Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 64 of 240
Found at i:20828375 original size:2 final size:2
Alignment explanation
Indices: 20828368--20828407 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
20828358 TTCGCATGGC
20828368 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20828408 CAGATCAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20835974 original size:14 final size:14
Alignment explanation
Indices: 20835955--20835983 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20835945 AATTTAAAAA
20835955 TATTTTTATTTAAG
1 TATTTTTATTTAAG
20835969 TATTTTTATTTAAG
1 TATTTTTATTTAAG
20835983 T
1 T
20835984 TAAATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (14 bp):
TATTTTTATTTAAG
Found at i:20838864 original size:22 final size:20
Alignment explanation
Indices: 20838836--20838877 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
20838826 AATTTTTTTG
*
20838836 TTATTATTGTTATTGTATTATA
1 TTATTATT-TT-TAGTATTATA
20838858 TTATTATTTTTAGTATTATA
1 TTATTATTTTTAGTATTATA
20838878 GATTGCTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (20 bp):
TTATTATTTTTAGTATTATA
Found at i:20840912 original size:3 final size:3
Alignment explanation
Indices: 20840906--20840944 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
20840896 TTATCTTTTC
20840906 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
20840945 TGTTCTTGAT
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):
ATT
Found at i:20842730 original size:15 final size:15
Alignment explanation
Indices: 20842710--20842738 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20842700 ACTAGCACGG
20842710 GTTACATTAAAATGA
1 GTTACATTAAAATGA
20842725 GTTACATTAAAATG
1 GTTACATTAAAATG
20842739 GATCACGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (15 bp):
GTTACATTAAAATGA
Found at i:20843489 original size:31 final size:31
Alignment explanation
Indices: 20843451--20843512 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
20843441 AGGCAAATTA
20843451 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
20843482 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
20843513 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:20850312 original size:29 final size:29
Alignment explanation
Indices: 20850270--20850334 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
20850260 TAGACAACTT
*
20850270 TTTTTTTGCTGTTTTTTTACGCTTTTTAC
1 TTTTTTTGCGGTTTTTTTACGCTTTTTAC
** *
20850299 TTTTTTTGCGGTTTTTTTGTGCTTTTTGC
1 TTTTTTTGCGGTTTTTTTACGCTTTTTAC
20850328 TTTTTTT
1 TTTTTTT
20850335 TTCAAAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.03, C:0.11, G:0.14, T:0.72
Consensus pattern (29 bp):
TTTTTTTGCGGTTTTTTTACGCTTTTTAC
Found at i:20858587 original size:31 final size:31
Alignment explanation
Indices: 20858551--20858612 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
20858541 AGATAATTTT
20858551 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
20858582 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
20858613 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:20858915 original size:3 final size:3
Alignment explanation
Indices: 20858907--20858937 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
20858897 AAATCTATCC
*
20858907 TAT TAT TAT TAT TAT TTT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
20858938 TAACTAATTT
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:20858929 original size:15 final size:15
Alignment explanation
Indices: 20858909--20858938 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20858899 ATCTATCCTA
20858909 TTATTATTATTATTT
1 TTATTATTATTATTT
20858924 TTATTATTATTATTT
1 TTATTATTATTATTT
20858939 AACTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTATTATTATTT
Found at i:20860699 original size:29 final size:28
Alignment explanation
Indices: 20860667--20860728 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
20860657 AAAAACCTTT
20860667 TTTTTTCAA-AATTTACCGAAATGGGCCGA
1 TTTTTT-AATAATTTACCGAAATGGGCC-A
* * *
20860696 TTTTTTAATTATTTACCGGAATGGTCCA
1 TTTTTTAATAATTTACCGAAATGGGCCA
20860724 TTTTT
1 TTTTT
20860729 CGGGAAATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.45
Consensus pattern (28 bp):
TTTTTTAATAATTTACCGAAATGGGCCA
Found at i:20860979 original size:22 final size:22
Alignment explanation
Indices: 20860951--20861000 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
20860941 ACAAATCCTA
*
20860951 TCTCAATTTTCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
20860973 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
20860995 TCTCAA
1 TCTCAA
20861001 ATCCATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:20861070 original size:31 final size:31
Alignment explanation
Indices: 20861034--20861099 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 31
20861024 CCTCAATTTC
*
20861034 ATTTTTTAAAAATAATTTTATA-TTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
20861064 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
20861095 ATTTT
1 ATTTT
20861100 CATCAATGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 21 0.62
31 13 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (31 bp):
ATTTTTTAAAAATAATTTTAAATTTTTTTAT
Found at i:20863437 original size:29 final size:30
Alignment explanation
Indices: 20863378--20864550 Score: 1591
Period size: 30 Copynumber: 38.8 Consensus size: 30
20863368 TAATAAAAAT
*
20863378 CCTAATTTAATTAAAAATCCC-AAACACTAA
1 CCTAATTTAATTAAAAA-CCCTAAACCCTAA
20863408 CCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20863437 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20863467 CCTAATTTAATTAAAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20863497 CCTAATTTAATTAAAAGCCCT-AACCTTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20863526 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20863556 TCTAATTTAATAAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20863585 CCTAATTTAATTAAAAAACCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20863615 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20863645 CTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20863674 CTTAA-TTAATTAAAAACCCTAAACCCTAACCCTGA
1 CCTAATTTAATTAAAAACCCTAAACCCT-A-----A
*
20863709 CCTAATTTAATTAAAAACCCTAAACCTTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20863739 CCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20863768 CCTAATTTAATTAAAAATCCTAAATCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20863798 CCTAATTTAATTAAAAACCCTAAACCCAAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20863828 CTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20863857 CTTAATTTAATTAAAAACCCTAAACCCTAAA
1 CCTAATTTAATTAAAAACCCTAAACCCT-AA
*
20863888 CCCTAACCTACTTTAATTAAAAACCAT-AACCCTAA
1 -CCT-A---A-TTTAATTAAAAACCCTAAACCCTAA
20863923 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20863953 TCTAATTTAATTAAAAACCCTAAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20863982 CCTAATTTAATTAAAAACCTTAAACCCTGA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20864012 TCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20864041 CCTAATTTAATTAAAAATCCTAAACCCT-A
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20864070 CTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20864099 CTTAATTTAATTAAAACGCTAAACCCT-AACCCTAA
1 CCTAATTTAATT--AA----AAACCCTAAACCCTAA
*
20864134 CCTAATTTAATTAAAAACCCTAAACTCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20864164 CCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20864193 CCTAATTTAATTAAAAACCCTAAACCCT-A
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20864222 CCTAATTTAATTAAAAACCCTAAACCTTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20864252 CTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20864281 CTTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20864311 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
20864341 CCTAATTTAATTAAAAACCCTAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCT--A----AACCCTAA
20864377 CCTAATTTAATTAAAAATCTTAAACCCT-AACCCTAA
1 CCTAATTTAATT---AA----AAACCCTAAACCCTAA
*
20864413 CCTAATTTAATTAAAAA-CCTTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
**
20864442 CCTAATTTAATTAAAAACTATAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20864472 CTTAATTTAATTAAAAACCCT-AA--C-AA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20864498 CCTAATTTAATTAAAAACCTTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAA
*
20864528 CTTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
20864551 CCATTAACAA
Statistics
Matches: 1034, Mismatches: 55, Indels: 108
0.86 0.05 0.09
Matches are distributed among these distances:
26 21 0.02
27 3 0.00
28 24 0.02
29 380 0.37
30 464 0.45
31 4 0.00
32 3 0.00
33 6 0.01
34 3 0.00
35 34 0.03
36 68 0.07
37 15 0.01
39 2 0.00
43 7 0.01
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (30 bp):
CCTAATTTAATTAAAAACCCTAAACCCTAA
Found at i:20863467 original size:59 final size:60
Alignment explanation
Indices: 20863378--20864550 Score: 1591
Period size: 59 Copynumber: 19.4 Consensus size: 60
20863368 TAATAAAAAT
*
20863378 CCTAATTTAATTAAAAATCCC-AAACACTAACCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAA-CCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
*
20863437 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20863497 CCTAATTTAATTAAAAGCCCT-AACCTTAACCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* * *
20863556 TCTAATTTAATAAAAAACCCT-AACCCTAACCTAATTTAATTAAAAAACCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
*
20863615 CCTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20863674 CTTAA-TTAATTAAAAACCCTAAACCCTAACCCTGACCTAATTTAATTAAAAACCCTAAACCTTA
1 CCTAATTTAATTAAAAACCCTAAACCCT-A-----ACCTAATTTAATTAAAAACCCTAAACCCTA
20863738 A
60 A
* *
20863739 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAATCCTAAATCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20863798 CCTAATTTAATTAAAAACCCTAAACCCAAACTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20863857 CTTAATTTAATTAAAAACCCTAAACCCTAAACCCTAACCTACTTTAATTAAAAACCAT-AACCCT
1 CCTAATTTAATTAAAAACCCTAAACCCT-AA-CCT-A---A-TTTAATTAAAAACCCTAAACCCT
20863921 AA
59 AA
*
20863923 CCTAATTTAATTAAAAACCCTAAACCCTAATCTAATTTAATTAAAAACCCTAAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* * *
