Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1011
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: 102798
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Found at i:9920 original size:11 final size:11
Alignment explanation
Indices: 9904--9967 Score: 83
Period size: 11 Copynumber: 5.6 Consensus size: 11
9894 CCTTTACACC
9904 CAAAAAAAAAA
1 CAAAAAAAAAA
9915 CAAAAAAAAAA
1 CAAAAAAAAAA
9926 CAAAACAAAAAAA
1 C-AAA-AAAAAAA
9939 CAAAAAAAAAA
1 CAAAAAAAAAA
* * *
9950 GAAAAAAATAG
1 CAAAAAAAAAA
9961 CAAAAAA
1 CAAAAAA
9968 TAGAAGGGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
11 33 0.70
12 6 0.13
13 8 0.17
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:9921 original size:10 final size:10
Alignment explanation
Indices: 9906--9967 Score: 54
Period size: 10 Copynumber: 5.6 Consensus size: 10
9896 TTTACACCCA
9906 AAAAAAAAAC
1 AAAAAAAAAC
9916 AAAAAAAAAAC
1 -AAAAAAAAAC
9927 AAAACAAAAAAAC
1 --AA-AAAAAAAC
9940 AAAAAAAAA-
1 AAAAAAAAAC
9949 AGAAAAAAATAGC
1 A-AAAAAAA-A-C
9962 AAAAAA
1 AAAAAA
9968 TAGAAGGGTC
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
9 1 0.02
10 14 0.31
11 13 0.29
12 8 0.18
13 9 0.20
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:9940 original size:24 final size:24
Alignment explanation
Indices: 9908--9954 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
9898 TACACCCAAA
9908 AAAAAAACAAAAAAAAAACAAAAC
1 AAAAAAACAAAAAAAAAACAAAAC
*
9932 AAAAAAACAAAAAAAAAAGAAAA
1 AAAAAAACAAAAAAAAAACAAAA
9955 AAATAGCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (24 bp):
AAAAAAACAAAAAAAAAACAAAAC
Found at i:9967 original size:1 final size:1
Alignment explanation
Indices: 9905--9957 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
9895 CTTTACACCC
* * * * *
9905 AAAAAAAAAACAAAAAAAAAACAAAACAAAAAAACAAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9958 TAGCAAAAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.91, C:0.08, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:11230 original size:29 final size:29
Alignment explanation
Indices: 11188--12132 Score: 1350
Period size: 28 Copynumber: 32.9 Consensus size: 29
11178 AATGTTCATC
11188 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
11217 CTTTTCAAAGCCCATAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
11246 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
11274 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
11302 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
11331 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
11359 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
11388 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
11416 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
11445 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
11474 CTTTTTAAAGCCCACAAATCAATGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
11503 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
11531 CCTTTCAAAGCCCACAACTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
11559 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
11588 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
** *
11617 ATTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
11646 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
11674 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
11703 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
11732 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
11761 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
11789 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
11817 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
11845 CCTTTCGAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
11873 CATTGCGAAGCCCACAATTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
11902 -CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
11929 CCTTTTAAAGCCCACACAAGTCAGTGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
* * * *
11960 CATTTTAAAGCTCACGCAAGTCAGTGGTAC-
1 CCTTTCAAAGC-C-CACAAGTCAGTGGCACT
* *
11990 CTTTTCAAAGCCCACAAGTCAGTGACACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
12019 -CTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
12046 CCTTTCAAAGCCCACGAGTTAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
12074 TCTTTCAAAGCCCACGCAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
12104 CCTTTTAAAGCCCATGCAAGTCAATGGCA
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCA
12133 ACCCTTTTCA
Statistics
Matches: 838, Mismatches: 62, Indels: 31
0.90 0.07 0.03
Matches are distributed among these distances:
27 1 0.00
28 398 0.47
29 352 0.42
30 62 0.07
31 25 0.03
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:11449 original size:86 final size:85
Alignment explanation
Indices: 11187--12144 Score: 1343
Period size: 86 Copynumber: 11.1 Consensus size: 85
11177 GAATGTTCAT
* * * *
11187 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAATCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
11252 AAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
*
11273 CCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
11337 AAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
11358 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
11423 AAGCCCACAAGTCAGTGGCA
66 AAGCCCACAAGTCAGTGGCA
* * * * *
11443 CTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACAAATCAATGGCACTCTTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTT
11508 CAAAGCCCACAAGTCAGTGGCA
64 CAAAGCCCACAAGTCAGTGGCA
*
11530 CCCTTTCAAAGCCCACAACTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
11594 AAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
** * * *
11615 CTATTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTC
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
11680 AAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
* * *
11701 CTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTT
11766 CAAAGCCCACAAGTCAGTGGCA
64 CAAAGCCCACAAGTCAGTGGCA
* * *
11788 CCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAGAGCCCACAAGTCAGTGGCACCCTTTCG
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
11852 AAGCCCACAAGTCAGTGGCA
66 AAGCCCACAAGTCAGTGGCA
* * * * *
11872 CCATTGCGAAGCCCACAATTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
11936 AAGCCCACACAAGTCAGTGGCA
66 AAG-CC-CACAAGTCAGTGGCA
* * * * * * *
11958 CTCATTTTAAAGCTCACGCAAGTCAGTGGTAC-CTTTTCAAAGCCCACAAGTCAGTGACACTCTT
1 C-CCTTTCAAAGC-C-CACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
12022 TCAAAGCCCACAAGTCAGTGGCA
63 TCAAAGCCCACAAGTCAGTGGCA
* * * *
12045 TCCTTTCAAAGCCCACGAGTTAGTGGCA-TTCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTT
* *
12109 TAAAGCCCATGCAAGTCAATGGCAA
64 CAAAGCCCA--CAAGTCAGTGGC-A
12134 CCCTTTTCAAA
1 CCC-TTTCAAA
12145 TCACCACTGT
Statistics
Matches: 788, Mismatches: 64, Indels: 36
0.89 0.07 0.04
Matches are distributed among these distances:
84 106 0.13
85 189 0.24
86 320 0.41
87 103 0.13
88 14 0.02
89 49 0.06
90 7 0.01
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (85 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
AAGCCCACAAGTCAGTGGCA
Found at i:12649 original size:20 final size:20
Alignment explanation
Indices: 12621--12691 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
12611 TCATACCCTG
12621 ATGTATCGATATATTTTTCA
1 ATGTATCGATATATTTTTCA
* * * * *
12641 ATATATCGATACATGTATGA
1 ATGTATCGATATATTTTTCA
* *
12661 ATGTATCGATATATTCTACA
1 ATGTATCGATATATTTTTCA
12681 ATGTATCGATA
1 ATGTATCGATA
12692 CATTATGTCT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATATATTTTTCA
Found at i:12688 original size:40 final size:39
Alignment explanation
Indices: 12621--12698 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
12611 TCATACCCTG
* *
12621 ATGTATCGATATATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATATATTCTACAATATATCGATACAT-TATGA
*
12661 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATATATTCTACAATATATCGATACATTATG
12699 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATATATTCTACAATATATCGATACATTATGA
Found at i:17905 original size:2 final size:2
Alignment explanation
Indices: 17893--17923 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
17883 TTTTAAAATG
*
17893 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17924 TTAAAACCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:18374 original size:64 final size:64
