Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 153 of 325
Found at i:48475823 original size:48 final size:47
Alignment explanation
Indices: 48475710--48475971 Score: 192
Period size: 46 Copynumber: 5.5 Consensus size: 47
48475700 GCTAATGTCG
* * * * * * **
48475710 TGTCCCAGACAAGTCTTACACTGGCTCTCATTTATCGATGTTGATGCCA
1 TGTCCCAGACATGTCTTACACTAGCT-TGATATCTCGAGGCCGAT-CCA
* *
48475759 TGTCCCAGACAGGTCTTACGCTAGCTTGTATATCTCGAGGCCGATCCA
1 TGTCCCAGACATGTCTTACACTAGCTTG-ATATCTCGAGGCCGATCCA
* * * * *
48475807 TATCCCAGACATGTCTTACACTAGCTCTG--GTCTCAATGCCGATGCA
1 TGTCCCAGACATGTCTTACACTAGCT-TGATATCTCGAGGCCGATCCA
* * * * *
48475853 TGTCCTAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCCAATGCA
1 TGTCCCAGACATGTCTTACACTAGCTTG-ATATCTCGAGGCCGATCCA
* ** * * *
48475901 TGTCCCAGACATGTCTTACACTGGCTCTCG-TA--AAGTGGCCAATGCA
1 TGTCCCAGACATGTCTTACACTAGCT-T-GATATCTCGAGGCCGATCCA
48475947 TGTCCCAGACATGTCTTACACTAGC
1 TGTCCCAGACATGTCTTACACTAGC
48475972 ACACATATCA
Statistics
Matches: 177, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
45 2 0.01
46 71 0.40
48 66 0.37
49 37 0.21
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
TGTCCCAGACATGTCTTACACTAGCTTGATATCTCGAGGCCGATCCA
Found at i:48475880 original size:94 final size:94
Alignment explanation
Indices: 48475752--48475971 Score: 282
Period size: 94 Copynumber: 2.3 Consensus size: 94
48475742 TATCGATGTT
* * * *
48475752 GATGCCATGTCCCAGACAGGTCTTACGCTAGCTTGTATATCTCGAGGCCGATCCATATCCCAGAC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTGCATATCTCGAGGCCAATCCATATCCCAGAC
* *
48475817 ATGTCTTACACTAGCTCTGGTCTCAA-T-GCC
65 ATGTCTTACACTAGCTCTCG--TAAAGTGGCC
* * * * *
48475847 GATGCATGTCCTAGACATGTCTTACACTGGCTTGCATCTCTCGAGGCCAATGCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTGCATATCTCGAGGCCAATCCATATCCCAGACA
*
48475912 TGTCTTACACTGGCTCTCGTAAAGTGGCC
66 TGTCTTACACTAGCTCTCGTAAAGTGGCC
*
48475941 AATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
48475972 ACACATATCA
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
92 3 0.03
93 1 0.01
94 100 0.93
95 4 0.04
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTGCATATCTCGAGGCCAATCCATATCCCAGACA
TGTCTTACACTAGCTCTCGTAAAGTGGCC
Found at i:48478350 original size:18 final size:18
Alignment explanation
Indices: 48478327--48478362 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48478317 ATTCCCGGAG
48478327 GTAGTCAGTTATCAACTC
1 GTAGTCAGTTATCAACTC
**
48478345 GTAGTCTTTTATCAACTC
1 GTAGTCAGTTATCAACTC
48478363 CAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCAGTTATCAACTC
Found at i:48487831 original size:9 final size:9
Alignment explanation
Indices: 48487817--48487842 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
48487807 TGAAAATTGA
48487817 AATTTAAAT
1 AATTTAAAT
48487826 AATTTAAAT
1 AATTTAAAT
48487835 AATTTAAA
1 AATTTAAA
48487843 ATCGTTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTTAAAT
Found at i:48490678 original size:46 final size:43
Alignment explanation
Indices: 48490627--48490803 Score: 176
Period size: 46 Copynumber: 3.9 Consensus size: 43
48490617 ATGGTTGAGC
48490627 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GA
** * *
48490671 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATAT-AACTAGGC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GGA
* * *
48490720 ATCCGAGCTCGTTGAATTGAGTCCAAGTTCACTTATGGATGTGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-G-A
*
48490765 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48490804 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
43 1 0.01
44 7 0.06
45 1 0.01
46 65 0.60
47 26 0.24
48 1 0.01
49 7 0.06
50 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (43 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGA
Found at i:48490784 original size:93 final size:93
Alignment explanation
Indices: 48490625--48490795 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
48490615 GGATGGTTGA
* * **
48490625 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCAAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAGT
48490690 TGAGTCCGAGTTCGAGAGATATAACTAG
66 TGAGTCCGAGTTCGAGAGATATAACTAG
* * *
48490718 GCATCCGAGCTCGTTGAATTGAGTCCAAGTTCACTTATGGATGTGAACATCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCAAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAGT
48490783 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
48490796 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTGAGTCCAAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATATAACTAG
Found at i:48493752 original size:15 final size:15
Alignment explanation
Indices: 48493713--48493791 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
48493703 GTATCTTGGG
*
48493713 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
48493728 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
48493743 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
48493757 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
48493772 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
48493786 TTTCTT
1 TTTCTT
48493792 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:48493776 original size:29 final size:29
Alignment explanation
Indices: 48493704--48493790 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
48493694 CATAGTATCG
* * * *
48493704 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
48493734 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
48493763 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
48493791 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:48496232 original size:46 final size:46
Alignment explanation
Indices: 48496179--48496346 Score: 148
Period size: 46 Copynumber: 3.6 Consensus size: 46
48496169 TGAGCATCCA
48496179 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * ** * *
48496225 AACTCGTTGAGTTGAGTCCAAGCTCGAGAGATAT-AACTAG-GTAT-T-CG
1 AACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAATGTCCG
* * * *
48496272 AGCTCGTTGAGTTGAGTCTGAGTTGACTTATGGATGCGAACG-CTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC-CG
*
48496318 AGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 AACTCGTTGAGTTGAGTCCGAGTTCACTT
48496347 TGGGCGGGTT
Statistics
Matches: 94, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
43 1 0.01
44 7 0.07
45 1 0.01
46 52 0.55
47 22 0.23
48 2 0.02
49 8 0.09
50 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:48503181 original size:49 final size:49
Alignment explanation
Indices: 48503120--48503338 Score: 179
Period size: 49 Copynumber: 4.6 Consensus size: 49
48503110 CATCAAAGTC
48503120 GATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCT
* * * * * *
48503169 GATGCCGTGTCCCGGACAGGTCTTACACTGGCTCTCATCTATCG-GTG-T
1 GATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAG-GCT
* * * * * *
48503217 CGATGCTACGTCCTAGATAGGTCTTACACTGAC--ACACA-A-C-AAGCT
1 -GATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCT
* *
48503262 GACGCCATGTCCCAGATAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCT
1 GATGCCATGTCCCAGATAGGTCTTACACTGA-CTT-TCATATATCGAGGCT
* * *
48503311 GATG-CATGTACCAGACATGTCTTACACT
1 GATGCCATGTCCCAGATAGGTCTTACACT
48503339 AGCTATAGTC
Statistics
Matches: 130, Mismatches: 29, Indels: 23
0.71 0.16 0.13
Matches are distributed among these distances:
43 1 0.01
44 27 0.21
45 2 0.02
46 3 0.02
47 2 0.02
48 24 0.18
49 71 0.55
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGATAGGTCTTACACTGACTTTCATATATCGAGGCT
Found at i:48503334 original size:48 final size:47
Alignment explanation
Indices: 48503267--48503480 Score: 147
Period size: 46 Copynumber: 4.5 Consensus size: 47
48503257 AAGCTGACGC
* *
48503267 CATGTCCCAGATAGGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGT-CCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
** *
48503315 CATGTACCAGACATGTCTTACACTAGC---TATAGTCTC-AATCTCGGTG
1 CATGT-CCAGACATGTCTTACACTAGCTTGTATA-TCTCGAGGCT-GATG
* * * * * *
48503361 CATGTCCTAGGCATGTCTTATACTAGCTTGCATCTCTCGGGGCCGATG
1 CATGTCC-AGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
* * * * *
48503409 CAAGTTCCAAACATGTCTTACACTGGTTCTCGTA-A--T-GTGGCTGATG
1 CATG-TCCAGACATGTCTTACACTAG--CTTGTATATCTCGAGGCTGATG
48503455 CATGTCCTAGACATGTCTTACACTAG
1 CATGTCC-AGACATGTCTTACACTAG
48503481 AACACATATC
Statistics
Matches: 127, Mismatches: 28, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
45 12 0.09
46 56 0.44
47 1 0.01
48 48 0.38
49 6 0.05
50 4 0.03
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (47 bp):
CATGTCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
Found at i:48511721 original size:104 final size:104
Alignment explanation
Indices: 48511541--48511764 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
48511531 TGTATATAAA
** * *
48511541 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
48511606 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
48511645 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
48511709 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
48511749 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
48511765 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:48511816 original size:71 final size:72
Alignment explanation
Indices: 48511683--48511834 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
