Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 172 of 295
Found at i:54586756 original size:28 final size:28
Alignment explanation
Indices: 54586715--54586778 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
54586705 ATTTAGTATT
* *
54586715 AGTAA-AGTCTGGGCCTTAGCCCTATAC
1 AGTAACAGTCTGGGCCTAAGCCCAATAC
* *
54586742 AGTAACAGTGTGGGCCTAAGCCCAATTC
1 AGTAACAGTCTGGGCCTAAGCCCAATAC
*
54586770 AGTATCAGT
1 AGTAACAGT
54586779 AGAGTGTAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (28 bp):
AGTAACAGTCTGGGCCTAAGCCCAATAC
Found at i:54586984 original size:28 final size:28
Alignment explanation
Indices: 54586919--54586990 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
54586909 TAGTAGAACT
54586919 ACTAATAACAGTAA--ACATGGCAAAGCC
1 ACTAAT-ACAGTAATTACATGGCAAAGCC
* *
54586946 ACCAA-AGCAGTAATTACGTGGCAAAGCC
1 ACTAATA-CAGTAATTACATGGCAAAGCC
*
54586974 ACTAATACAGTATTTAC
1 ACTAATACAGTAATTAC
54586991 TCCTAATTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
25 1 0.03
26 6 0.16
27 4 0.11
28 25 0.68
29 1 0.03
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.19
Consensus pattern (28 bp):
ACTAATACAGTAATTACATGGCAAAGCC
Found at i:54589783 original size:49 final size:49
Alignment explanation
Indices: 54589711--54589897 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
54589701 GCTGAAGCTA
* *
54589711 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG
* *
54589760 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAG
** * *
54589810 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG
* * *
54589858 TTTTCGGGTACGCATAGTAGTCTGCACTTAGTACTACACA
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
54589898 TGCGACCTCA
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 39 0.33
50 41 0.35
51 35 0.30
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG
Found at i:54589895 original size:101 final size:99
Alignment explanation
Indices: 54589722--54589908 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 99
54589712 CTGGTACGCA
* * *
54589722 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
54589787 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
54589821 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGTCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
54589885 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
54589909 AATAGATCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 4 0.05
99 31 0.40
101 42 0.55
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:54593470 original size:20 final size:20
Alignment explanation
Indices: 54593445--54593499 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
54593435 TTATTTAAGC
54593445 TAAAGTAAGTAAATGCAATG
1 TAAAGTAAGTAAATGCAATG
54593465 TAAAGTAAGTAAATGCAATG
1 TAAAGTAAGTAAATGCAATG
54593485 TAAAGTAAGTAAATG
1 TAAAGTAAGTAAATG
54593500 GAACGGTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.51, C:0.04, G:0.20, T:0.25
Consensus pattern (20 bp):
TAAAGTAAGTAAATGCAATG
Found at i:54598308 original size:55 final size:55
Alignment explanation
Indices: 54598174--54598310 Score: 141
Period size: 55 Copynumber: 2.5 Consensus size: 55
54598164 TGGCCATGGT
* * * ** *
54598174 CGAACTTGGCAAAACAACACGGGCGTGCGACACGCCTGTGCCTGGGCACATTGGC
1 CGAACTTGCCAAAACAACACGGGCGTGCGACACACCCGTGCCTAAGCACAGTGGC
* ** * * *
54598229 CGAACTTGTCAAATTAACATGGGCGTGCGACACACCCGTGCC-AAGCAACCGTGGG
1 CGAACTTGCCAAAACAACACGGGCGTGCGACACACCCGTGCCTAAGC-ACAGTGGC
*
54598284 CGAACCTGCCAAAACAACACGGGCGTG
1 CGAACTTGCCAAAACAACACGGGCGTG
54598311 GACCTTTATA
Statistics
Matches: 65, Mismatches: 16, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
54 2 0.03
55 63 0.97
ACGTcount: A:0.27, C:0.31, G:0.28, T:0.14
Consensus pattern (55 bp):
CGAACTTGCCAAAACAACACGGGCGTGCGACACACCCGTGCCTAAGCACAGTGGC
Found at i:54603627 original size:50 final size:49
Alignment explanation
Indices: 54603458--54603691 Score: 224
Period size: 49 Copynumber: 4.7 Consensus size: 49
54603448 GTCACATGCA
* * * *
54603458 TAGTACTAAGTGCAGGCTACGATGTGTACC-GAATAATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATTGGTCACGTGTG
* ** * * *
54603507 TAGTACTAAGTAG-AAGCTACTGTGCGTACCCGATAACTTCGATCACGTGTG
1 TAGTACTAAGT-GCAGGCTACTACGTGTACCAGATAA-TT-GGTCACGTGTG
* *
54603558 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATTAGGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACGTGTG
* * *
54603608 TAGTACT-AGATGCAAGCTACTACTTGTACCAGATAATTGGT-ATCATGTG
1 TAGTACTAAG-TGCAGGCTACTACGTGTACCAGATAATTGGTCA-CGTGTG
* *
54603657 TAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
54603692 GCTTTGGCTA
Statistics
Matches: 152, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 66 0.43
50 50 0.33
51 35 0.23
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACGTGTG
Found at i:54610768 original size:49 final size:50
Alignment explanation
Indices: 54610687--54610919 Score: 186
Period size: 49 Copynumber: 4.7 Consensus size: 50
54610677 ATCTATTGTG
* * * *
54610687 AGGTCACGT-TGTAGTACTTAGTGCGGGCTACTATATGTATCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCGGATAATT
* * * ** **
54610736 -GGTCGCATGTGTAGTACTAAGTTCAAGCTACTATGCGTACCCAATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCGGATAA-TT
*** * ** * * *
54610786 CTATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-AGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCGGATA-ATT
* * *
54610836 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGCACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCGGATAATT
** *
54610886 -GGTTGCATATGTAGTACTAAGTGCAGGCTACTAT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTAT
54610920 GCGTGTAACA
Statistics
Matches: 143, Mismatches: 36, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
48 6 0.04
49 58 0.41
50 45 0.31
51 34 0.24
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCGGATAATT
Found at i:54620339 original size:101 final size:98
Alignment explanation
Indices: 54620147--54620374 Score: 303
Period size: 101 Copynumber: 2.3 Consensus size: 98
54620137 ATTGTGAGGT
* *
54620147 CATGTTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCATGTGTAGTACTAA
1 CATG-TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAA
* *
54620212 GTGTCGGCTACTATGCGTACCCGATAACTTCGATCA
65 GTGTAGGCTACTACGCGTACCCGATAA-TT-GATCA
* * ** *
54620248 CGTGTGTAGTACAAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACATGTGTAGTACTAA
* * * *
54620313 GTGTAGGCTACTACGTGTACCGGATAATTGGTCG
65 GTGTAGGCTACTACGCGTACCCGATAATTGATCA
54620347 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
54620375 TGCGTACCAG
Statistics
Matches: 111, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 29 0.26
100 38 0.34
101 44 0.40
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (98 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAAG
TGTAGGCTACTACGCGTACCCGATAATTGATCA
Found at i:54620382 original size:49 final size:50
Alignment explanation
Indices: 54620147--54620374 Score: 264
Period size: 49 Copynumber: 4.6 Consensus size: 50
54620137 ATTGTGAGGT
* *
54620147 CATGTTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT-GGTCG
1 CATG-TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCA
* * * * *
54620197 CATGTGTAGTACTAAGTGTC-GGCTACTATGCGTACCCGATAACTTCGATCA
1 CATGTGTAGTACTAAGTG-CAGGCTACTACGTGTACCGGATAA-TTAGGTCA
* * * * **
54620248 CGTGTGTAGTACAAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCA
* * *
54620298 CGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT-GGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCA
54620347 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
54620375 TGCGTACCAG
Statistics
Matches: 149, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
49 62 0.42
50 52 0.35
51 35 0.23
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCA
Found at i:54630143 original size:27 final size:27
Alignment explanation
Indices: 54630112--54630289 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
54630102 TAAATTGTAC
54630112 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
54630139 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54630165 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
54630193 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
54630221 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54630248 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
54630275 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54630290 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:54630226 original size:82 final size:81
Alignment explanation
Indices: 54630113--54630268 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
54630103 AAATTGTACA
*
54630113 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
54630177 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
54630194 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
54630259 TGCGAGTTGA
65 TGCGAATTGA
54630269 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:54630280 original size:82 final size:81
Alignment explanation
Indices: 54630109--54630289 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
54630099 GATTAAATTG
*
54630109 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
54630174 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
54630190 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
54630254 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
54630272 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
54630290 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:54653239 original size:50 final size:50
Alignment explanation
Indices: 54653179--54653306 Score: 170
Period size: 50 Copynumber: 2.6 Consensus size: 50
54653169 GTAGGTGCGG
*
54653179 ATGCCATGTCCCAGACAAGGTCTTACACAAGCTCTAACATA-TCTGTCCCA
1 ATGCCATGTCCCAGACAAGGTCTTACACAAGCTATAACATAGT-TGTCCCA
* * * * *
54653229 ATGCCATGTCCTAGACATGGTCTTACACAAGCTATAGCATAGTTGTGCCG
1 ATGCCATGTCCCAGACAAGGTCTTACACAAGCTATAACATAGTTGTCCCA
54653279 ATGCCATGTCCCAGAC-AGGTTCTTACAC
1 ATGCCATGTCCCAGACAAGG-TCTTACAC
54653307 TGACAAAACT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 2 0.03
50 65 0.96
51 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAGACAAGGTCTTACACAAGCTATAACATAGTTGTCCCA
Found at i:54653408 original size:46 final size:45
Alignment explanation
Indices: 54653323--54653494 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 45
54653313 AACTCATAGT
* * * *
54653323 CGATGCATGTCCCA-AGCATGTCTCACACTGGCTTATGTCTCGAGGT
1 CGATGCATGTCCCAGA-CATGTCTTACACTAGCCT-TGTCTCGAGGC