Alignment explanation
Indices: 18276--18396 Score: 199
Period size: 64 Copynumber: 1.9 Consensus size: 64
18266 CATCTTATCA
*
18276 AAATAAATAAAAATAAATAATATACTACATGTTTTC-CCTTCCTTAATTTTCTTCCATCAGCAAT
1 AAATAAACAAAAATAAATAATATACTACATGTTTTCTCCTT-CTTAATTTTCTTCCATCAGCAAT
* *
18340 AAATAAACAGAAATAAATAATATATTACATGTTTTCTCCTTCTTAATTTTCTTCCAT
1 AAATAAACAAAAATAAATAATATACTACATGTTTTCTCCTTCTTAATTTTCTTCCAT
18397 GATATTTATC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
64 49 0.92
65 4 0.08
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (64 bp):
AAATAAACAAAAATAAATAATATACTACATGTTTTCTCCTTCTTAATTTTCTTCCATCAGCAAT
Found at i:21638 original size:39 final size:39
Alignment explanation
Indices: 21590--21666 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 39
21580 TAAACTCGAT
* * * *
21590 AAACTCAAATCTAAAATAATTTGAAATTAAAATTATTCA
1 AAACACAAATCTAAAATAATCTAAAATTAAAATAATTCA
* * *
21629 AAACACAAATTTATAATGATCTAAAATTAAAATAATTC
1 AAACACAAATCTAAAATAATCTAAAATTAAAATAATTC
21667 GATCTTAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.32
Consensus pattern (39 bp):
AAACACAAATCTAAAATAATCTAAAATTAAAATAATTCA
Found at i:23168 original size:2 final size:2
Alignment explanation
Indices: 23161--23185 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23151 AACACAAAGA
23161 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23186 ACATAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25594 original size:21 final size:20
Alignment explanation
Indices: 25548--25606 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
25538 AATTTATTAC
*
25548 TTTTTTTTAAATTTTAAAAA
1 TTTTTTTTTAATTTTAAAAA
* *
25568 TATTTTTTTATATTTT-TAAA
1 TTTTTTTTTA-ATTTTAAAAA
25588 TTTTTTTATTAA-TTTAAAA
1 TTTTTTT-TTAATTTTAAAA
25607 TAAAATATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.10
20 20 0.65
21 8 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTTTTTAATTTTAAAAA
Found at i:25607 original size:19 final size:18
Alignment explanation
Indices: 25569--25607 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
25559 TTTTAAAAAT
* *
25569 ATTTTTTTATATTTTTAA
1 ATTTTTTTATAATTTAAA
25587 ATTTTTTTATTAATTTAAA
1 ATTTTTTTA-TAATTTAAA
25606 AT
1 AT
25608 AAAATATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTTTATAATTTAAA
Found at i:26053 original size:14 final size:14
Alignment explanation
Indices: 26034--26088 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
26024 AAATTTTTTA
26034 AATATTTATATTAT
1 AATATTTATATTAT
26048 AATATTATATATATAT
1 AATATT-TATAT-TAT
* * *
26064 ATTTTTTATATCAT
1 AATATTTATATTAT
*
26078 AAAATTTATAT
1 AATATTTATAT
26089 AGTATATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 16 0.48
15 10 0.30
16 7 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (14 bp):
AATATTTATATTAT
Found at i:26073 original size:30 final size:32
Alignment explanation
Indices: 26038--26097 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
26028 TTTTTAAATA
* *
26038 TTTATATTATAATA-TTATATA-TATATATTT
1 TTTATATCATAAAATTTATATAGTATATATTT
26068 TTTATATCATAAAATTTATATAGTATATAT
1 TTTATATCATAAAATTTATATAGTATATAT
26098 AAATATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 12 0.46
31 7 0.27
32 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (32 bp):
TTTATATCATAAAATTTATATAGTATATATTT
Found at i:26215 original size:18 final size:19
Alignment explanation
Indices: 26194--26237 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
26184 TTTTTTTAAA
26194 TAAATTTAATTTTTTAT-T-
1 TAAATTT-ATTTTTTATATC
*
26212 TAAAATTATTTTTTATATC
1 TAAATTTATTTTTTATATC
26231 TAAATTT
1 TAAATTT
26238 TTTATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 9 0.41
18 7 0.32
19 6 0.27
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TAAATTTATTTTTTATATC
Found at i:26719 original size:6 final size:6
Alignment explanation
Indices: 26679--26716 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
26669 TATTAACAAT
*
26679 GAGAAG GAGAAG GAGAAG GAGAAG GAGAAG GAAAAG GA
1 GAGAAG GAGAAG GAGAAG GAGAAG GAGAAG GAGAAG GA
26717 AAAAGGTCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (6 bp):
GAGAAG
Found at i:32160 original size:63 final size:63
Alignment explanation
Indices: 32079--32234 Score: 235
Period size: 63 Copynumber: 2.5 Consensus size: 63
32069 TTTAAAAAAA
* * * * *
32079 AATTATTCTTCTGATTTCTGATGTGGGTTTTCTTTACCA-TTTCTATATCTGTTTGTTT-TCTGT
1 AATTATTCTTATTATTTCTGATGTGGGTTTTCTTCACCATTTTC-ATATATGTTTGTTTGT-TCT
32142 AATTATTCTTATTATTTCTGATGTGGGTTTTCTTCACCATTTTCATATATGTTTGTTTGTTCT
1 AATTATTCTTATTATTTCTGATGTGGGTTTTCTTCACCATTTTCATATATGTTTGTTTGTTCT
32205 AATTATTCTTATTATTTCTGATGTGGGTTT
1 AATTATTCTTATTATTTCTGATGTGGGTTT
32235 AAATTGGCTT
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
63 81 0.94
64 5 0.06
ACGTcount: A:0.17, C:0.12, G:0.14, T:0.57
Consensus pattern (63 bp):
AATTATTCTTATTATTTCTGATGTGGGTTTTCTTCACCATTTTCATATATGTTTGTTTGTTCT
Found at i:36293 original size:173 final size:170
Alignment explanation
Indices: 35969--36329 Score: 417
Period size: 173 Copynumber: 2.1 Consensus size: 170
35959 TATAATCTCC
* *
35969 TCCTTTGTATATAGAAAAAAAAAGTAATTAAACTATAAATTAAGGGTTTTAATTTCTTTCAAAAC
1 TCCTTTGTATATATAAAAAAAAAGTAATCAAACTATAAATTAAGGGTTTTAATTTCTTTCAAAAC
* * * * * * *
36034 TTAGTTTAATTGATTTATACAATTATCTTTTAGAAGTAATATTTAACATATCTGAAGTTCGAATT
66 TTAATTTAATTGATTCACACAATTATCTTTTAAAAATAACATTCAACATATCTGAAGTTCGAATT
* ** *
36099 CTAATATTTATAATTGTTTCTCTATCTCTAGGCTACGATT
131 CTAATATCTATAACCGTTTCTCTATCTCTAAGCTACGATT
* *
36139 TCCTTTGTATATATAAAAAAAAAGTAATCAAGACTATAAAAAATTAAGGG-TTTGATTTCTTTCG
1 TCCTTTGTATATATAAAAAAAAAGTAATCAA-ACTAT---AAATTAAGGGTTTTAATTTCTTTCA
* * * *
36203 AAACTTAATTTAATTGATTCACACAATTATTTTTTAAAAATGACATTCAATATATTTGGAA-TTC
62 AAACTTAATTTAATTGATTCACACAATTATCTTTTAAAAATAACATTCAACATATCT-GAAGTTC
* * **
36267 TAA-TCTTAGTATCTATGGCCGTTTCTCTATCTCTAAGCTACGATT
126 GAATTC-TAATATCTATAACCGTTTCTCTATCTCTAAGCTACGATT
*
36312 TTC-TT-TATATATAAAAAA
1 TCCTTTGTATATATAAAAAA
36330 TAGTTAAATT
Statistics
Matches: 161, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
170 29 0.18
171 18 0.11
172 4 0.02
173 97 0.60
174 13 0.08
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.42
Consensus pattern (170 bp):
TCCTTTGTATATATAAAAAAAAAGTAATCAAACTATAAATTAAGGGTTTTAATTTCTTTCAAAAC
TTAATTTAATTGATTCACACAATTATCTTTTAAAAATAACATTCAACATATCTGAAGTTCGAATT
CTAATATCTATAACCGTTTCTCTATCTCTAAGCTACGATT
Found at i:37881 original size:35 final size:33
Alignment explanation
Indices: 37842--37927 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 33
37832 AAAATAAAAA
*
37842 AATATTAAAAAAATATTTTTTATTTTAAATTTAAT
1 AATATTAAAAAAATA--TTTCATTTTAAATTTAAT
*
37877 AATATTAAAATAAATA--TCATTTTTAATTTAAT
1 AATATTAAAA-AAATATTTCATTTTAAATTTAAT
37909 AATATTAAAATAAAATATT
1 AATATT-AAA-AAAATATT
37928 ATCTCTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
32 20 0.45
33 8 0.18
34 1 0.02
35 10 0.23
36 5 0.11
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (33 bp):
AATATTAAAAAAATATTTCATTTTAAATTTAAT
Found at i:39505 original size:2 final size:2
Alignment explanation
Indices: 39498--39536 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
39488 ATTAATTTCT
39498 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
39537 GAATAGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:40573 original size:13 final size:14
Alignment explanation
Indices: 40557--40589 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
40547 TATATAAAAA
40557 AAATTTTAA-ATTT
1 AAATTTTAATATTT
40570 AAATTTTAATATTT
1 AAATTTTAATATTT
40584 ATAATT
1 A-AATT
40590 GATCGGAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 5 0.28
15 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AAATTTTAATATTT
Found at i:42065 original size:6 final size:6
Alignment explanation
Indices: 42056--42107 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
42046 AAGTATAATG
**
42056 TTATAT TTATA- TTATAT TTATAT TTAT-T AAATAT ATTATAT TTATA-
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT -TTATAT TTATAT
42102 TTATAT
1 TTATAT
42108 CTTAAATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 13 0.34
6 21 0.55
7 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TTATAT
Found at i:42072 original size:11 final size:11
Alignment explanation
Indices: 42056--42117 Score: 72
Period size: 11 Copynumber: 5.4 Consensus size: 11
42046 AAGTATAATG
42056 TTATATTTATA
