Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 84 of 345
Found at i:27558883 original size:40 final size:40
Alignment explanation
Indices: 27558809--27559030 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
27558799 AACCCAAGTA
* * *
27558809 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
27558848 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
27558888 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
27558928 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
27558968 CCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
27559008 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
27559031 CATTCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 152 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:27567359 original size:40 final size:40
Alignment explanation
Indices: 27567310--27567498 Score: 306
Period size: 40 Copynumber: 4.7 Consensus size: 40
27567300 GCAACTCGCG
* *
27567310 CAAATGCCTTCGGGTCTTAGCCCGGATATAGTCAATAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATCAATAGCA
* * *
27567350 CAAAAGCCTTCGGGACTTAGCCCGGATATAATCACTAGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATCAATAGCA
27567390 CAAATGCCTTCGGGACTTAGCCCGGATATAATCAATAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATCAATAGCA
*
27567430 CAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATCAATAGCA
* *
27567470 TAAATGCCTTCGGGACTTAACCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
27567499 CATTCGAATA
Statistics
Matches: 138, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATCAATAGCA
Found at i:27569906 original size:43 final size:44
Alignment explanation
Indices: 27569798--27569906 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 44
27569788 GCCAACATGC
* *
27569798 CAGACGTGGTCTTACATGT-AATCAAATATCGATGCCACTATCT
1 CAGACATGGTCTTACACGTAAATCAAATATCGATGCCACTATCT
* * * *
27569841 CAGACAGGGTCTTACAC-AAAATCAAATA-CGATGCTGA-TTTC-
1 CAGACATGGTCTTACACGTAAATCAAATATCGATGC-CACTATCT
27569882 CTAGACATGGTCTTACACGTAAATC
1 C-AGACATGGTCTTACACGTAAATC
27569907 TCAAATCAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
41 1 0.02
42 24 0.44
43 29 0.54
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (44 bp):
CAGACATGGTCTTACACGTAAATCAAATATCGATGCCACTATCT
Found at i:27575364 original size:44 final size:43
Alignment explanation
Indices: 27575313--27575440 Score: 120
Period size: 42 Copynumber: 3.0 Consensus size: 43
27575303 GTAAGATCAG
*
27575313 TCTGGGACGTTAGCATCGACTTATGATTTACCTGTAAGACCACA
1 TCTGGGACGTTAGCATCGA-TTATGATTTACATGTAAGACCACA
* * * **
27575357 TCTGGGACGTTGGCATCGTATTA-AATTT-CGTGTAAGACCTTA
1 TCTGGGACGTTAGCATCG-ATTATGATTTACATGTAAGACCACA
* *
27575399 TCTGGGACAGTGA-CATCGATATTTGA-TTACATGTAAGACCAC
1 TCTGGGAC-GTTAGCATCGAT-TATGATTTACATGTAAGACCAC
27575441 GGCTAAGACG
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
41 2 0.03
42 27 0.40
43 17 0.25
44 20 0.30
45 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (43 bp):
TCTGGGACGTTAGCATCGATTATGATTTACATGTAAGACCACA
Found at i:27575404 original size:42 final size:43
Alignment explanation
Indices: 27575297--27575406 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 43
27575287 CGAAATGTGT
*
27575297 TTTCGTGTAAGA--TCAGTCTGGGACGTTAGCATCGACTTATGA
1 TTTCGTGTAAGACCTCA-TCTGGGACGTTAGCATCGACTTATAA
* * *
27575339 TTTACCTGTAAGACCACATCTGGGACGTTGGCATCGTA-TTA-AA
1 TTT-CGTGTAAGACCTCATCTGGGACGTTAGCATCG-ACTTATAA
*
27575382 TTTCGTGTAAGACCTTATCTGGGAC
1 TTTCGTGTAAGACCTCATCTGGGAC
27575407 AGTGACATCG
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
42 22 0.39
43 12 0.21
44 20 0.35
45 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
TTTCGTGTAAGACCTCATCTGGGACGTTAGCATCGACTTATAA
Found at i:27590256 original size:21 final size:21
Alignment explanation
Indices: 27590218--27590257 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27590208 TAGGAATTTG
** *
27590218 ATTTAGGGTTTTTGATTTTTT
1 ATTTAGGGGCTTTAATTTTTT
27590239 ATTTAGGGGCTTTAATTTT
1 ATTTAGGGGCTTTAATTTT
27590258 GAGATAGGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (21 bp):
ATTTAGGGGCTTTAATTTTTT
Found at i:27591291 original size:29 final size:28
Alignment explanation
Indices: 27591230--27591293 Score: 119
Period size: 28 Copynumber: 2.2 Consensus size: 28
27591220 GGTCAAATGT
27591230 GTAAATTTGCAAAAAAAGTGAATTATGG
1 GTAAATTTGCAAAAAAAGTGAATTATGG
27591258 GTAAATTTGCAAAAAAAGTGAATTATGG
1 GTAAATTTGCAAAAAAAGTGAATTATGG
27591286 GCTAAATT
1 G-TAAATT
27591294 GAATAGATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 29 0.83
29 6 0.17
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (28 bp):
GTAAATTTGCAAAAAAAGTGAATTATGG
Found at i:27591669 original size:26 final size:24
Alignment explanation
Indices: 27591640--27591733 Score: 86
Period size: 24 Copynumber: 3.9 Consensus size: 24
27591630 GGACTCACCA
*
27591640 CAGCTTGTATGAGCTTATTGATATAT
1 CAGCTTGTATGAGCTTACT-AT-TAT
* *
27591666 CAGCTTGTAAGAGCTTACTATTCT
1 CAGCTTGTATGAGCTTACTATTAT
* *
27591690 CCGCTTGTATGAGCTTACT-GT-T
1 CAGCTTGTATGAGCTTACTATTAT
*
27591712 CAGCTCGTTAT-AGCTTACTATT
1 CAGCTTG-TATGAGCTTACTATT
27591734 TTAGCTCAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
22 14 0.25
23 5 0.09
24 19 0.33
25 2 0.04
26 17 0.30
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40
Consensus pattern (24 bp):
CAGCTTGTATGAGCTTACTATTAT
Found at i:27591703 original size:24 final size:26
Alignment explanation
Indices: 27591640--27591709 Score: 90
Period size: 24 Copynumber: 2.8 Consensus size: 26
27591630 GGACTCACCA
*
27591640 CAGCTTGTATGAGCTTATTGATATAT
1 CAGCTTGTATGAGCTTACTGATATAT
* *
27591666 CAGCTTGTAAGAGCTTACT-AT-TCT
1 CAGCTTGTATGAGCTTACTGATATAT
*
27591690 CCGCTTGTATGAGCTTACTG
1 CAGCTTGTATGAGCTTACTG
27591710 TTCAGCTCGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
24 19 0.50
25 2 0.05
26 17 0.45
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.39
Consensus pattern (26 bp):
CAGCTTGTATGAGCTTACTGATATAT
Found at i:27591729 original size:22 final size:22
Alignment explanation
Indices: 27591700--27591758 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
27591690 CCGCTTGTAT
**
27591700 GAGCTTACTGTTCAGCTCGTTA
1 GAGCTTACTGTTCAGCTCAATA
* * *
27591722 TAGCTTACTATTTTAGCTCAATA
1 GAGCTTACT-GTTCAGCTCAATA
27591745 GAGCTTACTGTTCA
1 GAGCTTACTGTTCA
27591759 TAGCTCAAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:27603741 original size:15 final size:17
Alignment explanation
Indices: 27603716--27603747 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27603706 ATTCATCTAT
27603716 CACTCAAAA-CCCAAAG
1 CACTCAAAACCCCAAAG
27603732 CACT-AAAACCCCAAAG
1 CACTCAAAACCCCAAAG
27603748 TGCTGAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.50, C:0.38, G:0.06, T:0.06
Consensus pattern (17 bp):
CACTCAAAACCCCAAAG
Found at i:27610261 original size:22 final size:22
Alignment explanation
Indices: 27610197--27610272 Score: 91
Period size: 24 Copynumber: 3.3 Consensus size: 22
27610187 TACCGATATA
27610197 TCAGCTCGTAAGAGCTTACTGTT
1 TCAGCTCGT-AGAGCTTACTGTT
* *
27610220 CTCAGCTTGTATGAGTTTACTGTT
1 -TCAGCTCGTA-GAGCTTACTGTT
27610244 T-AGCTCGTCAGAGCTTACTGTT
1 TCAGCTCGT-AGAGCTTACTGTT
27610266 TCAGCTC
1 TCAGCTC
27610273 AATATAGCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
22 18 0.40
23 8 0.18
24 19 0.42
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.38
Consensus pattern (22 bp):
TCAGCTCGTAGAGCTTACTGTT
Found at i:27613599 original size:20 final size:19
Alignment explanation
Indices: 27613574--27613622 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
27613564 TTATAAAAAC
27613574 ATTCAAAATAATTTTCACAA
1 ATTCAAAATAATTTTCA-AA
* *
27613594 ATTCAATATAATTTTTAAA
1 ATTCAAAATAATTTTCAAA
*
27613613 ATTAAAAATA
1 ATTCAAAATA
27613623 TTTATAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTCAAAATAATTTTCAAA
Found at i:27613651 original size:20 final size:19
Alignment explanation
Indices: 27613611--27613651 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
27613601 ATAATTTTTA
* *
27613611 AAATTAAAAATATTTATAG
1 AAATTAAAAAAATTTAAAG
27613630 AAATTAAAAAAATTCTAAAG
1 AAATTAAAAAAATT-TAAAG
27613650 AA
1 AA
27613652 TATATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (19 bp):
AAATTAAAAAAATTTAAAG
Found at i:27615054 original size:41 final size:41
Alignment explanation
Indices: 27614988--27615067 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
27614978 TACAGGGGTT
*
27614988 TTCACATGGCCTGGAACACGCCCGTGTCTCTAGCCTGTGTCC
1 TTCACATGGCCTGGAACACGCCCGTGTC-CTAGCCCGTGTCC
27615030 TTCACATGGCCAT-G-ACACGCCCGTGTCCTAGCCCGTGT
1 TTCACATGGCC-TGGAACACGCCCGTGTCCTAGCCCGTGT
27615068 GCAAAAACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
40 10 0.28
41 13 0.36
42 12 0.33
43 1 0.03
ACGTcount: A:0.15, C:0.36, G:0.24, T:0.25
Consensus pattern (41 bp):
TTCACATGGCCTGGAACACGCCCGTGTCCTAGCCCGTGTCC
Found at i:27618365 original size:48 final size:48
Alignment explanation
Indices: 27618247--27618727 Score: 548
Period size: 48 Copynumber: 10.0 Consensus size: 48
27618237 AAAGGGCAAG
* * * * *
27618247 ATGCTGATCCCATGTTCCAAACATGGTCTTAGACTAGCTCTCATATATCG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAG--CTCACATATCA
* * *
27618297 GTGCCGATGCCATGTTCCAAACATGGTCTTACTCTAGCTCACATATCG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
* ** **
27618345 AGGCCGATGCCATGCCCCAAACATGGTCTTACACTAGCTTTCATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
* * * * *
27618393 ATACTGATGCCATGTTCCAAACATGGTCTGACACTGGCTCACATATCG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
* * * * * *
27618441 AGGCTGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
** * *
27618489 ATTTCAATGCCATGTTCCAAGCATGGTCTTACACTAGCTCACATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
* * * *
27618537 ATACCGATGCCTTGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
* * * * *
27618585 ATACCGATGCTATGTTCCAAAAATGGTCTTACACTGGCTCACATATCG
