Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 154 of 362
Found at i:50614763 original size:30 final size:30
Alignment explanation
Indices: 50614729--50614802 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
50614719 TAAACTAAAA
*
50614729 TGAGCTAAGCTTTAACTCGTAAGCTAAAGT
1 TGAGCTAAGCTTTAACTCCTAAGCTAAAGT
* * *
50614759 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAACTCCTAAGCTAAAGT
*
50614789 TGAGCTAAGGTTTA
1 TGAGCTAAGCTTTA
50614803 GTTCGTGAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
29 2 0.06
30 30 0.86
31 3 0.09
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAACTCCTAAGCTAAAGT
Found at i:50615808 original size:17 final size:17
Alignment explanation
Indices: 50615783--50615821 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
50615773 CCAAGCATAA
*
50615783 GTATAAGCAAATTATGT
1 GTATTAGCAAATTATGT
50615800 GTATTAGCAAATTATGT
1 GTATTAGCAAATTATGT
50615817 GTATT
1 GTATT
50615822 TTGTGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (17 bp):
GTATTAGCAAATTATGT
Found at i:50618182 original size:20 final size:21
Alignment explanation
Indices: 50618129--50618185 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
50618119 AAAAGAAATG
*
50618129 AGCTGAAACGAGCTAAAATCA
1 AGCTCAAACGAGCTAAAATCA
*
50618150 AGCTCAAACGAGCTGAAA-CA
1 AGCTCAAACGAGCTAAAATCA
**
50618170 AGCTCAAGTGAGCTAA
1 AGCTCAAACGAGCTAA
50618186 TTGGAGCTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.14
Consensus pattern (21 bp):
AGCTCAAACGAGCTAAAATCA
Found at i:50622817 original size:16 final size:16
Alignment explanation
Indices: 50622798--50622859 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 16
50622788 CAAACAAACT
50622798 TTTTTTTTCTACTTTC
1 TTTTTTTTCTACTTTC
* *
50622814 TTTTTCTTACT-CTTTT
1 TTTTT-TTTCTACTTTC
50622830 TTTTCTTTTCTCACTTTTTC
1 TTTT-TTTTCT-AC--TTTC
50622850 TTTTTTTTCT
1 TTTTTTTTCT
50622860 TTTTCCATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 17 0.47
17 5 0.14
18 1 0.03
19 6 0.17
20 7 0.19
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTTTCTACTTTC
Found at i:50622836 original size:15 final size:14
Alignment explanation
Indices: 50622795--50622836 Score: 59
Period size: 13 Copynumber: 3.0 Consensus size: 14
50622785 TTGCAAACAA
50622795 ACTTTTTTTTTC-T
1 ACTTTTTTTTTCTT
*
50622808 ACTTTCTTTTTCTT
1 ACTTTTTTTTTCTT
50622822 ACTCTTTTTTTTCTT
1 ACT-TTTTTTTTCTT
50622837 TTCTCACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 11 0.44
14 4 0.16
15 10 0.40
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (14 bp):
ACTTTTTTTTTCTT
Found at i:50622861 original size:15 final size:15
Alignment explanation
Indices: 50622810--50622925 Score: 62
Period size: 15 Copynumber: 7.7 Consensus size: 15
50622800 TTTTTTCTAC
* *
50622810 TTTCTTTTTCTTACTC
1 TTTCTTTTTCTT-TTT
*
50622826 TTT-TTTTTCTTTTC
1 TTTCTTTTTCTTTTT
**
50622840 TCACTTTTTCTTTTT
1 TTTCTTTTTCTTTTT
50622855 TTTCTTTTTCCATTTTT
1 TTTCTTTTT-C-TTTTT
* **
50622872 GCATTCTTTTTCTCATT
1 --TTTCTTTTTCTTTTT
50622889 TTTC-TTTTC---TT
1 TTTCTTTTTCTTTTT
* *
50622900 TTTCATTTTCTTTTA
1 TTTCTTTTTCTTTTT
50622915 TTTCTTTTTCT
1 TTTCTTTTTCT
50622926 CTCAATTGAT
Statistics
Matches: 79, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
11 6 0.08
12 5 0.06
14 8 0.10
15 39 0.49
16 4 0.05
17 8 0.10
18 1 0.01
19 8 0.10
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (15 bp):
TTTCTTTTTCTTTTT
Found at i:50622881 original size:25 final size:25
Alignment explanation
Indices: 50622824--50622884 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
50622814 TTTTTCTTAC
*
50622824 TCTTTTTTTTC-TTTTCTCACTTTT
1 TCTTCTTTTTCTTTTTCTCACTTTT
*
50622848 TCTTTTTTTTCTTTTTC-CA-TTTT
1 TCTTCTTTTTCTTTTTCTCACTTTT
50622871 TGCATTCTTTTTCT
1 T-C-TTCTTTTTCT
50622885 CATTTTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 5 0.15
24 14 0.42
25 14 0.42
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.74
Consensus pattern (25 bp):
TCTTCTTTTTCTTTTTCTCACTTTT
Found at i:50622898 original size:20 final size:21
Alignment explanation
Indices: 50622801--50622903 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 21
50622791 ACAAACTTTT
*
50622801 TTTTTCTACTTTCTTTTTCTTAC
1 TTTTTCT--TTTCTTTTTCTCAC
50622824 TCTTTT-TTTTC-TTTTCTCAC
1 T-TTTTCTTTTCTTTTTCTCAC
50622844 TTTTTCTTTTTTTTCTTTTTC-CA-
1 TTTTTC----TTTTCTTTTTCTCAC
*
50622867 TTTTTGC-ATTCTTTTTCTCA-
1 TTTTT-CTTTTCTTTTTCTCAC
50622887 TTTTTCTTTTCTTTTTC
1 TTTTTCTTTTCTTTTTC
50622904 ATTTTCTTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 23
0.72 0.03 0.25
Matches are distributed among these distances:
19 14 0.21
20 25 0.37
21 4 0.06
23 7 0.10
24 12 0.18
25 5 0.07
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.73
Consensus pattern (21 bp):
TTTTTCTTTTCTTTTTCTCAC
Found at i:50622929 original size:43 final size:41
Alignment explanation
Indices: 50622801--50622929 Score: 95
Period size: 43 Copynumber: 3.0 Consensus size: 41
50622791 ACAAACTTTT
* *
50622801 TTTTTCTACTTTCTTTTTCTTACTCTTTTTTT-TCTTT-TCTCA
1 TTTTTCT--TTTCTTTTTCTT-TTCTTTTTTTCTTTTTCTCTCA
* * *
50622843 CTTTTTC-TTT-TTTTTCTTTTTCCATTTTTGCATTCTTTTTCTCA
1 -TTTTTCTTTTCTTTTTC-TTTT-CTTTTTTTC-TT-TTTCTCTCA
50622887 TTTTTCTTTTCTTTTTCATTTTCTTTTATTTCTTTTTCTCTCA
1 TTTTTCTTTTCTTTTTC-TTTTCTTTT-TTTCTTTTTCTCTCA
50622930 ATTGATTTAC
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
39 7 0.10
40 11 0.16
42 1 0.01
43 23 0.33
44 14 0.20
45 13 0.19
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.72
Consensus pattern (41 bp):
TTTTTCTTTTCTTTTTCTTTTCTTTTTTTCTTTTTCTCTCA
Found at i:50625315 original size:11 final size:10
Alignment explanation
Indices: 50625291--50625335 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
50625281 AAAAGAAATG
50625291 AGCTAAAACA
1 AGCTAAAACA
50625301 AGCTAAAATCA
1 AGCTAAAA-CA
* *
50625312 AGCTCAAACG
1 AGCTAAAACA
*
50625322 AGCTGAAACA
1 AGCTAAAACA
50625332 AGCT
1 AGCT
50625336 CCAGTGAGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.13
Consensus pattern (10 bp):
AGCTAAAACA
Found at i:50625315 original size:21 final size:20
Alignment explanation
Indices: 50625291--50625335 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
50625281 AAAAGAAATG
50625291 AGCTAAAACAAGCTAAAATCA
1 AGCTAAAACAAGCTAAAA-CA
* * *
50625312 AGCTCAAACGAGCTGAAACA
1 AGCTAAAACAAGCTAAAACA
50625332 AGCT
1 AGCT
50625336 CCAGTGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.13
Consensus pattern (20 bp):
AGCTAAAACAAGCTAAAACA
Found at i:50625649 original size:19 final size:19
Alignment explanation
Indices: 50625625--50625664 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50625615 AGCTCCCATG
50625625 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
50625644 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
50625663 TA
1 TA
50625665 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:50628763 original size:17 final size:17
Alignment explanation
Indices: 50628721--50628763 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
50628711 TGCACTTAAG
50628721 CCATTCATGCATTCTAT
1 CCATTCATGCATTCTAT
50628738 -CATTCCATGCATT-TGAT
1 CCATT-CATGCATTCT-AT
50628755 CCATTCATG
1 CCATTCATG
50628764 GACTAGCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 5 0.22
17 14 0.61
18 4 0.17
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (17 bp):
CCATTCATGCATTCTAT
Found at i:50629193 original size:30 final size:30
Alignment explanation
Indices: 50629159--50629255 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
50629149 TAAACTAAAA
50629159 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
50629189 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
50629219 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
50629249 TGAGCTA
1 TGAGCTA
50629256 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:50633616 original size:150 final size:150
Alignment explanation
Indices: 50633368--50633669 Score: 586
Period size: 150 Copynumber: 2.0 Consensus size: 150
50633358 TTTCAGTCAA
*
50633368 ATTGCCAAGGACGTCCCAACAGAAGGTGTCCTGTATGCATCAGTACAACATCGCAAATCACCTCG
1 ATTGCCAAGGACGTCCCAACAGAAGGTGTCCTGTATGCATCAGTACAACATCGCAAATCACCTAG
*
50633433 TCTTGGTATTTGCCTATTGAAAACTCCACTTTTGCTTGCTTGGTTACTTTGAGTTCACCACCGTC
66 TCTTGGTATTTGCCTATTGAAAACGCCACTTTTGCTTGCTTGGTTACTTTGAGTTCACCACCGTC
50633498 ATTTAGCCATTGCAATTTGT
131 ATTTAGCCATTGCAATTTGT
50633518 ATTGCCAAGGACGTCCCAACAGAAGGTGTCCTGTATGCATCAGTACAACATCGCAAATCACCTAG
1 ATTGCCAAGGACGTCCCAACAGAAGGTGTCCTGTATGCATCAGTACAACATCGCAAATCACCTAG
50633583 TCTTGGTATTTGCCTATTGAAAACGCCACTTTTGCTTGCTTGGTTACTTTGAGTTCACCACCGTC
66 TCTTGGTATTTGCCTATTGAAAACGCCACTTTTGCTTGCTTGGTTACTTTGAGTTCACCACCGTC
50633648 ATTTAGCCATTGCAATTTGT
131 ATTTAGCCATTGCAATTTGT
50633668 AT
1 AT
50633670 GGATTTGGAT
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (150 bp):
ATTGCCAAGGACGTCCCAACAGAAGGTGTCCTGTATGCATCAGTACAACATCGCAAATCACCTAG
TCTTGGTATTTGCCTATTGAAAACGCCACTTTTGCTTGCTTGGTTACTTTGAGTTCACCACCGTC
ATTTAGCCATTGCAATTTGT
Found at i:50634261 original size:30 final size:30
Alignment explanation
Indices: 50634192--50634276 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
50634182 TCAGCTCACG
* *
50634192 AGCTAAACCTTAGCTCAACTTCAGCTTAGA
1 AGCTAAATCTTAGCTCAACTTTAGCTTAGA
*
50634222 AG-TATAATCTCAGCTCAACTTTAGCTTA-A
1 AGCTA-AATCTTAGCTCAACTTTAGCTTAGA
* *
50634251 GGGCTAAATCTTAGCTC-ATTTTAGCT
1 -AGCTAAATCTTAGCTCAACTTTAGCT
