Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 168 of 211
Found at i:49572366 original size:27 final size:25
Alignment explanation
Indices: 49572320--49572379 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
49572310 TGCTAGGTGA
* *
49572320 GACTCTTAGGAGAAATTTGTTAAGTAG
1 GACTCTTAGAAGAAAGTTGTT--GTAG
* *
49572347 GACTCTTAGAATAAAGTTGTTTTAG
1 GACTCTTAGAAGAAAGTTGTTGTAG
49572372 GACTCTTA
1 GACTCTTA
49572380 ATATGTTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 11 0.38
27 18 0.62
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (25 bp):
GACTCTTAGAAGAAAGTTGTTGTAG
Found at i:49580249 original size:50 final size:48
Alignment explanation
Indices: 49580124--49580250 Score: 157
Period size: 48 Copynumber: 2.6 Consensus size: 48
49580114 GCCTCTCCTT
* *
49580124 ATGCATCTGGGAGTAGGACCATAATTACCACATTCCAGAAGCCTCCCC
1 ATGCGTCTGGGAGTAGGGCCATAATTACCACATTCCAGAAGCCTCCCC
* * *
49580172 ACGCGTCTGGGAGTAGGGTCATCATTACCACATTCC-GTAAGCCTCTTCCC
1 ATGCGTCTGGGAGTAGGGCCATAATTACCACATTCCAG-AAGCCTC--CCC
* *
49580222 ATGCGTCTGGGAGTAGGGCCTTTATTACC
1 ATGCGTCTGGGAGTAGGGCCATAATTACC
49580251 TTCCATAAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 1 0.01
48 38 0.57
50 28 0.42
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (48 bp):
ATGCGTCTGGGAGTAGGGCCATAATTACCACATTCCAGAAGCCTCCCC
Found at i:49580351 original size:49 final size:51
Alignment explanation
Indices: 49580229--49580361 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 51
49580219 CCCATGCGTC
* * * *
49580229 TGGGAGTAGGG-CCTTTATTACCTTCCATAAGTTTGCCTCCTATTATGTGTT
1 TGGGAGTAGGGTCATTTATTACCTTCCATAAGTCT-CCTCCTACTATGAGTT
* * *
49580280 TGGGAGCAGGGTCACCTTATTACCTTTCATAAGTCT-C-CCT-CTATGAGTT
1 TGGGAGTAGGGTCA-TTTATTACCTTCCATAAGTCTCCTCCTACTATGAGTT
49580329 TGGGAGTAGGGTCATTTCATTACCTTCCATAAG
1 TGGGAGTAGGGTCATTT-ATTACCTTCCATAAG
49580362 CGTCCCCCCA
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
48 2 0.03
49 34 0.49
50 3 0.04
51 11 0.16
52 1 0.01
53 18 0.26
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (51 bp):
TGGGAGTAGGGTCATTTATTACCTTCCATAAGTCTCCTCCTACTATGAGTT
Found at i:49587056 original size:45 final size:44
Alignment explanation
Indices: 49586967--49587059 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
49586957 ATTACAACAT
*
49586967 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
*
49587011 CATTCCATTCAACCAAACA-ATTGAATTACTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGCTCTATTC
49587056 CATT
1 CATT
49587060 ACACATCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 22 0.49
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:49587062 original size:16 final size:17
Alignment explanation
Indices: 49587041--49587080 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
49587031 TTGAATTACT
49587041 ATTACAGC-TCTATTCC
1 ATTACAGCATCTATTCC
49587057 ATTACA-CATCTATTCC
1 ATTACAGCATCTATTCC
49587073 ATTACAGC
1 ATTACAGC
49587081 GAACCAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (17 bp):
ATTACAGCATCTATTCC
Found at i:49590647 original size:32 final size:32
Alignment explanation
Indices: 49590611--49590671 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
49590601 CTTTTAACGT
*
49590611 TTGAGGGTTAGAAAATAATGGAGATCATTTTA
1 TTGAGGGTTAGAAAATAATAGAGATCATTTTA
* *
49590643 TTGAGGGTTTGAGAATAATAGAGATCATT
1 TTGAGGGTTAGAAAATAATAGAGATCATT
49590672 CGATGGAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.34
Consensus pattern (32 bp):
TTGAGGGTTAGAAAATAATAGAGATCATTTTA
Found at i:49591271 original size:21 final size:22
Alignment explanation
Indices: 49591242--49591282 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
49591232 AGCAAGCAAT
*
49591242 ATTTTTTTTCCTTCT-TTTTCG
1 ATTTATTTTCCTTCTCTTTTCG
*
49591263 ATTTATTTTCTTTCTCTTTT
1 ATTTATTTTCCTTCTCTTTT
49591283 TCGGCCTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.73
Consensus pattern (22 bp):
ATTTATTTTCCTTCTCTTTTCG
Found at i:49592036 original size:3 final size:3
Alignment explanation
Indices: 49592016--49592081 Score: 55
Period size: 3 Copynumber: 21.3 Consensus size: 3
49592006 AGGTCCCTTG
** *
49592016 TTA TTAA TTA TT- TTA TTA TTA AAA TTA TTTA TTT TTA TTA -TA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
49592061 TTTA TTA TTA TTGA TTA TTA T
1 -TTA TTA TTA TT-A TTA TTA T
49592082 CATATTTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 4 0.08
3 35 0.69
4 12 0.24
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:49592069 original size:10 final size:10
Alignment explanation
Indices: 49592039--49592081 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
49592029 TATTATTAAA
49592039 ATTATTTATT
1 ATTATTTATT
*
49592049 TTTA-TTA-T
1 ATTATTTATT
49592057 ATTATTTATT
1 ATTATTTATT
*
49592067 ATTATTGATT
1 ATTATTTATT
49592077 ATTAT
1 ATTAT
49592082 CATATTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 4 0.14
9 6 0.21
10 18 0.64
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTATTTATT
Found at i:49592071 original size:15 final size:15
Alignment explanation
Indices: 49592016--49592071 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
49592006 AGGTCCCTTG
* *
49592016 TTATTAATTATTTTA
1 TTATTTATTATTATA
**
49592031 TTA-TTAAAATTAT-
1 TTATTTATTATTATA
49592044 TTATTT-TTATTATA
1 TTATTTATTATTATA
49592058 TTATTTATTATTAT
1 TTATTTATTATTAT
49592072 TGATTATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
13 8 0.25
14 14 0.44
15 10 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTTATTATTATA
Found at i:49592077 original size:22 final size:20
Alignment explanation
Indices: 49592017--49592078 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 20
49592007 GGTCCCTTGT
*
49592017 TATTAATTATTTTATTATTAA
1 TATTATTTATTTTATTATT-A
*
49592038 AATTATTTA-TTT-TTATTA
1 TATTATTTATTTTATTATTA
49592056 TATTATTTATTATTATTGATTA
1 TATTATTTATT-TTATT-ATTA
49592078 T
1 T
49592079 TATCATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 9 0.26
19 6 0.18
20 5 0.15
21 9 0.26
22 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTATTTATTTTATTATTA
Found at i:49596181 original size:20 final size:21
Alignment explanation
Indices: 49596145--49596186 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
49596135 GCAAATGTTC
49596145 TTTCATTCTTTACGATT-TTT
1 TTTCATTCTTTACGATTCTTT
49596165 TTTCATTCTTT-CAGATTCTTT
1 TTTCATTCTTTAC-GATTCTTT
49596186 T
1 T
49596187 CTGCCAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 1 0.05
20 15 0.75
21 4 0.20
ACGTcount: A:0.14, C:0.17, G:0.05, T:0.64
Consensus pattern (21 bp):
TTTCATTCTTTACGATTCTTT
Found at i:49597158 original size:7 final size:7
Alignment explanation
Indices: 49597133--49597165 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
49597123 AGTGATGTGA
49597133 AAAAATG
1 AAAAATG
49597140 AAAAGATG
1 AAAA-ATG
49597148 -AAAATG
1 AAAAATG
49597154 AAAAATG
1 AAAAATG
49597161 AAAAA
1 AAAAA
49597166 GTAAAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 18 0.75
8 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:49598538 original size:44 final size:44
Alignment explanation
Indices: 49598471--49599262 Score: 552
Period size: 44 Copynumber: 17.7 Consensus size: 44
49598461 TACTGGTGGC
* *
49598471 GAAGTAGATCAAAGA-AAGTAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAGAGATAA-CAGATCTTGTCTTCATGTACTGGCGT
* *** * *
49598515 GAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGC
1 GAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTACTGG-CGT
* * * *
49598560 GAAGCAGATC-GAAGAAAACAGATATTGTCTTCATGTACTGGTGT
1 GAAGTAGATCAG-AGATAACAGATCTTGTCTTCATGTACTGGCGT
* * *** * *
49598604 GAAGTAGATCAGAGAT-ACCGATCTTGCCTTCCCATACTGGTGGC
1 GAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTACTGG-CGT
* * * *
49598648 GAAGCAGATCAAAGA-AAGTAGATCTTGTCTTCATGTACTGGAGT
1 GAAGTAGATCAGAGATAA-CAGATCTTGTCTTCATGTACTGGCGT
* * *
49598692 GAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTAGTGGC--
1 GAAGTAGATCAGAGATAACAGATCTTGTCTT--CAT-GTACTGGCGT
* * *
49598737 GAAGCAGATC-GAAGGAAAAAGCAGATCTTGTCTTCATATACTGGCGT
1 GAAGTAGATCAG-A-G-ATAA-CAGATCTTGTCTTCATGTACTGGCGT
* * * *
49598784 GAAGTAGATCAGAGATACCAGATCTTGCCTTTCCA--TACTGGTGGC
1 GAAGTAGATCAGAGATAACAGATCTTGTC-TT-CATGTACTGG-CGT
* * * *
49598829 GAAGCAGATCAAAGA-AAGTAGATCTTGTCTTCATGTACTGGAGT
1 GAAGTAGATCAGAGATAA-CAGATCTTGTCTTCATGTACTGGCGT
* * *** * *
49598873 GAAGTAGATCAGAGATAACAAATCTTGCCTTCCCATACTGGTGGC
1 GAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTACTGG-CGT
* *
49598918 GAAGCAGATC-GAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAG-A-G-ATAA-CAGATCTTGTCTTCATGTACTGGCGT
* ** *** * *
49598965 GAAGTAGATCAGAGATACCAGATCTTACCTTCCCATACTGGTGGC
1 GAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTACTGG-CGT
* * * *
49599010 GAAGCAGATCAAAGA-AAGAAGATCTTGTCTTCATATACTGGCGT
1 GAAGTAGATCAGAGATAA-CAGATCTTGTCTTCATGTACTGGCGT
* *** * *
49599054 GAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTACTGG-CGT
**
49599099 GAAACAGATC-GAAGA-AAGCAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAG-AGATAA-CAGATCTTGTCTTCATGTACTGGCGT
* * * * *
49599143 AAAGTAGATCAAAGATACCAGATCTTGTCTTAATGTATTGGCGT
1 GAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTACTGGCGT
* *
49599187 GAAGTAGATC-GAAGAAAACAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCAG-AGATAACAGATCTTGTCTTCATGTACTGGCGT
* * *
49599231 GAAGTAGATCAAAGATACCCGATCTTGTCTTC
1 GAAGTAGATCAGAGATAACAGATCTTGTCTTC
49599263 GCATACTGGT
Statistics
Matches: 576, Mismatches: 131, Indels: 82
0.73 0.17 0.10
Matches are distributed among these distances:
43 20 0.03
44 294 0.51
45 186 0.32
46 12 0.02
47 32 0.06
48 32 0.06
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (44 bp):
GAAGTAGATCAGAGATAACAGATCTTGTCTTCATGTACTGGCGT
Found at i:49598589 original size:89 final size:89
Alignment explanation
Indices: 49598438--49599307 Score: 1188
Period size: 89 Copynumber: 9.7 Consensus size: 89
49598428 CAGGTTGAAA
* * * * * **
49598438 AGATAGCAGATTTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
49598503 ATGTACTGGCGTGAAGTAGATCAG
66 ATGTACTGGCGTGAAGTAGATCAG
*
49598527 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATATTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
*
49598592 ATGTACTGGTGTGAAGTAGATCAG
66 ATGTACTGGCGTGAAGTAGATCAG
* * **
49598616 AGAT-ACCGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
*
49598680 ATGTACTGGAGTGAAGTAGATCAG
66 ATGTACTGGCGTGAAGTAGATCAG
*
49598704 AGATAACAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAA-G-AAAA-CAGATCTTGTC
*
49598769 TTCATATACTGGCGTGAAGTAGATCAG
63 TTCATGTACTGGCGTGAAGTAGATCAG
* * * **
49598796 AGATACCAGATCTTGCCTTTCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
*
49598861 ATGTACTGGAGTGAAGTAGATCAG
66 ATGTACTGGCGTGAAGTAGATCAG
*
49598885 AGATAACAAATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAA-G-AAAA-CAGATCTTGTC
49598950 TTCATGTACTGGCGTGAAGTAGATCAG
63 TTCATGTACTGGCGTGAAGTAGATCAG