* *
54653369 CGATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC-CTTGTCTCGAGGC
* * * ** * *
54653415 CGATGCCATGTCCCAGATATGGTCTTATACTGGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGC-CTTGT-CTCGAGGC
*
54653463 CGATGAATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
54653495 TCACACAAGT
Statistics
Matches: 101, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
46 52 0.51
47 27 0.27
48 21 0.21
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCCTTGTCTCGAGGC
Found at i:54661089 original size:46 final size:45
Alignment explanation
Indices: 54661001--54661216 Score: 229
Period size: 46 Copynumber: 4.6 Consensus size: 45
54660991 TATCTGTGTT
54661001 GATGCCATGTCCTAGACATGGTCTTACACTGGCTT-ATGTCTCGAGGCC
1 GATG-CATGTCCTAGACAT-GTCTTACACTGGCTTCA--TCTCGAGGCC
*
54661049 GATGCATGTCCTAGACATGTCTCACACTGGCTTACATCTCGAGGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGCTT-CATCTCGAGGCC
* * * * * *
54661095 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGC-TTCATCTCGAGGCC
* * *
54661141 GATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCTAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCC
*
54661189 GATGCATGTTCTAGACATGTCTTACACT
1 GATGCATGTCCTAGACATGTCTTACACT
54661217 AGCTCACACA
Statistics
Matches: 143, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
46 75 0.52
47 40 0.28
48 27 0.19
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCTTCATCTCGAGGCC
Found at i:54661205 original size:94 final size:93
Alignment explanation
Indices: 54660947--54661220 Score: 297
Period size: 94 Copynumber: 2.9 Consensus size: 93
54660937 TGGGTACAGG
* ** * **
54660947 TGCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTGTGTTGATGCCATGTC
1 TGCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTA-CATATGTG-GCCGATG-CATGTC
* *
54661012 CTAGACATGGTCTTACACTGGCTTATGTCTCGA
63 CTAGACAT-GTCTTACACTAGC-TATGTCTCAA
* * * * * *
54661045 GGCCGATG-CATGTCCTAGACAT-GTCTCACACTGGCT-TACATCTCGAGGCCGATGCATGTCCC
1 TGCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTACATAT-GTGGCCGATGCATGTCCT
54661107 AGACATGTCTTACACTAGC-ACTCGTCTCAA
65 AGACATGTCTTACACTAGCTA-T-GTCTCAA
*
54661137 TGCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCT-CATAATGTGGCCGATGCATGTTCT
1 TGCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTACAT-ATGTGGCCGATGCATGTCCT
54661201 AGACATGTCTTACACTAGCT
65 AGACATGTCTTACACTAGCT
54661221 CACACAAGTG
Statistics
Matches: 148, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
90 1 0.01
91 1 0.01
92 25 0.17
93 26 0.18
94 59 0.40
95 5 0.03
96 11 0.07
97 13 0.09
98 7 0.05
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (93 bp):
TGCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTACATATGTGGCCGATGCATGTCCTA
GACATGTCTTACACTAGCTATGTCTCAA
Found at i:54661390 original size:46 final size:45
Alignment explanation
Indices: 54661307--54661476 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 45
54661297 CTCATAGCTT
* * *
54661307 ATGCATGTCCTAGACATGTCTCACACTGGCTTACGTCTCGAGGCCG
1 ATGCATGTCCTAGACATGTCTTACACTAGCCT-CGTCTCGAGGCCG
* *
54661353 ATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATGCCG
1 ATGCATGTCCTAGACATGTCTTACACTAGC-CTCGTCTCGAGGCCG
* * * * * *
54661399 ATGCCATGTCCCA-AGCATGGTCTTACATTAGCTCTCATAAT-GTGGCTG
1 ATG-CATGTCCTAGA-CAT-GTCTTACACTAGC-CTCGT-CTCGAGGCCG
*
54661447 ATGCATGTTCTAGACATGTCTTACACTAGC
1 ATGCATGTCCTAGACATGTCTTACACTAGC
54661477 TCACACAAGT
Statistics
Matches: 101, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
46 55 0.54
47 22 0.22
48 23 0.23
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCTAGACATGTCTTACACTAGCCTCGTCTCGAGGCCG
Found at i:54661506 original size:257 final size:257
Alignment explanation
Indices: 54661050--54661534 Score: 909
Period size: 257 Copynumber: 1.9 Consensus size: 257
54661040 CTCGAGGCCG
54661050 ATGCATGTCCTAGACATGTCTCACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGT
1 ATGCATGTCCTAGACATGTCTCACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGT
*
54661115 CTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCAT
66 CTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCAT
54661180 AATGTGGCCGATGCATGTTCTAGACATGTCTTACACTAGCTCACACAAGTGACCCAAACGTCATG
131 AATGTGGCCGATGCATGTTCTAGACATGTCTTACACTAGCTCACACAAGTGACCCAAACGTCATG
54661245 GCATGAATATCCTATTTATTTCCTAGTTTCAAACAGTTATACACTAACATATCTCATAGCTT
196 GCATGAATATCCTATTTATTTCCTAGTTTCAAACAGTTATACACTAACATATCTCATAGCTT
* *
54661307 ATGCATGTCCTAGACATGTCTCACACTGGCTTACGTCTCGAGGCCGATGCATGTCCTAGACATGT
1 ATGCATGTCCTAGACATGTCTCACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGT
*
54661372 CTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCAAG-CATGGTCTTACATTAGCTCTCA
66 CTTACACTAGCACTCGTCTCAATGCCGATGCCATGT-CCAAGACATGGTCTTACACTAGCTCTCA
*
54661436 TAATGTGGCTGATGCATGTTCTAGACATGTCTTACACTAGCTCACACAAGTGACCCAAACGTCAT
130 TAATGTGGCCGATGCATGTTCTAGACATGTCTTACACTAGCTCACACAAGTGACCCAAACGTCAT
54661501 GGCATGAATATCCTATTTATTTCCTAGTTTCAAA
195 GGCATGAATATCCTATTTATTTCCTAGTTTCAAA
54661535 TGGGAACTCT
Statistics
Matches: 222, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
257 217 0.98
258 5 0.02
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (257 bp):
ATGCATGTCCTAGACATGTCTCACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGT
CTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCAT
AATGTGGCCGATGCATGTTCTAGACATGTCTTACACTAGCTCACACAAGTGACCCAAACGTCATG
GCATGAATATCCTATTTATTTCCTAGTTTCAAACAGTTATACACTAACATATCTCATAGCTT
Found at i:54663190 original size:45 final size:44
Alignment explanation
Indices: 54663140--54663285 Score: 120
Period size: 45 Copynumber: 3.2 Consensus size: 44
54663130 TGAAACAAAC
*
54663140 TATGGCATCATACCGAAAATGAGTAAGACCATAGTCGAAAGACGT
1 TATGGCATCATA-CGATAATGAGTAAGACCATAGTCGAAAGACGT
* *** *
54663185 TATGGCATCACAATTTTAACGAGTAAGACCATAGAT-GAAAGACGT
1 TATGGCATCA-TACGATAATGAGTAAGACCATAG-TCGAAAGACGT
* * *
54663230 TATGGTATC--ACGATTCTAATGAGTAAGACCATAG-CTAAAAGATGT
1 TATGGCATCATACGA---TAATGAGTAAGACCATAGTC-GAAAGACGT
54663275 TATGGCATCAT
1 TATGGCATCAT
54663286 GAATTAGATG
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
42 1 0.01
45 75 0.96
46 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (44 bp):
TATGGCATCATACGATAATGAGTAAGACCATAGTCGAAAGACGT
Found at i:54663302 original size:45 final size:45
Alignment explanation
Indices: 54663157--54663328 Score: 136
Period size: 45 Copynumber: 3.8 Consensus size: 45
54663147 TCATACCGAA
* * *
54663157 AATGAGTAAGACCATAG-TCGAAAGACGTTATGGCATCAC-AATTTT
1 AATGAATAAGACCATAGAT-AAAAGACGTTATGGCATCACGAA-TCT
* * * * *
54663202 AACGAGTAAGACCATAGATGAAAGACGTTATGGTATCACGATTCT
1 AATGAATAAGACCATAGATAAAAGACGTTATGGCATCACGAATCT
* * * *
54663247 AATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATGAAT-T
1 AATGAATAAGACCATAGATAAAAGACGTTATGGCATCACGAATCT
* * **
54663291 AGATGAATAAGATCAT-GATTGAAAGACACTATGGCATC
1 A-ATGAATAAGACCATAGA-TAAAAGACGTTATGGCATC
54663329 CTTCAACCAT
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
44 3 0.03
45 100 0.95
46 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (45 bp):
AATGAATAAGACCATAGATAAAAGACGTTATGGCATCACGAATCT
Found at i:54663324 original size:90 final size:89
Alignment explanation
Indices: 54663157--54663324 Score: 198
Period size: 90 Copynumber: 1.9 Consensus size: 89
54663147 TCATACCGAA
* *
54663157 AATGAGTAAGACCATAGTCGAAAGACGTTATGGCATCACAATTTTAACGAGTAAGACCATAGATG
1 AATGAGTAAGACCATAGTCAAAAGACGTTATGGCATCACAA-TTTAACGAATAAGACCATAGATG
**
54663222 AAAGACGTTATGGTATCACGATTCT
65 AAAGACACTATGGTATCACGATTCT
* * * *
54663247 AATGAGTAAGACCATAG-CTAAAAGATGTTATGGCATCATGAA-TTAGATGAATAAGATCAT-GA
1 AATGAGTAAGACCATAGTC-AAAAGACGTTATGGCATCA-CAATTTA-ACGAATAAGACCATAGA
54663309 TTGAAAGACACTATGG
63 -TGAAAGACACTATGG
54663325 CATCCTTCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
89 6 0.09
90 58 0.88
91 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (89 bp):
AATGAGTAAGACCATAGTCAAAAGACGTTATGGCATCACAATTTAACGAATAAGACCATAGATGA
AAGACACTATGGTATCACGATTCT
Found at i:54663725 original size:17 final size:17
Alignment explanation
Indices: 54663700--54663733 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
54663690 AACTCTGTTC
*
54663700 ATTAATATTTTATTTGA
1 ATTAATATTATATTTGA
*
54663717 ATTATTATTATATTTGA
1 ATTAATATTATATTTGA
54663734 TTCAGTAAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
ATTAATATTATATTTGA
Found at i:54668596 original size:43 final size:43
Alignment explanation
Indices: 54668548--54668717 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 43
54668538 GTTACCGAGA
54668548 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
** * *
54668591 TGTGATTATGTGTAAGACCATGTCT-AGGACATTGG-ACT-CAT
1 TGTGATTACATGTAAGACCATGTCTGA-GACATTGGCATTGTAT
* * * * * *
54668632 TAATCGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 T-GT-GATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
* * * *
54668676 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 -TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTA
54668718 CGAGCTATAT
Statistics
Matches: 99, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
41 3 0.03
42 11 0.11
43 80 0.81
44 4 0.04
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGAGACATTGGCATTGTAT
Found at i:54678524 original size:51 final size:51
Alignment explanation
Indices: 54678448--54678545 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
54678438 AGATATGCAG
*
54678448 CATCCGAGCTCATTGAGAGGTTCGAGTTCATAGTGGATATGATTCATGTAA
1 CATCCGAGCTCATTAAGAGGTTCGAGTTCATAGTGGATATGATTCATGTAA
* *
54678499 CATCCGAGCTCATTAAGAGGTTCGAGTTCATGGTGGATGTGATTCAT
1 CATCCGAGCTCATTAAGAGGTTCGAGTTCATAGTGGATATGATTCAT
54678546 TAGGGATGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
CATCCGAGCTCATTAAGAGGTTCGAGTTCATAGTGGATATGATTCATGTAA
Found at i:54680674 original size:46 final size:46
Alignment explanation
Indices: 54680607--54680869 Score: 220
Period size: 46 Copynumber: 5.7 Consensus size: 46
54680597 TGGGCATCCA
*
54680607 AACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGGCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGGCCG
* * *
54680653 AACTCGTTGAGTTGAGTCCGAGTT--CGT-GAGATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAAC--GG---CCG
* * * **
54680700 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGGCCG
* * *
54680746 AACTCGTTGAGTTGAGTCCGAGTT--CGT-GAGATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAAC--GG---CCG
* * *
54680793 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGGCCG
*
54680839 AGA-TCGTTGAGTTGAGTCCGAGTTCGCTTAT
1 A-ACTCGTTGAGTTGAGTCCGAGTTCACTTAT
54680870 GGGCGGGTTA
Statistics
Matches: 170, Mismatches: 28, Indels: 38
0.72 0.12 0.16
Matches are distributed among these distances:
42 6 0.04
43 9 0.05
44 7 0.04
46 78 0.46
47 50 0.29
49 6 0.04
50 8 0.05
51 6 0.04
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGGCCG
Found at i:54680717 original size:93 final size:93
Alignment explanation
Indices: 54680599--54680864 Score: 444
Period size: 93 Copynumber: 2.9 Consensus size: 93
54680589 CGGATATTTG
* * * * *
54680599 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGGCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
54680664 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* **
54680692 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTAAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
54680757 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
54680785 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGA-TCGTTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGA-ACTCGTTGA
54680849 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
54680865 CTTATGGGCG
Statistics
Matches: 162, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
93 161 0.99
94 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:54680720 original size:47 final size:47
Alignment explanation
Indices: 54680650--54680817 Score: 202
Period size: 47 Copynumber: 3.6 Consensus size: 47
54680640 ATGCGAACGG
54680650 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
* * * *
54680697 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G--T
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCAT
**
54680743 CTAAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
*
54680790 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC
54680818 ACTTATGGAT
Statistics
Matches: 99, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 26 0.26
47 53 0.54
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
Found at i:54686387 original size:29 final size:29
Alignment explanation
Indices: 54686348--54686426 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
54686338 CTTAATAATC
*
54686348 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
54686378 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
* *
54686407 AGCCCACACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
54686427 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:54686887 original size:12 final size:12
Alignment explanation
Indices: 54686870--54686894 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54686860 GGGCATACTC
54686870 ATGTATATATAT
1 ATGTATATATAT
54686882 ATGTATATATAT
1 ATGTATATATAT
54686894 A
1 A
54686895 CTTCGGAATG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:54695657 original size:47 final size:47
Alignment explanation
Indices: 54695579--54695828 Score: 401
Period size: 47 Copynumber: 5.3 Consensus size: 47
54695569 CCCTTCGGGA
* * * * * *
54695579 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54695626 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54695673 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54695720 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54695767 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54695814 CTTATTACATATATA
1 CTTATCACATATATA
54695829 TATACACTTT
Statistics
Matches: 188, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 188 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54702476 original size:51 final size:52
Alignment explanation
Indices: 54702380--54702486 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 52
54702370 TTCATTATGG
* *
54702380 ATGTAAGCATTCGAGCTCGTTGAGAGGTCCGAGTTCATGGTGGATGTGATT-C
1 ATGTAAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATAGTGGATGTG-TTGC
*
54702432 ATGTAA-CATCCGAGCTCGTTGAGGGGTCCGAGTTCATTAG-GGATGTGTTGC
1 ATGTAAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCA-TAGTGGATGTGTTGC
54702483 ATGT
1 ATGT
54702487 TATGTGGTAC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
50 2 0.04
51 40 0.80
52 8 0.16
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.31
Consensus pattern (52 bp):
ATGTAAGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATAGTGGATGTGTTGC
Found at i:54706521 original size:20 final size:20
Alignment explanation
Indices: 54706496--54706547 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
54706486 CGGGTAAGGG
54706496 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
*
54706516 ACACGGGCGTGTCCCAACGC
1 ACACGGGCGTGTCCCAAAGC
54706536 ACACGGGCGTGT
1 ACACGGGCGTGT
54706548 GCATTGCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.35, G:0.33, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAGC
Found at i:54709602 original size:46 final size:47
Alignment explanation
Indices: 54709499--54709722 Score: 226
Period size: 47 Copynumber: 4.8 Consensus size: 47
54709489 GGGTTATTTT
* * * *
54709499 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGA
* *
54709546 GTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATG-A
* *
54709593 -AGCCGGTGTAAGACATGTCTGGGACAT-GCATCTG-CTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCT-CGAGATGA
* * * * * * *
54709638 TAGTCAGTGTATGACCATGTCTAGTACATGGCATC-GACTTGAGAT-A
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAGATGA
54709684 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
54709723 ACCTTACCCC
Statistics
Matches: 149, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
45 3 0.02
46 62 0.42
47 76 0.51
48 8 0.05
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGA
Found at i:54709667 original size:93 final size:93
Alignment explanation
Indices: 54709504--54709719 Score: 253
Period size: 93 Copynumber: 2.3 Consensus size: 93
54709494 ATTTTGAGCT
*
54709504 AGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACGAGTGCTAGTGTAAGACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACGAGTGCTAGTGTAAGACATGTCTAG
* *
54709569 GACAT-GCATCGGCCTCGAGATGTAAGCC
66 GACATGGCATC-GACTCGAGATATAAGCC
* * * *
54709597 GGTGTAAGACATGTCTGGGACAT-GCATCTGC-TACGAGATGA-TAG-TCAGTGTATGACCATGT
1 AGTGTAAGACATGTCTGGGACATGGCATCAGCAT-CGAGACGAGT-GCT-AGTGTAAGA-CATGT
* * *
54709658 CTAGTACATGGCATCGACTTGAGATATGAGCC
62 CTAGGACATGGCATCGACTCGAGATATAAGCC
54709690 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC
54709720 GGCACCTTAC
Statistics
Matches: 105, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
91 3 0.03
92 23 0.22
93 55 0.52
94 19 0.18
95 5 0.05
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACGAGTGCTAGTGTAAGACATGTCTAG
GACATGGCATCGACTCGAGATATAAGCC
Found at i:54717148 original size:47 final size:46
Alignment explanation
Indices: 54717037--54717208 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
54717027 GGTTAGTGTG
** * *
54717037 AGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCA-C-ATTATG-A
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATCGA-GACGTA
*
54717082 GAGCTAGTGTAAGACCATGTCTGGGACATAGCATCAGCATTGAGACG-A
1 -AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGAGACGTA
* * * *
54717130 GTGCTACTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTA
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACGTA
*
54717177 AGCCAGTGTAAGACATGTCTGGGACATGCATC
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC
54717209 TGCTATGAGA
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 56 0.52
47 31 0.29
48 20 0.19
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACGTA
Found at i:54717208 original size:46 final size:48
Alignment explanation
Indices: 54717036--54717303 Score: 234
Period size: 47 Copynumber: 5.7 Consensus size: 48
54717026 GGGTTAGTGT
* ** ** *
54717036 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCC-ACATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGA-GATGA
* * * *
54717082 GAGCTAGTGTAAGACCATGTCTGGGACATAGCATCAGCATTGAGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATGA
* * * *
54717130 GTGCTACTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATG-A
*
54717177 -AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCTG-CTATGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCT-TGAGATGA
* * * * *
54717222 TAGTCAGTGTATGACCATGTCTAGGACATGGCATC-GACTTGAGAT-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATGA
*
54717268 TGAGCCAGTGTAAGACCATGTCTGGCACATGGCATC
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
54717304 GGCACCTTAC
Statistics
Matches: 187, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
45 3 0.02
46 76 0.41
47 79 0.42
48 28 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTTGAGATGA
Found at i:54717266 original size:93 final size:94
Alignment explanation
Indices: 54717087--54717303 Score: 248
Period size: 93 Copynumber: 2.3 Consensus size: 94
54717077 TATGAGAGCT
*
54717087 AGTGTAAGACCATGTCTGGGACATAGCATCAGCATTGAGACGAGTGCTACTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATAGCATCAGCATTGAGACGAGTGCTACTGTAAGACATGTCTA
* *
54717152 GGACATGCATCAGCCTCGAGATGTAAGCC
66 GGACATGCATCAGACTCGAGATATAAGCC
* * * *
54717181 AGTGTAAGA-CATGTCTGGGACAT-GCATCTGC-TATGAGATGA-TAG-TCAGTGTATGACCATG
1 AGTGTAAGACCATGTCTGGGACATAGCATCAGCAT-TGAGACGAGT-GCT-ACTGTAAGA-CATG
* *
54717241 TCTAGGACATGGCATC-GACTTGAGATATGAGCC
62 TCTAGGACAT-GCATCAGACTCGAGATATAAGCC
* *
54717274 AGTGTAAGACCATGTCTGGCACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATAGCATC
54717304 GGCACCTTAC
Statistics
Matches: 106, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
91 3 0.03
92 22 0.21
93 49 0.46
94 27 0.25
95 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTGGGACATAGCATCAGCATTGAGACGAGTGCTACTGTAAGACATGTCTA
GGACATGCATCAGACTCGAGATATAAGCC
Found at i:54717298 original size:140 final size:141
Alignment explanation
Indices: 54717041--54717303 Score: 315
Period size: 140 Copynumber: 1.9 Consensus size: 141
54717031 AGTGTGAGCT
* *
54717041 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTAG
* * *
54717106 GACATAGCATCAGCATTGAGACGAGTGCTACTGTAAGACATGTCTGGGACAT-GCATCAGCCTCG
66 GACATAGCATCAGCATTGAGACGAGAGCCACTGTAAGACATGTCTGGCACATGGCATCAGCCTCG
54717170 AGATGTAAGCC
131 AGATGTAAGCC
* * * *
54717181 AGTGTAAGACATGTCTGGGACATGCATCT-GCTATGA-GATGATAG-TCAGTGTATGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCAT-TGGCCA-CATGATGAGAGCT-AGTGTAAGACCATGTC
* * *
54717243 TAGGACATGGCATC-G-ACTTGAGA-TATGAGCCAGTGTAAGACCATGTCTGGCACATGGCATC
63 TAGGACATAGCATCAGCA-TTGAGACGA-GAGCCACTGTAAGA-CATGTCTGGCACATGGCATC