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
* * * ** *
27618633 AGGCTGATGCCATGTCCCTGACATGGTCTTACACTAGCTCTCATATCA
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
*
27618681 ATGTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATC
27618728 CCTAGTATCA
Statistics
Matches: 356, Mismatches: 75, Indels: 2
0.82 0.17 0.00
Matches are distributed among these distances:
48 324 0.91
50 32 0.09
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (48 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
Found at i:27618433 original size:96 final size:95
Alignment explanation
Indices: 27618256--27618727 Score: 629
Period size: 96 Copynumber: 4.9 Consensus size: 95
27618246 GATGCTGATC
* * ** *
27618256 CCATGTTCCAAACATGGTCTTAGACTAGCTCTCATATATCGGTGCCGATGCCATGTTCCAAACAT
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTC--ATATCAAT-CTGATGCCATGTTCCAAACAT
*
27618321 GGTCTTACTCTAGCTCACATATCGAGGCCGATG
63 GGTCTTACACTAGCTCACATATCGAGGCCGATG
* *
27618354 CCATGCCCCAAACATGGTCTTACACTAGCTTTCATATCAATACTGATGCCATGTTCCAAACATGG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAT-CTGATGCCATGTTCCAAACATGG
* * * *
27618419 TCTGACACTGGCTCACATATCGAGGCTGATA
65 TCTTACACTAGCTCACATATCGAGGCCGATG
* * * *
27618450 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATTTCAATGCCATGTTCCAAGCATGG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATCT-GATGCCATGTTCCAAACATGG
* **
27618515 TCTTACACTAGCTCACATATCAATACCGATG
65 TCTTACACTAGCTCACATATCGAGGCCGATG
* * * *
27618546 CCTTGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATACCGATGCTATGTTCCAAAAATGG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAT-CTGATGCCATGTTCCAAACATGG
* *
27618611 TCTTACACTGGCTCACATATCGAGGCTGATG
65 TCTTACACTAGCTCACATATCGAGGCCGATG
** *
27618642 CCATGTCCCTGACATGGTCTTACACTAGCTCTCATATCAATGTCGATGCCATGTTCCAAACATGG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATCT-GATGCCATGTTCCAAACATGG
27618707 TCTTACACTAGCTCACATATC
65 TCTTACACTAGCTCACATATC
27618728 CCTAGTATCA
Statistics
Matches: 324, Mismatches: 47, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
95 1 0.00
96 294 0.91
98 29 0.09
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (95 bp):
CCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATCTGATGCCATGTTCCAAACATGGT
CTTACACTAGCTCACATATCGAGGCCGATG
Found at i:27618602 original size:192 final size:192
Alignment explanation
Indices: 27618249--27618727 Score: 733
Period size: 192 Copynumber: 2.5 Consensus size: 192
27618239 AGGGCAAGAT
* * * * ** *
27618249 GCTGATCCCATGTTCCAAACATGGTCTTAGACTAGCTCTCATATATCGGTGCCGATGCCATGTTC
1 GCTGATACCATGTCCCAGACATGGTCTTACACTAGCTCTC--ATATCAATGTCGATGCCATGTTC
* * *
27618314 CAAACATGGTCTTACTCTAGCTCACATATCGAGGCCGATGCCATGCCCCAAACATGGTCTTACAC
64 CAAACATGGTCTTACACTAGCTCACATATCAAGACCGATGCCATGCCCCAAACATGGTCTTACAC
* * *
27618379 TAGCTTTCATATCAATACTGATGCCATGTTCCAAACATGGTCTGACACTGGCTCACATATCGAG
129 TAGCTCTCATATCAATACCGATGCCATGTTCCAAAAATGGTCTGACACTGGCTCACATATCGAG
* *
27618443 GCTGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATTTCAATGCCATGTTCCA
1 GCTGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGTCGATGCCATGTTCCA
* * * *
27618508 AGCATGGTCTTACACTAGCTCACATATCAATACCGATGCCTTGTCCCAAACATGGTCTTACACTA
66 AACATGGTCTTACACTAGCTCACATATCAAGACCGATGCCATGCCCCAAACATGGTCTTACACTA
* *
27618573 GCTCTCATATCAATACCGATGCTATGTTCCAAAAATGGTCTTACACTGGCTCACATATCGAG
131 GCTCTCATATCAATACCGATGCCATGTTCCAAAAATGGTCTGACACTGGCTCACATATCGAG
* *
27618635 GCTGATGCCATGTCCCTGACATGGTCTTACACTAGCTCTCATATCAATGTCGATGCCATGTTCCA
1 GCTGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGTCGATGCCATGTTCCA
27618700 AACATGGTCTTACACTAGCTCACATATC
66 AACATGGTCTTACACTAGCTCACATATC
27618728 CCTAGTATCA
Statistics
Matches: 259, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
192 223 0.86
194 36 0.14
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (192 bp):
GCTGATACCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGTCGATGCCATGTTCCA
AACATGGTCTTACACTAGCTCACATATCAAGACCGATGCCATGCCCCAAACATGGTCTTACACTA
GCTCTCATATCAATACCGATGCCATGTTCCAAAAATGGTCTGACACTGGCTCACATATCGAG
Found at i:27623753 original size:39 final size:40
Alignment explanation
Indices: 27623708--27623875 Score: 108
Period size: 40 Copynumber: 4.2 Consensus size: 40
27623698 CGGGGTTTAG
* *
27623708 CCGGATATAACCACTCA-CA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-AGCATAAAGGCCTTCGGGACTTAAC
* * * *
27623747 CCGGATATGATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
27623787 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
27623827 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
27623868 CCGGATAT
1 CCGGATAT
27623876 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 18 0.17
40 60 0.55
41 27 0.25
42 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:27623858 original size:41 final size:40
Alignment explanation
Indices: 27623731--27623875 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
27623721 CTCACACAAG
* * * *
27623731 GCCTTCGGGTCTTAACCCGGATAT-GATCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAG-TCGCTAGCACAAAT
27623771 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
27623811 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
27623852 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
27623876 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
39 3 0.03
40 58 0.63
41 28 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:27631293 original size:41 final size:40
Alignment explanation
Indices: 27631130--27631310 Score: 197
Period size: 40 Copynumber: 4.5 Consensus size: 40
27631120 AATCAAGCAT
** ** * *
27631130 CTTCGGGGTTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
27631168 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
27631208 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
27631248 CTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
27631289 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
27631311 CATTCGAGTA
Statistics
Matches: 119, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 10 0.08
39 18 0.15
40 61 0.51
41 27 0.23
42 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:27631300 original size:81 final size:79
Alignment explanation
Indices: 27631130--27631310 Score: 211
Period size: 81 Copynumber: 2.3 Consensus size: 79
27631120 AATCAAGCAT
** * * *
27631130 CTTCGGGGTTTAG-CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAACCCGGATATGGTC
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCACAAGGCCTTCGGATCTTAACCCGGATATAGTC
* *
27631194 ACTAGCATAAATGC
66 ACTAGCACAAAAGC
** * ** *
27631208 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGTCCGGATGTAGT
1 CTTCGGGACTTAGCCCGGATATAACCACTAGCAC-AAGGCCTTCGGATCTTAACCCGGATATAGT
*
27631273 CGCTTAGCACAAAAGC
65 CAC-TAGCACAAAAGC
27631289 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
27631311 CATTCGAGTA
Statistics
Matches: 86, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
78 11 0.13
79 17 0.20
80 26 0.30
81 32 0.37
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAACCACTAGCACAAGGCCTTCGGATCTTAACCCGGATATAGTC
ACTAGCACAAAAGC
Found at i:27635561 original size:49 final size:49
Alignment explanation
Indices: 27635401--27635588 Score: 150
Period size: 49 Copynumber: 3.8 Consensus size: 49
27635391 TCAGTATCCA
* * *
27635401 AATATGA-AGAGCCACTGGTAGGGTATATTAGTTGCAAACCAGA-ATGGTAG
1 AATATGATAG-GCCACTGGTAGGGCATGTTAGTTGCTAACCAGATA-GG-AG
* ** ** *
27635451 -ATGT-ACTAGAACACTGGTAGGGCATACTAGTTGCTAACCAGGTAGGAG
1 AATATGA-TAGGCCACTGGTAGGGCATGTTAGTTGCTAACCAGATAGGAG
* * *
27635499 AATATGATAGGCCACTGGTAGGGCATGTTAGTTGCTAACTAGATTGGCG
1 AATATGATAGGCCACTGGTAGGGCATGTTAGTTGCTAACCAGATAGGAG
** * * * *
27635548 TGTATGTTGGGCCACTGGTAGGACATGTTAGTTGTTAACCA
1 AATATGATAGGCCACTGGTAGGGCATGTTAGTTGCTAACCA
27635589 AGTTGATGGC
Statistics
Matches: 110, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
48 3 0.03
49 103 0.94
50 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (49 bp):
AATATGATAGGCCACTGGTAGGGCATGTTAGTTGCTAACCAGATAGGAG
Found at i:27635626 original size:39 final size:38
Alignment explanation
Indices: 27635557--27635631 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
27635547 GTGTATGTTG
* **
27635557 GGCCACTGGTAGGACATGTTAGTTGTTAACCAAGTTGAT
1 GGCCACTAGTAGGACATGTTAGTTACTAACC-AGTTGAT
**
27635596 GGCCACTAGTAGGGTATGTTAGTTACTAACCAGTTG
1 GGCCACTAGTAGGACATGTTAGTTACTAACCAGTTG
27635632 GTGTAAGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 5 0.16
39 26 0.84
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (38 bp):
GGCCACTAGTAGGACATGTTAGTTACTAACCAGTTGAT
Found at i:27635970 original size:48 final size:46
Alignment explanation
Indices: 27635839--27635976 Score: 181
Period size: 44 Copynumber: 3.0 Consensus size: 46
27635829 GAATTATTTA
* *
27635839 AAAAGAGTAAGTTAATATGAATTTGTATGTGATATATGTTATGTATT
1 AAAAGA-TAAGTTAATATGACTCTGTATGTGATATATGTTATGTATT
* *
27635886 -AAAG-TAAGTTAATATGACTCTATACGTGATATATGTTATGTATT
1 AAAAGATAAGTTAATATGACTCTGTATGTGATATATGTTATGTATT
* *
27635930 GAAAAGAATAAGTTAATATGACTCTGTATGTGTTAAATGTTATGTAT
1 -AAAAG-ATAAGTTAATATGACTCTGTATGTGATATATGTTATGTAT
27635977 AATTACTGAC
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
44 36 0.46
46 8 0.10
48 35 0.44
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.41
Consensus pattern (46 bp):
AAAAGATAAGTTAATATGACTCTGTATGTGATATATGTTATGTATT
Found at i:27636276 original size:17 final size:17
Alignment explanation
Indices: 27636254--27636286 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27636244 AAAAAGTATA
27636254 CACCCGATATTAGAGTT
1 CACCCGATATTAGAGTT
*
27636271 CACCCGATGTTAGAGT
1 CACCCGATATTAGAGT
27636287 ACGCCTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (17 bp):
CACCCGATATTAGAGTT
Found at i:27644270 original size:39 final size:39
Alignment explanation
Indices: 27644227--27644459 Score: 358
Period size: 39 Copynumber: 6.0 Consensus size: 39
