Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 75 of 313
Found at i:25500632 original size:26 final size:26
Alignment explanation
Indices: 25500564--25500633 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
25500554 TCTTATCCCT
* *
25500564 ATTTTACCTCGAGTAAAATTTTGACG
1 ATTTTACCCCCAGTAAAATTTTGACG
*
25500590 ATTTTACCCCCAATAAAATTTTGACG
1 ATTTTACCCCCAGTAAAATTTTGACG
* *
25500616 ATTTTATCCCTAGTAAAA
1 ATTTTACCCCCAGTAAAA
25500634 ATTCGAAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (26 bp):
ATTTTACCCCCAGTAAAATTTTGACG
Found at i:25503455 original size:16 final size:16
Alignment explanation
Indices: 25503425--25503474 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
25503415 TCAAGAATTC
25503425 TTTT-TCCCTTCTTCTT
1 TTTTCTCCCTT-TTCTT
25503441 TTTTCTCCCTTTTCTT
1 TTTTCTCCCTTTTCTT
* * *
25503457 CTTCCTTCCTTTT-TT
1 TTTTCTCCCTTTTCTT
25503472 TTT
1 TTT
25503475 CTTTAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 4 0.14
16 19 0.66
17 6 0.21
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTCCCTTTTCTT
Found at i:25504893 original size:21 final size:19
Alignment explanation
Indices: 25504869--25504908 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
25504859 TTAATCATTC
25504869 TAAATTTATATTTATATTTTA
1 TAAA-TTAT-TTTATATTTTA
*
25504890 TAAATTATTTTTTATTTTA
1 TAAATTATTTTATATTTTA
25504909 GGTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 4 0.22
21 4 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TAAATTATTTTATATTTTA
Found at i:25505221 original size:4 final size:4
Alignment explanation
Indices: 25505212--25505239 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
25505202 TCACTAACAA
25505212 CTCC CTCC CTCC CTCC CTCC CTCC CTCC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC
25505240 ACGAACTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.75, G:0.00, T:0.25
Consensus pattern (4 bp):
CTCC
Found at i:25508729 original size:18 final size:18
Alignment explanation
Indices: 25508706--25508743 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
25508696 GAGTCCGAAA
25508706 CCTCGCCAAGTCTCGGAG
1 CCTCGCCAAGTCTCGGAG
25508724 CCTCGCCAAGTCTCGGAG
1 CCTCGCCAAGTCTCGGAG
25508742 CC
1 CC
25508744 ACTCTTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.42, G:0.26, T:0.16
Consensus pattern (18 bp):
CCTCGCCAAGTCTCGGAG
Found at i:25512596 original size:21 final size:22
Alignment explanation
Indices: 25512570--25512610 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25512560 CACTAGACAC
25512570 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
*
25512591 AGGGGCAACACGCTCGTGTG
1 AGGGGCAACACGCCCGTGTG
25512611 ACCAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:25513834 original size:46 final size:47
Alignment explanation
Indices: 25513784--25513962 Score: 181
Period size: 46 Copynumber: 3.9 Consensus size: 47
25513774 TACACTGACA
25513784 CATCTTGTA-GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-T
1 CATCTTGTAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
* * *
25513829 ACATCTCG-AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCT
1 -CATCTTGTAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
** * *
25513876 CAT-TTCAATGCCGATGCCATGTCCTAGA-ATGGTCTTACACTGGCTCT
1 CATCTTGTAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT
* ** * *
25513923 CGTAATGTA-GCTGATGCATGTCCCACACATGTCTTACACT
1 CATCTTGTAGGCCGATGCATGTCCCAGACATGTCTTACACT
25513963 AGCACACAAT
Statistics
Matches: 110, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
45 2 0.02
46 71 0.65
47 35 0.32
48 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
CATCTTGTAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT
Found at i:25513912 original size:93 final size:92
Alignment explanation
Indices: 25513793--25513965 Score: 228
Period size: 93 Copynumber: 1.9 Consensus size: 92
25513783 ACATCTTGTA
*
25513793 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCG-AGGCCGATGCATGTCCCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GTA-GCCGATGCATGTCCCA
25513855 AACATGTCTTACACTAGCTCTCATTTCAAT
63 AACATGTCTTACACTAGCTCTCATTTCAAT
* * * *
25513885 GCCGATGCCATGTCCTAGA-ATGGTCTTACACTGGCTCTCGTAATGTAGCTGATGCATGTCCCAC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGTAGCCGATGCATGTCCCAA
25513949 ACATGTCTTACACTAGC
64 ACATGTCTTACACTAGC
25513966 ACACAATTAA
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
92 9 0.13
93 59 0.83
94 3 0.04
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTAGCCGATGCATGTCCCAAAC
ATGTCTTACACTAGCTCTCATTTCAAT
Found at i:25515345 original size:18 final size:17
Alignment explanation
Indices: 25515324--25515373 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
25515314 TTAAATATGG
25515324 AAAATAAACAAATAACA
1 AAAATAAACAAATAACA
* *
25515341 TAAAATAAATAAAAAACA
1 -AAAATAAACAAATAACA
* *
25515359 AAATTAAACTAATAA
1 AAAATAAACAAATAA
25515374 ACTGAATGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAACAAATAACA
Found at i:25530287 original size:397 final size:396
Alignment explanation
Indices: 25529554--25530346 Score: 1559
Period size: 397 Copynumber: 2.0 Consensus size: 396
25529544 CTAATTCTTA
25529554 CCCTAAACTTCACTAAAATGATGAGGTGTTCCTTAGAAAAGAAGTTTTGAATGAAAAGATAAAGG
1 CCCTAAACTTCACTAAAATGATGAGGTGTTCCTTAGAAAAGAAGTTTTGAATGAAAAGATAAAGG
25529619 CCGCCATATTTGACATGGCTCCATTGAAAGTGCCTAAAAGTGATGGATATCACGCACTCTTTTTT
66 CCGCCATATTTGACATGGCTCCATTGAAAGTGCCTAAAAGTGATGGATATCACGCACTCTTTTTT
25529684 CCAAGTCAGTGGGAGCTAATTGGTAGTGCAATTTCATCCAATAAGCCTTTGTTCAATTCTTTACA
131 CCAAGTCAGTGGGAGCTAATTGGTAGTGCAATTTCATCCAATAAGCCTTTGTTCAATTCTTTACA
25529749 AATTGTTCATGAAGATTATTGCGAATAGATTTAAGATGGTATTTCCTTGAATTATTAAACTAGAA
196 AATTGTTCATGAAGATTATTGCGAATAGATTTAAGATGGTATTTCCTTGAATTATTAAACTAGAA
25529814 CAGGCTGGCTTTATTGTTAGAAGGAACATCACTGACAATATCACAGTGGCTCAAGAAGTTATCCA
261 CAGGCTGGCTTTATTGTTAGAAGGAACATCACTGACAATATCACAGTGGCTCAAGAAGTTATCCA
25529879 CTCAATGTGAAGCAAACACAAAAAAATGGATGGCTATTAAGATTGATTTGGAGAAAGCTTATGAC
326 CTCAATGTGAAGCAAACACAAAAAAATGGATGGCTATTAAGATTGATTTGGAGAAAGCTTATGAC
25529944 AGGGTNT
391 AGGGT-T
* *
25529951 CCCTAAACTTCACTAGAATGATGAGGTGTTCCTTAGAAAAGAAGTTTTGAATGAAGAGATAAAGG
1 CCCTAAACTTCACTAAAATGATGAGGTGTTCCTTAGAAAAGAAGTTTTGAATGAAAAGATAAAGG
25530016 CCGCCATATTTGACATGGCTCCATTGAAAGTGCCTAAAAGTGATGGATATCACGCACTCTTTTTT
66 CCGCCATATTTGACATGGCTCCATTGAAAGTGCCTAAAAGTGATGGATATCACGCACTCTTTTTT
25530081 CCAAGTCAGTGGGAGCTAATTGGTAGTGCAATTTCATCCAATAAGCCTTTGTTCAATTCTTTACA
131 CCAAGTCAGTGGGAGCTAATTGGTAGTGCAATTTCATCCAATAAGCCTTTGTTCAATTCTTTACA
25530146 AATTGTTCATGAAGATTATTGCGAATAGATTTAAGATGGTATTTCCTTGAATTATTAAACTAGAA
196 AATTGTTCATGAAGATTATTGCGAATAGATTTAAGATGGTATTTCCTTGAATTATTAAACTAGAA
25530211 CAGGCTGGCTTTATTGTTAGAAGGAACATCACTGACAATATCACAGTGGCTCAAGAAGTTATCCA
261 CAGGCTGGCTTTATTGTTAGAAGGAACATCACTGACAATATCACAGTGGCTCAAGAAGTTATCCA
25530276 CTCAATGTGAAGCAAACACAAAAAAATGGATGGCTATTAAGATTGATTTGGAGAAAGCTTATGAC
326 CTCAATGTGAAGCAAACACAAAAAAATGGATGGCTATTAAGATTGATTTGGAGAAAGCTTATGAC
25530341 AGGGTT
391 AGGGTT
25530347 AGTTGGAAAT
Statistics
Matches: 394, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
396 1 0.00
397 393 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (396 bp):
CCCTAAACTTCACTAAAATGATGAGGTGTTCCTTAGAAAAGAAGTTTTGAATGAAAAGATAAAGG
CCGCCATATTTGACATGGCTCCATTGAAAGTGCCTAAAAGTGATGGATATCACGCACTCTTTTTT
CCAAGTCAGTGGGAGCTAATTGGTAGTGCAATTTCATCCAATAAGCCTTTGTTCAATTCTTTACA
AATTGTTCATGAAGATTATTGCGAATAGATTTAAGATGGTATTTCCTTGAATTATTAAACTAGAA
CAGGCTGGCTTTATTGTTAGAAGGAACATCACTGACAATATCACAGTGGCTCAAGAAGTTATCCA
CTCAATGTGAAGCAAACACAAAAAAATGGATGGCTATTAAGATTGATTTGGAGAAAGCTTATGAC
AGGGTT
Found at i:25535266 original size:18 final size:18
Alignment explanation
Indices: 25535245--25535279 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25535235 TCAGTAACAC
25535245 ATTCAGTCACAGTATCAT
1 ATTCAGTCACAGTATCAT
*
25535263 ATTCAGTCACGGTATCA
1 ATTCAGTCACAGTATCA
25535280 AAAATTCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (18 bp):
ATTCAGTCACAGTATCAT
Found at i:25538067 original size:28 final size:28
Alignment explanation
Indices: 25538025--25538100 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
25538015 ATCTTCGATG
* *
25538025 TCTCGCACACTAAGTTCCATACTCAATA
1 TCTCGCACACAAAGTGCCATACTCAATA
* * *
25538053 TCTCGGACACAAAGTGCCATTCTTAATA
1 TCTCGCACACAAAGTGCCATACTCAATA
* * *
25538081 TTTTGCACACTAAGTGCCAT
1 TCTCGCACACAAAGTGCCAT
25538101 GTACATATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (28 bp):
TCTCGCACACAAAGTGCCATACTCAATA
Found at i:25538986 original size:31 final size:31
Alignment explanation
Indices: 25538949--25539025 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
25538939 TTTGAAGTGT
*
25538949 CACACGCTCGTGTGGTGGGGTCGTGTGGTCA
1 CACACGCCCGTGTGGTGGGGTCGTGTGGTCA
25538980 CACACGCCCGTGTGGTGGGGTCGTGTGGTCA
1 CACACGCCCGTGTGGTGGGGTCGTGTGGTCA
25539011 CACACGCCCGTGTGG
1 CACACGCCCGTGTGG
25539026 CTTGGGACAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.10, C:0.27, G:0.40, T:0.22
Consensus pattern (31 bp):
CACACGCCCGTGTGGTGGGGTCGTGTGGTCA
Found at i:25540106 original size:54 final size:54
Alignment explanation
Indices: 25540043--25540172 Score: 260
Period size: 54 Copynumber: 2.4 Consensus size: 54
25540033 TTAAGGTGGA
25540043 ATTACCAGTCCAGGCTAAATCCTCCGTATAGTGAACTCATAAGGTGATGTCGGG
1 ATTACCAGTCCAGGCTAAATCCTCCGTATAGTGAACTCATAAGGTGATGTCGGG
25540097 ATTACCAGTCCAGGCTAAATCCTCCGTATAGTGAACTCATAAGGTGATGTCGGG
1 ATTACCAGTCCAGGCTAAATCCTCCGTATAGTGAACTCATAAGGTGATGTCGGG
25540151 ATTACCAGTCCAGGCTAAATCC
1 ATTACCAGTCCAGGCTAAATCC
25540173 CTTGCAATGA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (54 bp):
ATTACCAGTCCAGGCTAAATCCTCCGTATAGTGAACTCATAAGGTGATGTCGGG