54717304 GGCACCTTAC
Statistics
Matches: 104, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
138 2 0.02
139 19 0.18
140 76 0.73
141 7 0.07
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCCACATGATGAGAGCTAGTGTAAGACCATGTCTAG
GACATAGCATCAGCATTGAGACGAGAGCCACTGTAAGACATGTCTGGCACATGGCATCAGCCTCG
AGATGTAAGCC
Found at i:54718301 original size:28 final size:28
Alignment explanation
Indices: 54718269--54718323 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
54718259 AGGCTAGGAC
*
54718269 ATGGGCATGTCATGGCCGTGTGAAGCAT
1 ATGGGCATGTCATGGCCGTCTGAAGCAT
* *
54718297 ATGGGCGTGTCATGGCTGTCTGAAGCA
1 ATGGGCATGTCATGGCCGTCTGAAGCA
54718324 CACGGGCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.36, T:0.25
Consensus pattern (28 bp):
ATGGGCATGTCATGGCCGTCTGAAGCAT
Found at i:54718330 original size:28 final size:28
Alignment explanation
Indices: 54718271--54718330 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
54718261 GCTAGGACAT
* * *
54718271 GGGCATGTCATGGCCGTGTGAAGCATAT
1 GGGCATGTCATGGCCGTCTGAAGCACAC
* *
54718299 GGGCGTGTCATGGCTGTCTGAAGCACAC
1 GGGCATGTCATGGCCGTCTGAAGCACAC
54718327 GGGC
1 GGGC
54718331 CAAGGACACG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (28 bp):
GGGCATGTCATGGCCGTCTGAAGCACAC
Found at i:54721723 original size:19 final size:19
Alignment explanation
Indices: 54721699--54721744 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
54721689 AAAGATCACC
*
54721699 ATACAGATACAAATCTCAT
1 ATACAGATACAAATCTCAG
54721718 ATACAGATACAAATCTCAG
1 ATACAGATACAAATCTCAG
54721737 ATACAGAT
1 ATACAGAT
54721745 CTCACCCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.24
Consensus pattern (19 bp):
ATACAGATACAAATCTCAG
Found at i:54722347 original size:14 final size:14
Alignment explanation
Indices: 54722328--54722357 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
54722318 GAATAGTAAA
54722328 CAGGGCATTTTGGT
1 CAGGGCATTTTGGT
54722342 CAGGGCATTTTGGT
1 CAGGGCATTTTGGT
54722356 CA
1 CA
54722358 TTTAGGGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (14 bp):
CAGGGCATTTTGGT
Found at i:54723367 original size:51 final size:48
Alignment explanation
Indices: 54723239--54723382 Score: 198
Period size: 51 Copynumber: 2.9 Consensus size: 48
54723229 TATTGTGAGG
* * *
54723239 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCG-ATAATTGA
* *
54723288 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATAA-TT-GA
54723339 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATA
54723383 CCTTTGGCTA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
49 39 0.46
50 3 0.04
51 42 0.50
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGATAATTGA
Found at i:54731415 original size:13 final size:14
Alignment explanation
Indices: 54731388--54731425 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
54731378 TCCAGTTACA
54731388 ATATACAGAATCAG
1 ATATACAGAATCAG
54731402 ATATACAG-ATCAG
1 ATATACAGAATCAG
*
54731415 A-ACACAGAATC
1 ATATACAGAATC
54731426 CTATCCCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 5 0.23
13 9 0.41
14 8 0.36
ACGTcount: A:0.50, C:0.18, G:0.13, T:0.18
Consensus pattern (14 bp):
ATATACAGAATCAG
Found at i:54739189 original size:37 final size:37
Alignment explanation
Indices: 54739139--54739212 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
54739129 ATACCTCATA
54739139 ACCCTCTTACCTGCTAACCAATGGTTCATACTAAGGT
1 ACCCTCTTACCTGCTAACCAATGGTTCATACTAAGGT
54739176 ACCCTCTTACCTGCTAACCAATGGTTCATACTAAGGT
1 ACCCTCTTACCTGCTAACCAATGGTTCATACTAAGGT
54739213 TGCTTAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (37 bp):
ACCCTCTTACCTGCTAACCAATGGTTCATACTAAGGT
Found at i:54740825 original size:28 final size:28
Alignment explanation
Indices: 54740762--54740915 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
54740752 ATATTAAGTC
*
54740762 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
54740789 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
54740817 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
54740845 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
54740873 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
54740902 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54740916 CAATCTCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.18
28 76 0.66
29 19 0.16
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:54745256 original size:47 final size:47
Alignment explanation
Indices: 54745203--54745297 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
54745193 AATTAATAAC
*
54745203 TTCAATGAATATCCATTAAACCAAATTAACAAAAATTATAATTCGTT
1 TTCAATGAATATCCATTAAACCAAATTAACAAAAATCATAATTCGTT
54745250 TTCAATGAATATCCATTAAACCAAATTAACAAAAATCATAATTCGTT
1 TTCAATGAATATCCATTAAACCAAATTAACAAAAATCATAATTCGTT
54745297 T
1 T
54745298 AGATTGACAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (47 bp):
TTCAATGAATATCCATTAAACCAAATTAACAAAAATCATAATTCGTT
Found at i:54751737 original size:38 final size:38
Alignment explanation
Indices: 54751686--54751760 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
54751676 TAGGATATGA
54751686 TCTCAGGGAAGATGATTGGCAACGCTAAAGAATCTTGG
1 TCTCAGGGAAGATGATTGGCAACGCTAAAGAATCTTGG
*
54751724 TCTCAGGGAAGATGATTGGCAACGCTTAAGAATCTTG
1 TCTCAGGGAAGATGATTGGCAACGCTAAAGAATCTTG
54751761 TGAAATTTAC
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:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (38 bp):
TCTCAGGGAAGATGATTGGCAACGCTAAAGAATCTTGG
Found at i:54764918 original size:18 final size:18
Alignment explanation
Indices: 54764885--54764919 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54764875 TTTATATTAG
* *
54764885 AAATTAAATTATAATATT
1 AAATTAAAATAAAATATT
54764903 AAATTAAAATAAAATAT
1 AAATTAAAATAAAATAT
54764920 AACATATCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTAAAATAAAATATT
Found at i:54771911 original size:40 final size:40
Alignment explanation
Indices: 54771856--54772064 Score: 208
Period size: 41 Copynumber: 5.1 Consensus size: 40
54771846 GCAAAAATTG
* * * *
54771856 TAAAACACATAGCAATAGCGGCGTTTTAACAAAAACGCCAC
1 TAAAAC-CAGAGCATTAGCGGCGTTTTAGCAAAAACGCCGC
* * *
54771897 TAAAACCAGAGCAATAGCGGCGTTTTAGTAAAAAAGGCCGC
1 TAAAACCAGAGCATTAGCGGCGTTTTAG-CAAAAACGCCGC
* * * *
54771938 TAAAAACAGAGCATTAGCGGCACTTTTGGC-AAAACACCGC
1 TAAAACCAGAGCATTAGCGGC-GTTTTAGCAAAAACGCCGC
* *
54771978 TAAAAACCAGAGCATTAGAGGCGCTTTT-GGAAAAACGCCGC
1 T-AAAACCAGAGCATTAGCGGCG-TTTTAGCAAAAACGCCGC
*
54772019 TAAAAACCAGAGCATTAGCGGCGCTTTTGGC-AAAACGCCGC
1 T-AAAACCAGAGCATTAGCGGCG-TTTTAGCAAAAACGCCGC
54772060 TAAAA
1 TAAAA
54772065 GTCATATAAC
Statistics
Matches: 143, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
40 34 0.24
41 103 0.72
42 6 0.04
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (40 bp):
TAAAACCAGAGCATTAGCGGCGTTTTAGCAAAAACGCCGC
Found at i:54771981 original size:81 final size:81
Alignment explanation
Indices: 54771887--54772064 Score: 252
Period size: 82 Copynumber: 2.2 Consensus size: 81
54771877 CGTTTTAACA
* * *
54771887 AAAACGCCACTAAAACCAGAGCAATAGCGGCG-TTTTAGTAAAAAAGGCCGCTAAAAA-CAGAGC
1 AAAACGCCGCTAAAACCAGAGCAATAGAGGCGCTTTT-G-AAAAAACGCCGCTAAAAACCAGAGC
54771950 ATTAGCGGCACTTTTGGC
64 ATTAGCGGCACTTTTGGC
* * *
54771968 AAAACACCGCTAAAAACCAGAGCATTAGAGGCGCTTTTGGAAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCT-AAAACCAGAGCAATAGAGGCGCTTTTGAAAAAACGCCGCTAAAAACCAGAGCA
*
54772033 TTAGCGGCGCTTTTGGC
65 TTAGCGGCACTTTTGGC
54772050 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
54772065 GTCATATAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
81 29 0.34
82 53 0.62
83 4 0.05
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (81 bp):
AAAACGCCGCTAAAACCAGAGCAATAGAGGCGCTTTTGAAAAAACGCCGCTAAAAACCAGAGCAT
TAGCGGCACTTTTGGC
Found at i:54772236 original size:7 final size:7
Alignment explanation
Indices: 54772221--54772341 Score: 62
Period size: 7 Copynumber: 16.7 Consensus size: 7
54772211 TTAATTATCA
*
54772221 TTATAGT
1 TTATGGT
54772228 TTATGGT
1 TTATGGT
54772235 TTATGGT
1 TTATGGT
* *
54772242 TTAAGAT
1 TTATGGT
*
54772249 ATATGGT
1 TTATGGT
**
54772256 TTGGGGT
1 TTATGGT
*
54772263 TTAAGGT
1 TTATGGT
54772270 TTATGAGT
1 TTATG-GT
54772278 TAACTATGGT
1 T---TATGGT
* *
54772288 TTAAGAT
1 TTATGGT
*
54772295 ATATGGT
1 TTATGGT
*
54772302 TTAAGGT
1 TTATGGT
* *
54772309 TTAAGAT
1 TTATGGT
*
54772316 ATATGGT
1 TTATGGT
*
54772323 TTAGGGT
1 TTATGGT
*
54772330 TTAGGGT
1 TTATGGT
54772337 TTATG
1 TTATG
54772342 AGTTAACTAT
Statistics
Matches: 84, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
7 74 0.88
8 3 0.04
10 3 0.04
11 4 0.05
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:54772253 original size:21 final size:21
Alignment explanation
Indices: 54772229--54772380 Score: 133
Period size: 21 Copynumber: 6.9 Consensus size: 21
54772219 CATTATAGTT
*
54772229 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* * *
54772250 TATGGTTTGGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
*
54772271 TATGAGTTAACTATGGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
*
54772296 TATGGTTTAAGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* * *
54772317 TATGGTTTAGGGTTTAGGGTT
1 TATGGTTTAGGGTTTAAGATA
*
54772338 TATGAGTTAACTATGGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
*
54772363 TATGATTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
54772381 GTTTAAGAGT
Statistics
Matches: 104, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
21 65 0.62
22 6 0.06
24 5 0.05
25 28 0.27
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.44
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:54772338 original size:67 final size:67
Alignment explanation
Indices: 54772229--54772380 Score: 259
Period size: 67 Copynumber: 2.3 Consensus size: 67
54772219 CATTATAGTT
* *
54772229 TATGGTTTATGGTTTAAGATATATGGTTTGGGGTTTAAGGTTTATGAGTTAACTATGGTTTAAGA
1 TATGGTTTAAGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAACTATGGTTTAAGA
54772294 TA
66 TA
*
54772296 TATGGTTTAAGGTTTAAGATATATGGTTTAGGGTTTAGGGTTTATGAGTTAACTATGGTTTAAGA
1 TATGGTTTAAGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAACTATGGTTTAAGA
54772361 TA
66 TA
* *
54772363 TATGATTTAGGGTTTAAG
1 TATGGTTTAAGGTTTAAG
54772381 GTTTAAGAGT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 80 1.00
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.44
Consensus pattern (67 bp):
TATGGTTTAAGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAACTATGGTTTAAGA
TA
Found at i:54772356 original size:46 final size:46