27644217 ATTATATTAT
* * *
27644227 CAGCACAAAGCCTGCAGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
27644266 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
27644305 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
27644344 CAGCACGAAGCCTGCAGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
27644383 CAGCACGAAGCCTACGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
27644422 TAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
27644460 TCAATGTCTT
Statistics
Matches: 179, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 179 1.00
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:27647746 original size:38 final size:38
Alignment explanation
Indices: 27647702--27647775 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
27647692 AATGAGTATG
27647702 AATAGAGTGGTAGTAAACTTGTATTTTAATACTATTAT
1 AATAGAGTGGTAGTAAACTTGTATTTTAATACTATTAT
27647740 AATAGAGTGGTAGTAAACTTGTATTTTAATACTATT
1 AATAGAGTGGTAGTAAACTTGTATTTTAATACTATT
27647776 GAACACGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.42
Consensus pattern (38 bp):
AATAGAGTGGTAGTAAACTTGTATTTTAATACTATTAT
Found at i:27650068 original size:20 final size:21
Alignment explanation
Indices: 27650044--27650089 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
27650034 AATAATTTTT
*
27650044 AAAAATTC-AAA-ATATTTATA
1 AAAAATTCTAAAGA-ATATATA
27650064 AAAAATTCTAAAGAATATATA
1 AAAAATTCTAAAGAATATATA
27650085 AAAAA
1 AAAAA
27650090 AGTTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 14 0.61
22 1 0.04
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAATTCTAAAGAATATATA
Found at i:27650096 original size:21 final size:22
Alignment explanation
Indices: 27650052--27650100 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
27650042 TTAAAAATTC
* *
27650052 AAAATATTTATAAAAAATTCTA
1 AAAATATATATAAAAAAGTCTA
27650074 AAGAATATATA-AAAAAAGT-TA
1 AA-AATATATATAAAAAAGTCTA
27650095 AAAATA
1 AAAATA
27650101 GTAAAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 9 0.38
23 7 0.29
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
AAAATATATATAAAAAAGTCTA
Found at i:27655165 original size:57 final size:57
Alignment explanation
Indices: 27655051--27655164 Score: 158
Period size: 57 Copynumber: 2.0 Consensus size: 57
27655041 TTTTCAAGTC
* * * *
27655051 ATTTTCATTTTGGAGAAAATCACATTCATTTCTAAATGATTCCATTTCTCTATTTTT
1 ATTTTCATTTTGGAAAAAACCACATTCATTTCCAAATGATTCCATTTCTCCATTTTT
*
27655108 ATTTTCATTTTGGAAAAAACCATATTCATTTCCAAATG-TTCCTTATTTCTCCATTTT
1 ATTTTCATTTTGGAAAAAACCACATTCATTTCCAAATGATTCC--ATTTCTCCATTTT
27655165 ACCATTTCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 4 0.08
57 34 0.68
58 12 0.24
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (57 bp):
ATTTTCATTTTGGAAAAAACCACATTCATTTCCAAATGATTCCATTTCTCCATTTTT
Found at i:27672111 original size:3 final size:3
Alignment explanation
Indices: 27672103--27672127 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27672093 TTTTATTGCA
27672103 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
27672128 GATTTTCGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27675839 original size:6 final size:6
Alignment explanation
Indices: 27675828--27675854 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
27675818 GGGCCCCCAT
27675828 TTACTG TTACTG TTACTG TTACTG TTA
1 TTACTG TTACTG TTACTG TTACTG TTA
27675855 TTGGACTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
TTACTG
Found at i:27687714 original size:52 final size:52
Alignment explanation
Indices: 27687551--27687717 Score: 185
Period size: 52 Copynumber: 3.2 Consensus size: 52
27687541 TCTTACACGG
* *
27687551 ATCACATAACATACCGATGCCATATCCCAGATATGGTCTTATAC-GAAATCACATT
1 ATCACAT--CATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAAAT-ACA-T
* * * * * *
27687606 ATCACATCACACTGATGCCATAGCCCAACTATAGTCTTATACAGGAACT-CAA
1 ATCACATCATACCGATGCCATAGCCCAGCTATGGTCTTATACA-GAAATACAT
**
27687658 ATCACATTGTACCGATGCCATAGCCCAGCTATGGTCTTATACAGAAATACAT
1 ATCACATCATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAAATACAT
27687710 ATCACATC
1 ATCACATC
27687718 TTTTCCGTCA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
51 4 0.04
52 46 0.50
53 31 0.34
55 11 0.12
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (52 bp):
ATCACATCATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAAATACAT
Found at i:27695085 original size:52 final size:52
Alignment explanation
Indices: 27694922--27695088 Score: 178
Period size: 52 Copynumber: 3.2 Consensus size: 52
27694912 TCTTACACGG
* * *
27694922 ATCACATAACATACCGATGCCATATCCCAGATATGGTCTTATACAG-AATCACATT
1 ATCACAT--CATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAAT-ACA-T
* * * *
27694977 ATCAGATCACACCGATGCCATAGCCCAACTATGGTCTTATACGGGAACT-CGA-
1 ATCACATCATACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAAATAC-AT
**
27695029 ATCACATTGTACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATACAT
1 ATCACATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATACAT
27695081 ATCACATC
1 ATCACATC
27695089 TTTTCTGTCA
Statistics
Matches: 93, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
51 6 0.06
52 45 0.48
53 32 0.34
54 2 0.02
55 8 0.09
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (52 bp):
ATCACATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAATACAT
Found at i:27712458 original size:31 final size:31
Alignment explanation
Indices: 27712392--27712458 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
27712382 ATTAAATAGT
* * * *
27712392 TAAATAATTTAATATAATAATAGATGATATT
1 TAAATAATTTAATATAATAATACATAAAATA
27712423 TAAATAATTTAATATAATGAA-ACATAAAATA
1 TAAATAATTTAATATAAT-AATACATAAAATA
27712454 TAAAT
1 TAAAT
27712459 TAATCTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (31 bp):
TAAATAATTTAATATAATAATACATAAAATA
Found at i:27716316 original size:22 final size:23
Alignment explanation
Indices: 27716281--27716348 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 23
27716271 ATATTATGGT
**
27716281 ATGATATGGGATATGATATGATA
1 ATGATATGAAATATGATATGATA
* *
27716304 AT-ATATGAAATATGGTACT-A-C
1 ATGATATGAAATATGATA-TGATA
*
27716325 ATGATATGAAATATGATTTGATA
1 ATGATATGAAATATGATATGATA
27716348 A
1 A
27716349 GGTACGATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
21 3 0.09
22 27 0.79
23 4 0.12
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.35
Consensus pattern (23 bp):
ATGATATGAAATATGATATGATA
Found at i:27723767 original size:16 final size:17
Alignment explanation
Indices: 27723740--27723772 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27723730 GGTCCCTTGA
*
27723740 ATTTATGGTTAACATGG
1 ATTTATGGTTAAAATGG
27723757 ATTTA-GGTTAAAATGG
1 ATTTATGGTTAAAATGG
27723773 TTAGATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.39
Consensus pattern (17 bp):
ATTTATGGTTAAAATGG
Found at i:27727035 original size:26 final size:26
Alignment explanation
Indices: 27726994--27727102 Score: 139
Period size: 26 Copynumber: 4.2 Consensus size: 26
27726984 ATGGTACAAA
**
27726994 ATGATAATGGGCTAGGTAAATGTTCT
1 ATGATAATGGATTAGGTAAATGTTCT
* *
27727020 ATGGTAATGGATTAGGTAAATATT-T
1 ATGATAATGGATTAGGTAAATGTTCT
* *
27727045 CATGATAATGGGTTAGGTAAATGTTCC
1 -ATGATAATGGATTAGGTAAATGTTCT
*
27727072 ATGATAATGGTTTAGGTAAATGTTCT
1 ATGATAATGGATTAGGTAAATGTTCT
27727098 ATGAT
1 ATGAT
27727103 GGGCATTTCA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
25 1 0.01
26 70 0.99
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.38
Consensus pattern (26 bp):
ATGATAATGGATTAGGTAAATGTTCT
Found at i:27727102 original size:52 final size:52
Alignment explanation
Indices: 27726994--27727092 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
27726984 ATGGTACAAA
* *
27726994 ATGATAATGGGCTAGGTAAATGTTCTATGGTAATGGATTAGGTAAATATTTC
1 ATGATAATGGGCTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTTC
* *
27727046 ATGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAAT
1 ATGATAATGGGCTAGGTAAATGTTCCATGATAATGGATTAGGTAAAT
27727093 GTTCTATGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (52 bp):
ATGATAATGGGCTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTTC
Found at i:27729812 original size:29 final size:27
Alignment explanation
Indices: 27729759--27729811 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
27729749 AAATGGGTTT
*
27729759 AAAAAAAAATAAAGATTTTCGAAAAGA
1 AAAAAAAAATAAAGATTTGCGAAAAGA
27729786 AAAAAAAATTATAAAGA-TTGCGAAAA
1 AAAAAAAA--ATAAAGATTTGCGAAAA
27729812 ATGCGATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 8 0.35
29 7 0.30
ACGTcount: A:0.66, C:0.04, G:0.11, T:0.19
Consensus pattern (27 bp):
AAAAAAAAATAAAGATTTGCGAAAAGA
Found at i:27734083 original size:26 final size:26
Alignment explanation
Indices: 27734054--27734161 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
27734044 TGATAGAAAT
*
27734054 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
27734080 TGATAATGGATTAGATAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
27734106 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
27734132 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
27734158 TGAT
1 TGAT
27734162 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:27750626 original size:37 final size:37
Alignment explanation
Indices: 27750553--27750631 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
27750543 TCTTGTCACT
*
27750553 ATGT-ATTTTTTAATTAAAAAATATATTAGATGTAAAA
1 ATGTGATTTTTTAATTAAAAAATATATTAGAAGT-AAA
* *
27750590 ATGTGATTTTTTAA-TAAAAATTATTTTA-AAGATAAA
1 ATGTGATTTTTTAATTAAAAAATATATTAGAAG-TAAA
27750626 ATGTGA
1 ATGTGA
27750632 AATTGATACC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 11 0.30
37 17 0.46
38 9 0.24
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (37 bp):
ATGTGATTTTTTAATTAAAAAATATATTAGAAGTAAA
Found at i:27751284 original size:9 final size:9
Alignment explanation
Indices: 27751270--27751324 Score: 101
Period size: 9 Copynumber: 6.1 Consensus size: 9
