Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 40 of 185
Found at i:11262315 original size:3 final size:3
Alignment explanation
Indices: 11262307--11262336 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
11262297 AATTACTATC
11262307 ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11262337 GGGTAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11264187 original size:50 final size:50
Alignment explanation
Indices: 11264122--11264219 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
11264112 AGCTTCACTA
* *
11264122 CAACTTCAGAAAGATAAGATTCATCATCATAGTTTCATTCCAACCCACAG
1 CAACTTCAGAAAGATAAGATTCACCATCATAGTTGCATTCCAACCCACAG
** *
11264172 CAACTTCAGGGAGATAAGATTCACCATCGTAGTTGCATTCCAACCCAC
1 CAACTTCAGAAAGATAAGATTCACCATCATAGTTGCATTCCAACCCAC
11264220 TGAAATTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (50 bp):
CAACTTCAGAAAGATAAGATTCACCATCATAGTTGCATTCCAACCCACAG
Found at i:11264230 original size:50 final size:50
Alignment explanation
Indices: 11264123--11264232 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 50
11264113 GCTTCACTAC
** * * *
11264123 AACTTCAGAAAGATAAGATTCATCATCATAGTTTCATTCCAACCCACAGC
1 AACTTCAGGGAGATAAGATTCACCATCATAGTTGCATTCCAACCCACAGA
* *
11264173 AACTTCAGGGAGATAAGATTCACCATCGTAGTTGCATTCCAACCCACTGA
1 AACTTCAGGGAGATAAGATTCACCATCATAGTTGCATTCCAACCCACAGA
*
11264223 AATTTCAGGG
1 AACTTCAGGG
11264233 GTATAGGATT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (50 bp):
AACTTCAGGGAGATAAGATTCACCATCATAGTTGCATTCCAACCCACAGA
Found at i:11264388 original size:94 final size:94
Alignment explanation
Indices: 11264212--11264432 Score: 227
Period size: 94 Copynumber: 2.4 Consensus size: 94
11264202 AGTTGCATTC
* * *
11264212 CAACCCACTGAAATTTCAGGGGTATAGGATTTATAGCTTCAAACTGCTCCACCATAACTTTAGGG
1 CAACCCACTGAAATTTCAGGGGTATAGGATTTATAGCTTCAAACTGCTCCACCACAACTTCAAGG
11264277 AGATAAGAATTATTATGGTAGA-TTCAATG
66 AGATAAGAATTATTATGGT-GACTTCAATG
* * * * * * **
11264306 CAACCTACTGCAATTTTAGGGGTATAGGATTTGTAGCTTCAACCTGCTCTACTGCAACTTCAAGG
1 CAACCCACTGAAATTTCAGGGGTATAGGATTTATAGCTTCAAACTGCTCCACCACAACTTCAAGG
**
11264371 AGATAA-AATT-TGCTATGGTGACTTCAACC
66 AGATAAGAATTAT--TATGGTGACTTCAATG
* * *
11264400 CAATCCACTGTAACTTT-A-GGGTATATGATTTAT
1 CAACCCACTG-AAATTTCAGGGGTATAGGATTTAT
11264433 GATTTCACTG
Statistics
Matches: 104, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
92 1 0.01
93 19 0.18
94 80 0.77
95 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (94 bp):
CAACCCACTGAAATTTCAGGGGTATAGGATTTATAGCTTCAAACTGCTCCACCACAACTTCAAGG
AGATAAGAATTATTATGGTGACTTCAATG
Found at i:11275768 original size:20 final size:20
Alignment explanation
Indices: 11275727--11275770 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11275717 AAATGATAGG
* *
11275727 TAAATAAATAAATGAACCAA
1 TAAATAAATAAAAGAACAAA
11275747 TAAATAAATAAAAGATA-AAA
1 TAAATAAATAAAAGA-ACAAA
11275767 TAAA
1 TAAA
11275771 AATGCTATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (20 bp):
TAAATAAATAAAAGAACAAA
Found at i:11278187 original size:42 final size:42
Alignment explanation
Indices: 11278128--11278296 Score: 203
Period size: 42 Copynumber: 4.0 Consensus size: 42
11278118 GTTTCCATTC
* *
11278128 AACCCTAATGGGTTTCCGTTCAGCTCTTTTGAGCTTCAGTTT
1 AACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCAGTTT
* *
11278170 AACCCTTATGGGGTTCCGTTCAGCTCTTTTGAGCTTCAGTTT
1 AACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCAGTTT
* * * ** ** *
11278212 AACCCTTTTGGGTTTCTGTTTAGCTCTTACAAGCTTTTGTTC
1 AACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCAGTTT
* * *
11278254 AACCCTTATGGGTTTCCGTTTAGCTCTCATGAGCTTCTGTTT
1 AACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCAGTTT
11278296 A
1 A
11278297 GCCTTCGGGC
Statistics
Matches: 108, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 108 1.00
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (42 bp):
AACCCTTATGGGTTTCCGTTCAGCTCTTATGAGCTTCAGTTT
Found at i:11278221 original size:21 final size:21
Alignment explanation
Indices: 11278153--11278221 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
11278143 CCGTTCAGCT
11278153 CTTTTGAGCTTCAGTTTAACC
1 CTTTTGAGCTTCAGTTTAACC
* * * * * * *
11278174 CTTATGGGGTTCCGTTCAGCT
1 CTTTTGAGCTTCAGTTTAACC
11278195 CTTTTGAGCTTCAGTTTAACC
1 CTTTTGAGCTTCAGTTTAACC
11278216 CTTTTG
1 CTTTTG
11278222 GGTTTCTGTT
Statistics
Matches: 34, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.43
Consensus pattern (21 bp):
CTTTTGAGCTTCAGTTTAACC
Found at i:11278232 original size:21 final size:21
Alignment explanation
Indices: 11278153--11278233 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 21
11278143 CCGTTCAGCT
*
11278153 CTTTTGAGCTTCAGTTTAACC
1 CTTTTGGGCTTCAGTTTAACC
* * * * * *
11278174 CTTATGGGGTTCCGTTCAGCT
1 CTTTTGGGCTTCAGTTTAACC
*
11278195 CTTTTGAGCTTCAGTTTAACC
1 CTTTTGGGCTTCAGTTTAACC
* *
11278216 CTTTTGGGTTTCTGTTTA
1 CTTTTGGGCTTCAGTTTA
11278234 GCTCTTACAA
Statistics
Matches: 43, Mismatches: 17, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.46
Consensus pattern (21 bp):
CTTTTGGGCTTCAGTTTAACC
Found at i:11287472 original size:158 final size:154
Alignment explanation
Indices: 11287043--11287497 Score: 453
Period size: 158 Copynumber: 2.9 Consensus size: 154
11287033 GCAAGTTGAA
* * *
11287043 AAAAAAGTTAGCAAAAAACTCTTACTTCGGCCCTTTCTTCGTATTTTTTTCTCCGTATTTTATTA
1 AAAAAATTTAGTAAAAAACTCTTACTTCGGCCCTTTC-TCGTATTTTTTTCTCCGAATTTTATTA
* *
11287108 CTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTG-AA
65 TTTTAAAAAATATTATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAA
* *
11287172 -ATTTATTAATTTAGTGTGTTTTTT
130 TATTTATTAATTTAGTCTGATTTTT
* ** * * **
11287196 AAATTAATTTAGTGTAAAAAAAACATTA-TTCCTGCCCTTTACTCGTATTATTTTC-CTAAATTT
1 AAA-AAATTTA--GTAAAAAACTC-TTACTT-CGGCCCTTT-CTCGTATTTTTTTCTCCGAATTT
* * * *
11287259 TATTACTTTCAATAAAAATATATTAT--TTTCGT-ATTTTATTATTTTATATTGTTTCAGTACAT
60 TATTA-TTT---TAAAAA-ATATTATAATTTC-TAATTTTATAATTTTACATTATTTCAGTGCAT
* *
11287321 TTTGTTTGAAATATTTGTATTAA-TTATTTCTGAATTTTT
119 TATGTTTGAAATA-TT-TATTAATTTA-GTCTG-ATTTTT
* * * * *
11287360 AAAAAATTTAGTAAAACACTCTTACTTCGGTCATTTGTACGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAATTTAGTAAAAAACTCTTACTTCGGCCCTTTCT-CGTATTTTTTTCTCCGAATTTTATTA
11287425 TTTTAAAAAATATTATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTG-AA
65 TTTTAAAAAATATTATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAA
11287489 -ATTTATTAA
130 TATTTATTAA
11287498 ATATACCATT
Statistics
Matches: 241, Mismatches: 37, Indels: 47
0.74 0.11 0.14
Matches are distributed among these distances:
153 3 0.01
154 11 0.05
155 2 0.01
156 28 0.12
157 34 0.14
158 38 0.16
159 38 0.16
160 32 0.13
161 27 0.11
162 5 0.02
163 15 0.06
164 8 0.03
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (154 bp):
AAAAAATTTAGTAAAAAACTCTTACTTCGGCCCTTTCTCGTATTTTTTTCTCCGAATTTTATTAT
TTTAAAAAATATTATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAAT
ATTTATTAATTTAGTCTGATTTTT
Found at i:11287836 original size:4 final size:4
Alignment explanation
Indices: 11287827--11288005 Score: 53
Period size: 4 Copynumber: 44.5 Consensus size: 4
11287817 AAAAATTACT
* * *
11287827 TTTC TTTC TTTC TTT- TTCC TTCC TTCCC TATTC TTGTTC TTTC TTT-
1 TTTC TTTC TTTC TTTC TTTC TTTC TT-TC T-TTC -T-TTC TTTC TTTC
* * *
11287873 TTT- TTTC TCTTC -TCC ATTCC TTTTC TTTC CTTC -TT- TTTC TTT- TTT-
1 TTTC TTTC T-TTC TTTC -TTTC TT-TC TTTC TTTC TTTC TTTC TTTC TTTC
*
11287918 TTT- TTTC -TTC TTCTCC TTTCC TTTTC TTTC CTTC -TT- TTTC TTTC
1 TTTC TTTC TTTC TT-T-C TTT-C -TTTC TTTC TTTC TTTC TTTC TTTC
*
11287962 TTTCC TCTCC TTTCC TTTTC TTTC -TT- TTTC TTTC TTTC TTTC TT
1 TTT-C T-TTC TTT-C -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
11288006 CTTCTTTTCC
Statistics
Matches: 142, Mismatches: 9, Indels: 48
0.71 0.05 0.24
Matches are distributed among these distances:
3 34 0.24
4 68 0.48
5 25 0.18
6 15 0.11
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:11287899 original size:32 final size:35
Alignment explanation
Indices: 11287825--11287912 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 35
11287815 TAAAAAATTA
11287825 CTTTTCTTTCTTTCTTTTTC-CTTCCTTCCCTATT
1 CTTTTCTTTCTTTCTTTTTCTCTTCCTTCCCTATT
*
11287859 CTTGTTCTTTCTTTTTTTTTCTCTT-C-T-CC-ATT
1 CTT-TTCTTTCTTTCTTTTTCTCTTCCTTCCCTATT
*
11287891 CCTTTTCTTTCCTTCTTTTTCT
1 -CTTTTCTTTCTTTCTTTTTCT
11287913 TTTTTTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
32 19 0.40
33 5 0.10
34 4 0.08
35 17 0.35
36 3 0.06
ACGTcount: A:0.02, C:0.30, G:0.01, T:0.67
Consensus pattern (35 bp):
CTTTTCTTTCTTTCTTTTTCTCTTCCTTCCCTATT
Found at i:11287904 original size:10 final size:10
Alignment explanation
Indices: 11287831--11288012 Score: 84
