Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 59 of 163
Found at i:19436451 original size:6 final size:6
Alignment explanation
Indices: 19436435--19436467 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
19436425 TGTGGTTTGA
19436435 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
19436468 TTGAAGGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:19437868 original size:18 final size:18
Alignment explanation
Indices: 19437845--19437880 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19437835 TATTTTTCAT
*
19437845 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCCATGC
19437863 TTGCTTCAATTTCCATGC
1 TTGCTTCAATTTCCATGC
19437881 CTTACAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.25, G:0.11, T:0.47
Consensus pattern (18 bp):
TTGCTTCAATTTCCATGC
Found at i:19438653 original size:43 final size:43
Alignment explanation
Indices: 19438564--19438759 Score: 188
Period size: 43 Copynumber: 4.6 Consensus size: 43
19438554 ATTTTTGTTT
* * *
19438564 TAAAAGTCATGT-TTTTAGCGGCGTTTGT-GAAAAAGCGTCGC
1 TAAAGGTCATGTCTTTTAGTGGCGTTTGTGGAAAAAGCGCCGC
* *
19438605 TAAAGGTCAT-TCTTTATAGTGGCGTTTGTGGTAGAAGCGCCGC
1 TAAAGGTCATGTCTTT-TAGTGGCGTTTGTGGAAAAAGCGCCGC
* *
19438648 AAAAGGTCATGATC-TTTAGTGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATG-TCTTTTAGTGGCGTTTGTGGAAAAAGCGCCGC
* * * *
19438691 TAAAGGTCATGACTTTTAGCGGCGTTT-T-TATAAAAGTGCCGC
1 TAAAGGTCATGTCTTTTAGTGGCGTTTGTGGA-AAAAGCGCCGC
* * * *
19438733 TAAAAGTCATGGCCTTTAGCGGCGTTT
1 TAAAGGTCATGTCTTTTAGTGGCGTTT
19438760 ATTTCTAAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
40 1 0.01
41 12 0.09
42 48 0.37
43 66 0.50
44 2 0.02
45 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATGTCTTTTAGTGGCGTTTGTGGAAAAAGCGCCGC
Found at i:19438750 original size:85 final size:85
Alignment explanation
Indices: 19438564--19438759 Score: 229
Period size: 85 Copynumber: 2.3 Consensus size: 85
19438554 ATTTTTGTTT
* * * *
19438564 TAAAAGTCAT-GTTTTTAGCGGCGTTTGTGAAAAAGCGTCGCTAAAGGTCATTCTTTATAGTGGC
1 TAAAAGTCATGGTCTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATACTTTATAGCGGC
* *
19438628 GTTTGTGGTAGAAGCGCCGC
66 GTTTGTGATAAAAGCGCCGC
* * *
19438648 -AAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACTTT-TAGC
1 TAAAA-GTCATGGTCTTTAGCGGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCAT-ACTTTATAGC
* *
19438711 GGCGTTT-TTATAAAAGTGCCGC
63 GGCGTTTGTGATAAAAGCGCCGC
*
19438733 TAAAAGTCATGGCCTTTAGCGGCGTTT
1 TAAAAGTCATGGTCTTTAGCGGCGTTT
19438760 ATTTCTAAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
83 4 0.04
84 5 0.05
85 45 0.48
86 35 0.38
87 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (85 bp):
TAAAAGTCATGGTCTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATACTTTATAGCGGC
GTTTGTGATAAAAGCGCCGC
Found at i:19441046 original size:90 final size:90
Alignment explanation
Indices: 19440893--19441073 Score: 317
Period size: 90 Copynumber: 2.0 Consensus size: 90
19440883 AAAACCACAA
* * * *
19440893 ACATATTGGTTAAAATTATTAACATAATTGCATGCTTTACTGTGCATTTGAGCTTGAATTCCATC
1 ACATATTGGTCAAAATTATTAACATAATTGCATGCATTACTGTACATTTGAGCTTGAATTCCATA
19440958 TATTAACTCCCATTATACCTATTAT
66 TATTAACTCCCATTATACCTATTAT
19440983 ACATATTGGTCAAAATTATTAACATAATTGCATGCATTACTGTACATTTGAGCTTGAATTCCATA
1 ACATATTGGTCAAAATTATTAACATAATTGCATGCATTACTGTACATTTGAGCTTGAATTCCATA
*
19441048 TATTAACTCCCATTATACCTGTTAT
66 TATTAACTCCCATTATACCTATTAT
19441073 A
1 A
19441074 GCTTAAATTT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.40
Consensus pattern (90 bp):
ACATATTGGTCAAAATTATTAACATAATTGCATGCATTACTGTACATTTGAGCTTGAATTCCATA
TATTAACTCCCATTATACCTATTAT
Found at i:19441318 original size:16 final size:16
Alignment explanation
Indices: 19441297--19441367 Score: 90
Period size: 16 Copynumber: 4.4 Consensus size: 16
19441287 GTTTGGTTCA
19441297 CTGTAATGAAATAGAG
1 CTGTAATGAAATAGAG
*
19441313 CTGTAATTAAATAGAG
1 CTGTAATGAAATAGAG
*
19441329 TTGTAATTG-AATAGAG
1 CTGTAA-TGAAATAGAG
*
19441345 CTGTAATGTAATAGAG
1 CTGTAATGAAATAGAG
*
19441361 TTGTAAT
1 CTGTAAT
19441368 CAGTAATCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
15 2 0.04
16 45 0.94
17 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (16 bp):
CTGTAATGAAATAGAG
Found at i:19441342 original size:32 final size:33
Alignment explanation
Indices: 19441298--19441367 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
19441288 TTTGGTTCAC
19441298 TGTAA-TGAAATAGAGCTGTAAT-TAAATAGAGT
1 TGTAATTGAAATAGAGCTGTAATGT-AATAGAGT
19441330 TGTAATTG-AATAGAGCTGTAATGTAATAGAGT
1 TGTAATTGAAATAGAGCTGTAATGTAATAGAGT
19441362 TGTAAT
1 TGTAAT
19441368 CAGTAATCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
32 33 0.92
33 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (33 bp):
TGTAATTGAAATAGAGCTGTAATGTAATAGAGT
Found at i:19447051 original size:3 final size:3
Alignment explanation
Indices: 19447043--19447091 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
19447033 TAATATTTCC
19447043 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19447091 A
1 A
19447092 GCTTTTTATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:19451239 original size:14 final size:14
Alignment explanation
Indices: 19451222--19451249 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19451212 AAAGAATTTT
19451222 GTTTTCTAAATGAA
1 GTTTTCTAAATGAA
19451236 GTTTTCTAAATGAA
1 GTTTTCTAAATGAA
19451250 ATTGAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
GTTTTCTAAATGAA
Found at i:19466047 original size:24 final size:25
Alignment explanation
Indices: 19466020--19466073 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
19466010 ACATGTTTAT
*
19466020 TTTTTAAAAT-TTTTAAATAATATA
1 TTTTTAAAATATTTTAAAAAATATA
*
19466044 TTTTT-ATATATTTTAAAAAATATA
1 TTTTTAAAATATTTTAAAAAATATA
*
19466068 TATTTA
1 TTTTTA
19466074 CTAATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTTTAAAATATTTTAAAAAATATA
Found at i:19470581 original size:18 final size:18
Alignment explanation
Indices: 19470539--19470581 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
19470529 ATTTATCTCC
19470539 TGTCATTTCCCCTCTTTTA
1 TGTCA-TTCCCCTCTTTTA
19470558 TG-CATTCCCCTCTTTGT-
1 TGTCATTCCCCTCTTT-TA
19470575 TGTCATT
1 TGTCATT
19470582 GTTCTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 13 0.59
18 7 0.32
19 2 0.09
ACGTcount: A:0.09, C:0.30, G:0.09, T:0.51
Consensus pattern (18 bp):
TGTCATTCCCCTCTTTTA
Found at i:19471562 original size:18 final size:18
Alignment explanation
Indices: 19471535--19471586 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
19471525 AAAGGAAATA
*
19471535 AAAAAGAAAGAAATAAAG
1 AAAAAGAAAGAAAAAAAG
* *
19471553 AAAAATAAAGAAAAAAAT
1 AAAAAGAAAGAAAAAAAG
*
19471571 AAAAA-AGAGAAAAAAA
1 AAAAAGAAAGAAAAAAA
19471587 AATCTAGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 10 0.33
18 20 0.67
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.06
Consensus pattern (18 bp):
AAAAAGAAAGAAAAAAAG
Found at i:19471587 original size:18 final size:18
Alignment explanation
Indices: 19471530--19471587 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
19471520 AAAGAAAAGG
19471530 AAATAAAAAAGA-AAGAAA
1 AAATAAAAAAGAGAA-AAA
* *
19471548 TAAAGAAAAATAAAG-AAAA
1 -AAATAAAAA-AGAGAAAAA
19471567 AAATAAAAAAGAGAAAAA
1 AAATAAAAAAGAGAAAAA
19471585 AAA
1 AAA
19471588 ATCTAGTGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
17 3 0.09
18 15 0.47
19 11 0.34
20 3 0.09
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (18 bp):
AAATAAAAAAGAGAAAAA
Found at i:19472552 original size:26 final size:25
Alignment explanation
Indices: 19472515--19472568 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
19472505 AACACACCAA
* * *
19472515 TATCGCAGCAAAGCTGCTAGTAACAG
1 TATCGCAACAAAGCTACCAGT-ACAG
19472541 TATCGCAACAAAGCTACCAGTACAG
1 TATCGCAACAAAGCTACCAGTACAG
19472566 TAT
1 TAT
19472569 ACTTCCTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (25 bp):
TATCGCAACAAAGCTACCAGTACAG
Found at i:19478302 original size:6 final size:6
Alignment explanation
Indices: 19478239--19478308 Score: 63
Period size: 6 Copynumber: 11.5 Consensus size: 6
19478229 GTTTTATTTG
* * *
19478239 TTTTAT TTTTAAT TTTCT-T TTTTAT GTTTAT GTTTAT TTCTAT TTTTAGT
1 TTTTAT TTTT-AT TTT-TAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T
*
19478289 TGTT-T TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTT
19478309 ATTGTACTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.09
6 38 0.72
7 9 0.17
8 1 0.02
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:19488511 original size:21 final size:22
Alignment explanation
Indices: 19488474--19488537 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
19488464 AAATATAAAA
*
19488474 AATATATATAATAAAATAG-ATGT
1 AATATATA-AAT-AAATAGAATAT
*
19488497 AATATATAAATAAATTGAATAT
1 AATATATAAATAAATAGAATAT
*
19488519 AATAT-TAAATATATA-AATA
1 AATATATAAATAAATAGAATA
19488538 AATTAAACCA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.11
21 13 0.36
22 11 0.31
23 8 0.22
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (22 bp):
AATATATAAATAAATAGAATAT
Found at i:19488542 original size:17 final size:17
Alignment explanation
Indices: 19488497--19488544 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 17
19488487 AAATAGATGT
19488497 AATATATAAATAAATT-
1 AATATATAAATAAATTA
*
19488513 GA-ATAT-AAT--ATTA
1 AATATATAAATAAATTA
19488526 AATATATAAATAAATTA
1 AATATATAAATAAATTA
19488543 AA
1 AA
19488545 CCAAAAGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 9
0.69 0.06 0.25
Matches are distributed among these distances:
12 3 0.12
13 1 0.04
14 7 0.28
15 7 0.28
16 1 0.04
17 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AATATATAAATAAATTA
Found at i:19490421 original size:25 final size:25
Alignment explanation
Indices: 19490393--19490462 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
19490383 GTTACAGATT
*
19490393 TCAGCTCTTATGAGCTTACCGATAC
1 TCAGCTCGTATGAGCTTACCGATAC
* *
19490418 TCAGCTCGTATGAGCTTACCGTTAT
1 TCAGCTCGTATGAGCTTACCGATAC
* * *
19490443 TCAGCTTGGAGGAGCTTACC
1 TCAGCTCGTATGAGCTTACC
19490463 ATTATTCAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (25 bp):
TCAGCTCGTATGAGCTTACCGATAC
Found at i:19490467 original size:25 final size:25
Alignment explanation
Indices: 19490429--19490498 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
19490419 CAGCTCGTAT
*
19490429 GAGCTTACCGTTATTCAGCTTGGAG
1 GAGCTTACCATTATTCAGCTTGGAG
* *
19490454 GAGCTTACCATTATTCAACTCGGAG
1 GAGCTTACCATTATTCAGCTTGGAG
*
19490479 GAGCTTACCATT-TACAGCTT
1 GAGCTTACCATTATTCAGCTT
19490499 TTATGAGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 5 0.13
25 34 0.87
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (25 bp):
GAGCTTACCATTATTCAGCTTGGAG
Found at i:19492999 original size:5 final size:5
Alignment explanation
Indices: 19492989--19493013 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19492979 AATCAAAACA
19492989 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
