Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 276 of 284
Found at i:92763519 original size:28 final size:28
Alignment explanation
Indices: 92763456--92763553 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
92763446 ATATTAAGTC
*
92763456 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
92763483 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
92763511 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
92763540 CGCACACTTAGTGC
1 CGCACACTTAGTGC
92763554 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:92764011 original size:2 final size:2
Alignment explanation
Indices: 92764004--92764033 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
92763994 CATACTTATG
*
92764004 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
92764034 CTTCGGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:92785581 original size:43 final size:43
Alignment explanation
Indices: 92785493--92785599 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
92785483 AGTGATCACA
* * * *
92785493 TGTAAGACCATGTCTAGGACATTGGCATTGTATTGAGATTACG
1 TGTAAGACCATGTCTGGGACATTAGCATTGTAATCAGATTACG
* *
92785536 TGTGAGACCATGTCTGGGACATTAGCATTGTTAATCA-ATTTCG
1 TGTAAGACCATGTCTGGGACATTAGCATTG-TAATCAGATTACG
* *
92785579 TGTAAGACCTTGTTTGGGACA
1 TGTAAGACCATGTCTGGGACA
92785600 GTGGCATCGA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 50 0.93
44 4 0.07
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTAGCATTGTAATCAGATTACG
Found at i:92788370 original size:46 final size:45
Alignment explanation
Indices: 92788317--92788492 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
92788307 TATTTGGGCA
*
92788317 TCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
92788363 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
92788410 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
92788456 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
92788493 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 65 0.60
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:92788472 original size:93 final size:93
Alignment explanation
Indices: 92788313--92788484 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
92788303 AGGATATTTG
*
92788313 GGCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
92788378 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
92788406 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAACGTCC-GAACTCGTTGA
92788470 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
92788485 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:92792305 original size:38 final size:38
Alignment explanation
Indices: 92792208--92792353 Score: 168
Period size: 38 Copynumber: 3.8 Consensus size: 38
92792198 CAAGGTATAA
* * *
92792208 AACCCGAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCGAATATAATACCAGCACGAAGCCTGCGGGA-TTT
* * *
92792247 AAACTC-AGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCGA-ATATAATACCAGCACGAAGCCTGCGGGATTT
92792286 AACCCGAATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGAATATAATACCAGCACGAAGCCTGCGGGATTT
* * **
92792324 AACCCGGATATAATTCCAGCATAAAGCCTG
1 AACCCGAATATAATACCAGCACGAAGCCTG
92792354 TGGGTCTTTA
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
38 59 0.65
39 5 0.05
40 27 0.30
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.18
Consensus pattern (38 bp):
AACCCGAATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:92809412 original size:17 final size:17
Alignment explanation
Indices: 92809390--92809424 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
92809380 TTTTCAAAGA
92809390 TAGATTTGAGATGGGGT
1 TAGATTTGAGATGGGGT
*
92809407 TAGATTTGATATGGGGT
1 TAGATTTGAGATGGGGT
92809424 T
1 T
92809425 GTTATCAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (17 bp):
TAGATTTGAGATGGGGT
Found at i:92814795 original size:43 final size:42
Alignment explanation
Indices: 92814748--92814863 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 42
92814738 TGTGATTACA
*
92814748 TGTAAGACCATGTCTGGGACATTGGAATTGTATTAA-GATTAT-G
1 TGTAAGACCATGTCTGGGACATTGGAATCG--TTAACGATT-TCG
*
92814791 TGTAAGACCATGTCTGGGACATTGGTATCGTTAATCGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGAATCGTTAA-CGATTTCG
* * *
92814834 TGTAAGACCCTGTCTGGGACAATGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGAATCG
92814864 ATATGTCTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
41 4 0.06
42 1 0.02
43 60 0.92
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGAATCGTTAACGATTTCG
Found at i:92820237 original size:19 final size:20
Alignment explanation
Indices: 92820208--92820246 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
92820198 AAAGGGACAT
92820208 TATGATTAAATTATGATGTG
1 TATGATTAAATTATGATGTG
*
92820228 TATG-TTAAATTATTATGTG
1 TATGATTAAATTATGATGTG
92820247 ATTGTTCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (20 bp):
TATGATTAAATTATGATGTG
Found at i:92828526 original size:19 final size:20
Alignment explanation
Indices: 92828489--92828527 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
92828479 AAGTTAATAA
*
92828489 AAATTTTGATTAAGGTGGAT
1 AAATTTTGATTAAGATGGAT
*
92828509 AAATTTT-ATTACGATGGAT
1 AAATTTTGATTAAGATGGAT
92828528 GACAGTGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.41
Consensus pattern (20 bp):
AAATTTTGATTAAGATGGAT
Found at i:92835769 original size:49 final size:48
Alignment explanation
Indices: 92835688--92835845 Score: 151
Period size: 49 Copynumber: 3.3 Consensus size: 48
92835678 TCCAAATATG
* * * * *
92835688 GTCTTACACTGGCTCACACATCTAAGT-TGATGCCATGTCCTAGACAA
1 GTCTTACACTGACTCTCATATATCAGTGTGATGCCATGTCCTAGACAA
* * * *
92835735 GTCTTAAACTGACT-TCCATATATCGAG-GCTGATGCCATGTCCCAGATAG
1 GTCTTACACTGACTCT-CATATATC-AGTG-TGATGCCATGTCCTAGACAA
* * *
92835784 GTCTTACACTGGCTCTCATCTATCAGTGTCGATGCCATGTCTTAGACAA
1 GTCTTACACTGACTCTCATATATCAGTGT-GATGCCATGTCCTAGACAA
92835833 GTCTTACACTGAC
1 GTCTTACACTGAC
92835846 ACATGTCAAG
Statistics
Matches: 87, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
47 17 0.20
48 5 0.06
49 64 0.74
50 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
GTCTTACACTGACTCTCATATATCAGTGTGATGCCATGTCCTAGACAA
Found at i:92835888 original size:93 final size:92
Alignment explanation
Indices: 92835687--92835890 Score: 243
Period size: 93 Copynumber: 2.2 Consensus size: 92
92835677 TTCCAAATAT
92835687 GGTCTTACACTGGCTCACACATCTAAGTTGATGCCATGTCCTAGACAAGTCTTAAACTGACTTCC
1 GGTCTTACACTGGCTCACACATC-AAGTTGATGCCATGTCCTAGACAAGTCTTAAACTGA---CC
* * * *
92835752 ATATATCGAGGCTGATGCCATGTCCCAGATA
62 ACATATCGAAGCCGATGCCATGTCCCAGACA
* * *
92835783 GGTCTTACACTGGCTCTCATCTATC-AGTGTCGATGCCATGTCTTAGACAAGTCTTACACTGA-C
1 GGTCTTACACTGGCTCACA-C-ATCAAGT-T-GATGCCATGTCCTAGACAAGTCTTAAACTGACC
*
92835846 ACATGTC-AAGCCGATGCCATGTCCCAGACA
62 ACATATCGAAGCCGATGCCATGTCCCAGACA
92835876 GGTCTTACACTGGCT
1 GGTCTTACACTGGCT
92835891 TGCGTATCTC
Statistics
Matches: 96, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
93 35 0.36
94 6 0.06
96 21 0.22
97 2 0.02
98 32 0.33
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (92 bp):
GGTCTTACACTGGCTCACACATCAAGTTGATGCCATGTCCTAGACAAGTCTTAAACTGACCACAT
ATCGAAGCCGATGCCATGTCCCAGACA
Found at i:92835910 original size:93 final size:93
Alignment explanation
Indices: 92835765--92836029 Score: 240
Period size: 92 Copynumber: 2.8 Consensus size: 93
92835755 TATCGAGGCT
* * * **
92835765 GATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCAGTGTCGATGCCATGTCTTAGA
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCT-TCATATATCAGTGCCGATG-CATGTCCCAGA
92835830 CAAGTCTTACACT-GACACAT-GTC-AA-GCC
64 CAAGTCTTACACTAG-C-CATCGTCTAATGCC
* * *
92835858 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTGCGTATCTCGAG-GCCGATGTATGTCCCAGA
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTT-CATATATC-AGTGCCGATGCATGTCCCAGA
* **
92835922 CATGTCTTACACTAGCTTTCGTCTTAATGCC
64 CAAGTCTTACACTAGCCATCGTC-TAATGCC
* * * * * *
92835953 GATG-CATGTCCTAGACATGTCTTACACTGGCTT--TCGTCTCAATGCCAATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTCAT-ATATCAGTGCCGATGCATGTCCCAGAC
*
92836015 ATGTCTTACACTAGC
65 AAGTCTTACACTAGC
92836030 ACACATATCA
Statistics
Matches: 146, Mismatches: 17, Indels: 19
0.80 0.09 0.10
Matches are distributed among these distances:
91 3 0.02
92 61 0.42
93 44 0.30
94 31 0.21
95 7 0.05
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (93 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGGCTTCATATATCAGTGCCGATGCATGTCCCAGACA
AGTCTTACACTAGCCATCGTCTAATGCC
Found at i:92835971 original size:46 final size:46
Alignment explanation
Indices: 92835851--92836029 Score: 234
Period size: 46 Copynumber: 3.8 Consensus size: 46
92835841 CTGACACATG
* * *
92835851 TCAA-GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTGCGTATC
1 TCAATGCCGATG-CATGTCCCAGACATGTCTTACACTAGCTTTCG--TC
* * *
92835899 TCGAGGCCGATGTATGTCCCAGACATGTCTTACACTAGCTTTCGTC
1 TCAATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTC
* * *
92835945 TTAATGCCGATGCATGTCCTAGACATGTCTTACACTGGCTTTCGTC
1 TCAATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTC
*
92835991 TCAATGCCAATGCATGTCCCAGACATGTCTTACACTAGC
1 TCAATGCCGATGCATGTCCCAGACATGTCTTACACTAGC
92836030 ACACATATCA
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
46 77 0.67
48 31 0.27
49 7 0.06
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
TCAATGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTC
Found at i:92836020 original size:92 final size:94
Alignment explanation
Indices: 92835855--92836029 Score: 264
Period size: 92 Copynumber: 1.9 Consensus size: 94
92835845 CACATGTCAA
* * *
