Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 63 of 310
Found at i:19952743 original size:39 final size:40
Alignment explanation
Indices: 19952648--19952909 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
19952638 TTGAATGATG
*
19952648 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
19952686 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
19952727 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
19952766 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19952805 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
19952844 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
19952883 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
19952910 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19963274 original size:40 final size:40
Alignment explanation
Indices: 19963213--19963356 Score: 173
Period size: 40 Copynumber: 3.6 Consensus size: 40
19963203 NNNNNNNNNN
* * *
19963213 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGA-TA
* *
19963253 TATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGATA
** *
19963293 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGATA
** *
19963333 TGCCCGGGTTAAGACCCGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCA
19963357 ATTGTGCTTG
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 89 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGATA
Found at i:19965133 original size:15 final size:15
Alignment explanation
Indices: 19965115--19965171 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
19965105 TAATTTAAAA
*
19965115 TAAAATATTTTATTT
1 TAAAATATTTTATAT
*
19965130 TAAATTATATTTTGA-AA
1 TAAA--ATATTTT-ATAT
19965147 TAAAATATTTTATAT
1 TAAAATATTTTATAT
*
19965162 TAAATTATTT
1 TAAAATATTT
19965172 CAAATATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 1 0.03
15 21 0.62
17 11 0.32
18 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TAAAATATTTTATAT
Found at i:19965151 original size:32 final size:32
Alignment explanation
Indices: 19965095--19965169 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
19965085 GCCCATCATA
19965095 TATTTT-AA-TATAATTTAAAATAAAATATTT
1 TATTTTAAATTATAATTTAAAATAAAATATTT
* *
19965125 TATTTTAAATTATATTTTGAAATAAAATATTT
1 TATTTTAAATTATAATTTAAAATAAAATATTT
*
19965157 TATATTAAATTAT
1 TATTTTAAATTAT
19965170 TTCAAATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 6 0.15
31 2 0.05
32 32 0.80
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (32 bp):
TATTTTAAATTATAATTTAAAATAAAATATTT
Found at i:19975224 original size:13 final size:13
Alignment explanation
Indices: 19975206--19975234 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
19975196 ATTGGCCTCA
19975206 TTATAGAAAGGAT
1 TTATAGAAAGGAT
19975219 TTATAGAAAGGAT
1 TTATAGAAAGGAT
19975232 TTA
1 TTA
19975235 GCCCGGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (13 bp):
TTATAGAAAGGAT
Found at i:19978165 original size:93 final size:93
Alignment explanation
Indices: 19978038--19978253 Score: 423
Period size: 93 Copynumber: 2.3 Consensus size: 93
19978028 AAATCCATTC
19978038 ATCTCTTGACATATCCCTATGTCAATTCAACCGACTAAACAGATTCTAGCAAGCAAACATATTAT
1 ATCTCTTG-CATATCCCTATGTCAATTCAACCGACTAAACAGATTCTAGCAAGCAAACATATTAT
19978103 GGCACATACATACTCATTAAATTGAACCA
65 GGCACATACATACTCATTAAATTGAACCA
19978132 ATCTCTTGCATATCCCTATGTCAATTCAACCGACTAAACAGATTCTAGCAAGCAAACATATTATG
1 ATCTCTTGCATATCCCTATGTCAATTCAACCGACTAAACAGATTCTAGCAAGCAAACATATTATG
19978197 GCACATACATACTCATTAAATTGAACCA
66 GCACATACATACTCATTAAATTGAACCA
19978225 ATCTCTTGCATATCCCTATGTCAATTCAA
1 ATCTCTTGCATATCCCTATGTCAATTCAA
19978254 ACGGTTAATT
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 114 0.93
94 8 0.07
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.29
Consensus pattern (93 bp):
ATCTCTTGCATATCCCTATGTCAATTCAACCGACTAAACAGATTCTAGCAAGCAAACATATTATG
GCACATACATACTCATTAAATTGAACCA
Found at i:19987052 original size:17 final size:17
Alignment explanation
Indices: 19987030--19987066 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
19987020 GAATGTGCTT
19987030 GTCATGCCATTTCTTAA
1 GTCATGCCATTTCTTAA
19987047 GTCATGCCATTTCTTAA
1 GTCATGCCATTTCTTAA
19987064 GTC
1 GTC
19987067 TTTCCTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (17 bp):
GTCATGCCATTTCTTAA
Found at i:20000505 original size:7 final size:6
Alignment explanation
Indices: 20000484--20000530 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
20000474 CTTTTTTAGA
* *
20000484 TTTA-T TTTATT TTTAGTT TTTAAT TTTATT TTTAATT TTTACT TTTA
1 TTTATT TTTATT TTTA-TT TTTATT TTTATT TTT-ATT TTTATT TTTA
20000531 AAAGTAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
5 4 0.11
6 20 0.56
7 12 0.33
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:20000509 original size:19 final size:19
Alignment explanation
Indices: 20000487--20000530 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
20000477 TTTTAGATTT
*
20000487 ATTTTATTTTTAGTTTTTA
1 ATTTTATTTTTAATTTTTA
20000506 ATTTTATTTTTAATTTTTA
1 ATTTTATTTTTAATTTTTA
*
20000525 CTTTTA
1 ATTTTA
20000531 AAAGTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
ATTTTATTTTTAATTTTTA
Found at i:20000530 original size:13 final size:13
Alignment explanation
Indices: 20000484--20000531 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
20000474 CTTTTTTAGA
20000484 TTTA-TTTT-ATT
1 TTTATTTTTAATT
20000495 TTTAGTTTTTAA-T
1 TTTA-TTTTTAATT
20000508 TTTATTTTTAATT
1 TTTATTTTTAATT
*
20000521 TTTACTTTTAA
1 TTTATTTTTAA
20000532 AAGTAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 4 0.12
12 7 0.22
13 20 0.62
14 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTATTTTTAATT
Found at i:20012553 original size:50 final size:50
Alignment explanation
Indices: 20012453--20012553 Score: 121
Period size: 50 Copynumber: 2.0 Consensus size: 50
20012443 TTCCTTTAAT
* * * * * *
20012453 TCTTTTCATGTGATGCCATAACCCATCAATTATGGTCTTATACGACATGG
1 TCTTTCCATATGATGCCATAACCCACCAACTATGGTCTTACACAACATGG
* * *
20012503 TCTTTCCATATGATGCCGTAACCCACCAGCTATGGTCTTACACAATATGG
1 TCTTTCCATATGATGCCATAACCCACCAACTATGGTCTTACACAACATGG
20012553 T
1 T
20012554 GCCATGGAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (50 bp):
TCTTTCCATATGATGCCATAACCCACCAACTATGGTCTTACACAACATGG
Found at i:20019769 original size:135 final size:133
Alignment explanation
Indices: 20019574--20019815 Score: 385
Period size: 135 Copynumber: 1.8 Consensus size: 133
20019564 GCTCCAATGT
*
20019574 AACTTCAAGGAGACAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 AACTTCAAGGAGACAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACT
* **
20019639 TGGGTAATTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGTTTC
66 T-GCTAATTCGA-CCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGTTTC
20019704 GCTGC
129 GCTGC
* * *
20019709 AACTTCAGGGAGGCACGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACT
1 AACTTCAAGGAGACAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACT
* *
20019774 TGCTACTTCGACCTGCTCTACTGCAACTTCAGAGTGATAAGG
66 TGCTAATTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGG
20019816 TTTGCTATGA
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
133 30 0.31
134 6 0.06
135 62 0.63
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (133 bp):
AACTTCAAGGAGACAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACT
TGCTAATTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTGTTTCGC
TGC
Found at i:20019803 original size:44 final size:44
Alignment explanation
Indices: 20019574--20019814 Score: 154
Period size: 45 Copynumber: 5.4 Consensus size: 44
20019564 GCTCCAATGT
* * *
20019574 AACTTCA-AGGAGACAAGATCTGCTATCTTC-AGTCTGCTCCACTGC
1 AACTTCAGA-GAGATAAGAT-TGCTA-CTTCGAGCCTGCTCTACTGC
* * * ** *
20019619 AACTTCAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGC
1 AACTTCAGAGAGATAAGA-TT-GCTACTTCGAGCCTGCTCTACTGC
* * * *
20019665 AACTTCAGAGAGATAAGGATTG-TGGCTTCGA-TCTG-TTTCGCTGC
1 AACTTCAGAGAGATAA-GATTGCT-ACTTCGAGCCTGCTCT-ACTGC
* ** * * *
20019709 AACTTCAGGGAGGCACGATCTGCTATCTTC-AGTCTGCTCCACTGC
1 AACTTCAGAGAGATAAGAT-TGCTA-CTTCGAGCCTGCTCTACTGC
20019754 AACTTCAGAGAGATAAGACTTGCTACTTCGA-CCTGCTCTACTGC
1 AACTTCAGAGAGATAAGA-TTGCTACTTCGAGCCTGCTCTACTGC
*
20019798 AACTTCAGAGTGATAAG
1 AACTTCAGAGAGATAAG
20019815 GTTTGCTATG
Statistics
Matches: 151, Mismatches: 31, Indels: 29
0.72 0.15 0.14
Matches are distributed among these distances:
43 5 0.03
44 54 0.36
45 55 0.36
46 35 0.23
47 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
AACTTCAGAGAGATAAGATTGCTACTTCGAGCCTGCTCTACTGC
Found at i:20020033 original size:11 final size:11
Alignment explanation
Indices: 20020017--20020045 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
20020007 TGCATAAATG
20020017 CAGAATGTCTT
1 CAGAATGTCTT
20020028 CAGAATGTCTT
1 CAGAATGTCTT
20020039 CAGAATG
1 CAGAATG
20020046 ATCCCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (11 bp):
CAGAATGTCTT
Found at i:20035628 original size:13 final size:13
Alignment explanation
Indices: 20035610--20035648 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
20035600 ATATTATAAT
*
20035610 TATTTTGTGTTAA
1 TATTTTATGTTAA
*
20035623 TATTTTATGCTAA
1 TATTTTATGTTAA
20035636 TAATTTTATGTTA
1 T-ATTTTATGTTA
20035649 CAAAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:20036599 original size:40 final size:40
Alignment explanation
Indices: 20036551--20036756 Score: 297
Period size: 40 Copynumber: 5.2 Consensus size: 40
20036541 GGACTAAGAT
* * *
20036551 CCGAAGGCATTTGTGCTAGTGACCATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
20036591 CCGAAGGCATTCGTGTGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
20036631 CCGAAGGCAATTATGCGAGTTATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
20036671 CTGAAGGCAATTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
20036711 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
20036750 CCGAAGG
1 CCGAAGG
20036757 TACTTGGGTT
Statistics
Matches: 149, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 15 0.10
40 134 0.90
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:20045681 original size:40 final size:40
Alignment explanation
Indices: 20045633--20045726 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
20045623 GGACTAAGAT
20045633 CCGAAGGCATTTGTGCT-AGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTG-TGAGTGACTATATCCGGGCTAAGTC
* * *
20045673 CCGAAGGCATTCGTGTGATTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGTGAGTGACTATATCCGGGCTAAGTC
*
20045713 CCGAAGGCTTTTGT
1 CCGAAGGCATTTGT
20045727 TCGTCAGCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.02
40 47 0.98
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGTGAGTGACTATATCCGGGCTAAGTC
Found at i:20052965 original size:50 final size:48
Alignment explanation
Indices: 20052885--20053019 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 48
20052875 GAAATCGACG
* * * * **
20052885 CCGACGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACTTATTTGTA
1 CCGATGCCATATCCCAGACATGGTCTTACACTGA-CAC-CTC-TATACGTA
* * *
20052935 CCGATGCCATTTCCCAGACATGATCTTACACTGACACCTCTATACGTT
1 CCGATGCCATATCCCAGACATGGTCTTACACTGACACCTCTATACGTA
20052983 CCGATGCCATATCCCAGACATGGTCTTACACTGACAC
1 CCGATGCCATATCCCAGACATGGTCTTACACTGACAC
20053020 ATCTCATAGT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 40 0.54
49 2 0.03
50 31 0.42
51 1 0.01
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (48 bp):
CCGATGCCATATCCCAGACATGGTCTTACACTGACACCTCTATACGTA
Found at i:20053158 original size:48 final size:48
Alignment explanation
Indices: 20052843--20053198 Score: 202
Period size: 46 Copynumber: 7.5 Consensus size: 48
20052833 AAGTCAATGT
* * ** * * *
20052843 CATGTCCCAGACATGGTCTTACACTGACTATTGAAATCGACGCCGACGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCTT-ATCTCAATGCCGATGC
* * * *
20052892 CATGTCCCAGACATGGTCTTACACTAGCTCTCA-CTTATTTGTACCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCTTATCTCA-ATG--CCGATGC
* * * * * * *
20052942 CATTTCCCAGACATGATCTTACACTGACACCTCTAT-AC-GTTCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGC-TCT-TATCTCAATGCCGATGC
* * * *
20052990 CATATCCCAGACATGGTCTTACACTGACAC--ATCTC-ATAGTCGATG-
1 CATGTCCCAGACATGGTCTTACACTGGCTCTTATCTCAAT-GCCGATGC
* * * * * *
20053035 CTTGTCTCAGACAT-GTCTTACACTAGCT-TACATCTCGAGGCCGATG-
1 CATGTCCCAGACATGGTCTTACACTGGCTCT-TATCTCAATGCCGATGC
* * * *
20053081 CATGTCCCAGACGT-GTCTTACACTAGCTCTTGTCTCAATGCTGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTCTTATCTCAATGCCGATGC
* *
20053128 CATGTCCCAGACATGGTCTTACACTGGCTCTCA--TAATATGGCCGATG-
1 CATGTCCCAGACATGGTCTTACACTGGCTCTTATCTCA-AT-GCCGATGC
*
20053175 CATGTCCCAGACAT-ATCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
20053199 AGTACACAAA
Statistics