1 TTATATTTATA
42067 TTATATTTATA
1 TTATATTTATA
42078 TT-TATTAAATATA
1 TTATATT---TATA
42091 TTATATTTATA
1 TTATATTTATA
*
42102 TTATATCTTAAA
1 TTATAT-TTATA
42114 TTAT
1 TTAT
42118 CAAATTTAGG
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
10 4 0.09
11 23 0.51
12 8 0.18
13 6 0.13
14 4 0.09
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTATATTTATA
Found at i:42342 original size:3 final size:3
Alignment explanation
Indices: 42334--42358 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
42324 ATTAACATGG
42334 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
42359 CAAGTGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:42609 original size:2 final size:2
Alignment explanation
Indices: 42602--42642 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
42592 AACTTTATTT
*
42602 TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
42643 ATATATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:43018 original size:39 final size:40
Alignment explanation
Indices: 42947--43037 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 40
42937 AATAGATAAA
* ***
42947 AAATTTAAACGTAAAAAATAATATAATATTAATTTTTTATT
1 AAATTTAAA-ATAAAAAATAATATAATATTAATTCAATATT
* *
42988 AAATTTAAAATAAAAAATTATA-AATCTTAATTCAATATT
1 AAATTTAAAATAAAAAATAATATAATATTAATTCAATATT
*
43027 AAATTTTAAAT
1 AAATTTAAAAT
43038 TTATTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 23 0.53
40 11 0.26
41 9 0.21
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (40 bp):
AAATTTAAAATAAAAAATAATATAATATTAATTCAATATT
Found at i:43044 original size:16 final size:17
Alignment explanation
Indices: 43022--43061 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
43012 TCTTAATTCA
43022 ATATTAAATT-TTAAATT
1 ATATTAAATTATT-AATT
43039 -TATTAAATTATTAATT
1 ATATTAAATTATTAATT
43055 ATATTAA
1 ATATTAA
43062 TGTTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTAAATTATTAATT
Found at i:45178 original size:22 final size:22
Alignment explanation
Indices: 45150--45193 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
45140 AAAACTCAAG
45150 CTTGAATTTGTTATCTATGTTA
1 CTTGAATTTGTTATCTATGTTA
45172 CTTGAATTTGTTATCTATGTTA
1 CTTGAATTTGTTATCTATGTTA
45194 TTTTGACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.55
Consensus pattern (22 bp):
CTTGAATTTGTTATCTATGTTA
Found at i:45308 original size:18 final size:18
Alignment explanation
Indices: 45259--45305 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
45249 ATATGATTCT
* *
45259 TTAAAA-ATTTTTAACAA
1 TTAAAATATTTTAAAAAA
45276 TTAAAATATTTTAAAAAA
1 TTAAAATATTTTAAAAAA
45294 TTAAATATATTT
1 TTAAA-ATATTT
45306 AAATTAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 6 0.23
18 14 0.54
19 6 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAAAATATTTTAAAAAA
Found at i:45318 original size:17 final size:18
Alignment explanation
Indices: 45298--45346 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
45288 AAAAAATTAA
45298 ATATATTTAAATTAA-AT
1 ATATATTTAAATTAATAT
*
45315 ATATATTTATATTTAATAT
1 ATATATTTA-AATTAATAT
*
45334 TTATATTTAAATT
1 ATATATTTAAATT
45347 TAAGTAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.33
18 8 0.30
19 10 0.37
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATATTTAAATTAATAT
Found at i:45333 original size:13 final size:13
Alignment explanation
Indices: 45317--45348 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
45307 AATTAAATAT
45317 ATATTTATATTTA
1 ATATTTATATTTA
45330 ATATTTATATTTA
1 ATATTTATATTTA
45343 A-ATTTA
1 ATATTTA
45349 AGTAACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATTTATATTTA
Found at i:45688 original size:11 final size:11
Alignment explanation
Indices: 45672--45714 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
45662 TAATATTTAA
*
45672 AATATAATTAT
1 AATATAAATAT
*
45683 AATATAAAAAT
1 AATATAAATAT
45694 AATATAAATAT
1 AATATAAATAT
*
45705 TATATAAATA
1 AATATAAATA
45715 CGTAAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATATAAATAT
Found at i:45713 original size:20 final size:20
Alignment explanation
Indices: 45644--45714 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 20
45634 TTTAATTTAT
45644 TAAAT-TTATATAAAT-ATA
1 TAAATATTATATAAATAATA
*
45662 T-AATATT-TAAAATATAAT-
1 TAAATATTATATAA-ATAATA
45680 TATAATA-TA-A-AAATAATA
1 TA-AATATTATATAAATAATA
45698 TAAATATTATATAAATA
1 TAAATATTATATAAATA
45715 CGTAAATTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 18
0.69 0.02 0.30
Matches are distributed among these distances:
17 16 0.38
18 12 0.29
19 5 0.12
20 9 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATATTATATAAATAATA
Found at i:50024 original size:24 final size:22
Alignment explanation
Indices: 49968--50053 Score: 63
Period size: 24 Copynumber: 3.9 Consensus size: 22
49958 TTTCATGTGC
49968 AAATATAAAT-TTTAAAATTAT
1 AAATATAAATATTTAAAATTAT
* *
49989 AAATATTTAATATTTAAAATTTTT
1 AAATA-TAAATATTTAAAA-TTAT
**
50013 AAATATCAAATAAAT-AAA--AT
1 AAATAT-AAATATTTAAAATTAT
50033 AAATATAAAATATTTTAAAAT
1 AAATAT-AAATA-TTTAAAAT
50054 GTAGTAATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
20 12 0.24
21 6 0.12
22 7 0.14
23 11 0.22
24 13 0.27
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATATAAATATTTAAAATTAT
Found at i:50214 original size:26 final size:26
Alignment explanation
Indices: 50145--50216 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 26
50135 AAAGTAAAGC
* *
50145 AATAAAAATTAGAAATTAGTTTAAAAA
1 AATATAAATTAGAAATT-TTTTAAAAA
*
50172 AAT-TAAATAAGAGAATTTTTTAAAAAA
1 AATATAAATTAGA-AATTTTTT-AAAAA
50199 AATATAAATTA-AAATTTT
1 AATATAAATTAGAAATTTT
50217 GTACCAACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 16 0.42
27 16 0.42
28 6 0.16
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (26 bp):
AATATAAATTAGAAATTTTTTAAAAA
Found at i:56299 original size:19 final size:20
Alignment explanation
Indices: 56255--56301 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
56245 GATTGATTTT
56255 AATTATTATTTAATAATTAA
1 AATTATTATTTAATAATTAA
* *
56275 AA-TATTATTT-TTATTTAA
1 AATTATTATTTAATAATTAA
56293 AATTATTAT
1 AATTATTAT
56302 AAAAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 14 0.58
20 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTATTATTTAATAATTAA
Found at i:56324 original size:22 final size:21
Alignment explanation
Indices: 56290--56330 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
56280 TATTTTTATT
*
56290 TAAAATTATTATAAAAATATA
1 TAAAATTAATATAAAAATATA
56311 TAAATATTAATATAAAAATA
1 TAAA-ATTAATATAAAAATA
56331 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAATTAATATAAAAATATA
Found at i:56979 original size:3 final size:3
Alignment explanation
Indices: 56971--57010 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
56961 TTTATGAACT
56971 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
57011 CCCTTTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:57649 original size:15 final size:14
Alignment explanation
Indices: 57605--57642 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
57595 TCAACAAATT
*
57605 TTTAAAATTTAA-A
1 TTTAAATTTTAATA
57618 TTTAAATTTTAATA
1 TTTAAATTTTAATA
57632 TTTATAATTTT
1 TTTA-AATTTT
57643 TTTATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
14 5 0.23
15 6 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTAAATTTTAATA
Found at i:61509 original size:46 final size:46
Alignment explanation
Indices: 61456--61547 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
61446 CATAGATCTC
* * * * *
61456 GAATAGAATTAGTTTCATACCGTAAAATAGATGAAAGTACTTGAAT
1 GAATAGAATTAGTCTCAGACCATAAAATAAATGAAAATACTTGAAT
*
61502 GAATAGAATTAGTCTCAGACTATAAAATAAATGAAAATACTTGAAT
1 GAATAGAATTAGTCTCAGACCATAAAATAAATGAAAATACTTGAAT
61548 AAAAAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.29
Consensus pattern (46 bp):
GAATAGAATTAGTCTCAGACCATAAAATAAATGAAAATACTTGAAT
Found at i:61615 original size:142 final size:143
Alignment explanation
Indices: 61357--61639 Score: 451
Period size: 142 Copynumber: 2.0 Consensus size: 143
61347 CCATAGATCC
*
61357 TGAATAGAATTAGTTTCAAACTATAAAATAAATGAAAATACTTAAATAAAAAAAAAAATCAAACT
1 TGAATAGAATTAGTCTCAAACTATAAAATAAATGAAAATACTTAAAT-AAAAAAAAAATCAAACT
* * *
61422 AGCATACTTTTAAGGAGCAATAACCATAGATCTCGAATAGAATTAGTTTCATACCGTAAAATAGA
65 AGCATACTTTTAAGGAGCAATAACCATAGATCCCGAATAAAATTAGTTTCATACCGAAAAATAGA
61487 TGAAAGTACTTGAA
130 TGAAAGTACTTGAA
* * *