Found at i:25544832 original size:42 final size:42
Alignment explanation
Indices: 25544634--25544830 Score: 191
Period size: 42 Copynumber: 4.7 Consensus size: 42
25544624 TCGTTTACTT
* *
25544634 GATGCCATAGT-CCA-ACTATGGTCTTACACAAAGTCTCACATC
1 GATGCCATA-TCCCAGAC-ATGGTCTTACACAAAATCTCATATC
* * * * *
25544676 GTTGCCATGTCCTAGACATGGTCTTATACAAAATCACATATC
1 GATGCCATATCCCAGACATGGTCTTACACAAAATCTCATATC
* * *
25544718 GATGCCACATCCCAGACACGGTCTTACACAAAATCTCATACC
1 GATGCCATATCCCAGACATGGTCTTACACAAAATCTCATATC
* * * ***
25544760 AAAGCCATATCCCAGATATGGTCTTACACGTGATCTCATATC
1 GATGCCATATCCCAGACATGGTCTTACACAAAATCTCATATC
* * *
25544802 GATGTCATGTCCTAGACATGGTCTTACAC
1 GATGCCATATCCCAGACATGGTCTTACAC
25544831 GTATCACAAT
Statistics
Matches: 123, Mismatches: 30, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 1 0.01
42 120 0.98
43 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (42 bp):
GATGCCATATCCCAGACATGGTCTTACACAAAATCTCATATC
Found at i:25544880 original size:37 final size:37
Alignment explanation
Indices: 25544819--25544942 Score: 146
Period size: 37 Copynumber: 3.4 Consensus size: 37
25544809 TGTCCTAGAC
*
25544819 ATGGTCTTACACGT-ATCACAATGCCATAGCCCAGCT
1 ATGGTCTTACACGTCATCACGATGCCATAGCCCAGCT
* * *
25544855 ATGGTTTTACATGTCATCACGATGCCATAGCCGAGCT
1 ATGGTCTTACACGTCATCACGATGCCATAGCCCAGCT
* *
25544892 ATGGTCTTACACG-C-TACTACGATGCTATAGCCCAGAT
1 ATGGTCTTACACGTCAT-C-ACGATGCCATAGCCCAGCT
*
25544929 ATGGTCATACACGT
1 ATGGTCTTACACGT
25544943 ACCACATGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 1 0.01
36 14 0.19
37 59 0.80
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (37 bp):
ATGGTCTTACACGTCATCACGATGCCATAGCCCAGCT
Found at i:25547624 original size:28 final size:28
Alignment explanation
Indices: 25547569--25547645 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
25547559 ATCTTCGATG
* *
25547569 TCTCGCACACTAAGTGTCATACTCAATA
1 TCTCACACACTAAGTGCCATACTCAATA
* * *
25547597 TCTCACACACCAAGTGCCATTCTTAATA
1 TCTCACACACTAAGTGCCATACTCAATA
* **
25547625 TTTTTCACACTAAGTGCCATA
1 TCTCACACACTAAGTGCCATA
25547646 TATATATATA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (28 bp):
TCTCACACACTAAGTGCCATACTCAATA
Found at i:25549892 original size:6 final size:6
Alignment explanation
Indices: 25549840--25549888 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
25549830 ACGTCCAAAC
** * *
25549840 TAAAAA TAAAAA TAAAAA TTGAAA TAGAAA TAGAAA TAAAAA TATAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA-AAAA
25549889 ATAATCACCC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:25552311 original size:28 final size:28
Alignment explanation
Indices: 25552256--25552332 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
25552246 ATCTTCGATG
* *
25552256 TCTCGCACACTAAGTGTCATACTCAATA
1 TCTCACACACTAAGTGCCATACTCAATA
* * *
25552284 TCTCACACACCAAGTGCCATTCTTAATA
1 TCTCACACACTAAGTGCCATACTCAATA
* **
25552312 TTTTTCACACTAAGTGCCATA
1 TCTCACACACTAAGTGCCATA
25552333 TATATATATA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (28 bp):
TCTCACACACTAAGTGCCATACTCAATA
Found at i:25554579 original size:6 final size:6
Alignment explanation
Indices: 25554527--25554575 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
25554517 ACGTCCAAAC
** * *
25554527 TAAAAA TAAAAA TAAAAA TTGAAA TAGAAA TAGAAA TAAAAA TATAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA-AAAA
25554576 ATAATCACCC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:25562784 original size:47 final size:46
Alignment explanation
Indices: 25562686--25562806 Score: 125
Period size: 47 Copynumber: 2.6 Consensus size: 46
25562676 ATAGTCTAGC
* * * *
25562686 CATGGTCTTACACGGATCACATATCATACCGATGCCATATCCCAGA
1 CATGGTCTTATACGGAGCACATATCATACCGATACCATATCCAAGA
* * * *
25562732 TATGGTCTTATACGGAGGCTCATATTATACCGATACCATGTCCAAGA
1 CATGGTCTTATACGGA-GCACATATCATACCGATACCATATCCAAGA
* *
25562779 CATGGTATTATACGAAAGCACATTATCA
1 CATGGTCTTATACG-GAGCACA-TATCA
25562807 CATCACACCG
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
46 14 0.24
47 40 0.68
48 5 0.08
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (46 bp):
CATGGTCTTATACGGAGCACATATCATACCGATACCATATCCAAGA
Found at i:25562874 original size:52 final size:52
Alignment explanation
Indices: 25562780--25562911 Score: 158
Period size: 52 Copynumber: 2.5 Consensus size: 52
25562770 TGTCCAAGAC
** *
25562780 ATGGTATTATACGAAAGCACATTATCACATCACACCGATGCCATAACCCTGC-T
1 ATGGTATTATACGGGAGCACA-TATCACATCACACCGATGCCATAACCC-ACTT
* ** *
25562833 ATGGTCTTATACGGGAGCACATATCACATTGCACCGATGCCATAGCCCACTT
1 ATGGTATTATACGGGAGCACATATCACATCACACCGATGCCATAACCCACTT
* *
25562885 ATGGTTTTATACGGGTGCACATATCAC
1 ATGGTATTATACGGGAGCACATATCAC
25562912 TTCTTTTCCA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
51 1 0.01
52 50 0.72
53 18 0.26
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (52 bp):
ATGGTATTATACGGGAGCACATATCACATCACACCGATGCCATAACCCACTT
Found at i:25564448 original size:42 final size:42
Alignment explanation
Indices: 25564359--25564476 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
25564349 AGGTTATTAA
* * * * *
25564359 GATTCCGTATAAGACCATATCTGGGATATGGCCTCGGTATGT
1 GATTTCGTATAAGACCATATCAGGGATATGGCATCGATAAGT
* *
25564401 GATTTCGTATAAGACCATGTCAGGGACATGGCATCGATAAGAT
1 GATTTCGTATAAGACCATATCAGGGATATGGCATCGATAAG-T
* * *
25564444 -ATTTCATGTAAGACCATATCGGGGATATGGCAT
1 GATTTCGTATAAGACCATATCAGGGATATGGCAT
25564477 TGAAACGTTG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
42 62 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
GATTTCGTATAAGACCATATCAGGGATATGGCATCGATAAGT
Found at i:25568349 original size:40 final size:40
Alignment explanation
Indices: 25568305--25568514 Score: 154
Period size: 40 Copynumber: 5.2 Consensus size: 40
25568295 CATATGCTAT
**
25568305 CAGGAGCATTGTAGTGCTAACAAGAGTACGAAAGTACTAC
1 CAGGAGCACCGTAGTGCTAACAAGAGTACGAAAGTACTAC
* * **
25568345 CAGGAGCACCGTAGTGCTAATAAGAGTAGGAAAGTACTGT
1 CAGGAGCACCGTAGTGCTAACAAGAGTACGAAAGTACTAC
* * * * *
25568385 TAGGAGCACCGTAGTGTTATC-AGAAGTAGGAAAATACT-C
1 CAGGAGCACCGTAGTGCTAACAAG-AGTACGAAAGTACTAC
* * * * * **
25568424 TTAGAAGCACAGTAGTGCTATCAAGAGTATGAAAGTACTGT
1 -CAGGAGCACCGTAGTGCTAACAAGAGTACGAAAGTACTAC
* * * * * * *
25568465 TAGGAACACCATAGTGCTATCAGGAGTATGAAAGTACTAT
1 CAGGAGCACCGTAGTGCTAACAAGAGTACGAAAGTACTAC
*
25568505 CAAGAGCACC
1 CAGGAGCACC
25568515 TATTCAAGAT
Statistics
Matches: 139, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
39 2 0.01
40 135 0.97
41 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (40 bp):
CAGGAGCACCGTAGTGCTAACAAGAGTACGAAAGTACTAC
Found at i:25568513 original size:80 final size:80
Alignment explanation
Indices: 25568316--25568513 Score: 229
Period size: 80 Copynumber: 2.5 Consensus size: 80
25568306 AGGAGCATTG
* * * * *
25568316 TAGTGCTAACAAGAGTACGAAAGTACTACCAGGAGCACCGTAGTGCTAATAAGAGTAGGAAAGTA
1 TAGTGCTATCAGGAGTACGAAAGTACTATCAAGAGCACAGTAGTGCTAATAAGAGTAGGAAAGTA
* *
25568381 CTGTTAGGAGCACCG
66 CTGTTAGGAACACCA
* * * * * * *
25568396 TAGTGTTATCAGAAGTAGGAAAATACTCT-TAGAAGCACAGTAGTGCT-ATCAAGAGTATGAAAG
1 TAGTGCTATCAGGAGTACGAAAGTACTATCAAG-AGCACAGTAGTGCTAAT-AAGAGTAGGAAAG
25568459 TACTGTTAGGAACACCA
64 TACTGTTAGGAACACCA
*
25568476 TAGTGCTATCAGGAGTATGAAAGTACTATCAAGAGCAC
1 TAGTGCTATCAGGAGTACGAAAGTACTATCAAGAGCAC
25568514 CTATTCAAGA
Statistics
Matches: 95, Mismatches: 20, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 90 0.95
81 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (80 bp):
TAGTGCTATCAGGAGTACGAAAGTACTATCAAGAGCACAGTAGTGCTAATAAGAGTAGGAAAGTA
CTGTTAGGAACACCA
Found at i:25570793 original size:19 final size:19
Alignment explanation
Indices: 25570769--25570807 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
25570759 AAACATATTA
25570769 ATATGAAATATCATAAGAT
1 ATATGAAATATCATAAGAT
* *
25570788 ATATGAAGTATCATAGGAT
1 ATATGAAATATCATAAGAT
25570807 A
1 A
25570808 CAAGAAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (19 bp):
ATATGAAATATCATAAGAT
Found at i:25573261 original size:81 final size:81
Alignment explanation
Indices: 25573116--25573312 Score: 233
Period size: 81 Copynumber: 2.4 Consensus size: 81
25573106 TGCAAAAATT
* * * * *
25573116 GTAAAACACAGAGCAATAGCGGCGTTTT--TGAAACGCTGCTAAAAGATAGAGCTTTAGCGGCGT
1 GTAAAAGACAGAGCAATAGCGGCCTTTTGGTAAAACGCTGCTAAAAGACAGAGCATTAGCGGCG-
*
25573179 TTTTGA-TAAAA-CGTCG
65 TTTT-ACCAAAAGCGTCG
*
25573195 GTAAAAGACAGAGCAGTAGCGGCACTTTTGGTAAAACGC-GCTAAAAGACAGAGCATTAGCGGCG
1 GTAAAAGACAGAGCAATAGCGGC-CTTTTGGTAAAACGCTGCTAAAAGACAGAGCATTAGCGGCG
25573259 TTTTACCAAAAGCGTCG
65 TTTTACCAAAAGCGTCG
* * *
25573276 CTAAAAGACAGAGTATTAGCGGCGCTTTTGGTAAAAC
1 GTAAAAGACAGAGCAATAGCGGC-CTTTTGGTAAAAC
25573313 ACCACTAAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
79 22 0.22
80 12 0.12
81 61 0.60
82 7 0.07
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (81 bp):
GTAAAAGACAGAGCAATAGCGGCCTTTTGGTAAAACGCTGCTAAAAGACAGAGCATTAGCGGCGT
TTTACCAAAAGCGTCG
Found at i:25573323 original size:41 final size:41
Alignment explanation
Indices: 25573117--25573312 Score: 206
Period size: 41 Copynumber: 4.9 Consensus size: 41
25573107 GCAAAAATTG
* * *
25573117 TAAAACACAGAGCAATAGCGGCG-TTTT--TGAAACG-CTGC
1 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGTC-GC
* * * * *
25573155 TAAAAGATAGAGCTTTAGCGGCGTTTTTGATAAAACGTCGG
1 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGTCGC
* *
25573196 TAAAAGACAGAGCAGTAGCGGCACTTTTGGTAAAACG-CGC
1 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGTCGC
***
25573236 TAAAAGACAGAGCATTAGCGGCG-TTTTACCAAAAGCGTCGC
1 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAA-CGTCGC
*
25573277 TAAAAGACAGAGTATTAGCGGCGCTTTTGGTAAAAC
1 TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAAC
25573313 ACCACTAAAA
Statistics
Matches: 129, Mismatches: 22, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
38 19 0.15
39 12 0.09
40 25 0.19
41 64 0.50
42 9 0.07
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (41 bp):
TAAAAGACAGAGCATTAGCGGCGCTTTTGGTAAAACGTCGC
Found at i:25573758 original size:24 final size:24
Alignment explanation
Indices: 25573731--25573779 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
25573721 CGTATATTTA
*
25573731 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
25573755 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATATAAAAATTAAT
25573779 T
1 T
25573780 GTTATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAAAAGTCTATATAAAAATTAAT
Found at i:25574116 original size:7 final size:7
Alignment explanation
Indices: 25574057--25574117 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
25574047 GAGTTACTAT
*
25574057 TTTAAGG
1 TTTATGG
25574064 TTTATGG
1 TTTATGG
*
25574071 ATTATGG
1 TTTATGG
*
25574078 ATTATGGG
1 TTTAT-GG
25574086 TTTATGG
1 TTTATGG
*
25574093 ATTATGG
1 TTTATGG
**
25574100 TTTACAG
1 TTTATGG
25574107 TTTATGG
1 TTTATGG
25574114 TTTA
1 TTTA
25574118 AGGGTTGGGG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:25574146 original size:7 final size:7
Alignment explanation
Indices: 25574136--25574180 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
25574126 GGTTTAAGGT
*
25574136 TTAGGTG
1 TTAGGGG
25574143 TTAGGGG
1 TTAGGGG
25574150 TTAGGGG
1 TTAGGGG
25574157 TTAGGGG
1 TTAGGGG
*
25574164 TTATGGG
1 TTAGGGG
25574171 TTAGGGG
1 TTAGGGG
25574178 TTA
1 TTA
25574181 TGTGTTATGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.16, C:0.00, G:0.49, T:0.36
Consensus pattern (7 bp):
TTAGGGG
Found at i:25574187 original size:7 final size:7
Alignment explanation
Indices: 25574065--25574204 Score: 68
Period size: 7 Copynumber: 19.7 Consensus size: 7
25574055 ATTTTAAGGT
*
25574065 TTATGGA
1 TTATGGG
*
25574072 TTATGGA
1 TTATGGG
25574079 TTATGGG
1 TTATGGG
*
25574086 TTTATGGA
1 -TTATGGG
*
25574094 TTATGGT
1 TTATGGG
** *
25574101 TTACAGT
1 TTATGGG
*
25574108 TTATGGT
1 TTATGGG
*
25574115 TTAAGGG
1 TTATGGG
*
25574122 TT-GGGG
1 TTATGGG
* *
25574128 TTTAAGGT
1 -TTATGGG
25574136 TTA-GGTG
1 TTATGG-G
*
25574143 TTAGGGG
1 TTATGGG
*
25574150 TTAGGGG
1 TTATGGG
*
25574157 TTAGGGG
1 TTATGGG
25574164 TTATGGG
1 TTATGGG
*
25574171 TTAGGGG
1 TTATGGG
*
25574178 TTATGTG
1 TTATGGG
25574185 TTATGGG
1 TTATGGG
*
25574192 TTTAAGGG
1 -TTATGGG
25574200 TTATG
1 TTATG
25574205 TTGTATGATT
Statistics
Matches: 107, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
6 5 0.05
7 86 0.80
8 16 0.15
ACGTcount: A:0.19, C:0.01, G:0.39, T:0.42
Consensus pattern (7 bp):
TTATGGG
Found at i:25574211 original size:22 final size:21
Alignment explanation
Indices: 25574129--25574205 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
25574119 GGGTTGGGGT
* * *
25574129 TTAAGGTTTAGGTGTTAGGGG
1 TTAAGGGTTATGTGTTATGGG
* * *
25574150 TTAGGGGTTAGGGGTTATGGG
1 TTAAGGGTTATGTGTTATGGG
*
25574171 TTAGGGGTTATGTGTTATGGG
1 TTAAGGGTTATGTGTTATGGG
25574192 TTTAAGGGTTATGT
1 -TTAAGGGTTATGT
25574206 TGTATGATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 36 0.75
22 12 0.25
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (21 bp):
TTAAGGGTTATGTGTTATGGG
Found at i:25574565 original size:22 final size:21
Alignment explanation
Indices: 25574522--25574566 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
25574512 AATTTAATCT
*
25574522 AATTATTTTAAATATTACTTA
1 AATTATTTTAAAAATTACTTA
* *
25574543 AATTTTTTTAAAAAATTATTTA
1 AATTATTTT-AAAAATTACTTA
25574565 AA
1 AA
25574567 ATTAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AATTATTTTAAAAATTACTTA
Found at i:25574606 original size:22 final size:20
Alignment explanation
Indices: 25574553--25574609 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
25574543 AATTTTTTTA
25574553 AAAAATTATTTAAAATTAATAT
1 AAAAATTA--TAAAATTAATAT
25574575 AAAAGA-TATAATAATTCAATAT
1 AAAA-ATTATAA-AATT-AATAT
25574597 AAAAATTATAAAA
1 AAAAATTATAAAA
25574610 AAGTCAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 3 0.10
21 7 0.23
22 20 0.65
23 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATTATAAAATTAATAT
Found at i:25574652 original size:40 final size:40
Alignment explanation
Indices: 25574608--25574691 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
25574598 AAAATTATAA
* *
25574608 AAAAGTCAAACATTAGCGGAGTTTATGATAAAAACGCCGC
1 AAAAGGCAAACAATAGCGGAGTTTATGATAAAAACGCCGC
* *
25574648 AAAAGGCAAGCAATAGCGGCGTTTATGATAAAAACGCCGC
1 AAAAGGCAAACAATAGCGGAGTTTATGATAAAAACGCCGC
25574688 AAAA
1 AAAA
25574692 AAGTAATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (40 bp):
AAAAGGCAAACAATAGCGGAGTTTATGATAAAAACGCCGC
Found at i:25577895 original size:33 final size:33
Alignment explanation
Indices: 25577844--25577907 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
25577834 ATCCTTTGGA
*
25577844 TCTCTTTGCTACTAGTTCCAATGCGTATGTTTT
1 TCTCATTGCTACTAGTTCCAATGCGTATGTTTT
*
25577877 TCTCATTGCTAC-AGGTTCCAATGCTTATGTT
1 TCTCATTGCTACTA-GTTCCAATGCGTATGTT
25577908 CTTAAGTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (33 bp):
TCTCATTGCTACTAGTTCCAATGCGTATGTTTT
Found at i:25578359 original size:242 final size:241
Alignment explanation
Indices: 25577935--25578370 Score: 809
Period size: 242 Copynumber: 1.8 Consensus size: 241
25577925 ATGAATTAAT
*
25577935 TTTATTACCATGTAGCTTGCTTGTCGATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
* *
25578000 TTTTTAAATATTTTAAAGATTCAAAGTATATAAGCTGGAAACGTAACGGGTTGTCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAAGCTGGAAACCTAACGGGTTGCCTTATATCGAG
25578065 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
25578130 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
25578176 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACC-T
* * *
25578241 TTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATTGA
65 TTTTTTAAATATTTTAAAGATTCAAAGTATATAAGCTGGAAACCTAACGGGTTGCCTTATATCGA
25578306 GCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
130 GCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
25578371 NNNNNNNNNN
Statistics
Matches: 188, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
241 62 0.33
242 126 0.67
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
TTTTTAAATATTTTAAAGATTCAAAGTATATAAGCTGGAAACCTAACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:25583837 original size:21 final size:21
Alignment explanation
Indices: 25583799--25583838 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25583789 AGTAGAGAGG
*
25583799 GAGGCAGCGGCTGCAGCGAGA
1 GAGGCAGAGGCTGCAGCGAGA
25583820 GAGGCAGAGGCATG-AGCGA
1 GAGGCAGAGGC-TGCAGCGA
25583839 TGGTAGCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.28, C:0.20, G:0.47, T:0.05
Consensus pattern (21 bp):
GAGGCAGAGGCTGCAGCGAGA
Found at i:25584131 original size:31 final size:32
Alignment explanation
Indices: 25584072--25584131 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
25584062 TAGAATTAAT
* *
25584072 TTTTTGGTTGTATTTTTATGCTAAATTTGCTG
1 TTTTTGGCTGTATTTTTATACTAAATTTGCTG
*
25584104 TTTTTGGCTGTA-TTTTATACTATATTTG
1 TTTTTGGCTGTATTTTTATACTAAATTTG
25584132 TTATATTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.17, C:0.07, G:0.17, T:0.60
Consensus pattern (32 bp):
TTTTTGGCTGTATTTTTATACTAAATTTGCTG
Found at i:25584141 original size:31 final size:31
Alignment explanation
Indices: 25584074--25584151 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
25584064 GAATTAATTT
* * *
25584074 TTTGGTTGTATTTTTATGCTAAATTTGCTGTT
1 TTTGGTTGTA-TTTTATACTAAATTTGCTATA
* * *
25584106 TTTGGCTGTATTTTATACTATATTTGTTATA
1 TTTGGTTGTATTTTATACTAAATTTGCTATA
*
25584137 TTTGGTTGGATTTTA
1 TTTGGTTGTATTTTA
25584152 ATGCAGGAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 29 0.76
32 9 0.24
ACGTcount: A:0.18, C:0.05, G:0.18, T:0.59
Consensus pattern (31 bp):
TTTGGTTGTATTTTATACTAAATTTGCTATA
Found at i:25584265 original size:43 final size:43
Alignment explanation
Indices: 25584203--25584381 Score: 268
Period size: 43 Copynumber: 4.2 Consensus size: 43
25584193 TCTGCCAAAA
* * * *
25584203 TTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCGTGATTT
1 TTAGCGGCACTTTTCCCACAAACGCCACTAAAAGCCATGACTT
* * *
25584246 TTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCATGACTT
1 TTAGCGGCACTTTTCCCACAAACGCCACTAAAAGCCATGACTT
*
25584289 TTAGTGGCACTTTTCCCACAAACGCCACTAAAAGCCATGACTT
1 TTAGCGGCACTTTTCCCACAAACGCCACTAAAAGCCATGACTT
* *
25584332 TTAGTGGCACTTTTCCCACAAACGCCACTAAAAGCCTTGACTT
1 TTAGCGGCACTTTTCCCACAAACGCCACTAAAAGCCATGACTT
25584375 TTAGCGG
1 TTAGCGG
25584382 AATTTTTTTC
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 127 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (43 bp):
TTAGCGGCACTTTTCCCACAAACGCCACTAAAAGCCATGACTT
Found at i:25585417 original size:24 final size:23
Alignment explanation
Indices: 25585368--25585417 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
25585358 ATAAAGTAGT
* *
25585368 TATATATTATTTTTATAATATTA
1 TATATATGATTTTTATAATATCA
25585391 TATATTATGATTTTTATTAAT-TCA
1 TATA-TATGATTTTTA-TAATATCA
25585415 TAT
1 TAT
25585418 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TATATATGATTTTTATAATATCA
Found at i:25585539 original size:62 final size:59
Alignment explanation
Indices: 25585387--25585546 Score: 177
Period size: 62 Copynumber: 2.7 Consensus size: 59
25585377 TTTTTATAAT
* * * *
25585387 ATTATATATTATGATTTTTATT-AATTCATATTTTAATAATAA-TATTGAGAATGTTATTAA
1 ATTAT-TATTATTATTTTTATTAAATT-ATA-TTTAATAATAATTATTGAAAATATGATTAA
* *
25585447 ATTA-TA-TATTA-TTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATGATTAA
1 ATTATTATTATTATTTTTATTAAATTATATTTAATAATAATTAT-TGAAAATATGATTAA
25585504 ATTATTTATTATTATTTATTATTAAATTATATTTAATAATAAT
1 ATTA-TTATTATTATTT-TTATTAAATTATATTTAATAATAAT
25585547 CTTATTAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
55 11 0.13
56 12 0.14
57 23 0.27
58 2 0.02
59 2 0.02
60 9 0.11
61 2 0.02
62 24 0.28
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (59 bp):
ATTATTATTATTATTTTTATTAAATTATATTTAATAATAATTATTGAAAATATGATTAA
Found at i:25585745 original size:16 final size:16
Alignment explanation
Indices: 25585724--25585754 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25585714 TGAATTACTA
*
25585724 ATTACAACTCTATTCT
1 ATTACAACTCCATTCT
25585740 ATTACAACTCCATTC
1 ATTACAACTCCATTC
25585755 CATTCTCCAA
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:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACAACTCCATTCT
Found at i:25589853 original size:19 final size:19
Alignment explanation
Indices: 25589789--25589953 Score: 109
Period size: 19 Copynumber: 8.4 Consensus size: 19
25589779 AATTATAAAA
* *
25589789 ATTAAATATTTCAAATAATT
1 ATTAAA-ATTTGAAAAAATT
*** *
25589809 ATTAAATATTTTTGAAAATA
1 ATTAAA-ATTTGAAAAAATT
25589829 ACTTAAAATCTT-AAAAAATT
1 A-TTAAAAT-TTGAAAAAATT
*
25589849 ATTAAAAATT-ACAAAACATTT
1 ATTAAAATTTGA-AAAA-A-TT
* *
25589870 TTTAAAATTTGTAAAAATT
1 ATTAAAATTTGAAAAAATT
**
25589889 ATTAAAATTTGGGAAAATT
1 ATTAAAATTTGAAAAAATT
**
25589908 ATTAAAATTTGGGAAAATT
1 ATTAAAATTTGAAAAAATT
* *
25589927 ATTAAAAATTGTAAATAATT
1 ATTAAAATTTG-AAAAAATT
25589947 ATTAAAA
1 ATTAAAA
25589954 AATTATTTAA
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.03
19 57 0.48
20 38 0.32
21 21 0.18
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTAAAATTTGAAAAAATT
Found at i:25589855 original size:10 final size:10
Alignment explanation
Indices: 25589759--25589967 Score: 70
Period size: 10 Copynumber: 21.5 Consensus size: 10
25589749 AAAAATGTTT
25589759 AAATTATTAA
1 AAATTATTAA
* *
25589769 AAA-AATAAA
1 AAATTATTAA
25589778 AAATTA-T-A
1 AAATTATTAA
25589786 AAA--ATTAA
1 AAATTATTAA
* *
25589794 ATATT-TCAA
1 AAATTATTAA
25589803 ATAATTATTAA
1 A-AATTATTAA
* * *
25589814 ATATTTTTGA
1 AAATTATTAA
*
25589824 AAATAACTT-A
1 AAATTA-TTAA
*
25589834 AAATCT-TAAA
1 AAAT-TATTAA
25589844 AAATTATTAA
1 AAATTATTAA
*
25589854 AAATTA-CAA
1 AAATTATTAA
* *
25589863 AACATTTTTTA
1 AA-ATTATTAA
25589874 AAATT-TGTAA
1 AAATTAT-TAA
25589884 AAATTATT-A
1 AAATTATTAA
**
25589893 AAATT-TGGGA
1 AAATTAT-TAA
25589903 AAATTATT-A
1 AAATTATTAA
**
25589912 AAATT-TGGGA
1 AAATTAT-TAA
25589922 AAATTATTAA
1 AAATTATTAA
*
25589932 AAATT-GTAA
1 AAATTATTAA
25589941 ATAATTATTAAA
1 A-AATTATT-AA
*
25589953 AAATTATTTA
1 AAATTATTAA
25589963 AAATT
1 AAATT
25589968 TGAATTGGTA
Statistics
Matches: 145, Mismatches: 30, Indels: 48
0.65 0.13 0.22
Matches are distributed among these distances:
6 1 0.01
7 1 0.01
8 9 0.06
9 34 0.23
10 77 0.53
11 20 0.14
12 3 0.02
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (10 bp):
AAATTATTAA
Found at i:25589856 original size:20 final size:20
Alignment explanation
Indices: 25589841--25589954 Score: 99
Period size: 20 Copynumber: 5.8 Consensus size: 20
25589831 TTAAAATCTT
**
25589841 AAAAAATTATTAAAAATTAC
1 AAAAAATTATTAAAAATTTG
* * *
25589861 AAAACATTTTTTAAAATTTG
1 AAAAAATTATTAAAAATTTG
*
25589881 TAAAAATTATT-AAAATTTG
1 AAAAAATTATTAAAAATTTG
**
25589900 GGAAAATTATT-AAAATTTG
1 AAAAAATTATTAAAAATTTG
**
25589919 GGAAAATTATTAAAAA-TTG
1 AAAAAATTATTAAAAATTTG
*
25589938 TAAATAATTATTAAAAA
1 -AAAAAATTATTAAAAA
25589955 ATTATTTAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 39 0.49
20 40 0.51
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (20 bp):
AAAAAATTATTAAAAATTTG
Found at i:25589925 original size:38 final size:39
Alignment explanation
Indices: 25589842--25589953 Score: 120
Period size: 38 Copynumber: 2.9 Consensus size: 39
25589832 TAAAATCTTA
** * *
25589842 AAAAATTATTAAAAATTACAAA-ACATTTTTTAAAATTTGT
1 AAAAATTATTAAAAATTGGAAATA-A-TTATTAAAATTTGG
* *
25589882 AAAAATTATTAAAATTTGGGAA-AATTATTAAAATTTGG
1 AAAAATTATTAAAAATTGGAAATAATTATTAAAATTTGG
* *
25589920 GAAAATTATTAAAAATTGTAAATAATTATTAAAA
1 AAAAATTATTAAAAATTGGAAATAATTATTAAAA
25589954 AATTATTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
38 30 0.49
39 12 0.20
40 19 0.31
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (39 bp):
AAAAATTATTAAAAATTGGAAATAATTATTAAAATTTGG
Found at i:25590208 original size:20 final size:20
Alignment explanation
Indices: 25590183--25590225 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
25590173 TTTGATTAGT
25590183 TAATTATTTACAATTTTTAA
1 TAATTATTTACAATTTTTAA
* *
25590203 TAATTATTTGCAGTTTTTAA
1 TAATTATTTACAATTTTTAA
25590223 TAA
1 TAA
25590226 ATTTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (20 bp):
TAATTATTTACAATTTTTAA
Found at i:25590250 original size:51 final size:50
Alignment explanation
Indices: 25590195--25590313 Score: 120
Period size: 51 Copynumber: 2.4 Consensus size: 50
25590185 ATTATTTACA
* * *
25590195 ATTTTTAATAATTATTTGCAGTTTTTAATAA-ATT-TTAAAAAATATTTTATT
1 ATTTTTAATAATTATTTACA-ATTTTAA-AATATTCTT-AAAAATATTTAATT
* *
25590246 ATTTTCAATAACTTTTTTACAATTTTAAAATATTCTTAAAAATATTTAATT
1 ATTTTTAATAA-TTATTTACAATTTTAAAATATTCTTAAAAATATTTAATT
25590297 ATTATTTAA-AA-TATTTA
1 ATT-TTTAATAATTATTTA
25590314 TTTTTACAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
49 5 0.09
50 2 0.04
51 37 0.65
52 13 0.23
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (50 bp):
ATTTTTAATAATTATTTACAATTTTAAAATATTCTTAAAAATATTTAATT
Found at i:25590324 original size:16 final size:16
Alignment explanation
Indices: 25590295--25590350 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
25590285 AAATATTTAA
25590295 TTATTATTTA-AAATAT
1 TTATT-TTTACAAATAT
*
25590311 TTATTTTTACAAATTT
1 TTATTTTTACAAATAT
*
25590327 TTATATTTTTCTAAATAT
1 TTAT-TTTTAC-AAATAT
25590345 TT-TTTT
1 TTATTTT
25590351 CTTAACCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 4 0.12
16 17 0.50
17 6 0.18
18 7 0.21
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTTTTACAAATAT
Found at i:25590342 original size:18 final size:19
Alignment explanation
Indices: 25590275--25590347 Score: 50
Period size: 18 Copynumber: 4.0 Consensus size: 19
25590265 CAATTTTAAA
* * *
25590275 ATATTCTTAAAAATATTTA
1 ATATTTTTACAAATATTTT
25590294 ATTATTATTTA-AAATA--TT
1 A-TATT-TTTACAAATATTTT
25590312 -TATTTTTACAAAT-TTTT
1 ATATTTTTACAAATATTTT
25590329 ATATTTTT-CTAAATATTTT
1 ATATTTTTAC-AAATATTTT
25590348 TTTCTTAACC
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
15 4 0.09
16 8 0.18
17 3 0.07
18 12 0.27
19 5 0.11
20 9 0.20
21 3 0.07
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTTTTACAAATATTTT
Found at i:25591763 original size:32 final size:32
Alignment explanation
Indices: 25591726--25591975 Score: 184
Period size: 32 Copynumber: 7.8 Consensus size: 32
25591716 TCGCTACCCT
* *
25591726 GCTAGCTCACCTCAT-TGCTAGCTCGCCTCCTC
1 GCTAGCTCACCAC-TCTGCTAGCTCACCTCCTC
*
25591758 ACTAGCTCACCACTCTGCTAGCTCACCTCCTC
1 GCTAGCTCACCACTCTGCTAGCTCACCTCCTC
* * *
25591790 GCTAGCTCGCCACTCTACTAGCTCACCTCATC
1 GCTAGCTCACCACTCTGCTAGCTCACCTCCTC
* * *
25591822 GCTAGCTCACCACTCTACTAGCTCGTCACT-GTC
1 GCTAGCTCACCACTCTGCTAGCTC-AC-CTCCTC
** **
25591855 TGCTAGCTCACCACTCTGCTAGCTCATAATTGTC
1 -GCTAGCTCACCACTCTGCTAGCTCA-CCTCCTC
* * * * * * *
25591889 TGCTAGCTCGCGACCCTGTTAGCTGACC-ACTT
1 -GCTAGCTCACCACTCTGCTAGCTCACCTCCTC
* ** *
25591921 TCTAGCTTGCCACTCTGCTAGCTCGCCTCCTC
1 GCTAGCTCACCACTCTGCTAGCTCACCTCCTC
* *
25591953 GCTAACTCGCCACTCT-CTAGCTC
1 GCTAGCTCACCACTCTGCTAGCTC
25591976 CTCACTCTGC
Statistics
Matches: 175, Mismatches: 36, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
31 28 0.16
32 94 0.54
33 4 0.02
34 49 0.28
ACGTcount: A:0.16, C:0.41, G:0.15, T:0.28
Consensus pattern (32 bp):
GCTAGCTCACCACTCTGCTAGCTCACCTCCTC
Found at i:25591782 original size:48 final size:47
Alignment explanation
Indices: 25591724--25591880 Score: 174
Period size: 48 Copynumber: 3.2 Consensus size: 47
25591714 GCTCGCTACC
25591724 CTGCTAGCTCACCTCATTGCTAGCTCGCCTC-CTCACTAGCTCACCACT
1 CTGCTAGCTCACCTC-TTGCTAGCTCGCCTCTCT-ACTAGCTCACCACT
* * *
25591772 CTGCTAGCTCACCTCCTCGCTAGCTCGCCACTCTACTAGCTCACCTCAT
1 CTGCTAGCTCACCT-CTTGCTAGCTCGCCTCTCTACTAGCTCACCAC-T
* * * *
25591821 C-GCTAGCTCACCACTCTACTAGCTCGTCACTGTCTGCTAGCTCACCACT
1 CTGCTAGCTCACCTCT-TGCTAGCTCG-C-CTCTCTACTAGCTCACCACT
25591870 CTGCTAGCTCA
1 CTGCTAGCTCA
25591881 TAATTGTCTG
Statistics
Matches: 92, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
47 2 0.02
48 58 0.63
49 8 0.09
50 24 0.26
ACGTcount: A:0.17, C:0.43, G:0.13, T:0.27
Consensus pattern (47 bp):
CTGCTAGCTCACCTCTTGCTAGCTCGCCTCTCTACTAGCTCACCACT
Found at i:25591862 original size:18 final size:18
Alignment explanation
Indices: 25591822--25591897 Score: 70
Period size: 18 Copynumber: 4.4 Consensus size: 18
25591812 TCACCTCATC
*
25591822 GCTAGCTCACCAC--TCT
1 GCTAGCTCATCACTGTCT
* *
25591838 ACTAGCTCGTCACTGTCT
1 GCTAGCTCATCACTGTCT
*
25591856 GCTAGCTCACCAC--TCT
1 GCTAGCTCATCACTGTCT
* *
25591872 GCTAGCTCATAATTGTCT
1 GCTAGCTCATCACTGTCT
25591890 GCTAGCTC
1 GCTAGCTC
25591898 GCGACCCTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
16 23 0.49
18 24 0.51
ACGTcount: A:0.18, C:0.36, G:0.16, T:0.30
Consensus pattern (18 bp):
GCTAGCTCATCACTGTCT
Found at i:25591943 original size:16 final size:16
Alignment explanation
Indices: 25591709--25591988 Score: 155
Period size: 16 Copynumber: 17.4 Consensus size: 16
25591699 TGCGACGCTT
* *
25591709 TGCTAGCTCGCTACCC
1 TGCTAGCTCGCCACTC
* *
25591725 TGCTAGCTCACCTCAT-
1 TGCTAGCTCGCCAC-TC
*
25591741 TGCTAGCTCGCCTC-C
1 TGCTAGCTCGCCACTC
* *
25591756 TCACTAGCTCACCACTC