20863982 CCTAATTTAATTAAAAACCTTAAACCCTGATCTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20864041 CCTAATTTAATTAAAAATCCTAAACCCT-ACTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20864099 CTTAATTTAATTAAAACGCTAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACTCTA
1 CCTAATTTAATT--AA----AAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTA
20864163 A
60 A
20864164 CCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCT-A
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20864222 CCTAATTTAATTAAAAACCCTAAACCTTAACTTAATTTAATTAAAAACCCT-AACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
*
20864281 CTTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
20864341 CCTAATTTAATTAAAAACCCTAAACCCTAACCCTAACCTAATTTAATTAAAAATCTTAAACCCT-
1 CCTAATTTAATTAAAAACCCT--A----AACCCTAACCTAATTTAATT---AA----AAACCCTA
20864405 AACCCTAA
53 AACCCTAA
* **
20864413 CCTAATTTAATTAAAAA-CCTTAACCCTAACCTAATTTAATTAAAAACTATAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
* *
20864472 CTTAATTTAATTAAAAACCCT-AA--C-AACCTAATTTAATTAAAAACCTTAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
*
20864528 CTTAATTTAATTAAAAACCCTAA
1 CCTAATTTAATTAAAAACCCTAA
20864551 CCATTAACAA
Statistics
Matches: 1010, Mismatches: 56, Indels: 98
0.87 0.05 0.08
Matches are distributed among these distances:
56 51 0.05
57 2 0.00
58 99 0.10
59 494 0.49
60 118 0.12
61 2 0.00
62 4 0.00
63 9 0.01
64 51 0.05
65 58 0.06
66 85 0.08
69 2 0.00
71 3 0.00
72 25 0.02
73 7 0.01
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (60 bp):
CCTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
Found at i:20863911 original size:23 final size:25
Alignment explanation
Indices: 20863885--20864363 Score: 122
Period size: 29 Copynumber: 16.4 Consensus size: 25
20863875 CCTAAACCCT
*
20863885 AAACCCTAACCTACTTTAATTAAAAACC
1 AAACCCTAACCTAATTTAATT--AAA-C
20863913 ATAACCCTAACCTAATTTAATTAAAAACCC
1 A-AACCCTAACCTAATTTAATT--AAA--C
*
20863943 TAAACCCTAATCTAATTTAATTAAAAACCC
1 -AAACCCTAACCTAATTTAATT--AAA--C
20863973 TAAA-CCTAACCTAATTTAATTAAAAACC
1 -AAACCCTAACCTAATTTAATT--AAA-C
* *
20864001 TTAAACCCTGATCTAATTTAATTAAAAACCC
1 --AAACCCTAACCTAATTTAATT--AAA--C
*
20864032 TAACCCTAACCTAATTTAATTAAAAATCC
1 AAACCCTAACCTAATTTAATT--AAA--C
*
20864061 TAAACCCT-ACTTAATTTAATTAAAAACCC
1 -AAACCCTAACCTAATTTAATT--AAA--C
* *
20864090 TAACCCTAACTTAATTTAATTAAAACGC
1 AAACCCTAACCTAATTTAATT-AAA--C
20864118 TAAACCCTAACCCTAACCTAATTTAATTAAAAACCC
1 -AAA-CC-----CTAACCTAATTTAATT--AAA--C
*
20864154 TAAACTCTAACCTAATTTAATTAAAAACCC
1 -AAACCCTAACCTAATTTAATT--AAA--C
*
20864184 TAACCCTAACCTAATTTAATTAAAAACCC
1 AAACCCTAACCTAATTTAATT--AAA--C
20864213 TAAACCCT-ACCTAATTTAATTAAAAACCC
1 -AAACCCTAACCTAATTTAATT--AAA--C
* *
20864242 TAAACCTTAACTTAATTTAATTAAAAACCC
1 -AAACCCTAACCTAATTTAATT--AAA--C
* *
20864272 TAACCCTAACTTAATTTAATTAAAAACCC
1 AAACCCTAACCTAATTTAATT--AAA--C
20864301 TAAACCCTAACCTAATTTAATTAAAAACCC
1 -AAACCCTAACCTAATTTAATT--AAA--C
20864331 TAAACCCTAACCTAATTTAATT-AA-
1 -AAACCCTAACCTAATTTAATTAAAC
20864355 AAACCCTAA
1 AAACCCTAA
20864364 ACCCTAACCC
Statistics
Matches: 405, Mismatches: 27, Indels: 43
0.85 0.06 0.09
Matches are distributed among these distances:
23 9 0.02
27 2 0.00
28 15 0.04
29 190 0.47
30 160 0.40
31 3 0.01
35 16 0.04
36 10 0.02
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (25 bp):
AAACCCTAACCTAATTTAATTAAAC
Found at i:20867903 original size:127 final size:124
Alignment explanation
Indices: 20867680--20867959 Score: 490
Period size: 127 Copynumber: 2.2 Consensus size: 124
20867670 CGAGGGCGCG
20867680 ATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGACCAACTGTAGCGAAA
1 ATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGACCAACTGTAGCGAAA
* *
20867745 TCGCGTCCACGAGGGCATGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCA
66 TCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCA
20867804 ATTTTATACTATTTGCTCAGAAACGTCAAAAAGAAAATTTATTTCTTACATGACCAACTGTAGCG
1 ATTTTATACTATTTGCTCAGAAACGTCAAAAA-AAAA--TATTTCTTACATGACCAACTGTAGCG
*
20867869 AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCG
63 AAATCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCA
20867931 ATTTTATACTATTTGAC-CAGAAACGTCAA
1 ATTTTATACTATTTG-CTCAGAAACGTCAA
20867960 CTCGAAATAA
Statistics
Matches: 149, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
124 32 0.21
125 4 0.03
127 112 0.75
128 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.30
Consensus pattern (124 bp):
ATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCTTACATGACCAACTGTAGCGAAA
TCGCGTCCACAAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCA
Found at i:20869466 original size:18 final size:20
Alignment explanation
Indices: 20869445--20869487 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
20869435 TTGTTTGAAC
*
20869445 TTTTAGGTTTTTA-G-AAAA
1 TTTTAGATTTTTATGAAAAA
20869463 TTTTAGATTTTTATGAAAAA
1 TTTTAGATTTTTATGAAAAA
20869483 TTTTA
1 TTTTA
20869488 AGGATTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.55
19 1 0.05
20 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTTAGATTTTTATGAAAAA
Found at i:20870355 original size:30 final size:30
Alignment explanation
Indices: 20870321--20870379 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
20870311 TTATTTTATT
20870321 GTTAATTTTGTTATTATTTTAAAGACATTG
1 GTTAATTTTGTTATTATTTTAAAGACATTG
*
20870351 GTTAATTTTGTTATTATTTTAGAGACATT
1 GTTAATTTTGTTATTATTTTAAAGACATT
20870380 TGCTTGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (30 bp):
GTTAATTTTGTTATTATTTTAAAGACATTG
Found at i:20871034 original size:15 final size:15
Alignment explanation
Indices: 20871014--20871058 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
20871004 TGGATATATG
20871014 AATTTATTAAATTTA
1 AATTTATTAAATTTA
20871029 AATTTA-T-AATTTA
1 AATTTATTAAATTTA
*
20871042 AATAT-TTATAATTTA
1 AATTTATTA-AATTTA
20871057 AA
1 AA
20871059 AAACAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.42
14 1 0.04
15 14 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTTATTAAATTTA
Found at i:20871781 original size:18 final size:19
Alignment explanation
Indices: 20871760--20871798 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
20871750 ATTAATATAA
20871760 AATTTTAAAT-AAAA-TTAT
1 AATTTT-AATCAAAATTTAT
20871778 AATTTTAATCAAAATTTAT
1 AATTTTAATCAAAATTTAT
20871797 AA
1 AA
20871799 AACTTCCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 10 0.53
19 6 0.32
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTTTAATCAAAATTTAT
Found at i:20873437 original size:204 final size:204
Alignment explanation
Indices: 20873084--20873499 Score: 724
Period size: 204 Copynumber: 2.0 Consensus size: 204
20873074 GAGGATTGGT
* * * *
20873084 GGATGAGCTGTGTAAAGGCATAAGCAAGATAAGCATGACAGAGATGTCCACGGGAAAGCAGACGA
1 GGATGAGCTGTGTAAAGGCAAAAGAAAAATAAGCATGACAGAGATGTCCACGGGAAAGCACACGA
20873149 GATTTGTTGACAACAGCGATGATGAGATTGAAGAAGAAGAAGAATGGGGAGAGAATGGGGAGTAT
66 GATTTGTTGACAACAGCGATGATGAGATTGAAGAAGAAGAAGAATGGGGAGAGAATGGGGAGTAT
*
20873214 TCAAGTGATATAATGAGGTTGAAGGGGTTGCCAACACCCAAAGGAAAGCACCTGCGCTTTCCTCT
131 TCAAGTGATATAATGAGGTTGAAGGGGTTGCCAACACCCAAAAGAAAGCACCTGCGCTTTCCTCT
20873279 GGAGGAGGA
196 GGAGGAGGA
* * *
20873288 GGCTGAGCTGTGTAAAGGCAAAAGAAAAATAAGCATGACAGAGATGTTCATGGGAAAGCACACGA
1 GGATGAGCTGTGTAAAGGCAAAAGAAAAATAAGCATGACAGAGATGTCCACGGGAAAGCACACGA
* * *
20873353 GATTTGTTTACAACAGCGATGATGAGATTGAAGAAGAAGAAGAATGGGGGGAGCATGGGGAGTAT
66 GATTTGTTGACAACAGCGATGATGAGATTGAAGAAGAAGAAGAATGGGGAGAGAATGGGGAGTAT
*
20873418 TCCAGTGATATAATGAGGTTGAAGGGGTTGCCAACACCCAAAAGAAAGCACCTGCGCTTTCCTCT
131 TCAAGTGATATAATGAGGTTGAAGGGGTTGCCAACACCCAAAAGAAAGCACCTGCGCTTTCCTCT
20873483 GGAGGAGGA
196 GGAGGAGGA
20873492 GGATGAGC
1 GGATGAGC
20873500 AAGATTAAGT
Statistics
Matches: 199, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
204 199 1.00
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (204 bp):
GGATGAGCTGTGTAAAGGCAAAAGAAAAATAAGCATGACAGAGATGTCCACGGGAAAGCACACGA
GATTTGTTGACAACAGCGATGATGAGATTGAAGAAGAAGAAGAATGGGGAGAGAATGGGGAGTAT
TCAAGTGATATAATGAGGTTGAAGGGGTTGCCAACACCCAAAAGAAAGCACCTGCGCTTTCCTCT
GGAGGAGGA
Found at i:20883234 original size:42 final size:42
Alignment explanation
Indices: 20883187--20883288 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 42
20883177 TGAGTTTCAT
*
20883187 TTTAACCC-TATTGGGTTTCCATTCAGCTCTTTTGAGCTT-TA
1 TTTAACCCTTA-TGGGTTTCCATTCAGCTCTTATGAGCTTCTA
* * *
20883228 GTTTAACCCTTATAGGTTTTCGTTCAGCTCTTATGAGCTTCTA
1 -TTTAACCCTTATGGGTTTCCATTCAGCTCTTATGAGCTTCTA
*
20883271 TTCAACCCTTATGGGTTT
1 TTTAACCCTTATGGGTTT
20883289 TTTTCTAGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 48 0.92
43 4 0.08
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.45
Consensus pattern (42 bp):
TTTAACCCTTATGGGTTTCCATTCAGCTCTTATGAGCTTCTA
Found at i:20883289 original size:42 final size:43
Alignment explanation
Indices: 20883190--20883311 Score: 126
Period size: 42 Copynumber: 2.9 Consensus size: 43
20883180 GTTTCATTTT
* * *
20883190 AACCC-TATTGGGTTTCCATTCAGCTCTTTTGAGCTT-TAGTTT
1 AACCCTTA-TGGGTTTTCATTCAGCTCTTATGAGCTTCTAGTTC
* *
20883232 AACCCTTATAGGTTTTCGTTCAGCTCTTATGAGCTTCTA-TTC
1 AACCCTTATGGGTTTTCATTCAGCTCTTATGAGCTTCTAGTTC
* * *
20883274 AACCCTTATGGGTTTT-TTTCTAGCACTTATGTGCTTCT
1 AACCCTTATGGGTTTTCATTC-AGCTCTTATGAGCTTCT
20883312 GTGCAGCCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.04
42 61 0.90
43 4 0.06
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (43 bp):
AACCCTTATGGGTTTTCATTCAGCTCTTATGAGCTTCTAGTTC
Found at i:20885514 original size:16 final size:17
Alignment explanation
Indices: 20885477--20885518 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
20885467 CTTATATCAA
*
20885477 TAAAA-TAAAATAATTT
1 TAAAATTAAAATAACTT
20885493 TAAAAATTAAAAT-ACTT
1 T-AAAATTAAAATAACTT
20885510 TAAAATTAA
1 TAAAATTAA
20885519 CTTACTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAATTAAAATAACTT
Found at i:20925092 original size:19 final size:19
Alignment explanation
Indices: 20925060--20925177 Score: 66
Period size: 19 Copynumber: 6.3 Consensus size: 19
20925050 TCTTTATATT
*
20925060 TTTTTAGAATTTTTTTGAAA
1 TTTTTATAA-TTTTTTGAAA
20925080 TTTTTATAATTTTTT-AAA
1 TTTTTATAATTTTTTGAAA
*** *
20925098 -AAATATAAATTTTTG-AA
1 TTTTTATAATTTTTTGAAA
*
20925115 TTTTTATAAATATTTT-AAA
1 TTTTTAT-AATTTTTTGAAA
* * *
20925134 TTTTAAAAATTATTTTGAAC
1 TTTTTATAATT-TTTTGAAA
* *
20925154 TTTTGAAAATTATTTTG-AA
