Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 259 of 313
Found at i:79457583 original size:81 final size:81
Alignment explanation
Indices: 79457486--79457634 Score: 210
Period size: 81 Copynumber: 1.8 Consensus size: 81
79457476 AAGATTGCCG
*
79457486 AAGGGTAAAATTACTAAAATACCCTAGAAAGATAAAAGTA-CTAAAATACCCTCGAAGGGAAAAA
1 AAGGGTAAAATTACTAAAATACCCTAGAAAGATAAAAGTATC-AAAATACCCCCGAAGGGAAAAA
79457550 TTACCAAAACACCCTAA
65 TTACCAAAACACCCTAA
* * * * * * *
79457567 AAGGGTAAAATTACTAAAATACTCTCGAAGGGTAAAATTATCGAAATACCCCCGAAGGGTAAAAT
1 AAGGGTAAAATTACTAAAATACCCTAGAAAGATAAAAGTATCAAAATACCCCCGAAGGGAAAAAT
79457632 TAC
66 TAC
79457635 TGTTATACCC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.19
Consensus pattern (81 bp):
AAGGGTAAAATTACTAAAATACCCTAGAAAGATAAAAGTATCAAAATACCCCCGAAGGGAAAAAT
TACCAAAACACCCTAA
Found at i:79457613 original size:27 final size:26
Alignment explanation
Indices: 79457484--79457634 Score: 158
Period size: 27 Copynumber: 5.6 Consensus size: 26
79457474 GTAAGATTGC
79457484 CGAAGGGTAAAATTACTAAAATACCCT
1 CGAAGGGTAAAATTAC-AAAATACCCT
* * * *
79457511 AGAAAGATAAAAGTACTAAAATACCCT
1 CGAAGGGTAAAATTAC-AAAATACCCT
* *
79457538 CGAAGGGAAAAATTACCAAAACACCCT
1 CGAAGGGTAAAATTA-CAAAATACCCT
** *
79457565 AAAAGGGTAAAATTACTAAAATACTCT
1 CGAAGGGTAAAATTAC-AAAATACCCT
* *
79457592 CGAAGGGTAAAATTATCGAAATACCCC
1 CGAAGGGTAAAATTA-CAAAATACCCT
79457619 CGAAGGGTAAAATTAC
1 CGAAGGGTAAAATTAC
79457635 TGTTATACCC
Statistics
Matches: 101, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.02
27 97 0.96
28 2 0.02
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.19
Consensus pattern (26 bp):
CGAAGGGTAAAATTACAAAATACCCT
Found at i:79457625 original size:54 final size:53
Alignment explanation
Indices: 79457484--79457635 Score: 187
Period size: 54 Copynumber: 2.8 Consensus size: 53
79457474 GTAAGATTGC
* * *
79457484 CGAAGGGTAAAATTACTAAAATACCCTAGAAAGATAAAAGTACTAAAATACCCT
1 CGAAGGGTAAAATTAC-AAAATACCCTAGAAGGGTAAAATTACTAAAATACCCT
* * * *
79457538 CGAAGGGAAAAATTACCAAAACACCCTAAAAGGGTAAAATTACTAAAATACTCT
1 CGAAGGGTAAAATTA-CAAAATACCCTAGAAGGGTAAAATTACTAAAATACCCT
* **
79457592 CGAAGGGTAAAATTATCGAAATACCCCCGAAGGGTAAAATTACT
1 CGAAGGGTAAAATTA-CAAAATACCCTAGAAGGGTAAAATTACT
79457636 GTTATACCCC
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 82 0.99
55 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (53 bp):
CGAAGGGTAAAATTACAAAATACCCTAGAAGGGTAAAATTACTAAAATACCCT
Found at i:79469957 original size:6 final size:6
Alignment explanation
Indices: 79469946--79470011 Score: 51
Period size: 6 Copynumber: 10.0 Consensus size: 6
79469936 GTTTAAAGAC
79469946 ATAAAA ATAAAACA ACTAAAA ATAAAA ATAAAA ATAAAGAAA ATAAAA
1 ATAAAA AT-AAA-A A-TAAAA ATAAAA ATAAAA AT--A-AAA ATAAAA
* * *
79469994 CTAAAA CTAAAA AGAAAA
1 ATAAAA ATAAAA ATAAAA
79470012 GAAATAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 33 0.65
7 6 0.12
8 6 0.12
9 6 0.12
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.14
Consensus pattern (6 bp):
ATAAAA
Found at i:79469976 original size:27 final size:26
Alignment explanation
Indices: 79469946--79470019 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
79469936 GTTTAAAGAC
*
79469946 ATAAAAATAAAACAACTAAAAATAAAA
1 ATAAAAATAAAA-AAATAAAAATAAAA
*
79469973 ATAAAAATAAAGAAAATAAAACTAAAA
1 ATAAAAATAAA-AAAATAAAAATAAAA
* *
79470000 CTAAAAAGAAAAGAAATAAA
1 ATAAAAATAAAA-AAATAAA
79470020 TTCAATGATC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.77, C:0.05, G:0.04, T:0.14
Consensus pattern (26 bp):
ATAAAAATAAAAAAATAAAAATAAAA
Found at i:79469988 original size:15 final size:14
Alignment explanation
Indices: 79469946--79469999 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 14
79469936 GTTTAAAGAC
79469946 ATAAAAATAAAACAA
1 ATAAAAATAAAA-AA
*
79469961 CTAAAAAT--AAAA
1 ATAAAAATAAAAAA
79469973 ATAAAAATAAAGAAA
1 ATAAAAATAAA-AAA
*
79469988 ATAAAACTAAAA
1 ATAAAAATAAAA
79470000 CTAAAAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 9 0.27
13 2 0.06
14 2 0.06
15 20 0.61
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.15
Consensus pattern (14 bp):
ATAAAAATAAAAAA
Found at i:79469988 original size:21 final size:21
Alignment explanation
Indices: 79469964--79470004 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
79469954 AAAACAACTA
79469964 AAAATAAAAATAAAAATAAAG
1 AAAATAAAAATAAAAATAAAG
* *
79469985 AAAATAAAACTAAAACTAAA
1 AAAATAAAAATAAAAATAAA
79470005 AAGAAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.78, C:0.05, G:0.02, T:0.15
Consensus pattern (21 bp):
AAAATAAAAATAAAAATAAAG
Found at i:79471770 original size:11 final size:11
Alignment explanation
Indices: 79471764--79471833 Score: 55
Period size: 10 Copynumber: 6.9 Consensus size: 11
79471754 AGAAATGAAA
79471764 AATAAATAAAT
1 AATAAATAAAT
*
79471775 AAT-AA-GAAT
1 AATAAATAAAT
*
79471784 AATAAA-AAAG
1 AATAAATAAAT
79471794 AATAAAT-AAT
1 AATAAATAAAT
*
79471804 AA-AAA-GAAT
1 AATAAATAAAT
79471813 AAT-AATAAAT
1 AATAAATAAAT
79471823 AAATAAATAAA
1 -AATAAATAAA
79471834 AAGAAAAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
9 16 0.34
10 19 0.40
11 6 0.13
12 6 0.13
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.21
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:79471797 original size:26 final size:26
Alignment explanation
Indices: 79471761--79471847 Score: 95
Period size: 26 Copynumber: 3.2 Consensus size: 26
79471751 AAGAGAAATG
79471761 AAAAATAAATAAATAATAAGAATAAT
1 AAAAATAAATAAATAATAAGAATAAT
79471787 AAAAA-AGAATAAATAATAAAAAGAATAAT
1 AAAAATA-AATAAATAAT---AAGAATAAT
* * *
79471816 AATAAATAAATAAATAAAAAGAAAAAG
1 AA-AAATAAATAAATAATAAGAATAAT
79471843 AAAAA
1 AAAAA
79471848 GGAAAGACCA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
25 1 0.02
26 18 0.35
27 9 0.17
29 11 0.21
30 12 0.23
31 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (26 bp):
AAAAATAAATAAATAATAAGAATAAT
Found at i:79479269 original size:9 final size:9
Alignment explanation
Indices: 79479255--79479279 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
79479245 ATTAAAATCC
79479255 AATTTTTTT
1 AATTTTTTT
79479264 AATTTTTTT
1 AATTTTTTT
79479273 AATTTTT
1 AATTTTT
79479280 AATAGTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
AATTTTTTT
Found at i:79479278 original size:16 final size:17
Alignment explanation
Indices: 79479259--79479296 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
79479249 AAATCCAATT
*
79479259 TTTTTAAT-TTTTTTAA
1 TTTTTAATATTTTATAA
79479275 TTTTTAATAGTTTTATAA
1 TTTTTAATA-TTTTATAA
79479293 TTTT
1 TTTT
79479297 GAAATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTTAATATTTTATAA
Found at i:79479330 original size:29 final size:29
Alignment explanation
Indices: 79479272--79479331 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
79479262 TTAATTTTTT
* *
79479272 TAATTTTTAATAGTTTTATAATTTTGAAA
1 TAATTATTAATAGTTTTATAATTCTGAAA
79479301 TAATTATTAATA-TTGTTATAAATTCT-AAA
1 TAATTATTAATAGTT-TTAT-AATTCTGAAA
79479330 TA
1 TA
79479332 TTTTATACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.07
29 20 0.74
30 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (29 bp):
TAATTATTAATAGTTTTATAATTCTGAAA
Found at i:79488068 original size:26 final size:26
Alignment explanation
Indices: 79488020--79488072 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
79488010 TAAATTCCAG
*
79488020 ATTTTTGTAAACTTTAATCTTGGACT
1 ATTTTTGTAAACTCTAATCTTGGACT
*
79488046 ATTTTTGTAAAGTACTAAT-TTGGACT
1 ATTTTTGTAAACT-CTAATCTTGGACT
79488072 A
1 A
79488073 AATTTTGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.47
Consensus pattern (26 bp):
ATTTTTGTAAACTCTAATCTTGGACT
Found at i:79495815 original size:21 final size:21
Alignment explanation
Indices: 79495789--79495830 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
79495779 GTTGAATTAG
79495789 ATAAACTATTTTCTTTATTTT
1 ATAAACTATTTTCTTTATTTT
79495810 ATAAACTATTTTCTTTATTTT
1 ATAAACTATTTTCTTTATTTT
79495831 TTTTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
ATAAACTATTTTCTTTATTTT
Found at i:79500141 original size:17 final size:16
Alignment explanation
Indices: 79500119--79500151 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
79500109 TTTAGAATTA
79500119 AATTTTTAATAATTTTT
1 AATTTTTAA-AATTTTT
79500136 AATTTTTAAAATTTTT
1 AATTTTTAAAATTTTT
79500152 GCTAACATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTTTTAAAATTTTT
Found at i:79502958 original size:23 final size:23
Alignment explanation
Indices: 79502921--79502964 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
79502911 ATAATTATGG
* *
79502921 TAATTATAATTATTATATTTAGT
1 TAATTATAATGATTAGATTTAGT
*
79502944 TAATTATTATGATTAGATTTA
1 TAATTATAATGATTAGATTTA
79502965 TATAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (23 bp):
TAATTATAATGATTAGATTTAGT
Found at i:79507928 original size:20 final size:20
Alignment explanation
Indices: 79507900--79507954 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
79507890 AGCCTTAGAG
*
79507900 GTATCGATATTTTTACACAA
1 GTATCGATATTTTTACAAAA
* *
79507920 GTATTGATATTTTTATAAAA
1 GTATCGATATTTTTACAAAA
*
79507940 TTATCGATATTTTTA
1 GTATCGATATTTTTA
79507955 AGTTAGTATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (20 bp):
GTATCGATATTTTTACAAAA
Found at i:79531973 original size:25 final size:25
Alignment explanation
Indices: 79531928--79532000 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
79531918 TTTCATCCCT
79531928 ATTTTACCCCCAGTAAAATTTTAACG
1 ATTTTA-CCCCAGTAAAATTTTAACG
* * * *
79531954 ATTTTACCCTAGTAATATTTTGATG
1 ATTTTACCCCAGTAAAATTTTAACG
*
79531979 ATTTTACCCCTGTTAAAATTTT
1 ATTTTACCCCAG-TAAAATTTT
79532001 GAGGAAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 25 0.64
26 14 0.36
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (25 bp):
ATTTTACCCCAGTAAAATTTTAACG
Found at i:79531999 original size:26 final size:25
Alignment explanation
Indices: 79531928--79532002 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
79531918 TTTCATCCCT
* *
79531928 ATTTTACCCCCAGTAAAATTTTAACG
1 ATTTTA-CCCCTGTAAAATTTTGACG
* *
79531954 ATTTTA-CCCTAGTAATATTTTGATG
1 ATTTTACCCCT-GTAAAATTTTGACG
79531979 ATTTTACCCCTGTTAAAATTTTGA
1 ATTTTACCCCTG-TAAAATTTTGA
79532003 GGAAATATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
24 3 0.07
25 18 0.44
26 20 0.49
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (25 bp):
ATTTTACCCCTGTAAAATTTTGACG
Found at i:79535001 original size:14 final size:15
Alignment explanation
Indices: 79534971--79535001 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
79534961 ACCCTTGATA
79534971 CTAATAAAGTAGTAT
1 CTAATAAAGTAGTAT
79534986 CTAATAAAGT-GTAT
1 CTAATAAAGTAGTAT
79535000 CT
1 CT
79535002 TTAAAATCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (15 bp):
CTAATAAAGTAGTAT
Found at i:79543412 original size:13 final size:13
Alignment explanation
Indices: 79543394--79543425 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
79543384 TCAACAACAA
79543394 GAAACAAGGAAAT
1 GAAACAAGGAAAT
79543407 GAAACAAGGAAAT
1 GAAACAAGGAAAT
79543420 GAAACA
1 GAAACA
79543426 GAATAAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.62, C:0.09, G:0.22, T:0.06
Consensus pattern (13 bp):
GAAACAAGGAAAT
Found at i:79543815 original size:20 final size:20
Alignment explanation
Indices: 79543779--79543816 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
79543769 AGGCACAATT
*
79543779 GTGCAATTAGAGGCACCGTA
1 GTGCAATTAGAGACACCGTA
79543799 GTGCAAATT-GAGACACCG
1 GTGC-AATTAGAGACACCG
79543817 AACTATGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (20 bp):
GTGCAATTAGAGACACCGTA
Found at i:79549888 original size:28 final size:28
Alignment explanation
Indices: 79549850--79549906 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
79549840 TATGCATGAA
79549850 AATAATGTAATTAAGCATAATTTCACAT
1 AATAATGTAATTAAGCATAATTTCACAT
79549878 AATAATGTAATTAAGCATAATTTCACAT
1 AATAATGTAATTAAGCATAATTTCACAT
79549906 A
1 A
79549907 CTTTCCAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (28 bp):
