Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 149 of 208
Found at i:45541449 original size:28 final size:28
Alignment explanation
Indices: 45541414--45541483 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
45541404 AATTCAACAC
45541414 AGGCTATTCTTTTCAGAGTTCGCCACAA
1 AGGCTATTCTTTTCAGAGTTCGCCACAA
45541442 AGGCTATTCTTTTCAGAGTTCGCCACAA
1 AGGCTATTCTTTTCAGAGTTCGCCACAA
**
45541470 AGATTATTCTTTTC
1 AGGCTATTCTTTTC
45541484 TGTTGTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (28 bp):
AGGCTATTCTTTTCAGAGTTCGCCACAA
Found at i:45542706 original size:13 final size:13
Alignment explanation
Indices: 45542688--45542740 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
45542678 TAAACCAACT
*
45542688 AAAAAAATTAAGA
1 AAAAAAATAAAGA
45542701 AAAAAAATAAAGA
1 AAAAAAATAAAGA
* *
45542714 TTTAAAAAATAAATA
1 --AAAAAAATAAAGA
45542729 AATAAAAATAAA
1 AA-AAAAATAAA
45542741 AAAGCAAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
13 13 0.39
14 9 0.27
15 11 0.33
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (13 bp):
AAAAAAATAAAGA
Found at i:45548532 original size:5 final size:5
Alignment explanation
Indices: 45548524--45548553 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
45548514 TATTTTAACC
*
45548524 TATTA TATTG TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA
45548554 GAAGGTAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:45556862 original size:20 final size:20
Alignment explanation
Indices: 45556833--45556872 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
45556823 TTCACCTCAT
*
45556833 GCATCGCATCATATGCATTA
1 GCATCACATCATATGCATTA
45556853 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
45556873 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:45565008 original size:45 final size:45
Alignment explanation
Indices: 45564953--45565246 Score: 123
Period size: 44 Copynumber: 6.7 Consensus size: 45
45564943 ATATCAGAAA
* *
45564953 AAAGTTGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATCAAAG
1 AAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGCAAATCAAAG
*** * * * *
45564998 AAAGTAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG
1 AAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGCAAATCAAAG
* * * * * ** *
45565042 AAA-CAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAG
1 AAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGCAAATCAAAG
** * *** * * * *
45565086 AAAACAGATCGTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG
1 AAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGCAAATCAAAG
* * * * * ** *
45565130 AAA-CAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAG
1 AAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGCAAATCAAAG
** * *** * * * *
45565174 AAAACAGATCGTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG
1 AAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGCAAATCAAAG
* *
45565218 AAA-CAGATCTTGTCTCCCCATACTGGTGG
1 AAAGTAGATCTTGTCTTCCCATACTGGTGG
45565247 TGGAGTAGGT
Statistics
Matches: 193, Mismatches: 51, Indels: 11
0.76 0.20 0.04
Matches are distributed among these distances:
43 54 0.28
44 81 0.42
45 58 0.30
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (45 bp):
AAAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGCAAATCAAAG
Found at i:45565108 original size:88 final size:88
Alignment explanation
Indices: 45565003--45565306 Score: 599
Period size: 88 Copynumber: 3.5 Consensus size: 88
45564993 CAAAGAAAGT
*
45565003 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGG
1 AGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGG
45565068 TGGTGGAGTAGGTCGAAGAAAAC
66 TGGTGGAGTAGGTCGAAGAAAAC
45565091 AGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGG
1 AGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGG
45565156 TGGTGGAGTAGGTCGAAGAAAAC
66 TGGTGGAGTAGGTCGAAGAAAAC
45565179 AGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGG
1 AGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGG
45565244 TGGTGGAGTAGGTCGAAGAAAAC
66 TGGTGGAGTAGGTCGAAGAAAAC
45565267 AGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
1 AGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
45565307 TAGTAGGTCC
Statistics
Matches: 215, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 215 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (88 bp):
AGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGG
TGGTGGAGTAGGTCGAAGAAAAC
Found at i:45565206 original size:176 final size:177
Alignment explanation
Indices: 45564898--45565306 Score: 613
Period size: 176 Copynumber: 2.3 Consensus size: 177
45564888 AGCAGGGTGA
* *
45564898 AAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAATATCAGAAAAAAGTTGATC
1 AAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATC--A-A--AG-AAAAA--TGATC
* ** *
45564963 TTGCCTTCCCATACTGGTGGCGAAGCAAATCAAAGAAAGTAGATCTTGTCTTCATGTACTGGCGT
58 TTGCCTCCCCATACTGGTGGCGAAGCAAATCAAAGAAAACAGATCGTGTCTTCATGTACTGGCGT
45565028 GAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCG
123 GAAGTAGATCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCG
* *
45565083 AAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAACA-GATCTTGTCTCC
1 AAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAAATGATCTTGCCTCC
* * * ** *
45565147 CCATACTGGTGGTGGAGTAGGTCGAAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGCAAATCAAAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGA
45565212 TCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCG
131 TCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCG
45565259 AAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
1 AAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA
45565307 TAGTAGGTCC
Statistics
Matches: 210, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
176 161 0.77
179 4 0.02
180 2 0.01
182 1 0.00
183 1 0.00
185 41 0.20
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (177 bp):
AAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAAATGATCTTGCCTCC
CCATACTGGTGGCGAAGCAAATCAAAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAGA
TCAAAGAAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCG
Found at i:45565277 original size:45 final size:45
Alignment explanation
Indices: 45565042--45565277 Score: 273
Period size: 45 Copynumber: 5.3 Consensus size: 45
45565032 TAGATCAAAG
*
45565042 AAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGA
1 AAACAGATCGTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGA
* *** * * * *
45565087 AAACAGATCGTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG-
1 AAACAGATCGTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGA
*
45565130 AAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGA
1 AAACAGATCGTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGA
* *** * * * *
45565175 AAACAGATCGTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG-
1 AAACAGATCGTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGA
*
45565218 AAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGA
1 AAACAGATCGTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGA
45565263 AAACAGATCGTGTCT
1 AAACAGATCGTGTCT
45565278 TCATGTACTG
Statistics
Matches: 150, Mismatches: 37, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
43 42 0.28
44 52 0.35
45 56 0.37
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (45 bp):
AAACAGATCGTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGA
Found at i:45565323 original size:44 final size:44
Alignment explanation
Indices: 45564991--45565306 Score: 323
Period size: 44 Copynumber: 7.2 Consensus size: 44
45564981 GGCGAAGCAA
**
45564991 ATCAAAGAAAGTAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
1 ATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
* *** * *
45565035 ATCAAAG-AAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAG
1 ATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAG
* * *
45565079 GTCGAAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAG
1 ATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
* *** * *
45565123 ATCAAAG-AAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAG
1 ATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAG
* * *
45565167 GTCGAAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAG
1 ATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
* *** * *
45565211 ATCAAAG-AAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAG
1 ATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAG
* * *
45565255 GTCGAAGAAAACAGATCGTGTCTTCATGTACTGGCGTGAAGTAG
1 ATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
45565299 ATCAAAGA
1 ATCAAAGA
45565307 TAGTAGGTCC
Statistics
Matches: 211, Mismatches: 55, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
43 62 0.29
44 86 0.41
45 63 0.30
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (44 bp):
ATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAG
Found at i:45578569 original size:14 final size:14
Alignment explanation
Indices: 45578550--45578587 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
45578540 AATTTTGTAT
45578550 TTTATATATAAAAA
1 TTTATATATAAAAA
* *
45578564 TTTATAAATAATAA
1 TTTATATATAAAAA
45578578 TTT-TATATAA
1 TTTATATATAA
45578588 TTTAATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTATATATAAAAA
Found at i:45581214 original size:17 final size:18
Alignment explanation
Indices: 45581192--45581229 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
45581182 AATCAAAATC
45581192 TTCCTATAT-CTGTTATT
1 TTCCTATATGCTGTTATT
* *
45581209 TTCCTATTTGCTGTTGTT
1 TTCCTATATGCTGTTATT
45581227 TTC
1 TTC
45581230 GTGTGTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.11, C:0.18, G:0.11, T:0.61
Consensus pattern (18 bp):
TTCCTATATGCTGTTATT
Found at i:45581600 original size:15 final size:16
Alignment explanation
Indices: 45581575--45581604 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45581565 CATTTTAAGG
45581575 TTTTGGGTTTATTTTA
1 TTTTGGGTTTATTTTA
45581591 TTTT-GGTTTATTTT
1 TTTTGGGTTTATTTT
45581605 TGTTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.10, C:0.00, G:0.17, T:0.73
Consensus pattern (16 bp):
TTTTGGGTTTATTTTA
Found at i:45582034 original size:44 final size:43
Alignment explanation
Indices: 45581985--45582452 Score: 211
Period size: 44 Copynumber: 10.2 Consensus size: 43
45581975 TAACTTCAAA
* *
45581985 GAGATAAGATCCTTTGTTTTAAT-TCGCTCCACTGTAATCTCAGG
1 GAGATAAGAT-CTTTGCTTCAATCT-GCTCCACTGTAATCTCAGG
* * ** *
45582029 GAGATAGGAT-TACTAGCTTCAATCTGCTCCGTTGTAATCACAGG
1 GAGATAAGATCT--TTGCTTCAATCTGCTCCACTGTAATCTCAGG
*
45582073 GAGATAAGAT-TTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAA-CTTCAGA
