Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 65
Found at i:2052241 original size:28 final size:28
Alignment explanation
Indices: 2052210--2052281 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
2052200 TTATATAAGC
* * *
2052210 TATATATATAAATTATGTTTATGAACTA
1 TATATATATAAACTATGTATATAAACTA
2052238 TATATATATAAACTATGTATATAAACTA
1 TATATATATAAACTATGTATATAAACTA
*
2052266 TATATGTATAAACTAT
1 TATATATATAAACTAT
2052282 AAAAAGTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (28 bp):
TATATATATAAACTATGTATATAAACTA
Found at i:2052259 original size:41 final size:43
Alignment explanation
Indices: 2052152--2052282 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 43
2052142 AATGTAAGTT
*
2052152 TATATATAAACCTATATATATAAAACTTATTTATTACAAACTATA
1 TATATATAAA-CTATATATAT-AAACTTATGTATTACAAACTATA
* **
2052197 TAGTTATATAAGCTATATATATAAA-TTATGT-TTATGAACTATA
1 TA--TATATAAACTATATATATAAACTTATGTATTACAAACTATA
* * *
2052240 TATATATAAACTATGTATATAAAC-TATATATGTATAAACTATA
1 TATATATAAACTATATATATAAACTTATGTAT-TACAAACTATA
2052283 AAAAGTATAT
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
41 23 0.32
42 1 0.01
43 22 0.30
44 5 0.07
45 5 0.07
46 10 0.14
47 7 0.10
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.41
Consensus pattern (43 bp):
TATATATAAACTATATATATAAACTTATGTATTACAAACTATA
Found at i:2052396 original size:18 final size:20
Alignment explanation
Indices: 2052363--2052420 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
2052353 TATAAATTAT
*
2052363 ATATATAGATTAT-A-ATAA
1 ATATATAGTTTATAATATAA
* *
2052381 CTATATAGTTTGTAATATAA
1 ATATATAGTTTATAATATAA
2052401 ATATATAGTTTAT-ATATAA
1 ATATATAGTTTATAATATAA
2052420 A
1 A
2052421 CTTACATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 10 0.30
19 8 0.24
20 15 0.45
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (20 bp):
ATATATAGTTTATAATATAA
Found at i:2052514 original size:9 final size:9
Alignment explanation
Indices: 2052500--2052569 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
2052490 AATTATAATT
2052500 TATAAACTA
1 TATAAACTA
*
2052509 TATAAATTA
1 TATAAACTA
**
2052518 TATAATTTA
1 TATAAACTA
2052527 TATAAACACTA
1 TAT-AA-ACTA
2052538 TGCATAAACTA
1 T--ATAAACTA
*
2052549 TATAAAGTA
1 TATAAACTA
*
2052558 -ATAAAGTA
1 TATAAACTA
2052566 TATA
1 TATA
2052570 GTTTATAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
8 8 0.16
9 29 0.57
10 2 0.04
11 8 0.16
12 2 0.04
13 2 0.04
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (9 bp):
TATAAACTA
Found at i:2052787 original size:20 final size:20
Alignment explanation
Indices: 2052764--2052803 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2052754 TATAGTACAT
* *
2052764 GTATGTATAAACTATGTATA
1 GTATATATAAACTATATATA
2052784 GTATATATAAACTATATATA
1 GTATATATAAACTATATATA
2052804 TAGCCTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
GTATATATAAACTATATATA
Found at i:2052803 original size:13 final size:13
Alignment explanation
Indices: 2052785--2052827 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
2052775 CTATGTATAG
2052785 TATATATAAACTA
1 TATATATAAACTA
**
2052798 TATATATAGCCTA
1 TATATATAAACTA
*
2052811 TATATATAAACCA
1 TATATATAAACTA
2052824 TATA
1 TATA
2052828 AAGTAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:2053171 original size:63 final size:60
Alignment explanation
Indices: 2053099--2053232 Score: 162
Period size: 63 Copynumber: 2.2 Consensus size: 60
2053089 ACTATATAGT
* * * * *
2053099 TTATATTAATGTTAATTATCTTAACTATAATTTATATTAA-TATAGTATATAGTTTATTAACTA
1 TTATATTAATATTAATTATATTAACTATAACTTATA--AACTATACTATATAATTTA-TAAC-A
*
2053162 TTATATTAATATTAATTATATTAACTATAGCTTATAAACTATACTATATAATTTATAACA
1 TTATATTAATATTAATTATATTAACTATAACTTATAAACTATACTATATAATTTATAACA
2053222 TTATTATTAAT
1 TTA-TATTAAT
2053233 TTTATAGACT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
60 4 0.06
61 13 0.21
62 14 0.22
63 32 0.51
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (60 bp):
TTATATTAATATTAATTATATTAACTATAACTTATAAACTATACTATATAATTTATAACA
Found at i:2053308 original size:24 final size:22
Alignment explanation
Indices: 2053278--2053334 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
2053268 AATTATAAAC
2053278 TATATTATTAATATAAGTTAATAT
1 TATATTA-TAATATAA-TTAATAT
*
2053302 TATATTA-ATTAT-ATTAATAT
1 TATATTATAATATAATTAATAT
2053322 TA-ATTATAATATA
1 TATATTATAATATA
2053335 TAATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
19 4 0.14
20 13 0.45
21 1 0.03
22 4 0.14
24 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATTATAATATAATTAATAT
Found at i:2053870 original size:102 final size:102
Alignment explanation
Indices: 2053689--2053874 Score: 234
Period size: 102 Copynumber: 1.8 Consensus size: 102
2053679 AAAAAATCCT
** **
2053689 TCATTTGATCTTCAAAAACACCAAATTCCAAACATTTTTATGTTTTTTGGATCAAACACATGAAA
1 TCATTTGATCTTCAAAAACACCAAAACCCAAACATTTTTATGTTTTTTGGATCAAACACACAAAA
*
2053754 TTTCTTAACTTGTTCATCCTTGTTCATATCAAAACCC
66 TTTCTTAACATGTTCATCCTTGTTCATATCAAAACCC
* * * *
2053791 TCATTTGATCTTCATAAACACCAAAACCCATACGATTTCTTAT-TTTTTT-TATCAAACACCCAA
1 TCATTTGATCTTCAAAAACACCAAAACCCAAAC-ATTT-TTATGTTTTTTGGATCAAACACACAA
*
2053854 AATTT-TCTCACATGTTCATCC
64 AATTTCT-TAACATGTTCATCC
2053875 ATATTCATCC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
101 1 0.01
102 56 0.79
103 10 0.14
104 4 0.06
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (102 bp):
TCATTTGATCTTCAAAAACACCAAAACCCAAACATTTTTATGTTTTTTGGATCAAACACACAAAA
TTTCTTAACATGTTCATCCTTGTTCATATCAAAACCC
Found at i:2054159 original size:19 final size:19
Alignment explanation
Indices: 2054131--2054189 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
2054121 CCTTGAATTT
* *
2054131 AAACCTTAAACTTAAACTC
1 AAACCCTAAACTTAAACCC
*
2054150 AAACCCTAAACTTGAACCC
1 AAACCCTAAACTTAAACCC
* *
2054169 AAACCC-AAACATGAACCC
1 AAACCCTAAACTTAAACCC
2054187 AAA
1 AAA
2054190 ACCAAACCCG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.49, C:0.32, G:0.03, T:0.15
Consensus pattern (19 bp):
AAACCCTAAACTTAAACCC
Found at i:2054242 original size:18 final size:18
Alignment explanation
Indices: 2054138--2054249 Score: 91
Period size: 18 Copynumber: 6.2 Consensus size: 18
2054128 TTTAAACCTT
* *
2054138 AAACTTAAACTCAAACCC
1 AAACTTGAACCCAAACCC
2054156 TAAACTTGAACCCAAACCC
1 -AAACTTGAACCCAAACCC
* *
2054175 AAACATGAACCCAAAACC
1 AAACTTGAACCCAAACCC
** * ** *
2054193 AAACCCGAATCTGAACCT
1 AAACTTGAACCCAAACCC
*
2054211 GAA-TTCGAACCCAAACCC
1 AAACTT-GAACCCAAACCC
*
2054229 AAACTTGAATCCAAACCC
1 AAACTTGAACCCAAACCC
2054247 AAA
1 AAA
2054250 TTCAAACCTA
Statistics
Matches: 71, Mismatches: 20, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
18 53 0.75
19 18 0.25
ACGTcount: A:0.46, C:0.34, G:0.06, T:0.13
Consensus pattern (18 bp):
AAACTTGAACCCAAACCC
Found at i:2054262 original size:18 final size:17
Alignment explanation
Indices: 2054221--2054263 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
2054211 GAATTCGAAC
* *
2054221 CCAAACCCAAACTTGAAT
1 CCAAACCCAAA-TTCAAA
2054239 CCAAACCCAAATTCAAA
1 CCAAACCCAAATTCAAA
2054256 CCTAAACC
1 CC-AAACC
2054264 TAAAAAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.14
Consensus pattern (17 bp):
CCAAACCCAAATTCAAA
Found at i:2058010 original size:16 final size:16
Alignment explanation
Indices: 2057966--2058002 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2057956 CCATGATATT
2057966 ATAT-AAGTCAGGTAA
1 ATATCAAGTCAGGTAA
*
2057981 ATGTCAAGTCAGGTAA
1 ATATCAAGTCAGGTAA
2057997 ATATCA
1 ATATCA
2058003 GATCAGGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (16 bp):
ATATCAAGTCAGGTAA
Found at i:2058860 original size:172 final size:172
Alignment explanation
Indices: 2058543--2058860 Score: 476
Period size: 172 Copynumber: 1.8 Consensus size: 172
2058533 ATTAACAGAA
* * * * *
2058543 TAATTACTCTTTTAATAAGTTAAATTAAAAATATATTTGTTATCTTTTTAATTTTAAATATTAAA
1 TAATTACTCTTTGAATAAGTCAAATTAAAAAGATATTTGTTAACTTTTTAACTTTAAATATTAAA
* *
2058608 GGATAATTATATATTTTTGTATATTTCAAATTAAAATAATATATGTTTAAGTTTGAATAGTAAAA
66 GGATAATTATATACTTTTGTATATTTCAAATTAAAATAATATATATTTAAGTTTGAATAGTAAAA
*
2058673 GGAGTTTACCTTTTGACCATTGCAAATTAAATATTAGTAGGG
131 GAAGTTTACCTTTTGACCATTGCAAATTAAATATTAGTAGGG
* *
2058715 TAATTACTCTTTGAATATGTCAATTTAAAAAGATATTTGTTAACTTTTTAACTTTAAATATTAAA
1 TAATTACTCTTTGAATAAGTCAAATTAAAAAGATATTTGTTAACTTTTTAACTTTAAATATTAAA
* * * * *
2058780 -GATAATTATATACTTTTGTATATTTCATATTATAGTAATATCTATTTAAGTTTGAATGGTAAAA
66 GGATAATTATATACTTTTGTATATTTCAAATTAAAATAATATATATTTAAGTTTGAATAGTAAAA
*
2058844 GAAGTTTTATCTTTTGA
131 GAAG-TTTACCTTTTGA
2058861 ATATTGTAAA
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
171 60 0.47
172 69 0.53
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (172 bp):
TAATTACTCTTTGAATAAGTCAAATTAAAAAGATATTTGTTAACTTTTTAACTTTAAATATTAAA
GGATAATTATATACTTTTGTATATTTCAAATTAAAATAATATATATTTAAGTTTGAATAGTAAAA
GAAGTTTACCTTTTGACCATTGCAAATTAAATATTAGTAGGG
Found at i:2063402 original size:23 final size:22
Alignment explanation
Indices: 2063357--2063416 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 22
2063347 ATAATTTGCA
2063357 CCGAAGTG-CCACATA-TTTGTC
1 CCGAA-TGACCACATAGTTTGTC
2063378 CCGAATGACCACATAGTTTTGTC
1 CCGAATGACCACATAG-TTTGTC
2063401 CCGAATGACCACATAG
1 CCGAATGACCACATAG
2063417 AACCCTTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.06
21 12 0.33
23 22 0.61
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (22 bp):
CCGAATGACCACATAGTTTGTC
Found at i:2064274 original size:20 final size:20
Alignment explanation
Indices: 2064229--2064300 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
2064219 TCTTTACTTA
* *
2064229 CAGTATCGATACCTTAACCT
1 CAGTATCGATACCTTCACAT
**
2064249 TGGTATCGATACCTTCACAT
1 CAGTATCGATACCTTCACAT
* *
2064269 CAGTATTGATACTTCTTCA-AC
1 CAGTATCGATAC--CTTCACAT
2064290 CAGTATCGATA
1 CAGTATCGATA
2064301 TTGTTCATCC
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
20 25 0.61
21 11 0.27
22 5 0.12
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (20 bp):
CAGTATCGATACCTTCACAT
Found at i:2064312 original size:20 final size:21
Alignment explanation
Indices: 2064251--2064320 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 21