AATAATGTAATTAAGCATAATTTCACAT
Found at i:79551142 original size:18 final size:20
Alignment explanation
Indices: 79551121--79551159 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
79551111 CACTTTAATA
79551121 TTAAA-TTAAA-TGTTAAAT
1 TTAAATTTAAACTGTTAAAT
79551139 TTAAATTTAAACTTGTTAAAT
1 TTAAATTTAAAC-TGTTAAAT
79551160 ATGATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
21 8 0.44
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (20 bp):
TTAAATTTAAACTGTTAAAT
Found at i:79551268 original size:25 final size:26
Alignment explanation
Indices: 79551235--79551286 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
79551225 TAAATTTAAT
*
79551235 TTAATATTAAGATAATCACT-TTAAGA
1 TTAATATTAAGAAAAT-ACTATTAAGA
*
79551261 TTAA-ATTAATAAAATACTATTAAGA
1 TTAATATTAAGAAAATACTATTAAGA
79551286 T
1 T
79551287 ACGTATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.13
25 16 0.70
26 4 0.17
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (26 bp):
TTAATATTAAGAAAATACTATTAAGA
Found at i:79551317 original size:37 final size:39
Alignment explanation
Indices: 79551223--79551326 Score: 98
Period size: 37 Copynumber: 2.8 Consensus size: 39
79551213 TTAGATAAAT
79551223 ATTAAATTTAAT-TT-AA-TATTAAGATAATCACTTTAAG
1 ATTAAATTTAATATTAAACTATTAAGATAATCAC-TTAAG
* *
79551260 ATTAAA-TTAATA-AAATACTATTAAGATACGT-A-TTAA-
1 ATTAAATTTAATATTAA-ACTATTAAGATA-ATCACTTAAG
*
79551296 ATTAAATTTAATATTAAACTATTAATATAAT
1 ATTAAATTTAATATTAAACTATTAAGATAAT
79551327 ATTATTTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
36 12 0.22
37 28 0.51
38 3 0.05
39 11 0.20
40 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (39 bp):
ATTAAATTTAATATTAAACTATTAAGATAATCACTTAAG
Found at i:79556517 original size:51 final size:51
Alignment explanation
Indices: 79556438--79556547 Score: 148
Period size: 51 Copynumber: 2.2 Consensus size: 51
79556428 TTACTTGTAG
* * * * *
79556438 CAGCAACATTGTCCACTCCATCTGATGTTGCAAAATCACCACCATATTCAT
1 CAGCAACATTATCCACTCCATCTAATGTTGCAAAATAAACAACATATTCAT
* *
79556489 CAGCATCATTATCTACTCCATCTAATGTTGCAAAATAAACAACATATTCAT
1 CAGCAACATTATCCACTCCATCTAATGTTGCAAAATAAACAACATATTCAT
*
79556540 CAACAACA
1 CAGCAACA
79556548 ACTTCACTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.37, C:0.28, G:0.07, T:0.27
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTAATGTTGCAAAATAAACAACATATTCAT
Found at i:79556789 original size:33 final size:33
Alignment explanation
Indices: 79556696--79556790 Score: 102
Period size: 33 Copynumber: 2.9 Consensus size: 33
79556686 TCCCCAATAG
* * * * *
79556696 ATTCTACCCTTTCCAGATCACCTTTACC-ATCAG
1 ATTCTACCCCTTCAACATCACC-TTCCCTATCAA
* * *
79556729 ATTTTACCCCTTCATCATCACCCTCCCTATCAA
1 ATTCTACCCCTTCAACATCACCTTCCCTATCAA
79556762 ATTCTACCCCTTCAACATCACCTTCCCTA
1 ATTCTACCCCTTCAACATCACCTTCCCTA
79556791 GTAGTCAACA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
32 3 0.06
33 47 0.94
ACGTcount: A:0.24, C:0.41, G:0.02, T:0.33
Consensus pattern (33 bp):
ATTCTACCCCTTCAACATCACCTTCCCTATCAA
Found at i:79565060 original size:30 final size:31
Alignment explanation
Indices: 79565003--79565064 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
79564993 CAAAAAAGTA
79565003 TATATATATATAAAGGATAAAATAAATAATG
1 TATATATATATAAAGGATAAAATAAATAATG
* *
79565034 TATATATATA-AAAGTATAAGATAAATAATG
1 TATATATATATAAAGGATAAAATAAATAATG
79565064 T
1 T
79565065 GAAGGAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (31 bp):
TATATATATATAAAGGATAAAATAAATAATG
Found at i:79575384 original size:29 final size:29
Alignment explanation
Indices: 79575352--79575409 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
79575342 TTAATCTACT
* *
79575352 TTTTAGTTTAATTTTAGAATCAAGCTAAA
1 TTTTAATTTAATTTTAGAATCAAGATAAA
*
79575381 TTTTAATTTAATTTTAGAATTAAGATAAA
1 TTTTAATTTAATTTTAGAATCAAGATAAA
79575410 AGGATCAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (29 bp):
TTTTAATTTAATTTTAGAATCAAGATAAA
Found at i:79581279 original size:13 final size:13
Alignment explanation
Indices: 79581263--79581288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79581253 ACATTACGCA
79581263 AACAAATGGTTTT
1 AACAAATGGTTTT
79581276 AACAAATGGTTTT
1 AACAAATGGTTTT
79581289 TGGAAAAACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:79583658 original size:16 final size:16
Alignment explanation
Indices: 79583621--79583659 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
79583611 TAATAGTATT
79583621 TTTAATATTATATTAA
1 TTTAATATTATATTAA
** *
79583637 GATAATATTCTATTAA
1 TTTAATATTATATTAA
79583653 TTTAATA
1 TTTAATA
79583660 AATTTAATAT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTAATATTATATTAA
Found at i:79583807 original size:9 final size:9
Alignment explanation
Indices: 79583793--79583823 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
79583783 GTTAAACGAA
79583793 TCGAGTTAT
1 TCGAGTTAT
*
79583802 TCGAGTTAA
1 TCGAGTTAT
79583811 TCGAGTTAT
1 TCGAGTTAT
79583820 TCGA
1 TCGA
79583824 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:79583905 original size:9 final size:9
Alignment explanation
Indices: 79583876--79583912 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
79583866 TGAGTTTTCG
79583876 AATTCGAAT
1 AATTCGAAT
*
79583885 AACTCGAAT
1 AATTCGAAT
79583894 AATTCGAAT
1 AATTCGAAT
*
79583903 AATTTGAAT
1 AATTCGAAT
79583912 A
1 A
79583913 TTAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:79584955 original size:5 final size:5
Alignment explanation
Indices: 79584939--79584969 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
79584929 CTCGAAAATT
*
79584939 TTCGA TTTGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
79584970 CGAATGCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.45
Consensus pattern (5 bp):
TTCGA
Found at i:79586219 original size:14 final size:14
Alignment explanation
Indices: 79586200--79586231 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
79586190 TTGATTCTTT
79586200 TGAATGAATGAATG
1 TGAATGAATGAATG
79586214 TGAATGAATGAATG
1 TGAATGAATGAATG
79586228 TGAA
1 TGAA
79586232 GATTATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (14 bp):
TGAATGAATGAATG
Found at i:79590283 original size:30 final size:30
Alignment explanation
Indices: 79590247--79590306 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
79590237 TTTAAGAGTT
79590247 AATGATATCCTCTCATTGGCATTGTGTGGA
1 AATGATATCCTCTCATTGGCATTGTGTGGA
79590277 AATGATATCCTCTCATTGGCATTGTGTGGA
1 AATGATATCCTCTCATTGGCATTGTGTGGA
79590307 TTTAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (30 bp):
AATGATATCCTCTCATTGGCATTGTGTGGA
Found at i:79593568 original size:27 final size:27
Alignment explanation
Indices: 79593538--79593611 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
79593528 CCTCTCAAAG
*
79593538 AGGCGGTACTAGTGACCCCTCTTAAGT
1 AGGCGGCACTAGTGACCCCTCTTAAGT
** *
79593565 AGGCAACACTAGTGACCCCTCTTAGGT
1 AGGCGGCACTAGTGACCCCTCTTAAGT
** *
79593592 ACACGGCACTAGTGGCCCCT
1 AGGCGGCACTAGTGACCCCT
79593612 ATTTGAGAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (27 bp):
AGGCGGCACTAGTGACCCCTCTTAAGT
Found at i:79593698 original size:17 final size:17
Alignment explanation
Indices: 79593676--79593711 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
79593666 GAAGAGTAGT
79593676 AAAAAAAAGTAGAAGAG
1 AAAAAAAAGTAGAAGAG
* *
79593693 AAAAAAAATTAGTAGAG
1 AAAAAAAAGTAGAAGAG
79593710 AA
1 AA
79593712 GATTAAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.11
Consensus pattern (17 bp):
AAAAAAAAGTAGAAGAG
Found at i:79596707 original size:49 final size:49
Alignment explanation
Indices: 79596575--79596846 Score: 345
Period size: 49 Copynumber: 5.6 Consensus size: 49
79596565 TAATGTACTC
79596575 CAATGAATCTCAATTTAAATTACAAAGTTTGTT-C-ATCGTTTTAATGTTG
1 CAATGAATCTCAATTTAAATTACAAAGTTTGTTCCAAT--TTTTAATGTTG
* * * *
79596624 CAATTAATCT-AATTTAAATTATAAAGTTTATTCCAAATTTTAATGTTG
1 CAATGAATCTCAATTTAAATTACAAAGTTTGTTCCAATTTTTAATGTTG
* * * *
79596672 TAATGAATCTCAATTGAAATTACGAAGTTTGTTCCAATTTTTAGTGTTG
1 CAATGAATCTCAATTTAAATTACAAAGTTTGTTCCAATTTTTAATGTTG
** *
79596721 CGGTGAATCTCAATTTAAATTACGAAGTTTGTTCCAATTTTTAATGTTG
1 CAATGAATCTCAATTTAAATTACAAAGTTTGTTCCAATTTTTAATGTTG
* * *
79596770 CAATGAATCTCAATCTAAATTACAAAGTTTGTTCCAATTTTTAATGCTC
1 CAATGAATCTCAATTTAAATTACAAAGTTTGTTCCAATTTTTAATGTTG
* * *
79596819 CAATTAAT-TTAATTTAAATTACGAAGTT
1 CAATGAATCTCAATTTAAATTACAAAGTT
79596847 GGTATTTTTG
Statistics
Matches: 193, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
48 56 0.29
49 136 0.70
50 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (49 bp):
CAATGAATCTCAATTTAAATTACAAAGTTTGTTCCAATTTTTAATGTTG
Found at i:79596842 original size:146 final size:145
Alignment explanation
Indices: 79596578--79596846 Score: 380
Period size: 146 Copynumber: 1.8 Consensus size: 145
79596568 TGTACTCCAA
* *
79596578 TGAATCTCAATTTAAATTACAAAGTTTGTTCATCGTTTTAATGTTGCAATTAATCTAATTTAAAT
1 TGAATCTCAATTTAAATTACAAAGTTTGTTCATC-TTTTAATGTTGCAATGAATCTAATCTAAAT
* * **
79596643 TATAAAGTTTATTCCAAATTTTAATGTTGTAATGAATCTCAATTGAAATTACGAAGTTTGTTCCA
65 TACAAAGTTTATTCCAAATTTTAATGCTCCAATGAATCTCAATTGAAATTACGAAGTTTGTTCCA
79596708 ATTTTTAGTGTTGCGG
130 ATTTTTAGTGTTGCGG
*
79596724 TGAATCTCAATTTAAATTACGAAGTTTGTTCCAAT-TTTTAATGTTGCAATGAATCTCAATCTAA
1 TGAATCTCAATTTAAATTACAAAGTTTGTT-C-ATCTTTTAATGTTGCAATGAATCT-AATCTAA
* * * * *
79596788 ATTACAAAGTTTGTTCCAATTTTTAATGCTCCAATTAAT-TTAATTTAAATTACGAAGTT
63 ATTACAAAGTTTATTCCAAATTTTAATGCTCCAATGAATCTCAATTGAAATTACGAAGTT
79596847 GGTATTTTTG
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
146 67 0.62
147 39 0.36
148 2 0.02
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.43
Consensus pattern (145 bp):
TGAATCTCAATTTAAATTACAAAGTTTGTTCATCTTTTAATGTTGCAATGAATCTAATCTAAATT
ACAAAGTTTATTCCAAATTTTAATGCTCCAATGAATCTCAATTGAAATTACGAAGTTTGTTCCAA
TTTTTAGTGTTGCGG
Found at i:79599414 original size:84 final size:90
Alignment explanation
Indices: 79599313--79599531 Score: 308
Period size: 94 Copynumber: 2.5 Consensus size: 90
79599303 GCATTCATAA
*
79599313 AAAATCAC-ATAAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACT-AACA-
1 AAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAAAAAT
79599375 AA-A-T-AAA-TTTAAAAAAAAATT
66 AACATTAAAAGTTTAAAAAAAAATT
* * *
79599396 AAGATCACAATAAACACTAAACTAAACACAAACAATATATAATCTAATCATAAATTACTGACAAA
1 AAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACT-A-AAA
*
79599461 ATAACATTAAAAAGTTTTTAAAAAAAATT
64 ATAACATT-AAAAG-TTTAAAAAAAAATT
79599490 AAAATCACAATAAACACTAAACTAAACACAAACAATTTATAA
1 AAAATCACAATAAACACTAAACTAAACACAAACAATTTATAA
79599532 TAATTACTAA
Statistics
Matches: 118, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
83 7 0.06
84 48 0.41
87 3 0.03
88 2 0.02
89 1 0.01
90 1 0.01
92 3 0.03
94 53 0.45
ACGTcount: A:0.59, C:0.16, G:0.01, T:0.24
Consensus pattern (90 bp):
AAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAAAAAT
AACATTAAAAGTTTAAAAAAAAATT
Found at i:79600009 original size:31 final size:31
Alignment explanation
Indices: 79599944--79600008 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 31
79599934 ATATGATATT
79599944 TATATTAAGAGTTCTCCAAGCAAGAAAAAGA
1 TATATTAAGAGTTCTCCAAGCAAGAAAAAGA
*
79599975 TATA-TAA-AGTTCTCCACGCAAGAAAAAGA
1 TATATTAAGAGTTCTCCAAGCAAGAAAAAGA
*
79600004 AATAT
1 TATAT
79600009 AGAGAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 24 0.77
30 3 0.10
31 4 0.13
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (31 bp):
TATATTAAGAGTTCTCCAAGCAAGAAAAAGA
Found at i:79606737 original size:21 final size:21
Alignment explanation
Indices: 79606701--79606758 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
79606691 CCCAAACCTG
*
79606701 AATCTTGAATCCTAAATCCCA
1 AATCTTGAACCCTAAATCCCA
* *
79606722 AA-CTCTGAACCTTAAATCCTA
1 AATCT-TGAACCCTAAATCCCA
79606743 AATCTTGAACCCTAAA
1 AATCTTGAACCCTAAA
79606759 CTTGACCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.28
Consensus pattern (21 bp):
AATCTTGAACCCTAAATCCCA
Found at i:79606739 original size:28 final size:27
Alignment explanation