1 GAGATAAGATCTT-T-GCTTCAATC---T--G--CT-C-C-ACTGTAATC-TCAGG
* * * *
45582127 GAGATAAGATCCTTTGTTTTAATCCGCTCCACTGTAATCTAAGG
1 GAGATAAGAT-CTTTGCTTCAATCTGCTCCACTGTAATCTCAGG
* * *
45582171 GAGATAGGAT-TACTAGCTTCAATCTGCTCCACTGTAATCTCAGT
1 GAGATAAGATCT--TTGCTTCAATCTGCTCCACTGTAATCTCAGG
* *
45582215 GAGATAAGATTTTTGGCTTCAATCTGCTCCGCTGTAATCTCAGG
1 GAGATAAGATCTTT-GCTTCAATCTGCTCCACTGTAATCTCAGG
*
45582259 GAGATAAGAT-TTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAA-CTTCAGA
1 GAGATAAGATCTT-T-GCTTCAATC-----TG--CT-C-C-ACTGTAATC-TCAGG
** * *
45582313 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGG
1 GAGATAAGAT-CTTTGCTTCAATCTGCTCCACTGTAATCTCAGG
* * * * *
45582357 GAGATAGGAT-TACTAGCTTCAATCTTCTCCGCTATAATCTCAGG
1 GAGATAAGATCT--TTGCTTCAATCTGCTCCACTGTAATCTCAGG
* * * *
45582401 GAGATGAGAT-TTCTTCTTCAGTCTG-TCCCACTGTGA-CTTCAGG
1 GAGATAAGATCTT-TGCTTCAATCTGCT-CCACTGTAATC-TCAGG
*
45582444 GGGATAAGA
1 GAGATAAGA
45582453 CTTGTTTTCT
Statistics
Matches: 325, Mismatches: 56, Indels: 87
0.69 0.12 0.19
Matches are distributed among these distances:
42 7 0.02
43 29 0.09
44 204 0.63
45 6 0.02
46 2 0.01
47 5 0.02
49 5 0.02
51 4 0.01
52 2 0.01
53 4 0.01
54 51 0.16
55 2 0.01
56 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (43 bp):
GAGATAAGATCTTTGCTTCAATCTGCTCCACTGTAATCTCAGG
Found at i:45582190 original size:98 final size:97
Alignment explanation
Indices: 45582061--45582381 Score: 378
Period size: 98 Copynumber: 3.4 Consensus size: 97
45582051 TCTGCTCCGT
* *
45582061 TGTAATC-ACAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCA
1 TGTAATCTA-AGGGAGATAAGATTACTAGCTTCAATCTGATG-GATCTACTCTACTGTAACTTCA
45582125 GAGAGATAAGATCCTTTGTTTTAATCCGCTCCAC
64 GAGAGATAAGATCCTTTGTTTTAATCCGCTCCAC
*
45582159 TGTAATCTAAGGGAGATAGGATTACTAGCTTCAATC---T-G--CT-C-C-ACTGTAA-TCTCAG
1 TGTAATCTAAGGGAGATAAGATTACTAGCTTCAATCTGATGGATCTACTCTACTGTAACT-TCAG
* * * * * *
45582214 TGAGATAAGAT-TTTTGGCTTCAATCTGCTCCGC
65 AGAGATAAGATCCTTT-GTTTTAATCCGCTCCAC
* * *
45582247 TGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAG
1 TGTAATCTAAGGGAGATAAGATTACTAGCTTCAATCTGATG-GATCTACTCTACTGTAACTTCAG
*
45582312 AGAGATAAGATCCTTTATTTTAATCCGCTCCAC
65 AGAGATAAGATCCTTTGTTTTAATCCGCTCCAC
* *
45582345 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 TGTAATCTAAGGGAGATAAGATTACTAGCTTCAATCT
45582382 TCTCCGCTAT
Statistics
Matches: 185, Mismatches: 23, Indels: 30
0.78 0.10 0.13
Matches are distributed among these distances:
87 4 0.02
88 66 0.36
89 1 0.01
90 1 0.01
91 3 0.02
93 2 0.01
95 3 0.02
96 1 0.01
97 1 0.01
98 98 0.53
99 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (97 bp):
TGTAATCTAAGGGAGATAAGATTACTAGCTTCAATCTGATGGATCTACTCTACTGTAACTTCAGA
GAGATAAGATCCTTTGTTTTAATCCGCTCCAC
Found at i:45582191 original size:142 final size:142
Alignment explanation
Indices: 45581929--45582240 Score: 536
Period size: 142 Copynumber: 2.2 Consensus size: 142
45581919 GCACCGCTTG
*
45581929 AGGGAG-TAAGATTCCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAG
1 AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAG
* *
45581993 ATCCTTTGTTTTAATTCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTC
66 ATCCTTTGTTTTAATCCGCTCCACTGTAATCTAAGGGAGATAGGATTACTAGCTTCAATCTGCTC
**
45582058 CGTTGTAATCAC
131 CACTGTAATCAC
*
45582070 AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
1 AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAG
45582135 ATCCTTTGTTTTAATCCGCTCCACTGTAATCTAAGGGAGATAGGATTACTAGCTTCAATCTGCTC
66 ATCCTTTGTTTTAATCCGCTCCACTGTAATCTAAGGGAGATAGGATTACTAGCTTCAATCTGCTC
*
45582200 CACTGTAATCTC
131 CACTGTAATCAC
* *
45582212 AGTGAGATAAGATTTTTGGCTTCAATCTG
1 AGGGAGATAAGATTTCTGGCTTCAATCTG
45582241 CTCCGCTGTA
Statistics
Matches: 161, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
141 6 0.04
142 155 0.96
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (142 bp):
AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAG
ATCCTTTGTTTTAATCCGCTCCACTGTAATCTAAGGGAGATAGGATTACTAGCTTCAATCTGCTC
CACTGTAATCAC
Found at i:45582237 original size:186 final size:186
Alignment explanation
Indices: 45582010--45582414 Score: 684
Period size: 186 Copynumber: 2.2 Consensus size: 186
45582000 GTTTTAATTC
* * *
45582010 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGTTGTAATCACAGGGA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCTGCTCCGCTGTAATCACAGGGA
45582075 GATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT
66 GATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT
*
45582140 TTGTTTTAATCCGCTCCACTGTAATCTAAGGGAGATAGGATTACTAGCTTCAATCT
131 TTATTTTAATCCGCTCCACTGTAATCTAAGGGAGATAGGATTACTAGCTTCAATCT
* * * *
45582196 GCTCCACTGTAATCTCAGTGAGATAAGATTTTTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCTGCTCCGCTGTAATCACAGGGA
*
45582261 GATAAGATTTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT
66 GATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT
*
45582326 TTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
131 TTATTTTAATCCGCTCCACTGTAATCTAAGGGAGATAGGATTACTAGCTTCAATCT
* * * *
45582382 TCTCCGCTATAATCTCAGGGAGATGAGATTTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTTCT
45582415 TCTTCAGTCT
Statistics
Matches: 203, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
186 203 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (186 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTTCTAGCTTCAATCTGCTCCGCTGTAATCACAGGGA
GATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT
TTATTTTAATCCGCTCCACTGTAATCTAAGGGAGATAGGATTACTAGCTTCAATCT
Found at i:45582303 original size:142 final size:141
Alignment explanation
Indices: 45582157--45582414 Score: 331
Period size: 142 Copynumber: 1.8 Consensus size: 141
45582147 AATCCGCTCC
* * * *
45582157 ACTGTAA-TCTAAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCCACTGTAATCTCAGTGAGAT
1 ACTGTAACT-TAAGAGAGATAAGATCT-CTA-CTTCAATCCGCTCCACTGTAATCTCAGGGAGAT
** * *
45582220 AAGATTTTTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTG
63 AAGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTG
45582285 ATGTGATCTACTCT
128 ATGTGATCTACTCT
* * * * *
45582299 ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAG
1 ACTGTAACTTAAGAGAGATAAGAT-CTCTACTTCAATCCGCTCCACTGTAATCTCAGGGAGATAA
* *
45582364 GATTACTAGCTTCAATCTTCTCCGCTATAATCTCAGGGAGATGAGATTTCT
65 GATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCT
45582415 TCTTCAGTCT
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
142 94 0.96
143 3 0.03
144 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (141 bp):
ACTGTAACTTAAGAGAGATAAGATCTCTACTTCAATCCGCTCCACTGTAATCTCAGGGAGATAAG
ATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATG
TGATCTACTCT
Found at i:45584413 original size:12 final size:12
Alignment explanation
Indices: 45584398--45584438 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
45584388 TTCTTTTCTT
45584398 TTTTGTTTTTGA
1 TTTTGTTTTTGA
*
45584410 TTTTGATTTTGA
1 TTTTGTTTTTGA
45584422 TTTTGATTTTTGA
1 TTTTG-TTTTTGA
45584435 TTTT
1 TTTT
45584439 TTATCAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (12 bp):
TTTTGTTTTTGA
Found at i:45584432 original size:7 final size:7
Alignment explanation
Indices: 45584397--45584439 Score: 58
Period size: 6 Copynumber: 6.7 Consensus size: 7
45584387 TTTCTTTTCT
45584397 TTTTTG-
1 TTTTTGA
45584403 TTTTTGA
1 TTTTTGA
45584410 -TTTTGA
1 TTTTTGA
45584416 -TTTTGA
1 TTTTTGA
45584422 -TTTTGA
1 TTTTTGA
45584428 TTTTTGA
1 TTTTTGA
45584435 TTTTT
1 TTTTT
45584440 TATCAGAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 24 0.69
7 11 0.31
ACGTcount: A:0.12, C:0.00, G:0.14, T:0.74
Consensus pattern (7 bp):
TTTTTGA
Found at i:45584432 original size:31 final size:31
Alignment explanation
Indices: 45584330--45584439 Score: 91
Period size: 31 Copynumber: 3.5 Consensus size: 31
45584320 TCTTTTTCTC
*
45584330 TTTTCATATTTT-ATTTTGACTTTGA--TTGA
1 TTTTCAT-TTTTGTTTTTGACTTTGATTTTGA
* * * **
45584359 TTTCCCTTTTTTGCTTTTGACTTTGATTTTTC
1 TTT-TCATTTTTGTTTTTGACTTTGATTTTGA
* *
45584391 TTTTCTTTTTTGTTTTTGATTTTGATTTTGA
1 TTTTCATTTTTGTTTTTGACTTTGATTTTGA
*
45584422 TTTTGATTTTTGATTTTT
1 TTTTCATTTTTG-TTTTT
45584440 TATCAGAATC
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
29 7 0.11
30 14 0.22
31 33 0.52
32 10 0.16
ACGTcount: A:0.12, C:0.08, G:0.11, T:0.69
Consensus pattern (31 bp):
TTTTCATTTTTGTTTTTGACTTTGATTTTGA
Found at i:45592252 original size:22 final size:21
Alignment explanation
Indices: 45592226--45592284 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
45592216 ATAAGTTATG
*
45592226 AAAATATGTATACGTATAT-ACT
1 AAAATATGTATA--TATATAAAT
45592248 AAAATATGTATATATATAAAT
1 AAAATATGTATATATATAAAT
*
45592269 ATAATATGTATATATA
1 AAAATATGTATATATA
45592285 AAAAATGACA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 5 0.15
21 17 0.50
22 12 0.35
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (21 bp):
AAAATATGTATATATATAAAT
Found at i:45592454 original size:9 final size:9
Alignment explanation
Indices: 45592440--45592471 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
45592430 CATCTTTGTG
45592440 AAAAAAAAT
1 AAAAAAAAT
45592449 AAAAAAAAT
1 AAAAAAAAT
*
45592458 AACAAAAAT
1 AAAAAAAAT
45592467 AAAAA
1 AAAAA
45592472 TAGTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:45592490 original size:16 final size:16
Alignment explanation
Indices: 45592469--45592519 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
45592459 ACAAAAATAA
45592469 AAATAGTTAAATATAT
1 AAATAGTTAAATATAT
* * *
45592485 ATATAGATACATATAT
1 AAATAGTTAAATATAT
* *
45592501 AAATTGTAAAATATAT
1 AAATAGTTAAATATAT
45592517 AAA
1 AAA
45592520 AAATGTACGC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (16 bp):
AAATAGTTAAATATAT
Found at i:45592611 original size:3 final size:3
Alignment explanation
Indices: 45592603--45592654 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
45592593 ATACATAGTT
* * * *
45592603 ATA ATA ATA ATT ATA ATA AT- TTA A-A ATA CTA ATA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
45592649 ATA ATA
1 ATA ATA
45592655 GTATAAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 3 0.08
3 36 0.92
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:45596192 original size:15 final size:15
Alignment explanation
Indices: 45596171--45596210 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
45596161 AATTATAACG
45596171 ATAATAATAATAATAA
1 ATAATAATAAT-ATAA
*
45596187 AT-ATAATAATTTAA
1 ATAATAATAATATAA
45596201 ATAATAATAA
1 ATAATAATAA
45596211 GAGCATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 15 0.68
16 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAATAATAATATAA
Found at i:45597706 original size:15 final size:16
Alignment explanation
Indices: 45597686--45597716 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
45597676 TAAATAAACA
45597686 AAAATAAA-CCAAAAT
1 AAAATAAACCCAAAAT
45597701 AAAATAAACCCAAAAT
1 AAAATAAACCCAAAAT
45597717 CTTAAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATAAACCCAAAAT
Found at i:45598097 original size:17 final size:18
Alignment explanation
Indices: 45598061--45598098 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
45598051 AAAGACACAC
45598061 GAAAACAACAGCAAATAG
1 GAAAACAACAGCAAATAG
* *
45598079 GAAAATAACAG-ATATAG
1 GAAAACAACAGCAAATAG
45598096 GAA
1 GAA
45598099 GATTTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.61, C:0.11, G:0.18, T:0.11
Consensus pattern (18 bp):
GAAAACAACAGCAAATAG
Found at i:45613602 original size:20 final size:19
Alignment explanation
Indices: 45613577--45613621 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
45613567 TTTATTTATT
45613577 TATATAAATAAATTAATAAA
1 TATATAAATAAA-TAATAAA
*
45613597 TATATAAATATATAATAAA
1 TATATAAATAAATAATAAA
*
45613616 AATATA
1 TATATA
45613622 TATTTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TATATAAATAAATAATAAA
Found at i:45620163 original size:29 final size:28
Alignment explanation
Indices: 45620131--45620187 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
45620121 AAATTTATGT
45620131 AAACCTACAAAAATTATAAAAATTCATAA
1 AAACCTACAAAAATTATAAAAATT-ATAA
* * * *
45620160 AAACTTATAAATATTATATAAATTATAA
1 AAACCTACAAAAATTATAAAAATTATAA
45620188 TAAATTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.32
Consensus pattern (28 bp):
AAACCTACAAAAATTATAAAAATTATAA
Found at i:45620207 original size:12 final size:12
Alignment explanation
Indices: 45620190--45620241 Score: 59
Period size: 12 Copynumber: 4.0 Consensus size: 12
45620180 AATTATAATA
45620190 AATTATAAAAAT
1 AATTATAAAAAT
45620202 AATTATAAAAAT
1 AATTATAAAAAT
*
45620214 AAAACATATTAAAAAT
1 --AA-TTA-TAAAAAT
45620230 AATTATAAAAAT
1 AATTATAAAAAT
45620242 TCATAATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 19 0.56
13 2 0.06
14 4 0.12
15 2 0.06
16 7 0.21
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AATTATAAAAAT
Found at i:45620209 original size:19 final size:19
Alignment explanation
Indices: 45620139--45620241 Score: 59
Period size: 19 Copynumber: 5.3 Consensus size: 19
45620129 GTAAACCTAC
*
45620139 AAAAATTATAA-AAATTCAT
1 AAAAATAATAATAAATT-AT
* *
45620158 AAAAACTTATAA-ATATTAT
1 AAAAA-TAATAATAAATTAT
* *
45620177 ATAAATTATAATAAATTAT
1 AAAAATAATAATAAATTAT
* *
45620196 AAAAATAATTATAAA-AAT
1 AAAAATAATAATAAATTAT
* *
45620214 AAAACATATTAAAAATAATTAT
1 AAAA-ATAAT-AATA-AATTAT
45620236 AAAAAT
1 AAAAAT
45620242 TCATAATAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
18 12 0.18
19 33 0.49
20 12 0.18
21 4 0.06
22 6 0.09
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATAATAATAAATTAT
Found at i:45620268 original size:10 final size:9
Alignment explanation
Indices: 45620139--45620267 Score: 91
Period size: 10 Copynumber: 13.2 Consensus size: 9
45620129 GTAAACCTAC
45620139 AAAAATTAT
1 AAAAATTAT
45620148 AAAAATTCAT
1 AAAAATT-AT
45620158 AAAAACTTAT
1 AAAAA-TTAT
*
45620168 AAATATTAT
1 AAAAATTAT
*
45620177 ATAAATTAT
1 AAAAATTAT
45620186 AATAAATTAT
1 AA-AAATTAT
45620196 AAAAATAATTAT
1 --AAA-AATTAT
45620208 AAAAA-TA-
1 AAAAATTAT
*
45620215 AAACATATTAA
1 AAA-A-ATTAT
45620226 AAATAATTAT
1 AAA-AATTAT
45620236 AAAAATTCAT
1 AAAAATT-AT
* *
45620246 AATAAGTTCT
1 AA-AAATTAT
45620256 AATAAATTAT
1 AA-AAATTAT
45620266 AA
1 AA
45620268 TCATTTATTG
Statistics
Matches: 98, Mismatches: 10, Indels: 23
0.75 0.08 0.18
Matches are distributed among these distances:
7 3 0.03
8 3 0.03
9 26 0.27
10 47 0.48
11 11 0.11
12 8 0.08
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:45621753 original size:21 final size:21
Alignment explanation
Indices: 45621732--45621770 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45621722 TTTTATGTTA
*
45621732 AATAAT-GTTATAATAATATT
1 AATAATGGTTAAAATAATATT
45621752 AATAATGGTTAAAATAATA
1 AATAATGGTTAAAATAATA
45621771 AAACATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (21 bp):
AATAATGGTTAAAATAATATT
Found at i:45623374 original size:6 final size:6
Alignment explanation
Indices: 45623363--45623397 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
45623353 TTCTGAATAC
45623363 CTTTTA CTTTTA CTTTTA CTTTTA CTTTTA CTTTT
1 CTTTTA CTTTTA CTTTTA CTTTTA CTTTTA CTTTT
45623398 TCTTCTGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
CTTTTA
Found at i:45623415 original size:3 final size:3
Alignment explanation
Indices: 45623397--45623439 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
45623387 CTTTTACTTT
*
45623397 TTC TTC TGC TTC -TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
45623440 TCTTGATTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:45631679 original size:18 final size:18
Alignment explanation
Indices: 45631656--45631690 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45631646 TACGCCCGCT
45631656 ACTCCCAAGGCGGAGACC
1 ACTCCCAAGGCGGAGACC
*
45631674 ACTCCCACGGCGGAGAC
1 ACTCCCAAGGCGGAGAC
45631691 GGTAAGCGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.40, G:0.29, T:0.06
Consensus pattern (18 bp):
ACTCCCAAGGCGGAGACC
Found at i:45632799 original size:2 final size:2
Alignment explanation
Indices: 45632792--45632817 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45632782 TATTACAATT
45632792 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
45632818 GTTGTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45635707 original size:3 final size:3
Alignment explanation
Indices: 45635699--45635745 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
45635689 AAATTAGTTA
45635699 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
45635746 AAGGATAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45636083 original size:31 final size:32
Alignment explanation
Indices: 45636045--45636107 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
45636035 AGGCAAATTA
45636045 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
45636076 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
45636108 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:45639187 original size:10 final size:10
Alignment explanation
Indices: 45639170--45639249 Score: 60
Period size: 10 Copynumber: 8.2 Consensus size: 10
45639160 AAAAATCAAT
45639170 AAAATTTATA
1 AAAATTTATA
*
45639180 AAATTTTAATA
1 AAAATTT-ATA
*
45639191 AAAATATATA
1 AAAATTTATA
* *
45639201 TAAA-TTAGAA
1 AAAATTTA-TA
45639211 AAAATTTA-A
1 AAAATTTATA
*
45639220 AAAAATTAT-
1 AAAATTTATA
45639229 AAAA-TTATA
1 AAAATTTATA
*
45639238 AAATTTTATA
1 AAAATTTATA
45639248 AA
1 AA
45639250 GTCGTAAGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
8 4 0.07
9 17 0.31
10 23 0.42
11 11 0.20
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (10 bp):
AAAATTTATA
Found at i:45639239 original size:19 final size:19
Alignment explanation
Indices: 45639211--45639306 Score: 67
Period size: 18 Copynumber: 5.2 Consensus size: 19
45639201 TAAATTAGAA
45639211 AAAATT-TAAAAAAATTAT
1 AAAATTATAAAAAAATTAT
**
45639229 AAAATTAT-AAAATTTTAT
1 AAAATTATAAAAAAATTAT
* **
45639247 AAAGTCGTAAGAAAAA-TAT
1 AAAATTATAA-AAAAATTAT
*
45639266 AAAA-TATAAAGAAA-TAT
1 AAAATTATAAAAAAATTAT
**
45639283 AAAATTTATAAAACTATTAT
1 AAAA-TTATAAAAAAATTAT
45639303 AAAA
1 AAAA
45639307 ACTATTGTAC
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
17 11 0.19
18 22 0.38
19 15 0.26
20 10 0.17
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAATTATAAAAAAATTAT
Found at i:45639584 original size:19 final size:19
Alignment explanation
Indices: 45639552--45639620 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
45639542 TACGATTTTT
45639552 ATATTTTT-TCTAATTTTAA
1 ATATTTTTAT-TAATTTTAA
45639571 ATATTTTTATTAATATTT-A
1 ATATTTTTATTAAT-TTTAA
* *
45639590 ATAATATTTA-TAATTTTTAT
1 AT-ATTTTTATTAA-TTTTAA
*
45639610 TTATTTTTATT
1 ATATTTTTATT
45639621 TTTTATAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
19 27 0.68
20 13 0.32
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (19 bp):
ATATTTTTATTAATTTTAA
Found at i:45647085 original size:16 final size:16
Alignment explanation
Indices: 45647064--45647094 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45647054 AATAAACGCT
45647064 GCTAAAAGTCATGACC
1 GCTAAAAGTCATGACC
*
45647080 GCTAAAGGTCATGAC
1 GCTAAAAGTCATGAC
45647095 TTTTAGCGGC
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:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (16 bp):
GCTAAAAGTCATGACC
Found at i:45647139 original size:43 final size:43
Alignment explanation
Indices: 45647078--45647297 Score: 230
Period size: 43 Copynumber: 5.1 Consensus size: 43
45647068 AAAGTCATGA
* * * *
45647078 CCGCTAAAGGTCATGACTTTTAGCGGCGCTTATCCCACGAACG
1 CCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAACG
* *
45647121 CCGCTATAGATCATGACTTTTAGCGGCACTTTTTCCACAAACG
1 CCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAACG
* * *
45647164 CCGCTATAGATCATCACTTTTAGCGGCGTTTTTCCCATAAACG
1 CCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAACG
* * * **
45647207 CTGCTATAGAAT-AT-ATTTTTAGCGACGCTTTTTCGTACAAACG
1 CCGCTATAG-ATCATGACTTTTAGCGGCGC-TTTTCCCACAAACG
* * * * *
45647250 CGGCTATAGAACA-GACCTTTAGCGGCACTTTTCACACAAACG
1 CCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAACG
45647292 CCGCTA
1 CCGCTA
45647298 AAAACATATC
Statistics
Matches: 146, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
42 29 0.20
43 115 0.79
44 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (43 bp):
CCGCTATAGATCATGACTTTTAGCGGCGCTTTTCCCACAAACG
Found at i:45647453 original size:35 final size:35
Alignment explanation
Indices: 45647417--45647484 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
45647407 CTACGAAAAT
*
45647417 TTTAACTTTA-AAACTAAATATAA-AAATTAATAAA
1 TTTAAATTTAGAAACTAAA-ATAATAAATTAATAAA
**
45647451 TTTAAATTTAGAATTTAAAATAATAAATTAATAA
1 TTTAAATTTAGAAACTAAAATAATAAATTAATAA
45647485 CACAATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (35 bp):
TTTAAATTTAGAAACTAAAATAATAAATTAATAAA
Found at i:45654647 original size:114 final size:112
Alignment explanation
Indices: 45654465--45654786 Score: 485
Period size: 114 Copynumber: 2.9 Consensus size: 112
45654455 CGTTTTCCAA
* * * * *
45654465 AAAGCGCCGC-AAAAAACCTAAGCCCAACGACACCGTTTTCAGAGTTTTTGGGGATTTAGCGACG
1 AAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTT--GTGGTTTTGGGGATTTAGCGGCG
45654529 TTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