Period size: 10 Copynumber: 18.7 Consensus size: 10
11287821 ATTACTTTTC
*
11287831 TTTCTTTCTT
1 TTTCTTTCCT
*
11287841 TTTCCTTCCT
1 TTTCTTTCCT
**
11287851 TCCCTATT-CT
1 TTTCT-TTCCT
*
11287861 TGTTCTTTCTT
1 T-TTCTTTCCT
*
11287872 TTTTTTTCTCT
1 TTTCTTTC-CT
* *
11287883 TCTCCATTCCT
1 T-TTCTTTCCT
11287894 TTTCTTTCCT
1 TTTCTTTCCT
11287904 TCTT-TTT-CT
1 T-TTCTTTCCT
*
11287913 TTT-TTT-TT
1 TTTCTTTCCT
11287921 TTTC-TT-CT
1 TTTCTTTCCT
*
11287929 TCTCCTTTCCT
1 T-TTCTTTCCT
11287940 TTTCTTTCCT
1 TTTCTTTCCT
11287950 TCTT-TTT-C-
1 T-TTCTTTCCT
11287958 TTTCTTTCCT
1 TTTCTTTCCT
* *
11287968 CTCCTTTCCT
1 TTTCTTTCCT
*
11287978 TTTCTTTCTT
1 TTTCTTTCCT
11287988 TTTCTTT-C-
1 TTTCTTTCCT
11287996 TTTCTTT-CT
1 TTTCTTTCCT
11288005 TCTTCTTT
1 T-TTCTTT
11288013 TCCTCTCCTT
Statistics
Matches: 131, Mismatches: 25, Indels: 32
0.70 0.13 0.17
Matches are distributed among these distances:
7 2 0.02
8 25 0.19
9 8 0.06
10 74 0.56
11 18 0.14
12 4 0.03
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.70
Consensus pattern (10 bp):
TTTCTTTCCT
Found at i:11287912 original size:14 final size:14
Alignment explanation
Indices: 11287893--11288024 Score: 72
Period size: 14 Copynumber: 9.0 Consensus size: 14
11287883 TCTCCATTCC
11287893 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
** *
11287907 TTTTCTTTTTTTTTT
1 TTTTC-TTTCCTTCT
*
11287922 TTCTTCTTCTCCTTTCC
1 TT-TTCTT-TCC-TTCT
11287939 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
* *
11287953 TTTTCTTTCTTTCC
1 TTTTCTTTCCTTCT
* *
11287967 TCTCCTTTCCTT-T
1 TTTTCTTTCCTTCT
11287980 TCTTTCTTT--TTCTT
1 T-TTTCTTTCCTTC-T
11287994 TCTTTCTTTCTTCTTCT
1 T-TTTCTTTC--CTTCT
* *
11288011 TTTCCTCTCCTTCT
1 TTTTCTTTCCTTCT
11288025 CTTCTCCCCA
Statistics
Matches: 89, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
12 2 0.02
13 1 0.01
14 49 0.55
15 13 0.15
16 15 0.17
17 6 0.07
18 3 0.03
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:11287912 original size:27 final size:26
Alignment explanation
Indices: 11287882--11288007 Score: 78
Period size: 24 Copynumber: 5.2 Consensus size: 26
11287872 TTTTTTTCTC
11287882 TTCTCCATTCCTTTTCTTTCCTTCTTT
1 TTCTCC-TTCCTTTTCTTTCCTTCTTT
*
11287909 TTCT--TT--TTTT-TTT--TTCTTC
1 TTCTCCTTCCTTTTCTTTCCTTCTTT
11287928 TTCTCCTTTCCTTTTCTTTCCTTCTTT
1 TTCTCC-TTCCTTTTCTTTCCTTCTTT
* * *
11287955 TTCT--TT-CTTTCCTCTCCTTTCCTT
1 TTCTCCTTCCTTTTCTTTCC-TTCTTT
* *
11287979 TTCT--TTCTTTTTCTTTCTTTCTTT
1 TTCTCCTTCCTTTTCTTTCCTTCTTT
11288003 CTTCT
1 -TTCT
11288008 TCTTTTCCTC
Statistics
Matches: 78, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
19 9 0.12
21 3 0.04
22 6 0.08
23 9 0.12
24 24 0.31
25 14 0.18
27 13 0.17
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (26 bp):
TTCTCCTTCCTTTTCTTTCCTTCTTT
Found at i:11287913 original size:46 final size:47
Alignment explanation
Indices: 11287857--11287964 Score: 184
Period size: 46 Copynumber: 2.3 Consensus size: 47
11287847 TCCTTCCCTA
*
11287857 TTCTTGTTCTTTCTTTTTTTTTC-TCTTCTCCATTCCTTTTCTTTCC
1 TTCTTTTTCTTTCTTTTTTTTTCTTCTTCTCCATTCCTTTTCTTTCC
*
11287903 TTCTTTTTCTTT-TTTTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCC
1 TTCTTTTTCTTTCTTTTTTTTTCTTCTTCTCCATTCCTTTTCTTTCC
11287949 TTCTTTTTCTTTCTTT
1 TTCTTTTTCTTTCTTT
11287965 CCTCTCCTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
45 10 0.17
46 45 0.78
47 3 0.05
ACGTcount: A:0.01, C:0.26, G:0.01, T:0.72
Consensus pattern (47 bp):
TTCTTTTTCTTTCTTTTTTTTTCTTCTTCTCCATTCCTTTTCTTTCC
Found at i:11287916 original size:38 final size:38
Alignment explanation
Indices: 11287897--11288012 Score: 141
Period size: 38 Copynumber: 3.1 Consensus size: 38
11287887 CATTCCTTTT
* *
11287897 CTTTCCTTCTT-TTT-CTTTTTTTTTTTTC-TTCTTCTC
1 CTTTCCTT-TTCTTTCCTTCTTTTTCTTTCTTTCTTCTC
*
11287933 CTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTC
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCTTCTC
* *
11287971 CTTTCCTTTTCTTT-CTTTTTCTTTCTTTCTTTCTTCTT
1 CTTTCCTTTTCTTTCCTTCTT-TTTCTTTCTTTCTTCTC
11288009 CTTT
1 CTTT
11288013 TCCTCTCCTT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
35 2 0.03
36 11 0.16
37 17 0.24
38 40 0.57
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (38 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCTTCTC
Found at i:11287978 original size:28 final size:28
Alignment explanation
Indices: 11287894--11287954 Score: 54
Period size: 27 Copynumber: 2.2 Consensus size: 28
11287884 CTCCATTCCT
* * * *
11287894 TTTCTTTCCT-TCTTTTTCTTTTTTTTT
1 TTTCTTTCCTCTCCTTTCCTTTTCTTTC
*
11287921 TTTCTT-CTTCTCCTTTCCTTTTCTTTC
1 TTTCTTTCCTCTCCTTTCCTTTTCTTTC
*
11287948 CTTCTTT
1 TTTCTTT
11287955 TTCTTTCTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTCTTTCCTCTCCTTTCCTTTTCTTTC
Found at i:11299007 original size:2 final size:2
Alignment explanation
Indices: 11298994--11299040 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
11298984 TGGAAGAACA
*
11298994 AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11299036 AG AG A
1 AG AG A
11299041 TTCTCTGCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11303818 original size:31 final size:31
Alignment explanation
Indices: 11303774--11303836 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
11303764 TTTTTTAAAA
** *
11303774 AAAATTATTGTAATATCA-ATTATAATATTTT
1 AAAATTAAAGTAATATAATATTATAA-ATTTT
11303805 AAAATTAAAGTAATATAATATTATAAATTTT
1 AAAATTAAAGTAATATAATATTATAAATTTT
11303836 A
1 A
11303837 TGTAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (31 bp):
AAAATTAAAGTAATATAATATTATAAATTTT
Found at i:11312121 original size:9 final size:9
Alignment explanation
Indices: 11312084--11312197 Score: 51
Period size: 9 Copynumber: 12.7 Consensus size: 9
11312074 TGTTAAATAT
11312084 TTAAAA-TA
1 TTAAAATTA
*
11312092 TTAGAATTGA
1 TTAAAATT-A
*
11312102 TATAAACTTA
1 T-TAAAATTA
11312112 TTAAAATTA
1 TTAAAATTA
11312121 -TAAATATT-
1 TTAAA-ATTA
11312129 TATAAATATTA
1 T-TAAA-ATTA
11312140 -TAAAA-TA
1 TTAAAATTA
* *
11312147 TAAAAATTG
1 TTAAAATTA
*
11312156 TAATAAATTA
1 TTA-AAATTA
* *
11312166 TCAAATTTA
1 TTAAAATTA
*
11312175 TCAAAATTA
1 TTAAAATTA
11312184 -TAAAATTA
1 TTAAAATTA
*
11312192 ATAAAA
1 TTAAAA
11312198 CTGATTTTAT
Statistics
Matches: 84, Mismatches: 11, Indels: 21
0.72 0.09 0.18
Matches are distributed among these distances:
7 2 0.02
8 21 0.25
9 37 0.44
10 19 0.23
11 5 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (9 bp):
TTAAAATTA
Found at i:11312133 original size:10 final size:9
Alignment explanation
Indices: 11312113--11312196 Score: 54
Period size: 9 Copynumber: 9.4 Consensus size: 9
11312103 ATAAACTTAT
11312113 TAAA-ATTA
1 TAAATATTA
11312121 TAAATATTTA
1 TAAATA-TTA
11312131 TAAATATTA
1 TAAATATTA
11312140 TAAA-A-TA
1 TAAATATTA
* *
11312147 TAAAAATTG
1 TAAATATTA
*
11312156 TAATAAATTA
1 TAA-ATATTA
11312166 TCAAAT-TTA
1 T-AAATATTA
11312175 TCAAA-ATTA
1 T-AAATATTA
11312184 TAAA-ATTAA
1 TAAATATT-A
11312193 TAAA
1 TAAA
11312197 ACTGATTTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
7 6 0.09
8 12 0.18
9 29 0.45
10 16 0.25
11 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (9 bp):
TAAATATTA
Found at i:11312715 original size:9 final size:9
Alignment explanation
Indices: 11312703--11312937 Score: 105
Period size: 9 Copynumber: 24.6 Consensus size: 9
11312693 GTTTTATGGT
11312703 TTTTTATAA
1 TTTTTATAA
*
11312712 TTTTTACAA
1 TTTTTATAA
*
11312721 TTTATATCAA
1 TTTTTAT-AA
*
11312731 -TTTTAAAA
1 TTTTTATAA
* *
11312739 CTTTTAATAT
1 -TTTTTATAA
*
11312749 TTTTTATAT
1 TTTTTATAA
11312758 TTTTTATAA
1 TTTTTATAA
* *
11312767 TATTTATTA
1 TTTTTATAA
11312776 TTTTTATAGAA
1 TTTTTAT--AA
* *
11312787 TTTTAATAGG
1 TTTTTATA-A
11312797 TTTTTATAA
1 TTTTTATAA
*** *
11312806 AAATTAAAA
1 TTTTTATAA
* *
11312815 TATTTAAAATA
1 T-TTTTATA-A
*
11312826 TATTTTATTA
1 T-TTTTATAA
*
11312836 CTTTTATAA
1 TTTTTATAA
*
11312845 TTTTTTTATAT
1 --TTTTTATAA
*
11312856 TTTTTATCA
1 TTTTTATAA
11312865 TTTTTATAA
1 TTTTTATAA
11312874 TTTTTTTATAA
1 --TTTTTATAA
11312885 TTTTTATAA
1 TTTTTATAA
* *
11312894 GTTTATATCCA
1 -TTTTTAT-AA
*
11312905 TTTTCATAA
1 TTTTTATAA
11312914 TTTTTAT-A
1 TTTTTATAA
11312922 TTTTTGATAAA
1 TTTTT-AT-AA
11312933 TTTTT
1 TTTTT
11312938 TTCTGATTTT
Statistics
Matches: 167, Mismatches: 42, Indels: 32
0.69 0.17 0.13
Matches are distributed among these distances:
8 8 0.05
9 92 0.55
10 30 0.18
11 37 0.22
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:11312853 original size:11 final size:11
Alignment explanation
Indices: 11312837--11312889 Score: 69
Period size: 11 Copynumber: 5.2 Consensus size: 11
11312827 ATTTTATTAC
11312837 TTTTATAATTT
1 TTTTATAATTT
11312848 TTTTAT-A-TT
1 TTTTATAATTT
*
11312857 TTTTATCA--T