1 TTTTTATAATT-TTTTGAAA
20925173 TTTTT
1 TTTTT
20925178 TTGTATTTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 13
0.71 0.16 0.12
Matches are distributed among these distances:
17 12 0.16
18 9 0.12
19 28 0.37
20 26 0.35
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTTATAATTTTTTGAAA
Found at i:20925177 original size:20 final size:19
Alignment explanation
Indices: 20925108--20925177 Score: 88
Period size: 19 Copynumber: 3.6 Consensus size: 19
20925098 AAATATAAAT
20925108 TTTTGAATTTTTATAAA-TA
1 TTTTGAATTTTTA-AAATTA
* *
20925127 TTTTAAATTTTAAAAATTA
1 TTTTGAATTTTTAAAATTA
*
20925146 TTTTGAACTTTTGAAAATTA
1 TTTTGAA-TTTTTAAAATTA
20925166 TTTTGAATTTTT
1 TTTTGAATTTTT
20925178 TTGTATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
18 3 0.07
19 23 0.52
20 18 0.41
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (19 bp):
TTTTGAATTTTTAAAATTA
Found at i:20927170 original size:5 final size:5
Alignment explanation
Indices: 20927160--20927185 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20927150 AGAATGAAGG
20927160 CTGTT CTGTT CTGTT CTGTT CTGTT C
1 CTGTT CTGTT CTGTT CTGTT CTGTT C
20927186 AATTCATGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.23, G:0.19, T:0.58
Consensus pattern (5 bp):
CTGTT
Found at i:20927897 original size:13 final size:13
Alignment explanation
Indices: 20927879--20927906 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20927869 ATTCTTTCTC
20927879 TATTTATGAAGTT
1 TATTTATGAAGTT
20927892 TATTTATGAAGTT
1 TATTTATGAAGTT
20927905 TA
1 TA
20927907 CTTGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:20929301 original size:12 final size:12
Alignment explanation
Indices: 20929284--20929309 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20929274 TTTTCCAGAA
20929284 AACATTATATCG
1 AACATTATATCG
20929296 AACATTATATCG
1 AACATTATATCG
20929308 AA
1 AA
20929310 TACACAAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AACATTATATCG
Found at i:20930550 original size:26 final size:26
Alignment explanation
Indices: 20930520--20930573 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
20930510 TAAATGTCTT
20930520 AATAGGATATAATAAAAT-AT-TTAAAA
1 AATA-GATAT-ATAAAATCATATTAAAA
*
20930546 AATAGATATTTAAAATCATATTAAAA
1 AATAGATATATAAAATCATATTAAAA
20930572 AA
1 AA
20930574 AACATTCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 6 0.24
25 7 0.28
26 12 0.48
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (26 bp):
AATAGATATATAAAATCATATTAAAA
Found at i:20940665 original size:23 final size:23
Alignment explanation
Indices: 20940621--20940668 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
20940611 TTATCCCATT
** *
20940621 ATTGAAATTCTATTTTTTAAAAC
1 ATTGAAATTCTAAATTTCAAAAC
*
20940644 ATTGAAATTTTAAATTTCAAAAC
1 ATTGAAATTCTAAATTTCAAAAC
20940667 AT
1 AT
20940669 CAAAATAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (23 bp):
ATTGAAATTCTAAATTTCAAAAC
Found at i:20941622 original size:6 final size:7
Alignment explanation
Indices: 20941606--20941631 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20941596 TTGTACATGG
20941606 AAAAACA
1 AAAAACA
20941613 AAAAACA
1 AAAAACA
20941620 AAAAACA
1 AAAAACA
20941627 AAAAA
1 AAAAA
20941632 AGGAGAGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:20945373 original size:25 final size:25
Alignment explanation
Indices: 20945326--20945375 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
20945316 CTATCTCTCC
* *
20945326 TAGGGTTAGAGTTTTTTAATTTTGG
1 TAGGGTTAGAGGTTTTAAATTTTGG
20945351 TAGGGTTAG-GGTTTTAAAGTTTTGG
1 TAGGGTTAGAGGTTTTAAA-TTTTGG
20945376 GTTATGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (25 bp):
TAGGGTTAGAGGTTTTAAATTTTGG
Found at i:20950400 original size:12 final size:12
Alignment explanation
Indices: 20950385--20950409 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20950375 TTTATCTCCA
20950385 TCATCGGCTTCG
1 TCATCGGCTTCG
20950397 TCATCGGCTTCG
1 TCATCGGCTTCG
20950409 T
1 T
20950410 TTGCGTCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.32, G:0.24, T:0.36
Consensus pattern (12 bp):
TCATCGGCTTCG
Found at i:20956526 original size:17 final size:17
Alignment explanation
Indices: 20956504--20956536 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20956494 ACATGTTTAT
20956504 TTATTAGAA-AATTTAAA
1 TTATTA-AATAATTTAAA
20956521 TTATTAAATAATTTAA
1 TTATTAAATAATTTAA
20956537 TTAAAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTATTAAATAATTTAAA
Found at i:20966351 original size:23 final size:23
Alignment explanation
Indices: 20966315--20966365 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
20966305 GTGGAGATGG
* *
20966315 TGTAATATCTCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
20966338 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
20966361 AGTAA
1 TGTAA
20966366 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:20968301 original size:920 final size:920
Alignment explanation
Indices: 20966521--20968361 Score: 3574
Period size: 920 Copynumber: 2.0 Consensus size: 920
20966511 AGAGTAAATA
20966521 CTCAAAATTTGAGGGGTTAAAGTGTAAATACAAAAAAGTTGAAGGACCAATAGTGTAAATATTTT
1 CTCAAAATTTGAGGGGTTAAAGTGTAAATACAAAAAAGTTGAAGGACCAATAGTGTAAATATTTT
*
20966586 AAGGGTGGAATAATTTAGAAACTAAGGAAAATGGATGAATTAGGATCAAATTGAAAATGTGAAGA
66 AAGGGTGGAATAATTTAGAAACTAAGGAAAATGGATGAATTAGGATCAAATTAAAAATGTGAAGA
20966651 ATTTCTAGGGACTAAATCACAATTTTACCAAATTAAGTGATGACTCAAGGATGAAATTTCAAAAG
131 ATTTCTAGGGACTAAATCACAATTTTACCAAATTAAGTGATGACTCAAGGATGAAATTTCAAAAG
* *
20966716 ATTCTAAAGGGCAAAATGGTCAATTAGAAGAGAGAGAAATCTAGAATGTATTGATGATGTTGGTG
196 ATTCTAAAGGGCAAAATGGTCAATTAGAAGAGAGAGAAATCTAGAAGGTATTGATGATATTGGTG
20966781 ATATTTTAGATTAATTAATTAAATAAATATTAGTTTATTAATATTTTAATTTGATTTTTAAATGA
261 ATATTTTAGATTAATTAATTAAATAAATATTAGTTTATTAATATTTTAATTTGATTTTTAAATGA
20966846 TATTTTATTATTTTATTATTATTCTATTTAGTATATATATGGAAGGAAAGATGAAGAATCTTCAT
326 TATTTTATTATTTTATTATTATTCTATTTAGTATATATATGGAAGGAAAGATGAAGAATCTTCAT
20966911 CTTCTTCCCATGCATCCAACGTATGAAGAGAAAAGAAAGAAAGAAAATTTCTTATCTTTACAATT
391 CTTCTTCCCATGCATCCAACGTATGAAGAGAAAAGAAAGAAAGAAAATTTCTTATCTTTACAATT
20966976 TGGTACTTTCACAAAAAATTCACCATTTTCACTTAGAAATCAAAAGAATTTTCATATCCATCAAG
456 TGGTACTTTCACAAAAAATTCACCATTTTCACTTAGAAATCAAAAGAATTTTCATATCCATCAAG
*
20967041 AGGGAAAGATAACAATGAGACAATGGGGAGCTAGAATATCAAGTTATATTCAGGAAATAGAAGCT
521 AGGGAAAGATAACAAGGAGACAATGGGGAGCTAGAATATCAAGTTATATTCAGGAAATAGAAGCT
20967106 GGAGGAGAGAGAAAATCAAGTTCAAGATTGAAATCAATAGGACAAGGTAAGAACAGTAAGGACAT
586 GGAGGAGAGAGAAAATCAAGTTCAAGATTGAAATCAATAGGACAAGGTAAGAACAGTAAGGACAT
20967171 GTTTGGTTGGGTGTATTGGTAATCCAATACACCCCTAATCCGTGGGCCCCACTTAAGCCAGTGTT
651 GTTTGGTTGGGTGTATTGGTAATCCAATACACCCCTAATCCGTGGGCCCCACTTAAGCCAGTGTT
*
20967236 TGGTTCGATGTATTGCTTAATACAGGCCTATTACGTTACGCCCCTAATCCCCGAAATTCTCTGTT
716 TGGTTCGATGTATTGCCTAATACAGGCCTATTACGTTACGCCCCTAATCCCCGAAATTCTCTGTT
20967301 TTGTAATCCCTGCCTTCTCCTCAGATTACATCCGTTTTACATCTCACGCCCTGATTTGCCCTCCC
781 TTGTAATCCCTGCCTTCTCCTCAGATTACATCCGTTTTACATCTCACGCCCTGATTTGCCCTCCC
20967366 AACTCGAAATCCACCTCCAACCTCTCCCTCCCAACATCAAACAGAAGCTGCGAGCGAAGTCACCT
846 AACTCGAAATCCACCTCCAACCTCTCCCTCCCAACATCAAACAGAAGCTGCGAGCGAAGTCACCT
20967431 CCACCCGACT
911 CCACCCGACT
*
20967441 CTCAAAATTTGAGGGGTTAAAGTGTAAATACAAAAAAGTTGAAGGAGCAATAGTGTAAATATTTT
1 CTCAAAATTTGAGGGGTTAAAGTGTAAATACAAAAAAGTTGAAGGACCAATAGTGTAAATATTTT
20967506 AAGGGTGGAATAATTTAGAAACTAAGGAAAATGGATGAATTAGGATCAAATTAAAAATGTGAAGA
66 AAGGGTGGAATAATTTAGAAACTAAGGAAAATGGATGAATTAGGATCAAATTAAAAATGTGAAGA
*
20967571 ATTTCTAGGGACTAAATCACAATTTTACCAAATTAAGTGATGACTCAAGGATGAAATTTCTAAAG
131 ATTTCTAGGGACTAAATCACAATTTTACCAAATTAAGTGATGACTCAAGGATGAAATTTCAAAAG
20967636 ATTCTAAAGGGCAAAATGGTCAATTAGAAGAGAGAGAAATCTAGAAGGTATTGATGATATTGGTG
196 ATTCTAAAGGGCAAAATGGTCAATTAGAAGAGAGAGAAATCTAGAAGGTATTGATGATATTGGTG
20967701 ATATTTTAGATTAATTAATTAAATAAATATTAGTTTATTAATATTTTAATTTGATTTTTAAATGA
261 ATATTTTAGATTAATTAATTAAATAAATATTAGTTTATTAATATTTTAATTTGATTTTTAAATGA
20967766 TATTTTATTATTTTATTATTATTCTATTTAGTATATATATGGAAGGAAAGATGAAGAATCTTCAT
326 TATTTTATTATTTTATTATTATTCTATTTAGTATATATATGGAAGGAAAGATGAAGAATCTTCAT
20967831 CTTCTTCCCATGCATCCAACGTATGAAGAGAAAAGAAAGAAAGAAAATTTCTTATCTTTACAATT
391 CTTCTTCCCATGCATCCAACGTATGAAGAGAAAAGAAAGAAAGAAAATTTCTTATCTTTACAATT
20967896 TGGTACTTTCACAAAAAATTCACCATTTTCACTTAGAAATCAAAAGAATTTTCATATCCATCAAG
456 TGGTACTTTCACAAAAAATTCACCATTTTCACTTAGAAATCAAAAGAATTTTCATATCCATCAAG
20967961 AGGGAAAGATAACAAGGAGACAATGGGGAGCTAGAATATCAAGTTATATTCAGGAAATAGAAGCT
521 AGGGAAAGATAACAAGGAGACAATGGGGAGCTAGAATATCAAGTTATATTCAGGAAATAGAAGCT
* *
20968026 GGAGGAGAGAGAAAATCAAGTTCAAGATTGAAATCAGTAGGACAAGGTAAGAACATTAAGGACAT
586 GGAGGAGAGAGAAAATCAAGTTCAAGATTGAAATCAATAGGACAAGGTAAGAACAGTAAGGACAT
* *
20968091 GTTTGGTTGGGTGTATTGGTAATCCAATACACCCCTAATCCGTGGGCCCCACTTAAGTCGGTGTT
651 GTTTGGTTGGGTGTATTGGTAATCCAATACACCCCTAATCCGTGGGCCCCACTTAAGCCAGTGTT
20968156 TGGTTCGATGTATTGCCTAATACAGGCCTATTACGTTACGCCCCTAATCCCCGAAATTCTCTGTT
716 TGGTTCGATGTATTGCCTAATACAGGCCTATTACGTTACGCCCCTAATCCCCGAAATTCTCTGTT
*
20968221 TTGTAATCCCTGCCTTTTCCTCAGATTACATCCGTTTTACATCTCACGCCCTGATTTGCCCTCCC
781 TTGTAATCCCTGCCTTCTCCTCAGATTACATCCGTTTTACATCTCACGCCCTGATTTGCCCTCCC
20968286 AACTCGAAATCCACCTCCAACCTCTCCCTCCCAACATCAAACAGAAGCTGCGAGCGAAGTCACCT
846 AACTCGAAATCCACCTCCAACCTCTCCCTCCCAACATCAAACAGAAGCTGCGAGCGAAGTCACCT
20968351 CCACCCGACT
911 CCACCCGACT
20968361 C
1 C
20968362 CACCGTCTCA
Statistics
Matches: 909, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
920 909 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (920 bp):
CTCAAAATTTGAGGGGTTAAAGTGTAAATACAAAAAAGTTGAAGGACCAATAGTGTAAATATTTT
AAGGGTGGAATAATTTAGAAACTAAGGAAAATGGATGAATTAGGATCAAATTAAAAATGTGAAGA
ATTTCTAGGGACTAAATCACAATTTTACCAAATTAAGTGATGACTCAAGGATGAAATTTCAAAAG
ATTCTAAAGGGCAAAATGGTCAATTAGAAGAGAGAGAAATCTAGAAGGTATTGATGATATTGGTG
ATATTTTAGATTAATTAATTAAATAAATATTAGTTTATTAATATTTTAATTTGATTTTTAAATGA
TATTTTATTATTTTATTATTATTCTATTTAGTATATATATGGAAGGAAAGATGAAGAATCTTCAT
CTTCTTCCCATGCATCCAACGTATGAAGAGAAAAGAAAGAAAGAAAATTTCTTATCTTTACAATT
TGGTACTTTCACAAAAAATTCACCATTTTCACTTAGAAATCAAAAGAATTTTCATATCCATCAAG
AGGGAAAGATAACAAGGAGACAATGGGGAGCTAGAATATCAAGTTATATTCAGGAAATAGAAGCT
GGAGGAGAGAGAAAATCAAGTTCAAGATTGAAATCAATAGGACAAGGTAAGAACAGTAAGGACAT
GTTTGGTTGGGTGTATTGGTAATCCAATACACCCCTAATCCGTGGGCCCCACTTAAGCCAGTGTT
TGGTTCGATGTATTGCCTAATACAGGCCTATTACGTTACGCCCCTAATCCCCGAAATTCTCTGTT