64 TTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
* *
45654578 AAAGCGTCGCAAAAAAACATAAGTCCAACGACGCCGTTTTGTGGGCTTTTGGGGATTTAGCGGCG
1 AAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGT-GG-TTTTGGGGATTTAGCGGCG
45654643 TTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
64 TTTTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
45654692 AAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGT-G----GGGGATTTAGCGGCGTT
1 AAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGTTTTGGGGATTTAGCGGCGTT
* *
45654752 TTTAAGAAAGCGCCACTAATGCTCAGGGCTTTAGC
66 TTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGC
45654787 AGCGCTTTGT
Statistics
Matches: 195, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
107 50 0.26
112 2 0.01
113 10 0.05
114 133 0.68
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (112 bp):
AAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTGTGGTTTTGGGGATTTAGCGGCGTT
TTTAAGAAAGCGCCGCTAATGGTCAGGGCTTTAGCGGCGTTTTTGAG
Found at i:45654994 original size:73 final size:71
Alignment explanation
Indices: 45654851--45655019 Score: 257
Period size: 73 Copynumber: 2.4 Consensus size: 71
45654841 TGCTTAGTGT
* * * *
45654851 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAATAAGCCCAACGACACTGTTTTGTGGGCTTT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAATAAGCCAAACGACACCGTTTTGTGAGCTTT
*
45654916 TGGGGA
66 CGGGGA
*
45654922 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGC-AAAAAA-ATAAGCCAAACGACACCGTTTTGTGAGCT
45654987 TTCGGGGA
64 TTCGGGGA
*
45654995 TTTAGCGGCGTTTTTAAGAAGGCGC
1 TTTAGCGGCGTTTTTAAGAAAGCGC
45655020 TGCTAATGCT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
71 27 0.30
72 6 0.07
73 56 0.63
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (71 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAATAAGCCAAACGACACCGTTTTGTGAGCTTT
CGGGGA
Found at i:45655068 original size:114 final size:114
Alignment explanation
Indices: 45654922--45655133 Score: 370
Period size: 114 Copynumber: 1.9 Consensus size: 114
45654912 CTTTTGGGGA
45654922 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCT
*
45654987 TTCGGGGATTTAGCGGCGTTTTTAAGAAGGCGCTGCTAATGCTTAAGGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCTGCTAATGCTTAAGGC
* * * * *
45655036 TTTAGCGGCGTTTTTGAGTAAGCGCCGCAAAAAAACCTAATCCCAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCT
45655101 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
66 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
45655134 CGCAAAAAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 92 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCT
TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCTGCTAATGCTTAAGGC
Found at i:45655157 original size:73 final size:73
Alignment explanation
Indices: 45655036--45655190 Score: 265
Period size: 73 Copynumber: 2.1 Consensus size: 73
45655026 TGCTTAAGGC
* * * * *
45655036 TTTAGCGGCGTTTTTGAGTAAGCGCCGCAAAAAAACCTAATCCCAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCT
45655101 TTCGGGGA
66 TTCGGGGA
45655109 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCT
45655174 TTCGGGGA
66 TTCGGGGA
45655182 TTTAGCGGC
1 TTTAGCGGC
45655191 CAAAAAAATA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCT
TTCGGGGA
Found at i:45655408 original size:8 final size:7
Alignment explanation
Indices: 45655393--45655426 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
45655383 GATTTAAGGT
45655393 TTAGGGG
1 TTAGGGG
45655400 TTAGAGGG
1 TTAG-GGG
45655408 TTAGGGG
1 TTAGGGG
45655415 TTTAGGGG
1 -TTAGGGG
45655423 TTAG
1 TTAG
45655427 ACGTGCTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:45655413 original size:15 final size:15
Alignment explanation
Indices: 45655372--45655426 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
45655362 AGTTTATGGA
*
45655372 TTAGGGGTT-GGGAT
1 TTAGGGGTTAGGGGT
* *
45655386 TTAAGGTTTAGGGG-
1 TTAGGGGTTAGGGGT
45655400 TTAGAGGGTTAGGGGT
1 TTAG-GGGTTAGGGGT
45655416 TTAGGGGTTAG
1 TTAGGGGTTAG
45655427 ACGTGCTAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 10 0.30
15 19 0.58
16 4 0.12
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.35
Consensus pattern (15 bp):
TTAGGGGTTAGGGGT
Found at i:45655754 original size:14 final size:15
Alignment explanation
Indices: 45655719--45655760 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
45655709 TATTTTAAGG
*
45655719 TTTAGGGAGTATGAA
1 TTTAGGGATTATGAA
45655734 TTTAGGGATTATGAA
1 TTTAGGGATTATGAA
45655749 -TTAGGGATTATG
1 TTTAGGGATTATG
45655761 GTTTAAGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
TTTAGGGATTATGAA
Found at i:45655851 original size:15 final size:14
Alignment explanation
Indices: 45655777--45655846 Score: 63
Period size: 15 Copynumber: 4.9 Consensus size: 14
45655767 GTGTTGGGAT
45655777 TTAAGGTTTAGGGG
1 TTAAGGTTTAGGGG
*
45655791 TTAGGGGTTTAGGGG
1 TTA-AGGTTTAGGGG
* *
45655806 TTGATG-TTAGGGG
1 TTAAGGTTTAGGGG
*
45655819 TTAAGAG-TTAGGGAT
1 TTAAG-GTTTAGGG-G
45655834 TTAAGGTTTAGGG
1 TTAAGGTTTAGGG
45655847 ATTTAGGGGC
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
13 10 0.22
14 12 0.27
15 23 0.51
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (14 bp):
TTAAGGTTTAGGGG
Found at i:45656635 original size:137 final size:137
Alignment explanation
Indices: 45656429--45656699 Score: 440
Period size: 137 Copynumber: 2.0 Consensus size: 137
45656419 AATTTTTAGC
* * ** *
45656429 ATAGCAAAACGGCGTCAGTTTTTTCAAAATGAAATAATATTTTGGGGCGTTTTTATGGAAAACGC
1 ATAGCAAAACAGCGTCAGTTTTTTCAAAATGAAATAATATTTTGCGGCGTTTTTATAAAAAACAC
45656494 CGCAAAAGATAAGCAATAGCGGCGTTTTCTA-T-AAAAACGCCGCAAAAAATAAATCAATTTATA
66 CGCAAAAGATAAGCAATAGCGGCGTTTT-TATTAAAAAACGCCGCAAAAAATAAATCAATTT-TA
45656557 AAAAATAAA
129 AAAAATAAA
45656566 ATAGCAAAACAGCGTCA-TTTTGTTCAAAATGAAATAATATTTTGCGGCGTTTTTATAAAAAACA
1 ATAGCAAAACAGCGTCAGTTTT-TTCAAAATGAAATAATATTTTGCGGCGTTTTTATAAAAAACA
45656630 CCGCAAAAGATAAGCAATAGCGGCGTTTTTATTAAAAAAACGCCGCAAAAAATAAATCAATTTTA
65 CCGCAAAAGATAAGCAATAGCGGCGTTTTTATT-AAAAAACGCCGCAAAAAATAAATCAATTTTA
45656695 AAAAA
129 AAAAA
45656700 ATCAAAAAAA
Statistics
Matches: 125, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
136 6 0.05
137 84 0.67
138 7 0.06
139 28 0.22
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (137 bp):
ATAGCAAAACAGCGTCAGTTTTTTCAAAATGAAATAATATTTTGCGGCGTTTTTATAAAAAACAC
CGCAAAAGATAAGCAATAGCGGCGTTTTTATTAAAAAACGCCGCAAAAAATAAATCAATTTTAAA
AAATAAA
Found at i:45656763 original size:104 final size:105
Alignment explanation
Indices: 45656645--45656958 Score: 421
Period size: 104 Copynumber: 3.0 Consensus size: 105
45656635 AAAGATAAGC
*
45656645 AATAGCGGCGTTTTTATTAAAAAAACGCCGCAAAAAATAAATCAATTT-TAAAAAAATCAAAAAA
1 AATAGCGGCGTTTTTATTAAAAAAACGCCGCAAAAAATAAATCAATTTAT-AAAAAATAAAAAAA
*
45656709 AAA-TTGGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
65 AAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
* * *
45656749 AATAGCGGCG-TTTT-TTATAAAAATGCCACAAAAAATAAATCAATTTACTAAAAAATAAAAAAA
1 AATAGCGGCGTTTTTATTAAAAAAACGCCGCAAAAAATAAATCAATTTA-TAAAAAATAAAAAAA
*
45656812 AAATTTAGCATAGCAAAACGACGTCATTTTGTTCAAAATGA
65 AAATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
* *
45656853 AATGGTAGG-GTTTTTA-T-AAAAAACGCCGC-AAAAATAAATCAATTTATAAAAAATAAAATAA
1 AATAG-CGGCGTTTTTATTAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAT-AAA-AA
*
45656914 AAAAATTTTAGAATAGCAAAACGGCGT-AGTTTTGTTCAAAATGA
63 AAAAA-TTTAGCATAGCAAAACGGCGTCA-TTTTGTTCAAAATGA
45656958 A
1 A
45656959 TTTTTTTTGC
Statistics
Matches: 187, Mismatches: 13, Indels: 19
0.85 0.06 0.09
Matches are distributed among these distances:
102 37 0.20
103 40 0.21
104 68 0.36
105 42 0.22
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.26
Consensus pattern (105 bp):
AATAGCGGCGTTTTTATTAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAAAAAA
AATTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGA
Found at i:45661102 original size:43 final size:43
Alignment explanation
Indices: 45661023--45661140 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
45661013 TTTTTGCTAC
* *
45661023 AAGCGTCGCTGAAGGT-TTGTTCGTTT-GCGGCATTTGT-GAAA
1 AAGCGTCGCTAAAGGTCTTGTTC-TTTAGCGGCGTTTGTGGAAA
* * *
45661064 GAAGCGTTGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAA
1 -AAGCGTCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAA
* *
45661108 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCG
1 AAGCGTCGCTAAAGGTCTTGTTCTTTAGCGGCG
45661141 CTAAGAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 17 0.27
43 44 0.69
44 3 0.05
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (43 bp):
AAGCGTCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGAAA
Found at i:45663388 original size:8 final size:8
Alignment explanation
Indices: 45663377--45663487 Score: 55
Period size: 8 Copynumber: 13.6 Consensus size: 8
45663367 AAGTTATTAT
45663377 TAAATATA
1 TAAATATA
*
45663385 TAAA-ATG
1 TAAATATA
*
45663392 TAAATTTA
1 TAAATATA
*
45663400 TAAAATATT
1 T-AAATATA
***
45663409 TAAGCCTA
1 TAAATATA
45663417 TAATATATA
1 TAA-ATATA
45663426 TAAATATA
1 TAAATATA
45663434 TAAA-ACGTA
1 TAAATA--TA
** *
45663443 TAGGTTTA
1 TAAATATA
45663451 TAAATATA
1 TAAATATA
*
45663459 TATATATA
1 TAAATATA
*
45663467 TATATATA
1 TAAATATA
* *
45663475 TATATTTA
1 TAAATATA
45663483 TAAAT
1 TAAAT
45663488 TCTTACTTCA
Statistics
Matches: 76, Mismatches: 21, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
7 7 0.09
8 54 0.71
9 15 0.20
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (8 bp):
TAAATATA
Found at i:45663463 original size:4 final size:4
Alignment explanation
Indices: 45663449--45663484 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
45663439 CGTATAGGTT
* *
45663449 TATA AATA TATA TATA TATA TATA TATA TATT TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA
45663485 AATTCTTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:45663463 original size:6 final size:6
Alignment explanation
Indices: 45663449--45663484 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
45663439 CGTATAGGTT
* *
45663449 TATAAA TATATA TATATA TATATA TATATA TTTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA
45663485 AATTCTTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATA
Found at i:45663923 original size:20 final size:20
Alignment explanation
Indices: 45663898--45663935 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45663888 ACGGGATAGT
*
45663898 TGATGTGGCAAGTTAACTGC
1 TGATGTGACAAGTTAACTGC
*
45663918 TGATGTGACCAGTTAACT
1 TGATGTGACAAGTTAACT
45663936 TGTCACGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (20 bp):
TGATGTGACAAGTTAACTGC