2064241 CTTAACCTTG
*
2064251 GTATCGATAC--CTTCACATCA
1 GTATCGATACTTCTTCA-ACCA
*
2064271 GTATTGATACTTCTTCAACCA
1 GTATCGATACTTCTTCAACCA
* *
2064292 GTATCGATA-TTGTTCATCCA
1 GTATCGATACTTCTTCAACCA
2064312 GT-TC-ATACT
1 GTATCGATACT
2064321 ATTTCCTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 3 0.07
19 3 0.07
20 20 0.48
21 11 0.26
22 5 0.12
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.37
Consensus pattern (21 bp):
GTATCGATACTTCTTCAACCA
Found at i:2065669 original size:134 final size:134
Alignment explanation
Indices: 2065498--2065755 Score: 408
Period size: 134 Copynumber: 1.9 Consensus size: 134
2065488 TTAAGTTTGA
* * * * *
2065498 ATAGTAAAAGGAGTTTACCTTATGTCCATTGTAAATTAAATATATTATTTAATTTGAATATTTGT
1 ATAGTAAAAGAAGTTTACCTTATGACCATTGCAAATTAAATATATTATTTAATTTAAATATTAGT
* *
2065563 AGGATAATTAATCTTTAAATATGTCAATTTAAAAAAGTATTTGTTACCTTTTTAACTTTGAACTT
66 AGGATAATTAATCTTTAAATATGTCAATTTAAAAAAGTATCTGTTACCCTTTTAACTTTGAACTT
2065628 AAAC
131 AAAC
* *
2065632 ATAGTAAAAGAAGTTTACTTTTTGACCATTGCAAATTAAATATATTATTTAATTTAAATATTAGT
1 ATAGTAAAAGAAGTTTACCTTATGACCATTGCAAATTAAATATATTATTTAATTTAAATATTAGT
* * *
2065697 AGGATAATTACTCTTTGAATATGTCAATTTAAAAAGGTATCTGTTACCCTTTTAACTTT
66 AGGATAATTAATCTTTAAATATGTCAATTTAAAAAAGTATCTGTTACCCTTTTAACTTT
2065756 TAATATTAAA
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
134 112 1.00
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (134 bp):
ATAGTAAAAGAAGTTTACCTTATGACCATTGCAAATTAAATATATTATTTAATTTAAATATTAGT
AGGATAATTAATCTTTAAATATGTCAATTTAAAAAAGTATCTGTTACCCTTTTAACTTTGAACTT
AAAC
Found at i:2068793 original size:10 final size:10
Alignment explanation
Indices: 2068780--2068822 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
2068770 TTCATCACAC
*
2068780 CAAATCATCT
1 CAAATCCTCT
2068790 CAAATCCTCT
1 CAAATCCTCT
* *
2068800 CAACTTCTCT
1 CAAATCCTCT
2068810 CAAATCCTCT
1 CAAATCCTCT
2068820 CAA
1 CAA
2068823 CTTAAGGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (10 bp):
CAAATCCTCT
Found at i:2068812 original size:20 final size:20
Alignment explanation
Indices: 2068787--2068825 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2068777 CACCAAATCA
2068787 TCTCAAATCCTCTCAACTTC
1 TCTCAAATCCTCTCAACTTC
2068807 TCTCAAATCCTCTCAACTT
1 TCTCAAATCCTCTCAACTT
2068826 AAGGTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.36
Consensus pattern (20 bp):
TCTCAAATCCTCTCAACTTC
Found at i:2068842 original size:5 final size:5
Alignment explanation
Indices: 2068832--2068879 Score: 60
Period size: 5 Copynumber: 9.0 Consensus size: 5
2068822 ACTTAAGGTA
*
2068832 TATTT TATTT TATTT TATTT TATTT AATATTT TATTAG TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT --TATTT TATT-T TATTT TATTT
2068880 AATTATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 29 0.76
6 4 0.11
7 5 0.13
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (5 bp):
TATTT
Found at i:2068864 original size:12 final size:12
Alignment explanation
Indices: 2068837--2068911 Score: 75
Period size: 12 Copynumber: 6.1 Consensus size: 12
2068827 AGGTATATTT
2068837 TATTTTATTT--
1 TATTTTATTTAA
2068847 TATTTTATTTAA
1 TATTTTATTTAA
*
2068859 TATTTTA-TTAG
1 TATTTTATTTAA
2068870 TATTTTATTTAA
1 TATTTTATTTAA
2068882 TTATTTAATTATTTTAA
1 -TA-TT--TTA-TTTAA
2068899 TATTTTATTTAA
1 TATTTTATTTAA
2068911 T
1 T
2068912 TAATTTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
10 10 0.18
11 10 0.18
12 16 0.29
13 5 0.09
14 2 0.04
15 2 0.04
16 5 0.09
17 5 0.09
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (12 bp):
TATTTTATTTAA
Found at i:2068875 original size:11 final size:11
Alignment explanation
Indices: 2068837--2068907 Score: 53
Period size: 11 Copynumber: 6.8 Consensus size: 11
2068827 AGGTATATTT
*
2068837 TATTTTATT-T
1 TATTTTATTAA
2068847 TATTTTATTTAA
1 TATTTTA-TTAA
*
2068859 TATTTTATTAG
1 TATTTTATTAA
*
2068870 TATTTTATTTA
1 TATTTTATTAA
*
2068881 -ATTAT-TTAA
1 TATTTTATTAA
*
2068890 T-TATT-TTAA
1 TATTTTATTAA
2068899 TATTTTATT
1 TATTTTATT
2068908 TAATTAATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
9 10 0.21
10 14 0.30
11 16 0.34
12 7 0.15
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:2068877 original size:23 final size:24
Alignment explanation
Indices: 2068836--2068892 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
2068826 AAGGTATATT
*
2068836 TTATTTTATT-TTATTTTATTTAA
1 TTATTTTATTAGTATTTTATTTAA
2068859 -TATTTTATTAGTATTTTATTTAA
1 TTATTTTATTAGTATTTTATTTAA
*
2068882 TTATTTAATTA
1 TTATTTTATTA
2068893 TTTTAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 9 0.30
23 12 0.40
24 9 0.30
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TTATTTTATTAGTATTTTATTTAA
Found at i:2074843 original size:51 final size:51
Alignment explanation
Indices: 2074760--2074884 Score: 153
Period size: 51 Copynumber: 2.5 Consensus size: 51
2074750 GCAATTATAC
* * * * *
2074760 AAGGAGCGGCCCATGCACCGCGACTTGCATAATTGTCTTAGAGTTAAAGCA
1 AAGGAGCGGCCCCTGCACCGCGCCTTGCATAATTGTCTCAGAATCAAAGCA
* *
2074811 AAGGTGCGGCCCCTGCACCGCGCCTTAG-ATAATTGTGTCAGAATCAAAGCA
1 AAGGAGCGGCCCCTGCACCGCGCCTT-GCATAATTGTCTCAGAATCAAAGCA
* *
2074862 AAGGCGCGGCCCCTGCACTGCGC
1 AAGGAGCGGCCCCTGCACCGCGC
2074885 TATACATCTA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 63 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.27, T:0.18
Consensus pattern (51 bp):
AAGGAGCGGCCCCTGCACCGCGCCTTGCATAATTGTCTCAGAATCAAAGCA
Found at i:2080396 original size:17 final size:17
Alignment explanation
Indices: 2080374--2080413 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
2080364 AATTTTATGA
2080374 TGTAAAAATATT-ATTAT
1 TGTAAAAAT-TTAATTAT
2080391 TGTAAAAATTTAATTAT
1 TGTAAAAATTTAATTAT
2080408 T-TAAAA
1 TGTAAAA
2080414 TAAGATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
TGTAAAAATTTAATTAT
Found at i:2080937 original size:18 final size:18
Alignment explanation
Indices: 2080914--2080954 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
2080904 CACCCTAAAG
2080914 GTGATTGATAAATTTGAT
1 GTGATTGATAAATTTGAT
2080932 GTGATTGATAAATTTGAT
1 GTGATTGATAAATTTGAT
2080950 -TGATT
1 GTGATT
2080955 TGTTTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (18 bp):
GTGATTGATAAATTTGAT
Found at i:2082914 original size:20 final size:19
Alignment explanation
Indices: 2082889--2082936 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
2082879 TTTGGGTATT
2082889 GATACCAAGCATTTGATATG
1 GATACCAAGC-TTTGATATG
* *
2082909 GATACCCAATCTTTGGTATG
1 GATA-CCAAGCTTTGATATG
2082929 GATACCAA
1 GATACCAA
2082937 CTCATTCGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 16 0.64
21 5 0.20
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (19 bp):
GATACCAAGCTTTGATATG
Found at i:2082962 original size:21 final size:20
Alignment explanation
Indices: 2082938--2083004 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
2082928 GGATACCAAC
*
2082938 TCATTCGATACAGATACTAGT
1 TCATTCGATA-GGATACTAGT
*
2082959 TCATCCGATAGGAATACTAGT
1 TCATTCGATAGG-ATACTAGT
* * *
2082980 TTATTCGGTATGGATACCAGT
1 TCATTCGATA-GGATACTAGT
2083001 TCAT
1 TCAT
2083005 GTGCTATGGA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.03
21 34 0.92
22 2 0.05
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (20 bp):
TCATTCGATAGGATACTAGT
Found at i:2084353 original size:22 final size:22
Alignment explanation
Indices: 2084328--2084371 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2084318 AGATAATATA
2084328 CCAAAATAAACTCAAAAATTGC
1 CCAAAATAAACTCAAAAATTGC
* *
2084350 CCAAAATGAACTCCAAAATTGC
1 CCAAAATAAACTCAAAAATTGC
2084372 TAGTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.25, G:0.07, T:0.18
Consensus pattern (22 bp):
CCAAAATAAACTCAAAAATTGC
Found at i:2091185 original size:22 final size:21
Alignment explanation
Indices: 2091143--2091196 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
2091133 TTCAGGGAAG
2091143 AAAAGAAGGGAAAAGAAAAGTGA
1 AAAAGAA--GAAAAGAAAAGTGA
*
2091166 AAAAGAAGAAAATAACAAGTGA
1 AAAAGAAGAAAAGAA-AAGTGA
*
2091188 AAGAGAAGA
1 AAAAGAAGA
2091197 GAGGAAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.25
22 14 0.50
23 7 0.25
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.06
Consensus pattern (21 bp):
AAAAGAAGAAAAGAAAAGTGA
Found at i:2099032 original size:2 final size:2
Alignment explanation
Indices: 2099025--2099049 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2099015 AATAAACTAT
2099025 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2099050 TATGTTCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2102783 original size:42 final size:42
Alignment explanation
Indices: 2102737--2102848 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
2102727 TAAAAATGCT
*
2102737 GCAATAGAGTTGACATATAGCGGCGTTTTTACAACAAACGCC
1 GCAATAGAGTTGAAATATAGCGGCGTTTTTACAACAAACGCC
* * *
2102779 GCAATAGAGTGGTAAAT-TAGCGGCGTTTATACCACAAACGCC
1 GCAATAGAGTTG-AAATATAGCGGCGTTTTTACAACAAACGCC
* *
2102821 GCAATATA-TT-AATATATAGTGGCGTTTT
1 GCAATAGAGTTGAA-ATATAGCGGCGTTTT
2102849 AGCCAAAACG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.03
40 2 0.03
41 11 0.19
42 41 0.69
43 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (42 bp):
GCAATAGAGTTGAAATATAGCGGCGTTTTTACAACAAACGCC
Found at i:2102886 original size:41 final size:40
Alignment explanation
Indices: 2102754--2102888 Score: 141
Period size: 42 Copynumber: 3.3 Consensus size: 40
2102744 AGTTGACATA
* *
2102754 TAGCGGCGTTTTTACAACAAACGCCGCAATAGAGTGGTAAAT
1 TAGCGGCG-TTTTACCACAAACGCCGCAATA-AATGGTAAAT
*
2102796 TAGCGGCGTTTATACCACAAACGCCGCAATATAT--TAATAT
1 TAGCGGCGTTT-TACCACAAACGCCGCAATAAATGGTAA-AT
* *
2102836 ATAGTGGCGTTTTAGCCA-AAACGCCACAATAAATCGGTAAAT
1 -TAGCGGCGTTTTA-CCACAAACGCCGCAATAAAT-GGTAAAT
2102878 TAGCGGCGTTT
1 TAGCGGCGTTT
2102889 ATGGTATAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
39 3 0.04
40 18 0.23
41 27 0.34
42 28 0.35
43 3 0.04
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (40 bp):
TAGCGGCGTTTTACCACAAACGCCGCAATAAATGGTAAAT
Found at i:2102908 original size:82 final size:83
Alignment explanation
Indices: 2102749--2102926 Score: 200
Period size: 82 Copynumber: 2.1 Consensus size: 83
2102739 AATAGAGTTG
* * * *