19493014 TCTATGCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:19493085 original size:24 final size:23
Alignment explanation
Indices: 19493043--19493161 Score: 57
Period size: 24 Copynumber: 4.9 Consensus size: 23
19493033 CAAAACTTGA
**
19493043 TTTCTTTTCTTTTGAATTTTCTTCT
1 TTTC-TTTCTTTTTCATTTTCTT-T
19493068 TTTCTTTCTTTTTCATTTT-TTT
1 TTTCTTTCTTTTTCATTTTCTTT
* *
19493090 CAGTTTTTTTATTTTT-ATTTT-TATT
1 ---TTTCTTTCTTTTTCATTTTCT-TT
*
19493115 TTTTTTTCATTTTTTCATTTTCATTT
1 TTTCTTTC--TTTTTCATTTTC-TTT
* *
19493141 CTTCTTT-TTCTCTCATTTTCT
1 TTTCTTTCTT-TTTCATTTTCT
19493162 CCATAGATCG
Statistics
Matches: 76, Mismatches: 8, Indels: 22
0.72 0.08 0.21
Matches are distributed among these distances:
22 8 0.11
23 5 0.07
24 33 0.43
25 22 0.29
26 7 0.09
27 1 0.01
ACGTcount: A:0.09, C:0.14, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTCTTTCTTTTTCATTTTCTTT
Found at i:19493087 original size:8 final size:8
Alignment explanation
Indices: 19493076--19493135 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 8
19493066 CTTTTCTTTC
19493076 TTTTTCATT
1 TTTTTCA-T
19493085 TTTTTCAGT
1 TTTTTCA-T
*
19493094 TTTTTTA-
1 TTTTTCAT
19493101 TTTTT-AT
1 TTTTTCAT
**
19493108 TTTTATTTT
1 TTTT-TCAT
19493117 TTTTTCAT
1 TTTTTCAT
19493125 TTTTTCAT
1 TTTTTCAT
19493133 TTT
1 TTT
19493136 CATTTCTTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
6 1 0.02
7 9 0.21
8 14 0.33
9 19 0.44
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTTCAT
Found at i:19493099 original size:11 final size:11
Alignment explanation
Indices: 19493067--19493129 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 11
19493057 AATTTTCTTC
*
19493067 TTTTC-TTTCT
1 TTTTCATTTTT
19493077 TTTTCA--TTT
1 TTTTCATTTTT
*
19493086 TTTTCA-GTTT
1 TTTTCATTTTT
19493096 TTTT-ATTTTT
1 TTTTCATTTTT
*
19493106 ATTTTTATTTTT
1 -TTTTCATTTTT
19493118 TTTTCATTTTT
1 TTTTCATTTTT
19493129 T
1 T
19493130 CATTTTCATT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
9 9 0.20
10 15 0.33
11 15 0.33
12 6 0.13
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTCATTTTT
Found at i:19493104 original size:6 final size:6
Alignment explanation
Indices: 19493095--19493128 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
19493085 TTTTTCAGTT
*
19493095 TTTTTA TTTTTA TTTTTA TTTTT- TTTTCA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
19493129 TCATTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:19493110 original size:12 final size:11
Alignment explanation
Indices: 19493093--19493129 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
19493083 TTTTTTTCAG
19493093 TTTTTTTATTT
1 TTTTTTTATTT
19493104 TTATTTTTATTT
1 TT-TTTTTATTT
*
19493116 TTTTTTCATTT
1 TTTTTTTATTT
19493127 TTT
1 TTT
19493130 CATTTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:19493118 original size:31 final size:32
Alignment explanation
Indices: 19493058--19493159 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 32
19493048 TTTCTTTTGA
*
19493058 ATTTTCTTC-TTTTC-TTTCTTTTTCATTTTTTTC
1 ATTTT-TTCATTTTCATTTCTTATT--TTTTTTTC
* *
19493091 AGTTTTTTTATTTTTATTT-TTATTTTTTTTTC
1 A-TTTTTTCATTTTCATTTCTTATTTTTTTTTC
* * *
19493123 ATTTTTTCATTTTCATTTCTTCTTTTTCTCTC
1 ATTTTTTCATTTTCATTTCTTATTTTTTTTTC
19493155 ATTTT
1 ATTTT
19493160 CTCCATAGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
31 15 0.26
32 24 0.42
33 3 0.05
34 12 0.21
35 3 0.05
ACGTcount: A:0.10, C:0.14, G:0.01, T:0.75
Consensus pattern (32 bp):
ATTTTTTCATTTTCATTTCTTATTTTTTTTTC
Found at i:19495586 original size:724 final size:723
Alignment explanation
Indices: 19494200--19495647 Score: 2556
Period size: 724 Copynumber: 2.0 Consensus size: 723
19494190 ACACTTCTCG
* *
19494200 TCCCTTGGGAAAGATTTTAGAGCTTTTGGAAAAGCTCTCGATGTTAATATGAAGGAATGAACCTC
1 TCCCTTGGGAAAGATTTTAGAGCTTTTGGAAAAGCTCTCGATGGTAATACGAAGGAATGAACCTC
*
19494265 TGACGCATTACAACCTTCATCTCAGCCCAAGTGTTGGTAGAACGCTTGCCATTCTGCCTCCGGCT
66 TGACACATTACAACCTTCATCTCAGCCCAAGTGTTGGTAGAACGCTTGCCATTCTGCCTCCGGCT
* *
19494330 CGCAGTGAGTTGGTCCCACCAAATCATGGCATAATCTAAAAATTCTATAGCAGCCAACTTGACCT
131 CGCAGTGAGTTGATCCCACCAAATCATGGCATAATCTAAAAATTCTATAGCAACCAACTTGACCT
19494395 TCTTGGCCTCGGAGTAATTGTGACATTCAAACATGAGTTCCATTTTCTTCTCCTACTCGAGATAG
196 TCTTGGCCTCGGAGTAATTGTGACATTCAAACATGAGTTCCATTTTCTTCTCCTACTCGAGATAG
* * *
19494460 GCTTCTGAATCTGAATGGCCCTAGAAAGGAGGGATGGTTAGCTTAATAATTTTGAGATTGTCATT
261 GCTTCTGAATCTGAACGGCCCTAGAAAGGAGGAATGGTTAGCTTAATAATTTTGAGATCGTCATT
*
19494525 GTACCTTTCTTGATCTCGTTGACCACAGTGATGTTGGTTTCTCCTCCGGTCACTTATATTCGAGC
326 GTACCTTTCTTGATCTCGTTGACCACAGTGATGTTGGTCTCTCCTCCGGTCACTTATATTCGAGC
* * *
19494590 CTTGGTCGCTCTCGGCCTCACTTGGTTCGGATAATTCATCGTCTTGGATTTATCGTCGACAATAA
391 CTTGGTCGCTCTCGGCCTCACTCGGTTCGGATAATTCATCATCTTGGATTTATCGTCGACAACAA
* **
19494655 TTTCTTGGTGGACTTGGAGGAGTCCTTTCTAGTCTGGCTCTTCCTTCCACATGGTCAAGTCTATC
456 TTTCTTGGTGGACTTGGAGGAATCCTTTCTAGTCCAGCTCTTCCTTCCACATGGTCAAGTCTATC
*
19494720 TTGAATCGACTCCAGTTTTCGGTCAAACAAGCTTTCAACCTCGCGTAATAAGGCTTGCATGTTCA
521 TTGAATCGACTCCAGTTTTCGGTCAAACAAGCTTTCAACCTCGCGCAATAAGGCTTGCATGTTCA
* * * *
19494785 AATCTGGCACATTCTGAATATGTTGTCCTTCCGCCATATTTCTTTCAGGGCTTCTAGACATAGGG
586 AATCTGGCACATTCTGAATAGGTTATCCTTCCGCCATATTTCTTTCAGGGCTTCTAGACATAAGA
19494850 ATGGTAATACCTCACTTACAAAAACTCACAATTCCACTCAGAAAGAAAATAATTATTTTCACTCA
651 ATGGTAATACCTCACTTACAAAAACTCACAATTCCACTCAGAAA-AAAATAATTATTTTCACTCA
19494915 CTCTCGTGT
715 CTCTCGTGT
19494924 TCCCTTGGGAAAGATTTTAGAGCTTTTGGAAAAGCTCTCGATGGTAATACGAAGGAATGAACCTC
1 TCCCTTGGGAAAGATTTTAGAGCTTTTGGAAAAGCTCTCGATGGTAATACGAAGGAATGAACCTC
** * *
19494989 TGACACATTACAACCTTCATCTTGGCGCAAGTGTTGGTAGAACAG-TTGCCATTCTGCCTCTGGC
66 TGACACATTACAACCTTCATCTCAGCCCAAGTGTTGGTAGAAC-GCTTGCCATTCTGCCTCCGGC
* *
19495053 TCGTAGTGAGTTGATCCCACCAAATCATGGCATAATCTAAAAATTCTATAGGAACCAACTTGACC
130 TCGCAGTGAGTTGATCCCACCAAATCATGGCATAATCTAAAAATTCTATAGCAACCAACTTGACC
19495118 TTCTTGGCCTCGGAGTAATTGTGACATTCAAACATGAGTTCCATTTTCTTCTCCTACTCGAGATA
195 TTCTTGGCCTCGGAGTAATTGTGACATTCAAACATGAGTTCCATTTTCTTCTCCTACTCGAGATA
* **
19495183 GGCTTCTGAATCTGAACGGCCCTGGAAAGGAGGAATGGTTAGCTTAATGCTTTTGAGATCGTCAT
260 GGCTTCTGAATCTGAACGGCCCTAGAAAGGAGGAATGGTTAGCTTAATAATTTTGAGATCGTCAT
19495248 TGTACCTTTCTTGATCTCGTTGACCACAGTGATGTTGGTCTCTCCTCCGGTCACTTATATTCGAG
325 TGTACCTTTCTTGATCTCGTTGACCACAGTGATGTTGGTCTCTCCTCCGGTCACTTATATTCGAG
* *
19495313 CCTTGGTCGCTCTCGGCCTCACTCGGTTCGGATAATTCATCATCTTGGATTTATCGTCGGCCACA
390 CCTTGGTCGCTCTCGGCCTCACTCGGTTCGGATAATTCATCATCTTGGATTTATCGTCGACAACA
*
19495378 ATTTCTTGGTGGACTTGGAGGAATCCTTTCTGGTCCAGCTCTTCCTTCCACATGGTCAAGTCTAT
455 ATTTCTTGGTGGACTTGGAGGAATCCTTTCTAGTCCAGCTCTTCCTTCCACATGGTCAAGTCTAT
19495443 CTTGAATCGACTCCAGTTTTCGGTCAAACAAGCTTTCAACCTCGCGCAATAAGGCTTGCATGTTC
520 CTTGAATCGACTCCAGTTTTCGGTCAAACAAGCTTTCAACCTCGCGCAATAAGGCTTGCATGTTC
* * *
19495508 AAATCTGGCACATTCTGAATAGGTTATCTTTCCGCCATATTTCTTTCGGGGCTTCTAGACTTAAG
585 AAATCTGGCACATTCTGAATAGGTTATCCTTCCGCCATATTTCTTTCAGGGCTTCTAGACATAAG
19495573 AATGGTAATACCTCACTTACAAAAACTCACAATTCCACTCAGAAAAAAATAATTATTTTCACTCA
650 AATGGTAATACCTCACTTACAAAAACTCACAATTCCACTCAGAAAAAAATAATTATTTTCACTCA
19495638 CTCTCGTGT
715 CTCTCGTGT
19495647 T
1 T
19495648 TGTACTCATT
Statistics
Matches: 688, Mismatches: 35, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
723 30 0.04
724 657 0.95
725 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (723 bp):
TCCCTTGGGAAAGATTTTAGAGCTTTTGGAAAAGCTCTCGATGGTAATACGAAGGAATGAACCTC
TGACACATTACAACCTTCATCTCAGCCCAAGTGTTGGTAGAACGCTTGCCATTCTGCCTCCGGCT
CGCAGTGAGTTGATCCCACCAAATCATGGCATAATCTAAAAATTCTATAGCAACCAACTTGACCT
TCTTGGCCTCGGAGTAATTGTGACATTCAAACATGAGTTCCATTTTCTTCTCCTACTCGAGATAG
GCTTCTGAATCTGAACGGCCCTAGAAAGGAGGAATGGTTAGCTTAATAATTTTGAGATCGTCATT
GTACCTTTCTTGATCTCGTTGACCACAGTGATGTTGGTCTCTCCTCCGGTCACTTATATTCGAGC
CTTGGTCGCTCTCGGCCTCACTCGGTTCGGATAATTCATCATCTTGGATTTATCGTCGACAACAA
TTTCTTGGTGGACTTGGAGGAATCCTTTCTAGTCCAGCTCTTCCTTCCACATGGTCAAGTCTATC
TTGAATCGACTCCAGTTTTCGGTCAAACAAGCTTTCAACCTCGCGCAATAAGGCTTGCATGTTCA
AATCTGGCACATTCTGAATAGGTTATCCTTCCGCCATATTTCTTTCAGGGCTTCTAGACATAAGA
ATGGTAATACCTCACTTACAAAAACTCACAATTCCACTCAGAAAAAAATAATTATTTTCACTCAC
TCTCGTGT
Found at i:19495994 original size:17 final size:18
Alignment explanation
Indices: 19495965--19495999 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
19495955 TACTCAAAAT
*
19495965 TTTTTTTACTTCATATAC
1 TTTTTTTACTTCAAATAC
19495983 TTTTTTTA-TTCAAATAC
1 TTTTTTTACTTCAAATAC
19496000 AATTGAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTTTACTTCAAATAC
Found at i:19498370 original size:32 final size:32
Alignment explanation
Indices: 19498289--19498458 Score: 209
Period size: 32 Copynumber: 5.4 Consensus size: 32
19498279 AAATGGCTAC
* *
19498289 AAGCCATAAGT-ACAGTAATATGATTGGCAC-
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
19498319 AAGCCATCAATAACGGTAATATGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
19498351 AAGCCATTAGTAACTGTAATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* **
19498383 AAGCCATCAGTAACGGTAATACAATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
19498415 AAGCCATCAGTAACAGTAATATGACCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
19498447 AAGCCATCAGTA
1 AAGCCATCAGTA
19498459 GCATCGCAGC
Statistics
Matches: 118, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
30 9 0.08
31 16 0.14
32 93 0.79
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:19498397 original size:64 final size:64
Alignment explanation
Indices: 19498289--19498458 Score: 236
Period size: 64 Copynumber: 2.7 Consensus size: 64
19498279 AAATGGCTAC
* * * **
19498289 AAGCCATAAGT-ACAGTAATATGATTGGCAC-AAGCCATCAATAACGGTAATATGATCGACACA
1 AAGCCATAAGTAACAGTAATATGATCGGTACAAAGCCATCAGTAACGGTAATACAATCGACACA
* * *
19498351 AAGCCATTAGTAACTGTAATATGATCGGTACAAAGCCATCAGTAACGGTAATACAATCGGCACA
1 AAGCCATAAGTAACAGTAATATGATCGGTACAAAGCCATCAGTAACGGTAATACAATCGACACA
* *
19498415 AAGCCATCAGTAACAGTAATATGACCGGTACAAAGCCATCAGTA
1 AAGCCATAAGTAACAGTAATATGATCGGTACAAAGCCATCAGTA
19498459 GCATCGCAGC
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
62 10 0.11
63 16 0.17
64 69 0.73
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (64 bp):
AAGCCATAAGTAACAGTAATATGATCGGTACAAAGCCATCAGTAACGGTAATACAATCGACACA
Found at i:19498661 original size:24 final size:24
Alignment explanation
Indices: 19498634--19498687 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
19498624 GCTCAGAATT
19498634 AGTCATACAAATCACAGACAAATC
1 AGTCATACAAATCACAGACAAATC
* *
19498658 AGTCATACCAATCGCAGACAAATC
1 AGTCATACAAATCACAGACAAATC
19498682 AGTCAT
1 AGTCAT
19498688 TTACATGTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.44, C:0.26, G:0.11, T:0.19
Consensus pattern (24 bp):
AGTCATACAAATCACAGACAAATC
Found at i:19498767 original size:27 final size:27
Alignment explanation
Indices: 19498733--19498825 Score: 152
Period size: 27 Copynumber: 3.5 Consensus size: 27
19498723 GGACAAAATA
*
19498733 GTCA-TTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
19498759 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
*
