Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 137 of 259
Found at i:44640219 original size:47 final size:47
Alignment explanation
Indices: 44640150--44640318 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
44640140 GGGTGTTACA
44640150 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* * *
44640197 GCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* * *
44640244 GCCGATGTGATGGATGTGAAGGTGTATATATGTGATAAGGCCGAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
44640291 GCCAATGTGATGGATGTGAAAGTGTATA
1 GCCAATGTGATGAATGTGAAAGTGTATA
44640319 AATACGATAA
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 111 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
Found at i:44642325 original size:38 final size:38
Alignment explanation
Indices: 44642280--44642392 Score: 163
Period size: 38 Copynumber: 3.0 Consensus size: 38
44642270 AATCCGGGCT
** *
44642280 TAAAGACCCGATGACTATAAGTAGAGATTGTGTCCGGG
1 TAAAGACCCGATGACTATGTGTAGAGATTATGTCCGGG
*
44642318 TAAAGACCCGATGACTATGTGTAGAGATTATGCCCGGG
1 TAAAGACCCGATGACTATGTGTAGAGATTATGTCCGGG
* * *
44642356 TAAAGATCCGATGGCTATGTGCAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATGTGTAGAGATTATGTCCGG
44642393 ATTAAAATTC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (38 bp):
TAAAGACCCGATGACTATGTGTAGAGATTATGTCCGGG
Found at i:44642505 original size:40 final size:40
Alignment explanation
Indices: 44642450--44642640 Score: 310
Period size: 40 Copynumber: 4.8 Consensus size: 40
44642440 CTCGACGATG
*
44642450 ATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
* *
44642490 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
*
44642530 ATCCGAGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
*
44642570 ATCAGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
* * *
44642610 ATCCGGGCTAAGTCCTGAAGGGCTTTCGTGC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
44642641 CGATGATGTG
Statistics
Matches: 139, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
Found at i:44642838 original size:25 final size:25
Alignment explanation
Indices: 44642809--44642886 Score: 122
Period size: 25 Copynumber: 3.1 Consensus size: 25
44642799 TGTGTAATAA
44642809 CGAATGAATATAGGCACTGTGTGTG
1 CGAATGAATATAGGCACTGTGTGTG
*
44642834 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGGCACTGTGTGTG
*
44642859 CGAATGAAT-TGAGACACTGTGTGTG
1 CGAATGAATAT-AGGCACTGTGTGTG
44642884 CGA
1 CGA
44642887 GATCGGTCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
24 1 0.02
25 48 0.98
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAGGCACTGTGTGTG
Found at i:44642907 original size:28 final size:28
Alignment explanation
Indices: 44642871--44642969 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
44642861 AATGAATTGA
44642871 GACACTGTGTGTGCGAGATCGGTCAATG
1 GACACTGTGTGTGCGAGATCGGTCAATG
* * **
44642899 GACACTGTGTGTGCGA-ATTC-TTTAACC
1 GACACTGTGTGTGCGAGA-TCGGTCAATG
* *
44642926 GAGCACTATGTGTGCGAGATCGGTCAGTG
1 GA-CACTGTGTGTGCGAGATCGGTCAATG
*
44642955 GGCACTGTGTGTGCG
1 GACACTGTGTGTGCG
44642970 GATTTCATTT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
27 6 0.11
28 45 0.82
29 4 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.27
Consensus pattern (28 bp):
GACACTGTGTGTGCGAGATCGGTCAATG
Found at i:44646466 original size:47 final size:47
Alignment explanation
Indices: 44646031--44646455 Score: 697
Period size: 47 Copynumber: 9.0 Consensus size: 47
44646021 ACAAGATATG
*
44646031 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
44646078 TATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
44646125 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
44646172 TATATGTGACAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
44646219 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
44646266 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
44646313 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * *
44646360 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
44646407 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
44646454 TA
1 TA
44646456 AATACGATAA
Statistics
Matches: 351, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 351 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:44656339 original size:17 final size:19
Alignment explanation
Indices: 44656317--44656362 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
44656307 AAATAATTAA
44656317 AATAAATAAA-A-TAAAAT
1 AATAAATAAAGACTAAAAT
*
44656334 AATAAATGAAAGACTACAAT
1 AATAAAT-AAAGACTAAAAT
44656354 AATAAATAA
1 AATAAATAA
44656363 GAAAATAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 3 0.12
19 3 0.12
20 12 0.48
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (19 bp):
AATAAATAAAGACTAAAAT
Found at i:44664195 original size:48 final size:48
Alignment explanation
Indices: 44664047--44664195 Score: 208
Period size: 48 Copynumber: 3.1 Consensus size: 48
44664037 CATTAGGGTT
*
44664047 ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATTG
1 ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCG
* * * * *
44664095 ATAGGTGATCCCACGAAAGACCATGTCTGGGACATGGCATTGGCATCC
1 ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCG
* * **
44664143 ATATGTGATCCCATGTAAGACCATTTTTGGGATGTGGCATTGGCATCG
1 ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCG
44664191 ATATG
1 ATATG
44664196 GGACATCGTG
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (48 bp):
ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCG
Found at i:44664208 original size:48 final size:48
Alignment explanation
Indices: 44664047--44664280 Score: 180
Period size: 48 Copynumber: 5.0 Consensus size: 48
44664037 CATTAGGGTT
* * **
44664047 ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATTG
1 ATATGGGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC
* *
44664095 ATA-GGTGATCCCACGAAAGACCATGTCTGGGACATGGCATTGGCATCC
1 ATATGG-GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC
* * * ** *
44664143 ATATGTGATCCCATGTAAGACCATTTTTGGGATGTGGCATTGGCATCG
1 ATATGGGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC
* * * * *
44664191 ATATGGGA-CATCGTGTAAGACCATAG-CTGGG-CTATCGCCTTCG-A-CC
1 ATATGGGATC-CCATGTAAGACCAT-GTCTGGGAC-ATGGCATTGGCATCC
* * * *
44664237 ---TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGACATC
1 ATATGGGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
44664281 TTACTATGTA
Statistics
Matches: 142, Mismatches: 34, Indels: 23
0.71 0.17 0.12
Matches are distributed among these distances:
43 27 0.19
44 2 0.01
45 1 0.01
46 1 0.01
47 3 0.02
48 107 0.75
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
ATATGGGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC
Found at i:44664211 original size:96 final size:94
Alignment explanation
Indices: 44664047--44664280 Score: 230
Period size: 96 Copynumber: 2.5 Consensus size: 94
44664037 CATTAGGGTT
* * *
44664047 ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATTGATAGGTGATCCCACGAA
1 ATATGTGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATCGATAGGTGATCCCACGAA
* *
44664112 AGACCAT-GTCTGGGAC-ATGGCATTGGCATCC
66 AGACCATAG-CTGGG-CTATCGCATTCG-A-CC
* * * * **
44664143 ATATGTGATCCCATGTAAGACCATTTTTGGGATGTGGCATTGGCATCGATATGG-GA-CATCGTG
1 ATATGTGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATCGATA-GGTGATC-CCACG
* *
44664206 TAAGACCATAGCTGGGCTATCGCCTTCGACC
64 AAAGACCATAGCTGGGCTATCGCATTCGACC
* *
44664237 ---TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGACATC
1 ATATGTGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATC
44664281 TTACTATGTA
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
91 40 0.34
94 2 0.02
95 3 0.03
96 70 0.59
97 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (94 bp):
ATATGTGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATCGATAGGTGATCCCACGAA
AGACCATAGCTGGGCTATCGCATTCGACC
Found at i:44667727 original size:81 final size:81
Alignment explanation
Indices: 44667415--44667810 Score: 297
Period size: 81 Copynumber: 4.9 Consensus size: 81
44667405 TGTACGATAG
* * * * * *
44667415 AATTACTGAAATACCCTTG-GTT-TACAAATTACTG-AATACCTTTGGTTT-ACAAAATTACC-A
1 AATTACTAAAATACCCTCGATTTGTA-AAATTACCGAAATACCCTTGATTTGA-AAAATTACCGA
44667475 ACATACCCTTGA-TTACTAA
64 A-ATACCCTTGACTTAC-AA
* * * **
44667494 AATTACCAAAATACCC-CTGGTTTGTAAAATTACCAAAATATCCC-TGATTTGTGAAATTACCGA
1 AATTACTAAAATACCCTC-GATTTGTAAAATTACCGAAATA-CCCTTGATTTGAAAAATTACCGA
* * **
44667557 AATACCCTCGACCTGTAA
64 AATACCCTTGACTTACAA
* * * * ** * * **
44667575 AATTACCAAAATACCCTCAACTTATAAAATTACCGAAATACCCTCAACTTGTAAAATTATTGAAA
1 AATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGATTTGAAAAATTACCGAAA
* *
44667640 TTCCCTTGACTTGCAA
66 TACCCTTGACTTACAA
**
44667656 AATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGATTTGAAAAATTACAAAAA
1 AATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGATTTGAAAAATTACCGAAA
*
44667721 TACCCTTGATTTACAA
66 TACCCTTGACTTACAA
* ** ** ** * * *
44667737 AATTA-TAGAAATAGCCTTAACTTTCAAAAATTATAGAAATACCATTGGTTTGCAAAATTACCGA
1 AATTACTA-AAATACCCTCGA-TTTGTAAAATTACCGAAATACCCTTGATTTGAAAAATTACCGA
44667801 AATACCCTTG
64 AATACCCTTG
44667811 GTTTGTAGAT
Statistics
Matches: 250, Mismatches: 55, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
79 15 0.06
80 14 0.06
81 171 0.68
82 50 0.20
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTGATTTGAAAAATTACCGAAA
TACCCTTGACTTACAA
Found at i:44667730 original size:27 final size:27
Alignment explanation
Indices: 44667415--44667815 Score: 249
Period size: 27 Copynumber: 14.9 Consensus size: 27
44667405 TGTACGATAG
* * *
44667415 AATTACTGAAATACCCTTGGTTT-ACA
1 AATTACCGAAATACCCTTGATTTGAAA
* * *
44667441 AATTACTG-AATACCTTTGGTTT-ACAA
1 AATTACCGAAATACCCTTGATTTGA-AA
***
44667467 AATTACC-AACATACCCTTGATTACTAA
1 AATTACCGAA-ATACCCTTGATTTGAAA
* * * *
44667494 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCGAAATACCCTTGATTTGAAA
* **
44667521 AATTACCAAAATATCCC-TGATTTGTGA
1 AATTACCGAAATA-CCCTTGATTTGAAA
* ** *
44667548 AATTACCGAAATACCCTCGACCTGTAA
1 AATTACCGAAATACCCTTGATTTGAAA
* ** *
44667575 AATTACCAAAATACCCTCAACTT-ATAA
1 AATTACCGAAATACCCTTGATTTGA-AA
** * *
44667602 AATTACCGAAATACCCTCAACTTGTAA
1 AATTACCGAAATACCCTTGATTTGAAA
** * * *
44667629 AATTATTGAAATTCCCTTGACTTGCAA
1 AATTACCGAAATACCCTTGATTTGAAA
** * *
44667656 AATTACTAAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGAAA
44667683 AATTACCGAAATACCCTTGATTTGAAA
1 AATTACCGAAATACCCTTGATTTGAAA
**
44667710 AATTACAAAAATACCCTTGATTT-ACAA
1 AATTACCGAAATACCCTTGATTTGA-AA
** * * *
44667737 AATTATAGAAATAGCCTTAACTTTCAAA
1 AATTACCGAAATACCCTTGA-TTTGAAA