Found at i:45664129 original size:3 final size:3
Alignment explanation
Indices: 45664116--45664146 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
45664106 ATGTCTTTGC
*
45664116 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
45664147 GGCTCTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:45665164 original size:21 final size:21
Alignment explanation
Indices: 45665138--45665190 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
45665128 GCCTGTGGCC
45665138 CCGTCGACGGAGGACCCTTCG
1 CCGTCGACGGAGGACCCTTCG
* *
45665159 CCGTCGACGGAGGACCTTTTG
1 CCGTCGACGGAGGACCCTTCG
*
45665180 CCGTCGTCGGA
1 CCGTCGACGGA
45665191 ATCAGGCCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.13, C:0.34, G:0.34, T:0.19
Consensus pattern (21 bp):
CCGTCGACGGAGGACCCTTCG
Found at i:45667260 original size:8 final size:8
Alignment explanation
Indices: 45667247--45667271 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
45667237 TTCAATTCTC
45667247 GACACTAA
1 GACACTAA
45667255 GACACTAA
1 GACACTAA
45667263 GACACTAA
1 GACACTAA
45667271 G
1 G
45667272 TAATCAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.12
Consensus pattern (8 bp):
GACACTAA
Found at i:45672488 original size:9 final size:9
Alignment explanation
Indices: 45672469--45672513 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
45672459 ATTATGTAGT
45672469 GGTTCAATTC
1 GGTT-AATTC
45672479 GGTTAATTC
1 GGTTAATTC
45672488 GGTTAATTC
1 GGTTAATTC
*
45672497 GATTAATTC
1 GGTTAATTC
*
45672506 GGGTAATT
1 GGTTAATT
45672514 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 28 0.88
10 4 0.12
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.42
Consensus pattern (9 bp):
GGTTAATTC
Found at i:45674186 original size:25 final size:25
Alignment explanation
Indices: 45674158--45674213 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
45674148 CTCGTTTATT
* **
45674158 GCTCTTCGGAGCTT-TCTGATATTTG
1 GCTCTTCGAAGCTTCTC-GATAAATG
45674183 GCTCTTCGAAGCTTCTCGATAAATG
1 GCTCTTCGAAGCTTCTCGATAAATG
45674208 GCTCTT
1 GCTCTT
45674214 ATGAGCTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.39
Consensus pattern (25 bp):
GCTCTTCGAAGCTTCTCGATAAATG
Found at i:45676501 original size:20 final size:20
Alignment explanation
Indices: 45676472--45676509 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45676462 GTACATTATA
45676472 TATTAATTATTATCATATGT
1 TATTAATTATTATCATATGT
* *
45676492 TATTATTTATTATTATAT
1 TATTAATTATTATCATAT
45676510 TGGTTGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TATTAATTATTATCATATGT
Found at i:45676726 original size:115 final size:117
Alignment explanation
Indices: 45676603--45676820 Score: 289
Period size: 118 Copynumber: 1.9 Consensus size: 117
45676593 ATTATATAAT
* * *
45676603 ATATTAATAATTTATATATATGCATCGATGATTAAACA-T-T-ATATCATGTAATATTATATCTT
1 ATATTAATAATTTATATATATGCATCAATGACTAAACATTATAATATCATGTAATACTATATCTT
* *
45676665 TTATTATAATCTATATTATAATAATAGTTATATATGTATTAATATTTTTAGTA
66 TTATTATAACCTATAGTATAATAATAGTTATATA-GTATTAATATTTTTAGTA
* * * * * * * *
45676718 ATATTAATAGTTTATATGTGTGTATTAATTACTAAACATTATAATATTATGTAATACTGTATCTT
1 ATATTAATAATTTATATATATGCATCAATGACTAAACATTATAATATCATGTAATACTATATCTT
45676783 TTATTATAACCTATAGTATAATAATAGTTATATAGTAT
66 TTATTATAACCTATAGTATAATAATAGTTATATAGTAT
45676821 AGTAGTACAT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
115 30 0.34
116 1 0.01
117 5 0.06
118 51 0.59
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (117 bp):
ATATTAATAATTTATATATATGCATCAATGACTAAACATTATAATATCATGTAATACTATATCTT
TTATTATAACCTATAGTATAATAATAGTTATATAGTATTAATATTTTTAGTA
Found at i:45676851 original size:17 final size:17
Alignment explanation
Indices: 45676829--45676864 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45676819 ATAGTAGTAC
45676829 ATTATATAGTACATATT
1 ATTATATAGTACATATT
* *
45676846 ATTATATATTATATATT
1 ATTATATAGTACATATT
45676863 AT
1 AT
45676865 AGTTTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTATATAGTACATATT
Found at i:45684977 original size:17 final size:17
Alignment explanation
Indices: 45684942--45684979 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
45684932 TTTTTATATT
*
45684942 TTTTTTAAAAATTATAA
1 TTTTTTAAAAATTAAAA
45684959 TTTTTTAAAAA-TACAAA
1 TTTTTTAAAAATTA-AAA
45684976 TTTT
1 TTTT
45684980 AGAATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTTTAAAAATTAAAA
Found at i:45685026 original size:20 final size:19
Alignment explanation
Indices: 45684994--45685044 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
45684984 TATTTATAAA
45684994 TATTTTGAATTTT-AAAATT
1 TATTTTGAATTTTGAAAA-T
*
45685013 TATTTTTAATTTTTGAAAAT
1 TATTTTGAA-TTTTGAAAAT
45685033 TATTTTG-ATTTT
1 TATTTTGAATTTT
45685045 TTTTTGTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 4 0.14
19 9 0.32
20 11 0.39
21 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
TATTTTGAATTTTGAAAAT
Found at i:45685046 original size:20 final size:19
Alignment explanation
Indices: 45684994--45685045 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
45684984 TATTTATAAA
*
45684994 TATTTTGAATTTTAAAATT
1 TATTTTGATTTTTAAAATT
*
45685013 TATTTTTAATTTTTGAAAA-T
1 TA-TTTTGATTTTT-AAAATT
45685033 TATTTTGATTTTT
1 TATTTTGATTTTT
45685046 TTTTGTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 12 0.43
21 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
TATTTTGATTTTTAAAATT
Found at i:45687908 original size:24 final size:25
Alignment explanation
Indices: 45687872--45687920 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
45687862 ACAAATTAAA
* *
45687872 ATAATAATTTAATATATTTTAAAACC
1 ATAATAA-TTAATAAATTTAAAAACC
45687898 ATAATAA-TAATAAATTTAAAAAC
1 ATAATAATTAATAAATTTAAAAAC
45687921 ACCCTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
26 7 0.33
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATAATTAATAAATTTAAAAACC
Found at i:45688737 original size:16 final size:17
Alignment explanation
Indices: 45688709--45688742 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
45688699 AAAAGGAAAG
*
45688709 AAGAAAAATAGAATCGA
1 AAGAAAAATAGAACCGA
45688726 AAGAAAAA-AGAACCGA
1 AAGAAAAATAGAACCGA
45688742 A
1 A
45688743 TCGGAAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.68, C:0.09, G:0.18, T:0.06
Consensus pattern (17 bp):
AAGAAAAATAGAACCGA
Found at i:45688752 original size:22 final size:22
Alignment explanation
Indices: 45688704--45688760 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 22
45688694 GAACAAAAAG
45688704 GAAAGAAGAAAA-ATA--GAATC
1 GAAAGAAGAAAAGA-ACCGAATC
45688724 GAAAGAA-AAAAGAACCGAATC
1 GAAAGAAGAAAAGAACCGAATC
45688745 GGAAAGAAGAAAAGAA
1 -GAAAGAAGAAAAGAA
45688761 AAACTTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
19 5 0.16
20 8 0.25
21 5 0.16
22 7 0.22
23 7 0.22
ACGTcount: A:0.65, C:0.07, G:0.23, T:0.05
Consensus pattern (22 bp):
GAAAGAAGAAAAGAACCGAATC
Found at i:45689627 original size:100 final size:100
Alignment explanation
Indices: 45689505--45689991 Score: 335
Period size: 100 Copynumber: 4.9 Consensus size: 100
45689495 ACACGTAACC
** * ** ** * *
45689505 TTAATCTGCTTAACTGTGATGTCGGGGAAGTGAGATTTGCTATTGTAGCTTCAATTTGTTCCACT
1 TTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCAC-
*
45689570 GG-ACCG-CTTGGG-GAGTAAGATTCGCTGTTGTAGCT
65 GGTACCGTC-TGGGAG-GTAAGATTCGCTATTGTAGCT
* * *
45689605 TTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACG
1 TTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACG
* *
45689670 GTATCGTCTGGGAGGTAAGATTCGCTATTGTAGGT
66 GTACCGTCTGGGAGGTAAGATTCGCTATTGTAGCT
* * * *
45689705 TTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCAC
1 TTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACC-ATTGTAGCTTCAATCTGTTCCAC
* * * * * *** *
45689769 --TACATTGCCTTGGAAGTAGGATTCGCCGCTGTGGCT
65 GGTAC--CGTCTGGGAGGTAAGATTCGCTATTGTAGCT
* * * *
45689805 TTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCAC
1 TTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACC-ATTGTAGCTTCAATCTGTTCCAC
** * * *** * * * *** *
45689869 TATACTGCCAAAGAAGTAGGATTCACCGCTGTGGCT
65 GGTACCGTCTGGGAGGTAAGATTCGCTATTGTAGCT
* ** * * *
45689905 TTAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTATTCCAC
1 TTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACC-ATTGTAGCTTCAATCTGTTCCAC
* * *
45689969 TGTATCG-CTTGGGAGATAAGATT
65 GGTACCGTC-TGGGAGGTAAGATT
45689992 TGTAATTCTT
Statistics
Matches: 330, Mismatches: 48, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
98 2 0.01
99 3 0.01
100 320 0.97
101 2 0.01
102 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (100 bp):
TTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCACG
GTACCGTCTGGGAGGTAAGATTCGCTATTGTAGCT
Found at i:45689640 original size:50 final size:50
Alignment explanation
Indices: 45689602--45689970 Score: 303
Period size: 50 Copynumber: 7.4 Consensus size: 50
45689592 CGCTGTTGTA
* * *
45689602 GCTTTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCGTTGTG
1 GCTTTAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * ** * * * * *
45689652 GCTTTAATCTGTTCCAC-GGTATCGTCTGGGAGGTAAGATTC-GCTATTGTAG
1 GCTTTAATCTTTTCAACTGCAAT-GTCGGGGAAGCAAGATTCACCGA-TGT-G
*
45689703 G-TTTAATCTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
1 GCTTTAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * * * * ** * * * *
45689752 GCTTTAATCTGTTCCACTACATTGCCTTGGAAGTAGGATTCGCCGCTGTG
1 GCTTTAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* *
45689802 GCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGATGTG
1 GCTTTAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * ** * * *** * * *
45689852 GCTTTAATCTGTTCCACTATACTGCCAAAGAAGTAGGATTCACCGCTGTG
1 GCTTTAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * *
45689902 GCTTTAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGATGTG
1 GCTTTAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* *
45689952 GCTTTAATCTATTCCACTG
1 GCTTTAATCTTTTCAACTG
45689971 TATCGCTTGG
Statistics
Matches: 238, Mismatches: 75, Indels: 12
0.73 0.23 0.04
Matches are distributed among these distances:
49 6 0.03
50 225 0.95
51 7 0.03
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (50 bp):
GCTTTAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
Found at i:45689854 original size:200 final size:200
Alignment explanation
Indices: 45689583--45689969 Score: 537
Period size: 200 Copynumber: 1.9 Consensus size: 200
45689573 CCGCTTGGGG
* * * * *
45689583 AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCGT
1 AGTAAGATTCGCCGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGA
* *** * * * *
45689648 TGTGGCTTTAATCTGTTCCACGGTAT-C-GTCTGGGAGGTAAGATTCGCTATTGTAGG-TTTAAT