2102749 ACATATAGCGGCGTTTTTA-CAACAAACGCCGCAATAGAGTGGTAAATTAGCGGCGTTTATACCA
1 ACATATAGTGGCG-TTTTAGCCA-AAACGCCACAATAGAATGGTAAATTAGCGGCGTTTATACCA
* * *
2102813 CAAACGCCGCAATATATTA-
64 CAAACACCACAATAGATTAC
* *** *
2102832 ATATATAGTGGCGTTTTAGCCAAAACGCCACAATA-AATCGGTAAATTAGCGGCGTTTATGGTAT
1 ACATATAGTGGCGTTTTAGCCAAAACGCCACAATAGAAT-GGTAAATTAGCGGCGTTTATACCAC
2102896 AAACACCACAATAGATTAC
65 AAACACCACAATAGATTAC
2102915 ACATATAGTGGC
1 ACATATAGTGGC
2102927 ATTTATTCTT
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
81 2 0.03
82 53 0.67
83 24 0.30
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (83 bp):
ACATATAGTGGCGTTTTAGCCAAAACGCCACAATAGAATGGTAAATTAGCGGCGTTTATACCACA
AACACCACAATAGATTAC
Found at i:2102965 original size:42 final size:40
Alignment explanation
Indices: 2102919--2103114 Score: 187
Period size: 41 Copynumber: 4.7 Consensus size: 40
2102909 GATTACACAT
*
2102919 ATAGTGGCATTTATTCTTA-AAACGCCGCAATATTTATAATAA
1 ATAGTGGCATTT-TT-TTACAAACGCCGCAATATTT-TAATCA
* ** *
2102961 ATAGTGGCGTTTTTAGACAAACGCCGCAATAGTGTTAATCA
1 ATAGTGGCATTTTTTTACAAACGCCGCAATA-TTTTAATCA
* ** * *
2103002 ATAGTGGCGTTTTTACAAAAACGCCGTAATAGTTTTAATCA
1 ATAGTGGCATTTTTTTACAAACGCCGCAATA-TTTTAATCA
* * *
2103043 ATAGTGGCATTTTTTTAACAAACGCCACAATAATGTAATCA
1 ATAGTGGCATTTTTTT-ACAAACGCCGCAATATTTTAATCA
*
2103084 ATAGTGGCATTTTTTTGTATAAACGCCGCAA
1 ATAGTGGCA-TTTTTT-TACAAACGCCGCAA
2103115 AATATTAAAT
Statistics
Matches: 130, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
40 1 0.01
41 86 0.66
42 42 0.32
43 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (40 bp):
ATAGTGGCATTTTTTTACAAACGCCGCAATATTTTAATCA
Found at i:2103064 original size:83 final size:81
Alignment explanation
Indices: 2102919--2103097 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
2102909 GATTACACAT
*
2102919 ATAGTGGCATTTATT-CTTAAAACGCCGCAATATTTATAATAAATAGTGGCGTTTTTAGACAAAC
1 ATAGTGGCATTT-TTAC-AAAAACGCCGCAATATTTATAATAAATAGTGGCGTTTTTAGACAAAC
* *
2102983 GCCGCAATAGTGTTAATCA
64 GCCACAATAATG-TAATCA
* * * *
2103002 ATAGTGGCGTTTTTACAAAAACGCCGTAATAGTTT-TAATCAATAGTGGCATTTTTTTA-ACAAA
1 ATAGTGGCATTTTTACAAAAACGCCGCAATA-TTTATAATAAATAGTGGC--GTTTTTAGACAAA
2103065 CGCCACAATAATGTAATCA
63 CGCCACAATAATGTAATCA
2103084 ATAGTGGCATTTTT
1 ATAGTGGCATTTTT
2103098 TTGTATAAAC
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
82 47 0.56
83 31 0.37
84 6 0.07
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (81 bp):
ATAGTGGCATTTTTACAAAAACGCCGCAATATTTATAATAAATAGTGGCGTTTTTAGACAAACGC
CACAATAATGTAATCA
Found at i:2103730 original size:42 final size:42
Alignment explanation
Indices: 2103666--2104032 Score: 440
Period size: 42 Copynumber: 8.8 Consensus size: 42
2103656 TTGTATCCAA
*
2103666 AAACGCCGCTATAA-ACTC-TACTTTAGTGGCGTTTTGAATGC
1 AAACGCCGCTA-AAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * * * * * *
2103707 AAACGACTCTAAAGACACGTACTTTAGTAGCATTTT-TATAT
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
* *
2103748 AAACGCCGCTATAA-ACTAGTACTTTAGTGGCGTTTT-TATAC
1 AAACGCCGCTA-AAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * * *
2103789 AAACGCCGCTATAGACTCTTACTTTAGTGGCATTTTGAATGC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
*
2103831 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * *
2103873 AAACGCTGCTAATGACTCGTACTTTAGTGGCGTTTT-TATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
* * * *
2103914 AAACGCCGCTATATACTCGTACTTTAGTGGCGTTTTTAATGC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
* *
2103956 AAACGTCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
* *
2103998 AAACGCTGCTAATGACTCGTACTTTAGTGGCGTTT
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTT
2104033 GTATTTACAA
Statistics
Matches: 278, Mismatches: 42, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
40 3 0.01
41 111 0.40
42 164 0.59
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (42 bp):
AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTGAATAC
Found at i:2103783 original size:83 final size:82
Alignment explanation
Indices: 2103666--2104032 Score: 452
Period size: 83 Copynumber: 4.4 Consensus size: 82
2103656 TTGTATCCAA
* * *
2103666 AAACGCCGCTATAAACTC-TACTTTAGTGGCGTTTTGAATGCAAACGACTCTAAAGACACGTACT
1 AAACGCCGCTATAAACTCGTACTTTAGTGGCGTTTTGAATACAAACG-CGCTAAAGACTCGTACT
* *
2103730 TTAGTAGCATTTTTATAT
65 TTAGTGGCATTTTTATAC
* * * *
2103748 AAACGCCGCTATAAACTAGTACTTTAGTGGCGTTTT-TATACAAACGCCGCTATAGACTCTTACT
1 AAACGCCGCTATAAACTCGTACTTTAGTGGCGTTTTGAATACAAACG-CGCTAAAGACTCGTACT
* *
2103812 TTAGTGGCATTTTGAATGC
65 TTAGTGGCATTTT-TATAC
* *
2103831 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTGAATACAAACGCTGCTAATGACTCGTACT
1 AAACGCCGCTATAAACTCGTACTTTAGTGGCGTTTTGAATACAAACGC-GCTAAAGACTCGTACT
*
2103896 TTAGTGGCGTTTTTATAC
65 TTAGTGGCATTTTTATAC
* * * *
2103914 AAACGCCGCTATATACTCGTACTTTAGTGGCGTTTTTAATGCAAACGTCGCTATAGACTCGTACT
1 AAACGCCGCTATAAACTCGTACTTTAGTGGCGTTTTGAATACAAACG-CGCTAAAGACTCGTACT
* *
2103979 TTAGTGGCGTTTTGAATAC
65 TTAGTGGCATTTT-TATAC
* *
2103998 AAACGCTGCTA-ATGACTCGTACTTTAGTGGCGTTT
1 AAACGCCGCTATA-AACTCGTACTTTAGTGGCGTTT
2104033 GTATTTACAA
Statistics
Matches: 249, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
82 50 0.20
83 129 0.52
84 70 0.28
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (82 bp):
AAACGCCGCTATAAACTCGTACTTTAGTGGCGTTTTGAATACAAACGCGCTAAAGACTCGTACTT
TAGTGGCATTTTTATAC
Found at i:2103922 original size:125 final size:124
Alignment explanation
Indices: 2103666--2104047 Score: 552
Period size: 125 Copynumber: 3.1 Consensus size: 124
2103656 TTGTATCCAA
* * *
2103666 AAACGCCGCTATAAACTCTACTTTAGTGGCGTTTTGAATGCAAACGACTCTAAAGACACGTACTT
1 AAACGCCGCTATAAACTCTACTTTAGTGGCGTTTTGAATGCAAACGACGCTATAGACTCGTACTT
* * * * * * *
2103731 TAGTAGCATTTT-TATATAAACGCCGCT-ATAAACTAGTACTTTAGTGGCGTTTTTATAC
66 TAGTGGCGTTTTGAATACAAACGCTGCTAAT-GACTCGTACTTTAGTGGCGTTTTTATAC
* * *
2103789 AAACGCCGCTATAGACTCTTACTTTAGTGGCATTTTGAATGCAAACGCCGCTATAGACTCGTACT
1 AAACGCCGCTATAAACTC-TACTTTAGTGGCGTTTTGAATGCAAACGACGCTATAGACTCGTACT
2103854 TTAGTGGCGTTTTGAATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTTTTATAC
65 TTAGTGGCGTTTTGAATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTTTTATAC
* * *
2103914 AAACGCCGCTATATACTCGTACTTTAGTGGCGTTTTTAATGCAAACGTCGCTATAGACTCGTACT
1 AAACGCCGCTATAAACTC-TACTTTAGTGGCGTTTTGAATGCAAACGACGCTATAGACTCGTACT
*
2103979 TTAGTGGCGTTTTGAATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTTGTATTTAC
65 TTAGTGGCGTTTTGAATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTT-T-TATAC
2104041 AAACGCC
1 AAACGCC
2104048 ACAATTTTAC
Statistics
Matches: 235, Mismatches: 19, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
123 17 0.07
124 52 0.22
125 152 0.65
126 3 0.01
127 11 0.05
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (124 bp):
AAACGCCGCTATAAACTCTACTTTAGTGGCGTTTTGAATGCAAACGACGCTATAGACTCGTACTT
TAGTGGCGTTTTGAATACAAACGCTGCTAATGACTCGTACTTTAGTGGCGTTTTTATAC
Found at i:2106863 original size:3 final size:3
Alignment explanation
Indices: 2106855--2106991 Score: 219
Period size: 3 Copynumber: 46.7 Consensus size: 3
2106845 TATAGCTTTC
*
2106855 ATA ATA ATA AT- ATA AAA ATA A-A ATA ATA ATA ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2106900 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
2106947 ATA CTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT
2106992 GATGATGGAT
Statistics
Matches: 125, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
2 8 0.06
3 114 0.91
4 3 0.02
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2108956 original size:43 final size:43
Alignment explanation
Indices: 2108909--2109179 Score: 231
Period size: 43 Copynumber: 6.3 Consensus size: 43
2108899 TCTCAACGCT
*
2108909 TATTGCGGCGCTTGTTTGAAAAACGCCGCTAAACAACAACACC
1 TATTGCGGCGTTTGTTTGAAAAACGCCGCTAAACAACAACACC
* ** * * * * *
2108952 TATTGCGACGTTTGTGGGAAAAACACTGCTAAACAACGATATC
1 TATTGCGGCGTTTGTTTGAAAAACGCCGCTAAACAACAACACC
** ** * * *
2108995 TATTGCGGCGTTTGTAAGCCAAACGCCGCTAAATAGCAATACC
1 TATTGCGGCGTTTGTTTGAAAAACGCCGCTAAACAACAACACC
* * **
2109038 TACTACGGCGTTTGTGGGAAAAACGCCGCTAAACAACAACACC
1 TATTGCGGCGTTTGTTTGAAAAACGCCGCTAAACAACAACACC
* * * * *
2109081 TATTGCGGCATTT-TTAAGACAAACGTCGCTAAACAGCAACACC
1 TATTGCGGCGTTTGTT-TGAAAAACGCCGCTAAACAACAACACC
* * * * **
2109124 TATTGCGGCGTTT-TTTCAACAAACGCCGCTATATATCGTCACC
1 TATTGCGGCGTTTGTTTGAA-AAACGCCGCTAAACAACAACACC
2109167 TATTGCGGCGTTT
1 TATTGCGGCGTTT
2109180 TTCGTTAACA
Statistics
Matches: 179, Mismatches: 47, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
42 2 0.01
43 177 0.99
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
TATTGCGGCGTTTGTTTGAAAAACGCCGCTAAACAACAACACC
Found at i:2109148 original size:86 final size:86
Alignment explanation
Indices: 2108929--2109181 Score: 292
Period size: 86 Copynumber: 2.9 Consensus size: 86
2108919 CTTGTTTGAA
* * * * * *
2108929 AAACGCCGCTAAACAACAACACCTATTGCGACGTTTGTGGGAAAAACACTGCTAAACAACGATAT
1 AAACGCCGCTAAACAGCAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAACAACGACAC
* *
2108994 CTATTGCGGCGTTTGTAAGCC
66 CTATTGCGGCGTTTTTAAGAC
* * * * *
2109015 AAACGCCGCTAAATAGCAATACCTACTACGGCGTTTGTGGGAAAAACGCCGCTAAACAACAACAC
1 AAACGCCGCTAAACAGCAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAACAACGACAC
*
2109080 CTATTGCGGCATTTTTAAGAC
66 CTATTGCGGCGTTTTTAAGAC
* *** * * * *
2109101 AAACGTCGCTAAACAGCAACACCTATTGCGGCGTTT-TTTCAACAAACGCCGCTATATATCGTCA
1 AAACGCCGCTAAACAGCAACACCTATTGCGGCGTTTGTGGGAA-AAACGCCGCTAAACAACGACA
2109165 CCTATTGCGGCGTTTTT
65 CCTATTGCGGCGTTTTT
2109182 CGTTAACAAA
Statistics
Matches: 138, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
85 3 0.02
86 135 0.98
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.24
Consensus pattern (86 bp):
AAACGCCGCTAAACAGCAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAACAACGACAC
CTATTGCGGCGTTTTTAAGAC
Found at i:2109176 original size:129 final size:128
Alignment explanation
Indices: 2108909--2109179 Score: 296
Period size: 129 Copynumber: 2.1 Consensus size: 128
2108899 TCTCAACGCT
* ** * **
2108909 TATTGCGGCGCTTGTTTGAAAAACGCCGCTAAACAACAACACCTATTGCGACGTTTGTGGGAAAA
1 TATTGCGGCGTTTGTGGGAAAAACGCCGCTAAACAACAACACCTATTGCGACATTTGTAAGAAAA