* * *
49598977 AGATACCAGATCTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGA-AGATCTTGTCTT
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAA-ACAGATCTTGTCTT
* *
49599041 CATATACTGGCGTGAAGTAGATCAA
65 CATGTACTGGCGTGAAGTAGATCAG
* * *
49599066 AGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGATCGAAGAAAGCAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
* *
49599131 ATGTACTGGCGTAAAGTAGATCAA
66 ATGTACTGGCGTGAAGTAGATCAG
* * **** * * * *
49599155 AGATACCAGATCTTGTCTTAATGTATTGG-CGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
* *
49599219 ATGTATTGGCGTGAAGTAGATCAA
66 ATGTACTGGCGTGAAGTAGATCAG
* * * * * * *
49599243 AGATACCCGATCTTGTCTTCGCATACTGGTGGCGAAGTAGATCGAAGAAAGCGGATCTTGTCTTC
1 AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
49599308 CCATACTGGT
Statistics
Matches: 697, Mismatches: 74, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
88 157 0.23
89 368 0.53
90 8 0.01
91 9 0.01
92 155 0.22
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (89 bp):
AGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
ATGTACTGGCGTGAAGTAGATCAG
Found at i:49598865 original size:181 final size:179
Alignment explanation
Indices: 49598438--49599307 Score: 1309
Period size: 181 Copynumber: 4.9 Consensus size: 179
49598428 CAGGTTGAAA
* * * *
49598438 AGATAGCAGATTTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
49598503 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
66 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
* *
49598568 TCGAAGAAAA-CAGATATTGTCTTCATGTACTGGTGTGAAGTAGATCAG
131 TCGAAGAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
49598616 AGATACC-GATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
* *
49598680 ATGTACTGGAGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTAGTGGCGAAGCAGA
66 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
*
49598745 TCGAAGGAAAAAGCAGATCTTGTCTTCATATACTGGCGTGAAGTAGATCAG
131 TCGAA-G-AAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
*
49598796 AGATACCAGATCTTGCCTTTCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
1 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
* *
49598861 ATGTACTGGAGTGAAGTAGATCAGAGATAACAAATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
66 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
49598926 TCGAAGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
131 TCGAA-G-AAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
* *
49598977 AGATACCAGATCTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGAAGATCTTGTCTTC
1 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
* * * *
49599042 ATATACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAACAGA
66 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
* *
49599107 TCGAAG-AAAGCAGATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAA
131 TCGAAGAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
* **** * * * * * **
49599155 AGATACCAGATCTTGTCTTAATGTATTGG-CGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTC
1 AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
* * * * * * *
49599219 ATGTATTGGCGTGAAGTAGATCAAAGATACCCGATCTTGTCTTCGCATACTGGTGGCGAAGTAGA
66 ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
*
49599284 TCGAAG-AAAGCGGATCTTGTCTTC
131 TCGAAGAAAAGCAGATCTTGTCTTC
49599308 CCATACTGGT
Statistics
Matches: 643, Mismatches: 45, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
177 232 0.36
178 69 0.11
179 4 0.01
180 43 0.07
181 295 0.46
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (179 bp):
AGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGTAGATCTTGTCTTC
ATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGA
TCGAAGAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAG
Found at i:49599889 original size:21 final size:22
Alignment explanation
Indices: 49599860--49599901 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
49599850 AGCAAGCAAT
*
49599860 ATTTTTTTTCCTTCT-TTTTTG
1 ATTTATTTTCCTTCTCTTTTTG
*
49599881 ATTTATTTTCTTTCTCTTTTT
1 ATTTATTTTCCTTCTCTTTTT
49599902 CGGCCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.76
Consensus pattern (22 bp):
ATTTATTTTCCTTCTCTTTTTG
Found at i:49600630 original size:3 final size:3
Alignment explanation
Indices: 49600622--49600690 Score: 52
Period size: 3 Copynumber: 22.3 Consensus size: 3
49600612 TTTGGGTCCC
** *
49600622 TTA TTA TTAA TTA TT- TTA TTA TTA AAA TTA TTTA TTT TTA TTA -TA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
49600667 TTA TTTA TTT TTA TTGA TTA TTA T
1 TTA -TTA TTA TTA TT-A TTA TTA T
49600691 CATATTTTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
2 4 0.08
3 36 0.69
4 12 0.23
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:49600645 original size:18 final size:17
Alignment explanation
Indices: 49600622--49600688 Score: 73
Period size: 18 Copynumber: 3.9 Consensus size: 17
49600612 TTTGGGTCCC
49600622 TTATTATTAATTATTTTA
1 TTATTATTAATTA-TTTA
*
49600640 TTATTA-AAATTATTTA
1 TTATTATTAATTATTTA
*
49600656 TTTTTATTATATTATTTA
1 TTATTATTA-ATTATTTA
* *
49600674 TTTTTATTGATTATT
1 TTATTATTAATTATT
49600689 ATCATATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
16 9 0.21
17 12 0.28
18 22 0.51
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (17 bp):
TTATTATTAATTATTTA
Found at i:49613549 original size:3 final size:3
Alignment explanation
Indices: 49613543--49613591 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
49613533 GAGAGAAAGG
*
49613543 AGA AGA AG- AGA AGG AGA AGA A-A AGA AGA AGA AGA AG- AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
49613588 AGA A
1 AGA A
49613592 AGAAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 6 0.15
3 35 0.85
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:49613553 original size:17 final size:15
Alignment explanation
Indices: 49613534--49613594 Score: 74
Period size: 14 Copynumber: 4.2 Consensus size: 15
49613524 AAAAAAAAAG
49613534 AGAGAAAGGAGAAG-A
1 AGAG-AAGGAGAAGAA
49613549 AGAGAAGGAGAAGAA
1 AGAGAAGGAGAAGAA
*
49613564 A-AGAAGAAGAAG-A
1 AGAGAAGGAGAAGAA
*
49613577 AGAGAAGAAGAAGAA
1 AGAGAAGGAGAAGAA
49613592 AGA
1 AGA
49613595 AAAAAAAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
13 2 0.05
14 30 0.71
15 10 0.24
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (15 bp):
AGAGAAGGAGAAGAA
Found at i:49613556 original size:14 final size:14
Alignment explanation
Indices: 49613543--49613595 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
49613533 GAGAGAAAGG
*
49613543 AGAAGAAGAGAAGG
1 AGAAGAAGAGAAGA
*
49613557 AGAAGAAAAGAAGA
1 AGAAGAAGAGAAGA
49613571 AGAAGAAGAGAAGA
1 AGAAGAAGAGAAGA
49613585 AGAAGAA-AGAA
1 AGAAGAAGAGAA
49613596 AAAAAAAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
13 4 0.11
14 32 0.89
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAGAAGA
Found at i:49613562 original size:11 final size:12
Alignment explanation
Indices: 49613539--49613589 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 12
49613529 AAAAGAGAGA
49613539 AAGGAGAAGAAGAG
1 AAGGAGAAG-A-AG
49613553 AAGGAGAAGAA-
1 AAGGAGAAGAAG
*
49613564 AAGAAGAAGAAG
1 AAGGAGAAGAAG
49613576 AA-GAGAAGAAG
1 AAGGAGAAGAAG
49613587 AAG
1 AAG
49613590 AAAGAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 20 0.61
12 3 0.09
13 1 0.03
14 9 0.27
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (12 bp):
AAGGAGAAGAAG
Found at i:49613590 original size:11 final size:11
Alignment explanation
Indices: 49613546--49613595 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
49613536 AGAAAGGAGA
49613546 AGAAG-AGAAGG
1 AGAAGAAGAA-G
49613557 AGAAGAA-AAG
1 AGAAGAAGAAG
49613567 AAGAAGAAGAAG
1 -AGAAGAAGAAG
49613579 AGAAGAAGAAG
1 AGAAGAAGAAG
49613590 A-AAGAA
1 AGAAGAA
49613596 AAAAAAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.17
11 26 0.72
12 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (11 bp):
AGAAGAAGAAG
Found at i:49613784 original size:22 final size:20
Alignment explanation
Indices: 49613749--49613811 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 20
49613739 TGGATTAGAA
*
49613749 TTTTGTACGAAATATTCTAAATT
1 TTTTGTATG-AATATTCT-AA-T
*
49613772 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTCTAAT
*
49613792 TTTT-TATGAATATTGTAAT
1 TTTTGTATGAATATTCTAAT
49613811 T
1 T
49613812 ATTTTATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.42
20 5 0.13
21 2 0.05
22 7 0.18
23 8 0.21
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTTGTATGAATATTCTAAT
Found at i:49613799 original size:19 final size:19
Alignment explanation
Indices: 49613771--49614014 Score: 118
Period size: 21 Copynumber: 11.4 Consensus size: 19
49613761 TATTCTAAAT
49613771 TTTTTGTATGAATATTGTAA
1 TTTTT-TATGAATATTGTAA
49613791 TTTTTTATGAATATTGTAA
1 TTTTTTATGAATATTGTAA
49613810 TTATTTTAT-AATTAAATTTGT-A
1 TT-TTTTATGAA-T--A-TTGTAA
* * *
49613832 TTTATAGTTTTGGAT-TAGT-A
1 TTT-T--TTATGAATATTGTAA
*
49613852 TTTTGTATGAATATTGTAA
1 TTTTTTATGAATATTGTAA
49613871 TTTTTTGTATGAATATTGTAA
1 -TTTTT-TATGAATATTGTAA
49613892 TTTTTTGTATGAATATTGTAATATTA
1 -TTTTT-TATGAATATTG---TA--A
49613918 TAATTTTATATGAATATTGTAA
1 T--TTTT-TATGAATATTGTAA
*
49613940 TTTTGTATGAATATTGTAA
1 TTTTTTATGAATATTGTAA
* *
49613959 TGTCGAGATATATTGTAATATTGTAA
1 T-T----TTTTA-TG-AATATTGTAA
49613985 TTTTTTGTATGAATATTGTAA
1 -TTTTT-TATGAATATTGTAA
49614006 TTATTTTAT
1 TT-TTTTAT
49614015 AATTAATTTG
Statistics
Matches: 180, Mismatches: 14, Indels: 60
0.71 0.06 0.24
Matches are distributed among these distances:
17 5 0.03
18 3 0.02
19 35 0.19
20 32 0.18
21 46 0.26
22 10 0.06
23 6 0.03
24 11 0.06
25 4 0.02
26 12 0.07
27 16 0.09
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (19 bp):
TTTTTTATGAATATTGTAA
Found at i:49613911 original size:80 final size:85
Alignment explanation
Indices: 49613772--49614009 Score: 231
Period size: 93 Copynumber: 2.8 Consensus size: 85
49613762 ATTCTAAATT
* *
49613772 TTTTGTATGAATATTGTAA-TTTTTTATGAATATTGTAATTATTTTATAATTAA-ATTTGTATTT
1 TTTTGTATGAATATTGTAATTTTTTTATGAATATTGTAATT-TTTTGT-ATGAATA-TTGTATTT
*
49613835 AT-A-GTT-T-TGGAT-TAGT-A
63 ATAATGTTATATGAATATAGTAA
49613852 TTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATATT
1 TTTTGTATGAATATTGTAATTTTTT-TATGAATATTGTAATTTTTTGTATGAATATTGT-AT-TT
* *
49613917 ATAATTTTATATGAATATTGTAA
63 ATAATGTTATATGAATATAGTAA
** *
49613940 TTTTGTATGAATATTGTAATGTCGAGATATATTGTAATATTGTAATTTTTTGTATGAATATTGTA
1 TTTTGTATGAATATTGTAAT-T---TTTTTA-TG-AATATTGTAATTTTTTGTATGAATATTGTA
*
49614005 ATTAT
60 TTTAT
49614010 TTTATAATTA
Statistics
Matches: 132, Mismatches: 9, Indels: 23
0.80 0.05 0.14
Matches are distributed among these distances:
80 27 0.20
81 13 0.10
82 20 0.15
83 1 0.01
84 2 0.02
85 1 0.01
86 4 0.03
87 3 0.02
88 21 0.16
89 1 0.01
91 6 0.05
92 4 0.03
93 29 0.22
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.54
Consensus pattern (85 bp):