92835855 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTGCGTATCTCGAGGCCGATGTATGTCCCA
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTGCG-ATCTCAAGGCCAATGCATGTCCCA
92835920 GACATGTCTTACACTAGCTTTCGTCTTAAT
65 GACATGTCTTACACTAGCTTTCGTCTTAAT
* * * *
92835950 GCCGATG-CATGTCCTAGACATGTCTTACACTGGCTTTCG-TCTCAATGCCAATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTGCGATCTCAAGGCCAATGCATGTCCCAG
92836013 ACATGTCTTACACTAGC
66 ACATGTCTTACACTAGC
92836030 ACACATATCA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
92 37 0.51
94 29 0.40
95 7 0.10
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTGCGATCTCAAGGCCAATGCATGTCCCAG
ACATGTCTTACACTAGCTTTCGTCTTAAT
Found at i:92840776 original size:42 final size:42
Alignment explanation
Indices: 92840717--92840827 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
92840707 TGCCGATACT
* ** * *
92840717 ATGTCCCAGACATGGTCTTATACGGGACCTCATATCGATGCC
1 ATGTCCCAGACATGGTCTTACACGAAACCTCATATCAACGCC
*
92840759 ATGTCCCAGACATGGTCTTACACGAAATCTCATATCAACGCC
1 ATGTCCCAGACATGGTCTTACACGAAACCTCATATCAACGCC
* * *
92840801 ATATCCCAGATATGGTCTTACATGAAA
1 ATGTCCCAGACATGGTCTTACACGAAA
92840828 TCACATACCG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTACACGAAACCTCATATCAACGCC
Found at i:92840784 original size:90 final size:90
Alignment explanation
Indices: 92840627--92840791 Score: 226
Period size: 90 Copynumber: 1.8 Consensus size: 90
92840617 TGCCAAAGCC
* * * *
92840627 ATGTCCCCAACATGGTCTTACATGGGTCTACATACCGATGCCATATCCCAGATATGGTCTTATAC
1 ATGTCCCCAACATGGTCTTACACGGGCCTACATACCGATGCCATATCCCAGACATGGTCTTACAC
*
92840692 GAAGTCTCATGTCGGTGCCGATACT
66 GAAATCTCATGTCGGTGCCGATACT
* * *
92840717 ATGT-CCCAGACATGGTCTTATACGGGACCT-CATATCGATGCCATGTCCCAGACATGGTCTTAC
1 ATGTCCCCA-ACATGGTCTTACACGGG-CCTACATACCGATGCCATATCCCAGACATGGTCTTAC
92840780 ACGAAATCTCAT
64 ACGAAATCTCAT
92840792 ATCAACGCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
89 4 0.06
90 59 0.91
91 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (90 bp):
ATGTCCCCAACATGGTCTTACACGGGCCTACATACCGATGCCATATCCCAGACATGGTCTTACAC
GAAATCTCATGTCGGTGCCGATACT
Found at i:92843273 original size:20 final size:20
Alignment explanation
Indices: 92843248--92843289 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
92843238 TTAATCACTT
*
92843248 TAATATTAAATTTAATCTAA
1 TAATATTAAATTAAATCTAA
* *
92843268 TAATATTAGATTAAATTTAA
1 TAATATTAAATTAAATCTAA
92843288 TA
1 TA
92843290 TTAAATCTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TAATATTAAATTAAATCTAA
Found at i:92843873 original size:24 final size:24
Alignment explanation
Indices: 92843846--92843891 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
92843836 CTTAAAAAAT
92843846 ATTAAATTAATTTTAATTGATTTA
1 ATTAAATTAATTTTAATTGATTTA
* *
92843870 ATTAATTTAATTTTACTTGATT
1 ATTAAATTAATTTTAATTGATT
92843892 AAAATTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTAAATTAATTTTAATTGATTTA
Found at i:92845071 original size:16 final size:16
Alignment explanation
Indices: 92845050--92845080 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92845040 TTATGCATGC
*
92845050 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
92845066 AAAATACAAAAGACA
1 AAAATACAAAAGACA
92845081 TAATAGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:92849208 original size:43 final size:42
Alignment explanation
Indices: 92849160--92849327 Score: 178
Period size: 43 Copynumber: 4.0 Consensus size: 42
92849150 AGGATTTTCA
* *
92849160 ATATGTGTTCTCATGTAAGACCATGTCTGGGATGTTGGCATCG
1 ATATGTGAT-TCATGTAAGACCATGTCTGGGACGTTGGCATCG
* * *
92849203 ATATGTGATTACGTGTAACACCATGTCTGGGACATTGGCATCG
1 ATATGTGATT-CATGTAAGACCATGTCTGGGACGTTGGCATCG
* * * *
92849246 -TATTTGATTCGTGTAAGACCCTGTCTGAGACAG-TGGCATCG
1 ATATGTGATTCATGTAAGACCATGTCTGGGAC-GTTGGCATCG
* * *
92849287 TTATGTGATGGCATGTAAGACCATGTCTGGGACGTTAGCAT
1 ATATGTGAT-TCATGTAAGACCATGTCTGGGACGTTGGCAT
92849328 TGTACAATAT
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 27 0.26
42 17 0.16
43 60 0.58
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
ATATGTGATTCATGTAAGACCATGTCTGGGACGTTGGCATCG
Found at i:92849271 original size:41 final size:42
Alignment explanation
Indices: 92849173--92849319 Score: 179
Period size: 43 Copynumber: 3.5 Consensus size: 42
92849163 TGTGTTCTCA
**
92849173 TGTAAGACCATGTCTGGGATGTTGGCATCGATATGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATT-CG
* *
92849216 TGTAACACCATGTCTGGGACATTGGCATCG-TATTTGATTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTCG
* * * * * *
92849257 TGTAAGACCCTGTCTGAGACAGTGGCATCGTTATGTGATGGCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGAT-TCG
92849300 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
92849320 GTTAGCATTG
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 28 0.31
42 15 0.17
43 46 0.52
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTCG
Found at i:92854193 original size:20 final size:19
Alignment explanation
Indices: 92854167--92854218 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 19
92854157 TTGGAGCAGG
*
92854167 AATATCGATACCTTAGGAA
1 AATATCGATACCTTAAGAA
92854186 ATATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
92854206 AAGTATCGATACC
1 AA-TATCGATACC
92854219 AGATTGATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.27
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:92856039 original size:18 final size:18
Alignment explanation
Indices: 92856016--92856053 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
92856006 GGTCCAGAAT
92856016 CCCACACACCCGTGTGGC
1 CCCACACACCCGTGTGGC
**
92856034 CCCACATGCCCGTGTGGC
1 CCCACACACCCGTGTGGC
92856052 CC
1 CC
92856054 ATACGACCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.50, G:0.24, T:0.13
Consensus pattern (18 bp):
CCCACACACCCGTGTGGC
Found at i:92859090 original size:20 final size:20
Alignment explanation
Indices: 92859065--92859120 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
92859055 TTTTAAATTT
*
92859065 TAAAAATTCAAAATAATATA
1 TAAAAATTTAAAATAATATA
* *
92859085 TAAAAATTTAAAAT-TTTTA
1 TAAAAATTTAAAATAATATA
92859104 TAAAAAATTTAAAATAA
1 T-AAAAATTTAAAATAA
92859121 AAGTAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAATTTAAAATAATATA
Found at i:92860761 original size:20 final size:21
Alignment explanation
Indices: 92860738--92860777 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
92860728 TAAAATGGTA
92860738 AAATATTAAATAA-ATATAAT
1 AAATATTAAATAATATATAAT
* *
92860758 AAATTTTAATTAATATATAA
1 AAATATTAAATAATATATAA
92860778 GTTTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATATTAAATAATATATAAT
Found at i:92868480 original size:83 final size:83
Alignment explanation
Indices: 92868372--92868544 Score: 301
Period size: 83 Copynumber: 2.1 Consensus size: 83
92868362 TAAGGCATTT
* *
92868372 GACAATGGGTACTATTGTTGATCTATACGATTGAATGTGTTTGTTATAACTCATCGATGGTGGTG
1 GACAATGGGTACTATTGTTGATCTATACGATTGAATATGTTTGTTATAACTCATCGATGGTGATG
92868437 ATGATGAATATTGGTAAA
66 ATGATGAATATTGGTAAA
* *
92868455 GACAATGGGTATTATTGTTGATCTATACGATTGAGTATGTTTGTTATAACTCATCGATGGTGATG
1 GACAATGGGTACTATTGTTGATCTATACGATTGAATATGTTTGTTATAACTCATCGATGGTGATG
92868520 ATGATGAATATTGGTAAA
66 ATGATGAATATTGGTAAA
*
92868538 GAGAATG
1 GACAATG
92868545 ACAGGAGAGA
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 85 1.00
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.37
Consensus pattern (83 bp):
GACAATGGGTACTATTGTTGATCTATACGATTGAATATGTTTGTTATAACTCATCGATGGTGATG
ATGATGAATATTGGTAAA
Found at i:92874808 original size:46 final size:45
Alignment explanation
Indices: 92874642--92874817 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
92874632 TGTAACCCGC
* *
92874642 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCTCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATT-TCAT
* * * *
92874688 CCATGAGTGAACTCAGTCTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTTCAT
* *
92874738 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTT-CAT
92874781 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
92874818 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 27 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTCAT
Found at i:92874809 original size:93 final size:93
Alignment explanation
Indices: 92874650--92874821 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
92874640 GCCCATAAGT
* * *
92874650 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCTCATCCATGAGTGAACTCAGTCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCTCATCCATAAGTGAACTCAGACTCAACTCAA
92874715 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
92874743 GAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCT-CATCCATAAGTGAACTCAGACTCAACTCA
92874807 ACGAGTTCGGATGCC
65 ACGAGTTCGGATGCC
92874822 CAAATATCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCTCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:92875898 original size:81 final size:81
Alignment explanation
Indices: 92875790--92875943 Score: 274
Period size: 81 Copynumber: 1.9 Consensus size: 81
92875780 TCATAAAATA
92875790 ATTATTTCTATCTCGGATTTTGTGGTCACGAAACCACTATTCTGACTAGGCCCAAAATCAGGATA
1 ATTATTTCTATCTCGGATTTTGTGGTCACGAAACCACTATTCTGACTAGGCCCAAAATCAGGATA
92875855 TTACAACTGGTATATG
66 TTACAACTGGTATATG
* *
92875871 ATTATTT-TGATCTTGGATTTTGTGGTCACGAAACCACTATTCTGACTAGGCCCAAAATTAGGAT
1 ATTATTTCT-ATCTCGGATTTTGTGGTCACGAAACCACTATTCTGACTAGGCCCAAAATCAGGAT
92875935 ATTACAACT
65 ATTACAACT
92875944 TAATTCATCT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
80 1 0.01
81 69 0.99
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (81 bp):
ATTATTTCTATCTCGGATTTTGTGGTCACGAAACCACTATTCTGACTAGGCCCAAAATCAGGATA
TTACAACTGGTATATG