* * *
2108974 ACACTGCTAAACAACGATATCTATTGCGGCGTTTGTAAGCCAAACGCCGCTAAATAGCAATACC
66 ACACTGCTAAACAACAACACCTATTGCGGCGTTTGTAA-CCAAACGCCGCTAAATAGCAATACC
* * * * *
2109038 TACTACGGCGTTTGTGGGAAAAACGCCGCTAAACAACAACACCTATTGCGGCATTTTTAAGACAA
1 TATTGCGGCGTTTGTGGGAAAAACGCCGCTAAACAACAACACCTATTGCGACATTTGTAAGAAAA
* * * * * *
2109103 AC-GTCGCTAAACAGCAACACCTATTGCGGCGTTTTTTCAA-CAAACGCCGCTATATATC-GTCA
66 ACACT-GCTAAACAACAACACCTATTGCGGCG-TTTGT-AACCAAACGCCGCTAAATAGCAAT-A
2109165 CC
127 CC
2109167 TATTGCGGCGTTT
1 TATTGCGGCGTTT
2109180 TTCGTTAACA
Statistics
Matches: 116, Mismatches: 22, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
128 2 0.02
129 108 0.93
130 4 0.03
131 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (128 bp):
TATTGCGGCGTTTGTGGGAAAAACGCCGCTAAACAACAACACCTATTGCGACATTTGTAAGAAAA
ACACTGCTAAACAACAACACCTATTGCGGCGTTTGTAACCAAACGCCGCTAAATAGCAATACC
Found at i:2111849 original size:20 final size:21
Alignment explanation
Indices: 2111826--2111869 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2111816 ACATCAAGAC
2111826 CTTTGTT-GAAGCCATAAAAT
1 CTTTGTTCGAAGCCATAAAAT
* * *
2111846 CTTTTTTCGAAGTCATAAATT
1 CTTTGTTCGAAGCCATAAAAT
2111867 CTT
1 CTT
2111870 GTAGAGAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (21 bp):
CTTTGTTCGAAGCCATAAAAT
Found at i:2123420 original size:23 final size:21
Alignment explanation
Indices: 2123379--2123420 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
2123369 AAAATTTGAC
*
2123379 TTCTTTGCTGTTTTTCAATGT
1 TTCTTTGCTATTTTTCAATGT
2123400 TTCTTTGCTAATTTTTACAAT
1 TTCTTTGCT-ATTTTT-CAAT
2123421 CCTTTTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.17, C:0.14, G:0.10, T:0.60
Consensus pattern (21 bp):
TTCTTTGCTATTTTTCAATGT
Found at i:2124630 original size:2 final size:2
Alignment explanation
Indices: 2124623--2124652 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2124613 GTGGTTTTAA
2124623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2124653 TAAACATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2126918 original size:23 final size:23
Alignment explanation
Indices: 2126884--2126996 Score: 120
Period size: 23 Copynumber: 4.9 Consensus size: 23
2126874 GTGCTACATA
*
2126884 TTTGTCCAGAAGGACCACATAAG-
1 TTTGTCCCGAAGGACCACAT-AGT
* *
2126907 ATTGTCCCGAAGGTCCACATAGT
1 TTTGTCCCGAAGGACCACATAGT
** *
2126930 TTTGTCCTAAACGACCACATAGT
1 TTTGTCCCGAAGGACCACATAGT
*
2126953 TTTGTCCCGAATGACCACATAGT
1 TTTGTCCCGAAGGACCACATAGT
* **
2126976 TTTGTCCTGAAAAACCACATA
1 TTTGTCCCGAAGGACCACATA
2126997 TAACCCTCTA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
22 2 0.03
23 73 0.97
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (23 bp):
TTTGTCCCGAAGGACCACATAGT
Found at i:2126946 original size:46 final size:47
Alignment explanation
Indices: 2126884--2126996 Score: 142
Period size: 46 Copynumber: 2.4 Consensus size: 47
2126874 GTGCTACATA
* * *
2126884 TTTGTCCAGAAGGACCACATAAG-ATTGTCCCGAAGGTCCACATAGT
1 TTTGTCCTGAAAGACCACATAAGTATTGTCCCGAAGGACCACATAGT
* *
2126930 TTTGTCCT-AAACGACCACAT-AGTTTTGTCCCGAATGACCACATAGT
1 TTTGTCCTGAAA-GACCACATAAGTATTGTCCCGAAGGACCACATAGT
*
2126976 TTTGTCCTGAAAAACCACATA
1 TTTGTCCTGAAAGACCACATA
2126997 TAACCCTCTA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
45 4 0.07
46 50 0.88
47 3 0.05
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (47 bp):
TTTGTCCTGAAAGACCACATAAGTATTGTCCCGAAGGACCACATAGT
Found at i:2127680 original size:20 final size:19
Alignment explanation
Indices: 2127635--2127686 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
2127625 ATTTCAATTA
*
2127635 CAGTATCGATACCCTCCTCT
1 CAGTATCGATA-CCTCCACT
**
2127655 TGGTATCGATACCTCCACAT
1 CAGTATCGATACCTCCAC-T
2127675 CAGTATCGATAC
1 CAGTATCGATAC
2127687 TTCTTCAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (19 bp):
CAGTATCGATACCTCCACT
Found at i:2130292 original size:27 final size:27
Alignment explanation
Indices: 2130260--2130322 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
2130250 ATCAGAGCAT
2130260 TACAATTTAAAATTGGTAATACATGCC
1 TACAATTTAAAATTGGTAATACATGCC
*
2130287 TACAATTTAAAATTGGTAATGCATGCC
1 TACAATTTAAAATTGGTAATACATGCC
*
2130314 AACAATTTA
1 TACAATTTA
2130323 CAAAATAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (27 bp):
TACAATTTAAAATTGGTAATACATGCC
Found at i:2130747 original size:23 final size:23
Alignment explanation
Indices: 2130702--2130776 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
2130692 CACCGAAGTG
* *
2130702 CCACATA-T-TTGTCCAGAATGA
1 CCACATAGTATTGTCCTGAAGGA
*
2130723 CCATATAAG-ATTGTCCTGAAGGA
1 CCACAT-AGTATTGTCCTGAAGGA
* *
2130746 CCACATAGTTTTTTCCTGAAGGA
1 CCACATAGTATTGTCCTGAAGGA
2130769 CCACATAG
1 CCACATAG
2130777 AACCCTCGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 5 0.11
22 3 0.07
23 36 0.82
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (23 bp):
CCACATAGTATTGTCCTGAAGGA
Found at i:2131452 original size:20 final size:20
Alignment explanation
Indices: 2131412--2131463 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2131402 ATTACAATTA
*
2131412 TAGTATCGATACCTTTCTCT
1 TAGTATCGATACCTTCCTCT
*
2131432 TGGTATCGATACC-TCCATCT
1 TAGTATCGATACCTTCC-TCT
*
2131452 TAATATCGATAC
1 TAGTATCGATAC
2131464 TTATTCAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (20 bp):
TAGTATCGATACCTTCCTCT
Found at i:2133479 original size:22 final size:22
Alignment explanation
Indices: 2133451--2133513 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
2133441 GTTTCAGCAG
2133451 TCATAGGGGTAGT-GATACCCAC
1 TCATAGGGGTA-TCGATACCCAC
* *
2133473 TCATAGGGGTATCGGTACCCAT
1 TCATAGGGGTATCGATACCCAC
*
2133495 TCATAGGGGTATCGGTACC
1 TCATAGGGGTATCGATACC
2133514 TCTTAGTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 1 0.03
22 37 0.97
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (22 bp):
TCATAGGGGTATCGATACCCAC
Found at i:2150697 original size:2 final size:2
Alignment explanation
Indices: 2150690--2150716 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2150680 ATAAATACAA
2150690 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
2150717 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2151829 original size:13 final size:13
Alignment explanation
Indices: 2151813--2151838 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2151803 TGGTTAATCC
2151813 TTCAAATTAAAGT
1 TTCAAATTAAAGT
2151826 TTCAAATTAAAGT
1 TTCAAATTAAAGT
2151839 ATGGGTTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
TTCAAATTAAAGT
Found at i:2153095 original size:23 final size:23
Alignment explanation
Indices: 2153051--2153095 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2153041 ATTATTATAT
*
2153051 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
2153074 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
2153096 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:2159302 original size:23 final size:23
Alignment explanation
Indices: 2159272--2159351 Score: 151
Period size: 23 Copynumber: 3.5 Consensus size: 23
2159262 ATGCACAGGT
2159272 AGTGCATCGATGCACCGATAGGG
1 AGTGCATCGATGCACCGATAGGG
2159295 AGTGCATCGATGCACCGATAGGG
1 AGTGCATCGATGCACCGATAGGG
2159318 AGTGCATCGATGCACCGATAGGG
1 AGTGCATCGATGCACCGATAGGG
*
2159341 AATGCATCGAT
1 AGTGCATCGAT
2159352 ACACTGTATA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.28, C:0.21, G:0.33, T:0.19
Consensus pattern (23 bp):
AGTGCATCGATGCACCGATAGGG
Found at i:2160860 original size:21 final size:21
Alignment explanation
Indices: 2160835--2160875 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2160825 AATTAAATAG
*
2160835 AAAAAATAGAAAATAAATTAAT
1 AAAAATTA-AAAATAAATTAAT
*
2160857 AAAAATTAAAAATATATTA
1 AAAAATTAAAAATAAATTA
2160876 TTATTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAATTAAAAATAAATTAAT
Found at i:2161485 original size:21 final size:21
Alignment explanation
Indices: 2161459--2161504 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2161449 ATTTTAAATT
* *
2161459 TTTTTAGTAATTTAATTTTTA
1 TTTTTAATAATTTAATATTTA
* *
2161480 TTTTTAATATTTTTATATTTA
1 TTTTTAATAATTTAATATTTA
2161501 TTTT
1 TTTT
2161505 GTTCTATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTTAATAATTTAATATTTA
Found at i:2163793 original size:15 final size:16
Alignment explanation
Indices: 2163775--2163805 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2163765 TTATTTTTCC
2163775 TAAAATT-AATTTATA
1 TAAAATTAAATTTATA
2163790 TAAAATTAAATTTATA
1 TAAAATTAAATTTATA
2163806 AATAGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAATTAAATTTATA
Found at i:2163807 original size:14 final size:15
Alignment explanation
Indices: 2163775--2163807 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2163765 TTATTTTTCC
*
2163775 TAAAATTAATTTATA
1 TAAAATTAAATTATA
2163790 TAAAATTAAATT-TA
1 TAAAATTAAATTATA
2163804 TAAA
1 TAAA
2163808 TAGGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAATTAAATTATA
Found at i:2165285 original size:3 final size:3
Alignment explanation
Indices: 2165279--2165337 Score: 93
Period size: 3 Copynumber: 20.0 Consensus size: 3
2165269 CTGTATTATT
* *
2165279 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2165327 T-A TAA TAA TAA
1 TAA TAA TAA TAA
2165338 AAAAATAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:2165665 original size:22 final size:23
Alignment explanation
Indices: 2165604--2165666 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 23
2165594 CATTTTAAAA
*
2165604 CATCCTGCACTGTAGGTCTTATG
1 CATCTTGCACTGTAGGTCTTATG
* * *
2165627 GA--TGGCCCTG-AGGTCTTAT-
1 CATCTTGCACTGTAGGTCTTATG
2165646 CATCTTGCACTGTAGGTCTTA
1 CATCTTGCACTGTAGGTCTTA
2165667 CAAATCACCC
Statistics
Matches: 30, Mismatches: 7, Indels: 7
0.68 0.16 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.30
21 11 0.37
22 8 0.27
23 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (23 bp):
CATCTTGCACTGTAGGTCTTATG
Found at i:2165767 original size:45 final size:45
Alignment explanation
Indices: 2165711--2165859 Score: 244
Period size: 45 Copynumber: 3.3 Consensus size: 45
2165701 CCCGATGGCT
* *
2165711 TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCGAAGG
1 TTTTAAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG
*
2165756 TTTTAAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTAAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG
*
2165801 TTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG
1 TTTTAAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG
* *
2165846 CTTTAAAAATATCA
1 TTTTAAAAACATCA
2165860 AAAAGCTCCC
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 96 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (45 bp):
TTTTAAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGG
Found at i:2165889 original size:76 final size:74
Alignment explanation
Indices: 2165793--2165935 Score: 205
Period size: 76 Copynumber: 1.9 Consensus size: 74
2165783 TTACAGATGA
* *
2165793 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGCTTTAAAAATAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTAAAAACAT
2165858 CAAAAAGCT
66 CAAAAAGCT
* * * * *
2165867 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGGCTTATATATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTAAAAAC
2165932 ATCA
64 ATCA
2165936 TGAATCTTCT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
74 8 0.13
76 52 0.87
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTAAAAACAT
CAAAAAGCT
Found at i:2166801 original size:54 final size:53
Alignment explanation
Indices: 2166737--2166950 Score: 245
Period size: 54 Copynumber: 4.0 Consensus size: 53
2166727 AGAATAACTG
* *
2166737 GTTCGTAAAACATTTGACAATACATTCATCATCTCATGTGGTATCTGCATATAT
1 GTTCGTAAAACATTTGACAATACATTCATCATCTCATGTGGT-TCTGCACAGAT
*
2166791 GTTCGTAAAACATTTGACAATACATTCAT-A-C-AACTGTGGTTTCTGCACAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCATCTCA-TGTGG-TTCTGCACAGAT
* * * * * *
2166843 TTTCGTAAAGCATTTGACAATACATTCATCATCTCCTATGGCTTATGCCCAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCATCTCATGTGG-TTCTGCACAGAT
* * * *
2166897 GTTCGTAAAACATTTGACAACACATTCATCTTTTCCTGTGGCTTCTGCACAGAT
1 GTTCGTAAAACATTTGACAATACATTCATCATCTCATGTGG-TTCTGCACAGAT
2166951 TTCTGGTCAG
Statistics
Matches: 136, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
51 1 0.01
52 42 0.31
53 3 0.02
54 90 0.66
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.35
Consensus pattern (53 bp):
GTTCGTAAAACATTTGACAATACATTCATCATCTCATGTGGTTCTGCACAGAT
Found at i:2167895 original size:75 final size:75
Alignment explanation
Indices: 2167761--2167927 Score: 228
Period size: 75 Copynumber: 2.2 Consensus size: 75
2167751 TATGGATCTC
* *
2167761 CAGCATGCCCCAACATTGGCTAATACAAACGTTCAAAATACATCAACATTCCTGATTCTGATTGA
1 CAGCATGCCCCAACATTGGCTAATACAAACATTCAAAATACATCAACATTCCTAATTCTGATTGA
2167826 AAGGGGCTTT
66 AAGGGGCTTT
*** *
2167836 CAGCATGCCCCAACATTGGCTAATACAAACATTCAAAATGTGTCAATATT-CTAATTTCTGATTG
1 CAGCATGCCCCAACATTGGCTAATACAAACATTCAAAATACATCAACATTCCTAA-TTCTGATTG
* **
2167900 AAATGTTCTTT
65 AAAGGGGCTTT
*
2167911 CAACATGCCCCAACATT
1 CAGCATGCCCCAACATT
2167928 CTATTTATGG
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
74 3 0.04
75 78 0.96
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (75 bp):
CAGCATGCCCCAACATTGGCTAATACAAACATTCAAAATACATCAACATTCCTAATTCTGATTGA
AAGGGGCTTT
Found at i:2167946 original size:42 final size:42
Alignment explanation
Indices: 2167883--2167964 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 42
2167873 ATGTGTCAAT
* **
2167883 ATTCTAATTTCTGATTGAAATGTTCTTTCAACATGCCCCAAC
1 ATTCTAATTTATGATTGAAATGGGCTTTCAACATGCCCCAAC
* * *
2167925 ATTCT-ATTTATGGTTGAAAATGGGCTTTCAAGATGTCCCA
1 ATTCTAATTTATGATTG-AAATGGGCTTTCAACATGCCCCA
2167965 TATGTATCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
41 9 0.27
42 24 0.73
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (42 bp):
ATTCTAATTTATGATTGAAATGGGCTTTCAACATGCCCCAAC
Found at i:2179426 original size:65 final size:65
Alignment explanation
Indices: 2179347--2179480 Score: 241
Period size: 65 Copynumber: 2.1 Consensus size: 65
2179337 AAAATGTTGT
*
2179347 GGCAAAATGGAATGACTGATGTGGAAATAGAATGATGGTAATGTGGTATGAATTAAATATGTCGG
1 GGCAAAATGGAATGACTGATGTGGAAATAGAATGATGGTAATGTGGTATCAATTAAATATGTCGG
* *
2179412 GGCAAAATGTAATGACTGATGTGGAAATAGAATGATGGTAATGTGGTATCAATTAAATATGTCGT
1 GGCAAAATGGAATGACTGATGTGGAAATAGAATGATGGTAATGTGGTATCAATTAAATATGTCGG
2179477 GGCA
1 GGCA
2179481 CGTTCAATTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.28
Consensus pattern (65 bp):
GGCAAAATGGAATGACTGATGTGGAAATAGAATGATGGTAATGTGGTATCAATTAAATATGTCGG
Found at i:2192212 original size:46 final size:46
Alignment explanation
Indices: 2192142--2192265 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
2192132 ATCTTCAATC
* *
2192142 TTTCAGCTACTTTTTAG-GTGTCATTTATTGTAGCAATAATGCATCA-
1 TTTCAGCTACTTTTCAGAG-ATCATTTATTGTAGCAATAATGCA-CAG
**
2192188 TTTCATTTACTTTTCAGAGATCATTTATTGTAGCAATAATGCACAG
1 TTTCAGCTACTTTTCAGAGATCATTTATTGTAGCAATAATGCACAG
* * *
2192234 TTTTAGCTACTTTTCAGAGACCATTTAATGTA
1 TTTCAGCTACTTTTCAGAGATCATTTATTGTA
2192266 TAATTCAAGC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 2 0.03
46 64 0.96
47 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (46 bp):
TTTCAGCTACTTTTCAGAGATCATTTATTGTAGCAATAATGCACAG
Found at i:2192526 original size:46 final size:46
Alignment explanation
Indices: 2192453--2192548 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
2192443 TCGGTGCTTC
* * *
2192453 TTTATTGCAGTAATAATGCACCGTTTCAGT-TACTGTTCAGAGGTCA
1 TTTATTGCAGCAATAATGCACCATTTCA-TCTACTGTTCAGAGGCCA
* * *
2192499 TTTATTGCAGCAATAATGCATCATTTCATCTACTTTTCATAGGCCA
1 TTTATTGCAGCAATAATGCACCATTTCATCTACTGTTCAGAGGCCA
2192545 TTTA
1 TTTA
2192549 ATACAAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 42 0.98
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.40
Consensus pattern (46 bp):
TTTATTGCAGCAATAATGCACCATTTCATCTACTGTTCAGAGGCCA
Found at i:2192759 original size:21 final size:22
Alignment explanation
Indices: 2192730--2192770 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2192720 GTCAACTATA
*
2192730 CAATGTGTTTTCTATGATTGTT
1 CAATGTGTTTTCTACGATTGTT
2192752 CAAT-TGTTTTCTACGATTG
1 CAATGTGTTTTCTACGATTG
2192771 CAAATCTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (22 bp):
CAATGTGTTTTCTACGATTGTT
Found at i:2194687 original size:46 final size:46
Alignment explanation
Indices: 2194614--2194709 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
2194604 TCGGTGCTTC
* * *
2194614 TTTATTGCAGTAATAATGCACCGTTTCAGT-TACTGTTCAGAGGTCA
1 TTTATTGCAGCAATAATGCACCATTTCA-TCTACTGTTCAGAGGCCA
* * *
2194660 TTTATTGCAGCAATAATGCATCATTTCATCTACTTTTCATAGGCCA
1 TTTATTGCAGCAATAATGCACCATTTCATCTACTGTTCAGAGGCCA
2194706 TTTA
1 TTTA
2194710 ATACAAAAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 42 0.98
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.40
Consensus pattern (46 bp):
TTTATTGCAGCAATAATGCACCATTTCATCTACTGTTCAGAGGCCA
Found at i:2194920 original size:21 final size:22
Alignment explanation
Indices: 2194891--2194931 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2194881 GTCAACTATA
*
2194891 CAATGTGTTTTCTATGATTGTT
1 CAATGTGTTTTCTACGATTGTT
2194913 CAAT-TGTTTTCTACGATTG
1 CAATGTGTTTTCTACGATTG
2194932 CAAATCTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (22 bp):
CAATGTGTTTTCTACGATTGTT
Found at i:2201121 original size:31 final size:32
Alignment explanation
Indices: 2201066--2201168 Score: 154
Period size: 32 Copynumber: 3.2 Consensus size: 32
2201056 AATAATGAGA
*
2201066 TTAACGATCAACGAGTAGAGTAACAAAATTTC
1 TTAACGAGCAACGAGTAGAGTAACAAAATTTC
*
2201098 TTAACGAGCAACGAGT-GAGTAACAAAATTTA
1 TTAACGAGCAACGAGTAGAGTAACAAAATTTC
* * *
2201129 TTAATGAGCAACAAGTCGAGTAACAAAATTTC
1 TTAACGAGCAACGAGTAGAGTAACAAAATTTC
2201161 TTAACGAG
1 TTAACGAG
2201169 TACAAGTCAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 28 0.44
32 36 0.56
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (32 bp):
TTAACGAGCAACGAGTAGAGTAACAAAATTTC
Found at i:2203022 original size:130 final size:130
Alignment explanation
Indices: 2202789--2203205 Score: 548
Period size: 130 Copynumber: 3.2 Consensus size: 130
2202779 GAGATAAAAT
* * * *
2202789 GATAATATCTAATTATTTCCGATCGAGAATAAATGACCTCTCATGCCTTAAAGCAGTA-ATTTAT
1 GATAATATCTAATGATTTCCAATCGAGAATAAATGATCTCTCATGCCTTAAAGCA-AACATTTAT
*
2202853 TACTCCAATCAAAATGAAGAGATATTACTATTTCGTCTTAAAATTCAATATCGATTCGAGTGAAA
65 TACTCCAATCGAAATGAAGAGATATTACTATTTCGTCTTAAAATTCAATATCGATTCGAGTGAAA
2202918 C
130 C
* *
2202919 GATAATATCTAATGATTTCCAATCGATAATAAATGATCTCTCATACCTTAAAGCAAACATTTATT
1 GATAATATCTAATGATTTCCAATCGAGAATAAATGATCTCTCATGCCTTAAAGCAAACATTTATT
* * * * * * * *
2202984 GCTCCAAACGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATTGATTCTAGAGAAAA
66 ACTCCAATCGAAATGAAGAGATATTACTATTTCGTCTTAAAATTCAATATCGATTCGAGTG-AAA
2203049 C
130 C
* * * * * * * * **
2203050 AACAATATCGAATTATTTCCAATTGAGAATAAATGATATATCATGCCTTAAATCAGTCATTTATT
1 GATAATATCTAATGATTTCCAATCGAGAATAAATGATCTCTCATGCCTTAAAGCAAACATTTATT
* * *
2203115 ACTACAATCGAAATGAATAAATATTACTATTTCGTCTTAAAATTCAATATCGATTCGAGTGAAAC
66 ACTCCAATCGAAATGAAGAGATATTACTATTTCGTCTTAAAATTCAATATCGATTCGAGTGAAAC
*
2203180 GATAATATCTAATGATTTACAATCGA
1 GATAATATCTAATGATTTCCAATCGA
2203206 TTCGAGTGAA
Statistics
Matches: 241, Mismatches: 44, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
129 1 0.00
130 133 0.55
131 107 0.44
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (130 bp):
GATAATATCTAATGATTTCCAATCGAGAATAAATGATCTCTCATGCCTTAAAGCAAACATTTATT
ACTCCAATCGAAATGAAGAGATATTACTATTTCGTCTTAAAATTCAATATCGATTCGAGTGAAAC
Found at i:2203205 original size:38 final size:38
Alignment explanation
Indices: 2203163--2203244 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
2203153 AAAATTCAAT
2203163 ATCGATTCGAGTGAAACGATAATATCTAATGATTTACA
1 ATCGATTCGAGTGAAACGATAATATCTAATGATTTACA
*
2203201 ATCGATTCGAGTGAAATGATAATATCTAATGATTTACA
1 ATCGATTCGAGTGAAACGATAATATCTAATGATTTACA
2203239 ATCGAT
1 ATCGAT
2203245 AATAAATGAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (38 bp):
ATCGATTCGAGTGAAACGATAATATCTAATGATTTACA
Found at i:2203440 original size:299 final size:299
Alignment explanation
Indices: 2202902--2203505 Score: 958
Period size: 299 Copynumber: 2.0 Consensus size: 299
2202892 AAAATTCAAT
* * *