Indices: 79606691--79606746 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
79606681 GAACTTCGAA
* *
79606691 CCCAAACCTGAATCTTGAATCCTAAAT
1 CCCAAACCTGAACCTTAAATCCTAAAT
79606718 CCCAAACTCTGAACCTTAAATCCTAAAT
1 CCCAAAC-CTGAACCTTAAATCCTAAAT
79606746 C
1 C
79606747 TTGAACCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.38, C:0.32, G:0.05, T:0.25
Consensus pattern (27 bp):
CCCAAACCTGAACCTTAAATCCTAAAT
Found at i:79608334 original size:15 final size:15
Alignment explanation
Indices: 79608316--79608371 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
79608306 GAAATAATTT
*
79608316 AATTTTCAAATAAAA
1 AATTTACAAATAAAA
* * **
79608331 AATTTAGAAATTATG
1 AATTTACAAATAAAA
*
79608346 AATTTAGAAATAAAA
1 AATTTACAAATAAAA
79608361 AATTT-CAAATA
1 AATTTACAAATA
79608372 TAAATTCTTA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
14 5 0.16
15 27 0.84
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (15 bp):
AATTTACAAATAAAA
Found at i:79614889 original size:42 final size:43
Alignment explanation
Indices: 79614736--79614899 Score: 208
Period size: 43 Copynumber: 3.9 Consensus size: 43
79614726 TACCATAACA
* * * *
79614736 ATGCC-ATATCCCAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCAATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
79614778 ATGCCAATAGCCCA-ACCATGGTCTTACACGAAATCACATATCG
1 ATGCCAATATCCCAGA-TATGGTCTTACACGAAATCTCATATCG
* * *
79614821 ATGCCAATGTCCCAGAGATGGTCTTACACGAATTCTCATATCG
1 ATGCCAATATCCCAGATATGGTCTTACACGAAATCTCATATCG
79614864 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTC
1 ATGCCAATATCCCAGATATGGTCTTACACGAAATCTC
79614900 GATAACCCTA
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 34 0.33
43 69 0.66
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCAATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:79615637 original size:70 final size:70
Alignment explanation
Indices: 79615515--79615801 Score: 423
Period size: 70 Copynumber: 4.1 Consensus size: 70
79615505 CCAAACTAAA
* * * * * * *
79615515 CAGCAATTTCACACCAAAATTTGGACAGCATATATACAACAATTTAGGCAGCATATATACAACAT
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATT-GGCAGCAAATATACAACAA
79615580 ATTGAG
65 ATTGAG
* * * *
79615586 CAGCATTTTTGCACC-AAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTACACAACAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGG-CAGCAAATATACAACAA
79615650 ATTGAG
65 ATTGAG
*
79615656 CAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATTGGCAGCAAATATACAACAAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
79615721 TTGAG
66 TTGAG
*
79615726 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGACAGCAAATATACAACAAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
79615791 TTGAG
66 TTGAG
*
79615796 TAGCAT
1 CAGCAT
79615802 ATATATACAA
Statistics
Matches: 195, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
69 2 0.01
70 152 0.78
71 41 0.21
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (70 bp):
CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
TTGAG
Found at i:79615763 original size:48 final size:48
Alignment explanation
Indices: 79615550--79615828 Score: 169
Period size: 47 Copynumber: 5.9 Consensus size: 48
79615540 CAGCATATAT
* * * *
79615550 ACAACAATTTAGG-CAGCATATATACAACATATTGAGCAGCATTTTTGC
1 ACAACAAATT-GGACAGCTTATATACAACAAATTGAGCAGCATTTTTAC
* * *
79615598 ACCA-AAATTGGACAGCTTATACACAACAAATTG-GACAGCA--ATTAC
1 ACAACAAATTGGACAGCTTATATACAACAAATTGAG-CAGCATTTTTAC
* * *
79615643 ACAACAAATT-GAGCAGCATT-TTTACACCAAAAATTG-GACAGC-TTATATA-
1 ACAACAAATTGGA-CAGC-TTATATACA--ACAAATTGAG-CAGCATT-TTTAC
**
79615692 A-AACAAATTGG-CAGCAAATATACAACAAATTGAGCAGCATTTTTAC
1 ACAACAAATTGGACAGCTTATATACAACAAATTGAGCAGCATTTTTAC
** *
79615738 ACCAA-AAATTGGACAGCTTATATACAACAAATTGA-CAGCA--AATAT
1 A-CAACAAATTGGACAGCTTATATACAACAAATTGAGCAGCATTTTTAC
* * *
79615783 ACAACAAATT-GAGTAGCATATATATACAAGAAATTGTGCAGCATTT
1 ACAACAAATTGGA-CAGC-T-TATATACAACAAATTGAGCAGCATTT
79615829 AAGCATAAAA
Statistics
Matches: 179, Mismatches: 27, Indels: 48
0.70 0.11 0.19
Matches are distributed among these distances:
44 5 0.03
45 33 0.18
46 21 0.12
47 65 0.36
48 51 0.28
49 2 0.01
50 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (48 bp):
ACAACAAATTGGACAGCTTATATACAACAAATTGAGCAGCATTTTTAC
Found at i:79615801 original size:140 final size:141
Alignment explanation
Indices: 79615515--79615801 Score: 434
Period size: 141 Copynumber: 2.0 Consensus size: 141
79615505 CCAAACTAAA
* * * * * *
79615515 CAGCAATTTCACACCAAAATTTGGACAGCATATATACAACAATTTAGGCAGCATATATACAACAT
1 CAGCATTTTCACACCAAAAATTGGACAGCATATATAAAACAAATTAGGCAGCAAATATACAACAA
* *
79615580 ATTGAGCAGCATTTTTGCACCAAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTACAC
66 ATTGAGCAGCATTTTTACACCAAAATTGGACAGCTTATACACAACAAATTGGACAGCAAATACAC
79615645 AACAAATTGAG
131 AACAAATTGAG
* *
79615656 CAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATT-GGCAGCAAATATACAACAA
1 CAGCATTTTCACACCAAAAATTGGACAGCATATATAAAACAAATTAGGCAGCAAATATACAACAA
* *
79615720 ATTGAGCAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATT-GACAGCAAATATA
66 ATTGAGCAGCATTTTTACACC-AAAATTGGACAGCTTATACACAACAAATTGGACAGCAAATACA
79615784 CAACAAATTGAG
130 CAACAAATTGAG
*
79615796 TAGCAT
1 CAGCAT
79615802 ATATATACAA
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
140 65 0.49
141 67 0.51
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (141 bp):
CAGCATTTTCACACCAAAAATTGGACAGCATATATAAAACAAATTAGGCAGCAAATATACAACAA
ATTGAGCAGCATTTTTACACCAAAATTGGACAGCTTATACACAACAAATTGGACAGCAAATACAC
AACAAATTGAG
Found at i:79615805 original size:23 final size:23
Alignment explanation
Indices: 79615540--79615826 Score: 194
Period size: 23 Copynumber: 12.3 Consensus size: 23
79615530 AAAATTTGGA
*
79615540 CAGCATATATACAAC-AATTTAGG
1 CAGCATATATACAACAAATTGA-G
*
79615563 CAGCATATATACAACATATTGAG
1 CAGCATATATACAACAAATTGAG
* * * *
79615586 CAGCATTTTTGCACCAAAATTG-G
1 CAGCATATATACAAC-AAATTGAG
* *
79615609 ACAGCTTATACACAACAAATTG-G
1 -CAGCATATATACAACAAATTGAG
*
79615632 ACAGCA-ATTACACAACAAATTGAG
1 -CAGCATA-TATACAACAAATTGAG
* * *
79615656 CAGCATTTTTACACCAAAAATTG-G
1 CAGCATATATACA--ACAAATTGAG
* *
79615680 ACAGCTTATATAAAACAAATTG-G
1 -CAGCATATATACAACAAATTGAG
*
79615703 CAGCAAATATACAACAAATTGAG
1 CAGCATATATACAACAAATTGAG
* * *
79615726 CAGCATTTTTACACCAAAAATTG-G
1 CAGCATATATACA--ACAAATTGAG
*
79615750 ACAGCTTATATACAACAAATTGA-
1 -CAGCATATATACAACAAATTGAG
*
79615773 CAGCAAATATACAACAAATTGAG
1 CAGCATATATACAACAAATTGAG
* * *
79615796 TAGCATATATATACAAGAAATTGTG
1 CAGC--ATATATACAACAAATTGAG
79615821 CAGCAT
1 CAGCAT
79615827 TTAAGCATAA
Statistics
Matches: 206, Mismatches: 41, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
22 39 0.19
23 94 0.46
24 21 0.10
25 52 0.25
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (23 bp):
CAGCATATATACAACAAATTGAG
Found at i:79616592 original size:28 final size:28
Alignment explanation
Indices: 79616560--79616626 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
79616550 AATAAGTTCA
*
79616560 CACACTTAGTGCTCAATAATCAAACTCG
1 CACACTTAGTGCTCAACAATCAAACTCG
** *
79616588 CACACTTAGTGCTTTACAATTAAACTCG
1 CACACTTAGTGCTCAACAATCAAACTCG
79616616 CACACTTAGTG
1 CACACTTAGTG
79616627 TCGAAAGTCA
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:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCTCAACAATCAAACTCG
Found at i:79623208 original size:22 final size:22
Alignment explanation
Indices: 79623031--79623321 Score: 159
Period size: 23 Copynumber: 12.4 Consensus size: 22
79623021 ACACCAAAAT
* *
79623031 TTGGACAGCATATATACAACAAT
1 TTGG-CAGCAAATATACAACAAA
* *
79623054 TTAGGCAGCATATATACAACATA
1 TT-GGCAGCAAATATACAACAAA
** * * *
79623077 TTGAGCAGCATTTTTGCACCAAAA
1 TTG-GCAGCAAATATACAAC-AAA
** *
79623101 TTGGACAGCTTATACACAACAAA
1 TTGG-CAGCAAATATACAACAAA
* *
79623124 TTGGACAGCAATTACACAACAAA
1 TTGG-CAGCAAATATACAACAAA
** * *
79623147 TTGAGCAGCATTTTTACACCAAAAA
1 TTG-GCAGCAAATATACA--ACAAA
** *
79623172 TTGGACAGCTTATATAAAACAAA
1 TTGG-CAGCAAATATACAACAAA
79623195 TTGGCAGCAAATATACAACAAA
1 TTGGCAGCAAATATACAACAAA
** * *
79623217 TTGAGCAGCATTTTTACACCAAAAA
1 TTG-GCAGCAAATATACA--ACAAA
**
79623242 TTGGACAGCTTATATACAACAAA
1 TTGG-CAGCAAATATACAACAAA
*
79623265 TTGGCGGCAAATATACAACAAA
1 TTGGCAGCAAATATACAACAAA
*
79623287 TTGAGCAGCATATATATACAAGAAA
1 TTG-GCAGCA-A-ATATACAACAAA
79623312 TTGTGCAGCA
1 TTG-GCAGCA
79623322 TTTAAGCATA
Statistics
Matches: 211, Mismatches: 42, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
22 37 0.18
23 101 0.48
24 20 0.09
25 53 0.25
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.24
Consensus pattern (22 bp):
TTGGCAGCAAATATACAACAAA
Found at i:79623259 original size:48 final size:48
Alignment explanation
Indices: 79623046--79623268 Score: 166
Period size: 48 Copynumber: 4.7 Consensus size: 48
79623036 CAGCATATAT
* * * *
79623046 ACAACAATTTAGG-CAGCATATATACAACATATT-GAGCAGCATTTTTGC
1 ACAACAAATT-GGACAGCTTATATACAACAAATTGGA-CAGCATTTTTAC
* * *
79623094 ACCA-AAATTGGACAGCTTATACACAACAAATTGGACAGCA--ATTAC
1 ACAACAAATTGGACAGCTTATATACAACAAATTGGACAGCATTTTTAC
* * *
79623139 ACAACAAATT-GAGCAGCATT-TTTACACCAAAAATTGGACAGC-TTATATA-
1 ACAACAAATTGGA-CAGC-TTATATACA--ACAAATTGGACAGCATT-TTTAC
**
79623188 A-AACAAATTGG-CAGCAAATATACAACAAATT-GAGCAGCATTTTTAC
1 ACAACAAATTGGACAGCTTATATACAACAAATTGGA-CAGCATTTTTAC
79623234 ACCAA-AAATTGGACAGCTTATATACAACAAATTGG
1 A-CAACAAATTGGACAGCTTATATACAACAAATTGG
79623269 CGGCAAATAT
Statistics
Matches: 136, Mismatches: 20, Indels: 37
0.70 0.10 0.19
Matches are distributed among these distances:
44 2 0.01
45 21 0.15
46 18 0.13
47 44 0.32
48 46 0.34
49 3 0.02
50 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (48 bp):
ACAACAAATTGGACAGCTTATATACAACAAATTGGACAGCATTTTTAC
Found at i:79623314 original size:70 final size:70
Alignment explanation
Indices: 79623011--79623297 Score: 432
Period size: 70 Copynumber: 4.1 Consensus size: 70
79623001 CCAAACTAAA
* * * * * * *
79623011 CAGCAATTTCACACCAAAATTTGGACAGCATATATACAACAATTTAGGCAGCATATATACAACAT
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATT-GGCAGCAAATATACAACAA
79623076 ATTGAG
65 ATTGAG
* * * *
79623082 CAGCATTTTTGCACC-AAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTACACAACAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGG-CAGCAAATATACAACAA
79623146 ATTGAG
65 ATTGAG
*
79623152 CAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACAAATTGGCAGCAAATATACAACAAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
79623217 TTGAG
66 TTGAG
*
79623222 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCGGCAAATATACAACAAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
79623287 TTGAG
66 TTGAG
79623292 CAGCAT
1 CAGCAT
79623298 ATATATACAA
Statistics
Matches: 196, Mismatches: 18, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
69 2 0.01
70 153 0.78
71 41 0.21
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.24
Consensus pattern (70 bp):
CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
TTGAG
Found at i:79624088 original size:28 final size:27
Alignment explanation
Indices: 79624056--79624153 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 27
79624046 TTTAATAAGT
* *
79624056 TCGCACACTTAGTGCTAAATAATCAAAC
1 TCGCACACTTAGTGCT-TATAATTAAAC
* *
79624084 TCGCACACTTAGTGCTTTTCCATTAAAC
1 TCGCACACTTAGTGCTTAT-AATTAAAC
*
79624112 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGC-TTATAATTAAAC
79624140 TCGCACACTTAGTG
1 TCGCACACTTAGTG
79624154 TCGAAAGCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
27 1 0.02
28 58 0.95
29 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (27 bp):
TCGCACACTTAGTGCTTATAATTAAAC
Found at i:79636455 original size:6 final size:6
Alignment explanation
Indices: 79636444--79636469 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
79636434 AAAAGGTGTG
79636444 ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT AT
79636470 TAGTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:79636775 original size:28 final size:28