61501 TGAATAGAATTAGTCTCAGACTATAAAATAAATGAAAATACTTGAAT-AAAAAAAAATTAAACTA
1 TGAATAGAATTAGTCTCAAACTATAAAATAAATGAAAATACTTAAATAAAAAAAAAATCAAACTA
* * * *
61565 GCATACTTTTAGGGAGCAATAGCCATATATCCCGAATAAAATTAGTTTCATACCGAAAAATATAT
66 GCATACTTTTAAGGAGCAATAACCATAGATCCCGAATAAAATTAGTTTCATACCGAAAAATAGAT
61630 GAAAGTACTT
131 GAAAGTACTT
61640 TAATAAAAAC
Statistics
Matches: 128, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
142 84 0.66
144 44 0.34
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.28
Consensus pattern (143 bp):
TGAATAGAATTAGTCTCAAACTATAAAATAAATGAAAATACTTAAATAAAAAAAAAATCAAACTA
GCATACTTTTAAGGAGCAATAACCATAGATCCCGAATAAAATTAGTTTCATACCGAAAAATAGAT
GAAAGTACTTGAA
Found at i:61793 original size:57 final size:58
Alignment explanation
Indices: 61694--61812 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 58
61684 GATTTTAAGA
** * *
61694 TTATATTATGTTAAATTTTAATTTAATATAAAATAAAATTTTTATAGTTTAAAGATAG
1 TTATATTATGTTAAAAATTAATTTAATATAAAATAAAATTTTTATAATTTAAAGACAG
* * * *
61752 TTATGTTATGTTAAAAATTAA-TTAATATCAAATAAATTTTTTATAATTTAAGGACAG
1 TTATATTATGTTAAAAATTAATTTAATATAAAATAAAATTTTTATAATTTAAAGACAG
61809 TTAT
1 TTAT
61813 TCATTCAATC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 35 0.66
58 18 0.34
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (58 bp):
TTATATTATGTTAAAAATTAATTTAATATAAAATAAAATTTTTATAATTTAAAGACAG
Found at i:62478 original size:20 final size:20
Alignment explanation
Indices: 62455--62527 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
62445 ACAATTCAAA
62455 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
62475 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
62496 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
62516 GTATCGATACAT
1 GTATCGATACAT
62528 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:62499 original size:21 final size:21
Alignment explanation
Indices: 62473--62548 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
62463 ACATGTTGCA
62473 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
62494 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
62514 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
62535 ATGTATCGATACAT
1 ATGTATCGATACAT
62549 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:62506 original size:41 final size:41
Alignment explanation
Indices: 62455--62548 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
62445 ACAATTCAAA
*
62455 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
62496 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
62537 GTATCGATACAT
1 GTATCGATACAT
62549 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:62605 original size:13 final size:13
Alignment explanation
Indices: 62587--62612 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62577 TACAGCAAGT
62587 ATGTATCGATACA
1 ATGTATCGATACA
62600 ATGTATCGATACA
1 ATGTATCGATACA
62613 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:66695 original size:15 final size:15
Alignment explanation
Indices: 66675--66713 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
66665 TAAAAATGTC
*
66675 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
66690 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
66705 CCAAATGAA
1 CAAAATGAA
66714 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:68798 original size:20 final size:21
Alignment explanation
Indices: 68719--68797 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
68709 AATGTCCAAA
*
68719 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
68739 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
68764 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
68784 TTGTATCGATACAT
1 ATGTATCGATACAT
68798 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:68802 original size:13 final size:13
Alignment explanation
Indices: 68784--68822 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
68774 ACATTTTTCT
68784 TTGTATCGATACA
1 TTGTATCGATACA
68797 TTGTATCGATACA
1 TTGTATCGATACA
*
68810 CTGTATCGATACA
1 TTGTATCGATACA
68823 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:71297 original size:20 final size:20
Alignment explanation
Indices: 71274--71346 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
71264 ACAATTCAAA
71274 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
71294 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
71315 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
71335 GTATCGATACAT
1 GTATCGATACAT
71347 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:71318 original size:21 final size:21
Alignment explanation
Indices: 71292--71367 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
71282 ACATGTTGCA
71292 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
71313 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
71333 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
71354 ATGTATCGATACAT
1 ATGTATCGATACAT
71368 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:71325 original size:41 final size:41
Alignment explanation
Indices: 71274--71367 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
71264 ACAATTCAAA
*
71274 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
71315 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
71356 GTATCGATACAT
1 GTATCGATACAT
71368 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:71424 original size:13 final size:13
Alignment explanation
Indices: 71406--71431 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71396 TACAGCAAGT
71406 ATGTATCGATACA
1 ATGTATCGATACA
71419 ATGTATCGATACA
1 ATGTATCGATACA
71432 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:73086 original size:27 final size:27
Alignment explanation
Indices: 73030--73082 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
73020 TTATGTTTTA
73030 AAATTTTAAAAATTGAATAAATTAAAT
1 AAATTTTAAAAATTGAATAAATTAAAT
73057 AAATTTTAAAAATT-AATTAAA-TAAAT
1 AAATTTTAAAAATTGAA-TAAATTAAAT
73083 TAAAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
AAATTTTAAAAATTGAATAAATTAAAT
Found at i:73093 original size:27 final size:28
Alignment explanation
Indices: 73027--73095 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
73017 CGATTATGTT
73027 TTAAAATTTTAAAAATTGAATAAATTAAA
1 TTAAAA-TTTAAAAATTGAATAAATTAAA
*
73056 -TAAATTTTAAAAATT-AATTAAA-TAAA
1 TTAAAATTTAAAAATTGAA-TAAATTAAA
*
73082 TTAAAATATAAAAA
1 TTAAAATTTAAAAA
73096 AATTAATTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 6 0.17
27 25 0.71
28 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (28 bp):
TTAAAATTTAAAAATTGAATAAATTAAA
Found at i:74139 original size:27 final size:27
Alignment explanation
Indices: 74059--74139 Score: 103
Period size: 26 Copynumber: 3.0 Consensus size: 27
74049 CTGAGCTCTC
74059 AAAGTAAGGAGCTTAGTATATATATAT
1 AAAGTAAGGAGCTTAGTATATATATAT
* **
74086 AAAGT-AGGAG-TAATGTATACGTATAT
1 AAAGTAAGGAGCTTA-GTATATATATAT
*
74112 AAAGTAAGGAGCTTAGTATATATGTAT
1 AAAGTAAGGAGCTTAGTATATATATAT
74139 A
1 A
74140 TATATACATA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
25 2 0.05
26 20 0.45
27 20 0.45
28 2 0.05
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (27 bp):
AAAGTAAGGAGCTTAGTATATATATAT
Found at i:75676 original size:2 final size:2
Alignment explanation
Indices: 75669--75705 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
75659 TAATATAACC
*
75669 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
75706 CATAATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:75829 original size:2 final size:2
Alignment explanation
Indices: 75822--75851 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
75812 GCCAAAAGAA
75822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75852 GTAAAAGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76984 original size:21 final size:21
Alignment explanation
Indices: 76960--77002 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
76950 GATGATGAGC
76960 ATGATGATA-AAGA-CGATGAAG
1 ATGATG-TAGAAGACCGA-GAAG
76981 ATGATGTAGAAGACCGAGAAG
1 ATGATGTAGAAGACCGAGAAG
77002 A
1 A
77003 AGAAGGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.10
21 15 0.75
22 3 0.15
ACGTcount: A:0.47, C:0.07, G:0.30, T:0.16
Consensus pattern (21 bp):
ATGATGTAGAAGACCGAGAAG
Found at i:78289 original size:47 final size:45
Alignment explanation
Indices: 78198--78289 Score: 107
Period size: 47 Copynumber: 2.0 Consensus size: 45
78188 TCAATACGGT