1 T-GCTAGCTCGCCACTC
* *
25591773 TGCTAGCTCACCTC-C
1 TGCTAGCTCGCCACTC
25591788 TCGCTAGCTCGCCACTC
1 T-GCTAGCTCGCCACTC
* * *
25591805 TACTAGCTCACCTCATC
1 TGCTAGCTCGCCAC-TC
*
25591822 -GCTAGCTCACCACTC
1 TGCTAGCTCGCCACTC
* *
25591837 TACTAGCTCGTCACTGTC
1 TGCTAGCTCGCCAC--TC
*
25591855 TGCTAGCTCACCACTC
1 TGCTAGCTCGCCACTC
*** *
25591871 TGCTAGCTCATAATTGTC
1 TGCTAGCTCGCCA--CTC
* *
25591889 TGCTAGCTCGCGACCC
1 TGCTAGCTCGCCACTC
*
25591905 TGTTAGCT-GACCACT-
1 TGCTAGCTCG-CCACTC
* *
25591920 TTCTAGCTTGCCACTC
1 TGCTAGCTCGCCACTC
*
25591936 TGCTAGCTCGCCTC-C
1 TGCTAGCTCGCCACTC
*
25591951 TCGCTAACTCGCCACTC
1 T-GCTAGCTCGCCACTC
25591968 T-CTAGCTC-CTCACTC
1 TGCTAGCTCGC-CACTC
25591983 TGCTAG
1 TGCTAG
25591989 TAGAGTGACG
Statistics
Matches: 203, Mismatches: 42, Indels: 38
0.72 0.15 0.13
Matches are distributed among these distances:
14 1 0.00
15 31 0.15
16 138 0.68
17 8 0.04
18 25 0.12
ACGTcount: A:0.16, C:0.41, G:0.15, T:0.28
Consensus pattern (16 bp):
TGCTAGCTCGCCACTC
Found at i:25601126 original size:28 final size:29
Alignment explanation
Indices: 25601079--25601133 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
25601069 ACAAAGGTTT
25601079 TCACACGGCCGAGCACACGCCCGTGTCCC
1 TCACACGGCCGAGCACACGCCCGTGTCCC
* *
25601108 TCACACTGCCTAG-ACACGCCCGTGTC
1 TCACACGGCCGAGCACACGCCCGTGTC
25601134 ATCGCCCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.18, C:0.45, G:0.22, T:0.15
Consensus pattern (29 bp):
TCACACGGCCGAGCACACGCCCGTGTCCC
Found at i:25602560 original size:45 final size:45
Alignment explanation
Indices: 25602491--25602598 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 45
25602481 CATCCATAAT
* * *
25602491 GAACTCAGACCAACTCAACGAGTTCGGATGCT-TCACATATATCAC
1 GAACTCGGACCAACTCAACAAGTTCAGAT-CTCTCACATATATCAC
* * *
25602536 GAACTTGGACCAACTCAATAAGTTCAGATTTCTCACATATATCAC
1 GAACTCGGACCAACTCAACAAGTTCAGATCTCTCACATATATCAC
25602581 GAACTCGGACC-ACTCAAC
1 GAACTCGGACCAACTCAAC
25602599 GAGCTCAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 7 0.13
45 47 0.87
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (45 bp):
GAACTCGGACCAACTCAACAAGTTCAGATCTCTCACATATATCAC
Found at i:25612664 original size:25 final size:23
Alignment explanation
Indices: 25612611--25612664 Score: 54
Period size: 25 Copynumber: 2.2 Consensus size: 23
25612601 ATATTTTGGT
*
25612611 ATTTATTTTATTTTTTAAAATATA
1 ATTT-TTTTATTTTTTAAAACATA
* *
25612635 CTTTTTTATATTATTTTAATACATA
1 ATTTTTT-TATT-TTTTAAAACATA
25612660 ATTTT
1 ATTTT
25612665 CAAATGTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 3 0.12
24 7 0.29
25 14 0.58
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (23 bp):
ATTTTTTTATTTTTTAAAACATA
Found at i:25613066 original size:154 final size:153
Alignment explanation
Indices: 25612637--25613267 Score: 911
Period size: 154 Copynumber: 4.1 Consensus size: 153
25612627 AAAATATACT
* *
25612637 TTTTTATATTATTTTAATACATAAT-TTTCAAATGTATTATTTTAG--TGTTTTTATATTAATTT
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTTATATTAATTT
* * **
25612699 AGTAAAAGATTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTTGGATTTTATTTTTT
66 AGTAAAAAACTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTCAGATTTTATTTTTT
**
25612764 AAAATATACTATCTTCATATTTTA
131 AAAATATACTAT-TTTTTATTTTA
* * *
25612788 TTTTTTATATTATTTTAGTACATAATGGTTCGAATGTATTATTTTAGTGTTTTTTTATATTAATT
1 -TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTTATATTAATT
* *
25612853 TAGTAAAAAAAACTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTTAGATTTTAATT
65 TAGT--AAAAAACTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTCAGATTTTATTT
**
25612918 TTTAAAATATGTTATTTTTTATTTTA
128 TTTAAAATATACTATTTTTTATTTTA
*
25612944 TTTTTATATTATTTTAGTACATAATGGTTTCAAATGTATTATTTTAGTATTTTTTTATATAAATT
1 TTTTTATATTATTTTAGTACATAAT-GTTTCAAATGTATTATTTTAGTATTTTTTTATATTAATT
*
25613009 T-GTAAAAAAACTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTCGGATTTTATTTT
65 TAGT-AAAAAACTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTCAGATTTTATTTT
*
25613073 TTAAAATATACTATTTTCGTATTTTA
129 TTAAAATATACTATTTT-TTATTTTA
*
25613099 TTTTCTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTTAGTA-TTTTTTATATTAATT
1 TTTT-TATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTTATATTAATT
* * *
25613163 TAGTAAAAAACTCTGGTTTTGGCCATTTG--TTT-TTATTT-TTTTATTTTCATATTTTATTTTT
65 TAGTAAAAAACTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTCAGATTTTATTTTT
*
25613224 TAAAATAAACTATTTTTATATTTTA
130 TAAAATATACTATTTTT-TATTTTA
25613249 TTTTTATATTATTTTAGTA
1 TTTTTATATTATTTTAGTA
25613268 AAAAACCGCC
Statistics
Matches: 439, Mismatches: 30, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
149 15 0.03
150 47 0.11
151 6 0.01
152 27 0.06
153 18 0.04
154 111 0.25
155 81 0.18
156 66 0.15
157 68 0.15
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (153 bp):
TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTTATATTAATTT
AGTAAAAAACTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTCAGATTTTATTTTTT
AAAATATACTATTTTTTATTTTA
Found at i:25613110 original size:311 final size:301
Alignment explanation
Indices: 25612637--25613267 Score: 951
Period size: 311 Copynumber: 2.1 Consensus size: 301
25612627 AAAATATACT
* *
25612637 TTTTTATATTATTTTAATACATAATTTTCAAATGTATTATTTTAGTGTTTTTATATTAATTTAGT
1 TTTTTATATTATTTTAGTACATAATTTTCAAATGTATTATTTTAGTGTTTTTATATAAATTTAGT
* * *
25612702 AAAAGATTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTTGGATTTTATTTTTTAAA
66 AAAAAACTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTCGGATTTTATTTTTTAAA
* *
25612767 ATATACTATCTTCATATTTTATTTTTTATATTATTTTAGTACATAATGGTTCGAATGTATTATTT
131 ATATACTATCTTCATATTTTATTTTCTATATTATTTTAGTACATAATGGTTCAAATGTATTATTT
* *
25612832 TAGTGTTTTTTTATATTAATTTAGTAAAAAAAACTCTGATTTTGGCCCTTTGTTTTTATTATTTA
196 TAGT-ATTTTTTATATTAATTTAGT--AAAAAACTCTGATTTTGGCCATTTG--TTT-TTATTT-
* ***
25612897 TTTTATTTTTAGATTTTAATTTTTAAAATATGTTATTTTT-TATTTTA
254 TTTTATTTTCAGATTTTAATTTTTAAAATAAACTATTTTTATATTTTA
*
25612944 TTTTTATATTATTTTAGTACATAATGGTTTCAAATGTATTATTTTAGTATTTTTTTATATAAATT
1 TTTTTATATTATTTTAGTACATAAT--TTTCAAATGTATTATTTTAG--TGTTTTTATATAAATT
25613009 T-GTAAAAAAACTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTCGGATTTTATTTT
62 TAGT-AAAAAACTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTCGGATTTTATTTT
* * * *
25613073 TTAAAATATACTATTTTCGTATTTTATTTTCTATATTATTTTAGTACATAATGTTTTAAATGTAT
126 TTAAAATATACTATCTTCATATTTTATTTTCTATATTATTTTAGTACATAATGGTTCAAATGTAT
*
25613138 TATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCTGGTTTTGGCCATTTGTTTTTATTTTT
191 TATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTGTTTTTATTTTT
* *
25613203 TTATTTTCATATTTTATTTTTTAAAATAAACTATTTTTATATTTTA
256 TTATTTTCAGATTTTAATTTTTAAAATAAACTATTTTTATATTTTA
25613249 TTTTTATATTATTTTAGTA
1 TTTTTATATTATTTTAGTA
25613268 AAAAACCGCC
Statistics
Matches: 297, Mismatches: 21, Indels: 14
0.89 0.06 0.04
Matches are distributed among these distances:
304 34 0.11
305 32 0.11
306 3 0.01
307 24 0.08
308 23 0.08
309 20 0.07
310 21 0.07
311 140 0.47
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (301 bp):
TTTTTATATTATTTTAGTACATAATTTTCAAATGTATTATTTTAGTGTTTTTATATAAATTTAGT
AAAAAACTCTGATTTTGGCCCTTTGTTTTTATTATTTATTTTATTTTCGGATTTTATTTTTTAAA
ATATACTATCTTCATATTTTATTTTCTATATTATTTTAGTACATAATGGTTCAAATGTATTATTT
TAGTATTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTGTTTTTATTTTTTTATT
TTCAGATTTTAATTTTTAAAATAAACTATTTTTATATTTTA
Found at i:25613252 original size:13 final size:13
Alignment explanation
Indices: 25613234--25613258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25613224 TAAAATAAAC
25613234 TATTTTTATATTT
1 TATTTTTATATTT
25613247 TATTTTTATATT
1 TATTTTTATATT
25613259 ATTTTAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTTTATATTT
Found at i:25613881 original size:3 final size:3
Alignment explanation
Indices: 25613873--25613923 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
25613863 ATCAATGCCG
* * *
25613873 CCT CCT CCT CCT CCT CTT CCT CAT CCT CTT CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
25613921 CCT
1 CCT
25613924 TCTTCTTCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.02, C:0.61, G:0.00, T:0.37
Consensus pattern (3 bp):
CCT
Found at i:25613928 original size:3 final size:3
Alignment explanation
Indices: 25613922--25613994 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
25613912 CCTCCTCCTC
*
25613922 CTT CTT CTT CTT CTT CTT CTT ATT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
25613970 CTT CTT CTT CTT CTT CTT C-T CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
25613995 CCTTTCCCTT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:25614155 original size:27 final size:27
Alignment explanation
Indices: 25614120--25614180 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
25614110 GCAGGGTGTT
* * * *
25614120 GCCTCTGGCAGCCCTACCATTGGTGCC
1 GCCTATGGCAGCCCAACAATCGGTGCC
*
25614147 GCCTATGGCAGTCCAACAATCGGTGCC
1 GCCTATGGCAGCCCAACAATCGGTGCC
25614174 GCCTATG
1 GCCTATG
25614181 AGATGCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.16, C:0.36, G:0.26, T:0.21
Consensus pattern (27 bp):
GCCTATGGCAGCCCAACAATCGGTGCC
Found at i:25616186 original size:59 final size:57
Alignment explanation
Indices: 25616093--25616280 Score: 236
Period size: 59 Copynumber: 3.2 Consensus size: 57
25616083 ATATTTGTTA
* * *
25616093 AAAAATATTCCAAAGAGTTTCTATTTTATTAAATGAAACAATATAAAAATAATATGTAT
1 AAAAATATTCAAAAGA-ATTCTATTTTATTAAATGAAACAATATAAAAATAAT-TGTAC
* ** *
25616152 GAAAATATTCAAAAGAACTTCTATTTTATTAAATGAAGTAATATTAAAATAACTTGTAC
1 AAAAATATTCAAAAGAA-TTCTATTTTATTAAATGAAACAATATAAAAATAA-TTGTAC
* *