Matches: 240, Mismatches: 50, Indels: 37
0.73 0.15 0.11
Matches are distributed among these distances:
44 13 0.05
45 13 0.05
46 63 0.26
47 33 0.14
48 56 0.23
49 28 0.12
50 31 0.13
51 2 0.01
52 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTCTTATCTCAATGCCGATGC
Found at i:20063296 original size:18 final size:18
Alignment explanation
Indices: 20063273--20063309 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
20063263 CTTAAAAATT
20063273 GAAGTAACTTATTTTAGA
1 GAAGTAACTTATTTTAGA
20063291 GAAGTAACTTATTTTAGA
1 GAAGTAACTTATTTTAGA
20063309 G
1 G
20063310 CTTACTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (18 bp):
GAAGTAACTTATTTTAGA
Found at i:20067426 original size:25 final size:29
Alignment explanation
Indices: 20067398--20067462 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 29
20067388 TTACGGAAAC
20067398 TATATTAATT-A-TAATATTA-AA-TAAT
1 TATATTAATTAATTAATATTACAACTAAT
*
20067423 TATATCAAATTAATTAATATTACAACTAAT
1 TATAT-TAATTAATTAATATTACAACTAAT
20067453 T-TATTTAATT
1 TATA-TTAATT
20067463 TAAAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
25 5 0.16
26 4 0.12
27 1 0.03
28 8 0.25
29 8 0.25
30 6 0.19
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (29 bp):
TATATTAATTAATTAATATTACAACTAAT
Found at i:20069550 original size:25 final size:25
Alignment explanation
Indices: 20069509--20069556 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
20069499 ACAGGATTCA
*
20069509 CCATATAGACTTTCTAGATAACTCG
1 CCATATAGACTTCCTAGATAACTCG
20069534 CCATA-AGAGCTTCCTAGATAACT
1 CCATATAGA-CTTCCTAGATAACT
20069557 TCAGCACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (25 bp):
CCATATAGACTTCCTAGATAACTCG
Found at i:20070756 original size:16 final size:16
Alignment explanation
Indices: 20070737--20070767 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20070727 ATCTCCCTTT
*
20070737 GGCGTATTCTTTCTTG
1 GGCGTAGTCTTTCTTG
20070753 GGCGTAGTCTTTCTT
1 GGCGTAGTCTTTCTT
20070768 CACTTGAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.19, G:0.26, T:0.48
Consensus pattern (16 bp):
GGCGTAGTCTTTCTTG
Found at i:20072253 original size:8 final size:8
Alignment explanation
Indices: 20072240--20072267 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
20072230 AGGAGGGCCA
20072240 AATTGAAG
1 AATTGAAG
20072248 AATTGAAG
1 AATTGAAG
20072256 AATTGAAG
1 AATTGAAG
20072264 AATT
1 AATT
20072268 AGTGGTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (8 bp):
AATTGAAG
Found at i:20073259 original size:19 final size:18
Alignment explanation
Indices: 20073230--20073265 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
20073220 AGATATTAAA
20073230 TTCACTAATTTAATTTAT
1 TTCACTAATTTAATTTAT
*
20073248 TTCACTTAATTTATTTTA
1 TTCAC-TAATTTAATTTA
20073266 CAATCACAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (18 bp):
TTCACTAATTTAATTTAT
Found at i:20081490 original size:78 final size:78
Alignment explanation
Indices: 20081382--20081538 Score: 244
Period size: 78 Copynumber: 2.0 Consensus size: 78
20081372 TAGGTCACAT
* * *
20081382 AGGTTTTTTTGGTTTGTAATGCTCTGAGGCTT-AGTACAGGTATGAAAGTCAAAAACAATAAGCA
1 AGGTGTTTTTGGTTTGTAACGCTCTAAGGCTTAAG-ACAGGTATGAAAGTCAAAAACAATAAGCA
20081446 TTAAAGATGGTTAC
65 TTAAAGATGGTTAC
* * *
20081460 AGGTGTTTTTGGTTTGTAACGTTCTAAGGCTTAAGACAGGTATGGAATTCAAAAACAATAAGCAT
1 AGGTGTTTTTGGTTTGTAACGCTCTAAGGCTTAAGACAGGTATGAAAGTCAAAAACAATAAGCAT
20081525 TAAAGATGGTTAC
66 TAAAGATGGTTAC
20081538 A
1 A
20081539 AACAAGAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
78 70 0.97
79 2 0.03
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.32
Consensus pattern (78 bp):
AGGTGTTTTTGGTTTGTAACGCTCTAAGGCTTAAGACAGGTATGAAAGTCAAAAACAATAAGCAT
TAAAGATGGTTAC
Found at i:20091766 original size:47 final size:45
Alignment explanation
Indices: 20091659--20091921 Score: 178
Period size: 47 Copynumber: 5.6 Consensus size: 45
20091649 TGTGTGAGCT
**
20091659 AGTGTAAGACATGTCTAGGACAT-GCATCAGCCACATTTTGA--AAGCC
1 AGTGTAAGACATGTCTAGGACATGGCATC-G--AC-TTGAGACGAAGCC
* * * *
20091705 ATTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTAGGACATGGCATCGAC-TTGAGACGA-AGCC
* * *
20091753 AGTGTAAGACATGTCTGGGACAT-GCTTCGGCCTTGAGACGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGGCATC-GACTTGAGACG-AAGCC
* * * * *
20091799 AATGTAAGACATGTCTGGGACAT-GCATCGACTACGAGAGGATAGTC
1 AGTGTAAGACATGTCTAGGACATGGCATCGACT-TGAGACGA-AGCC
** * *
20091845 AGTGTAAGACTATGTCTAATACATGGCATCAACTTAAGAC-ATGAGCC
1 AGTGTAAGAC-ATGTCTAGGACATGGCATCGACTTGAGACGA--AGCC
*
20091892 AGTATAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTAGGACATGGCATC
20091922 AGCACCTTAC
Statistics
Matches: 173, Mismatches: 31, Indels: 25
0.76 0.14 0.11
Matches are distributed among these distances:
45 10 0.06
46 66 0.38
47 73 0.42
48 24 0.14
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGACATGGCATCGACTTGAGACGAAGCC
Found at i:20091805 original size:46 final size:45
Alignment explanation
Indices: 20091661--20091827 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 45
20091651 TGTGAGCTAG
* * ** *
20091661 TGTAAGACATGTCTAGGACATGCATCAGCCACATTTTGA--AAGCCAT
1 TGTAAGACATGTCTGGGACATGCATC-G--GCATTGAGACGAAGCCAA
* * * *
20091707 TGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGTGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGACGA-AGCCAA
* *
20091755 TGTAAGACATGTCTGGGACATGCTTCGGCCTTGAGACGTAAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCATTGAGACG-AAGCCAA
20091801 TGTAAGACATGTCTGGGACATGCATCG
1 TGTAAGACATGTCTGGGACATGCATCG
20091828 ACTACGAGAG
Statistics
Matches: 102, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
45 6 0.06
46 51 0.50
47 30 0.29
48 15 0.15
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAAGCCAA
Found at i:20091851 original size:46 final size:46
Alignment explanation
Indices: 20091700--20091861 Score: 134
Period size: 46 Copynumber: 3.5 Consensus size: 46
20091690 CACATTTTGA
* * *
20091700 AAGCCATTGTAAGACCATGTCTAGGACATGGCATCGG-CATTGAGACG-
1 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGAC-TCGAGACGT
* * * * *
20091747 AGTGCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCTTGAGACGT
1 A-AGCCAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGACGT
* *
20091794 AAGCCAATGTAAGACATGTCTGGGACATGCATC-GACTACGAGA-GG
1 AAGCCAGTGTAAGACATGTCTGGGACATGCATCGGACT-CGAGACGT
*
20091839 ATAGTCAGTGTAAGACTATGTCT
1 A-AGCCAGTGTAAGAC-ATGTCT
20091862 AATACATGGC
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
45 5 0.05
46 58 0.61
47 22 0.23
48 10 0.11
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AAGCCAGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGACGT
Found at i:20097354 original size:71 final size:71
Alignment explanation
Indices: 20097272--20097415 Score: 182
Period size: 71 Copynumber: 2.0 Consensus size: 71
20097262 AAAGTTACAA
* * * * * *
20097272 GAGGCTTTGGGAACAAAGTTG-AGTTTCAGTACGGCATGTCACCCGCAAACCGAGGGTCAGTCGG
1 GAGGCATTGGGAACAAAATTGAAGTTTC-GCACGACATGTCACCCGCAAACCGACGGTCAGTCAG
*
20097336 AAAGAGT
65 AAAAAGT
* * *
20097343 GAGGCATTGGGAACAAAATTGAATTTTCGCACGACATTTCACCTGCAAACCGACGGTCAGTCAGA
1 GAGGCATTGGGAACAAAATTGAAGTTTCGCACGACATGTCACCCGCAAACCGACGGTCAGTCAGA
20097408 AAAAGT
66 AAAAGT
20097414 GA
1 GA
20097416 TTCAGATTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
71 57 0.92
72 5 0.08
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (71 bp):
GAGGCATTGGGAACAAAATTGAAGTTTCGCACGACATGTCACCCGCAAACCGACGGTCAGTCAGA
AAAAGT
Found at i:20099539 original size:46 final size:46
Alignment explanation
Indices: 20099384--20099604 Score: 205
Period size: 46 Copynumber: 4.7 Consensus size: 46
20099374 TCACTTGTGT
* * *
20099384 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGTTGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGA
* * * *
20099430 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGA
* * * * *
20099478 GTGCTAGTATAAGACATGTTTGGGACATGCTTCGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-A
* *
20099525 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAAAGGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGA
* * *
20099570 TAGTCAGTGTAAGACCATGTCTGAGACATGGCATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
20099605 AACTTGAGAT
Statistics
Matches: 142, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
45 3 0.02
46 72 0.51
47 39 0.27
48 27 0.19
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA
Found at i:20106961 original size:6 final size:6
Alignment explanation
Indices: 20106950--20106983 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
20106940 AAGAATAGGA
20106950 TGGTGT TGGTGT TGGTGT TGGTGT TGGTGT TGGT
1 TGGTGT TGGTGT TGGTGT TGGTGT TGGTGT TGGT
20106984 AACAAACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (6 bp):
TGGTGT
Found at i:20108082 original size:11 final size:11
Alignment explanation
Indices: 20108068--20108103 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
20108058 AAAAAACATA
20108068 TAAAATAATTT
1 TAAAATAATTT
20108079 TAAAATAATTT
1 TAAAATAATTT
*
20108090 TAAAA-AAGTT
1 TAAAATAATTT
20108100 TAAA
1 TAAA
20108104 TTTTTTGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
TAAAATAATTT
Found at i:20110964 original size:38 final size:38
Alignment explanation
Indices: 20110922--20110995 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
20110912 TGTAATAGAA
*
20110922 CAATTCAACGCTAACAATAGACATGCTTAACATGTATT
1 CAATTCAACACTAACAATAGACATGCTTAACATGTATT
* *
20110960 CAATTCAACACTAGCAGTAGACATGCTTAACATGTA
1 CAATTCAACACTAACAATAGACATGCTTAACATGTA
20110996 CTCAGTAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (38 bp):
CAATTCAACACTAACAATAGACATGCTTAACATGTATT
Found at i:20116692 original size:22 final size:23
Alignment explanation
Indices: 20116667--20116755 Score: 59
Period size: 22 Copynumber: 4.1 Consensus size: 23
20116657 ATATTATAAA
*
20116667 ATTT-TTTTATTTTATATATATT
1 ATTTATTTTATATTATATATATT
*
20116689 ATTTATCTATATATTA-A-ATA-T
1 ATTTAT-TTTATATTATATATATT
*
20116710 -TTT-TTTTATATCT-TATTTA-T
1 ATTTATTTTATAT-TATATATATT
*
20116730 ATTTCTTTTATATTATATTATATT
1 ATTTATTTTATATTATA-TATATT
20116754 AT
1 AT
20116756 ATGTTATTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
18 6 0.12
19 3 0.06
20 6 0.12
21 5 0.10
22 17 0.33
23 5 0.10
24 10 0.19
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTTATTTTATATTATATATATT
Found at i:20119682 original size:13 final size:13
Alignment explanation
Indices: 20119664--20119700 Score: 53
Period size: 11 Copynumber: 3.1 Consensus size: 13
20119654 CAGCTCGCCC
20119664 ATATTAATTTTTT
1 ATATTAATTTTTT
20119677 ATATT-A-TTTTT
1 ATATTAATTTTTT
20119688 ATA-TAATTTTTT
1 ATATTAATTTTTT
20119700 A
1 A
20119701 AAAAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.05
11 9 0.41
12 7 0.32
13 5 0.23
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:20125582 original size:247 final size:247
Alignment explanation
Indices: 20125146--20125639 Score: 945
Period size: 247 Copynumber: 2.0 Consensus size: 247
20125136 AACACACTTT
20125146 TTTGCTTTTTATTTTCCCTTTTTTTTCTTATATGAACTCAGCTCCGCTGTATAGATGATAAACTG
1 TTTGCTTTTTATTTTCCCTTTTTTTTCTTATATGAACTCAGCTCCGCTGTATAGATGATAAACTG
20125211 TAAAGTAAAGATATGATGTCAGGCTGGCATTTCAAGTTCAGGCTCAGAATTCTAGAGCATTAATC
66 TAAAGTAAAGATATGATGTCAGGCTGGCATTTCAAGTTCAGGCTCAGAATTCTAGAGCATTAATC
20125276 AAATTCAATTATGCAACTGAAAGACCTGCGTATACCTAAACAAGATGGAGTACTGGGAATCTCAA
131 AAATTCAATTATGCAACTGAAAGACCTGCGTATACCTAAACAAGATGGAGTACTGGGAATCTCAA
* * *
20125341 AGATTGATCCGATGAATGAAA-CTCCCCTGCCATAATGGCAGATTAGGGACAC
196 AGATTGATCCAATAAAT-AAACCCCCCCTGCCATAATGGCAGATTAGGGACAC
20125393 TTTGCTTTTTATTTTCCCTTTTTTTTCTTATATGAACTCAGCTCCGCTGTATAGATGATAAACTG
1 TTTGCTTTTTATTTTCCCTTTTTTTTCTTATATGAACTCAGCTCCGCTGTATAGATGATAAACTG
20125458 TAAAGTAAAGATATGATGTCAGGCTGGCATTTCAAGTTCAGGCTCAGAATTCTAGAGCATTAATC
66 TAAAGTAAAGATATGATGTCAGGCTGGCATTTCAAGTTCAGGCTCAGAATTCTAGAGCATTAATC
20125523 AAATTCAATTATGCAACTGAAAGACCTGCGTATACCTAAACAAGATGGAGTACTGGGAATCTCAA
131 AAATTCAATTATGCAACTGAAAGACCTGCGTATACCTAAACAAGATGGAGTACTGGGAATCTCAA
20125588 AGATTGATCCAATAAATAAACCCCCCCTGCCATAATGGCAGATTAGGGACAC
196 AGATTGATCCAATAAATAAACCCCCCCTGCCATAATGGCAGATTAGGGACAC
20125640 ACTGTGTCGT
Statistics
Matches: 243, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
246 3 0.01
247 240 0.99
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (247 bp):
TTTGCTTTTTATTTTCCCTTTTTTTTCTTATATGAACTCAGCTCCGCTGTATAGATGATAAACTG
TAAAGTAAAGATATGATGTCAGGCTGGCATTTCAAGTTCAGGCTCAGAATTCTAGAGCATTAATC
AAATTCAATTATGCAACTGAAAGACCTGCGTATACCTAAACAAGATGGAGTACTGGGAATCTCAA
AGATTGATCCAATAAATAAACCCCCCCTGCCATAATGGCAGATTAGGGACAC
Found at i:20133253 original size:46 final size:44
Alignment explanation
Indices: 20133195--20133408 Score: 184