1 TTTTATAATTT
11312866 TTTTATAATTT
1 TTTTATAATTT
11312877 TTTTATAATTT
1 TTTTATAATTT
11312888 TT
1 TT
11312890 ATAAGTTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
9 16 0.42
10 2 0.05
11 20 0.53
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:11312853 original size:20 final size:20
Alignment explanation
Indices: 11312828--11312889 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
11312818 TTAAAATATA
*
11312828 TTTTATTACTTTTATAATTT
1 TTTTATTATTTTTATAATTT
*
11312848 TTTTA-TATTTTTTATCATTT
1 TTTTATTA-TTTTTATAATTT
*
11312868 TTATAATT-TTTTTATAATTT
1 TT-TTATTATTTTTATAATTT
11312888 TT
1 TT
11312890 ATAAGTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 2 0.06
20 30 0.86
21 2 0.06
22 1 0.03
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATTATTTTTATAATTT
Found at i:11312860 original size:29 final size:29
Alignment explanation
Indices: 11312823--11312891 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
11312813 AATATTTAAA
* *
11312823 ATATATTTTATTACTTTTATAATTTTTTT
1 ATATTTTTTATCACTTTTATAATTTTTTT
*
11312852 ATATTTTTTATCATTTTTATAATTTTTTT
1 ATATTTTTTATCACTTTTATAATTTTTTT
*
11312881 ATAATTTTTAT
1 ATATTTTTTAT
11312892 AAGTTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (29 bp):
ATATTTTTTATCACTTTTATAATTTTTTT
Found at i:11312890 original size:20 final size:20
Alignment explanation
Indices: 11312837--11312949 Score: 83
Period size: 20 Copynumber: 5.7 Consensus size: 20
11312827 ATTTTATTAC
*
11312837 TTTTATAATTTTT-TTATATT
1 TTTTATAATTTTTATAAT-TT
*
11312857 TTTTATCATTTTTATAATTT
1 TTTTATAATTTTTATAATTT
*
11312877 TTTTATAATTTTTATAA-GT
1 TTTTATAATTTTTATAATTT
* * *
11312896 TTATATCCATTTTCATAA--T
1 TTTTAT-AATTTTTATAATTT
11312915 TTTTAT-ATTTTTGATAAATTT
1 TTTTATAATTTTT-AT-AATTT
* *
11312936 TTTTCTGATTTTTA
1 TTTTATAATTTTTA
11312950 ATCATTTTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
17 5 0.07
18 2 0.03
19 14 0.18
20 39 0.51
21 10 0.13
22 6 0.08
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTATAATTTTTATAATTT
Found at i:11313728 original size:9 final size:9
Alignment explanation
Indices: 11313711--11313747 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11313701 TGAGTTTTCA
11313711 AATTCGAAT
1 AATTCGAAT
*
11313720 AACTCGAAT
1 AATTCGAAT
11313729 AATTCGAAT
1 AATTCGAAT
11313738 AATTCGAAT
1 AATTCGAAT
11313747 A
1 A
11313748 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11314287 original size:9 final size:9
Alignment explanation
Indices: 11314273--11314301 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
11314263 AATTTTACAT
11314273 TTTATATTA
1 TTTATATTA
11314282 TTTATATTA
1 TTTATATTA
11314291 TTTATATTA
1 TTTATATTA
11314300 TT
1 TT
11314302 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:11314945 original size:20 final size:20
Alignment explanation
Indices: 11314920--11314959 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11314910 CATGACGGAA
11314920 GCAGC-AACAGAAACAGAAAC
1 GCAGCAAACAGAAACA-AAAC
*
11314940 GCAGCAAACAGTAACAAAAC
1 GCAGCAAACAGAAACAAAAC
11314960 AACAATAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.25, G:0.17, T:0.03
Consensus pattern (20 bp):
GCAGCAAACAGAAACAAAAC
Found at i:11318420 original size:19 final size:20
Alignment explanation
Indices: 11318380--11318423 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
11318370 GTCTCTTTAG
* *
11318380 GCATT-CATTTCATGCATCT
1 GCATTACATTGCATGCATAT
11318399 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
11318418 GCATTA
1 GCATTA
11318424 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:11321894 original size:16 final size:18
Alignment explanation
Indices: 11321860--11321898 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
11321850 TTGATTCAAA
11321860 AAAAAAAAGAAGAAGATG
1 AAAAAAAAGAAGAAGATG
*
11321878 AAAAAAATGAA-AA-ATG
1 AAAAAAAAGAAGAAGATG
11321894 AAAAA
1 AAAAA
11321899 GTAAAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (18 bp):
AAAAAAAAGAAGAAGATG
Found at i:11323288 original size:83 final size:82
Alignment explanation
Indices: 11323182--11323459 Score: 269
Period size: 83 Copynumber: 3.3 Consensus size: 82
11323172 TTAAAGATTC
11323182 GGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGATT
1 GGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAA-GATAGTAATCCTATCTCCTTGAGATT
11323247 ACAATGGAGCGGATTAAA
65 ACAATGGAGCGGATTAAA
* ** * * * * *
11323265 GGATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC-ACATCAG--GTCTTATCTCCCTGAGAT
1 GGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCAAGAT-AGTAATCCTATCTCCTTGAGAT
* * * * **
11323326 TATAGTGGAACAGACCAAA
64 TACAATGGAGCGGATTAAA
*
11323345 GAATTTCAGATCTTATCTCCCTGAGATTACATCGGAGCAGATCAAAGATAGTAATCCTATCTCCT
1 G-------GATCTTATCTCCCTGAGATTACAGCGGAGCAGATC-AAGATAGTAATCCTATCTCCT
11323410 TGAGATTACAATGGAGCGGATTAAA
58 TGAGATTACAATGGAGCGGATTAAA
*
11323435 GGATCTTATCTCTCTGA-AGTTACAG
1 GGATCTTATCTCCCTGAGA-TTACAG
11323460 TAGAGAAGAT
Statistics
Matches: 149, Mismatches: 31, Indels: 30
0.71 0.15 0.14
Matches are distributed among these distances:
80 29 0.19
81 2 0.01
82 5 0.03
83 50 0.34
87 28 0.19
88 3 0.02
89 3 0.02
90 29 0.19
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (82 bp):
GGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGATAGTAATCCTATCTCCTTGAGATTA
CAATGGAGCGGATTAAA
Found at i:11323391 original size:46 final size:43
Alignment explanation
Indices: 11323157--11323677 Score: 294
Period size: 44 Copynumber: 12.1 Consensus size: 43
11323147 CCTTCATTGG
* * * *
11323157 TTACAGTGGAGCTGGTTAAAGATTCGGATCTTATCTCCCTGAGA
1 TTACAGTGGAGCAGATCAAAGA-TCAGATCTTATCTCCCTGAGA
* * * *
11323201 TTACAGCGGAGCAGATCAAGGAT-AGTAATCCTATCTCCTTGAGA
1 TTACAGTGGAGCAGATCAAAGATCAG--ATCTTATCTCCCTGAGA
* * * *
11323245 TTACAATGGAGCGGATTAAAG----GATCTTATCTCTCTGA-A
1 TTACAGTGGAGCAGATCAAAGATCAGATCTTATCTCCCTGAGA
* * * *
11323283 GTTACAGTAGAGAAGATC--ACATCAGGTCTTATCTCCCTGAGA
1 -TTACAGTGGAGCAGATCAAAGATCAGATCTTATCTCCCTGAGA
* * *
11323325 TTATAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGA
1 TTACAGTGGAGCAGATCAAAG-A--TCAGATCTTATCTCCCTGAGA
* *
11323371 TTACA-TCGGAGCAGATCAAAGAT-AGTAATCCTATCTCCTTGAGA
1 TTACAGT-GGAGCAGATCAAAGATCAG--ATCTTATCTCCCTGAGA
* * * *
11323415 TTACAATGGAGCGGATTAAAG----GATCTTATCTCTCTGA-A
1 TTACAGTGGAGCAGATCAAAGATCAGATCTTATCTCCCTGAGA
* * * *
11323453 GTTACAGTAGAGAAGATC--ACATCAGGTCTTATCTCCCTGAGA
1 -TTACAGTGGAGCAGATCAAAGATCAGATCTTATCTCCCTGAGA
** * * *
11323495 TTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGG
1 TTACAGTGGAGCAGATCAAAG-A--TCAGATCTTATCTCCCTGAGA
** *
11323541 TTACAGTGGAGCAGATTGAAGCCA-GAGATCTTATCTCCCTGAGA
1 TTACAGTGGAGCAGATCAAAG--ATCAGATCTTATCTCCCTGAGA
* * *
11323585 TTACAGCGGAGCAGATCGAAA-A-CACTATCCTATCTCCCTGA-A
1 TTACAGTGGAGCAGATC-AAAGATCA-GATCTTATCTCCCTGAGA
* * * * *
11323627 GTTACAGTGGAGCGGATTAAA-ATAAAGGATCTTATCTCTCTGAGG
1 -TTACAGTGGAGCAGATCAAAGAT-CA-GATCTTATCTCCCTGAGA
11323672 TTACAG
1 TTACAG
11323678 CAGAGTAGAT
Statistics
Matches: 361, Mismatches: 81, Indels: 70
0.71 0.16 0.14
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 48 0.13
41 55 0.15
42 12 0.03
43 32 0.09
44 134 0.37
45 5 0.01
46 70 0.19
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (43 bp):
TTACAGTGGAGCAGATCAAAGATCAGATCTTATCTCCCTGAGA
Found at i:11323465 original size:170 final size:170
Alignment explanation
Indices: 11323183--11323556 Score: 678
Period size: 170 Copynumber: 2.2 Consensus size: 170
11323173 TAAAGATTCG
* *
11323183 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGATTA
1 GATCTTATCTCCCTGAGATTACATCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
11323248 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
66 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
*
11323313 ATCTCCCTGAGATTATAGTGGAACAGACCAAAGAATTTCA
131 ATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCA
11323353 GATCTTATCTCCCTGAGATTACATCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
1 GATCTTATCTCCCTGAGATTACATCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
11323418 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
66 CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
* *
11323483 ATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCG
131 ATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCA
*
11323523 GATCTTATCTCCCTGAGGTTACAGT-GGAGCAGAT
1 GATCTTATCTCCCTGAGATTACA-TCGGAGCAGAT
11323557 TGAAGCCAGA
Statistics
Matches: 197, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
170 196 0.99
171 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (170 bp):
GATCTTATCTCCCTGAGATTACATCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
CAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTT
ATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCA
Found at i:11323619 original size:87 final size:87
Alignment explanation
Indices: 11323528--11323689 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
11323518 TTTCGGATCT
* * * *
11323528 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGC
*
11323592 GGAGCAGATCGAAAACACTATCC
65 AGAGCAGATCGAAAACACTATCC
* * * *
11323615 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
*
11323680 GAGTAGATCG
66 GAGCAGATCG
11323690 CATCAGGTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 62 0.97
88 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAAACACTATCC
Found at i:11323793 original size:218 final size:213
Alignment explanation
Indices: 11323352--11323793 Score: 464
Period size: 218 Copynumber: 2.0 Consensus size: 213
11323342 AAAGAATTTC
* * * *
11323352 AGATCTTATCTCCCTGAGATTACATCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
*
11323417 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAGGTCT
* * ** * * *
11323482 TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGGTTACAG
131 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAATAAGGA-CGTATCTCCCTAAAGTTACAG
* ** *
11323547 TGGAGCAGATTGAAGCCAG
195 CGGAGCAGACAGAAGACAG
11323566 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAA-ACACT-ATCCTATCTCCCTGA-AG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATC-AAAGACACTAATCCTATCTCCCTGAGA-
* * * *
11323628 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCAT
64 TTACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACAT
* * * * *
11323693 CAGGTCTTATTTCCCTGAAGA-TGCAGTGGAACAGACTGAAA-ACAATAAGG-CGTGTCTCCTTA
124 CAGGTCTTATCTCCCTG-AGATTACAGTGGAACAGAC-CAAAGA-AATAAGGACGTATCTCCCTA
** * *
11323755 AAGTTGTAGCGGAGCGGACAGAAGATAG
186 AAGTTACAGCGGAGCAGACAGAAGACAG
*
11323783 TGATTCTTATC
1 AGA-TCTTATC
11323794 ATGTCTAATC
Statistics
Matches: 187, Mismatches: 30, Indels: 18
0.80 0.13 0.08
Matches are distributed among these distances:
212 1 0.01
213 28 0.15
214 39 0.21
215 3 0.02
217 29 0.16
218 77 0.41
219 10 0.05
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (213 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAGGTCT
TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAATAAGGACGTATCTCCCTAAAGTTACAGC
GGAGCAGACAGAAGACAG
Found at i:11324065 original size:86 final size:86
Alignment explanation
Indices: 11323874--11324146 Score: 361
Period size: 86 Copynumber: 3.2 Consensus size: 86
11323864 GGTTGTGACA
* ** * * *
11323874 GAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAA
1 GAGCTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAA
*
11323939 -CCTTGCCTCTC-TCGGTTGAAGTG
63 GCCTTGCCTC-CATCGGTTGCAGTG
*
11323962 GAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCC
1 GAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCC
* *
11324027 TTGCATCCATCGATTGCAGTG
66 TTGCCTCCATCGGTTGCAGTG
* * **
11324048 GAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATAAAAAACAAAGCC
1 GAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCC
*
11324113 TTGCCTCCATCGGTTGCATTG
66 TTGCCTCCATCGGTTGCAGTG
11324134 GAGCTGGTTAAAG
1 GAGCTGGTTAAAG
11324147 GTTACAGATT
Statistics
Matches: 164, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
85 6 0.04
86 109 0.66
87 36 0.22
88 13 0.08
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (86 bp):
GAGCTGGTTAAAGAAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCC
TTGCCTCCATCGGTTGCAGTG
Found at i:11324391 original size:43 final size:44
Alignment explanation
Indices: 11324291--11324396 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 44
11324281 GATCTTGTCC
* *
11324291 CCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGACCTTATCT
1 CCCTGAAGTTACAGTGGAGCAGATCGAAGACAGAGACCTTATCT
* * * *
11324335 CCCCG-AGATTACAGCGGAGCAGATCGAAGACACTA-TCC-TATCT
1 CCCTGAAG-TTACAGTGGAGCAGATCGAAGACA-GAGACCTTATCT
11324378 CCCTGAAGTTACAGTGGAG
1 CCCTGAAGTTACAGTGGAG
11324397 TGGGTTAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
43 21 0.41
44 29 0.57
45 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (44 bp):
CCCTGAAGTTACAGTGGAGCAGATCGAAGACAGAGACCTTATCT
Found at i:11324956 original size:20 final size:20
Alignment explanation
Indices: 11324931--11324970 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11324921 CATGACGGAA
11324931 GCAGC-AACAGAAACAGAAAC
1 GCAGCAAACAGAAACA-AAAC
*
11324951 GCAGCAAACAGTAACAAAAC
1 GCAGCAAACAGAAACAAAAC
11324971 AACAATAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.25, G:0.17, T:0.03
Consensus pattern (20 bp):
GCAGCAAACAGAAACAAAAC
Found at i:11327641 original size:35 final size:35
Alignment explanation
Indices: 11327602--11327702 Score: 148
Period size: 35 Copynumber: 2.9 Consensus size: 35
11327592 TATAAATCAT
* *
11327602 TATTTTACGTGAATTAAACGTATTTGTCTCATTAC
1 TATTTTATGTGAATTAAGCGTATTTGTCTCATTAC
*
11327637 TATTTTATGTGAATTAAGCGTATTTCTCTCATTAC
1 TATTTTATGTGAATTAAGCGTATTTGTCTCATTAC
** *
11327672 TATTTTATGTGAAACAAGCGAATTTGTCTCA
1 TATTTTATGTGAATTAAGCGTATTTGTCTCA
11327703 CTTTTTAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (35 bp):
TATTTTATGTGAATTAAGCGTATTTGTCTCATTAC
Found at i:11333150 original size:23 final size:23
Alignment explanation
Indices: 11333123--11333168 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
11333113 ACATCTTAAA
11333123 AATATTTTTATTTTTTTTAGCTT
1 AATATTTTTATTTTTTTTAGCTT
11333146 AATATTTTTATTTTTTTTAGCTT
1 AATATTTTTATTTTTTTTAGCTT
11333169 TCCCACCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (23 bp):
AATATTTTTATTTTTTTTAGCTT
Found at i:11337702 original size:24 final size:24
Alignment explanation
Indices: 11337665--11337710 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11337655 GCAATTCATT
11337665 TCGATGGTGTTATTTTAGAAACAA
1 TCGATGGTGTTATTTTAGAAACAA
*
11337689 TCGATGGT-TGTATTTTTGAAAC
1 TCGATGGTGT-TATTTTAGAAAC
11337711 TCGTTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (24 bp):
TCGATGGTGTTATTTTAGAAACAA
Found at i:11346337 original size:6 final size:6
Alignment explanation
Indices: 11346326--11346431 Score: 137
Period size: 6 Copynumber: 18.2 Consensus size: 6
11346316 ATGTGAGGTA
11346326 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
* * * *
11346374 AGTATT AGTA-T --TATT AGTATT ATTATT ATTATT ATTATT ATTATT
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT
* *
11346419 ATTATT ATTATT A
1 AGTATT AGTATT A
11346432 AGATGAGTGG
Statistics
Matches: 96, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
3 2 0.02
4 1 0.01
5 1 0.01
6 92 0.96
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (6 bp):
AGTATT
Found at i:11349698 original size:35 final size:35
Alignment explanation
Indices: 11349632--11349727 Score: 90
Period size: 35 Copynumber: 2.7 Consensus size: 35
11349622 TCATGGTGTC
11349632 GCTCCGTAGAGCCAATAGATCATTTCTATAATACT
1 GCTCCGTAGAGCCAATAGATCATTTCTATAATACT
* * *
11349667 GCTCTGTAGAGCCAGTA-AGTCATTT-TCATAAT-GT
1 GCTCCGTAGAGCCAATAGA-TCATTTCT-ATAATACT
* * *
11349701 CGCTCCATAGAACCAGTAGATCATTTC
1 -GCTCCGTAGAGCCAATAGATCATTTC
11349728 CAATCAAACC
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
34 3 0.06
35 46 0.92
36 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (35 bp):
GCTCCGTAGAGCCAATAGATCATTTCTATAATACT
Found at i:11350802 original size:41 final size:41
Alignment explanation
Indices: 11350719--11350824 Score: 133
Period size: 41 Copynumber: 2.5 Consensus size: 41
11350709 CCAAGATAAA
* * *
11350719 TATACTGGCATGTAAATGCATCATTGGATGAACCAAAGTAAT
1 TATACT-GCATGTAAGTGCATCAGTCGATGAACCAAAGTAAT
*
11350761 TATACTAGCATGTAAGTGCATC-GTCGATGAACCGAAGTAAT
1 TATACT-GCATGTAAGTGCATCAGTCGATGAACCAAAGTAAT
*
11350802 TATACTGCCACGTAAGTGCATCA
1 TATACTG-CATGTAAGTGCATCA
11350825 TCAGATAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
40 1 0.02
41 35 0.62
42 20 0.36
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (41 bp):
TATACTGCATGTAAGTGCATCAGTCGATGAACCAAAGTAAT
Found at i:11350881 original size:42 final size:42
Alignment explanation
Indices: 11350648--11350884 Score: 172
Period size: 42 Copynumber: 5.7 Consensus size: 42
11350638 GTTGACACGA
** * * * * *
11350648 AAGTGCATCATCAAATGAACCAAAGCAAATACACTAGCACGT
1 AAGTGCATCATCGGATGAACCGAAGCAATTATACTGGCATGT
* * ** * * *
11350690 AAATGCATTATCAAATTAACC-AAGATAAATATACTGGCATGT
1 AAGTGCATCATCGGATGAACCGAAG-CAATTATACTGGCATGT
* * * * *
11350732 AAATGCATCATTGGATGAACCAAAGTAATTATACTAGCATGT
1 AAGTGCATCATCGGATGAACCGAAGCAATTATACTGGCATGT
* * * *
11350774 AAGTGCATCGTC-GATGAACCGAAGTAATTATACTGCCACGT
1 AAGTGCATCATCGGATGAACCGAAGCAATTATACTGGCATGT
* * ** * *
11350815 AAGTGCATCATCAGATAAATTGAAGCAATTGTATTGGCATGT
1 AAGTGCATCATCGGATGAACCGAAGCAATTATACTGGCATGT
* *