TTTTGTATGAATATTGTAATTTTTTTATGAATATTGTAATTTTTTGTATGAATATTGTATTTATA
ATGTTATATGAATATAGTAA
Found at i:49614007 original size:21 final size:21
Alignment explanation
Indices: 49613749--49613959 Score: 154
Period size: 21 Copynumber: 10.0 Consensus size: 21
49613739 TGGATTAGAA
* *
49613749 TTTTGTACGAAATATTCTAAATT
1 TTTTGTATG-AATATTGT-AATT
49613772 TTTTGTATGAATATTGTAA-T
1 TTTTGTATGAATATTGTAATT
49613792 TTTT-TATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* *
49613812 ATTTTATAATTAA-ATTTGT-ATT
1 -TTTTGT-ATGAATA-TTGTAATT
* * * * *
49613834 TATAGTTTTGGAT-TAGT-A--
1 TTTTG-TATGAATATTGTAATT
49613852 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
49613873 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
49613894 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
*
49613919 AATTTTATATGAATATTGTAA--
1 --TTTTGTATGAATATTGTAATT
49613940 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
49613960 GTCGAGATAT
Statistics
Matches: 153, Mismatches: 17, Indels: 39
0.73 0.08 0.19
Matches are distributed among these distances:
17 5 0.03
18 6 0.04
19 33 0.22
20 10 0.07
21 48 0.31
22 14 0.09
23 17 0.11
24 1 0.01
25 2 0.01
26 1 0.01
27 16 0.10
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:49614203 original size:37 final size:37
Alignment explanation
Indices: 49614152--49614232 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
49614142 CATATAAAGT
*
49614152 TTATAAAAAAATTAAATATCATTTTATTAAAAGTTTAA
1 TTAT-AAAAAATTAAAAATCATTTTATTAAAAGTTTAA
49614190 TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
49614227 TTATAA
1 TTATAA
49614233 CTGACTTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 38 0.90
38 4 0.10
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (37 bp):
TTATAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
Found at i:49616329 original size:28 final size:28
Alignment explanation
Indices: 49616292--49616355 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
49616282 TATTTAATGG
49616292 TTTTTTATGTAAATAAAATTATAACGGT
1 TTTTTTATGTAAATAAAATTATAACGGT
* *
49616320 TTTTTTATGTAAATAAAATTATAATGTT
1 TTTTTTATGTAAATAAAATTATAACGGT
49616348 TTTTTTAT
1 TTTTTTAT
49616356 TTTGCAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (28 bp):
TTTTTTATGTAAATAAAATTATAACGGT
Found at i:49619192 original size:11 final size:11
Alignment explanation
Indices: 49619178--49619203 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49619168 AAATGTAAAC
49619178 AAATTACATAA
1 AAATTACATAA
49619189 AAATTACATAA
1 AAATTACATAA
49619200 AAAT
1 AAAT
49619204 GTAAACAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATTACATAA
Found at i:49619344 original size:19 final size:19
Alignment explanation
Indices: 49619315--49619366 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
49619305 AATACCTTAT
49619315 TTTTTTCTTCTTCT-CATTCC
1 TTTTTT-TTCTTCTGC-TTCC
49619335 TTTTTTTTCTTCTGCTTCC
1 TTTTTTTTCTTCTGCTTCC
*
49619354 TTCTTATTTCTTC
1 TT-TTTTTTCTTC
49619367 CGTTTCTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.04, C:0.27, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTTTCTTCTGCTTCC
Found at i:49620273 original size:215 final size:215
Alignment explanation
Indices: 49619884--49620548 Score: 804
Period size: 215 Copynumber: 3.0 Consensus size: 215
49619874 AGCTTCCTAG
* *
49619884 AAGAGCTTGTTCTTTTCCATCTCATTCATAGTTTCTCTTGAGTTTTCAGTT-ATTGAAG-GGGTT
1 AAGACCTTGTTCTTTTCCATCTCATTCATGGTTTCTCTTGAGTTTTCAGTTGA-TGAAGAGGG-T
*
49619947 TCTTTTCTTTCCCAAAGAACTAAAAAATACGATGATGCATAACAAAAAGAAAAAGAGGACTAGTG
64 TCTTTTCTTTTCCAAAGAACTAAAAAATACGATGATGCATAACAAAAAGAAAAAGAGGACTAGTG
* * * * *
49620012 AAAGCCTATTTGGCTAGCAAGGAAAAAAATAACAAGAAACGAAAAAAAGAGGCG-AGGAAGAAAG
129 AAAGCCTGTTTGGCTAGCGAGGAAAAAAACAATAAGAAAAGAAAAAAAGAGG-GAAGGAAGAAA-
* *
49620076 TCCATATTTTCTAGGAAGCCAAAA
192 ACCAAATTTTCTAGGAAGCCAAAA
*
49620100 AAGACCTTGTTCTTTTCCATCTCATTCATGGCTTT-TTTTGAGTTTTCAGTTGATGAAGAGGGTT
1 AAGACCTTGTTCTTTTCCATCTCATTCATGG-TTTCTCTTGAGTTTTCAGTTGATGAAGAGGGTT
* *
49620164 CTTTTCTTTTCCAAAGAACTAAAATATA-GATGATGCATAACAAAAAGAAAAAGAGGACTGGTGA
65 CTTTTCTTTTCCAAAGAACTAAAAAATACGATGATGCATAACAAAAAGAAAAAGAGGACTAGTGA
* * *
49620228 AAGCCTGTTTGGCTAGTGAGGAAAAAAACAATGAGAAAAGAAAAAAAGTGGGAAGGAA-AAAACC
130 AAGCCTGTTTGGCTAGCGAGGAAAAAAACAATAAGAAAAGAAAAAAAGAGGGAAGGAAGAAAA-C
49620292 CAAATTTTCTAGGAAGCCAAACA
194 CAAATTTTCTAGGAAGCCAAA-A
* * *
49620315 ATCTTCCTAGACGAGCATATTCTTTTCCATCTCATTCATGGTTTCTCATGAGTTTTCAGTTGATG
1 A-------AGAC---CTTGTTCTTTTCCATCTCATTCATGGTTTCTCTTGAGTTTTCAGTTGATG
* * *
49620380 AAAAAGGTTTCTTTTC-TTTCCAAAAGAACTAAAAAATATGATGATGCATAACAAAAAGAAAAAG
56 -AAGAGGGTTCTTTTCTTTTCC-AAAGAACTAAAAAATACGATGATGCATAACAAAAAGAAAAAG
* * * * *
49620444 AGGACTCGTGAAAGCTTGTTTGGCTAGCGAGAAAAATATAAGAATAAAAAAAGAAAAAAAATGAG
119 AGGACTAGTGAAAGCCTGTTTGGCTAGCGAGGAAAA-A-AACAATAAGAAAAG-AAAAAAA-GAG
* *
49620509 GGAAAGAAGAAAACTCAGATTTTCTAGGAAGCCAAAA
180 GGAAGGAAGAAAAC-CAAATTTTCTAGGAAGCCAAAA
49620546 AAG
1 AAG
49620549 CTTAAGAGAA
Statistics
Matches: 390, Mismatches: 33, Indels: 44
0.84 0.07 0.09
Matches are distributed among these distances:
214 25 0.06
215 85 0.22
216 77 0.20
217 7 0.02
222 4 0.01
224 5 0.01
225 47 0.12
226 28 0.07
227 57 0.15
228 1 0.00
229 11 0.03
230 7 0.02
231 12 0.03
232 24 0.06
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (215 bp):
AAGACCTTGTTCTTTTCCATCTCATTCATGGTTTCTCTTGAGTTTTCAGTTGATGAAGAGGGTTC
TTTTCTTTTCCAAAGAACTAAAAAATACGATGATGCATAACAAAAAGAAAAAGAGGACTAGTGAA
AGCCTGTTTGGCTAGCGAGGAAAAAAACAATAAGAAAAGAAAAAAAGAGGGAAGGAAGAAAACCA
AATTTTCTAGGAAGCCAAAA
Found at i:49623219 original size:13 final size:13
Alignment explanation
Indices: 49623201--49623228 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49623191 TATAGAGCGT
49623201 TATCGTAAAAACA
1 TATCGTAAAAACA
49623214 TATCGTAAAAACA
1 TATCGTAAAAACA
49623227 TA
1 TA
49623229 CATTTCCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.25
Consensus pattern (13 bp):
TATCGTAAAAACA
Found at i:49624398 original size:82 final size:82
Alignment explanation
Indices: 49624256--49624420 Score: 303
Period size: 82 Copynumber: 2.0 Consensus size: 82
49624246 AACCCAATCG
* *
49624256 AGCTTTTCGATGACCTATAGGAAAAGAAAACAACTAACGTAAGCAATAATGGTTAATAAGTTCGT
1 AGCTTTTCGATGACCTACAGGAAAAGAAAACAACTAACGTAAGCAATAATGCTTAATAAGTTCGT
49624321 ATAAAGGTAACCTAACT
66 ATAAAGGTAACCTAACT
*
49624338 AGCTTTTCGATGACCTACAGGAAAAGAAAACAACTAACGTAAGCAATAATGCTTAGTAAGTTCGT
1 AGCTTTTCGATGACCTACAGGAAAAGAAAACAACTAACGTAAGCAATAATGCTTAATAAGTTCGT
49624403 ATAAAGGTAACCTAACT
66 ATAAAGGTAACCTAACT
49624420 A
1 A
49624421 CTGAACATAT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (82 bp):
AGCTTTTCGATGACCTACAGGAAAAGAAAACAACTAACGTAAGCAATAATGCTTAATAAGTTCGT
ATAAAGGTAACCTAACT
Found at i:49625114 original size:20 final size:20
Alignment explanation
Indices: 49625051--49625142 Score: 87
Period size: 20 Copynumber: 4.6 Consensus size: 20
49625041 GATGCATAAT
*
49625051 AGGGGCACCAAAGTGCAATC
1 AGGGGCACCGAAGTGCAATC
* ** *
49625071 AGGAGCA-CGAATGTGTGATT
1 AGGGGCACCGAA-GTGCAATC
49625091 AGGGGCACCGAAGTGCAATC
1 AGGGGCACCGAAGTGCAATC
* * *
49625111 AGGGGCACAGATGTGCATTC
1 AGGGGCACCGAAGTGCAATC
*
49625131 AGGGGTACCGAA
1 AGGGGCACCGAA
49625143 ATACAAATAG
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
19 3 0.05
20 48 0.87
21 4 0.07
ACGTcount: A:0.30, C:0.20, G:0.35, T:0.15
Consensus pattern (20 bp):
AGGGGCACCGAAGTGCAATC
Found at i:49625125 original size:40 final size:39
Alignment explanation
Indices: 49625050--49625142 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 39
49625040 AGATGCATAA
* *
49625050 TAGGGGCACCAAAGTGCAATCAGGAGCACGAATGTGTGAT
1 TAGGGGCACCGAAGTGCAATCAGGAGCACGAATGTG-CAT
*
49625090 TAGGGGCACCGAAGTGCAATCAGGGGCAC-AGATGTGCAT
1 TAGGGGCACCGAAGTGCAATCAGGAGCACGA-ATGTGCAT
*
49625129 TCAGGGGTACCGAA
1 T-AGGGGCACCGAA
49625143 ATACAAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
39 4 0.09
40 43 0.91
ACGTcount: A:0.30, C:0.19, G:0.34, T:0.16
Consensus pattern (39 bp):
TAGGGGCACCGAAGTGCAATCAGGAGCACGAATGTGCAT
Found at i:49627126 original size:22 final size:22
Alignment explanation
Indices: 49627098--49627140 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
49627088 AAATGCTAAC
49627098 AGAGGCACCGTAGTGCAAATAT
1 AGAGGCACCGTAGTGCAAATAT
49627120 AGAGGCACCGTAGTGCAAATA
1 AGAGGCACCGTAGTGCAAATA
49627141 AAGGAATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.16
Consensus pattern (22 bp):
AGAGGCACCGTAGTGCAAATAT
Found at i:49631189 original size:46 final size:46
Alignment explanation
Indices: 49631114--49631205 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
49631104 TAGGGGTCTG
*
49631114 TCGCGACATTCCTTGGCTATATCATGACACCCAAGGTAGTACATTA
1 TCGCGACATTCCTTGGCTATATCACGACACCCAAGGTAGTACATTA
* *
49631160 TCGCGACATTCCTTGGCTATGTCACGACACCTAAGGTAGTACATTA
1 TCGCGACATTCCTTGGCTATATCACGACACCCAAGGTAGTACATTA
49631206 ATCATAGCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (46 bp):
TCGCGACATTCCTTGGCTATATCACGACACCCAAGGTAGTACATTA
Found at i:49632192 original size:13 final size:13
Alignment explanation
Indices: 49632171--49632200 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
49632161 GAGCAAACAT
*
49632171 AAAACATAACTTA
1 AAAAAATAACTTA
49632184 AAAAAATAACTTA
1 AAAAAATAACTTA
49632197 AAAA
1 AAAA
49632201 CAAAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAAATAACTTA
Found at i:49659318 original size:25 final size:25
Alignment explanation
Indices: 49659275--49659344 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
49659265 TAGGCCCATT
* *
49659275 TTCACAACTCGTGTAAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
*
49659300 TTCACAGCTCATGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
*
49659325 TTCATAGCTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
49659345 ACAGGTACAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:49669661 original size:294 final size:293
Alignment explanation
Indices: 49669140--49669718 Score: 867
Period size: 294 Copynumber: 2.0 Consensus size: 293
49669130 CCTTAATGGA
* * * * *
49669140 CTTAGAAGTTAAGGGTACCTTCTTTTTTCCAAGAAGAACTCCGGTAGCATCTGGCTTAGTCAAAC
1 CTTAAAAGTTAAGGGTACCTTCTTCTTGCCAACAAGAACTCCAGTAGCATCTGGCTTAGTCAAAC
* ** * *
49669205 TCGCATAGAACTTTCGAACTAACTTCTCATCGGGTAATAATCGTGCATCACAAAATAATTCCAAT
66 TCGCATAGAACTCTAAAACTAACTCCTCATCGGGTAATAATCATGCATCACAAAATAATTCCAAT
* * *
49669270 TGAGGGCATCAATTGTGTTTCGAATCGACAAAGACACAACCATCTTATCATTGCTTTCCAAGTTG
131 TGAGGGCATCAATCGTCTTTCAAATCGACAAAGACACAACCATCTTATCATTGCTTTCCAAGTTG
49669335 AAACCTTTTTTCGGCATCATAGGTTAATTCTTAAAGATTGAATCAAACCTCTCTTTCACTTCTTC
196 AAACCTTTTTTCGGCATCATAGGTTAATTCTTAAAGATTGAATCAAACCTCTCTTTCACTTCTTC
49669400 ATCTTA-AACCACAATGGTATTTTCGGCAAAGGT
261 ATC-TAGAACCACAATGGTATTTTCGGCAAAGGT
* * *
49669433 CTTAAAAGTTAGGGGTACCTTCTTCTTGCCAACAAGAACTTCAGTAGCATCTGGCTTAGTCAAAT
1 CTTAAAAGTTAAGGGTACCTTCTTCTTGCCAACAAGAACTCCAGTAGCATCTGGCTTAGTCAAAC
* * * * *