Period size: 46 Copynumber: 4.7 Consensus size: 44
20133185 TCACTTGTGT
*
20133195 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTA-GA
*
20133241 GAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGAGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-AGA
* * * **
20133286 CGAGCGCTAGTGTAAGACATGTCTTGGACATGTATCAGCCTCGAGAAGTA
1 -GAGC-C-AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTAG-A
* *
20133336 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGA
* *
20133378 TGTGCCAGTCTAAGATCATGTCTGGGACATG
1 -GAGCCAGTGTAAGA-CATGTCTGGGACATG
20133409 GTATCAGCAT
Statistics
Matches: 138, Mismatches: 16, Indels: 29
0.75 0.09 0.16
Matches are distributed among these distances:
42 1 0.01
43 3 0.02
44 11 0.08
45 22 0.16
46 48 0.35
47 29 0.21
48 19 0.14
49 3 0.02
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGA
Found at i:20138100 original size:21 final size:21
Alignment explanation
Indices: 20138076--20138118 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
20138066 CCATGGGTCT
20138076 TAGCCATATGGACGTACACAA
1 TAGCCATATGGACGTACACAA
20138097 TAGCCATATGGACGTACACAA
1 TAGCCATATGGACGTACACAA
20138118 T
1 T
20138119 CTCATGTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (21 bp):
TAGCCATATGGACGTACACAA
Found at i:20142274 original size:10 final size:10
Alignment explanation
Indices: 20142259--20142284 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
20142249 TAAATACATT
20142259 TAATTAAAGA
1 TAATTAAAGA
20142269 TAATTAAAGA
1 TAATTAAAGA
20142279 TAATTA
1 TAATTA
20142285 GAATAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:20142336 original size:15 final size:15
Alignment explanation
Indices: 20142316--20142345 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20142306 ATAGTCCTAA
20142316 TAATTATCCTAATAT
1 TAATTATCCTAATAT
20142331 TAATTATCCTAATAT
1 TAATTATCCTAATAT
20142346 AAATAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:20148521 original size:56 final size:54
Alignment explanation
Indices: 20148426--20148583 Score: 156
Period size: 54 Copynumber: 2.9 Consensus size: 54
20148416 TTTGATGACA
* * * * *
20148426 TGATACATGCTAGGT-TCGGGAGCTTGTGTAGCCCCGTTGAGAGGCATGTTATTATG
1 TGATACACGCTAGGTCT-AGGACCTTATGTAGCCCCGTTGAGAGGC--GTGATTATG
* ** *
20148482 TGGTACACGCTAGGTCTAGGACCTTATGTAGCCTTGTTGAGAGGCGTGGTTATG
1 TGATACACGCTAGGTCTAGGACCTTATGTAGCCCCGTTGAGAGGCGTGATTATG
* * * * *
20148536 TGATGCATGCTAGGTCTAGGAGCTTGTGTAGCCCCGTTGAAAGGCGTG
1 TGATACACGCTAGGTCTAGGACCTTATGTAGCCCCGTTGAGAGGCGTG
20148584 CTATGTTGTG
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 47 0.56
56 36 0.43
57 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (54 bp):
TGATACACGCTAGGTCTAGGACCTTATGTAGCCCCGTTGAGAGGCGTGATTATG
Found at i:20155110 original size:53 final size:53
Alignment explanation
Indices: 20154948--20155110 Score: 193
Period size: 53 Copynumber: 3.0 Consensus size: 53
20154938 TTTGATGACA
* * * *
20154948 TGATACATGCTAGGTTCGGGAGCTTGTGTAGCCCCGTTGAGAGGCATGTTATTATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGC--G-TGTTATG
* * * *
20155004 TGGTACACGCTAGGTCCGGGAGCTTATGTAGCCCT-ATGAGAGGTGTGGTTATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGT-GTTATG
* *
20155057 TGATGCATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGTGCTATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGTGTTATG
20155110 T
1 T
20155111 TGCGATTATG
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.48
54 9 0.10
55 7 0.08
56 30 0.33
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.30
Consensus pattern (53 bp):
TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGTGTTATG
Found at i:20162090 original size:15 final size:16
Alignment explanation
Indices: 20162062--20162100 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
20162052 TTTTAGTTCG
*
20162062 ATGATTATTGGCTA-A
1 ATGATTATTAGCTAGA
*
20162077 ATGTTTATTAGCTAGA
1 ATGATTATTAGCTAGA
20162093 ATGATTAT
1 ATGATTAT
20162101 GAAACCTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (16 bp):
ATGATTATTAGCTAGA
Found at i:20170556 original size:55 final size:54
Alignment explanation
Indices: 20170469--20170723 Score: 278
Period size: 55 Copynumber: 4.8 Consensus size: 54
20170459 ATTAGGGTTT
*
20170469 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
20170524 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
20170579 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
20170632 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
20170681 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
20170724 GTACCCGTGT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:20170675 original size:108 final size:110
Alignment explanation
Indices: 20170476--20170676 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
20170466 TTTAAGGATA
*
20170476 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
20170541 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
20170586 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
20170648 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
20170677 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:20170834 original size:23 final size:24
Alignment explanation
Indices: 20170797--20170841 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
20170787 AAGGTAAGGT
*
20170797 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
*
20170820 AAGGTAAGATAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
20170842 GAAGAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:20170941 original size:16 final size:16
Alignment explanation
Indices: 20170920--20170950 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20170910 ATAAATTTGA
20170920 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
20170936 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
20170951 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:20176035 original size:53 final size:53
Alignment explanation
Indices: 20175972--20176079 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
20175962 CTTTAACTCC
*
20175972 ATAGTTTACTCTTAACGGAGCATACCCAGAGCATACATTTAAGACACACATAT
1 ATAGTTTACTCTTAACAGAGCATACCCAGAGCATACATTTAAGACACACATAT
20176025 ATAGTTTACTCTTAACAGAGCATACCCAGAGCATACATTTAAGACACACATAT
1 ATAGTTTACTCTTAACAGAGCATACCCAGAGCATACATTTAAGACACACATAT
20176078 AT
1 AT
20176080 GACCAAACCT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (53 bp):
ATAGTTTACTCTTAACAGAGCATACCCAGAGCATACATTTAAGACACACATAT
Found at i:20179047 original size:31 final size:31
Alignment explanation
Indices: 20179012--20179073 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
20179002 ATATGTGGTA
* **
20179012 AGATGAGTATTATTTCCTTTATAGACATCTC
1 AGATGAGTACTATTTCCTCCATAGACATCTC
*
20179043 AGATGAGTACTGTTTCCTCCATAGACATCTC
1 AGATGAGTACTATTTCCTCCATAGACATCTC
20179074 TACCTTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (31 bp):
AGATGAGTACTATTTCCTCCATAGACATCTC
Found at i:20188861 original size:29 final size:29
Alignment explanation
Indices: 20188822--20188900 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
20188812 CTTAATAATC
*
20188822 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
20188852 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
20188881 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
20188901 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:20189886 original size:40 final size:40
Alignment explanation
Indices: 20189831--20189907 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
20189821 CTCATGAAAT
* * *
20189831 ATTTGATTATTCGTAAGAAATATGGCAAATTAACTATAAC
1 ATTTGATCATTCGTAAGAAAGATAGCAAATTAACTATAAC
*
20189871 ATTTGATCATTCGTAAGAAAGATAGCAATTTAACTAT
1 ATTTGATCATTCGTAAGAAAGATAGCAAATTAACTAT
20189908 CACAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (40 bp):
ATTTGATCATTCGTAAGAAAGATAGCAAATTAACTATAAC
Found at i:20194638 original size:13 final size:13
Alignment explanation
Indices: 20194620--20194644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20194610 TTCTTGTAAA
20194620 CATTTCACACAAC
1 CATTTCACACAAC
20194633 CATTTCACACAA
1 CATTTCACACAA
20194645 GATTTCCAAG
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:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (13 bp):
CATTTCACACAAC
Found at i:20197603 original size:86 final size:86
Alignment explanation
Indices: 20197504--20197675 Score: 317
Period size: 86 Copynumber: 2.0 Consensus size: 86
20197494 TAAAATTTAT
* * *
20197504 TTATTAATTATGCCATTAAATATTCGTGTTAAAATTTTATATTTGTATCAATTTCACATTTTATC
1 TTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTATC
20197569 TTTAAAATAACTTTTATTAAA
66 TTTAAAATAACTTTTATTAAA
20197590 TTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTATC
1 TTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTATC
20197655 TTTAAAATAACTTTTATTAAA
66 TTTAAAATAACTTTTATTAAA
20197676 AAATCACATT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (86 bp):
TTATTAATTATGCCATAAAATATTCGTGTTAAAATTTTATATTGGTATAAATTTCACATTTTATC
TTTAAAATAACTTTTATTAAA
Found at i:20201926 original size:19 final size:19
Alignment explanation
Indices: 20201904--20201950 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
20201894 AAAAAATAGT
***
20201904 ATTTATTTTAAAACTTTAA
1 ATTTATTTTAAAACACGAA
*
20201923 ATTTCTTTTAAAACACGAA
1 ATTTATTTTAAAACACGAA
20201942 ATTTATTTT
1 ATTTATTTT
20201951 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTATTTTAAAACACGAA
Found at i:20204107 original size:23 final size:23
Alignment explanation
Indices: 20204065--20204108 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20204055 CATATATGTC
* **
20204065 AACGTGTACCCTACTTTAGGTTT
1 AACGCGTACCCTACCATAGGTTT
20204088 AACGCGTACCCTACCATAGGT
1 AACGCGTACCCTACCATAGGT
20204109 GAACCCACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (23 bp):
AACGCGTACCCTACCATAGGTTT
Found at i:20207231 original size:131 final size:130
Alignment explanation
Indices: 20207077--20207464 Score: 460
Period size: 131 Copynumber: 3.0 Consensus size: 130
20207067 TAACTCCGAT
** * *
20207077 AAATCGAATGAA-TATAGGTTGCGATCTTAAATCAGCTAATTTTAACAATATTAGATGTGATCTT
1 AAATCGAATGAACT-TAGGTTGCGATCTTAAATCAGCTAACCTTAATAATATCAGATGTGATCTT
* * ** *
20207141 AAATCAACTAGCTGTTTGGAGTTACGATATTAAATCAGAAAATTCAAATAAAATTGTTCATGATC
65 AAAT-AACTAGTTGTTTGGAGTTGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATC
20207206 TA
129 TA
* * *
20207208 AAATCGAATGAACTTAGGTTGCGAT-TTGAAATCAGCAAACCTTAATAATATCAGTTGCGATCTT
1 AAATCGAATGAACTTAGGTTGCGATCTT-AAATCAGCTAACCTTAATAATATCAGATGTGATCTT
* * * * * * * *
20207272 AAATTAGTGAATTGTTCGGAGTTGTGATATTGAATTAGCTAACTCAAATAGAATTGTTCATGATC
65 AAATAACT-AGTTGTTTGGAGTTGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATC
20207337 TA
129 TA
*
20207339 AAATCGAATGAACTTAGATTGCGATCTTAAATCAG-TGAACCTTAATAATATCA-ATTGTGATCT
1 AAATCGAATGAACTTAGGTTGCGATCTTAAATCAGCT-AACCTTAATAATATCAGA-TGTGATCT
* * * *
20207402 TAAATTAGCAAGTTTTTTGGAGTTGCGATCTTAAATCAGCTAACTCAAATAAAATTGTTCATG
64 TAAA-TAACTAGTTGTTTGGAGTTGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATG
20207465 TTAAATAAAG
Statistics
Matches: 214, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
130 4 0.02
131 206 0.96
132 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (130 bp):
AAATCGAATGAACTTAGGTTGCGATCTTAAATCAGCTAACCTTAATAATATCAGATGTGATCTTA
AATAACTAGTTGTTTGGAGTTGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATCTA
Found at i:20207255 original size:64 final size:65
Alignment explanation
Indices: 20207187--20207386 Score: 144
Period size: 64 Copynumber: 3.1 Consensus size: 65
20207177 AGAAAATTCA
20207187 AATAAAATTGTTCATGATCTAAAATCGAATGAACTTAGGTTGCGAT-TTGAAATCAGCAAACCTT
1 AATAAAATTGTTCATGATCTAAAATCGAATGAACTTAGGTTGCGATATTGAAATCAGCAAACCTT
* * * * * * * * * *
20207251 AATAATATCAGTTGC--GATCTTAAAT-TAGTGAATTGTTCGGAGTTGTGATATTG-AATTAGCT
1 AATAAAAT-TGTT-CATGATCTAAAATCGAATGAA--CTT-AG-GTTGCGATATTGAAATCAGCA
*
20207312 AA-CTCA
60 AACCT-T
* * * **
20207318 AATAGAATTGTTCATGATCTAAAATCGAATGAACTTAGATTGCGATCTT-AAATCAGTGAACCTT
1 AATAAAATTGTTCATGATCTAAAATCGAATGAACTTAGGTTGCGATATTGAAATCAGCAAACCTT
20207382 AATAA
1 AATAA
20207387 TATCAATTGT
Statistics
Matches: 96, Mismatches: 27, Indels: 26
0.64 0.18 0.17
Matches are distributed among these distances:
63 5 0.05
64 35 0.36
65 9 0.09
66 9 0.09
67 30 0.31
68 8 0.08
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.34
Consensus pattern (65 bp):
AATAAAATTGTTCATGATCTAAAATCGAATGAACTTAGGTTGCGATATTGAAATCAGCAAACCTT
Found at i:20209323 original size:59 final size:59
Alignment explanation
Indices: 20209231--20209402 Score: 344
Period size: 59 Copynumber: 2.9 Consensus size: 59
20209221 GATAAAGTTG
20209231 GTGCCAACACCCAAAAATAACTATTTTTTAAATATTATAATGTGGTGCCGGCCATCAGT