25616211 AAAAATATTCAAAAGAA--CTATTTTATTAAATGGAACAATATAAAAACAATTTGTAC
1 AAAAATATTCAAAAGAATTCTATTTTATTAAATGAAACAATATAAAAATAA-TTGTAC
25616267 AAAAATATTCAAAA
1 AAAAATATTCAAAA
25616281 ATAAATCAAT
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
56 47 0.42
59 65 0.58
60 1 0.01
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.33
Consensus pattern (57 bp):
AAAAATATTCAAAAGAATTCTATTTTATTAAATGAAACAATATAAAAATAATTGTAC
Found at i:25618252 original size:18 final size:17
Alignment explanation
Indices: 25618211--25618257 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
25618201 AAAAATCATA
*
25618211 AAAAATATTAATTAAATT
1 AAAAA-ATTAAATAAATT
25618229 ATAAAAATTAAATAATATT
1 A-AAAAATTAAATAA-ATT
25618248 AAAAAATTAA
1 AAAAAATTAA
25618258 CCCTTACAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAAATTAAATAAATT
Found at i:25621219 original size:45 final size:45
Alignment explanation
Indices: 25621170--25621257 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
25621160 TAAATTAAAG
* *
25621170 ATTTAAACTTAAAACTTAATTGAGCTAAAAAGATGTA-AAATCTTA
1 ATTTAAACTTAAAACTTAATTCAGCT-AAAAGATCTAGAAATCTTA
25621215 ATTTAAACTTAAAACTTAATTCAGCTAAAAGATCTAGAAATCT
1 ATTTAAACTTAAAACTTAATTCAGCTAAAAGATCTAGAAATCT
25621258 ATTAAACTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 9 0.22
45 31 0.77
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (45 bp):
ATTTAAACTTAAAACTTAATTCAGCTAAAAGATCTAGAAATCTTA
Found at i:25628570 original size:42 final size:42
Alignment explanation
Indices: 25628511--25628595 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
25628501 TGCAAACTGG
*
25628511 ATAGTTAGGACGAGTAAATCCTACGAGCGAGGTAAATCTCAA
1 ATAGTTAAGACGAGTAAATCCTACGAGCGAGGTAAATCTCAA
25628553 ATAGTTAAGACGAGTAAATCCTACGAGCGAGGTAAATCTCAA
1 ATAGTTAAGACGAGTAAATCCTACGAGCGAGGTAAATCTCAA
25628595 A
1 A
25628596 CATTGTGGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.21
Consensus pattern (42 bp):
ATAGTTAAGACGAGTAAATCCTACGAGCGAGGTAAATCTCAA
Found at i:25633547 original size:22 final size:21
Alignment explanation
Indices: 25633522--25633566 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
25633512 ATTCTTTTTT
* *
25633522 TTTCTCTGATTATTTTTACTTA
1 TTTCTATGATTATTATTA-TTA
25633544 TTTCTATGATTATTATTATTA
1 TTTCTATGATTATTATTATTA
25633565 TT
1 TT
25633567 ATTCTGGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTCTATGATTATTATTATTA
Found at i:25640987 original size:21 final size:22
Alignment explanation
Indices: 25640958--25641001 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
25640948 TACTTTTGCC
* *
25640958 TAAGATATGAATTGGATTGAAT
1 TAAGATATGAAATGGATTAAAT
25640980 TAAG-TATGAAATGGATTAAAT
1 TAAGATATGAAATGGATTAAAT
25641001 T
1 T
25641002 GATGTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.36
Consensus pattern (22 bp):
TAAGATATGAAATGGATTAAAT
Found at i:25641535 original size:25 final size:25
Alignment explanation
Indices: 25641490--25641537 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
25641480 TACAAATGCA
*
25641490 GCTCTTTATGAGTGTCTTGATATAG
1 GCTCTTTATGAGTGTCCTGATATAG
*
25641515 GCTCTTTTTGAGCT-TCCTGATAT
1 GCTCTTTATGAG-TGTCCTGATAT
25641538 GGGTCGCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.46
Consensus pattern (25 bp):
GCTCTTTATGAGTGTCCTGATATAG
Found at i:25643029 original size:75 final size:76
Alignment explanation
Indices: 25642942--25643106 Score: 210
Period size: 75 Copynumber: 2.2 Consensus size: 76
25642932 CGCCCAGCGT
* *
25642942 TAGTCAGATTAACCGAC-AGTAATGAA-TGTGAGCCCAGCTCTAGTTGGATAAACCAACAAT-AT
1 TAGTCAGGTTAACCGACGA-TAAT-AATTGTGAGCCCAGCTCTAGTTGGATAAACCAACAATAAA
*
25643004 TTGCACCCAGTGC
64 TTGAACCCAGTGC
* * **
25643017 TAGTCAGGTTAACCGACGATAATAATTGTGAGCCTAGCTCTAGTTGGATATACCAACGGTAAATT
1 TAGTCAGGTTAACCGACGATAATAATTGTGAGCCCAGCTCTAGTTGGATAAACCAACAATAAATT
25643082 GAACCCAGTGC
66 GAACCCAGTGC
* *
25643093 TAGTCGGGTCAACC
1 TAGTCAGGTTAACC
25643107 AACGGTTGTG
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
74 2 0.03
75 50 0.64
76 26 0.33
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (76 bp):
TAGTCAGGTTAACCGACGATAATAATTGTGAGCCCAGCTCTAGTTGGATAAACCAACAATAAATT
GAACCCAGTGC
Found at i:25645974 original size:13 final size:13
Alignment explanation
Indices: 25645952--25645989 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
25645942 TGGCCTAGTA
*
25645952 CACGGGCGTGTGC
1 CACGGCCGTGTGC
*
25645965 CACGGCCGTGTAC
1 CACGGCCGTGTGC
25645978 CACGGCCGTGTG
1 CACGGCCGTGTG
25645990 ACATTTTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.11, C:0.34, G:0.39, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTGC
Found at i:25654205 original size:26 final size:26
Alignment explanation
Indices: 25654169--25654278 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
25654159 CATGAAATTC
25654169 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
25654195 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
25654221 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
25654247 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
25654273 TTATCA
1 TTATCA
25654279 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:25655398 original size:26 final size:26
Alignment explanation
Indices: 25655356--25655407 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
25655346 AATAATAAAA
*
25655356 TAAACCCAACTACACCCAAAACCAAAC
1 TAAACCCAACTAAACCCAAAA-CAAAC
*
25655383 TAAA-CCAACTAAACCCCAAACAAAC
1 TAAACCCAACTAAACCCAAAACAAAC
25655408 CCAAACAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 5 0.22
26 14 0.61
27 4 0.17
ACGTcount: A:0.54, C:0.38, G:0.00, T:0.08
Consensus pattern (26 bp):
TAAACCCAACTAAACCCAAAACAAAC
Found at i:25655413 original size:26 final size:26
Alignment explanation
Indices: 25655361--25655413 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
25655351 TAAAATAAAC
* *
25655361 CCAACTACACCCAAAACCAAACTAAA
1 CCAACTAAACCCAAAACCAAACCAAA
*
25655387 CCAACTAAACCCCAAA-CAAACCCAAA
1 CCAACTAAACCCAAAACCAAA-CCAAA
25655413 C
1 C
25655414 AACCATCAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.53, C:0.42, G:0.00, T:0.06
Consensus pattern (26 bp):
CCAACTAAACCCAAAACCAAACCAAA
Found at i:25655859 original size:13 final size:14
Alignment explanation
Indices: 25655841--25655870 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
25655831 TTTCTTTTTC
25655841 TTTCTTTA-TTTAT
1 TTTCTTTATTTTAT
25655854 TTTCTTTATTTTAT
1 TTTCTTTATTTTAT
25655868 TTT
1 TTT
25655871 TTCAAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTATTTTAT
Found at i:25656570 original size:3 final size:3
Alignment explanation
Indices: 25656562--25656770 Score: 55
Period size: 3 Copynumber: 72.0 Consensus size: 3
25656552 TTTAATATAC
* * * *
25656562 TAT TAT TAT T-T TAC TAT TAT TAT TAT TCCT T-T TAT TTT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* * * * * *
25656606 T-T TTT TAT T-T TTT TAT T-T TTT TAT TCT TAT TCT TAT TAT TA- TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
25656650 TAT T-T TTT TAT TAT TAT CT-T TTT TA- AAT TAT TGT TAC TGT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
25656693 TTT TTT TAT T-T AACA TAT TAT TAT CAT TACT T-T TTT GTGT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT
* * *
25656739 TAT TAT TAC TAT T-G TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25656771 ATTTTCATCT
Statistics
Matches: 149, Mismatches: 40, Indels: 34
0.67 0.18 0.15
Matches are distributed among these distances:
2 19 0.13
3 122 0.82
4 8 0.05
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:25656578 original size:14 final size:14
Alignment explanation
Indices: 25656559--25656585 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25656549 TAATTTAATA
25656559 TACTATTATTATTT
1 TACTATTATTATTT
25656573 TACTATTATTATT
1 TACTATTATTATT
25656586 ATTCCTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TACTATTATTATTT
Found at i:25656608 original size:8 final size:8
Alignment explanation
Indices: 25656591--25656661 Score: 74
Period size: 8 Copynumber: 8.9 Consensus size: 8
25656581 TTATTATTCC
25656591 TTTTATTTT
1 TTTTA-TTT
25656600 TTTTATTT
1 TTTTATTT
25656608 TTTTATTT
1 TTTTATTT
25656616 TTTTATTT
1 TTTTATTT
25656624 TTTTA--T
1 TTTTATTT
*
25656630 TCTTATTCT
1 TTTTATT-T
* *
25656639 TATTATTA
1 TTTTATTT
*
25656647 TCTTATTT
1 TTTTATTT
25656655 TTTTATT
1 TTTTATT
25656662 ATTATCTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
6 5 0.09
8 36 0.68
9 12 0.23
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTATTT
Found at i:25656773 original size:14 final size:15
Alignment explanation
Indices: 25656733--25656770 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
25656723 TTTTTTGTGT
25656733 TATTATTATTATTAC
1 TATTATTATTATTAC
*
25656748 TATT-GTATTATTAC
1 TATTATTATTATTAC
25656762 TATTATTAT
1 TATTATTAT
25656771 ATTTTCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:25656817 original size:4 final size:4
Alignment explanation
Indices: 25656796--25656841 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
25656786 TATTTTCTTC
* * *
25656796 TTAT TTAT CTAA TT-T TTAT TTAT TTAT TTAT TTA- TTAT ATAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
25656842 ATTTCTGTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
3 5 0.15
4 29 0.85
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:25656820 original size:19 final size:19
Alignment explanation
Indices: 25656796--25656841 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
25656786 TATTTTCTTC
25656796 TTATTTATCTAATTT-TTAT
1 TTATTTAT-TAATTTATTAT
*
25656815 TTATTTATTTATTTATTAT
1 TTATTTATTAATTTATTAT
*
25656834 ATATTTAT
1 TTATTTAT
25656842 ATTTCTGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTATTAATTTATTAT
Found at i:25656885 original size:17 final size:16
Alignment explanation
Indices: 25656831--25656887 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
25656821 ATTTATTTAT
25656831 TATATAT-TTATATTTC
1 TATATATATTATA-TTC
*
25656847 TGT-TAATATTATATT-
1 TATAT-ATATTATATTC
25656862 T-TATATATTATATCTC
1 TATATATATTATAT-TC
25656878 TATATATATT
1 TATATATATT
25656888 TATGTATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
14 10 0.29
15 4 0.12
16 7 0.21
17 13 0.38
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (16 bp):
TATATATATTATATTC
Found at i:25657222 original size:3 final size:3
Alignment explanation
Indices: 25657208--25657328 Score: 86
Period size: 3 Copynumber: 40.3 Consensus size: 3
25657198 TACTTATTTG
* * * * **
25657208 TAT TAT TTT TAT TAT CAA TAT T-T TATT TAT TAT CAT TAT TAT TCC
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * *
25657253 TAT TAT TAT TAC TAT TAT T-T TTT TAC TAT TAT TATT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* *
25657298 TAT TGT TAC TAT TAT T-T TATT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT T
25657329 GTAATGACCC
Statistics
Matches: 89, Mismatches: 23, Indels: 12
0.72 0.19 0.10
Matches are distributed among these distances:
2 6 0.07
3 74 0.83
4 9 0.10
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:25657263 original size:42 final size:42
Alignment explanation
Indices: 25657226--25657324 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
25657216 TTATTATCAA
*
25657226 TATTTTATTTATTATCATTA-TTATTCCTATTATTATTACTAT
1 TATTTTATTTATTATCATTATTTATT-ATATTATTATTACTAT
* * *
25657268 TATTTT-TTTACTATTATTATTTATTATCATTATTGTTACTAT
1 TATTTTATTTATTATCATTATTTATTAT-ATTATTATTACTAT
25657310 TATTTTATTTATTAT
1 TATTTTATTTATTAT
25657325 TATTGTAATG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
41 12 0.24
42 30 0.61
43 7 0.14
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (42 bp):
TATTTTATTTATTATCATTATTTATTATATTATTATTACTAT
Found at i:25657293 original size:54 final size:56
Alignment explanation
Indices: 25657208--25657328 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 56
25657198 TACTTATTTG
*
25657208 TATTATTTTTATTATCAATATTTTATTTATTATCATTATTATTCCTATTATTATTAC
1 TATTATTTTTATTATC-ATATTTTATTTATTATCATTATTATTACTATTATTATTAC
*
25657265 TATTATTTTT-TTA-C-TATTATTATTTATTATCATTATTGTTACTATTATT-TTA-
1 TATTATTTTTATTATCATATT-TTATTTATTATCATTATTATTACTATTATTATTAC
*
25657317 T-TTATTATTATT
1 TATTATTTTTATT
25657329 GTAATGACCC
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
51 7 0.12
52 3 0.05
53 7 0.12
54 28 0.47
55 1 0.02
56 3 0.05
57 10 0.17
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (56 bp):
TATTATTTTTATTATCATATTTTATTTATTATCATTATTATTACTATTATTATTAC
Found at i:25657639 original size:16 final size:16
Alignment explanation
Indices: 25657620--25657670 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
25657610 TACTTTATTA
25657620 AATTATTATATTATAT
1 AATTATTATATTATAT
* *
25657636 AATTATTATTTTATTT
1 AATTATTATATTATAT
*
25657652 AA--ATTATAATATA-
1 AATTATTATATTATAT
25657665 AATTAT
1 AATTAT
25657671 AGATAAATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 2 0.07
14 8 0.29
15 2 0.07
16 16 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTATTATATTATAT
Found at i:25658990 original size:46 final size:46
Alignment explanation
Indices: 25658903--25659212 Score: 514
Period size: 46 Copynumber: 6.7 Consensus size: 46
25658893 TGATGTCATA
* * * * * *
25658903 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAGGTTGCCATG
** * *
25658949 GTATCTTTCAACCATGGTCTTATTCATTTCATACCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
25658995 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
25659041 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
25659087 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
25659133 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
25659179 GTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GTATCTTTCAACCATGGTCTTACACATTTCATAT
25659213 ATTAATTTAG
Statistics
Matches: 252, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 4 0.02
46 248 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
Found at i:25661582 original size:51 final size:51
Alignment explanation
Indices: 25661506--25661625 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 51
25661496 ACTAAGTTAA
* * * *
25661506 CCGGATGAAATATGAAGCTCTTGTTGAAACTAGAGCAATAAAGTAAT-ATAT
1 CCGGATGAAATATGAAGTTCTTGTTGAAACCAGAACAACAAAGTAATAAT-T
* *
25661557 CCGGATGAAATATAAAGTTCTTGTTGAAGCCAGAACAACAAAGTAATAATT
1 CCGGATGAAATATGAAGTTCTTGTTGAAACCAGAACAACAAAGTAATAATT
*
25661608 CCGGATGAAGTATGAAGT
1 CCGGATGAAATATGAAGT
25661626 AAGTTTGAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 58 0.97
52 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (51 bp):
CCGGATGAAATATGAAGTTCTTGTTGAAACCAGAACAACAAAGTAATAATT
Found at i:25668247 original size:16 final size:17
Alignment explanation
Indices: 25668222--25668271 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
25668212 TTTTCTTACT
25668222 TTAT-TAAATTATTATA
1 TTATATAAATTATTATA
*
25668238 TTATAT-AATTATTATT
1 TTATATAAATTATTATA
* *
25668254 TTATTTAAATTATAATA
1 TTATATAAATTATTATA
25668271 T
1 T
25668272 GAATTATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 18 0.64
17 10 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATAAATTATTATA
Found at i:25669221 original size:51 final size:51
Alignment explanation
Indices: 25669145--25669264 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
25669135 ACTAAGTTAA
* * * *
25669145 CCGGATGAAATATGAAGCTCTTGTTGAAACTAGAGCAATAAAGTAAT-ATAT
1 CCGGATGAAATATGAAGTTCTTGTTGAAACCAGAACAACAAAGTAATAAT-T
*
25669196 CCGGATGAAATATGAAGTTCTTGTTGAAGCCAGAACAACAAAGTAATAATT
1 CCGGATGAAATATGAAGTTCTTGTTGAAACCAGAACAACAAAGTAATAATT
*
25669247 CCGGATGAAGTATGAAGT
1 CCGGATGAAATATGAAGT
25669265 AAGTTTGGGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
51 60 0.97
52 2 0.03
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (51 bp):
CCGGATGAAATATGAAGTTCTTGTTGAAACCAGAACAACAAAGTAATAATT
Found at i:25670933 original size:5 final size:5
Alignment explanation
Indices: 25670925--25670990 Score: 59
Period size: 5 Copynumber: 13.4 Consensus size: 5
25670915 TGTTTAGTAT
* *
25670925 TTTTA TTTTC TTTTA CTTTTA TTTT- TATTTA TATTTA -TTTA TTTTT
1 TTTTA TTTTA TTTTA -TTTTA TTTTA T-TTTA T-TTTA TTTTA TTTTA
25670971 TTTTA -TTT- TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TT
25670991 AATTAGCTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 11 0.22
5 29 0.57
6 11 0.22
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:25670955 original size:10 final size:10
Alignment explanation
Indices: 25670922--25670980 Score: 66
Period size: 10 Copynumber: 5.7 Consensus size: 10
25670912 TTTTGTTTAG
25670922 TATTTTTATT
1 TATTTTTATT
25670932 T-TCTTTTACTTT
1 TAT-TTTTA--TT
25670944 TATTTTTATT
1 TATTTTTATT
*
25670954 TATATTTATT
1 TATTTTTATT
*
25670964 TATTTTTTTT
1 TATTTTTATT
25670974 TATTTTT
1 TATTTTT
25670981 TTATTTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 1 0.02
10 32 0.76
12 8 0.19
13 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (10 bp):
TATTTTTATT
Found at i:25670961 original size:22 final size:20
Alignment explanation
Indices: 25670922--25670987 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 20
25670912 TTTTGTTTAG
*
25670922 TATTTTTATTTTCTTTTACTTT
1 TATTTTTATTTT-ATTTA-TTT
25670944 TATTTTTATTTATATTTA-TT
1 TATTTTTATTT-TATTTATTT
25670964 TATTTTT-TTTTATTT-TTT
1 TATTTTTATTTTATTTATTT
25670982 TATTTT
1 TATTTT
25670988 ATTAATTAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
18 13 0.32
19 3 0.07
20 9 0.22
22 15 0.37
23 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (20 bp):
TATTTTTATTTTATTTATTT
Found at i:25673412 original size:20 final size:20
Alignment explanation
Indices: 25673387--25673480 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
25673377 ACAATTTTAA
*
25673387 AATCAAGTAAAAATGATTTT
1 AATCAAGTAAAAATAATTTT
* *
25673407 AATCAAGTCAAAATAATTTC
1 AATCAAGTAAAAATAATTTT
* * *
25673427 AACCAAGTTAAAATCATTTT
1 AATCAAGTAAAAATAATTTT
*
25673447 AA-CACA-TCAAAATAATTTT
1 AATCA-AGTAAAAATAATTTT
* *
25673466 CAAACAAGTCAAAAT
1 -AATCAAGTAAAAAT
25673481 TGCTCCAGGC
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
19 13 0.21
20 39 0.64
21 9 0.15
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (20 bp):
AATCAAGTAAAAATAATTTT
Found at i:25673440 original size:40 final size:40
Alignment explanation
Indices: 25673379--25673480 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 40
25673369 ATTTTGAAAC
* *
25673379 AATTTTAAAATCAAGTAAAAATGATTTTAATCA-AGTCAAAAT
1 AATTTTCAAA-CAAGTAAAAATCATTTTAA-CACA-TCAAAAT
* *
25673421 AA-TTTCAACCAAGTTAAAATCATTTTAACACATCAAAAT
1 AATTTTCAAACAAGTAAAAATCATTTTAACACATCAAAAT
*
25673460 AATTTTCAAACAAGTCAAAAT
1 AATTTTCAAACAAGTAAAAAT
25673481 TGCTCCAGGC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
39 11 0.21
40 34 0.65
41 5 0.10
42 2 0.04
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (40 bp):
AATTTTCAAACAAGTAAAAATCATTTTAACACATCAAAAT
Found at i:25674740 original size:28 final size:26
Alignment explanation
Indices: 25674697--25674766 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 26
25674687 AGATGAACTG
* *
25674697 CACAATTAATACCATGGAGATAGTAA
1 CACAATTAATAACATGAAGATAGTAA
* *
25674723 CACGATTAAAATAACATGAAGGTAGTAA
1 CACAATT--AATAACATGAAGATAGTAA
25674751 CACAATTAATAACATG
1 CACAATTAATAACATG
25674767 TACTGAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 15 0.41
28 22 0.59
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (26 bp):
CACAATTAATAACATGAAGATAGTAA
Found at i:25676169 original size:47 final size:47