TTGTAATCCCTGCCTTCTCCTCAGATTACATCCGTTTTACATCTCACGCCCTGATTTGCCCTCCC
AACTCGAAATCCACCTCCAACCTCTCCCTCCCAACATCAAACAGAAGCTGCGAGCGAAGTCACCT
CCACCCGACT
Found at i:20969403 original size:59 final size:60
Alignment explanation
Indices: 20969339--20969526 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 60
20969329 TTATAGTATC
20969339 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAA-T
* * * * * * * *
20969400 ATATATTTTAATTAT-AATATATTTA-ATAAGAATTATGTTAA-T-TT-A-TATTTTA-CAGTAT
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TA--TTAATTATTAAGAATTTTATTA-AAT
20969458 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 -ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAA-T
20969520 ATATATT
1 ATATATT
20969527 TTAATTATAA
Statistics
Matches: 97, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
57 4 0.04
58 4 0.04
59 29 0.30
60 16 0.16
61 36 0.37
62 4 0.04
63 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (60 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:20969509 original size:120 final size:120
Alignment explanation
Indices: 20969328--20969558 Score: 435
Period size: 120 Copynumber: 1.9 Consensus size: 120
20969318 CAAATTTTCA
*
20969328 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
1 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
*
20969393 TTAAATTATATATTTTAATTATAATATATTTAATAAGAATTATGTTAATTTATAT
66 TTAAATTATATATTTTAATTATAATATATTTAATAAGAATCATGTTAATTTATAT
20969448 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
1 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
*
20969513 TTAAATTATATATTTTAATTATAATATATTTAATAATAATCATGTT
66 TTAAATTATATATTTTAATTATAATATATTTAATAAGAATCATGTT
20969559 TAAATATGAT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 108 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
TTAAATTATATATTTTAATTATAATATATTTAATAAGAATCATGTTAATTTATAT
Found at i:20969546 original size:15 final size:15
Alignment explanation
Indices: 20969511--20969552 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20969501 TTAAGAATTT
*
20969511 TATTAAATTAT-ATA
1 TATTTAATTATAATA
20969525 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
20969539 TATTTAATAATAAT
1 TATTTAATTATAAT
20969553 CATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:20969680 original size:157 final size:157
Alignment explanation
Indices: 20969495--20969811 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
20969485 ATAAGAATAT
*
20969495 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATCATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATCATGTTT
* *
20969560 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAGTAATAATCTTATTAAAATTTAAATAACAATAACAA
*
20969625 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
*
20969652 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATCATGTTT
*
20969717 AATTATGATTAAAATATTTATTATTGATAGTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAGTAATAATCTTATTAAAATTTAAATAACAATAACAA
*
20969782 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
20969809 TAA
1 TAA
20969812 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATCATGTTT
AAATATGATTAAAATATTTATTATTGATAGTAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:20969692 original size:18 final size:17
Alignment explanation
Indices: 20969664--20969698 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
20969654 ATTATTAAGA
*
20969664 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
20969681 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
20969699 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:20969698 original size:16 final size:16
Alignment explanation
Indices: 20969664--20969721 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
20969654 ATTATTAAGA
20969664 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
20969681 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
20969697 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
20969711 ATGTTTAATTA
1 AT-TTTAATTA
20969722 TGATTAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 10 0.28
17 7 0.19
18 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:20969956 original size:16 final size:16
Alignment explanation
Indices: 20969935--20969970 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
20969925 GATTTGCTAT
20969935 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20969951 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20969967 TACA
1 TACA
20969971 GCGAACGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:20977762 original size:17 final size:17
Alignment explanation
Indices: 20977716--20977750 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
20977706 GAGAATGGAA
20977716 AATAAAG-AAAAAAAGT
1 AATAAAGAAAAAAAAGT
20977732 AATAAAGAAAAAAAAGT
1 AATAAAGAAAAAAAAGT
20977749 AA
1 AA
20977751 AACAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AATAAAGAAAAAAAAGT
Found at i:20986403 original size:17 final size:15
Alignment explanation
Indices: 20986378--20986437 Score: 66
Period size: 17 Copynumber: 3.7 Consensus size: 15
20986368 ATGATATAAC
20986378 AAAAATAATTAATTAT
1 AAAAATAATTAA-TAT
*
20986394 AAAAAGTAATTAAAAAT
1 AAAAA-TAATT-AATAT
20986411 AAAAATAATATAATAT
1 AAAAATAAT-TAATAT
20986427 AATAAATAATT
1 AA-AAATAATT
20986438 TAAAACAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 16 0.42
17 20 0.53
18 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
AAAAATAATTAATAT
Found at i:20986428 original size:33 final size:33
Alignment explanation
Indices: 20986378--20986442 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
20986368 ATGATATAAC
20986378 AAAAATAATTAATTATAA-AAAGTAATTAAAAAT
1 AAAAATAATTAATTATAATAAA-TAATTAAAAAT
*
20986411 AAAAATAATATAA-TATAATAAATAATTTAAAA
1 AAAAATAAT-TAATTATAATAAATAATTAAAAA
20986443 CAATTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 23 0.79
34 6 0.21
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (33 bp):
AAAAATAATTAATTATAATAAATAATTAAAAAT
Found at i:20987474 original size:20 final size:20
Alignment explanation
Indices: 20987451--20987488 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20987441 TACACATTTC
20987451 ACAATTCATATCAAAATCTG
1 ACAATTCATATCAAAATCTG
* *
20987471 ACAATTGATATTAAAATC
1 ACAATTCATATCAAAATC
20987489 CCGTTATTAC
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:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (20 bp):
ACAATTCATATCAAAATCTG
Found at i:20989983 original size:24 final size:24
Alignment explanation
Indices: 20989925--20989994 Score: 106
Period size: 23 Copynumber: 3.0 Consensus size: 24
20989915 TATTCATTTA
*
20989925 ATTTAATCGAACATGTTCACGAAC
1 ATTTAATCGAACATGTTCATGAAC
*
20989949 A-TTAAACGAACATGTTCATGAAC
1 ATTTAATCGAACATGTTCATGAAC
*
20989972 ATTTAATTGAACATGTTCATGAA
1 ATTTAATCGAACATGTTCATGAA
20989995 TAATGTTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 21 0.51
24 20 0.49
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (24 bp):
ATTTAATCGAACATGTTCATGAAC
Found at i:20989994 original size:12 final size:12
Alignment explanation
Indices: 20989933--20989994 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
20989923 TAATTTAATC
*
20989933 GAACATGTTCAC
1 GAACATGTTCAT
** *
20989945 GAACAT-TAAAC
1 GAACATGTTCAT
20989956 GAACATGTTCAT
1 GAACATGTTCAT
*
20989968 GAACAT-TTAATT
1 GAACATGTTCA-T
20989980 GAACATGTTCAT
1 GAACATGTTCAT
20989992 GAA
1 GAA
20989995 TAATGTTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
11 12 0.30
12 25 0.62
13 3 0.08
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (12 bp):
GAACATGTTCAT
Found at i:20990219 original size:12 final size:11
Alignment explanation
Indices: 20990190--20990234 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
20990180 ATTATTAATA
20990190 AATAAACGAGT
1 AATAAACGAGT
*
20990201 CATAAACGAGCT
1 AATAAACGAG-T
*
20990213 AATAAACAAGT
1 AATAAACGAGT
20990224 CAATAAACGAG
1 -AATAAACGAG
20990235 CTTGTTTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (11 bp):
AATAAACGAGT
Found at i:20990224 original size:23 final size:24
Alignment explanation
Indices: 20990190--20990236 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
20990180 ATTATTAATA
*
20990190 AATAAACGAGTC-ATAAACGAGCT
1 AATAAACAAGTCAATAAACGAGCT
20990213 AATAAACAAGTCAATAAACGAGCT
1 AATAAACAAGTCAATAAACGAGCT
20990237 TGTTTGTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (24 bp):
AATAAACAAGTCAATAAACGAGCT
Found at i:20997902 original size:29 final size:29
Alignment explanation
Indices: 20997860--20997919 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
20997850 AAAAAGCAAG
20997860 CAATTTTTTTTGGTAATTTAGTCGTAACC
1 CAATTTTTTTTGGTAATTTAGTCGTAACC
20997889 CAATTTTTTTTGGTAATTTAGTCGTAACC
1 CAATTTTTTTTGGTAATTTAGTCGTAACC
20997918 CA
1 CA
20997920 TCATAAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.47
Consensus pattern (29 bp):
CAATTTTTTTTGGTAATTTAGTCGTAACC
Found at i:21001159 original size:11 final size:11
Alignment explanation
Indices: 21001142--21001171 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
21001132 GGTGCAATTG
21001142 ATATTATTGCT
1 ATATTATTGCT
*
21001153 CTATTATTGCT
1 ATATTATTGCT
21001164 ATATTATT
1 ATATTATT
21001172 TAACAAAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.57
Consensus pattern (11 bp):
ATATTATTGCT
Found at i:21005881 original size:3 final size:3
Alignment explanation
Indices: 21005875--21005923 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
21005865 CCACGAAGCC
21005875 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21005923 A
1 A
21005924 AACAAACTTA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21006323 original size:18 final size:18
Alignment explanation
Indices: 21006297--21006345 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
21006287 CTGCGAATTG
*
21006297 CGAGCTCACCAAGAA-CTA
1 CGAGCTCACCAA-AATATA
*
21006315 CGAGTTCACCAAAATATA
1 CGAGCTCACCAAAATATA
21006333 CGAGCTCACCAAA
1 CGAGCTCACCAAA
21006346 TGTGCGAGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.41, C:0.31, G:0.14, T:0.14
Consensus pattern (18 bp):
CGAGCTCACCAAAATATA
Found at i:21006353 original size:17 final size:17
Alignment explanation
Indices: 21006297--21006357 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
21006287 CTGCGAATTG
21006297 CGAGCTCACCAAGA-ACTA
1 CGAGCTCACCAA-ATA-TA
*
21006315 CGAGTTCACCAAAATATA
1 CGAGCTCACC-AAATATA