19498786 GTCATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
19498813 GTCATTTTACCCT
1 GTCATTTTACCCT
19498826 TTAAAGGTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
26 4 0.07
27 57 0.93
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:19498900 original size:54 final size:54
Alignment explanation
Indices: 19498731--19498958 Score: 183
Period size: 54 Copynumber: 4.2 Consensus size: 54
19498721 AGGGACAAAA
* * * * * * *
19498731 TAGTCA-TTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTA
1 TAGTCATTTTACCTTACAGGGGTATTTCAGTCATTTTACCCTATAGGGGCATTT
* * * * * ** *
19498784 CAGTCATTTTACCTTACAGGGGCATTACGGTCATTTTACCCTTTAAAGGTA-TT
1 TAGTCATTTTACCTTACAGGGGTATTTCAGTCATTTTACCCTATAGGGGCATTT
* * * * * * *
19498837 TCGACCATTTTACCATT-CGGGGGTATTTTAGTCATTTTATCCTTTGGGGGCATTT
1 TAG-TCATTTTACC-TTACAGGGGTATTTCAGTCATTTTACCCTATAGGGGCATTT
* *
19498892 TAGTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTT
1 TAGTCATTTTACCTTACAGGGGTATTTCAGTCATTTTACCCTATAGGGGCATTT
* *
19498946 TGGTCATTCTACC
1 TAGTCATTTTACC
19498959 CTATCAAGGT
Statistics
Matches: 137, Mismatches: 33, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
53 9 0.07
54 122 0.89
55 6 0.04
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (54 bp):
TAGTCATTTTACCTTACAGGGGTATTTCAGTCATTTTACCCTATAGGGGCATTT
Found at i:19498959 original size:27 final size:27
Alignment explanation
Indices: 19498759--19498962 Score: 151
Period size: 27 Copynumber: 7.6 Consensus size: 27
19498749 GGGCATTACG
* * **
19498759 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTATAGGGGTATTTTA
* * * ***
19498786 GTCATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTTTA
* ** *
19498813 GTCATTTTACCCTTTAAAGGTA-TTTC
1 GTCATTTTACCCTATAGGGGTATTTTA
* * *
19498839 GACCATTTTACCAT-TCGGGGGTATTTTA
1 G-TCATTTTACCCTAT-AGGGGTATTTTA
* * * *
19498867 GTCATTTTATCCTTTGGGGGCATTTTA
1 GTCATTTTACCCTATAGGGGTATTTTA
* *
19498894 GTCATTTTACCTTATAGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTTA
*
19498921 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTA
*
19498948 GTCATTCTACCCTAT
1 GTCATTTTACCCTAT
19498963 CAAGGTATTT
Statistics
Matches: 142, Mismatches: 31, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
26 3 0.02
27 134 0.94
28 5 0.04
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTTA
Found at i:19498969 original size:27 final size:27
Alignment explanation
Indices: 19498894--19498977 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
19498884 GGGCATTTTA
* * * *
19498894 GTCATTTTACCTTATAGGGGTATTTCA
1 GTCATTCTACCCTATAGAGGTATTTCG
* * *
19498921 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTCTACCCTATAGAGGTATTTCG
19498948 GTCATTCTACCCTATCA-AGGTATTTCG
1 GTCATTCTACCCTAT-AGAGGTATTTCG
19498975 GTC
1 GTC
19498978 CAGATATCGA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (27 bp):
GTCATTCTACCCTATAGAGGTATTTCG
Found at i:19499673 original size:29 final size:31
Alignment explanation
Indices: 19499639--19499706 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
19499629 TCTCCAAATA
19499639 TCCAAATACC-A-ATTCTCTCCTCAAAACTC
1 TCCAAATACCAATATTCTCTCCTCAAAACTC
19499668 TCCAAATACCAATATTCTCTCCTCAAAACTC
1 TCCAAATACCAATATTCTCTCCTCAAAACTC
19499699 TCCAAATA
1 TCCAAATA
19499707 TCCCTCCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 10 0.27
30 1 0.03
31 26 0.70
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (31 bp):
TCCAAATACCAATATTCTCTCCTCAAAACTC
Found at i:19509365 original size:27 final size:27
Alignment explanation
Indices: 19509306--19509367 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
19509296 CCCAAACTGA
* *
19509306 TATAAAGTGACTATTATGCCCCCACGT
1 TATAAAATGACTATTATGCCCCCACAT
** * *
19509333 GGTAAAATGACTATTATGCCCCTATAT
1 TATAAAATGACTATTATGCCCCCACAT
19509360 TATAAAAT
1 TATAAAAT
19509368 AATTGTATGC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (27 bp):
TATAAAATGACTATTATGCCCCCACAT
Found at i:19509695 original size:34 final size:32
Alignment explanation
Indices: 19509657--19509721 Score: 103
Period size: 34 Copynumber: 2.0 Consensus size: 32
19509647 TGTTACTGTC
*
19509657 ACTGTAATGGGCTAAGGCCCACACTGATACTGAT
1 ACTGTAATGGGCAAAGGCCCA-ACTGA-ACTGAT
19509691 ACTGTAATGGGCAAAGGCCCAACTGAACTGA
1 ACTGTAATGGGCAAAGGCCCAACTGAACTGA
19509722 ACTATACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 5 0.17
33 5 0.17
34 20 0.67
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (32 bp):
ACTGTAATGGGCAAAGGCCCAACTGAACTGAT
Found at i:19515303 original size:8 final size:8
Alignment explanation
Indices: 19515290--19515314 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19515280 AAATGTTGAT
19515290 AATTTTGG
1 AATTTTGG
19515298 AATTTTGG
1 AATTTTGG
19515306 AATTTTGG
1 AATTTTGG
19515314 A
1 A
19515315 TTTAGGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (8 bp):
AATTTTGG
Found at i:19515322 original size:15 final size:16
Alignment explanation
Indices: 19515290--19515322 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19515280 AAATGTTGAT
*
19515290 AATTTTGGAATTTTGG
1 AATTTTGGAATTTAGG
19515306 AATTTTGG-ATTTAGG
1 AATTTTGGAATTTAGG
19515321 AA
1 AA
19515323 CTAAATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
AATTTTGGAATTTAGG
Found at i:19522476 original size:357 final size:355
Alignment explanation
Indices: 19521798--19522508 Score: 1280
Period size: 357 Copynumber: 2.0 Consensus size: 355
19521788 TTGCAATCAC
* *
19521798 TGACACTGGAAAGTGTAGTGACAGTTTCAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGATT
1 TGACACTGGAAAGTGCAGTGACAGTTTCAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGAAT
*
19521863 AGAGGAATTTAGTCCACTTGTTCTTAATAGTGCCGTATTGCCATCATCGAAATGTGAGGTTAGTA
66 AGAGGAATTTAGTCCACTTGTTCTTAATAGTGCCGTATTGCCATCATCGAAAGGTGAGGTTAGTA
19521928 TGCATGTTTAAGTCTCAGATTAAATAGAGGAGTGAAGCTGGGTAAGATATACATTGAACTTTATT
131 TGCATGTTTAAGTCTCAGATTAAATAGAGGAGTGAAGCTGGGTAAGATATACATTGAACTTTATT
19521993 GCTTCGACTACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTCTACTGAAGATTCATGTTGG
196 GCTTCGACTACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTCTACTGAAGATTCATGTTGG
* *
19522058 GGATCTCATTTTATCATTATCATATTTTATTTTATTGTTTTCAAGTTATTGCATTGACAACTATT
261 GGATCCCAGTTTATCATTATCATATTTTATTTTATTGTTTTCAAGTTATTGCATTGACAACTATT
*
19522123 CTCACAATTTATCTTTTTTCCATCTAGTTG
326 CTCACAATTTATCTTGTTTCCATCTAGTTG
*
19522153 TGACACTGGAAAGTGCAGTGACAGTTTGAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGAAT
1 TGACACTGGAAAGTGCAGTGACAGTTTCAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGAAT
* * * *
19522218 AGAGGAATTTA-TCCACTTGTTTTTAATAGTGTCGTATTTCCATCATCGGAAGGTGAGGTTAGTA
66 AGAGGAATTTAGTCCACTTGTTCTTAATAGTGCCGTATTGCCATCATCGAAAGGTGAGGTTAGTA
19522282 TGCATGTTTAAGTCTCAGATTAAATAGAGGAGTGAAGCTGGGTAAGATATACATTGAACTTTATT
131 TGCATGTTTAAGTCTCAGATTAAATAGAGGAGTGAAGCTGGGTAAGATATACATTGAACTTTATT
*
19522347 GCTTCGACAATCACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTTTACTGAAGATTCATGT
196 GCTTCGAC--T-ACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTCTACTGAAGATTCATGT
19522412 TGGGGATCCCAGTTTATCATTATCATATTTTATTTTATTGTTTTCAAGTTATTGCATTGACAACT
258 TGGGGATCCCAGTTTATCATTATCATATTTTATTTTATTGTTTTCAAGTTATTGCATTGACAACT
19522477 ATTCTCACAATTTATCTTGTTTCCATCTAGTT
323 ATTCTCACAATTTATCTTGTTTCCATCTAGTT
19522509 TTTGCACCGA
Statistics
Matches: 341, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
354 121 0.35
355 73 0.21
356 1 0.00
357 146 0.43
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (355 bp):
TGACACTGGAAAGTGCAGTGACAGTTTCAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGAAT
AGAGGAATTTAGTCCACTTGTTCTTAATAGTGCCGTATTGCCATCATCGAAAGGTGAGGTTAGTA
TGCATGTTTAAGTCTCAGATTAAATAGAGGAGTGAAGCTGGGTAAGATATACATTGAACTTTATT
GCTTCGACTACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTCTACTGAAGATTCATGTTGG
GGATCCCAGTTTATCATTATCATATTTTATTTTATTGTTTTCAAGTTATTGCATTGACAACTATT
CTCACAATTTATCTTGTTTCCATCTAGTTG
Found at i:19527487 original size:22 final size:22
Alignment explanation
Indices: 19527446--19527488 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19527436 CATCCATTTG
*
19527446 AAGGAGGCACACACTCGTGTGA
1 AAGGAGGCACAAACTCGTGTGA
19527468 AAGGAGGCACAAAGCT-GTGTG
1 AAGGAGGCACAAA-CTCGTGTG
19527489 GCTAAGGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.33, C:0.19, G:0.35, T:0.14
Consensus pattern (22 bp):
AAGGAGGCACAAACTCGTGTGA
Found at i:19531523 original size:22 final size:22
Alignment explanation
Indices: 19531498--19531542 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19531488 CGAAGTGTTG
19531498 AGCAGAAGGCAGCGAAATGCGA
1 AGCAGAAGGCAGCGAAATGCGA
* * *
19531520 AGCAGTAGGCAGCGTAGTGCGA
1 AGCAGAAGGCAGCGAAATGCGA
19531542 A
1 A
19531543 TCAATAAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.18, G:0.38, T:0.09
Consensus pattern (22 bp):
AGCAGAAGGCAGCGAAATGCGA
Found at i:19535248 original size:88 final size:89
Alignment explanation
Indices: 19535146--19535321 Score: 345
Period size: 88 Copynumber: 2.0 Consensus size: 89
19535136 CAACGATCTC
19535146 AAAAATATAAAATTTACTAAAAACTGGCCTCAAAAATACTTACATGCGCGGTTGAGAGTTTGGCC
1 AAAAATATAAAATTTACTAAAAACTGGCCTCAAAAATACTTACATGCGCGGTTGAGAGTTTGGCC
19535211 AAAATTCTCTAAGTTCAACATTGA
66 AAAATTCTCTAAGTTCAACATTGA
19535235 AAAAATAT-AAATTTACTAAAAACTGGCCTCAAAAATACTTACATGCGCGGTTGAGAGTTTGGCC
1 AAAAATATAAAATTTACTAAAAACTGGCCTCAAAAATACTTACATGCGCGGTTGAGAGTTTGGCC
19535299 AAAATTCTCTAAGTTCAACATTG
66 AAAATTCTCTAAGTTCAACATTG
19535322 GAGTTTTCAG
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 79 0.91
89 8 0.09
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (89 bp):
AAAAATATAAAATTTACTAAAAACTGGCCTCAAAAATACTTACATGCGCGGTTGAGAGTTTGGCC
AAAATTCTCTAAGTTCAACATTGA
Found at i:19539403 original size:29 final size:31
Alignment explanation
Indices: 19539332--19539408 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 31
19539322 TTAACGGCTC
* *
19539332 AGTGACTAAAATGTTACAATACGATAACGTA
1 AGTGACTAAAATGTAACAATACGATAACATA
* *
19539363 AGTGACTAAAATGTAACATTTC-A-AACATA
1 AGTGACTAAAATGTAACAATACGATAACATA
*
19539392 AGTGACTAAAATATAAC
1 AGTGACTAAAATGTAAC
19539409 CTGAGGTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 21 0.51
30 1 0.02
31 19 0.46
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (31 bp):
AGTGACTAAAATGTAACAATACGATAACATA
Found at i:19539520 original size:26 final size:26
Alignment explanation
Indices: 19539490--19539544 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
19539480 ATACTAAGTG
19539490 ATTTAGTCTTGATCGGAAAATAAATT
1 ATTTAGTCTTGATCGGAAAATAAATT
19539516 ATTTAGTCTTGATCGGAAAATAAATT
1 ATTTAGTCTTGATCGGAAAATAAATT
19539542 ATT
1 ATT
19539545 CTTTAAACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (26 bp):
ATTTAGTCTTGATCGGAAAATAAATT
Found at i:19545233 original size:3 final size:3
Alignment explanation
Indices: 19545225--19545263 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
19545215 ACTAGCGCTC
19545225 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19545264 GAGCCATGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19545292 original size:628 final size:575