50634277 CAAACCCAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 11 0.24
30 33 0.72
31 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (30 bp):
AGCTAAATCTTAGCTCAACTTTAGCTTAGA
Found at i:50636849 original size:6 final size:5
Alignment explanation
Indices: 50636825--50636866 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
50636815 ACGAGAAAAC
50636825 AAAGA AAAGA AAAGA AAATGA AAATGA AATA-A AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAA-GA AAA-GA AA-AGA AAAGA AAAGA
50636867 GAGGCAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 1 0.03
5 22 0.65
6 10 0.29
7 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (5 bp):
AAAGA
Found at i:50636965 original size:12 final size:12
Alignment explanation
Indices: 50636938--50636981 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
50636928 AGAAAGACTT
50636938 TGAAAAA-A-AA
1 TGAAAAAGAGAA
* *
50636948 TGAAAATGAGAT
1 TGAAAAAGAGAA
50636960 TGAAAAAGAGAA
1 TGAAAAAGAGAA
50636972 TGAAAAAGAG
1 TGAAAAAGAG
50636982 TTTGAGAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 6 0.21
11 1 0.04
12 21 0.75
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.14
Consensus pattern (12 bp):
TGAAAAAGAGAA
Found at i:50636977 original size:24 final size:22
Alignment explanation
Indices: 50636937--50636986 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 22
50636927 AAGAAAGACT
*
50636937 TTGAAAAAAAATGAAAATGAGA
1 TTGAAAAAAAATGAAAAAGAGA
*
50636959 TTGAAAAAGAGAATGAAAAAGAGT
1 TTGAAAAA-A-AATGAAAAAGAGA
50636983 TTGA
1 TTGA
50636987 GAGAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.33
23 1 0.04
24 15 0.62
ACGTcount: A:0.58, C:0.00, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGAAAAAAAATGAAAAAGAGA
Found at i:50637014 original size:19 final size:18
Alignment explanation
Indices: 50636992--50637030 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
50636982 TTTGAGAGAG
*
50636992 AAAAAGAATGTGAACAAGA
1 AAAAAGAATG-GAAAAAGA
50637011 AAAAAGAATGGAAAAAGA
1 AAAAAGAATGGAAAAAGA
50637029 AA
1 AA
50637031 TTGAGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.69, C:0.03, G:0.21, T:0.08
Consensus pattern (18 bp):
AAAAAGAATGGAAAAAGA
Found at i:50639169 original size:20 final size:21
Alignment explanation
Indices: 50639138--50639182 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
50639128 TCTGCTGTCC
*
50639138 AGCTCAAATCCAGCTTATTC-G
1 AGCTCAAATCCAACTT-TTCTG
50639159 AGCTC-AATCCAACTTTTCTG
1 AGCTCAAATCCAACTTTTCTG
50639179 AGCT
1 AGCT
50639183 AAACCGAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (21 bp):
AGCTCAAATCCAACTTTTCTG
Found at i:50639242 original size:30 final size:30
Alignment explanation
Indices: 50639208--50639295 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
50639198 CTAGCTTATA
* *
50639208 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
* **
50639238 TTCAGCTTAGGAG-TATAATTTTAGCTCAAC
1 TTCAGCTTAAGAGCTA-AACCTTAGCTCAAC
* * *
50639268 TTTAGCTTAAGGGCTAAAGCTTAGCTCA
1 TTCAGCTTAAGAGCTAAACCTTAGCTCA
50639296 TTTTAGCTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.04
30 43 0.91
31 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (30 bp):
TTCAGCTTAAGAGCTAAACCTTAGCTCAAC
Found at i:50642126 original size:12 final size:11
Alignment explanation
Indices: 50642095--50642124 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
50642085 ATATATTTCC
50642095 TTTTTTTTGAA
1 TTTTTTTTGAA
50642106 TTTTTTTTGAA
1 TTTTTTTTGAA
50642117 TTTTTTTT
1 TTTTTTTT
50642125 TGCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:50643433 original size:30 final size:31
Alignment explanation
Indices: 50643399--50643495 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
50643389 AGCTCGCTCC
*
50643399 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
50643429 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
50643459 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
50643489 TAGCTCA
1 TAGCTCA
50643496 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:50646061 original size:6 final size:5
Alignment explanation
Indices: 50646037--50646099 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 5
50646027 AAGAGAAAAC
50646037 AAAGA AAAGA AAAGAA AAAGCA AAAGCA AAAG- -AAGA AAATGA AAATGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAG-A AAAGA AAAGA AAA-GA AAA-GA
50646085 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
50646100 GAGGCAAGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
3 3 0.06
4 1 0.02
5 20 0.39
6 26 0.51
7 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (5 bp):
AAAGA
Found at i:50646202 original size:30 final size:31
Alignment explanation
Indices: 50646168--50646249 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
50646158 TTTGAAAAGC
* *
50646168 AAAAAGAAAAAGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* *
50646198 AAAAAGAGAATG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
50646228 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
50646250 TGAAACAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 8 0.18
30 27 0.61
31 9 0.20
ACGTcount: A:0.66, C:0.00, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:50646222 original size:24 final size:24
Alignment explanation
Indices: 50646173--50646242 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
50646163 AAAGCAAAAA
*
50646173 GAAAAAGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAATGAAATT
* *
50646197 GAAAAAGAGAATGAAAA-GAAATTT
1 GAAAAAGAAAAAGAAAATGAAA-TT
* ** *
50646221 GAGAGTGAAAAAGAAGATGAAA
1 GAAAAAGAAAAAGAAAATGAAA
50646243 AAGAAATTGA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
23 3 0.09
24 28 0.80
25 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.13
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAATGAAATT
Found at i:50648392 original size:30 final size:31
Alignment explanation
Indices: 50648358--50648454 Score: 110
Period size: 30 Copynumber: 3.2 Consensus size: 31
50648348 AGCTCACTCC
*
50648358 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * *
50648388 TAGCTCAAC-TTCAGCTTAGGAGTTTAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
50648418 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
50648448 TAGCTCA
1 TAGCTCA
50648455 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
30 49 0.92
31 4 0.08
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:50650038 original size:27 final size:26
Alignment explanation
Indices: 50649989--50650048 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
50649979 TAGCAGCAAC
*
50649989 AATTAAATTTGTCCCTAAGCTAGACA
1 AATTAAATTTGTCCCTAAACTAGACA
50650015 AATTAAATTGATGT-CCTAAACTAGACA
1 AATTAAATT--TGTCCCTAAACTAGACA
*
50650042 CATTAAA
1 AATTAAA
50650049 GCTGGGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 9 0.30
27 18 0.60
28 3 0.10
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (26 bp):
AATTAAATTTGTCCCTAAACTAGACA
Found at i:50656325 original size:17 final size:17
Alignment explanation
Indices: 50656303--50656335 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
50656293 ATAAGAACTA
50656303 TGAATATTCTTCCAATT
1 TGAATATTCTTCCAATT
50656320 TGAATATTCTTCCAAT
1 TGAATATTCTTCCAAT
50656336 CATAAGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.45
Consensus pattern (17 bp):
TGAATATTCTTCCAATT
Found at i:50673127 original size:48 final size:48
Alignment explanation
Indices: 50673072--50673220 Score: 280
Period size: 48 Copynumber: 3.1 Consensus size: 48
50673062 ACACATCGCC
* *
50673072 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
50673120 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
50673168 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
50673216 TACAT
1 TACAT
50673221 CAATTTCCGC
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 99 1.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
Found at i:50677332 original size:31 final size:31
Alignment explanation
Indices: 50677294--50677403 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
50677284 TTTAACGGTT
*
50677294 ACTGGGCCGAAGCCTTTTTATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
***
50677325 ACTGGGCCGAAGTGATTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
50677356 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
50677387 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
50677404 ACTGTAAACG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:50677474 original size:42 final size:42
Alignment explanation
Indices: 50677427--50677518 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
50677417 TGGCCCTTAG
* *
50677427 GCCCATTTTAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAACGAATGTATGCAA
50677469 GCCCATTTCAATATCACATGTAATGTCAACGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAACGAATGTATGCAA
50677511 GCCCATTT
1 GCCCATTT
50677519 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAACGAATGTATGCAA
Found at i:50677694 original size:25 final size:25
Alignment explanation
Indices: 50677666--50677735 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
50677656 CTCTTTTAAT
50677666 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
* *
50677691 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
50677716 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
50677736 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:50678610 original size:26 final size:28
Alignment explanation