** * * *
44667765 AATTATAGAAATACCATTGGTTTGCAA
1 AATTACCGAAATACCCTTGATTTGAAA
*
44667792 AATTACCGAAATACCCTTGGTTTG
1 AATTACCGAAATACCCTTGATTTG
44667816 TAGATTTACC
Statistics
Matches: 308, Mismatches: 55, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
25 14 0.05
26 20 0.06
27 247 0.80
28 26 0.08
29 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGAAA
Found at i:44667732 original size:54 final size:54
Alignment explanation
Indices: 44667415--44667837 Score: 282
Period size: 54 Copynumber: 7.9 Consensus size: 54
44667405 TGTACGATAG
* * * ** * * **
44667415 AATTACTGAAATACCCTTGGTTT-ACAAATTA-CTGAATACCTTTGGTTTACAA
1 AATTACCGAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGTAA
*** * *
44667467 AATTACC-AACATACCCTTGATTACTAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCGAA-ATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGTAA
* ** * * **
44667521 AATTACCAAAATATCCC-TGATTTGTGAAATTACCGAAATACCCTCGACCTGTAA
1 AATTACCGAAATA-CCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGTAA
* ** * * ** *
44667575 AATTACCAAAATACCCTCAACTT-ATAAAATTACCGAAATACCCTCAACTTGTAA
1 AATTACCGAAATACCCTTGATTTGA-AAAATTACCAAAATACCCTTGATTTGTAA
** * * * * *
44667629 AATTATTGAAATTCCCTTGACTTGCAAAATTACTAAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGTAA
* **
44667683 AATTACCGAAATACCCTTGATTTGAAAAATTACAAAAATACCCTTGATTTACAA
1 AATTACCGAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGTAA
** * * * * * * *
44667737 AATTATAGAAATAGCCTTAACTTTCAAAAATTA-TAGAAATACCATTGGTTTGCAA
1 AATTACCGAAATACCCTTGA-TTTGAAAAATTACCA-AAATACCCTTGATTTGTAA
* * * * *
44667792 AATTACCGAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTG
44667838 TAGGGTGAAA
Statistics
Matches: 292, Mismatches: 68, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
51 2 0.01
52 17 0.06
53 9 0.03
54 216 0.74
55 48 0.16
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTGTAA
Found at i:44667835 original size:109 final size:108
Alignment explanation
Indices: 44667627--44667837 Score: 262
Period size: 109 Copynumber: 1.9 Consensus size: 108
44667617 CTCAACTTGT
* * * * *
44667627 AAAATTATTGAAATTCCCTTGACTTGCAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGA
1 AAAATTATAGAAATACCCTTAACTTGCAAAATTACTAAAATACCATCGATTTGCAAAATTACCGA
*
44667692 AATACCCTTGATTTGAAAAATTACAAAAATACCCTTGATTTAC
66 AATACCCTTGATTTGAAAAATTACAAAAACACCCTTGATTTAC
* * * *
44667735 AAAATTATAGAAATAGCCTTAACTTTCAAAAATTA-TAGAAATACCATTGGTTTGCAAAATTACC
1 AAAATTATAGAAATACCCTTAACTTGC-AAAATTACTA-AAATACCATCGATTTGCAAAATTACC
* * * * *
44667799 GAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
64 GAAATACCCTTGATTTGAAAAATTACAAAAACACCCTTG
44667838 TAGGGTGAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
108 24 0.28
109 62 0.72
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (108 bp):
AAAATTATAGAAATACCCTTAACTTGCAAAATTACTAAAATACCATCGATTTGCAAAATTACCGA
AATACCCTTGATTTGAAAAATTACAAAAACACCCTTGATTTAC
Found at i:44669246 original size:43 final size:43
Alignment explanation
Indices: 44669198--44669305 Score: 171
Period size: 43 Copynumber: 2.5 Consensus size: 43
44669188 GTGTTGCAGT
* * *
44669198 AAGGATTTAGCCTAGACGGGTAATCCGTTGATCTTATGTATAA
1 AAGGATCTAGCCCAGACGGGTAATCCGTTGATCTCATGTATAA
* *
44669241 AAGGATCTAGCCCAGACGGGTAATCTGTTGATCTCATTTATAA
1 AAGGATCTAGCCCAGACGGGTAATCCGTTGATCTCATGTATAA
44669284 AAGGATCTAGCCCAGACGGGTA
1 AAGGATCTAGCCCAGACGGGTA
44669306 TTCCTTCAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (43 bp):
AAGGATCTAGCCCAGACGGGTAATCCGTTGATCTCATGTATAA
Found at i:44669655 original size:17 final size:17
Alignment explanation
Indices: 44669633--44669666 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44669623 AAGATTAATG
44669633 TGACATATATATACAAA
1 TGACATATATATACAAA
44669650 TGACATATATATACAAA
1 TGACATATATATACAAA
44669667 CTTTCATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
TGACATATATATACAAA
Found at i:44671055 original size:41 final size:41
Alignment explanation
Indices: 44670933--44671044 Score: 161
Period size: 41 Copynumber: 2.7 Consensus size: 41
44670923 CAGAGGAAGA
* *
44670933 AATTGAGGATCACATGGTTGCTTGACGACCGTAGATTCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTAGATCCACC
* * *
44670974 GATTGAGGATCGCAGGGTTGCTTGACGACCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTAGATCCACC
* *
44671015 AATTAAGGATCGCATGGTAGCTTGACGACC
1 AATTGAGGATCGCATGGTTGCTTGACGACC
44671045 ATTTATCCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACGACCGTAGATCCACC
Found at i:44674417 original size:81 final size:80
Alignment explanation
Indices: 44674322--44674637 Score: 273
Period size: 81 Copynumber: 3.9 Consensus size: 80
44674312 TTTGGTTTAC
* * * *
44674322 AAAATTACCAAAATACCCTTAAATAGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTAACTAGTAAAATTACCAAAATACCCCTAATTTGTAAAATTAACGA
*
44674387 AATACCCCTAATTTTT
66 AATA-CCCTAATTTGT
* * * * * * *
44674403 GAAATTACTAAAATACCCTCGACCTA-TAAAATTACCAAAATACCTCTAATTTGTGAAATTATCG
1 AAAATTACCAAAATACCCT-TAACTAGTAAAATTACCAAAATACCCCTAATTTGTAAAATTAACG
** *
44674467 AAATACCCTCGTCCTGT
65 AAATACCCTAAT-TTGT
* * * * *
44674484 AAAATTA-CAGAAATACCCTTGACTTGTAAAATTATCGAAATA-CCCTCAACTTGTAAAATTAAC
1 AAAATTACCA-AAATACCCTTAACTAGTAAAATTACCAAAATACCCCT-AATTTGTAAAATTAAC
44674547 GAAATACCCTCAATTTGT
64 GAAATACCCT-AATTTGT
* * * * * * **
44674565 AAAATTACCAAAATACCCTTGATTTGGAAAATTA-CAGAAATATCCCTGATTTACAAAATTATA-
1 AAAATTACCAAAATACCCTTAACTAGTAAAATTACCA-AAATACCCCTAATTTGTAAAATTA-AC
44674628 GAAATACCCT
64 GAAATACCCT
44674638 TGACTTTCAA
Statistics
Matches: 189, Mismatches: 36, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
80 12 0.06
81 166 0.88
82 11 0.06
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTTAACTAGTAAAATTACCAAAATACCCCTAATTTGTAAAATTAACGA
AATACCCTAATTTGT
Found at i:44674605 original size:27 final size:27
Alignment explanation
Indices: 44674271--44674701 Score: 237
Period size: 27 Copynumber: 16.0 Consensus size: 27
44674261 TGTAGGGTAG
* * *
44674271 AATTACTGAAATACCCTTGGTTT-AAA
1 AATTACAGAAATACCCTTGATTTGTAA
* * * **
44674297 GAATTAC-TAAATACCTTTGGTTTACAA
1 -AATTACAGAAATACCCTTGATTTGTAA
* * *
44674324 AATTACCA-AAATACCCTTAAATAGTAA
1 AATTA-CAGAAATACCCTTGATTTGTAA
*
44674351 AATTACCA-AAATACCCCT-AGTTTGTAA
1 AATTA-CAGAAATACCCTTGA-TTTGTAA
* * * *
44674378 AATTACCA-AAATACCCCTAATTTTTGA
1 AATTA-CAGAAATACCCTTGATTTGTAA
* ** *
44674405 AATTACTA-AAATACCCTCGACCTATAA
1 AATTAC-AGAAATACCCTTGATTTGTAA
* *
44674432 AATTACCA-AAATA-CCTCTAATTTGTGA
1 AATTA-CAGAAATACCCT-TGATTTGTAA
* *
44674459 AATTATC-GAAATACCCTCG-TCCTGTAA
1 AATTA-CAGAAATACCCTTGAT-TTGTAA
*
44674486 AATTACAGAAATACCCTTGACTTGTAA
1 AATTACAGAAATACCCTTGATTTGTAA
** *
44674513 AATTATC-GAAATACCCTCAACTTGTAA
1 AATTA-CAGAAATACCCTTGATTTGTAA
**
44674540 AATTA-ACGAAATACCCTCAATTTGTAA
1 AATTACA-GAAATACCCTTGATTTGTAA
*
44674567 AATTACCA-AAATACCCTTGATTTGGAA
1 AATTA-CAGAAATACCCTTGATTTGTAA
**
44674594 AATTACAGAAATATCCC-TGATTTACAA
1 AATTACAGAAATA-CCCTTGATTTGTAA
* **
44674621 AATTATAGAAATACCCTTGACTTTCAAA
1 AATTACAGAAATACCCTTGA-TTTGTAA
* * * *
44674649 AATTATAGAAATACCATTGGTTTGCAA
1 AATTACAGAAATACCCTTGATTTGTAA
*
44674676 AATTATC-GAAATACCCTTGGTTTGTA
1 AATTA-CAGAAATACCCTTGATTTGTA
44674702 GATTTACCAA
Statistics
Matches: 327, Mismatches: 54, Indels: 46
0.77 0.13 0.11
Matches are distributed among these distances:
26 31 0.09
27 263 0.80
28 32 0.10
29 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACAGAAATACCCTTGATTTGTAA
Found at i:44675870 original size:41 final size:41
Alignment explanation
Indices: 44675825--44676031 Score: 315
Period size: 41 Copynumber: 5.0 Consensus size: 41
44675815 GGAGGAAGAA
*
44675825 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
44675866 ATTGAGGATCACATGGTTGCTTGACGACCATGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
44675907 ATTGAGGATTGCATGGTTGCTTGACAACCGTGGATCCATCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
44675948 ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
44675989 ATTAAGGATCGCATGGTTGCTTGACGATCGTGGATCCATCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
44676030 AT
1 AT
44676032 GGCTTTTAAG
Statistics
Matches: 148, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 148 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:44685096 original size:39 final size:39
Alignment explanation
Indices: 44685053--44685129 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
44685043 TTATTGAGTT
44685053 GTTTATTTGCTTATGACTTACTAAGCTATGAGAGCTTAA
1 GTTTATTTGCTTATGACTTACTAAGCTATGAGAGCTTAA
44685092 GTTTATTTGCTTATGACTTACTAAGCTATGAGAGCTTA
1 GTTTATTTGCTTATGACTTACTAAGCTATGAGAGCTTA
44685130 CTCTGTGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (39 bp):
GTTTATTTGCTTATGACTTACTAAGCTATGAGAGCTTAA
Found at i:44692649 original size:20 final size:20
Alignment explanation
Indices: 44692608--44692649 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
44692598 ATATATACTA
**
44692608 ATAAAATAATAAAATATCAT
1 ATAAAATAATAAAATAAAAT
44692628 ATAAAA-AATAAAATTAAAAT
1 ATAAAATAATAAAA-TAAAAT
44692648 AT
1 AT
44692650 TAATAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAATAATAAAATAAAAT
Found at i:44694240 original size:47 final size:47
Alignment explanation
Indices: 44694144--44694311 Score: 243
Period size: 47 Copynumber: 3.6 Consensus size: 47
44694134 ATCCATAAGT
*
44694144 GAACTCGGACTCAACTCAAC--GTTCGGATGCCT-AGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGA-TTATATCTCAC
* *
44694189 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTGATTATATCTCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
* *
44694236 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTGATTATATCTTAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
* *
44694283 AAACTCGGACTCAACTCAACGATTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
44694312 ACTCAAATAT
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 20 0.18
47 89 0.81
48 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
Found at i:44701166 original size:48 final size:48
Alignment explanation
Indices: 44701106--44701384 Score: 309
Period size: 48 Copynumber: 5.9 Consensus size: 48
44701096 TAGGGTTATG
*
44701106 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
44701154 TGTGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
44701202 TGTGATCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * * *
44701250 TGTGATCCCATATAAGACCATATTTGGGATACGGCATTGGCATCGAAA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *** * * * * *
44701298 TGAGAAATCGTGTAAGACCATAG-CTGGG-C-T---ATCGCCTTCGATC