Alignment explanation
Indices: 79636740--79636795 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
79636730 ATTAAATTAC
79636740 TTAAAATAAATAATTTTTTAAATTATAA
1 TTAAAATAAATAATTTTTTAAATTATAA
*
79636768 TTAAAATAATTAATTTTTTAAATTATAA
1 TTAAAATAAATAATTTTTTAAATTATAA
79636796 ACAAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TTAAAATAAATAATTTTTTAAATTATAA
Found at i:79637048 original size:21 final size:21
Alignment explanation
Indices: 79637014--79637068 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
79637004 TCAGTGTTTG
* *
79637014 GGTTTGAGACTTAA-GTATTAA
1 GGTTTAAGATTTAAGGT-TTAA
*
79637035 GGTTTAAGATTTAAGGTTTAG
1 GGTTTAAGATTTAAGGTTTAA
79637056 GGTTTATAGATTT
1 GGTTTA-AGATTT
79637069 GGAGTTTAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.44
Consensus pattern (21 bp):
GGTTTAAGATTTAAGGTTTAA
Found at i:79639538 original size:23 final size:23
Alignment explanation
Indices: 79639507--79639557 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
79639497 ACCTACTTTC
*
79639507 TTACTGTAGTAATTTTCAGGGTA
1 TTACAGTAGTAATTTTCAGGGTA
* *
79639530 TTACAGTAGTAATTTTCGGGGTC
1 TTACAGTAGTAATTTTCAGGGTA
79639553 TTACA
1 TTACA
79639558 ATATTAATAG
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:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGGTA
Found at i:79639565 original size:23 final size:23
Alignment explanation
Indices: 79639513--79639565 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
79639503 TTTCTTACTG
*
79639513 TAGTAATTTTCAGGGTATTACAG
1 TAGTAATTTTCAGGGTATTACAA
* *
79639536 TAGTAATTTTCGGGGTCTTACAA
1 TAGTAATTTTCAGGGTATTACAA
*
79639559 TATTAAT
1 TAGTAAT
79639566 AGCATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (23 bp):
TAGTAATTTTCAGGGTATTACAA
Found at i:79643585 original size:165 final size:160
Alignment explanation
Indices: 79643165--79643892 Score: 513
Period size: 165 Copynumber: 4.4 Consensus size: 160
79643155 AAGACAAAAT
* * ** *
79643165 GTATGTCTTAGAATTATAAACCACAATTACTCAACATTTGGTCTCAACAAGTGGTCAATACATAG
1 GTATGTCTCA-AAATATAAACCACAATTACTCAACATTTGGTCTCAACAAGTTATCAATACATAC
* *
79643230 TACATCG-TAATTAATGTATTATTCCCCCAACTCTGGAGAAAGAACAACTGGTAAAAAA-ATAAG
65 TAC-TCGATAATTTATGTATTATTCCCTCAACTCTGGAGAAAGAACAACTGGTAAAAAACATAAG
* * *
79643293 AAGAAGATTTATAACGACCAACATGAAGAAAT
129 AAAAAGATTTATAAAGACCAACATGAAGAAAC
* * * ** *
79643325 GTATGTCTCAAAATATAAATCAC-ATTCTCTCAATATTTGGTCTCAACAAGTTATCAATGTAGAC
1 GTATGTCTCAAAATATAAACCACAATT-ACTCAACATTTGGTCTCAACAAGTTATCAATACATAC
* * * *
79643389 TTACCTCGGATTAA-TTACTTTCTTCTTCCCTCAACTCTTGAGCAAA-AACAACTGGTAAAAAAA
65 -TA-CTC-GA-TAATTTA-TGTATTATTCCCTCAACTCTGGAG-AAAGAACAACTGGT-AAAAAA
* *
79643452 CATAAGAAAAATATTTATAAAGATCAACATGAA-AGAAC
123 CATAAGAAAAAGATTTATAAAGACCAACATGAAGA-AAC
* *
79643490 GTATGTCTCAAAATATAAACCACAATTGCTCAACATTTGGTCTCAACAAGTTATCTATACATACT
1 GTATGTCTCAAAATATAAACCACAATTACTCAACATTTGGTCTCAACAAGTTATCAATACATACT
* *
79643555 GACTGCGCTATAATTTAGGTATTATTCCCTCCACTCTGGAGAAAGAACAACTGGTAAAAAACATA
66 -ACT-CG--ATAATTTATGTATTATTCCCTCAACTCTGGAGAAAGAACAACTGGTAAAAAACATA
* * * * *
79643620 A-AAAGAAGAAGCTTTACAATGATCAATATGAAGATCTAGC
127 AGAAA-AAG-A--TTTATAAAGACCAACATGAAGA---AAC
** *** * * * * *
79643660 AAAAAACATTAGCAGAATATAAACCA-AATTTGCTTAATATTTGGTCTCAACAAGTTATCAATGC
1 GTATGTC--T--CAAAATATAAACCACAA-TTACTCAACATTTGGTCTCAACAAGTTATCAATAC
* * * * * * * * * *
79643724 ATATTTACCCCAGATTAA-TTACTTTCTTCTTGCCTCAACTCTGGAGAAAGAAGATCTAGCAAAA
61 ATA-CTA-CTC-GA-TAATTTA-TGTATTATTCCCTCAACTCTGGAGAAAGAACAACTGGTAAAA
* * * * * *
79643788 AACATTAGCAGAAGATTTATAATA-ATCAATATGAAGGAAC
121 AACATAAGAAAAAGATTTATAA-AGACCAACATGAAGAAAC
* * * * * * *
79643828 ATATGCCTCGAAATATAAACCAGAATTGCTCAACATTTGGTCTCAATAAGTCATCAATACATACT
1 GTATGTCTCAAAATATAAACCACAATTACTCAACATTTGGTCTCAACAAGTTATCAATACATACT
79643893 TATCGCGCAA
Statistics
Matches: 448, Mismatches: 82, Indels: 73
0.74 0.14 0.12
Matches are distributed among these distances:
158 3 0.01
159 40 0.09
160 13 0.03
161 2 0.00
162 2 0.00
163 36 0.08
164 75 0.17
165 119 0.27
166 8 0.02
167 17 0.04
168 6 0.01
170 4 0.01
171 18 0.04
172 1 0.00
173 7 0.02
174 93 0.21
175 4 0.01
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (160 bp):
GTATGTCTCAAAATATAAACCACAATTACTCAACATTTGGTCTCAACAAGTTATCAATACATACT
ACTCGATAATTTATGTATTATTCCCTCAACTCTGGAGAAAGAACAACTGGTAAAAAACATAAGAA
AAAGATTTATAAAGACCAACATGAAGAAAC
Found at i:79644669 original size:164 final size:164
Alignment explanation
Indices: 79644468--79645342 Score: 1166
Period size: 164 Copynumber: 5.3 Consensus size: 164
79644458 TTCTTCCATA
* * * * *
79644468 AACTCTAGAGCAAGAACAACTGGTAAAAAAACATAAGAAGAATATTTATAAAGATTAACGTGAAG
1 AACTCTAGGGCAAGAACAACTGGT-AAAAAACATAAGAAGAATATTTATAATGATCAACATGAAA
* * * *
79644533 GAACATATGTCTTGGAATATAAACCACAAATGCTCAACATTTGGTCTCAACAAGTTATCAAT-CA
65 GAACGTATGTCTTAGAATATAAACCACAATTGCTCAACATTTGGTCTCAACAAGTTATCAATAGA
*
79644597 TACTTACCGCGCAGTAATTAAGGTATTATTCCCTC
130 TACTTACCGCGCTGTAATTAAGGTATTATTCCCTC
* *
79644632 AACTCTAGGGGTAAGAACAACTGGTAAAAAGCATAAGAAGAATATTTATAATGATCAACATGAAA
1 AACTCTA-GGGCAAGAACAACTGGTAAAAAACATAAGAAGAATATTTATAATGATCAACATGAAA
* * * * * *
79644697 GAACATATGTCTTAGAATATAAACCACTATTGTTCAACATTTTGTCTCAAGAAGTTATAAATAGA
65 GAACGTATGTCTTAGAATATAAACCACAATTGCTCAACATTTGGTCTCAACAAGTTATCAATAGA
*
79644762 TACTTACCGTGCTGTAATTAAGGTATTATTCCCTC
130 TACTTACCGCGCTGTAATTAAGGTATTATTCCCTC
* * *
79644797 AACTCTTGGGCAAGAACAACAGGTAAAAAATATAAGAAGAATATTTATAATGATCAACATGAAAG
1 AACTCTAGGGCAAGAACAACTGGTAAAAAACATAAGAAGAATATTTATAATGATCAACATGAAAG
* * *
79644862 AACGTATGTCTTAGAATATAAACCACTATTGTTCAACATTTGGTCTCAAGAAGTTATCAATAGAT
66 AACGTATGTCTTAGAATATAAACCACAATTGCTCAACATTTGGTCTCAACAAGTTATCAATAGAT
* *
79644927 ACTTACCGTGCTGTACTTAAGGTATTATTCCCTC
131 ACTTACCGCGCTGTAATTAAGGTATTATTCCCTC
* *
79644961 AACTCTTGGGCAAGAACAACTGGTAAAAAACATAAGAAGAATATTTATAATGATCAACGTGAAAG
1 AACTCTAGGGCAAGAACAACTGGTAAAAAACATAAGAAGAATATTTATAATGATCAACATGAAAG
* * * * * *
79645026 AATGTATGTATTAGAATATAAACTACAATTGCTCAAAATCTGGTCTTAACAAGTTATC---A-AT
66 AACGTATGTCTTAGAATATAAACCACAATTGCTCAACATTTGGTCTCAACAAGTTATCAATAGAT
* *
79645087 ACATACCGCGCTGTAATTAAGGCATTATTCCCTC
131 ACTTACCGCGCTGTAATTAAGGTATTATTCCCTC
* * * * * *
79645121 AACTCTAGAGCAATAATAACTGGTAAAAAAAATAAGAAGAATATTTATAATGACCAACATGAAGG
1 AACTCTAGGGCAAGAACAACTGGTAAAAAACATAAGAAGAATATTTATAATGATCAACATGAAAG
* * * * * * *
79645186 AATGCATGTCTTCGAATATAAACCTCAATTGCTCAACATTTGGTCTCAACAAGTTTTAAATATAT
66 AACGTATGTCTTAGAATATAAACCACAATTGCTCAACATTTGGTCTCAACAAGTTATCAATAGAT
* * * * *
79645251 ACATACCGCACGGTAAGTATGGTATTATTCCCTC
131 ACTTACCGCGCTGTAATTAAGGTATTATTCCCTC
* * *
79645285 AACCCTAGGGCAAGAACAACTGGTAAAAAAATATAACAAGAATATTTATAATGATCAA
1 AACTCTAGGGCAAGAACAACTGGT-AAAAAACATAAGAAGAATATTTATAATGATCAA
79645343 TGTAAAGGAA
Statistics
Matches: 632, Mismatches: 72, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
160 137 0.22
161 1 0.00
163 1 0.00
164 408 0.65
165 85 0.13
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (164 bp):
AACTCTAGGGCAAGAACAACTGGTAAAAAACATAAGAAGAATATTTATAATGATCAACATGAAAG
AACGTATGTCTTAGAATATAAACCACAATTGCTCAACATTTGGTCTCAACAAGTTATCAATAGAT
ACTTACCGCGCTGTAATTAAGGTATTATTCCCTC
Found at i:79645231 original size:324 final size:326
Alignment explanation
Indices: 79644468--79645342 Score: 1189
Period size: 324 Copynumber: 2.7 Consensus size: 326
79644458 TTCTTCCATA
* * *
79644468 AACTCTAGAGCAAGAACAACTGGTAAAAAAACATAAGAAGAATATTTATAAAGATTAACGTGAAG
1 AACTCTAGAGCAAGAACAACTGGTAAAAAAA-ATAAGAAGAATATTTATAATGATCAACATGAAG
* * *
79644533 GAACATATGTCTTGGAATATAAACCACAAATGCTCAACATTTGGTCTCAACAAGTTATCAAT-CA
65 GAACGTATGTCTTAGAATATAAACCACAATTGCTCAACATTTGGTCTCAACAAGTTATCAATACA
*
79644597 TACTTACCGCGCAGTAATTAAGGTATTATTCCCTCAACTCTAGGGGTAAGAACAACTGGTAAAAA
130 TACTTACCGCGCAGTAATTAAGGTATTATTCCCTCAACTCTA-GGGCAAGAACAACTGGTAAAAA
* * *
79644662 GCATAAGAAGAATATTTATAATGATCAACATGAAAGAACATATGTCTTAGAATATAAACCACTAT
194 ACATAAGAAGAATATTTATAATGATCAACATGAAAGAACATATGTATTAGAATATAAACCACAAT
* * * * * * * * *
79644727 TGTTCAACATTTTGTCTCAAGAAGTTATAAATAGATACTTACCGTGCTGTAATTAAGGTATTATT
259 TGCTCAAAATCTGGTCTCAACAAGTTAT--ACAGATACATACCGCGCTGTAATTAAGGCATTATT
79644792 CCCTC
322 CCCTC
* * * * *
79644797 AACTCTTGGGCAAGAACAACAGGTAAAAAATATAAGAAGAATATTTATAATGATCAACATGAAAG
1 AACTCTAGAGCAAGAACAACTGGTAAAAAAAATAAGAAGAATATTTATAATGATCAACATGAAGG
* * * *
79644862 AACGTATGTCTTAGAATATAAACCACTATTGTTCAACATTTGGTCTCAAGAAGTTATCAATAGAT
66 AACGTATGTCTTAGAATATAAACCACAATTGCTCAACATTTGGTCTCAACAAGTTATCAATACAT
* * * *
79644927 ACTTACCGTGCTGTACTTAAGGTATTATTCCCTCAACTCTTGGGCAAGAACAACTGGTAAAAAAC
131 ACTTACCGCGCAGTAATTAAGGTATTATTCCCTCAACTCTAGGGCAAGAACAACTGGTAAAAAAC
* ** *
79644992 ATAAGAAGAATATTTATAATGATCAACGTGAAAGAATGTATGTATTAGAATATAAACTACAATTG
196 ATAAGAAGAATATTTATAATGATCAACATGAAAGAACATATGTATTAGAATATAAACCACAATTG
*
79645057 CTCAAAATCTGGTCTTAACAAGTTAT-CA-ATACATACCGCGCTGTAATTAAGGCATTATTCCCT
261 CTCAAAATCTGGTCTCAACAAGTTATACAGATACATACCGCGCTGTAATTAAGGCATTATTCCCT
79645120 C
326 C
* * *
79645121 AACTCTAGAGCAATAATAACTGGTAAAAAAAATAAGAAGAATATTTATAATGACCAACATGAAGG
1 AACTCTAGAGCAAGAACAACTGGTAAAAAAAATAAGAAGAATATTTATAATGATCAACATGAAGG
* * * * * * *
79645186 AATGCATGTCTTCGAATATAAACCTCAATTGCTCAACATTTGGTCTCAACAAGTTTTAAATATAT
66 AACGTATGTCTTAGAATATAAACCACAATTGCTCAACATTTGGTCTCAACAAGTTATCAATACAT
* * * * * *
79645251 ACATACCGCACGGTAAGTATGGTATTATTCCCTCAACCCTAGGGCAAGAACAACTGGTAAAAAAA
131 ACTTACCGCGCAGTAATTAAGGTATTATTCCCTCAACTCTAGGGCAAGAACAACTGGT-AAAAAA
* *
79645316 TATAACAAGAATATTTATAATGATCAA
195 CATAAGAAGAATATTTATAATGATCAA
79645343 TGTAAAGGAA
Statistics
Matches: 478, Mismatches: 66, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
324 194 0.41
325 32 0.07
328 186 0.39
329 66 0.14
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (326 bp):
AACTCTAGAGCAAGAACAACTGGTAAAAAAAATAAGAAGAATATTTATAATGATCAACATGAAGG
AACGTATGTCTTAGAATATAAACCACAATTGCTCAACATTTGGTCTCAACAAGTTATCAATACAT
ACTTACCGCGCAGTAATTAAGGTATTATTCCCTCAACTCTAGGGCAAGAACAACTGGTAAAAAAC
ATAAGAAGAATATTTATAATGATCAACATGAAAGAACATATGTATTAGAATATAAACCACAATTG
CTCAAAATCTGGTCTCAACAAGTTATACAGATACATACCGCGCTGTAATTAAGGCATTATTCCCT
C
Found at i:79645789 original size:165 final size:164
Alignment explanation
Indices: 79645511--79645904 Score: 510
Period size: 165 Copynumber: 2.4 Consensus size: 164
79645501 TACTTTCTTC
* * * *
79645511 TTCCC-TCAACTCTAGAGTAAGAACAACTAGTAAAAGAATATAAGACGAATATTTATAAAAATAA
1 TTCCCTTCAACTCTAGA-TAAGAACAACTGGTAAAA-AATATAAGAAGAATATTTATAAAGATCA
*
79645575 ACATGAAGGAACATATGTCTCAAAATATAAACCACAATTGCTCAACATTTGGTCTCAACAAGTTA
64 ACATGAAGGAACATATGTCTCAAAATATAAACCACAATTACTCAACATTTGGTCTCAACAAGTTA
**
79645640 TCAATACATACTTAT-TGTGCGATAATTAAGGTATTA
129 TCAATACATACTTATCT-CCCGATAATTAAGGTATTA
* *
79645676 TT-CTTTCAACTCTAGATTAAGAACAACTGGTAAAAAAGTATAAGAATAATATTTATAAAGATCA
1 TTCCCTTCAACTCTAGA-TAAGAACAACTGGTAAAAAA-TATAAGAAGAATATTTATAAAGATCA
** * *
79645740 ACATGAAGGAACATATGTCTCTGAATATAAACCACAATTACTTAACATTTGGTTTCAACAAGTTA
64 ACATGAAGGAACATATGTCTCAAAATATAAACCACAATTACTCAACATTTGGTCTCAACAAGTTA
*
79645805 TCAATACATACTTATCTCCCGATAATTAAGGTGTTA
129 TCAATACATACTTATCTCCCGATAATTAAGGTATTA
* * * * * * *
79645841 TTCCCTT-AACT-TTGAGAAGAATAGCTGGTAAAAAAACATAAGAAGAATAATTATAATGATCAA
1 TTCCCTTCAACTCTAGATAAGAACAACTGGT-AAAAAATATAAGAAGAATATTTATAAAGATCAA
79645904 C
65 C
79645905 GAGTATTAAA
Statistics
Matches: 200, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
163 35 0.17
164 12 0.06
165 149 0.75
166 4 0.02
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (164 bp):
TTCCCTTCAACTCTAGATAAGAACAACTGGTAAAAAATATAAGAAGAATATTTATAAAGATCAAC
ATGAAGGAACATATGTCTCAAAATATAAACCACAATTACTCAACATTTGGTCTCAACAAGTTATC
AATACATACTTATCTCCCGATAATTAAGGTATTA
Found at i:79650732 original size:14 final size:14
Alignment explanation
Indices: 79650698--79650732 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
79650688 TAAATTTAGT
79650698 TTTATAAATATATA
1 TTTATAAATATATA
* *
79650712 GTAATAAATATATA
1 TTTATAAATATATA
79650726 TTTATAA
1 TTTATAA
79650733 TGTTTTATAA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (14 bp):