27751260 TATAGTTTGA
27751270 TATTCGAAT
1 TATTCGAAT
27751279 TATTCGAAT
1 TATTCGAAT
27751288 TATTCGAAT
1 TATTCGAAT
27751297 TATTCGAAT
1 TATTCGAAT
*
27751306 TATTCGAGT
1 TATTCGAAT
27751315 TATTCGAAT
1 TATTCGAAT
27751324 T
1 T
27751325 CGAAAACTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27754913 original size:47 final size:47
Alignment explanation
Indices: 27754835--27755289 Score: 750
Period size: 47 Copynumber: 9.6 Consensus size: 47
27754825 CCCTTCGGGA
* * * * * *
27754835 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27754882 CCTGTCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27754929 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27754976 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27755025 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27755072 CTTATCACATATATACACTTT-ACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27755118 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27755165 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27755214 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27755261 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
27755290 TATTCAAATA
Statistics
Matches: 385, Mismatches: 16, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
46 45 0.12
47 228 0.59
49 112 0.29
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27755032 original size:96 final size:96
Alignment explanation
Indices: 27754835--27755289 Score: 776
Period size: 96 Copynumber: 4.8 Consensus size: 96
27754825 CCCTTCGGGA
* * * * * * * *
27754835 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
27754898 GCTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
27754929 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
27754994 ACTTTCACATTCATCACATTGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
27755025 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
27755088 ACTTT-ACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
27755118 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
27755183 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
27755214 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
27755279 ACTTTCACATT
66 ACTTTCACATT
27755290 TATTCAAATA
Statistics
Matches: 343, Mismatches: 13, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
93 78 0.23
94 60 0.17
95 13 0.04
96 192 0.56
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27755156 original size:189 final size:190
Alignment explanation
Indices: 27754835--27755289 Score: 786
Period size: 189 Copynumber: 2.4 Consensus size: 190
27754825 CCCTTCGGGA
* * * * * * * * *
27754835 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
27754900 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
27754965 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27755025 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
27755090 TTT-ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
27755154 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27755214 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
27755279 ACTTTCACATT
64 ACTTTCACATT
27755290 TATTCAAATA
Statistics
Matches: 250, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
189 174 0.70
190 58 0.23
191 13 0.05
192 5 0.02
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27773003 original size:21 final size:21
Alignment explanation
Indices: 27772978--27773042 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
27772968 GCCACATAGA
27772978 CGTGTGGATTCTAGGCCAAGC
1 CGTGTGGATTCTAGGCCAAGC
* *
27772999 CGTGT-GA-TCTA---CATGGG
1 CGTGTGGATTCTAGGCCA-AGC
*
27773016 CTTGTGGATTCTAGGCCAAGC
1 CGTGTGGATTCTAGGCCAAGC
27773037 CGTGTG
1 CGTGTG
27773043 ATCCACATGG
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 2 0.06
19 8 0.25
20 2 0.06
21 11 0.34
22 2 0.06
ACGTcount: A:0.17, C:0.22, G:0.34, T:0.28
Consensus pattern (21 bp):
CGTGTGGATTCTAGGCCAAGC
Found at i:27773023 original size:38 final size:38
Alignment explanation
Indices: 27772980--27773054 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
27772970 CACATAGACG
*
27772980 TGTGGATTCTAGGCCAAGCCGTGTGATCTACATGGGCT
1 TGTGGATTCTAGGCCAAGCCGTGTGATCCACATGGGCT
27773018 TGTGGATTCTAGGCCAAGCCGTGTGATCCACATGGGC
1 TGTGGATTCTAGGCCAAGCCGTGTGATCCACATGGGC
27773055 AAGGCCAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.27
Consensus pattern (38 bp):
TGTGGATTCTAGGCCAAGCCGTGTGATCCACATGGGCT
Found at i:27773067 original size:38 final size:38
Alignment explanation
Indices: 27772987--27773067 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
27772977 ACGTGTGGAT
* ** * *
27772987 TCTAGGCCAAGCCGTGTGATCTACATGGGCTTGTGGAT
1 TCTAGGCCAAGCCGTGTGATCCACATGGGCAAGTGCAA
27773025 TCTAGGCCAAGCCGTGTGATCCACATGGGCAAG-GCCAA
1 TCTAGGCCAAGCCGTGTGATCCACATGGGCAAGTG-CAA
27773063 TCTAG
1 TCTAG
27773068 ACGTGTGGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (38 bp):
TCTAGGCCAAGCCGTGTGATCCACATGGGCAAGTGCAA
Found at i:27779352 original size:47 final size:46
Alignment explanation
Indices: 27779239--27779505 Score: 170
Period size: 47 Copynumber: 5.7 Consensus size: 46
27779229 TTTGTGTGTG
* * * * *
27779239 AGCTAGAGTAAGA-CATGTTTGGGACATGCATCGGC-CAGATTATGAG
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATCGACTC-GA-GATGAA
* * * *
27779285 ATCCAGTGTAAGACCGTGTCTGGGACATGGCATCGACATTGAGATGAA
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGAC-TCGAGATGAA
* * * *
27779333 AGCTAGTGTAAGA-CATGTCTGGGACATGCACCGGCCTCGAGACGTA
1 AGCTAGTGTAAGACCATGTCTGGGACATGCATC-GACTCGAGATGAA
* * * * * *
27779379 AGCCT-GTGTAA-AACATGTCTTGGACATGCATCGGCTACAAAATGAT
1 AG-CTAGTGTAAGACCATGTCTGGGACATGCATCGACT-CGAGATGAA
* * *
27779425 AG-TCAGTGTAAGACCCTGTCTGGGACATTGCATCGACTTGAGAT-ATG
1 AGCT-AGTGTAAGACCATGTCTGGGACA-TGCATCGACTCGAGATGA-A
* *
27779472 AGCCAGTGTAAGACCATGTTTGGGACATAGCATC
1 AGCTAGTGTAAGACCATGTCTGGGACAT-GCATC
27779506 TATACCTTAC
Statistics
Matches: 170, Mismatches: 36, Indels: 29
0.72 0.15 0.12
Matches are distributed among these distances:
44 1 0.01
45 4 0.02
46 60 0.35
47 72 0.42
48 31 0.18
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGATGAA
Found at i:27789867 original size:16 final size:17
Alignment explanation
Indices: 27789826--27789867 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
27789816 TCACTAGTGC
*
27789826 TTTGGCAAATTGGGGAG
1 TTTGGCAAATGGGGGAG
**
27789843 TTTTCCAAA-GGGGGAG
1 TTTGGCAAATGGGGGAG
27789859 TTTGGCAAA
1 TTTGGCAAA
27789868 AGAGTATTTG
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.26, C:0.10, G:0.36, T:0.29
Consensus pattern (17 bp):
TTTGGCAAATGGGGGAG
Found at i:27792288 original size:31 final size:31
Alignment explanation
Indices: 27792250--27792310 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
27792240 AAATATTAGG
*
27792250 AAAACTTTATTTTTATTAATTTAGCCATTTA
1 AAAACTTTATTTCTATTAATTTAGCCATTTA
27792281 AAAACTTTATTTCTATTAATTTAGCCATTT
1 AAAACTTTATTTCTATTAATTTAGCCATTT
27792311 TAATTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.51
Consensus pattern (31 bp):
AAAACTTTATTTCTATTAATTTAGCCATTTA
Found at i:27796744 original size:54 final size:54
Alignment explanation
Indices: 27796559--27796752 Score: 219
Period size: 55 Copynumber: 3.6 Consensus size: 54
27796549 AACTTACTAT
* * * * * *
27796559 TGCCATGTCTTGACATGGTCTTACGTGGTATCTTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCTTTGCCTTATAGAACTAATCAA
** * * *
27796612 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAGTAACCAATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCTTTGCCTTATAG-AACTAATCAA
* * * * *
27796667 TACCATGTCTTGACATGGTCTTACATGATTTCTTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCTTTGCCTTATAGAACTAATCAA
*
27796721 TGCCATGCCCTGGCATGGTCTTACATGATATC
1 TGCCATGCCTTGGCATGGTCTTACATGATATC
27796753 CTTATCTTAT
Statistics
Matches: 115, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 36 0.31
54 36 0.31
55 43 0.37
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGGCATGGTCTTACATGATATCTTTGCCTTATAGAACTAATCAA
Found at i:27796762 original size:54 final size:54
Alignment explanation
Indices: 27796559--27796762 Score: 196
Period size: 54 Copynumber: 3.8 Consensus size: 54
27796549 AACTTACTAT
* * * * * * * *
27796559 TGCCATGTCTTGACATGGTCTTACGTGGTATCTTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTAATCAA
** *
27796612 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTACCTTATAGTAACCAATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCC-TTACCTTATAG-AACTAATCAA
* * * * * * *
27796667 TACCATGTCTTGACATGGTCTTACATGATTTCTTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTAATCAA
* *
27796721 TGCCATGCCCTGGCATGGTCTTACATGATATCCTTATCTTAT
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTAT
27796763 CAAATGTCAT
Statistics
Matches: 120, Mismatches: 27, Indels: 7
0.78 0.18 0.05
Matches are distributed among these distances:
52 1 0.01
53 34 0.28
54 43 0.36
55 41 0.34
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGGCATGGTCTTACATGATATCCTTACCTTATAGAACTAATCAA
Found at i:27796788 original size:47 final size:47
Alignment explanation
Indices: 27796734--27796855 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
27796724 CATGCCCTGG
* * * *
27796734 CATGGTCTTACATGATATCCTTATCTTATCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
27796781 CATGGTCTTACATGGCATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
27796828 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
27796856 GTGCCAATGT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:27797640 original size:30 final size:29
Alignment explanation
Indices: 27797604--27797660 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
27797594 TCCCTAACTC
*
27797604 AAACTTTTTCAAAATTACAATTTTGCCCTT
1 AAAC-TTTACAAAATTACAATTTTGCCCTT
*
27797634 AAACTTTACAGAATTACAATTTTGCCC
1 AAACTTTACAAAATTACAATTTTGCCC
27797661 CTAGGCTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (29 bp):