1 TGTGATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATA
* * * *
44701341 TGTGGTCCCATGTAAGACCATATCAGGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
44701385 TTAATATGTG
Statistics
Matches: 186, Mismatches: 38, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
43 27 0.15
45 1 0.01
48 158 0.85
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:44705290 original size:26 final size:26
Alignment explanation
Indices: 44705230--44705335 Score: 137
Period size: 26 Copynumber: 4.2 Consensus size: 26
44705220 GGCCTATCCT
44705230 CTTTT-AAT-AACTGGGGCA-AAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
***
44705253 CTTTTTGGTAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
44705279 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
** *
44705305 CTTTTCGGTAAACTGGGGGATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
44705331 CTTTT
1 CTTTT
44705336 TCACTTCCTC
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
23 5 0.07
24 1 0.01
25 10 0.14
26 56 0.78
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (26 bp):
CTTTTCAATAAACTGGGGCATAAGCC
Found at i:44705309 original size:52 final size:49
Alignment explanation
Indices: 44705230--44705335 Score: 167
Period size: 52 Copynumber: 2.1 Consensus size: 49
44705220 GGCCTATCCT
*
44705230 CTTTTAATAACTGGGGCAAAGCCCTTTTTGGTAAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCC
*
44705279 CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGGATAAGCC
1 CTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAGCC
44705331 CTTTT
1 CTTTT
44705336 TCACTTCCTC
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
49 5 0.10
50 3 0.06
51 10 0.19
52 34 0.65
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (49 bp):
CTTTTAATAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCC
Found at i:44705410 original size:20 final size:21
Alignment explanation
Indices: 44705385--44705441 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
44705375 TTATGATTAC
*
44705385 ATCATGTGCATTTCATA-CAT
1 ATCATGTGCATATCATATCAT
44705405 ATCATGTGCATATCATATCAT
1 ATCATGTGCATATCATATCAT
44705426 -TCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
44705442 CCACGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.63
21 3 0.09
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAT
Found at i:44713564 original size:26 final size:26
Alignment explanation
Indices: 44713519--44713590 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
44713509 CTCTTTTAAT
44713519 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
44713544 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
44713570 AACTTGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
44713591 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 10 0.22
26 35 0.78
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:44713665 original size:20 final size:20
Alignment explanation
Indices: 44713640--44713714 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
44713630 TTATGATTAC
*
44713640 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
44713660 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
44713680 ATCAGGTGCATATCATATCAT
1 ATCATGTGCATATCATA-CAT
44713701 -TCATGT--ATATCATA
1 ATCATGTGCATATCATA
44713715 TCCCACGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 40 0.78
21 3 0.06
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:44713772 original size:25 final size:25
Alignment explanation
Indices: 44713742--44713789 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44713732 ATAATTAAAC
* * *
44713742 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
44713767 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
44713790 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:44715119 original size:15 final size:17
Alignment explanation
Indices: 44715089--44715120 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
44715079 CGGCACAAGT
44715089 GAAAAGAAAGAAGAGAA
1 GAAAAGAAAGAAGAGAA
44715106 GAAAA-AAA-AAGAGAA
1 GAAAAGAAAGAAGAGAA
44715121 AAATGCCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
GAAAAGAAAGAAGAGAA
Found at i:44716295 original size:54 final size:53
Alignment explanation
Indices: 44716185--44716297 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 53
44716175 CACATGGGCA
* * * *
44716185 TGTGTGGCAACTCAGAGAGTTACACGGCCTAGCACACGGCTTGGCACACAAGCG
1 TGTGTGGCAACTCAGAGAGTTACACGG-CTAGCACACAGATTGGAACACAACCG
* * *
44716239 TGTGTGGCAACTCAGTGAGTTACACAGG-TGAGGACACAGATTGGAACACGACCG
1 TGTGTGGCAACTCAGAGAGTTACAC-GGCT-AGCACACAGATTGGAACACAACCG
44716293 TGTGT
1 TGTGT
44716298 CCCTTGTTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 1 0.02
54 47 0.94
55 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (53 bp):
TGTGTGGCAACTCAGAGAGTTACACGGCTAGCACACAGATTGGAACACAACCG
Found at i:44716589 original size:16 final size:17
Alignment explanation
Indices: 44716546--44716589 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
44716536 TAGGAGTGTT
*
44716546 ACAACTATAGACTATGA
1 ACAACTATAGACTAAGA
* *
44716563 AAAAATATAGACTAAG-
1 ACAACTATAGACTAAGA
44716579 ACAACTATAGA
1 ACAACTATAGA
44716590 TTGTGAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.20
Consensus pattern (17 bp):
ACAACTATAGACTAAGA
Found at i:44724923 original size:40 final size:40
Alignment explanation
Indices: 44724868--44725045 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
44724858 CGGATGATAA
* *
44724868 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
44724908 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
44724948 CTGGGCTAGGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44724988 CCGGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
44725028 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44725046 TACTTGGTTT
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
39 16 0.13
40 105 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44735496 original size:22 final size:22
Alignment explanation
Indices: 44735471--44735515 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
44735461 ATTATGATGA
44735471 TTGATATGT-TGAGATTGATATT
1 TTGATATGTATGAGATT-ATATT
44735493 TTGATATGTATGAGATTATATT
1 TTGATATGTATGAGATTATATT
44735515 T
1 T
44735516 GTAATGATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:44736867 original size:17 final size:17
Alignment explanation
Indices: 44736836--44736873 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
44736826 CCATAGAATA
44736836 TTTTTTT-TATTTTTCT
1 TTTTTTTGTATTTTTCT
44736852 TCTTTTTTGTA-TTTTCT
1 T-TTTTTTGTATTTTTCT
44736869 TTTTT
1 TTTTT
44736874 ATGACTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 13 0.65
18 2 0.10
ACGTcount: A:0.05, C:0.08, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTTTTTGTATTTTTCT
Found at i:44737146 original size:50 final size:50
Alignment explanation
Indices: 44737071--44737175 Score: 201
Period size: 50 Copynumber: 2.1 Consensus size: 50
44737061 CACAAAAAAA
44737071 GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
1 GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
*
44737121 GAACATAAAACGCTCAAATATAATACCAAATAATACCAATGAGTGTGGAT
1 GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
44737171 GAACA
1 GAACA
44737176 CAGAAGCAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.50, C:0.15, G:0.14, T:0.21
Consensus pattern (50 bp):
GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
Found at i:44737308 original size:13 final size:13
Alignment explanation
Indices: 44737290--44737336 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
44737280 AAGCCAGATA
*
44737290 AAATAATTAAAAT
1 AAATAAATAAAAT
* *
44737303 AAATAACTAAGAT
1 AAATAAATAAAAT
44737316 AAATAAAATAAAAT
1 AAAT-AAATAAAAT
44737330 -AATAAAT
1 AAATAAAT
44737337 CAAGGACTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 4 0.14
13 18 0.62
14 7 0.24
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:44741572 original size:46 final size:46
Alignment explanation
Indices: 44741522--44741740 Score: 300
Period size: 46 Copynumber: 4.7 Consensus size: 46
44741512 TGGTTGAGCA
44741522 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
44741568 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
44741614 TCTGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTCGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT--G
* *
44741659 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
44741707 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44741741 GGGGCGGGTT
Statistics
Matches: 152, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
43 7 0.05
45 3 0.02
46 105 0.69
47 29 0.19
48 3 0.02
50 5 0.03
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:44741691 original size:93 final size:91
Alignment explanation
Indices: 44741523--44741738 Score: 292
Period size: 93 Copynumber: 2.3 Consensus size: 91
44741513 GGTTGAGCAT
*
44741523 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAATGTCCGAACTCGTTGAGTTGAG
* * *
44741588 TTCGAGTTCACTTATGGATGCAAATGT
65 TCCGAGTTCACTTATGGATGCAAACGC
* * *
44741615 CTGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA-GATGTAACTCGGCATCCGAACTCGTTGAGTT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAAT--G--TCCGAACTCGTTGAGTT
*
44741678 GAGTCCGAGTTCACTTATGGATGCGAACGC
62 GAGTCCGAGTTCACTTATGGATGCAAACGC
*
44741708 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT
44741739 TAGGGGCGGG
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
89 7 0.06
91 3 0.03
92 28 0.26
93 70 0.64
94 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (91 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAATGTCCGAACTCGTTGAGTTGAGT
CCGAGTTCACTTATGGATGCAAACGC
Found at i:44742002 original size:19 final size:20
Alignment explanation
Indices: 44741965--44742002 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44741955 ATAAGGTGGT
44741965 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
44741985 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
44742003 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:44755514 original size:27 final size:27
Alignment explanation
Indices: 44755483--44755660 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44755473 TAAATTGTAC
44755483 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44755510 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44755536 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44755564 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44755592 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44755619 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44755646 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44755661 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44755597 original size:82 final size:81