48511673 TCATTGGTGG
* *
48511683 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
48511748 GAGGGGT
66 GAGGGGT
***
48511755 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
48511819 GAGGGGT
66 GAGGGGT
48511826 TGCTAAGTG
1 TGCTAAGTG
48511835 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:48519276 original size:104 final size:104
Alignment explanation
Indices: 48519096--48519319 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
48519086 TGTATATAAA
** * *
48519096 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
48519161 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
48519200 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
48519264 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
48519304 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
48519320 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:48519371 original size:71 final size:72
Alignment explanation
Indices: 48519238--48519389 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
48519228 TCATTGGTGG
* *
48519238 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
48519303 GAGGGGT
66 GAGGGGT
***
48519310 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
48519374 GAGGGGT
66 GAGGGGT
48519381 TGCTAAGTG
1 TGCTAAGTG
48519390 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:48525419 original size:32 final size:32
Alignment explanation
Indices: 48525373--48525433 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
48525363 TGAGATTACA
* *
48525373 TGTAAGACCATGTCTGGGACATTGGCATCGTT
1 TGTAAGACCATGTCTAGGACAGTGGCATCGTT
*
48525405 TGTAAGACCCTGTCTAGGACAGTGGCATC
1 TGTAAGACCATGTCTAGGACAGTGGCATC
48525434 AATATGTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (32 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGTT
Found at i:48530581 original size:8 final size:8
Alignment explanation
Indices: 48530564--48530594 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
48530554 GTAGAACAGC
*
48530564 AAATGTCG
1 AAATGCCG
48530572 AAATGCCG
1 AAATGCCG
48530580 AAATGCCG
1 AAATGCCG
48530588 AAATGCC
1 AAATGCC
48530595 AGTCACACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (8 bp):
AAATGCCG
Found at i:48530869 original size:27 final size:27
Alignment explanation
Indices: 48530839--48531323 Score: 325
Period size: 27 Copynumber: 18.0 Consensus size: 27
48530829 TATAGGATAG
* * **
48530839 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * **
48530866 AATTACT-AAATACCATTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
** * *
48530892 AATTACTAAAATACCCTCAATTAGCAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
48530919 AATTACCAAAATACCCTCGGTTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * *
48530946 AATTACCAAAATACCCTTAATTTTTGA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
48530973 AATTATTGAAATACCCTTGACTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
48531000 AATTACTTAAATACCTTTGACTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
48531027 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
48531054 AATTACCAAAATACCCTTGATTTGTGA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * ** *
48531081 AATTACCAAAATACGCTCGACCTATAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
48531108 AATTA-TCGAAATACCATTGACTTGTAA
1 AATTACT-AAAATACCCTTGATTTGTAA
* *
48531135 AATTACTAAAATACCTTTAATTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * * *
48531162 AATTACCAAAACACCCCTAATTTGGAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
48531189 AATTA-TCGAAATACCCTTAATTTGGAA
1 AATTACT-AAAATACCCTTGATTTGTAA
* * **
48531216 AATTAC-ATAAATACCCCTGGTTTACAA
1 AATTACTA-AAATACCCTTGATTTGTAA
* **
48531243 AATTACAAAAATACCCTTGACTTTCAAA
1 AATTACTAAAATACCCTTGA-TTTGTAA
* * *
48531271 AATTAC-AGAAATACCATTGGTTTGCAA
1 AATTACTA-AAATACCCTTGATTTGTAA
* *
48531298 AATTA-TCGAAATACCCTTGGTTTGTA
1 AATTACT-AAAATACCCTTGATTTGTA
48531324 GATTTACCAA
Statistics
Matches: 368, Mismatches: 79, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
26 25 0.07
27 320 0.87
28 23 0.06
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTGTAA
Found at i:48531292 original size:55 final size:55
Alignment explanation
Indices: 48531187--48531316 Score: 156
Period size: 55 Copynumber: 2.4 Consensus size: 55
48531177 CCTAATTTGG
* ** * *
48531187 AAAATTATCGAAATACCCTT-AATTTGGAAAATTACATAAATACCCCTGGTTTAC
1 AAAATTATCAAAATACCCTTGAATTTCAAAAATTACAGAAATACCACTGGTTTAC
* * *
48531241 AAAATTA-CAAAAATACCCTTGACTTTCAAAAATTACAGAAATACCATTGGTTTGC
1 AAAATTATC-AAAATACCCTTGAATTTCAAAAATTACAGAAATACCACTGGTTTAC
*
48531296 AAAATTATCGAAATACCCTTG
1 AAAATTATCAAAATACCCTTG
48531317 GTTTGTAGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.02
54 17 0.27
55 45 0.70
56 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (55 bp):
AAAATTATCAAAATACCCTTGAATTTCAAAAATTACAGAAATACCACTGGTTTAC
Found at i:48531627 original size:40 final size:41
Alignment explanation
Indices: 48531563--48531655 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 41
48531553 GAAGGAAGAA
*
48531563 ATTGAGGATTGCATGGTTGCTTGACGA-TCGTGGATCCACCT
1 ATTGAGGATCGCATGGTTGCTTGACGACT-GTGGATCCACCT
* *
48531604 ATTGATGATCGCAT-GTTGCTTGACGACTGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCT
*
48531644 ATTAAGGATCGC
1 ATTGAGGATCGC
48531656 GTGGATCCAC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
40 33 0.72
41 13 0.28
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCT
Found at i:48532110 original size:22 final size:22
Alignment explanation
Indices: 48532058--48532111 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
48532048 CATTTCTGCG
*
48532058 ATGTTTACGGCTATGTGCTATC
1 ATGTTTACGGCTATGTGATATC
* * *
48532080 CTATTTACGGCTATGTGATGTC
1 ATGTTTACGGCTATGTGATATC
*
48532102 ATGTCTACGG
1 ATGTTTACGG
48532112 TGTTGAGCCG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (22 bp):
ATGTTTACGGCTATGTGATATC
Found at i:48532226 original size:21 final size:20
Alignment explanation
Indices: 48532196--48532234 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
48532186 TCCCCACATT
48532196 GTGTGCTGGTTGGTACTGGTG
1 GTGTGCTGGTTGG-ACTGGTG
*
48532217 GTGTGTTGGTTGGACTGG
1 GTGTGCTGGTTGGACTGG
48532235 GCTGGTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.05, C:0.08, G:0.49, T:0.38
Consensus pattern (20 bp):
GTGTGCTGGTTGGACTGGTG
Found at i:48532693 original size:17 final size:18
Alignment explanation
Indices: 48532667--48532700 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48532657 TTTCGGAGAA
48532667 AATAAAGTTTTA-AAGAT
1 AATAAAGTTTTACAAGAT
*
48532684 AATAATGTTTTACAAGA
1 AATAAAGTTTTACAAGA
48532701 GAATGACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (18 bp):
AATAAAGTTTTACAAGAT
Found at i:48536531 original size:17 final size:17
Alignment explanation
Indices: 48536510--48536566 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
48536500 AATAAAAATA
48536510 ACAAAACATAAGAAAAC
1 ACAAAACATAAGAAAAC
* *
48536527 TCAAAACTTAA-AAATA-
1 ACAAAACATAAGAAA-AC
48536543 ACAAAACATAAGAAAAC
1 ACAAAACATAAGAAAAC
*
48536560 CCAAAAC
1 ACAAAAC
48536567 TTCTGAGGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 13 0.41
17 19 0.59
ACGTcount: A:0.67, C:0.19, G:0.04, T:0.11
Consensus pattern (17 bp):
ACAAAACATAAGAAAAC
Found at i:48536542 original size:33 final size:33
Alignment explanation
Indices: 48536502--48536568 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
48536492 CTTAAAAGAA
*
48536502 TAAAAATAACAAAACATAAGAAAACTCAAAACT
1 TAAAAATAACAAAACATAAGAAAACCCAAAACT
48536535 TAAAAATAACAAAACATAAGAAAACCCAAAACT
1 TAAAAATAACAAAACATAAGAAAACCCAAAACT
48536568 T
1 T
48536569 CTGAGGGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.66, C:0.16, G:0.03, T:0.15
Consensus pattern (33 bp):
TAAAAATAACAAAACATAAGAAAACCCAAAACT
Found at i:48536549 original size:16 final size:16
Alignment explanation
Indices: 48536501--48536553 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
48536491 TCTTAAAAGA
48536501 ATAAAAATAACAAAAC
1 ATAAAAATAACAAAAC
*
48536517 ATAAGAAA-ACTCAAAAC
1 ATAA-AAATA-ACAAAAC
*
48536534 TTAAAAATAACAAAAC
1 ATAAAAATAACAAAAC
48536550 ATAA
1 ATAA
48536554 GAAAACCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.70, C:0.13, G:0.02, T:0.15
Consensus pattern (16 bp):
ATAAAAATAACAAAAC
Found at i:48536794 original size:13 final size:13
Alignment explanation
Indices: 48536776--48536801 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48536766 GCTCGACAGG
48536776 GACACGCCCGTGT
1 GACACGCCCGTGT
48536789 GACACGCCCGTGT
1 GACACGCCCGTGT
48536802 ATGATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:48540082 original size:27 final size:27
Alignment explanation
Indices: 48540043--48540247 Score: 214
Period size: 27 Copynumber: 7.6 Consensus size: 27
48540033 TAAATTGTAC
*
48540043 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
48540070 AGTACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
48540097 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48540123 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
48540151 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48540178 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
48540206 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48540233 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48540248 GACTTAATAT