TTTATAAATATATA
Found at i:79651664 original size:26 final size:28
Alignment explanation
Indices: 79651614--79651668 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
79651604 GTTTATATAT
*
79651614 ATATTTAAAATGTTTTAATTTAAATTTA
1 ATATTTAAAATGTTTTAATTAAAATTTA
*
79651642 ATATTTTAAAT-TTTT-ATTAAAATTTA
1 ATATTTAAAATGTTTTAATTAAAATTTA
79651668 A
1 A
79651669 GTATAAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.44
27 4 0.16
28 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
ATATTTAAAATGTTTTAATTAAAATTTA
Found at i:79651967 original size:94 final size:94
Alignment explanation
Indices: 79651804--79652026 Score: 324
Period size: 94 Copynumber: 2.4 Consensus size: 94
79651794 AATTAAAATA
* *
79651804 TCAACATTTGGTCTCAACAATTTATTAATACATACTTACTCCTCAGTAATTATGATATTCTTCGC
1 TCAACATTTGGTCTCAACAATTTATCAATACATACTGACTCCTCAGTAATTATGATATTCTTCGC
* *
79651869 TCAACTCTTAGGATATAACCCATAATTGC
66 TCAACTCGTAGAATATAACCCATAATTGC
* *
79651898 TCAACATTTGGTCTCAACATTTTATCAATACATACTGACTCCTCAGTATTTAT-AGTATTCTTC-
1 TCAACATTTGGTCTCAACAATTTATCAATACATACTGACTCCTCAGTAATTATGA-TATTCTTCG
***
79651961 CTTCAACTCGTAGAATATAAGTTATAATTGC
65 C-TCAACTCGTAGAATATAACCCATAATTGC
*
79651992 TCAACATTTGGTCTCAACAAGTTATCAATACATAC
1 TCAACATTTGGTCTCAACAATTTATCAATACATAC
79652027 ATACTTCGGG
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
93 2 0.02
94 114 0.98
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (94 bp):
TCAACATTTGGTCTCAACAATTTATCAATACATACTGACTCCTCAGTAATTATGATATTCTTCGC
TCAACTCGTAGAATATAACCCATAATTGC
Found at i:79665028 original size:41 final size:41
Alignment explanation
Indices: 79664973--79665282 Score: 487
Period size: 41 Copynumber: 7.6 Consensus size: 41
79664963 AAAACAGTCT
* *
79664973 TTTAACGGCGTTTTTGAAAAAGCGCCGCTAATGCTTAGATC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGATC
*
79665014 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGATC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGATC
*
79665055 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGATC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGATC
* *
79665096 TTTAGCGGCGTTTTTGAAGAAGCGTCGCTAATGCTCAGATC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGATC
*
79665137 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGATC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGATC
*
79665178 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGATC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGATC
* * **
79665219 TTTAGCGCCGTTTTT-AGAAAAGCGCCGCTAATGCTCGGGGC
1 TTTAGCGGCGTTTTTGA-AAAAGCGCCGCTAATGCTCAGATC
*
79665260 TTTAGCGGCTTTTTTGAAAAAGC
1 TTTAGCGGCGTTTTTGAAAAAGC
79665283 ATTGCAAAAA
Statistics
Matches: 253, Mismatches: 14, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
41 252 1.00
42 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGATC
Found at i:79665325 original size:20 final size:18
Alignment explanation
Indices: 79665302--79665339 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
79665292 ACATTTTATC
79665302 TGTCTATTTACTATTTAATT
1 TGTCTATTTA-TA-TTAATT
79665322 TGTCTATTTATATTAATT
1 TGTCTATTTATATTAATT
79665340 AAAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (18 bp):
TGTCTATTTATATTAATT
Found at i:79670079 original size:43 final size:43
Alignment explanation
Indices: 79669869--79670091 Score: 311
Period size: 43 Copynumber: 5.2 Consensus size: 43
79669859 TTTAGAAAAT
** *
79669869 AAACGCCACTAAAGGTCATGACCTTTAGCGGCGCTTCTTCCAC
1 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
*
79669912 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCATTTTCCAC
1 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
* *
79669955 AAACGCCACTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
* * * * *
79669998 AAACGCCGCTAAAGACAATGACCATTGGCGGCGCTTTTTCCAT
1 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
* * *
79670041 AAACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTATCAC
1 AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTT-CCAC
79670085 AAACGCC
1 AAACGCC
79670092 GCTATGGAAC
Statistics
Matches: 159, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
43 150 0.94
44 9 0.06
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCACTAAAGACCATGACCTTTAGCGGCGCTTTTTCCAC
Found at i:79670110 original size:129 final size:129
Alignment explanation
Indices: 79669869--79670139 Score: 330
Period size: 129 Copynumber: 2.1 Consensus size: 129
79669859 TTTAGAAAAT
* * * *
79669869 AAACGCCACTAAAGGTCATGACCTTTAGCGGCGCTTCTTCCACAAACGCCACTAAAGACCATGAC
1 AAACGCCGCTAAAGGACATGACCATTAGCGGCGCTTCTTCCACAAACGCCACTAAAAACCATGAC
* * * * * *
79669934 CTTTAGCGGCGCATTTTCCACAAACGCCACTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
66 CTTTAGCGGCGCATTTTCCACAAACGCCACTATAGAACATAACCTTTAGCGACGCTTCTACCAA
* * * *
79669998 AAACGCCGCTAAA-GACAATGACCATTGGCGGCGCTTTTTCCATAAACGCCGCTAAAAACCATGA
1 AAACGCCGCTAAAGGAC-ATGACCATTAGCGGCGCTTCTTCCACAAACGCCACTAAAAACCATGA
* * * * * *
79670062 CCTTTAGCGGCGCTTTTTATCACAAACGCCGCTATGGAACA-AATCTTTAGCGACGCTTCTATCA
65 CCTTTAGCGGCGCATTTT-CCACAAACGCCACTATAGAACATAACCTTTAGCGACGCTTCTACCA
79670126 A
129 A
79670127 AAACGCCGCTAAA
1 AAACGCCGCTAAA
79670140 AACATATCAT
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
128 2 0.02
129 100 0.83
130 18 0.15
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (129 bp):
AAACGCCGCTAAAGGACATGACCATTAGCGGCGCTTCTTCCACAAACGCCACTAAAAACCATGAC
CTTTAGCGGCGCATTTTCCACAAACGCCACTATAGAACATAACCTTTAGCGACGCTTCTACCAA
Found at i:79670119 original size:86 final size:85
Alignment explanation
Indices: 79669867--79670142 Score: 286
Period size: 86 Copynumber: 3.2 Consensus size: 85
79669857 GTTTTAGAAA
*** * * * *
79669867 ATAAACGCCACTAAAGGTCATGACCTTTAGCGGCGCTTCTTCCACAAACGCCACTAAAGACCATG
1 ATAAACGCCACTAAAAACCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACA-A
*
79669932 ACCTTTAGCGGCGCATTTTCC
65 ACCTTTAGCGGCGCTTTTTCC
* * * *
79669953 ACAAACGCCACTATAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAG-ACAAT
1 ATAAACGCCACTAAAAACCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACAA-
* *
79670017 GACCATTGGCGGCGCTTTTTCC
65 -ACCTTTAGCGGCGCTTTTTCC
* * **
79670039 ATAAACGCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTATCACAAACGCCGCTATGGAACAA
1 ATAAACGCCACTAAAAACCATGACCTTTAGCGGCGCTTTTT-CCACAAACGCCGCTAAAGAACAA
* * *
79670104 ATCTTTAGCGACGCTTCTAT-C
65 ACCTTTAGCGGCGCTT-TTTCC
* *
79670125 AAAAACGCCGCTAAAAAC
1 ATAAACGCCACTAAAAAC
79670143 ATATCATGCA
Statistics
Matches: 159, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
85 2 0.01
86 136 0.86
87 17 0.11
88 4 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (85 bp):
ATAAACGCCACTAAAAACCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGAACAAA
CCTTTAGCGGCGCTTTTTCC
Found at i:79672613 original size:16 final size:17
Alignment explanation
Indices: 79672592--79672630 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
79672582 AGGATAAGGA
79672592 AAAAATT-TATAAAT-AT
1 AAAAATTCTA-AAATAAT
79672608 AAAAATTCTAAAATAAT
1 AAAAATTCTAAAATAAT
79672625 AAAAAT
1 AAAAAT
79672631 AAATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATTCTAAAATAAT
Found at i:79673119 original size:20 final size:20
Alignment explanation
Indices: 79673094--79673132 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
79673084 TGAAAATCAG
79673094 GAAAGGCATCAGCTATCCAA
1 GAAAGGCATCAGCTATCCAA
*
79673114 GAAAGGCATTAGCTATCCA
1 GAAAGGCATCAGCTATCCA
79673133 TCTAAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
GAAAGGCATCAGCTATCCAA
Found at i:79674220 original size:3 final size:3
Alignment explanation
Indices: 79674212--79674240 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
79674202 AAGATATAAA
79674212 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
79674241 AGAGGAGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:79674230 original size:25 final size:23
Alignment explanation
Indices: 79674182--79674225 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
79674172 AGCTCTCTCT
*
79674182 ATATAAACAAGAAGGAAAGAAAG
1 ATATAAACAAGAAGAAAAGAAAG
79674205 ATATAAA-AAGAAGAAGAAGAA
1 ATATAAACAAGAAGAA-AAGAA
79674226 GAAGAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.68, C:0.02, G:0.20, T:0.09
Consensus pattern (23 bp):
ATATAAACAAGAAGAAAAGAAAG
Found at i:79674730 original size:150 final size:151
Alignment explanation
Indices: 79674576--79674880 Score: 540
Period size: 151 Copynumber: 2.0 Consensus size: 151
79674566 GCGTTTTTTA
* ** *
79674576 TATTGCTTACCTTTAGCTGCGATTTT-GTAAAAACGTCGCAAAATTATTTCATTTTGAACAAAAC
1 TATTGCTTACCTTTAGCGGCGATTTTCACAAAAACGCCGCAAAATTATTTCATTTTGAACAAAAC
79674640 GACGCCGTTTTTCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGG
66 GACGCCGTTTTTCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGG
*
79674705 CGTTTTTTATAAAAACGCCGC
131 CATTTTTTATAAAAACGCCGC
*
79674726 TATTGCTTACCTTTAGCGGCGTTTTTCACAAAAACGCCGCAAAATTATTTCATTTTGAACAAAAC
1 TATTGCTTACCTTTAGCGGCGATTTTCACAAAAACGCCGCAAAATTATTTCATTTTGAACAAAAC
*
79674791 GACGCCGTTTTTCTATTCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTTTGCGG
66 GACGCCGTTTTTCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGG
79674856 CATTTTTTATAAAAACGCCGC
131 CATTTTTTATAAAAACGCCGC
79674877 TATT
1 TATT
79674881 TCATTTTTAT
Statistics
Matches: 147, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
150 24 0.16
151 123 0.84
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (151 bp):
TATTGCTTACCTTTAGCGGCGATTTTCACAAAAACGCCGCAAAATTATTTCATTTTGAACAAAAC
GACGCCGTTTTTCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGG
CATTTTTTATAAAAACGCCGC
Found at i:79674906 original size:106 final size:101
Alignment explanation
Indices: 79674771--79674957 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 101
79674761 GCCGCAAAAT
* * * *
79674771 TATTTCATTTTGAACAAAACGACGCCGTTTTTCTATTCTAAAAATTTTTTATTTTGTTTTTTATA
1 TATTTCATTTTGAACAAAACGACACCGTTTTGCTATGCT--AAA--TTTT-TTTTATTTTTTATA
79674836 AATTGATTTATTTTTTGCGGCATTTTTTATAAAAACGCCGC
61 AATTGATTTATTTTTTGCGGCATTTTTTATAAAAACGCCGC
* * * * *
79674877 TATTTCATTTTTATCAAAATGACATCGTTTTGGTATGCTAAATTTTTTTTATTTTTTATAAATTG
1 TATTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAATTTTTTTTATTTTTTATAAATTG
79674942 ATTTATTTTTTGCGGC
66 ATTTATTTTTTGCGGC
79674958 GTTGCTTACC
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
101 34 0.47
102 4 0.06
104 3 0.04
106 31 0.43
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (101 bp):
TATTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAAATTTTTTTTATTTTTTATAAATTG
ATTTATTTTTTGCGGCATTTTTTATAAAAACGCCGC
Found at i:79675295 original size:85 final size:79
Alignment explanation
Indices: 79675192--79675354 Score: 209
Period size: 85 Copynumber: 2.0 Consensus size: 79
79675182 GCAGCGTTTT
* * *
79675192 TATTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTGTTTTTTATA
1 TATTTCATTTTGAACAAAACGACACCGTTTTGCTATGCT---AA--TTTT-TTTTATTTTTTATA
79675257 AATTGATTTATTTTTTGCGC
60 AATTGATTTATTTTTTGCGC
* * * *
79675277 TATTTCATTTTTATCAAAATGACACCGTTTTGGTATGCTAATTTTTTTTATTTTTTATAAATTGA
1 TATTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAATTTTTTTTATTTTTTATAAATTGA
79675342 TTTATTTTTTGCG
66 TTTATTTTTTGCG
79675355 GCGTTTTTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
79 32 0.45
80 4 0.06
82 2 0.03
85 33 0.46
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.54
Consensus pattern (79 bp):
TATTTCATTTTGAACAAAACGACACCGTTTTGCTATGCTAATTTTTTTTATTTTTTATAAATTGA
TTTATTTTTTGCGC
Found at i:79675439 original size:197 final size:195
Alignment explanation
Indices: 79675078--79675462 Score: 537
Period size: 197 Copynumber: 2.0 Consensus size: 195
79675068 ATAAAAACGT
79675078 CGCTATTTCATTTTTATCAAAATGACACCGTCTTGGTATGCTAAATTTTTTTTATTTTTTATAAA
1 CGCTATTTCATTTTTATCAAAATGACACCGTCTTGGTATGCTAAATTTTTTTTATTTTTTATAAA
* * * * *
79675143 TTGATTTATTTTTTGCGACGCCACTATTGCTTACCTTTAGCAGCGTTTTTATTTCATTTTGAACA
66 TTGATTTATTTTTTGCGA-GCCACTATTGATAAACTGTAGCAGCGTTATTATTTCATTTTGAACA
* *