Alignment explanation
Indices: 44755484--44755639 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44755474 AAATTGTACA
* *
44755484 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44755548 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44755565 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44755630 TGCGAGTTGA
65 TGCGAATTGA
44755640 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44755651 original size:82 final size:81
Alignment explanation
Indices: 44755480--44755660 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44755470 GATTAAATTG
* *
44755480 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44755545 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44755561 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44755625 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44755643 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44755661 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44765849 original size:27 final size:27
Alignment explanation
Indices: 44765819--44765996 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
44765809 ATATTGAGTC
* *
44765819 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
44765846 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
44765873 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
44765901 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
44765928 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
44765955 CGTACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
44765982 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44765997 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:44765962 original size:82 final size:81
Alignment explanation
Indices: 44765840--44765995 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
44765830 TGCTATATAA
* *
44765840 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44765905 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
44765922 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGTACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44765986 CACTTAGTGC
65 CACTTAGTGC
44765996 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44770085 original size:46 final size:46
Alignment explanation
Indices: 44770035--44770207 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
44770025 TGGTTAAGCA
*
44770035 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
44770081 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
44770126 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT-
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
44770173 TCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 T-CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44770208 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 59 0.56
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:44770191 original size:93 final size:93
Alignment explanation
Indices: 44770032--44770202 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
44770022 GGATGGTTAA
44770032 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
*
44770097 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
44770125 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT-TCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGT-CCGAACTCGTTGAG
44770189 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
44770203 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44770469 original size:19 final size:20
Alignment explanation
Indices: 44770432--44770469 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44770422 ATAAGGTGGT
44770432 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
44770452 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
44770470 GGTGGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:44780982 original size:23 final size:23
Alignment explanation
Indices: 44780956--44781001 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44780946 GAATGTTAAC
44780956 TTAAAATAGTCAAATGGATCAGA
1 TTAAAATAGTCAAATGGATCAGA
44780979 TTAAAATAGTCAAATGGATCAGA
1 TTAAAATAGTCAAATGGATCAGA
44781002 GAAAACAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (23 bp):
TTAAAATAGTCAAATGGATCAGA
Found at i:44792551 original size:26 final size:26
Alignment explanation
Indices: 44792522--44792572 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
44792512 CAATTGGGCG
44792522 ACTTTCTCCTTTAGGCTTTATATTAC
1 ACTTTCTCCTTTAGGCTTTATATTAC
44792548 ACTTTCTCCTTTAGGCTTTATATTA
1 ACTTTCTCCTTTAGGCTTTATATTA
44792573 ATTTTTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.08, T:0.51
Consensus pattern (26 bp):
ACTTTCTCCTTTAGGCTTTATATTAC
Found at i:44815222 original size:41 final size:40
Alignment explanation
Indices: 44815152--44815333 Score: 138
Period size: 41 Copynumber: 4.5 Consensus size: 40
44815142 GGGTTTAAAT
* *
44815152 CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
1 CCGAACTTAGTTTCGAAGGG-CTTTGAGCCAGTGCTAATAA
* *
44815193 CCAAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAACTTAGTTTCGAAGGGCTTT-GAGCCAGTGCTAATAA
* * * *
44815233 CCGGACTTAGTTCCGAAAGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAACTTAGTTTCG-AAGGGCTTTGAGCCAGT-G-CTAATAA
* * * * *
44815274 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCTAGTGCTAAGAA
1 CCGAACTTAGTTTCGAAGGGC-TTTGAGCCAGTGCTAATAA
* *
44815315 TCGAGCTT-GATTTCGAAGG
1 CCGAACTTAG-TTTCGAAGG
44815334 ATGTTTGTGC
Statistics
Matches: 111, Mismatches: 21, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
39 4 0.04
40 36 0.32
41 68 0.61
43 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAACTTAGTTTCGAAGGGCTTTGAGCCAGTGCTAATAA
Found at i:44823723 original size:40 final size:40
Alignment explanation
Indices: 44823631--44823790 Score: 146
Period size: 41 Copynumber: 3.9 Consensus size: 40
44823621 GGGTTTAAAT
* *
44823631 CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
1 CCGAACTTAGTTTCGAAGGG-CTTTGAGCCAGTGCTAATAA
* *
44823672 CCGAACTTAGTTTTGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAACTTAGTTTCGAAGGGCTTT-GAGCCAGTGCTAATAA
* * *
44823712 CCGGACTTAGTTCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAACTTAGTTTCGAAGGG-CTTTGAGCCAGT-G-CTAATAA
* * * *
44823753 CCGAGCTTGGTCTCGAACGGCTTTTGAGCCAGTGCTAA
1 CCGAACTTAGTTTCGAAGGGC-TTTGAGCCAGTGCTAA
44823791 GAATCGGGCT
Statistics
Matches: 97, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
39 4 0.04
40 36 0.37
41 54 0.56
43 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAACTTAGTTTCGAAGGGCTTTGAGCCAGTGCTAATAA
Found at i:44828965 original size:18 final size:18
Alignment explanation
Indices: 44828942--44828979 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
44828932 ATTCATCAAC
44828942 TTGACTAACTCGAAATTT
1 TTGACTAACTCGAAATTT
44828960 TTGACTAACTCGAAATTT
1 TTGACTAACTCGAAATTT
44828978 TT
1 TT
44828980 TTACTCGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (18 bp):
TTGACTAACTCGAAATTT
Found at i:44829312 original size:13 final size:13
Alignment explanation
Indices: 44829294--44829320 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44829284 TTAGTAATAC
44829294 TTTTAAAAAGTGT
1 TTTTAAAAAGTGT
44829307 TTTTAAAAAGTGT
1 TTTTAAAAAGTGT
44829320 T
1 T
44829321 GTGGAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TTTTAAAAAGTGT
Found at i:44829571 original size:24 final size:24
Alignment explanation
Indices: 44829509--44829571 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
44829499 GAATATAGAA
* * *
44829509 AATAATTTATTATAACTTGTTGTT
1 AATATTTTAATATATCTTGTTGTT
44829533 AATATTTTAATATATCTTGTTGTT
1 AATATTTTAATATATCTTGTTGTT
44829557 AATATTTTAATATAT
1 AATATTTTAATATAT
44829572 GAAGGATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (24 bp):
AATATTTTAATATATCTTGTTGTT
Found at i:44830180 original size:7 final size:7
Alignment explanation
Indices: 44830135--44830190 Score: 55
Period size: 7 Copynumber: 8.3 Consensus size: 7
44830125 GAGGAAATAT
44830135 TATC-TA
1 TATCTTA
*
44830141 TATTTTA
1 TATCTTA
44830148 TATC-TA
1 TATCTTA
*
44830154 TGT-TTA
1 TATCTTA
*
44830160 TATCCTA
1 TATCTTA
44830167 TTATCTTA
1 -TATCTTA
44830175 TATCTTA
1 TATCTTA
44830182 TATCTTA
1 TATCTTA
44830189 TA
1 TA
44830191 CTATCTACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
6 11 0.28
7 23 0.57
8 6 0.15
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.57
Consensus pattern (7 bp):
TATCTTA
Found at i:44831131 original size:132 final size:132
Alignment explanation
Indices: 44830893--44831135 Score: 337
Period size: 132 Copynumber: 1.8 Consensus size: 132
44830883 AAACGTGAAT
* * * *
44830893 GAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGCAACCCAGCACGATAGGGC
1 GAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAGCACGATAGGGC
* * * * *
44830958 ACGATTCCTCGAATTGCCGAACGTCGACCATTTCCTTCGTTTTAAAATTTTTTTAGAAAACATAA
66 ACGATTCCTCGAATTGCCAAACATCGAACATGTCCTCCGTTTTAAAATTTTTTTAGAAAACATAA
44831023 AC
131 AC
* **
44831025 GAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCCAGCACGATAGGGC
1 GAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAGCACGATAGGGC
*
44831090 ACGATTCC-CTGAATTGCTAAACATCGAACATCGT-CTCCGTTTTAAA
66 ACGATTCCTC-GAATTGCCAAACATCGAACAT-GTCCTCCGTTTTAAA
44831136 GAATTTTTAA
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
131 1 0.01
132 94 0.98
133 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (132 bp):
GAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAGCACGATAGGGC
ACGATTCCTCGAATTGCCAAACATCGAACATGTCCTCCGTTTTAAAATTTTTTTAGAAAACATAA
AC
Found at i:44831434 original size:3 final size:3
Alignment explanation
Indices: 44831421--44831458 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
44831411 ACAAACAATG
* *
44831421 ATA AAA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
44831459 GCAATGATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:44833063 original size:28 final size:27
Alignment explanation
Indices: 44832996--44833068 Score: 121
Period size: 26 Copynumber: 2.7 Consensus size: 27
44832986 CCAAAAAAAA
*
44832996 AACTTTCCTTTTTTTTATTCCATTACC
1 AACTTTCCCTTTTTTTATTCCATTACC
44833023 AACTTTCCC-TTTTTTATTCCATTACC
1 AACTTTCCCTTTTTTTATTCCATTACC
44833049 AACTTTCCCCTTTTTTTATT
1 AACTTT-CCCTTTTTTTATT
44833069 TTTTATTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
26 23 0.53
27 11 0.26
28 9 0.21
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.55