AAACTTTACAAAATTACAATTTTGCCCTT
Found at i:27803132 original size:16 final size:16
Alignment explanation
Indices: 27803111--27803142 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27803101 AATACTTCAT
27803111 AATCTCAATTACTTAC
1 AATCTCAATTACTTAC
27803127 AATCTCAATTACTTAC
1 AATCTCAATTACTTAC
27803143 CATTGCCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (16 bp):
AATCTCAATTACTTAC
Found at i:27803330 original size:54 final size:54
Alignment explanation
Indices: 27803159--27803342 Score: 201
Period size: 54 Copynumber: 3.4 Consensus size: 54
27803149 CTTGTATTGA
* * * * *
27803159 CATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTAATCAATGCCATGACTTGG
** * * * * * *
27803212 CATGGTCTTACATGGGA-CCTTTACCTTATAATAACCAATCAATACCATGTCTTGA
1 CATGGTCTTACATGATATCC-TTGCCTTAT-AGAACTAATCAATGCCATGACTTGG
* *
27803267 CATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGACTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTAATCAATGCCATGACTTGG
27803321 CATGGTCTTACATGATATCCTT
1 CATGGTCTTACATGATATCCTT
27803343 ATCTTACCAA
Statistics
Matches: 106, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
52 2 0.02
53 23 0.22
54 40 0.38
55 39 0.37
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (54 bp):
CATGGTCTTACATGATATCCTTGCCTTATAGAACTAATCAATGCCATGACTTGG
Found at i:27803376 original size:47 final size:46
Alignment explanation
Indices: 27803321--27803442 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 46
27803311 CATGACTTGG
*
27803321 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATG-TATCCTTGTCTTACCAAATGCCATGTTCCAAA
27803368 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACAT-GTATCCTTGTCTTACCAAATGCCATGTTCCAAA
27803415 CATGGTCTTACATTGTATCCTTGTCTTA
1 CATGGTCTTACA-TGTATCCTTGTCTTA
27803443 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
47 70 0.97
48 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (46 bp):
CATGGTCTTACATGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:27803476 original size:142 final size:140
Alignment explanation
Indices: 27803323--27803576 Score: 316
Period size: 142 Copynumber: 1.8 Consensus size: 140
27803313 TGACTTGGCA
* * *
27803323 TGGTCTTACAT-GATATCCTT-ATC-TTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTA
1 TGGTCTTACATGGA-ATCCTTAATCAATACC-AATGCCATG-TCCAAACATGGTCTTACACGGGA
* *
27803385 TCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATTGTATCCTTGTCTTAGTGCCAA
63 TCCTTGCCTTACC-AATGCCATG-TCCAAACATGGTCTTACATGGTATCCTTGTCTTAGTGCCAA
27803450 TGCCACATCTTGATG
126 TGCCACATCTTGATG
* * * ***
27803465 TGGTCTTACATGGAGTCCTTAATCAATGCCGATGCCATGTCTTGACATGGTCTTACACGGGATCC
1 TGGTCTTACATGGAATCCTTAATCAATACCAATGCCATGTCCAAACATGGTCTTACACGGGATCC
***
27803530 TTGCCTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
66 TTGCCTTACCAATGCCATGTCCAAACATGGTCTTACATGGTATCCTT
27803577 AACCGTCAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
140 24 0.25
141 9 0.09
142 46 0.48
143 13 0.14
144 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (140 bp):
TGGTCTTACATGGAATCCTTAATCAATACCAATGCCATGTCCAAACATGGTCTTACACGGGATCC
TTGCCTTACCAATGCCATGTCCAAACATGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGCCA
CATCTTGATG
Found at i:27812575 original size:47 final size:45
Alignment explanation
Indices: 27812471--27812686 Score: 217
Period size: 47 Copynumber: 4.7 Consensus size: 45
27812461 TATGTTTGCT
*
27812471 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTT-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-CATCTCTTGAGGCC
* * * *
27812515 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCATCTCT-T-GAGGCC
* * *
27812562 GATGCATGTCCCAGACATGTCTTACACTAGCCCT-TGTTTGGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCATCT-CTT-GAGGCC
*
27812608 GATGCCATGTCCCAGACATGGTCTTACACTAG-C-TCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCCATCTC-T--TGAGGCC
*
27812656 GAAGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
27812687 GCACAAATCA
Statistics
Matches: 143, Mismatches: 17, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
43 5 0.03
44 29 0.20
46 25 0.17
47 64 0.45
48 19 0.13
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCATCTCTTGAGGCC
Found at i:27812672 original size:94 final size:92
Alignment explanation
Indices: 27812419--27812686 Score: 303
Period size: 94 Copynumber: 2.9 Consensus size: 92
27812409 GGATAAATTA
* * * *
27812419 CCGATGCTATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGTTTGCTGATGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATG-TGGCCGATGCATGTCCCA
27812484 GACATGTCTTACACTAGCACAACTCTTAG
64 GACATGTCTTACACTAGCACAACTCTTAG
* * * *
27812513 CCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-T-GTCGAGGCCGATGCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAAT-GTGGCCGATGCATGTCCC
* ***
27812574 AGACATGTCTTACACTAGCCCTTGT-TTGGATG
63 AGACATGTCTTACACTAGCACAACTCTT--A-G
* *
27812606 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGAAGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGA
27812671 CATGTCTTACACTAGC
66 CATGTCTTACACTAGC
27812687 GCACAAATCA
Statistics
Matches: 146, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
90 2 0.01
91 36 0.25
92 14 0.10
93 23 0.16
94 58 0.40
95 13 0.09
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (92 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCACAACTCTTAG
Found at i:27816026 original size:45 final size:45
Alignment explanation
Indices: 27815926--27816036 Score: 136
Period size: 45 Copynumber: 2.5 Consensus size: 45
27815916 AACGGTAGCA
* *
27815926 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAATAACAGTAACAGTATTCAACACACAAAGTGCTAAATCT
* * * *
27815971 GTAACTATAACGGTAATAGTATTCGACACACAAAGTG-TCAAATC-
1 GTAACAATAACAGTAACAGTATTCAACACACAAAGTGCT-AAATCT
27816015 GATAACAATAACAGTAACAGTA
1 G-TAACAATAACAGTAACAGTA
27816037 ACAGTAGTCG
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
44 2 0.04
45 53 0.96
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (45 bp):
GTAACAATAACAGTAACAGTATTCAACACACAAAGTGCTAAATCT
Found at i:27817307 original size:25 final size:24
Alignment explanation
Indices: 27817253--27817307 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
27817243 TCAAAAATCT
*
27817253 AATAATTTAATTATTTAATTAATA
1 AATAATTTAATTAATTAATTAATA
* *
27817277 ATATAATTTAATATAATTATTTTATA
1 A-ATAATTTAAT-TAATTAATTAATA
27817303 AATAA
1 AATAA
27817308 ATTATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 14 0.54
26 11 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AATAATTTAATTAATTAATTAATA
Found at i:27817312 original size:16 final size:17
Alignment explanation
Indices: 27817286--27817319 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
27817276 AATATAATTT
27817286 AATATAATTATTTTATA
1 AATATAATTATTTTATA
27817303 AATA-AATTATTTTATA
1 AATATAATTATTTTATA
27817319 A
1 A
27817320 CAAGTGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATAATTATTTTATA
Found at i:27817543 original size:12 final size:12
Alignment explanation
Indices: 27817528--27817552 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27817518 TTTAATTTAT
27817528 TTAATAATAATA
1 TTAATAATAATA
27817540 TTAATAATAATA
1 TTAATAATAATA
27817552 T
1 T
27817553 AAAACCATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAATAATAATA
Found at i:27817586 original size:20 final size:20
Alignment explanation
Indices: 27817563--27817600 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27817553 AAAACCATCA
27817563 CAATTA-ATAATTATAATAAT
1 CAATTATATAA-TATAATAAT
27817583 CAATTATATAATATAATA
1 CAATTATATAATATAATA
27817601 TATGTAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
CAATTATATAATATAATAAT
Found at i:27818713 original size:9 final size:9
Alignment explanation
Indices: 27818699--27818724 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27818689 CAAAAATCTA
27818699 AGAGAAGTT
1 AGAGAAGTT
27818708 AGAGAAGTT
1 AGAGAAGTT
27818717 AGAGAAGT
1 AGAGAAGT
27818725 AAAGCAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.19
Consensus pattern (9 bp):
AGAGAAGTT
Found at i:27820333 original size:43 final size:43
Alignment explanation
Indices: 27820286--27820420 Score: 173
Period size: 43 Copynumber: 3.2 Consensus size: 43
27820276 CCAGATATGA
* * * ** *
27820286 TCTTACATGTTATCAAATATCGATGCCATTGTCCCAGCCAGGG
1 TCTTACATGTAATCATATATCGATGCCAATGTCCCAAACATGG
* *
27820329 TCTTACACGAAATCATATA-CGATGCCAATGTCCCAAACATGG
1 TCTTACATGTAATCATATATCGATGCCAATGTCCCAAACATGG
* *
27820371 TCTTACATGTAATCTTAGATCGATGCCAATGTCCCAAACATGG
1 TCTTACATGTAATCATATATCGATGCCAATGTCCCAAACATGG
27820414 TCTTACA
1 TCTTACA
27820421 CCATATCACA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 34 0.43
43 45 0.57
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
TCTTACATGTAATCATATATCGATGCCAATGTCCCAAACATGG
Found at i:27820352 original size:42 final size:42
Alignment explanation
Indices: 27820302--27820421 Score: 152
Period size: 42 Copynumber: 2.9 Consensus size: 42
27820292 ATGTTATCAA
* ** *
27820302 ATAT-CGATGCCATTGTCCCAGCCAGGGTCTTACACGAAATC
1 ATATACGATGCCAATGTCCCAAACATGGTCTTACACGAAATC
* *
27820343 ATATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATC
1 ATATACGATGCCAATGTCCCAAACATGGTCTTACACGAAATC
* *
27820385 TTAGATCGATGCCAATGTCCCAAACATGGTCTTACAC
1 ATATA-CGATGCCAATGTCCCAAACATGGTCTTACAC
27820422 CATATCACAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 4 0.06
42 34 0.50
43 30 0.44
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (42 bp):
ATATACGATGCCAATGTCCCAAACATGGTCTTACACGAAATC
Found at i:27826799 original size:24 final size:25
Alignment explanation
Indices: 27826740--27826827 Score: 76
Period size: 24 Copynumber: 3.6 Consensus size: 25
27826730 GCATCCCTGA
27826740 AACAATGGAAAGGA-T-GAAAAGGAT
1 AACAATGGAAA-GACTAGAAAAGGAT
* **
27826764 AATAATAAAAAGACTAGAAAA-GAT
1 AACAATGGAAAGACTAGAAAAGGAT
* *
27826788 AACAATGGAAAG-GTTGAAAAGGAT
1 AACAATGGAAAGACTAGAAAAGGAT