11350857 AAGTTCATCATCGGATGAACTGAAGCAA
1 AAGTGCATCATCGGATGAACCGAAGCAA
11350885 GTACATCATC
Statistics
Matches: 158, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
41 39 0.25
42 116 0.73
43 3 0.02
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (42 bp):
AAGTGCATCATCGGATGAACCGAAGCAATTATACTGGCATGT
Found at i:11350893 original size:26 final size:26
Alignment explanation
Indices: 11350857--11350908 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
11350847 ATTGGCATGT
* *
11350857 AAGTTCATCATCGGATGAACTGAAGC
1 AAGTACATCATCGGATGAACCGAAGC
11350883 AAGTACATCATCGGATGAACCGAAGC
1 AAGTACATCATCGGATGAACCGAAGC
11350909 TAATATACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
AAGTACATCATCGGATGAACCGAAGC
Found at i:11350947 original size:42 final size:42
Alignment explanation
Indices: 11350883--11351085 Score: 157
Period size: 42 Copynumber: 4.8 Consensus size: 42
11350873 GAACTGAAGC
* *
11350883 AAGTACATCATCGGATGAACCGAAGCTAATATACTAG-TATGT
1 AAGTGCATCATCGGATGAACCGAAGC-AATATACTAGACATGT
* *
11350925 AAGTGCATCATCGGATGAACCGAAGCAATTATATTGGCACA--T
1 AAGTGCATCATCGGATGAACCGAAGCAA-TATACTAG-ACATGT
* ** *
11350967 AAGTGTATCATTAGATGAACCGAAGCAATTATACTAGCACATCT
1 AAGTGCATCATCGGATGAACCGAAGCAA-TATACTAG-ACATGT
* * * * *
11351011 -AGTGCATTATC-GATGAACTGAAGCAAATATA-TTGAAAAGT
1 AAGTGCATCATCGGATGAACCGAAGC-AATATACTAGACATGT
* * *
11351051 AAGTGCATCACCGGATGAACTGAAGTAAATATACT
1 AAGTGCATCATCGGATGAACCGAAG-CAATATACT
11351086 GGCACGTACT
Statistics
Matches: 131, Mismatches: 20, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
40 3 0.02
41 13 0.10
42 102 0.78
43 11 0.08
44 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (42 bp):
AAGTGCATCATCGGATGAACCGAAGCAATATACTAGACATGT
Found at i:11350984 original size:110 final size:110
Alignment explanation
Indices: 11350786--11350994 Score: 262
Period size: 110 Copynumber: 1.9 Consensus size: 110
11350776 GTGCATCGTC
** *
11350786 GATGAACCGAAGTAATTATACTGCCACGTAAGTGCATCATCAGATAAATTGAAGCAATTGTATTG
1 GATGAACCGAAGTAATTATACTGCCACGTAAGTGCATCATCAGATAAACCGAAGCAATTATATTG
** * *
11350851 GCATGTAAGTTCATCATCGGATGAACTGAAGCAAGTACATCATCG
66 GCACATAAGTTCATCATCAGATGAACCGAAGCAAGTACATCATCG
* * * *
11350896 GATGAACCGAAGCTAA-TATACTAG-TATGTAAGTGCATCATCGGATGAACCGAAGCAATTATAT
1 GATGAACCGAAG-TAATTATACT-GCCACGTAAGTGCATCATCAGATAAACCGAAGCAATTATAT
*
11350959 TGGCACATAAGTGT-ATCATTAGATGAACCGAAGCAA
64 TGGCACATAAGT-TCATCATCAGATGAACCGAAGCAA
11350995 TTATACTAGC
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
110 79 0.94
111 5 0.06
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (110 bp):
GATGAACCGAAGTAATTATACTGCCACGTAAGTGCATCATCAGATAAACCGAAGCAATTATATTG
GCACATAAGTTCATCATCAGATGAACCGAAGCAAGTACATCATCG
Found at i:11351026 original size:152 final size:151
Alignment explanation
Indices: 11350737--11351036 Score: 372
Period size: 152 Copynumber: 2.0 Consensus size: 151
11350727 CATGTAAATG
* * *
11350737 CATCATTGGATGAACCAAAGTAATTATACTAGCATGTAAGTGCATCGTCGATGAACCGAAGTAAT
1 CATCATCGGATGAACCAAAGTAATTATACTAGCATGTAAGTGCATCATCGATGAACCGAAGCAAT
* ** * * * * *
11350802 TATACTGCCACGTAAGTGCATCATCAGATAAATTGAAGCAATTGTATTGGCATGTAAGTTCATCA
66 TATACTGCCACATAAGTGCATCATCAGATAAACCGAAGCAATTATATAGACATCTAAGTGCATCA
11350867 TCGGATGAACTGAAGCAAGTA
131 TCGGATGAACTGAAGCAAGTA
* *
11350888 CATCATCGGATGAACCGAAGCTAA-TATACTAGTATGTAAGTGCATCATCGGATGAACCGAAGCA
1 CATCATCGGATGAACCAAAG-TAATTATACTAGCATGTAAGTGCATCATC-GATGAACCGAAGCA
* * * * *
11350952 ATTATATTGGCACATAAGTGTATCATTAGATGAACCGAAGCAATTATACTAGCACATCT-AGTGC
64 ATTATACTGCCACATAAGTGCATCATCAGATAAACCGAAGCAATTATA-TAG-ACATCTAAGTGC
*
11351016 ATTATC-GATGAACTGAAGCAA
127 ATCATCGGATGAACTGAAGCAA
11351037 ATATATTGAA
Statistics
Matches: 126, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
151 41 0.33
152 70 0.56
153 11 0.09
154 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (151 bp):
CATCATCGGATGAACCAAAGTAATTATACTAGCATGTAAGTGCATCATCGATGAACCGAAGCAAT
TATACTGCCACATAAGTGCATCATCAGATAAACCGAAGCAATTATATAGACATCTAAGTGCATCA
TCGGATGAACTGAAGCAAGTA
Found at i:11351068 original size:84 final size:85
Alignment explanation
Indices: 11350883--11351090 Score: 210
Period size: 84 Copynumber: 2.5 Consensus size: 85
11350873 GAACTGAAGC
* * *
11350883 AAGTACATCATCGGATGAACCGAAGCTAATATACTAG--TATGTAAGTGCATCATCGGATGAACC
1 AAGTGCATCATCGGATGAACCGAAGC-AATATACTAGCACATCTAAGTGCATCATCGGATGAACC
* * *
11350946 GAAGCAATTATATTGGCACAT
65 GAAGCAAATATATTGGAAAAT
* ** * *
11350967 AAGTGTATCATTAGATGAACCGAAGCAATTATACTAGCACATCT-AGTGCATTATC-GATGAACT
1 AAGTGCATCATCGGATGAACCGAAGCAA-TATACTAGCACATCTAAGTGCATCATCGGATGAACC
11351030 GAAGCAAATATATT-GAAAAGT
65 GAAGCAAATATATTGGAAAA-T
* * * *
11351051 AAGTGCATCACCGGATGAACTGAAGTAAATATACTGGCAC
1 AAGTGCATCATCGGATGAACCGAAG-CAATATACTAGCAC
11351091 GTACTTGCAT
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
83 5 0.05
84 81 0.80
85 12 0.12
86 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (85 bp):
AAGTGCATCATCGGATGAACCGAAGCAATATACTAGCACATCTAAGTGCATCATCGGATGAACCG
AAGCAAATATATTGGAAAAT
Found at i:11353045 original size:15 final size:13
Alignment explanation
Indices: 11352996--11353046 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
11352986 GTTGCAATTG
* *
11352996 AAAAGTGCTTTTGT
1 AAAAGTG-TTGTGA
11353010 AAAAGTGTTGTGA
1 AAAAGTGTTGTGA
11353023 AAAAGTGTTGTAGA
1 AAAAGTGTTGT-GA
11353037 AAAATGTGTT
1 AAAA-GTGTT
11353047 ATTCATTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 15 0.45
14 13 0.39
15 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.35
Consensus pattern (13 bp):
AAAAGTGTTGTGA
Found at i:11354162 original size:30 final size:31
Alignment explanation
Indices: 11354125--11354213 Score: 80
Period size: 31 Copynumber: 2.9 Consensus size: 31
11354115 AACTTGTTGT
11354125 TAATATTTTAATATATGAAATATAAATTTTA
1 TAATATTTTAATATATGAAATATAAATTTTA
* * *
11354156 -AATATTTTTAAGAAAT-AAATATTAATTATTTA
1 TAATA-TTTTAATATATGAAATA-TAAAT-TTTA
11354188 TAA-ATTTTAAT-TA-GAATATATAAATT
1 TAATATTTTAATATATGAA-ATATAAATT
11354214 ATATTTTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
29 1 0.02
30 16 0.35
31 22 0.48
32 5 0.11
33 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (31 bp):
TAATATTTTAATATATGAAATATAAATTTTA
Found at i:11362527 original size:79 final size:81
Alignment explanation
Indices: 11362396--11362563 Score: 286
Period size: 79 Copynumber: 2.1 Consensus size: 81
11362386 GTTGAGTTGA
11362396 AACACTCTAGTAAATTGTATTTTATCAGGATAGTTATTGTAAAATCCTAAAGGAT-AA-ATATAT
1 AACACTCTAGTAAATTGTATTTTATCAGGATAGTTATTGTAAAATCCTAAAGGATAAACATATAT
*
11362459 ATAATTTAAATCCCTT
66 AGAATTTAAATCCCTT
* *
11362475 AACACTGTAGTAAATTGTATTTTATCAGGATGGTTATTGTAAAATCCTAAAGGATAAACATATAT
1 AACACTCTAGTAAATTGTATTTTATCAGGATAGTTATTGTAAAATCCTAAAGGATAAACATATAT
11362540 AGAATTTAAATCCCTT
66 AGAATTTAAATCCCTT
*
11362556 AAGACTCT
1 AACACTCT
11362564 CTTAATGTAG
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
79 53 0.65
80 2 0.02
81 27 0.33
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (81 bp):
AACACTCTAGTAAATTGTATTTTATCAGGATAGTTATTGTAAAATCCTAAAGGATAAACATATAT
AGAATTTAAATCCCTT
Found at i:11365643 original size:92 final size:92
Alignment explanation
Indices: 11365486--11365667 Score: 355
Period size: 92 Copynumber: 2.0 Consensus size: 92
11365476 AGAAGGAGAA
11365486 GAAGAAAATGAAAATTTCAAAAAAAATTTGGGTTTAAATAACCCTCTCAAAACAGTGCCGTTTTA
1 GAAGAAAATGAAAATTTCAAAAAAAATTTGGGTTTAAATAACCCTCTCAAAACAGTGCCGTTTTA
*
11365551 CCCTTGGGGGTCAGGTGCCAAAACGGC
66 CCCTTGGGGGTCAAGTGCCAAAACGGC
11365578 GAAGAAAATGAAAATTTCAAAAAAAATTTGGGTTTAAATAACCCTCTCAAAACAGTGCCGTTTTA
1 GAAGAAAATGAAAATTTCAAAAAAAATTTGGGTTTAAATAACCCTCTCAAAACAGTGCCGTTTTA
11365643 CCCTTGGGGGTCAAGTGCCAAAACG
66 CCCTTGGGGGTCAAGTGCCAAAACG
11365668 ACGCCGTTTT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (92 bp):
GAAGAAAATGAAAATTTCAAAAAAAATTTGGGTTTAAATAACCCTCTCAAAACAGTGCCGTTTTA
CCCTTGGGGGTCAAGTGCCAAAACGGC
Found at i:11366040 original size:3 final size:3
Alignment explanation
Indices: 11366032--11366126 Score: 68
Period size: 3 Copynumber: 31.7 Consensus size: 3
11366022 TATTGTTTAC
* * **
11366032 ATT ATT ATT TTT AAT ATT ACC ATT ATT ATT ATT AATT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
* * * * * *
11366077 ATC ATCT -TT ATT ATT ATT ATT AAT ACT ATT GTT GTT ATT ATT ATC
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11366122 ATT AT
1 ATT AT
11366127 ATTCCCATTT
Statistics
Matches: 71, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
2 3 0.04
3 65 0.92
4 3 0.04
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:11366257 original size:20 final size:20
Alignment explanation
Indices: 11366229--11366270 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
11366219 AATTTATTTA