Consensus pattern (27 bp):
AACTTTCCCTTTTTTTATTCCATTACC
Found at i:44845760 original size:40 final size:40
Alignment explanation
Indices: 44845690--44845907 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
44845680 AAGCCAGGTA
* * * *
44845690 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
44845729 CCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
44845769 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
44845809 CCTTCGGGGCTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
44845849 CCTTCAGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
44845889 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
44845908 TTATCATCCG
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.08
40 146 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:44853580 original size:40 final size:40
Alignment explanation
Indices: 44853501--44853718 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
44853491 AAGCCAGGTA
* * * *
44853501 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * **
44853540 CCTTCGGGACATAGCCCGGATGTAGTAACTCATACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
44853580 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
44853620 CCTTCGGGGCTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** * * *
44853660 CCTTCGGGACTTAGCCTAGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
44853700 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
44853719 TTATCATCCG
Statistics
Matches: 153, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
39 13 0.08
40 140 0.92
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:44855838 original size:132 final size:132
Alignment explanation
Indices: 44855601--44855840 Score: 347
Period size: 132 Copynumber: 1.8 Consensus size: 132
44855591 TCTCGCTTTG
** * * * * *
44855601 GAAAACATGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGCAACCTA
1 GAAAACATGAACAAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
* * *
44855666 GCACGATAGGGCACGATTCCTCGAATTGTCGAACGTCGAACATTTCCTTCGTTTTAAAATTTTTT
66 GCACGATAGGGCACGATTCCCCGAATTGTCAAACATCGAACATTTCCTTCGTTTTAAAATTTTTT
44855731 TA
131 TA
* **
44855733 GAAAACATGAACAAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCCA
1 GAAAACATGAACAAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
44855798 GCACGATAGGGCACGATTCCCCGAATTG-CTAAACATCGAACAT
66 GCACGATAGGGCACGATTCCCCGAATTGTC-AAACATCGAACAT
44855841 CGTCTCCGTT
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
131 1 0.01
132 93 0.99
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (132 bp):
GAAAACATGAACAAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
GCACGATAGGGCACGATTCCCCGAATTGTCAAACATCGAACATTTCCTTCGTTTTAAAATTTTTT
TA
Found at i:44856151 original size:9 final size:9
Alignment explanation
Indices: 44856133--44856189 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
44856123 AATAAATAAC
44856133 ATAAACAATA
1 ATAAA-AATA
44856143 ATAAAAATA
1 ATAAAAATA
44856152 AT---AATA
1 ATAAAAATA
44856158 ATAAAAATA
1 ATAAAAATA
*
44856167 ATAATAATA
1 ATAAAAATA
*
44856176 ATTAATAATA
1 A-TAAAAATA
44856186 ATAA
1 ATAA
44856190 TGCAATGATA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
6 6 0.14
9 22 0.52
10 14 0.33
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (9 bp):
ATAAAAATA
Found at i:44856154 original size:3 final size:3
Alignment explanation
Indices: 44856139--44856190 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
44856129 TAACATAAAC
* *
44856139 AAT AAT AAA AAT AAT AAT AAT AAA AAT AAT AAT AAT AATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
44856185 AAT AAT
1 AAT AAT
44856191 GCAATGATAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44856748 original size:24 final size:22
Alignment explanation
Indices: 44856695--44856748 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 22
44856685 CATGTACACA
*
44856695 ATATATAATATATAAAAAATAT
1 ATATATAATATATAAAAAATAC
44856717 ATAAATATAATATTTATAAAAAATAC
1 AT--ATATAATA--TATAAAAAATAC
44856743 ATATAT
1 ATATAT
44856749 GGTATAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 2 0.07
24 12 0.44
26 13 0.48
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
ATATATAATATATAAAAAATAC
Found at i:44857811 original size:27 final size:27
Alignment explanation
Indices: 44857752--44857822 Score: 110
Period size: 26 Copynumber: 2.7 Consensus size: 27
44857742 AACAAAAAAA
* *
44857752 AACTTTT-CTTTTTTTATTCCGTTACC
1 AACTTTTCCCTTTTTTATTCCATTACC
44857778 AAC-TTTCCCTTTTTTATTCCATTACC
1 AACTTTTCCCTTTTTTATTCCATTACC
44857804 AACTTTTCCCTTTTTTATT
1 AACTTTTCCCTTTTTTATT
44857823 TTTTATTCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.07
26 23 0.56
27 15 0.37
ACGTcount: A:0.17, C:0.25, G:0.01, T:0.56
Consensus pattern (27 bp):
AACTTTTCCCTTTTTTATTCCATTACC
Found at i:44860088 original size:30 final size:30
Alignment explanation
Indices: 44860054--44860114 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
44860044 TTTAGGATTG
* * * *
44860054 ATGGGTTTTGTTTGTTATGTTAATTTTTTT
1 ATGGGTTCTGTTTGTAATGCTAAATTTTTT
44860084 ATGGGTTCTGTTTGTAATGCTAAATTTTTT
1 ATGGGTTCTGTTTGTAATGCTAAATTTTTT
44860114 A
1 A
44860115 ATGAATTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.18, C:0.03, G:0.20, T:0.59
Consensus pattern (30 bp):
ATGGGTTCTGTTTGTAATGCTAAATTTTTT
Found at i:44860271 original size:12 final size:13
Alignment explanation
Indices: 44860256--44860288 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44860246 GCAACCAATG
44860256 AAAGGAAAA-AAA
1 AAAGGAAAAGAAA
44860268 AAAGGAAAAGAAA
1 AAAGGAAAAGAAA
*
44860281 AAATGAAA
1 AAAGGAAA
44860289 CAGATAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (13 bp):
AAAGGAAAAGAAA
Found at i:44866129 original size:108 final size:104
Alignment explanation
Indices: 44865790--44866542 Score: 684
Period size: 108 Copynumber: 7.3 Consensus size: 104
44865780 AACTTACCAT
* * *
44865790 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTTACCAATGCCATGCCTTG
1 TGCCATGTCTTAACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
* *
44865855 GCATGGTCTTACATGAGACCTTTGCCTTATAGTAACTCACCAA
66 GCATGGTCTTACATGGGACCTTTGCCTTAT-CTAAC-CA--AA
* * * * * * *
44865898 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATAGAACTTATCAATGCCATGCCTA
1 TGCCATGTCTTAACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
* *
44865963 GGCATGGTCTTACAT--GA--TAT-CCTTATCTTACCAAA
65 GGCATGGTCTTACATGGGACCTTTGCCTTATCTAACCAAA
** *
44865998 TGCCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTATGAACTCACCAATGCCATGCCTT
1 TGCCATG-TCTTAACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTT
*
44866063 GGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
65 GGCATGGTCTTACATGGGACCTTTGCCTTAT-CTAAC-CA--AA
* * ** * *
44866107 TCCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTTACTAATGCCATGCCTTG
1 TGCCATGTCTTAACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
* *
44866172 GCATGGTATTACATGGGACCTTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACCTTTGCCTTAT-CTAAC-CA--AA
* * * * * *
44866215 TGCCATGTCTTGACAGGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTAACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
* * *
44866280 GGCATGGACTTACAT--GA--TAT-CCTTATCTTACCAAA
65 GGCATGGTCTTACATGGGACCTTTGCCTTATCTAACCAAA
* **
44866315 TGCCATGT-TCCAAGCATGGTCTTACATGGTATCCTTATC-T-T--AC-CA--AATGCCATGTTC
1 TGCCATGTCT-TAA-CATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATG--C
*** * *
44866372 C-AAACATGGTCTTACAT-GG---TAT-CCTTATCTTACCAAA
62 CTTGGCATGGTCTTACATGGGACCTTTGCCTTATCTAACCAAA
* ** *
44866409 TGCCATATTCCAAACATGGTCTTACATGGTATCCTTGGCTTATGAACTCACCAATGCCATGCCTT
1 TGCCAT-GTCTTAACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTT
44866474 GGCATGGTCTTACATGGGACCTTTGCC---T-T-ACC-AA
65 GGCATGGTCTTACATGGGACCTTTGCCTTATCTAACCAAA
*
44866508 TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 TGCCATGTCTTAACATGGTCTTACATGGTATCCTT
44866543 AACCGTCAAT
Statistics
Matches: 543, Mismatches: 70, Indels: 74
0.79 0.10 0.11
Matches are distributed among these distances:
93 9 0.02
94 59 0.11
95 8 0.01
96 3 0.01
98 27 0.05
99 14 0.03
100 71 0.13
101 60 0.11
102 7 0.01
103 6 0.01
104 16 0.03
105 12 0.02
106 3 0.01
107 6 0.01
108 166 0.31
109 76 0.14
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (104 bp):
TGCCATGTCTTAACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
GCATGGTCTTACATGGGACCTTTGCCTTATCTAACCAAA
Found at i:44866339 original size:47 final size:47
Alignment explanation
Indices: 44866282--44866444 Score: 290
Period size: 47 Copynumber: 3.5 Consensus size: 47
44866272 CATGCCTTGG
* * *
44866282 CATGGACTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAG
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
44866329 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
44866376 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATATTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
44866423 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
44866445 GGCTTATGAA
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 112 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:44866597 original size:44 final size:44
Alignment explanation
Indices: 44866548--44866631 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
44866538 TCCTTAACCG
* *
44866548 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTTCT
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTTCT
* *
44866592 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
44866632 AAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTTCT
Found at i:44887999 original size:40 final size:40
Alignment explanation
Indices: 44887946--44888102 Score: 145
Period size: 40 Copynumber: 3.9 Consensus size: 40
44887936 CAGATATAAC
* *
44887946 CACTCGCAC-AATGCCTTCGGGTCTTAACCCGGATATGGT
1 CACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
* * * *
44887985 CACTAGCATAAATGCCTTCGGGACTTAGCCCGGATTTAGT
1 CACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
* * ** * *
44888025 CGCTAGCACAAATGCCTTCGGATCTTAGTCCGAATGTAGT
1 CACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
* * * * *
44888065 CGCTTAGCACAAAAGCTTTCGGGACTTAGCCCGGATAT
1 CAC-TAGCACAAATGCCTTCGGGTCTTAACCCGGATAT
44888103 CATTCGAGTA
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 7 0.07
40 62 0.65
41 27 0.28
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CACTAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGT
Found at i:44893902 original size:41 final size:42
Alignment explanation