Indices: 50678566--50678617 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
50678556 TACAAGGGTA
50678566 TTACGGTCACTTTATCCTA-TAGGGGCT
1 TTACGGTCACTTTATCCTATTAGGGGCT
**
50678593 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTATCCTATTAGGGG
50678618 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.40
Consensus pattern (28 bp):
TTACGGTCACTTTATCCTATTAGGGGCT
Found at i:50678692 original size:27 final size:27
Alignment explanation
Indices: 50678662--50678759 Score: 108
Period size: 27 Copynumber: 3.6 Consensus size: 27
50678652 GTAAATCTAC
*
50678662 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
*
50678689 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
50678715 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
* *
50678745 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
50678760 TGGTAATTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.02
27 34 0.56
28 6 0.10
29 19 0.31
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:50678765 original size:27 final size:27
Alignment explanation
Indices: 50678711--50678848 Score: 111
Period size: 27 Copynumber: 5.1 Consensus size: 27
50678701 TTTCTATAAT
* *
50678711 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
**
50678739 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* * * *
50678766 TTTTACAAAT-TGAAGGTATTTCGATAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * * *
50678793 TTTCACAAACCAGTGGTATTTCGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
50678820 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
50678847 TT
1 TT
50678849 CTATCCTACA
Statistics
Matches: 89, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.03
27 78 0.88
28 8 0.09
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:50678838 original size:54 final size:54
Alignment explanation
Indices: 50678659--50678840 Score: 179
Period size: 54 Copynumber: 3.3 Consensus size: 54
50678649 TTGGTAAATC
* * * **
50678659 TACAAACCAAGGGTATTTCAATAATTTTGTAAACCAATGGTATTTCTATAATTTT
1 TACAAACTAAGGGTATTTCGATAATTTTGTAAACCAGTGGTATTTCGGTAA-TTT
* * * * *
50678714 TAGAAAGTCAAGGGTATTTCTG-TAATTTTGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACT-AAGGGTATTTC-GATAATTTTGTAAACCAGTGGTATTTCGGTAATTT
* ***
50678769 TACAAATTGAA-GGTATTTCGATAATTTCACAAACCAGTGGTATTTCGGTAATTT
1 TACAAACT-AAGGGTATTTCGATAATTTTGTAAACCAGTGGTATTTCGGTAATTT
*
50678823 TACAAACTAGGGGTATTT
1 TACAAACTAAGGGTATTT
50678841 TGGTAATTCT
Statistics
Matches: 102, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
53 2 0.02
54 49 0.48
55 16 0.16
56 35 0.34
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (54 bp):
TACAAACTAAGGGTATTTCGATAATTTTGTAAACCAGTGGTATTTCGGTAATTT
Found at i:50678888 original size:27 final size:26
Alignment explanation
Indices: 50678746--50678888 Score: 85
Period size: 27 Copynumber: 5.3 Consensus size: 26
50678736 TAATTTTGTA
* *
50678746 AATCAGGGGTATTTTGGTAATTTTAC
1 AATCAGGGGTATTTCGGTAATTTCAC
* * *
50678772 AAAT-TGAAGGTATTTCGATAATTTCAC
1 -AATCAG-GGGTATTTCGGTAATTTCAC
* * *
50678799 AAACCAGTGGTATTTCGGTAATTTTAC
1 -AATCAGGGGTATTTCGGTAATTTCAC
* *
50678826 AAACTAGGGGTATTTTGGTAA-TTCTATC
1 AATC-AGGGGTATTTCGGTAATTTC-A-C
* *
50678854 -CTACAGGGGTATTTCAGTAATTTCAC
1 AAT-CAGGGGTATTTCGGTAATTTCAC
50678880 AATCGAGGG
1 AATC-AGGG
50678889 TAAAATGGTA
Statistics
Matches: 88, Mismatches: 19, Indels: 18
0.70 0.15 0.14
Matches are distributed among these distances:
26 8 0.09
27 74 0.84
28 6 0.07
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (26 bp):
AATCAGGGGTATTTCGGTAATTTCAC
Found at i:50678914 original size:27 final size:27
Alignment explanation
Indices: 50678880--50679158 Score: 353
Period size: 27 Copynumber: 10.3 Consensus size: 27
50678870 GTAATTTCAC
*
50678880 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
50678907 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
** * *
50678934 AATCGAGGGTAAAACAGTAATCCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
50678961 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
50678988 AATTGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
50679015 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
50679042 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
50679069 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * * *
50679096 AATTGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* **
50679123 AATCGAGGGTAAAGTGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
50679150 AATCGAGGG
1 AATCGAGGG
50679159 CATTTCAGCA
Statistics
Matches: 222, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.00
27 220 0.99
28 1 0.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:50678995 original size:81 final size:81
Alignment explanation
Indices: 50678880--50679158 Score: 425
Period size: 81 Copynumber: 3.4 Consensus size: 81
50678870 GTAATTTCAC
* * *
50678880 AATCGAGGGTAAAATGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATGGTAATTTTGTAAATTGAGGGT
* *
50678944 AAAACAGTAATCCTATA
65 AAAACGGTAATTCTATA
* *
50678961 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATGATAATTTTGTAAATTGAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTA
* *
50679026 AAATGGTAATTCTGTA
66 AAACGGTAATTCTATA
* *
50679042 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTA
50679107 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
* *
50679123 AATCGAGGGTAAAGTGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
50679159 CATTTCAGCA
Statistics
Matches: 180, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
81 180 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATTGAGGGTA
AAACGGTAATTCTATA
Found at i:50681540 original size:21 final size:22
Alignment explanation
Indices: 50681500--50681540 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
50681490 TTCCAAATAA
* *
50681500 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
50681522 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
50681541 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:50683861 original size:34 final size:34
Alignment explanation
Indices: 50683823--50683929 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
50683813 ATTTGCCTTT
* * *
50683823 CTGATACTATTACTGTAAGGGGCTAAGGTCCACA
1 CTGATACTGTTACTGTAATGGGCTAAGGCCCACA
*
50683857 CTGATACTGTTACTGTAATAGGCTAAGGCCCACA
1 CTGATACTGTTACTGTAATGGGCTAAGGCCCACA
* * *
50683891 CTAATACTGCTACTATAATGGGCTAAGGCCCACA
1 CTGATACTGTTACTGTAATGGGCTAAGGCCCACA
50683925 CTGAT
1 CTGAT
50683930 GCTGGACTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 64 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (34 bp):
CTGATACTGTTACTGTAATGGGCTAAGGCCCACA
Found at i:50697840 original size:12 final size:13
Alignment explanation
Indices: 50697809--50697837 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
50697799 TTCTTTTTGC
50697809 TTTTCAAAGGCTT
1 TTTTCAAAGGCTT
50697822 TTTTCAAAGGCTT
1 TTTTCAAAGGCTT
50697835 TTT
1 TTT
50697838 CAAGTTCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.52
Consensus pattern (13 bp):
TTTTCAAAGGCTT
Found at i:50697914 original size:5 final size:5
Alignment explanation
Indices: 50697889--50697950 Score: 67
Period size: 5 Copynumber: 12.4 Consensus size: 5
50697879 TCTTGCCTCC
*
50697889 CTTTT CTTTT -TATTT CGTTTT CTTTT -TCTT CTTTTT CTTTT CTTTT
1 CTTTT CTTTT CT-TTT C-TTTT CTTTT CTTTT C-TTTT CTTTT CTTTT
50697935 CTTTT CTTTT -TTTT CT
1 CTTTT CTTTT CTTTT CT
50697951 CTTTACAAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
4 8 0.16
5 32 0.65
6 8 0.16
7 1 0.02
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:50697924 original size:15 final size:15
Alignment explanation
Indices: 50697890--50697950 Score: 61
Period size: 16 Copynumber: 4.0 Consensus size: 15
50697880 CTTGCCTCCC
* *
50697890 TTTTCTTTTTATTTCG
1 TTTTCTTTTT-CTTCT
50697906 TTTTCTTTTTCTTCT
1 TTTTCTTTTTCTTCT
*
50697921 TTTTC-TTTTCTTTT
1 TTTTCTTTTTCTTCT
*
50697935 CTTTTCTTTTTTTTCT
1 -TTTTCTTTTTCTTCT
50697951 CTTTACAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
14 8 0.21
15 13 0.34
16 17 0.45
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTTCTTCT
Found at i:50697953 original size:16 final size:16
Alignment explanation
Indices: 50697889--50697954 Score: 75
Period size: 15 Copynumber: 4.2 Consensus size: 16
50697879 TCTTGCCTCC
50697889 CTTTTCTTTTTATTTC-
1 CTTTTCTTTTT-TTTCT
* *
50697905 GTTTTCTTTTTCTTCT
1 CTTTTCTTTTTTTTCT
*
50697921 -TTTTCTTTTCTTT-T
1 CTTTTCTTTTTTTTCT
50697935 CTTTTCTTTTTTTTCT
1 CTTTTCTTTTTTTTCT
50697951 CTTT
1 CTTT
50697955 ACAAGAATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
14 1 0.02
15 26 0.62
16 15 0.36
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (16 bp):
CTTTTCTTTTTTTTCT
Found at i:50698873 original size:10 final size:10
Alignment explanation
Indices: 50698858--50698895 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
50698848 TAAAACACCT
50698858 TTTTTTTGAA
1 TTTTTTTGAA
50698868 TTTTTTTGAA
1 TTTTTTTGAA
50698878 TTTTTTTTGAA
1 -TTTTTTTGAA
50698889 TTTTTTT
1 TTTTTTT
50698896 AACTTGTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:50698873 original size:11 final size:11
Alignment explanation
Indices: 50698857--50698895 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
50698847 ATAAAACACC
50698857 TTTTTTTTGAA
1 TTTTTTTTGAA
50698868 -TTTTTTTGAA
1 TTTTTTTTGAA
50698878 TTTTTTTTGAA
1 TTTTTTTTGAA
50698889 TTTTTTT
1 TTTTTTT