Alignment explanation
Indices: 25676106--25676319 Score: 338
Period size: 47 Copynumber: 4.6 Consensus size: 47
25676096 CCCTTCGGGA
* * *
25676106 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
* * *
25676153 CTTATCACATATATACACCTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
* *
25676200 CTTATCTCATATATACACTTTCACATCCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
25676247 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
25676294 CTTATCGCATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
25676320 NNNNNNNNNN
Statistics
Matches: 154, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 154 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
Found at i:25679579 original size:24 final size:25
Alignment explanation
Indices: 25679532--25679580 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
25679522 TCAAGCAAAT
25679532 AACCCATTTCGGTATTTTTTTTTTA
1 AACCCATTTCGGTATTTTTTTTTTA
*
25679557 AACCTATTTCGGTATTTTTTTTTT
1 AACCCATTTCGGTATTTTTTTTTT
25679581 TGTAGTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.14, G:0.08, T:0.59
Consensus pattern (25 bp):
AACCCATTTCGGTATTTTTTTTTTA
Found at i:25681493 original size:30 final size:31
Alignment explanation
Indices: 25681447--25681508 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
25681437 TTTTATTATG
25681447 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
*
25681478 CCAATAT-TTGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
25681508 C
1 C
25681509 AGGCTAGCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.77
31 7 0.23
ACGTcount: A:0.26, C:0.27, G:0.06, T:0.40
Consensus pattern (31 bp):
CCAATATCTCGATACCCATATCTTTGACTTT
Found at i:25681502 original size:15 final size:15
Alignment explanation
Indices: 25681457--25681503 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
25681447 CCAATATCTC
25681457 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25681472 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25681487 GATACCCATATCTTT
1 GATACCCATATCTTT
25681502 GA
1 GA
25681504 CTTTCAGGCT
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:25684748 original size:15 final size:15
Alignment explanation
Indices: 25684703--25684780 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
25684693 TCAATATCTC
25684703 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25684718 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25684733 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25684748 GACTTTCCAT-TATTT
1 GA-TACCCATATCTTT
25684763 GATACCCATATCTTT
1 GATACCCATATCTTT
25684778 GAT
1 GAT
25684781 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:25684787 original size:30 final size:30
Alignment explanation
Indices: 25684703--25684787 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
25684693 TCAATATCTC
*
25684703 GATACCCATATCTTTGACTTTCCAATATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
25684733 GATACCCATATCTTTGACTTTCCATTATTT
1 GATACCCATATCTTTGACTTTCCATTATTT
*
25684763 GATACCCATATCTTTGATTTTCCAT
1 GATACCCATATCTTTGACTTTCCAT
25684788 AAATATGGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.25, C:0.24, G:0.07, T:0.45
Consensus pattern (30 bp):
GATACCCATATCTTTGACTTTCCATTATTT
Found at i:25690985 original size:35 final size:35
Alignment explanation
Indices: 25690938--25691009 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
25690928 AAAATCAGAG
*
25690938 AAAAAAATAGTTCAAATTTTGACTTACAAATTCGT
1 AAAAAAACAGTTCAAATTTTGACTTACAAATTCGT
* *
25690973 AAAAAAACAGTTCAAATTTTGACTTACCAATTTGT
1 AAAAAAACAGTTCAAATTTTGACTTACAAATTCGT
25691008 AA
1 AA
25691010 TGTCTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.33
Consensus pattern (35 bp):
AAAAAAACAGTTCAAATTTTGACTTACAAATTCGT
Found at i:25693875 original size:18 final size:17
Alignment explanation
Indices: 25693824--25693922 Score: 65
Period size: 17 Copynumber: 5.7 Consensus size: 17
25693814 GCAAGACTAT
* *
25693824 GAGCTCACCAAAAGTTC
1 GAGCTCACCAAAACTGC
*
25693841 GAGCTCTA-CAAAGCTGC
1 GAGCTC-ACCAAAACTGC
25693858 GAGCTCACCCAAAACTGC
1 GAGCTCA-CCAAAACTGC
* **
25693876 AAGCTCACTCATGACTGC
1 GAGCTCAC-CAAAACTGC
* * * *
25693894 GAGTTCTCCAATAGTGC
1 GAGCTCACCAAAACTGC
*
25693911 GAGCTCATCAAA
1 GAGCTCACCAAA
25693923 GCTACGAAGT
Statistics
Matches: 61, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
16 1 0.02
17 33 0.54
18 27 0.44
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.19
Consensus pattern (17 bp):
GAGCTCACCAAAACTGC
Found at i:25697162 original size:18 final size:17
Alignment explanation
Indices: 25697139--25697202 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
25697129 TAATTAACTA
25697139 ATTTTTTTAAGTTTTTTT
1 ATTTTTTTAA-TTTTTTT
** *
25697157 ATTTTTTCCATTCATTTT
1 ATTTTTTTAATT-TTTTT
*
25697175 ATATTTTTAATTTCTTTT
1 ATTTTTTTAATTT-TTTT
25697193 ATTTTTTTAA
1 ATTTTTTTAA
25697203 GGAAATGAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 2 0.06
18 34 0.94
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (17 bp):
ATTTTTTTAATTTTTTT
Found at i:25701026 original size:25 final size:25
Alignment explanation
Indices: 25700997--25701047 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
25700987 CAAAGGAAAA
**
25700997 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
25701022 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
25701047 T
1 T
25701048 TTATTAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:25705344 original size:25 final size:25
Alignment explanation
Indices: 25705315--25705365 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
25705305 CAAAGGAAAA
** *
25705315 TCCTAATCTAATTCTTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
25705340 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
25705365 T
1 T
25705366 TTATAAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:25713985 original size:12 final size:13
Alignment explanation
Indices: 25713965--25713997 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
25713955 AAGTGGATTT
25713965 TTATAATAATTAA
1 TTATAATAATTAA
25713978 TTAT-ATAATTAA
1 TTATAATAATTAA
*
25713990 TTAAAATA
1 TTATAATA
25713998 TTTGTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTATAATAATTAA
Found at i:25714505 original size:6 final size:6
Alignment explanation
Indices: 25714496--25714525 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
25714486 CACCGATCTT
*
25714496 CCCTTT CCCTTC CCCTTC CCCTTC CCCTTC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
25714526 GCTTGACACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (6 bp):
CCCTTC
Found at i:25717567 original size:22 final size:24
Alignment explanation
Indices: 25717517--25717567 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
25717507 TTGCAATGCT
25717517 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
25717542 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
25717563 TTTAT
1 TTTAT
25717568 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:25717749 original size:20 final size:20
Alignment explanation
Indices: 25717711--25717750 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25717701 AATATTTTCC
* *
25717711 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
25717731 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
25717751 TTATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:25717765 original size:34 final size:35
Alignment explanation
Indices: 25717699--25717765 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
25717689 CAAACACCAG
* *
25717699 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
25717734 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
25717766 CATTTTAGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:25735387 original size:18 final size:18
Alignment explanation
Indices: 25735364--25735456 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
25735354 CCCAACTACT
*
25735364 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
25735382 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
25735400 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
25735418 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
25735436 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
25735454 GTA
1 GTA
25735457 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:25735416 original size:36 final size:36
Alignment explanation
Indices: 25735364--25735456 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
25735354 CCCAACTACT
*
25735364 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
25735400 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
25735436 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
25735457 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:25738084 original size:22 final size:22
Alignment explanation
Indices: 25738052--25738094 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25738042 AAAGTTCAAC
*
25738052 TAATTCATTAAAACTGTAAAATA
1 TAATTCATTAAAAAT-TAAAATA
25738075 TAATT-ATTAAAAATTAAAAT
1 TAATTCATTAAAAATTAAAAT
25738095 GTAACTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
TAATTCATTAAAAATTAAAATA
Found at i:25745813 original size:16 final size:16
Alignment explanation
Indices: 25745792--25745846 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
25745782 TAGTTACTAA
25745792 TATTTTAGATTATTTC
1 TATTTTAGATTATTTC
*
25745808 TATTTT-GGTTA-TTC
1 TATTTTAGATTATTTC
* *
25745822 ATATTTTTGATTGTTTC
1 -TATTTTAGATTATTTC
25745839 TATTTTAG
1 TATTTTAG
25745847 TCACTTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 3 0.09
15 10 0.31
16 16 0.50
17 3 0.09
ACGTcount: A:0.20, C:0.05, G:0.11, T:0.64
Consensus pattern (16 bp):
TATTTTAGATTATTTC
Done.