1 GTGCCAACACCCAAAAATAACTATTTTTTAAATATTATAATGTGGTGCCGGCCATCAGT
20209290 GTGCCAACACCCAAAAATAACTATTTTTTAAATATTATAATGTGGTGCCGGCCATCAGT
1 GTGCCAACACCCAAAAATAACTATTTTTTAAATATTATAATGTGGTGCCGGCCATCAGT
20209349 GTGCCAACACCCAAAAATAACTATTTTTTAAATATTATAATGTGGTGCCGGCCA
1 GTGCCAACACCCAAAAATAACTATTTTTTAAATATTATAATGTGGTGCCGGCCA
20209403 CTTATCTCCC
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 113 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30
Consensus pattern (59 bp):
GTGCCAACACCCAAAAATAACTATTTTTTAAATATTATAATGTGGTGCCGGCCATCAGT
Found at i:20216504 original size:47 final size:47
Alignment explanation
Indices: 20216451--20216622 Score: 190
Period size: 47 Copynumber: 3.7 Consensus size: 47
20216441 AGATTTTTGA
*
20216451 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * * *
20216498 GCATCCGAGCTCATTGAGTTGAGTCCAAGTTCACTTATGGATG---CGA-
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAG
* * * *
20216544 TCGTCCGAACTCTTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
20216591 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
20216623 ACTTATGGAT
Statistics
Matches: 99, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 3 0.03
45 2 0.02
46 29 0.29
47 59 0.60
48 2 0.02
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20216568 original size:46 final size:46
Alignment explanation
Indices: 20216501--20216654 Score: 141
Period size: 46 Copynumber: 3.3 Consensus size: 46
20216491 TAACTAGGCA
* * * *
20216501 TCCGAGCTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCGATCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * * * * *
20216547 TCCGAACTCTTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACG
20216594 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
20216640 CCCGAGCTCGTTGAG
1 TCCGAACTCGTTGAG
20216655 CATGTATGGC
Statistics
Matches: 83, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
45 1 0.01
46 46 0.55
47 35 0.42
48 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:20216613 original size:93 final size:93
Alignment explanation
Indices: 20216454--20216654 Score: 321
Period size: 93 Copynumber: 2.2 Consensus size: 93
20216444 TTTTTGAGCA
* * *
20216454 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCATTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCATTGAGTTG
*
20216519 AGTCCAAGTTCACTTATGGATGCGATCG
66 AGTCCAAGTTCACTTATGGATGCGAACG
* *
20216547 TCCGAACTCTTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCATTGAGTTG
*
20216612 AGTCCGAGTTCACTTATGGATGCGAACG
66 AGTCCAAGTTCACTTATGGATGCGAACG
* *
20216640 CCCGAGCTCGTTGAG
1 TCCGAACTCGTTGAG
20216655 CATGTATGGC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 98 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCATTGAGTTG
AGTCCAAGTTCACTTATGGATGCGAACG
Found at i:20219251 original size:18 final size:19
Alignment explanation
Indices: 20219216--20219257 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
20219206 AATTAAAGTT
**
20219216 ATTTTTATATATTTTTAAA
1 ATTTTTATATATAATTAAA
*
20219235 ATTTTT-TATATAATTAAT
1 ATTTTTATATATAATTAAA
20219253 ATTTT
1 ATTTT
20219258 ATCAATTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTATATATAATTAAA
Found at i:20222711 original size:37 final size:37
Alignment explanation
Indices: 20222670--20222748 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
20222660 TAAACATTAT
*
20222670 GACATGTTGACAATCAACTCTGTTACAGCTCAAGCAC
1 GACATGTTGACAATCAACTATGTTACAGCTCAAGCAC
*
20222707 GACATGTTGACAATCAACTATGTTACAGCTCAAGTAC
1 GACATGTTGACAATCAACTATGTTACAGCTCAAGCAC
20222744 GACAT
1 GACAT
20222749 ATCTGGAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (37 bp):
GACATGTTGACAATCAACTATGTTACAGCTCAAGCAC
Found at i:20239331 original size:3 final size:3
Alignment explanation
Indices: 20239325--20239381 Score: 89
Period size: 3 Copynumber: 19.0 Consensus size: 3
20239315 ACCCATCGTC
*
20239325 CTT CTT CTT CGT CATT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
20239371 C-T CTT CTT CTT
1 CTT CTT CTT CTT
20239382 AATTATCAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.92
4 2 0.04
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:20242672 original size:46 final size:46
Alignment explanation
Indices: 20242604--20242887 Score: 291
Period size: 46 Copynumber: 6.0 Consensus size: 46
20242594 AGTGTGCTCT
* **
20242604 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
20242650 CTGATATGAAATGAATAGGACCATGGTTGAGAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
20242696 ATGACGGGAAATGAATAAGACCATGGTTGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAAT---A--A-----GACCATGGTTGAAAGATACCATGGCAAC
* ** *
20242752 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
20242798 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
20242844 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
20242888 TCATGTCAAA
Statistics
Matches: 207, Mismatches: 20, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
45 1 0.00
46 160 0.77
49 1 0.00
51 1 0.00
53 1 0.00
56 43 0.21
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.20
Consensus pattern (46 bp):
CTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:20242721 original size:30 final size:30
Alignment explanation
Indices: 20242685--20242777 Score: 83
Period size: 30 Copynumber: 3.2 Consensus size: 30
20242675 GTTGAGAGAT
20242685 ACCATGGCAACATGACGGGAAATGAATAAG
1 ACCATGGCAACATGACGGGAAATGAATAAG
* * *
20242715 ACCATGGTTGACCATG--GTTGAAA-G-AT---
1 ACCATGG--CAACATGACG-GGAAATGAATAAG
20242741 ACCATGGCAACATGACGGGAAATGAATAAG
1 ACCATGGCAACATGACGGGAAATGAATAAG
20242771 ACCATGG
1 ACCATGG
20242778 TTGAAAGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 20
0.64 0.08 0.27
Matches are distributed among these distances:
24 5 0.11
25 4 0.09
26 9 0.19
27 2 0.04
29 2 0.04
30 16 0.34
31 4 0.09
32 5 0.11
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (30 bp):
ACCATGGCAACATGACGGGAAATGAATAAG
Found at i:20242741 original size:56 final size:56
Alignment explanation
Indices: 20242668--20242781 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
20242658 AAATGAATAG
*
20242668 GACCATGGTTGAGAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTT
1 GACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTT
20242724 GACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTT
1 GACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTT
20242780 GA
1 GA
20242782 AAGATACCAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (56 bp):
GACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTT
Found at i:20242809 original size:102 final size:102
Alignment explanation
Indices: 20242622--20242827 Score: 322
Period size: 102 Copynumber: 2.0 Consensus size: 102
20242612 AAATGTGTAA
* * * * *
20242622 GACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAGGACCATGGTTGAGAGATAC
1 GACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATAC
*
20242687 CATGGCAACATGACGGGAAATGAATAAGACCATGGTT
66 CATGGCAACATGACAGGAAATGAATAAGACCATGGTT
*
20242724 GACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGATAC
1 GACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATAC
* * *
20242789 CATGGCAGCGTGACATGAAATGAATAAGACCATGGTT
66 CATGGCAACATGACAGGAAATGAATAAGACCATGGTT
20242826 GA
1 GA
20242828 AAGATACCAT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 94 1.00
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.20
Consensus pattern (102 bp):
GACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAGATAC
CATGGCAACATGACAGGAAATGAATAAGACCATGGTT
Found at i:20258639 original size:897 final size:897
Alignment explanation
Indices: 20256904--20258701 Score: 3470
Period size: 897 Copynumber: 2.0 Consensus size: 897
20256894 TTTTGTTGAA
20256904 AGCTGGACTGCAATGCAACATGGAGCCAGAAGCTTGCTACTGTCGAGACCAGCAGCTATCGAGCT
1 AGCTGGACTGCAATGCAACATGGAGCCAGAAGCTTGCTACTGTCGAGACCAGCAGCTATCGAGCT
* *
20256969 CAGCTCATTTTGCTTGGTGCGCACGGATGGTTTTTGAACCGAATGAAGCAACCAATTTTACTGTT
66 CAGCTCATTTTGCTTGGTGCGCACGAATGGTTTTTGAACCGAATGAAGCAACCAACTTTACTGTT
20257034 TTGTTCTGATGTAATTTGGTTCGGTTCAATTTTAGTTTGTTTGTAATACTAGTTAAACTTAAGTT
131 TTGTTCTGATGTAATTTGGTTCGGTTCAATTTTAGTTTGTTTGTAATACTAGTTAAACTTAAGTT
20257099 AGTGATAAGATCTTTTGATGTAATGGCTGATTGGTCAGCTATATTTGATTATTTTTTGCTAGTGA
196 AGTGATAAGATCTTTTGATGTAATGGCTGATTGGTCAGCTATATTTGATTATTTTTTGCTAGTGA
20257164 TTAGGTTTGTATTAGTTGGGACAGTTAAATACATTAGGTAACTGTCAATGTACATTGTAACTCTT
261 TTAGGTTTGTATTAGTTGGGACAGTTAAATACATTAGGTAACTGTCAATGTACATTGTAACTCTT
* *
20257229 TTATATTTCAAATTTGAATGAGAAATGATGGATGTTCAGTTACAACTTTGCTGAGTATTCAATTT
326 TTATATTTCAAATTTGAATGAAAAATGATGAATGTTCAGTTACAACTTTGCTGAGTATTCAATTT
20257294 TGATCAAATTTTTGCTTTGCTTTGCTCTTTCTTTGCTTCGATTCTTCTTGCTTCAGTCTTGCAAA
391 TGATCAAATTTTTGCTTTGCTTTGCTCTTTCTTTGCTTCGATTCTTCTTGCTTCAGTCTTGCAAA
20257359 CACTGTGTTGTAACTTTGTTTGATGTTTGCTGCTGCCATTGTTCCAACAAATGGTATCATGAGCC
456 CACTGTGTTGTAACTTTGTTTGATGTTTGCTGCTGCCATTGTTCCAACAAATGGTATCATGAGCC
20257424 CGAGTCTTTGAGGGGCCTTTGTATGCAATCTGTTGTGTTCGAATCAAAACCAACAGCAAGTTCAA
521 CGAGTCTTTGAGGGGCCTTTGTATGCAATCTGTTGTGTTCGAATCAAAACCAACAGCAAGTTCAA
** *
20257489 AATTTGGTAAGATTGAAGCAATTAAAATCAGTTTAGCAGAATGAGTTTCACTCCACCACCTCCAC
586 AATTTGGTAAGATCAAAGCAATTAAAATCAGTCTAGCAGAATGAGTTTCACTCCACCACCTCCAC
20257554 CAGTGTTCACTGGAGAAAACTATCACATTTGGATAGTTAAAATGAAGACTTATCTCCAGGCACAT
651 CAGTGTTCACTGGAGAAAACTATCACATTTGGATAGTTAAAATGAAGACTTATCTCCAGGCACAT
20257619 GATCTTTGGAGTGTGATCGAGAATGATGCTGAACCACCTCCATTGAGAGCCAATCCCACCATTGC
716 GATCTTTGGAGTGTGATCGAGAATGATGCTGAACCACCTCCATTGAGAGCCAATCCCACCATTGC
20257684 ACAGATGAGGCAACATACTGAGGAGCGAGCCAAGAAGCATAAGGCTATGGCCTGCTTGCAAAATG
781 ACAGATGAGGCAACATACTGAGGAGCGAGCCAAGAAGCATAAGGCTATGGCCTGCTTGCAAAATG
20257749 GAGTCTCTGATGTGATATTTACTCGCATCATGGCCTGTGACTCACCAAAGCG
846 GAGTCTCTGATGTGATATTTACTCGCATCATGGCCTGTGACTCACCAAAGCG
20257801 AGCTGGACTGCAATGCAACATGGAGCCAGAAGCTTGCTACTGTCGAGACCAGCAGCTATCGAGCT
1 AGCTGGACTGCAATGCAACATGGAGCCAGAAGCTTGCTACTGTCGAGACCAGCAGCTATCGAGCT
*
20257866 CAGCTCATTTTGCTTGGTGCGCACGAATGGTTTTTGAACCGAATGAAGCAACCAACTTTGCTGTT
66 CAGCTCATTTTGCTTGGTGCGCACGAATGGTTTTTGAACCGAATGAAGCAACCAACTTTACTGTT
*
20257931 TTGTTTTGATGTAATTTGGTTCGGTTCAATTTTAGTTTGTTTGTAATACTAGTTAAACTTAAGTT
131 TTGTTCTGATGTAATTTGGTTCGGTTCAATTTTAGTTTGTTTGTAATACTAGTTAAACTTAAGTT
20257996 AGTGATAAGATCTTTTGATGTAATGGCTGATTGGTCAGCTATATTTGATTATTTTTTGCTAGTGA
196 AGTGATAAGATCTTTTGATGTAATGGCTGATTGGTCAGCTATATTTGATTATTTTTTGCTAGTGA
*
20258061 TTAGGTTTGTATTAGTTGGGGCAGTTAAATACATTAGGTAACTGTCAATGTACATTGTAACTCTT
261 TTAGGTTTGTATTAGTTGGGACAGTTAAATACATTAGGTAACTGTCAATGTACATTGTAACTCTT
20258126 TTATATTTCAAATTTGAATGAAAAATGATGAATGTTCAGTTACAACTTTGCTGAGTATTCAATTT
326 TTATATTTCAAATTTGAATGAAAAATGATGAATGTTCAGTTACAACTTTGCTGAGTATTCAATTT
20258191 TGATCAAATTTTTGCTTTGCTTTGCTCTTTCTTTGCTTCGATTCTTCTTGCTTCAGTCTTGCAAA
391 TGATCAAATTTTTGCTTTGCTTTGCTCTTTCTTTGCTTCGATTCTTCTTGCTTCAGTCTTGCAAA
20258256 CACTGTGTTGTAACTTTGTTTGATGTTTGCTGCTGCCATTGTTCCAACAAATGGTATCATGAGCC
456 CACTGTGTTGTAACTTTGTTTGATGTTTGCTGCTGCCATTGTTCCAACAAATGGTATCATGAGCC
20258321 CGAGTCTTTGAGGGGCCTTTGTATGCAATCTGTTGTGTTCGAATCAAAACCAACAGCAAGTTCAA
521 CGAGTCTTTGAGGGGCCTTTGTATGCAATCTGTTGTGTTCGAATCAAAACCAACAGCAAGTTCAA
* ** *
20258386 AATTTGGTAAGATCAAAGCATTTGGATTCAGTCTAGCAGAATGAGTTTCACTCCACCACCTCCAC
586 AATTTGGTAAGATCAAAGCAATTAAAATCAGTCTAGCAGAATGAGTTTCACTCCACCACCTCCAC
20258451 CAGTGTTCACTGGAGAAAACTATCACATTTGGATAGTTAAAATGAAGACTTATCTCCAGGCACAT
651 CAGTGTTCACTGGAGAAAACTATCACATTTGGATAGTTAAAATGAAGACTTATCTCCAGGCACAT
20258516 GATCTTTGGAGTGTGATCGAGAATGATGCTGAACCACCTCCATTGAGAGCCAATCCCACCATTGC
716 GATCTTTGGAGTGTGATCGAGAATGATGCTGAACCACCTCCATTGAGAGCCAATCCCACCATTGC
20258581 ACAGATGAGGCAACATACTGAGGAGCGAGCCAAGAAGCATAAGGCTATGGCCTGCTTGCAAAATG
781 ACAGATGAGGCAACATACTGAGGAGCGAGCCAAGAAGCATAAGGCTATGGCCTGCTTGCAAAATG
20258646 GAGTCTCTGATGTGATATTTACTCGCATCATGGCCTGTGACTCACCAAAGCG
846 GAGTCTCTGATGTGATATTTACTCGCATCATGGCCTGTGACTCACCAAAGCG
20258698 AGCT
1 AGCT
20258702 TGGGAGAAGC
Statistics
Matches: 887, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
897 887 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (897 bp):
AGCTGGACTGCAATGCAACATGGAGCCAGAAGCTTGCTACTGTCGAGACCAGCAGCTATCGAGCT
CAGCTCATTTTGCTTGGTGCGCACGAATGGTTTTTGAACCGAATGAAGCAACCAACTTTACTGTT
TTGTTCTGATGTAATTTGGTTCGGTTCAATTTTAGTTTGTTTGTAATACTAGTTAAACTTAAGTT
AGTGATAAGATCTTTTGATGTAATGGCTGATTGGTCAGCTATATTTGATTATTTTTTGCTAGTGA
TTAGGTTTGTATTAGTTGGGACAGTTAAATACATTAGGTAACTGTCAATGTACATTGTAACTCTT
TTATATTTCAAATTTGAATGAAAAATGATGAATGTTCAGTTACAACTTTGCTGAGTATTCAATTT
TGATCAAATTTTTGCTTTGCTTTGCTCTTTCTTTGCTTCGATTCTTCTTGCTTCAGTCTTGCAAA
CACTGTGTTGTAACTTTGTTTGATGTTTGCTGCTGCCATTGTTCCAACAAATGGTATCATGAGCC
CGAGTCTTTGAGGGGCCTTTGTATGCAATCTGTTGTGTTCGAATCAAAACCAACAGCAAGTTCAA
AATTTGGTAAGATCAAAGCAATTAAAATCAGTCTAGCAGAATGAGTTTCACTCCACCACCTCCAC