49669498 TGGCATAGAACTCTAAAACTAACTCCTCATTGGGTAATCATTATGCATCGCAAAAATAATTCCAA
66 TCGCATAGAACTCTAAAACTAACTCCTCATCGGGTAATAATCATGCATCAC-AAAATAATTCCAA
* *
49669563 TTGAGGGCATCAATCGTCTTTCAAATC-AGCAAAGGCACAATCATCTTATCATTGCTTTCCAAGT
130 TTGAGGGCATCAATCGTCTTTCAAATCGA-CAAAGACACAACCATCTTATCATTGCTTTCCAAGT
* *
49669627 TGAAACC-TTTTTCTGGCATGATAGGTTGATTCTTAAAGATTGAATCAAACCTCTCTTTCACTTC
194 TGAAACCTTTTTTC-GGCATCATAGGTTAATTCTTAAAGATTGAATCAAACCTCTCTTTCACTTC
*
49669691 TTCATCTAGAATCACAATGGTATTTTCG
258 TTCATCTAGAACCACAATGGTATTTTCG
49669719 ACAGAGGCTT
Statistics
Matches: 256, Mismatches: 26, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
293 107 0.42
294 149 0.58
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (293 bp):
CTTAAAAGTTAAGGGTACCTTCTTCTTGCCAACAAGAACTCCAGTAGCATCTGGCTTAGTCAAAC
TCGCATAGAACTCTAAAACTAACTCCTCATCGGGTAATAATCATGCATCACAAAATAATTCCAAT
TGAGGGCATCAATCGTCTTTCAAATCGACAAAGACACAACCATCTTATCATTGCTTTCCAAGTTG
AAACCTTTTTTCGGCATCATAGGTTAATTCTTAAAGATTGAATCAAACCTCTCTTTCACTTCTTC
ATCTAGAACCACAATGGTATTTTCGGCAAAGGT
Found at i:49673323 original size:41 final size:41
Alignment explanation
Indices: 49673155--49673300 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 41
49673145 TTTAAACAGA
* * * ** * *
49673155 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGCCTGATTCAG
*
49673196 TTCACTGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
49673237 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
49673278 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
49673301 ACGTATAGTC
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 96 0.99
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
Found at i:49673323 original size:82 final size:82
Alignment explanation
Indices: 49673155--49673328 Score: 206
Period size: 82 Copynumber: 2.1 Consensus size: 82
49673145 TTTAAACAGA
* ** * * *
49673155 TTCACTGGCACTTCACCTGATAGGCTTATAGTTTAATTCCGTTCACTGGCACTTAGCCTGCTAGG
1 TTCACTGGCACTTCACCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
* *
49673220 CCTATAGCCTGATTCAG
66 CCTATAGCCTGAATAAG
* * *
49673237 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 TTCACTGGCACTTCA-CCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAG
* * *
49673301 ACGTATAGTCTGAATAAT
65 ACCTATAGCCTGAATAAG
49673319 TTCACTGGCA
1 TTCACTGGCA
49673329 ATAAATCCGA
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 1 0.01
82 75 0.99
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (82 bp):
TTCACTGGCACTTCACCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
CCTATAGCCTGAATAAG
Found at i:49680702 original size:41 final size:41
Alignment explanation
Indices: 49680534--49680679 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 41
49680524 TTTAAACAGA
* * * ** * *
49680534 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGCCTGATTCAG
*
49680575 TTCACTGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
49680616 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
49680657 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
49680680 ACGTATAGTC
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 96 0.99
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
Found at i:49680702 original size:82 final size:82
Alignment explanation
Indices: 49680534--49680707 Score: 206
Period size: 82 Copynumber: 2.1 Consensus size: 82
49680524 TTTAAACAGA
* ** * * *
49680534 TTCACTGGCACTTCACCTGATAGGCTTATAGTTTAATTCCGTTCACTGGCACTTAGCCTGCTAGG
1 TTCACTGGCACTTCACCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
* *
49680599 CCTATAGCCTGATTCAG
66 CCTATAGCCTGAATAAG
* * *
49680616 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 TTCACTGGCACTTCA-CCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAG
* * *
49680680 ACGTATAGTCTGAATAAT
65 ACCTATAGCCTGAATAAG
49680698 TTCACTGGCA
1 TTCACTGGCA
49680708 ATAAATCCGA
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 1 0.01
82 75 0.99
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (82 bp):
TTCACTGGCACTTCACCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
CCTATAGCCTGAATAAG
Found at i:49684240 original size:4 final size:4
Alignment explanation
Indices: 49684231--49684257 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
49684221 AGCAGGGTTA
49684231 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
49684258 AATAAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:49686049 original size:8 final size:8
Alignment explanation
Indices: 49686036--49686064 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
49686026 TTTTAAATGA
49686036 TATTTTAT
1 TATTTTAT
49686044 TATTTTAT
1 TATTTTAT
49686052 TATTTTAT
1 TATTTTAT
49686060 TATTT
1 TATTT
49686065 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:49686841 original size:22 final size:21
Alignment explanation
Indices: 49686799--49686845 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
49686789 ATTAGAGGCT
49686799 TAAATTTATATATTTAAAATAA
1 TAAATTTATATATTTAAAAT-A
**
49686821 TAAA-TTAGTATATTTTCAATA
1 TAAATTTA-TATATTTAAAATA
49686842 TAAA
1 TAAA
49686846 CAAATGGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TAAATTTATATATTTAAAATA
Found at i:49689507 original size:25 final size:25
Alignment explanation
Indices: 49689478--49689531 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
49689468 ATTCTTTTTG
* * *
49689478 GCCTTTGTGGCTTATTCTGTATGTT
1 GCCTTTGTGACGTATTCTGCATGTT
49689503 GCCTTTGTGACGTATTCTGCATGTT
1 GCCTTTGTGACGTATTCTGCATGTT
49689528 GCCT
1 GCCT
49689532 CTATGGCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.09, C:0.20, G:0.24, T:0.46
Consensus pattern (25 bp):
GCCTTTGTGACGTATTCTGCATGTT
Found at i:49695982 original size:26 final size:27
Alignment explanation
Indices: 49695927--49695983 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
49695917 TCGTTATTCA
* *
49695927 CCACAAGGGTCTTTTCTTAAATAGATG
1 CCACAAGGGTCTTTCCTTAAATAGACG
*
49695954 CCACAA-GGTCTATTCCTTAAATTG-CG
1 CCACAAGGGTCT-TTCCTTAAATAGACG
49695980 CCAC
1 CCAC
49695984 GATTCTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (27 bp):
CCACAAGGGTCTTTCCTTAAATAGACG
Found at i:49696107 original size:62 final size:62
Alignment explanation
Indices: 49695997--49696222 Score: 246
Period size: 61 Copynumber: 3.7 Consensus size: 62
49695987 TCTGTATTCT
* * *
49695997 CCACAAAGGCTTTCCTATCCAGAGCTTTTCCACAAAGG--TGTTCTTTTACATT-TGATGCTCG
1 CCACAAAGGCTTTCCTATCCAAAGCTTTTCCACAAAGGCAT-TTCTTTTACATTCAG-TACTCG
* * *
49696058 CCACAAAGGCTTTCTTGTCCAAAGTTTTTTCCACAAAGGCATTTC-TTTACATTCAGTACTCG
1 CCACAAAGGCTTTCCTATCCAAAG-CTTTTCCACAAAGGCATTTCTTTTACATTCAGTACTCG
* * *** * * * *
49696120 CTACAGAGGCTTTCCTATCTGGAGTTTTTCCACAAAGTCA-ATCTTTTACATTCAGTACTTG
1 CCACAAAGGCTTTCCTATCCAAAGCTTTTCCACAAAGGCATTTCTTTTACATTCAGTACTCG
*
49696181 CCACAAATGCTTTCCTATCCAAAGCTTTTCCACAAAGGCATT
1 CCACAAAGGCTTTCCTATCCAAAGCTTTTCCACAAAGGCATT
49696223 CTTAAACAAA
Statistics
Matches: 134, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
60 2 0.01
61 84 0.63
62 43 0.32
63 4 0.03
64 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (62 bp):
CCACAAAGGCTTTCCTATCCAAAGCTTTTCCACAAAGGCATTTCTTTTACATTCAGTACTCG
Found at i:49698476 original size:129 final size:129
Alignment explanation
Indices: 49698242--49698488 Score: 352
Period size: 129 Copynumber: 1.9 Consensus size: 129
49698232 CATTAAGCAG
*
49698242 ATAGCCAAAAACCATTCAAAGTGTCCACTTCCTATAAATACATTCTCAGTCCCCTGATTTCCTTA
1 ATAGCCAAAAACCATTCAAAGTGTCCACTTCCCATAAATACATTCTCAGTCCCCTGATTTCCTTA
* * ** **
49698307 CCTAATCCAGGGTAGGTAAAAGAAATTCTAGTGATGATTAACCTCACTGTTGAGCATTAAATAC
66 CCTAATCCAGGATAGGTAAAAGAAAATCTAGCAAAAATTAACCTCACTGTTGAGCATTAAATAC
* * *
49698371 ATAGCCAAAAACCATTCCAAGTGTCCACTTCCCATAAATATATTCTC-GATCTCCTGATTTCCTT
1 ATAGCCAAAAACCATTCAAAGTGTCCACTTCCCATAAATACATTCTCAG-TCCCCTGATTTCCTT
* * * *
49698435 ACCTAATCTAGGATTGGTAAAAGAAAATCTGGCAAAAATTAACCTCATTGTTGA
65 ACCTAATCCAGGATAGGTAAAAGAAAATCTAGCAAAAATTAACCTCACTGTTGA
49698489 CCAGTCATGA
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
128 1 0.01
129 102 0.99
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (129 bp):
ATAGCCAAAAACCATTCAAAGTGTCCACTTCCCATAAATACATTCTCAGTCCCCTGATTTCCTTA
CCTAATCCAGGATAGGTAAAAGAAAATCTAGCAAAAATTAACCTCACTGTTGAGCATTAAATAC
Found at i:49708134 original size:43 final size:42
Alignment explanation
Indices: 49708029--49708149 Score: 111
Period size: 43 Copynumber: 2.8 Consensus size: 42
49708019 CGTACAATGC
* * * * *
49708029 CAACGTCCCAAACGTGGTCTTACATGCAATCACATATCGATG
1 CAACGTCCCATACGTGGTCTTACACGAAAACACAAATCGATG
* * *
49708071 CCACTGTTCCAGATA-G-GGTCTTACACGTAAACACAAATCGATG
1 CAAC-G-TCC-CATACGTGGTCTTACACGAAAACACAAATCGATG
49708114 TCAACGTCCCATACGTGGTCTTACACGAAAAACACA
1 -CAACGTCCCATACGTGGTCTTACACG-AAAACACA
49708150 TATCAGAGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
41 3 0.05
42 7 0.11
43 36 0.58
44 14 0.23
45 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
CAACGTCCCATACGTGGTCTTACACGAAAACACAAATCGATG
Found at i:49711877 original size:21 final size:21
Alignment explanation
Indices: 49711851--49711921 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
49711841 GATAAAAAAT
49711851 AAAAATCAATAAAAGTTATAA
1 AAAAATCAATAAAAGTTATAA
* * * *
49711872 AAAAATTACA-AAATGTAAAAAA
1 AAAAATCA-ATAAAAGT-TATAA
*
49711894 TAAAAATCAATAAAAGTTATAG
1 -AAAAATCAATAAAAGTTATAA
49711916 AAAAAT
1 AAAAAT
49711922 TACAAAATGC
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
21 18 0.49
22 7 0.19
23 12 0.32
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.23
Consensus pattern (21 bp):
AAAAATCAATAAAAGTTATAA
Found at i:49711900 original size:44 final size:45
Alignment explanation
Indices: 49711836--49711930 Score: 174
Period size: 44 Copynumber: 2.1 Consensus size: 45
49711826 CATGAGGCGA
49711836 AAAATGATAAAAAATAAAAATCAATAAAAGTTATAAAAAAATTAC
1 AAAATGATAAAAAATAAAAATCAATAAAAGTTATAAAAAAATTAC
*
49711881 AAAATG-TAAAAAATAAAAATCAATAAAAGTTATAGAAAAATTAC
1 AAAATGATAAAAAATAAAAATCAATAAAAGTTATAAAAAAATTAC
49711925 AAAATG
1 AAAATG
49711931 CTTCTTTTGG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 43 0.88
45 6 0.12
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.22
Consensus pattern (45 bp):
AAAATGATAAAAAATAAAAATCAATAAAAGTTATAAAAAAATTAC
Found at i:49712089 original size:32 final size:33
Alignment explanation
Indices: 49712025--49712091 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
49712015 AAAATTTCTA
* *
49712025 TTTTTTTCTATATTTCAATATAATTTATAATAT
1 TTTTTTTCTATATTTCAATAAAAATTATAATAT
*
49712058 TTTTTTTCTA-ATTTTTAATAAAAATTA-AATAT
1 TTTTTTTCTATA-TTTCAATAAAAATTATAATAT
49712090 TT
1 TT
49712092 CTTATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 8 0.27
33 22 0.73
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (33 bp):
TTTTTTTCTATATTTCAATAAAAATTATAATAT
Found at i:49712131 original size:30 final size:30
Alignment explanation
Indices: 49712066--49712133 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