Statistics
Matches: 150, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
27 126 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48540104 original size:54 final size:54
Alignment explanation
Indices: 48540044--48540247 Score: 239
Period size: 54 Copynumber: 3.8 Consensus size: 54
48540034 AAATTGTACA
* * * *
48540044 GCACTAAGTGTGCGATTTGGCTATGTAGTACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
* ** * *
48540098 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
* **
48540152 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * * *
48540207 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
48540248 GACTTAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 79 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (54 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:48547853 original size:27 final size:27
Alignment explanation
Indices: 48547816--48548020 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
48547806 TAAATTGTAC
*
48547816 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48547843 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
48547870 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48547896 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
48547924 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48547951 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
48547979 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48548006 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48548021 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48547877 original size:54 final size:54
Alignment explanation
Indices: 48547817--48548020 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
48547807 AAATTGTACA
* * *
48547817 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
48547871 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
48547925 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
48547980 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
48548021 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:48557574 original size:21 final size:20
Alignment explanation
Indices: 48557548--48557590 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
48557538 GTCATAGTGA
48557548 CCACACAAGCGTGTTGCCCTT
1 CCACACAAGCGTGTT-CCCTT
**
48557569 CCACACGGGCGTGTTCCCTT
1 CCACACAAGCGTGTTCCCTT
48557589 CC
1 CC
48557591 TCAAGTGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.14, C:0.42, G:0.21, T:0.23
Consensus pattern (20 bp):
CCACACAAGCGTGTTCCCTT
Found at i:48558779 original size:24 final size:23
Alignment explanation
Indices: 48558701--48558795 Score: 106
Period size: 24 Copynumber: 4.1 Consensus size: 23
48558691 AATCTTACTG
*
48558701 TTTCAGCTC-ATTGGAGCTTACCGA
1 TTTCAGCTCGA-TAGAGCTTACC-A
*
48558725 TTT-AGCTCGAAAGAGCTTA-CA
1 TTTCAGCTCGATAGAGCTTACCA
*
48558746 ATTCAGCTCGATAGAGCTTACCA
1 TTTCAGCTCGATAGAGCTTACCA
*
48558769 TTTTCAGCTCGATAGAGCTTACTA
1 -TTTCAGCTCGATAGAGCTTACCA
48558793 TTT
1 TTT
48558796 ATCAGCTCAG
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
21 3 0.05
22 16 0.26
23 17 0.28
24 25 0.41
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (23 bp):
TTTCAGCTCGATAGAGCTTACCA
Found at i:48561471 original size:100 final size:100
Alignment explanation
Indices: 48561294--48561491 Score: 263
Period size: 100 Copynumber: 2.0 Consensus size: 100
48561284 TATTGTGATG
* * * * *
48561294 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGAATTATTGGTCGCATGTGTAGTATT
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGAATAATTGATCGCATGTATAGTACT
* * *
48561359 AAATGTATGCTACTATGTGTACCCGATAACTTTAA
66 AAATGCAGGCTACTATGTGTACCAGATAACTTTAA
* * *
48561394 TCACGTGTGTAGTACTAAGTGCT-GGCTACTACGTGTACTGGATAATTGATCGTATGTATAGTAC
1 TCACGTGTGTAGTACTAAGTG-TAGGCTACTACGTGTACCGAATAATTGATCGCATGTATAGTAC
* *
48561458 TAACTGCAGGCTACTATGTGTACCAGATAGCTTT
65 TAAATGCAGGCTACTATGTGTACCAGATAACTTT
48561492 GGCTACAAGT
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 83 0.99
101 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGAATAATTGATCGCATGTATAGTACT
AAATGCAGGCTACTATGTGTACCAGATAACTTTAA
Found at i:48561479 original size:49 final size:49
Alignment explanation
Indices: 48561299--48561486 Score: 187
Period size: 49 Copynumber: 3.8 Consensus size: 49
48561289 TGATGTCACG
* * * *
48561299 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACCGAATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGATCGCA
* * * * * * * *
48561348 TGTGTAGTATTAAATGTATGCTACTATGTGTACCCGATAACTTTAATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA--TTGATCGCA
* * * *
48561399 TGTGTAGTACTAAGTGCTGGCTACTACGTGTACTGGATAATTGATCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGATCGCA
* * *
48561448 TGTATAGTACTAACTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
48561487 GCTTTGGCTA
Statistics
Matches: 109, Mismatches: 28, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
49 72 0.66
51 37 0.34
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGATCGCA
Found at i:48567360 original size:16 final size:16
Alignment explanation
Indices: 48567339--48567369 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
48567329 ATGGCCTTAA
48567339 TAAACCTCATTTCATG
1 TAAACCTCATTTCATG
48567355 TAAACCTCATTTCAT
1 TAAACCTCATTTCAT
48567370 CTGTTTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (16 bp):
TAAACCTCATTTCATG
Found at i:48573946 original size:11 final size:11
Alignment explanation
Indices: 48573910--48573965 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
48573900 CATGGTATGT
48573910 ATGATATGCAC
1 ATGATATGCAC
* *
48573921 ATGACATG--T
1 ATGATATGCAC
48573930 ATGATATGCAC
1 ATGATATGCAC
*
48573941 ATGATATG--T
1 ATGATATGCAC
48573950 ATGATATGCAC
1 ATGATATGCAC
48573961 ATGAT
1 ATGAT
48573966 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:48573965 original size:20 final size:20
Alignment explanation
Indices: 48573899--48573965 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
48573889 ATTTTGATAA
*
48573899 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48573919 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
48573939 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
48573959 ACATGAT
1 ACATGAT
48573966 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48574098 original size:24 final size:24
Alignment explanation
Indices: 48574014--48574145 Score: 203
Period size: 25 Copynumber: 5.4 Consensus size: 24
48574004 GTAGGAAGTG
48574014 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
48574038 GATAAAGGGCTTATGCCTCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
48574063 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
48574088 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
48574112 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
48574135 TAAAAGAGGCT
1 TAAAAG-GGCT
48574146 AGGCCTCTAG
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
23 18 0.18
24 38 0.37
25 46 0.45
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:48574388 original size:31 final size:31
Alignment explanation
Indices: 48574353--48574415 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
48574343 CGTTTACAGT
*
48574353 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
**
48574384 AAAGGCTTCGACCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
48574415 A
1 A
48574416 GTGTGAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:48577653 original size:13 final size:13
Alignment explanation
Indices: 48577631--48577663 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
48577621 AGGGGTTTGT
48577631 TTAT-TAAACTAA
1 TTATCTAAACTAA
48577643 TTATCTAAACTAA
1 TTATCTAAACTAA
*
48577656 TTAACTAA
1 TTATCTAA
48577664 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:48578126 original size:20 final size:20
Alignment explanation
Indices: 48578101--48578140 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
48578091 GCATTAATAA
48578101 CACATAATTAAGAACAAATC
1 CACATAATTAAGAACAAATC
48578121 CACATAATTAAGAACAAATC
1 CACATAATTAAGAACAAATC
48578141 AAGTTTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (20 bp):
CACATAATTAAGAACAAATC
Found at i:48580581 original size:5 final size:5
Alignment explanation
Indices: 48580571--48580653 Score: 80
Period size: 5 Copynumber: 15.8 Consensus size: 5
48580561 TATGTTTTTC
* *
48580571 AAAAT AAAAT --AAT AAAATT GAAAT GAAAACA AAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAA-T AAAAT -AAAAT AAAAT
48580618 AAAAT AAAAT AAAAT AAAAT AAGAAT AAGAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT AAAA
48580654 AAAGGAGGAT
Statistics
Matches: 67, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
3 3 0.04
5 37 0.55
6 27 0.40
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:48580605 original size:6 final size:6
Alignment explanation
Indices: 48580591--48580654 Score: 57
Period size: 6 Copynumber: 11.5 Consensus size: 6
48580581 AATAAAATTG
* *
48580591 AAATGA AAACAA AAATAA AAAT-A AAAT-A AAAT-A AAAT-A AAAT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* *
48580634 AAATAA GAATAA GAATAA AAA
1 AAATAA AAATAA AAATAA AAA
48580655 AAGGAGGATT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
5 25 0.48
6 27 0.52
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:48580614 original size:37 final size:36