Found at i:92883901 original size:47 final size:47
Alignment explanation
Indices: 92883848--92883941 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
92883838 TTCTTTTGAT
*
92883848 AAAATGTAAATAAGTAGATTAGCGATGTAAAAATAGAATACAAATGC
1 AAAATGTAAATAAGTAGATTAGCGATGTAAAAATACAATACAAATGC
92883895 AAAATGTAAATAAGTAGATTAGCGATGTAAAAATACAATACAAATGC
1 AAAATGTAAATAAGTAGATTAGCGATGTAAAAATACAATACAAATGC
92883942 TAATGGAAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.53, C:0.07, G:0.16, T:0.23
Consensus pattern (47 bp):
AAAATGTAAATAAGTAGATTAGCGATGTAAAAATACAATACAAATGC
Found at i:92884092 original size:3 final size:3
Alignment explanation
Indices: 92884084--92884121 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
92884074 GGGTTTCGGC
*
92884084 TCA TCA TCA TCA TCA TCA TCA TTA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
92884122 GCCATCGCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:92886060 original size:20 final size:19
Alignment explanation
Indices: 92886036--92886099 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
92886026 TTATATAAAG
92886036 ATAAAAAATAAAAAATAAT
1 ATAAAAAATAAAAAATAAT
* * * *
92886055 ATTAAAAATTTAATAATGAT
1 A-TAAAAAATAAAAAATAAT
*
92886075 ATAATTAAAATAAAAAATATT
1 ATAA--AAAATAAAAAATAAT
92886096 ATAA
1 ATAA
92886100 TAATCTCTTA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
19 4 0.12
20 15 0.45
21 14 0.42
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAAATAAAAAATAAT
Found at i:92891987 original size:21 final size:21
Alignment explanation
Indices: 92891951--92891995 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
92891941 CTAAACCGAG
92891951 AACTTTAGAAAATTTT-ACAGA
1 AACTTTAGAAAATTTTCACA-A
92891972 AACTTT-GAAAATTTTTCACAA
1 AACTTTAGAAAA-TTTTCACAA
92891993 AAC
1 AAC
92891996 AAGGGTCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 14 0.64
22 3 0.14
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (21 bp):
AACTTTAGAAAATTTTCACAA
Found at i:92899377 original size:40 final size:41
Alignment explanation
Indices: 92899317--92899537 Score: 298
Period size: 40 Copynumber: 5.6 Consensus size: 41
92899307 TATTCGAATG
*
92899317 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
92899357 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
92899397 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
92899437 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
92899477 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
92899517 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
92899538 ATACTTGGGT
Statistics
Matches: 162, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 142 0.88
41 5 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:92899805 original size:22 final size:22
Alignment explanation
Indices: 92899765--92899806 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
92899755 GAATGTGCAT
*
92899765 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
92899787 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
92899807 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:92901698 original size:342 final size:342
Alignment explanation
Indices: 92901073--92901756 Score: 1368
Period size: 342 Copynumber: 2.0 Consensus size: 342
92901063 GAGTAGAACC
92901073 AGGATCAATCAAAGAATTAACATTAACATCATAAAGAGAAAATATACCAGTAATCACGTCAGGTG
1 AGGATCAATCAAAGAATTAACATTAACATCATAAAGAGAAAATATACCAGTAATCACGTCAGGTG
92901138 ATGAAGCATCTTTACATGCCTTTATGGCATAAGTTCTAGCTGGAGCCCTTGCTTCAGGTTTAGCT
66 ATGAAGCATCTTTACATGCCTTTATGGCATAAGTTCTAGCTGGAGCCCTTGCTTCAGGTTTAGCT
92901203 GCTGAATCTTTGACTACATTCTTGCTGCTTGCTTCATTTCCAGCTTTTCTCGAATATCTTCCCCT
131 GCTGAATCTTTGACTACATTCTTGCTGCTTGCTTCATTTCCAGCTTTTCTCGAATATCTTCCCCT
92901268 CGAGTCTGCACCACTAGCTTTTACACTCTGAAATTTTTCTTTTTCAACTCTCTCTGGGCAGTCTC
196 CGAGTCTGCACCACTAGCTTTTACACTCTGAAATTTTTCTTTTTCAACTCTCTCTGGGCAGTCTC
92901333 AAATAAAATGATCTGGAGAACCACACTGAAAACATTCATTCACTCTACACGGGCCAAAATGATTT
261 AAATAAAATGATCTGGAGAACCACACTGAAAACATTCATTCACTCTACACGGGCCAAAATGATTT
92901398 CTACCACACCGCTGGCA
326 CTACCACACCGCTGGCA
92901415 AGGATCAATCAAAGAATTAACATTAACATCATAAAGAGAAAATATACCAGTAATCACGTCAGGTG
1 AGGATCAATCAAAGAATTAACATTAACATCATAAAGAGAAAATATACCAGTAATCACGTCAGGTG
92901480 ATGAAGCATCTTTACATGCCTTTATGGCATAAGTTCTAGCTGGAGCCCTTGCTTCAGGTTTAGCT
66 ATGAAGCATCTTTACATGCCTTTATGGCATAAGTTCTAGCTGGAGCCCTTGCTTCAGGTTTAGCT
92901545 GCTGAATCTTTGACTACATTCTTGCTGCTTGCTTCATTTCCAGCTTTTCTCGAATATCTTCCCCT
131 GCTGAATCTTTGACTACATTCTTGCTGCTTGCTTCATTTCCAGCTTTTCTCGAATATCTTCCCCT
92901610 CGAGTCTGCACCACTAGCTTTTACACTCTGAAATTTTTCTTTTTCAACTCTCTCTGGGCAGTCTC
196 CGAGTCTGCACCACTAGCTTTTACACTCTGAAATTTTTCTTTTTCAACTCTCTCTGGGCAGTCTC
92901675 AAATAAAATGATCTGGAGAACCACACTGAAAACATTCATTCACTCTACACGGGCCAAAATGATTT
261 AAATAAAATGATCTGGAGAACCACACTGAAAACATTCATTCACTCTACACGGGCCAAAATGATTT
92901740 CTACCACACCGCTGGCA
326 CTACCACACCGCTGGCA
92901757 CTCGGGCTTA
Statistics
Matches: 342, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
342 342 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (342 bp):
AGGATCAATCAAAGAATTAACATTAACATCATAAAGAGAAAATATACCAGTAATCACGTCAGGTG
ATGAAGCATCTTTACATGCCTTTATGGCATAAGTTCTAGCTGGAGCCCTTGCTTCAGGTTTAGCT
GCTGAATCTTTGACTACATTCTTGCTGCTTGCTTCATTTCCAGCTTTTCTCGAATATCTTCCCCT
CGAGTCTGCACCACTAGCTTTTACACTCTGAAATTTTTCTTTTTCAACTCTCTCTGGGCAGTCTC
AAATAAAATGATCTGGAGAACCACACTGAAAACATTCATTCACTCTACACGGGCCAAAATGATTT
CTACCACACCGCTGGCA
Found at i:92944265 original size:38 final size:38
Alignment explanation
Indices: 92944214--92944289 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
92944204 GACCGAGGAT
*
92944214 GATATGTAAGTGGTTGTGATTGGTGAGTGTCAAGATTA
1 GATATGGAAGTGGTTGTGATTGGTGAGTGTCAAGATTA
* *
92944252 GATATGGAGGTGGTTGTGATTGGTGAGTGTTAAGATTA
1 GATATGGAAGTGGTTGTGATTGGTGAGTGTCAAGATTA
92944290 TCTGTCCAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.25, C:0.01, G:0.37, T:0.37
Consensus pattern (38 bp):
GATATGGAAGTGGTTGTGATTGGTGAGTGTCAAGATTA
Found at i:92960249 original size:47 final size:48
Alignment explanation
Indices: 92960176--92960445 Score: 222
Period size: 47 Copynumber: 5.8 Consensus size: 48
92960166 AGGGTAAGGT
* *
92960176 GCCGATGCCATGTCCTAGACACGGTCTTATACTGGCTCATATCTC-AA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCGAA
* * *
92960223 GTCGATGCCATGTCCTAGACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCAT-ATCTCGAA
* * ** *
92960271 GCCTATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCGAA
* * * * *
92960317 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCCCTTGTCTC-AA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCGAA
* * * * *
92960362 TGCTGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATAATGT-G--
1 -GCCGATGCCATGTCCTAGACATGGTCTTACACT-G-GCTCAT-ATCTCGAA
*
92960411 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT
92960446 TACACACGAA
Statistics
Matches: 182, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
44 2 0.01
45 2 0.01
46 72 0.40
47 79 0.43
48 22 0.12
50 3 0.02
51 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCGAA
Found at i:92967606 original size:19 final size:19
Alignment explanation
Indices: 92967584--92967620 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
92967574 TATGTGCTAG
*
92967584 CCTAAAATTATTAGATAAT
1 CCTAAAATGATTAGATAAT
*
92967603 CCTAAAATGATTATATAA
1 CCTAAAATGATTAGATAA
92967621 AGTGTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (19 bp):
CCTAAAATGATTAGATAAT
Found at i:92968242 original size:33 final size:33
Alignment explanation
Indices: 92968205--92968269 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
92968195 GTATAGGACC
*
92968205 ATAACT-GGTCTATGGCATTCTGA-TGATAAGACG
1 ATAACTAGGT-TATGGCATTATGAGTG-TAAGACG
92968238 ATAACTAGGTTATGGCATTATGAGTGTAAGAC
1 ATAACTAGGTTATGGCATTATGAGTGTAAGAC
92968270 CATGGTAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (33 bp):
ATAACTAGGTTATGGCATTATGAGTGTAAGACG
Found at i:92968272 original size:105 final size:101
Alignment explanation
Indices: 92968058--92968275 Score: 231
Period size: 105 Copynumber: 2.1 Consensus size: 101
92968048 ATTTAACGGA
* * * *
92968058 TAAGACCATGGTTGGACCATGGTAATGTTTAAATCTAAGACCATAGCTGGGATATGGCATTTTAG
1 TAAGACCATGGTTGGACCATGGTAATGTATAAATATAAGACCATAACTGGGATATGGCATTTGAG
* *
92968123 TAAAAAGACCATAACTGGGTTATGGCACTGTGAACG
66 TAAAAAGACCATAACTAGGTTATGGCACTATGAACG
* * * **
92968159 TAAAACCATGGTTGGACCATGGCAGTATATGTATAAGTATAGGACCATAACTGGTCTATGGCATT
1 TAAGACCATGGTTGGACCAT-G--GTA-ATGTATAAATATAAGACCATAACTGGGATATGGCATT
* * * * **
92968224 CTGA-TGATAAGACGATAACTAGGTTATGGCATTATGAGTG
62 -TGAGTAAAAAGACCATAACTAGGTTATGGCACTATGAACG
92968264 TAAGACCATGGT
1 TAAGACCATGGT
92968276 AAGGCCATGG
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
101 19 0.20
102 1 0.01
104 3 0.03
105 69 0.73
106 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGTAATGTATAAATATAAGACCATAACTGGGATATGGCATTTGAG
TAAAAAGACCATAACTAGGTTATGGCACTATGAACG
Found at i:92975039 original size:42 final size:42
Alignment explanation
Indices: 92974955--92975067 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 42
92974945 ATGTCAGTGC
* * *** *
92974955 CGATGCCATGTCCCAGGCATGGTCTTATACGGGACCTTATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACAAAACCTCATAT
* *
92974997 CGATGCCTTGTCCCAGACATGGTCTTACACAAAATCTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACAAAACCTCATAT
* * * *
92975039 CAACGCCATATCCCAGATATGGTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
92975068 TGAAATTACA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (42 bp):
CGATGCCATGTCCCAGACATGGTCTTACACAAAACCTCATAT
Found at i:92975127 original size:48 final size:49
Alignment explanation