49712056 ATTTTTTTTC
*
49712066 TAATTTTTAATAAAAATTAAATATTTCTTA
1 TAATTTTTAATAAAAATTAAATATGTCTTA
* * *
49712096 T-ATTTTTTATTAAAATTTAATATAGT-TTA
1 TAATTTTTAATAAAAATTAAATAT-GTCTTA
49712125 TAATTTTTA
1 TAATTTTTA
49712134 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
29 23 0.74
30 8 0.26
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (30 bp):
TAATTTTTAATAAAAATTAAATATGTCTTA
Found at i:49712376 original size:90 final size:90
Alignment explanation
Indices: 49712247--49712444 Score: 242
Period size: 93 Copynumber: 2.2 Consensus size: 90
49712237 ATGCATTTTA
* * * * *
49712247 CCAATTGAGTG-AAAAAAAAGTAGGGGCTTAATTGC-TTTTTTG-AAAATG-TTTGAGTGTCTTT
1 CCAATTGAGTGAAAAAAAAAATAAGGGCTTAATTACTTTTTTTGAAAAATGTTTTAAG-GCCTTT
* *
49712308 TTAATGCATTTTGACAGTTCAAGTAT
65 TTAATACATTTTGAAAGTTCAAGTAT
*
49712334 CTAATTGAGTGAAAAAACAACAATAAGGGCTTAATTACTTTTTTTTGAAAAATGTTTTAAGGCCT
1 CCAATTGAGTGAAAAAA-AA-AATAAGGGCTTAATTAC-TTTTTTTGAAAAATGTTTTAAGGCCT
* *
49712399 TTTTGATATATTTTGAAAGTTCAAGTAT
63 TTTTAATACATTTTGAAAGTTCAAGTAT
49712427 CCAATTGAGTGAAAAAAA
1 CCAATTGAGTGAAAAAAA
49712445 GAGATTTAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
87 10 0.11
88 5 0.05
89 2 0.02
90 14 0.15
92 8 0.09
93 49 0.53
94 5 0.05
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (90 bp):
CCAATTGAGTGAAAAAAAAAATAAGGGCTTAATTACTTTTTTTGAAAAATGTTTTAAGGCCTTTT
TAATACATTTTGAAAGTTCAAGTAT
Found at i:49737679 original size:16 final size:16
Alignment explanation
Indices: 49737658--49737688 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49737648 TTAAATAACT
*
49737658 AAAATAAATAAACAAG
1 AAAATAAACAAACAAG
49737674 AAAATAAACAAACAA
1 AAAATAAACAAACAA
49737689 CTTAAATCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAATAAACAAACAAG
Found at i:49738369 original size:135 final size:135
Alignment explanation
Indices: 49738155--49738421 Score: 453
Period size: 135 Copynumber: 2.0 Consensus size: 135
49738145 TTGATGTCGA
* * * *
49738155 ATATAGAATGGAGTACTAAATCTCTCGATCGAAATAATGAATAATGTCGCTCACAAAGGTAGATA
1 ATATAGAACGGAGTAATAAATCTCTCAATCGAAATAATGAATAATGTCGCTCACAAAGGCAGATA
* * *
49738220 ATGGAAATAATTCAATATTAGAAAAGAATTTTTGGATAGAAACTGATTCCAAGAGGAAAATCAAA
66 ATGGAAATAATTCAATATTAGAAAAGAATTCTTGAATAGAAACCGATTCCAAGAGGAAAATCAAA
49738285 GATTT
131 GATTT
49738290 ATATAGAACGGAGTAATAAATCTCTCAATCGAAATAATGAATAATGTCGCTCACAAAGGCAGATA
1 ATATAGAACGGAGTAATAAATCTCTCAATCGAAATAATGAATAATGTCGCTCACAAAGGCAGATA
* *
49738355 ATGGAAATACTTCAATATTAGAAAAGAATTCTTGAATTGAAACCGATTCCAAGAGGAAAATCAAA
66 ATGGAAATAATTCAATATTAGAAAAGAATTCTTGAATAGAAACCGATTCCAAGAGGAAAATCAAA
49738420 GA
131 GA
49738422 GTTAATGAAA
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
135 123 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (135 bp):
ATATAGAACGGAGTAATAAATCTCTCAATCGAAATAATGAATAATGTCGCTCACAAAGGCAGATA
ATGGAAATAATTCAATATTAGAAAAGAATTCTTGAATAGAAACCGATTCCAAGAGGAAAATCAAA
GATTT
Found at i:49756796 original size:18 final size:19
Alignment explanation
Indices: 49756773--49756813 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
49756763 GTAGAAATTA
*
49756773 AAAACTACT-AAATTAAAT
1 AAAACTAATGAAATTAAAT
*
49756791 AAAACTAATGAAATTAAGT
1 AAAACTAATGAAATTAAAT
49756810 AAAA
1 AAAA
49756814 TAACCAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAACTAATGAAATTAAAT
Found at i:49759108 original size:35 final size:35
Alignment explanation
Indices: 49759057--49759128 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
49759047 TAAATACCTC
49759057 TAAGAAATAATATCAAGTTAAACAATCAGTGGTTG
1 TAAGAAATAATATCAAGTTAAACAATCAGTGGTTG
* *
49759092 TAAGAAATAATCTCAAGTTAAACGATCAGTGGTTG
1 TAAGAAATAATATCAAGTTAAACAATCAGTGGTTG
49759127 TA
1 TA
49759129 CCTATCTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.29
Consensus pattern (35 bp):
TAAGAAATAATATCAAGTTAAACAATCAGTGGTTG
Found at i:49762915 original size:34 final size:34
Alignment explanation
Indices: 49762872--49762940 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
49762862 CAATAATAAC
49762872 AAACTTAAAAATATATTGAAATCTTGATGTTCTT
1 AAACTTAAAAATATATTGAAATCTTGATGTTCTT
49762906 AAACTTAAAAATATATTGAAATCTTGATGTTCTT
1 AAACTTAAAAATATATTGAAATCTTGATGTTCTT
49762940 A
1 A
49762941 CCTTGTCCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.41
Consensus pattern (34 bp):
AAACTTAAAAATATATTGAAATCTTGATGTTCTT
Found at i:49763759 original size:23 final size:23
Alignment explanation
Indices: 49763728--49763778 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
49763718 ACCTACTTTC
* *
49763728 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
49763751 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
49763774 TTACA
1 TTACA
49763779 CAACCATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:49771623 original size:15 final size:15
Alignment explanation
Indices: 49771603--49771638 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
49771593 AGGTTTTATT
49771603 ATTGCACCCAGGTAA
1 ATTGCACCCAGGTAA
**
49771618 ATTGCATTCAGGTAA
1 ATTGCACCCAGGTAA
49771633 ATTGCA
1 ATTGCA
49771639 TTCACGTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (15 bp):
ATTGCACCCAGGTAA
Found at i:49771639 original size:15 final size:15
Alignment explanation
Indices: 49771611--49771642 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
49771601 TTATTGCACC
49771611 CAGGTAAATTGCATT
1 CAGGTAAATTGCATT
49771626 CAGGTAAATTGCATT
1 CAGGTAAATTGCATT
49771641 CA
1 CA
49771643 CGTTAGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (15 bp):
CAGGTAAATTGCATT
Found at i:49772650 original size:466 final size:466
Alignment explanation
Indices: 49771772--49772680 Score: 1584
Period size: 466 Copynumber: 2.0 Consensus size: 466
49771762 CAACAGTTAC
* * *
49771772 CAAAAGCAGGTAGAGACCATTAAATTGGTCAAAAATTTTTAATTTTTAATTATTACTTTGTGATT
1 CAAAAGCAGGTAGAGACCATTAAATTGGTCAAAAAGTTTTAAGTTTTAATTATTACTTCGTGATT
49771837 TTAGTTTATTTTATTTATGTTTTTGTTAAAGTTTGTTTTCCTTCCTTTTTGCAAAATAATTAAGT
66 TTAGTTTATTTTATTTATGTTTTTGTTAAAGTTTGTTTTCCTTCCTTTTTGCAAAATAATTAAGT
* * * * *
49771902 ACTATTGTTGACGTATTGAAATTTTGCTATCAATGCATTCTATAATTCTGCACTACCATATATAA
131 ACCATTGTCGACGCATTAAAATTTTCCTATCAATGCATTCTATAATTCTGCACTACCATATATAA
* *
49771967 CTCATTAAAATTTTGGGAATTTCAGATTCCATCATTGGATCAAAAATCACTCAGCTGTTTGATCC
196 CTCATTAAAATTTTGGGAAATTCAGATTCCACCATTGGATCAAAAATCACTCAGCTGTTTGATCC
* *
49772032 TTTTGAGTGGGCACAATTTCTATTAGACACAACTATTCTCGCCAGCTTTATATCTCTCCACAAAA
261 TTCTGAGCGGGCACAATTTCTATTAGACACAACTATTCTCGCCAGCTTTATATCTCTCCACAAAA
* * *
49772097 CAACACGCCTCTCCATCTTCCTCTTTTCACTCACTATAAATCCTCTTCCACTGTACCGACTATAA
326 CAACACGCCTCTCCATATTCCTCTTTTCACTCACTATAAATCCTCCTCCACTATACCGACTATAA
*
49772162 CGTATACAACCAACCATTTTTATTTCCTTCTCTTCTCAAGATCATATATTTTCCTTCATTTTTGG
391 CGCATACAACCAACCATTTTTATTTCCTTCTCTTCTCAAGATCATATATTTTCCTTCATTTTTGG
49772227 TCAATAGTGAT
456 TCAATAGTGAT
*
49772238 CAAAAGTAGGTAGAGACCATTAAATTGGTCAAAAAGTTTTAAGTTTTAATTATTACTTCGTGATT
1 CAAAAGCAGGTAGAGACCATTAAATTGGTCAAAAAGTTTTAAGTTTTAATTATTACTTCGTGATT
* *
49772303 TTAGTTTATTTTATTTATGTTTTTGTTAAAGTTTTTTTTCCTTCCTTTTTGCAGAATAATTAAGT
66 TTAGTTTATTTTATTTATGTTTTTGTTAAAGTTTGTTTTCCTTCCTTTTTGCAAAATAATTAAGT
* * *
49772368 ACCATTGTCGACGCATTAAAATTTTCCTATCAATGCATTCTATAATTTTGTACTACCATTTATAA
131 ACCATTGTCGACGCATTAAAATTTTCCTATCAATGCATTCTATAATTCTGCACTACCATATATAA
49772433 CTCATTAAAATTTTGGGAAATTCAGATTCCACCATTGGATCAAAAATCACTCAGCTGTTTGATCC
196 CTCATTAAAATTTTGGGAAATTCAGATTCCACCATTGGATCAAAAATCACTCAGCTGTTTGATCC
* * *
49772498 TTCTGAGCGGGCACAATTTCTATTGGACACAACTATTCTCGCCATCTTTATATCTCTCCATAAAA
261 TTCTGAGCGGGCACAATTTCTATTAGACACAACTATTCTCGCCAGCTTTATATCTCTCCACAAAA
49772563 CAACACGCCTCTCCATATTCCTCTTTTCACTCACTATAAATCCTCCTCCACTATACCGACTATAA
326 CAACACGCCTCTCCATATTCCTCTTTTCACTCACTATAAATCCTCCTCCACTATACCGACTATAA
*
49772628 CGCATACAACCAACCATTTTTATTTCCTTCTCTTCTCAAGATCATATCTTTTC
391 CGCATACAACCAACCATTTTTATTTCCTTCTCTTCTCAAGATCATATATTTTC
49772681 AACTTTAAAC
Statistics
Matches: 417, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
466 417 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (466 bp):
CAAAAGCAGGTAGAGACCATTAAATTGGTCAAAAAGTTTTAAGTTTTAATTATTACTTCGTGATT
TTAGTTTATTTTATTTATGTTTTTGTTAAAGTTTGTTTTCCTTCCTTTTTGCAAAATAATTAAGT
ACCATTGTCGACGCATTAAAATTTTCCTATCAATGCATTCTATAATTCTGCACTACCATATATAA
CTCATTAAAATTTTGGGAAATTCAGATTCCACCATTGGATCAAAAATCACTCAGCTGTTTGATCC
TTCTGAGCGGGCACAATTTCTATTAGACACAACTATTCTCGCCAGCTTTATATCTCTCCACAAAA
CAACACGCCTCTCCATATTCCTCTTTTCACTCACTATAAATCCTCCTCCACTATACCGACTATAA
CGCATACAACCAACCATTTTTATTTCCTTCTCTTCTCAAGATCATATATTTTCCTTCATTTTTGG
TCAATAGTGAT
Found at i:49780435 original size:50 final size:50
Alignment explanation
Indices: 49780318--49780496 Score: 157
Period size: 50 Copynumber: 3.6 Consensus size: 50
49780308 ACATGCCAAA
* * **
49780318 GCCATGTCCCAAAAATGGTCTTACATGGGATGTTTCTTGTAT---TGTCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-GTTT-TCATATCGGTGTCAAT
* * * *
49780367 GCCATATCCCAGATATGGTCTTACATGGGAGTTTTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTTTCATATCGGTGTCAAT
** ** * * *
49780417 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGTCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGAGTTTTCATATCGGTGTCAAT
** *
49780467 GCCATGTCAAAGACATGGTCCTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
49780497 CCTCTCATAA
Statistics
Matches: 104, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
47 4 0.04
48 4 0.04
49 27 0.26
50 69 0.66
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGAGTTTTCATATCGGTGTCAAT
Found at i:49786874 original size:13 final size:13
Alignment explanation
Indices: 49786856--49786880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49786846 CTTAAGTAAA
49786856 CATTAAATAAATT
1 CATTAAATAAATT
49786869 CATTAAATAAAT
1 CATTAAATAAAT
49786881 ATATAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
CATTAAATAAATT
Found at i:49790592 original size:54 final size:53
Alignment explanation
Indices: 49790479--49790592 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 53
49790469 TCGTCCTTTA
* * * *
49790479 TCTTCTTTCCCTACATAATGCCATAGTCCCAGACTAGGTCTTACATTATGTGG
1 TCTTCTTTCCCTACATAATGCCATAGTCCCAAACTAGGTCTTACACTATATAG
* * *
49790532 TATTCTTATCCCTATATGATGCCATAGTCCCAAACTAGGTCTTACACTATATAG
1 TCTTCTT-TCCCTACATAATGCCATAGTCCCAAACTAGGTCTTACACTATATAG
49790586 TCTTCTT
1 TCTTCTT
49790593 GCCATAGCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 6 0.12
54 46 0.88
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (53 bp):
TCTTCTTTCCCTACATAATGCCATAGTCCCAAACTAGGTCTTACACTATATAG
Found at i:49797576 original size:15 final size:16
Alignment explanation
Indices: 49797549--49797578 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49797539 GAGAACAATT
49797549 AATATATATTATATAA
1 AATATATATTATATAA
49797565 AATATA-ATTATATA
1 AATATATATTATATA
49797579 TTAGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:49797820 original size:20 final size:21
Alignment explanation