Alignment explanation
Indices: 48580571--48580653 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 36
48580561 TATGTTTTTC
*
48580571 AAAATAAAAT-AATAAAATTGAAATGAAAACAAAAATA
1 AAAATAAAATAAATAAAA-TAAAAT-AAAACAAAAATA
* *
48580608 AAAATAAAATAAAATAAAATAAAATAAAATAAGAATA
1 AAAATAAAAT-AAATAAAATAAAATAAAACAAAAATA
*
48580645 AGAATAAAA
1 AAAATAAAA
48580654 AAAGGAGGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
37 28 0.70
38 5 0.12
39 7 0.17
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (36 bp):
AAAATAAAATAAATAAAATAAAATAAAACAAAAATA
Found at i:48582709 original size:22 final size:23
Alignment explanation
Indices: 48582684--48582726 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
48582674 TTGTCCCTGG
48582684 CACGCCCGTGGTTTT-CTATCCC
1 CACGCCCGTGGTTTTCCTATCCC
* *
48582706 CACGCCTGTGTTTTTCCTATC
1 CACGCCCGTGGTTTTCCTATC
48582727 AAGTTCACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.09, C:0.37, G:0.16, T:0.37
Consensus pattern (23 bp):
CACGCCCGTGGTTTTCCTATCCC
Found at i:48592129 original size:34 final size:35
Alignment explanation
Indices: 48592056--48592129 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
48592046 AATAATCATT
** *
48592056 TACATTTACATGTCAATATGACCAATTATGACCTA
1 TACATTTACATGAAAATATGACCAATTATAACCTA
48592091 TACATTTACATGAAAATATGACCAA-TATAACCTA
1 TACATTTACATGAAAATATGACCAATTATAACCTA
48592125 TACAT
1 TACAT
48592130 GCCATTATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 13 0.36
35 23 0.64
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (35 bp):
TACATTTACATGAAAATATGACCAATTATAACCTA
Found at i:48595799 original size:10 final size:10
Alignment explanation
Indices: 48595786--48595823 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
48595776 TGCAAATTTG
*
48595786 TCAAAAATAA
1 TCAAAATTAA
48595796 TCAAAATTAA
1 TCAAAATTAA
48595806 TCAAAATTAA
1 TCAAAATTAA
*
48595816 TTAAAATT
1 TCAAAATT
48595824 CATTATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (10 bp):
TCAAAATTAA
Found at i:48597571 original size:21 final size:21
Alignment explanation
Indices: 48597547--48597586 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48597537 AAAACCCTTC
*
48597547 TTAAAATAAAAGAAACCTTAA
1 TTAAAATAAAAAAAACCTTAA
**
48597568 TTAACTTAAAAAAAACCTT
1 TTAAAATAAAAAAAACCTT
48597587 TCAGTTGCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (21 bp):
TTAAAATAAAAAAAACCTTAA
Found at i:48598662 original size:29 final size:29
Alignment explanation
Indices: 48598583--48598694 Score: 102
Period size: 29 Copynumber: 3.9 Consensus size: 29
48598573 ACCCCTACAT
* *
48598583 ACATGCATATGGCCCACTATGCCCAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
** * * *
48598611 TTATTCAAATGGCCCATCT-GGCCTAGTTC
1 ACATTCATATGGCCCA-CTAGGCCCAATTC
* **
48598640 ATATTTTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
*
48598669 ACATTCATATGGCCCATTAGGCCCAA
1 ACATTCATATGGCCCACTAGGCCCAA
48598695 ATCATATTAT
Statistics
Matches: 64, Mismatches: 17, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
28 18 0.28
29 46 0.72
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:48598700 original size:58 final size:57
Alignment explanation
Indices: 48598590--48598702 Score: 138
Period size: 58 Copynumber: 2.0 Consensus size: 57
48598580 CATACATGCA
* ** * **
48598590 TATGGCCCACTATGCCCAATCTTATTCAAATGGCCCATCTGGCCTAGTTCATATTTT
1 TATGGCCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTTT
*
48598647 TATGGCCCACTAGGCCCAATTCACATTCATATGGCCCAT-TAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCACATTCAAATGGCCCATCT-GGCCCAAATCATATT
48598703 ATATTCATGC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 19 0.40
58 28 0.60
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCAAATGGCCCATCTGGCCCAAATCATATTTT
Found at i:48598938 original size:16 final size:16
Alignment explanation
Indices: 48598917--48598959 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
48598907 ATAGCCCAAC
*
48598917 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCGGCA
*
48598933 TTTCGGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
*
48598949 TTTTGGCTTTT
1 TTTCGGCTTTT
48598960 GCCGATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.16, G:0.23, T:0.56
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:48601393 original size:42 final size:41
Alignment explanation
Indices: 48601332--48601483 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 41
48601322 AGATTACGTG
* *
48601332 TAAGACCATATCTGAGATATGGCATCGATATGACACTTTGT
1 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTTGT
* * * *
48601373 ATAAGACCATATCTGGGATATGGAATCAATGTGAGATTTTGT
1 -TAAGACCATATCTGGGATATGGCATCGATATGAGACTTTGT
* * * *
48601415 GTAAGACCATAACTGGGCTATTTGCATCGATATGAGATCCTATG-
1 -TAAGACCATATCTGGGATA-TGGCATCGATATGAGA--CTTTGT
48601459 TAAGACCATATCTGGGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
48601484 TGGTATATTA
Statistics
Matches: 89, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 57 0.64
43 29 0.33
45 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (41 bp):
TAAGACCATATCTGGGATATGGCATCGATATGAGACTTTGT
Found at i:48601572 original size:21 final size:21
Alignment explanation
Indices: 48601548--48601588 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48601538 GTTCAAAGGG
* *
48601548 AAATTCAATGAGTATGTTAAA
1 AAATACAAAGAGTATGTTAAA
*
48601569 AAATAGAAAGAGTATGTTAA
1 AAATACAAAGAGTATGTTAA
48601589 GTCACGAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.29
Consensus pattern (21 bp):
AAATACAAAGAGTATGTTAAA
Found at i:48602225 original size:30 final size:30
Alignment explanation
Indices: 48602188--48602256 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
48602178 ATGGGATAGA
48602188 CCGTGTGTCACACACAGCCTAGACACATAC
1 CCGTGTGTCACACACAGCCTAGACACATAC
* * *
48602218 TCGTGTGTCACACACGGCCTAGACACATGC
1 CCGTGTGTCACACACAGCCTAGACACATAC
48602248 CCGTGTGTC
1 CCGTGTGTC
48602257 TATCCATGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.23, C:0.35, G:0.22, T:0.20
Consensus pattern (30 bp):
CCGTGTGTCACACACAGCCTAGACACATAC
Found at i:48603869 original size:24 final size:24
Alignment explanation
Indices: 48603817--48603870 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
48603807 GAGGATATCA
*
48603817 AGGAGAAAGTTGTGGAGAGGACTG
1 AGGAGAAAGTTGTGGAGAGGAATG
* * * *
48603841 GGGAGAGATTTGTGGAGAGGAATT
1 AGGAGAAAGTTGTGGAGAGGAATG
48603865 AGGAGA
1 AGGAGA
48603871 TGGAGGTGTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.46, T:0.19
Consensus pattern (24 bp):
AGGAGAAAGTTGTGGAGAGGAATG
Found at i:48605070 original size:19 final size:19
Alignment explanation
Indices: 48605017--48605067 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
48605007 GGCCGTTATA
48605017 GGCCTCGTTGGGCCTAGATG
1 GGCCTCG-TGGGCCTAGATG
*
48605037 GGCCACGTGGGCCTAGATG
1 GGCCTCGTGGGCCTAGATG
48605056 GG-CTCGTGGGCC
1 GGCCTCGTGGGCC
48605068 CTACACGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 9 0.31
19 14 0.48
20 6 0.21
ACGTcount: A:0.10, C:0.27, G:0.43, T:0.20
Consensus pattern (19 bp):
GGCCTCGTGGGCCTAGATG
Found at i:48605655 original size:26 final size:26
Alignment explanation
Indices: 48605603--48605655 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
48605593 GCTGCGATAT
*
48605603 TGGTGTGTTGGTTGTGTTGGTACGGG
1 TGGTGTGTTGGTTGTGTTGGGACGGG
*
48605629 TGGTGTGTTGGTTG-GATTGGGATGGG
1 TGGTGTGTTGGTTGTG-TTGGGACGGG
48605655 T
1 T
48605656 TGCATATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.06, C:0.02, G:0.51, T:0.42
Consensus pattern (26 bp):
TGGTGTGTTGGTTGTGTTGGGACGGG
Found at i:48609407 original size:37 final size:37
Alignment explanation
Indices: 48609356--48609448 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 37
48609346 CCTGTAAAAT
* * * * *
48609356 CATAGTTGGACTATGGCATCTTAATAACGTATAAGAG
1 CATAGCTGGGCTATGGCATCGTAATAACATATAAGAC
* * *
48609393 CATAGCTGGGCTATGGCATCGTAATGACATGTATGAC
1 CATAGCTGGGCTATGGCATCGTAATAACATATAAGAC
*
48609430 CATGGCTGGGCTATGGCAT
1 CATAGCTGGGCTATGGCAT
48609449 TGTGATACGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (37 bp):
CATAGCTGGGCTATGGCATCGTAATAACATATAAGAC
Found at i:48615136 original size:16 final size:17
Alignment explanation
Indices: 48615115--48615147 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
48615105 CACAGTGAAG
48615115 TGTTTT-TTGAAAACCT
1 TGTTTTATTGAAAACCT
48615131 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
48615148 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (17 bp):
TGTTTTATTGAAAACCT
Found at i:48616510 original size:29 final size:29
Alignment explanation
Indices: 48616431--48616510 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 29
48616421 AAGTCAACAT
* *
48616431 ACATGCATACGGCCCA-CTAGGCCCAATC
1 ACATTCATATGGCCCATCTAGGCCCAATC
*
48616459 TCATTCATATGGCCCAT-TAGGCCCAAATC
1 ACATTCATATGGCCCATCTAGGCCC-AATC
48616488 ACATTCATATGGCCCATCT-GGCC
1 ACATTCATATGGCCCATCTAGGCC
48616511 TGAATCAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 20 0.44
29 24 0.53
30 1 0.02
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCATCTAGGCCCAATC
Found at i:48616517 original size:29 final size:29
Alignment explanation
Indices: 48616431--48616504 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 29
48616421 AAGTCAACAT
* * *