Alignment explanation
Indices: 54772306--54772396 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
54772296 TATGGTTTAA
* * *
54772306 GGTTTAAGATATATGGTTTAGGGTTTAGGGTTTATGAGTTAACTAT
1 GGTTTAAGATATATGATTTAGGGTTTAAGGTTTAAGAGTTAACTAT
54772352 GGTTTAAGATATATGATTTAGGGTTTAAGGTTTAAGAGTTAACTA
1 GGTTTAAGATATATGATTTAGGGTTTAAGGTTTAAGAGTTAACTA
54772397 GTATTTGAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (46 bp):
GGTTTAAGATATATGATTTAGGGTTTAAGGTTTAAGAGTTAACTAT
Found at i:54772458 original size:14 final size:14
Alignment explanation
Indices: 54772441--54772497 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
54772431 GGATTATGAT
54772441 TTAGGGTTTAAGGG
1 TTAGGGTTTAAGGG
* *
54772455 TTAGGG-TTAAAGT
1 TTAGGGTTTAAGGG
* *
54772468 TTAAGGTGTAAGGG
1 TTAGGGTTTAAGGG
* *
54772482 TTTGGGGTTAAGGG
1 TTAGGGTTTAAGGG
54772496 TT
1 TT
54772498 TAGAGTTTAG
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
13 10 0.31
14 22 0.69
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (14 bp):
TTAGGGTTTAAGGG
Found at i:54772479 original size:27 final size:28
Alignment explanation
Indices: 54772440--54772492 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
54772430 AGGATTATGA
* *
54772440 TTTAGGGTTTAAGGG-TTAGGGTTAAAG
1 TTTAAGGTGTAAGGGTTTAGGGTTAAAG
*
54772467 TTTAAGGTGTAAGGGTTTGGGGTTAA
1 TTTAAGGTGTAAGGGTTTAGGGTTAA
54772493 GGGTTTAGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (28 bp):
TTTAAGGTGTAAGGGTTTAGGGTTAAAG
Found at i:54772901 original size:75 final size:75
Alignment explanation
Indices: 54772725--54773025 Score: 532
Period size: 75 Copynumber: 4.0 Consensus size: 75
54772715 TGGCTTCCAA
*
54772725 ATTATATCAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTT-AAAAACGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
*
54772789 AAAAAATACT
66 AAAAAACACT
* ** *
54772799 ATTATAACAAATAAAAATAAATATGAAAATTGAGAGATTAGTGGCGTTTTTAAAAAAAATGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
54772864 AAAAAACACT
66 AAAAAACACT
*
54772874 ATTATAACAAATAAAAATAAATATGAAAATTGAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
54772939 AAAAAACACT
66 AAAAAACACT
54772949 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
54773014 AAAAAACACT
66 AAAAAACACT
54773024 AT
1 AT
54773026 GAAAACGGCG
Statistics
Matches: 216, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
74 49 0.23
75 167 0.77
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.27
Consensus pattern (75 bp):
ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTTAAAAAACGCCAC
AAAAAACACT
Found at i:54773178 original size:18 final size:18
Alignment explanation
Indices: 54773155--54773198 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
54773145 CCCAAAACAG
* *
54773155 ATTTCCCC-AATTCTCTAC
1 ATTTCCCCTAA-TCCCTAA
54773173 ATTTCCCCTAATCCCTAA
1 ATTTCCCCTAATCCCTAA
54773191 ATTTCCCC
1 ATTTCCCC
54773199 CAAAATCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTCCCCTAATCCCTAA
Found at i:54777446 original size:41 final size:41
Alignment explanation
Indices: 54777324--54777489 Score: 145
Period size: 43 Copynumber: 3.9 Consensus size: 41
54777314 TGAAATATAT
* ** * *
54777324 ATGGTCTTTAGTGGCGTTTTTGGGGAAAGCGTCGCTAAAGATC
1 ATGGTCTTTAGCGGCGTTTTT--AAAAAGCGCCGCTAAAGGTC
* *
54777367 AT-GTCGTTAGCGGCGTTTTTGGGGAAAAGCGCCGCTAAAGGTC
1 ATGGTCTTTAGCGGCGTTTTT---AAAAAGCGCCGCTAAAGGTC
* *
54777410 TTGGTCTTTAGCGGCGTTTTTAAAAAGTGCCGCTAAAGGTC
1 ATGGTCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGGTC
* * * *
54777451 CTGTTCTTTAGCGGCATTTTTTAAAAAAACGCCGCTAAA
1 ATGGTCTTTAGCGGC-GTTTTT-AAAAAGCGCCGCTAAA
54777490 AGTTTGTCTT
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
41 31 0.30
42 21 0.20
43 36 0.34
44 17 0.16
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (41 bp):
ATGGTCTTTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGGTC
Found at i:54777739 original size:31 final size:30
Alignment explanation
Indices: 54777686--54777751 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 30
54777676 TCGGTCTCGA
54777686 CATATACTGGGCCGAAGCCTTTTCATAAAT
1 CATATACTGGGCCGAAGCCTTTTCATAAAT
** *
54777716 CATATCACTGGGTTGAAGGCTTTTCATAAAT
1 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
54777747 CATAT
1 CATAT
54777752 GTGACAGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (30 bp):
CATATACTGGGCCGAAGCCTTTTCATAAAT
Found at i:54779656 original size:29 final size:29
Alignment explanation
Indices: 54779621--54779694 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
54779611 GTTGTGAGAT
* *
54779621 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
54779650 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
54779679 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54779695 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:54787871 original size:29 final size:29
Alignment explanation
Indices: 54787836--54787909 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
54787826 GTTGTGAGAT
* *
54787836 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
54787865 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
54787894 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54787910 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:54790354 original size:27 final size:27
Alignment explanation
Indices: 54790314--54790386 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
54790304 TATTCATCAT
* *
54790314 TTTACCATACAGGGGTATTACGGTCAC
1 TTTACCCTATAGGGGTATTACGGTCAC
**
54790341 TTTACCCTATAGGGGCT-TTACGGTCTT
1 TTTACCCTATAGGGG-TATTACGGTCAC
54790368 TTTA-CCTATTAGGGGTATT
1 TTTACCCTA-TAGGGGTATT
54790387 TCTGTAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 5 0.13
27 33 0.85
28 1 0.03
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (27 bp):
TTTACCCTATAGGGGTATTACGGTCAC
Found at i:54790408 original size:27 final size:26
Alignment explanation
Indices: 54790377--54790503 Score: 89
Period size: 27 Copynumber: 4.7 Consensus size: 26
54790367 TTTTACCTAT
**
54790377 TAGGGGTATTTCTGTAATTTTGTAAA
1 TAGGGGTATTTCTGTAATTTTACAAA
*
54790403 TCAGGGATATTT-TGGTAATTTTACAAA
1 T-AGGGGTATTTCT-GTAATTTTACAAA
* * *
54790430 TTGAGGGTATTTCGGTAATTTCACAAA
1 TAG-GGGTATTTCTGTAATTTTACAAA
* *
54790457 CCAGTGGTATTT-TGGTAATTTTACAAAA
1 -TAGGGGTATTTCT-GTAATTTTAC-AAA
*
54790485 TAAGGGTATTT-TGGTAATT
1 TAGGGGTATTTCT-GTAATT
54790504 CTACCCTATA
Statistics
Matches: 79, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
26 3 0.04
27 72 0.91
28 4 0.05
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (26 bp):
TAGGGGTATTTCTGTAATTTTACAAA
Found at i:54790514 original size:27 final size:27
Alignment explanation
Indices: 54790400--54790522 Score: 106
Period size: 27 Copynumber: 4.5 Consensus size: 27
54790390 GTAATTTTGT
* *
54790400 AAATCAGGGATATTTTGGTAATTTTACA
1 AAATAAGGG-TATTTTGGTAATTCTACA
* * *
54790428 AATTGAGGGTATTTCGGTAATT-T-CA
1 AAATAAGGGTATTTTGGTAATTCTACA
** *
54790453 CAAACCAGTGGTATTTTGGTAATTTTACA
1 -AAATAAG-GGTATTTTGGTAATTCTACA
*
54790482 AAATAAGGGTATTTTGGTAATTCTACC
1 AAATAAGGGTATTTTGGTAATTCTACA
**
54790509 CTATAAGGGTATTT
1 AAATAAGGGTATTT
54790523 CAATAATTTC
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
25 2 0.03
26 5 0.06
27 56 0.72
28 13 0.17
29 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AAATAAGGGTATTTTGGTAATTCTACA
Found at i:54790522 original size:54 final size:52
Alignment explanation
Indices: 54790380--54790503 Score: 149
Period size: 54 Copynumber: 2.3 Consensus size: 52
54790370 TACCTATTAG
* *** * *
54790380 GGGTATTTCTGTAATTTTGTAAATCAGGGATATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTCACAAA-CAGGG-TATTTTGGTAATTTTACAAAATAA
54790434 GGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAAATAA
1 GGGTATTTCGGTAATTTCACAAA-CAG-GGTATTTTGGTAATTTTACAAAATAA
*
54790488 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
54790504 CTACCCTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 59 0.97
55 2 0.03
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (52 bp):
GGGTATTTCGGTAATTTCACAAACAGGGTATTTTGGTAATTTTACAAAATAA
Found at i:54790571 original size:27 final size:27
Alignment explanation
Indices: 54790535--54790626 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
54790525 ATAATTTCAC
* *
54790535 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
54790562 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * * * *
54790589 CATCAAGGGTAAAATAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
54790616 AATCGAGGGTA
1 AATCGAGGGTA
54790627 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:54795387 original size:29 final size:29
Alignment explanation
Indices: 54795324--54795391 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
54795314 TAATCAACCG
*
54795324 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
54795353 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
54795382 CGCACACTTA
1 CGCACACTTA
54795392 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:54795503 original size:174 final size:174
Alignment explanation
Indices: 54795213--54795714 Score: 932
Period size: 174 Copynumber: 2.9 Consensus size: 174
54795203 AACTCAAGGT
* *
54795213 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
54795278 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
54795343 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGAATTTCAAGTTCGCAC
54795387 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
54795452 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
54795517 ACTTTAAACTCACACACTTAGTGCCATGAATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGAATTTCAAGTTCGCAC
54795561 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
54795626 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
* *
54795691 ACTTCAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
54795715 TGTACAATTT
Statistics
Matches: 318, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 318 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGAATTTCAAGTTCGCAC
Found at i:54795561 original size:29 final size:29
Alignment explanation
Indices: 54795498--54795565 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
54795488 TAATCAACCG
*
54795498 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCAATTTAAACT
* **
54795527 CACACACTTAGTGCCATG-AATTTCAAGTT
1 CGCACACTTAGTGCCATGCAATTT-AAACT
54795556 CGCACACTTA
1 CGCACACTTA
54795566 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCAATTTAAACT
Found at i:54795706 original size:29 final size:30