* *
27826812 AGCAATGGAATGACTA
1 AACAATGGAAAGACTA
27826828 TTATATCAAT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
23 8 0.17
24 34 0.71
25 6 0.12
ACGTcount: A:0.55, C:0.06, G:0.24, T:0.16
Consensus pattern (25 bp):
AACAATGGAAAGACTAGAAAAGGAT
Found at i:27830064 original size:24 final size:25
Alignment explanation
Indices: 27830006--27830065 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
27829996 AGCCTCCTGT
27830006 TGTACCACCTATTGCACCTCCTACA
1 TGTACCACCTATTGCACCTCCTACA
** *
27830031 -ACACCACCTATTGTACCTCCTA-A
1 TGTACCACCTATTGCACCTCCTACA
*
27830054 TGTACCCCCTAT
1 TGTACCACCTAT
27830066 GCTCCACCTC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.25, C:0.40, G:0.07, T:0.28
Consensus pattern (25 bp):
TGTACCACCTATTGCACCTCCTACA
Found at i:27832993 original size:42 final size:42
Alignment explanation
Indices: 27832872--27832993 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
27832862 TACCGTACCA
* *
27832872 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCGTCTCG
1 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCATATCG
* * ** *
27832914 ATGCCAATAGCACAGCTATAGTCTTACATG-AAGTCTCATATCG
1 ATGCC-ATATCCCAAATATGGTCTTACATGTAA-TCTCATATCG
*
27832957 ATGCCATATCCCAAATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCA
27832994 GTAATCCTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAAATATGGTCTTACATGTAATCTCATATCG
Found at i:27833825 original size:11 final size:11
Alignment explanation
Indices: 27833809--27833861 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
27833799 TAGAAAAGTC
27833809 TTATTTTATTT
1 TTATTTTATTT
*
27833820 TTATTTT-TAT
1 TTATTTTATTT
27833830 TTACTTTGT-TTT
1 TTA-TTT-TATTT
27833842 TTATTTTATTT
1 TTATTTTATTT
*
27833853 TGATTTTAT
1 TTATTTTAT
27833862 GTTAAATTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 6 0.17
11 24 0.67
12 6 0.17
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:27842772 original size:43 final size:43
Alignment explanation
Indices: 27842725--27842809 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
27842715 CGGCATTACG
*
27842725 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAAA
*
27842768 CCTGCTAGGCACGAAGGCTCGAATACACATCACCGACACGAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
27842810 GCCTATAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.34, G:0.22, T:0.11
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAAA
Found at i:27843483 original size:46 final size:47
Alignment explanation
Indices: 27843431--27843639 Score: 266
Period size: 46 Copynumber: 4.6 Consensus size: 47
27843421 TCCAATAGTG
*
27843431 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTTCATGTCATGTTGCCATGGTA
* * *
27843477 TCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTTCATGTCATGTTGCCATGGTA
* * * **
27843523 TCTTTCAACCATGATCTTATTTA-TTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTTCATGTCATGTTGCCATGGTA
* * *
27843569 TCTTTCAACCATGGTCTTACAC-GTTTCATATCATG-TGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTTCATGTCATGTTGCCATGGTA
*
27843614 TCTTTCAACCATGGTCTTACACATTT
1 TCTTTCAACCATGGTCTTACTCATTT
27843640 CATATCAGAG
Statistics
Matches: 142, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
45 36 0.25
46 106 0.75
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (47 bp):
TCTTTCAACCATGGTCTTACTCATTTTCATGTCATGTTGCCATGGTA
Found at i:27843563 original size:92 final size:91
Alignment explanation
Indices: 27843431--27843640 Score: 303
Period size: 92 Copynumber: 2.3 Consensus size: 91
27843421 TCCAATAGTG
* * *
27843431 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
** *
27843496 TTCATTTCATGTCACGCTGCCATGGTA
66 CACATTTCATATCACG-TGCCATGGTA
* * *
27843523 TCTTTCAACCATGATCTTATTTATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
27843588 CACGTTTCATATCATGTGCCATGGTA
66 CACATTTCATATCACGTGCCATGGTA
*
27843614 TCTTTCAACCATGGTCTTACACATTTC
1 TCTTTCAACCATGGTCTTACTCATTTC
27843641 ATATCAGAGA
Statistics
Matches: 103, Mismatches: 15, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
91 33 0.32
92 70 0.68
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (91 bp):
TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCATATCACGTGCCATGGTA
Found at i:27845384 original size:10 final size:11
Alignment explanation
Indices: 27845358--27845390 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
27845348 TTCTACACCA
27845358 TTTCTCTTCAC
1 TTTCTCTTCAC
*
27845369 TTTCTCTT-AT
1 TTTCTCTTCAC
27845379 TTTCTCTTCAC
1 TTTCTCTTCAC
27845390 T
1 T
27845391 AACATATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTCTCTTCAC
Found at i:27845824 original size:18 final size:20
Alignment explanation
Indices: 27845809--27845845 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27845799 TAATAATAAA
*
27845809 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
27845829 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
27845846 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:27846464 original size:38 final size:38
Alignment explanation
Indices: 27846361--27846484 Score: 122
Period size: 38 Copynumber: 3.2 Consensus size: 38
27846351 GGCACGAAGG
* * * * * *
27846361 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
27846399 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
** * * * *
27846437 CCCGGATATTTTACTAGCATGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGG-ATTTAA
27846476 GCCCGGATA
1 -CCCGGATA
27846485 CACATCAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 59 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:27858268 original size:40 final size:40
Alignment explanation
Indices: 27858205--27858429 Score: 287
Period size: 40 Copynumber: 5.6 Consensus size: 40
27858195 TATTCGGATG
*
27858205 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
27858245 ATTTCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
27858285 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
27858328 ATA-CTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATC-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
** * *
27858368 ATATCCGGGCTAAAACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
27858408 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
27858430 TACTTGGGTT
Statistics
Matches: 165, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 17 0.10
40 108 0.65
41 3 0.02
42 1 0.01
43 34 0.21
44 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:27858366 original size:83 final size:80
Alignment explanation
Indices: 27858205--27858429 Score: 303
Period size: 83 Copynumber: 2.8 Consensus size: 80
27858195 TATTCGGATG
* * *
27858205 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAG-TGACCATTTCCGAGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTG-CTATAT-CGGGCTAAGTCCCGAAGG
27858268 CATTTGTGCTAGTGACT
64 CATTTGTGCTAGTGACT
*
27858285 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACTCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--GTAGTTGCTATA-TCGGGCTAAGTCCCGAAG
27858350 GCATTTGTGCTAGTGACT
63 GCATTTGTGCTAGTGACT
** * * *
27858368 ATATCCGGGCTAAAACCCGAAGGCATGTGTGCG-AGTTGCTATATCCGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATATCGGGCTAAGTCCCGAAGG
27858430 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
79 17 0.13
80 41 0.32
81 1 0.01
83 68 0.52
84 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATATCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:27863165 original size:43 final size:43
Alignment explanation
Indices: 27863002--27863174 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 43
27862992 ACATAGGATT
*
27863002 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * * **
27863045 TCGGCT-TGAGATTTACGTGTAAGACCATGTCTGGGACATCAGCA
1 TC-GATATGTGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * *
27863089 TCG-TATTTGATTTCGTGTAAAACC-CTGTTTGGGACAG-TGGCA
1 TCGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* * *
27863131 TCGATATTTGATTACATGGAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
27863174 T
1 T
27863175 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
42 28 0.28
43 41 0.41
44 32 0.32
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:27869788 original size:31 final size:31
Alignment explanation
Indices: 27869750--27869816 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
27869740 CAAAAAGAAA
27869750 AAGAAAGAAAAAGAGTTCTTAGGGTTTGGCT
1 AAGAAAGAAAAAGAGTTCTTAGGGTTTGGCT
27869781 AAGAAAGAAAAAGAGTTCTTAGGGTTTGGCT
1 AAGAAAGAAAAAGAGTTCTTAGGGTTTGGCT
27869812 AAGAA
1 AAGAA
27869817 TTTTGGTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.24
Consensus pattern (31 bp):
AAGAAAGAAAAAGAGTTCTTAGGGTTTGGCT
Found at i:27870630 original size:42 final size:43
Alignment explanation
Indices: 27870575--27870693 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 43
27870565 CATAGGATTC
* * *
27870575 CGATATGTGATTTCGTGTAAGACCACATCTAGGACATTGGCAT
1 CGATATTTGATTTCGTGTAAGACCACATCTAGGACAGTGGCAA
* * *
27870618 CG-TATTTGATTTCGTGTAAGACC-C-TGTTCGGAAAGTGGCAA
1 CGATATTTGATTTCGTGTAAGACCACAT-CTAGGACAGTGGCAA
* * *
27870659 CGATATTTGATTACATGTAAGACCACATCTGGGAC
1 CGATATTTGATTTCGTGTAAGACCACATCTAGGAC
27870694 GTTGACATTG
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
40 1 0.02
41 13 0.21
42 39 0.64
43 7 0.11
44 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCACATCTAGGACAGTGGCAA
Found at i:27870958 original size:25 final size:25
Alignment explanation
Indices: 27870913--27870960 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
27870903 AATTGAGAAT
27870913 ATTTTGAAGGTATATGAGCTATGTG
1 ATTTTGAAGGTATATGAGCTATGTG
* *
27870938 ATTTATGATGGTATTTG-GCTATG
1 ATTT-TGAAGGTATATGAGCTATG
27870961 GAGTATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.25, C:0.04, G:0.27, T:0.44
Consensus pattern (25 bp):
ATTTTGAAGGTATATGAGCTATGTG
Found at i:27875454 original size:27 final size:27
Alignment explanation