Indices: 44893839--44893923 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 42
44893829 TAAGTGCCAA
*
44893839 TGTATATATATAGCCAAAGCTATCTCAATCTCACACACTAAG
1 TGTATATATATAACCAAAGCTATCTCAATCTCACACACTAAG
* * * *
44893881 TGTA-ATATATAACCAATGCTATCTCGATTTCGCACACTAAG
1 TGTATATATATAACCAAAGCTATCTCAATCTCACACACTAAG
44893922 TG
1 TG
44893924 CTCATAATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (42 bp):
TGTATATATATAACCAAAGCTATCTCAATCTCACACACTAAG
Found at i:44902857 original size:42 final size:42
Alignment explanation
Indices: 44902776--44902892 Score: 128
Period size: 42 Copynumber: 2.7 Consensus size: 42
44902766 TCCTAAACTT
* * * * *
44902776 GGTCTTACATGTAACCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACAAGAAATCAAATA-CGATGCCAATGCCCCAGACAG
*
44902819 GGTCTTACAAGAAATCAAATACGATGCCAATGCCCCAGACAT
1 GGTCTTACAAGAAATCAAATACGATGCCAATGCCCCAGACAG
*
44902861 GGTCTTACACATAAATTTCAAAT-CGATGCCAA
1 GGTCTTACA-AGAAA--TCAAATACGATGCCAA
44902893 CATCCCAGAC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 27 0.42
43 22 0.34
44 9 0.14
45 6 0.09
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (42 bp):
GGTCTTACAAGAAATCAAATACGATGCCAATGCCCCAGACAG
Found at i:44902901 original size:44 final size:42
Alignment explanation
Indices: 44902796--44902919 Score: 137
Period size: 44 Copynumber: 2.9 Consensus size: 42
44902786 GTAACCAAAT
*
44902796 ATCGATGCC-ACTGTCCCAGACAGGGTCTTACA-AGAAA-TCAA
1 ATCGATGCCAAC-GTCCCAGACATGGTCTTACACA-AAATTCAA
* *
44902837 ATACGATGCCAATGCCCCAGACATGGTCTTACACATAAATTTCAA
1 AT-CGATGCCAACGTCCCAGACATGGTCTTACACA-AAA-TTCAA
* *
44902882 ATCGATGCCAACATCCCAGACGTGGTCTTACACAAAAT
1 ATCGATGCCAACGTCCCAGACATGGTCTTACACAAAAT
44902920 CACATATCAA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
41 2 0.03
42 26 0.37
43 8 0.11
44 28 0.40
45 6 0.09
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (42 bp):
ATCGATGCCAACGTCCCAGACATGGTCTTACACAAAATTCAA
Found at i:44916258 original size:12 final size:12
Alignment explanation
Indices: 44916239--44916268 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
44916229 GAATTTGTTA
44916239 GAGGAGAGATTT
1 GAGGAGAGATTT
*
44916251 GGGGAGAGATTT
1 GAGGAGAGATTT
44916263 GAGGAG
1 GAGGAG
44916269 TGGATCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.50, T:0.20
Consensus pattern (12 bp):
GAGGAGAGATTT
Found at i:44930603 original size:16 final size:16
Alignment explanation
Indices: 44930579--44930612 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44930569 ACATTTCACA
*
44930579 TTTTATCTTTTGTATT
1 TTTTATCTTTTATATT
*
44930595 TTTTGTCTTTTATATT
1 TTTTATCTTTTATATT
44930611 TT
1 TT
44930613 GCATGCATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (16 bp):
TTTTATCTTTTATATT
Found at i:44930895 original size:36 final size:36
Alignment explanation
Indices: 44930848--44930919 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
44930838 CTAGTCCTGG
44930848 CTATCGAAGTAGTTGACTTCAGGCATAGATGTATCC
1 CTATCGAAGTAGTTGACTTCAGGCATAGATGTATCC
44930884 CTATCGAAGTAGTTGACTTCAGGCATAGATGTATCC
1 CTATCGAAGTAGTTGACTTCAGGCATAGATGTATCC
44930920 ATTGGTAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (36 bp):
CTATCGAAGTAGTTGACTTCAGGCATAGATGTATCC
Found at i:44939587 original size:5 final size:5
Alignment explanation
Indices: 44939577--44939607 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
44939567 GAACAAATAT
44939577 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
44939608 ATTCCATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:44950823 original size:34 final size:34
Alignment explanation
Indices: 44950773--44950845 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 34
44950763 TGTGACAATC
44950773 CAGTATCAGTTAGGGCCATAGCCCATTACAGTAA
1 CAGTATCAGTTAGGGCCATAGCCCATTACAGTAA
* *
44950807 TAGTATCAGTGT-GGGCCTTAGCCCATTACAGTAA
1 CAGTATCAGT-TAGGGCCATAGCCCATTACAGTAA
44950841 CAGTA
1 CAGTA
44950846 ACAGAAATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTTAGGGCCATAGCCCATTACAGTAA
Found at i:44957452 original size:13 final size:13
Alignment explanation
Indices: 44957434--44957459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44957424 CTCACCCATG
44957434 TGCGACACACGGT
1 TGCGACACACGGT
44957447 TGCGACACACGGT
1 TGCGACACACGGT
44957460 CACGTTACAC
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
TGCGACACACGGT
Found at i:44962682 original size:57 final size:58
Alignment explanation
Indices: 44962548--44962702 Score: 154
Period size: 57 Copynumber: 2.7 Consensus size: 58
44962538 ATTGACCTCA
* * * * * *
44962548 TTATAGAAAGAATTTAGCCCGGACAAGTAATCCTAGTATAATACCTTTCGAGTATACG
1 TTATATAAAGGATTTAGCCTGGACTAGTAATCCTAATATAATACCTTTCGAGCATACG
* * * * *
44962606 TTATGAT-TAGGGTTTAGCCTGGACTAGTAATCCTAAT-TGA-GCTCTTTTGAGCATACG
1 TTAT-ATAAAGGATTTAGCCTGGACTAGTAATCCTAATATAATAC-CTTTCGAGCATACG
* *
44962663 TTATATAAAGGATTTAGCCTGGACTGGTAATCCTATTATA
1 TTATATAAAGGATTTAGCCTGGACTAGTAATCCTAATATA
44962703 CGATATGTGG
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
56 3 0.04
57 44 0.57
58 29 0.38
59 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (58 bp):
TTATATAAAGGATTTAGCCTGGACTAGTAATCCTAATATAATACCTTTCGAGCATACG
Found at i:44969369 original size:42 final size:42
Alignment explanation
Indices: 44969287--44969369 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
44969277 GTGTGCTAGT
* * **
44969287 GTAAGATCATGTTTGGAACATGGCATCGGCAATGTTATGAGA
1 GTAAGACCATGTATGGAACATGGCATCGGCAATGAGATGAGA
* *
44969329 GTAAGACCATGTATGGGACATGGCATCGGCATTGAGATGAG
1 GTAAGACCATGTATGGAACATGGCATCGGCAATGAGATGAG
44969370 GGTGAAAAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.25
Consensus pattern (42 bp):
GTAAGACCATGTATGGAACATGGCATCGGCAATGAGATGAGA
Found at i:44973781 original size:48 final size:48
Alignment explanation
Indices: 44973718--44973829 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 48
44973708 TGGCAAAACC
* * * *
44973718 AATAAGTATTATATATGTGTGTGTCTAGCACTACCTGGTGAAACCGACA
1 AATAA-TATTATATATGTGTGTGCCAAACACTACCTGGTGAAACCAACA
*** *
44973767 AATAATATTATATATGTGTGTGCCAAACACTGGTTGGTGAAATCAACA
1 AATAATATTATATATGTGTGTGCCAAACACTACCTGGTGAAACCAACA
44973815 AATAATATTATATAT
1 AATAATATTATATAT
44973830 ACCCTATACC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 50 0.91
49 5 0.09
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (48 bp):
AATAATATTATATATGTGTGTGCCAAACACTACCTGGTGAAACCAACA
Found at i:44982288 original size:5 final size:5
Alignment explanation
Indices: 44982278--44982304 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
44982268 GATATTATCC
44982278 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
44982305 GAAAAAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:44992154 original size:43 final size:43
Alignment explanation
Indices: 44992101--44992186 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
44992091 TACTATTTCA
*
44992101 ATCCTCAGCTTAGTTTTAATGATTTGTCTATTTATAAATTATC
1 ATCCTCAGCTTAGTTTAAATGATTTGTCTATTTATAAATTATC
*
44992144 ATCCTTAGCTTAGTTTAAATGATTTGTCTATTTATAAATTATC
1 ATCCTCAGCTTAGTTTAAATGATTTGTCTATTTATAAATTATC
44992187 CTTCCAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (43 bp):
ATCCTCAGCTTAGTTTAAATGATTTGTCTATTTATAAATTATC
Found at i:44999263 original size:46 final size:46
Alignment explanation
Indices: 44999213--44999388 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
44999203 TGGTTGAGCA
44999213 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44999259 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
44999304 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44999352 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44999389 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44999369 original size:93 final size:93
Alignment explanation
Indices: 44999210--44999381 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
44999200 GGATGGTTGA
* *
44999210 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44999275 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
44999303 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44999368 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
44999382 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45008011 original size:46 final size:46
Alignment explanation
Indices: 45007961--45008136 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
45007951 TGGTTGAGCA
45007961 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45008007 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
45008052 CATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45008100 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45008137 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45008117 original size:93 final size:93
Alignment explanation
Indices: 45007958--45008129 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
45007948 GGATGGTTGA
* * *
45007958 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45008023 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
45008051 GCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
45008116 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
45008130 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45014858 original size:29 final size:30
Alignment explanation
Indices: 45014802--45014858 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
45014792 CACGGCCAGG
*
45014802 CACACGGGCGTGTGACTAGGCCGTGTGAGC
1 CACACGGGCGTGTGACTAGGCCATGTGAGC
* * *
45014832 CACATGGGCGTGTGGC-AGGCTATGTGA
1 CACACGGGCGTGTGACTAGGCCATGTGA
45014859 TCGGCTATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 9 0.39
30 14 0.61
ACGTcount: A:0.18, C:0.23, G:0.40, T:0.19
Consensus pattern (30 bp):
CACACGGGCGTGTGACTAGGCCATGTGAGC
Found at i:45020499 original size:27 final size:27
Alignment explanation
Indices: 45020469--45020644 Score: 174
Period size: 27 Copynumber: 6.5 Consensus size: 27
45020459 ATATTGAGTC
* *
45020469 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
45020496 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
45020523 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
45020551 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
45020578 CGCACACTTAGTGC-ATCGTATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
45020605 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
45020632 CGCACACTTAGTG
1 CGCACACTTAGTG
45020645 TTGTACAATT
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:45020608 original size:82 final size:81
Alignment explanation
Indices: 45020490--45020644 Score: 240
Period size: 82 Copynumber: 1.9 Consensus size: 81
45020480 TGCTATATAA
*