48616431 ACATGCATACGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
48616459 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
48616488 ACATTCATATGGCCCAT
1 ACATTCATATGGCCCAT
48616505 CTGGCCTGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 20 0.50
29 20 0.50
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:48616760 original size:16 final size:16
Alignment explanation
Indices: 48616735--48616773 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
48616725 ATCGTAGCCA
48616735 GACA-TTCGGCTTTTT
1 GACATTTCGGCTTTTT
48616750 GACATTTCGGCTTTTT
1 GACATTTCGGCTTTTT
*
48616766 GGCATTTC
1 GACATTTC
48616774 AGGAATTGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.46
Consensus pattern (16 bp):
GACATTTCGGCTTTTT
Found at i:48623537 original size:22 final size:23
Alignment explanation
Indices: 48623503--48623545 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
48623493 TCTATCAAAA
48623503 ATTATCAAAATTAATCAAAATTT
1 ATTATCAAAATTAATCAAAATTT
*
48623526 ATTAT-AAAATTAATTAAAAT
1 ATTATCAAAATTAATCAAAAT
48623546 CCAACATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTATCAAAATTAATCAAAATTT
Found at i:48625427 original size:23 final size:23
Alignment explanation
Indices: 48625397--48625442 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
48625387 AAGCCATGTG
* *
48625397 TCTCACACAGGCACCAGACACGC
1 TCTCACACAGCCACCAAACACGC
48625420 TCTCACACAGCCACCAAACACGC
1 TCTCACACAGCCACCAAACACGC
48625443 CCGTGTCACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.46, G:0.13, T:0.09
Consensus pattern (23 bp):
TCTCACACAGCCACCAAACACGC
Found at i:48627724 original size:17 final size:18
Alignment explanation
Indices: 48627702--48627739 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
48627692 TTTGTTTTGT
48627702 TTTAATTATT-ATTAACC
1 TTTAATTATTAATTAACC
*
48627719 TTTAATTATTAATTTACC
1 TTTAATTATTAATTAACC
48627737 TTT
1 TTT
48627740 TTAACCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATTATTAATTAACC
Found at i:48629815 original size:56 final size:56
Alignment explanation
Indices: 48629746--48629854 Score: 166
Period size: 56 Copynumber: 1.9 Consensus size: 56
48629736 CATGGTGTCA
* *
48629746 ATATATGTGTGCGAGTAAGACCACATTTAATATGTTGGC-TTCGATATGTGATTCCG
1 ATATATGTCTGCGAGTAAGACCACATCTAATATGTTGGCATT-GATATGTGATTCCG
* *
48629802 ATATATGTCTGCGAGTAAGACCACGTCTACTATGTTGGCATTGATATGTGATT
1 ATATATGTCTGCGAGTAAGACCACATCTAATATGTTGGCATTGATATGTGATT
48629855 ACGTGTAAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 46 0.96
57 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (56 bp):
ATATATGTCTGCGAGTAAGACCACATCTAATATGTTGGCATTGATATGTGATTCCG
Found at i:48653355 original size:40 final size:40
Alignment explanation
Indices: 48653285--48653502 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
48653275 AAACCAAGTA
* *
48653285 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
48653324 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48653364 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
48653404 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48653444 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
48653484 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48653503 TTACCATCTG
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.08
40 153 0.92
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48659931 original size:6 final size:6
Alignment explanation
Indices: 48659920--48659945 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48659910 AACCAAAATT
48659920 AATTTA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
48659946 ACTTTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:48662071 original size:64 final size:64
Alignment explanation
Indices: 48661967--48662173 Score: 186
Period size: 67 Copynumber: 3.2 Consensus size: 64
48661957 CATCATGTGT
* *
48661967 ACAAGAGAGCTACAAGAATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
1 ACAAGAGAGCTAC-GGGA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
48662032 AG
63 AG
* * * * * *
48662034 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
48662099 AG
63 AG
* * * * * * *
48662101 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACGTGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGGGATATA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
48662163 TACAAGAGAGC
1 -ACAAGAGAGC
48662174 CAAACTATAT
Statistics
Matches: 115, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 21 0.18
65 11 0.10
66 17 0.15
67 44 0.38
68 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:48664248 original size:18 final size:19
Alignment explanation
Indices: 48664206--48664251 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
48664196 TCACAATCGC
*
48664206 CATATTTCAAGTCATGCAAA
1 CATATTT-AATTCATGCAAA
48664226 -A-ATTTAATTCATG-AAA
1 CATATTTAATTCATGCAAA
48664242 CATATTTAAT
1 CATATTTAAT
48664252 AAACAAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 11 0.48
19 1 0.04
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (19 bp):
CATATTTAATTCATGCAAA
Found at i:48667176 original size:18 final size:18
Alignment explanation
Indices: 48667153--48667192 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
48667143 CCAACTCTCT
48667153 AACTCAATTTGGGTCTAC
1 AACTCAATTTGGGTCTAC
48667171 AACTCAATTTGGGTCTAC
1 AACTCAATTTGGGTCTAC
48667189 AACT
1 AACT
48667193 ACTCCACTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (18 bp):
AACTCAATTTGGGTCTAC
Found at i:48674995 original size:17 final size:17
Alignment explanation
Indices: 48674973--48675005 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48674963 AACTTAAGTA
48674973 TTGATATCC-ATAGCTAT
1 TTGATA-CCTATAGCTAT
48674990 TTGATACCTATAGCTA
1 TTGATACCTATAGCTA
48675006 CTCGAACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGATACCTATAGCTAT
Found at i:48683757 original size:25 final size:25
Alignment explanation
Indices: 48683729--48683779 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
48683719 CTAATTGTGT
48683729 AAGCATAGAACGCATCTTGTAGATG
1 AAGCATAGAACGCATCTTGTAGATG
48683754 AAGCATAGAACGCATCTTGTAGATG
1 AAGCATAGAACGCATCTTGTAGATG
48683779 A
1 A
48683780 TGTTGACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (25 bp):
AAGCATAGAACGCATCTTGTAGATG
Found at i:48684828 original size:96 final size:96
Alignment explanation
Indices: 48684664--48684857 Score: 388
Period size: 96 Copynumber: 2.0 Consensus size: 96
48684654 CTTAATTGGA
48684664 AGGAATCTCAAAATGCACATAATCAAGCTCCTAAACATCATTTATAAGCTAGTCTCGATGCCCTT
1 AGGAATCTCAAAATGCACATAATCAAGCTCCTAAACATCATTTATAAGCTAGTCTCGATGCCCTT
48684729 GAACAAGAAGCAACAAATGAAGCTCTTTTTG
66 GAACAAGAAGCAACAAATGAAGCTCTTTTTG
48684760 AGGAATCTCAAAATGCACATAATCAAGCTCCTAAACATCATTTATAAGCTAGTCTCGATGCCCTT
1 AGGAATCTCAAAATGCACATAATCAAGCTCCTAAACATCATTTATAAGCTAGTCTCGATGCCCTT
48684825 GAACAAGAAGCAACAAATGAAGCTCTTTTTG
66 GAACAAGAAGCAACAAATGAAGCTCTTTTTG
48684856 AG
1 AG
48684858 ATATTAGGTG
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.26
Consensus pattern (96 bp):
AGGAATCTCAAAATGCACATAATCAAGCTCCTAAACATCATTTATAAGCTAGTCTCGATGCCCTT
GAACAAGAAGCAACAAATGAAGCTCTTTTTG
Found at i:48688428 original size:17 final size:17
Alignment explanation
Indices: 48688375--48688430 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
48688365 TTTGAACTTT
*
48688375 TCAAAAGTATTTTTGAG
1 TCAAAAGTATTTTTTAG
* *
48688392 ACAAAA--ATGTTTT-G
1 TCAAAAGTATTTTTTAG
48688406 -CAAAAGTATTTTTTAG
1 TCAAAAGTATTTTTTAG
48688422 TCAAAAGTA
1 TCAAAAGTA
48688431 GAAGCAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 5 0.16
14 1 0.03
15 11 0.35
16 1 0.03
17 13 0.42
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (17 bp):
TCAAAAGTATTTTTTAG
Found at i:48690914 original size:7 final size:7
Alignment explanation
Indices: 48690904--48690929 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
48690894 ATAGTTAAAA
48690904 AATATAT
1 AATATAT
48690911 AATATAT
1 AATATAT
48690918 AATATAT
1 AATATAT
48690925 AATAT
1 AATAT
48690930 TTATTCGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATAT
Found at i:48693447 original size:19 final size:18
Alignment explanation
Indices: 48693420--48693497 Score: 59
Period size: 18 Copynumber: 4.2 Consensus size: 18
48693410 TATAAAAAAG
*
48693420 AAATATAAAATAATTTTTA
1 AAATTTAAAAT-ATTTTTA
*
48693439 AAATTTAAAATATTTATA
1 AAATTTAAAATATTTTTA
*** *
48693457 TTTTTTAAAATTTTTTTA
1 AAATTTAAAATATTTTTA
*
48693475 ATAATTTTAAAATA-ATTTA
1 A-AA-TTTAAAATATTTTTA
48693494 AAAT
1 AAAT
48693498 ATTTATATTT
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
17 1 0.02
18 21 0.47
19 15 0.33
20 8 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATTTAAAATATTTTTA
Found at i:48693496 original size:48 final size:48
Alignment explanation
Indices: 48693428--48693539 Score: 192
Period size: 48 Copynumber: 2.4 Consensus size: 48
48693418 AGAAATATAA
*
48693428 AATAATTTT-TAA-AATTTAAAATATTTATATTTTTTAAAATTTTTTT
1 AATAATTTTAAAATAATTTAAAATATTTATATTTTTTAAAATTTTTTT
*
48693474 AATAATTTTAAAATAATTTAAAATATTTATATTTTTTTAAATTTTTTT
1 AATAATTTTAAAATAATTTAAAATATTTATATTTTTTAAAATTTTTTT
48693522 AATAATTTTAAAATAATT
1 AATAATTTTAAAATAATT
48693540 CTAAGGAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
46 9 0.15
47 2 0.03
48 51 0.82
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (48 bp):