Alignment explanation
Indices: 19544612--19545784 Score: 1653
Period size: 628 Copynumber: 1.9 Consensus size: 575
19544602 ACTATTGCTC
19544612 TTATTATTATTATTATTATTATTAGAGCCATGTATTTATGCATACTTCTTATAATATACGCATAT
1 TTATTATTATTATTATTATTATTAGAGCCATGTATTTATGCATACTTCTTATAATATACGCATAT
19544677 ACACTATATATCAAGTATATGCATATATATTTTATAATACGTGTACATCTTCTATATTTTATATC
66 ACACTATATATCAAGTATATGCATATATATTTTATAATACGTGTACATCTTCTATATTTTATATC
19544742 TATACATATATTCTCTAAAATATATGTATACGTTTAATTTTTAAAAATTATTATAAATATATACT
131 TATACATATATTCTCTAAAATATATGTATACGTTTAATTTTTAAAAATTATTATAAATATATACT
19544807 TTTTTTTATACATACATTCCATTTTTTATATATATATTTATATACATACATATTTTCATAGTTTA
196 TTTTTTTATACATACATTCCATTTTTTATATATATATTTATATACATACATATTTTCATAGTTTA
19544872 TTTTTATATTATACTTATACATTTTTTATATATTTTGTAAATATATATGCACATATCTTAAAATA
261 TTTTTATATTATACTTATACATTTTTTATATATTTTGTAAATATATATGCACATATCTTAAAATA
*
19544937 CGCATACTTTTATATACTTCTATATATCATAATTTTTATAAACGTATTTATAAACATACTTACAT
326 CGCATACTTTTATATACTTCTATATATCATAACTTTTATAAACGTATTTATAAACATACTTACAT
19545002 ATATTTTTGTTTCATAATTTTAAAATAGGTATACCTACATATATTCTTCATATTTTATGTACATA
391 ATATTTTTGTTTCATAATTTTAAAATAGGTATACCTACATATATTCTTCATATTTTATGTACATA
19545067 CACATACATATATATATATATTAAAATTTTCATATATTTTATGGTTTTTTTGTTTCGCAAAATGT
456 CACATACATATATATATATATTAAAATTTTCATATATTTTATGGTTTTTTTGTTTCGCAAAATGT
**************
19545132 CTATCTTTTTATGCCCATTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
521 CTATCTTTTTATGCCCATT--------------------------------TAATTAATTTTACT
******* *
19545197 NNNNNNNTAATTAATTTTACTAGCGCTCTTATTATTATTATTA
554 AGCGCTCTTA-T--------------------TATTATTATTA
19545240 TTATTATTATTATTATTATTATTAGAGCCATGTATTTATGCATACTTCTTATAATATACGCATAT
1 TTATTATTATTATTATTATTATTAGAGCCATGTATTTATGCATACTTCTTATAATATACGCATAT
19545305 ACACTATATATCAAGTATATGCATATATATTTTATAATACGTGTACATCTTCTATATTTTATATC
66 ACACTATATATCAAGTATATGCATATATATTTTATAATACGTGTACATCTTCTATATTTTATATC
19545370 TATACATATATTCTCTAAAATATATGTATACGTTTAATTTTTAAAAATTATTATAAATATATACT
131 TATACATATATTCTCTAAAATATATGTATACGTTTAATTTTTAAAAATTATTATAAATATATACT
19545435 TTTTTTTATACATACATTCCATTTTTTATATATATATTTATATACATACATATTTTCATAGTTTA
196 TTTTTTTATACATACATTCCATTTTTTATATATATATTTATATACATACATATTTTCATAGTTTA
19545500 TTTTTATATTATACTTATACATTTTTTATATATTTTGTAAATATATATGCACATATCTTAAAATA
261 TTTTTATATTATACTTATACATTTTTTATATATTTTGTAAATATATATGCACATATCTTAAAATA
19545565 CGCATACTTTTATATACTTCTATATATCATAACTTTTATAAACGTATTTATAAACATACTTACAT
326 CGCATACTTTTATATACTTCTATATATCATAACTTTTATAAACGTATTTATAAACATACTTACAT
19545630 ATATTTTTGTTTCATAATTTTAAAATAGGTATACCTACATATATTCTTCATATTTTATGTACATA
391 ATATTTTTGTTTCATAATTTTAAAATAGGTATACCTACATATATTCTTCATATTTTATGTACATA
19545695 CACATACATATATATATATATTAAAATTTTCATATATTTTATGGTTTTTTTGTTTCGCAAAATGT
456 CACATACATATATATATATATTAAAATTTTCATATATTTTATGGTTTTTTTGTTTCGCAAAATGT
*
19545760 CTATCTTTTTATGCCCATTCAATTA
521 CTATCTTTTTATGCCCATTTAATTA
19545785 CAAAAGCATT
Statistics
Matches: 538, Mismatches: 7, Indels: 32
0.93 0.01 0.06
Matches are distributed among these distances:
628 538 1.00
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.47
Consensus pattern (575 bp):
TTATTATTATTATTATTATTATTAGAGCCATGTATTTATGCATACTTCTTATAATATACGCATAT
ACACTATATATCAAGTATATGCATATATATTTTATAATACGTGTACATCTTCTATATTTTATATC
TATACATATATTCTCTAAAATATATGTATACGTTTAATTTTTAAAAATTATTATAAATATATACT
TTTTTTTATACATACATTCCATTTTTTATATATATATTTATATACATACATATTTTCATAGTTTA
TTTTTATATTATACTTATACATTTTTTATATATTTTGTAAATATATATGCACATATCTTAAAATA
CGCATACTTTTATATACTTCTATATATCATAACTTTTATAAACGTATTTATAAACATACTTACAT
ATATTTTTGTTTCATAATTTTAAAATAGGTATACCTACATATATTCTTCATATTTTATGTACATA
CACATACATATATATATATATTAAAATTTTCATATATTTTATGGTTTTTTTGTTTCGCAAAATGT
CTATCTTTTTATGCCCATTTAATTAATTTTACTAGCGCTCTTATTATTATTATTA
Found at i:19545854 original size:5 final size:5
Alignment explanation
Indices: 19545844--19545886 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
19545834 TGACTCGTTT
* *
19545844 TTTTA TTTTA TGTTA CTTTA TTTTA TTTTA TTTTA TCTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TT
19545887 GGGTTGTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:19550215 original size:20 final size:19
Alignment explanation
Indices: 19550188--19550247 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
19550178 TCAAGTGCAT
19550188 TCAGCTCAATTTTAGCTCA
1 TCAGCTCAATTTTAGCTCA
* *
19550207 TCGAGCTCACTCTTAGCTCAA
1 TC-AGCTCAATTTTAGCTC-A
19550228 TCAGCTC-ATTTTAAGCTCA
1 TCAGCTCAATTTT-AGCTCA
19550247 T
1 T
19550248 TTGCGTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 7 0.21
20 24 0.71
21 3 0.09
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (19 bp):
TCAGCTCAATTTTAGCTCA
Found at i:19558975 original size:50 final size:50
Alignment explanation
Indices: 19558914--19559062 Score: 154
Period size: 50 Copynumber: 3.0 Consensus size: 50
19558904 TGGCATTACA
* *
19558914 GTGGAATAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTG
1 GTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGTG
* * ** ** * * * *
19558964 GTGGAACAGATTGAAGCTATGACGGCGAATCTTGTTTCCCCGACATTGCG
1 GTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGTG
** * *
19559014 GTTAAATAGATTGAAACCACAACGGTGAATCTTACTTCCCTGGCAGTGT
1 GTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGT
19559063 NNNNNNNNNN
Statistics
Matches: 73, Mismatches: 26, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (50 bp):
GTGGAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTGTG
Found at i:19568869 original size:50 final size:50
Alignment explanation
Indices: 19568808--19569274 Score: 342
Period size: 50 Copynumber: 9.3 Consensus size: 50
19568798 TGGCATTACA
* * *
19568808 GTGGAATAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTG
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
* * ** * ** * * * *
19568858 GTGGAACAGATTGAAGCTATGACGGCGAATCTTGTTTCCCCGACATTGCG
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
** *
19568908 GTTAAATAGATTGAAACCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
* * * ** * * * **
19568958 GTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTACG
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
** * * * *
19569008 GTTAAATAGATTGAAGCCAAAACGGTGAATCTTACTTCTCTGGCGGTGTA
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
* * * * * * * *
19569058 GTGGAATAGATTGAAGCTACGACGGCGAATCTT-GTTACCCCGACATTGCG
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTT-CCCTGGCAGTGTG
** *
19569108 GTTAAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTA
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
* * * * * ** * ** * **
19569158 GTGGAACAAATTGAAGCTACGATGGTGAATCTTGTTTCCCCGAAATTGCA
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
** * ** *
19569208 GTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGTA
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
*
19569258 GTGGAACAGATTGAAGC
1 GTGGAATAGATTGAAGC
19569275 TACGACGACG
Statistics
Matches: 302, Mismatches: 113, Indels: 4
0.72 0.27 0.01
Matches are distributed among these distances:
49 2 0.01
50 298 0.99
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (50 bp):
GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
Found at i:19568957 original size:100 final size:100
Alignment explanation
Indices: 19568812--19569320 Score: 802
Period size: 100 Copynumber: 5.1 Consensus size: 100
19568802 ATTACAGTGG
* * *
19568812 AATAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTGGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
*
19568877 TGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
* * *
19568912 AATAGATTGAAACCACAACGGTGAATCTTACTTCCCTGGCAGTGTGGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
19568977 CGACGGTGAATCTTGTTTCCCCGACATTACGGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
* * *
19569012 AATAGATTGAAGCCAAAACGGTGAATCTTACTTCTCTGGCGGTGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
*
19569077 CGACGGCGAATCTTGTTACCCCGACATTGCGGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
* *
19569112 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAAATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * * *
19569177 CGATGGTGAATCTTGTTTCCCCGAAATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
* *
19569212 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
19569277 CGACGACGAATCTTGTTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
*
19569312 AACAGATTG
1 AATAGATTG
19569321 CAGATCACAT
Statistics
Matches: 374, Mismatches: 35, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 374 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (100 bp):
AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
Found at i:19569316 original size:50 final size:50
Alignment explanation
Indices: 19568862--19569320 Score: 324
Period size: 50 Copynumber: 9.2 Consensus size: 50
19568852 GGTGTGGTGG
* * *
19568862 AACAGATTGAAGCTATGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * ** * * * ** **
19568912 AATAGATTGAAACCACAACGGTGAATCTTACTTCCCTGGCAGTGTGGTGG
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* *
19568962 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTACGGTTA
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * ** ** * * * ** * **
19569012 AATAGATTGAAGCCAAAACGGTGAATCTTACTTCTCTGGCGGTGTAGTGG
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * *
19569062 AATAGATTGAAGCTACGACGGCGAATCTTGTTACCCCGACATTGCGGTTA
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * ** * * * * **
19569112 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGG
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * *
19569162 AACAAATTGAAGCTACGATGGTGAATCTTGTTTCCCCGAAATTGCAGTTA
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * ** * **** * **
19569212 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGTAGTGG
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
**
19569262 AACAGATTGAAGCTACGACGACGAATCTTGTTTCCCCGACATTGCAGTTA
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
19569312 AACAGATTG
1 AACAGATTG
19569321 CAGATCACAT
Statistics
Matches: 293, Mismatches: 116, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
50 293 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (50 bp):
AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:19570855 original size:3 final size:3
Alignment explanation
Indices: 19570847--19570882 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
19570837 ACTATCGCTC
19570847 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19570883 CCATTGTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19571458 original size:5 final size:5
Alignment explanation
Indices: 19571448--19571483 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
19571438 TGACTCGTTT
* *
19571448 TTTTA TTTTA TGTTA CTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
19571484 CATTATTGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:19572661 original size:137 final size:137
Alignment explanation
Indices: 19572402--19572732 Score: 466