45020490 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45020555 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45020572 TCAATTCGCACACTTAGTGC-ATCGTATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CGTAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45020636 CACTTAGTG
65 CACTTAGTG
45020645 TTGTACAATT
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45021142 original size:2 final size:2
Alignment explanation
Indices: 45021135--45021168 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
45021125 CATACTTGTG
* *
45021135 TA TA TA TA CA TA TA TA TG 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
45021169 CTTCGGAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:45028536 original size:27 final size:27
Alignment explanation
Indices: 45028505--45028682 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
45028495 ATATTGAGTC
* *
45028505 CGCACACTCAGTGCTATGTAATCAACT
1 CGCACACTTAGTGCTACGTAATCAACT
*
45028532 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACGTAATCAACT
* *
45028559 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACGTAATC-AACT
** * ** *
45028587 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACGTAATCAACT
* **
45028614 CGCACACTTAGTGC-ATCGTATTCATTT
1 CGCACACTTAGTGCTA-CGTAATCAACT
* * * *
45028641 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACGTAATCAACT
45028668 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45028683 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACGTAATCAACT
Found at i:45028644 original size:82 final size:81
Alignment explanation
Indices: 45028526--45028681 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
45028516 TGCTATGTAA
*
45028526 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45028591 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45028608 TCAATTCGCACACTTAGTGC-ATCGTATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CGTAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45028672 CACTTAGTGC
65 CACTTAGTGC
45028682 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45037518 original size:48 final size:47
Alignment explanation
Indices: 45037388--45037555 Score: 171
Period size: 47 Copynumber: 3.6 Consensus size: 47
45037378 CTCTTAGCCA
* *
45037388 ATGCATGTCCCAGACACGTCTTACACTGGCTA-TCATCATCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCATCGACGCCG
* * * *
45037435 ATGCATGTCTCAGACATGTCTTACACTTGCACTCATC-TCTACGCTG
1 ATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGACGCCG
* **
45037481 ATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-GTGGCCG
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCATCGACGCCG
* * * *
45037529 ATTCATGTCCTAGATATTTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
45037556 AGCATACAAG
Statistics
Matches: 100, Mismatches: 17, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
46 19 0.19
47 57 0.57
48 23 0.23
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGACGCCG
Found at i:45043725 original size:102 final size:102
Alignment explanation
Indices: 45043582--45043858 Score: 509
Period size: 102 Copynumber: 2.7 Consensus size: 102
45043572 ATCTAGCAGG
* *
45043582 ATTCTTGCTACCAACCCCAACTCCAACATTCTTCTAAGGTCTTCCACTAAAATTGGTGCCACTTG
1 ATTCTTGCTACCAACCCCAACTCCAACATTCTTCTGAGGTCTTCCATTAAAATTGGTGCCACTTG
45043647 GCCTTGTATCAAACCTTACGGTAGTGTCTCTCGTCAC
66 GCCTTGTATCAAACCTTACGGTAGTGTCTCTCGTCAC
*
45043684 ATTCTTACTACCAACCCCAACTCCAACATTCTTCTGAGGTCTTCCATTAAAATTGGTGCCACTTG
1 ATTCTTGCTACCAACCCCAACTCCAACATTCTTCTGAGGTCTTCCATTAAAATTGGTGCCACTTG
45043749 GCCTTGTATCAAACCTTACGGTAGTGTCTCTCGTCAC
66 GCCTTGTATCAAACCTTACGGTAGTGTCTCTCGTCAC
* *
45043786 ATTCTTGCTACCAACCCTAACTCCAACATTCTTTTGAGGTCTTCCATTAAAATTGGTGCCACTTG
1 ATTCTTGCTACCAACCCCAACTCCAACATTCTTCTGAGGTCTTCCATTAAAATTGGTGCCACTTG
45043851 GCCTTGTA
66 GCCTTGTA
45043859 CTCTGAAATT
Statistics
Matches: 169, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 169 1.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (102 bp):
ATTCTTGCTACCAACCCCAACTCCAACATTCTTCTGAGGTCTTCCATTAAAATTGGTGCCACTTG
GCCTTGTATCAAACCTTACGGTAGTGTCTCTCGTCAC
Found at i:45052718 original size:152 final size:146
Alignment explanation
Indices: 45052334--45052815 Score: 499
Period size: 151 Copynumber: 3.2 Consensus size: 146
45052324 TTTTAATAAA
* * * * *
45052334 AAAATGAGAAAGTTTAGATTTTGGAAAAATAAATGTATATTTTTTTAGTTAATTTAAAGGAAAGT
1 AAAATGAG-AAGTTTAGATTTTGAAAAAAAAAATATGT-TTTTTTTAGTTATTTTAAAGGAAAGT
* ** * * * *
45052399 TTAAATTTTTAAAACAAATTTTTGATTTTTTTTTTCAACT-CTTTTAAAGTCAAAGCTTTAATCT
64 TTAAATTTTTAAAACAAAGTTTTGA--TTTTTTTT-AACTAC-TCCAAAATAAAAACTTTAATAT
*
45052463 TTAAGAAAAATAGTATTTTTTT
125 TTAAGAAAAATAATATTTTTTT
**
45052485 AAAAAAAGACAGTTTAGATTTTGAAAAAATAAAAATATG-TTTTTTTAGTTATTTTAAAGGAAAG
1 AAAATGAGA-AGTTTAGATTTTG-AAAAA-AAAAATATGTTTTTTTTAGTTATTTTAAAGGAAAG
* * *
45052549 CTTAAATTTTTAAAACAAAGATTTGATTTTTTTTAACTACTCCAAAATAAAAACTTTATTATTTA
63 TTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTACTCCAAAATAAAAACTTTAATATTTA
45052614 AGAAAGTAATAATAATTTTTTT
128 AGAAA--AATAAT-ATTTTTTT
* *
45052636 AAAATGAGAATGTTTAGATTTTGAAAAAGAAAAATCTGTTTTTTTTAAGTCATTTTAAAGGAAAG
1 AAAATGAGAA-GTTTAGATTTTGAAAAA-AAAAATATGTTTTTTTT-AGTTATTTTAAAGGAAAG
* * ** * *
45052701 TTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTATTCCGAAAT-AAAGTTTTGATTTTTA
63 TTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTACTCCAAAATAAAAACTTTAATATTTA
* *
45052765 AGAAAAGTAATTATTCTTTCT
128 AGAAAAATAA-TATT-TTTTT
* *
45052786 -AAA-GA-AAATTTTGATTTTGAAAAAAAAAAT
1 AAAATGAGAAGTTTAGATTTTGAAAAAAAAAAT
45052816 CCACACCGAA
Statistics
Matches: 283, Mismatches: 36, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
145 6 0.02
146 15 0.05
147 2 0.01
148 29 0.10
149 19 0.07
150 25 0.09
151 116 0.41
152 65 0.23
153 6 0.02
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (146 bp):
AAAATGAGAAGTTTAGATTTTGAAAAAAAAAATATGTTTTTTTTAGTTATTTTAAAGGAAAGTTT
AAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTACTCCAAAATAAAAACTTTAATATTTAAGA
AAAATAATATTTTTTT
Found at i:45057731 original size:46 final size:47
Alignment explanation
Indices: 45057582--45057839 Score: 178
Period size: 46 Copynumber: 5.5 Consensus size: 47
45057572 TTTGTGAGCT
* * * * *
45057582 AGTGTAAGA-CATGTATGGGACATGAATCAGCCAC-ATTAAG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGAATCGGCCTCGA-GACGTA-AGCC
* * * * *
45057628 AGTGTAAGACCATGTCTGGTACATGGCATCGGCATTGAGAC-TAAAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GAATCGGCCTCGAGACGT-AAGCC
* *
45057676 ACTGTAAGA-CATGTCTGGGACATGAATTGGCCTCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGAATCGGCCTCGAGACGTAAGCC
* * *
45057722 AGTGTAAGA-CATGTCTGGGACATGTATCGG-CTACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGAATCGGCCT-CGAGACGTA-AGCC
* ** * *
45057768 AGTGTAAGACCATGTCTGGGACATGGCATC-TACTTGGGA--TAGGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GAATCGGCCTCGAGACGTA--AGCC
45057815 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
45057840 GCATCGGTAC
Statistics
Matches: 171, Mismatches: 28, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
45 3 0.02
46 72 0.42
47 70 0.41
48 24 0.14
49 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGAATCGGCCTCGAGACGTAAGCC
Found at i:45057834 original size:140 final size:140
Alignment explanation
Indices: 45057582--45057839 Score: 333
Period size: 140 Copynumber: 1.8 Consensus size: 140
45057572 TTTGTGAGCT
*
45057582 AGTGTAAGACATGTATGGGACATGAATCAGCCACATTAAGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTATGGGACATGAATCAGCCACATGAAGAGAGCCAGTGTAAGACCATGTCTGG
* * *
45057647 TACATGGCATCGGCATTGAGACTAAAGCTACTGTAAGACATGTCTGGGACATGAATTGGCCTCGA
66 GACATGGCATCGACATTGAGACTAAAGCCACTGTAAGACATGTCTGGGACATGAATTGGCCTCGA
45057712 GACGTAAGCC
131 GACGTAAGCC
* * * * * * *
45057722 AGTGTAAGACATGTCTGGGACATGTATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTATGGGACATGAATCAGCCAC-ATGAAGAGAGCCAGTGTAAGACCATGTCTG
* * * *
45057786 GGACATGGCATCTAC-TTGGGA-TAGGAGCCAGTGTAAGACCATGTCTGGGACATG
65 GGACATGGCATCGACATTGAGACTA-AAGCCACTGTAAGA-CATGTCTGGGACATG
45057840 GCATCGGTAC
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 2 0.02
139 16 0.16
140 81 0.81
141 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTATGGGACATGAATCAGCCACATGAAGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAGACTAAAGCCACTGTAAGACATGTCTGGGACATGAATTGGCCTCGA
GACGTAAGCC
Found at i:45063521 original size:46 final size:46
Alignment explanation
Indices: 45063424--45063584 Score: 159
Period size: 46 Copynumber: 3.5 Consensus size: 46
45063414 TGTGAGCTAA
* * * * * *
45063424 TGTAAGACATGTCTGGGACATGCATCGACCAC-ATTATGAGAGCTACG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATCATAGCCA-G
*
45063471 -GTAAGACATGTTTGGGACATGCATCGGCCT-CGAGA-CATAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATCAT-AGCCAG
* * *
45063516 TGTAAGACATGCCTGGGACATGCATCGGCTACGAGATGATAGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATCATAGCCAG
45063562 TGTAAGACCATGTCTGGGACATG
1 TGTAAGA-CATGTCTGGGACATG
45063585 GTATCAACAC
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
45 4 0.04
46 73 0.77
47 18 0.19
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATCATAGCCAG
Found at i:45066285 original size:27 final size:27
Alignment explanation
Indices: 45066251--45066327 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
45066241 ACCTAATCCT
* *
45066251 CGTATTTACCATCTCATTGGACTAACC
1 CGTATTTAACATCCCATTGGACTAACC
* * *
45066278 CGTGTTTAACGTCCCATTGGACTATCC
1 CGTATTTAACATCCCATTGGACTAACC
* *
45066305 CGTATTTAATATCCCATCGGACT
1 CGTATTTAACATCCCATTGGACT
45066328 GTCTTTGATG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (27 bp):
CGTATTTAACATCCCATTGGACTAACC
Found at i:45071740 original size:17 final size:18
Alignment explanation
Indices: 45071718--45071751 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45071708 TTTAGCCGTG
45071718 TGGG-CCACACGAGCATA
1 TGGGCCCACACGAGCATA
*
45071735 TGGGCCCACACGGGCAT
1 TGGGCCCACACGAGCAT
45071752 GTGAGTCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.32, G:0.32, T:0.12
Consensus pattern (18 bp):
TGGGCCCACACGAGCATA
Found at i:45072173 original size:40 final size:40
Alignment explanation
Indices: 45072100--45072175 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
45072090 ACGGTACCTT
* * *
45072100 TTGGTATGTAGGGTTGGATGGGTTGATTATATCCCCATAC
1 TTGGTATGTAGGGTTGGACGGGTCGATCATATCCCCATAC
* * *
45072140 TTGGTTTGTAGGGTTGGGCGGGTCGATCCTATCCCC
1 TTGGTATGTAGGGTTGGACGGGTCGATCATATCCCC
45072176 GCATGGTGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.14, C:0.17, G:0.33, T:0.36