Alignment explanation
Indices: 54795667--54795745 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
54795657 CTTAATAATC
54795667 AACCGCGCACACTTAGTGCCATGTAC-TTCA
1 AACC-CGCACACTTAGTGCCATGTACATTCA
* *
54795697 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTCA
54795726 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
54795746 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTCA
Found at i:54811945 original size:29 final size:29
Alignment explanation
Indices: 54811882--54811949 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
54811872 TAATCAACCG
*
54811882 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
54811911 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
54811940 CGCACACTTA
1 CGCACACTTA
54811950 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:54812176 original size:145 final size:145
Alignment explanation
Indices: 54811913--54812239 Score: 609
Period size: 145 Copynumber: 2.3 Consensus size: 145
54811903 TTTAAACTCA
54811913 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
54811978 TAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
54812043 CAATAATCAACCGCG
131 CAATAATCAACCGCG
54812058 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
54812123 TAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
*
54812188 TAATAATCAACCGCG
131 CAATAATCAACCGCG
* * **
54812203 CACACTTAGTGCCATGTACTTCAAACTCGCACACTTA
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTA
54812240 GTGCTGTACA
Statistics
Matches: 177, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 177 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (145 bp):
CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
TAAAGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
CAATAATCAACCGCG
Found at i:54812235 original size:29 final size:30
Alignment explanation
Indices: 54812196--54812274 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
54812186 CTTAATAATC
54812196 AACCGCGCACACTTAGTGCCATGTAC-TTCA
1 AACC-CGCACACTTAGTGCCATGTACATTCA
* *
54812226 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTCA
54812255 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
54812275 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTCA
Found at i:54814748 original size:22 final size:21
Alignment explanation
Indices: 54814722--54814762 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
54814712 CAACTGTACA
54814722 AAATATATTAATGTAATCAATG
1 AAATATATTAAT-TAATCAATG
* *
54814744 AAATATTTTTATTAATCAA
1 AAATATATTAATTAATCAA
54814763 CCCATTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (21 bp):
AAATATATTAATTAATCAATG
Found at i:54820722 original size:40 final size:40
Alignment explanation
Indices: 54820390--54820715 Score: 555
Period size: 40 Copynumber: 8.2 Consensus size: 40
54820380 AACCCAAGTA
* * *
54820390 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
54820429 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
54820469 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
54820509 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
54820549 CCTTCGGGACTTAGCCTGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
54820589 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
54820629 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
54820669 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
54820709 CCTTCGG
1 CCTTCGG
54820716 ATCTTAGTCC
Statistics
Matches: 272, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
39 13 0.05
40 259 0.95
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:54822146 original size:13 final size:13
Alignment explanation
Indices: 54822130--54822157 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
54822120 TTTATTATTT
54822130 TTAACACAAAATA
1 TTAACACAAAATA
54822143 TTAACACAAAATA
1 TTAACACAAAATA
54822156 TT
1 TT
54822158 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:54825573 original size:49 final size:49
Alignment explanation
Indices: 54825500--54825687 Score: 227
Period size: 49 Copynumber: 3.8 Consensus size: 49
54825490 TACCCGAAGC
*
54825500 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
54825549 AATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* *
54825600 TTTC-GAGTA-AGCATAGTAGCCTGCACTTAGTAGTACACATGCGACCAAT
1 TATCTG-GTACA-CATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* ** *
54825649 TATCCGGTACATGTAGTAGCCTGCAGTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
54825688 CGTGACCTCA
Statistics
Matches: 117, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
49 73 0.62
50 6 0.05
51 38 0.32
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:54825623 original size:100 final size:100
Alignment explanation
Indices: 54825510--54825692 Score: 312
Period size: 100 Copynumber: 1.8 Consensus size: 100
54825500 TATCTGGTAC
*
54825510 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACATAGTAGCCTGCAC
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCCTGCAC
54825575 TTAGTACTACACACGTGATCACAGTTTTCGAGTAA
66 TTAGTACTACACACGTGATCACAGTTTTCGAGTAA
* * ** *
54825610 GCATAGTAGCCTGCACTTAGTAGTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCAG
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCCTGCAC
54825675 TTAGTACTACACACGTGA
66 TTAGTACTACACACGTGA
54825693 CCTCACAATA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (100 bp):
GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACATAGTAGCCTGCAC
TTAGTACTACACACGTGATCACAGTTTTCGAGTAA
Found at i:54837759 original size:25 final size:25
Alignment explanation
Indices: 54837720--54837813 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 25
54837710 TCATGTACAT
54837720 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTGTGAATCG
* *
54837745 GTATGCTCACT-CGAGCTGTGGATTG
1 GTATGCTCA-TACGAGCTGTGAATCG
* * * *
54837770 GTATACT-TTAACGAGCTATAAATCG
1 GTATGCTCAT-ACGAGCTGTGAATCG
* * *
54837795 GTATACTCACATGAGCTGT
1 GTATGCTCATACGAGCTGT
54837814 AGGTCTGAAT
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
23 1 0.02
25 51 0.96
26 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGTGAATCG
Found at i:54839038 original size:25 final size:25
Alignment explanation
Indices: 54838999--54839092 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
54838989 TCATGTACAT
*
54838999 GTATGCTCA-TACGAGCTGTGAATCA
1 GTATGCTCACT-CGAGCTGTGAATCG
* *
54839024 GTATGCTCACTCGAGCTGTGGATTG
1 GTATGCTCACTCGAGCTGTGAATCG
* * *
54839049 GTATGCTCTCAT-GAGCTATAAATCG
1 GTATGCTCAC-TCGAGCTGTGAATCG
* *
54839074 GTATACTCACACGAGCTGT
1 GTATGCTCACTCGAGCTGT
54839093 AGGTCTGAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
25 52 0.96
26 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (25 bp):
GTATGCTCACTCGAGCTGTGAATCG
Found at i:54842975 original size:11 final size:11
Alignment explanation
Indices: 54842959--54842999 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
54842949 ATCATTCAAC
54842959 CATTCCAAACA
1 CATTCCAAACA
54842970 CATTCC-AA-A
1 CATTCCAAACA
54842979 CATTACCAAACA
1 CATT-CCAAACA
*
54842991 CATACCAAA
1 CATTCCAAA
54843000 ATATATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
11 13 0.50
12 4 0.15
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (11 bp):
CATTCCAAACA
Found at i:54842988 original size:21 final size:20
Alignment explanation
Indices: 54842959--54842999 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
54842949 ATCATTCAAC
54842959 CATTCCAAACACATTCCAAA
1 CATTCCAAACACATTCCAAA
*
54842979 CATTACCAAACACATACCAAA
1 CATT-CCAAACACATTCCAAA
54843000 ATATATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (20 bp):
CATTCCAAACACATTCCAAA
Found at i:54850841 original size:365 final size:365
Alignment explanation
Indices: 54850158--54850893 Score: 1330
Period size: 365 Copynumber: 2.0 Consensus size: 365
54850148 GGTTCCATGT
*
54850158 TTTCACACACAAAGACTATACATATTCGGCCTTTCACACTTGAATGGCCATTGGAGTCCTCCATA
1 TTTCACACACAAAGACTATACATATTCGGCCTTTCACACTTGAATGGCCATTAGAGTCCTCCATA
*
54850223 ATGATCAATTAATCGAAGGCTTTCAAGCTTATCTAGGCGCCACATTTAAGAAGCATTCAAACTAC
66 ATGATCAATTAATCCAAGGCTTTCAAGCTTATCTAGGCGCCACATTTAAGAAGCATTCAAACTAC
*
54850288 TTTCAAGCACCTTGGCCGAATGTGGACTAGTCCATAAAGCTTCCCATTAATGGCTAGCTGAATCA
131 TTTCAAACACCTTGGCCGAATGTGGACTAGTCCATAAAGCTTCCCATTAATGGCTAGCTGAATCA
* *
54850353 ACCCCTTCTAGTAGCTTCTCATTCGGTTTCCCAAGCCAAGAAGACTCTAGAATATGTTTAAGAAA
196 ACCCCTTCTAGTAGCTTCTCATTCAGTTTCCCAAGCCAAGAAGACTCTAGAATATGTTCAAGAAA
*
54850418 TTGTTAGGAAATTTCCTAAAGCTTTAAGGCTTAAGATAGCCGTCCCCTTGAATGCCCATATGACT
261 TTGTTAGGAAATTTCCTAAAGCCTTAAGGCTTAAGATAGCCGTCCCCTTGAATGCCCATATGACT
* *
54850483 ATTCAGCTAGCTATAGTTTAGGTTATAAATATGGCTTTTA
326 ATTCAGCTAGCTATAGTTTAGGCTATAAATATGGCTTGTA
* * *
54850523 TTTCACCCACAAGGACTATACATATTCGGCCTTTCACACTTGAATGGCCATTAGATTCCTCCATA
1 TTTCACACACAAAGACTATACATATTCGGCCTTTCACACTTGAATGGCCATTAGAGTCCTCCATA
54850588 ATGATCAATTAATCCAAGGCTTTCAAGCTTATCTAGGCGCCACATTTAAGAAGCATTCAAACTAC
66 ATGATCAATTAATCCAAGGCTTTCAAGCTTATCTAGGCGCCACATTTAAGAAGCATTCAAACTAC
* *
54850653 TTTCAAACACCTTGGCCGGATGTGGACTAGTCCATAAAGCTTCTCATTAATGGCTAGCTGAATCA
131 TTTCAAACACCTTGGCCGAATGTGGACTAGTCCATAAAGCTTCCCATTAATGGCTAGCTGAATCA
54850718 ACCCCTTCTAGTAGCTTCTCATTCAGTTTCCCAAGCCAAGAAGACTCTAGAATATGTTCAAGAAA
196 ACCCCTTCTAGTAGCTTCTCATTCAGTTTCCCAAGCCAAGAAGACTCTAGAATATGTTCAAGAAA
54850783 TT-TCTAGGAAATTTCCTAAAGCCTTAAGGCTTAAGATAGCCGTCCCCTTGAATGCCCATATGAC
261 TTGT-TAGGAAATTTCCTAAAGCCTTAAGGCTTAAGATAGCCGTCCCCTTGAATGCCCATATGAC
*
54850847 TATTCGGCTAGCTATAGTTTAGGCTATAAATATGGCTTGTA
325 TATTCAGCTAGCTATAGTTTAGGCTATAAATATGGCTTGTA
54850888 TTTCAC
1 TTTCAC
54850894 TTGTTGAAGG
Statistics
Matches: 356, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
364 1 0.00
365 355 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (365 bp):
TTTCACACACAAAGACTATACATATTCGGCCTTTCACACTTGAATGGCCATTAGAGTCCTCCATA
ATGATCAATTAATCCAAGGCTTTCAAGCTTATCTAGGCGCCACATTTAAGAAGCATTCAAACTAC
TTTCAAACACCTTGGCCGAATGTGGACTAGTCCATAAAGCTTCCCATTAATGGCTAGCTGAATCA
ACCCCTTCTAGTAGCTTCTCATTCAGTTTCCCAAGCCAAGAAGACTCTAGAATATGTTCAAGAAA
TTGTTAGGAAATTTCCTAAAGCCTTAAGGCTTAAGATAGCCGTCCCCTTGAATGCCCATATGACT
ATTCAGCTAGCTATAGTTTAGGCTATAAATATGGCTTGTA
Found at i:54863871 original size:35 final size:35
Alignment explanation
Indices: 54863832--54863944 Score: 147
Period size: 35 Copynumber: 3.2 Consensus size: 35
54863822 CACTCAGTTA
* * *
54863832 ACCATTCAACATACCAGATACTCATAAGAGTCAGT
1 ACCATCCAACATACCAGATGCTCATAAGAGCCAGT
* *
54863867 ACCATCCAACATACCAGTTGTTCATAAGAGCCAGT
1 ACCATCCAACATACCAGATGCTCATAAGAGCCAGT