* *
21006333 CGAGCTCACCAAATGTG
1 CGAGCTCACCAAATATA
21006350 CGAGCTCA
1 CGAGCTCA
21006358 TCAACACTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 13 0.35
18 21 0.57
19 3 0.08
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.16
Consensus pattern (17 bp):
CGAGCTCACCAAATATA
Found at i:21006371 original size:17 final size:17
Alignment explanation
Indices: 21006351--21006391 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
21006341 CCAAATGTGC
*
21006351 GAGCTCATCAA-CACTGT
1 GAGCTCATCAAGC-CTGA
21006368 GAGCTCA-CAAGCCTGA
1 GAGCTCATCAAGCCTGA
21006384 GAGCTCAT
1 GAGCTCAT
21006392 TTGCGAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (17 bp):
GAGCTCATCAAGCCTGA
Found at i:21025534 original size:29 final size:30
Alignment explanation
Indices: 21025491--21025555 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
21025481 GCAAAGTGAA
** *
21025491 GAGCTCGCAGGTGAGCTCTCATGC-TTGGT
1 GAGCTCGCAAATGAGCTCTCAGGCTTTGGT
*
21025520 TAGCTCGCAAATGAGCTCTCAGGCTTTGGT
1 GAGCTCGCAAATGAGCTCTCAGGCTTTGGT
21025550 GAGCTC
1 GAGCTC
21025556 ACAGTGTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.28
Consensus pattern (30 bp):
GAGCTCGCAAATGAGCTCTCAGGCTTTGGT
Found at i:21025586 original size:17 final size:18
Alignment explanation
Indices: 21025544--21025590 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
21025534 GCTCTCAGGC
21025544 TTTGGTGAGCT--CACAG
1 TTTGGTGAGCTCGCACAG
*
21025560 TGTTGATGAGCTCGCACA-
1 T-TTGGTGAGCTCGCACAG
21025578 TTTGGTGAGCTCG
1 TTTGGTGAGCTCG
21025591 TATATTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 1 0.04
17 20 0.77
18 1 0.04
19 4 0.15
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.32
Consensus pattern (18 bp):
TTTGGTGAGCTCGCACAG
Found at i:21025597 original size:17 final size:17
Alignment explanation
Indices: 21025566--21025626 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
21025556 ACAGTGTTGA
* *
21025566 TGAGCTCGCACATTTGG
1 TGAGCTCGTATATTTGG
21025583 TGAGCTCGTATATTTTGG
1 TGAGCTCGTATA-TTTGG
*
21025601 TGAACTCGTAGT-TCTTGG
1 TGAGCTCGTA-TAT-TTGG
21025619 TGAGCTCG
1 TGAGCTCG
21025627 CAATTCGCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 11 0.30
18 25 0.68
19 1 0.03
ACGTcount: A:0.16, C:0.18, G:0.30, T:0.36
Consensus pattern (17 bp):
TGAGCTCGTATATTTGG
Found at i:21025601 original size:18 final size:18
Alignment explanation
Indices: 21025578--21025626 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
21025568 AGCTCGCACA
21025578 TTTGGTGAGCTCGTA-TAT
1 TTTGGTGAGCTCGTAGT-T
*
21025596 TTTGGTGAACTCGTAGTT
1 TTTGGTGAGCTCGTAGTT
*
21025614 CTTGGTGAGCTCG
1 TTTGGTGAGCTCG
21025627 CAATTCGCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.31, T:0.41
Consensus pattern (18 bp):
TTTGGTGAGCTCGTAGTT
Found at i:21026008 original size:3 final size:3
Alignment explanation
Indices: 21026000--21026051 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
21025990 TAAGTTTGTT
21026000 TTA TTA TTA 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 TTA TTA TTA
21026048 TTA T
1 TTA T
21026052 GGCTTCGTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21030768 original size:11 final size:11
Alignment explanation
Indices: 21030754--21030783 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
21030744 GCTTTTGTTA
21030754 AATAATATAGC
1 AATAATATAGC
*
21030765 AATAATAGAGC
1 AATAATATAGC
21030776 AATAATAT
1 AATAATAT
21030784 CAATTGCACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (11 bp):
AATAATATAGC
Found at i:21033971 original size:19 final size:20
Alignment explanation
Indices: 21033944--21033984 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
21033934 AGAAGAACAG
*
21033944 TTTTGTTTTTCTTTTCT-TT
1 TTTTATTTTTCTTTTCTCTT
*
21033963 TTTTATTTTTTTTTTCTCTT
1 TTTTATTTTTCTTTTCTCTT
21033983 TT
1 TT
21033985 ATGATGGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.85
Consensus pattern (20 bp):
TTTTATTTTTCTTTTCTCTT
Found at i:21034029 original size:28 final size:28
Alignment explanation
Indices: 21033989--21034043 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
21033979 TCTTTTATGA
21033989 TGGGTTACGACTAAATTACCAAAAAAAT
1 TGGGTTACGACTAAATTACCAAAAAAAT
21034017 TGGGTTACGACTAAATTACCAAAAAAA
1 TGGGTTACGACTAAATTACCAAAAAAA
21034044 ATTGCTTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (28 bp):
TGGGTTACGACTAAATTACCAAAAAAAT
Found at i:21055163 original size:18 final size:18
Alignment explanation
Indices: 21055123--21055165 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
21055113 GACTGGGAAA
* *
21055123 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
21055141 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
21055159 AGGATAC
1 AGGATAC
21055166 TTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:21057247 original size:30 final size:30
Alignment explanation
Indices: 21057213--21057271 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
21057203 CAGAAGTAGT
*
21057213 GTGTGGGCCATAGCCCAATATAGTAACAGA
1 GTGTGGGCCATAGCCCAATACAGTAACAGA
* *
21057243 GTGTGGGCCTTAGCCTAATACAGTAACAG
1 GTGTGGGCCATAGCCCAATACAGTAACAG
21057272 TGCAAATGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (30 bp):
GTGTGGGCCATAGCCCAATACAGTAACAGA
Found at i:21057414 original size:26 final size:26
Alignment explanation
Indices: 21057385--21057467 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
21057375 ATATTGCAAC
* *
21057385 AAAGTTGTTAGTAATAGTAACGCAGT
1 AAAGCTGTCAGTAATAGTAACGCAGT
* * *
21057411 AAAGCTGCCAGTAATAGTAACACAAT
1 AAAGCTGTCAGTAATAGTAACGCAGT
*
21057437 AGAGCTGTCAGT-ATCAGTAACGCAGT
1 AAAGCTGTCAGTAAT-AGTAACGCAGT
21057463 AAAGC
1 AAAGC
21057468 ATCCAGTAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
25 2 0.04
26 44 0.96
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.23
Consensus pattern (26 bp):
AAAGCTGTCAGTAATAGTAACGCAGT
Found at i:21057474 original size:26 final size:26
Alignment explanation
Indices: 21057400--21057481 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
21057390 TGTTAGTAAT
21057400 AGTAACGCAGTAAAGCTGCCAGTAAT-
1 AGTAACGCAGTAAAGCTGCCAGT-ATC
* * * *
21057426 AGTAACACAATAGAGCTGTCAGTATC
1 AGTAACGCAGTAAAGCTGCCAGTATC
*
21057452 AGTAACGCAGTAAAGCAT-CCAGTAAC
1 AGTAACGCAGTAAAGC-TGCCAGTATC
21057478 AGTA
1 AGTA
21057482 TTTGTGGCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
25 2 0.04
26 42 0.93
27 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.20
Consensus pattern (26 bp):
AGTAACGCAGTAAAGCTGCCAGTATC
Found at i:21057707 original size:27 final size:27
Alignment explanation
Indices: 21057676--21057790 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
21057666 GTATAACGGA
*
21057676 CATTTTACCCTATAAGGGTATTTCGGT
1 CATTTTACCCTATAAGGGTATTTCAGT
* *
21057703 AATTTTA-CCTATAGAGGATATTTCAGT
1 CATTTTACCCTATA-AGGGTATTTCAGT
*
21057730 CATTTTACCC-ATCGAGGGTATTTC-GAT
1 CATTTTACCCTAT-AAGGGTATTTCAG-T
* *
21057757 CATTTTACCCTTTGAGGGTATTTCAGT
1 CATTTTACCCTATAAGGGTATTTCAGT
21057784 CATTTTA
1 CATTTTA
21057791 GAGGCCTATT
Statistics
Matches: 75, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
26 7 0.09
27 64 0.85
28 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (27 bp):
CATTTTACCCTATAAGGGTATTTCAGT
Found at i:21057734 original size:54 final size:54
Alignment explanation
Indices: 21057676--21057790 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
21057666 GTATAACGGA
*
21057676 CATTTTACCCTAT-AAGGGTATTTCGGTAATTTTA-CCTATAGAGGATATTTCAGT
1 CATTTTACCC-ATCAAGGGTATTTCGATAATTTTACCCT-TAGAGGATATTTCAGT
* * * *
21057730 CATTTTACCCATCGAGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTCAGT
1 CATTTTACCCATCAAGGGTATTTCGATAATTTTACCCTTAGAGGATATTTCAGT
21057784 CATTTTA
1 CATTTTA
21057791 GAGGCCTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 2 0.04
54 49 0.91
55 3 0.06
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (54 bp):
CATTTTACCCATCAAGGGTATTTCGATAATTTTACCCTTAGAGGATATTTCAGT
Found at i:21060324 original size:30 final size:30
Alignment explanation
Indices: 21060282--21060369 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
21060272 AGAATCAATC
*
21060282 TGGGCC-TGAGCCCTATACAGTAGCAGTGTG
1 TGGGCCAT-AGCCCTATACAGTAACAGTGTG
* * *
21060312 TGGGCCATAGCCCAATATAGTAACAGAGTG
1 TGGGCCATAGCCCTATACAGTAACAGTGTG
*
21060342 TGGG-TATTAGCCCTATACAGTAACAGTG
1 TGGGCCA-TAGCCCTATACAGTAACAGTG
21060370 CAAATGCAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 1 0.02
30 46 0.96
31 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (30 bp):
TGGGCCATAGCCCTATACAGTAACAGTGTG
Found at i:21060492 original size:26 final size:26
Alignment explanation
Indices: 21060454--21060531 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
21060444 AAATCGACCC
21060454 ACGCAGCAAAGCTGCCAGTAACAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
* * * **
21060480 ATGCAGCAGAGCTGTCAGTATTAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
* * *
21060506 ACGCAGGAAAGCTACCAGAAACAGTA
1 ACGCAGCAAAGCTGCCAGTAACAGTA
21060532 TTTGTGGCAA
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.15
Consensus pattern (26 bp):
ACGCAGCAAAGCTGCCAGTAACAGTA
Found at i:21060752 original size:27 final size:27
Alignment explanation
Indices: 21060722--21060782 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
21060712 AGGGGTATAA
21060722 CGGTCATTTTACCCTATAGA-GGTATTT
1 CGGTCATTTTACCC-ATAGAGGGTATTT
* * *
21060749 CGGTAATTTTATCCATCGAGGGTATTT
1 CGGTCATTTTACCCATAGAGGGTATTT
*
21060776 CGCTCAT
1 CGGTCAT
21060783 GGGGGCCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (27 bp):
CGGTCATTTTACCCATAGAGGGTATTT
Found at i:21073756 original size:7 final size:7
Alignment explanation
Indices: 21073744--21073773 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
21073734 GTCATGATGG
21073744 CATGGTA
1 CATGGTA
21073751 CATGGTA
1 CATGGTA
21073758 CATGGTA
1 CATGGTA
21073765 CATGGTA
1 CATGGTA
21073772 CA
1 CA
21073774 CGGTGTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (7 bp):
CATGGTA
Found at i:21073976 original size:33 final size:33
Alignment explanation
Indices: 21073922--21074012 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 33
21073912 GCATCCACAA
*
21073922 AGTAAGTCCACCAGGATAGTAAACACGGAATAG
1 AGTAAGTCCACCAGGACAGTAAACACGGAATAG
* * *
21073955 AGTAAGTTCACCGGGACAGTAAACACGGAATAA
1 AGTAAGTCCACCAGGACAGTAAACACGGAATAG
* *
21073988 AG-ATAGTCCATCAAGACAGTAAACA