*
11366229 ATATATA-TTACTTTATATAT
1 ATATATATTTA-TTTACATAT
*
11366249 ATATTTATTTATTTACATAT
1 ATATATATTTATTTACATAT
11366269 AT
1 AT
11366271 CTATGTACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATATATTTATTTACATAT
Found at i:11366259 original size:16 final size:16
Alignment explanation
Indices: 11366215--11366260 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
11366205 TATGTATCTC
11366215 ATATA-ATTTATTTA-
1 ATATATATTTATTTAT
11366229 ATATATA-TTACTTTAT
1 ATATATATTTA-TTTAT
11366245 ATATATATTTATTTAT
1 ATATATATTTATTTAT
11366261 TTACATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 8 0.29
15 5 0.18
16 12 0.43
17 3 0.11
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATATATTTATTTAT
Found at i:11366268 original size:16 final size:17
Alignment explanation
Indices: 11366215--11366270 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
11366205 TATGTATCTC
*
11366215 ATATAATTTATTTAATAT
1 ATATTATTTATTT-ATAT
*
11366233 ATATTACTTTATATATAT
1 ATATTA-TTTATTTATAT
*
11366251 AT-TTATTTATTTACAT
1 ATATTATTTATTTATAT
11366267 ATAT
1 ATAT
11366271 CTATGTACTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 11 0.34
17 4 0.12
18 11 0.34
19 6 0.19
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTATTTATTTATAT
Found at i:11366974 original size:107 final size:108
Alignment explanation
Indices: 11366589--11367121 Score: 781
Period size: 108 Copynumber: 5.0 Consensus size: 108
11366579 TTTCTAATTG
* *
11366589 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAATGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
11366654 CGTCCAACCAAATGGCTTAATATCCTTTTAAAATTTTAAAATA
66 CGTCCAACCAAATGGCTTAATATCCTTTTAAAATTTCAAAATA
* *
11366697 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGACTTTCCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
11366762 CGTCCAACCAAATGGCTTAATATCCTTTTAAAAGTTT-AAAATA
66 CGTCCAACCAAATGGCTTAATATCCTTTTAAAA-TTTCAAAATA
11366805 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
11366870 CGTCCAACCAAATGGCTTAATATCCTTTTAAAATTTCAAAATA
66 CGTCCAACCAAATGGCTTAATATCCTTTTAAAATTTCAAAATA
* *
11366913 AGGCAATG-TTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAAGGTGCTGGGTGTTGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* * * * * **
11366977 CGTTCAACCAAATAGCTAAATAGCCTTTCAAAAATTTCAAAGCA
66 CGTCCAACCAAATGGCTTAATATCCTTT-TAAAATTTCAAAATA
* * * *
11367021 AGGTAATGTTTTACGTTTGGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTC
1 AGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTC
** * ** *
11367083 TCGTTTAACCAAATTGCCAAATATCCTTTT-GAATTTCAA
65 TCGTCCAACCAAATGGCTTAATATCCTTTTAAAATTTCAA
11367122 TCCATACTAT
Statistics
Matches: 393, Mismatches: 27, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
105 8 0.02
107 110 0.28
108 229 0.58
109 36 0.09
110 10 0.03
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (108 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTCCAACCAAATGGCTTAATATCCTTTTAAAATTTCAAAATA
Found at i:11378841 original size:45 final size:45
Alignment explanation
Indices: 11378787--11379036 Score: 263
Period size: 45 Copynumber: 5.3 Consensus size: 45
11378777 GCAGTGGAAC
11378787 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTAAAA
* * * *
11378832 AGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACA
1 AGATTGAAGCTACAACAGCGGATCTTGC-TTCC---C-TGGCAGT-TAAAA
* *
11378883 A-ATTGAAGCTACAACAGCGGATCTTGCTTCCCAGGTAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTAAAA
* * * * *
11378927 AGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGTGTTGCAGTGGAACA
1 AGATTGAAGCTACAACAGCGGATCTTGC-TTCC--CTG--GCAGT-TAAAA
11378978 A-ATTGAAGCTACAACAGCGGATCTTGCTTCCCCT-GCAGTTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTGCTT-CCCTGGCAGTTAAAA
11379022 AGATTGAAGCTACAA
1 AGATTGAAGCTACAA
11379037 TGGCGAATCT
Statistics
Matches: 168, Mismatches: 22, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
44 8 0.05
45 73 0.43
46 9 0.05
48 2 0.01
49 7 0.04
50 61 0.36
51 8 0.05
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (45 bp):
AGATTGAAGCTACAACAGCGGATCTTGCTTCCCTGGCAGTTAAAA
Found at i:11378898 original size:95 final size:95
Alignment explanation
Indices: 11378735--11379102 Score: 540
Period size: 95 Copynumber: 3.9 Consensus size: 95
11378725 ATTGCAATTC
* * * * *
11378735 AAAGATTGAAGCCATAACGGCGAATCTTACTTTCCTAGTGTTGCAGTGGAACAGATTGAAGCTAC
1 AAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCGTTGCAGTGGAACAAATTGAAGCTAC
11378800 AACAGCGGATCTTGCTTCCCTGGCAGTTAA
66 AACAGCGGATCTTGCTTCCCTGGCAGTTAA
*
11378830 AAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGCGTTGCAGTGGAACAAATTGAAGCTAC
1 AAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCGTTGCAGTGGAACAAATTGAAGCTAC
* *
11378895 AACAGCGGATCTTGCTTCCCAGGTAGTTAA
66 AACAGCGGATCTTGCTTCCCTGGCAGTTAA
*
11378925 AAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGTGTTGCAGTGGAACAAATTGAAGCTAC
1 AAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCGTTGCAGTGGAACAAATTGAAGCTAC
11378990 AACAGCGGATCTTGCTTCCCCT-GCAGTTAA
66 AACAGCGGATCTTGCTT-CCCTGGCAGTTAA
** * * * * *
11379020 AAAGATTGAAGCTACAATGGCGAATCTTACTTTCTCTAGCGGTGCGGTAGAACAGATTGGAGCTA
1 AAAGATTGAAGCTACAACAGCGAATCTTACTTTC-CTAGCGTTGCAGTGGAACAAATTGAAGCTA
* * *
11379085 CAATAGCGAATTTTGCTT
65 CAACAGCGGATCTTGCTT
11379103 TCTCGACTTT
Statistics
Matches: 248, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
95 206 0.83
96 42 0.17
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (95 bp):
AAAGATTGAAGCTACAACAGCGAATCTTACTTTCCTAGCGTTGCAGTGGAACAAATTGAAGCTAC
AACAGCGGATCTTGCTTCCCTGGCAGTTAA
Found at i:11380530 original size:3 final size:3
Alignment explanation
Indices: 11380522--11380622 Score: 80
Period size: 3 Copynumber: 33.7 Consensus size: 3
11380512 TATTGTTTAC
* * **
11380522 ATT ATT ATT TTT AAT ATT ACC ATT ATT ATT ATT ATT AATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
* * * * *
11380567 ATT ATC ATCT -TT ATT ATT ATT ATT ATT AAT ACT ATT GTT GTT ATT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
11380612 ATT ATC ATT AT
1 ATT ATT ATT AT
11380623 ATTCCCATTT
Statistics
Matches: 77, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
2 3 0.04
3 71 0.92
4 3 0.04
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:11380753 original size:14 final size:14
Alignment explanation
Indices: 11380697--11380754 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
11380687 TATAATTGCT
* *
11380697 TATATATGTATCTCA
1 TATATATTTAT-TTA
11380712 TATA-ATTTATTTA
1 TATATATTTATTTA
11380725 -ATATATATTACTTTA
1 TATATAT-TTA-TTTA
11380740 TATATATTTATTTA
1 TATATATTTATTTA
11380754 T
1 T
11380755 TTACATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 3 0.08
13 4 0.11
14 13 0.35
15 11 0.30
16 6 0.16
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (14 bp):
TATATATTTATTTA
Found at i:11381265 original size:108 final size:108
Alignment explanation
Indices: 11381084--11381401 Score: 437
Period size: 108 Copynumber: 3.0 Consensus size: 108
11381074 TTTCTAATTG
* *
11381084 AGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* * * *
11381149 CGTCCAACCAAATGGCTTAATATCCTTTTAAAATTTCAAAATA
66 CGTTCAACCAAATAGCTAAATATCCTTTTAAAATTTCAAAACA
* *
11381192 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTAGCTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* * *
11381257 CGTTCAACCAAATAGCTAAATAGCCTTTCAAAAATTTCAAAGCA
66 CGTTCAACCAAATAGCTAAATATCCTTT-TAAAATTTCAAAACA
* *
11381301 AGGCAATGTTTTGCGTTTGGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTC
1 AGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTC
* * * *
11381363 TCGTTTAACCAAATTGCCAAATATCCTTTT-GAATTTCAA
65 TCGTTCAACCAAATAGCTAAATATCCTTTTAAAATTTCAA
11381402 TCCATGCTAT
Statistics
Matches: 187, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
105 8 0.04
107 29 0.16
108 85 0.45
109 54 0.29
110 11 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (108 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTCAACCAAATAGCTAAATATCCTTTTAAAATTTCAAAACA
Found at i:11400503 original size:2 final size:2
Alignment explanation
Indices: 11400496--11400536 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
11400486 GTGCGTGCGT
11400496 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
11400537 CAAGCATCCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11400977 original size:7 final size:7
Alignment explanation
Indices: 11400967--11400992 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11400957 GTGGAAGCCA
11400967 GAAGAGT
1 GAAGAGT
11400974 GAAGAGT
1 GAAGAGT
11400981 GAAGAGT
1 GAAGAGT
11400988 GAAGA
1 GAAGA
11400993 TTTATGGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.42, T:0.12