79675208 AAACGACGCCGTTTTGCTATTCTAAAAATTTTTTATTTTGTTTTTTATAAATTGATTTATTTTTT
130 AAACGAAGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTT
79675273 G
195 G
*
79675274 CGCTATTTCATTTTTATCAAAATGACACCGTTTTGGTATGCT-AATTTTTTTTATTTTTTATAAA
1 CGCTATTTCATTTTTATCAAAATGACACCGTCTTGGTATGCTAAATTTTTTTTATTTTTTATAAA
** * * *
79675338 TTGATTTATTTTTTGCG-G-CGTTTTTTATAAAAAC-GTCGCTATTGC-TTAAATTATTTCATTT
66 TTGATTTATTTTTTGCGAGCCACTATTGAT--AAACTGTAGC-A--GCGTT--ATTATTTCATTT
*
79675399 TGAATAAAACGAAGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTT
124 TGAACAAAACGAAGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTT
79675463 TTTATAAAAT
Statistics
Matches: 168, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
192 5 0.03
193 4 0.02
194 3 0.02
195 41 0.24
196 43 0.26
197 72 0.43
ACGTcount: A:0.26, C:0.12, G:0.11, T:0.51
Consensus pattern (195 bp):
CGCTATTTCATTTTTATCAAAATGACACCGTCTTGGTATGCTAAATTTTTTTTATTTTTTATAAA
TTGATTTATTTTTTGCGAGCCACTATTGATAAACTGTAGCAGCGTTATTATTTCATTTTGAACAA
AACGAAGCCGTTTTGCTATTCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTG
Found at i:79676058 original size:7 final size:7
Alignment explanation
Indices: 79676038--79676086 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
79676028 AACCTTAAAT
79676038 CCCTAAC
1 CCCTAAC
* *
79676045 TCTTAAC
1 CCCTAAC
79676052 CCCTAAC
1 CCCTAAC
**
79676059 ATCTAAC
1 CCCTAAC
79676066 CCCTAAAC
1 CCCT-AAC
79676074 CCCTAAC
1 CCCTAAC
79676081 CCCTAA
1 CCCTAA
79676087 ACCTTAAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:79676081 original size:15 final size:15
Alignment explanation
Indices: 79676048--79676089 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
79676038 CCCTAACTCT
**
79676048 TAACCCCT-AACATC
1 TAACCCCTAAACCCC
79676062 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
79676077 TAACCCCTAAACC
1 TAACCCCTAAACC
79676090 TTAAATTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.17
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:79676094 original size:22 final size:22
Alignment explanation
Indices: 79676049--79676094 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
79676039 CCTAACTCTT
* *
79676049 AACCCCTAACATCTAACCCCTA
1 AACCCCTAACACCTAAACCCTA
* *
79676071 AACCCCTAACCCCTAAACCTTA
1 AACCCCTAACACCTAAACCCTA
79676093 AA
1 AA
79676095 TTCGAACCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.17
Consensus pattern (22 bp):
AACCCCTAACACCTAAACCCTA
Found at i:79676127 original size:14 final size:14
Alignment explanation
Indices: 79676109--79676150 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
79676099 AACCCTTAAA
79676109 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
79676123 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
79676138 CCATACTCCCTAA
1 CCATAATCCCTAA
79676151 ACATTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:79676147 original size:15 final size:15
Alignment explanation
Indices: 79676105--79676151 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
79676095 TTCGAACCCT
79676105 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
79676119 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
79676133 TAAATCCATACTCCC
1 TAAATCCATAATCCC
79676148 TAAA
1 TAAA
79676152 CATTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:79676550 original size:73 final size:74
Alignment explanation
Indices: 79676471--79676655 Score: 275
Period size: 73 Copynumber: 2.5 Consensus size: 74
79676461 AGATAAAATA
* *
79676471 TTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAATCACCGAAAGCTCAGAAAACGGCGTCATTGG
1 TTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCGAAAGCTCAAAAAACGGCGTCATTGG
79676536 GCTTAGG-T
66 GCTTAGGTT
* * *
79676544 TTTTTTGCGACGC-TTTCTCAAAAACGCCGCTAAAGCCCCGAAAGCTCAAAAAACGGCGTCGTTG
1 TTTTTTGCGGCGCTTTTC-CAAAAACGCCGCTAAAGCACCGAAAGCTCAAAAAACGGCGTCATTG
79676608 GGCTTAGGTTTT
65 GGCTTAGG--TT
*
79676620 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGC
1 TTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGC
79676656 TCTGGGCATT
Statistics
Matches: 100, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
72 4 0.04
73 62 0.62
76 31 0.31
77 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (74 bp):
TTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCGAAAGCTCAAAAAACGGCGTCATTGG
GCTTAGGTT
Found at i:79676798 original size:114 final size:114
Alignment explanation
Indices: 79676554--79676881 Score: 460
Period size: 114 Copynumber: 2.9 Consensus size: 114
79676544 TTTTTTGCGA
* * *
79676554 CGCTTTCTCAAAAACGCCGCTAAAGCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTT
1 CGCTTTCTCAAAAACGCAGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGG---
* **
79676619 TTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCTCTGGGCATTAGCGG
63 TTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGG
* * * * *
79676671 TGCTTT-TCCAAAAACGCAGTTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGATTAGGTC
1 CGCTTTCT-CAAAAACGCAGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTT
* **
79676735 TTTTTGCAGCGCTTTCTTAAAAACGCCGCTAAAGCCCTAAGCATTAGCGG
65 TTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGG
* *
79676785 CGCTTTCTTAAAAACGCTGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
1 CGCTTTCTCAAAAACGCAGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
*
79676850 TTTTGCGGCGCTTTCCCAAACACGCCGCTAAA
66 TTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
79676882 AGCCTGTTTT
Statistics
Matches: 184, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
114 129 0.70
115 1 0.01
116 1 0.01
117 53 0.29
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (114 bp):
CGCTTTCTCAAAAACGCAGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
TTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGG
Found at i:79678527 original size:18 final size:18
Alignment explanation
Indices: 79678504--79678545 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
79678494 ATAATATTTA
79678504 AAATTCGCAAAACCCATC
1 AAATTCGCAAAACCCATC
*
79678522 AAATTCGCAAAACCCATT
1 AAATTCGCAAAACCCATC
79678540 AAATTC
1 AAATTC
79678546 ACAGCCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.29, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATTCGCAAAACCCATC
Found at i:79679007 original size:47 final size:48
Alignment explanation
Indices: 79678918--79679016 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 48
79678908 CATAGTTTTG
* * *
79678918 TTTAGGTAATATTTATAAAAATTAGATAAAATTATCAATTTTAGT-TT
1 TTTAAGTAATATTTATAAAAATTAGATAAAAATATAAATTTTAGTGTT
* * * *
79678965 TTTAAGTAGTATTTCTAAAAATTAGGTAAAAATA-AAATTTTTATTGTT
1 TTTAAGTAATATTTATAAAAATTAGATAAAAATATAAA-TTTTAGTGTT
79679013 TTTA
1 TTTA
79679017 TTTATTTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
46 2 0.05
47 35 0.81
48 6 0.14
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.47
Consensus pattern (48 bp):
TTTAAGTAATATTTATAAAAATTAGATAAAAATATAAATTTTAGTGTT
Found at i:79679027 original size:11 final size:10
Alignment explanation
Indices: 79679002--79679053 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 10
79678992 AAAAATAAAA
*
79679002 TTTTTA-TTG
1 TTTTTATTTT
79679011 TTTTTATTTAT
1 TTTTTATTT-T
*
79679022 TTTTTA-TTG
1 TTTTTATTTT
79679031 TTTTTATTTT
1 TTTTTATTTT
79679041 TATTTTATTTT
1 T-TTTTATTTT
79679052 TT
1 TT
79679054 ATAATTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
9 12 0.33
10 8 0.22
11 16 0.44
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:79679027 original size:20 final size:19
Alignment explanation
Indices: 79679002--79679053 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
79678992 AAAAATAAAA
79679002 TTTTTATTGTTTTTATTTAT
1 TTTTTATTGTTTTTATTT-T
79679022 TTTTTATTGTTTTTATTTT
1 TTTTTATTGTTTTTATTTT
79679041 TATTTTATT-TTTT
1 T-TTTTATTGTTTT
79679054 ATAATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (19 bp):
TTTTTATTGTTTTTATTTT
Found at i:79679061 original size:20 final size:20
Alignment explanation
Indices: 79679003--79679061 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
79678993 AAAATAAAAT
*
79679003 TTTTATTGTTTTT-ATTTATT
1 TTTTATTGTTTTTAATTT-TA
*
79679023 TTTTATTGTTTTTATTTTTA
1 TTTTATTGTTTTTAATTTTA
79679043 TTTTATT-TTTTATAATTTT
1 TTTTATTGTTTT-TAATTTT
79679062 TACAATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.12
20 27 0.79
21 3 0.09
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (20 bp):
TTTTATTGTTTTTAATTTTA
Found at i:79679061 original size:27 final size:29
Alignment explanation
Indices: 79679000--79679063 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 29
79678990 GTAAAAATAA
*
79679000 AATTTTTATTGTTTTTATTTATTTTTTAT
1 AATTTTTATTGTTTATATTTATTTTTTAT
**
79679029 TGTTTTTATT-TTTAT-TTTATTTTTTAT
1 AATTTTTATTGTTTATATTTATTTTTTAT
79679056 AATTTTTA
1 AATTTTTA
79679064 CAATTTTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 18 0.60
28 4 0.13
29 8 0.27
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (29 bp):
AATTTTTATTGTTTATATTTATTTTTTAT
Found at i:79679063 original size:9 final size:9
Alignment explanation
Indices: 79679049--79679097 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
79679039 TTTATTTTAT
*
79679049 TTTTTATAA
1 TTTTTACAA
79679058 TTTTTACAA
1 TTTTTACAA
79679067 TTTTTTACAA
1 -TTTTTACAA
79679077 -TTTTACAA
1 TTTTTACAA
79679085 TTTTTACAA
1 TTTTTACAA
79679094 TTTT
1 TTTT
79679098 AAATTATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 8 0.22
9 20 0.54
10 9 0.24
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTACAA
Found at i:79679069 original size:19 final size:18
Alignment explanation
Indices: 79679047--79679102 Score: 80
Period size: 17 Copynumber: 3.2 Consensus size: 18
79679037 TTTTTATTTT
*
79679047 ATTTTTTATAATTTTTACA
1 ATTTTTTACAA-TTTTACA
79679066 ATTTTTTACAATTTTACA
1 ATTTTTTACAATTTTACA
79679084 A-TTTTTACAATTTTA-A
1 ATTTTTTACAATTTTACA
79679100 ATT
1 ATT
79679103 ATTATATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
16 2 0.06
17 15 0.43
18 8 0.23
19 10 0.29
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTTTACAATTTTACA
Found at i:79679070 original size:8 final size:8
Alignment explanation
Indices: 79679059--79679102 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
79679049 TTTTTATAAT
79679059 TTTTACAA
1 TTTTACAA
79679067 TTTTTTACAA
1 --TTTTACAA
79679077 TTTTACAA
1 TTTTACAA
79679085 TTTTTACAA
1 -TTTTACAA
79679094 TTTTA-AA
1 TTTTACAA
79679101 TT
1 TT
79679103 ATTATATTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 4 0.12
8 13 0.39
9 8 0.24
10 8 0.24
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (8 bp):
TTTTACAA
Found at i:79679116 original size:21 final size:21
Alignment explanation
Indices: 79679092--79679145 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
79679082 CAATTTTTAC
79679092 AATTTTAAATTA-TT-ATATTCA
1 AATTTTAAATTATTTCATA-T-A
*
79679113 AATTATTATA-TATTTCATATA
1 AATT-TTAAATTATTTCATATA
79679134 AATTTTAAATTA
1 AATTTTAAATTA
79679146 ATAATCTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 4 0.15
21 13 0.48
22 7 0.26
23 3 0.11
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTTAAATTATTTCATATA
Found at i:79679369 original size:26 final size:28
Alignment explanation
Indices: 79679340--79679410 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 28
79679330 CCCGACCCCA
79679340 AATCCCTAACCCCTAAACCATAACC-C-
1 AATCCCTAACCCCTAAACCATAACCTCT
* * *
79679366 AAT-CCTAAATCCCTAACCCTTAACCTCT
1 AATCCCT-AACCCCTAAACCATAACCTCT
79679394 AA-CTCCTAACCCCTAAA
1 AATC-CCTAACCCCTAAA
79679411 TCTTATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
25 3 0.09
26 18 0.51
27 1 0.03
28 10 0.29
29 3 0.09
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (28 bp):
AATCCCTAACCCCTAAACCATAACCTCT
Found at i:79679535 original size:14 final size:14
Alignment explanation
Indices: 79679483--79679547 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
79679473 TAAATTTATA
* *
79679483 AACCCTAAATCCCT
1 AACCCTTAACCCCT
* **
79679497 AACTCTTAACATCT
1 AACCCTTAACCCCT
*
79679511 AACCCCTAACCCCT