66 TGTGGCTTTAATCTGTTCCAC--TATACTGCCAAAGAAGTAAGATTCACCACTGT-GGCTTTAAT
* *
45689710 CTTTTGAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTACATT
128 CTTTTGAACTACAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTACATT
45689775 GCCTTGGA
193 GCCTTGGA
* *
45689783 AGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGA
1 AGTAAGATTCGCCGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGA
* *
45689848 TGTGGCTTTAATCTGTTCCACTATACTGCCAAAGAAGTAGGATTCACCGCTGTGGCTTTAATCTT
66 TGTGGCTTTAATCTGTTCCACTATACTGCCAAAGAAGTAAGATTCACCACTGTGGCTTTAATCTT
* *
45689913 TTTAATTACAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACT
131 TTGAACTACAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACT
45689970 GTATCGCTTG
Statistics
Matches: 163, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
198 3 0.02
199 3 0.02
200 157 0.96
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (200 bp):
AGTAAGATTCGCCGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGA
TGTGGCTTTAATCTGTTCCACTATACTGCCAAAGAAGTAAGATTCACCACTGTGGCTTTAATCTT
TTGAACTACAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTACATTGCC
TTGGA
Found at i:45690104 original size:44 final size:44
Alignment explanation
Indices: 45690049--45690718 Score: 135
Period size: 44 Copynumber: 14.6 Consensus size: 44
45690039 GATGCGATCT
* *
45690049 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
1 ACTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCC
* * ** * *
45690093 ACTCCACTGTAATCTT-AGGGAGATAGGATTAC-TGGTTTCAATCT
1 ACTCCACTGTAA-CTTCAGGGAGATAAGA-TCCTTTATTTTAATCC
* * * * * *
45690137 GCTCCGCTGTAA-TCTCAGGGAGATAAGATTTCTGGCTTCAATCTGACGCGATCT
1 ACTCCACTGTAACT-TCAGGGAGATAAGA--TC---CTT-TATTTTA----ATCC
* *
45690191 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
1 ACTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCC
* * * * *
45690235 GCTCCACTGTAA-TCTCAGGGAGATAAGAT--TACTAGCTTCAATCT
1 ACTCCACTGTAACT-TCAGGGAGATAAGATCCT-TTA-TTTTAATCC
* * * ** *
45690279 GCTCCGCTGTAA-TCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCT
1 ACTCCACTGTAACT-TCAGGGAGATAAGA--TC---CTT-TAT-T--T-TAATCC
* ** *
45690333 ACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCT
1 ACTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCC
* * ** * * * *
45690377 GCTCCACTGTAACTTCAGGGAGATAGGATAGTGT-CTTCAATCT
1 ACTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCC
* * * ** *
45690420 GCTCCGCTGTAA-TCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCT
1 ACTCCACTGTAACT-TCAGGGAGATAAGA--TC---CTT-TAT-T--T-TAATCC
** * *
45690474 ACTTTACTGTAACTTCAGTGAGATAAGATCCTTTATTTTAATAC
1 ACTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCC
* * * ** * * * *
45690518 GCTCCACTCTAACTTCAGGGAGATAGGATAGTGT-CTTCAATCT
1 ACTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCC
* * ** *** *
45690561 GCTCCGCTGTAATCTT-AGGGAGATAAGATCTCTGAAAATCTTCGGTCT
1 ACTCCACTGTAA-CTTCAGGGAGATAAGATC-CT--TTAT-TTTAATCC
* * *** *
45690609 ACTCCACTGTAACCTCAGGGAGATAAGA-CC-TGA-TGCGATCT
1 ACTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCC
* ** * * *
45690650 ACTCTACTGTAACTTCAAAGAGATAAGATCATTTATTTAAATCT
1 ACTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCC
* *
45690694 GCTCCACTGTAACTTTAGGGAGATA
1 ACTCCACTGTAACTTCAGGGAGATA
45690719 GGATAGTGTC
Statistics
Matches: 456, Mismatches: 116, Indels: 108
0.67 0.17 0.16
Matches are distributed among these distances:
41 30 0.07
42 4 0.01
43 65 0.14
44 196 0.43
45 10 0.02
46 2 0.00
47 5 0.01
48 38 0.08
49 10 0.02
50 3 0.01
51 4 0.01
52 6 0.01
53 2 0.00
54 78 0.17
55 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
ACTCCACTGTAACTTCAGGGAGATAAGATCCTTTATTTTAATCC
Found at i:45690298 original size:142 final size:141
Alignment explanation
Indices: 45690037--45690594 Score: 917
Period size: 142 Copynumber: 3.9 Consensus size: 141
45690027 GAGATAATAC
*
45690037 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
45690102 TAATCTT-AGGGAGATAGGATTACTGGT-TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
66 TAA-CTTCAGGGAGATAGGA-TACT-GTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
45690165 TTTCTGGCTTCAAT
128 TTTCTGGCTTCAAT
*
45690179 CTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
45690244 TAA-TCTCAGGGAGATAAGATTACTAG-CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
66 TAACT-TCAGGGAGATAGGA-TACT-GTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
45690307 TTTCTGGCTTCAAT
128 TTTCTGGCTTCAAT
* *
45690321 CTGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
45690386 TAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
66 TAACTTCAGGGAGATAGGATACTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
45690451 CTGGCTTCAAT
131 CTGGCTTCAAT
* * * *
45690462 CTGATGCGATCTACTTTACTGTAACTTCAGTGAGATAAGATCCTTTATTTTAATACGCTCCACTC
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* * *
45690527 TAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATCT
66 TAACTTCAGGGAGATAGGATACTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
45690592 CTG
131 CTG
45690595 AAAATCTTCG
Statistics
Matches: 394, Mismatches: 17, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
140 2 0.01
141 180 0.46
142 211 0.54
143 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (141 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAACTTCAGGGAGATAGGATACTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
CTGGCTTCAAT
Found at i:45690660 original size:176 final size:174
Alignment explanation
Indices: 45690462--45690778 Score: 519
Period size: 176 Copynumber: 1.8 Consensus size: 174
45690452 TGGCTTCAAT
* ** * *
45690462 CTGATGCGATCTACTTTACTGTAACTTCAGTGAGATAAGATCCTTTATTTTAATAC-GCTCCACT
1 CTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCATTTATTTAAAT-CTGCTCCACT
*
45690526 CTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATC
65 CTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA--
45690591 TCTGAAAATCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
128 TCTGAAAATCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
*
45690638 CTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCATTTATTTAAATCTGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCATTTATTTAAATCTGCTCCACTC
* *
45690703 TAACTTTAGGGAGATAGGATAGTGTCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCT
66 TAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
45690768 GAAAATCTTCG
131 GAAAATCTTCG
45690779 ATGGTCTGTT
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
174 14 0.11
175 1 0.01
176 116 0.89
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (174 bp):
CTGATGCGATCTACTCTACTGTAACTTCAAAGAGATAAGATCATTTATTTAAATCTGCTCCACTC
TAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT
GAAAATCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
Found at i:45692004 original size:7 final size:7
Alignment explanation
Indices: 45691992--45692045 Score: 76
Period size: 7 Copynumber: 8.0 Consensus size: 7
45691982 TTAGCCTCTC
45691992 CATTTTT
1 CATTTTT
45691999 CA-TTTT
1 CATTTTT
45692005 CATTTTT
1 CATTTTT
45692012 CATTTTT
1 CATTTTT
*
45692019 CA-TTCT
1 CATTTTT
*
45692025 CATTTTC
1 CATTTTT
45692032 CATTTTT
1 CATTTTT
45692039 CATTTTT
1 CATTTTT
45692046 TTTGACTCAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 11 0.27
7 30 0.73
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:45692006 original size:6 final size:6
Alignment explanation
Indices: 45691995--45692044 Score: 55
Period size: 6 Copynumber: 7.7 Consensus size: 6
45691985 GCCTCTCCAT
*
45691995 TTTTCA TTTTCA TTTTTCA TTTTTCA TTCTCA TTTTCCA TTTTTCA TTTT
1 TTTTCA TTTTCA -TTTTCA -TTTTCA TTTTCA TTTT-CA -TTTTCA TTTT
45692045 TTTTGACTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
6 18 0.46
7 17 0.44
8 4 0.10
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTCA
Found at i:45692010 original size:13 final size:13
Alignment explanation
Indices: 45691992--45692044 Score: 72
Period size: 13 Copynumber: 4.0 Consensus size: 13
45691982 TTAGCCTCTC
45691992 CATTTTTCATTTT
1 CATTTTTCATTTT
45692005 CATTTTTCATTTTT
1 CATTTTTCA-TTTT
*
45692019 CA-TTCTCATTTT
1 CATTTTTCATTTT
45692031 CCATTTTTCATTTT
1 -CATTTTTCATTTT
45692045 TTTTGACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 4 0.11
13 16 0.46
14 15 0.43
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.66
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:45692015 original size:20 final size:20
Alignment explanation
Indices: 45691990--45692044 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
45691980 CCTTAGCCTC
45691990 TCCATTTTTCATTTTCATTT
1 TCCATTTTTCATTTTCATTT
* *
45692010 TTCATTTTTCATTCTCATTT
1 TCCATTTTTCATTTTCATTT
45692030 TCCATTTTTCATTTT
1 TCCATTTTTCATTTT
45692045 TTTTGACTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.65
Consensus pattern (20 bp):
TCCATTTTTCATTTTCATTT
Found at i:45703663 original size:15 final size:16
Alignment explanation
Indices: 45703645--45703694 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 16
45703635 TTTTTTAATT
45703645 TAAAAATT-TTAAAAA
1 TAAAAATTATTAAAAA
45703660 TAAAAATTATTAAAAA
1 TAAAAATTATTAAAAA
* *
45703676 GTATAAAAATATAAAAAA
1 -TA-AAAATTATTAAAAA
45703694 T
1 T
45703695 GATATTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 8 0.27
16 7 0.23
17 3 0.10
18 12 0.40
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
TAAAAATTATTAAAAA
Found at i:45704084 original size:15 final size:15
Alignment explanation
Indices: 45704064--45704092 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45704054 TTTATTTAAG
45704064 TAGATAAATCTTAGT
1 TAGATAAATCTTAGT
45704079 TAGATAAATCTTAG
1 TAGATAAATCTTAG
45704093 AATAAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (15 bp):
TAGATAAATCTTAGT
Found at i:45715377 original size:50 final size:50
Alignment explanation
Indices: 45715309--45715429 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
45715299 CCAAATATGA
** * * *
45715309 TCTTACATGGGAGTTCTCATATCGATGCCCATGCAATGTCCTAGACATGG
1 TCTTACATGGGACCTCTCATATCGATGCCAACGCAATGTCCCAGACATGG
* * * *
45715359 TCTTACGA-GGGACCTCTCATCTTGGTGCCAACGCCATGTCCCAGACATGG
1 TCTTAC-ATGGGACCTCTCATATCGATGCCAACGCAATGTCCCAGACATGG
45715409 TCTTACATGGGACCTCTCATA
1 TCTTACATGGGACCTCTCATA
45715430 ACCTCAATAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 1 0.02
50 57 0.97
51 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TCTTACATGGGACCTCTCATATCGATGCCAACGCAATGTCCCAGACATGG
Found at i:45726824 original size:85 final size:85
Alignment explanation
Indices: 45726681--45726854 Score: 339
Period size: 85 Copynumber: 2.0 Consensus size: 85
45726671 AAAAAATAAT
*
45726681 AATAACATAAACGCAACACGAATATACAAATGTCTCCAAACCTATTTAATACAAATTAAATGTGT