CAGTGTTCACTGGAGAAAACTATCACATTTGGATAGTTAAAATGAAGACTTATCTCCAGGCACAT
GATCTTTGGAGTGTGATCGAGAATGATGCTGAACCACCTCCATTGAGAGCCAATCCCACCATTGC
ACAGATGAGGCAACATACTGAGGAGCGAGCCAAGAAGCATAAGGCTATGGCCTGCTTGCAAAATG
GAGTCTCTGATGTGATATTTACTCGCATCATGGCCTGTGACTCACCAAAGCG
Found at i:20269435 original size:6 final size:6
Alignment explanation
Indices: 20269424--20269456 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
20269414 ACCTTAAACA
20269424 AGTGTG AGTGTG AGTGTG AGTGTG AGTGTG AGT
1 AGTGTG AGTGTG AGTGTG AGTGTG AGTGTG AGT
20269457 AAAAGCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.33
Consensus pattern (6 bp):
AGTGTG
Found at i:20269978 original size:6 final size:6
Alignment explanation
Indices: 20269969--20269993 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20269959 CCATCATACT
20269969 ACTCCA ACTCCA ACTCCA ACTCCA A
1 ACTCCA ACTCCA ACTCCA ACTCCA A
20269994 ACCCATCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (6 bp):
ACTCCA
Found at i:20289402 original size:77 final size:77
Alignment explanation
Indices: 20289301--20290523 Score: 1424
Period size: 77 Copynumber: 15.4 Consensus size: 77
20289291 TGATGTTTTA
* *
20289301 TTTC-AAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
20289365 ATTTTTTGTATG
66 ATTTTTTGTATG
20289377 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
20289442 ATTTTTTGTATG
66 ATTTTTTGTATG
20289454 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
20289519 ATTTTTTGTATG
66 ATTTTTTGTATG
20289531 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
20289596 ATTTTTTGTATG
66 ATTTTTTGTATG
20289608 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
20289673 ATTTTTTGTATG
66 ATTTTTTGTATG
20289685 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
20289750 ATTTTTTGTATG
66 ATTTTTTGTATG
* *
20289762 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
*
20289827 A-TTTCTGT-TG
66 ATTTTTTGTATG
* * *
20289837 --TCAAAAAAATCAACTCGTATTGCGAGAGGTGAGGTGAGTTGAGCCTCGGGACACGTTGAGGTA
1 TTTC-AAAAAATCAACTCATATTGC--GA---GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
*
20289900 TTGTCAATTTTTCGTATG
60 TTGTCAATTTTTTGTATG
*
20289918 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
*
20289983 A-TTTCTGT-TG
66 ATTTTTTGTATG
* * * *
20289993 --TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTG
*
20290056 TCAATTTCCATTTTTCAATTTCTG
63 TCAATTT---TTTGT--A----TG
20290080 CCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
1 --TTTC-A--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
* *
20290145 TTTCAA--TTTT-AAT-
61 TGTCAATTTTTTGTATG
** * * *
20290158 TTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTG
* *
20290223 TAAATTTCCATTTTTCAATTTCTG
63 TCAATTT---TTTGT--A----TG
20290247 CCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
1 --TTTC-A--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-A
**
20290312 TT-TCAA---TTTCAAT-
60 TTGTCAATTTTTTGTATG
** * * *
20290325 TTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTG
* *
20290390 TAAATTTCCATTTTTCAATTTCTG
63 TCAATTT---TTTGT--A----TG
20290414 CCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
1 --TTTC-A--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
* *
20290479 TTTCAA-TTTCTGT-TG
61 TGTCAATTTTTTGTATG
*** *
20290494 TCAAAAAAAATCAACTCGTATTGCGAGAGG
1 TTTCAAAAAATCAACTCATATTGCGAGAGG
20290524 ACACGCTGAG
Statistics
Matches: 1018, Mismatches: 58, Indels: 143
0.84 0.05 0.12
Matches are distributed among these distances:
73 4 0.00
74 133 0.13
75 31 0.03
76 82 0.08
77 482 0.47
78 2 0.00
79 38 0.04
80 12 0.01
81 5 0.00
82 22 0.02
83 4 0.00
84 2 0.00
85 3 0.00
86 3 0.00
87 5 0.00
88 2 0.00
89 1 0.00
90 2 0.00
91 69 0.07
92 3 0.00
93 113 0.11
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (77 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCA
ATTTTTTGTATG
Found at i:20290182 original size:167 final size:167
Alignment explanation
Indices: 20289766--20290523 Score: 1154
Period size: 167 Copynumber: 4.6 Consensus size: 167
20289756 TGTATGTTTC
*
20289766 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* * *
20289831 CTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGGTGAGTTGAGCCTC-GG-GACACGTT
66 CTGTTGTCAAAAAAATCAACTCGTATTGC--GA---GAGGCGAGTTGAGCCTCAGGTCACACGCT
* * * *
20289894 GAGGTA---T---TGTCAATTTTTC---GTATG--TTTC---
126 GAGGTATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAA
20289922 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
20289987 CTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
66 CTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGT
*
20290052 ATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAA
131 ATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAA
20290089 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* * * *
20290154 -TAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGG
66 CT-GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGG
20290218 TATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAA
130 TATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAA
*
20290256 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
** * * *
20290321 CAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGT
66 CTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGT
20290386 ATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAA
131 ATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAA
20290423 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
20290488 CTGTTGTCAAAAAAAATCAACTCGTATTGCGAGAGG
66 CTGTTGTC-AAAAAAATCAACTCGTATTGCGAGAGG
20290524 ACACGCTGAG
Statistics
Matches: 560, Mismatches: 23, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
151 16 0.03
152 2 0.00
153 11 0.02
154 2 0.00
156 94 0.17
159 10 0.02
162 3 0.01
164 4 0.01
166 1 0.00
167 392 0.70
168 25 0.04
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (167 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
CTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGT
ATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAA
Found at i:20290194 original size:74 final size:75
Alignment explanation
Indices: 20290088--20290229 Score: 223
Period size: 74 Copynumber: 1.9 Consensus size: 75
20290078 TGCCTTTCAA
* *
20290088 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTAAAT
20290152 TTTAATTTTC
66 TTTAATTTTC
** *
20290162 AAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTAAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCTGAGGTATTTTAAA
20290227 TTT
65 TTT
20290230 CCATTTTTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 39 0.64
76 22 0.36
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTAAAT
TTTAATTTTC
Found at i:20290236 original size:76 final size:74
Alignment explanation
Indices: 20290088--20290403 Score: 217
Period size: 74 Copynumber: 4.0 Consensus size: 74
20290078 TGCCTTTCAA
* *
20290088 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATT
*
20290153 TTAATTTTC
66 TCAATTTTC
** *
20290162 AAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTAAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTAAA
*
20290227 TTTCCATTTTTC
64 TTT-CAATTTTC
* * * * *
20290239 AATTTCTGCCTTTCAAAAA-AAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 AA------------AAAAATCAACTCATATTGCGAGA--G-G-C----GAGTTGAGCCTCAGGAC
* *
20290300 ACGCTGAGGTAATTTCAATTTCAATTTTC
46 ACGCTGAGGTATTTTAAATTTCAATTTTC
** *
20290329 AAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTAAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTAAA
*
20290394 TTTCCATTTT
64 TTTCAATTTT
20290404 TCAATTTCTG
Statistics
Matches: 184, Mismatches: 29, Indels: 56
0.68 0.11 0.21
Matches are distributed among these distances:
74 54 0.29
76 49 0.27
77 8 0.04
78 5 0.03
79 4 0.02
80 3 0.02
81 1 0.01
82 1 0.01
85 1 0.01
86 1 0.01
87 3 0.02
88 4 0.02
89 5 0.03
90 9 0.05
91 21 0.11
93 15 0.08
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (74 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATT
TCAATTTTC
Found at i:20290351 original size:334 final size:318
Alignment explanation
Indices: 20289458--20290523 Score: 1382
Period size: 334 Copynumber: 3.3 Consensus size: 318
20289448 TGTATGTTTC
*
20289458 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA-TT
* * *
20289523 TTTGTATGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGA
65 TCTGT-TG--TCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTC-GGCACACGCTGA
*
20289586 GGTATTGTCAATTTTTTGTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
126 GGTATTGTCAATTTTTCGTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
** * *
20289651 AGGACACGCTGAGGT-ATTGTCAATTTTTTGTATGTTTC-AAAAAATCAACTCATATTGCGAGAG
191 AGGACACGCTGAGGTAATT-TCAA---TTTCAAT-TGTCAAAAAAATCAACTCGTATTGCGAGAG
* * * * *
20289714 GTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTGTCAATTT---TTTGT--A----TG--TTTC
251 GCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTAAATTTCCATTTTTCAATTTCTGCCTTTC
20289766 ---
316 AAA
*
20289766 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* * *
20289831 CTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGGTGAGTTGAGCCTCGGGACACGTTGA
66 CTGTTGTCAAAAAAATCAACTCGTATTGC--GA---GAGGCGAGTTGAGCCTCGGCACACGCTGA
20289896 GGTATTGTCAATTTTTCGTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
126 GGTATTGTCAATTTTTCGTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* **
20289961 AGGACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAG
191 AGGACACGCTGAGGTAATTTCAATTTCAATTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAG
*
20290026 TTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAA
256 TTGAGCCTCAGGTCACACGCCGAGGTATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAA
20290089 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* * * *
20290154 -TAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGG
66 CT-GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTC-GG-CACACGCTGAGG
* * * *
20290218 TATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGT
128 TA---T---TGTCAATTTTTC---GTATG--TTTC---AAAAAATCAACTCATATTGCGAGAGGT
* *
20290283 GAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCAATTTTCAAAAAAATCAACTTGTATT
179 GAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCAATTGTCAAAAAAATCAACTCGTATT
* *
20290348 GCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTAAATTTCCATTTTTCAATTTCT
244 GCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTAAATTTCCATTTTTCAATTTCT
20290413 GCCTTTCAAA
309 GCCTTTCAAA
20290423 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
20290488 CTGTTGTCAAAAAAAATCAACTCGTATTGCGAGAGG
66 CTGTTGTC-AAAAAAATCAACTCGTATTGCGAGAGG
20290524 ACACGCTGAG
Statistics
Matches: 675, Mismatches: 39, Indels: 61
0.87 0.05 0.08
Matches are distributed among these distances:
304 2 0.00
305 19 0.03
306 5 0.01
307 53 0.08
308 60 0.09
309 23 0.03
310 108 0.16
311 2 0.00
312 4 0.01
314 1 0.00
318 17 0.03
319 2 0.00
320 16 0.02
321 2 0.00
322 1 0.00
323 89 0.13
326 10 0.01
329 3 0.00
331 4 0.01
334 228 0.34
335 26 0.04
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (318 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
CTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGCACACGCTGAGGTAT
TGTCAATTTTTCGTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTTCAATTTCAATTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAG
CCTCAGGTCACACGCCGAGGTATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAA
Found at i:20290533 original size:59 final size:58
Alignment explanation
Indices: 20290462--20290578 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 58
20290452 GTTGAGCCTC
* *
20290462 AGGACACGCTGAGGTATTTTCAATTTCT-GTTGTCAAAAAAAATCAACTCGTATTGCGAG
1 AGGACACGCTGAGGTAATTTCAATTT-TAATTGTC-AAAAAAATCAACTCGTATTGCGAG
* *
20290521 AGGACACGCTGAGGTAATTTCAATTTTAATTTTCAAAAAAATCAACTTGTATTGCGAG
1 AGGACACGCTGAGGTAATTTCAATTTTAATTGTCAAAAAAATCAACTCGTATTGCGAG
20290579 CGGCGAGTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 24 0.45
59 29 0.55
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (58 bp):
AGGACACGCTGAGGTAATTTCAATTTTAATTGTCAAAAAAATCAACTCGTATTGCGAG
Found at i:20290613 original size:560 final size:558
Alignment explanation
Indices: 20289535--20291079 Score: 2142
Period size: 560 Copynumber: 2.8 Consensus size: 558
20289525 TGTATGTTTC
*
20289535 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTGTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA--T
* ** * *
20289600 TTTGTATGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTG
64 TTT-AAT-TTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTG
* *
20289662 AGGTATTGTCAATTT-TTTGT--A----TG--TTTC---AAAAAATCAACTCATATTGCGAGAGG
127 AGGTATTTTCAATTTCTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGG
**
20289715 TGAGTTGAGCCTCAGGACACGCTGAGGT-ATTGTCAATTTTTTGTATGTTTC-AAAAAATCAACT
192 TGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCAA---TTTCAAT-TTTCAAAAAAATCAACT
** * * *
20289778 CATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACATGCTGAGG-----------T--A-TTTTCA
252 TGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTAAATTTCCATTTTTCA
* *
20289827 ATTTCTG--TTGTC--AAAAAAATCAACTCGTATTGCGAGAGGTGAGGTGAGTTGAGCCTCGGGA
317 ATTTCTGCCTT-TCAAAAAAAAATCAACTCATATTGC--GA---GAGGTGAGTTGAGCCTCAGGA
* * * *
20289888 CACGTTGAGGTATTGTCAATTTTTCGTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGT
376 CACGCTGAGGTATTTTCAATTTCT-GT-TG--TCAAAAAA--AA-TCA-ACT-C-----GT-A-T
*** * *
20289953 TGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGA
425 T--GCGAGAGGACACGCTGAGGTAATTTCAATTTCTATTGTCAAAAAAATCAACTCGTATTGCGA
20290018 GAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCT
488 GAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCT
20290083 TTCAAA
553 TTCAAA
20290089 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
20290154 TAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGT
66 TAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGT
*
20290219 ATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTG
131 ATTTTCAATTT-C-TTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTG
20290284 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCAATTTTCAAAAAAATCAACTTGTATTG
194 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCAATTTTCAAAAAAATCAACTTGTATTG
20290349 CGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTAAATTTCCATTTTTCAATTTCTG
259 CGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTAAATTTCCATTTTTCAATTTCTG
20290414 CCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
324 CCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
20290479 TTTCAATTTCTGTTGTCAAAAAAAATCAACTCGTATTGCGAGAGGACACGCTGAGGTAATTTCAA
389 TTTCAATTTCTGTTGTCAAAAAAAATCAACTCGTATTGCGAGAGGACACGCTGAGGTAATTTCAA
* * * * *
20290544 TTT-TAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCATACGCTG
454 TTTCT-ATTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCG
* *
20290608 AGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAA
518 AGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAA
*
20290649 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
20290714 TAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCATACGCTGAGGT
66 TAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGT
20290779 ATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTG
131 ATTTTCAA-TTTC-TTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTG
20290844 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCAATTTTCAAAAAAATCAACTTGTATTG
194 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCAATTTTCAAAAAAATCAACTTGTATTG
20290909 CGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTAAATTTCCATTTTTCAATTTCTG
259 CGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTAAATTTCCATTTTTCAATTTCTG
*
20290974 CCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
324 CCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
20291039 TTTCAATTTCTGTTGTC-AAAAAAATCAACTCGTATTGCGAG
389 TTTCAATTTCTGTTGTCAAAAAAAATCAACTCGTATTGCGAG
20291080 CGGCGAGTTG
Statistics
Matches: 911, Mismatches: 39, Indels: 77
0.89 0.04 0.07
Matches are distributed among these distances:
550 4 0.00
551 40 0.04
552 4 0.00
553 21 0.02
554 61 0.07
556 4 0.00
558 1 0.00
559 25 0.03
560 517 0.57
561 3 0.00
562 4 0.00
563 5 0.01
564 49 0.05
566 10 0.01
567 58 0.06
568 3 0.00
569 1 0.00
570 2 0.00
571 3 0.00
572 2 0.00
574 8 0.01
576 2 0.00
577 3 0.00
578 41 0.05
579 1 0.00
580 13 0.01
581 4 0.00
582 2 0.00
583 20 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (558 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
TAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGT
ATTTTCAATTTCTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
TTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCAATTTTCAAAAAAATCAACTTGTATTGCG
AGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTAAATTTCCATTTTTCAATTTCTGCC
TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
TCAATTTCTGTTGTCAAAAAAAATCAACTCGTATTGCGAGAGGACACGCTGAGGTAATTTCAATT
TCTATTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
TATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAA
Found at i:20290754 original size:74 final size:75
Alignment explanation
Indices: 20290648--20290790 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 75
20290638 TGCCTTTCAA
*
20290648 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCTGAGGTAATTTCAAT
20290712 TTTAATTTTC
66 TTTAATTTTC
** * * *
20290722 AAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCATACGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCTGAGGTAATTTCAA
20290787 TTTT
65 TTTT
20290791 CGTTTTTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 39 0.64
76 22 0.36
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCTGAGGTAATTTCAAT
TTTAATTTTC
Found at i:20290853 original size:393 final size:392
Alignment explanation
Indices: 20290128--20290912 Score: 1426
Period size: 393 Copynumber: 2.0 Consensus size: 392
20290118 GTTGAGCCTC
*
20290128 AGGACACGCTGAGGTATTTTCAATTTTAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAG
1 AGGACACGCTGAGGTAATTTCAATTTTAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAG
20290193 TTGAGCCTCAGGTCACACGCTGAGGTATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAAAA
66 TTGAGCCTCAGGTCACACGCTGAGGTATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAAAA
20290258 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCA
131 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCA
20290323 ATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
196 ATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
20290388 TTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
261 TTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
* **
20290453 TTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTGTCAAAAAAAATCAACTCGTATTGC
326 TTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCAATTGTC-AAAAAAATCAACTCGTATTGC
20290518 GAG
390 GAG
20290521 AGGACACGCTGAGGTAATTTCAATTTTAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAG
1 AGGACACGCTGAGGTAATTTCAATTTTAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAG
* * * *
20290586 TTGAGCCTCAGGTCATACGCTGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAAA
66 TTGAGCCTCAGGTCACACGCTGAGGTATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAAAA
*
20290651 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTA
131 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCA
*
20290716 ATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCATACGCTGAGGTAT
196 ATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
* * *
20290781 TTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
261 TTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
* *
20290846 TTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCAATTTTCAAAAAAATCAACTTGTATTGCG
326 TTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCAATTGTCAAAAAAATCAACTCGTATTGCG
20290911 AG
391 AG
20290913 CGGCGAGTTG
Statistics
Matches: 377, Mismatches: 15, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
392 23 0.06
393 354 0.94
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (392 bp):
AGGACACGCTGAGGTAATTTCAATTTTAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAG
TTGAGCCTCAGGTCACACGCTGAGGTATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAAAA
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCA
ATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTAT
TTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
TTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCAATTGTCAAAAAAATCAACTCGTATTGCG
AG
Found at i:20290921 original size:74 final size:75
Alignment explanation
Indices: 20290815--20290963 Score: 219
Period size: 74 Copynumber: 2.0 Consensus size: 75
20290805 TGCCTTTCAA
* *
20290815 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCTGAGGTAATTTAAAT
20290879 TTCAATTTTC
66 TTCAATTTTC
** * *
20290889 AAAAAAATCAACTTGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTAAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCTGAGGTAATTTAAA
*
20290954 TTTCCATTTT
65 TTTCAATTTT
20290964 TCAATTTCTG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 39 0.59
76 27 0.41
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCTGAGGTAATTTAAAT
TTCAATTTTC
Found at i:20291088 original size:74 final size:75
Alignment explanation
Indices: 20290982--20291123 Score: 223
Period size: 74 Copynumber: 1.9 Consensus size: 75
20290972 TGCCTTTCAA
* *
20290982 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
20291046 TTCTGTTGTC
66 TTCTGTTGTC
* * *
20291056 AAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAA
20291121 TTT
65 TTT
20291124 TCGTTTTTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 40 0.66
76 21 0.34
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:20291235 original size:166 final size:167
Alignment explanation
Indices: 20290521--20291692 Score: 1657
Period size: 167 Copynumber: 7.0 Consensus size: 167
20290511 GTATTGCGAG
*
20290521 AGGACACGCTGAGGTAATTTCAATTT-TAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGA
1 AGGACACGCTGAGGTAATTTCAATTTCT-ATTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGA
*
20290585 GTTGAGCCTCAGGTCATACGCTGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAA
65 GTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAA
20290650 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
130 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
20290688 AGGACACGCTGAGGTAATTTCAATTT-TAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGA
1 AGGACACGCTGAGGTAATTTCAATTTCT-ATTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGA
*
20290752 GTTGAGCCTCAGGTCATACGCTGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAA
65 GTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAA
20290817 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
130 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
20290855 AGGACACGCTGAGGTAATTTCAATTTCAATTTTCAAAAAAATCAACTTGTATTGCGAGCGGCGAG
1 AGGACACGCTGAGGTAATTTCAATTTCTATTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGAG
* * *
20290920 TTGAGCCTCAGGTCACACGCTGAGGTATTTTAAATTTCCATTTTTCAATTTCTGCCTTTCAAAAA
66 TTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAAA
20290985 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
131 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
20291022 AGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAG
1 AGGACACGCTGAGGTAATTTCAATTTCTATTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGAG
*
20291087 TTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTT-AAAAA
66 TTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAAA
*
20291151 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC
131 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * *
20291188 AGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGCGGCGAG
1 AGGACACGCTGAGGTAATTTCAATTTCTATTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGAG
*
20291253 TTGAGCCTCAGGTCATACGCTGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTC--AAA
66 TTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAAA
*
20291316 AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-
131 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * * * * * *
20291352 TGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGG
1 AGG---ACACGCTGAGGTAATTTCAATTTCTAT-TTTCAAAAAAATCAACTCGTATTGCGAGCGG
* * * * *
20291417 TGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCGTTTCA
62 CGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTC-
** * *
20291482 AAAAAAAAATTGACTCATATTACGATAGGTGAGTTGAGCCT-
126 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * * * * * *
20291523 TGGCTCACGCGCTGAGCTATTTTCAATTTCTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGG
1 AGG---ACACGCTGAGGTAATTTCAATTTCTAT-TTTCAAAAAAATCAACTCGTATTGCGAGCGG
* * * * *** * * ***
20291588 TGAGTTGAGCTTCAGATCACACACTGAGGTATTTCTTTTTTTTTC-TTCTTCAATTTATATTTTT
62 CGAGTTGAGCCTCAGGTCACACGCTGAGGTA-TT-TTCAATTTTCGTTTTTCAATTTCTGCCTTT
*
20291652 C----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTC
125 CAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
20291691 AG
1 AG
20291693 ATCACACACT
Statistics
Matches: 940, Mismatches: 53, Indels: 23
0.93 0.05 0.02
Matches are distributed among these distances:
164 2 0.00
165 37 0.04