1 AACCCTTAACCCCT
*
79679525 AACCCTTAACCCAT
1 AACCCTTAACCCCT
*
79679539 AAACCTTAA
1 AACCCTTAA
79679548 ATCACATTAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCTTAACCCCT
Found at i:79680344 original size:114 final size:114
Alignment explanation
Indices: 79680137--79680814 Score: 1025
Period size: 114 Copynumber: 6.0 Consensus size: 114
79680127 TTTAAATCCT
** * *
79680137 TGAGCATTAGCATCGCTTACTTAGAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCATCGT
1 TGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGT
* *
79680202 TGGGCTTAGGTATTTTTGCTGCGATTTCCCAAAAACGCCGCTAAAGCCC
66 TGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
* * *
79680251 TGAGCATTAGCGGCGATTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGACGTAGT
1 TGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGT
* *
79680316 TGGGCTTAGGTATTTTTGCGGCACTTTCCCAAAAACGCCGCTAAAGCCT
66 TGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
*
79680365 TGAGCATTAGCGACGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGT
* *
79680430 TGGCCTTAGGTATTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCC
66 TGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
* * * *
79680479 TAAGCATTAGCGGCACTTACTTAAAAATGCCACTAAATCCCTGAAAGCTCAGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGT
* * *
79680544 TGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAAAGCCACTAAAGACC
66 TGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
* * *
79680593 TGAGCATTAGCGGCGCTTACCTAAAAACACCACTAAATCCCCGAAAGCTCAGAAAACGGTGTCGT
1 TGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGT
* * * *
79680658 TGGGCTTAGATTTTTTTGTGGCGCTTTCTCAAAAACGCCGCTAAAGCCC
66 TGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
* * * * *
79680707 TGAGCATTAGCGGTGCTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCGGAAAACGGCGTCGT
1 TGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGT
***
79680772 TGGGCTTAGGTA-TTTTGCGGCGCTTTCTGGAAAACGCCGCTAA
66 TGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
79680815 TGCTTATTTT
Statistics
Matches: 509, Mismatches: 55, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
113 28 0.06
114 481 0.94
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (114 bp):
TGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGT
TGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCC
Found at i:79685989 original size:17 final size:17
Alignment explanation
Indices: 79685967--79686003 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
79685957 ATATTCAAAA
*
79685967 TTTCACCACACCCAAGC
1 TTTCACCAAACCCAAGC
79685984 TTTCACCAAACCCAAGC
1 TTTCACCAAACCCAAGC
79686001 TTT
1 TTT
79686004 GCTGAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.41, G:0.05, T:0.24
Consensus pattern (17 bp):
TTTCACCAAACCCAAGC
Found at i:79686461 original size:22 final size:22
Alignment explanation
Indices: 79686436--79686477 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
79686426 TCATTTTGAT
79686436 TTAATGA-ATTACTAATTTAACC
1 TTAATGATA-TACTAATTTAACC
*
79686458 TTAATGATATATTAATTTAA
1 TTAATGATATACTAATTTAA
79686478 AACACTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (22 bp):
TTAATGATATACTAATTTAACC
Found at i:79687330 original size:57 final size:57
Alignment explanation
Indices: 79687257--79687378 Score: 226
Period size: 57 Copynumber: 2.1 Consensus size: 57
79687247 GAATTTCACC
*
79687257 TATTTGTTTATTTTAATGAAGTACTTTAATATTAGTTGAAATGAATTATTAAGAGTT
1 TATTTGTGTATTTTAATGAAGTACTTTAATATTAGTTGAAATGAATTATTAAGAGTT
79687314 TATTTGTGTATTTTAATGAAGTACTTTAATATTAGTTGAAATGAATTATTAAGAGTT
1 TATTTGTGTATTTTAATGAAGTACTTTAATATTAGTTGAAATGAATTATTAAGAGTT
*
79687371 TATATGTG
1 TATTTGTG
79687379 GTTGAACTAG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (57 bp):
TATTTGTGTATTTTAATGAAGTACTTTAATATTAGTTGAAATGAATTATTAAGAGTT
Found at i:79697386 original size:30 final size:30
Alignment explanation
Indices: 79697334--79697454 Score: 89
Period size: 30 Copynumber: 4.0 Consensus size: 30
79697324 ATGTATACAT
* * * *
79697334 ATACAAATCAATTCGGCGATGTATATCCAA
1 ATACGAATAAATTCGACAATGTATATCCAA
* * *
79697364 ATACGAATAAATTCGATAATGTATATGCAT
1 ATACGAATAAATTCGACAATGTATATCCAA
* * * * *
79697394 ATACTAATCAATTCGGCAATGTATATCTAT
1 ATACGAATAAATTCGACAATGTATATCCAA
* * * * *
79697424 ATGCAAATCAATTAGGCAATGTATATCCAA
1 ATACGAATAAATTCGACAATGTATATCCAA
79697454 A
1 A
79697455 ATGTATATCT
Statistics
Matches: 73, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (30 bp):
ATACGAATAAATTCGACAATGTATATCCAA
Found at i:79697445 original size:60 final size:59
Alignment explanation
Indices: 79697324--79697731 Score: 307
Period size: 60 Copynumber: 6.6 Consensus size: 59
79697314 GGCAATATAT
* * * * **
79697324 ATGTATA-CATATACAAATCAATTCGGCGATGTATATCCAAATACGAATAAATTCGATA
1 ATGTATATCATATACAAATCAATTCGGCAATGTATATCTAAATACAAATCAATTCGGCA
* * * *
79697382 ATGTATATGCATATACTAATCAATTCGGCAATGTATATCTATATGCAAATCAATTAGGCA
1 ATGTATAT-CATATACAAATCAATTCGGCAATGTATATCTAAATACAAATCAATTCGGCA
* ** * * ** * * * *
79697442 ATGTATATCCAAAATGTATATCTATATACAAATCAATTCGGCA-ATGTATATCCAAATACGAATC
1 ATGTATAT-C-ATATACAAATC-A-ATTC--GGCAA-T--GTATATCTA-A---ATA--CAAATC
79697506 AATTCGGCA
51 AATTCGGCA
* * * *
79697515 ATGTATATCTATATACAAATCAATTTGGCAATGTATATCCAAATACGAATAAATTCGGCA
1 ATGTATATC-ATATACAAATCAATTCGGCAATGTATATCTAAATACAAATCAATTCGGCA
* * **
79697575 ATGTATATCCAAATACAAATCAATTCGGCAATGTATATCTATATACAAATCAATTTAGCA
1 ATGTATAT-CATATACAAATCAATTCGGCAATGTATATCTAAATACAAATCAATTCGGCA
* * * *
79697635 ATATATATCCAAATACGAACCAATTCGGCAATGTATATCTAAATACAAATCAATTCGGCA
1 ATGTATAT-CATATACAAATCAATTCGGCAATGTATATCTAAATACAAATCAATTCGGCA
* *
79697695 ATGTATATCTATATACAAATCAATTCAGTAATGTATA
1 ATGTATATC-ATATACAAATCAATTCGGCAATGTATA
79697732 AAACATATAC
Statistics
Matches: 271, Mismatches: 60, Indels: 36
0.74 0.16 0.10
Matches are distributed among these distances:
58 7 0.03
59 1 0.00
60 197 0.73
61 7 0.03
62 3 0.01
63 3 0.01
65 6 0.02
66 4 0.01
67 5 0.02
68 5 0.02
70 2 0.01
71 2 0.01
72 8 0.03
73 21 0.08
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (59 bp):
ATGTATATCATATACAAATCAATTCGGCAATGTATATCTAAATACAAATCAATTCGGCA
Found at i:79697448 original size:90 final size:90
Alignment explanation
Indices: 79697324--79697719 Score: 449
Period size: 90 Copynumber: 4.3 Consensus size: 90
79697314 GGCAATATAT
* * *
79697324 ATGTATA-C-ATATACAAATCAATTCGGCGATGTATATCCAAATACGAATAAATTCGATAATGTA
1 ATGTATATCTATATACAAATCAATTAGGCAATGTATATCCAAATACGAATAAATTCGACAATGTA
* *
79697387 TATGCATATACTAATCAATTCGGCA
66 TATGCAAATACAAATCAATTCGGCA
* * * *
79697412 ATGTATATCTATATGCAAATCAATTAGGCAATGTATATCCAAAATGTATATCTATATACAAATCA
1 ATGTATATCTATATACAAATCAATTAGGCAATGTATATCC--AA---ATA-CGA-ATA-AATTCG
* * * *
79697477 ATTCGGCAATGTATATCCAAATACGAATCAATTCGGCA
58 A--C--AAT-GTATATGCAAATACAAATCAATTCGGCA
* *
79697515 ATGTATATCTATATACAAATCAATTTGGCAATGTATATCCAAATACGAATAAATTCGGCAATGTA
1 ATGTATATCTATATACAAATCAATTAGGCAATGTATATCCAAATACGAATAAATTCGACAATGTA
*
79697580 TATCCAAATACAAATCAATTCGGCA
66 TATGCAAATACAAATCAATTCGGCA
* ** *
79697605 ATGTATATCTATATACAAATCAATTTA-GCAATATATATCCAAATACGAACCAATTCGGCAATGT
1 ATGTATATCTATATACAAATCAA-TTAGGCAATGTATATCCAAATACGAATAAATTCGACAATGT
79697669 ATAT-CTAAATACAAATCAATTCGGCA
65 ATATGC-AAATACAAATCAATTCGGCA
79697695 ATGTATATCTATATACAAATCAATT
1 ATGTATATCTATATACAAATCAATT
79697720 CAGTAATGTA
Statistics
Matches: 266, Mismatches: 25, Indels: 33
0.82 0.08 0.10
Matches are distributed among these distances:
88 7 0.03
89 4 0.02
90 158 0.59
91 3 0.01
92 2 0.01
93 1 0.00
95 7 0.03
96 5 0.02
97 5 0.02
98 8 0.03
101 2 0.01
102 1 0.00
103 63 0.24
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (90 bp):
ATGTATATCTATATACAAATCAATTAGGCAATGTATATCCAAATACGAATAAATTCGACAATGTA
TATGCAAATACAAATCAATTCGGCA
Found at i:79697474 original size:43 final size:43
Alignment explanation
Indices: 79697411--79697497 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
79697401 TCAATTCGGC
*
79697411 AATGTATATCTATATGCAAATCAATTAGGCAATGTATATCCAA
1 AATGTATATCTATATACAAATCAATTAGGCAATGTATATCCAA
*
79697454 AATGTATATCTATATACAAATCAATTCGGCAATGTATATCCAA
1 AATGTATATCTATATACAAATCAATTAGGCAATGTATATCCAA
79697497 A
1 A
79697498 TACGAATCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (43 bp):
AATGTATATCTATATACAAATCAATTAGGCAATGTATATCCAA
Found at i:79697490 original size:30 final size:30
Alignment explanation
Indices: 79697454--79697731 Score: 385
Period size: 30 Copynumber: 9.3 Consensus size: 30
79697444 GTATATCCAA
*
79697454 AATGTATATCTATATACAAATCAATTCGGC
1 AATGTATATCTAAATACAAATCAATTCGGC
* *
79697484 AATGTATATCCAAATACGAATCAATTCGGC
1 AATGTATATCTAAATACAAATCAATTCGGC
* *
79697514 AATGTATATCTATATACAAATCAATTTGGC
1 AATGTATATCTAAATACAAATCAATTCGGC
* * *
79697544 AATGTATATCCAAATACGAATAAATTCGGC
1 AATGTATATCTAAATACAAATCAATTCGGC
*
79697574 AATGTATATCCAAATACAAATCAATTCGGC
1 AATGTATATCTAAATACAAATCAATTCGGC
* **
79697604 AATGTATATCTATATACAAATCAATTTAGC
1 AATGTATATCTAAATACAAATCAATTCGGC
* * * *
79697634 AATATATATCCAAATACGAACCAATTCGGC
1 AATGTATATCTAAATACAAATCAATTCGGC
79697664 AATGTATATCTAAATACAAATCAATTCGGC
1 AATGTATATCTAAATACAAATCAATTCGGC
* * *
79697694 AATGTATATCTATATACAAATCAATTCAGT
1 AATGTATATCTAAATACAAATCAATTCGGC
79697724 AATGTATA
1 AATGTATA
79697732 AAACATATAC
Statistics
Matches: 216, Mismatches: 32, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 216 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (30 bp):
AATGTATATCTAAATACAAATCAATTCGGC
Found at i:79697506 original size:73 final size:73
Alignment explanation
Indices: 79697381--79697523 Score: 216
Period size: 73 Copynumber: 2.0 Consensus size: 73
79697371 TAAATTCGAT
* * * *
79697381 AATGTATATGCATATACTAATCAATTCGGCAATGTATATCTATATGCAAATCAATTAGGCAATGT
1 AATGTATATGCATATACAAATCAATTCGGCAATGTATATCCAAATACAAATCAATTAGGCAATGT
79697446 ATATCCAA
66 ATATCCAA
* *
79697454 AATGTATAT-CTATATACAAATCAATTCGGCAATGTATATCCAAATACGAATCAATTCGGCAATG
1 AATGTATATGC-ATATACAAATCAATTCGGCAATGTATATCCAAATACAAATCAATTAGGCAATG
79697518 TATATC
65 TATATC
79697524 TATATACAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 1 0.02
73 62 0.98
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (73 bp):
AATGTATATGCATATACAAATCAATTCGGCAATGTATATCCAAATACAAATCAATTAGGCAATGT
ATATCCAA
Found at i:79698451 original size:16 final size:17
Alignment explanation
Indices: 79698420--79698452 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
79698410 TTTGTTTTGT
79698420 TTATTTAACATTAATTA
1 TTATTTAACATTAATTA
*
79698437 TTATTTTAC-TTAATTA
1 TTATTTAACATTAATTA
79698453 ACCTTTATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATTTAACATTAATTA
Found at i:79704772 original size:90 final size:90
Alignment explanation
Indices: 79704635--79705010 Score: 532
Period size: 90 Copynumber: 4.2 Consensus size: 90
79704625 GGCAATATAT
* * *
79704635 ATGTATA-C-ATATAAAAATCAATTCGGCAATGTATATTCAAATACGAATCAATTTGGCAATGTA
1 ATGTATATCTATATACAAATCAATTCGGCAATGTATATCCAAATACGAATCAATTCGGCAATGTA
* *
79704698 TATCTATATAAAAATCAATTC-GAGA
66 TATCCAAATAAAAATCAATTCGGA-A
*
79704723 ATGTATATCTATATACAAATCAATTTGGCAATGTATATCCAAATACGAATCAATTCGGCAATGTA
1 ATGTATATCTATATACAAATCAATTCGGCAATGTATATCCAAATACGAATCAATTCGGCAATGTA
*
79704788 TATCCAAATAAAAATAAATTC-GACA
66 TATCCAAATAAAAATCAATTCGGA-A
* *
79704813 ATGTATATCTATATACAAATCAATTCGGCAATGTATATCCAAATACGAATCGATTTGAG-AATGT
1 ATGTATATCTATATACAAATCAATTCGGCAATGTATATCCAAATACGAATCAATTCG-GCAATGT
* * *
79704877 ATAGCCAAATACAAATCAATTCGGCA
65 ATATCCAAATAAAAATCAATTCGGAA
* *
79704903 ATGTATATCTATATACAAATCAATTCAGCAATG--TATCCAAATACAAATCAATTCGGCAATGTA
1 ATGTATATCTATATACAAATCAATTCGGCAATGTATATCCAAATACGAATCAATTCGGCAATGTA
* *
79704966 TATCTAAATACAAATCAATTCGGAA
66 TATCCAAATAAAAATCAATTCGGAA
79704991 ATGTATATCTATATACAAAT
1 ATGTATATCTATATACAAAT
79705011 TCCTTTGGTT
Statistics
Matches: 261, Mismatches: 22, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
87 1 0.00
88 74 0.28
89 1 0.00
90 183 0.70
91 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.31
Consensus pattern (90 bp):