**
78198 AAAAATATATATATATATATATATAATATAAATATGATTTATTTA
1 AAAAATATATATATATATATATATAATATAAATATGATAAATTTA
*
78243 AAAAATATAATATGATATGTATAACTATAAT-T-AATATGATAAATTTA
1 AAAAATAT-ATAT-ATATATAT-A-TATAATATAAATATGATAAATTTA
78290 TAAATATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
45 8 0.20
46 4 0.10
47 20 0.50
48 2 0.05
49 6 0.15
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (45 bp):
AAAAATATATATATATATATATATAATATAAATATGATAAATTTA
Found at i:78321 original size:24 final size:23
Alignment explanation
Indices: 78294--78349 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
78284 AATTTATAAA
* *
78294 TATTTATTATGTTTAAAGATTATT
1 TATTTATTAT-TTTAAAAATAATT
*
78318 TATTTATCATTTTAAAAATAATT
1 TATTTATTATTTTAAAAATAATT
*
78341 TTTTTATTA
1 TATTTATTA
78350 ATTTCAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (23 bp):
TATTTATTATTTTAAAAATAATT
Found at i:79246 original size:17 final size:18
Alignment explanation
Indices: 79224--79257 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
79214 AAAGAAAGAA
79224 GATGAAAAA-AAAAAAAG
1 GATGAAAAAGAAAAAAAG
79241 GATGAAAAAGAAAAAAA
1 GATGAAAAAGAAAAAAA
79258 AAACCTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (18 bp):
GATGAAAAAGAAAAAAAG
Found at i:79254 original size:16 final size:16
Alignment explanation
Indices: 79214--79255 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
79204 ATTAGGTAAG
79214 AAAGAAAGAAGATGAAA
1 AAAGAAA-AAGATGAAA
*
79231 AAAAAAAAAGGATG-AA
1 AAAGAAAAA-GATGAAA
79247 AAAGAAAAA
1 AAAGAAAAA
79256 AAAAACCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (16 bp):
AAAGAAAAAGATGAAA
Found at i:80982 original size:97 final size:97
Alignment explanation
Indices: 80856--81068 Score: 286
Period size: 97 Copynumber: 2.2 Consensus size: 97
80846 CTCTGAGAGA
*
80856 ATACTCCAACCTCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCACCAT
1 ATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCACCAT
* * *
80921 C-AGGGACACT-TCAACCCCATTCTTGCGAGGGG
66 CGA-GGACACTCT-AACCCCATTCCTCCAAGGGG
* ** * *
80953 ATACTCTAACCCCGCTTTTAAACGTATCAAAGTTTAAATTTTATTCTCACTTAAATTGTCATCAT
1 ATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCACCAT
*
81018 CGAGGACACTCTAACCCCGTTCCTCCAAGGGG
66 CGAGGACACTCTAACCCCATTCCTCCAAGGGG
* *
81050 ATACTCCAATCCCGTTTTT
1 ATACTCCAACCCCGCTTTT
81069 CAATCAAAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
97 99 0.98
98 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.32
Consensus pattern (97 bp):
ATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTTAAATTGTCACCAT
CGAGGACACTCTAACCCCATTCCTCCAAGGGG
Found at i:85971 original size:27 final size:27
Alignment explanation
Indices: 85936--86887 Score: 1087
Period size: 28 Copynumber: 34.6 Consensus size: 27
85926 CTGTGGTATT
*
85936 CCTTTTAAGTTCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
85963 TCTTTTAAGTCCACAACTCCGTAGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* ** * *
85990 ACTTTTAAGTCCACAGTTTCGTGGCAA
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
86017 TCTTTTAAAGTCCACAATTCTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* *
86045 CCTTTTAAAGTCTACAACTCCGTGGCAA
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* *
86073 CATTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * * *
86100 CCTTTAAAGTCGACAACTTCGTGGTAA
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
86127 CCTTTTAAAGTCCACAACTCCATGGCAA
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
86155 CCTTTTAATGTCCACAATTCCGTGGCAC
1 CCTTTTAA-GTCCACAACTCCGTGGCAC
*
86183 CCTTTTAAAGTCCACAATTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
86211 CCTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
86238 CCTTTTTAAGTCCACAACTCCGTAGCAA
1 CC-TTTTAAGTCCACAACTCCGTGGCAC
* *
86266 CCTTTGAAGTCCACAACTCCGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
86293 CCTTTTAAGTCCATAACTTCATGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
86320 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
86348 CCTTTTAAAGTCCACAACTCCGTGGCA-
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
86375 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
86403 CCTTTTAAAATCTACAACTCCGTGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* * * *
86431 CCTTTTAAAATCTACAACTCCATGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
86459 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
86487 CCTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
86514 CCTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* ** *
86541 CCTTTAAAGTCCACAACTCTATGGTAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
86568 CCTTTAAAGTCCACAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* * *
86595 CTTTTTAAAGTCCATAACTCTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* * * *
86623 CCTTTTAAGTTCATAACTCTGTGGCAT
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
86650 CCTTTTAAAGTCCACAACTCCGTGGAAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* *
86678 TCTTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
86705 CCTTTTAAAGTCCATAACTCTGTGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
** * *
86733 CCTTTTAAAGTCTGCAACTCCATGGCAT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
* *
86761 CCTTTTAAGTCCATAACTTCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
* *
86788 TCTTTTAAAGTCCACAACTCCATGGCAC
1 CCTTTT-AAGTCCACAACTCCGTGGCAC
*
86816 CCTTTTATAGTCCACAACTCCATGGCAC
1 CCTTTTA-AGTCCACAACTCCGTGGCAC
*
86844 CCTTTTAAGTCCACAACTCCATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCAC
*
86871 CCTTTTAAAGCCCACAA
1 CCTTTT-AAGTCCACAA
86888 GTTAGTGACA
Statistics
Matches: 804, Mismatches: 108, Indels: 25
0.86 0.12 0.03
Matches are distributed among these distances:
27 390 0.49
28 412 0.51
29 2 0.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:86083 original size:55 final size:55
Alignment explanation
Indices: 85936--86887 Score: 1139
Period size: 55 Copynumber: 17.3 Consensus size: 55
85926 CTGTGGTATT
* * *
85936 CCTTTT-AAGTTCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTAGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
* ** * ** * *
85990 ACTTTT-AAGTCCACAGTTTCGTGGCAATCTTTTAAAGTCCACAATTCTGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * *
86045 CCTTTTAAAGTCTACAACTCCGTGGCAACATTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * *
86100 CC-TTTAAAGTCGACAACTTCGTGGTAACCTTTTAAAGTCCACAACTCCATGGCAA
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
86155 CCTTTTAATGTCCACAATTCCGTGGCACCCTTTTAAAGTCCACAATTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAC
* *
86211 CC-TTTAAAGTCCACAACTCCGTGGCACCCTTTTTAAGTCCACAACTCCGTAGCAA
1 CCTTTTAAAGTCCACAACTCCGTGGCACCC-TTTTAAGTCCACAACTCCGTGGCAC
* * * * * *
86266 CC-TTTGAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTTCATGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
86320 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
86375 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAATCTACAACTCCGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * *
86431 CCTTTTAAAATCTACAACTCCATGGCATCCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAC
*
86487 CC-TTTAAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
** * * *
86541 CC-TTTAAAGTCCACAACTCTATGGTACCCTTTAAAGTCCACAACTTCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
* * * * * * *
86595 CTTTTTAAAGTCCATAACTCTGTGGCACCCTTTTAAGTTCATAACTCTGTGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
86650 CCTTTTAAAGTCCACAACTCCGTGGAACTCTTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
* * ** * *
86705 CCTTTTAAAGTCCATAACTCTGTGGCACCCTTTTAAAGTCTGCAACTCCATGGCAT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAC
* * * *
86761 CCTTTT-AAGTCCATAACTTCGTGGCACTCTTTTAAAGTCCACAACTCCATGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAC
* * *
86816 CCTTTTATAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCCATGGCAC
1 CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
*
86871 CCTTTTAAAGCCCACAA
1 CCTTTTAAAGTCCACAA
86888 GTTAGTGACA
Statistics
Matches: 777, Mismatches: 110, Indels: 21
0.86 0.12 0.02
Matches are distributed among these distances:
54 148 0.19
55 446 0.57
56 183 0.24
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (55 bp):
CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:86914 original size:83 final size:83
Alignment explanation
Indices: 85936--86887 Score: 1104