Consensus pattern (7 bp):
GAAGAGT
Found at i:11401524 original size:18 final size:17
Alignment explanation
Indices: 11401503--11401537 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11401493 TTATTATTAA
*
11401503 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11401521 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11401538 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11401676 original size:157 final size:156
Alignment explanation
Indices: 11401391--11401706 Score: 553
Period size: 157 Copynumber: 2.0 Consensus size: 156
11401381 TAGAATACCC
* *
11401391 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTAGTGTTATTTAAATTTTAATAAGATTATTA
* *
11401456 TTACAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAAT
66 ATACAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
11401521 ATATAATTTAATAAAATTCTTAATAA
131 ATATAATTTAATAAAATTCTTAATAA
* *
11401547 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTAGTGTTATTGT-TATTTTAATAAGATTATT
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTAGTGTTATT-TAAATTTTAATAAGATTATT
11401611 AATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAA
65 AATA-CAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAA
11401676 ATATATAATTTAATAAAATTCTTAATAA
129 ATATATAATTTAATAAAATTCTTAATAA
11401704 TTA
1 TTA
11401707 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
156 61 0.40
157 91 0.60
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTAGTGTTATTTAAATTTTAATAAGATTATTA
ATACAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:11401677 original size:16 final size:16
Alignment explanation
Indices: 11401640--11401681 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11401630 TTAATCATAT
*
11401640 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
11401656 TT-AAATATATTATAA
1 TTAAAATATATTATAA
11401671 TTAAAATATAT
1 TTAAAATATAT
11401682 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:11401688 original size:14 final size:15
Alignment explanation
Indices: 11401649--11401690 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11401639 TTTAAACATA
*
11401649 ATTATTATTAAATAT
1 ATTATAATTAAATAT
11401664 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
11401678 A-TATAATTTAATA
1 ATTATAATTAAATA
11401691 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:11401808 original size:14 final size:15
Alignment explanation
Indices: 11401759--11401810 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
11401749 CTAAAATATA
11401759 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
11401774 TATTAAATATATTAT
1 AATTAAATATATTAT
11401789 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
11401802 AATTTAATA
1 AATTAAATA
11401811 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:11401907 original size:15 final size:15
Alignment explanation
Indices: 11401880--11401927 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
11401870 TAAAATATAA
11401880 ATTAACATA-ATTATT
1 ATTAA-ATATATTATT
*
11401895 ATTAAATATATTATA
1 ATTAAATATATTATT
*
11401910 ATTAAAATATATAATT
1 ATT-AAATATATTATT
11401926 AT
1 AT
11401928 GAAGCAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.11
15 13 0.46
16 12 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATATATTATT
Found at i:11401919 original size:16 final size:16
Alignment explanation
Indices: 11401879--11401921 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
11401869 GTAAAATATA
*
11401879 AATTAACATA-ATTAT
1 AATTAAAATATATTAT
*
11401894 TATT-AAATATATTAT
1 AATTAAAATATATTAT
11401909 AATTAAAATATAT
1 AATTAAAATATAT
11401922 AATTATGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 11 0.48
16 8 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:11401988 original size:123 final size:120
Alignment explanation
Indices: 11401643--11402056 Score: 681
Period size: 120 Copynumber: 3.4 Consensus size: 120
11401633 ATCATATTTA
11401643 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
11401708 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTCTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
11401763 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
11401828 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
11401883 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTATGAAGCAAAATTCATAATAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATT-T-AA-TAAAATTCTTAATAAT
*
11401948 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AATTTT
63 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAT-ATAA-ATT
* * *
11402006 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAA
11402057 ATTTAAAATA
Statistics
Matches: 279, Mismatches: 9, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
120 166 0.59
121 3 0.01
122 9 0.03
123 99 0.35
124 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:11402042 original size:16 final size:17
Alignment explanation
Indices: 11402021--11402058 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
11402011 AATTAATATT
*
11402021 AAATATAT-TTTAATTA
1 AAATATATATTTAATAA
11402037 AAATATATGATTTAATAA
1 AAATATAT-ATTTAATAA
11402055 AAAT
1 AAAT
11402059 TTAAAATAAT
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:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAATATATATTTAATAA
Found at i:11402170 original size:91 final size:91
Alignment explanation
Indices: 11402075--11402282 Score: 276
Period size: 91 Copynumber: 2.3 Consensus size: 91
11402065 TAATTATAAC
* * * *
11402075 TAATAAATTATATTTTATGAATTTGTATAATTTAAAA-AAATAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAAATAA-TATTAAATATAATTTAATAA
*
11402139 TAATATATAATTTCATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTAA
* * * *
11402166 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAAATAATATTAAATATAATTTAATAAT
*
11402231 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
11402257 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
11402283 CTAAAATCAA
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
91 79 0.76
92 24 0.23
93 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAAATAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:11404476 original size:24 final size:26
Alignment explanation
Indices: 11404424--11404473 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
11404414 TATATGTAAT
11404424 ATTATTAAAATAAAATTTTTAATTTTA
1 ATTATTAAAATAAAATTTTTAA-TTTA
* *
11404451 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAAAATTTTTAATT
11404474 AATGCGTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 10 0.48
27 9 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTATTAAAATAAAATTTTTAATTTA
Found at i:11407390 original size:13 final size:13
Alignment explanation
Indices: 11407372--11407396 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11407362 AGCTAAACTG
11407372 AAACAGAAGGAAA
1 AAACAGAAGGAAA
11407385 AAACAGAAGGAA
1 AAACAGAAGGAA
11407397 TGGCTAAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.08, G:0.24, T:0.00
Consensus pattern (13 bp):
AAACAGAAGGAAA
Found at i:11407441 original size:13 final size:13
Alignment explanation
Indices: 11407423--11407448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11407413 TAGCTAAACT
11407423 GAAACAGAAGGAA
1 GAAACAGAAGGAA
11407436 GAAACAGAAGGAA
1 GAAACAGAAGGAA
11407449 AGGGGAAGCC
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:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAACAGAAGGAA
Found at i:11421109 original size:4 final size:4
Alignment explanation
Indices: 11421097--11421131 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
11421087 TAAAATTAGT
11421097 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
11421132 AAGGATAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:11421497 original size:31 final size:32
Alignment explanation
Indices: 11421434--11421498 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
11421424 GGCAAATTAC
*
11421434 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTATTTA
11421466 AAGAGTAATTGAATCCTAAT-AAAACTATTTA
1 AAGAGTAATTGAATCCTAATAAAAACTATTTA
11421497 AA
1 AA
11421499 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTATTTA
Found at i:11426465 original size:45 final size:45
Alignment explanation
Indices: 11426401--11426520 Score: 185
Period size: 45 Copynumber: 2.8 Consensus size: 45
11426391 GAGAGGTAGG
*
11426401 CAACTTTTTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTTTTCT
1 CAACTCTTTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTTTTCT
*
11426446 CAACTCTTTTTTTTGCGCTGTTTGC-TTTTTTT-AAGGTTTTTCT
1 CAACTCTTTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTTTTCT
*
11426489 CAA--CTTTTTTTTGCGCTTTTTGCTTTTTTTTA
1 CAACTCTTTTTTTTGCGCTGTTTGCTTTTTTTTA