50698896 AACTTGTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:50700656 original size:30 final size:30
Alignment explanation
Indices: 50700571--50700658 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
50700561 TGAGCTAAAA
* *
50700571 TGAGCTAAGCTTTAGC-CCTTAAGCTAAAGT
1 TGAGCTAAGATTTAGCTCC-TAAGCTGAAGT
*
50700601 TGAGCTGAGATTATA-CTCCTAAGCTGAAGT
1 TGAGCTAAGATT-TAGCTCCTAAGCTGAAGT
* * *
50700631 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
1 TGAGCTAAGATTTAGCTCCTAAGCTGAA
50700659 TATAAGCTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
29 2 0.04
30 42 0.88
31 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCCTAAGCTGAAGT
Found at i:50703322 original size:35 final size:35
Alignment explanation
Indices: 50703211--50703415 Score: 189
Period size: 35 Copynumber: 5.9 Consensus size: 35
50703201 TTCATATGGT
* * * *
50703211 CGAATATAGAAGTTCAATATATCATCACGTGTAAC
1 CGAATATACAAGTTCAATATAACCTCACATGTAAC
* * * * * * **
50703246 CTAA-AGTTCAAGTTCAATAAAACATCTCATATGGC
1 CGAATA-TACAAGTTCAATATAACCTCACATGTAAC
* * *
50703281 CTAATATACAAATTCAATATAATCTCACATGTAAC
1 CGAATATACAAGTTCAATATAACCTCACATGTAAC
* * * *
50703316 CAAATATACAAGTTCAATATAAGCTTACATGTAAT
1 CGAATATACAAGTTCAATATAACCTCACATGTAAC
* *
50703351 CGAAT-TCACAAGTTCAATATAACCTCACATGCAGC
1 CGAATAT-ACAAGTTCAATATAACCTCACATGTAAC
50703386 CGAATATACAAGTTCAATATAACCTCACAT
1 CGAATATACAAGTTCAATATAACCTCACAT
50703416 ATACTTACTT
Statistics
Matches: 136, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
34 2 0.01
35 132 0.97
36 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (35 bp):
CGAATATACAAGTTCAATATAACCTCACATGTAAC
Found at i:50703349 original size:105 final size:103
Alignment explanation
Indices: 50703213--50703415 Score: 223
Period size: 105 Copynumber: 1.9 Consensus size: 103
50703203 CATATGGTCG
* * * *
50703213 AATATAGAAGTTCAATATATCATCACGTGTAACCTAAAGTT-CAAGTTCAATAAAACATCTCATA
1 AATATACAAGTTCAATATAGCATCACATGTAACC-AAA-TTACAAGTTCAATAAAAC--CTCACA
* *
50703277 TG-GCCTAATATACAAATTCAATATAATCTCACATGTAACCA
62 TGAGCCGAATATACAAATTCAATATAACCTCACATGTAACCA
* * * *
50703318 AATATACAAGTTCAATATAAGC-TTACATGTAATCGAATTCACAAGTTCAATATAACCTCACATG
1 AATATACAAGTTCAATAT-AGCATCACATGTAACCAAATT-ACAAGTTCAATAAAACCTCACATG
*
50703382 CAGCCGAATATACAAGTTCAATATAACCTCACAT
64 -AGCCGAATATACAAATTCAATATAACCTCACAT
50703416 ATACTTACTT
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
103 9 0.11
104 2 0.02
105 69 0.84
106 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (103 bp):
AATATACAAGTTCAATATAGCATCACATGTAACCAAATTACAAGTTCAATAAAACCTCACATGAG
CCGAATATACAAATTCAATATAACCTCACATGTAACCA
Found at i:50707159 original size:31 final size:31
Alignment explanation
Indices: 50707118--50707181 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
50707108 CCTTGTCATA
*
50707118 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
50707149 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
50707180 TT
1 TT
50707182 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:50707417 original size:25 final size:24
Alignment explanation
Indices: 50707375--50707592 Score: 271
Period size: 25 Copynumber: 9.0 Consensus size: 24
50707365 GCTTTATCAT
* *
50707375 ATAACTGGAGGCCT-AGCCTCTTTTG
1 ATAACTGG-GGCATAAGCC-CTTTTC
* *
50707400 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTC
50707424 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
50707449 ATAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
* *
50707474 ATAACTGGGGCGTAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
*
50707499 ATAACTGGGGCGTAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
50707524 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
*
50707547 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
50707570 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
50707593 GCACTTCCTC
Statistics
Matches: 178, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
23 43 0.24
24 34 0.19
25 101 0.57
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:50707664 original size:9 final size:9
Alignment explanation
Indices: 50707650--50707706 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
50707640 ATCTCATGTG
50707650 CATATCATA
1 CATATCATA
*
50707659 CATATCATGTG
1 CATATCA--TA
50707670 CATATCATA
1 CATATCATA
* *
50707679 CATGTCATGTG
1 CATATCA--TA
50707690 CATATCATA
1 CATATCATA
50707699 CATATCAT
1 CATATCAT
50707707 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:50707666 original size:20 final size:20
Alignment explanation
Indices: 50707638--50707708 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
50707628 GCATTTATGA
*
50707638 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
50707658 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
50707678 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
50707698 ACATATCATGT
1 ACATATCATGT
50707709 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:50707673 original size:11 final size:11
Alignment explanation
Indices: 50707643--50707697 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
50707633 TATGAACATC
50707643 TCATGTGCATA
1 TCATGTGCATA
*
50707654 TCA--TACATA
1 TCATGTGCATA
50707663 TCATGTGCATA
1 TCATGTGCATA
* *
50707674 TCA--TACATG
1 TCATGTGCATA
50707683 TCATGTGCATA
1 TCATGTGCATA
50707694 TCAT
1 TCAT
50707698 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:50708988 original size:27 final size:27
Alignment explanation
Indices: 50708958--50709033 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
50708948 TATTCGTCAT
50708958 TTTACCATACAAGGG-TATTACGATCAC
1 TTTACCATACAAGGGCT-TTACGATCAC
* * *
50708985 TTTACCCTACAGGGGCTTTACGGTCAC
1 TTTACCATACAAGGGCTTTACGATCAC
* * *
50709012 TTTACCCTATAGGGGCTTTACG
1 TTTACCATACAAGGGCTTTACG
50709034 GTCTTTTTAC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (27 bp):
TTTACCATACAAGGGCTTTACGATCAC
Found at i:50709034 original size:27 final size:27
Alignment explanation
Indices: 50708975--50709053 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
50708965 TACAAGGGTA
* *
50708975 TTACGATCACTTTACCCTACAGGGGCT
1 TTACGGTCACTTTACCCTATAGGGGCT
50709002 TTACGGTCACTTTACCCTATAGGGGCT
1 TTACGGTCACTTTACCCTATAGGGGCT
**
50709029 TTACGGTCTTTTTA-CCTAATAGGGG
1 TTACGGTCACTTTACCCT-ATAGGGG
50709054 TATTCTAGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
26 3 0.06
27 44 0.94
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (27 bp):
TTACGGTCACTTTACCCTATAGGGGCT
Found at i:50709210 original size:27 final size:27
Alignment explanation
Indices: 50709180--50709284 Score: 99
Period size: 27 Copynumber: 3.9 Consensus size: 27
50709170 GTAACTTTGT
50709180 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * *
50709207 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* * *
50709234 AAACCAGTGGTAATTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* *
50709261 AGA-CTA-GGGTATTTTAGTAATTTT
1 AAATC-AGGGGTATTTTGGTAATTTT
50709285 GTAAATCGAG
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
26 17 0.27
27 44 0.71
28 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:50709305 original size:27 final size:27
Alignment explanation
Indices: 50709276--50709433 Score: 165
Period size: 27 Copynumber: 5.9 Consensus size: 27
50709266 AGGGTATTTT
*
50709276 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * **
50709303 AGTAATTCTATAAATTAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* **
50709330 AGTAATTTTATAAATTAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
50709357 GGTACTTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
50709384 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
50709411 -GATAATTATGTAAATCGGGGGTA
1 AG-TAATTTTGTAAATCGAGGGTA
50709434 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 112 0.99
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:50709442 original size:54 final size:54
Alignment explanation
Indices: 50709320--50709460 Score: 129
Period size: 54 Copynumber: 2.6 Consensus size: 54
50709310 CTATAAATTA
* * * * ** * * *
50709320 AGGGTAAAACAGTAATTTTATAAATTAAGGGTAAAACGGTACTTTTGTAAATCG
1 AGGGTAAAACGGTAATTCTACAAGTCGAGGGTAAAACGATAATTATGTAAATCG
**
50709374 AGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCG
1 AGGGTAAAACGGTAATTCTACAAGTCGAGGGTAAAACGATAATTATGTAAATCG
* **** *
50709428 GGGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 AGGGTAAAACGGTAATTCTACAAGTCGAGGGTA
50709461 TTTCAATAAT
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.30
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTACAAGTCGAGGGTAAAACGATAATTATGTAAATCG
Found at i:50710615 original size:48 final size:48
Alignment explanation
Indices: 50710470--50710721 Score: 256
Period size: 48 Copynumber: 5.1 Consensus size: 48
50710460 GGGTGTTACA
* * * * * *
50710470 ACCATAGCTGGGCTATGGCATTGGAGAAATGTGATTATGTGCTACTGTATAAA
1 ACCATAGCTGGGCTATGGCA-T-CA-ATATGTGA-TATGTGAT-CCGTGTAAG
** * * * * *
50710523 ACCATATTTGGGATATGGCATC-A-GTGAGATATGTGATTCATGTAAG
1 ACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATCCGTGTAAG
* * *
50710569 ACCATAGTTCGGCTATGGCATCGATATGTGATATGTGATCCGTGTAAG
1 ACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATCCGTGTAAG
50710617 ACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATCCGTGTAAG
1 ACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATCCGTGTAAG
* **
50710665 ACCATAGCTGGGCTATGGCATCAATATGTGACATGTGATTTATGTGTAAG
1 ACCATAGCTGGGCTATGGCATCAATATGTGATATGTGA--TCCGTGTAAG