Indices: 92975043--92975168 Score: 139
Period size: 48 Copynumber: 2.6 Consensus size: 49
92975033 TCATATCAAC
** * * * *
92975043 GCCATATCCCAGATATGGTCTTACA-TGAAATTACATACCGATGCTGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATCACATACCAACGCCGAT
* *
92975091 GCCATATCCCAAATATGGTCTTACACTGGCA-CACATATCAACGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATCACATACCAACGCCGAT
* * *
92975139 ACCATGTCCCAGACATGGTCTTACACTGGC
1 GCCATATCCCAGATATGGTCTTACACTGGC
92975169 TCTCATTAGT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 62 0.95
49 3 0.05
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (49 bp):
GCCATATCCCAGATATGGTCTTACACTGGCATCACATACCAACGCCGAT
Found at i:92977478 original size:47 final size:47
Alignment explanation
Indices: 92977277--92977485 Score: 152
Period size: 47 Copynumber: 4.3 Consensus size: 47
92977267 TAGATCATCC
* * * * * * *
92977277 ATGGTCTTATAC-GGATCACATATCACTCTGATGCTATAACCCATAT
1 ATGGTCTTATACAGAAGCACATATCACACCGATGCCATATCCCAGAT
* * * *
92977323 ATGGTTTTACACAGAAGCACGTAT-ATCACCGATGCCATATTCCAGAT
1 ATGGTCTTATACAGAAGCACATATCA-CACCGATGCCATATCCCAGAT
* * *
92977370 ATGGTATTATACAGAAGCACATAATCTCATCACACCGATGCCATAGCCCAGCT
1 ATGGTCTTATACAGAAGCAC---A--T-ATCACACCGATGCCATATCCCAGAT
** * * * *
92977423 ATAATCTTATACGGGAGCACATATCACACCGATGCTATATCCTAGAT
1 ATGGTCTTATACAGAAGCACATATCACACCGATGCCATATCCCAGAT
*
92977470 ATGGTCTTATATAGAA
1 ATGGTCTTATACAGAA
92977486 ATTACATATC
Statistics
Matches: 123, Mismatches: 31, Indels: 17
0.72 0.18 0.10
Matches are distributed among these distances:
46 11 0.09
47 73 0.59
48 1 0.01
50 1 0.01
52 1 0.01
53 35 0.28
54 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (47 bp):
ATGGTCTTATACAGAAGCACATATCACACCGATGCCATATCCCAGAT
Found at i:92979099 original size:9 final size:9
Alignment explanation
Indices: 92979087--92979153 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
92979077 TCTAAATATG
92979087 TTTTATTAA
1 TTTTATTAA
*
92979096 TTTTATAAA
1 TTTTATTAA
*
92979105 TTTTCTATAA
1 TTTTAT-TAA
92979115 -TTTATTAGA
1 TTTTATTA-A
*
92979124 TTTT-TTTA
1 TTTTATTAA
*
92979132 TTTTATAATA
1 TTTTATTA-A
92979142 TTTTATT-A
1 TTTTATTAA
92979150 TTTT
1 TTTT
92979154 CATAAGTTGA
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
8 12 0.27
9 21 0.47
10 12 0.27
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTATTAA
Found at i:92979136 original size:18 final size:18
Alignment explanation
Indices: 92979087--92979159 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
92979077 TCTAAATATG
92979087 TTTTATTAATTTTATAA-A
1 TTTTATT-ATTTTATAAGA
* * *
92979105 TTTTCTATAATTTATTAGA
1 TTTTAT-TATTTTATAAGA
* *
92979124 TTTTTTTATTTTATAATA
1 TTTTATTATTTTATAAGA
92979142 TTTTATTATTTTCATAAG
1 TTTTATTATTTT-ATAAG
92979160 TTGATACCAT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
18 32 0.74
19 11 0.26
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTATTATTTTATAAGA
Found at i:92979498 original size:20 final size:19
Alignment explanation
Indices: 92979460--92979499 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
92979450 TTCTCTTAAG
* *
92979460 AGTTTTTTTTTTACATATA
1 AGTTTTTTTTTAAAATATA
92979479 AGTTTTTTTTTAAAATTATA
1 AGTTTTTTTTTAAAA-TATA
92979499 A
1 A
92979500 ATATATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
AGTTTTTTTTTAAAATATA
Found at i:92980370 original size:15 final size:15
Alignment explanation
Indices: 92980350--92980379 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
92980340 CATATGGAGT
92980350 TTTCAATTTTCATTA
1 TTTCAATTTTCATTA
92980365 TTTCAATTTTCATTA
1 TTTCAATTTTCATTA
92980380 CATATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTCAATTTTCATTA
Found at i:92981155 original size:12 final size:12
Alignment explanation
Indices: 92981134--92981164 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
92981124 GCAAGAAGCC
92981134 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
92981146 AAAAAGAAAAAG
1 AAAAAAAAAAAG
92981158 AAAAAAA
1 AAAAAAA
92981165 GAAACCCAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:92982075 original size:12 final size:12
Alignment explanation
Indices: 92982052--92982100 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
92982042 TCAAACTACA
92982052 TGTTCTT-T-CT
1 TGTTCTTGTCCT
*
92982062 TGTTCTTGTTCT
1 TGTTCTTGTCCT
92982074 TGTTCTTGTCCT
1 TGTTCTTGTCCT
*
92982086 TGTCCTTGTCCT
1 TGTTCTTGTCCT
92982098 TGT
1 TGT
92982101 CCATCTCACT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
10 7 0.20
11 1 0.03
12 27 0.77
ACGTcount: A:0.00, C:0.22, G:0.16, T:0.61
Consensus pattern (12 bp):
TGTTCTTGTCCT
Found at i:92982101 original size:6 final size:6
Alignment explanation
Indices: 92982060--92982102 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
92982050 CATGTTCTTT
* * *
92982060 CTTGTT CTTGTT CTTGTT CTTGTC CTTGTC CTTGTC CTTGTC C
1 CTTGTC CTTGTC CTTGTC CTTGTC CTTGTC CTTGTC CTTGTC C
92982103 ATCTCACTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.28, G:0.16, T:0.56
Consensus pattern (6 bp):
CTTGTC
Found at i:92983562 original size:36 final size:36
Alignment explanation
Indices: 92983515--92983604 Score: 180
Period size: 36 Copynumber: 2.5 Consensus size: 36
92983505 ATACATGTAG
92983515 CAACAAGCACAACAGGGAACTTACCTAGTTTGGTTC
1 CAACAAGCACAACAGGGAACTTACCTAGTTTGGTTC
92983551 CAACAAGCACAACAGGGAACTTACCTAGTTTGGTTC
1 CAACAAGCACAACAGGGAACTTACCTAGTTTGGTTC
92983587 CAACAAGCACAACAGGGA
1 CAACAAGCACAACAGGGA
92983605 CATTAGGAGC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.18
Consensus pattern (36 bp):
CAACAAGCACAACAGGGAACTTACCTAGTTTGGTTC
Found at i:92987987 original size:27 final size:27
Alignment explanation
Indices: 92987957--92988060 Score: 147
Period size: 27 Copynumber: 3.9 Consensus size: 27
92987947 TCTTATCACC
*
92987957 TAAGGGCAAATTAGTCATTTTACCACA
1 TAAGGGCAAAATAGTCATTTTACCACA
92987984 TAAGGGCAAAACT-GTCATTTTACCACA
1 TAAGGGCAAAA-TAGTCATTTTACCACA
* * * *
92988011 TGAGGGCAAAATAGTTAGTTTATCACA
1 TAAGGGCAAAATAGTCATTTTACCACA
92988038 TAAGGGCAAAATAGTCATTTTAC
1 TAAGGGCAAAATAGTCATTTTAC
92988061 TTTACAGGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.02
27 64 0.97
28 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (27 bp):
TAAGGGCAAAATAGTCATTTTACCACA
Found at i:92988097 original size:27 final size:26
Alignment explanation
Indices: 92988067--92988166 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 26
92988057 TTACTTTACA
* *
92988067 GGGGTATTACAGTCATTTTATCCTACT
1 GGGGTATTACGGTCATTTTACCCTA-T
92988094 GGGGTATTTA-GGTCATTTTACCCTAT
1 GGGGTA-TTACGGTCATTTTACCCTAT
* *
92988120 GAGGGTATTTCGGTTATTTTACCCTAT
1 G-GGGTATTACGGTCATTTTACCCTAT
*
92988147 GGGGGTATTTCGGTCATTTT
1 -GGGGTATTACGGTCATTTT
92988167 CAAGTAAATA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
26 4 0.06
27 56 0.88
28 4 0.06
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.43
Consensus pattern (26 bp):
GGGGTATTACGGTCATTTTACCCTAT
Found at i:92988109 original size:54 final size:54
Alignment explanation
Indices: 92988051--92988166 Score: 128
Period size: 54 Copynumber: 2.1 Consensus size: 54
92988041 GGGCAAAATA
** *
92988051 GTCATTTTACTTTACAG-GGGTATTACAGTCATTTTATCCTACT-GGGGTATTTAG
1 GTCATTTTACCCTA-AGAGGGTATTACAGTCATTTTACCCTA-TGGGGGTATTTAG
* * * * *
92988105 GTCATTTTACCCTATGAGGGTATTTCGGTTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAAGAGGGTATTACAGTCATTTTACCCTATGGGGGTATTTAG
92988159 GTCATTTT
1 GTCATTTT
92988167 CAAGTAAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
53 2 0.04
54 50 0.96
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.44
Consensus pattern (54 bp):
GTCATTTTACCCTAAGAGGGTATTACAGTCATTTTACCCTATGGGGGTATTTAG
Found at i:92997454 original size:40 final size:40
Alignment explanation
Indices: 92997409--92997633 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
92997399 CTTGCACAAG
* * *
92997409 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
92997449 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
92997489 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
92997529 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
92997569 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
92997610 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
92997634 CATTCGAATA
Statistics
Matches: 159, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.81
41 29 0.18
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:92997504 original size:80 final size:80
Alignment explanation
Indices: 92997373--92997633 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
92997363 CTCAAGTAAT
* * * * * * * *
92997373 CTTCGAGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
92997436 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
92997451 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
92997515 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
92997531 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
92997596 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
92997612 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
92997634 CATTCGAATA
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 11 0.07
79 16 0.10
80 94 0.61
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:93011708 original size:24 final size:24
Alignment explanation
Indices: 93011680--93011727 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
93011670 ATTTTGTACT
*
93011680 TTGGCCCATTTTTTCCATTTTTGG
1 TTGGCCCATTTTCTCCATTTTTGG
*
93011704 TTGGCCCATTTTCTCCGTTTTTGG
1 TTGGCCCATTTTCTCCATTTTTGG
93011728 CCCGTTTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.06, C:0.23, G:0.19, T:0.52
Consensus pattern (24 bp):
TTGGCCCATTTTCTCCATTTTTGG