Period size: 137 Copynumber: 2.4 Consensus size: 137
19572392 GAGACATAAT
* * *** *
19572402 CAAACCTTTTGACGTGAAACGAGATGACAACTTAAGCACCTCATTTTGTTTACTCAATTTCACAT
1 CAAACCTTTTGACGCGAAACGAGATGACAACCTAAGCACCTCATCCCGGTTACTCAATTTCACAT
* * * *
19572467 GTCCTTAATCGATTTATTTCTCCTTTATCAAGCAGCTCGGTTAGCAAAATGTAACAAGCTTTAGC
66 ATCCCTAATAGATTTATTTCTCCTTTATCAAGCAGCTCGGTTAGCAAAATGTAACAAGCTTCAGC
19572532 TCGTCAC
131 TCGTCAC
* *
19572539 CAAACCTTTTGACGCGAAACGAGATGACAACCCAAGCACCTCATCCCGGCTACTCAATTTCACAT
1 CAAACCTTTTGACGCGAAACGAGATGACAACCTAAGCACCTCATCCCGGTTACTCAATTTCACAT
* * * * *
19572604 ATCCCTAATAGATTTATTTCTCTTTTCTCAAGGTAGCTCGGTTAGC-AAGTGTTACAAGCTTCAG
66 ATCCCTAATAGATTTATTTCTCCTTTATCAA-GCAGCTCGGTTAGCAAAATGTAACAAGCTTCAG
19572668 CTCGTCAC
130 CTCGTCAC
* * *
19572676 CAAACATTTTGACCCGAAACGAGATGACAACCTAAGCACCTCATCCCAGTTACTCAA
1 CAAACCTTTTGACGCGAAACGAGATGACAACCTAAGCACCTCATCCCGGTTACTCAA
19572733 CTTGGTCACC
Statistics
Matches: 171, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
137 158 0.92
138 13 0.08
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (137 bp):
CAAACCTTTTGACGCGAAACGAGATGACAACCTAAGCACCTCATCCCGGTTACTCAATTTCACAT
ATCCCTAATAGATTTATTTCTCCTTTATCAAGCAGCTCGGTTAGCAAAATGTAACAAGCTTCAGC
TCGTCAC
Found at i:19579252 original size:15 final size:16
Alignment explanation
Indices: 19579223--19579252 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19579213 CAAACTTGCT
19579223 TTAACACATTATCAAA
1 TTAACACATTATCAAA
19579239 TTAACACA-TATCAA
1 TTAACACATTATCAA
19579253 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:19581665 original size:39 final size:39
Alignment explanation
Indices: 19581606--19581717 Score: 152
Period size: 39 Copynumber: 2.9 Consensus size: 39
19581596 TTGATCGCAT
* *
19581606 TTACGTGCCCCTGATGTACTTTGGTACCCCTAATCCCAC
1 TTACGTGCCCCTGTTGTACTTTGGTACCCCTAATCACAC
* * * *
19581645 TTACGTGCCCTTGTTATACTTCGGTACCCCTGATCACAC
1 TTACGTGCCCCTGTTGTACTTTGGTACCCCTAATCACAC
* *
19581684 TTACGTGCCCCTGTGGTACTTTGGTACTCCTAAT
1 TTACGTGCCCCTGTTGTACTTTGGTACCCCTAAT
19581718 AGAACTTTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (39 bp):
TTACGTGCCCCTGTTGTACTTTGGTACCCCTAATCACAC
Found at i:19581694 original size:20 final size:20
Alignment explanation
Indices: 19581632--19581696 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
19581622 TACTTTGGTA
* *
19581632 CCCCTAATCCCACTTACGTG
1 CCCCTGATCACACTTACGTG
* * * *
19581652 CCCTTG-TTATACTT-CGGTA
1 CCCCTGATCACACTTAC-GTG
19581671 CCCCTGATCACACTTACGTG
1 CCCCTGATCACACTTACGTG
19581691 CCCCTG
1 CCCCTG
19581697 TGGTACTTTG
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
18 1 0.03
19 12 0.38
20 18 0.56
21 1 0.03
ACGTcount: A:0.17, C:0.40, G:0.14, T:0.29
Consensus pattern (20 bp):
CCCCTGATCACACTTACGTG
Found at i:19585919 original size:13 final size:13
Alignment explanation
Indices: 19585901--19585958 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
19585891 AGTTGGATTT
19585901 TTCCTAAATATTA
1 TTCCTAAATATTA
19585914 TTCCTAAATA--A
1 TTCCTAAATATTA
19585925 -TCCTAAATATTA
1 TTCCTAAATATTA
19585937 -TCACTAAATA--A
1 TTC-CTAAATATTA
19585948 TT-CTAAATATT
1 TTCCTAAATATT
19585959 CAAAATTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
10 16 0.41
11 2 0.05
12 4 0.10
13 17 0.44
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (13 bp):
TTCCTAAATATTA
Found at i:19585929 original size:23 final size:23
Alignment explanation
Indices: 19585902--19585958 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
19585892 GTTGGATTTT
19585902 TCCTAAATATTATTC-CTAAATAA
1 TCCTAAATATTA-TCACTAAATAA
19585925 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
*
19585948 TTCTAAATATT
1 TCCTAAATATT
19585959 CAAAATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 2 0.06
23 30 0.94
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:19588379 original size:624 final size:625
Alignment explanation
Indices: 19587181--19588433 Score: 2499
Period size: 624 Copynumber: 2.0 Consensus size: 625
19587171 TTAAGCTAGT
19587181 GTGTGTTAGAACTTAAATCACTTGTACAAGATTGAAAGTGTTGGATCTGTTGCCCTAAGTGTAGT
1 GTGTGTTAGAACTTAAATCACTTGTACAAGATTGAAAGTGTTGGATCTGTTGCCCTAAGTGTAGT
19587246 ATTTTCGTCTAAGTACACTTGTAATTTTTTTTGTATAGATTGGTTAATAAAATCATTCATGAATT
66 ATTTTCGTCTAAGTACACTTGTAATTTTTTTTGTATAGATTGGTTAATAAAATCATTCATGAATT
19587311 ACATTAATACTTTGTATTATTGTCCTCAAACGGTTTTTGCACGCAAAGAAAAATAGAAGAAAATG
131 ACATTAATACTTTGTATTATTGTCCTCAAACGGTTTTTGCACGCAAAGAAAAATAGAAGAAAATG
19587376 TTTCTTACTGGTTGTCTAATGTCTAACTTATACTAAGTGTAATACGTGGTCAGATAGTAATATAA
196 TTTCTTACTGGTTGTCTAATGTCTAACTTATACTAAGTGTAATACGTGGTCAGATAGTAATATAA
19587441 AAAGAGAACTTGTATTAGTAGATGAACCTAAACATGCCCTTAGTCTAATTAGAAATGAGCAAACC
261 AAAGAGAACTTGTATTAGTAGATGAACCTAAACATGCCCTTAGTCTAATTAGAAATGAGCAAACC
19587506 AATTGAAAGACTAATATGTTGTCTATCAAATCCAATTGGGGAGATGCTTTGTCTTGGGGATTGGA
326 AATTGAAAGACTAATATGTTGTCTATCAAATCCAATTGGGGAGATGCTTTGTCTTGGGGATTGGA
19587571 GTGGATGACTCCCAAAAGATAGAGACATAGATGTGACTGACTAGACTAACAGTACATCGGACTGG
391 GTGGATGACTCCCAAAAGATAGAGACATAGATGTGACTGACTAGACTAACAGTACATCGGACTGG
19587636 ACCCAATAAGAATAGATCCTGAATTTATTTATGGGTTTATTCACTTTTACTGTTCATAGTGTGAC
456 ACCCAATAAGAATAGATCCTGAATTTATTTATGGGTTTATTCACTTTTACTGTTCATAGTGTGAC
19587701 ATAACTAAATCATGAGTGGATGACAGGCTAAGTATGTGTAACTCATACACTTTGATGTAAGTAAA
521 ATAACTAAATCATGAGTGGATGACAGGCTAAGTATGTGTAACTCATACACTTTGATGTAAGTAAA
19587766 AGCCTAAATTCAAATAGATAAGGAACCGAAAGCTGGTTAG
586 AGCCTAAATTCAAATAGATAAGGAACCGAAAGCTGGTTAG
19587806 GTGTGTTAG-ACTTAAATCACTTGTACAAGATTGAAAGTGTTGGATCTGTTGCCCTAAGTGTAGT
1 GTGTGTTAGAACTTAAATCACTTGTACAAGATTGAAAGTGTTGGATCTGTTGCCCTAAGTGTAGT
19587870 ATTTTCGTCTAAGTACACTTGTAATTTTTTTTGTATAGATTGGTTAATAAAATCATTCATGAATT
66 ATTTTCGTCTAAGTACACTTGTAATTTTTTTTGTATAGATTGGTTAATAAAATCATTCATGAATT
19587935 ACATTAATACTTTGTATTATTGTCCTCAAACGGTTTTTGCACGCAAAGAAAAATAGAAGAAAATG
131 ACATTAATACTTTGTATTATTGTCCTCAAACGGTTTTTGCACGCAAAGAAAAATAGAAGAAAATG
19588000 TTTCTTACTGGTTGTCTAATGTCTAACTTATACTAAGTGTAATACGTGGTCAGATAGTAATATAA
196 TTTCTTACTGGTTGTCTAATGTCTAACTTATACTAAGTGTAATACGTGGTCAGATAGTAATATAA
19588065 AAAGAGAACTTGTATTAGTAGATGAACCTAAACATGCCCTTAGTCTAATTAGAAATGAGCAAACC
261 AAAGAGAACTTGTATTAGTAGATGAACCTAAACATGCCCTTAGTCTAATTAGAAATGAGCAAACC
19588130 AATTGAAAGACTAATATGTTGTCTATCAAATCCAATTGGGGAGATGCTTTGTCTTGGGGATTGGA
326 AATTGAAAGACTAATATGTTGTCTATCAAATCCAATTGGGGAGATGCTTTGTCTTGGGGATTGGA
19588195 GTGGATGACTCCCAAAAGATAGAGACATAGATGTGACTGACTAGACTAACAGTACATCGGACTGG
391 GTGGATGACTCCCAAAAGATAGAGACATAGATGTGACTGACTAGACTAACAGTACATCGGACTGG
19588260 ACCCAATAAGAATAGATCCTGAATTTATTTATGGGTTTATTCACTTTTACTGTTCATAGTGTGAC
456 ACCCAATAAGAATAGATCCTGAATTTATTTATGGGTTTATTCACTTTTACTGTTCATAGTGTGAC
19588325 ATAACTAAATCATGAGTGGATGACAGGCTAAGTATGTGTAACTCATACACTTTGATGTAAGTAAA
521 ATAACTAAATCATGAGTGGATGACAGGCTAAGTATGTGTAACTCATACACTTTGATGTAAGTAAA
19588390 AGCCTAAATTCAAATAGATAAGGAACCGAAAGCTGGTTAG
586 AGCCTAAATTCAAATAGATAAGGAACCGAAAGCTGGTTAG
19588430 GTGT
1 GTGT
19588434 ACGACTTCTG
Statistics
Matches: 628, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
624 619 0.99
625 9 0.01
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (625 bp):
GTGTGTTAGAACTTAAATCACTTGTACAAGATTGAAAGTGTTGGATCTGTTGCCCTAAGTGTAGT
ATTTTCGTCTAAGTACACTTGTAATTTTTTTTGTATAGATTGGTTAATAAAATCATTCATGAATT
ACATTAATACTTTGTATTATTGTCCTCAAACGGTTTTTGCACGCAAAGAAAAATAGAAGAAAATG
TTTCTTACTGGTTGTCTAATGTCTAACTTATACTAAGTGTAATACGTGGTCAGATAGTAATATAA
AAAGAGAACTTGTATTAGTAGATGAACCTAAACATGCCCTTAGTCTAATTAGAAATGAGCAAACC
AATTGAAAGACTAATATGTTGTCTATCAAATCCAATTGGGGAGATGCTTTGTCTTGGGGATTGGA
GTGGATGACTCCCAAAAGATAGAGACATAGATGTGACTGACTAGACTAACAGTACATCGGACTGG
ACCCAATAAGAATAGATCCTGAATTTATTTATGGGTTTATTCACTTTTACTGTTCATAGTGTGAC
ATAACTAAATCATGAGTGGATGACAGGCTAAGTATGTGTAACTCATACACTTTGATGTAAGTAAA
AGCCTAAATTCAAATAGATAAGGAACCGAAAGCTGGTTAG
Found at i:19589936 original size:50 final size:49
Alignment explanation
Indices: 19589861--19590005 Score: 182
Period size: 50 Copynumber: 2.9 Consensus size: 49
19589851 TATTGAGGTT
*
19589861 ATGAGAGGTCCCACGTAAGACCATGTCTGGTACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGC-TTGGCACCGAG
* * *
19589911 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCTTGG-CACCGAG
** * * *
19589961 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCTTTGGCA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGC-TTGGCA
19590006 GTACAGGAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
49 3 0.04
50 76 0.93
51 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (49 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCTTGGCACCGAG
Found at i:19589998 original size:100 final size:102
Alignment explanation
Indices: 19589819--19590005 Score: 234
Period size: 100 Copynumber: 1.8 Consensus size: 102
19589809 GAGATCCCAT
* ** **
19589819 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCCCACGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGAC--TACCGA-G-TATGAGAACTCCCACGTAAGACCA
* *
19589884 TGTCTGGTACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
62 TATCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
*
19589925 GTAAGACCATGTCTGGGACATGGCATGGAC-ACCGA-TATGAGAACTCCCATGTAAGACCATATC
1 GTAAGACCATGTCTGGGACATGGCATGGACTACCGAGTATGAGAACTCCCACGTAAGACCATATC
* *
19589988 TGGGATATGGCTTTGGCA
66 TGGGACATGGCGTTGGCA
19590006 GTACAGGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
100 39 0.55
103 3 0.04
106 29 0.41
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (102 bp):
GTAAGACCATGTCTGGGACATGGCATGGACTACCGAGTATGAGAACTCCCACGTAAGACCATATC
TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
Found at i:19590275 original size:20 final size:20
Alignment explanation
Indices: 19590250--19590298 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
19590240 TGAGTTATTG
19590250 AAGTAAGCAAGTAAGGAAAC
1 AAGTAAGCAAGTAAGGAAAC
* *
19590270 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGGAAAC
19590290 AAG-AAGCAA
1 AAGTAAGCAA
19590299 AGACCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.57, C:0.06, G:0.27, T:0.10
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGGAAAC
Found at i:19594922 original size:42 final size:42
Alignment explanation
Indices: 19594874--19594955 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
19594864 CTATTAGTAA
*
19594874 TATTATTGT-TATCCTTATTTCA-TTTATGTTTTCTTT-TTTTAT
1 TATTATT-TATATACTTATTT-ATTTTAT-TTTTCTTTCTTTTAT
*
19594916 TATTATTTATTTACTTATTTATTTTATTTTTCTTTCTTTT
1 TATTATTTATATACTTATTTATTTTATTTTTCTTTCTTTT
19594956 CTGAAAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
41 10 0.29
42 25 0.71
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (42 bp):
TATTATTTATATACTTATTTATTTTATTTTTCTTTCTTTTAT
Found at i:19600174 original size:49 final size:50
Alignment explanation
Indices: 19600039--19600175 Score: 145
Period size: 50 Copynumber: 2.8 Consensus size: 50
19600029 AGGGGATGAG
* *
19600039 ATCCCATGTAAGACCATGTCTGGGACATGACATGGGCACCGATATAAGAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-CGATACAAGAAC
* * * * *