Consensus pattern (40 bp):
TTGGTATGTAGGGTTGGACGGGTCGATCATATCCCCATAC
Found at i:45077996 original size:15 final size:16
Alignment explanation
Indices: 45077959--45078002 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
45077949 TAATTTGAGC
*
45077959 CGTGTGGGCCACACGGT
1 CGTGTGAGCC-CACGGT
45077976 CGTGTGAGCCCACGG-
1 CGTGTGAGCCCACGGT
45077991 CGTGTGAGCCCA
1 CGTGTGAGCCCA
45078003 ATTTTCCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 12 0.46
16 5 0.19
17 9 0.35
ACGTcount: A:0.14, C:0.32, G:0.39, T:0.16
Consensus pattern (16 bp):
CGTGTGAGCCCACGGT
Found at i:45084373 original size:19 final size:19
Alignment explanation
Indices: 45084349--45084386 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
45084339 TTAGTTAATA
45084349 ATTTTAATGA-TATTTTATT
1 ATTTT-ATGATTATTTTATT
*
45084368 ATTTTATTATTATTTTATT
1 ATTTTATGATTATTTTATT
45084387 TAGTATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
ATTTTATGATTATTTTATT
Found at i:45086535 original size:46 final size:46
Alignment explanation
Indices: 45086480--45086890 Score: 517
Period size: 46 Copynumber: 9.0 Consensus size: 46
45086470 GCTTTCTGAA
* *
45086480 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
45086526 A-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
45086572 ATAAAAT--G-AAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* **
45086615 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
45086661 ATGAAATGAATAAGACCATGGCTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
45086707 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATAAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
45086753 AGGGAAATGAATAAGACCATGGTTGAAAGATACCATAGCAACATGAC
1 A-TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
45086800 AGGGAAATGAATAAGATCATGGTTAAAAGATACCATGGCAACATGAT
1 A-TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
45086847 A-GAAAACGAGTAAGACCATAGTCGAAAGATACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
45086891 TTGAAGATAA
Statistics
Matches: 329, Mismatches: 29, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
43 40 0.12
44 1 0.00
45 3 0.01
46 199 0.60
47 86 0.26
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:45086642 original size:89 final size:90
Alignment explanation
Indices: 45086491--45086890 Score: 482
Period size: 89 Copynumber: 4.4 Consensus size: 90
45086481 TGAAATGTGT
* **
45086491 AAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAATGTGTAAGACCATGGTTGAAAGA
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAATAAGACCATGGTTGAAAGA
*
45086555 TACCATGGCAACATGACATAAAATG-
65 TACCATGGCAACATGACAGAAAATGA
* **
45086580 AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGAT
**
45086645 ACCATGGCAATGTGACATG-AAATGAA
66 ACCATGGCAACATGACA-GAAAATG-A
* *
45086671 TAAGACCATGGCTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 -AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
* *
45086736 TACCATGGCAACATAACAGGGAAATGAA
65 TACCATGGCAACATGACA-GAAAATG-A
* * * *
45086764 TAAGACCATGGTTGAAAGATACCATAGCAACATGACAGGGAAATGAATAAGATCATGGTTAAAAG
1 -AAGACCATGGTTGAAAGATACCATGGCAACATGACA-TGAAATGAATAAGACCATGGTTGAAAG
* *
45086829 ATACCATGGCAACATGATAGAAAACGA
64 ATACCATGGCAACATGACAGAAAATGA
* * * *
45086856 GTAAGACCATAGTCGAAAGATACTATGGCATCATG
1 --AAGACCATGGTTGAAAGATACCATGGCAACATG
45086891 TTGAAGATAA
Statistics
Matches: 276, Mismatches: 27, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
89 83 0.30
90 1 0.00
92 76 0.28
93 75 0.27
94 41 0.15
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (90 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACAGAAAATGA
Found at i:45087015 original size:13 final size:13
Alignment explanation
Indices: 45086973--45087016 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
45086963 ACCTGATGAC
45086973 AAATGGTTATATG
1 AAATGGTTATATG
* **
45086986 AATTGGTTATACA
1 AAATGGTTATATG
*
45086999 AAATGGTTATGTG
1 AAATGGTTATATG
45087012 AAATG
1 AAATG
45087017 TTTACAGGAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:45088002 original size:26 final size:26
Alignment explanation
Indices: 45087935--45088009 Score: 104
Period size: 22 Copynumber: 3.0 Consensus size: 26
45087925 TGAATTTTGA
*
45087935 AATACATTACAAGTATTAAAGATAAG
1 AATATATTACAAGTATTAAAGATAAG
*
45087961 AATATA-TA-AA-T-GTAAAGATAAG
1 AATATATTACAAGTATTAAAGATAAG
45087983 AATATATTACAAGTATTAAAGATAAG
1 AATATATTACAAGTATTAAAGATAAG
45088009 A
1 A
45088010 CCATGGTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
22 16 0.38
23 3 0.07
24 4 0.10
25 3 0.07
26 16 0.38
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.28
Consensus pattern (26 bp):
AATATATTACAAGTATTAAAGATAAG
Found at i:45088085 original size:24 final size:24
Alignment explanation
Indices: 45088057--45088131 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
45088047 TGAATAAGAC
45088057 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
** * *
45088081 CATGGCGGGAAA-ATGA--ATAAG-AC
1 CATGG-TTGAAAGAT-ACCAT-GGCAA
45088104 CATGGTTGAAAGATACCATGGCAA
1 CATGGTTGAAAGATACCATGGCAA
45088128 CATG
1 CATG
45088132 ACGGGCAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 11 0.31
24 15 0.42
25 5 0.14
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.19
Consensus pattern (24 bp):
CATGGTTGAAAGATACCATGGCAA
Found at i:45088113 original size:47 final size:47
Alignment explanation
Indices: 45088004--45088224 Score: 329
Period size: 47 Copynumber: 4.7 Consensus size: 47
45087994 AGTATTAAAG
* **
45088004 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG-AAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGA
*
45088050 ATAAGACCATGGTTGAAAGATACCATGGCAACATGGCGGGAAAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGA
*
45088097 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGCAAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGA
* *
45088144 ATAAGACCATGGTTGAAACATACCATGGCAACATGAC-AGAAAATGA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGA
* * * *
45088190 GTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATG
45088225 TTGAAGATAA
Statistics
Matches: 160, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 73 0.46
47 87 0.54
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (47 bp):
ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATGA
Found at i:45088186 original size:93 final size:93
Alignment explanation
Indices: 45088004--45088224 Score: 336
Period size: 93 Copynumber: 2.4 Consensus size: 93
45087994 AGTATTAAAG
* * *
45088004 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAG
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAC
* *
45088069 ATACCATGGCAACATGGCGGGAAAATGA
66 ATACCATGGCAACATGACGAGAAAATGA
*
45088097 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGCAAATGAATAAGACCATGGTTGAAA
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG-AAATGAATAAGACCATGGTTGAAA
45088162 CATACCATGGCAACATGAC-AGAAAATGA
65 CATACCATGGCAACATGACGAGAAAATGA
* * * *
45088190 GTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATG
45088225 TTGAAGATAA
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
93 76 0.65
94 41 0.35
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (93 bp):
ATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAAAC
ATACCATGGCAACATGACGAGAAAATGA
Found at i:45088347 original size:26 final size:24
Alignment explanation
Indices: 45088307--45088402 Score: 66
Period size: 26 Copynumber: 3.7 Consensus size: 24
45088297 ACCAGATGAC
*
45088307 AAATGGTTATATGAATTGGTTATACA
1 AAATGGTTATATGAAAT-GTT-TACA
* *
45088333 AAATGGTTGTGTGAAATGTTTACAA
1 AAATGGTTATATGAAATGTTTAC-A
* *
45088358 AAATTGGTCATATGGAAATATATGTACA
1 AAA-TGGTTATAT-GAAATGT-T-TACA
* *
45088386 AAATAGTTGTATGAAAT
1 AAATGGTTATATGAAAT
45088403 AATTAAGAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
24 3 0.05
25 7 0.13
26 25 0.45
27 12 0.22
28 5 0.09
29 3 0.05
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (24 bp):
AAATGGTTATATGAAATGTTTACA
Found at i:45089209 original size:36 final size:36
Alignment explanation
Indices: 45089160--45089228 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
45089150 ATGTAAGTCA
45089160 GTATTATGCCGAAAAGAGGGTGGTTCTGAGGACCCT
1 GTATTATGCCGAAAAGAGGGTGGTTCTGAGGACCCT
* *
45089196 GTATTGTGTCGAAAAGAGGGTGGTTCTGAGGAC
1 GTATTATGCCGAAAAGAGGGTGGTTCTGAGGAC
45089229 TGAAGAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.36, T:0.26
Consensus pattern (36 bp):
GTATTATGCCGAAAAGAGGGTGGTTCTGAGGACCCT
Found at i:45093799 original size:40 final size:40
Alignment explanation
Indices: 45093755--45093833 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
45093745 TTACAGTACC
* *
45093755 ACTTGGTGTGTATGGCTAGATGGGTCGATTTTATCCCCAT
1 ACTTGGTGTGTAGGGCTAGATAGGTCGATTTTATCCCCAT
* * *
45093795 ACTTGGTGTGTAGGGCTGGGTAGGTTGATTTTATCCCCA
1 ACTTGGTGTGTAGGGCTAGATAGGTCGATTTTATCCCCA
45093834 CATGGTGTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.16, C:0.16, G:0.30, T:0.37
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGCTAGATAGGTCGATTTTATCCCCAT
Found at i:45099116 original size:38 final size:39
Alignment explanation
Indices: 45099074--45099246 Score: 199
Period size: 39 Copynumber: 4.5 Consensus size: 39
45099064 GATTTCAACA
* *
45099074 GGCTAACCCCCGTAGGCCTT-GTG-TGAGAT-TTATATCCG
1 GGCTAACCCCCGAAGGCATTCGTGCTG-G-TGTTATATCCG
**
45099112 GGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCG
1 GGCTAACCCCCGAAGGCATTCGTGCTGGTGTTATATCCG
**
45099151 GGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCG
1 GGCTAACCCCCGAAGGCATTCGTGCTGGTGTTATATCCG
* ** *
45099190 AGCTAAATCCCGAAGGCATTCGTACTGGTGTTATATCCG
1 GGCTAACCCCCGAAGGCATTCGTGCTGGTGTTATATCCG
**
45099229 GGCTAAGTCCCGAAGGCA
1 GGCTAACCCCCGAAGGCA
45099247 ATTATGTTGG
Statistics
Matches: 123, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
38 17 0.14
39 104 0.85
40 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
GGCTAACCCCCGAAGGCATTCGTGCTGGTGTTATATCCG
Found at i:45099147 original size:39 final size:39
Alignment explanation
Indices: 45099103--45099246 Score: 261
Period size: 39 Copynumber: 3.7 Consensus size: 39
45099093 TGTGTGAGAT
45099103 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
45099142 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
45099181 TTATATCCGAGCTAAATCCCGAAGGCATTCGTACTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
45099220 TTATATCCGGGCTAAGTCCCGAAGGCA
1 TTATATCCGGGCTAAGTCCCGAAGGCA
45099247 ATTATGTTGG
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 100 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Done.