
66 CTTACAACTTACACAATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTAC
*
48500396 ATAATACAT-TTAACTTACAACTTACATAATACATTTAACTTACA
1 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACA
48500440 TAACTTACGT
Statistics
Matches: 293, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
127 227 0.77
128 23 0.08
129 43 0.15
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (128 bp):
ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAA
CTTACAACTTACACAATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTAC
Done.