2202902 ATCGATTCGAGTGAAACGATAATATCTAATGATTTCCAATCGATAATAAATGATCTCTCATACCT
1 ATCGATTCGAGTGAAACGATAATATCTAATGATTTACAATCGATAATAAATGACCCCTCATACCT
*
2202967 TAAAGCAAACATTTATTGCTCCAAACGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAAT
66 TAAAGCAAACATTTATTGATCCAAACGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAAT
* * * *
2203032 ATTGATTCTAGAGAAAACAACAATATCGAATTATTTCCAATTGAGAATAAATGATATATCATGCC
131 ATTGATTCGAGAGAAAACAACAATATCGAATTATTTCCAATCGAGAATAAATGACATATCATACC
* * **
2203097 TTAAATCAGTCATTTATTACTACAATCGAAATGAATAAATATTACTATTTCGTCTTAAAATTCAA
196 TTAAAGCAGTCATTTATTACTACAATCGAAATGAAGAAATATTACTATTTAATCTTAAAATTCAA
2203162 TATCGATTCGAGTGAAACGATAATATCTAATGATTTACA
261 TATCGATTCGAGTGAAACGATAATATCTAATGATTTACA
*
2203201 ATCGATTCGAGTGAAATGATAATATCTAATGATTTACAATCGATAATAAATGACCCCTCATACCT
1 ATCGATTCGAGTGAAACGATAATATCTAATGATTTACAATCGATAATAAATGACCCCTCATACCT
** * *
2203266 TAAAGCATTCATTTATTGATCTAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAAT
66 TAAAGCAAACATTTATTGATCCAAACGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAAT
* * * * *
2203331 ATTGATTCGAGAGAAAACTATAATATTGAATTATTTCCAATCGAGAATAAATGACCTCTCATACC
131 ATTGATTCGAGAGAAAACAACAATATCGAATTATTTCCAATCGAGAATAAATGACATATCATACC
* *
2203396 TTAAAGCAGTCATTTATTACT-CGAATCGAAGTTAAGAAATATTACTATTTAATCTTAAAATTCA
196 TTAAAGCAGTCATTTATTACTAC-AATCGAAATGAAGAAATATTACTATTTAATCTTAAAATTCA
* *
2203460 ATATTGATTCGAGTGAAACGATAATATCTAATGATTTCCA
260 ATATCGATTCGAGTGAAACGATAATATCTAATGATTTACA
2203500 ATCGAT
1 ATCGAT
2203506 AATAAATGAC
Statistics
Matches: 278, Mismatches: 26, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
298 1 0.00
299 277 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (299 bp):
ATCGATTCGAGTGAAACGATAATATCTAATGATTTACAATCGATAATAAATGACCCCTCATACCT
TAAAGCAAACATTTATTGATCCAAACGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAAT
ATTGATTCGAGAGAAAACAACAATATCGAATTATTTCCAATCGAGAATAAATGACATATCATACC
TTAAAGCAGTCATTTATTACTACAATCGAAATGAAGAAATATTACTATTTAATCTTAAAATTCAA
TATCGATTCGAGTGAAACGATAATATCTAATGATTTACA
Found at i:2203536 original size:130 final size:131
Alignment explanation
Indices: 2203204--2203706 Score: 663
Period size: 131 Copynumber: 3.9 Consensus size: 131
2203194 ATTTACAATC
* * * *
2203204 GATTCGAGTG-AAATGATAATATCTAATGATTTACAATCGATAATAAATGACCCCTCATACCTTA
1 GATTCGAGAGAAAACGATAATATCTAATGATTTCCAATCGATAATAAATGACCTCTCATACCTTA
* *
2203268 AAGCATTCATTTATTGA-TCTAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATA
66 AAGCAGTCATTTATT-ACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATA
2203332 TT
130 TT
* * *
2203334 GATTCGAGAGAAAACTATAATAT-TGAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTT
1 GATTCGAGAGAAAACGATAATATCT-AATGATTTCCAATCGATAATAAATGACCTCTCATACCTT
* * * * * *** *
2203398 AAAGCAGTCATTTATTACTCGAATCGAAGTTAAGAAATATTACTATTTAATCTTAAAATTCAATA
65 AAAGCAGTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATA
2203463 TT
130 TT
*
2203465 GATTCGAGTG-AAACGATAATATCTAATGATTTCCAATCGATAATAAATGACCTCTCATACCTTA
1 GATTCGAGAGAAAACGATAATATCTAATGATTTCCAATCGATAATAAATGACCTCTCATACCTTA
* * * *
2203529 AAACAGTCATTTATTGCTCCAATCGAAATGAAGAGATATCATTATTCCGTCTTAAAAATCATTAT
66 AAGCAGTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATAT
2203594 T
131 T
* * * * * *
2203595 GATTCGAGAGAAAATGGTAATATCGAATTATTTCCAATCGATAATAAATGACCTCTCATGCCTTC
1 GATTCGAGAGAAAACGATAATATCTAATGATTTCCAATCGATAATAAATGACCTCTCATACCTTA
* * * *
2203660 AAGCAGTCATTTATTACTCCAACCAAAATGAAAAGATATTACTATTC
66 AAGCAGTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTC
2203707 TCAATATCGA
Statistics
Matches: 320, Mismatches: 48, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
130 122 0.38
131 198 0.62
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (131 bp):
GATTCGAGAGAAAACGATAATATCTAATGATTTCCAATCGATAATAAATGACCTCTCATACCTTA
AAGCAGTCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATAT
T
Found at i:2203668 original size:261 final size:261
Alignment explanation
Indices: 2203204--2203678 Score: 808
Period size: 261 Copynumber: 1.8 Consensus size: 261
2203194 ATTTACAATC
*
2203204 GATTCGAGTGAAATGATAATATCTAATGATTTACAATCGATAATAAATGACCCCTCATACCTTAA
1 GATTCGAGTGAAACGATAATATCTAATGATTTACAATCGATAATAAATGACCCCTCATACCTTAA
* * *
2203269 AGCATTCATTTATTGATCTAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATT
66 AACAGTCATTTATTGATCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATT
*
2203334 GATTCGAGAGAAAACTATAATATTGAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTA
131 GATTCGAGAGAAAACTATAATATCGAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTA
2203399 AAGCAGTCATTTATTACTCGAATCGAAGTTAAGAAATATTACTATTTAATCTTAAAATTCAATAT
196 AAGCAGTCATTTATTACTCGAATCGAAGTTAAGAAATATTACTATTTAATCTTAAAATTCAATAT
2203464 T
261 T
* *
2203465 GATTCGAGTGAAACGATAATATCTAATGATTTCCAATCGATAATAAATGACCTCTCATACCTTAA
1 GATTCGAGTGAAACGATAATATCTAATGATTTACAATCGATAATAAATGACCCCTCATACCTTAA
* * *
2203530 AACAGTCATTTATTGCTCCAATCGAAATGAAGAGATATCATTATTCCGTCTTAAAAATCATTATT
66 AACAGTCATTTATTGATCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATT
* * *
2203595 GATTCGAGAGAAAA-TGGTAATATCGAATTATTTCCAATCGATAATAAATGACCTCTCATGCCTT
131 GATTCGAGAGAAAACT-ATAATATCGAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTT
*
2203659 CAAGCAGTCATTTATTACTC
195 AAAGCAGTCATTTATTACTC
2203679 CAACCAAAAT
Statistics
Matches: 199, Mismatches: 14, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
260 1 0.01
261 198 0.99
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (261 bp):
GATTCGAGTGAAACGATAATATCTAATGATTTACAATCGATAATAAATGACCCCTCATACCTTAA
AACAGTCATTTATTGATCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATT
GATTCGAGAGAAAACTATAATATCGAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTA
AAGCAGTCATTTATTACTCGAATCGAAGTTAAGAAATATTACTATTTAATCTTAAAATTCAATAT
T
Found at i:2205870 original size:3 final size:3
Alignment explanation
Indices: 2205864--2205945 Score: 92
Period size: 3 Copynumber: 27.3 Consensus size: 3
2205854 AAAATAAAAA
* * * *
2205864 AAT AAT AAT ATT AAT AAT ACT GAT AAA AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
2205912 AAT TAT AAT TAT AAC AAC AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2205946 CGGGATAAAA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2205898 original size:30 final size:30
Alignment explanation
Indices: 2205857--2205957 Score: 105
Period size: 30 Copynumber: 3.3 Consensus size: 30
2205847 CCTTACAAAA
*
2205857 ATAAAAA-AATAATAATATTAATAATACTG
1 ATAAAAATAATAATAATAATAATAATACTG
* *
2205886 ATAAAAATAATAATAATAATAATAATAATT
1 ATAAAAATAATAATAATAATAATAATACTG
* * *
2205916 ATAATTATAACAACAATAATAATAATAATACGGG
1 ATAA--A-AATAATAATAATAATAATAATAC-TG
2205950 ATAAAAAT
1 ATAAAAAT
2205958 GAGTAACGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
29 7 0.12
30 23 0.40
31 2 0.03
32 2 0.03
33 20 0.34
34 4 0.07
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (30 bp):
ATAAAAATAATAATAATAATAATAATACTG
Found at i:2206222 original size:134 final size:134
Alignment explanation
Indices: 2205980--2206321 Score: 477
Period size: 134 Copynumber: 2.6 Consensus size: 134
2205970 CTGCCCTTCT
*
2205980 TTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGA
1 TTGAGGGAAAATTAGATCTGGGGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGA
* * * * * ***
2206045 GGCAGACTTGTTCCACTGTTACTCAGTGAAGATCAATTATTGAAAGAGAGGGATATGTTTTTCTT
66 GGAAGACTTGTTCCACTGTTACTAAGGGAAGATCAAATATTGAAAGAGAGGAATATGTTCCGCTT
2206110 ATTC
131 ATTC
* * *
2206114 TTGAGGGAAAATTATATCTAGGGACGTTGATTCATTCCACTGTTCTCCAGGGAAGATTGAATCGA
1 TTGAGGGAAAATTAGATCTGGGGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGA
* * * * *
2206179 GGTAGACTTTTTCCGCTGTTACTAAGGGAAGATCAAATCTTGAAAGAGAGGAATTTGTTCCGCTT
66 GGAAGACTTGTTCCACTGTTACTAAGGGAAGATCAAATATTGAAAGAGAGGAATATGTTCCGCTT
*
2206244 CTTC
131 ATTC
* * * * *
2206248 TTGAGGAAAAATTAGATCTGGGGACGTTGATTCATTCCACTCTTCTTCATGGAATATTAAATCGA
1 TTGAGGGAAAATTAGATCTGGGGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGA
2206313 GGAAGACTT
66 GGAAGACTT
2206322 ACTTTTCTTA
Statistics
Matches: 182, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
134 182 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (134 bp):
TTGAGGGAAAATTAGATCTGGGGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGA
GGAAGACTTGTTCCACTGTTACTAAGGGAAGATCAAATATTGAAAGAGAGGAATATGTTCCGCTT
ATTC
Found at i:2212751 original size:131 final size:131
Alignment explanation
Indices: 2212421--2212783 Score: 476
Period size: 130 Copynumber: 2.8 Consensus size: 131
2212411 TTTTAAGAGG
***
2212421 GAAAACGATAATATCTAATTATTTTTTATCGAGAATAAATAACCTCTCATACCTTAAAGCAGTCA
1 GAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAACCTCTCATACCTTAAAGCAGTCA
* * * * *
2212486 TTTATTACTCCAATCGAAATGAATAGATATTACTATTTCATCTTAAAATTCAATATTGATTCGAG
66 TTTATTACTCCAATTGAAATGAAAAGATATCACTATTTCATCTTAAAAATCAATATTGATTCAAG
*
2212551 T
131 A
* * * * * * *
2212552 G-AAATGATAATATCTAATGATTTCCAATTGAGAAAAAATGACATCTCATACCTTAAAGCAATCA
1 GAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAACCTCTCATACCTTAAAGCAGTCA
* * * *
2212616 TTTATTGCTCCAATTGAAATGAAGAGATATCATTATTTCGTCTTAAAAATCAATATTGATTCAAG
66 TTTATTACTCCAATTGAAATGAAAAGATATCACTATTTCATCTTAAAAATCAATATTGATTCAAG
2212681 A
131 A
* * **
2212682 GAAAACGATAATATCAAATTATTTCCAATCGAGAATAAATAACCTCTCATGCCTTAAAATAGTCA
1 GAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAACCTCTCATACCTTAAAGCAGTCA
* * *
2212747 TTTATTACTCCAACTAAAATGAAAAGATATTACTATT
66 TTTATTACTCCAATTGAAATGAAAAGATATCACTATT
2212784 CTCAATATCG
Statistics
Matches: 195, Mismatches: 36, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
130 111 0.57
131 84 0.43
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (131 bp):
GAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATAACCTCTCATACCTTAAAGCAGTCA
TTTATTACTCCAATTGAAATGAAAAGATATCACTATTTCATCTTAAAAATCAATATTGATTCAAG
A
Found at i:2214893 original size:3 final size:3
Alignment explanation
Indices: 2214856--2214907 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
2214846 CAAAATTAAA
* * * * *
2214856 AAT AAT ATT ATT AAC AAT AAT GAT AAT AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2214904 AAT A