1 AATAACATAAACACAACACGAATATACAAATGTCTCCAAACCTATTTAATACAAATTAAATGTGT
45726746 TAAATTTTATATAAATAAAA
66 TAAATTTTATATAAATAAAA
45726766 AATAACATAAACACAACACGAATATACAAATGTCTCCAAACCTATTTAATACAAATTAAATGTGT
1 AATAACATAAACACAACACGAATATACAAATGTCTCCAAACCTATTTAATACAAATTAAATGTGT
45726831 TAAATTTTATATAAATAAAA
66 TAAATTTTATATAAATAAAA
45726851 AATA
1 AATA
45726855 CCTTAACCAC
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (85 bp):
AATAACATAAACACAACACGAATATACAAATGTCTCCAAACCTATTTAATACAAATTAAATGTGT
TAAATTTTATATAAATAAAA
Found at i:45732366 original size:32 final size:31
Alignment explanation
Indices: 45732312--45732372 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
45732302 TCATAATTTA
*
45732312 AATTTATTCAAAAAGTATA-AAAAATTAAAATT
1 AATTAATTCAAAAA--ATACAAAAATTAAAATT
*
45732344 AATTAATTTAAAAAATACAAAAATTAAAA
1 AATTAATTCAAAAAATACAAAAATTAAAA
45732373 ATAAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 3 0.12
31 11 0.42
32 12 0.46
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (31 bp):
AATTAATTCAAAAAATACAAAAATTAAAATT
Found at i:45732483 original size:22 final size:22
Alignment explanation
Indices: 45732458--45732509 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
45732448 AATAAATTAT
*
45732458 AAATTAAAAATGCTATAA-CTTG
1 AAATTAAAAAAGCT-TAATCTTG
45732480 AAATTTAAAAAAGCTTAATCTTG
1 AAA-TTAAAAAAGCTTAATCTTG
*
45732503 GAATTAA
1 AAATTAA
45732510 GCCAAAGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.33
Consensus pattern (22 bp):
AAATTAAAAAAGCTTAATCTTG
Found at i:45734725 original size:12 final size:12
Alignment explanation
Indices: 45734708--45734750 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
45734698 AGCATTAAGA
45734708 TCTTTACTTTCT
1 TCTTTACTTTCT
*
45734720 TCTTTAC-TT-A
1 TCTTTACTTTCT
45734730 TCTTTACTTTCT
1 TCTTTACTTTCT
45734742 TCTTTACTT
1 TCTTTACTT
45734751 ACTCTCTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 7 0.26
11 4 0.15
12 16 0.59
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (12 bp):
TCTTTACTTTCT
Found at i:45734732 original size:22 final size:22
Alignment explanation
Indices: 45734707--45734761 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 22
45734697 AAGCATTAAG
45734707 ATCTTTACTTTCTTCTTTACTT
1 ATCTTTACTTTCTTCTTTACTT
45734729 ATCTTTACTTTCTTCTTTACTT
1 ATCTTTACTTTCTTCTTTACTT
45734751 ACTCTCTTACT
1 A-TCT-TTACT
45734762 CGTTTACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 23 0.74
23 3 0.10
24 5 0.16
ACGTcount: A:0.15, C:0.25, G:0.00, T:0.60
Consensus pattern (22 bp):
ATCTTTACTTTCTTCTTTACTT
Found at i:45734771 original size:12 final size:11
Alignment explanation
Indices: 45734708--45734773 Score: 59
Period size: 12 Copynumber: 6.1 Consensus size: 11
45734698 AGCATTAAGA
*
45734708 TCTTTACTTTC
1 TCTTTACTTAC
45734719 TTCTTTACTTA-
1 -TCTTTACTTAC
*
45734730 TCTTTACTTTC
1 TCTTTACTTAC
45734741 TTCTTTACTTAC
1 -TCTTTACTTAC
45734753 TC--T-CTTAC
1 TCTTTACTTAC
45734761 TCGTTTACTTAC
1 TC-TTTACTTAC
45734773 T
1 T
45734774 TGCTTGCTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
8 7 0.16
9 1 0.02
10 9 0.20
11 3 0.07
12 25 0.56
ACGTcount: A:0.14, C:0.26, G:0.02, T:0.59
Consensus pattern (11 bp):
TCTTTACTTAC
Found at i:45735092 original size:50 final size:50
Alignment explanation
Indices: 45735013--45735262 Score: 261
Period size: 50 Copynumber: 4.9 Consensus size: 50
45735003 TTTCTTGTAC
* * * * ** * *
45735013 TGCCAATGTCATATCACAGATATGGTCTTACATGGGAGTTCTCATATAAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * ** *
45735063 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTTATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
45735113 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
45735163 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---AG
* *
45735219 TGCTAATGCCATGTCCCAGACATGGTCATACATGGGA--TCTCATC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC
45735263 CTCTTAATGT
Statistics
Matches: 167, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
50 121 0.72
51 3 0.02
53 5 0.03
54 4 0.02
56 34 0.20
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:45744111 original size:27 final size:27
Alignment explanation
Indices: 45744080--45744207 Score: 166
Period size: 27 Copynumber: 4.7 Consensus size: 27
45744070 CCTAATATTT
* *
45744080 GTAAAATGACTGTAATACCCTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
45744107 GTAAAATAACCGTAATGCCCTTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* * *
45744134 GTAAACTGATCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
45744161 GTAAAATGACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
* *
45744188 GTAAAATGATCATAATACCC
1 GTAAAATGACCGTAATACCC
45744208 GTAGATGGTA
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:45744269 original size:23 final size:23
Alignment explanation
Indices: 45744239--45744282 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
45744229 TGCCCCTCGA
45744239 GGTTAAATGATTGATTTGTCTAT
1 GGTTAAATGATTGATTTGTCTAT
*
45744262 GGTTAAATGGTTGATTTGTCT
1 GGTTAAATGATTGATTTGTCT
45744283 GTGTTTGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.48
Consensus pattern (23 bp):
GGTTAAATGATTGATTTGTCTAT
Found at i:45744325 original size:24 final size:24
Alignment explanation
Indices: 45744273--45744319 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
45744263 GTTAAATGGT
*
45744273 TGATTTGTCTGTGTTTGGTATGAC
1 TGATTTGTCTGTGTTTGGAATGAC
45744297 TGATTTGTCTGTGATTT-GAATGA
1 TGATTTGTCTGTG-TTTGGAATGA
45744320 TCGATTCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.17, C:0.06, G:0.28, T:0.49
Consensus pattern (24 bp):
TGATTTGTCTGTGTTTGGAATGAC
Found at i:45744513 original size:32 final size:32
Alignment explanation
Indices: 45744470--45744642 Score: 188
Period size: 32 Copynumber: 5.5 Consensus size: 32
45744460 GCTGCGATGC
* *
45744470 TACTGATGGCTTTGTGCTGATCATATTAGCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* *
45744502 TGCTGATGGCTTTGTACCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
45744534 TACTGATGACTTTGTGCCGATCATATTATCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * * *
45744566 TACTGATGTCTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
45744598 TATTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
45744629 TACTTATGG-TTTGT
1 TACTGATGGCTTTGT
45744643 AGCCATTCTG
Statistics
Matches: 118, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
30 5 0.04
31 7 0.06
32 106 0.90
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.40
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:45744667 original size:22 final size:22
Alignment explanation
Indices: 45744642--45744696 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
45744632 TTATGGTTTG
*
45744642 TAGCCATTCTGTTTATAGCT-T
1 TAGCCATTCTGTTTACAGCTCT
* * *
45744663 ATAGCTATCCTGTTTACGGCTCT
1 -TAGCCATTCTGTTTACAGCTCT
45744686 TAGCCATTCTG
1 TAGCCATTCTG
45744697 ACTACTAGCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (22 bp):
TAGCCATTCTGTTTACAGCTCT
Found at i:45747123 original size:21 final size:22
Alignment explanation
Indices: 45747077--45747134 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
45747067 TACTGTCTCA
* *
45747077 AATGTTGTGACTTCTAATGTTG
1 AATGTTGCGACTTCTAAGGTTG
45747099 AATGTTGCGA-TTCTAAGGTCT-
1 AATGTTGCGACTTCTAAGGT-TG
*
45747120 AATGTTACGACTTCT
1 AATGTTGCGACTTCT
45747135 TGCTTCTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (22 bp):
AATGTTGCGACTTCTAAGGTTG
Found at i:45749752 original size:136 final size:136
Alignment explanation
Indices: 45749505--45749752 Score: 293
Period size: 136 Copynumber: 1.8 Consensus size: 136
45749495 AATGGGCCTA
* *
45749505 CTCACACAAGCTGTCGGTCGAAACGTAGCTACACGGTGCTGTTCCACAAGCTGTCGAGTATCCAT
1 CTCACACAAGCTGTCGGTCGAAACGTAGCTACACGGTGCTGCTCCACAAGCTGTCGAGTATCCAC
* * ** *
45749570 AACAAATACTAAAACTCAACCATCGGTAAGACATTCAAAACTAGCACTTGAAATATGGTAACCTG
66 AACAAATACGAAAACTCAACCACCGACAAGACATTCAAAACAAGCACTTGAAATATGGTAACCTG
45749635 GGTTTG
131 GGTTTG
* * * * *
45749641 CTCACA-AATGCTGTCGGTCGGAATGTAGCTACACGGTGCTGCTCCACAAGCTGTTGAGTATTCG
1 CTCACACAA-GCTGTCGGTCGAAACGTAGCTACACGGTGCTGCTCCACAAGCTGTCGAGTATCCA
* * * * * * *
45749705 CAACAAATGTCGGAACCT-AGCCACCGACAGGCCATTCAAGACAAGCAC
65 CAACAAAT-ACGAAAACTCAACCACCGACAAGACATTCAAAACAAGCAC
45749753 CCGAAACATA
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
135 2 0.02
136 84 0.92
137 5 0.05
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (136 bp):
CTCACACAAGCTGTCGGTCGAAACGTAGCTACACGGTGCTGCTCCACAAGCTGTCGAGTATCCAC
AACAAATACGAAAACTCAACCACCGACAAGACATTCAAAACAAGCACTTGAAATATGGTAACCTG
GGTTTG
Found at i:45754487 original size:19 final size:19
Alignment explanation
Indices: 45754465--45754535 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
45754455 AAAAATACAA
*
45754465 AAAAATTTAAAATCATTTT
1 AAAAATTCAAAATCATTTT
*
45754484 AAAAATTCAAAATAAATTTT
1 AAAAATTCAAAAT-CATTTT
45754504 -AAAATTCAAAA-CATTTAT
1 AAAAATTCAAAATCATTT-T
45754522 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
45754536 TTATATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
17 4 0.09
18 1 0.02
19 29 0.66
20 10 0.23
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATCATTTT
Found at i:45754560 original size:10 final size:10
Alignment explanation
Indices: 45754545--45754604 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
45754535 TTTATATTTT
45754545 TAAAAAATTA
1 TAAAAAATTA
45754555 T-AAAAATTA
1 TAAAAAATTA
* *
45754564 CAAAAAATTC
1 TAAAAAATTA
*
45754574 TAAAGAATATA
1 TAAAAAAT-TA
*
45754585 TAAAGAAAGT-
1 TAAA-AAATTA
45754595 TAAAAAATTA
1 TAAAAAATTA
45754605 AAATTTTTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
9 12 0.32
10 18 0.47
11 6 0.16
12 2 0.05
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:45754570 original size:19 final size:19
Alignment explanation
Indices: 45754546--45754604 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
45754536 TTATATTTTT
45754546 AAAAAATTATAAAAATTAC
1 AAAAAATTATAAAAATTAC
* *
45754565 AAAAAATTCTAAAGAATATAT
1 AAAAAATTATAAA-AAT-TAC
45754586 AAAGAAAGTTA-AAAAATTA
1 AAA-AAA-TTATAAAAATTA
45754605 AAATTTTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 12 0.36
20 5 0.15
21 8 0.24
22 6 0.18
23 2 0.06
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.25
Consensus pattern (19 bp):
AAAAAATTATAAAAATTAC
Found at i:45755042 original size:20 final size:21
Alignment explanation
Indices: 45755019--45755058 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
45755009 GAAAATTACT
45755019 AAAAAGAGAA-AAAGAAAAGG
1 AAAAAGAGAAGAAAGAAAAGG
* *
45755039 AAAAGGAGAAGAAATAAAAG
1 AAAAAGAGAAGAAAGAAAAG