AATAATTTTAAAATAATTTAAAATATTTATATTTTTTAAAATTTTTTT
Found at i:48693508 original size:38 final size:38
Alignment explanation
Indices: 48693433--48693536 Score: 106
Period size: 38 Copynumber: 2.8 Consensus size: 38
48693423 TATAAAATAA
* * *
48693433 TTTTTAAAA-TTTAAAAT-ATTTATATTTTTTAAAATT
1 TTTTTAAAATTTTAAAATAATTTAAAATATTTAAAATT
*
48693469 TTTTTAATAATTTTAAAATAATTTAAAATATTT-ATATT
1 TTTTTAA-AATTTTAAAATAATTTAAAATATTTAAAATT
* **
48693507 TTTTTAAATTTTTTTAATAATTTTAAAATA
1 TTTTTAAAATTTTAAAATAA-TTTAAAATA
48693537 ATTCTAAGGA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
36 7 0.12
37 12 0.21
38 28 0.49
39 10 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (38 bp):
TTTTTAAAATTTTAAAATAATTTAAAATATTTAAAATT
Found at i:48693843 original size:30 final size:30
Alignment explanation
Indices: 48693787--48693845 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
48693777 ACTCGAACAA
* * *
48693787 TTTACTCTATTCGGTTCAAATGAATTTCAT
1 TTTACTCGATTCGATTCAAATAAATTTCAT
48693817 TTTACTCGATTCGATTCGAAA-AAATTTCA
1 TTTACTCGATTCGATTC-AAATAAATTTCA
48693846 AATCGAGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (30 bp):
TTTACTCGATTCGATTCAAATAAATTTCAT
Found at i:48694655 original size:22 final size:22
Alignment explanation
Indices: 48694630--48694676 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
48694620 TTGAAGAGGA
*
48694630 CTTGATTCATTGATTTCTCATG
1 CTTGATTCATTGATTTCGCATG
48694652 CTTGATTCATTGATTTCGCATG
1 CTTGATTCATTGATTTCGCATG
48694674 CTT
1 CTT
48694677 TATTGTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (22 bp):
CTTGATTCATTGATTTCGCATG
Found at i:48696047 original size:34 final size:34
Alignment explanation
Indices: 48695996--48696087 Score: 123
Period size: 34 Copynumber: 2.7 Consensus size: 34
48695986 CTCATCTTAG
**
48695996 TTAG-TAATTAAGTTGCTAGAATAAATGTTTATC
1 TTAGTTAATTAAGTTGCTAGAATAAATACTTATC
* *
48696029 TTAGTTAATTGAGGTGCTAGAATAAATACTTATC
1 TTAGTTAATTAAGTTGCTAGAATAAATACTTATC
* *
48696063 TTAGTTAATTTAGTTGCTGGAATAA
1 TTAGTTAATTAAGTTGCTAGAATAA
48696088 TTTATTGTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 4 0.08
34 47 0.92
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (34 bp):
TTAGTTAATTAAGTTGCTAGAATAAATACTTATC
Found at i:48696111 original size:9 final size:9
Alignment explanation
Indices: 48696099--48696154 Score: 76
Period size: 9 Copynumber: 5.9 Consensus size: 9
48696089 TTATTGTTAC
48696099 ATGTGTTTA
1 ATGTGTTTA
48696108 ATGTGTTTA
1 ATGTGTTTA
48696117 ATGTGTGATTA
1 ATGTGT--TTA
*
48696128 ATATGTTTA
1 ATGTGTTTA
48696137 ATGTGTTTTA
1 ATGTG-TTTA
48696147 ATGTGTTT
1 ATGTGTTT
48696155 GTTAAATGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
9 25 0.60
10 9 0.21
11 8 0.19
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.55
Consensus pattern (9 bp):
ATGTGTTTA
Found at i:48696128 original size:20 final size:20
Alignment explanation
Indices: 48696100--48696154 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
48696090 TATTGTTACA
48696100 TGTGTTTAATGTGTTTAATG
1 TGTGTTTAATGTGTTTAATG
* *
48696120 TGTGATTAATATGTTTAATG
1 TGTGTTTAATGTGTTTAATG
48696140 TGT-TTTAATGTGTTT
1 TGTGTTTAATGTGTTT
48696155 GTTAAATGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (20 bp):
TGTGTTTAATGTGTTTAATG
Found at i:48711983 original size:16 final size:16
Alignment explanation
Indices: 48711964--48711994 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
48711954 CAAGAAATAA
48711964 AATTAAACATACCTTC
1 AATTAAACATACCTTC
48711980 AATTAAACATACCTT
1 AATTAAACATACCTT
48711995 AGATTCTGAG
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:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (16 bp):
AATTAAACATACCTTC
Found at i:48713701 original size:9 final size:9
Alignment explanation
Indices: 48713689--48713750 Score: 88
Period size: 9 Copynumber: 6.6 Consensus size: 9
48713679 TTGTTACATA
48713689 TGTTTAATG
1 TGTTTAATG
48713698 TGTTTAATG
1 TGTTTAATG
48713707 TGTGATTAATG
1 TGT--TTAATG
*
48713718 TGTTTAATA
1 TGTTTAATG
48713727 TGTTTAATG
1 TGTTTAATG
48713736 TGTTTTAATG
1 TG-TTTAATG
48713746 TGTTT
1 TGTTT
48713751 GTTAAATGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
9 30 0.62
10 9 0.19
11 9 0.19
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (9 bp):
TGTTTAATG
Found at i:48713717 original size:20 final size:18
Alignment explanation
Indices: 48713689--48713750 Score: 88
Period size: 20 Copynumber: 3.3 Consensus size: 18
48713679 TTGTTACATA
48713689 TGTTTAATGTGTTTAATG
1 TGTTTAATGTGTTTAATG
*
48713707 TGTGATTAATGTGTTTAATA
1 TGT--TTAATGTGTTTAATG
48713727 TGTTTAATGTGTTTTAATG
1 TGTTTAATGTG-TTTAATG
48713746 TGTTT
1 TGTTT
48713751 GTTAAATGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.28
19 11 0.28
20 17 0.44
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (18 bp):
TGTTTAATGTGTTTAATG
Found at i:48713730 original size:29 final size:28
Alignment explanation
Indices: 48713689--48713750 Score: 97
Period size: 29 Copynumber: 2.2 Consensus size: 28
48713679 TTGTTACATA
*
48713689 TGTTTAATGTGTTTAATGTGTGATTAATG
1 TGTTTAATATGTTTAATGTGT-ATTAATG
*
48713718 TGTTTAATATGTTTAATGTGTTTTAATG
1 TGTTTAATATGTTTAATGTGTATTAATG
48713746 TGTTT
1 TGTTT
48713751 GTTAAATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (28 bp):
TGTTTAATATGTTTAATGTGTATTAATG
Found at i:48720270 original size:94 final size:93
Alignment explanation
Indices: 48720089--48720273 Score: 244
Period size: 93 Copynumber: 2.0 Consensus size: 93
48720079 GATGTACCTA
* ** *
48720089 GCACTAGTCAGATAAACTGACAAAAGTTGCGCCTAGTGCTACTCGGATAACCGAAAAATATAATG
1 GCACTAGTCAGATAAACTGACAAAAGTTGCGCCCAGCACTACTCGAATAACCGAAAAATATAATG
*
48720154 GTGTGCCCAACACTAGTTAGATAAATGG
66 GTGTGCCCAACACTAGTCAGATAAATGG
* * * * * *
48720182 GCACTAGTCAGATAAATTGACTAAAGTTGCGCCCAGCATTAGTCGAATAAATCGACAAATATAAT
1 GCACTAGTCAGATAAACTGACAAAAGTTGCGCCCAGCACTACTCGAAT-AACCGAAAAATATAAT
* *
48720247 GGTGTGCCTAGCACTAGTCAGATAAAT
65 GGTGTGCCCAACACTAGTCAGATAAAT
48720274 TGAGGAAAGT
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
93 40 0.51
94 38 0.49
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (93 bp):
GCACTAGTCAGATAAACTGACAAAAGTTGCGCCCAGCACTACTCGAATAACCGAAAAATATAATG
GTGTGCCCAACACTAGTCAGATAAATGG
Found at i:48723404 original size:27 final size:27
Alignment explanation
Indices: 48723374--48723438 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
48723364 AGCCTATATC
*
48723374 AGAGGCAGCACTGGTGAAGCCTCTGTT
1 AGAGGCGGCACTGGTGAAGCCTCTGTT
48723401 AGAGGCGGCACTGGTGAAGCCTCTGTT
1 AGAGGCGGCACTGGTGAAGCCTCTGTT
48723428 AGAGGCGGCAC
1 AGAGGCGGCAC
48723439 CAGTTGTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.22, C:0.23, G:0.37, T:0.18
Consensus pattern (27 bp):
AGAGGCGGCACTGGTGAAGCCTCTGTT
Found at i:48723583 original size:16 final size:16
Alignment explanation
Indices: 48723554--48723586 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48723544 GGGAGAAGAG
48723554 AAGAAAGAAAGAAAAA
1 AAGAAAGAAAGAAAAA
*
48723570 AAGAAAGAAGGAAAAA
1 AAGAAAGAAAGAAAAA
48723586 A
1 A
48723587 TTTTTCCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAGAAAGAAAGAAAAA
Found at i:48728469 original size:40 final size:40
Alignment explanation
Indices: 48728413--48728630 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
48728403 TGGATGATAA
48728413 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
48728454 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48728493 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48728533 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48728573 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
48728613 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48728631 TACTTGGCTT
Statistics
Matches: 168, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.10
40 151 0.90
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48733828 original size:152 final size:152
Alignment explanation
Indices: 48733469--48734764 Score: 2030
Period size: 152 Copynumber: 8.6 Consensus size: 152
48733459 ATTTATTTAG
*
48733469 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTA-TTTTTAAAATATATTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
* * *
48733533 CGTATTTTACTTTTTATATTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTT-
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTA
*
48733597 ATATTAATTTAGTAAGTAACCC
131 ATATTAATTTAGTAAATAACCC
* * * *
48733619 TAATTTTGACCTTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
*
48733684 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTA
*
48733749 ATATTAATTTATTAAATAACCC
131 ATATTAATTTAGTAAATAACCC
* * *
48733771 TTATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGAATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
*
48733836 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATATTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTA
48733901 ATATTAATTTAGTAAATAACCC
131 ATATTAATTTAGTAAATAACCC
***
48733923 TGATTTTGGCCCTTTGTTTGTATTTTTAAAA-TTTAAAATTTTTATTTTTTAAAATATACTATTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGA-TTTTATTTTTTAAAATATACTATTT
** * *
48733987 TAATATTTTATCTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTTAGTATTTTTT
65 TCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTT
* *
48734052 TATATTAAATTAGTAAATAACCC
130 AATATTAATTTAGTAAATAACCC