Indices: 49797784--49797825 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
49797774 AATTGACCCT
49797784 TTTATTTGTCAAATTAA-AAA
1 TTTATTTGTCAAATTAAGAAA
*
49797804 TTTATTTTGTC-ACTTAAGAAA
1 TTTA-TTTGTCAAATTAAGAAA
49797825 T
1 T
49797826 ACTTTCTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (21 bp):
TTTATTTGTCAAATTAAGAAA
Found at i:49802623 original size:45 final size:45
Alignment explanation
Indices: 49802559--49802650 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
49802549 GAGTGAAGTG
* *
49802559 AGAGCATCCACTTCATGTATTCCTACGACTCGTCTTCTTGGCGCT
1 AGAGCATCCACTTCATGTATTCCTACGACTCCTCTTCCTGGCGCT
*
49802604 AGAGCATCCACTTCATGTATTCCTGCGACTCCTCTTCCTGGCGCT
1 AGAGCATCCACTTCATGTATTCCTACGACTCCTCTTCCTGGCGCT
49802649 AG
1 AG
49802651 TTGATTGGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.17, C:0.33, G:0.18, T:0.32
Consensus pattern (45 bp):
AGAGCATCCACTTCATGTATTCCTACGACTCCTCTTCCTGGCGCT
Found at i:49803005 original size:108 final size:108
Alignment explanation
Indices: 49802816--49803024 Score: 400
Period size: 108 Copynumber: 1.9 Consensus size: 108
49802806 TGCAATGCGG
49802816 GATTCCATAATGAGGGCACTTTCATAACAATTCTTTATACCTTTCTCACACCTCATACAAGGACT
1 GATTCCATAATGAGGGCACTTTCATAACAATTCTTTATACCTTTCTCACACCTCATACAAGGACT
49802881 TGTCATCCATCTATTGGAAGGTAGTGATCTCATTCTGCAATGA
66 TGTCATCCATCTATTGGAAGGTAGTGATCTCATTCTGCAATGA
* *
49802924 GATTCCATGATGAGGGCACTTTCGTAACAATTCTTTATACCTTTCTCACACCTCATACAAGGACT
1 GATTCCATAATGAGGGCACTTTCATAACAATTCTTTATACCTTTCTCACACCTCATACAAGGACT
49802989 TGTCATCCATCTATTGGAAGGTAGTGATCTCATTCT
66 TGTCATCCATCTATTGGAAGGTAGTGATCTCATTCT
49803025 ACAACTTAGC
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 99 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (108 bp):
GATTCCATAATGAGGGCACTTTCATAACAATTCTTTATACCTTTCTCACACCTCATACAAGGACT
TGTCATCCATCTATTGGAAGGTAGTGATCTCATTCTGCAATGA
Found at i:49810871 original size:21 final size:23
Alignment explanation
Indices: 49810829--49810871 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
49810819 TAATTAATCA
*
49810829 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
49810852 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
49810872 AAAAAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:49814071 original size:18 final size:18
Alignment explanation
Indices: 49814033--49814082 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
49814023 ATCAAAACTT
49814033 GTTTCTCCAAAGTTTTAAA
1 GTTTCTCCAAA-TTTTAAA
*
49814052 GTTTCTCCAAATTTTTAA
1 GTTTCTCCAAATTTTAAA
*
49814070 GTTT-TCAAAATTT
1 GTTTCTCCAAATTT
49814083 AAGTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.28
18 10 0.34
19 11 0.38
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (18 bp):
GTTTCTCCAAATTTTAAA
Found at i:49814095 original size:14 final size:15
Alignment explanation
Indices: 49814065--49814096 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
49814055 TCTCCAAATT
49814065 TTTAAGTTTTCAAAA
1 TTTAAGTTTTCAAAA
49814080 TTTAAGTTTT-AAAA
1 TTTAAGTTTTCAAAA
49814094 TTT
1 TTT
49814097 TTATTACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTAAGTTTTCAAAA
Found at i:49814334 original size:27 final size:28
Alignment explanation
Indices: 49814282--49814334 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
49814272 GAAATAATTA
* *
49814282 AAATTCATTATGTTAATAATTTAAGTGC
1 AAATTAATTATGTTAATAATTAAAGTGC
*
49814310 AAATTAATTAT-TTTATAATTAAAGT
1 AAATTAATTATGTTAATAATTAAAGT
49814335 ATAAATTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (28 bp):
AAATTAATTATGTTAATAATTAAAGTGC
Found at i:49814340 original size:27 final size:28
Alignment explanation
Indices: 49814282--49814341 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
49814272 GAAATAATTA
* * *
49814282 AAATTCATTATGTTAATAATTTAAGTGC
1 AAATTAATTATGTTAATAATTAAAGTAC
* *
49814310 AAATTAATTAT-TTTATAATTAAAGTAT
1 AAATTAATTATGTTAATAATTAAAGTAC
49814337 AAATT
1 AAATT
49814342 CTGACAGAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (28 bp):
AAATTAATTATGTTAATAATTAAAGTAC
Found at i:49817877 original size:15 final size:15
Alignment explanation
Indices: 49817838--49817894 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
49817828 TCGGGGAAAT
*
49817838 TAAAAT-AAAATTAA
1 TAAAATAAAAATAAA
**
49817852 TAACCTAAAAATTAAA
1 TAAAATAAAAA-TAAA
* *
49817868 TCAAATAAAAATAAC
1 TAAAATAAAAATAAA
49817883 TAAAATAAAAAT
1 TAAAATAAAAAT
49817895 TCGTATCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
14 4 0.12
15 18 0.55
16 11 0.33
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAATAAAAATAAA
Found at i:49831408 original size:41 final size:40
Alignment explanation
Indices: 49831363--49831508 Score: 107
Period size: 40 Copynumber: 3.6 Consensus size: 40
49831353 AGCGGCGCTT
* * *
49831363 TTAGCGGCGTTTGGACAAAAAATGCCACTAACA-ATCGAGCA
1 TTAGCGGCGTTT-GACAAAAAACGCCAC-AAAATATCAAGCA
* * * *
49831404 TTAGCGGCATTTTACGAAAAACGCTACAAAATATCAAGCA
1 TTAGCGGCGTTTGACAAAAAACGCCACAAAATATCAAGCA
** * * * *
49831444 TTAGCGGCGTTACATAAAAAAACGCCGCTAAA-ACCAAGCA
1 TTAGCGGCGTTTGA-CAAAAAACGCCACAAAATATCAAGCA
* * *
49831484 TTAGCAGCGTTTTACAAAAAGCGCC
1 TTAGCGGCGTTTGACAAAAAACGCC
49831509 GCAATAGAGT
Statistics
Matches: 82, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
39 12 0.15
40 47 0.57
41 23 0.28
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGTTTGACAAAAAACGCCACAAAATATCAAGCA
Found at i:49831724 original size:41 final size:40
Alignment explanation
Indices: 49831634--49831729 Score: 102
Period size: 41 Copynumber: 2.4 Consensus size: 40
49831624 ACCGGTATTT
* ** ** *
49831634 TAGCGGCGTTTTTGTGTATGCGCCGCTAATGGTCTTATCTT
1 TAGCGGCGTTTTT-TGTATGCGCCGCAAATAATCCGATCTA
* *
49831675 TAGTGGCGTGTTTTTTTATGCGCCGCAAATAATCCGATCTA
1 TAGCGGCGT-TTTTTGTATGCGCCGCAAATAATCCGATCTA
49831716 TAGCGGCGTTTTTT
1 TAGCGGCGTTTTTT
49831730 ATAAACCGTC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
40 5 0.11
41 36 0.80
42 4 0.09
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.41
Consensus pattern (40 bp):
TAGCGGCGTTTTTTGTATGCGCCGCAAATAATCCGATCTA
Found at i:49831869 original size:41 final size:41
Alignment explanation
Indices: 49831792--49831869 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
49831782 CGAATGTTCC
* ** **
49831792 GGTCTATAGCAGCGTTTGTGTAACAGTGCCGGTAATTCTTT
1 GGTCTATAGCAGCGTTTGTGTAAAAACGCCACTAATTCTTT
*
49831833 GGTCTATAGCGGCGTTTGTGTAAAAACGCCACTAATT
1 GGTCTATAGCAGCGTTTGTGTAAAAACGCCACTAATT
49831870 AGAAAATCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (41 bp):
GGTCTATAGCAGCGTTTGTGTAAAAACGCCACTAATTCTTT
Found at i:49833559 original size:16 final size:16
Alignment explanation
Indices: 49833538--49833568 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49833528 ATTTTTTCTC
49833538 TTCTGAAATCCCTAAG
1 TTCTGAAATCCCTAAG
49833554 TTCTGAAATCCCTAA
1 TTCTGAAATCCCTAA
49833569 CTTCATTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.32
Consensus pattern (16 bp):
TTCTGAAATCCCTAAG
Found at i:49838874 original size:21 final size:21
Alignment explanation
Indices: 49838848--49838898 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
49838838 CTACAACTTA
* *
49838848 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCAGCAGCAAGAG
*
49838869 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCAAGAG
*
49838890 AAGCTGAGG
1 AAGCAGAGG
49838899 TTCAACGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.41, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCAAGAG
Found at i:49838901 original size:87 final size:87
Alignment explanation
Indices: 49838782--49838979 Score: 283
Period size: 87 Copynumber: 2.3 Consensus size: 87
49838772 ACACAACTTA
* * * * *
49838782 AAGCGGAGGCAACATCGAGAGAAGCTGGGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAAC
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAA-ATATGAACAACTCCAGC-AGCAAC
49838845 TTAAAGCAGATGCGGCAGCAAGAG
64 TTAAAGCAGATGCGGCAGCAAGAG
* *
49838869 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAATATGAACAACTCCAGCAGCAGCTT
1 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAATATGAACAACTCCAGCAGCAACTT
49838934 AAAGCAGATGCGGCAGCAAGAG
66 AAAGCAGATGCGGCAGCAAGAG
* *
49838956 AAGCAGAGGCTGCAGCGAGGGAAG
1 AAGCAGAGGCAGCAGCGAGAGAAG
49838980 TAAAGGCTGC
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
86 1 0.01
87 96 0.96
88 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.31, T:0.11
Consensus pattern (87 bp):
AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAATATGAACAACTCCAGCAGCAACTT
AAAGCAGATGCGGCAGCAAGAG
Found at i:49838979 original size:21 final size:21
Alignment explanation
Indices: 49838935--49839004 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
49838925 CAGCAGCTTA
* * * *
49838935 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
49838956 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
49838977 AAGTAAAGGCTGCAACGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
49838998 AAGCAGA
1 AAGCAGA
49839005 ATAGCTTAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.37, C:0.17, G:0.40, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:49839380 original size:43 final size:43
Alignment explanation
Indices: 49839319--49839655 Score: 385
Period size: 43 Copynumber: 7.8 Consensus size: 43
49839309 CTTTTTCTAA
* * *
49839319 AAGCGCCGCTAAAAACCATGAG-CTATAGCGGTGTTTGTTGGTT
1 AAGCGCCGCTAAAGACCATG-GTCTATAGCGGCGTTTGTTGGAT
49839362 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTATGG-T
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGT-TGGAT
* * * *
49839405 CAGCGCCGCTAAAGACCAAGATCTATAGCGGCGTTT-TATGGGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGT-TGGAT
* * * * *
49839448 AAACACCGCTAAAGGCCATGGGCTATAGCGGCGTTT-TATGGGT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGT-TGGAT
* * *
49839491 TAGCGCCGCTAAAGACCATGGTCTATAGCGACGTTTGATGGAT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGAT
* *
49839534 AAGCGCCGCTAAAGACCATGGTCTATAGCGGTGTTTGATGGAT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGAT
* * * *
49839577 AAGCGCCGCTAAAGGCCATGGTCTATAGTGGCGTTTGATGGCT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGAT
** * *
49839620 AAATGCCGCTAAAGACCCTAGTCTATAGCGGCGTTT
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTT
49839656 ATTATAAAAA
Statistics
Matches: 257, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
42 6 0.02
43 248 0.96
44 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (43 bp):
AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTGTTGGAT
Found at i:49839519 original size:25 final size:25
Alignment explanation
Indices: 49839491--49839563 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
49839481 TTTTATGGGT
49839491 TAGCGCCGCTAAAGACCATGGTCTA
1 TAGCGCCGCTAAAGACCATGGTCTA
* ** *
49839516 TAGCGACG-T-TTG---ATGG-ATA
1 TAGCGCCGCTAAAGACCATGGTCTA
49839535 -AGCGCCGCTAAAGACCATGGTCTA
1 TAGCGCCGCTAAAGACCATGGTCTA
49839559 TAGCG
1 TAGCG