19600090 -TCCCATGTAAGACCATATTTGGGATATGGCATTGGCA-G-TACAGGAAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGACATTGGCACGATACAAG-AAC
* * *
19600138 ATCCCATGTAAGACCATGTCTAGAACATGACTTTGGCA
1 ATCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
19600176 TGTTATTATC
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
47 4 0.06
48 4 0.06
49 30 0.43
50 32 0.46
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTGGGACATGACATTGGCACGATACAAGAAC
Found at i:19600401 original size:20 final size:20
Alignment explanation
Indices: 19600376--19600424 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
19600366 TGAGTTATTT
19600376 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
19600396 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
19600416 AAG-AAGCAA
1 AAGTAAGCAA
19600425 AGACCATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:19617196 original size:26 final size:26
Alignment explanation
Indices: 19617167--19617227 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
19617157 AATTTACCAA
*
19617167 GGGTAAAATCATCAAAATTTTATTAG-
1 GGGTAAAATCATCAAAATTTTA-CAGT
**
19617193 GGGTAAAATTGTCAAAATTTTACAGT
1 GGGTAAAATCATCAAAATTTTACAGT
19617219 GGGTAAAAT
1 GGGTAAAAT
19617228 AGGTATGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.33
Consensus pattern (26 bp):
GGGTAAAATCATCAAAATTTTACAGT
Found at i:19621490 original size:20 final size:20
Alignment explanation
Indices: 19621462--19621499 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19621452 CCTATAATAC
19621462 TCATCTCAAAACACACCAAG
1 TCATCTCAAAACACACCAAG
* *
19621482 TCATGTCAAAACATACCA
1 TCATCTCAAAACACACCA
19621500 TATACCACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.32, G:0.05, T:0.18
Consensus pattern (20 bp):
TCATCTCAAAACACACCAAG
Found at i:19623676 original size:13 final size:13
Alignment explanation
Indices: 19623660--19623689 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19623650 TTAATATAAC
*
19623660 ATATATAACTTAT
1 ATATATAAATTAT
19623673 ATATATAAATTAT
1 ATATATAAATTAT
19623686 ATAT
1 ATAT
19623690 CTCTTAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATATAAATTAT
Found at i:19626731 original size:12 final size:11
Alignment explanation
Indices: 19626702--19626737 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
19626692 TGTTTATTTC
19626702 TTGTTTTTATT
1 TTGTTTTTATT
19626713 TTGTTTTTATT
1 TTGTTTTTATT
*
19626724 TTATTTTTTATT
1 TT-GTTTTTATT
19626736 TT
1 TT
19626738 TCTTGCTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (11 bp):
TTGTTTTTATT
Found at i:19636241 original size:12 final size:13
Alignment explanation
Indices: 19636217--19636245 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
19636207 GGGCTATAAC
19636217 TATTGCATTTATT
1 TATTGCATTTATT
19636230 TATTGC-TTTATT
1 TATTGCATTTATT
19636242 TATT
1 TATT
19636246 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:19642718 original size:50 final size:50
Alignment explanation
Indices: 19642599--19642728 Score: 163
Period size: 50 Copynumber: 2.6 Consensus size: 50
19642589 TTATTGAGGT
* * *
19642599 TATGAGAGCTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
* * * *
19642649 GATGAGAGGTCCTC-CGTAAGACCTTGTCTGGGACATGGCATGGGCACCGA
1 TATGAGAGCTCC-CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
* *
19642699 TATGAGAACTCCCATGTAAGACCATATCTG
1 TATGAGAGCTCCCATGTAAGACCATGTCTG
19642729 AGATATGAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
49 1 0.02
50 63 0.97
51 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TATGAGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
Found at i:19650223 original size:56 final size:49
Alignment explanation
Indices: 19650161--19650287 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 49
19650151 AGACCCTATG
*
19650161 TAAGACCATGTCTGGGACATAGCATTGACATTATTGAGGTTATGAGAGG-CCCCACA
1 TAAGACCATGTCTGGGACAT-GCATTGAC---ATCGA-G--ATGAGAGGTCCCC-CA
* * *
19650217 TAAGACCATGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATG-CATTGACATCGAGATGAGAGGTCCCCCA
19650267 TAAGACCATGTCTGGGACATG
1 TAAGACCATGTCTGGGACATG
19650288 GCATGGGCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
50 29 0.45
51 4 0.06
52 1 0.02
53 4 0.06
55 1 0.02
56 25 0.39
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGCATTGACATCGAGATGAGAGGTCCCCCA
Found at i:19650271 original size:50 final size:50
Alignment explanation
Indices: 19650202--19650337 Score: 148
Period size: 50 Copynumber: 2.7 Consensus size: 50
19650192 TATTGAGGTT
* * * *
19650202 ATGAGAGG-CCCCACATAAGACCATGTTTGGGACATGCCATTGGCATCGAG
1 ATGAGAGGTCCCC-CGTAAGACCATGTCTGGGACATGCCATGGGCACCGAG
* *
19650252 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGCCATGGGCACCGAG
** ** * *
19650302 ATGAGAACTCCCATGTAAGACCATGCCTGGTACATG
1 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATG
19650338 GCTTTGGCAT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 69 0.95
51 4 0.05
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGCCATGGGCACCGAG
Found at i:19650573 original size:20 final size:20
Alignment explanation
Indices: 19650548--19650590 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
19650538 TGAGTTATTT
19650548 AAGTAAG-CATGTAAGTAAAG
1 AAGTAAGACAT-TAAGTAAAG
*
19650568 AAGTAAGAGATTAAGTAAAG
1 AAGTAAGACATTAAGTAAAG
19650588 AAG
1 AAG
19650591 AAGTAAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.53, C:0.02, G:0.26, T:0.19
Consensus pattern (20 bp):
AAGTAAGACATTAAGTAAAG
Found at i:19651378 original size:20 final size:21
Alignment explanation
Indices: 19651334--19651378 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
19651324 TCATGGCCTG
19651334 TGCTT-CTTCTTTACTTACTC
1 TGCTTACTTCTTTACTTACTC
*
19651354 T-CTTACTTGTTTACTTACT-
1 TGCTTACTTCTTTACTTACTC
19651373 TGCTTA
1 TGCTTA
19651379 TTTAAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.13, C:0.24, G:0.07, T:0.56
Consensus pattern (21 bp):
TGCTTACTTCTTTACTTACTC
Found at i:19651404 original size:30 final size:30
Alignment explanation
Indices: 19651370--19651433 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
19651360 TTGTTTACTT
19651370 ACTTGCTTATTTAAATAACTCATGATTATA
1 ACTTGCTTATTTAAATAACTCATGATTATA
19651400 ACTTGCTTATTTAAATAACTCATGATTATA
1 ACTTGCTTATTTAAATAACTCATGATTATA
19651430 ACTT
1 ACTT
19651434 CTCCTCCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (30 bp):
ACTTGCTTATTTAAATAACTCATGATTATA
Found at i:19651736 original size:50 final size:50
Alignment explanation
Indices: 19651661--19651853 Score: 197
Period size: 50 Copynumber: 3.7 Consensus size: 50
19651651 TTTCTTGTAC
* * * **
19651661 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
19651711 TGCCTATGCCATGTCCAAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * **
19651761 TGCCAATGGCATGTCCCGGACATGGTGTTACATGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
19651817 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
19651854 TCTCATCCAC
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
50 79 0.69
53 2 0.02
56 34 0.30
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:19654353 original size:7 final size:7
Alignment explanation
Indices: 19654337--19654378 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
19654327 AAAATTCTTA
19654337 TTTTTAT
1 TTTTTAT
*
19654344 TTTTTGT
1 TTTTTAT
*
19654351 TTTTTCT
1 TTTTTAT
19654358 TCTTTTAT
1 T-TTTTAT
19654366 TTTTTAT
1 TTTTTAT
19654373 TTTTTA
1 TTTTTA
19654379 ATTATTAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.10, C:0.05, G:0.02, T:0.83
Consensus pattern (7 bp):
TTTTTAT
Found at i:19654363 original size:23 final size:22
Alignment explanation
Indices: 19654331--19654377 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
19654321 CTTAGGAAAA
*
19654331 TTCTTATTTTTATTTTTTGTTTT
1 TTCTTA-TTTTATTTTTTATTTT
*
19654354 TTCTTCTTTTATTTTTTATTTT
1 TTCTTATTTTATTTTTTATTTT
19654376 TT
1 TT
19654378 AATTATTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.09, C:0.06, G:0.02, T:0.83
Consensus pattern (22 bp):
TTCTTATTTTATTTTTTATTTT
Found at i:19656368 original size:18 final size:17
Alignment explanation
Indices: 19656324--19656371 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
19656314 GGTTTATTGA
*
19656324 TTTAGTTAATTTGTTTAT
1 TTTAGTT-ATTTATTTAT
**
19656342 TTTTCTTATTTATATTAT
1 TTTAGTTATTTAT-TTAT
19656360 TTTAGTTATTTA
1 TTTAGTTATTTA
19656372 GTTTTCTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTAGTTATTTATTTAT
Found at i:19656428 original size:3 final size:3
Alignment explanation
Indices: 19656420--19656447 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19656410 ATAGTGATTA
19656420 ACT ACT ACT ACT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT A
19656448 GTTAGACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ACT
Found at i:19657709 original size:99 final size:100
Alignment explanation
Indices: 19657527--19657725 Score: 382
Period size: 99 Copynumber: 2.0 Consensus size: 100
19657517 TCTAAATTAA
*
19657527 TAAATTGAATGAAATTATTAATTTAGATCAAGATCGACTGGAAAATCTATAATGGAAAATTACCA
1 TAAATGGAATGAAATTATTAATTTAGATCAAGATCGACTGGAAAATCTATAATGGAAAATTACCA
19657592 GAAAGCCCCTGTACTTTGATATTTCTGCAATTTAG
66 GAAAGCCCCTGTACTTTGATATTTCTGCAATTTAG
19657627 TAAATGGAAT-AAATTATTAATTTAGATCAAGATCGACTGGAAAATCTATAATGGAAAATTACCA
1 TAAATGGAATGAAATTATTAATTTAGATCAAGATCGACTGGAAAATCTATAATGGAAAATTACCA
19657691 GAAAGCCCCTGTACTTTGATATTTCTGCAATTTAG
66 GAAAGCCCCTGTACTTTGATATTTCTGCAATTTAG
19657726 CCAGGTAAGC
Statistics
Matches: 98, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
99 89 0.91
100 9 0.09
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (100 bp):
TAAATGGAATGAAATTATTAATTTAGATCAAGATCGACTGGAAAATCTATAATGGAAAATTACCA
GAAAGCCCCTGTACTTTGATATTTCTGCAATTTAG
Found at i:19657895 original size:45 final size:45
Alignment explanation
Indices: 19657846--19658064 Score: 269
Period size: 45 Copynumber: 4.9 Consensus size: 45
19657836 ATACCATAAA
*
19657846 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACTATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
* * * **
19657891 CGAGTAAGACCGTGACTGAAAGATGTTATGGAATCATAATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
* * *
19657936 CAAGTAAGAACATGACTGAAAGACGTTATGGCATCACGATCCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
* * *
19657981 CGAGTAAGACCAGGACTGAATGACCTTATGGCATCACGATTCTAT
1 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
* * ***
19658026 CGGGTAAGACCAT-AGCTTAAAGACACAATGGCATCACGA
1 CGAGTAAGACCATGA-CTGAAAGACGTTATGGCATCACGA
19658065 ATCAAAGGAA
Statistics
Matches: 147, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 1 0.01
45 146 0.99
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (45 bp):
CGAGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAT
Found at i:19658102 original size:45 final size:46
Alignment explanation
Indices: 19658030--19658151 Score: 124
Period size: 47 Copynumber: 2.7 Consensus size: 46
19658020 TTCTATCGGG
* *
19658030 TAAGACCATAGCTTAAAGACACAATGGCA-TC-AC-GAATCAAAGGAA
1 TAAGACCATGGCTGAAAGACACAATGGCACTCGACAGAA--AAAGGAA