166 162 0.17
167 500 0.53
168 88 0.09
171 128 0.14
172 17 0.02
173 6 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (167 bp):
AGGACACGCTGAGGTAATTTCAATTTCTATTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGAG
TTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAAA
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
Found at i:20291254 original size:74 final size:75
Alignment explanation
Indices: 20291148--20291289 Score: 223
Period size: 74 Copynumber: 1.9 Consensus size: 75
20291138 CTGCCTTTAA
*
20291148 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTAAGCCTCAGGCACACGCTGAGGTAATTTCAAT
20291212 TTCTGTTGTC
66 TTCTGTTGTC
* * * *
20291222 AAAAAAATCAACTCATATTGCGAGCGGCGAGTTGAGCCTCAGGTCATACGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTAAGCCTCAGG-CACACGCTGAGGTAATTTCAA
20291287 TTT
65 TTT
20291290 TCGTTTTTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 40 0.66
76 21 0.34
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTAAGCCTCAGGCACACGCTGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:20291365 original size:91 final size:90
Alignment explanation
Indices: 20291205--20291380 Score: 248
Period size: 91 Copynumber: 1.9 Consensus size: 90
20291195 GCTGAGGTAA
* *
20291205 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGCGGCGAGTTGAGCCTCAGGTCATA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
*
20291270 CGCTGAGGTATTTTCAATTTTCGTT
66 CGCTGAGCTATTTTCAATTTTCGTT
* * *
20291295 TTTCAATTTCTGCCTT-TCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTC
1 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TC
*
20291358 ACGCGCTGAGCTATTTTCAATTT
63 ACACGCTGAGCTATTTTCAATTT
20291381 CTGTCTTTCA
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
90 14 0.18
91 60 0.79
92 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (90 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACA
CGCTGAGCTATTTTCAATTTTCGTT
Found at i:20291421 original size:77 final size:77
Alignment explanation
Indices: 20291294--20291468 Score: 260
Period size: 77 Copynumber: 2.3 Consensus size: 77
20291284 CAATTTTCGT
* * ** *
20291294 TTTTCAATTTCTGCCTTTCAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
* *
20291359 CGCGCTGAGCTA
66 CACGCCGAGCTA
20291371 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
20291436 CACGCCGAGGTA
66 CACGCCGAGCTA
* *
20291448 TTTTCAATTTCCGTTTTTCAA
1 TTTTCAATTTCTGTCTTTCAA
20291469 TTTCTGCGTT
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 88 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
CACGCCGAGCTA
Found at i:20291562 original size:94 final size:94
Alignment explanation
Indices: 20291371--20291552 Score: 237
Period size: 94 Copynumber: 2.0 Consensus size: 94
20291361 CGCTGAGCTA
*
20291371 TTTTCAATTTCTGTC-TTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTTTCAATTTCTG-CGTTTCAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG
*
20291432 ATCACACGCCGAGGTATTTTCAATTTCCGT
65 ATCACACGCCGAGCTATTTTCAATTTCCGT
** * ** *
20291462 TTTTCAATTTCTGCGTTTCAAAAAAAAAATTGACTCATATTACGATAGGTGAGTTGAGCCTTGGC
1 TTTTCAATTTCTGCGTTTCAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGA
* *
20291527 TCACGCGCTGAGCTATTTTCAATTTC
66 TCACACGCCGAGCTATTTTCAATTTC
20291553 TTTCTTTCAA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
90 1 0.01
91 17 0.22
94 59 0.77
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (94 bp):
TTTTCAATTTCTGCGTTTCAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGA
TCACACGCCGAGCTATTTTCAATTTCCGT
Found at i:20291699 original size:90 final size:90
Alignment explanation
Indices: 20291563--20292044 Score: 805
Period size: 90 Copynumber: 5.4 Consensus size: 90
20291553 TTTCTTTCAA
20291563 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTCTTTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTCTTTTT
20291628 TTTTCTTCTTCAATTTATATTTTTC
66 TTTTCTTCTTCAATTTATATTTTTC
20291653 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTCTTTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTCTTTTT
20291718 TTTTCTTCTTCAATTTATATTTTTC
66 TTTTCTTCTTCAATTTATATTTTTC
20291743 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTCTTTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTCTTTTT
20291808 TTTTCTTCTTCAATTTATATTTTTC
66 TTTTCTTCTTCAATTTATATTTTTC
20291833 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTCTTTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTCTTTTT
20291898 TTTTCTTCTTCAATTTATATTTTTC
66 TTTTCTTCTTCAATTTATATTTTTC
* * *
20291923 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAG-TCACATA-TCGAGGTATTT-TCA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACT-GAGGTATTTCT-T
*** * * * *
20291985 AAATCTGCTT-TTCAAGTTA-A-GTTTC
63 TTTTTTTCTTCTTCAATTTATATTTTTC
20292010 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
20292045 CTTGGCTCAC
Statistics
Matches: 379, Mismatches: 10, Indels: 10
0.95 0.03 0.03
Matches are distributed among these distances:
86 1 0.00
87 38 0.10
88 1 0.00
89 10 0.03
90 324 0.85
91 5 0.01
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (90 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTCTTTTT
TTTTCTTCTTCAATTTATATTTTTC
Found at i:20294954 original size:18 final size:18
Alignment explanation
Indices: 20294926--20294969 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
20294916 AAAAGTTATA
20294926 AAAAATATT-AAATATTAAT
1 AAAAAT-TTAAAAT-TTAAT
*
20294945 AAAAATTTAAAATTTATT
1 AAAAATTTAAAATTTAAT
20294963 AAAAATT
1 AAAAATT
20294970 AGGAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTTAAAATTTAAT
Found at i:20295011 original size:29 final size:30
Alignment explanation
Indices: 20294973--20295043 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 30
20294963 AAAAATTAGG
20294973 AAAAAA-TATAAAAATCATATAAAAAT-AT
1 AAAAAATTATAAAAATCATATAAAAATAAT
* * **
20295001 TAAATATTAT-AAAATTTTATAAAAATAAT
1 AAAAAATTATAAAAATCATATAAAAATAAT
20295030 AAAAAATTATAAAA
1 AAAAAATTATAAAA
20295044 TGCTTCTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 18 0.53
29 13 0.38
30 3 0.09
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (30 bp):
AAAAAATTATAAAAATCATATAAAAATAAT
Found at i:20295025 original size:48 final size:46
Alignment explanation
Indices: 20294915--20295034 Score: 111
Period size: 47 Copynumber: 2.5 Consensus size: 46
20294905 ATATAATCAA
* * *
20294915 TAAAAGTTATAAAAAATATTAAATATTAATAAAAATTTAAAATTTAT
1 TAAAAATTATAAAAAATA-TAAAAATCAATAAAAATTTAAAATTTAT
*
20294962 TAAAAATTAGGAAAAAATATAAAAATCATATAAAAATATT-AAA--TAT
1 TAAAAATTA-TAAAAAATATAAAAATCA-ATAAAAAT-TTAAAATTTAT
*
20295008 TATAAAATTTTATAAAAATAATAAAAA
1 TA-AAAATTATA-AAAAAT-ATAAAAA
20295035 ATTATAAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
46 6 0.10
47 27 0.44
48 26 0.43
49 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (46 bp):
TAAAAATTATAAAAAATATAAAAATCAATAAAAATTTAAAATTTAT
Found at i:20295039 original size:19 final size:18
Alignment explanation
Indices: 20294973--20295043 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 18
20294963 AAAAATTAGG
*
20294973 AAAAAATATAAAAATCAT
1 AAAAAATATAAAAATAAT
* *
20294991 ATAAAAATATTAAATATTAT
1 A-AAAAATA-TAAAAATAAT
**
20295011 AAAATTTTATAAAAATAAT
1 AAAA-AATATAAAAATAAT
20295030 AAAAAATTATAAAA
1 AAAAAA-TATAAAA
20295044 TGCTTCTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
18 1 0.02
19 29 0.71
20 11 0.27
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAATATAAAAATAAT
Found at i:20295041 original size:10 final size:10
Alignment explanation
Indices: 20294916--20295043 Score: 65
Period size: 10 Copynumber: 13.3 Consensus size: 10
20294906 TATAATCAAT
*
20294916 AAAAGTTATA
1 AAAAATTATA
*
20294926 AAAAA-TATT
1 AAAAATTATA
*
20294935 AAATATTA-A
1 AAAAATTATA
20294944 TAAAAATT-T-
1 -AAAAATTATA
* *
20294953 AAAATTTATT
1 AAAAATTATA
*
20294963 AAAAATTAGGA
1 AAAAATTA-TA
20294974 AAAAA-TAT-
1 AAAAATTATA
*
20294982 AAAAATCATA
1 AAAAATTATA
*
20294992 TAAAAA-TATT
1 -AAAAATTATA
*
20295002 AAATATTATA
1 AAAAATTATA
**
20295012 AAATTTTAT-
1 AAAAATTATA
*
20295021 AAAAATAATA
1 AAAAATTATA
20295031 AAAAATTATA
1 AAAAATTATA
20295041 AAA
1 AAA
20295044 TGCTTCTTTT
Statistics
Matches: 87, Mismatches: 20, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
8 11 0.13
9 20 0.23
10 46 0.53
11 10 0.11
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAATTATA
Found at i:20295044 original size:29 final size:29
Alignment explanation
Indices: 20294941--20295044 Score: 92
Period size: 29 Copynumber: 3.7 Consensus size: 29
20294931 TATTAAATAT
20294941 TAAT-AAAAATT-TAAAA-TTTATTAAAAA
1 TAATAAAAAATTATAAAATTTTA-TAAAAA
** **
20294968 TTAGGAAAAAA-TATAAAAATCATATAAAAA
1 -TAATAAAAAATTAT-AAAATTTTATAAAAA
* *
20294998 T-ATTAAATATTATAAAATTTTATAAAAA
1 TAATAAAAAATTATAAAATTTTATAAAAA
20295026 TAATAAAAAATTATAAAAT
1 TAATAAAAAATTATAAAAT
20295045 GCTTCTTTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
28 21 0.36
29 25 0.43
30 10 0.17
31 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (29 bp):
TAATAAAAAATTATAAAATTTTATAAAAA
Found at i:20295472 original size:84 final size:84
Alignment explanation
Indices: 20295324--20295543 Score: 248
Period size: 84 Copynumber: 2.6 Consensus size: 84
20295314 ATTAGGGTTG
* * * * * * *
20295324 GTTCAAGGACCCAATTTAGTGCAAAAAAAGTAGGGGCTCAATTAC-TTTTTTGAAAAGTTTGAGG
1 GTTCAAGTA-CCAATTGAGTGCAAAAAAA-AAGGAGCTTAATTGCTTTTTTTGAAAAGTTAGAGG
20295388 GCCTTTTTATGCATT-TGAAA
64 GCCTTTTTATGCATTGTGAAA
*
20295408 GTTCAAGTACCAATTGAGTGCAAAAAAAAAGGAGTTTAATTGCTTTTTTTGAAAAAGTTAGAGGG
1 GTTCAAGTACCAATTGAGTGCAAAAAAAAAGGAGCTTAATTGCTTTTTTTG-AAAAGTTAGAGGG
** *
20295473 TTTTTTTATGGATTGTGAAA
65 CCTTTTTATGCATTGTGAAA
* * *
20295493 GTTGAAGTACTCAAGTGACTG-AAAAAAAAAGGGAGCTTAATTGCTTTTTTT
1 GTTCAAGTAC-CAATTGAGTGCAAAAAAAAA-GGAGCTTAATTGCTTTTTTT
20295544 TTTTTAAAAT
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
82 10 0.09
83 25 0.22
84 31 0.27
85 23 0.20
86 27 0.23
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.35
Consensus pattern (84 bp):
GTTCAAGTACCAATTGAGTGCAAAAAAAAAGGAGCTTAATTGCTTTTTTTGAAAAGTTAGAGGGC
CTTTTTATGCATTGTGAAA
Found at i:20295522 original size:85 final size:84
Alignment explanation
Indices: 20295343--20295543 Score: 239
Period size: 86 Copynumber: 2.4 Consensus size: 84
20295333 CCCAATTTAG
* * * *
20295343 TGCAAAAAAAGTAGGG-GCTCAATTAC-TTTTTTGAAAAGTTTGAGGGCCTTTTTATGCATTTGA
1 TGCAAAAAAA-AAGGGAGCTTAATTGCTTTTTTTGAAAAGTTAGAGGGCCTTTTTATGCATTTGA
* *
20295406 AAGTTCAAGTACCAATTGAG
65 AAGTTCAAGTACCAAGTGAC
* ** *
20295426 TGCAAAAAAAAA-GGAGTTTAATTGCTTTTTTTGAAAAAGTTAGAGGGTTTTTTTATGGATTGTG
1 TGCAAAAAAAAAGGGAGCTTAATTGCTTTTTTTG-AAAAGTTAGAGGGCCTTTTTATGCATT-TG
*
20295490 AAAGTTGAAGTACTCAAGTGAC
64 AAAGTTCAAGTAC-CAAGTGAC
20295512 TG-AAAAAAAAAGGGAGCTTAATTGCTTTTTTT
1 TGCAAAAAAAAAGGGAGCTTAATTGCTTTTTTT
20295544 TTTTTAAAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
81 2 0.02
82 8 0.08
83 17 0.17
84 23 0.23
85 23 0.23
86 27 0.27
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.35
Consensus pattern (84 bp):
TGCAAAAAAAAAGGGAGCTTAATTGCTTTTTTTGAAAAGTTAGAGGGCCTTTTTATGCATTTGAA
AGTTCAAGTACCAAGTGAC
Found at i:20297184 original size:17 final size:17
Alignment explanation
Indices: 20297164--20297198 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
20297154 AAAAAAACAG
20297164 AAATCAAATAAAAATAA
1 AAATCAAATAAAAATAA
* *
20297181 AAATGAAGTAAAAATAA
1 AAATCAAATAAAAATAA
20297198 A
1 A
20297199 TAAAATGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (17 bp):
AAATCAAATAAAAATAA
Found at i:20310139 original size:46 final size:48
Alignment explanation
Indices: 20310064--20310333 Score: 159
Period size: 46 Copynumber: 5.7 Consensus size: 48
20310054 GGTGTGAGCC
* *
20310064 AGTGTAAGACCATGTCCGGGGCATGGCATCGGC-ATTGAGACGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-TGAGACGAGTGCT
* * * *
20310112 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCTCT-AGACGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCTATGAGACG-AGTGCT
* * * * *
20310158 AGTGTAAGA-CATGTCTGAGACAT-GCATTGACTATGAGATGTGT-C-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGACGAGTGCT
* * * ***
20310202 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-ACGGATGTACAAGAATT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-TGA-G-ACGAGTGCT
* * * * *
20310252 AGTGTAAGACCATGTCTGGGACATGACATCGGCCT-CGATGATGA-TAACC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTATGA-GACGAGT-GCT
* *
20310301 AGTGTAAGACTATGTTTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
20310334 AATTTACCTC
Statistics
Matches: 172, Mismatches: 35, Indels: 30
0.73 0.15 0.13
Matches are distributed among these distances:
44 9 0.05
45 19 0.11
46 49 0.28
47 16 0.09
48 12 0.07
49 32 0.19
50 34 0.20