49839564 GTGTTTGATG
Statistics
Matches: 33, Mismatches: 8, Indels: 14
0.60 0.15 0.25
Matches are distributed among these distances:
18 6 0.18
19 3 0.09
20 5 0.15
23 5 0.15
24 3 0.09
25 11 0.33
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (25 bp):
TAGCGCCGCTAAAGACCATGGTCTA
Found at i:49840645 original size:17 final size:17
Alignment explanation
Indices: 49840616--49840650 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
49840606 TTTAAACAAT
49840616 AAATGTTAACTTATTTG
1 AAATGTTAACTTATTTG
49840633 AAAT-TTAACCTTATTTG
1 AAATGTTAA-CTTATTTG
49840650 A
1 A
49840651 TTCTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (17 bp):
AAATGTTAACTTATTTG
Found at i:49843535 original size:14 final size:15
Alignment explanation
Indices: 49843516--49843548 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
49843506 ACACAATAAT
*
49843516 AGAAAGAAA-AAGAA
1 AGAAAGAAAGAAAAA
49843530 AGAAAGAAAGAAAAA
1 AGAAAGAAAGAAAAA
49843545 AGAA
1 AGAA
49843549 GGCTCTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAGAAAAA
Found at i:49856048 original size:34 final size:34
Alignment explanation
Indices: 49856005--49856072 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
49855995 TGTAGGCTGA
49856005 TCTAAGGCTCAAATATGGCTATATATATTATATT
1 TCTAAGGCTCAAATATGGCTATATATATTATATT
*
49856039 TCTAAGGCTCGAATATGGCTATATATATTATATT
1 TCTAAGGCTCAAATATGGCTATATATATTATATT
49856073 GAATGATTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (34 bp):
TCTAAGGCTCAAATATGGCTATATATATTATATT
Found at i:49858895 original size:49 final size:49
Alignment explanation
Indices: 49858747--49859293 Score: 961
Period size: 49 Copynumber: 11.4 Consensus size: 49
49858737 GCCCTGTCAC
* *
49858747 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTCATCAC--
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
49858794 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
49858843 ATATAT--ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
* *
49858890 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
49858937 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
49858984 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
49859031 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
49859080 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
* *
49859129 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
49859178 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
49859227 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
49859276 ATATATACACTTTCACAT
1 ATATATACACTTTCACAT
49859294 CACAATTATC
Statistics
Matches: 482, Mismatches: 12, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
47 229 0.48
49 253 0.52
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:49859049 original size:190 final size:190
Alignment explanation
Indices: 49858708--49859293 Score: 1001
Period size: 190 Copynumber: 3.1 Consensus size: 190
49858698 ACTGTACTAA
* * * * * *
49858708 ACTTTTACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
49858773 TCGGCTATTAGGCCTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
66 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
49858838 CACATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
131 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
49858898 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
49858963 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
66 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
49859028 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
131 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
49859088 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* * *
49859153 CATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
64 CATCGGCTATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
49859218 TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
127 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
49859283 C
190 C
49859284 ACTTTCACAT
1 ACTTTCACAT
49859294 CACAATTATC
Statistics
Matches: 377, Mismatches: 13, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
190 219 0.58
192 44 0.12
194 47 0.12
196 67 0.18
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (190 bp):
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
Found at i:49862785 original size:40 final size:40
Alignment explanation
Indices: 49862709--49863181 Score: 667
Period size: 40 Copynumber: 12.1 Consensus size: 40
49862699 CGAATACACG
* * * *
49862709 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * *
49862749 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
49862789 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
49862829 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
** * *
49862869 TCACTAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
49862909 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
49862949 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
49862989 TCACTAGCACGAATGCTCTTCGGG-GTTAG-CCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
49863027 TCACTAGCACGAATGCTCTTC-GGACTTAG-CCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
49863065 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
49863105 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
49863145 TCACTAG--C--ATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
49863180 TC
1 TC
49863182 GTCGAGACCT
Statistics
Matches: 390, Mismatches: 40, Indels: 11
0.88 0.09 0.02
Matches are distributed among these distances:
35 4 0.01
36 25 0.06
37 2 0.01
38 61 0.16
39 12 0.03
40 286 0.73
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:49862922 original size:120 final size:120
Alignment explanation
Indices: 49862709--49863181 Score: 739
Period size: 120 Copynumber: 4.0 Consensus size: 120
49862699 CGAATACACG
* * * * * * *
49862709 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
49862774 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
66 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
49862829 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
49862894 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
66 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
49862949 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
49863014 -TTAGC-CGGATATATCACTAGCACGAATGCTCTTCGG-ACTTAG-CCGGATACA
66 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
* * * *
49863065 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
* * * * *
49863130 CTTAGCCCGGATACATCACTAG--C--ATGCTCTTCGGGACTTAGCCCGGAT-CA
66 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
49863180 TC
1 TC
49863182 GTCGAGACCT
Statistics
Matches: 337, Mismatches: 12, Indels: 13
0.93 0.03 0.04
Matches are distributed among these distances:
114 11 0.03
115 10 0.03
116 77 0.23
117 11 0.03
118 45 0.13
119 5 0.01
120 178 0.53
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
TCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGG
TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
Found at i:49865662 original size:49 final size:47
Alignment explanation
Indices: 49865441--49866034 Score: 1007
Period size: 47 Copynumber: 12.6 Consensus size: 47
49865431 CCCTTCGGGA
* * * * * *
49865441 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49865488 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49865535 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49865582 CTTATCACATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49865627 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49865676 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49865723 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49865770 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49865817 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49865866 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49865913 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49865962 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49866011 CTTATCACATATATACA--TTCACAT
1 CTTATCACATATATACACTTTCACAT
49866035 CACAATTATC
Statistics
Matches: 527, Mismatches: 12, Indels: 18
0.95 0.02 0.03
Matches are distributed among these distances:
45 46 0.09
47 299 0.57
49 182 0.35
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49869541 original size:40 final size:40
Alignment explanation
Indices: 49869497--49869845 Score: 504
Period size: 39 Copynumber: 8.9 Consensus size: 40
49869487 CGGGATTATA
** * *
49869497 ATCACTAGCACGAATGCTCTTCGGGGTTTAGCACGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
* *
49869537 ATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
49869577 ATCACTAGCACGAATGCTCTTC-GGACTTA-CCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
*
49869615 ATCACTAGCACGAATGCTCTTCGGG-GTTAGCCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
*
49869654 ATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
49869693 ATCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
*
49869732 ATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
*
49869772 ATCACACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATAC
1 AT--CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
*
49869814 ATCAC---CA-GCAT-CTCTTC-GGACTTAGCCCGGAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
49869846 CGAGACCTTT
Statistics
Matches: 288, Mismatches: 14, Indels: 20
0.89 0.04 0.06
Matches are distributed among these distances:
34 15 0.05
35 6 0.02
36 3 0.01
37 2 0.01
38 40 0.14
39 100 0.35
40 82 0.28
42 40 0.14
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAC
Found at i:49869939 original size:38 final size:38
Alignment explanation
Indices: 49869897--49869971 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
49869887 GAATTTTAAT
*
49869897 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
49869935 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
49869972 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:49872307 original size:49 final size:49
Alignment explanation
Indices: 49872104--49872705 Score: 971
Period size: 47 Copynumber: 12.6 Consensus size: 49
49872094 CCCTTCGGGA
* * * * * *
49872104 CTTATCACAT-T-TATACACTTTTACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49872151 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49872198 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49872245 CTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49872292 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49872341 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49872388 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49872435 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49872482 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49872531 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49872580 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49872629 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49872678 CTTATCACATATATATACACTTTCACAT