50710715 ACCATAG
1 ACCATAG
50710722 GCATCCATAT
Statistics
Matches: 170, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
46 23 0.14
47 8 0.05
48 105 0.62
49 1 0.01
50 15 0.09
52 1 0.01
53 17 0.10
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (48 bp):
ACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATCCGTGTAAG
Found at i:50710775 original size:42 final size:42
Alignment explanation
Indices: 50710721--50710809 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
50710711 TAAGACCATA
* * **
50710721 GGCATCCATATGTGAATATGTGTAAGACCATAGCTGGGCTAT
1 GGCATCCATATGTAAAGATGTGTAAGACCATAGCTGAACTAT
*
50710763 GGCAT-CATTATGTAAAGATGTGTAAGACCATAGTTGAACTAT
1 GGCATCCA-TATGTAAAGATGTGTAAGACCATAGCTGAACTAT
50710805 GGCAT
1 GGCAT
50710810 TGAGAAAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
41 2 0.05
42 39 0.95
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (42 bp):
GGCATCCATATGTAAAGATGTGTAAGACCATAGCTGAACTAT
Found at i:50713789 original size:16 final size:15
Alignment explanation
Indices: 50713763--50713793 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
50713753 ACTAGATCAG
50713763 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
50713778 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
50713794 GGGCATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.52, C:0.26, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:50714073 original size:27 final size:27
Alignment explanation
Indices: 50714043--50714104 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
50714033 ATTTACTAAA
50714043 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
*
50714070 ATACCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
50714096 ATACCCCTA
1 ATACCCCTA
50714105 GGTTAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 2 0.06
26 22 0.69
27 8 0.25
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:50714092 original size:26 final size:26
Alignment explanation
Indices: 50714058--50714107 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
50714048 CCTAAGTATG
50714058 AAAATTACCATTATACCCCTAGGTGC
1 AAAATTACCATTATACCCCTAGGTGC
50714084 AAAATTACCATTATACCCCTAGGT
1 AAAATTACCATTATACCCCTAGGT
50714108 TAATTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (26 bp):
AAAATTACCATTATACCCCTAGGTGC
Found at i:50714274 original size:28 final size:26
Alignment explanation
Indices: 50714211--50714321 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 26
50714201 GGAAGCATTT
*
50714211 TGGTGGCTCTACCACAAATATATGATC
1 TGGTGGCTCTACCAC-AATATCTGATC
* *
50714238 TGGTGGCTCTGCCACAAATATCTGTTTC
1 TGGTGGCTCTACCAC-AATATCTG-ATC
*
50714266 TGGTGGCTCTACCACAATACCTGTATC
1 TGGTGGCTCTACCACAATATCTG-ATC
* * * *
50714293 TGATGACTCTATCACAATATCTGTTC
1 TGGTGGCTCTACCACAATATCTGATC
50714319 TGG
1 TGG
50714322 CAGCCATATT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.06
27 51 0.72
28 16 0.23
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (26 bp):
TGGTGGCTCTACCACAATATCTGATC
Found at i:50714309 original size:55 final size:53
Alignment explanation
Indices: 50714211--50714321 Score: 134
Period size: 55 Copynumber: 2.1 Consensus size: 53
50714201 GGAAGCATTT
* * * *
50714211 TGGTGGCTCTACCACAAATATATGATCTGGTGGCTCTGCCACAAATATCTGTTTC
1 TGGTGGCTCTACCACAAATACATGATCTGATGACTCTACCAC-AATATCTG-TTC
* *
50714266 TGGTGGCTCTACCAC-AATACCTGTATCTGATGACTCTATCACAATATCTGTTC
1 TGGTGGCTCTACCACAAATACATG-ATCTGATGACTCTACCACAATATCTGTTC
50714319 TGG
1 TGG
50714322 CAGCCATATT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 6 0.12
54 14 0.29
55 29 0.59
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (53 bp):
TGGTGGCTCTACCACAAATACATGATCTGATGACTCTACCACAATATCTGTTC
Found at i:50717707 original size:43 final size:43
Alignment explanation
Indices: 50717660--50717797 Score: 138
Period size: 42 Copynumber: 3.2 Consensus size: 43
50717650 TCCCAGTCGT
* *
50717660 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAAACAG
1 GGTCTTACATGTAATTCAATATCGATGCCTATGTCCCAAACAC
* * * * *
50717703 GGTCTTACACG-AAATCAGATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAATTCA-ATATCGATGCCTATGTCCCAAACAC
* * *
50717745 GGTCTTACATATAAATCTCAA-ATCGAAGCCTGTGTCCCAAACAC
1 GGTCTTACATGT-AAT-TCAATATCGATGCCTATGTCCCAAACAC
50717789 GGTCTTACA
1 GGTCTTACA
50717798 CGATATTCAA
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
42 30 0.39
43 16 0.21
44 27 0.36
45 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGTAATTCAATATCGATGCCTATGTCCCAAACAC
Found at i:50722816 original size:70 final size:70
Alignment explanation
Indices: 50722740--50722940 Score: 194
Period size: 70 Copynumber: 2.9 Consensus size: 70
50722730 TTATATTATT
* * * * *
50722740 TCATATGGCAGAATATATAAGTTCAATA-GATCATCACATGTAACCTAA-AGTTCAAGTTCAATA
1 TCATATGGCAGAATATACAAATTCAATATAATC-TCACATGTAACCGAATA-TACAAGTTCAATA
50722803 AAACATC
64 AAACATC
* *
50722810 TCATATGGCCGAATATACAAATTCAATATAATCTCACATGTAACCGAATATACAAGTTCAAT-AT
1 TCATATGGCAGAATATACAAATTCAATATAATCTCACATGTAACCGAATATACAAGTTCAATAAA
*
50722874 A-AGC
66 ACATC
* ** * * * * *
50722878 TCAAATGTAATCGAATACACAAGTTCAATATAACCTCACATGCAGCCGAATATACAAGTTCAA
1 TCATATGGCA--GAATATACAAATTCAATATAATCTCACATGTAACCGAATATACAAGTTCAA
50722941 AATAACCTCA
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
68 8 0.07
69 2 0.02
70 96 0.87
71 4 0.04
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (70 bp):
TCATATGGCAGAATATACAAATTCAATATAATCTCACATGTAACCGAATATACAAGTTCAATAAA
ACATC
Found at i:50722835 original size:35 final size:35
Alignment explanation
Indices: 50722796--50722953 Score: 101
Period size: 35 Copynumber: 4.5 Consensus size: 35
50722786 AAAGTTCAAG
* *
50722796 TTCAATAAAACATCTCATATG-GCCGAATATACAAA
1 TTCAATAAAA-ATCTCACATGAACCGAATATACAAA
* *
50722831 TTCAAT-ATAATCTCACATGTAACCGAATATACAAG
1 TTCAATAAAAATCTCACATG-AACCGAATATACAAA
* * * * * *
50722866 TTCAAT-ATAAGCTCAAATGTAATCGAATACACAAG
1 TTCAATAAAAATCTCACATG-AACCGAATATACAAA
* * * *
50722901 TTCAAT-ATAACCTCACATGCAGCCGAATATACAAG
1 TTCAATAAAAATCTCACATG-AACCGAATATACAAA
* *
50722936 TTCAA-AATAACCTCACAT
1 TTCAATAAAAATCTCACAT
50722954 ATACTTACTT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
33 9 0.08
34 2 0.02
35 95 0.90
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.26
Consensus pattern (35 bp):
TTCAATAAAAATCTCACATGAACCGAATATACAAA
Found at i:50722886 original size:105 final size:104
Alignment explanation
Indices: 50722750--50722953 Score: 225
Period size: 105 Copynumber: 1.9 Consensus size: 104
50722740 TCATATGGCA
* * * * * ** *
50722750 GAATATATAAGTTCAATAGATCATCACATGTAACCTAA-AGTTCAAGTTCAATAAAACATCTCAT
1 GAATATACAAGTTCAATAAAGCATCAAATGTAACCGAATA-CACAAGTTCAATAAAAC--CTCAC
* *
50722814 ATG-GCCGAATATACAAATTCAATATAATCTCACATGTAACC
63 ATGAGCCGAATATACAAATTCAAAATAACCTCACATGTAACC
* *
50722855 GAATATACAAGTTCAATATAAGC-TCAAATGTAATCGAATACACAAGTTCAATATAACCTCACAT
1 GAATATACAAGTTCAATA-AAGCATCAAATGTAACCGAATACACAAGTTCAATAAAACCTCACAT
*
50722919 GCAGCCGAATATACAAGTTCAAAATAACCTCACAT
65 G-AGCCGAATATACAAATTCAAAATAACCTCACAT
50722954 ATACTTACTT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
103 7 0.09
105 72 0.88
106 3 0.04
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (104 bp):
GAATATACAAGTTCAATAAAGCATCAAATGTAACCGAATACACAAGTTCAATAAAACCTCACATG
AGCCGAATATACAAATTCAAAATAACCTCACATGTAACC
Found at i:50727011 original size:30 final size:30
Alignment explanation
Indices: 50726977--50727073 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
50726967 TAAACTAAAA
50726977 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * *
50727007 TGAGCTGAGGC-TAAACTCCTAAGCTAAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
50727037 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
50727067 TGAGCTA
1 TGAGCTA
50727074 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 2 0.04
30 43 0.83
31 7 0.13
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:50729258 original size:30 final size:30
Alignment explanation
Indices: 50729187--50729269 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
50729177 CTTTTGTTTC
* *
50729187 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
50729218 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
50729247 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
50729270 TCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:50729269 original size:18 final size:18
Alignment explanation
Indices: 50729220--50729275 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
50729210 CACTCTCAAA
* *
50729220 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
50729237 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
50729255 TTTCATTTTCTTTTTTCTT
1 TTTCATTTTC-ATTTTCTT
50729274 TT
1 TT
50729276 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 17 0.57
19 9 0.30
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:50729276 original size:12 final size:12
Alignment explanation
Indices: 50729245--50729269 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50729235 TTTTTCAATC
50729245 TCATTTTCTTTT
1 TCATTTTCTTTT
50729257 TCATTTTCTTTT
1 TCATTTTCTTTT
50729269 T
1 T
50729270 TCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:50730285 original size:21 final size:21
Alignment explanation
Indices: 50730259--50730312 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
50730249 CATTAAACAC
* *
50730259 TTTTTTTAG-ATTTTTTTCGA
1 TTTTTTTTGAATTTTTTTCAA