1 AAT A
2214908 CGGGACGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:2221131 original size:24 final size:23
Alignment explanation
Indices: 2221100--2221146 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
2221090 TATAATATAT
* *
2221100 GATTTTAATGTATATTATTATTA
1 GATTTTAATATATATTAGTATTA
*
2221123 GATTCTTAATATTTATTAGTATTA
1 GATT-TTAATATATATTAGTATTA
2221147 AAGTTATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (23 bp):
GATTTTAATATATATTAGTATTA
Found at i:2226742 original size:28 final size:28
Alignment explanation
Indices: 2226702--2226760 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
2226692 CAATAAATGA
*
2226702 TGAGAGGTGTGGGGTGGCAACCTTTACT
1 TGAGAGGTGTGGGGTGGAAACCTTTACT
2226730 TGAGAGGTGTGGGGTGGAAACCTTTACT
1 TGAGAGGTGTGGGGTGGAAACCTTTACT
2226758 TGA
1 TGA
2226761 AGTAGTTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.20, C:0.12, G:0.39, T:0.29
Consensus pattern (28 bp):
TGAGAGGTGTGGGGTGGAAACCTTTACT
Found at i:2229806 original size:31 final size:31
Alignment explanation
Indices: 2229768--2229861 Score: 136
Period size: 31 Copynumber: 3.0 Consensus size: 31
2229758 CCCGAAGGAC
* * *
2229768 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
2229799 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2229830 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2229861 C
1 C
2229862 CCTCGACCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 56 0.98
32 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2230695 original size:21 final size:21
Alignment explanation
Indices: 2230665--2230709 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2230655 TGTTATTCGT
* *
2230665 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2230686 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2230707 TTG
1 TTG
2230710 CCTAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2233798 original size:37 final size:37
Alignment explanation
Indices: 2233718--2233791 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
2233708 GAAAATGCAT
**
2233718 AATACAAGGGCCAAAATTAAAAAGGAGAAAAGGTACA
1 AATACAAGGGCCAAAAGCAAAAAGGAGAAAAGGTACA
**
2233755 AATACAAGGGCCAAAAGCAAAAAGTTG-AAAGGTACA
1 AATACAAGGGCCAAAAGCAAAAAGGAGAAAAGGTACA
2233791 A
1 A
2233792 TTTACAAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 10 0.30
37 23 0.70
ACGTcount: A:0.55, C:0.12, G:0.22, T:0.11
Consensus pattern (37 bp):
AATACAAGGGCCAAAAGCAAAAAGGAGAAAAGGTACA
Found at i:2233802 original size:15 final size:15
Alignment explanation
Indices: 2233782--2233814 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
2233772 CAAAAAGTTG
2233782 AAAGGTACAATTTAC
1 AAAGGTACAATTTAC
2233797 AAAGGTACAATTTAC
1 AAAGGTACAATTTAC
2233812 AAA
1 AAA
2233815 TACAACTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (15 bp):
AAAGGTACAATTTAC
Found at i:2245748 original size:180 final size:185
Alignment explanation
Indices: 2245417--2245784 Score: 640
Period size: 180 Copynumber: 2.0 Consensus size: 185
2245407 TGTGCTTATT
*
2245417 CTTTGATTGACCCTTCTTCTTCAATAGTGGGCAATCATATTTGACATGCCCTGGCTTTTTGCATT
1 CTTTCATTGACCCTTCTTCTT-AATAGTGGGCAATCATATTTGACA--CCCTGGCTTTTTGCATT
2245482 CATAGCAAATGATCGGGTCCTTCTCTTTTGGTTCATCTTTGAGGCCTTCATTTCGTTGAATTTTC
63 CATAGCAAATGATCGGGTCCTTCTCTTTTGGTTCATCTTTGAGGCCTTCATTTCGTTGAATTTTC
2245547 TTCCTCGGTAAGGTCTCATCATTTTTCTG-ACCGTTTGGCAAACAATGCCATTTCCTCG
128 TTCCTCGGTAAGGTCTCATCA-TTTTCTGAACCGTTTGGCAAACAATGCCATTTCCTCG
*
2245605 CTTTCATTGACCCTTCTT-TT-GTAGTGGGCAATCATA-TTG-C-CCCTGGCTTTTTGCATTCAT
1 CTTTCATTGACCCTTCTTCTTAATAGTGGGCAATCATATTTGACACCCTGGCTTTTTGCATTCAT
2245665 AGCAAATGATCGGGTCCTTCTCTTTTGGTTCATCTTTGAGGCCTTCATTTCGTTGAATTTTCTTC
66 AGCAAATGATCGGGTCCTTCTCTTTTGGTTCATCTTTGAGGCCTTCATTTCGTTGAATTTTCTTC
2245730 CTCGGTAAGGTCTCATCATTTTCTGAACCGTTTGGCAAACAATGCCATTTCCTCG
131 CTCGGTAAGGTCTCATCATTTTCTGAACCGTTTGGCAAACAATGCCATTTCCTCG
2245785 TCATCATCAT
Statistics
Matches: 177, Mismatches: 2, Indels: 10
0.94 0.01 0.05
Matches are distributed among these distances:
179 7 0.04
180 132 0.75
183 1 0.01
184 3 0.02
185 15 0.08
187 2 0.01
188 17 0.10
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (185 bp):
CTTTCATTGACCCTTCTTCTTAATAGTGGGCAATCATATTTGACACCCTGGCTTTTTGCATTCAT
AGCAAATGATCGGGTCCTTCTCTTTTGGTTCATCTTTGAGGCCTTCATTTCGTTGAATTTTCTTC
CTCGGTAAGGTCTCATCATTTTCTGAACCGTTTGGCAAACAATGCCATTTCCTCG
Found at i:2247776 original size:11 final size:11
Alignment explanation
Indices: 2247758--2247796 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2247748 TTAAATTTGA
2247758 AATAATTTAAT
1 AATAATTTAAT
* *
2247769 AGTAATTTATT
1 AATAATTTAAT
*
2247780 ATTAATTTAAT
1 AATAATTTAAT
2247791 AATAAT
1 AATAAT
2247797 ATTTAAATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
AATAATTTAAT
Found at i:2248665 original size:2 final size:2
Alignment explanation
Indices: 2248658--2248709 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2248648 ACCAAATTAT
2248658 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
2248700 TA TA TA TA TA
1 TA TA TA TA TA
2248710 ATAAGCTTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2249107 original size:41 final size:41
Alignment explanation
Indices: 2249049--2249130 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
2249039 ATGCCTTCGG
*
2249049 AAAAAAACATTTCCCAAAGTAATCCACCTCCAATATTATTT
1 AAAAAAACATTTACCAAAGTAATCCACCTCCAATATTATTT
* *
2249090 AAAAAATCATTTACCAAAGTAATCCATCTCCAATATTATTT
1 AAAAAAACATTTACCAAAGTAATCCACCTCCAATATTATTT
2249131 CCCAGATTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (41 bp):
AAAAAAACATTTACCAAAGTAATCCACCTCCAATATTATTT
Found at i:2250520 original size:2 final size:2
Alignment explanation
Indices: 2250513--2250542 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2250503 TTTGAGCTTA
2250513 AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2250543 AATTTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2250553 original size:17 final size:17
Alignment explanation
Indices: 2250513--2250545 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2250503 TTTGAGCTTA
*
2250513 ATAT-ATATATATATAT
1 ATATAATATATATAAAT
2250529 ATATAATATATATAAAT
1 ATATAATATATATAAAT
2250546 TTTTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATAATATATATAAAT
Found at i:2251452 original size:11 final size:11
Alignment explanation
Indices: 2251438--2251498 Score: 68
Period size: 11 Copynumber: 5.5 Consensus size: 11
2251428 ATATTTAAAT
2251438 ATTATTATTAA
1 ATTATTATTAA
* *
2251449 ATTAATAATAA
1 ATTATTATTAA
*
2251460 TTTATTATTAA
1 ATTATTATTAA
* *
2251471 ATTAATAATAA
1 ATTATTATTAA
*
2251482 TTTATTATTAA
1 ATTATTATTAA
2251493 ATTATT
1 ATTATT
2251499 TAAATTTAAA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTATTATTAA
Found at i:2251465 original size:22 final size:22
Alignment explanation
Indices: 2251439--2251496 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
2251429 TATTTAAATA
2251439 TTATTATTAAATTAATAATAAT
1 TTATTATTAAATTAATAATAAT
2251461 TTATTATTAAATTAATAATAAT
1 TTATTATTAAATTAATAATAAT
2251483 TTATTATTAAATTA
1 TTATTATTAAATTA
2251497 TTTAAATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTATTAAATTAATAATAAT
Found at i:2254658 original size:26 final size:26
Alignment explanation
Indices: 2254624--2254712 Score: 151
Period size: 26 Copynumber: 3.4 Consensus size: 26
2254614 TTTATCAAGT
*
2254624 TGAATAAACATATAAAACATTAAAAG
1 TGAACAAACATATAAAACATTAAAAG
2254650 TGAACAAACATATAAAACATTAAAAG
1 TGAACAAACATATAAAACATTAAAAG
*
2254676 TGAACAAACATATAAAACAGTAAAAG
1 TGAACAAACATATAAAACATTAAAAG
*
2254702 TGAATAAACAT
1 TGAACAAACAT
2254713 GTTTTCCATA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.61, C:0.10, G:0.09, T:0.20
Consensus pattern (26 bp):
TGAACAAACATATAAAACATTAAAAG
Found at i:2258810 original size:22 final size:22
Alignment explanation
Indices: 2258785--2258840 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
2258775 GTGAAATTTA
2258785 TCCCGAAGGACCTATATATATG
1 TCCCGAAGGACCTATATATATG
* * *
2258807 TCCCGAAGAACCTCTGTATATG
1 TCCCGAAGGACCTATATATATG
2258829 TCCCGAAGGACC
1 TCCCGAAGGACC
2258841 ACTATCCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (22 bp):
TCCCGAAGGACCTATATATATG
Found at i:2258896 original size:30 final size:30
Alignment explanation
Indices: 2258841--2258915 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
2258831 CCGAAGGACC
2258841 ACTATCCATATGTTCCAAAGAACATAAGT-A
1 ACTATCCATATG-TCCAAAGAACATAAGTAA
* * * *
2258871 ACTGTCCATATGTCCTGAAGGACATATGTAA
1 ACTATCCATATGTCC-AAAGAACATAAGTAA
*
2258902 ACTATCAATATGTC
1 ACTATCCATATGTC
2258916 TCGAAAGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 3 0.08
30 21 0.57
31 13 0.35
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.29
Consensus pattern (30 bp):
ACTATCCATATGTCCAAAGAACATAAGTAA
Found at i:2260107 original size:23 final size:23
Alignment explanation
Indices: 2260081--2260129 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
2260071 ATAAAGAACC
2260081 AAAATAAA-CTTAAATATACCATT
1 AAAATAAAGCTTAAATAT-CCATT
*
2260104 AAAATAAAGTTTAAATATCCATT
1 AAAATAAAGCTTAAATATCCATT
2260127 AAA
1 AAA
2260130 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAATAAAGCTTAAATATCCATT
Found at i:2264987 original size:22 final size:22
Alignment explanation
Indices: 2264952--2265009 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
2264942 ATATGAAATT
* *
2264952 TGTCCCGAAGGACCTATTTATA
1 TGTCCCGAAAGACCTATGTATA
* *
2264974 TGTCCTGAAAGACCTCTGTATA
1 TGTCCCGAAAGACCTATGTATA
*
2264996 TGTCCCGAATGACC
1 TGTCCCGAAAGACC
2265010 AATATCCATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (22 bp):
TGTCCCGAAAGACCTATGTATA
Found at i:2265098 original size:31 final size:31
Alignment explanation
Indices: 2265031--2265101 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
2265021 TTTCTGAAGA
* * *
2265031 ACATAGGT-AACTGTCCATATGTCCCGAAGG
1 ACATAGGTAAACTATCCATATATCCCGAAAG
* *
2265061 ACATAGGTAAACTATCCTTATATCTCGAAAG
1 ACATAGGTAAACTATCCATATATCCCGAAAG
2265092 ACATAGGTAA
1 ACATAGGTAA
2265102 CCCTCGACTC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 8 0.23
31 27 0.77
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (31 bp):