* *
54863902 ACCATCCAGCACACCA-ATTGCTCATAAGAGCCAGT
1 ACCATCCAACATACCAGA-TGCTCATAAGAGCCAGT
54863937 ACCATCCA
1 ACCATCCA
54863945 GCACACCAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.36, C:0.31, G:0.12, T:0.20
Consensus pattern (35 bp):
ACCATCCAACATACCAGATGCTCATAAGAGCCAGT
Found at i:54863945 original size:35 final size:35
Alignment explanation
Indices: 54863852--54863955 Score: 163
Period size: 35 Copynumber: 3.0 Consensus size: 35
54863842 ATACCAGATA
* * * *
54863852 CTCATAAGAGTCAGTACCATCCAACATACCAGTTG
1 CTCATAAGAGCCAGTACCATCCAGCACACCAATTG
*
54863887 TTCATAAGAGCCAGTACCATCCAGCACACCAATTG
1 CTCATAAGAGCCAGTACCATCCAGCACACCAATTG
54863922 CTCATAAGAGCCAGTACCATCCAGCACACCAATT
1 CTCATAAGAGCCAGTACCATCCAGCACACCAATT
54863956 AACACTGTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 63 1.00
ACGTcount: A:0.35, C:0.32, G:0.13, T:0.20
Consensus pattern (35 bp):
CTCATAAGAGCCAGTACCATCCAGCACACCAATTG
Found at i:54865371 original size:15 final size:16
Alignment explanation
Indices: 54865336--54865371 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
54865326 ACAATTGGTC
54865336 CTTCAATTAAATTAAA
1 CTTCAATTAAATTAAA
*
54865352 TTTCAATTAAA-TAAA
1 CTTCAATTAAATTAAA
54865367 CTTCA
1 CTTCA
54865372 TTACAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (16 bp):
CTTCAATTAAATTAAA
Found at i:54866381 original size:72 final size:72
Alignment explanation
Indices: 54866207--54866373 Score: 221
Period size: 72 Copynumber: 2.3 Consensus size: 72
54866197 TAAAGCCATC
* * *
54866207 CGGATGGAGAGCAAAATGTCCTAGTAGTTGAGTTATATCAAAACGCCATTCGGATGGCGAATATT
1 CGGATGGAGAGCAAACTGTCCTAGTAGTTGAGTTATATCAAAACGCCATTCAGATGACGAATATT
54866272 AGTCATT
66 AGTCATT
* * * * *
54866279 CGGATGGAGAGCAAACTTTCCTAGTAGTTGAGTTATA-CTAAAACGTCATTCAGATGATGGATGT
1 CGGATGGAGAGCAAACTGTCCTAGTAGTTGAGTTATATC-AAAACGCCATTCAGATGACGAATAT
54866343 TA-TCTATT
65 TAGTC-ATT
*
54866351 CGGATGGAGAGCAAGCTGTCCTA
1 CGGATGGAGAGCAAACTGTCCTA
54866374 AAAGTTGAAC
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
71 3 0.04
72 80 0.96
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (72 bp):
CGGATGGAGAGCAAACTGTCCTAGTAGTTGAGTTATATCAAAACGCCATTCAGATGACGAATATT
AGTCATT
Found at i:54871159 original size:38 final size:38
Alignment explanation
Indices: 54871116--54871192 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
54871106 ATAGTATAAT
* *
54871116 GGTAAGTTGACATGACACGTTAAATTATCATTTCAAAC
1 GGTAAGCTGACATGACACGTTAAATCATCATTTCAAAC
*
54871154 GGTAAGCTGACGTGACACGTTAAATCATCATTTCAAAC
1 GGTAAGCTGACATGACACGTTAAATCATCATTTCAAAC
54871192 G
1 G
54871193 AAAATTTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (38 bp):
GGTAAGCTGACATGACACGTTAAATCATCATTTCAAAC
Found at i:54871521 original size:18 final size:19
Alignment explanation
Indices: 54871485--54871522 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
54871475 AAAAACAAAT
*
54871485 AAAAACAAAATAAAGTTAA
1 AAAAACAAAATAAAATTAA
*
54871504 AAAAATAAAA-AAAATTAA
1 AAAAACAAAATAAAATTAA
54871522 A
1 A
54871523 TTGCTCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.16
Consensus pattern (19 bp):
AAAAACAAAATAAAATTAA
Found at i:54872997 original size:21 final size:20
Alignment explanation
Indices: 54872956--54873014 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
54872946 TTTCCTCTTC
54872956 ATTCCCTCTTCATTCCCAAA
1 ATTCCCTCTTCATTCCCAAA
* *
54872976 ATTCCCTCTTCCGTTTCCAAA
1 ATTCCCTCTT-CATTCCCAAA
*
54872997 ATTCCCTCTTAATTCCCA
1 ATTCCCTCTTCATTCCCA
54873015 GGTTATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.22, C:0.39, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTCCCTCTTCATTCCCAAA
Found at i:54874953 original size:42 final size:42
Alignment explanation
Indices: 54874836--54874984 Score: 149
Period size: 42 Copynumber: 3.5 Consensus size: 42
54874826 AGGGTTACTA
* * * * * *
54874836 AGACTACGTGTTAGACCATATTTAGGATATGGGATCAATATG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
54874878 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
* * * *
54874920 AGACTTCGT-TAAGACCATAGT-TGGGCTATTGGCATCGATACG
1 AGACTACATGTAAGACCATA-TCTGGGATA-TGGCATCGATATG
* * *
54874962 AGATTAAATGTAAGACTATATCT
1 AGACTACATGTAAGACCATATCT
54874985 ACTATAGGAC
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 16 0.18
42 62 0.70
43 10 0.11
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (42 bp):
AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:54880306 original size:20 final size:21
Alignment explanation
Indices: 54880255--54880306 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
54880245 ATGTGGTCAC
54880255 ACAC-GCCTGTGTGGCTTGTG
1 ACACTGCCTGTGTGGCTTGTG
*
54880275 ACACT-CCCGTGTGGCTTGTG
1 ACACTGCCTGTGTGGCTTGTG
54880295 ACA-TGCCTGTGT
1 ACACTGCCTGTGT
54880307 CCTCAGTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.31
Consensus pattern (21 bp):
ACACTGCCTGTGTGGCTTGTG
Found at i:54881769 original size:90 final size:90
Alignment explanation
Indices: 54881577--54881748 Score: 236
Period size: 90 Copynumber: 1.9 Consensus size: 90
54881567 ACCAAATAGG
* *
54881577 GTGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGACCACACATCGATGCCATATCCCAGATA
1 GTGCCGAAGCCATGTCCCAAACATGGTCTTACACGGGACCACACATCGATGCCATATCCCAGATA
* *
54881642 TTGTCTTATACGAAGTCTCAAATCA
66 TGGTCTTATACGAAATCTCAAATCA
* * ** * * * *
54881667 GTGCCGACGCCATGTCCCAGACATGGTCTTACACGGGACTTCATATCGATGCCATGTCCTAGGTA
1 GTGCCGAAGCCATGTCCCAAACATGGTCTTACACGGGACCACACATCGATGCCATATCCCAGATA
54881732 TGGTCTTATACGAAATC
66 TGGTCTTATACGAAATC
54881749 ATTTATCGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (90 bp):
GTGCCGAAGCCATGTCCCAAACATGGTCTTACACGGGACCACACATCGATGCCATATCCCAGATA
TGGTCTTATACGAAATCTCAAATCA
Found at i:54881831 original size:48 final size:48
Alignment explanation
Indices: 54881752--54881844 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
54881742 CGAAATCATT
** *
54881752 TATCGATGCTGAAGCCATATCCTTGATATGGT-ATTACACAGGATCGCA
1 TATCGATGCTGAAGCCATATCCCAGACATGGTCA-TACACAGGATCGCA
* * *
54881800 TATCGATGCTGATGCCATGTCCCAGACATGGTCATACACGGGATC
1 TATCGATGCTGAAGCCATATCCCAGACATGGTCATACACAGGATC
54881845 TCGTTAATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 37 0.97
49 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (48 bp):
TATCGATGCTGAAGCCATATCCCAGACATGGTCATACACAGGATCGCA
Found at i:54893296 original size:28 final size:27
Alignment explanation
Indices: 54893251--54893353 Score: 133
Period size: 28 Copynumber: 3.9 Consensus size: 27
54893241 CTCTTTGGTA
54893251 GGTGTGTTTTGGATGGATTATATTATTCT
1 GGTGTGTTTTGGA-GGATTATATTA-TCT
* *
54893280 GGTGTGTTTGGGAGGATTATATGATACT
1 GGTGTGTTTTGGAGGATTATATTAT-CT
54893308 GGTGTGTTTTGGAGGA-T-TA-TA-CT
1 GGTGTGTTTTGGAGGATTATATTATCT
54893331 GGTGTGTTTTGGAGGATTATATT
1 GGTGTGTTTTGGAGGATTATATT
54893354 GGTGTGTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
23 18 0.27
24 1 0.02
25 3 0.05
26 3 0.05
27 2 0.03
28 27 0.41
29 12 0.18
ACGTcount: A:0.18, C:0.03, G:0.33, T:0.46
Consensus pattern (27 bp):
GGTGTGTTTTGGAGGATTATATTATCT
Found at i:54893329 original size:23 final size:23
Alignment explanation
Indices: 54893303--54893365 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
54893293 GGATTATATG
54893303 ATACTGGTGTGTTTTGGAGGATT
1 ATACTGGTGTGTTTTGGAGGATT
54893326 ATACTGGTGTGTTTTGGAGGATT
1 ATACTGGTGTGTTTTGGAGGATT
*
54893349 ATATTGGTGTGTTTTGG
1 ATACTGGTGTGTTTTGG
54893366 TTGGACATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.16, C:0.03, G:0.35, T:0.46
Consensus pattern (23 bp):
ATACTGGTGTGTTTTGGAGGATT
Found at i:54893378 original size:23 final size:23
Alignment explanation
Indices: 54893307--54893385 Score: 97
Period size: 23 Copynumber: 3.4 Consensus size: 23
54893297 TATATGATAC
* *
54893307 TGGTGTGTTTTGGAGGATTATAC
1 TGGTGTGTTTTGGAGGATCATAT
*
54893330 TGGTGTGTTTTGGAGGATTATAT
1 TGGTGTGTTTTGGAGGATCATAT
* *
54893353 TGGTGTGTTTTGGTTGGA-CATTT
1 TGGTGTGTTTTGG-AGGATCATAT
54893376 TGGTGTGTTT
1 TGGTGTGTTT
54893386 GGATGGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 48 0.94
24 3 0.06
ACGTcount: A:0.13, C:0.03, G:0.35, T:0.49
Consensus pattern (23 bp):
TGGTGTGTTTTGGAGGATCATAT
Found at i:54893593 original size:22 final size:23
Alignment explanation
Indices: 54893556--54893600 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
54893546 GCTTTACTGA
54893556 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
54893579 TCAGGCAC-TTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
54893601 CTGATCAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:54896187 original size:27 final size:27
Alignment explanation
Indices: 54896157--54896263 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
54896147 AATACTCTCA
54896157 ATTTGTAAAATTG-CCGAAATACCCTTG
1 ATTTGTAAAA-TGACCGAAATACCCTTG
* *
54896184 ATTTGTAAAATTACTGAAATACCCTTG
1 ATTTGTAAAATGACCGAAATACCCTTG
* * * *
54896211 GTCTGTAAAATGATCGTAATACCCTTG
1 ATTTGTAAAATGACCGAAATACCCTTG
**
54896238 -TGGGTAAAATGACCGAAATACCCTTG
1 ATTTGTAAAATGACCGAAATACCCTTG
54896264 TAGTGCAAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
26 23 0.34
27 44 0.66
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (27 bp):
ATTTGTAAAATGACCGAAATACCCTTG
Found at i:54896301 original size:80 final size:80
Alignment explanation
Indices: 54896161--54896316 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
54896151 CTCTCAATTT
* * * * * * *
54896161 GTAAAATTGCCGAAATACCCTTGATTTGTAAAATTACTGAAATACCCTTGGTCTGTAAAATGATC
1 GTAAAATTGCCGAAATACCCTTGATGTGCAAAATTACTAAAATACCCTTGATCAGCAAAATGACC
54896226 GTAATACCCTTGTGG
66 GTAATACCCTTGTGG
*
54896241 GTAAAA-TGACCGAAATACCCTTG-TAGTGCAAAATTACTAAAATACCCTT-ATAGAGCAAAATG
1 GTAAAATTG-CCGAAATACCCTTGAT-GTGCAAAATTACTAAAATACCCTTGAT-CAGCAAAATG
54896303 ACCGTAATACCCTT
63 ACCGTAATACCCTT
54896317 ATATGGTAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 4 0.06
80 61 0.94
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (80 bp):
GTAAAATTGCCGAAATACCCTTGATGTGCAAAATTACTAAAATACCCTTGATCAGCAAAATGACC
GTAATACCCTTGTGG
Found at i:54896311 original size:27 final size:27
Alignment explanation
Indices: 54896217--54896319 Score: 100
Period size: 27 Copynumber: 3.9 Consensus size: 27
54896207 CTTGGTCTGT
* * * * *
54896217 AAAATGATCGTAATACCCTTGT-GGGT
1 AAAATGACCGAAATACCCTTATAGAGC
* *
54896243 AAAATGACCGAAATACCCTTGTAGTGC
1 AAAATGACCGAAATACCCTTATAGAGC
* **
54896270 AAAATTACTAAAATACCCTTATAGAGC
1 AAAATGACCGAAATACCCTTATAGAGC
*
54896297 AAAATGACCGTAATACCCTTATA
1 AAAATGACCGAAATACCCTTATA
54896320 TGGTAATATG