1 AGTA-AGTCCACCAGGACAGTAAACA
21074013 TGAGATAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 1 0.02
33 48 0.98
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (33 bp):
AGTAAGTCCACCAGGACAGTAAACACGGAATAG
Found at i:21075752 original size:28 final size:28
Alignment explanation
Indices: 21075712--21075778 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
21075702 GTACAGCTCA
21075712 TGTGAGCAAATTCAAATATCACAACTCG
1 TGTGAGCAAATTCAAATATCACAACTCG
* * * *
21075740 TGTGAGCAAATTCAAATATTATAGCTTG
1 TGTGAGCAAATTCAAATATCACAACTCG
21075768 TGTGAGCAAAT
1 TGTGAGCAAAT
21075779 CGGCCTCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (28 bp):
TGTGAGCAAATTCAAATATCACAACTCG
Found at i:21081354 original size:9 final size:9
Alignment explanation
Indices: 21081340--21081368 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
21081330 TTTCAAATCA
21081340 CAACCAATT
1 CAACCAATT
21081349 CAACCAATT
1 CAACCAATT
21081358 CAACCAATT
1 CAACCAATT
21081367 CA
1 CA
21081369 TTTCACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (9 bp):
CAACCAATT
Found at i:21082036 original size:45 final size:45
Alignment explanation
Indices: 21081976--21082130 Score: 238
Period size: 45 Copynumber: 3.4 Consensus size: 45
21081966 AGTGAACAGT
* * *
21081976 AATCAGTAACGGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * *
21082021 AACCTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* *
21082066 AGTCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
21082111 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAGTAACAGTA
21082131 GTCGGCACAT
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:21082075 original size:39 final size:39
Alignment explanation
Indices: 21081987--21082157 Score: 148
Period size: 45 Copynumber: 4.1 Consensus size: 39
21081977 ATCAGTAACG
* *
21081987 GTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGTAACA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCG-A---GT--CA
*
21082032 GTAACGGTAACAGTATTCGACACACAAAGTGCCGAGTCGGTAACA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGA----GT--CA
*
21082077 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCGAGTCA
* * *
21082116 GTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTGA-TCA
1 GTAACAGTAACAGTATTCGACACACAAAGTGCC-GAGTCA
21082154 GTAA
1 GTAA
21082158 GCCGGCAAAT
Statistics
Matches: 114, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
38 14 0.12
39 26 0.23
41 1 0.01
44 1 0.01
45 72 0.63
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (39 bp):
GTAACAGTAACAGTATTCGACACACAAAGTGCCGAGTCA
Found at i:21083103 original size:9 final size:9
Alignment explanation
Indices: 21083089--21083133 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
21083079 TATTTAAATA
21083089 AATAATTAT
1 AATAATTAT
21083098 AATAATTAT
1 AATAATTAT
21083107 AATAATTAT
1 AATAATTAT
21083116 -ATACA-TAT
1 AATA-ATTAT
*
21083124 AATATTTAT
1 AATAATTAT
21083133 A
1 A
21083134 TATCTAACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
AATAATTAT
Found at i:21088440 original size:9 final size:9
Alignment explanation
Indices: 21088426--21088454 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
21088416 TTTCAAATCA
21088426 CAACCAATT
1 CAACCAATT
21088435 CAACCAATT
1 CAACCAATT
21088444 CAACCAATT
1 CAACCAATT
21088453 CA
1 CA
21088455 TTTCACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (9 bp):
CAACCAATT
Found at i:21089123 original size:45 final size:45
Alignment explanation
Indices: 21089063--21089217 Score: 229
Period size: 45 Copynumber: 3.4 Consensus size: 45
21089053 AGTGAACAGT
* * *
21089063 AATCAGTAACGGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * *
21089108 AACCTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * *
21089153 AGTCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCA
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
21089198 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAGTAACAGTA
21089218 GTCGGCAAAT
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 97 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:21090193 original size:9 final size:9
Alignment explanation
Indices: 21090176--21090220 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
21090166 TATTTAAATA
*
21090176 AATAATTAT
1 AATATTTAT
21090185 AATATTTAT
1 AATATTTAT
21090194 AATATTTAT
1 AATATTTAT
**
21090203 -ATACATAT
1 AATATTTAT
21090211 AATATTTAT
1 AATATTTAT
21090220 A
1 A
21090221 TATCTAACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
8 6 0.20
9 24 0.80
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (9 bp):
AATATTTAT
Found at i:21090985 original size:27 final size:26
Alignment explanation
Indices: 21090584--21090996 Score: 384
Period size: 27 Copynumber: 15.3 Consensus size: 26
21090574 ACCCCCATAA
**
21090584 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGATCGAAATACCCTGA-AG
* *
21090611 GATAAAATGA-CAGAAATACCC-CATAG
1 GGTAAAATGATC-GAAATACCCTGA-AG
* *
21090637 GATAAAATGA-CTGAAATACCCCTTAAG
1 GGTAAAATGATC-GAAATA-CCCTGAAG
* *
21090664 GGTAAAATGATCAAAATACCCCTAAAG
1 GGTAAAATGATCGAAATA-CCCTGAAG
* * *
21090691 GGTAAAATGA-CTAAAATACCCTCAAAT
1 GGTAAAATGATC-GAAATACCCT-GAAG
* * * *
21090718 GGTAAAATGACCAAAATATCGTCGAAG
1 GGTAAAATGATCGAAATACCCT-GAAG
*
21090745 GGTAAAATGATCGAAATACCTTCGAAG
1 GGTAAAATGATCGAAATACCCT-GAAG
*
21090772 GATAAAATGATCGAAATACCCTCGAAG
1 GGTAAAATGATCGAAATACCCT-GAAG
*
21090799 GATAAAATGATCGAAATACCCTCGAAG
1 GGTAAAATGATCGAAATACCCT-GAAG
* * *
21090826 GGTAAAATCACCAAAATACCCCCTGAAG
1 GGTAAAATGATCGAAATA--CCCTGAAG
* *
21090854 GGTAAAATAATCGAAATACCCCCGAAG
1 GGTAAAATGATCGAAATA-CCCTGAAG
21090881 GGTAAAATGATCGAAATACTCCTGAAG
1 GGTAAAATGATCGAAATAC-CCTGAAG
*
21090908 GGTAAAATGACCGAAATACCCTCGAAG
1 GGTAAAATGATCGAAATACCCT-GAAG
* *
21090935 GGTAAAATGATCAAAATACCCCTGATG
1 GGTAAAATGATCGAAATA-CCCTGAAG
*
21090962 GGTAAATTGATCGAAATACTCCTGAAG
1 GGTAAAATGATCGAAATAC-CCTGAAG
21090989 GGTAAAAT
1 GGTAAAAT
21090997 AACTGTTATG
Statistics
Matches: 338, Mismatches: 35, Indels: 26
0.85 0.09 0.07
Matches are distributed among these distances:
26 33 0.10
27 275 0.81
28 26 0.08
29 4 0.01
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (26 bp):
GGTAAAATGATCGAAATACCCTGAAG
Found at i:21091011 original size:54 final size:54
Alignment explanation
Indices: 21090584--21090996 Score: 450
Period size: 54 Copynumber: 7.6 Consensus size: 54
21090574 ACCCCCATAA
* *
21090584 GGTAAAATGATCGAAATACCC-CCATAGGATAAAATGA-CAGAAATACCCC--ATAG
1 GGTAAAATGATCGAAATACCCTCGA-AGGGTAAAATGATCA-AAATACCCCTGA-AG
* * *
21090637 GATAAAATGA-CTGAAATACCC-CTTAAGGGTAAAATGATCAAAATACCCCTAAAG
1 GGTAAAATGATC-GAAATACCCTC-GAAGGGTAAAATGATCAAAATACCCCTGAAG
* * * * * *
21090691 GGTAAAATGA-CTAAAATACCCTCAAATGGTAAAATGACCAAAATA-TCGTCGAAG
1 GGTAAAATGATC-GAAATACCCTCGAAGGGTAAAATGATCAAAATACCCCT-GAAG
* * *
21090745 GGTAAAATGATCGAAATACCTTCGAAGGATAAAATGATCGAAATA-CCCTCGAAG
1 GGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCCT-GAAG
* * *
21090799 GATAAAATGATCGAAATACCCTCGAAGGGTAAAATCACCAAAATACCCCCTGAAG
1 GGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCAAAATA-CCCCTGAAG
* * * *
21090854 GGTAAAATAATCGAAATACCCCCGAAGGGTAAAATGATCGAAATACTCCTGAAG
1 GGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCCTGAAG
* *
21090908 GGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCCTGATG
1 GGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCCTGAAG
*
21090962 GGTAAATTGATCGAAATACTCCT-GAAGGGTAAAAT
1 GGTAAAATGATCGAAATAC-CCTCGAAGGGTAAAAT
21090997 AACTGTTATG
Statistics
Matches: 308, Mismatches: 41, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
52 1 0.00
53 41 0.13
54 213 0.69
55 49 0.16
56 4 0.01
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (54 bp):
GGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCCTGAAG
Found at i:21091193 original size:27 final size:27
Alignment explanation
Indices: 21091148--21091221 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 27
21091138 AAAGGGGAAG
**
21091148 TATACTG-TACTGGTGGCTTTGCCACA
1 TATACTGTTACTGGCAGCTTTGCCACA
**
21091174 TATACTGTTACTGGCAGCTTTGCTGCA
1 TATACTGTTACTGGCAGCTTTGCCACA
* *
21091201 T-T-CTATTACTGGCAACTTTGC
1 TATACTGTTACTGGCAGCTTTGC
21091222 TGCATTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 17 0.41
26 8 0.20
27 16 0.39
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (27 bp):
TATACTGTTACTGGCAGCTTTGCCACA
Found at i:21091275 original size:25 final size:26
Alignment explanation
Indices: 21091176--21091274 Score: 132
Period size: 25 Copynumber: 3.9 Consensus size: 26
21091166 TTGCCACATA
* *
21091176 TACTGTTACTGGCAGCTTTGCTGCAT
1 TACTATTACTGGCAACTTTGCTGCAT
21091202 T-CTATTACTGGCAACTTTGCTGCAT
1 TACTATTACTGGCAACTTTGCTGCAT
* *
21091227 TATTATT-CTGGCAACTTTGCTGCGT
1 TACTATTACTGGCAACTTTGCTGCAT
*
21091252 TACTATTA-TGGCAGCTTTGCTGC
1 TACTATTACTGGCAACTTTGCTGC
21091275 GATATTGGTG
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
25 60 0.92
26 5 0.08
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.40
Consensus pattern (26 bp):
TACTATTACTGGCAACTTTGCTGCAT
Found at i:21091423 original size:28 final size:28
Alignment explanation
Indices: 21091385--21091467 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 28
21091375 TATTTTGTTT
* *
21091385 ACTGTATTGGGCTAAAGCCCACATTGTC
1 ACTGTAATGGGCTAAAGCCCACACTGTC
* * * *
21091413 ACTGTACTGGGCTAAGGTCCACACTGTT
1 ACTGTAATGGGCTAAAGCCCACACTGTC
* *
21091441 ACTGTAATGGGCTAAGGCTCACACTGT
1 ACTGTAATGGGCTAAAGCCCACACTGT
21091468 ACCGATATTG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (28 bp):
ACTGTAATGGGCTAAAGCCCACACTGTC
Found at i:21097071 original size:41 final size:41
Alignment explanation
Indices: 21097026--21097153 Score: 157
Period size: 41 Copynumber: 3.1 Consensus size: 41
21097016 AGAATATTGT
*
21097026 TGAATTGCATATACGTGACCTTATTTGTACTTTGGTACCCC
1 TGAATTGCATATACGTGACCTTATTTGTACTTCGGTACCCC
* * * * **
21097067 TGAATTGCATATACGTGTCCCTGTTTATACTTCAATACCCC
1 TGAATTGCATATACGTGACCTTATTTGTACTTCGGTACCCC
* * * *
21097108 TGAATTGCACATACGTGCCCTTCTTTGTACTTCGGTGCCCC
1 TGAATTGCATATACGTGACCTTATTTGTACTTCGGTACCCC
21097149 TGAAT
1 TGAAT
21097154 GCACTTTTGT
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (41 bp):
TGAATTGCATATACGTGACCTTATTTGTACTTCGGTACCCC
Found at i:21104945 original size:22 final size:21
Alignment explanation
Indices: 21104915--21104967 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