* * * *
19658075 TAAGACCATGGGTGAAATACACTATGGCAACTCGACAGAAAAATGAA
1 TAAGACCATGGCTGAAAGACACAATGGC-ACTCGACAGAAAAAGGAA
* *
19658122 TAAGACCATGGTTGAAAGACACCATGGCAC
1 TAAGACCATGGCTGAAAGACACAATGGCAC
19658152 ACTCCGACCA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 23 0.36
46 3 0.05
47 33 0.52
48 2 0.03
49 3 0.05
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.16
Consensus pattern (46 bp):
TAAGACCATGGCTGAAAGACACAATGGCACTCGACAGAAAAAGGAA
Found at i:19674503 original size:22 final size:21
Alignment explanation
Indices: 19674478--19674521 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
19674468 TGATAAACTT
19674478 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
19674500 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
19674521 T
1 T
19674522 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:19677200 original size:34 final size:34
Alignment explanation
Indices: 19677157--19677225 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
19677147 CTAATGAATT
*
19677157 AATTATTAAATCGTATTGAAATTTTAATTAGTCG
1 AATTATTAAATCGTATTGAAATTGTAATTAGTCG
19677191 AATTATTAAATCGTATTGAAATTGTAATTAGTCG
1 AATTATTAAATCGTATTGAAATTGTAATTAGTCG
19677225 A
1 A
19677226 CACAATACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (34 bp):
AATTATTAAATCGTATTGAAATTGTAATTAGTCG
Found at i:19692938 original size:6 final size:6
Alignment explanation
Indices: 19692906--19692974 Score: 83
Period size: 6 Copynumber: 12.0 Consensus size: 6
19692896 GACCCCTTCT
* *
19692906 ATTAAA A-T-AA A-TAAA ACTAAT ATTAAA ATTAAA GATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA -ATTAAA ATTAAA
19692952 A-TAAA ATTAAA ATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA
19692975 GACAAAGACA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
4 4 0.07
5 9 0.16
6 37 0.66
7 6 0.11
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (6 bp):
ATTAAA
Found at i:19692967 original size:36 final size:34
Alignment explanation
Indices: 19692906--19692976 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 34
19692896 GACCCCTTCT
*
19692906 ATTAAAATAAATAAAACTAATATTAAAATTAAAG
1 ATTAAAATAAATAAAACTAAAATTAAAATTAAAG
*
19692940 ATTAAAATTAAAATAAAATTAAAATTAAAATTAAAG
1 ATTAAAA-T-AAATAAAACTAAAATTAAAATTAAAG
19692976 A
1 A
19692977 CAAAGACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 7 0.21
35 1 0.03
36 25 0.76
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (34 bp):
ATTAAAATAAATAAAACTAAAATTAAAATTAAAG
Found at i:19697184 original size:20 final size:21
Alignment explanation
Indices: 19697159--19697199 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
19697149 TTGGACTAAA
* *
19697159 TCAGAAAGTCA-GAGAATTTT
1 TCAGAAAATCATGAAAATTTT
19697179 TCAGAAAATCATGAAAATTTT
1 TCAGAAAATCATGAAAATTTT
19697200 CAACACTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (21 bp):
TCAGAAAATCATGAAAATTTT
Found at i:19702148 original size:340 final size:341
Alignment explanation
Indices: 19701518--19702148 Score: 887
Period size: 340 Copynumber: 1.9 Consensus size: 341
19701508 GGATGATTAG
** *
19701518 GTAACATTTAACGTCTTTAAGTCTATTTAATTTCTTGACAAAATGGATGATTGCTCTGCAGTGTC
1 GTAACATTTAACGTCTTTAAGTCTATGCAATTTCCTGACAAAATGGATGATTGCTCTGCAGTGTC
* * * *
19701583 CGATTTAGAGGATTTAATAGTGGAGAAGGAACTCAACTGTGTTGAGGACCCACTGGAAAGAATTT
66 CAATTTAGAGGAATTAATAGTGGAAAAGGAACTCAACTATGTTGAGGACCCACTGGAAAGAATTT
** * *
19701648 TGACATTGGATCCTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGCTAATCAA
131 TGACATCAGACCCTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGATAATCAA
* *
19701713 AGGGGATTTAATCCACAATCCTGTTTTGAATCTTTGGAGTTAGAAAAGAGGGACTATTCTCAACC
196 AGCGGATTTAATCCACAATCCTGTTTTGAATCTTTGGAGTTAGAAAAGAGGGACTATCCTCAACC
* * *
19701778 AAAAGCATCGATCGAGGAGCCACCTAAATTAGAACTCAAGGTATTACCTTCTCATTTAAAATGCG
261 AAAAGCATCAATCGAGGAGCAACATAAATTAGAACTCAAGGTATTACCTTCTCATTTAAAATGCG
19701843 TATTCAGGACGACCAA
326 TATTCAGGACGACCAA
* * * * * * * * *
19701859 GTAACATTTAATGTTTTTAAGTTTATGCGATTTCCTGACACAATTGATTATTGTTCTGTAGTGTC
1 GTAACATTTAACGTCTTTAAGTCTATGCAATTTCCTGACAAAATGGATGATTGCTCTGCAGTGTC
* * *
19701924 TAATTTAGAGGAATTAATCA-TGGAAAAGGAACTCAACTATGTTGAGGACTCA-TTGAACA-AAT
66 CAATTTAGAGGAATTAAT-AGTGGAAAAGGAACTCAACTATGTTGAGGACCCACTGGAA-AGAAT
19701986 TTTGACATCAGACCCTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGATAATC
129 TTTGACATCAGACCCTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGATAATC
** * *
19702051 AAAGCGGATTTAATTTACAATCCTGTTTTGAATCTTTGGAGTTA-AAGAATAGGGATTATGCCT-
194 AAAGCGGATTTAATCCACAATCCTGTTTTGAATCTTTGGAGTTAGAA-AAGAGGGACTAT-CCTC
19702114 AACCAAAAG-AGTCAATCGAGGAGCAACATAAATTA
257 AACCAAAAGCA-TCAATCGAGGAGCAACATAAATTA
19702149 CAATTGAAAG
Statistics
Matches: 253, Mismatches: 32, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
339 3 0.01
340 149 0.59
341 100 0.40
342 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (341 bp):
GTAACATTTAACGTCTTTAAGTCTATGCAATTTCCTGACAAAATGGATGATTGCTCTGCAGTGTC
CAATTTAGAGGAATTAATAGTGGAAAAGGAACTCAACTATGTTGAGGACCCACTGGAAAGAATTT
TGACATCAGACCCTCCAAATGATGAAGAGGAGGATGAATACTTAGCTTTGCTAGAAGATAATCAA
AGCGGATTTAATCCACAATCCTGTTTTGAATCTTTGGAGTTAGAAAAGAGGGACTATCCTCAACC
AAAAGCATCAATCGAGGAGCAACATAAATTAGAACTCAAGGTATTACCTTCTCATTTAAAATGCG
TATTCAGGACGACCAA
Found at i:19705489 original size:22 final size:22
Alignment explanation
Indices: 19705446--19705487 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19705436 TGATAATCAT
19705446 TAATATATAATTATATCTATTA
1 TAATATATAATTATATCTATTA
19705468 TAATATAT-ATTA-AT-TATTA
1 TAATATATAATTATATCTATTA
19705487 T
1 T
19705488 TAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATATAATTATATCTATTA
Found at i:19706228 original size:25 final size:25
Alignment explanation
Indices: 19706169--19706228 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
19706159 AATTTTAATT
*
19706169 TTATTTAATTATTTAAGTTTTAAAG
1 TTATTAAATTATTTAAGTTTTAAAG
* *
19706194 TTATTGAATTA-TTAATGTTTTATA-
1 TTATTAAATTATTTAA-GTTTTAAAG
19706218 TTAATTAAATT
1 TT-ATTAAATT
19706229 TTTGTGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 6 0.20
25 24 0.80
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (25 bp):
TTATTAAATTATTTAAGTTTTAAAG
Found at i:19707107 original size:3 final size:3
Alignment explanation
Indices: 19707099--19707129 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
19707089 GAGGATCCTA
*
19707099 AAG AAG AAG ATG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
19707130 TCCCACAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:19712906 original size:51 final size:52
Alignment explanation
Indices: 19712792--19712916 Score: 166
Period size: 51 Copynumber: 2.4 Consensus size: 52
19712782 TGACTCAAAT
*
19712792 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCAAAAGT
1 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCAAAAGG
* * * *
19712844 GTAGTGCTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTTGG-CTACAAGG
1 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTC-AAAAGG
19712895 GTGGTACTATGTGCAA-GCCACT
1 GTGGTACTATGTG-AAGGCCACT
19712917 GGGTATCTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 1 0.02
51 33 0.52
52 30 0.47
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.28
Consensus pattern (52 bp):
GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCAAAAGG
Found at i:19715435 original size:30 final size:30
Alignment explanation
Indices: 19715399--19715474 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
19715389 TGGTTGACCC
* * ** *
19715399 ATCCCTTTTCGTAATTCGATAACTGAAGTT
1 ATCCCTTTTCATAATTCGACAACCAAAGCT
*
19715429 ATCCCTTTTCATAGTTCGACAACCAAAGCT
1 ATCCCTTTTCATAATTCGACAACCAAAGCT
19715459 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
19715475 TGATGGTGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGACAACCAAAGCT
Found at i:19715554 original size:60 final size:60
Alignment explanation
Indices: 19715459--19715648 Score: 195
Period size: 60 Copynumber: 3.2 Consensus size: 60
19715449 AACCAAAGCT
* ** * * * *
19715459 ATCCCTTTTCATAATTTGATGGTGGTCA-CCTTCCCTTTTCATTGTTCGATGGTTGTCACC
1 ATCCCTTTTCATAATTTGATAGCCG-AAGCCATCCCTTTTCATAGTTCGATGGTCGTCACC
* * * * * * * *
19715519 ATGCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTCCATAGTTCGATAGCCG-AAGCT
1 ATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTTTCATAGTTCGATGGTCGTCA-CC
* *
19715579 ATCCCTTTTCATAGTTTGATAGCCGGAGCCATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTTTCATAGTTCGATGGTCGTCACC
19715639 ATCCCTTTTC
1 ATCCCTTTTC
19715649 TTTGTTGATG
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
59 2 0.02
60 100 0.97
61 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.38
Consensus pattern (60 bp):
ATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTTTCATAGTTCGATGGTCGTCACC
Found at i:19715615 original size:120 final size:119
Alignment explanation
Indices: 19715386--19715648 Score: 341
Period size: 120 Copynumber: 2.2 Consensus size: 119
19715376 GGTAATAATA
* * * *
19715386 CGATGGTTGAC-CCATCCCTTTTCGTAATTCGATAACTGAAGTTATCCCTTTTCATAGTTCGACA
1 CGATGGTTGTCACCATCCCTTTTCATAATTCGATAACTGAAGCTATCCCTTTCCATAGTTCGACA
** * *
19715450 ACCAAAGCTATCCCTTTTCATAATTTGATGGTGGTCACCTTCCCTTTTCATTGTT
66 ACCAAAGCTATCCCTTTTCATAATTTGATGCCGG-CACCATCCCTTTTCATAGTT
* * * *
19715505 CGATGGTTGTCACCATGCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTCCATAGTTCGATA
1 CGATGGTTGTCACCATCCCTTTTCATAATTCGATAACTGAAGCTATCCCTTTCCATAGTTCGACA
* * *
19715570 GCCGAAGCTATCCCTTTTCATAGTTTGATAGCCGG-AGCCATCCCTTTTCATAGTT
66 ACCAAAGCTATCCCTTTTCATAATTTGAT-GCCGGCA-CCATCCCTTTTCATAGTT
*
19715625 CGATGGTCGTCACCATCCCTTTTC
1 CGATGGTTGTCACCATCCCTTTTC
19715649 TTTGTTGATG
Statistics
Matches: 124, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
119 11 0.09
120 110 0.89
121 3 0.02
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (119 bp):
CGATGGTTGTCACCATCCCTTTTCATAATTCGATAACTGAAGCTATCCCTTTCCATAGTTCGACA
ACCAAAGCTATCCCTTTTCATAATTTGATGCCGGCACCATCCCTTTTCATAGTT
Found at i:19715666 original size:29 final size:30
Alignment explanation
Indices: 19715459--19715680 Score: 157
Period size: 30 Copynumber: 7.4 Consensus size: 30
19715449 AACCAAAGCT
* * *
19715459 ATCCCTTTTCATAATTTGATGGTGGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
* * *
19715489 TTCCCTTTTCATTGTTCGATGGTTGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
* * * * * *
19715519 ATGCCTTTTCATAATTTGATAG-C-TGAAGCT
1 ATCCCTTTTCATAGTTCGATGGTCGT-CA-CC
* * * * *
19715549 ATCCCTTTCCATAGTTCGATAGCCG-AAGCT
1 ATCCCTTTTCATAGTTCGATGGTCGTCA-CC
* * * *
19715579 ATCCCTTTTCATAGTTTGATAGCCG-GAGCC
1 ATCCCTTTTCATAGTTCGATGGTCGTCA-CC
19715609 ATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
* *
19715639 ATCCCTTTTCTTTGTT-GATGGTCGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
*
19715668 ATCCCTTTGCATA
1 ATCCCTTTTCATA
19715681 ATCTATAGCC
Statistics
Matches: 156, Mismatches: 31, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
28 1 0.01
29 24 0.15
30 129 0.83
31 2 0.01