50730279 TTTTTTTTGAATTTTTTTCAA
1 TTTTTTTTGAATTTTTTTCAA
50730300 TTTTTTTTGAATT
1 TTTTTTTTGAATT
50730313 GTATAACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 8 0.26
21 23 0.74
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (21 bp):
TTTTTTTTGAATTTTTTTCAA
Found at i:50730312 original size:11 final size:11
Alignment explanation
Indices: 50730259--50730312 Score: 60
Period size: 10 Copynumber: 5.1 Consensus size: 11
50730249 CATTAAACAC
50730259 TTTTTTT-AGAT
1 TTTTTTTGA-AT
*
50730270 TTTTTTCG-AT
1 TTTTTTTGAAT
50730280 TTTTTTTGAA-
1 TTTTTTTGAAT
*
50730290 TTTTTTTCAAT
1 TTTTTTTGAAT
50730301 TTTTTTTGAAT
1 TTTTTTTGAAT
50730312 T
1 T
50730313 GTATAACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 18 0.50
11 18 0.50
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (11 bp):
TTTTTTTGAAT
Found at i:50733967 original size:48 final size:48
Alignment explanation
Indices: 50733908--50734463 Score: 905
Period size: 48 Copynumber: 11.6 Consensus size: 48
50733898 TATATATGTG
* * * *
50733908 TGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTGTA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
* *
50733956 TGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
50734004 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
* *
50734052 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
* *
50734100 TGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
50734148 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
* *
50734196 TGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
* ** *
50734244 TGTGGTAAAGCCGAATGGCGAATGTGAAATATGCATGAGATATTTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
* * *
50734292 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGGTATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
50734340 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
* * *
50734388 TGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATAGGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
*
50734436 AGTGGTAAAGCCGAATGGCTAATGTGAA
1 TGTGGTAAAGCCGAATGGCTAATGTGAA
50734464 TGTTGTAACA
Statistics
Matches: 473, Mismatches: 35, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 473 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
Found at i:50734558 original size:37 final size:37
Alignment explanation
Indices: 50734508--50734610 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
50734498 GGAAATGTAT
50734508 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
50734545 TCCGGGTAAGACCCGATGACTACGTGCGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
50734582 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
50734611 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:50736948 original size:40 final size:40
Alignment explanation
Indices: 50736573--50736939 Score: 556
Period size: 40 Copynumber: 9.2 Consensus size: 40
50736563 TTAAGTCCTA
50736573 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
1 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
50736613 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
1 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
* * *
50736653 AAGAGCATTCGTGCTAATGATATAGCCGGGCTAAGTCCCG
1 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
*
50736693 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCTG
1 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
50736733 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
1 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
*
50736773 AAGAGCATTTGTGCTAGTGATATATCCGGGCTAAGTTCCG
1 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
* * * * *
50736813 AAGAGCATTCGTGCCAATGATGTATCCGGACTAAGTCCCG
1 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
* ***
50736853 AAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCG
1 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
* * * *
50736893 AAGAGCATTCGTGCT-GCTGTTATATCTGGGCTAGGTCCCG
1 AAGAGCATTCGTGCTAG-TGATATATCCGGGCTAAGTTCCG
50736933 AAGAGCA
1 AAGAGCA
50736940 ATCATGCTGG
Statistics
Matches: 298, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
39 1 0.00
40 297 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCG
Found at i:50738047 original size:18 final size:18
Alignment explanation
Indices: 50738024--50738072 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
50738014 TTGCATACTG
50738024 TTTACTGTTACTGCACTA
1 TTTACTGTTACTGCACTA
50738042 TTTACTGTTACTGCACTA
1 TTTACTGTTACTGCACTA
50738060 TTTACTGTTACTG
1 TTTACTGTTACTG
50738073 TAACGGGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (18 bp):
TTTACTGTTACTGCACTA
Found at i:50739105 original size:25 final size:25
Alignment explanation
Indices: 50739070--50739117 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
50739060 CACATTCATG
50739070 GTCCTAATCGAGAGTTTAGTATATA
1 GTCCTAATCGAGAGTTTAGTATATA
*
50739095 GTCCTATTCGAGAGTTTAGTATA
1 GTCCTAATCGAGAGTTTAGTATA
50739118 CATACCTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (25 bp):
GTCCTAATCGAGAGTTTAGTATATA
Found at i:50740470 original size:34 final size:34
Alignment explanation
Indices: 50740398--50740471 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 34
50740388 GGCAGTCCAG
* * ** *
50740398 TATCAATGTGGGCCTTATCCCATTACAGTAGTAG
1 TATCAATGTGGGCCTTAGCCCATTACAGGAACAA
*
50740432 TATCATTGTGGGCCTTAGCCCATTACAGGAACAA
1 TATCAATGTGGGCCTTAGCCCATTACAGGAACAA
50740466 TATCAA
1 TATCAA
50740472 AAATACAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (34 bp):
TATCAATGTGGGCCTTAGCCCATTACAGGAACAA
Found at i:50743633 original size:27 final size:27
Alignment explanation
Indices: 50743531--50743635 Score: 115
Period size: 27 Copynumber: 3.8 Consensus size: 27
50743521 AGGAAGCGTC
*
50743531 CTGGTGGCTATGCCACAAATTATCTG-AT
1 CTGGTGGCTCTGCCAC--ATTATCTGTAT
50743559 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
50743586 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* * * *
50743614 CTAGTGACTCTGTCATATTATC
1 CTGGTGGCTCTGCCACATTATC
50743636 AGTTTTGGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.03
27 36 0.53
28 30 0.44
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:50751411 original size:28 final size:28
Alignment explanation
Indices: 50751368--50751429 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
50751358 AGGACGCGTC
*
50751368 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATACCAC-AATTATCTGTAT
* *
50751396 CTGGTGGCTCTACCACGATTATCTGTAT
1 CTGGTGGCTATACCACAATTATCTGTAT
50751424 CTGGTG
1 CTGGTG
50751430 ATTCTGTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTATACCACAATTATCTGTAT
Found at i:50758469 original size:18 final size:18
Alignment explanation
Indices: 50758446--50758483 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
50758436 CTTGGCCCAT
*
50758446 TGCAGTAACAATAAATAG
1 TGCAGTAACAATAAACAG
*
50758464 TGCAGTAACAGTAAACAG
1 TGCAGTAACAATAAACAG
50758482 TG
1 TG
50758484 TATGTCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (18 bp):
TGCAGTAACAATAAACAG
Found at i:50760026 original size:30 final size:30
Alignment explanation
Indices: 50759992--50760048 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
50759982 TTCAACTCAC
*
50759992 GAGTTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGTTAAACCTCAGCTCAACTTCAGCTTAG
* * *
50760022 GAGTTTAGCCTCAGCTCAACTTTAGCT
1 GAGTTAAACCTCAGCTCAACTTCAGCT
50760049 CACGAGCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (30 bp):
GAGTTAAACCTCAGCTCAACTTCAGCTTAG
Found at i:50762579 original size:21 final size:21
Alignment explanation
Indices: 50762545--50762616 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
50762535 ACATTCTTGT
50762545 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAAGAAAAGA
50762566 AAAGAAAAAGCAAAAGCAAAAG-
1 AAAGAAAAAGC-AAAG-AAAAGA
*
50762588 -AAGAAAAAGAAAAAGAAATA-A
1 AAAGAAAAAG-CAAAGAAA-AGA
50762609 AAAGAAAA
1 AAAGAAAA
50762617 GAGAGGCAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
20 7 0.16
21 20 0.47
22 11 0.26
23 5 0.12
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.01
Consensus pattern (21 bp):
AAAGAAAAAGCAAAGAAAAGA
Found at i:50762580 original size:6 final size:5
Alignment explanation
Indices: 50762556--50762618 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
50762546 AAGAGAAAAC
*
50762556 AAAGA AAAGA AAAGAA AAAGCA AAAGCA AAAGA AGA-A AAAGAA AAAGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAG-A AAAGA AAAGA AAAG-A AAAGA
50762604 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
50762619 GAGGCAAGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.08
5 24 0.48
6 22 0.44
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:50762601 original size:15 final size:16
Alignment explanation
Indices: 50762545--50762616 Score: 67
Period size: 16 Copynumber: 4.5 Consensus size: 16
50762535 ACATTCTTGT
*
50762545 AAAGAGAAAACAAAG-A
1 AAAGA-AAAAGAAAGAA
* *
50762561 AAAGAAAAGAAAAAGCA
1 AAAGAAAA-AGAAAGAA
*
50762578 AAAGCAAAAG-AAGAA
1 AAAGAAAAAGAAAGAA
*
50762593 AAAGAAAAAGAAATAA
1 AAAGAAAAAGAAAGAA
50762609 AAAGAAAA
1 AAAGAAAA
50762617 GAGAGGCAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
15 16 0.34
16 23 0.49
17 8 0.17
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.01
Consensus pattern (16 bp):
AAAGAAAAAGAAAGAA
Found at i:50762618 original size:21 final size:21
Alignment explanation
Indices: 50762556--50762616 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