Period size: 83 Copynumber: 11.5 Consensus size: 83
85926 CTGTGGTATT
* * * * *
85936 CCTTTTAAGTTCACAACTCCGTGGCACTCTTTT-AAGTCCACAACTCCGTAGCACACTTTT-AAG
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCAGTGGCACCCTTTTAAAG
** * *
85999 TCCACAGTTTCGTGGCAA
66 TCCACAACTCCGTGGCAC
* * * * * * *
86017 TCTTTTAAAGTCCACAATTCTGTGGCACCCTTTTAAAGTCTACAACTCCGTGGCAACATTTT-AA
1 CCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCAGTGGCACCCTTTTAAA
*
86081 GTCCACAACTCTGTGGCAC
65 GTCCACAACTCCGTGGCAC
* * * * * * *
86100 CCTTTAAAGTCGACAACTTCGTGGTAACCTTTTAAAGTCCACAACTCCA-TGGCAACCTTTTAAT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACT-CAGTGGCACCCTTTTAAA
*
86164 GTCCACAATTCCGTGGCAC
65 GTCCACAACTCCGTGGCAC
* * *
86183 CCTTTTAAAGTCCACAATTCCGTGGCACCC-TTTAAAGTCCACAACTCCGTGGCACCCTTTTTAA
1 CCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCAGTGGCACCCTTTTAAA
* *
86247 GTCCACAACTCCGTAGCAA
65 GTCCACAACTCCGTGGCAC
* * * *
86266 CCTTTGAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCATAACTTCA-TGGCATCCTTTTAAA
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAAC-TCAGTGGCACCCTTTTAAA
86329 GTCCACAACTCCGTGGCAC
65 GTCCACAACTCCGTGGCAC
*
86348 CCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAA
1 CCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCAGTGGCACCCTTTTAAA
* * *
86412 ATCTACAACTCCGTGGCAT
65 GTCCACAACTCCGTGGCAC
* * * * *
86431 CCTTTTAAAATCTACAACTCCATGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCC-TTTAAA
1 CCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCAGTGGCACCCTTTTAAA
86495 GTCCACAACTCCGTGGCAC
65 GTCCACAACTCCGTGGCAC
* *
86514 CCTTTAAAGTCCACAACTCCGTGGCACCC-TTTAAAGTCCACAACTCTA-TGGTACCC-TTTAAA
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTC-AGTGGCACCCTTTTAAA
*
86576 GTCCACAACTTCGTGGCAC
65 GTCCACAACTCCGTGGCAC
* * * * * * *
86595 CTTTTTAAAGTCCATAACTCTGTGGCACCCTTTT-AAGTTCATAACTCTGTGGCATCCTTTTAAA
1 CCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCAGTGGCACCCTTTTAAA
*
86659 GTCCACAACTCCGTGGAAC
65 GTCCACAACTCCGTGGCAC
* * * *
86678 TCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAAGTCCATAACTCTGTGGCACCCTTTTAAAG
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCAGTGGCACCCTTTTAAAG
** * *
86743 TCTGCAACTCCATGGCAT
66 TCCACAACTCCGTGGCAC
* * * *
86761 CCTTTTAAGTCCATAACTTCGTGGCACTCTTTTAAAGTCCACAACTCCA-TGGCACCCTTTTATA
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACT-CAGTGGCACCCTTTTAAA
*
86825 GTCCACAACTCCATGGCAC
65 GTCCACAACTCCGTGGCAC
* *
86844 CCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAAGCCCACAA
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAA
86888 GTTAGTGACA
Statistics
Matches: 741, Mismatches: 111, Indels: 36
0.83 0.12 0.04
Matches are distributed among these distances:
81 57 0.08
82 223 0.30
83 412 0.56
84 49 0.07
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (83 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCAGTGGCACCCTTTTAAAG
TCCACAACTCCGTGGCAC
Found at i:86941 original size:32 final size:32
Alignment explanation
Indices: 86898--87106 Score: 296
Period size: 32 Copynumber: 6.5 Consensus size: 32
86888 GTTAGTGACA
* *
86898 TCATTTCAAAGCCCACACAAGTCGGTAGCAAC
1 TCATTTTAAAGCCCACACAAGTCGGTGGCAAC
86930 TCATTTTAAAGCCCACACAAGTCGGTGGCAAC
1 TCATTTTAAAGCCCACACAAGTCGGTGGCAAC
*
86962 TCATTTTAAAGCCCATACAAGTCGGTGGCAAC
1 TCATTTTAAAGCCCACACAAGTCGGTGGCAAC
* * *
86994 TCATTTGAAAGCCCACATAAGTTGGTGGCAAC
1 TCATTTTAAAGCCCACACAAGTCGGTGGCAAC
* *
87026 -CAATTTCAAAGCCTACACAAGTCGGTGGCAAC
1 TC-ATTTTAAAGCCCACACAAGTCGGTGGCAAC
*
87058 TCATTTTAAAGCCCACTCAAGTCGGTGGCAAC
1 TCATTTTAAAGCCCACACAAGTCGGTGGCAAC
*
87090 CCATTTCT-AAGCCCACA
1 TCATTT-TAAAGCCCACA
87107 AGTTAGTGTC
Statistics
Matches: 158, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
31 1 0.01
32 155 0.98
33 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (32 bp):
TCATTTTAAAGCCCACACAAGTCGGTGGCAAC
Found at i:87130 original size:28 final size:28
Alignment explanation
Indices: 86010--87418 Score: 372
Period size: 28 Copynumber: 49.8 Consensus size: 28
86000 CCACAGTTTC
* *
86010 GTGGCAAT-CTTTTAAAGTCCACAA-TTCT
1 GTGGC-ATCCTTTTAAAGCCCACAAGTT-A
* * * * **
86038 GTGGCACCCTTTTAAAGTCTACAACTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * * *
86066 GTGGCAACATTTT-AAGTCCACAACTCT-
1 GTGGCATCCTTTTAAAGCCCACAAGT-TA
* * * * *
86093 GTGGCA-CCCTTTAAAGTCGACAACTTC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * *
86120 GTGGTAACCTTTTAAAGTCCACAACTCCA
1 GTGGCATCCTTTTAAAGCCCACAAGT-TA
* * * *
86149 -TGGCAACCTTTTAATGTCCACAA-TTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTT-A
* * *
86176 GTGGCACCCTTTTAAAGTCCACAA-TTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTT-A
* * * **
86204 GTGGCA-CCCTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * **
86231 GTGGCACCCTTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * * **
86259 GTAGCAACC-TTTGAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * *
86286 GTGGCATCCTTTT-AAGTCCATAACTTCA
1 GTGGCATCCTTTTAAAGCCCACAAGTT-A
* * **
86314 -TGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * * **
86341 GTGGCACCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * **
86369 GTGGCA-CCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* ** * * **
86396 GTGGCACCCTTTTAAAATCTACAACTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
** * * *
86424 GTGGCATCCTTTTAAAATCTACAACTCCA
1 GTGGCATCCTTTTAAAGCCCACAAGT-TA
* * **
86453 -TGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * * **
86480 GTGGCA-CCCTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * * **
86507 GTGGCA-CCCTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * *
86534 GTGGCA-CCCTTTAAAGTCCACAACTCTA
1 GTGGCATCCTTTTAAAGCCCACAAGT-TA
* * * * *
86562 -TGGTA-CCCTTTAAAGTCCACAACTTC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * *
86588 GTGGCA-CCTTTTTAAAGTCCATAACTCT-
1 GTGGCATCC-TTTTAAAGCCCACAAGT-TA
* ** * *
86616 GTGGCACCCTTTT-AAGTTCATAACTCT-
1 GTGGCATCCTTTTAAAGCCCACAAGT-TA
* * **
86643 GTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * **
86671 GTGG-AACTCTTTT-AAGCCCACAACTCC
1 GTGGCATC-CTTTTAAAGCCCACAAGTTA
* * * *
86698 GTGGCACCCTTTTAAAGTCCATAACTCT-
1 GTGGCATCCTTTTAAAGCCCACAAGT-TA
* * ** * *
86726 GTGGCACCCTTTTAAAGTCTGCAACTCCA
1 GTGGCATCCTTTTAAAGCCCACAAGT-TA
* * * *
86755 -TGGCATCCTTTT-AAGTCCATAACTTC
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * *
86781 GTGGCA-CTCTTTTAAAGTCCACAACTCCA
1 GTGGCATC-CTTTTAAAGCCCACAAGT-TA
* * * * *
86810 -TGGCACCCTTTTATAGTCCACAACTCCA
1 GTGGCATCCTTTTAAAGCCCACAAGT-TA
* * * *
86838 -TGGCACCCTTTT-AAGTCCACAACTCCA
1 GTGGCATCCTTTTAAAGCCCACAAGT-TA
*
86865 -TGGCACCCTTTTAAAGCCCACAAGTTA
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * * **
86892 GTGACATCATTTCAAAGCCCACACAAGTCG
1 GTGGCATCCTTTTAAAG-CC-CACAAGTTA
* * **
86922 GTAGCAACTCATTTTAAAGCCCACACAAGTCG
1 GTGGC-A-TCCTTTTAAAG-CC-CACAAGTTA
* **
86954 GTGGCAACTCATTTTAAAGCCCATACAAGTCG
1 GTGGC-A-TCCTTTTAAAGCCC--ACAAGTTA
* * *
86986 GTGGCAACTCATTTGAAAGCCCACATAAGTTG
1 GTGGC-A-TCCTTTTAAAGCCCAC--AAGTTA
* * **
87018 GTGGCAACCAATTTCAAAGCCTACACAAGTCG
1 GTGGCATCC--TTTTAAAGCC--CACAAGTTA
* **
87050 GTGGCAACTCATTTTAAAGCCCACTCAAGTCG
1 GTGGC-A-TCCTTTTAAAGCCCA--CAAGTTA
*
87082 GTGGCAACCCATTTCT-AAGCCCACAAGTTA
1 GTGGC-ATCC-TTT-TAAAGCCCACAAGTTA
*
87112 GTGTCATCCTTTTAAAGCCCACAAGTTA
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * *
87140 GTGGTATCATTTCAAAGTCCACAAGTCA
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
87168 GTGGCATACCCTTTTAAAGCCCACAAGTTA
1 GTGGCAT--CCTTTTAAAGCCCACAAGTTA
*
87198 GTGGCA-CCTTTTCAAAGCCCACAATTTA
1 GTGGCATCCTTTT-AAAGCCCACAAGTTA
*
87226 GTGGCAT-CTTTTCAAAGCCCATAAGTTA
1 GTGGCATCCTTTT-AAAGCCCACAAGTTA
** * * *
87254 GTGGCATCCTTCAAAAGTCCATAAGTCA
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* *
87282 ATGGCAT-CTTTTCAAAGCCTACAAGTTA
1 GTGGCATCCTTTT-AAAGCCCACAAGTTA
** * *
87310 GTGGCATCCTTCAAAAGTCCACAAGTCA
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * *
87338 ATGGCATCATTTTAAAGCCCACAAGTCA
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * *
87366 GTGGCATCATTTCAAAGCTCACAAATTG
1 GTGGCATCCTTTTAAAGCCCACAAGTTA
* *
87394 GTGGCAACTCATTTCAAAGCCCACA
1 GTGGC-A-TCCTTTTAAAGCCCACA
87419 CTGTCGCAAC
Statistics
Matches: 1166, Mismatches: 150, Indels: 128
0.81 0.10 0.09
Matches are distributed among these distances:
26 7 0.01
27 339 0.29
28 595 0.51
29 18 0.02
30 64 0.05