Found at i:93022505 original size:46 final size:46
Alignment explanation
Indices: 93022455--93022627 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
93022445 TGGTTGAGCA
*
93022455 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAG
* * *
93022501 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AAG
* *
93022546 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAG
* *
93022594 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
93022628 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 61 0.56
47 29 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAAG
Found at i:93022610 original size:93 final size:93
Alignment explanation
Indices: 93022451--93022622 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
93022441 AGGATGGTTG
* *
93022451 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
93022516 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
93022544 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
93022609 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
93022623 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:93030393 original size:30 final size:30
Alignment explanation
Indices: 93030357--93030417 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
93030347 GTCAAGCCCG
93030357 TTAGGAAAGCATGTGATAGTTGATAAAGTA
1 TTAGGAAAGCATGTGATAGTTGATAAAGTA
93030387 TTAGGAAAGCATGTGATAGTTGATAAAGTA
1 TTAGGAAAGCATGTGATAGTTGATAAAGTA
93030417 T
1 T
93030418 GTAAGAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.31
Consensus pattern (30 bp):
TTAGGAAAGCATGTGATAGTTGATAAAGTA
Found at i:93056625 original size:309 final size:309
Alignment explanation
Indices: 93056066--93056686 Score: 1091
Period size: 309 Copynumber: 2.0 Consensus size: 309
93056056 TGTATGGTAG
* *
93056066 TAAACATATGGGCAAAGACACGACTGTGTGTCTCAACCGTGTGGAGGACACGGCCTAGTACACGG
1 TAAACATACGGGCAAAGACACGACTGTGTGTCTCAACCGTGTGGAGGACACGGCCTAGCACACGG
93056131 GCGTGTGCCTTGGCTGTGTGCCTAAAAATGAATGATGATGTCATAAACAGAATGTCCGAGTTTTT
66 GCGTGTGCCTTGGCTGTGTGCCTAAAAATGAATGATGATGTCATAAACAGAATGTCCGAGTTTTT
*
93056196 GGACATGGGCGATGACATGGGCGTGTCTAGTCCTTGTGAGAGACACGGGCTAGAGACACGAGTGT
131 GGACATGGGCGATGACATGGGCGTGTCTAGGCCTTGTGAGAGACACGGGCTAGAGACACGAGTGT
* * * *
93056261 GTGTTTGGCCATGTGAAAACCCTTGTAGGCTCAGAATGAAAAATAAATTCCAATAATTCAACATG
196 GTGTTCGGACATGTGAAAACCCCTGTAGGCTCAGAATGAAAAATAAATTCCAATAATTCAACACG
* *
93056326 GGTAAGAGATACGAGTGTGTGCATTGCCTCTACACGGGCGTGTGAGGCT
261 GGTAAGAGATACGAGTGTGTGCATTGCCTCTACACAGGCGTCTGAGGCT
*
93056375 TAAACATACGGGCAGAGACACGACTGTGTGTCTCAACCGTGTGGAGGACACGGCCTAGCACACGG
1 TAAACATACGGGCAAAGACACGACTGTGTGTCTCAACCGTGTGGAGGACACGGCCTAGCACACGG
* ** *
93056440 GCGTGTGCCTTGGCTGTGTGCCTCAAAATGAATGATGATGTCATAAATGGAATGTCTGAGTTTTT
66 GCGTGTGCCTTGGCTGTGTGCCTAAAAATGAATGATGATGTCATAAACAGAATGTCCGAGTTTTT
*
93056505 GGACATGGGCGATGACATGGGCGTGTCTAGGCCTTGTGAGGGACACGGGCTAGAGACACGAGTGT
131 GGACATGGGCGATGACATGGGCGTGTCTAGGCCTTGTGAGAGACACGGGCTAGAGACACGAGTGT
93056570 GTGTTCGGACATGTGAAAACCCCTGTAGGCTC-GAAATGAAAAATAAATTCCAATAATTCAACAC
196 GTGTTCGGACATGTGAAAACCCCTGTAGGCTCAG-AATGAAAAATAAATTCCAATAATTCAACAC
93056634 GGGTAAGAGATACGAGTGTGTGCATTGCCTCTACACAGGCGTCTGAGGCT
260 GGGTAAGAGATACGAGTGTGTGCATTGCCTCTACACAGGCGTCTGAGGCT
93056684 TAA
1 TAA
93056687 CCCTAGGAAT
Statistics
Matches: 296, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
308 1 0.00
309 295 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (309 bp):
TAAACATACGGGCAAAGACACGACTGTGTGTCTCAACCGTGTGGAGGACACGGCCTAGCACACGG
GCGTGTGCCTTGGCTGTGTGCCTAAAAATGAATGATGATGTCATAAACAGAATGTCCGAGTTTTT
GGACATGGGCGATGACATGGGCGTGTCTAGGCCTTGTGAGAGACACGGGCTAGAGACACGAGTGT
GTGTTCGGACATGTGAAAACCCCTGTAGGCTCAGAATGAAAAATAAATTCCAATAATTCAACACG
GGTAAGAGATACGAGTGTGTGCATTGCCTCTACACAGGCGTCTGAGGCT
Found at i:93066586 original size:46 final size:43
Alignment explanation
Indices: 93066438--93066578 Score: 124
Period size: 46 Copynumber: 3.1 Consensus size: 43
93066428 TGTAACCCGC
*
93066438 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA
1 CCATTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---A
* * * *
93066485 -CATTTCA-CGAGCTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA-TT-AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAA
*
93066531 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA
1 CCATTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAA
93066575 CCAT
1 CCAT
93066579 CCTAGTGACA
Statistics
Matches: 76, Mismatches: 11, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 30 0.39
47 30 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
CCATTAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAA
Found at i:93069214 original size:40 final size:40
Alignment explanation
Indices: 93069123--93069292 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
93069113 TCCTCGTTCA
* * * * *
93069123 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
93069162 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
93069202 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
93069242 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
93069282 AAGGCCTTCGG
1 AATGCCTTCGG
93069293 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:93080001 original size:39 final size:39
Alignment explanation
Indices: 93079947--93080083 Score: 184
Period size: 39 Copynumber: 3.5 Consensus size: 39
93079937 ATTTGAAAAT
93079947 TATATCCGGACTTAAAGTCCGCAGGCTATATGCAGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTATATGCAGGAAA
** *
93079986 TATATCCGGACTTAAAGTCTACAGGCTATATGCGGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTATATGCAGGAAA
* * * ** *
93080025 TATATCCGGACTTTAGGCCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTATATGCAGGAAA
*
93080064 TATATCCGGGCTTAAAGTCC
1 TATATCCGGACTTAAAGTCC
93080084 CGAAGGCTTA
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTATATGCAGGAAA
Found at i:93086919 original size:46 final size:47
Alignment explanation
Indices: 93086813--93086934 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
93086803 TGTCTTCGAC
** * *
93086813 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
93086863 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
93086909 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
93086935 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:93089048 original size:24 final size:24
Alignment explanation
Indices: 93089021--93089118 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
93089011 AAGGCTGTCA
93089021 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
93089045 GGAGAGGATTTAGGAGCTGACAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
93089069 GGAGAGGATTTAGGAGCTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
*
93089093 GGAGAATATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
93089118 G
1 G
93089119 AGCAGGAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
24 63 0.95
25 3 0.05
ACGTcount: A:0.36, C:0.06, G:0.38, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:93106063 original size:26 final size:26
Alignment explanation
Indices: 93106034--93106088 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
93106024 TTTGCCACAT
93106034 ATACTGATACTGGCAGCTTTAATGTG
1 ATACTGATACTGGCAGCTTTAATGTG
* * **
93106060 ATACTGTTACTGGTAGCTTTGTTGTG
1 ATACTGATACTGGCAGCTTTAATGTG
93106086 ATA
1 ATA
93106089 TTGGTGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.40
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTAATGTG
Found at i:93110913 original size:27 final size:26
Alignment explanation
Indices: 93110875--93110988 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 26
93110865 AGCATGGCTG
* *
93110875 CCAGAATAGATATTGTGACAAAGTCA
1 CCAGAATAGATATTGTGGCAAAGCCA
* *
93110901 CCAGATACAGATATTGTGGTAAAGCCA
1 CCAGA-ATAGATATTGTGGCAAAGCCA
*
93110928 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAATAGATA-TTGTGGCAAAGCCA
*
93110955 CCAGAAATAGATATTTGTGGCATAGCCA
1 CCAG-AATAGATA-TTGTGGCAAAGCCA
*
93110983 CTAGAA
1 CCAGAA
93110989 CGCTTCCTCC
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
26 11 0.14
27 40 0.52
28 26 0.34
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (26 bp):
CCAGAATAGATATTGTGGCAAAGCCA
Found at i:93116950 original size:40 final size:40
Alignment explanation
Indices: 93116931--93117041 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
93116921 ATAGCAACTC
*
93116931 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTA
*
93116971 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTA
*
93117011 GCATAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATA
93117042 TCATTCAAAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATAAAATCACTA
Found at i:93116998 original size:80 final size:80
Alignment explanation
Indices: 93116862--93117041 Score: 193
Period size: 80 Copynumber: 2.3 Consensus size: 80
93116852 ACCCAAGTTT
* * * * * * *
93116862 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCAGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCAGGACTTAACCCGGATAAAAG
*
93116925 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * * * * * *
93116941 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAAT
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCAGGACTTAACCCGGATAAAAG
*
93117006 CACTAGCATAAATGC
66 CACTAGCACAAATGC
93117021 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
93117042 TCATTCAAAT
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
79 10 0.12
80 69 0.84
81 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCAGGACTTAACCCGGATAAAAG
CACTAGCACAAATGC
Found at i:93125980 original size:40 final size:40
Alignment explanation