21104905 GGTTAGATTA
*
21104915 TCTCGAGACATAAGGTGCCAA-G
1 TCTCAAGACAT-AGGT-CCAATG
*
21104937 TCTCAAGACATAGGTTCAATG
1 TCTCAAGACATAGGTCCAATG
21104958 TCTCAAGACA
1 TCTCAAGACA
21104968 CTGTCCCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 15 0.54
22 10 0.36
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (21 bp):
TCTCAAGACATAGGTCCAATG
Found at i:21116748 original size:30 final size:31
Alignment explanation
Indices: 21116692--21116749 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
21116682 ATTTATTATC
21116692 AAATTTATCGTACGTAGTCAAAAACGACGTT
1 AAATTTATCGTACGTAGTCAAAAACGACGTT
*
21116723 AAATTTATCGTATGTAGTC-AAAACGAC
1 AAATTTATCGTACGTAGTCAAAAACGAC
21116750 ATTAGGTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (31 bp):
AAATTTATCGTACGTAGTCAAAAACGACGTT
Found at i:21128030 original size:110 final size:110
Alignment explanation
Indices: 21127631--21128307 Score: 968
Period size: 110 Copynumber: 6.1 Consensus size: 110
21127621 TGGATTAAGA
* * * *
21127631 TTTAAGAGGATATTCGGCTATTTGGTCCAACGAG--AAATCGAAACCCAACGCATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
*
21127694 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTG-AAGTT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
* * * *
21127738 TTTAAAAGGATATTTGGCCATTTGGTCGAATGAGAAAAATCGAAACCCAGCACATTAGGGCACAT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
*
21127803 TTTCTCGAATTTCCAAACGCAAAACATTG-CTTCATTTTGAATTTTTT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTT-ATTTTGAA--ATTT
* *
21127850 TTTAAAAGAGGATATTTGGCTATTTGGTCGAACGGGAAAGATCGAAACCCAACACATTAGGGCAC
1 TTT-AAA-AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCAC
21127915 GTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
64 GTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
* * *
21127962 TTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAAATCGAAACTCAACACATTAGGGCACAT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
* * *
21128027 TTTCTCGAATTTCCAAAAGCAAAACATTACCTCATTTTGAAATTTTT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA--TTT
* * * **
21128074 TTTAAAAGAGGATATTTGGCTATTTGGTCGAA-TAGGAAAGATCGAAGCCCGGCACATTAGGGCA
1 TTT-AAA-AGGATATTTGGCTATTTGGTCGAACGA-GAAAAATCGAAACCCAACACATTAGGGCA
* *
21128138 CGTTTTCTCGAATTTCGAAACGCAAAACATTACCTTATTTTGAAATTT
63 CGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
* *
21128186 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATTGAAACCCAACACATTTGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
* *
21128251 TTTCTCGAATTTCCAAATGCAAAATATTGCCTTATTTTGAAATTT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
21128296 TTTAAAAGGATA
1 TTTAAAAGGATA
21128308 ATTAGTATGC
Statistics
Matches: 508, Mismatches: 47, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
107 29 0.06
108 3 0.01
109 61 0.12
110 197 0.39
111 7 0.01
112 23 0.05
113 7 0.01
114 178 0.35
115 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (110 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
Found at i:21128035 original size:224 final size:224
Alignment explanation
Indices: 21127634--21128298 Score: 1059
Period size: 224 Copynumber: 3.0 Consensus size: 224
21127624 ATTAAGATTT
* * * *
21127634 AAGAGGATATTCGGCTATTTGGTCCAACGAG-AA-ATCGAAACCCAACGCATTAGGGCACGTTTT
1 AAGAGGATATTTGGCTATTTGGTCGAACGGGAAAGATCGAAACCCAACACATTAGGGCACGTTTT
* *
21127697 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTG-AAGTTTTTAAAAGGATATTTGGCCATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAAAGGATATTTGGCTATTT
* * *
21127761 GGTCGAATGAGAAAAATCGAAACCCAGCACATTAGGGCACATTTTCTCGAATTTCCAAACGCAAA
131 GGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACATTTTCTCGAATTTCCAAAAGCAAA
*
21127826 ACATTGCTTCATTTTGAATTTTTTTTTAA
196 ACATTGCTTCATTTTGAAATTTTTTTTAA
21127855 AAGAGGATATTTGGCTATTTGGTCGAACGGGAAAGATCGAAACCCAACACATTAGGGCACGTTTT
1 AAGAGGATATTTGGCTATTTGGTCGAACGGGAAAGATCGAAACCCAACACATTAGGGCACGTTTT
*
21127920 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAAAGGATATTTAGCTATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAAAGGATATTTGGCTATTT
*
21127985 GGTCGAACGAGAAAAATCGAAACTCAACACATTAGGGCACATTTTCTCGAATTTCCAAAAGCAAA
131 GGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACATTTTCTCGAATTTCCAAAAGCAAA
* *
21128050 ACATTACCTCATTTTGAAATTTTTTTTAA
196 ACATTGCTTCATTTTGAAATTTTTTTTAA
** * **
21128079 AAGAGGATATTTGGCTATTTGGTCGAATAGGAAAGATCGAAGCCCGGCACATTAGGGCACGTTTT
1 AAGAGGATATTTGGCTATTTGGTCGAACGGGAAAGATCGAAACCCAACACATTAGGGCACGTTTT
* *
21128144 CTCGAATTTCGAAACGCAAAACATTACCTTATTTTGAAATTTTTTAAAAGGATATTTGGCTATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAAAGGATATTTGGCTATTT
* * * *
21128209 GGTCGAACGAGAAAAATTGAAACCCAACACATTTGGGCACGTTTTCTCGAATTTCCAAATGCAAA
131 GGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACATTTTCTCGAATTTCCAAAAGCAAA
*
21128274 ATATTGCCTT-ATTTTGAAATTTTTT
196 ACATTG-CTTCATTTTGAAATTTTTT
21128299 AAAAGGATAA
Statistics
Matches: 410, Mismatches: 30, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
221 28 0.07
222 2 0.00
223 65 0.16
224 313 0.76
225 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (224 bp):
AAGAGGATATTTGGCTATTTGGTCGAACGGGAAAGATCGAAACCCAACACATTAGGGCACGTTTT
CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAAAGGATATTTGGCTATTT
GGTCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACATTTTCTCGAATTTCCAAAAGCAAA
ACATTGCTTCATTTTGAAATTTTTTTTAA
Found at i:21129900 original size:23 final size:23
Alignment explanation
Indices: 21129870--21129917 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
21129860 GTGGACTCGC
21129870 TTATTAAGGGGCTACACCTAAGG
1 TTATTAAGGGGCTACACCTAAGG
21129893 TTATTAAGGGGCTACACCTAAGG
1 TTATTAAGGGGCTACACCTAAGG
21129916 TT
1 TT
21129918 TTATAAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (23 bp):
TTATTAAGGGGCTACACCTAAGG
Found at i:21133342 original size:29 final size:30
Alignment explanation
Indices: 21133281--21133371 Score: 89
Period size: 30 Copynumber: 3.1 Consensus size: 30
21133271 AAAAATTTAT
21133281 AAAAATGA-TTAAATTTTAATAAAACTATAA
1 AAAAAT-ATTTAAATTTTAATAAAACTATAA
* * *
21133311 AAAAATATTTAAATTTTATTAAAATTAGAA
1 AAAAATATTTAAATTTTAATAAAACTATAA
** *
21133341 AAAAATTATAAAAATTGTAA-AAAA-TATAA
1 AAAAA-TATTTAAATTTTAATAAAACTATAA
21133370 AA
1 AA
21133372 TATATAGAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
29 7 0.14
30 34 0.67
31 10 0.20
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAAATATTTAAATTTTAATAAAACTATAA
Found at i:21133349 original size:20 final size:19
Alignment explanation
Indices: 21133326--21133371 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
21133316 TATTTAAATT
*
21133326 TTATTAAAATTAGAAAAAAA
1 TTATAAAAATT-GAAAAAAA
*
21133346 TTATAAAAATTGTAAAAAA
1 TTATAAAAATTGAAAAAAA
21133365 -TATAAAA
1 TTATAAAA
21133372 TATATAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 7 0.29
20 10 0.42
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (19 bp):
TTATAAAAATTGAAAAAAA
Found at i:21133440 original size:19 final size:19
Alignment explanation
Indices: 21133427--21133477 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
21133417 GAAAATTATA
*
21133427 AAAAAATATAAAAAAATAT
1 AAAAATTATAAAAAAATAT
* *
21133446 -AAAATTCGTAAAAAATTAT
1 AAAAATT-ATAAAAAAATAT
21133465 AAAAATTATAAAA
1 AAAAATTATAAAA
21133478 TACTTCTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.19
19 15 0.58
20 6 0.23
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAATTATAAAAAAATAT
Found at i:21133467 original size:10 final size:10
Alignment explanation
Indices: 21133418--21133477 Score: 63
Period size: 10 Copynumber: 6.2 Consensus size: 10
21133408 AAGTCGTAAG
21133418 AAAATTATAA
1 AAAATTATAA
*
21133428 AAAAATATAA
1 AAAATTATAA
*
21133438 AAAA--ATAT
1 AAAATTATAA
*
21133446 AAAATTCGTAA
1 AAAATT-ATAA
21133457 AAAATTAT-A
1 AAAATTATAA
21133466 AAAATTATAA
1 AAAATTATAA
21133476 AA
1 AA
21133478 TACTTCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
8 7 0.17
9 9 0.22
10 17 0.41
11 8 0.20
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAATTATAA
Found at i:21133478 original size:8 final size:9
Alignment explanation
Indices: 21133341--21133477 Score: 57
Period size: 9 Copynumber: 14.4 Consensus size: 9
21133331 AAAATTAGAA
21133341 AAAAATTAT
1 AAAAATTAT
*
21133350 AAAAATTGT
1 AAAAATTAT
*
21133359 AAAAAATAT
1 AAAAATTAT
21133368 -AAAATATAT
1 AAAAAT-TAT
* *
21133377 AGAAATATAG
1 AAAAAT-TAT
21133387 AAAAAGTTAT
1 AAAAA-TTAT
* *
21133397 -AAGATTTT
1 AAAAATTAT
*
21133405 ATAAAGTCGTA-
1 A-AAAAT--TAT
21133416 AGAAAATTAT
1 A-AAAATTAT
*
21133426 AAAAAAATAT
1 -AAAAATTAT
*
21133436 AAAAA-AAT
1 AAAAATTAT
*
21133444 ATAAAATTCGT
1 A-AAAATT-AT
21133455 AAAAAATTAT
1 -AAAAATTAT
21133465 AAAAATTAT
1 AAAAATTAT
21133474 AAAA
1 AAAA
21133478 TACTTCTTTT
Statistics
Matches: 95, Mismatches: 20, Indels: 26
0.67 0.14 0.18
Matches are distributed among these distances:
8 10 0.11
9 45 0.47
10 24 0.25
11 14 0.15
12 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:21133642 original size:20 final size:20
Alignment explanation
Indices: 21133619--21133657 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21133609 TTAAATGACC
21133619 TTTTTAATG-TATTTTATAAT
1 TTTTTAATGAT-TTTTATAAT
*
21133639 TTTTTTATGATTTTTATAA
1 TTTTTAATGATTTTTATAA
21133658 AAGTTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTTAATGATTTTTATAAT
Found at i:21133716 original size:28 final size:27
Alignment explanation
Indices: 21133684--21133752 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
21133674 ATTATATTTA
*
21133684 TAATTTATTTCTA-ATTTTTAATAAGATT
1 TAATTT-TTT-TATATTTTTAATAAAATT
*
21133712 TAATTTTTTTATATTTTTATTAAAATT
1 TAATTTTTTTATATTTTTAATAAAATT
*
21133739 TAATAATTTTTATA
1 TAAT-TTTTTTATA
21133753 AATTTTATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.06
27 20 0.56
28 14 0.39
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (27 bp):
TAATTTTTTTATATTTTTAATAAAATT
Found at i:21144469 original size:29 final size:29
Alignment explanation
Indices: 21144447--21144509 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
21144437 AAAAGTTATT
*
21144447 AAATTTTAATAAAAATATAAAAAATATAA
1 AAATTTTAATAAAAATAGAAAAAATATAA
*
21144476 AAATTTTATTAAAAATAGAAAATATATATAA
1 AAATTTTAATAAAAATAGAAAA-A-ATATAA
21144507 AAA
1 AAA
21144510 ATTGTAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 20 0.67