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 20 0.32
27 43 0.68
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTTATAGAGC
Found at i:54896497 original size:27 final size:28
Alignment explanation
Indices: 54896467--54896520 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
54896457 TTGGAGGAAG
54896467 TACTG-TATAATGGCTTTGCCACGTTTT
1 TACTGTTATAATGGCTTTGCCACGTTTT
* **
54896494 TACTGTTCTGGTGGCTTTGCCACGTTT
1 TACTGTTATAATGGCTTTGCCACGTTT
54896521 ACTGGTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.44
Consensus pattern (28 bp):
TACTGTTATAATGGCTTTGCCACGTTTT
Found at i:54896572 original size:23 final size:23
Alignment explanation
Indices: 54896528--54896573 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
54896518 TTTACTGGTA
* * **
54896528 TTAGCAGCTTTGTTGCGTTATTG
1 TTAGCAGCTTCGCTGCAATATTG
54896551 TTAGCAGCTTCGCTGCAATATTG
1 TTAGCAGCTTCGCTGCAATATTG
54896574 GTGTGTTGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (23 bp):
TTAGCAGCTTCGCTGCAATATTG
Found at i:54899180 original size:41 final size:40
Alignment explanation
Indices: 54899082--54899227 Score: 134
Period size: 41 Copynumber: 3.5 Consensus size: 40
54899072 TTTTATCAAA
* *
54899082 TCACCGGCATTTAGCCTGCTAGGT-TTTAAACCCGAATTCA-
1 TCACCGGCATTTAGCCTGCTA-GTCTTTAAGCCTGAA-TCAT
*** *
54899122 TCACCGGCACGAAGCCTGCTAGTCTTTAAGTCTGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGTCTTTAAGCCTGAA-TCAT
* * *
54899163 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCTGATATCATT
1 TCACCGGCATTTAGCCTGCTAGTCTTTAAGCCTGA-ATCA-T
*
54899205 TCACTGGCATTATAGCCTGCTAG
1 TCACCGGCATT-TAGCCTGCTAG
54899228 GCCCGAAGCC
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.02
40 30 0.35
41 31 0.36
42 12 0.14
43 10 0.12
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TCACCGGCATTTAGCCTGCTAGTCTTTAAGCCTGAATCAT
Found at i:54899229 original size:43 final size:43
Alignment explanation
Indices: 54899162--54899285 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
54899152 TCTGAACTCA
* * **
54899162 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCTGATATCAT
1 TTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATCAT
* *
54899204 TTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 TTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATCAT
*
54899247 CTT-ACTGGCATTATAGCTTGCTAGGCCCGAAGCCTGATA
1 -TTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCTGATA
54899286 ATATTATTCA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
42 11 0.15
43 59 0.82
44 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (43 bp):
TTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATCAT
Found at i:54900773 original size:15 final size:15
Alignment explanation
Indices: 54900753--54900782 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54900743 TGTCATCTCT
54900753 TATTTTCTATTTTTC
1 TATTTTCTATTTTTC
*
54900768 TATTTTCTCTTTTTC
1 TATTTTCTATTTTTC
54900783 ATTATACTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTCTATTTTTC
Found at i:54902102 original size:60 final size:59
Alignment explanation
Indices: 54901978--54902118 Score: 171
Period size: 60 Copynumber: 2.4 Consensus size: 59
54901968 CCCAACTGTG
* * *
54901978 TTGATATGGGCAAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTGATA
1 TTGATATGGGCTAGGCCCAGTATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
* *
54902037 CTGATATGGGCTAGGCCCAGTATA-CTCTGA-TACTGTA-AGGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAGGCCCAGTATATCTC-GACT--TGTATA-GGGCTACGGCCCAGATTAATA
54902097 TTGATATGGGCTAAGGCCCAGT
1 TTGATATGGGCT-AGGCCCAGT
54902119 TAACACTAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
58 4 0.06
59 24 0.34
60 34 0.48
61 9 0.13
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (59 bp):
TTGATATGGGCTAGGCCCAGTATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
Found at i:54904755 original size:14 final size:15
Alignment explanation
Indices: 54904726--54904755 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
54904716 CAAAATTTAG
54904726 ACATGATACTTTCAC
1 ACATGATACTTTCAC
54904741 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
54904755 A
1 A
54904756 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:54909236 original size:43 final size:43
Alignment explanation
Indices: 54909176--54909296 Score: 181
Period size: 43 Copynumber: 2.8 Consensus size: 43
54909166 AAACTCATTC
* * *
54909176 ACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCATTTT
1 ACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCATCTT
* *
54909218 ATCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATTATCTT
1 ACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCATCTT
*
54909261 ACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 ACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
54909297 ATATTATTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 8 0.11
43 63 0.89
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (43 bp):
ACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCATCTT
Found at i:54911232 original size:14 final size:15
Alignment explanation
Indices: 54911203--54911232 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
54911193 CAAAATTGAG
54911203 ACATGATACTTTCAC
1 ACATGATACTTTCAC
54911218 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
54911232 A
1 A
54911233 TATAATAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:54911885 original size:39 final size:39
Alignment explanation
Indices: 54911831--54911908 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
54911821 ACGACCATAC
*
54911831 AAAGCCACATTAGGTGCCATTTTGATACTCGATTGAAAG
1 AAAGCCACATAAGGTGCCATTTTGATACTCGATTGAAAG
*
54911870 AAAGCCTCATAAGGTGCCATTTTGATACTCGATTGAAAG
1 AAAGCCACATAAGGTGCCATTTTGATACTCGATTGAAAG
54911909 CTATTATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (39 bp):
AAAGCCACATAAGGTGCCATTTTGATACTCGATTGAAAG
Found at i:54915997 original size:39 final size:40
Alignment explanation
Indices: 54915896--54916080 Score: 157
Period size: 40 Copynumber: 4.7 Consensus size: 40
54915886 TTGAATGATG
* *
54915896 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
54915935 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
54915976 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * * *
54916015 TCCGGGTTAAGTCCCAAAGGCAATTGTGCGAGTTAAT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
54916054 AACCGGGCTATGTCCCGAAGGCGTTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
54916081 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
39 35 0.29
40 71 0.60
41 12 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:54926698 original size:53 final size:54
Alignment explanation
Indices: 54926629--54926835 Score: 184
Period size: 53 Copynumber: 3.8 Consensus size: 54
54926619 TTCCTTTTTA
* * *
54926629 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTGTCCTTGCCTTAT-G
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTGTCCTTGCCTTATAG
* * ** *
54926682 AACTTACCATTGCCATGCCTTGGCATGGTCTTATATGG-GATTTTTGCCTTATCG
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTG-TCCTTGCCTTATAG
** * * * * * * * * *
54926736 TAGTTTATCAGTGCCATGTCTTGACATGTTCTTACATGATTTCTTTGCCTTGTAA
1 -AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTGTCCTTGCCTTATAG
* * *
54926791 AACTTACCAATGCCATGCCTTGGCACGGTCTTACATGGTGTCCTT
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTGTCCTT
54926836 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 32, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
52 1 0.01
53 43 0.36
54 35 0.30
55 39 0.33
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (54 bp):
AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTGTCCTTGCCTTATAG
Found at i:54929084 original size:46 final size:46
Alignment explanation
Indices: 54928948--54929084 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
54928938 TATATATACA
* * * * *
54928948 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCATATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
54928994 CATCTCATACACGTTTCGCATTAGCCATTCGCCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* **
54929040 CATCTCGTACACATTTCGCATTAGCCATTCGGCTTCGCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
54929085 ATACACTTCC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.24, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:54929117 original size:47 final size:46
Alignment explanation
Indices: 54929058--54929197 Score: 156
Period size: 47 Copynumber: 3.0 Consensus size: 46
54929048 ACACATTTCG
* * *
54929058 CATTAGCCATTCGGCTTCGCCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCTT-ACCACATATATACA-TGTCCACATTCATCA
* * *
54929105 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGG-CTTACCACATATATACATGTCCACATTCATCA
* * *
54929152 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
1 CATTGGCCATTCGG-CTTACCACATATATACATGTCCACATTCATC
54929198 TTATAAAATC
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
46 1 0.01
47 81 0.95
48 3 0.04
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (46 bp):
CATTGGCCATTCGGCTTACCACATATATACATGTCCACATTCATCA
Found at i:54929127 original size:22 final size:22
Alignment explanation
Indices: 54929101--54929176 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
54929091 TTCCACGTTC
54929101 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
54929123 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
54929147 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
54929170 ATCACAT
1 ATCACAT
54929177 ATATGCATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 17 0.41
23 7 0.17
24 7 0.17
25 10 0.24
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:54939653 original size:93 final size:92
Alignment explanation
Indices: 54939495--54939665 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 92
54939485 CGCCCATAAG
* *
54939495 CGAACTCGGACTCAACTCAAGAGCTCGGGCGCTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAAGAGCTCGGACGATTGCATCCATAAGTGAACTCGGACTCAACTCAA
54939560 CGAGCTCGGATGCCTAGTTACATTTCA
66 CGAGCTCGGATGCCTAGTTACATTTCA
*
54939587 CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAA-GAGCTCGGACGATT-GCATCCATAAGTGAACTCGGACTCAACTC
54939651 AACGAGCTCGGATGC
64 AACGAGCTCGGATGC
54939666 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
92 22 0.30
93 52 0.70
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAAGAGCTCGGACGATTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATTTCA
Done.