Indices: 93125928--93126119 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 40
93125918 ATAACCACAA
* * *
93125928 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACCC
* * * *
93125968 GTACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACCC
* * **
93126008 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACCC
* * * **
93126048 GCACAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACCC
* *
93126088 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
93126120 CATTCAAATG
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 132 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACCC
Found at i:93126012 original size:80 final size:80
Alignment explanation
Indices: 93125927--93126118 Score: 226
Period size: 80 Copynumber: 2.4 Consensus size: 80
93125917 TATAACCACA
* * * * * * *
93125927 AGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACCCGTACAAATGCCTTCGGGTCTTAG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGC-ACCAGCACAAATGCCTTCGGGACTTAG
*
93125991 CCCAGAT-ATATCAACT
65 CCCAGATAAAATC-ACT
* * *
93126007 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCACCAGCACAAATGCCTTCGGGACTTAGC
*
93126072 CCGGATAAAATCACT
66 CCAGATAAAATCACT
* *
93126087 AGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
93126119 TCATTCAAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 88 0.93
81 7 0.07
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (80 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCACCAGCACAAATGCCTTCGGGACTTAGC
CCAGATAAAATCACT
Found at i:93134965 original size:55 final size:54
Alignment explanation
Indices: 93134836--93135043 Score: 267
Period size: 54 Copynumber: 3.9 Consensus size: 54
93134826 TTGGTAAGAT
* *
93134836 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * *
93134890 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
93134945 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
93134998 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
93135044 AAAAAGGAAA
Statistics
Matches: 135, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
52 4 0.03
53 42 0.31
54 43 0.32
55 42 0.31
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:93135041 original size:108 final size:109
Alignment explanation
Indices: 93134844--93135042 Score: 328
Period size: 108 Copynumber: 1.8 Consensus size: 109
93134834 ATAAGGATAT
* *
93134844 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
93134909 ATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCC
* * *
93134953 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
*
93135017 ATGTCAAGACATGGCAATGGTAAGTT
66 ATGTCAAGACATGGCAATGATAAGTT
93135043 CAAAAAGGAA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
108 47 0.57
109 36 0.43
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (109 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCC
Found at i:93144242 original size:79 final size:81
Alignment explanation
Indices: 93144133--93144315 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
93144123 TACTCGTTCA
* *
93144133 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
93144196 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
93144213 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
93144276 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
93144292 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
93144316 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:93144315 original size:40 final size:40
Alignment explanation
Indices: 93144112--93144315 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
93144102 CGGAATTTAA
** *
93144112 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
93144152 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
93144192 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
93144231 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
93144271 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
93144311 CCGGA
1 CCGGA
93144316 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:93147014 original size:16 final size:17
Alignment explanation
Indices: 93146993--93147027 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
93146983 AAGTATTATG
93146993 AAATAAA-AACAAACAA
1 AAATAAACAACAAACAA
*
93147009 AAATAAACATCAAACAA
1 AAATAAACAACAAACAA
93147026 AA
1 AA
93147028 GTCGTCCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.77, C:0.14, G:0.00, T:0.09
Consensus pattern (17 bp):
AAATAAACAACAAACAA
Found at i:93148608 original size:40 final size:40
Alignment explanation
Indices: 93148541--93148717 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
93148531 ACCCAAGTAT
*
93148541 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
93148580 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
93148620 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
93148660 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
93148700 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
93148718 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:93152996 original size:46 final size:46
Alignment explanation
Indices: 93152925--93153119 Score: 225
Period size: 46 Copynumber: 4.3 Consensus size: 46
93152915 ATGTTCCAAT
* *
93152925 TATGGTCTTATTCATTTTCCATCATGTTGCCATAGTGTCTTTCAAC
1 TATGGTCTTATTCATTTACTATCATGTTGCCATAGTGTCTTTCAAC
* * *
93152971 TATGGTCCTATTAATTTACTATCATGTTGTCATAGTGTCTTTCAAC
1 TATGGTCTTATTCATTTACTATCATGTTGCCATAGTGTCTTTCAAC
* * ** *
93153017 CATGGTCCTATTCATTTTTTGTCATG-TGCCATAGTGTCTTTCAAC
1 TATGGTCTTATTCATTTACTATCATGTTGCCATAGTGTCTTTCAAC
** * * *
93153062 TATGGTCTTATTTGTTTGA-T-TCATGATGCCATAGCGTCTTTCAGC
1 TATGGTCTTATTCATTT-ACTATCATGTTGCCATAGTGTCTTTCAAC
93153107 TATGGTCTTATTC
1 TATGGTCTTATTC
93153120 GATAGGATTG
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
44 5 0.04
45 61 0.48
46 62 0.48
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (46 bp):
TATGGTCTTATTCATTTACTATCATGTTGCCATAGTGTCTTTCAAC
Found at i:93153067 original size:45 final size:45
Alignment explanation
Indices: 93152925--93153258 Score: 273
Period size: 45 Copynumber: 7.4 Consensus size: 45
93152915 ATGTTCCAAT
***
93152925 TATGGTCTTATTCATTTTCCATCATGTTGCCATAGTGTCTTTCAAC
1 TATGGTCTTATTCATTTTTTGTCATG-TGCCATAGTGTCTTTCAAC
* * ** * *
93152971 TATGGTCCTATTAATTTACTATCATGTTGTCATAGTGTCTTTCAAC
1 TATGGTCTTATTCATTTTTTGTCATG-TGCCATAGTGTCTTTCAAC
* *
93153017 CATGGTCCTATTCATTTTTTGTCATGTGCCATAGTGTCTTTCAAC
1 TATGGTCTTATTCATTTTTTGTCATGTGCCATAGTGTCTTTCAAC
** ** * *
93153062 TATGGTCTTATTTGTTTGAT-TCATGATGCCATAGCGTCTTTCAGC
1 TATGGTCTTATTCATTTTTTGTCATG-TGCCATAGTGTCTTTCAAC
*** * * * *
93153107 TATGGTCTTATTCGATAGGATTGTTATGT--CATAATGTCTTTTAGC
1 TATGGTCTTATTC-AT-TTTTTGTCATGTGCCATAGTGTCTTTCAAC
* * * * *
93153152 CATGGTCTCACTCGTTTTTGGT-ATGGTGCCATAGTGTCTTTCAAC
1 TATGGTCTTATTCATTTTTTGTCAT-GTGCCATAGTGTCTTTCAAC
* * *
93153197 TCTGGTCTTATTTATTTTTTGT-ATAGTACCATAGTGTCTTTCAAC
1 TATGGTCTTATTCATTTTTTGTCAT-GTGCCATAGTGTCTTTCAAC
*
93153242 TATGGTCTTAATCATTT
1 TATGGTCTTATTCATTT
93153259 CCTTCAAGCC
Statistics
Matches: 229, Mismatches: 52, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
42 2 0.01
43 5 0.02
44 6 0.03
45 147 0.64
46 63 0.28
47 2 0.01
48 4 0.02
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (45 bp):
TATGGTCTTATTCATTTTTTGTCATGTGCCATAGTGTCTTTCAAC
Found at i:93153229 original size:135 final size:135
Alignment explanation
Indices: 93152998--93153251 Score: 327
Period size: 135 Copynumber: 1.9 Consensus size: 135
93152988 ACTATCATGT
* * *
93152998 TGTCATAGTGTCTTTCAACCATGGTCCTATTCATTTTTTGTCATGTGCCATAGTGTCTTTCAACT
1 TGTCATAATGTCTTTCAACCATGGTCCTACTCATTTTTGGTCATGTGCCATAGTGTCTTTCAACT
* * *
93153063 ATGGTCTTATTTGTTTGATTCATGATGCCATAGCGTCTTTCAGCTATGGTCTTATTCGATAGGAT
66 ATGGTCTTATTTATTTGATTCATGATACCATAGCGTCTTTCAACTATGGTCTTATTCGATAGGAT
93153128 TGTTA
131 TGTTA
* * *
93153133 TGTCATAATGTCTTTTAGCCATGGT-CTCACTCGTTTTTGGT-ATGGTGCCATAGTGTCTTTCAA
1 TGTCATAATGTCTTTCAACCATGGTCCT-ACTCATTTTTGGTCAT-GTGCCATAGTGTCTTTCAA
* * * *
93153196 CTCTGGTCTTATTTATTT-TTTGTAT-AGTACCATAGTGTCTTTCAACTATGGTCTTA
64 CTATGGTCTTATTTATTTGATT-CATGA-TACCATAGCGTCTTTCAACTATGGTCTTA
93153252 ATCATTTCCT
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
134 7 0.07
135 95 0.93
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (135 bp):
TGTCATAATGTCTTTCAACCATGGTCCTACTCATTTTTGGTCATGTGCCATAGTGTCTTTCAACT
ATGGTCTTATTTATTTGATTCATGATACCATAGCGTCTTTCAACTATGGTCTTATTCGATAGGAT
TGTTA
Found at i:93160116 original size:29 final size:29
Alignment explanation
Indices: 93160030--93160130 Score: 111
Period size: 28 Copynumber: 3.6 Consensus size: 29
93160020 AATTTCACAT
* * *
93160030 ACCTGTATGTGGCCCATTAAGCCC-AATC
1 ACCTATATATGGCCCATTAGGCCCAAATC
93160058 A--TATTCATATGGCCCATT-GGCCCAAATC
1 ACCTA-T-ATATGGCCCATTAGGCCCAAATC
93160086 ACCTATATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAGGCCCAAATC
* *
93160115 ACATTTATATGGCCCA
1 ACCTATATATGGCCCA
93160131 GTCACATTCA
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
26 1 0.02
27 5 0.08
28 29 0.47
29 25 0.40
30 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
ACCTATATATGGCCCATTAGGCCCAAATC
Found at i:93160224 original size:17 final size:18
Alignment explanation
Indices: 93160202--93160235 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93160192 TTCCTATTAT
93160202 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
93160219 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
93160236 TCTGACCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:93167131 original size:16 final size:16
Alignment explanation
Indices: 93167095--93167145 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
93167085 TTATCCTAAT