30 1 0.03
31 9 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (29 bp):
AAATTTTAATAAAAATAGAAAAAATATAA
Found at i:21144497 original size:19 final size:20
Alignment explanation
Indices: 21144466--21144530 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
21144456 TAAAAATATA
21144466 AAAAATA-TAAAAATTTTATT
1 AAAAATAGT-AAAATTTTATT
* *
21144486 AAAAATAG-AAAATATATATA
1 AAAAATAGTAAAAT-TTTATT
* *
21144506 AAAAATTGTAAGATTTTA-T
1 AAAAATAGTAAAATTTTATT
21144525 AAAAAT
1 AAAAAT
21144531 TATTAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
19 11 0.31
20 21 0.58
21 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAATAGTAAAATTTTATT
Found at i:21144509 original size:20 final size:20
Alignment explanation
Indices: 21144461--21144511 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
21144451 TTTAATAAAA
*
21144461 ATATAAAAAATATAAAAATT
1 ATATAAAAAATAGAAAAATT
* *
21144481 TTATTAAAAATAG-AAAATAT
1 ATATAAAAAATAGAAAAAT-T
21144501 ATATAAAAAAT
1 ATATAAAAAAT
21144512 TGTAAGATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
ATATAAAAAATAGAAAAATT
Found at i:21150868 original size:25 final size:25
Alignment explanation
Indices: 21150838--21150929 Score: 89
Period size: 25 Copynumber: 3.6 Consensus size: 25
21150828 CTTATAAGAG
*
21150838 TCCCGA-TATATGGCTCTCCAGAGCT
1 TCCCGATTA-ATGGCTCTTCAGAGCT
* * *
21150863 TTCCGATTAAAGGCTCTTTTATGAGCT
1 TCCCGATTAATGGCTC-TTCA-GAGCT
*
21150890 TCCCGATTAATGGCTCTTCGGAGCT
1 TCCCGATTAATGGCTCTTCAGAGCT
*
21150915 TCCCGA-TATTGGCTC
1 TCCCGATTAATGGCTC
21150930 ACTTGAACTT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
24 8 0.15
25 22 0.40
26 6 0.11
27 19 0.35
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTTCAGAGCT
Found at i:21157576 original size:66 final size:65
Alignment explanation
Indices: 21157489--21157622 Score: 180
Period size: 66 Copynumber: 2.0 Consensus size: 65
21157479 ATTCTGAAGC
**
21157489 TGTAACTGGAGTTCGTCATATTTTCTGCTT-GCCTCTACTTCCCTCGCTGCTGCCTCCGCTTTAA
1 TGTAACTGGAGTTCGTCATATTTTCT--TTAGCCTCTACTTCCCTCAATGCTGCCTCCGCTTTAA
21157553 GT
64 GT
* * * *
21157555 TGTAGCTGGAGTTCTTCATATTTTCTTTGAGCCTCTGCTTCTCTCAATGCTGCCTCCGCTTTAAG
1 TGTAACTGGAGTTCGTCATATTTTCTTT-AGCCTCTACTTCCCTCAATGCTGCCTCCGCTTTAAG
21157620 T
65 T
21157621 TG
1 TG
21157623 AGCAATTTGC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
64 2 0.03
66 58 0.97
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.41
Consensus pattern (65 bp):
TGTAACTGGAGTTCGTCATATTTTCTTTAGCCTCTACTTCCCTCAATGCTGCCTCCGCTTTAAGT
Found at i:21163167 original size:43 final size:42
Alignment explanation
Indices: 21163120--21163299 Score: 182
Period size: 43 Copynumber: 4.4 Consensus size: 42
21163110 ATCCAAAATT
21163120 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
1 TTATGTAAGTTATGATATGA-ATATATTTATGTATTATGTAAG
** * * *
21163163 TTATGTAAGTTATGAT-CCAA-AGT-TTT-TTTATTCTTTAAATG
1 TTATGTAAGTTATGATATGAATA-TATTTATGTATTATGT-AA-G
21163204 TTTATGTAAGTTATGATATG-ATATA--TA--T-TTATGTAAG
1 -TTATGTAAGTTATGATATGAATATATTTATGTATTATGTAAG
*
21163241 TTATGTAAGTTATGGTATGATATATATTTATGTATTATGTAAG
1 TTATGTAAGTTATGATATGA-ATATATTTATGTATTATGTAAG
21163284 TTATGTAAGTTATGAT
1 TTATGTAAGTTATGAT
21163300 CCAAAGGTTT
Statistics
Matches: 111, Mismatches: 11, Indels: 30
0.73 0.07 0.20
Matches are distributed among these distances:
36 18 0.16
37 1 0.01
38 7 0.06
39 11 0.10
40 9 0.08
41 4 0.04
42 20 0.18
43 41 0.37
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (42 bp):
TTATGTAAGTTATGATATGAATATATTTATGTATTATGTAAG
Found at i:21163244 original size:9 final size:9
Alignment explanation
Indices: 21163232--21163297 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
21163222 TGATATATAT
21163232 TTATGTAAG
1 TTATGTAAG
21163241 TTATGTAAG
1 TTATGTAAG
*
21163250 TTATGGTATG
1 TTAT-GTAAG
* * *
21163260 ATATAT-AT
1 TTATGTAAG
21163268 TTATGT-A-
1 TTATGTAAG
21163275 TTATGTAAG
1 TTATGTAAG
21163284 TTATGTAAG
1 TTATGTAAG
21163293 TTATG
1 TTATG
21163298 ATCCAAAGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
7 6 0.13
8 6 0.13
9 28 0.60
10 7 0.15
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:21163252 original size:36 final size:34
Alignment explanation
Indices: 21163201--21163288 Score: 142
Period size: 36 Copynumber: 2.6 Consensus size: 34
21163191 TATTCTTTAA
21163201 ATGT-TTATGTAAGTTATGATATGATATATATTT
1 ATGTATTATGTAAGTTATGATATGATATATATTT
*
21163234 ATGTAAGTTATGTAAGTTATGGTATGATATATATTT
1 ATGT-A-TTATGTAAGTTATGATATGATATATATTT
21163270 ATGTATTATGTAAGTTATG
1 ATGTATTATGTAAGTTATG
21163289 TAAGTTATGA
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
33 4 0.08
34 14 0.27
35 1 0.02
36 32 0.63
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (34 bp):
ATGTATTATGTAAGTTATGATATGATATATATTT
Found at i:21163327 original size:130 final size:121
Alignment explanation
Indices: 21163120--21163350 Score: 372
Period size: 121 Copynumber: 1.8 Consensus size: 121
21163110 ATCCAAAATT
21163120 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGATCCAAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGATCCAAAG
21163185 TTTTTTTATTCTTTAAATGTTTATGTAAGTTATGATATGATATATATTTATGTAAG
66 TTTTTTTATTCTTTAAATGTTTATGTAAGTTATGATATGATATATATTTATGTAAG
*
21163241 TTATGTAAGTTATGGTATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGATCCAAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGATCCAAA-
21163306 GTTTTTTTTTTTATTTATTCTTTAAATGTTTATGTAAGTTATGAT
65 G-------TTTT-TTTATTCTTTAAATGTTTATGTAAGTTATGAT
21163351 TATCATCTTT
Statistics
Matches: 100, Mismatches: 1, Indels: 9
0.91 0.01 0.08
Matches are distributed among these distances:
121 63 0.63
122 1 0.01
129 4 0.04
130 32 0.32
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (121 bp):
TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGATCCAAAG
TTTTTTTATTCTTTAAATGTTTATGTAAGTTATGATATGATATATATTTATGTAAG
Found at i:21163375 original size:13 final size:13
Alignment explanation
Indices: 21163357--21163383 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21163347 TGATTATCAT
21163357 CTTTAAATTTTAA
1 CTTTAAATTTTAA
21163370 CTTTAAATTTTAA
1 CTTTAAATTTTAA
21163383 C
1 C
21163384 CTTTTAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:21163392 original size:14 final size:14
Alignment explanation
Indices: 21163357--21163408 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
21163347 TGATTATCAT
21163357 CTTTAAATTTTAA-
1 CTTTAAATTTTAAC
21163370 CTTTAAATTTTAAC
1 CTTTAAATTTTAAC
* * *
21163384 CTTTTAATTGTACC
1 CTTTAAATTTTAAC
*
21163398 CTTTTAATTTT
1 CTTTAAATTTT
21163409 TAAATTTGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 13 0.38
14 21 0.62
ACGTcount: A:0.29, C:0.13, G:0.02, T:0.56
Consensus pattern (14 bp):
CTTTAAATTTTAAC
Found at i:21164229 original size:8 final size:8
Alignment explanation
Indices: 21164202--21164247 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
21164192 TTATTTTAGC
21164202 TAAAATTA
1 TAAAATTA
*
21164210 -AAAATAA
1 TAAAATTA
*
21164217 AAAAATTA
1 TAAAATTA
21164225 TAAAATTA
1 TAAAATTA
21164233 TAAAATTA
1 TAAAATTA
21164241 TAAAATT
1 TAAAATT
21164248 TAACATAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 6 0.18
8 28 0.82
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
TAAAATTA
Found at i:21165248 original size:22 final size:22
Alignment explanation
Indices: 21165218--21165260 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
21165208 ATACCAAAAC
*
21165218 AGGCTTTTAGCGGCGTTTTTTT
1 AGGCCTTTAGCGGCGTTTTTTT
21165240 AGGCCTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCGGCGTTTTTT
21165261 AGCGCCGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGTTTTTTT
Found at i:21165475 original size:86 final size:86
Alignment explanation
Indices: 21165320--21165591 Score: 323
Period size: 86 Copynumber: 3.2 Consensus size: 86
21165310 TTTATTTAAA
* *
21165320 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAATATGAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCACTAAAGAATAGGAC
*
21165385 CTTTAGCGACGCTTTTTCCAC
66 CTTTAGCGACGCTTTTCCCAC
* * *
21165406 AAACGCCGCTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACGCCACTAAA-AGTCAGGT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCACTAAAGAAT-AGGA
* *
21165470 TCTTTAGCGGCGCTTTTCCCAC
65 CCTTTAGCGACGCTTTTCCCAC
* * * * * ** * ***
21165492 AAACACCGCTAAAGAACCTGACCTTT-GCGGCGCTTTTCCTATTAACACCACTAAAGAACCTGAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCACTAAAGAATAGGAC
* *
21165556 CTTTAGCGGCGCTTTTCCCAA
66 CTTTAGCGACGCTTTTCCCAC
*
21165577 AAACGCCACTAAAGA
1 AAACGCCGCTAAAGA
21165592 TCATAAAAAA
Statistics
Matches: 158, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
85 59 0.37
86 99 0.63
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (86 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCACTAAAGAATAGGAC
CTTTAGCGACGCTTTTCCCAC
Found at i:21165539 original size:42 final size:43
Alignment explanation
Indices: 21165328--21165591 Score: 262
Period size: 43 Copynumber: 6.2 Consensus size: 43
21165318 AAAAACGCCG
* * * * *
21165328 CTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCG
1 CTAAAGAACCTGACCTTTAGCGGCGCTTTTCCCACAAACACCA
** * * * *
21165371 CTAAAGAATATGACCTTTAGCGACGCTTTTTCCACAAACGCCG
1 CTAAAGAACCTGACCTTTAGCGGCGCTTTTCCCACAAACACCA
* * * * *
21165414 CTAAAGAACATGATCTTTAGCGACGCTTTACCCACAAACGCCA
1 CTAAAGAACCTGACCTTTAGCGGCGCTTTTCCCACAAACACCA
* ** ** *
21165457 CTAAA-AGTCAGGTTCTTTAGCGGCGCTTTTCCCACAAACACCG
1 CTAAAGA-ACCTGACCTTTAGCGGCGCTTTTCCCACAAACACCA
* **
21165500 CTAAAGAACCTGACCTTT-GCGGCGCTTTTCCTATTAACACCA
1 CTAAAGAACCTGACCTTTAGCGGCGCTTTTCCCACAAACACCA
* *
21165542 CTAAAGAACCTGACCTTTAGCGGCGCTTTTCCCAAAAACGCCA
1 CTAAAGAACCTGACCTTTAGCGGCGCTTTTCCCACAAACACCA
21165585 CTAAAGA
1 CTAAAGA
21165592 TCATAAAAAA
Statistics
Matches: 188, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 39 0.21
43 148 0.79
44 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (43 bp):
CTAAAGAACCTGACCTTTAGCGGCGCTTTTCCCACAAACACCA
Found at i:21167891 original size:13 final size:13
Alignment explanation
Indices: 21167873--21167898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21167863 GCTGAAGCTT
21167873 TGTAAAATGTAAA
1 TGTAAAATGTAAA
21167886 TGTAAAATGTAAA
1 TGTAAAATGTAAA
21167899 AATTTTATAA
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:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTAAAATGTAAA
Done.