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGACGAGTGCT
Found at i:20317266 original size:54 final size:54
Alignment explanation
Indices: 20317197--20317328 Score: 210
Period size: 54 Copynumber: 2.4 Consensus size: 54
20317187 ATCTTACGGA
*
20317197 GGGATTACCAGTCCAGGCTAAATCCCCCGTAATATAAACTCAGAAAGTATTATC
1 GGGATTACCAGTCCAGGCTAAATCCCCCATAATATAAACTCAGAAAGTATTATC
* * * * *
20317251 GGGATTACCAATCCAGGCTAAATCCCCTATAATATAAACTCATACAGTATTGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCCATAATATAAACTCAGAAAGTATTATC
20317305 GGGATTACCAGTCCAGGCTAAATC
1 GGGATTACCAGTCCAGGCTAAATC
20317329 TCCTACGACG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCCCATAATATAAACTCAGAAAGTATTATC
Found at i:20325482 original size:12 final size:12
Alignment explanation
Indices: 20325457--20325490 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
20325447 TTGAGGCATA
*
20325457 CGAGCCAGAAGC
1 CGAGCCAGAGGC
*
20325469 CGAGCTAGAGGC
1 CGAGCCAGAGGC
20325481 CGAGCCAGAG
1 CGAGCCAGAG
20325491 CCAGAGCCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.38, T:0.03
Consensus pattern (12 bp):
CGAGCCAGAGGC
Found at i:20325505 original size:30 final size:30
Alignment explanation
Indices: 20325458--20325515 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
20325448 TGAGGCATAC
* *
20325458 GAGCCAGAAGCCGAGCTAGAGGCCGAGCCA
1 GAGCCAGAAGCCAAGCTAGAGCCCGAGCCA
*
20325488 GAGCCAG-AGCCCAAGCTATAGCCCGAGC
1 GAGCCAGAAG-CCAAGCTAGAGCCCGAGC
20325516 GGTCGCATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.29, C:0.33, G:0.33, T:0.05
Consensus pattern (30 bp):
GAGCCAGAAGCCAAGCTAGAGCCCGAGCCA
Found at i:20329363 original size:4 final size:4
Alignment explanation
Indices: 20329354--20329393 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
20329344 AAAAATACAT
*
20329354 TTTC TTTC TTTT TTTC TTCTC TTTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC TTTC TTTC TT
20329394 ATGTTCTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 26 0.81
5 4 0.12
6 2 0.06
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:20330488 original size:12 final size:13
Alignment explanation
Indices: 20330465--20330499 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
20330455 AAATTTTTAG
*
20330465 CTTTTTAAAAACA
1 CTTTTGAAAAACA
20330478 C-TTTGAAAAACA
1 CTTTTGAAAAACA
20330490 CTTTTGAAAA
1 CTTTTGAAAA
20330500 GAAGTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (13 bp):
CTTTTGAAAAACA
Found at i:20331954 original size:17 final size:18
Alignment explanation
Indices: 20331924--20331969 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
20331914 ATTTAAATTG
20331924 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
20331942 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
20331958 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
20331970 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:20335123 original size:11 final size:11
Alignment explanation
Indices: 20335099--20335131 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
20335089 AAAATTCTAT
20335099 AAATTTACAAAA
1 AAATTTA-AAAA
20335111 AAATTTAAAAA
1 AAATTTAAAAA
20335122 AAA-TTAAAAA
1 AAATTTAAAAA
20335132 TAATAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 7 0.33
12 7 0.33
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATTTAAAAA
Found at i:20335433 original size:29 final size:30
Alignment explanation
Indices: 20335382--20335443 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
20335372 AAATTTTTAG
20335382 TTTTTTATTTTTTTTTCTAAATT-TAACTA
1 TTTTTTATTTTTTTTTCTAAATTATAACTA
* *
20335411 TTTTTTATTTTTATTTT-TCAATTATAATTA
1 TTTTTTATTTTT-TTTTCTAAATTATAACTA
20335441 TTT
1 TTT
20335444 AATTTTATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (30 bp):
TTTTTTATTTTTTTTTCTAAATTATAACTA
Found at i:20336394 original size:76 final size:76
Alignment explanation
Indices: 20336310--20336461 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
20336300 ATTATATATT
20336310 TACTTAAAATTTTGTGAATTTTAAAAGATAATTTCTCATTCTAAGGGCTAAGACACCTATCAACT
1 TACTTAAAATTTTGTGAATTTTAAAAGATAATTTCTCATTCTAAGGGCTAAGACACCTATCAACT
20336375 CCCTCATTTTG
66 CCCTCATTTTG
*
20336386 TACTTAAAATTTTGTGAATTTTAAAAGATAATTTCTCATTCTAAGGGCTAAGACCCCTATCAACT
1 TACTTAAAATTTTGTGAATTTTAAAAGATAATTTCTCATTCTAAGGGCTAAGACACCTATCAACT
20336451 CCCTCATTTTG
66 CCCTCATTTTG
20336462 CTTCTTACGA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (76 bp):
TACTTAAAATTTTGTGAATTTTAAAAGATAATTTCTCATTCTAAGGGCTAAGACACCTATCAACT
CCCTCATTTTG
Found at i:20344827 original size:30 final size:30
Alignment explanation
Indices: 20344784--20344841 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20344774 AACCTGCAGT
* *
20344784 CTTTTCCTGTAAAGACAACAAGAGGGTTCC
1 CTTTCCCTATAAAGACAACAAGAGGGTTCC
* *
20344814 CTTTCCCTATAAAGACAGCAATAGGGTT
1 CTTTCCCTATAAAGACAACAAGAGGGTT
20344842 TTATGGAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (30 bp):
CTTTCCCTATAAAGACAACAAGAGGGTTCC
Found at i:20351039 original size:44 final size:44
Alignment explanation
Indices: 20350974--20351102 Score: 127
Period size: 45 Copynumber: 2.9 Consensus size: 44
20350964 CATCATGGCA
* * * *
20350974 AATCTTATCTCCTTCAGGTTGCAGTGGATCAAATTAAAGCCATA-
1 AATCTTATCTCCCTAAAGTTGCAGTGGAACAAATTAAAG-CATAG
* * * * *
20351018 AGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAG-ATAGCG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAACAAATTAAAGCATA--G
*
20351063 AATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAGC
1 AATCTTATCTCCCTAAAGTTGCAGTGGAACAAATTAAAGC
20351103 TACAAAAATG
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 3 0.04
44 31 0.46
45 33 0.49
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAACAAATTAAAGCATAG
Found at i:20351436 original size:88 final size:88
Alignment explanation
Indices: 20351167--20351437 Score: 237
Period size: 88 Copynumber: 3.1 Consensus size: 88
20351157 ACCAACCTTA
* * * * * *
20351167 TCTCCTCGAAGTTGCAGTGGAGCAGGTTGAAACTACCAATTCTTACCTCTTTTAAATTCCAGCGG
1 TCTCCCCGAAGTTGCAGTGGAGCAGATTGAAACTACCAATTCTTA-CTCCTTGAAGTTACAGCGG
20351232 AGTAGATCGAAGCTACAAATCTCT
65 AGTAGATCGAAGCTACAAATCTCT
** * * * * * * * *
20351256 TCTCCCTAAAATTACATTGGAGCAGA-TCAAAGCCA-CAATCCTCA-TCTCTCTGAAGTTACAGT
1 TCTCCCCGAAGTTGCAGTGGAGCAGATTGAAA-CTACCAATTCTTACTC-CT-TGAAGTTACAGC
* ** *
20351318 GGAGTAGGAT-AAAAATACAAACCT-T
63 GGAGTA-GATCGAAGCTACAAATCTCT
* ** *
20351343 ATCTCCCCGAAGTTGTAGTGGAGCAGATTGAAACTACCAATTCTTACTCCTTGAAGTTTTAGCGA
1 -TCTCCCCGAAGTTGCAGTGGAGCAGATTGAAACTACCAATTCTTACTCCTTGAAGTTACAGCGG
20351408 AGTAGATCGAAGCTACAAATCTCT
65 AGTAGATCGAAGCTACAAATCTCT
20351432 TCTCCC
1 TCTCCC
20351438 TGAAATTACT
Statistics
Matches: 134, Mismatches: 38, Indels: 21
0.69 0.20 0.11
Matches are distributed among these distances:
86 2 0.01
87 5 0.04
88 87 0.65
89 38 0.28
90 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (88 bp):
TCTCCCCGAAGTTGCAGTGGAGCAGATTGAAACTACCAATTCTTACTCCTTGAAGTTACAGCGGA
GTAGATCGAAGCTACAAATCTCT
Found at i:20363931 original size:54 final size:54
Alignment explanation
Indices: 20363854--20363972 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
20363844 AGTGATTTAG
* * * *
20363854 GGCTATGTGCCTAGCAGGCTTTGTGCTGATGTTATTCAGGCTATGCGTCT-GCCA
1 GGCTTTGTGCCTACCAGGATTTGTGCTAATGTTATTCAGGCTATGCGTCTAG-CA
** *
20363908 GGCTTTGTGCCTACCAGGATTTGTGCTAATGTTATTTGGGCTATGTGTCTAGCA
1 GGCTTTGTGCCTACCAGGATTTGTGCTAATGTTATTCAGGCTATGCGTCTAGCA
*
20363962 GCCTTTGTGCC
1 GGCTTTGTGCC
20363973 GGTGATTTCA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 55 0.98
55 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.29, T:0.36
Consensus pattern (54 bp):
GGCTTTGTGCCTACCAGGATTTGTGCTAATGTTATTCAGGCTATGCGTCTAGCA
Found at i:20364070 original size:38 final size:37
Alignment explanation
Indices: 20363908--20364081 Score: 161
Period size: 37 Copynumber: 4.6 Consensus size: 37
20363898 GCGTCTGCCA
* * * * *
20363908 GGCTTTGTGCCTACCAGGATTTGTGCTAATGTTATTT-G
1 GGCTATGTGCCTAGCAGGCTTTGTGC-CA-GTGATTTCG
* * * *
20363946 GGCTATGTGTCTAGCAGCCTTTGTGCCGGTGATTTCA
1 GGCTATGTGCCTAGCAGGCTTTGTGCCAGTGATTTCG
* * * *
20363983 GGATATGTGCCTAGCAGGTTTTTTGCCAGTGATTTTG
1 GGCTATGTGCCTAGCAGGCTTTGTGCCAGTGATTTCG
* *
20364020 GGCTATGTGCCTAGTAGGCTTTGTGCCTGTGATATTCG
1 GGCTATGTGCCTAGCAGGCTTTGTGCCAGTGAT-TTCG
* *
20364058 GGCTATATGCCTAGCAAGCTTTGT
1 GGCTATGTGCCTAGCAGGCTTTGT
20364082 ACCAATGTAA
Statistics
Matches: 108, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
36 6 0.06
37 57 0.53
38 45 0.42
ACGTcount: A:0.16, C:0.18, G:0.29, T:0.38
Consensus pattern (37 bp):
GGCTATGTGCCTAGCAGGCTTTGTGCCAGTGATTTCG
Found at i:20380958 original size:16 final size:16
Alignment explanation
Indices: 20380937--20380969 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20380927 TGAAACTACA
20380937 TATGGTTCAACATAAT
1 TATGGTTCAACATAAT
20380953 TATGGTTCAACATAAT
1 TATGGTTCAACATAAT
20380969 T
1 T
20380970 TGAGTTTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (16 bp):
TATGGTTCAACATAAT
Found at i:20386278 original size:6 final size:6
Alignment explanation
Indices: 20386269--20386313 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
20386259 AATAAACATA
20386269 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
20386314 TAACATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:20388060 original size:9 final size:9
Alignment explanation
Indices: 20388048--20388143 Score: 63
Period size: 9 Copynumber: 10.8 Consensus size: 9
20388038 AAAATGGGAT
20388048 AAATAAATA
1 AAATAAATA
20388057 AAATAAATA
1 AAATAAATA
* *
20388066 ACATAAACA
1 AAATAAATA
*
20388075 TAAT-AATA
1 AAATAAATA
*
20388083 AAATAAATG
1 AAATAAATA
**
20388092 AAAGGAAT-
1 AAATAAATA
*
20388100 AAATAATTA
1 AAATAAATA
*
20388109 AAGA-ATATA
1 AA-ATAAATA
*
20388118 AAATAACTA
1 AAATAAATA
*
20388127 AAATAACTA
1 AAATAAATA
20388136 ATAATAAA
1 A-AATAAA
20388144 AATAAGAAAA
Statistics
Matches: 65, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
8 12 0.18
9 47 0.72
10 6 0.09
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (9 bp):
AAATAAATA
Found at i:20388172 original size:60 final size:61
Alignment explanation
Indices: 20388054--20388172 Score: 136
Period size: 60 Copynumber: 2.0 Consensus size: 61
20388044 GGATAAATAA
* * * *
20388054 ATAAAATAAATAACATAAACATAATAATAAAATAAATGAAAGGAATAAATAATTAAAGAAT
1 ATAAAATAAATAAAATAAACATAATAATAAAATAAATAAAAGGAAAAAATAATAAAAGAAT
* **
20388115 ATAAAATAACTAAAAT-AAC-TAATAATAAAAATAAGA-AAAAGGAAAAAATGGTAAAAGA
1 ATAAAATAAATAAAATAAACATAATAAT-AAAATAA-ATAAAAGGAAAAAATAATAAAAGA
20388173 GGAAACCAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
59 7 0.14
60 27 0.55
61 15 0.31
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.20
Consensus pattern (61 bp):
ATAAAATAAATAAAATAAACATAATAATAAAATAAATAAAAGGAAAAAATAATAAAAGAAT
Found at i:20393279 original size:37 final size:36
Alignment explanation
Indices: 20393222--20393363 Score: 142
Period size: 37 Copynumber: 3.9 Consensus size: 36
20393212 TTATGTGCTG
* * *
20393222 GTGATTTCAGGATATGTGCCTAGTAGGCTTTGTGTCA
1 GTGATTTCGGGCTAAGTGCCTAGTAGGCTTTGTG-CA
* * *
20393259 ATGATTTCGGGCTAAATGCCTAGTAGGCTTTGTGCCG
1 GTGATTTCGGGCTAAGTGCCTAGTAGGCTTTGTG-CA
* * *
20393296 GTGATTTCGGGTTAAGTGCCT-GCCAGGCATTGTGCA
1 GTGATTTCGGGCTAAGTGCCTAG-TAGGCTTTGTGCA
* *
20393332 GGTGATTTCAGGCTATGTGCCTAGTAGGCTTT
1 -GTGATTTCGGGCTAAGTGCCTAGTAGGCTTT
20393364 ATGCCGCTGA
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
36 2 0.02
37 81 0.96
38 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.31, T:0.35
Consensus pattern (36 bp):
GTGATTTCGGGCTAAGTGCCTAGTAGGCTTTGTGCA
Found at i:20398550 original size:21 final size:21
Alignment explanation
Indices: 20398524--20398569 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
20398514 TTTTCCTAGA
20398524 AATGTCATGTTCGTGCACAGT
1 AATGTCATGTTCGTGCACAGT
20398545 AATGTCATGTTCGTGCACAGT
1 AATGTCATGTTCGTGCACAGT
20398566 AATG
1 AATG
20398570 CCCTGTACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (21 bp):
AATGTCATGTTCGTGCACAGT
Found at i:20415790 original size:39 final size:39
Alignment explanation
Indices: 20415731--20415864 Score: 193
Period size: 39 Copynumber: 3.5 Consensus size: 39
20415721 CATGTTTTTT
* * *
20415731 AGTATCGTGATATATACTTGAATGTTAAGTGATTATATG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
*
20415770 AGTATTGTGATATATGCTTGAATGTTATGTGATTGTATG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
20415809 AGTATTGTG--ATATGCTTGAATGTTATGTGATTATAT-
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
*
20415845 ATGTAATGTGATATATGCTT
1 A-GTATTGTGATATATGCTT
20415865 AAAAATGAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
36 1 0.01
37 33 0.38
39 52 0.60
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
Done.