*
93167095 CAAATCAAGAAAAAGAAA
1 CAAATAAAG-AAAA-AAA
93167113 CAAATAAAGAAAAAAA
1 CAAATAAAGAAAAAAA
93167129 CAAATAGAA-AAAAAAA
1 CAAATA-AAGAAAAAAA
93167145 C
1 C
93167146 TCATGCAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 17 0.55
17 6 0.19
18 8 0.26
ACGTcount: A:0.76, C:0.10, G:0.08, T:0.06
Consensus pattern (16 bp):
CAAATAAAGAAAAAAA
Found at i:93170478 original size:39 final size:39
Alignment explanation
Indices: 93170435--93170572 Score: 186
Period size: 39 Copynumber: 3.5 Consensus size: 39
93170425 ATTCACTTTT
* * * *
93170435 AAGCATATATCACATTACACATATAATCACTTAACATAC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
93170474 AAGCATATATCACAATACTTAAATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
93170513 AAGCATATATCAAAATACTCGTATAATCTCATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
93170552 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
93170573 AAAGCATCTT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:93176166 original size:16 final size:16
Alignment explanation
Indices: 93176145--93176175 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
93176135 CTAGCACATT
93176145 TCTAAATTTTCTCATG
1 TCTAAATTTTCTCATG
93176161 TCTAAATTTTCTCAT
1 TCTAAATTTTCTCAT
93176176 ACAATCCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.03, T:0.52
Consensus pattern (16 bp):
TCTAAATTTTCTCATG
Found at i:93176567 original size:31 final size:31
Alignment explanation
Indices: 93176531--93176593 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
93176521 TGCCAAAATA
*
93176531 AGGACCGGTTCTTCTTCGTAACTCAAATCAG
1 AGGACCGGTTATTCTTCGTAACTCAAATCAG
93176562 AGGACCGGTTATTCTTCGTAACTCAAATCAG
1 AGGACCGGTTATTCTTCGTAACTCAAATCAG
93176593 A
1 A
93176594 TTGAATCTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (31 bp):
AGGACCGGTTATTCTTCGTAACTCAAATCAG
Found at i:93181947 original size:42 final size:42
Alignment explanation
Indices: 93181900--93181989 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 42
93181890 CCTCAAATTG
* * ** *
93181900 TGTAACTCACTGAGTTGGGTCACACGTTCGTGTCGCAGGCCA
1 TGTAACTCACTGACTTGGGACACACGGCCGTGTCACAGGCCA
** * *
93181942 TGTAACTTTCTGACTTGTGACACACGGCCGTGTCACAGGCCG
1 TGTAACTCACTGACTTGGGACACACGGCCGTGTCACAGGCCA
93181984 TGTAAC
1 TGTAAC
93181990 ATGTTGACTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (42 bp):
TGTAACTCACTGACTTGGGACACACGGCCGTGTCACAGGCCA
Found at i:93183759 original size:48 final size:49
Alignment explanation
Indices: 93183697--93183795 Score: 128
Period size: 48 Copynumber: 2.0 Consensus size: 49
93183687 ACATAATAGG
* * * *
93183697 ATGCCAATGCCATATCCCAGATATGTTCTTAAATGGGATCA-CATATCA
1 ATGCCAATGACATATCCAAGACATGGTCTTAAATGGGATCAGCATATCA
**
93183745 ATGCCAATGACATATCCAAGACATGGTCTTCCATGGGATCATGCATATCA
1 ATGCCAATGACATATCCAAGACATGGTCTTAAATGGGATCA-GCATATCA
93183795 A
1 A
93183796 AGCCGATAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 35 0.81
50 8 0.19
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (49 bp):
ATGCCAATGACATATCCAAGACATGGTCTTAAATGGGATCAGCATATCA
Found at i:93183910 original size:48 final size:48
Alignment explanation
Indices: 93183837--93183929 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
93183827 GTCTCATATT
* * * *
93183837 GATGCCAATGCCATGTCCCATACATGGTATTAGATGAGATCACATTTC
1 GATGCCAACGCCATGTCCCAGACATGATATTACATGAGATCACATTTC
*
93183885 GATGCCAACGCCATGTCCCAGACATGATCTTACATGAGATCACAT
1 GATGCCAACGCCATGTCCCAGACATGATATTACATGAGATCACAT
93183930 GCATGTCACA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (48 bp):
GATGCCAACGCCATGTCCCAGACATGATATTACATGAGATCACATTTC
Found at i:93203853 original size:34 final size:34
Alignment explanation
Indices: 93203780--93203858 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
93203770 GATATGGCAC
* * *
93203780 ATTACTGAAATGGGCTAAGGCCTAGACTGTCACT
1 ATTACTAAAATGGGCTAAGGCCCAGACTCTCACT
*
93203814 ATTACTAAAATGGGCTAAGGCCCGGACTACT-ACT
1 ATTACTAAAATGGGCTAAGGCCCAGACT-CTCACT
*
93203848 GTTACTGAAAA
1 ATTACT-AAAA
93203859 AGTCGCTAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
34 33 0.87
35 5 0.13
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (34 bp):
ATTACTAAAATGGGCTAAGGCCCAGACTCTCACT
Found at i:93228300 original size:27 final size:27
Alignment explanation
Indices: 93228270--93228501 Score: 304
Period size: 27 Copynumber: 8.6 Consensus size: 27
93228260 ATATTGAGTC
* * *
93228270 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
93228297 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
93228324 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
93228351 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
93228378 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
93228406 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
93228433 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
93228460 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
93228487 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
93228502 GTACAATTTA
Statistics
Matches: 183, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
27 158 0.86
28 25 0.14
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:93228436 original size:109 final size:108
Alignment explanation
Indices: 93228270--93228501 Score: 313
Period size: 109 Copynumber: 2.1 Consensus size: 108
93228260 ATATTGAGTC
* * * *
93228270 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAG
* *
93228335 TGC-TACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
66 TGCAT-CATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
* * ** *
93228378 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTA
* **
93228443 GTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
65 GTGCATCATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
93228487 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
93228502 GTACAATTTA
Statistics
Matches: 108, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
108 20 0.19
109 87 0.81
110 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (108 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAG
TGCATCATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:93236641 original size:27 final size:27
Alignment explanation
Indices: 93236611--93236706 Score: 147
Period size: 27 Copynumber: 3.6 Consensus size: 27
93236601 ATATTAAGTC
* *
93236611 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
93236638 CGCACACTTAGTGCTACATAATAAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
93236665 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
93236692 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
93236707 GCACAATTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:93236695 original size:54 final size:55
Alignment explanation
Indices: 93236610--93236731 Score: 165
Period size: 54 Copynumber: 2.2 Consensus size: 55
93236600 TATATTAAGT
* * *
93236610 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAA-TAAAC
1 CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACACAATTAAAC
* * * *
93236664 TCGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAAC
1 CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACACAA-TTAAAC
93236720 CCGCACACTTAG
1 CCGCACACTTAG
93236732 CGCCAATCTC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 42 0.72
56 16 0.28
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (55 bp):
CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACACAATTAAAC
Found at i:93239028 original size:6 final size:6
Alignment explanation
Indices: 93239012--93239050 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
93239002 AGCATCTATA
* *
93239012 AAAAGG AAAAAGG AAAAAG AAATGG AAAAGG AAAAGG AA
1 AAAAGG -AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AA
93239051 TCGTTTCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (6 bp):
AAAAGG
Found at i:93240596 original size:37 final size:37
Alignment explanation
Indices: 93240546--93240624 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
93240536 TTATTACGAA
* * *
93240546 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
93240583 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
93240620 GTCTT
1 GTCTT
93240625 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:93240821 original size:47 final size:47
Alignment explanation
Indices: 93240743--93241153 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
93240733 CCCTTCGGGA
* * * * * *
93240743 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93240790 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93240837 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93240884 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93240931 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93240978 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93241025 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93241072 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93241119 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
93241154 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:93242315 original size:18 final size:18
Alignment explanation
Indices: 93242292--93242333 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
93242282 CATATGCATT
93242292 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
93242310 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
93242328 TTTAAT
1 TTTAAT
93242334 ACAATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (18 bp):
TTTAATCACATCAAGCAA
Found at i:93242947 original size:12 final size:12
Alignment explanation
Indices: 93242930--93242954 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93242920 TTTAATTCAT