45755059 ATCTCCAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (21 bp):
AAAAAGAGAAGAAAGAAAAGG
Found at i:45755964 original size:18 final size:19
Alignment explanation
Indices: 45755930--45755978 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
45755920 AATTTTTTAT
*
45755930 TAAATTATTTATGTAA-TA
1 TAAATTATTTATATAATTA
*
45755948 TAAATTATTTTTATAATTA
1 TAAATTATTTATATAATTA
45755967 TATTAATTATTT
1 TA--AATTATTT
45755979 GGATTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 14 0.54
19 4 0.15
21 8 0.31
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TAAATTATTTATATAATTA
Found at i:45756889 original size:23 final size:23
Alignment explanation
Indices: 45756860--45756907 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
45756850 ACCCAATCTA
**
45756860 AACCCAAGTATTCAACCCAACCC
1 AACCCAAGTACCCAACCCAACCC
*
45756883 AACCCAATTACCCAACCCAACCC
1 AACCCAAGTACCCAACCCAACCC
45756906 AA
1 AA
45756908 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.46, G:0.02, T:0.10
Consensus pattern (23 bp):
AACCCAAGTACCCAACCCAACCC
Found at i:45756895 original size:18 final size:18
Alignment explanation
Indices: 45756874--45756908 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
45756864 CAAGTATTCA
45756874 ACCCAACCCAACCCAATT
1 ACCCAACCCAACCCAATT
45756892 ACCCAACCCAACCCAAT
1 ACCCAACCCAACCCAAT
45756909 CATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.51, G:0.00, T:0.09
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:45757024 original size:9 final size:9
Alignment explanation
Indices: 45757010--45757076 Score: 91
Period size: 9 Copynumber: 7.4 Consensus size: 9
45757000 ATAGTGATTC
45757010 AATTCGGTT
1 AATTCGGTT
45757019 AATTCGGTT
1 AATTCGGTT
*
45757028 AATTCGGGT
1 AATTCGGTT
*
45757037 AAGTT-GGCT
1 AA-TTCGGTT
45757046 AATTCGGTT
1 AATTCGGTT
*
45757055 AATTCGATT
1 AATTCGGTT
45757064 AATTCGGTT
1 AATTCGGTT
45757073 AATT
1 AATT
45757077 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
8 2 0.04
9 47 0.92
10 2 0.04
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:45757344 original size:3 final size:3
Alignment explanation
Indices: 45757331--45757367 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
45757321 AAAAAACACA
45757331 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
45757368 CTGTACAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45760883 original size:72 final size:73
Alignment explanation
Indices: 45760768--45760907 Score: 257
Period size: 72 Copynumber: 1.9 Consensus size: 73
45760758 TCAGGTTTTA
45760768 TTAAGAGTTTTAGTTTTACTTATTTTCTCTCTATTATATTAGGTTTTTATTTCCTTCATAAACTT
1 TTAAGAGTTTTAGTTTTACTTATTTTCTCTCTATTATATTAGGTTTTTATTT-CTTCATAAACTT
45760833 TGAGAGTTT
65 TGAGAGTTT
45760842 TTAAGAGTTTTAGTTTTACTTA-TTT-TCTCTATTATATTAGGTTTTTATTTCTTCATAAACTTT
1 TTAAGAGTTTTAGTTTTACTTATTTTCTCTCTATTATATTAGGTTTTTATTTCTTCATAAACTTT
45760905 GAG
66 GAG
45760908 CGTTAGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
71 16 0.24
72 25 0.38
73 3 0.05
74 22 0.33
ACGTcount: A:0.24, C:0.10, G:0.11, T:0.56
Consensus pattern (73 bp):
TTAAGAGTTTTAGTTTTACTTATTTTCTCTCTATTATATTAGGTTTTTATTTCTTCATAAACTTT
GAGAGTTT
Found at i:45763470 original size:37 final size:37
Alignment explanation
Indices: 45763420--45763494 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
45763410 GGAGGAAAAT
*
45763420 GAGAGGATGGGAATTTAGTTGATGGCTATGGTGACTA
1 GAGAGGATGGGAATTTAGTTGATGGCTACGGTGACTA
45763457 GAGAGGATGGGAATTTAGTTGATGGCTACGGTGACTA
1 GAGAGGATGGGAATTTAGTTGATGGCTACGGTGACTA
45763494 G
1 G
45763495 CCTATAATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.07, G:0.39, T:0.28
Consensus pattern (37 bp):
GAGAGGATGGGAATTTAGTTGATGGCTACGGTGACTA
Found at i:45765016 original size:33 final size:33
Alignment explanation
Indices: 45764963--45765108 Score: 130
Period size: 33 Copynumber: 4.4 Consensus size: 33
45764953 ATTGTCTCAA
* * * * *
45764963 CGGAATATCTCTGTTTTGTGTTTGCTATCCCAG
1 CGGACTATCTCTATTATATGTTTACTATCCCAG
** * * *
45764996 CAAACTATCTCTATTATGTGTTCACTATCTCAG
1 CGGACTATCTCTATTATATGTTTACTATCCCAG
* * * *
45765029 TGGACTATCTTTATTATATGTTTATTGTCCCAG
1 CGGACTATCTCTATTATATGTTTACTATCCCAG
* * * *
45765062 CGGACTATCTTTGTTTTATGTTTTCTATCCCAG
1 CGGACTATCTCTATTATATGTTTACTATCCCAG
45765095 CGGACTATCTCTAT
1 CGGACTATCTCTAT
45765109 GGATGCAGTG
Statistics
Matches: 88, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (33 bp):
CGGACTATCTCTATTATATGTTTACTATCCCAG
Found at i:45769609 original size:13 final size:13
Alignment explanation
Indices: 45769568--45769691 Score: 124
Period size: 13 Copynumber: 9.3 Consensus size: 13
45769558 TGATATACAA
*
45769568 AAATGATTATGTG
1 AAATGATTATATG
45769581 TTAAATG-TGTATATG
1 --AAATGAT-TATATG
* *
45769596 AAATGATAAAATG
1 AAATGATTATATG
* *
45769609 AAATGTTTAGATG
1 AAATGATTATATG
* *
45769622 AAATGGTTATACG
1 AAATGATTATATG
45769635 AAATGATTATATG
1 AAATGATTATATG
45769648 AAATGATTATATG
1 AAATGATTATATG
*
45769661 AAATGCTTATATG
1 AAATGATTATATG
*
45769674 AAATGGTTATATAG
1 AAATGATTATAT-G
45769688 AAAT
1 AAAT
45769692 AGATGTATAA
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
13 76 0.82
14 7 0.08
15 10 0.11
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.36
Consensus pattern (13 bp):
AAATGATTATATG
Found at i:45777377 original size:22 final size:21
Alignment explanation
Indices: 45777352--45777395 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
45777342 ATCATACAAC
* *
45777352 ATCATAACATTTAAGGCCCTAA
1 ATCAT-ACATTCAAGACCCTAA
*
45777374 ATCATGCATTCAAGACCCTAA
1 ATCATACATTCAAGACCCTAA
45777395 A
1 A
45777396 AATAGCTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (21 bp):
ATCATACATTCAAGACCCTAA
Found at i:45788620 original size:18 final size:18
Alignment explanation
Indices: 45788593--45788643 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
45788583 GAAAAAAAAC
* *
45788593 AGAAATGAAAAGAAACAG
1 AGAAAAGAAAAGAAACAA
45788611 AGAAAAGAAAAAGAAA-AA
1 AGAAAAG-AAAAGAAACAA
*
45788629 ACAAAAGAAAA-AAAC
1 AGAAAAGAAAAGAAAC
45788644 TGCAAATCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 3 0.11
17 4 0.14
18 13 0.46
19 8 0.29
ACGTcount: A:0.76, C:0.06, G:0.16, T:0.02
Consensus pattern (18 bp):
AGAAAAGAAAAGAAACAA
Found at i:45788629 original size:13 final size:13
Alignment explanation
Indices: 45788600--45788641 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
45788590 AACAGAAATG
* *
45788600 AAAAGAAACAGAG
1 AAAAGAAAAAGAA
45788613 AAAAGAAAAAGAA
1 AAAAGAAAAAGAA
*
45788626 AAAA-CAAAAGAA
1 AAAAGAAAAAGAA
45788638 AAAA
1 AAAA
45788642 ACTGCAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAGAA
Found at i:45789581 original size:52 final size:52
Alignment explanation
Indices: 45789431--45789686 Score: 173
Period size: 50 Copynumber: 5.0 Consensus size: 52
45789421 CTTTAATCTG
** * *
45789431 CTTAACTGTAATGTCGGGGAAGCAAGATTCATCATTGTGGTTTCTATCTGTT
1 CTTAACTGTAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTCAATCTGTT
* * ** * * ** * * *
45789483 C--CACTGCACCGTCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTT
1 CTTAACTGTAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTCAATCTGTT
* *
45789533 CTTAACTGTAGTGTCGGGGAAGCAAGATTCGCCAATGTGGCTTCAATCTGTT
1 CTTAACTGTAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTCAATCTGTT
* * ** * ** * *** * *
45789585 C--CACTGCACCGCCTAGGAAGTAAGATTCGTTGTTGTAGCTTTAATCT-TT
1 CTTAACTGTAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTCAATCTGTT
* * *
45789634 -TTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTT
1 CTTAACTGTAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTCAATCTGTT
45789685 CT
1 CT
45789687 ACTGCACCCT
Statistics
Matches: 147, Mismatches: 51, Indels: 12
0.70 0.24 0.06
Matches are distributed among these distances:
49 2 0.01
50 103 0.70
51 2 0.01
52 40 0.27
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (52 bp):
CTTAACTGTAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTCAATCTGTT
Found at i:45789589 original size:102 final size:99
Alignment explanation
Indices: 45789415--45789794 Score: 474
Period size: 102 Copynumber: 3.8 Consensus size: 99
45789405 AGGATTTAAT
* ** * ** * *
45789415 TTGTAACTTTAATCTGCTTAACTGTAATGTCGGGGAAGCAAGATTCATCATTGTGGTTTCTATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTCAATCT
45789480 GTTCCACTGCACCGTCTGGGAAGTAAGATTCGCTG
66 GTTCCACTGCACCG-CTGGGAAGTAAGATTCGCTG
* * *
45789515 TTGTAGCTTTAATCTTTTCTTAACTGTAGTGTCGGGGAAGCAAGATTCGCCAATGTGGCTTCAAT
1 TTGTAGCTTTAATC-TTT-TTAACTGCAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTCAAT
* *
45789580 CTGTTCCACTGCACCGCCTAGGAAGTAAGATTCGTTG
64 CTGTTCCACTGCACCG-CTGGGAAGTAAGATTCGCTG
* *
45789617 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTCAATCT
* *
45789682 GTTCTACTGCACC-CTGGGAAGTAAGATTCGCTA
66 GTTCCACTGCACCGCTGGGAAGTAAGATTCGCTG
* * * * * * * * * *
45789715 TTGTACCTTTAATCTTTTTAATTACAATGTCAGGGACGTAAGATTCGCCGTTGTAGCTTTAATTT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTCAATCT
45789780 GTTCCACTGCACCGC
66 GTTCCACTGCACCGC
45789795 AATCTTCAAC
Statistics
Matches: 247, Mismatches: 30, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
98 86 0.35
99 1 0.00
100 68 0.28
101 4 0.02
102 88 0.36
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (99 bp):
TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCATTGTGGCTTCAATCT
GTTCCACTGCACCGCTGGGAAGTAAGATTCGCTG
Found at i:45789631 original size:50 final size:50
Alignment explanation
Indices: 45789476--45789793 Score: 262
Period size: 50 Copynumber: 6.4 Consensus size: 50
45789466 TGTGGTTTCT
* *
45789476 ATCTGTTCCACTGCACCGTCTGGGAAGTAAGATTCGCTGTTGTAGCTTTA
1 ATCTGTTCAACTGCACCGTCTGGGAAGTAAGATTCGCCGTTGTAGCTTTA
* * ** * * ** * *
45789526 ATCTTTTCTTAACTGTAGTGTCGGGGAAGCAAGATTCGCCAATGTGGCTTCA
1 ATCTGTTC--AACTGCACCGTCTGGGAAGTAAGATTCGCCGTTGTAGCTTTA
* * * **
45789578 ATCTGTTCCACTGCACCGCCTAGGAAGTAAGATTCGTTGTTGTAGCTTTA
1 ATCTGTTCAACTGCACCGTCTGGGAAGTAAGATTCGCCGTTGTAGCTTTA
* * ** * * *
45789628 ATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTA
1 ATCTGTTCAACTGCACCGTCTGGGAAGTAAGATTCGCCGTTGTAGCTTTA
* ** *
45789678 ATCTGTTCTACTGCACC--CTGGGAAGTAAGATTCGCTATTGTACCTTTA
1 ATCTGTTCAACTGCACCGTCTGGGAAGTAAGATTCGCCGTTGTAGCTTTA
* * * * ** * *
45789726 ATCTTTTTAATTACAATGTCAGGGACGTAAGATTCGCCGTTGTAGCTTTA
1 ATCTGTTCAACTGCACCGTCTGGGAAGTAAGATTCGCCGTTGTAGCTTTA
* *
45789776 ATTTGTTCCACTGCACCG
1 ATCTGTTCAACTGCACCG
45789794 CAATCTTCAA
Statistics
Matches: 194, Mismatches: 70, Indels: 8
0.71 0.26 0.03
Matches are distributed among these distances:
48 35 0.18
50 121 0.62
52 38 0.20
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (50 bp):
ATCTGTTCAACTGCACCGTCTGGGAAGTAAGATTCGCCGTTGTAGCTTTA
Done.