** * *
48734075 TGA-TTTGGCAATTTGTTTGTATTTTTAAAATTTCCGGATTTTTTTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
*
48734139 CAG-ATTTTA-TTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTTAGT-TTTTTT
66 C-GTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTT
*
48734201 TATATTAATTTAGTAAATAACCC
130 AATATTAATTTAGTAAATAACCC
48734224 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
48734289 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTA--ATTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTA
48734352 ATATTAATTTAGTAAATAACCC
131 ATATTAATTTAGTAAATAACCC
* * * *
48734374 TTATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGAATTCTATTTTTTAAAATATTCTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
* * * * *
48734439 TGTATTTTATCTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTTACTGTTTTTT-
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTA
*
48734503 ATATTAAATTAGTAAATAACCC
131 ATATTAATTTAGTAAATAACCC
* *
48734525 T-AATTTGGCCCTTTGTTTGTATTTTTAAAATTTT-TGA--TT-TTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
* * *
48734585 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTCAGTATTTTTTT
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTA
* *
48734650 ATATTAATTTAGTAAGTAACTC
131 ATATTAATTTAGTAAATAACCC
*
48734672 TGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
48734737 CGTATTTTA-TTTTTATATTATTTTAGTA
66 CGTATTTTATTTTTTATATTATTTTAGTA
48734765 AAAAACCAGC
Statistics
Matches: 1061, Mismatches: 68, Indels: 33
0.91 0.06 0.03
Matches are distributed among these distances:
146 79 0.07
147 21 0.02
148 31 0.03
149 35 0.03
150 323 0.30
151 229 0.22
152 343 0.32
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.57
Consensus pattern (152 bp):
TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTA
ATATTAATTTAGTAAATAACCC
Found at i:48733986 original size:23 final size:23
Alignment explanation
Indices: 48733945--48733996 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
48733935 TTTGTTTGTA
* *
48733945 TTTTTAAAATTTAAAATTTTTAT
1 TTTTTAAAATATAAAATTTTAAT
**
48733968 TTTTTAAAATATACTATTTTAAT
1 TTTTTAAAATATAAAATTTTAAT
*
48733991 ATTTTA
1 TTTTTA
48733997 TCTTTTATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTTAAAATATAAAATTTTAAT
Found at i:48734829 original size:17 final size:16
Alignment explanation
Indices: 48734798--48734838 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
48734788 TCAAAAAAAA
48734798 TATTTTTTTCATATTT
1 TATTTTTTTCATATTT
*
48734814 TATTTCTTTTCGTATTT
1 TATTT-TTTTCATATTT
48734831 TATTTTTT
1 TATTTTTT
48734839 CATTAAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (16 bp):
TATTTTTTTCATATTT
Found at i:48734865 original size:15 final size:15
Alignment explanation
Indices: 48734809--48734870 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
48734799 ATTTTTTTCA
*
48734809 TATTTTATTTCTTTTCG
1 TATTTTA-TT-TTTTAG
*
48734826 TATTTTATTTTTTCAT
1 TATTTTATTTTTT-AG
***
48734842 TAAGATATTTTTTAG
1 TATTTTATTTTTTAG
48734857 TATTTTATTTTTTA
1 TATTTTATTTTTTA
48734871 TACTATTTCT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
15 16 0.46
16 12 0.34
17 7 0.20
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (15 bp):
TATTTTATTTTTTAG
Found at i:48734868 original size:16 final size:16
Alignment explanation
Indices: 48734798--48734869 Score: 58
Period size: 16 Copynumber: 4.5 Consensus size: 16
48734788 TCAAAAAAAA
48734798 TATTTTTTTCA-TATTT
1 TATTTTTTT-AGTATTT
*
48734814 TATTTCTTTTCGTATTT
1 TATTT-TTTTAGTATTT
* * ***
48734831 TATTTTTTCATTAAGA
1 TATTTTTTTAGTATTT
48734847 TA-TTTTTTAGTATTT
1 TATTTTTTTAGTATTT
48734862 TATTTTTT
1 TATTTTTT
48734870 ATACTATTTC
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
15 10 0.24
16 17 0.41
17 14 0.34
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (16 bp):
TATTTTTTTAGTATTT
Found at i:48735359 original size:3 final size:3
Alignment explanation
Indices: 48735353--48735398 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
48735343 CCTCCTCCTC
*
48735353 CTT CTT CTT CTT C-T CTT CTT CCTT -TT CTT CTT CTC CTT CATT CTT
1 CTT CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CTT C-TT CTT
48735398 C
1 C
48735399 CCGAAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 4 0.11
3 27 0.73
4 6 0.16
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:48738925 original size:18 final size:18
Alignment explanation
Indices: 48738902--48738947 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
48738892 TCATACTTTC
*
48738902 ATATATATATATATGTAA
1 ATATATATATACATGTAA
*
48738920 ATATATCTATACATGTAA
1 ATATATATATACATGTAA
*
48738938 CTATATATAT
1 ATATATATAT
48738948 CTATTTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (18 bp):
ATATATATATACATGTAA
Found at i:48740278 original size:131 final size:129
Alignment explanation
Indices: 48740094--48740415 Score: 403
Period size: 131 Copynumber: 2.4 Consensus size: 129
48740084 TTCACAATTA
*
48740094 TTTAAGAATTCTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGTGGAATCGTGCCCTAAA
1 TTTAAAAATTCTTT-AAACGAAGGTGATATTCGATATTTGGCAATTCG-GGAATCGTGCCCTAAA
* * * *
48740159 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAGTCGAAGGTCCCTTTAGAATTTTAGC-CATG
64 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAAGGTCCCTTTAGAATTTCA-CTCATG
48740223 TCT
128 T-T
* * * **
48740226 TTTAAAAATTCTTTAAACGAAGGCGATGTTCAATATTTGGCAATTCGCGGAATCGTGCCCTATCG
1 TTTAAAAATTCTTTAAACGAAGGTGATATTCGATATTTGGCAATTCG-GGAATCGTGCCCTAAAG
* * * *
48740291 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATTAAAGGTCCCTTTTGAATTTCACTTATGTT
65 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAAGGTCCCTTTAGAATTTCACTCATGTT
* * * *
48740356 TTCTAAAAACTCTTCAAAACGAAGGTAATATTCGATGTTTGGCAATTCAGGGAATCGTGC
1 TT-TAAAAATTCTT-TAAACGAAGGTGATATTCGATATTTGGCAATTC-GGGAATCGTGC
48740416 TGGGTTGCGA
Statistics
Matches: 164, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
130 4 0.02
131 109 0.66
132 50 0.30
133 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (129 bp):
TTTAAAAATTCTTTAAACGAAGGTGATATTCGATATTTGGCAATTCGGGAATCGTGCCCTAAAGT
GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAAGGTCCCTTTAGAATTTCACTCATGTT
Found at i:48752594 original size:168 final size:168
Alignment explanation
Indices: 48752071--48752613 Score: 822
Period size: 168 Copynumber: 3.2 Consensus size: 168
48752061 AAAGACGGTG
* * * * *
48752071 AATCTAGTCTTCATGAGGTTGCAGTGAAACAGATTCAAGCCACCATCCTATCTCCCTAAAGTTGT
1 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGT
* *
48752136 AGTGGAGTAGCCTGAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGCCTTA
66 AGTGAAGTAGGCTGAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGCCTTA
48752201 ACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGCAA
131 ACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGCAA
* * * *
48752239 AATCTTGTCTTCCTGAAGTTGCAATGAAGTAGATGTAAACCACCATCCTATCTCCCTAAAGTTGT
1 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGT
*
48752304 AGTGGAA-TAGGCTGAAGATT-CAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGTCTT
66 AGT-GAAGTAGGCTGAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGCCTT
*
48752367 AACCCCCTAAGTAGTAGGGCAACAGGCCGAATATTGCAA
130 AACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGCAA
*
48752406 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCTACCATCCTATCTCCCTAAAGTTGT
1 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGT
* * *
48752471 AGTAAAGTAGGCTGAAGATTGCAGATCTCGTCTCCAGTGGAGAAGATCGAAGAAAACAAGCCTTA
66 AGTGAAGTAGGCTGAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGCCTTA
* * *
48752536 ACCCTCTAAGTAGTAGGGCAACAAGCCGAAGATTGTAA
131 ACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGCAA
* * * * *
48752574 GATCTTG-CCTCTCTGAAGTTGCAGTGGAGCATATTGAAGC
1 AATCTTGTCTTC-CTGAAGTTGCAGTGAAGCAGATTTAAGC
48752614 TACTTGAAGA
Statistics
Matches: 340, Mismatches: 31, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
166 2 0.01
167 159 0.47
168 177 0.52
169 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (168 bp):
AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGT
AGTGAAGTAGGCTGAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGCCTTA
ACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGCAA
Found at i:48754054 original size:18 final size:18
Alignment explanation
Indices: 48754031--48754065 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48754021 TCATTTGTAT
*
48754031 ATGTAAATATATCTATAC
1 ATGTAAATATATATATAC
*
48754049 ATGTAACTATATATATA
1 ATGTAAATATATATATA
48754066 TCTATTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (18 bp):
ATGTAAATATATATATAC
Found at i:48755391 original size:131 final size:129
Alignment explanation
Indices: 48755207--48755593 Score: 470
Period size: 131 Copynumber: 2.9 Consensus size: 129
48755197 TTCACAATTA
* * * *
48755207 TTTAAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGGCAATTCGTGGAATCGTGCCCTAAC
1 TTTAAAAATTCTTT-AAACAAAGGCGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATC
* *
48755272 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCATGT
65 GTGCTGGGTTGCAATTTCTCGTTTG-TCAAAATAATCGAAGGTCCCTTTAGAATTTCACCCATGT
48755337 CT
129 -T
48755339 TTTAAAAATTCTTTAAACAAAGGCGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCG
1 TTTAAAAATTCTTTAAACAAAGGCGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCG
* * * **
48755404 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCAAAGGTCTCTTTTGAATTTCACTTATGTT
66 TGCTGGGTTGCAATTTCTCGTTTG-TCAAAATAATCGAAGGTCCCTTTAGAATTTCACCCATGTT
* * * ** * * * *
48755469 TTCTAAAAACTCTTCAAAACTAAGGTAATATTCGATGTTTGGAAATTCGGGGAATCGTGCCTTAT
1 TT-TAAAAATTCTT-TAAACAAAGGCGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAT
* * * * *
48755534 CGTGCTGGGTTACGATTTC-CTGTTTGTCCAAAATGATCGAAGATTCCTTTAGAATTTCAC
64 CGTGCTGGGTTGCAATTTCTC-GTTTGT-CAAAATAATCGAAGGTCCCTTTAGAATTTCAC
48755594 TCATACTCTC
Statistics
Matches: 222, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
130 3 0.01
131 116 0.52
132 103 0.46
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (129 bp):
TTTAAAAATTCTTTAAACAAAGGCGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCG
TGCTGGGTTGCAATTTCTCGTTTGTCAAAATAATCGAAGGTCCCTTTAGAATTTCACCCATGTT
Found at i:48756500 original size:20 final size:19
Alignment explanation
Indices: 48756479--48756522 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
48756469 TTAAATATAT
48756479 TTTTATATTTTTATTAAAA
1 TTTTATATTTTTATTAAAA
* *
48756498 -TTTATATTTTTTTTATAAC
1 TTTTATATTTTTATTA-AAA
48756517 TTTTAT
1 TTTTAT
48756523 TAATTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 14 0.67
19 2 0.10
20 5 0.24
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTATATTTTTATTAAAA
Found at i:48757446 original size:19 final size:20
Alignment explanation
Indices: 48757405--48757449 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
48757395 TAAACCTAGA
* *
48757405 AAAAAATTAATAATATCATT
1 AAAAAATTAATAAAATCAAT
*
48757425 AAAAAA-TAATAAAATGAAT
1 AAAAAATTAATAAAATCAAT
48757444 AAAAAA
1 AAAAAA
48757450 ATATTATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAATTAATAAAATCAAT
Found at i:48761191 original size:30 final size:32
Alignment explanation
Indices: 48761124--48761192 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 32
48761114 GTTAATTTCA
* *
48761124 TTTTTCTAATATTATTTAATATTTTTATTTTAG
1 TTTTT-TAATATTAATTAATATTTTTATTCTAG
48761157 -TTTTTAAT-TTAATTAATATTTTT-TTCTAG
1 TTTTTTAATATTAATTAATATTTTTATTCTAG
48761186 TTTTTTA
1 TTTTTTA
48761193 TAACAGTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 5 0.15
30 20 0.61
31 4 0.12
32 4 0.12
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (32 bp):
TTTTTTAATATTAATTAATATTTTTATTCTAG
Found at i:48762744 original size:18 final size:18
Alignment explanation
Indices: 48762721--48762757 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48762711 TTATACAATG
* *
48762721 TGCGTATCTTAACCTTTA
1 TGCGTATCCTAACCCTTA
48762739 TGCGTATCCTAACCCTTA
1 TGCGTATCCTAACCCTTA
48762757 T
1 T
48762758 ATATATATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.41
Consensus pattern (18 bp):
TGCGTATCCTAACCCTTA
Found at i:48767414 original size:29 final size:28
Alignment explanation
Indices: 48767364--48767419 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
48767354 ATTTCTCTCA
48767364 AAATATTATTGTTTTAATTTTATATTTTG
1 AAATATTATTGTTTTAATTTTAT-TTTTG
48767393 AAAT-TTATTTGTTTTCAA-TTTATTTTT
1 AAATATTA-TTGTTTT-AATTTTATTTTT
48767420 ATAATGACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 7 0.28
29 16 0.64
30 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (28 bp):
AAATATTATTGTTTTAATTTTATTTTTG
Found at i:48771258 original size:32 final size:32
Alignment explanation
Indices: 48771212--48771276 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
48771202 TGGCAACTTG
*
48771212 ATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 ATATAAAATGTGTAAGACCATGGTTGAAAGAT
48771244 ATATAAAATGTGTAAGACCATGGTTGAAAGAT
1 ATATAAAATGTGTAAGACCATGGTTGAAAGAT
48771276 A
1 A
48771277 CCATGGCAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.28
Consensus pattern (32 bp):
ATATAAAATGTGTAAGACCATGGTTGAAAGAT
Found at i:48771306 original size:78 final size:78
Alignment explanation
Indices: 48771166--48771322 Score: 278
Period size: 78 Copynumber: 2.0 Consensus size: 78
48771156 GTGCTCTCTG
* * **
48771166 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAATGTGTAAGACC
1 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACC
48771231 ATGGTTGAAAGAT
66 ATGGTTGAAAGAT
48771244 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACC
1 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACC
48771309 ATGGTTGAAAGAT
66 ATGGTTGAAAGAT
48771322 A
1 A
48771323 CCATGGCAAC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (78 bp):
ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACC
ATGGTTGAAAGAT
Found at i:48771308 original size:46 final size:45
Alignment explanation
Indices: 48771256--48771444 Score: 236
Period size: 46 Copynumber: 4.1 Consensus size: 45
48771246 ATAAAATGTG
* *
48771256 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAA
48771302 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAA
* * *
48771348 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAA
* * * * * *
48771394 TAAGACCATAGTTGAAAGACACTATGGCATCATGTCA-AAGATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAA-ATGAA
48771439 TAAGAC
1 TAAGAC
48771445 TGTGGATGGG
Statistics
Matches: 127, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
44 2 0.02
45 10 0.08
46 115 0.91
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAA
Found at i:48771729 original size:16 final size:17
Alignment explanation
Indices: 48771708--48771740 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48771698 ATGGTGGAGC
48771708 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
48771724 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
48771741 TACTTAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:48775058 original size:3 final size:3
Alignment explanation
Indices: 48775050--48775105 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
48775040 AGATTATTCG
* * * * *
48775050 TTA TTA TTA TTA TTA ATA TTA TTA ATA ATA ATA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
48775098 TTG TTA TT
1 TTA TTA TT
48775106 TACATTACCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:48775071 original size:15 final size:15
Alignment explanation
Indices: 48775051--48775105 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
48775041 GATTATTCGT
*
48775051 TATTATTATTATTAA
1 TATTATTATTAATAA
*
48775066 TATTATTAATAATAA
1 TATTATTATTAATAA
* *
48775081 TATTATTATTAGTAT
1 TATTATTATTAATAA
*
48775096 TATTGTTATT
1 TATTATTATT
48775106 TACATTACCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (15 bp):
TATTATTATTAATAA
Found at i:48779825 original size:7 final size:7
Alignment explanation
Indices: 48779813--48779842 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
48779803 TGTTATAAAA
48779813 AATCAAC
1 AATCAAC
48779820 AATCAAC
1 AATCAAC
48779827 AATCAAC
1 AATCAAC
48779834 AATCAAC
1 AATCAAC
48779841 AA
1 AA
48779843 AAAGTCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (7 bp):
AATCAAC
Found at i:48779997 original size:11 final size:11
Alignment explanation
Indices: 48779981--48780016 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
48779971 CTAGAGCATC
48779981 CCTTGAAGTTT
1 CCTTGAAGTTT
*
48779992 CCTTGAAGGTT
1 CCTTGAAGTTT
*
48780003 CTTTGAAGTTT
1 CCTTGAAGTTT
48780014 CCT
1 CCT
48780017 AGCATAGGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.44
Consensus pattern (11 bp):
CCTTGAAGTTT
Found at i:48780842 original size:18 final size:18
Alignment explanation
Indices: 48780802--48780844 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
48780792 ATGCCGAAAA
*
48780802 TACTT-AGACATATTAAT
1 TACTTAAGACACATTAAT
48780819 TAACTTAAGACACATTAAT
1 T-ACTTAAGACACATTAAT
48780838 TACTTAA
1 TACTTAA
48780845 ACTAATCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (18 bp):
TACTTAAGACACATTAAT
Found at i:48783634 original size:48 final size:48
Alignment explanation
Indices: 48783563--48783659 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
48783553 ATATAATACC
*
48783563 AGAGAAAAATCACTATGAAATACCCAATTATAACAACCGCATTAAGAT
1 AGAGAAAAATCACAATGAAATACCCAATTATAACAACCGCATTAAGAT
48783611 AGAGAAAAATCACAATGAAATACCCAATTATAACAACCGCATTAAGAT
1 AGAGAAAAATCACAATGAAATACCCAATTATAACAACCGCATTAAGAT
48783659 A
1 A
48783660 TCTTTGCAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.20
Consensus pattern (48 bp):
AGAGAAAAATCACAATGAAATACCCAATTATAACAACCGCATTAAGAT
Found at i:48792520 original size:39 final size:40
Alignment explanation
Indices: 48792462--48792641 Score: 105
Period size: 40 Copynumber: 4.5 Consensus size: 40
48792452 AATCAAGCAT
* * *
48792462 CTTCGGGT-TT-AGCCGGATATAACCACTCGCA-CAAGGC
1 CTTCGGGTCTTAACCCGGATATAACCACTAGCATAAAGGC
*** *
48792499 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAACCCGGATATAACCACTAGCATAAAGGC
* * ** * * *
48792539 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAACCCGGATATAACCACTAGCATAAAGGC
* ** * ** * * *
48792579 CTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAACCCGGATATAACCAC-TAGCATAAAGGC
* *
48792620 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAACCCGGATAT
48792642 CATTCGAGTA
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
37 8 0.07
38 2 0.02
39 16 0.14
40 63 0.53
41 29 0.25
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAACCCGGATATAACCACTAGCATAAAGGC
Done.