31 5 0.00
32 132 0.11
33 2 0.00
34 4 0.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
GTGGCATCCTTTTAAAGCCCACAAGTTA
Found at i:87163 original size:56 final size:56
Alignment explanation
Indices: 86010--87382 Score: 447
Period size: 55 Copynumber: 24.3 Consensus size: 56
86000 CCACAGTTTC
* * * * * * * **
86010 GTGGCAATC-TTTTAAAGTCCACAATTCTGTGGCACCCTTTTAAAGTCTACAACTCC
1 GTGGC-ATCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * * * * * *
86066 GTGGCAACATTT-TAAGTCCACAACTCTGTGGCA-CCCTTTAAAGTCGACAACTTC
1 GTGGCATCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * * * * * *
86120 GTGGTAACCTTTTAAAGTCCACAACTCCA-TGGCAACCTTTTAATGTCCACAA-TTCC
1 GTGGCATCATTTCAAAGTCCACAAGT-CAGTGGCATCCTTTTAAAGCCCACAAGTT-A
* * * * * * * * **
86176 GTGGCACCCTTTTAAAGTCCACAATTCCGTGGCA-CCCTTTAAAGTCCACAACTCC
1 GTGGCATCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTTA
* * ** * * * * * * * **
86231 GTGGCACCCTTTTTAAGTCCACAACTCCGTAGCAACC-TTTGAAGTCCACAACTCC
1 GTGGCATCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * * * **
86286 GTGGCATCCTTT-TAAGTCCATAACTTCA-TGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCATTTCAAAGTCCACAA-GTCAGTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * * * * **
86341 GTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCC
1 GTGGCATCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * * * * ** * * *
86396 GTGGCACCCTTTTAAAATCTACAACTCCGTGGCATCCTTTTAAAATCTACAACTCCA
1 GTGGCATCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGT-TA
* * * * * * * **
86453 -TGGCATCCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTAAAGTCCACAACTCC
1 GTGGCATCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * * * *
86507 GTGGCACCCTTT-AAAGTCCACAACTCCGTGGCA-CCCTTTAAAGTCCACAACTCTA
1 GTGGCATCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGT-TA
* * * * * * *
86562 -TGGTACCCTTT-AAAGTCCACAACTTC-GTGGCA-CCTTTTTAAAGTCCATAACTCT-
1 GTGGCATCATTTCAAAGTCCACAA-GTCAGTGGCATCC-TTTTAAAGCCCACAAGT-TA
* * * * * * * * * **
86616 GTGGCACCCTTT-TAAGTTCATAACTCTGTGGCATCCTTTTAAAGTCCACAACTCC
1 GTGGCATCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * * * * * *
86671 GTGGAACTC-TTT-TAAGCCCACAACTCCGTGGCACCCTTTTAAAGTCCATAACTCT-
1 GTGGCA-TCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGT-TA
* * * ** * * * * *
86726 GTGGCACCCTTTTAAAGTCTGCAACTCCA-TGGCATCCTTTT-AAGTCCATAACTTC
1 GTGGCATCATTTCAAAGTCCACAAGT-CAGTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * * * *
86781 GTGGCACTC-TTTTAAAGTCCACAACTCCA-TGGCACCCTTTTATAGTCCACAACTCCA
1 GTGGCA-TCATTTCAAAGTCCACAAGT-CAGTGGCATCCTTTTAAAGCCCACAAGT-TA
* * * * *
86838 -TGGCACCCTTT-TAAGTCCACAACTCCA-TGGCACCCTTTTAAAGCCCACAAGTTA
1 GTGGCATCATTTCAAAGTCCACAAGT-CAGTGGCATCCTTTTAAAGCCCACAAGTTA
* * * * * **
86892 GTGACATCATTTCAAAGCCCACACAAGTCGGTAGCAACTCATTTTAAAGCCCACACAAGTCG
1 GTGGCATCATTTCAAAG-TC-CACAAGTCAGTGGC-A-TCCTTTTAAAG-CC-CACAAGTTA
* * * * * *
86954 GTGGCAACTCATTTTAAAGCCCATACAAGTCGGTGGCAACTCATTTGAAAGCCCACATAAGTTG
1 GTGGC-A-TCATTTCAAAGTCC--ACAAGTCAGTGGC-A-TCCTTTTAAAGCCCAC--AAGTTA
* * * * **
87018 GTGGCAACCAATTTCAAAGCCTACACAAGTCGGTGGCAACTCATTTTAAAGCCCACTCAAGTCG
1 GTGGC-ATC-ATTTCAAAG--TCCACAAGTCAGTGGC-A-TCCTTTTAAAGCCCA--CAAGTTA
* * * * *
87082 GTGGCAACCCATTTCTAAGCCCACAAGTTAGTGTCATCCTTTTAAAGCCCACAAGTTA
1 GTGGC-A-TCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTTA
*
87140 GTGGTATCATTTCAAAGTCCACAAGTCAGTGGCATACCCTTTTAAAGCCCACAAGTTA
1 GTGGCATCATTTCAAAGTCCACAAGTCAGTGGCAT--CCTTTTAAAGCCCACAAGTTA
* * * * * *
87198 GTGGCACCTTTTCAAAGCCCACAATTTAGTGGCAT-CTTTTCAAAGCCCATAAGTTA
1 GTGGCATCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTT-AAAGCCCACAAGTTA
* * * *
87254 GTGGCATC-CTTCAAAAGTCCATAAGTCAATGGCAT-CTTTTCAAAGCCTACAAGTTA
1 GTGGCATCATTTC-AAAGTCCACAAGTCAGTGGCATCCTTTT-AAAGCCCACAAGTTA
* * * *
87310 GTGGCATC-CTTCAAAAGTCCACAAGTCAATGGCATCATTTTAAAGCCCACAAGTCA
1 GTGGCATCATTTC-AAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTTA
87366 GTGGCATCATTTCAAAG
1 GTGGCATCATTTCAAAG
87383 CTCACAAATT
Statistics
Matches: 1106, Mismatches: 152, Indels: 118
0.80 0.11 0.09
Matches are distributed among these distances:
54 119 0.11
55 438 0.40
56 301 0.27
57 12 0.01
58 68 0.06
59 1 0.00
60 23 0.02
61 3 0.00
62 26 0.02
63 6 0.01
64 105 0.09
65 2 0.00
66 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (56 bp):
GTGGCATCATTTCAAAGTCCACAAGTCAGTGGCATCCTTTTAAAGCCCACAAGTTA
Found at i:89751 original size:22 final size:23
Alignment explanation
Indices: 89723--89778 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
89713 TGGACATGTT
89723 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
89745 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
89768 AAAAATGCATG
1 AAAAATGCATG
89779 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:90738 original size:20 final size:20
Alignment explanation
Indices: 90691--90765 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
90681 AAAAAGACAT
*
90691 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
90710 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
90731 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
90751 AATGTATCGATACAT
1 AATGTATCGATACAT
90766 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:90759 original size:40 final size:39
Alignment explanation
Indices: 90688--90765 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
90678 GGTAAAAAGA
* *
90688 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
90727 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
90766 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:91069 original size:64 final size:62
Alignment explanation
Indices: 90965--91358 Score: 224
Period size: 58 Copynumber: 6.5 Consensus size: 62
90955 GGTGTCTACA
* * * *
90965 CACACAAGTTGGTGACAACTCATTTGAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCC
1 CACACAAGTTAGTG-CAACTCATTTCAAAGCCCACTCAAGTCGGTGGCAACCC-TTTCAAAGCC
*
91029 CACACAAGTTAGTAGCAACCCATTTCAAAGCCCACTCAAGTCGGTGGCAACCCCTTTCAAAG-C
1 CACACAAGTTAGT-GCAACTCATTTCAAAGCCCACTCAAGTCGGTGGCAA-CCCTTTCAAAGCC
* *
91092 C-CACAAGTTAGTGGC-A-TCATTTCAAAGTCCA-T-AAGTCAGTGGCATACCCTTTCAAAGCC
1 CACACAAGTTAGT-GCAACTCATTTCAAAGCCCACTCAAGTCGGTGGCA-ACCCTTTCAAAGCC
* * * ** * *
91151 CACA-AA-TCAGTGGC-AC-CTTTTCAAAGCCCA--CAAGACAATGGC-ATCTTTTCAAAG-C
1 CACACAAGTTAGT-GCAACTCATTTCAAAGCCCACTCAAGTCGGTGGCAACCCTTTCAAAGCC
* * * * * * **
91206 C-CATAAGTCAGTGGCATC-CTTTTTAAAGCCCA-T-AAGTCAGT-G-ATATTCTTTCAAAGCC
1 CACACAAGTTAGT-GCAACTCATTTCAAAGCCCACTCAAGTCGGTGGCA-ACCCTTTCAAAGCC
** * * *
91264 CACACAAGTCGGTGTCAACTCTTTTTTCAAAG--C-CTGCAAGTCAGTGGC-ACTCTTTCAAAGC
1 CACACAAGTTAGTG-CAACTC--ATTTCAAAGCCCACT-CAAGTCGGTGGCAACCCTTTCAAAGC
91325 C
62 C
* *
91326 CACACAAAGTTGGTGGCAACTCTTTTCAAAGCC
1 CACAC-AAGTTAGT-GCAACTCATTTCAAAGCC
91359 TACATAAGTT
Statistics
Matches: 274, Mismatches: 28, Indels: 57
0.76 0.08 0.16
Matches are distributed among these distances:
54 2 0.01
55 4 0.01
56 19 0.07
57 30 0.11
58 54 0.20
59 18 0.07
60 18 0.07
61 10 0.04
62 47 0.17
63 16 0.06
64 52 0.19
65 4 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (62 bp):
CACACAAGTTAGTGCAACTCATTTCAAAGCCCACTCAAGTCGGTGGCAACCCTTTCAAAGCC
Found at i:91127 original size:28 final size:28
Alignment explanation
Indices: 91051--91329 Score: 220
Period size: 28 Copynumber: 9.5 Consensus size: 28
91041 TAGCAACCCA
* * *
91051 TTTCAAAGCCCACTCAAGTCGGTGGCAACCCC
1 TTTCAAAGCCCA--CAAGTCAGTGGC-A-TCT
* *
91083 TTTCAAAGCCCACAAGTTAGTGGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
91111 TTTCAAAGTCCATAAGTCAGTGGCATACCC
1 TTTCAAAGCCCACAAGTCAGTGGCAT--CT
* *
91141 TTTCAAAGCCCACAAATCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
91169 TTTCAAAGCCCACAAGACAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
91197 TTTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCAT-CT
* * **
91226 TTTTAAAGCCCATAAGTCAGTGATAT-T
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
91253 CTTTCAAAGCCCACACAAGTCGGTGTCAACTCTTT
1 -TTTCAAAG-CC-CACAAGTCAGTGGC-A-TC--T
**
91288 TTTCAAAGCCTGCAAGTCAGTGGCA-CT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
91315 CTTTCAAAGCCCACA
1 -TTTCAAAGCCCACA
91330 CAAAGTTGGT
Statistics
Matches: 201, Mismatches: 34, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
27 2 0.01
28 91 0.45
29 29 0.14
30 43 0.21
31 2 0.01
32 23 0.11
33 2 0.01
34 8 0.04
35 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCT
Found at i:91135 original size:58 final size:57
Alignment explanation
Indices: 91008--91247 Score: 239
Period size: 58 Copynumber: 4.1 Consensus size: 57
90998 ACACAAGTTG
* * *
91008 GTGGCAACCCATTTCAAAGCCCACACAAGTTAGTAGCAACCCATTTCAAAGCCCACTCAAGTCG
1 GTGGCAACCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A-CCATTTCAAAGCCCA-T-AAGTCA
* * *
91072 GTGGCAACCCCTTTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGTCCATAAGTCA
1 GTGGCAA-CCCTTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCATAAGTCA
* * * *
91130 GTGGCATACCCTTTCAAAGCCCACAAATCAGTGGCACCTTTTCAAAGCCCACAAGACA
1 GTGGCA-ACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCATAAGTCA
* * * * * *
91188 ATGGC-ATCTTTTCAAAGCCCATAAGTCAGTGGCATCCTTTTTAAAGCCCATAAGTCA
1 GTGGCAACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCATTTCAAAGCCCATAAGTCA
91245 GTG
1 GTG
91248 ATATTCTTTC
Statistics
Matches: 153, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
56 25 0.16
57 21 0.14
58 58 0.38
59 2 0.01
60 13 0.08
61 1 0.01
62 13 0.08
63 2 0.01
64 15 0.10
65 3 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (57 bp):
GTGGCAACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCATAAGTCA
Found at i:91181 original size:86 final size:88
Alignment explanation
Indices: 91017--91247 Score: 263
Period size: 86 Copynumber: 2.6 Consensus size: 88
91007 GGTGGCAACC
* * * *
91017 CATTTCAAAGCCCACACAAGTTAGTAGCA-ACCCATTTCAAAGCCCACTCAAGTCGGTGGCAACC
1 CATTTCAAAG-CC-CATAAGTCAGTGGCATACCC-TTTCAAAGCCCA--CAAGTCAGTGGCAACC
** *
91081 CCTTTCAAAGCCCACAAGTTAGTGGCAT
61 CCTTTCAAAGCCCACAAGACAATGGCAT
* * *
91109 CATTTCAAAGTCCATAAGTCAGTGGCATACCCTTTCAAAGCCCACAAATCAGTGGC-A-CCTTTT
1 CATTTCAAAGCCCATAAGTCAGTGGCATACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCCTTT
91172 CAAAGCCCACAAGACAATGGCAT
66 CAAAGCCCACAAGACAATGGCAT
* * * *
91195 CTTTTCAAAGCCCATAAGTCAGTGGCAT-CCTTTTTAAAGCCCATAAGTCAGTG
1 CATTTCAAAGCCCATAAGTCAGTGGCATACCCTTTCAAAGCCCACAAGTCAGTG
91248 ATATTCTTTC
Statistics
Matches: 122, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
85 21 0.17
86 51 0.42
87 1 0.01
88 10 0.08
90 24 0.20
91 5 0.04
92 10 0.08
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (88 bp):
CATTTCAAAGCCCATAAGTCAGTGGCATACCCTTTCAAAGCCCACAAGTCAGTGGCAACCCCTTT
CAAAGCCCACAAGACAATGGCAT
Found at i:91306 original size:62 final size:61
Alignment explanation
Indices: 91140--91359 Score: 174
Period size: 62 Copynumber: 3.7 Consensus size: 61
91130 GTGGCATACC
* ** * * *
91140 CTTTCAAAG-CC-CACAAA-TCAGTGGC-AC-CTTTTCAAAGCCCACAAGACAATGGCA-T
1 CTTTCAAAGCCCACACAAAGTCGGTGGCAACTCTTTTCAAAGCCTGCAAGTCAGTGACACT
* * * * *** * *
91195 CTTTTCAAAG-CC-CA-TAAGTCAGTGGCATC-CTTTTTAAAGCCCATAAGTCAGTGATATT
1 C-TTTCAAAGCCCACACAAAGTCGGTGGCAACTCTTTTCAAAGCCTGCAAGTCAGTGACACT
* *
91253 CTTTCAAAGCCCACAC-AAGTCGGTGTCAACTCTTTTTTCAAAGCCTGCAAGTCAGTGGCACT
1 CTTTCAAAGCCCACACAAAGTCGGTGGCAACTC--TTTTCAAAGCCTGCAAGTCAGTGACACT
*
91315 CTTTCAAAGCCCACACAAAGTTGGTGGCAACTCTTTTCAAAGCCT
1 CTTTCAAAGCCCACACAAAGTCGGTGGCAACTCTTTTCAAAGCCT
91360 ACATAAGTTA
Statistics
Matches: 134, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
55 3 0.02
56 20 0.15
57 30 0.22
58 4 0.03
59 13 0.10
60 1 0.01
61 12 0.09
62 37 0.28
63 14 0.10
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (61 bp):
CTTTCAAAGCCCACACAAAGTCGGTGGCAACTCTTTTCAAAGCCTGCAAGTCAGTGACACT
Found at i:91368 original size:32 final size:32
Alignment explanation
Indices: 90965--91420 Score: 255
Period size: 32 Copynumber: 14.9 Consensus size: 32
90955 GGTGTCTACA
** * * *
90965 CACACAAGTTGGTGACAACTCATTTGAAAGCC
1 CACACAAGTCAGTGGCAACTCTTTTCAAAGCC
** * *
90997 CACACAAGTTGGTGGCAACCCATTTCAAAGCC
1 CACACAAGTCAGTGGCAACTCTTTTCAAAGCC
* * * *
91029 CACACAAGTTAGTAGCAACCCATTTCAAAGCC
1 CACACAAGTCAGTGGCAACTCTTTTCAAAGCC
* * * *
91061 CACTCAAGTCGGTGGCAACCCCTTTCAAAG-C
1 CACACAAGTCAGTGGCAACTCTTTTCAAAGCC
* * *
91092 C-CACAAGTTAGTGGC-A-TCATTTCAAAG-T
1 CACACAAGTCAGTGGCAACTCTTTTCAAAGCC
* *
91120 C-CATAAGTCAGTGGCATAC-CCTTTCAAAGCC
1 CACACAAGTCAGTGGCA-ACTCTTTTCAAAGCC
91151 CACA-AA-TCAGTGGC-AC-CTTTTCAAAG-C
1 CACACAAGTCAGTGGCAACTCTTTTCAAAGCC
* *
91178 C-CACAAGACAATGGC-A-TCTTTTCAAAG-C
1 CACACAAGTCAGTGGCAACTCTTTTCAAAGCC
* * *
91206 C-CATAAGTCAGTGGCATC-CTTTTTAAAG-C
1 CACACAAGTCAGTGGCAACTCTTTTCAAAGCC
* *
91235 C-CATAAGTCAGT-G-ATATTC-TTTCAAAGCC
1 CACACAAGTCAGTGGCA-ACTCTTTTCAAAGCC
* *
91264 CACACAAGTCGGTGTCAACTCTTTTTTCAAAG-C
1 CACACAAGTCAGTGGCAACTC--TTTTCAAAGCC
**
91297 C-TGCAAGTCAGTGGC-ACTC-TTTCAAAGCC
1 CACACAAGTCAGTGGCAACTCTTTTCAAAGCC
**
91326 CACACAAAGTTGGTGGCAACTCTTTTCAAAGCC
1 CACAC-AAGTCAGTGGCAACTCTTTTCAAAGCC
* * * * * * * *
91359 TACATAAGTTAGTGGTACCTTTTTTTTAAAACC
1 CACACAAGTCAGTGGCAAC-TCTTTTCAAAGCC
* * *
91392 CACGCAAGTCAATGGCAACCCTTTTCAAA
1 CACACAAGTCAGTGGCAACTCTTTTCAAA
91421 TCACCACTTT
Statistics
Matches: 338, Mismatches: 61, Indels: 50
0.75 0.14 0.11
Matches are distributed among these distances:
26 2 0.01
27 5 0.01
28 79 0.23
29 28 0.08
30 39 0.12
31 21 0.06
32 119 0.35
33 37 0.11
34 8 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (32 bp):
CACACAAGTCAGTGGCAACTCTTTTCAAAGCC
Found at i:93075 original size:2 final size:2
Alignment explanation
Indices: 93068--93098 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
93058 TCTATAGGTG
93068 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93099 TGAAAATCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93144 original size:16 final size:16
Alignment explanation
Indices: 93123--93172 Score: 100
Period size: 16 Copynumber: 3.1 Consensus size: 16
93113 AGCTGAATTC
93123 ATGTTAACCTCGATCA
1 ATGTTAACCTCGATCA
93139 ATGTTAACCTCGATCA
1 ATGTTAACCTCGATCA
93155 ATGTTAACCTCGATCA
1 ATGTTAACCTCGATCA
93171 AT
1 AT
93173 AAGGATTAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (16 bp):
ATGTTAACCTCGATCA
Found at i:98732 original size:18 final size:17
Alignment explanation
Indices: 98699--98761 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 17
98689 AAATTTTAAT
98699 TTTATAT-AATAT--AA
1 TTTATATAAATATAAAA
98713 TTTA-ATAATATATCAAAA
1 TTTATATAA-ATAT-AAAA
98731 TTTATATAAATATAAAA
1 TTTATATAAATATAAAA
**
98748 TACAT-TAAATATAA
1 TTTATATAAATATAA
98762 TAAAATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 2 0.05
14 5 0.12
15 4 0.10
16 9 0.22
17 7 0.17
18 10 0.24
19 4 0.10
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTATATAAATATAAAA
Found at i:98766 original size:19 final size:19
Alignment explanation
Indices: 98742--98782 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
98732 TTATATAAAT
* *
98742 ATAAAATACATTAAATATA
1 ATAAAATACATAAAACATA
*
98761 ATAAAATATATAAAACATA
1 ATAAAATACATAAAACATA
98780 ATA
1 ATA
98783 TAATTACTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAAATACATAAAACATA
Found at i:98767 original size:26 final size:24
Alignment explanation
Indices: 98738--98786 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
98728 AAATTTATAT
98738 AAATATA-AAATACATTAAATATAATA
1 AAATATATAAA-ACA-T-AATATAATA
98764 AAATATATAAAACATAATATAAT
1 AAATATATAAAACATAATATAAT
98787 TACTCGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.36
25 1 0.05
26 10 0.45
27 3 0.14
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
AAATATATAAAACATAATATAATA
Found at i:99261 original size:21 final size:22
Alignment explanation
Indices: 99219--99261 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
99209 AATAAAAAAG
* *
99219 AATTTATATATATTTTTTATTA
1 AATTTATATATATTATTAATTA
99241 AATTTA-ATATATTATTAATTA
1 AATTTATATATATTATTAATTA
99262 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTTATATATATTATTAATTA
Found at i:100488 original size:24 final size:25
Alignment explanation
Indices: 100456--100508 Score: 90
Period size: 24 Copynumber: 2.1 Consensus size: 25
100446 TATGTTATTT
100456 TTTTATCATATTATAT-TTTAATTA
1 TTTTATCATATTATATATTTAATTA
100480 TTTTATCATATTATATCATTTAATTA
1 TTTTATCATATTATAT-ATTTAATTA
100506 TTT
1 TTT
100509 CATATTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 16 0.59
26 11 0.41
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTATCATATTATATATTTAATTA
Found at i:100575 original size:4 final size:4
Alignment explanation
Indices: 100566--100595 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
100556 TTATGTTTGC
100566 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
100596 GCTATATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Done.