ATGTATATCTATATACAAATCAATTCGGCAATGTATATCCAAATACGAATCAATTCGGCAATGTA
TATCCAAATAAAAATCAATTCGGAA
Found at i:79704999 original size:30 final size:30
Alignment explanation
Indices: 79704614--79705010 Score: 453
Period size: 30 Copynumber: 13.2 Consensus size: 30
79704604 ATCCAATGCT
* *
79704614 CAAATCAATTCGGCAATATATATGTATACATATA
1 CAAATCAATTCGGCAATGTATA--TCTA-A-ATA
*
79704648 AAAATCAATTCGGCAATGTATAT-TCAAATA
1 CAAATCAATTCGGCAATGTATATCT-AAATA
* * *
79704678 CGAATCAATTTGGCAATGTATATCTATATA
1 CAAATCAATTCGGCAATGTATATCTAAATA
* *
79704708 AAAATCAATTCGAG-AATGTATATCTATATA
1 CAAATCAATTCG-GCAATGTATATCTAAATA
* *
79704738 CAAATCAATTTGGCAATGTATATCCAAATA
1 CAAATCAATTCGGCAATGTATATCTAAATA
* *
79704768 CGAATCAATTCGGCAATGTATATCCAAATA
1 CAAATCAATTCGGCAATGTATATCTAAATA
* * * *
79704798 AAAATAAATTCGACAATGTATATCTATATA
1 CAAATCAATTCGGCAATGTATATCTAAATA
*
79704828 CAAATCAATTCGGCAATGTATATCCAAATA
1 CAAATCAATTCGGCAATGTATATCTAAATA
* * * * *
79704858 CGAATCGATTTGAG-AATGTATAGCCAAATA
1 CAAATCAATTCG-GCAATGTATATCTAAATA
*
79704888 CAAATCAATTCGGCAATGTATATCTATATA
1 CAAATCAATTCGGCAATGTATATCTAAATA
* *
79704918 CAAATCAATTCAGCAATG--TATCCAAATA
1 CAAATCAATTCGGCAATGTATATCTAAATA
79704946 CAAATCAATTCGGCAATGTATATCTAAATA
1 CAAATCAATTCGGCAATGTATATCTAAATA
* *
79704976 CAAATCAATTCGGAAATGTATATCTATATA
1 CAAATCAATTCGGCAATGTATATCTAAATA
79705006 CAAAT
1 CAAAT
79705011 TCCTTTGGTT
Statistics
Matches: 312, Mismatches: 43, Indels: 20
0.83 0.11 0.05
Matches are distributed among these distances:
28 25 0.08
29 2 0.01
30 258 0.83
31 5 0.02
32 2 0.01
34 20 0.06
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (30 bp):
CAAATCAATTCGGCAATGTATATCTAAATA
Found at i:79705299 original size:26 final size:26
Alignment explanation
Indices: 79705263--79705313 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
79705253 GCTACACTTA
79705263 ATTCATGAGGAGAGACTTCTTCTGAT
1 ATTCATGAGGAGAGACTTCTTCTGAT
79705289 ATTCATGAGGAGAGACTTCTTCTGA
1 ATTCATGAGGAGAGACTTCTTCTGA
79705314 GTCATGCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (26 bp):
ATTCATGAGGAGAGACTTCTTCTGAT
Found at i:79705318 original size:24 final size:25
Alignment explanation
Indices: 79705265--79705319 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
79705255 TACACTTAAT
*
79705265 TCATGAGGAGAGACTTCTTCTGATAT
1 TCATGAGGAGAGACTTCTTCTGA-AG
79705291 TCATGAGGAGAGACTTCTTCTG-AG
1 TCATGAGGAGAGACTTCTTCTGAAG
79705315 TCATG
1 TCATG
79705320 CGTTGGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 6 0.21
26 22 0.79
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (25 bp):
TCATGAGGAGAGACTTCTTCTGAAG
Found at i:79717137 original size:6 final size:6
Alignment explanation
Indices: 79717126--79717193 Score: 136
Period size: 6 Copynumber: 11.3 Consensus size: 6
79717116 TTTTGTGGAG
79717126 TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA
1 TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA TTATCA
79717174 TTATCA TTATCA TTATCA TT
1 TTATCA TTATCA TTATCA TT
79717194 CCCTTTTTTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.51
Consensus pattern (6 bp):
TTATCA
Found at i:79723564 original size:23 final size:23
Alignment explanation
Indices: 79723538--79724162 Score: 261
Period size: 23 Copynumber: 27.2 Consensus size: 23
79723528 TTAATAGAGA
79723538 TGTTAAAGTGCTGCAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAG
* *
79723561 TGTTTAAA-AGCTGTAAATTGAAG
1 TG-TTAAAGTGCTGCAAATTGAAG
* * *
79723584 AGTTAAAGTGTTGAAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAG
* ***
79723607 TATTTAAA-TGCTATGAATTGAAG
1 T-GTTAAAGTGCTGCAAATTGAAG
* *
79723630 TGTTAAAGTGTTGCAAATTGAAT
1 TGTTAAAGTGCTGCAAATTGAAG
* *
79723653 TGTTTAAA-TGTTGTAAATTGAAG
1 TG-TTAAAGTGCTGCAAATTGAAG
* * *
79723676 TGTTTTAAGTACTGCAAATTGAAT
1 TG-TTAAAGTGCTGCAAATTGAAG
* * *
79723700 TGTT-TAGTTGCGGGAAATT-AAG
1 TGTTAAAG-TGCTGCAAATTGAAG
* * * * *
79723722 ATGTGT-TATTGTTG-TAATTGAGG
1 -TGT-TAAAGTGCTGCAAATTGAAG
* ** *
79723745 TGTATAAA-TGTTGTTAATAG-AG
1 TGT-TAAAGTGCTGCAAATTGAAG
79723767 ATGTTAAAGTGCTGCAAATTGAAG
1 -TGTTAAAGTGCTGCAAATTGAAG
*
79723791 TGTTTAAA-TGCTGTAAATTGAAG
1 TG-TTAAAGTGCTGCAAATTGAAG
* *
79723814 AGTTAAAGTGTTGCAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAG
* *** *
79723837 TATTTAAA-TGCTATGAATTGCAG
1 T-GTTAAAGTGCTGCAAATTGAAG
* *
79723860 TGTTAAAGTGTTGCAAATTGAAT
1 TGTTAAAGTGCTGCAAATTGAAG
* *
79723883 TGTTTAAA-TGTTGTAAATTGAAG
1 TG-TTAAAGTGCTGCAAATTGAAG
* * *
79723906 TGTTTTAAGTACTGCAAATTGAAT
1 TG-TTAAAGTGCTGCAAATTGAAG
* * *
79723930 TGTT-TAGTTGCGGGAAATT-AAG
1 TGTTAAAG-TGCTGCAAATTGAAG
* * * * *
79723952 ATGTGT-TATTGTTG-TAATTGAGG
1 -TGT-TAAAGTGCTGCAAATTGAAG
* ** *
79723975 TGTATAAA-TGTTGTTAATAG-AG
1 TGT-TAAAGTGCTGCAAATTGAAG
* * *
79723997 ATGCTAAAGTGCCGCAAATCGAAG
1 -TGTTAAAGTGCTGCAAATTGAAG
*
79724021 TGTTTAAA-TGCTGTAAATTGAAG
1 TG-TTAAAGTGCTGCAAATTGAAG
*
79724044 TGTTAAAGTGTTGC-AATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAG
* * **
79724066 TATTTAAA-TGATGTGAATTGAAG
1 T-GTTAAAGTGCTGCAAATTGAAG
79724089 TGTTAAAGTGCTGCAAATTGAAG
1 TGTTAAAGTGCTGCAAATTGAAG
* *
79724112 CAT-TTAAA-TGTTGTAAATTGAAG
1 --TGTTAAAGTGCTGCAAATTGAAG
* * *
79724135 TGTTTTAAGTACTGCAAATTGAAT
1 TG-TTAAAGTGCTGCAAATTGAAG
79724159 TGTT
1 TGTT
79724163 TAGTTGCTAG
Statistics
Matches: 454, Mismatches: 108, Indels: 80
0.71 0.17 0.12
Matches are distributed among these distances:
21 1 0.00
22 87 0.19
23 277 0.61
24 88 0.19
25 1 0.00
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (23 bp):
TGTTAAAGTGCTGCAAATTGAAG
Found at i:79723589 original size:46 final size:46
Alignment explanation
Indices: 79723458--79724335 Score: 586
Period size: 46 Copynumber: 19.2 Consensus size: 46
79723448 ATTTAAGTAT
* ** * ** *
79723458 TGCAATTTGAAGTGTTTAGTTGCTGGAAATTG-AGATGTTTTATTGC
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGC
* * * * * *
79723504 TG-TAATTGAGGTGTATAAATGTTGTTAATAG-AGATGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGC
* * *
79723549 TGCAAATTGAAGTGTTTAAAAGCTGTAAATTGAAGAGTTAAAGTGT
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
* * * * *
79723595 TGAAAATTGAAGTATTTAAATGCTATGAATTGAAGTGTTAAAGTGT
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
* * * *
79723641 TGCAAATTGAATTGTTTAAATGTTGTAAATTGAAGTGTTTTAAGTAC
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGC
* ** * * * * *
79723688 TGCAAATTGAATTGTTTAGTTGCGGGAAATT-AAGATGTGT-TATTGT
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGT-TAAAGTGC
* * * * * *
79723734 TG-TAATTGAGGTGTATAAATGTTGTTAATAG-AGATGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGC
* *
79723779 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGAGTTAAAGTGT
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
* * * * *
79723825 TGCAAATTGAAGTATTTAAATGCTATGAATTGCAGTGTTAAAGTGT
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
* * * *
79723871 TGCAAATTGAATTGTTTAAATGTTGTAAATTGAAGTGTTTTAAGTAC
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGC
* ** * * * * *
79723918 TGCAAATTGAATTGTTTAGTTGCGGGAAATT-AAGATGTGT-TATTGT
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGT-TAAAGTGC
* * * * * * *
79723964 TG-TAATTGAGGTGTATAAATGTTGTTAATAG-AGATGCTAAAGTGC
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGC
* * *
79724009 CGCAAATCGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGT
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
* * *
79724055 TGC-AATTGAAGTATTTAAATGATGTGAATTGAAGTGTTAAAGTGC
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
** * * *
79724100 TGCAAATTGAAGCATTTAAATGTTGTAAATTGAAGTGTTTTAAGTAC
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGC
* ** * *
79724147 TGCAAATTGAATTGTTTAGTTGCTAG-AAATTG-AGATGTT-TA-TCGT
1 TGCAAATTGAAGTGTTTAAATGCT-GTAAATTGAAG-TGTTAAAGT-GC
* * * * * * *
79724192 TG-TAATTGAGGTGTATAAATGTTGTTAATTG-GGATGTTAAAGTGT
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGTGC
* * * * * *
79724237 TGTAAGTTGAGGTGTTTAAATGTTGTAAATTGAAGTGTTTAATTGC
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
* * * * * * *
79724283 TGTAAATTGAGGTGCTCAAATGTTGTAAATTGAAGTGTTTAAGTTC
1 TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
79724329 TGCAAAT
1 TGCAAAT
79724336 AATATATAAT
Statistics
Matches: 646, Mismatches: 160, Indels: 52
0.75 0.19 0.06
Matches are distributed among these distances:
43 1 0.00
44 28 0.04
45 134 0.21
46 372 0.58
47 110 0.17
48 1 0.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.39
Consensus pattern (46 bp):
TGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
Found at i:79723852 original size:230 final size:230
Alignment explanation
Indices: 79723449--79724271 Score: 1353
Period size: 230 Copynumber: 3.6 Consensus size: 230
79723439 TAAAGCCCTA
* * * * * * *
79723449 TTTAAGTATTGCAATTTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATTGCTGTAATTGAG
1 TTTAAGTACTGCAAATTGAATTGTTTAGTTGCGGGAAATTAAGATGTGTTATTGTTGTAATTGAG
*
79723514 GTGTATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAAAGCTGTAAAT
66 GTGTATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
*
79723579 TGAAGAGTTAAAGTGTTGAAAATTGAAGTATTTAAATGCTATGAATTGAAGTGTTAAAGTGTTGC
131 TGAAGAGTTAAAGTGTTGCAAATTGAAGTATTTAAATGCTATGAATTGAAGTGTTAAAGTGTTGC
79723644 AAATTGAATTGTTTAAATGTTGTAAATTGAAGTGT
196 AAATTGAATTGTTTAAATGTTGTAAATTGAAGTGT
79723679 TTTAAGTACTGCAAATTGAATTGTTTAGTTGCGGGAAATTAAGATGTGTTATTGTTGTAATTGAG
1 TTTAAGTACTGCAAATTGAATTGTTTAGTTGCGGGAAATTAAGATGTGTTATTGTTGTAATTGAG
79723744 GTGTATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
66 GTGTATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
*
79723809 TGAAGAGTTAAAGTGTTGCAAATTGAAGTATTTAAATGCTATGAATTGCAGTGTTAAAGTGTTGC
131 TGAAGAGTTAAAGTGTTGCAAATTGAAGTATTTAAATGCTATGAATTGAAGTGTTAAAGTGTTGC
79723874 AAATTGAATTGTTTAAATGTTGTAAATTGAAGTGT
196 AAATTGAATTGTTTAAATGTTGTAAATTGAAGTGT
79723909 TTTAAGTACTGCAAATTGAATTGTTTAGTTGCGGGAAATTAAGATGTGTTATTGTTGTAATTGAG
1 TTTAAGTACTGCAAATTGAATTGTTTAGTTGCGGGAAATTAAGATGTGTTATTGTTGTAATTGAG
* * *
79723974 GTGTATAAATGTTGTTAATAGAGATGCTAAAGTGCCGCAAATCGAAGTGTTTAAATGCTGTAAAT
66 GTGTATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
* * * *
79724039 TGAAGTGTTAAAGTGTTGC-AATTGAAGTATTTAAATGATGTGAATTGAAGTGTTAAAGTGCTGC
131 TGAAGAGTTAAAGTGTTGCAAATTGAAGTATTTAAATGCTATGAATTGAAGTGTTAAAGTGTTGC
***
79724103 AAATTGAAGCATTTAAATGTTGTAAATTGAAGTGT
196 AAATTGAATTGTTTAAATGTTGTAAATTGAAGTGT
** * *
79724138 TTTAAGTACTGCAAATTGAATTGTTTAGTTGCTAGAAATTGAGATGT-TTATCGTTGTAATTGAG
1 TTTAAGTACTGCAAATTGAATTGTTTAGTTGCGGGAAATTAAGATGTGTTATTGTTGTAATTGAG
* * * * * * *
79724202 GTGTATAAATGTTGTTAATTGGGATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGTTGTAAAT
66 GTGTATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
79724267 TGAAG
131 TGAAG
79724272 TGTTTAATTG
Statistics
Matches: 558, Mismatches: 35, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
228 76 0.14
229 117 0.21
230 365 0.65
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (230 bp):
TTTAAGTACTGCAAATTGAATTGTTTAGTTGCGGGAAATTAAGATGTGTTATTGTTGTAATTGAG
GTGTATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAAT
TGAAGAGTTAAAGTGTTGCAAATTGAAGTATTTAAATGCTATGAATTGAAGTGTTAAAGTGTTGC
AAATTGAATTGTTTAAATGTTGTAAATTGAAGTGT
Found at i:79724222 original size:23 final size:22
Alignment explanation
Indices: 79724173--79724321 Score: 133
Period size: 23 Copynumber: 6.6 Consensus size: 22
79724163 TAGTTGCTAG
* *
79724173 AAATTGAGATGTT-TATCGTTGT
1 AAATTGAGGTGTTAAAT-GTTGT
79724195 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAGGTGT-TAAATGTTGT
*
79724217 TAATTG-GGATGTTAAAGTGTTGT
1 AAATTGAGG-TGTTAAA-TGTTGT
*
79724240 AAGTTGAGGTGTTTAAATGTTGT
1 AAATTGAGGTG-TTAAATGTTGT
* * *
79724263 AAATTGAAGTGTTTAATTGCTGT
1 AAATTGAGGTG-TTAAATGTTGT
*
79724286 AAATTGAGGTGCTCAAATGTTGT
1 AAATTGAGGTG-TTAAATGTTGT
*
79724309 AAATTGAAGTGTT
1 AAATTGAGGTGTT
79724322 TAAGTTCTGC
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
21 10 0.10
22 13 0.12
23 75 0.71
24 7 0.07
ACGTcount: A:0.30, C:0.03, G:0.26, T:0.42
Consensus pattern (22 bp):
AAATTGAGGTGTTAAATGTTGT
Done.