Indices: 27875400--27875455 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
27875390 GAGAAATGAA
* *
27875400 GATGAGATGAGAAATGAAATATGGAAT
1 GATGAAATGAGAAATGAAATATGAAAT
* * *
27875427 GATGAAATGAGATATGAATTGTGAAAT
1 GATGAAATGAGAAATGAAATATGAAAT
27875454 GA
1 GA
27875456 ATTCAAGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (27 bp):
GATGAAATGAGAAATGAAATATGAAAT
Found at i:27875887 original size:21 final size:20
Alignment explanation
Indices: 27875844--27875887 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
27875834 AGTATTTGGC
*
27875844 TGATAGTTAGTTTTTTAATG
1 TGATAGTTAGTTTTTTAAAG
27875864 TGAT-GTTAGTTTGGTTTAAAG
1 TGATAGTTAGTTT--TTTAAAG
27875885 TGA
1 TGA
27875888 AATGATAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 4 0.19
21 9 0.43
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (20 bp):
TGATAGTTAGTTTTTTAAAG
Found at i:27877709 original size:19 final size:20
Alignment explanation
Indices: 27877687--27877732 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
27877677 AAAAAAACAA
* *
27877687 TTGAAAACAAA-AAGAAATT
1 TTGAAAAAAAATAAAAAATT
27877706 TTGAAAAAAAATTAAAAAATT
1 TTGAAAAAAAA-TAAAAAATT
27877727 TTGAAA
1 TTGAAA
27877733 TTTTTTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
21 13 0.57
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (20 bp):
TTGAAAAAAAATAAAAAATT
Found at i:27878198 original size:4 final size:4
Alignment explanation
Indices: 27878184--27878215 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
27878174 AAGCCCCATT
27878184 TTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTT
27878216 TCTGGATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:27878258 original size:17 final size:17
Alignment explanation
Indices: 27878184--27878258 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
27878174 AAGCCCCATT
*
27878184 TTTATTTTATTTATTTA
1 TTTATTTTATTTATTTC
27878201 TTTA-TTTATTTATTTTC
1 TTTATTTTATTTA-TTTC
**
27878218 TGGATTTATATGTT-TTT-
1 TTTATTT-TAT-TTATTTC
*
27878235 TCT-TTTTATTTATTTC
1 TTTATTTTATTTATTTC
27878251 TTTATTTT
1 TTTATTTT
27878259 CTGGATTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
14 2 0.04
15 6 0.13
16 13 0.29
17 14 0.31
18 5 0.11
19 3 0.07
20 2 0.04
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (17 bp):
TTTATTTTATTTATTTC
Found at i:27878273 original size:21 final size:21
Alignment explanation
Indices: 27878200--27878280 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
27878190 TTATTTATTT
* *
27878200 ATTTATTTATTTATTTTCTGG
1 ATTTATATCTTTATTTTCTGG
* * **
27878221 ATTTATATGTTT-TTTCTTTTT
1 ATTTATATCTTTATTT-TCTGG
*
27878242 ATTTATTTCTTTATTTTCTGG
1 ATTTATATCTTTATTTTCTGG
27878263 ATTTATATCTTTTATTTT
1 ATTTATATC-TTTATTTT
27878281 ATTTTATTAT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
20 3 0.07
21 32 0.70
22 11 0.24
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.70
Consensus pattern (21 bp):
ATTTATATCTTTATTTTCTGG
Found at i:27886944 original size:46 final size:46
Alignment explanation
Indices: 27886839--27886950 Score: 154
Period size: 46 Copynumber: 2.4 Consensus size: 46
27886829 TGTCTTCGAC
** * *
27886839 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAAT
* *
27886885 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-ACTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATA-TAAT
27886931 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
27886951 TTTGTCCTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 1 0.02
46 57 0.98
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAAT
Found at i:27891254 original size:46 final size:47
Alignment explanation
Indices: 27891150--27891269 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 47
27891140 TGTCTTCGAC
** * *
27891150 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATAAT
* * *
27891198 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
*
27891244 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
27891270 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 33 0.52
48 30 0.48
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
Found at i:27895562 original size:46 final size:49
Alignment explanation
Indices: 27895456--27895577 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
27895446 TGTCTTCGAC
** * *
27895456 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATATAAT
* * *
27895506 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
*
27895552 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
27895578 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 5 0.08
50 30 0.48
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATATAAT
Found at i:27897030 original size:24 final size:24
Alignment explanation
Indices: 27897003--27897053 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
27896993 ACAAATTCTG
27897003 TAGATTATATAGGCATACTTGTAC
1 TAGATTATATAGGCATACTTGTAC
*
27897027 TAGATTCTATAGGCATACTTGTAC
1 TAGATTATATAGGCATACTTGTAC
27897051 TAG
1 TAG
27897054 GCATCAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (24 bp):
TAGATTATATAGGCATACTTGTAC
Found at i:27899898 original size:50 final size:46
Alignment explanation
Indices: 27899827--27899948 Score: 127
Period size: 50 Copynumber: 2.6 Consensus size: 46
27899817 TGTCTTCGAC
** * * *
27899827 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAG--ACATATA-A-ATAAT
* * *
27899877 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGACATATAACTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGACATATAAATAAT
*
27899923 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
27899949 CTTTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 27 0.44
47 1 0.02
48 6 0.10
50 28 0.45
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGACATATAAATAAT
Found at i:27921700 original size:2 final size:2
Alignment explanation
Indices: 27921695--27921732 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
27921685 TTCTATATAA
27921695 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27921733 ACATGTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:27924664 original size:35 final size:34
Alignment explanation
Indices: 27924598--27924664 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
27924588 TGTCCCATGA
* *
27924598 AAATGTATCATTGAATGATAAATTGTCACTTTTT
1 AAATGTATCATTGAATAATAAATTATCACTTTTT
*
27924632 AAATGTATCTATTGAATAATAAATTATGACTTT
1 AAATGTATC-ATTGAATAATAAATTATCACTTT
27924665 CCAAAATTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 9 0.31
35 20 0.69
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.43
Consensus pattern (34 bp):
AAATGTATCATTGAATAATAAATTATCACTTTTT
Found at i:27927429 original size:113 final size:113
Alignment explanation
Indices: 27927231--27927458 Score: 393
Period size: 113 Copynumber: 2.0 Consensus size: 113
27927221 TTCTCAATGG
*
27927231 TATTCTGTTATGAATATAACATGCAGTCAATAATGCTTCAACCCATGCTTCACCCCATAGAGTAT
1 TATTCTGTTATGAATATAACACGCAGTCAATAATGCTTCAACCCATGCTTCACCCCATAGAGTAT
*
27927296 ATGGAACTTAAGCATTTAACAACATCGAGTTAACCATATCTACTAAAT
66 ATAGAACTTAAGCATTTAACAACATCGAGTTAACCATATCTACTAAAT
* * *
27927344 TATTCTGTTATGAATATAACACGCAGTCAATAATGCTTCACCCCATGCTTCACCTCATAGATTAT
1 TATTCTGTTATGAATATAACACGCAGTCAATAATGCTTCAACCCATGCTTCACCCCATAGAGTAT
* *
27927409 ATAGAAGTTTAGCATTTAACAACATCGAGTTAACCATATCTACTAAAT
66 ATAGAACTTAAGCATTTAACAACATCGAGTTAACCATATCTACTAAAT
27927457 TA
1 TA
27927459 CTATTCTTTC
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
113 108 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (113 bp):
TATTCTGTTATGAATATAACACGCAGTCAATAATGCTTCAACCCATGCTTCACCCCATAGAGTAT
ATAGAACTTAAGCATTTAACAACATCGAGTTAACCATATCTACTAAAT
Found at i:27930647 original size:15 final size:15
Alignment explanation
Indices: 27930627--27930734 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
27930617 TTTATGGAAA
27930627 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
27930642 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
27930656 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
27930672 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
27930686 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
27930702 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
27930716 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
27930732 ATC
1 ATC
27930735 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:27930664 original size:30 final size:30
Alignment explanation
Indices: 27930621--27930744 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
27930611 TCCATATTTA
* *
27930621 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
27930651 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
27930681 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
27930711 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
27930742 TGG
1 TGG
27930745 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:27935581 original size:15 final size:15
Alignment explanation
Indices: 27935561--27935668 Score: 80
Period size: 15 Copynumber: 7.2 Consensus size: 15
27935551 TTTATGGAAA
*
27935561 ATCAAAGATATGGGT
1 ATCAAATATATGGGT
**
27935576 ATCAAATA-ATGGAA
1 ATCAAATATATGGGT
*
27935590 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
**
27935606 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
27935620 AGTC-AATGATATGGGT
1 A-TCAAAT-ATATGGGT
**
27935636 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
27935650 AGTCAAATATATGGGT
1 A-TCAAATATATGGGT
27935666 ATC
1 ATC
27935669 GAGATATTGG
Statistics
Matches: 70, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
14 16 0.23
15 38 0.54
16 16 0.23
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:27935590 original size:30 final size:30
Alignment explanation
Indices: 27935554--27935668 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
27935544 ATCCATATTT
*
27935554 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