93242930 TCTTTTATTTTC
1 TCTTTTATTTTC
93242942 TCTTTTATTTTC
1 TCTTTTATTTTC
93242954 T
1 T
93242955 TTCTCCATTT
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTATTTTC
Found at i:93246185 original size:51 final size:51
Alignment explanation
Indices: 93246105--93246206 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
93246095 NGATGAGTCC
* *
93246105 AAGAAACCTAAAATAGGTGACAAGGAAACACCGAGTGAGTATATAACTCAG
1 AAGAAACCTAAAATAGGTGACAAGCAAACACCGAATGAGTATATAACTCAG
93246156 AAGAAACCTAAAATAGGTGACAAGCAAACACCGAATGAGTATATAACTCAG
1 AAGAAACCTAAAATAGGTGACAAGCAAACACCGAATGAGTATATAACTCAG
93246207 TAAGTCATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.16
Consensus pattern (51 bp):
AAGAAACCTAAAATAGGTGACAAGCAAACACCGAATGAGTATATAACTCAG
Found at i:93246566 original size:53 final size:53
Alignment explanation
Indices: 93246485--93246590 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
93246475 ATTATAATCA
*
93246485 TCACATAGGTTCAAAACTTACCACGCTCAACTCAAAATATAAACATAGCACCT
1 TCACATAGGTTCAAAACTTACCAAGCTCAACTCAAAATATAAACATAGCACCT
*
93246538 TCACATAGGTTCAAAACTTACCAAGCTCAACTCCAAATATAAACATAGCACCT
1 TCACATAGGTTCAAAACTTACCAAGCTCAACTCAAAATATAAACATAGCACCT
93246591 ATTAGCGGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.23
Consensus pattern (53 bp):
TCACATAGGTTCAAAACTTACCAAGCTCAACTCAAAATATAAACATAGCACCT
Found at i:93246762 original size:29 final size:29
Alignment explanation
Indices: 93246723--93246801 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
93246713 CTTAATAATC
*
93246723 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
93246753 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
* *
93246782 AGCCCGCACACTTAGCGCCA
1 AACCCGCACACTTAGTGCCA
93246802 ATCCCACAAC
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:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:93246850 original size:40 final size:41
Alignment explanation
Indices: 93246783--93246879 Score: 142
Period size: 40 Copynumber: 2.3 Consensus size: 41
93246773 TGCATTTCAA
*
93246783 GCCCGCACACTTAGCGCCAATCCCACAACCGTGAACACTTATT
1 GCCCGCACACTTA--GCCAATCCCACAACCGTGAACACATATT
*
93246826 GCCCGCACACTT-GCCAATCTCACAACCGTGAACACATATT
1 GCCCGCACACTTAGCCAATCCCACAACCGTGAACACATATT
*
93246866 GCCCGCGCACTTAG
1 GCCCGCACACTTAG
93246880 TGCCGAAAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 37 0.74
41 1 0.02
43 12 0.24
ACGTcount: A:0.27, C:0.39, G:0.15, T:0.19
Consensus pattern (41 bp):
GCCCGCACACTTAGCCAATCCCACAACCGTGAACACATATT
Found at i:93251406 original size:20 final size:19
Alignment explanation
Indices: 93251383--93251439 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
93251373 CATTACAAAT
93251383 ATATCTTATCATATACATAA
1 ATATCTTATCATATACAT-A
* * *
93251403 ATATCATATCA-AAACATT
1 ATATCTTATCATATACATA
93251421 ATATACTTATACATATACA
1 ATAT-CTTAT-CATATACA
93251440 AATGCCGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 4 0.14
19 9 0.31
20 12 0.41
21 4 0.14
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (19 bp):
ATATCTTATCATATACATA
Found at i:93252729 original size:41 final size:44
Alignment explanation
Indices: 93252684--93252802 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 44
93252674 GTTGCCACTG
* * * *
93252684 TCCCAGACAAGGTCTTACACGAATCA-A-AT-TTGATGCCAATA
1 TCCCAGACATGGTCTTACACGAACCACATATATCGATGCCAACA
93252725 TCCCAGACATGGTCTTACACGTAACCACATATATCGATGCCAACA
1 TCCCAGACATGGTCTTACACG-AACCACATATATCGATGCCAACA
* *
93252770 TCCCAGACGTGGTCTTACACGAGAACACATATA
1 TCCCAGACATGGTCTTACACGA-ACCACATATA
93252803 GGAAATCCTA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
41 20 0.30
42 4 0.06
43 1 0.01
44 3 0.04
45 39 0.58
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGAACCACATATATCGATGCCAACA
Found at i:93253493 original size:25 final size:25
Alignment explanation
Indices: 93253446--93253493 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
93253436 CTCAAAACTC
** *
93253446 AAATATTCATCAATGGAATAAATCA
1 AAATATTCATCAAAAGAAAAAATCA
*
93253471 AAATATTCATCAAAATAAAAAAT
1 AAATATTCATCAAAAGAAAAAAT
93253494 TCAAGCATGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.58, C:0.10, G:0.04, T:0.27
Consensus pattern (25 bp):
AAATATTCATCAAAAGAAAAAATCA
Found at i:93255368 original size:30 final size:30
Alignment explanation
Indices: 93255333--93255435 Score: 118
Period size: 30 Copynumber: 3.4 Consensus size: 30
93255323 GGTTGCTTTG
*
93255333 GGTGATATGAACTCAAACTGCCCATGTCCA
1 GGTGATATGAACTCAAACCGCCCATGTCCA
* * **
93255363 AGTGATATGAACT-AGAACCACCCATGTCTG
1 GGTGATATGAACTCA-AACCGCCCATGTCCA
* * *
93255393 GGTGACATGAACTCGAACCGTCCATGTCCA
1 GGTGATATGAACTCAAACCGCCCATGTCCA
93255423 GGTGATATGAACT
1 GGTGATATGAACT
93255436 ACTCTATGAC
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
29 1 0.02
30 57 0.98
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.23
Consensus pattern (30 bp):
GGTGATATGAACTCAAACCGCCCATGTCCA
Found at i:93258552 original size:47 final size:46
Alignment explanation
Indices: 93258413--93258592 Score: 166
Period size: 47 Copynumber: 3.8 Consensus size: 46
93258403 GGTCATTTGT
* * *
93258413 GAGAGCTAGTGTAAGTCCATGTCTGGGACATGGCATCGGCAATGAGAC
1 GAGAGCTAGTGTAAG-ACATGTCTGGGACAT-GCATCGGCTACGAGAC
* * *
93258461 GAGTGCTAGTGTAAGACATGTCTGGAACATACATCGGCCT-CGAGAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGAC
* * *
93258507 GTA-AGCTAGTGTTAAGACATGTCTGGGACATGCGTTGGCTACGAGAT
1 G-AGAGCTAGTG-TAAGACATGTCTGGGACATGCATCGGCTACGAGAC
* * * *
93258554 GATAGCCAGTGTAAGACCATGTCTGAGACACGGCATCGG
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACA-TGCATCGG
93258593 TACCTTACCC
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
46 27 0.25
47 62 0.57
48 19 0.18
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAC
Found at i:93259734 original size:21 final size:22
Alignment explanation
Indices: 93259695--93259735 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
93259685 TTGGAATGGT
93259695 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
*
93259717 CACATGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
93259736 ATGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.41, G:0.29, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:93263930 original size:37 final size:37
Alignment explanation
Indices: 93263880--93263958 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
93263870 TTATTACGAA
* *
93263880 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
93263917 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
93263954 GTCTT
1 GTCTT
93263959 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:93264155 original size:47 final size:47
Alignment explanation
Indices: 93264079--93264189 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 47
93264069 CTTCGGGACT
* * * * *
93264079 TATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
93264126 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
93264173 TATCACATATATACACT
1 TATCACATATATACACT
93264190 GTCTTGGCTG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:93268724 original size:26 final size:24
Alignment explanation
Indices: 93268680--93268729 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
93268670 ATTTGTTTTA
*
93268680 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
93268704 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
93268730 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:93270678 original size:10 final size:10
Alignment explanation
Indices: 93270657--93270698 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
93270647 GTTGTTTGGG
*
93270657 TTATTGATCT
1 TTATTTATCT
*
93270667 TTAATTATCT
1 TTATTTATCT
93270677 TTATTTAT-T
1 TTATTTATCT
93270686 TGTATTTATCT
1 T-TATTTATCT
93270697 TT
1 TT
93270699 TAGAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 2 0.07
10 23 0.85
11 2 0.07
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (10 bp):
TTATTTATCT
Found at i:93271927 original size:41 final size:41
Alignment explanation
Indices: 93271870--93271948 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
93271860 TTTTAGCAAG
* *
93271870 GCATTTCACCCTCAAACCGACAGTCAGTCGGAAAGAGTACA
1 GCATTTCACCCGCAAACCGACAGTCAGTCAGAAAGAGTACA
* * * *
93271911 GCATTTCACTCGCAAACTGACGGTTAGTCAGAAAGAGT
1 GCATTTCACCCGCAAACCGACAGTCAGTCAGAAAGAGT
93271949 GATTCAGATC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (41 bp):
GCATTTCACCCGCAAACCGACAGTCAGTCAGAAAGAGTACA
Found at i:93279634 original size:18 final size:18
Alignment explanation
Indices: 93279613--93279658 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
93279603 ATATTAGATG
*
93279613 TAAAAATGTGATTTTTAA
1 TAAAAATGTGATTTTAAA
93279631 TAAAAAT-T-ATTTTAAA
1 TAAAAATGTGATTTTAAA
*
93279647 GATAAAATGTGA
1 TA-AAAATGTGA
93279659 AATTGATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 8 0.35
19 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (18 bp):
TAAAAATGTGATTTTAAA
Found at i:93280310 original size:9 final size:9
Alignment explanation
Indices: 93280296--93280332 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
93280286 TATAGTTTGA
93280296 TATTCGAAT
1 TATTCGAAT
93280305 TATTCGAAT
1 TATTCGAAT
*
93280314 TATTCGAGT
1 TATTCGAAT
93280323 TATTCGAAT
1 TATTCGAAT
93280332 T
1 T
93280333 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:93280397 original size:9 final size:9
Alignment explanation
Indices: 93280383--93280415 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
93280373 ATTCAAGTTG
93280383 ACTCGAATA
1 ACTCGAATA
*
93280392 ACTCGATTA
1 ACTCGAATA
93280401 ACTCGAATA
1 ACTCGAATA
93280410 ACTCGA
1 ACTCGA
93280416 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Done.