50762546 AAGAGAAAAC
*
50762556 AAAGAAAAGAAAAGAAAAAGCA
1 AAAGAAAA-AAAAGAAAAAGAA
* *
50762578 AAAGCAAAAGAAGAAAAAGAA
1 AAAGAAAAAAAAGAAAAAGAA
50762599 AAAGAAATAAAAAGAAAA
1 AAAGAAA-AAAAAGAAAA
50762617 GAGAGGCAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAAAAGAAAAAGAA
Found at i:50762697 original size:11 final size:12
Alignment explanation
Indices: 50762666--50762696 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
50762656 TTGAGAGAAC
50762666 TTGAAAAAGCCT
1 TTGAAAAAGCCT
50762678 TTGAAAAAGCCT
1 TTGAAAAAGCCT
50762690 TTGAAAA
1 TTGAAAA
50762697 GAAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:50762743 original size:30 final size:31
Alignment explanation
Indices: 50762709--50762769 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
50762699 AAAAACAAAA
*
50762709 TGAGATTGAAAAAGAGA-ATG-AAAAGAAATT
1 TGAGAGTGAAAAAGA-ATATGAAAAAGAAATT
50762739 TGAGAGTGAAAAAGAATATGAAAAAGAAATT
1 TGAGAGTGAAAAAGAATATGAAAAAGAAATT
50762770 GAAACAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 1 0.04
30 17 0.61
31 10 0.36
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.20
Consensus pattern (31 bp):
TGAGAGTGAAAAAGAATATGAAAAAGAAATT
Found at i:50764918 original size:30 final size:31
Alignment explanation
Indices: 50764882--50764978 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
50764872 AGCTCACTCC
*
50764882 TAGCTC-ACTTTCAACTCACGAGTTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGTTAAACCT
* * * *
50764912 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGTTAAACCT
* * *
50764942 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGTTAAACCT
50764972 TAGCTCA
1 TAGCTCA
50764979 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
30 48 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGTTAAACCT
Found at i:50767677 original size:82 final size:82
Alignment explanation
Indices: 50767540--50767707 Score: 336
Period size: 82 Copynumber: 2.0 Consensus size: 82
50767530 TGTTTTGAGT
50767540 GATTTGGTGAATAAATGGGTTAATTTTGAATAAATATAGATCAAGAAAAGAGGAATTTAGACTTA
1 GATTTGGTGAATAAATGGGTTAATTTTGAATAAATATAGATCAAGAAAAGAGGAATTTAGACTTA
50767605 GATAGAGGGAAGTCGAA
66 GATAGAGGGAAGTCGAA
50767622 GATTTGGTGAATAAATGGGTTAATTTTGAATAAATATAGATCAAGAAAAGAGGAATTTAGACTTA
1 GATTTGGTGAATAAATGGGTTAATTTTGAATAAATATAGATCAAGAAAAGAGGAATTTAGACTTA
50767687 GATAGAGGGAAGTCGAA
66 GATAGAGGGAAGTCGAA
50767704 GATT
1 GATT
50767708 ATGGAGTAAA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 86 1.00
ACGTcount: A:0.42, C:0.04, G:0.26, T:0.29
Consensus pattern (82 bp):
GATTTGGTGAATAAATGGGTTAATTTTGAATAAATATAGATCAAGAAAAGAGGAATTTAGACTTA
GATAGAGGGAAGTCGAA
Found at i:50774345 original size:93 final size:94
Alignment explanation
Indices: 50774235--50774500 Score: 369
Period size: 93 Copynumber: 2.9 Consensus size: 94
50774225 AGCCCATAAG
* *
50774235 CGAACTCGGACTCAACTCAACGAGCTCGAG-CGTTCGCATCCATAAGTGAACTTAGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCATCCATAAGTGAACTCAGACTCAACTC
**
50774299 AACAAGCTCGGATGCCTAGTTACATCTCA
66 AATGAGCTCGGATGCCTAGTTACATCTCA
* * * * *
50774328 TGAACTC-GAGCTCAACTCAACTAGTTCG-GACGTTCGCATCCATAACTGAACTCGGAATCAACT
1 CGAACTCGGA-CTCAACTCAACGAGTTCGAGACGTTCGCATCCATAAGTGAACTCAGACTCAACT
* **
50774391 CAATGAGCTTGGACACCTAGTTACATCTCA
65 CAATGAGCTCGGATGCCTAGTTACATCTCA
*
50774421 CAAACTCGGACTCAACTCAACGAGTTC-AGACGTTCGCATCCATAAGTGAACTCAGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCATCCATAAGTGAACTCAGACTCAACTC
*
50774485 AATGAGTTCGGATGCC
66 AATGAGCTCGGATGCC
50774501 CAAATATCCG
Statistics
Matches: 147, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
92 3 0.02
93 142 0.97
94 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (94 bp):
CGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCATCCATAAGTGAACTCAGACTCAACTC
AATGAGCTCGGATGCCTAGTTACATCTCA
Found at i:50774392 original size:46 final size:46
Alignment explanation
Indices: 50774228--50774496 Score: 153
Period size: 46 Copynumber: 5.8 Consensus size: 46
50774218 TGTGACCAGC
* *
50774228 CCATAAGC-GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAA-CTGAACTCGGACTCAACTCAATGAGTTCGGA-CGTTCGCAT
* ** ** * * * * *
50774274 CCATAAGTGAACTTAGACTCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAACTGAACTCGGACTCAACTCAATGAGTTCGGACG-TTCGCAT
* **
50774320 ACATCTCATGAACTC-GAGCTCAACTCAACT-AGTTCGGACGTTCGCAT
1 CCATAAC-TGAACTCGGA-CTCAACTCAA-TGAGTTCGGACGTTCGCAT
* *
50774367 CCATAACTGAACTCGGAATCAACTCAATGAGCTT-GGACACCTAGTT-ACAT
1 CCATAACTGAACTCGGACTCAACTCAATGAG-TTCGG--A-C--GTTCGCAT
* * * *
50774417 -C-TCAC-AAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCATAACTGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCAT
* *
50774460 CCATAAGTGAACTCAGACTCAACTCAATGAGTTCGGA
1 CCATAACTGAACTCGGACTCAACTCAATGAGTTCGGA
50774497 TGCCCAAATA
Statistics
Matches: 167, Mismatches: 36, Indels: 40
0.69 0.15 0.16
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 2 0.01
45 4 0.02
46 85 0.51
47 58 0.35
48 4 0.02
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAACTGAACTCGGACTCAACTCAATGAGTTCGGACGTTCGCAT
Found at i:50777270 original size:30 final size:29
Alignment explanation
Indices: 50777228--50777284 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
50777218 AAAGATAACA
50777228 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAATCCAAGATTG
*
50777257 AGAAACCCAGAATAAAGAAATCCAAGAT
1 AGAAAACC-GAATAAAGAAATCCAAGAT
50777285 ACGATACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.12
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAATCCAAGATTG
Found at i:50780355 original size:93 final size:93
Alignment explanation
Indices: 50780242--50780507 Score: 435
Period size: 93 Copynumber: 2.9 Consensus size: 93
50780232 CGCCCATAAG
* *
50780242 CGAACTCGGACTCAACTCAACGAGCTCAGG-CTTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
*
50780306 AACGAGCTTGGATGCCTAGTTACATCTGA
65 AACGAGCTTGGATGCCTAGTTACATCTCA
* *
50780335 CGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
50780400 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTTGGATGCCTAGTTACATCTCA
*
50780428 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
50780493 ACGAGTTTGAATGCC
66 ACGAGCTTGGATGCC
50780508 CAAATATCGG
Statistics
Matches: 160, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
92 2 0.01
93 158 0.99
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTTGGATGCCTAGTTACATCTCA
Found at i:50780358 original size:47 final size:47
Alignment explanation
Indices: 50780288--50780451 Score: 199
Period size: 47 Copynumber: 3.5 Consensus size: 47
50780278 CATCCATAAG
50780288 TGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTGA
1 TGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTGA
* * * * * * **
50780335 CGAACTTGGACTCAACTCAACGAG-TTCGGACG-TTCGTATCCATAAG-
1 TGAACTCGGACTCAACTCAACGAGCTT-GGATGCCTAGT-TACATCTGA
* *
50780381 TGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTGA
50780428 TGAACTCGGACTCAACTCAACGAG
1 TGAACTCGGACTCAACTCAACGAG
50780452 TTCGGACGTT
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
46 35 0.37
47 59 0.63
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (47 bp):
TGAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTGA
Found at i:50780498 original size:46 final size:46
Alignment explanation
Indices: 50780235--50780499 Score: 256
Period size: 46 Copynumber: 5.7 Consensus size: 46
50780225 TGTAACCCGC
* * *
50780235 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CTTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCAT
* * * *
50780281 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACG-TTCGCAT
* ** * * *
50780327 ACATCTGACGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGTAT
1 CCATAAG-TGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
50780374 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
*
50780424 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
50780467 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
50780500 TGAATGCCCA
Statistics
Matches: 176, Mismatches: 28, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 2 0.01
45 4 0.02
46 92 0.52
47 63 0.36
48 2 0.01
49 2 0.01
50 2 0.01
51 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:50785521 original size:46 final size:46
Alignment explanation
Indices: 50785454--50785582 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
50785444 TGTAACCCGC
* * * *
50785454 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGGTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTCGCAT
* *
50785500 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTCGCAT
50785546 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50785583 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTCGCAT
Found at i:50785601 original size:46 final size:45
Alignment explanation
Indices: 50785462--50785601 Score: 131
Period size: 46 Copynumber: 3.0 Consensus size: 45
50785452 GCCCATAAGC
* ** * *
50785462 GAACTCGGACTCAACTCAACGAGCTCGGGCGGTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
* *** *
50785508 GAACTCAGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
50785554 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
50785600 GA
1 GA
50785602 CATGTCACTT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
46 76 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:50788728 original size:40 final size:40
Alignment explanation