1 CTTATCACATATATATACACTTTCACAT
49872706 CACAATTATC
Statistics
Matches: 523, Mismatches: 24, Indels: 14
0.93 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 269 0.51
49 253 0.48
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49872438 original size:190 final size:190
Alignment explanation
Indices: 49872104--49872705 Score: 1019
Period size: 190 Copynumber: 3.1 Consensus size: 190
49872094 CCCTTCGGGA
* * * * * *
49872104 CTTATCACAT-T-TATACACTTTTACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
49872167 ACTTTCACATTCATCACATCGGCTATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
49872232 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
49872292 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
49872357 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
49872422 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
* *
49872482 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
* * *
49872547 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
49872612 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
127 CACATCGGCCATTAGGCCTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGG
49872677 C
190 C
49872678 CTTATCACATATATATACACTTTCACAT
1 CTTATCACATATATATACACTTTCACAT
49872706 CACAATTATC
Statistics
Matches: 392, Mismatches: 14, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
188 10 0.03
189 1 0.00
190 224 0.57
192 44 0.11
194 54 0.14
196 59 0.15
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49879490 original size:3 final size:3
Alignment explanation
Indices: 49879482--49879507 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49879472 CCAAAAAGGC
49879482 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
49879508 TCCCTCGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:49882085 original size:16 final size:16
Alignment explanation
Indices: 49882064--49882098 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
49882054 ACTCAGCTTT
49882064 AGTATTTAAA-AATGTA
1 AGTATTTAAAGAA-GTA
49882080 AGTATTTAAAGAAGTA
1 AGTATTTAAAGAAGTA
49882096 AGT
1 AGT
49882099 TCGATTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (16 bp):
AGTATTTAAAGAAGTA
Found at i:49890059 original size:20 final size:20
Alignment explanation
Indices: 49890036--49890086 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
49890026 CTTAAGAGCA
49890036 CTTTATTTTTATTAATTTAG
1 CTTTATTTTTATTAATTTAG
* **
49890056 CTTTTTTTTTATTTTTTTAG
1 CTTTATTTTTATTAATTTAG
49890076 -TTTAATTTTTA
1 CTTT-ATTTTTA
49890087 CATTCTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (20 bp):
CTTTATTTTTATTAATTTAG
Found at i:49890085 original size:25 final size:26
Alignment explanation
Indices: 49890037--49890085 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
49890027 TTAAGAGCAC
*
49890037 TTTATTTTTATTAATTTAGCTTTTTT
1 TTTATTTTTATTAATTTAACTTTTTT
*
49890063 TTTATTTTT-TTAGTTTAA-TTTTT
1 TTTATTTTTATTAATTTAACTTTTT
49890086 ACATTCTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 7 0.33
26 9 0.43
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (26 bp):
TTTATTTTTATTAATTTAACTTTTTT
Found at i:49893775 original size:31 final size:32
Alignment explanation
Indices: 49893737--49893796 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
49893727 TATTTAGTTA
49893737 TTATTTTTATATTAT-TT-TCTTTTCTTTTTAT
1 TTATTTTTATATTATCTTAT-TTTTCTTTTTAT
*
49893768 TTATTTTTATTTTATCTTATTTTTCTTTT
1 TTATTTTTATATTATCTTATTTTTCTTTT
49893797 CTTTATTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.54
32 11 0.42
33 1 0.04
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (32 bp):
TTATTTTTATATTATCTTATTTTTCTTTTTAT
Found at i:49893791 original size:11 final size:10
Alignment explanation
Indices: 49893719--49893779 Score: 54
Period size: 10 Copynumber: 5.9 Consensus size: 10
49893709 CCACCTTCCT
*
49893719 TTTTTTTTTA
1 TTTTTATTTA
49893729 TTTAGTTA-TTA
1 TTT--TTATTTA
49893740 TTTTTATATTA
1 TTTTTAT-TTA
*
49893751 TTTTCT-TTTC
1 TTTT-TATTTA
49893761 TTTTTATTTA
1 TTTTTATTTA
49893771 TTTTTATTT
1 TTTTTATTT
49893780 TATCTTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
9 4 0.10
10 21 0.50
11 14 0.33
12 3 0.07
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:49893792 original size:37 final size:38
Alignment explanation
Indices: 49893717--49893800 Score: 118
Period size: 37 Copynumber: 2.2 Consensus size: 38
49893707 CCCCACCTTC
*
49893717 CTTTTTTTTTTATTTAGTTATTATTTTTATATTATTTT
1 CTTTTCTTTTTATTTAGTTATTATTTTTATATTATTTT
* *
49893755 CTTTTCTTTTTATTTA-TTTTTA-TTTTATCTTATTTTT
1 CTTTTCTTTTTATTTAGTTATTATTTTTATATTA-TTTT
49893792 CTTTTCTTT
1 CTTTTCTTT
49893801 ATTGCTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 9 0.21
37 18 0.43
38 15 0.36
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.77
Consensus pattern (38 bp):
CTTTTCTTTTTATTTAGTTATTATTTTTATATTATTTT
Found at i:49893802 original size:15 final size:15
Alignment explanation
Indices: 49893737--49893803 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
49893727 TATTTAGTTA
* *
49893737 TTATTTTTATATTAT
1 TTATTTTTCTTTTAT
49893752 TT-TCTTTTCTTTTTAT
1 TTAT-TTTTC-TTTTAT
*
49893768 TTATTTTTATTTTAT
1 TTATTTTTCTTTTAT
*
49893783 CTTATTTTTCTTTTCT
1 -TTATTTTTCTTTTAT
49893799 TTATT
1 TTATT
49893804 GCTTTTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
14 1 0.02
15 17 0.40
16 24 0.56
17 1 0.02
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTTTCTTTTAT
Found at i:49895525 original size:6 final size:6
Alignment explanation
Indices: 49895505--49895572 Score: 50
Period size: 6 Copynumber: 10.5 Consensus size: 6
49895495 ATATTATTGA
*
49895505 TTTTAG TTTTA- TTTTATT TTTTATT TTTTATT TTTTAT TTTT-T GTTTTAGTT
1 TTTTAT TTTTAT TTTTA-T TTTTA-T TTTTA-T TTTTAT TTTTAT -TTTTA--T
49895557 GTTTTAT TTTTAT TTT
1 -TTTTAT TTTTAT TTT
49895573 ATTAAACATT
Statistics
Matches: 56, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
5 6 0.11
6 23 0.41
7 20 0.36
9 7 0.12
ACGTcount: A:0.13, C:0.00, G:0.06, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:49895528 original size:7 final size:7
Alignment explanation
Indices: 49895516--49895572 Score: 66
Period size: 7 Copynumber: 8.3 Consensus size: 7
49895506 TTTAGTTTTA
49895516 TTTTATT
1 TTTTATT
49895523 TTTTATT
1 TTTTATT
49895530 TTTTATT
1 TTTTATT
49895537 TTTTA-T
1 TTTTATT
*
49895543 TTTT-TG
1 TTTTATT
49895549 TTTTAGTT
1 TTTTA-TT
49895557 GTTTTA-T
1 -TTTTATT
49895564 TTTTATT
1 TTTTATT
49895571 TT
1 TT
49895573 ATTAAACATT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
6 14 0.33
7 23 0.53
8 1 0.02
9 5 0.12
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.82
Consensus pattern (7 bp):
TTTTATT
Found at i:49895561 original size:21 final size:20
Alignment explanation
Indices: 49895505--49895569 Score: 73
Period size: 19 Copynumber: 3.3 Consensus size: 20
49895495 ATATTATTGA
*
49895505 TTTTA-GTTTTATTTTAT-T
1 TTTTATGTTTTATTTTTTAT
*
49895523 TTTTATTTTTTATTTTTTAT
1 TTTTATGTTTTATTTTTTAT
49895543 TTTT-TGTTTTAGTTGTTTTAT
1 TTTTATGTTTTA-TT-TTTTAT
49895564 TTTTAT
1 TTTTAT
49895570 TTTATTAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
18 5 0.13
19 16 0.41
20 7 0.18
21 10 0.26
22 1 0.03
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (20 bp):
TTTTATGTTTTATTTTTTAT
Found at i:49911708 original size:16 final size:17
Alignment explanation
Indices: 49911681--49911712 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
49911671 ATAAGTATTG
49911681 TATTACAACAATTAAAC
1 TATTACAACAATTAAAC
49911698 TATTA-AACAATTAAA
1 TATTACAACAATTAAA
49911713 TAACACAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (17 bp):
TATTACAACAATTAAAC
Found at i:49915433 original size:42 final size:41
Alignment explanation
Indices: 49915384--49915515 Score: 131
Period size: 42 Copynumber: 3.1 Consensus size: 41
49915374 ACTTCCGAGG
*
49915384 TGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTA
1 TGTGATTTCATGTAAGACCATGTCTGGGACA-TGGCATTGTA
* * * * *
49915426 TATGATTTCATATAAGACCCTGTTTGGGACAGTGGCATCGATA
1 TGTGATTTCATGTAAGACCATGTCTGGGACA-TGGCATTG-TA
* * * *
49915469 TGTGATAAT-ATGTAATACCATATCTGGGATATGGCATTGTA
1 TGTGAT-TTCATGTAAGACCATGTCTGGGACATGGCATTGTA
49915510 TGTGAT
1 TGTGAT
49915516 ATATGTGTTT
Statistics
Matches: 72, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
41 8 0.11
42 40 0.56
43 23 0.32
44 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.36
Consensus pattern (41 bp):
TGTGATTTCATGTAAGACCATGTCTGGGACATGGCATTGTA
Found at i:49921918 original size:20 final size:20
Alignment explanation
Indices: 49921893--49921935 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
49921883 TTTCTGGTAC
*
49921893 CACTAAAAACTGGGCTGTTA
1 CACTAAAAAATGGGCTGTTA
*
49921913 CACTAAAAAATGGGTTGTTA
1 CACTAAAAAATGGGCTGTTA
49921933 CAC
1 CAC
49921936 CCCTATCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (20 bp):
CACTAAAAAATGGGCTGTTA
Found at i:49923799 original size:20 final size:18
Alignment explanation
Indices: 49923774--49923822 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
49923764 AGCCATACAC
49923774 TAAAATCAAAGACATTAAAA
1 TAAAATCAAA-AC-TTAAAA
*
49923794 TAAAATTAATAACTTAAAA
1 TAAAATCAA-AACTTAAAA
*
49923813 TTAAATCAAA
1 TAAAATCAAA
49923823 TAAAAATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 13 0.52
20 10 0.40
21 1 0.04
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAATCAAAACTTAAAA
Found at i:49927267 original size:24 final size:25
Alignment explanation
Indices: 49927221--49927267 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
49927211 GTGGACTATT
*
49927221 GTGTTATATTGATAGTGTTTCTGCC
1 GTGTTATATTGAGAGTGTTTCTGCC
*
49927246 GTGTTATATTG-GCGTGTTTCTG
1 GTGTTATATTGAGAGTGTTTCTG
49927268 AATATACCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.13, C:0.11, G:0.28, T:0.49
Consensus pattern (25 bp):
GTGTTATATTGAGAGTGTTTCTGCC
Found at i:49928778 original size:15 final size:15
Alignment explanation
Indices: 49928760--49928800 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
49928750 GGTTTATTTT
*
49928760 TATTTTTATTTTTAC
1 TATTTTTATTTTAAC
49928775 TATTTTTATTTTAAC
1 TATTTTTATTTTAAC
*
49928790 T-TATTTATTTT
1 TATTTTTATTTT
49928801 CATGATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTTATTTTAAC
Found at i:49932510 original size:30 final size:30
Alignment explanation
Indices: 49932472--49932544 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
49932462 ACGGCCTGAG
49932472 ACACGGACGTGTGTCTCAGCCATGTGAGGC
1 ACACGGACGTGTGTCTCAGCCATGTGAGGC
* ***
49932502 ACATGGACGTGTGTCTCAGTTGTGTGAGGC
1 ACACGGACGTGTGTCTCAGCCATGTGAGGC
*
49932532 ACACGGCCGTGTG
1 ACACGGACGTGTG
49932545 ACCCTTGTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.18, C:0.23, G:0.36, T:0.23
Consensus pattern (30 bp):
ACACGGACGTGTGTCTCAGCCATGTGAGGC
Done.