27935584 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
27935614 TTGGAAAGTCAATGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
27935644 TTGGAAAGTCAAATATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
27935669 GAGATATTGG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 80 1.00
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:27943534 original size:5 final size:5
Alignment explanation
Indices: 27943526--27943561 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
27943516 TTAAAAGAAA
*
27943526 AAAAT AAAAT AAAAT AAAAT AAAAG AAAGAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT
27943562 GAGTGGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:27943652 original size:31 final size:31
Alignment explanation
Indices: 27943617--27943675 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
27943607 ACATGTGCAA
*
27943617 TGACTAAAATGATAAAAGTATGTAACGAGAG
1 TGACTAAAATAATAAAAGTATGTAACGAGAG
*
27943648 TGACTAAAATAATAAAATTATGTAACGA
1 TGACTAAAATAATAAAAGTATGTAACGA
27943676 TAATATCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.25
Consensus pattern (31 bp):
TGACTAAAATAATAAAAGTATGTAACGAGAG
Found at i:27954809 original size:131 final size:130
Alignment explanation
Indices: 27954618--27955044 Score: 485
Period size: 131 Copynumber: 3.3 Consensus size: 130
27954608 AGTATTTGGC
* * * *
27954618 AATTC-GGGAATCGTGTCCTATCGTGCTGGGTTACGATTT-CTCGTTTATTCAAAACAATCGAAT
1 AATTCAGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCCT-GTTTGTTCAAAATAATCGAAT
*
27954681 ATTCCTTTGGGATTTCACTTATGCTTTTAAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTTG
65 ATTCCTTTGGAATTTCACTTATG-TTTTAAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTTG
27954746 AA
129 AA
* * *
27954748 AATTCAGGGAATCGTGCCCTATCGTGTTGGGTTGCGATTTCCTATTTGTTCAAAATAATCGAACA
1 AATTCAGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATA
*
27954813 TTCCTTTGGAATTTCA-TTCATGTCTTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTG
66 TTCCTTTGGAATTTCACTT-ATGT-TTTAAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTTG
**
27954877 GC
129 AA
* * * * *
27954879 AATTCGGGGAATCGTGCCCTATTGTGCTGGGTTGCGATCTCCTGTTTGTTCCAAATAATCAAATA
1 AATTCAGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATA
* * * * ** * * *
27954944 TTCATTTAGAATTTCACTCATGTTCTCCAAATTC-T--AAAT-AAGGCAATGTCCGATGTCT-AG
66 TTCCTTTGGAATTTCACTTATGTTTTAAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTTGA-
27955004 A
130 A
* * *
27955005 AATTCAAGGAGTCGTGCCCTA-CTGTGCTGGGTTTCGATTT
1 AATTCAGGGAATCGTGCCCTATC-GTGCTGGGTTGCGATTT
27955045 TCTCGTTGGA
Statistics
Matches: 253, Mismatches: 37, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
126 49 0.19
127 3 0.01
129 1 0.00
130 16 0.06
131 181 0.72
132 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (130 bp):
AATTCAGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATA
TTCCTTTGGAATTTCACTTATGTTTTAAAAATTCTTCAAAATGAAGGTAATGTTCGATGTTTGAA
Found at i:27960426 original size:14 final size:15
Alignment explanation
Indices: 27960407--27960435 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
27960397 ATGAATTTTG
27960407 ATTTAACAA-AATAA
1 ATTTAACAATAATAA
27960421 ATTTAACAATAATAA
1 ATTTAACAATAATAA
27960436 CAGTTAGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTTAACAATAATAA
Found at i:27961314 original size:12 final size:12
Alignment explanation
Indices: 27961297--27961328 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
27961287 TTAGCTTGTA
27961297 AATGATATTAAT
1 AATGATATTAAT
27961309 AATGATATTAAT
1 AATGATATTAAT
*
27961321 ATTGATAT
1 AATGATAT
27961329 GTTTTTGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (12 bp):
AATGATATTAAT
Found at i:27961632 original size:30 final size:30
Alignment explanation
Indices: 27961598--27961667 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
27961588 GCGTATGTCT
* *
27961598 TAGCCGTGTGCGACACACGGTCATTGTATA
1 TAGCCGTGTGCGACACAAGGTCATGGTATA
* *
27961628 TAGCCTTATGCGACACAAGGTCATGGTATA
1 TAGCCGTGTGCGACACAAGGTCATGGTATA
*
27961658 TAGCTGTGTG
1 TAGCCGTGTG
27961668 TCCCTGATGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (30 bp):
TAGCCGTGTGCGACACAAGGTCATGGTATA
Found at i:27975080 original size:14 final size:14
Alignment explanation
Indices: 27975061--27975088 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27975051 CTTCGAGAGG
27975061 CTCAATCATCCAAA
1 CTCAATCATCCAAA
27975075 CTCAATCATCCAAA
1 CTCAATCATCCAAA
27975089 GGAACACCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (14 bp):
CTCAATCATCCAAA
Found at i:27977575 original size:13 final size:13
Alignment explanation
Indices: 27977557--27977596 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
27977547 GGAGTAATCG
*
27977557 CACACGGGCATGT
1 CACACGGGCGTGT
*
27977570 CACACGGACGTGT
1 CACACGGGCGTGT
*
27977583 CACATGGGCGTGT
1 CACACGGGCGTGT
27977596 C
1 C
27977597 CCTGTCGAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:27978629 original size:28 final size:28
Alignment explanation
Indices: 27978586--27978673 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 28
27978576 AGCATGGCTG
* *
27978586 CCAG-AACAGAT-ATTGTGACAGAGTCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* * *
27978612 CCAGATATAGATAATTGTGGCAGGGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
* *
27978640 CCAGAAACAGATATTTATGGCAGAGCCA
1 CCAGAAACAGATAATTGTGGCAGAGCCA
27978668 CCAGAA
1 CCAGAA
27978674 CGCTTCCTCC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 4 0.08
27 5 0.10
28 41 0.82
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGAAACAGATAATTGTGGCAGAGCCA
Found at i:27979948 original size:18 final size:18
Alignment explanation
Indices: 27979900--27979956 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
27979890 GACTATAGAG
27979900 GAAAAGAATAAGA-AGAA
1 GAAAAGAATAAGAGAGAA
* *
27979917 TAAATAG-ATGAAGAGAGGA
1 GAAA-AGAAT-AAGAGAGAA
*
27979936 GAAAAGAATAAGAGAAAA
1 GAAAAGAATAAGAGAGAA
27979954 GAA
1 GAA
27979957 TTGTCAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
17 5 0.16
18 18 0.58
19 8 0.26
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (18 bp):
GAAAAGAATAAGAGAGAA
Found at i:27995076 original size:47 final size:47
Alignment explanation
Indices: 27995004--27995097 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 47
27994994 AGAAACCGAG
*
27995004 AACACCCAATAAACCGAAACTGAGCCAGGACGAGATCAATACCTCAC
1 AACACCCAATAAACCAAAACTGAGCCAGGACGAGATCAATACCTCAC
* *
27995051 AACACCCGATAAACCAAAA-TCGAGCCAGGACGAGCTCAATACCTCAC
1 AACACCCAATAAACCAAAACT-GAGCCAGGACGAGATCAATACCTCAC
27995098 CAAATCAACT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 1 0.02
47 42 0.98
ACGTcount: A:0.41, C:0.33, G:0.15, T:0.11
Consensus pattern (47 bp):
AACACCCAATAAACCAAAACTGAGCCAGGACGAGATCAATACCTCAC
Found at i:28003987 original size:49 final size:49
Alignment explanation
Indices: 28003927--28004101 Score: 260
Period size: 49 Copynumber: 3.5 Consensus size: 49
28003917 CTAGTGCGCA
* *
28003927 TAGTAGCCTGCACTTAGTAGTACATATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * * *
28003976 TAGCAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
28004027 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
28004076 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
28004102 CGTGACCTCA
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 64 0.58
50 6 0.05
51 40 0.36
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:28004056 original size:100 final size:100
Alignment explanation
Indices: 28003923--28004106 Score: 332
Period size: 100 Copynumber: 1.8 Consensus size: 100
28003913 CTATCTAGTG
* *
28003923 CGCATAGTAGCCTGCACTTAGTAGTACATATGCGACCAATTATCCGGTACACGTAGCAGCCTGCA
1 CGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGCAGCCTGCA
*
28003988 CTTAGTACTACACATGTGATCGAAGTTATCGGGTA
66 CTTAGTACTACACACGTGATCGAAGTTATCGGGTA
*
28004023 CGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCA
1 CGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGCAGCCTGCA
28004088 CTTAGTACTACACACGTGA
66 CTTAGTACTACACACGTGA
28004107 CCTCACAATA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (100 bp):
CGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGCAGCCTGCA
CTTAGTACTACACACGTGATCGAAGTTATCGGGTA
Found at i:28010017 original size:49 final size:49
Alignment explanation
Indices: 28009953--28010197 Score: 240
Period size: 49 Copynumber: 4.9 Consensus size: 49
28009943 TAGACAAGGC
* * *
28009953 TATCTAGTACGCGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
28010002 TATCCAGTACACGTAGTAGCCTGCACTTAATACTACACACGTGACCTAAC
1 TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* ** * * * *
28010052 CAT-TTGATACATGTAGTAGTCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCCAG-TACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
** ** * * *
28010103 TATCGGGTATGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
28010152 TATCCGGTACACGTAGTAGGCTGCACTTAGTACTACACACGTGACC
1 TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
28010198 TCACAATAGA
Statistics
Matches: 157, Mismatches: 34, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
49 81 0.52
50 43 0.27
51 32 0.20
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:28023091 original size:40 final size:40
Alignment explanation
Indices: 28023036--28023236 Score: 296
Period size: 40 Copynumber: 5.0 Consensus size: 40
28023026 GATGATAACT
* * *
28023036 GGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
28023076 GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
28023116 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
28023156 GGGCTAAGTCTCGAAGGCATTCGTGCAAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
28023196 GGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
28023236 G
1 G
28023237 ATTAAATCCA
Statistics
Matches: 148, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 146 0.99
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Done.