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.39
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATGGTCGTCACC
Found at i:19720288 original size:18 final size:18
Alignment explanation
Indices: 19720261--19720301 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
19720251 CTAATTGAAG
19720261 GTTC-TTATTCTATCGTT
1 GTTCTTTATTCTATCGTT
19720278 GTTCTTTATTCTATCGTT
1 GTTCTTTATTCTATCGTT
19720296 GTTCTT
1 GTTCTT
19720302 AATACTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.10, C:0.17, G:0.12, T:0.61
Consensus pattern (18 bp):
GTTCTTTATTCTATCGTT
Found at i:19721186 original size:14 final size:15
Alignment explanation
Indices: 19721169--19721197 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19721159 TAAAGTCTTT
19721169 TTCTTTA-TGTTATA
1 TTCTTTATTGTTATA
19721183 TTCTTTATTGTTATA
1 TTCTTTATTGTTATA
19721198 AAAATCCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
TTCTTTATTGTTATA
Found at i:19724082 original size:20 final size:20
Alignment explanation
Indices: 19724054--19724097 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
19724044 TTTAGCTCGG
* *
19724054 TTCATCTCACATGAGTTTAA
1 TTCAACTCACATGAGCTTAA
19724074 TTCAACTCACATGAGCTTAA
1 TTCAACTCACATGAGCTTAA
19724094 TTCA
1 TTCA
19724098 GCTTGTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (20 bp):
TTCAACTCACATGAGCTTAA
Found at i:19726365 original size:5 final size:6
Alignment explanation
Indices: 19726329--19726440 Score: 64
Period size: 6 Copynumber: 18.0 Consensus size: 6
19726319 ATCGAAAAAG
* * ** * *
19726329 AAGAAA AAGAAA AGGCAA GTGAAA AAGAAA AAGAAAA AAGAGA ATGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA AAGAAA AAGAAA
* * ** * *
19726378 ATGAGAA AAGAAA AAG-AG AAGTGA GAGAAA AAGAAA ACGAAA AAGAGAA
1 AAGA-AA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA-AA
19726427 AATTGAAA AAGAAA
1 AA--GAAA AAGAAA
19726441 TTGAGATTGA
Statistics
Matches: 80, Mismatches: 20, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
5 4 0.05
6 55 0.69
7 15 0.19
8 4 0.05
9 2 0.03
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.05
Consensus pattern (6 bp):
AAGAAA
Found at i:19726366 original size:25 final size:25
Alignment explanation
Indices: 19726329--19726440 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 25
19726319 ATCGAAAAAG
19726329 AAGAAAAAG-AAAAG-GCAAGTGAAA
1 AAGAAAAAGAAAAAGAG-AAGTGAAA
19726353 AAGAAAAAGAAAAAAGAGAA-TGAAA
1 AAGAAAAAG-AAAAAGAGAAGTGAAA
*
19726378 ATGAGAAAAGAAAAAGAGAAGTGAGAGAAA
1 AAGA-AAAAGAAAAAGAGAAGT----GAAA
* *
19726408 AAGAAAACGAAAAAGAGAAAATTGAAA
1 AAGAAAAAGAAAAAGAG--AAGTGAAA
19726435 AAGAAA
1 AAGAAA
19726441 TTGAGATTGA
Statistics
Matches: 73, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
24 9 0.12
25 18 0.25
26 13 0.18
27 11 0.15
29 12 0.16
30 7 0.10
31 3 0.04
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.05
Consensus pattern (25 bp):
AAGAAAAAGAAAAAGAGAAGTGAAA
Found at i:19726420 original size:42 final size:42
Alignment explanation
Indices: 19726348--19726495 Score: 108
Period size: 45 Copynumber: 3.5 Consensus size: 42
19726338 AAAAGGCAAG
* * * *
19726348 TGAAAAAGAAA--AAGA-AAAAAGAGAATGAAAATGAGAAAA
1 TGAAAAAGAAAGTGAGAGAAAAAGAAAACGAAAAAGAGAAAA
19726387 -GAAAAAGAGAAGTGAGAGAAAAAGAAAACGAAAAAGAGAAAA
1 TGAAAAAGA-AAGTGAGAGAAAAAGAAAACGAAAAAGAGAAAA
* * * ** *
19726429 TTGAAAAAGAAATTGAGATTGACAAAGGAAGTGAAAAGGAGAAAA
1 -TGAAAAAGAAAGTGAGA--GAAAAAGAAAACGAAAAAGAGAAAA
*
19726474 TGGAAAAAAGAAATTGA-AGAAA
1 T-G-AAAAAGAAAGTGAGAGAAA
19726496 GAACAAAAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 16
0.77 0.10 0.14
Matches are distributed among these distances:
38 8 0.09
39 2 0.02
41 3 0.03
42 21 0.24
43 10 0.11
44 9 0.10
45 22 0.25
46 13 0.15
ACGTcount: A:0.65, C:0.01, G:0.24, T:0.09
Consensus pattern (42 bp):
TGAAAAAGAAAGTGAGAGAAAAAGAAAACGAAAAAGAGAAAA
Found at i:19731219 original size:14 final size:14
Alignment explanation
Indices: 19731200--19731230 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19731190 ATTAACATTA
*
19731200 TATTTTAATTTTTC
1 TATTTTAAATTTTC
19731214 TATTTTAAATTTTC
1 TATTTTAAATTTTC
19731228 TAT
1 TAT
19731231 GTAGGAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTTTAAATTTTC
Found at i:19737221 original size:17 final size:17
Alignment explanation
Indices: 19737199--19737232 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19737189 TATTCATATT
*
19737199 TTTTTCTTTTTTGTTTC
1 TTTTTCTTATTTGTTTC
19737216 TTTTTCTTATTTGTTTC
1 TTTTTCTTATTTGTTTC
19737233 AAATAAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTTCTTATTTGTTTC
Found at i:19743102 original size:30 final size:30
Alignment explanation
Indices: 19743066--19743199 Score: 126
Period size: 30 Copynumber: 4.5 Consensus size: 30
19743056 ATGGTTGTCA
* *
19743066 CTATCCCTTATCATAGTTTGATAGCCGAAG
1 CTATCCCTTTTCATAATTTGATAGCCGAAG
**
19743096 CTATCCCTTTTCATAATTTGATAGTTGAAG
1 CTATCCCTTTTCATAATTTGATAGCCGAAG
* * ** *
19743126 TTATCCCTTTTCATAATTTGATGGTTGTCA-
1 CTATCCCTTTTCATAATTTGATAGCCG-AAG
* * * * *
19743156 CCATTCATTTTCATAATCTGATAGCTGAAG
1 CTATCCCTTTTCATAATTTGATAGCCGAAG
19743186 CTATCCCTTTTCAT
1 CTATCCCTTTTCAT
19743200 TGGTCGATGA
Statistics
Matches: 84, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
29 1 0.01
30 82 0.98
31 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.42
Consensus pattern (30 bp):
CTATCCCTTTTCATAATTTGATAGCCGAAG
Found at i:19753434 original size:27 final size:27
Alignment explanation
Indices: 19753403--19753638 Score: 255
Period size: 27 Copynumber: 8.7 Consensus size: 27
19753393 ATAATGGGCC
* * *
19753403 TAAAATTATCGAAATACCCTTAATGGC
1 TAAAATTACCGAAATACCCTCAATGGG
* *
19753430 TAAAATTATCGAAATACCCTCAAAGGG
1 TAAAATTACCGAAATACCCTCAATGGG
19753457 TAAAATTACCGAAATACCCTCAATGGG
1 TAAAATTACCGAAATACCCTCAATGGG
* *
19753484 TAAAATTA-TGAAAATACCCTCGATGGG
1 TAAAATTACCG-AAATACCCTCAATGGG
*
19753511 TAAAATTACCAAAATACCCTCGATATGGG
1 TAAAATTACCGAAATACCCTC-A-ATGGG
* *
19753540 T-AAATTACCAAAATACCCCCGAA-GGG
1 TAAAATTACCGAAATACCCTC-AATGGG
* * * *
19753566 TAAAATGACTGAAATACCCTCGATAGG
1 TAAAATTACCGAAATACCCTCAATGGG
19753593 TAAAATTACCGAAATACCCTCGAA-GGG
1 TAAAATTACCGAAATACCCTC-AATGGG
* *
19753620 TTAAATTATCGAAATACCC
1 TAAAATTACCGAAATACCC
19753639 CTAAAAGGTA
Statistics
Matches: 179, Mismatches: 23, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.03
27 146 0.82
28 21 0.12
29 6 0.03
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCAATGGG
Found at i:19753488 original size:54 final size:54
Alignment explanation
Indices: 19753403--19753638 Score: 287
Period size: 54 Copynumber: 4.4 Consensus size: 54
19753393 ATAATGGGCC
* * * * *
19753403 TAAAATTATCGAAATACCCTTAATGGCTAAAATTATCGAAATACCCTCAAAGGG
1 TAAAATTACCGAAATACCCTCAATGGGTAAAATTACCGAAATACCCTCGAAGGG
* *
19753457 TAAAATTACCGAAATACCCTCAATGGGTAAAATTA-TGAAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCAATGGGTAAAATTACCG-AAATACCCTCGAAGGG
* * *
19753511 TAAAATTACCAAAATACCCTCGATATGGGT-AAATTACCAAAATACCCCCGAAGGG
1 TAAAATTACCGAAATACCCTC-A-ATGGGTAAAATTACCGAAATACCCTCGAAGGG
* * * *
19753566 TAAAATGACTGAAATACCCTCGATAGGTAAAATTACCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCAATGGGTAAAATTACCGAAATACCCTCGAAGGG
* *
19753620 TTAAATTATCGAAATACCC
1 TAAAATTACCGAAATACCC
19753639 CTAAAAGGTA
Statistics
Matches: 155, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
53 6 0.04
54 104 0.67
55 39 0.25
56 6 0.04
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTCAATGGGTAAAATTACCGAAATACCCTCGAAGGG
Found at i:19753595 original size:109 final size:109
Alignment explanation
Indices: 19753432--19753638 Score: 281
Period size: 109 Copynumber: 1.9 Consensus size: 109
19753422 TTAATGGCTA
* * * * * *
19753432 AAATTATCGAAATACCCTCAAAGGGTAAAATTACCGAAATACCCTCAATGGGTAAAATTA-TGAA
1 AAATTACCAAAATACCCCCAAAGGGTAAAATGACCGAAATACCCTCAATAGGTAAAATTACCG-A
*
19753496 AATACCCTCGATGGGTAAAATTACCAAAATACCCTCGATATGGGT
65 AATACCCTCGAAGGGTAAAATTACCAAAATACCCTCGATATGGGT
* * *
19753541 AAATTACCAAAATACCCCCGAAGGGTAAAATGACTGAAATACCCTCGATAGGTAAAATTACCGAA
1 AAATTACCAAAATACCCCCAAAGGGTAAAATGACCGAAATACCCTCAATAGGTAAAATTACCGAA
* * *
19753606 ATACCCTCGAAGGGTTAAATTATCGAAATACCC
66 ATACCCTCGAAGGGTAAAATTACCAAAATACCC
19753639 CTAAAAGGTA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
109 83 0.99
110 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (109 bp):
AAATTACCAAAATACCCCCAAAGGGTAAAATGACCGAAATACCCTCAATAGGTAAAATTACCGAA
ATACCCTCGAAGGGTAAAATTACCAAAATACCCTCGATATGGGT
Found at i:19753858 original size:26 final size:26
Alignment explanation
Indices: 19753829--19753878 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
19753819 TTGCCACATA
19753829 TACTGTTACTAGCAGCCTTGCTGCGT
1 TACTGTTACTAGCAGCCTTGCTGCGT
* *
19753855 TACTGTTACTGGCAGCTTTGCTGC
1 TACTGTTACTAGCAGCCTTGCTGC
19753879 ATCATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.14, C:0.26, G:0.24, T:0.36
Consensus pattern (26 bp):
TACTGTTACTAGCAGCCTTGCTGCGT
Found at i:19755813 original size:22 final size:22
Alignment explanation
Indices: 19755769--19755813 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19755759 CTTAATAAAG
*
19755769 CTAGAAGCTTCCTTGAACTTTC
1 CTAGAAGCTTCCTTGAACGTTC
* *
19755791 CTAGCAGCTTCCTTGAAGGTTC
1 CTAGAAGCTTCCTTGAACGTTC
19755813 C
1 C
19755814 AAGGCCTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (22 bp):
CTAGAAGCTTCCTTGAACGTTC
Found at i:19763506 original size:16 final size:15
Alignment explanation
Indices: 19763479--19763512 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
19763469 ATAATTAGTA
*
19763479 TATAATTATATTTAT
1 TATAATTATATTAAT
19763494 TATAATATATATTAAT
1 TATAAT-TATATTAAT
19763510 TAT
1 TAT
19763513 TATGAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:19766910 original size:45 final size:45
Alignment explanation
Indices: 19766841--19766927 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
19766831 TATTTTTGTG
19766841 ATCACAAGAATAGTTGAGACTAATTTGAATGACATGTATACTGCT
1 ATCACAAGAATAGTTGAGACTAATTTGAATGACATGTATACTGCT
* *
19766886 ATCATAAGAATAGTTGAGACTAATTTGAATGATATGTATACT
1 ATCACAAGAATAGTTGAGACTAATTTGAATGACATGTATACT
19766928 TAAGTAGCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.33
Consensus pattern (45 bp):
ATCACAAGAATAGTTGAGACTAATTTGAATGACATGTATACTGCT
Found at i:19769047 original size:12 final size:12
Alignment explanation
Indices: 19769030--19769056 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19769020 TATAGTATCA
19769030 AGTTCTAATATG
1 AGTTCTAATATG
19769042 AGTTCTAATATG
1 AGTTCTAATATG
19769054 AGT
1 AGT
19769057 CTTGAATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (12 bp):
AGTTCTAATATG
Found at i:19770314 original size:13 final size:13
Alignment explanation
Indices: 19770278--19770316 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
19770268 TTTAGTTTTG
*
19770278 TAATTTGAAAGCT
1 TAATTTGAAAACT
19770291 TAAGTTTTGAAAACT
1 TAA--TTTGAAAACT
19770306 TAATTTGAAAA
1 TAATTTGAAAA
19770317 TTTGAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (13 bp):
TAATTTGAAAACT
Done.