Indices: 50788631--50788792 Score: 215
Period size: 40 Copynumber: 4.0 Consensus size: 40
50788621 TGGATGATAA
*
50788631 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
*
50788672 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50788712 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
50788752 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
50788791 CC
1 CC
50788793 AGTTAAATCC
Statistics
Matches: 111, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.02
39 16 0.14
40 66 0.59
41 23 0.21
42 4 0.04
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50790855 original size:28 final size:28
Alignment explanation
Indices: 50790823--50790888 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
50790813 TTTTCCTTCA
*
50790823 CACACTTAGTGCTCGA-TAATCAAACTCG
1 CACACTTAGTGCTC-ATTAACCAAACTCG
*
50790851 TACACTTAGTGCTCATTAACCAAACTCG
1 CACACTTAGTGCTCATTAACCAAACTCG
*
50790879 CACGCTTAGT
1 CACACTTAGT
50790889 AAAATTTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CACACTTAGTGCTCATTAACCAAACTCG
Found at i:50798698 original size:28 final size:28
Alignment explanation
Indices: 50798667--50798733 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
50798657 TTTTCCTTCA
*
50798667 CACACTTAGTGCTCGA-TAATCAAACTCG
1 CACACTTAGTGCTC-ATTAACCAAACTCG
* *
50798695 CACACTTAATGGTCATTAACCAAACTCG
1 CACACTTAGTGCTCATTAACCAAACTCG
*
50798723 CACGCTTAGTG
1 CACACTTAGTG
50798734 AAATTTTCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (28 bp):
CACACTTAGTGCTCATTAACCAAACTCG
Found at i:50802788 original size:35 final size:35
Alignment explanation
Indices: 50802749--50802862 Score: 140
Period size: 35 Copynumber: 3.3 Consensus size: 35
50802739 CTAGATAAAT
*
50802749 TCACATATAACCAAATATACAAGTTCAATATAAGC
1 TCACATGTAACCAAATATACAAGTTCAATATAAGC
* * *
50802784 TCACATGTAATCAAGTACT-CAAGTTCAATATAACC
1 TCACATGTAACCAAATA-TACAAGTTCAATATAAGC
* * * *
50802819 TCACCTGTAGCCGAATATACAAGTTAAATATAAGC
1 TCACATGTAACCAAATATACAAGTTCAATATAAGC
50802854 TCACATGTA
1 TCACATGTA
50802863 CTTACCTATG
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
34 1 0.02
35 63 0.97
36 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (35 bp):
TCACATGTAACCAAATATACAAGTTCAATATAAGC
Found at i:50813871 original size:40 final size:40
Alignment explanation
Indices: 50813777--50813921 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
50813767 TACTCGAATG
*
50813777 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
50813818 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
50813858 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
50813898 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
50813922 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:50816693 original size:29 final size:30
Alignment explanation
Indices: 50816651--50816709 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
50816641 TTTGAACATG
*
50816651 AATATAAGGTGATTTGGGCCTAATGGGCCA
1 AATATAAGGTGATTTAGGCCTAATGGGCCA
50816681 AATA-AAGGTGATTTAGGCCTAATGGGCCA
1 AATATAAGGTGATTTAGGCCTAATGGGCCA
50816710 TATGAATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (30 bp):
AATATAAGGTGATTTAGGCCTAATGGGCCA
Found at i:50816736 original size:30 final size:29
Alignment explanation
Indices: 50816696--50816796 Score: 109
Period size: 30 Copynumber: 3.5 Consensus size: 29
50816686 AGGTGATTTA
50816696 GGCCTAATGGGCCATATGAATATGAAATTG
1 GGCC-AATGGGCCATATGAATATGAAATTG
* * *
50816726 GGCCTGATGGGCCATATGAATGTG-AATCG
1 GGCC-AATGGGCCATATGAATATGAAATTG
* * *
50816755 AGCCGATGGGCCATAT-AA-ATGAGATTG
1 GGCCAATGGGCCATATGAATATGAAATTG
50816782 GGCCAATGGGCCATA
1 GGCCAATGGGCCATA
50816797 CACATGTATG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.03
27 18 0.30
28 12 0.20
29 7 0.11
30 22 0.36
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCCAATGGGCCATATGAATATGAAATTG
Found at i:50819336 original size:30 final size:30
Alignment explanation
Indices: 50819251--50819347 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
50819241 TAAACTAAAA
* *
50819251 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
50819281 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
50819311 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
50819340 ATGAGCTA
1 -TGAGCTA
50819348 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:50820414 original size:35 final size:34
Alignment explanation
Indices: 50820246--50820476 Score: 119
Period size: 35 Copynumber: 6.6 Consensus size: 34
50820236 ATGCATGGCT
* * * **
50820246 GAATATACAAGGTTCACTATATCCTCACATGTGGCC
1 GAATATACAA-GTTCAATATA-ACTCACATATAACC
* * *
50820282 GAATATAAAAGTTAAATAAAACATCACATATAACC
1 GAATATACAAGTTCAATATAAC-TCACATATAACC
* * * * **
50820317 TAA-AGTTCAATTTCAATAGAACATCACATATGGCC
1 GAATA-TACAAGTTCAATATAAC-TCACATATAACC
* *
50820352 GAATATGTAC-A-TGCAAGATAACTTCACATATAACC
1 GAATA--TACAAGTTCAATATAAC-TCACATATAACC
* *
50820387 GAATATACAAGTTCAATATAAGCTCACATTTAATC
1 GAATATACAAGTTCAATATAA-CTCACATATAACC
* * * ** *
50820422 AAACTCT-CAAGTTCAATATAACCTCACCTGCAGCC
1 GAA-TATACAAGTTCAATATAA-CTCACATATAACC
50820457 GAATATACAAGTTCAATATA
1 GAATATACAAGTTCAATATA
50820477 TAAGCTCACA
Statistics
Matches: 148, Mismatches: 38, Indels: 19
0.72 0.19 0.09
Matches are distributed among these distances:
33 3 0.02
34 5 0.03
35 123 0.83
36 14 0.09
37 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (34 bp):
GAATATACAAGTTCAATATAACTCACATATAACC
Found at i:50821798 original size:30 final size:31
Alignment explanation
Indices: 50821764--50821860 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
50821754 AGCTCACTCC
*
50821764 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
50821794 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
50821824 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
50821854 TAGCTCA
1 TAGCTCA
50821861 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:50836015 original size:49 final size:49
Alignment explanation
Indices: 50835943--50836231 Score: 293
Period size: 49 Copynumber: 6.0 Consensus size: 49
50835933 GTAGACAAGG
* * * * **
50835943 TTATCTGGTACGCATAGTAGCCTGGACTTAGTACTACACATGCGACCAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATATGACCAA
* *
50835992 TTATCCGGTACACGTAGTAGCCTGTACTTAGTACTACACACATGACCTAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATATGACC-AA
** * * * ** *
50836042 CCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATATGA-CCAA
50836092 GTTAT-CGG-----GTAGTAGCCTGCACTTAGTACTACACATATGACCAA
1 -TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATATGACCAA
* * *
50836136 TTATCCAGCACACGTAGTAGCCTGCACTTAGTAATACACATATGACCAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATATGACCAA
** * * *
50836185 TTATCTAGCACACGTAGTAGCCTGCACTTAGTACTACATATGTGACC
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATATGACC
50836232 TCACAATAGA
Statistics
Matches: 202, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
43 4 0.02
44 5 0.02
45 29 0.14
49 118 0.58
50 43 0.21
51 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATATGACCAA
Found at i:50840762 original size:19 final size:20
Alignment explanation
Indices: 50840738--50840775 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50840728 GGTACCACCA
50840738 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCACCATCTTT
50840757 AAACATCATTCACCATCTT
1 AAACATCATTCACCATCTT
50840776 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.34
Consensus pattern (20 bp):
AAACATCATTCACCATCTTT
Found at i:50841162 original size:46 final size:46
Alignment explanation
Indices: 50841000--50841172 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
50840990 AACCCGCCCC
* * * *
50841000 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGAACTCAACTCAACAAGTTCGGACATTTGCATCCA
* * * * * *
50841046 TAAATGAACTCGGACTCAACTCAGCGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGAACTCAACTCAACAAGTTCGGA---C-ATTTGCATCCA
* * *
50841094 TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGAACTCAACTCAACAAGTTCGGACATTTGCATCCA
*
50841139 TAAGTGAACTCGAACACAACTCAACAAGTTCGGA
1 TAAGTGAACTCGAACTCAACTCAACAAGTTCGGA
50841173 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.55
47 27 0.26
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGAACTCAACTCAACAAGTTCGGACATTTGCATCCA
Found at i:50841169 original size:93 final size:93
Alignment explanation
Indices: 50841005--50841175 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
50840995 GCCCCTAAGT
* * * * *
50841005 GAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAG
1 GAACTCGAACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGAACACAACTCAA
*
50841070 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
* * * *
50841098 GAACTCGAACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGAACACAACTCAA
1 GAACTCGAACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGAACACAACTCAA
50841163 CAAGTTCGGATGC
66 CAAGTTCGGATGC
50841176 TCAACCATCC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGAACACAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50848309 original size:19 final size:20
Alignment explanation
Indices: 50848285--50848322 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50848275 GGTACCACCA
50848285 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
50848304 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
50848323 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Done.