ACATAGGTAAACTATCCATATATCCCGAAAG
Found at i:2274837 original size:8 final size:7
Alignment explanation
Indices: 2274810--2274834 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2274800 AATCCTAAGA
2274810 AAAAGTG
1 AAAAGTG
2274817 AAAAGTG
1 AAAAGTG
2274824 AAAAGTG
1 AAAAGTG
2274831 AAAA
1 AAAA
2274835 AGTTCCCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (7 bp):
AAAAGTG
Found at i:2282656 original size:18 final size:17
Alignment explanation
Indices: 2282622--2282763 Score: 67
Period size: 15 Copynumber: 8.7 Consensus size: 17
2282612 TTCAAGAACA
2282622 ATTA-TAAAAT-ATAGTT
1 ATTATTAAAATAAT-GTT
2282638 ATTTATTAAAATAATGTT
1 A-TTATTAAAATAATGTT
* * * *
2282656 AAATAATT-TAATAAGGCT
1 --ATTATTAAAATAATGTT
2282674 ATTTATTTTAAAATAAT-TT
1 A-TTA-TT-AAAATAATGTT
2282693 ATTA-TAAAATAAT-TT
1 ATTATTAAAATAATGTT
2282708 ATT-TTAAAATAAT-TT
1 ATTATTAAAATAATGTT
*
2282723 AATA-TAAAATAAT-TT
1 ATTATTAAAATAATGTT
* *
2282738 ACT-TTAAAATAA-ATT
1 ATTATTAAAATAATGTT
2282753 ATTA-TAAAATA
1 ATTATTAAAATA
2282764 TGGATTGATT
Statistics
Matches: 101, Mismatches: 11, Indels: 29
0.72 0.08 0.21
Matches are distributed among these distances:
15 58 0.57
16 3 0.03
17 5 0.05
18 21 0.21
19 8 0.08
20 6 0.06
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTATTAAAATAATGTT
Found at i:2282710 original size:30 final size:30
Alignment explanation
Indices: 2282674--2282803 Score: 154
Period size: 30 Copynumber: 4.1 Consensus size: 30
2282664 TAATAAGGCT
2282674 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
*
2282704 ATTTATTTTAAAATAATTTAATATAAAATA
1 ATTTATTTTAAAATAATTTATTATAAAATA
* *
2282734 ATTTACTTTAAAATAAATTATTATAAAATATGGA
1 ATTTATTTTAAAATAATTTATTAT-AAA-AT--A
*
2282768 TTGATTTATTTTAAAATAATTTATT-TTAAATA
1 ---ATTTATTTTAAAATAATTTATTATAAAATA
2282800 ATTT
1 ATTT
2282804 TTAGTATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
29 4 0.05
30 50 0.58
31 3 0.03
32 3 0.03
34 3 0.03
35 2 0.02
36 1 0.01
37 20 0.23
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (30 bp):
ATTTATTTTAAAATAATTTATTATAAAATA
Found at i:2282800 original size:14 final size:15
Alignment explanation
Indices: 2282674--2282803 Score: 136
Period size: 15 Copynumber: 8.3 Consensus size: 15
2282664 TAATAAGGCT
2282674 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
2282689 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
2282704 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
2282719 ATTTAATATAAAATA
1 ATTTATTTTAAAATA
*
2282734 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
2282749 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
2282768 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
2282786 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
2282800 ATTT
1 ATTT
2282804 TTAGTATGGA
Statistics
Matches: 97, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
14 9 0.09
15 68 0.70
16 4 0.04
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.04
22 6 0.06
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:2282838 original size:22 final size:22
Alignment explanation
Indices: 2282808--2282850 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2282798 TAATTTTTAG
*
2282808 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
2282830 TATGAATTGTTTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
2282851 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:2282874 original size:54 final size:54
Alignment explanation
Indices: 2282786--2283268 Score: 306
Period size: 54 Copynumber: 8.8 Consensus size: 54
2282776 TTTTAAAATA
2282786 ATTTATTTTAAATAATTT-TTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
* *
2282839 TTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
*
2282893 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
* * **
2282947 ATTTA--TT--AT--TGTAGTT-GTATGAATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGAATT-G
** * ** * * *
2282996 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G-A---ATTG
* * *
2283059 ATTTATTTTAAATAAATTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
*
2283113 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G-A---ATTG
** ** * ** * * *
2283171 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGAATTG
2283225 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
2283269 TAATTTATTT
Statistics
Matches: 333, Mismatches: 50, Indels: 93
0.70 0.11 0.20
Matches are distributed among these distances:
47 4 0.01
48 48 0.14
49 7 0.02
50 9 0.03
51 1 0.00
52 6 0.02
53 19 0.06
54 139 0.42
55 14 0.04
56 4 0.01
57 3 0.01
58 12 0.04
59 4 0.01
60 6 0.02
62 11 0.03
63 22 0.07
64 24 0.07
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
Found at i:2282878 original size:32 final size:32
Alignment explanation
Indices: 2282830--2282936 Score: 126
Period size: 32 Copynumber: 3.7 Consensus size: 32
2282820 TATTTTAAAA
*
2282830 TATGAATTGTTTTATTTTAAATAATTTATTAG
1 TATGAATTGATTTATTTTAAATAATTTATTAG
*
2282862 TATGGATTGATTTATTTT-AA-AA--TA-T-G
1 TATGAATTGATTTATTTTAAATAATTTATTAG
2282888 ---G-ATTGATTTATTTTAAATAATTTATTAG
1 TATGAATTGATTTATTTTAAATAATTTATTAG
2282916 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
2282937 ATATGAATTG
Statistics
Matches: 63, Mismatches: 2, Indels: 20
0.74 0.02 0.24
Matches are distributed among these distances:
22 13 0.21
23 3 0.05
24 2 0.03
26 3 0.05
27 2 0.03
28 3 0.05
30 2 0.03
31 3 0.05
32 32 0.51
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
TATGAATTGATTTATTTTAAATAATTTATTAG
Found at i:2282887 original size:22 final size:22
Alignment explanation
Indices: 2282862--2282904 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2282852 AATTTATTAG
2282862 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2282884 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2282905 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2282930 original size:18 final size:18
Alignment explanation
Indices: 2282907--2282954 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
2282897 ATTTTAAATA
*
2282907 ATTTATTAGTATGAATTG
1 ATTTATTAATATGAATTG
2282925 ATTTATTTTAAAATATGAATTG
1 ATTTA--TT--AATATGAATTG
2282947 ATTTATTA
1 ATTTATTA
2282955 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGAATTG
Found at i:2283005 original size:32 final size:32
Alignment explanation
Indices: 2282963--2283300 Score: 253
Period size: 32 Copynumber: 10.7 Consensus size: 32
2282953 TATTGTAGTT
*
2282963 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
2282995 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
2283018 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
2283049 GTATGGATTGATTTATTTTAAATAAATTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
**
2283081 GTATGGATTGATTTATTTTAAA-ATATGGATT-
1 GTATGGATTGATTTATTTTAAATA-ATTTATTA
** * * *
2283112 G-ATTTATT-ATTGTAGTTGTATGGATTGATTTATT-
1 GTATGGATTGATT-TA-TT-T-T-AAATAATTTATTA
* * * * * *
2283146 -T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATT--T-T-AAATAATTTA--TT--A
*
2283183 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
2283215 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
2283247 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
2283279 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
2283301 ATATGGATTG
Statistics
Matches: 253, Mismatches: 25, Indels: 56
0.76 0.07 0.17
Matches are distributed among these distances:
22 14 0.06
23 4 0.02
25 1 0.00
26 3 0.01
28 3 0.01
29 4 0.02
30 7 0.03
31 10 0.04
32 172 0.68
33 5 0.02
34 10 0.04
36 7 0.03
37 1 0.00
38 2 0.01
39 1 0.00
40 9 0.04
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:2283021 original size:22 final size:22
Alignment explanation
Indices: 2282996--2283038 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2282986 AATTTATTAG
2282996 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2283018 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2283039 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2283056 original size:166 final size:166
Alignment explanation
Indices: 2282884--2283268 Score: 716
Period size: 166 Copynumber: 2.3 Consensus size: 166
2282874 TATTTTAAAA
*
2282884 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
2282949 TTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
2283014 AAAATATGGATTGATTTATTTTAAATAATTTATTAG
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAG
* * *
2283050 TATGGATTGATTTATTTTAAATAAATTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
*
2283115 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
66 TTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
2283180 AAAATATGGATTGATTTATTTTAAATAATTTATTAG
131 AAAATATGGATTGATTTATTTTAAATAATTTATTAG
*
2283216 TATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
2283269 TAATTTATTT
Statistics
Matches: 211, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 211 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (166 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
TTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
AAAATATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:2283187 original size:22 final size:22
Alignment explanation
Indices: 2283162--2283204 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2283152 AATTTATTAG
2283162 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2283184 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2283205 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2283212 original size:14 final size:14
Alignment explanation
Indices: 2283193--2283278 Score: 55
Period size: 14 Copynumber: 5.6 Consensus size: 14
2283183 ATATGGATTG
2283193 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
2283207 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
2283225 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* * *
2283239 ATTTATTAGTATGGATTG
1 ATTTATT--T-T-AAATA
2283257 ATTTATTTTAAATA
1 ATTTATTTTAAATA
2283271 ATTTATTT
1 ATTTATTT
2283279 GTATGGATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
14 27 0.50
15 2 0.04
16 4 0.07
17 2 0.04
18 19 0.35
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (14 bp):
ATTTATTTTAAATA
Done.