11426521 TTAACTAATT
Statistics
Matches: 70, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
41 19 0.27
42 7 0.10
43 13 0.19
44 7 0.10
45 24 0.34
ACGTcount: A:0.11, C:0.15, G:0.12, T:0.62
Consensus pattern (45 bp):
CAACTCTTTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTTTTCT
Found at i:11426518 original size:43 final size:44
Alignment explanation
Indices: 11426407--11426520 Score: 180
Period size: 41 Copynumber: 2.6 Consensus size: 44
11426397 TAGGCAACTT
11426407 TTTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTTTTCTCAACTC
1 TTTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTTTTCTCAAC-C
*
11426452 TTTTTTTTGCGCTGTTTGC-TTTTTTT-AAGGTTTTTCTCAA-C
1 TTTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTTTTCTCAACC
*
11426493 TTTTTTTTGCGCTTTTTGCTTTTTTTTA
1 TTTTTTTTGCGCTGTTTGCTTTTTTTTA
11426521 TTAACTAATT
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
41 19 0.29
42 7 0.11
43 13 0.20
44 7 0.11
45 19 0.29
ACGTcount: A:0.10, C:0.14, G:0.12, T:0.64
Consensus pattern (44 bp):
TTTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTTTTCTCAACC
Found at i:11428245 original size:23 final size:23
Alignment explanation
Indices: 11428219--11428263 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
11428209 CCACATTGAT
11428219 ATGTAGCCGAAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
11428242 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
11428264 TCAATAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:11428364 original size:8 final size:8
Alignment explanation
Indices: 11428351--11428379 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
11428341 ACCCGGGACT
11428351 CACTGTAA
1 CACTGTAA
11428359 CACTGTAA
1 CACTGTAA
11428367 CACTGTAA
1 CACTGTAA
11428375 CACTG
1 CACTG
11428380 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:11435577 original size:23 final size:24
Alignment explanation
Indices: 11435551--11435620 Score: 117
Period size: 23 Copynumber: 3.0 Consensus size: 24
11435541 TGCCACATTG
11435551 ATATGTAGCCGAAGCTACCACT-A
1 ATATGTAGCCGAAGCTACCACTGA
*
11435574 ATATGTAGCCGTAGCTACCACTGA
1 ATATGTAGCCGAAGCTACCACTGA
11435598 A-ATGTAGCCGAAGCTACCACTGA
1 ATATGTAGCCGAAGCTACCACTGA
11435621 TCAATAACAC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (24 bp):
ATATGTAGCCGAAGCTACCACTGA
Found at i:11435721 original size:8 final size:8
Alignment explanation
Indices: 11435708--11435736 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
11435698 ACCCAGGACT
11435708 CACTGTAA
1 CACTGTAA
11435716 CACTGTAA
1 CACTGTAA
11435724 CACTGTAA
1 CACTGTAA
11435732 CACTG
1 CACTG
11435737 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:11437005 original size:31 final size:32
Alignment explanation
Indices: 11436951--11437010 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
11436941 GGCTATCACA
11436951 TAATTAAATCCTAATAAAAACTCTTTAAAGAG
1 TAATTAAATCCTAATAAAAACTCTTTAAAGAG
*
11436983 TAATTGAATCCTAAT-AAAACTCTTTAAA
1 TAATTAAATCCTAATAAAAACTCTTTAAA
11437011 TTTATCTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.33
Consensus pattern (32 bp):
TAATTAAATCCTAATAAAAACTCTTTAAAGAG
Found at i:11442239 original size:19 final size:19
Alignment explanation
Indices: 11442183--11442239 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
11442173 ATTTTTAAAC
11442183 TAAAAAATATTCAAAATTTTA
1 TAAAAAATA-T-AAAATTTTA
**
11442204 -AAACAAATATATGATTTTA
1 TAAA-AAATATAAAATTTTA
11442223 TAAAAAATATAAAATTT
1 TAAAAAATATAAAATTT
11442240 ATTTTATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 18 0.60
20 7 0.23
21 5 0.17
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAAAAATATAAAATTTTA
Found at i:11443554 original size:7 final size:7
Alignment explanation
Indices: 11443539--11443604 Score: 118
Period size: 7 Copynumber: 9.7 Consensus size: 7
11443529 TAAAAATTTT
11443539 AAAAT-A
1 AAAATAA
11443545 AAAAT-A
1 AAAATAA
11443551 AAAATAA
1 AAAATAA
11443558 AAAATAA
1 AAAATAA
11443565 AAAATAA
1 AAAATAA
11443572 AAAATAA
1 AAAATAA
11443579 AAAATAA
1 AAAATAA
11443586 AAAATAA
1 AAAATAA
11443593 AAAATAA
1 AAAATAA
11443600 AAAAT
1 AAAAT
11443605 TAAATTCTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 11 0.19
7 48 0.81
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:11454603 original size:45 final size:45
Alignment explanation
Indices: 11454548--11454664 Score: 155
Period size: 45 Copynumber: 2.6 Consensus size: 45
11454538 AGATCCTAGC
*
11454548 TGAAAGATGTTATGGCATCATGATAAAAGTGAGAAAGACCATAGT
1 TGAAAGATGTTATGACATCATGATAAAAGTGAGAAAGACCATAGT
* * *
11454593 TGAAATATGTTATGACATCATGATAAAAGTGAGTAAGACCATAGC
1 TGAAAGATGTTATGACATCATGATAAAAGTGAGAAAGACCATAGT
* * * *
11454638 TAAAAGACGCTATGATATCAT-ATAAAA
1 TGAAAGATGTTATGACATCATGATAAAA
11454665 TCACGCCATA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
44 6 0.10
45 57 0.90
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (45 bp):
TGAAAGATGTTATGACATCATGATAAAAGTGAGAAAGACCATAGT
Found at i:11460262 original size:505 final size:505
Alignment explanation
Indices: 11459312--11460324 Score: 2017
Period size: 505 Copynumber: 2.0 Consensus size: 505
11459302 ATCGACATCA
11459312 GATTTTCTTTTATATTTTCTCTAATTTTTGTATGACATTAAGGAGACCACTTCTGCATGCATTTG
1 GATTTTCTTTTATATTTTCTCTAATTTTTGTATGACATTAAGGAGACCACTTCTGCATGCATTTG
11459377 ACACTTGTAACAACCTGTTTTTCAGTGGTATTGAAAATGGTGATTTTGGGACCACAAATTCGACG
66 ACACTTGTAACAACCTGTTTTTCAGTGGTATTGAAAATGGTGATTTTGGGACCACAAATTCGACG
11459442 AGTGAGTTCGTATAAATAGTATTTAAATTATATGAGTCAATAATAAATTTTGTATTGAATTTTGA
131 AGTGAGTTCGTATAAATAGTATTTAAATTATATGAGTCAATAATAAATTTTGTATTGAATTTTGA
11459507 TTTGAGGAATTTTAACTAACTGAATTAAAAGTTAGTATAAGTGGTTCGGTTCAAAAGTCAAGTGG
196 TTTGAGGAATTTTAACTAACTGAATTAAAAGTTAGTATAAGTGGTTCGGTTCAAAAGTCAAGTGG
11459572 TTATTGAAAACGAGGTATTAGGATCTCGTTTCCATAATTAAAGGCCGTAAATATTTTTATTAAAT
261 TTATTGAAAACGAGGTATTAGGATCTCGTTTCCATAATTAAAGGCCGTAAATATTTTTATTAAAT
11459637 ATTTATAGAGTTGTATTATATGTGAATTGAAGTTTGATCTGGTAATTTTGATGATTTATTGCTTA
326 ATTTATAGAGTTGTATTATATGTGAATTGAAGTTTGATCTGGTAATTTTGATGATTTATTGCTTA
11459702 ATTATAGTAAAAGAATTAAATTGTAAAAGAAGTAAAAGTTAATTGATATAGATTTAAAATAGTAA
391 ATTATAGTAAAAGAATTAAATTGTAAAAGAAGTAAAAGTTAATTGATATAGATTTAAAATAGTAA
*
11459767 ATGGACCAAAATGGTAATTAAACTATGGTCAAAAAGTCCAAGCGGTGGTG
456 AGGGACCAAAATGGTAATTAAACTATGGTCAAAAAGTCCAAGCGGTGGTG
11459817 GATTTTCTTTTATATTTTCTCTAATTTTTGTATGACATTAAGGAGACCACTTCTGCATGCATTTG
1 GATTTTCTTTTATATTTTCTCTAATTTTTGTATGACATTAAGGAGACCACTTCTGCATGCATTTG
11459882 ACACTTGTAACAACCTGTTTTTCAGTGGTATTGAAAATGGTGATTTTGGGACCACAAATTCGACG
66 ACACTTGTAACAACCTGTTTTTCAGTGGTATTGAAAATGGTGATTTTGGGACCACAAATTCGACG
11459947 AGTGAGTTCGTATAAATAGTATTTAAATTATATGAGTCAATAATAAATTTTGTATTGAATTTTGA
131 AGTGAGTTCGTATAAATAGTATTTAAATTATATGAGTCAATAATAAATTTTGTATTGAATTTTGA
11460012 TTTGAGGAATTTTAACTAACTGAATTAAAAGTTAGTATAAGTGGTTCGGTTCAAAAGTCAAGTGG
196 TTTGAGGAATTTTAACTAACTGAATTAAAAGTTAGTATAAGTGGTTCGGTTCAAAAGTCAAGTGG
11460077 TTATTGAAAACGAGGTATTAGGATCTCGTTTCCATAATTAAAGGCCGTAAATATTTTTATTAAAT
261 TTATTGAAAACGAGGTATTAGGATCTCGTTTCCATAATTAAAGGCCGTAAATATTTTTATTAAAT
11460142 ATTTATAGAGTTGTATTATATGTGAATTGAAGTTTGATCTGGTAATTTTGATGATTTATTGCTTA
326 ATTTATAGAGTTGTATTATATGTGAATTGAAGTTTGATCTGGTAATTTTGATGATTTATTGCTTA
11460207 ATTATAGTAAAAGAATTAAATTGTAAAAGAAGTAAAAGTTAATTGATATAGATTTAAAATAGTAA
391 ATTATAGTAAAAGAATTAAATTGTAAAAGAAGTAAAAGTTAATTGATATAGATTTAAAATAGTAA
11460272 AGGGACCAAAATGGTAATTAAACTATGGTCAAAAAGTCCAAGCGGTGGTG
456 AGGGACCAAAATGGTAATTAAACTATGGTCAAAAAGTCCAAGCGGTGGTG
11460322 GAT
1 GAT
11460325 ATGATTAATC
Statistics
Matches: 507, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
505 507 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.38
Consensus pattern (505 bp):
GATTTTCTTTTATATTTTCTCTAATTTTTGTATGACATTAAGGAGACCACTTCTGCATGCATTTG
ACACTTGTAACAACCTGTTTTTCAGTGGTATTGAAAATGGTGATTTTGGGACCACAAATTCGACG
AGTGAGTTCGTATAAATAGTATTTAAATTATATGAGTCAATAATAAATTTTGTATTGAATTTTGA
TTTGAGGAATTTTAACTAACTGAATTAAAAGTTAGTATAAGTGGTTCGGTTCAAAAGTCAAGTGG
TTATTGAAAACGAGGTATTAGGATCTCGTTTCCATAATTAAAGGCCGTAAATATTTTTATTAAAT
ATTTATAGAGTTGTATTATATGTGAATTGAAGTTTGATCTGGTAATTTTGATGATTTATTGCTTA
ATTATAGTAAAAGAATTAAATTGTAAAAGAAGTAAAAGTTAATTGATATAGATTTAAAATAGTAA
AGGGACCAAAATGGTAATTAAACTATGGTCAAAAAGTCCAAGCGGTGGTG
Found at i:11461136 original size:101 final size:101
Alignment explanation
Indices: 11460941--11461141 Score: 287
Period size: 101 Copynumber: 2.0 Consensus size: 101
11460931 AGTTCATTTA
* *
11460941 GTTGGACCATGGCAGTATATATATGTAAGACCATAGCTGCGCTATGACATTCTGATGATAAGACC
1 GTTGGACCATGGCAATATATACATGTAAGACCATAGCTGCGCTATGACATTCTGATGATAAGACC
* *
11461006 ATAACTAGGTTATGGCACTATAGATATAAGACCATG
66 ATAACTAGGCTATAGCACTATAGATATAAGACCATG
* * *
11461042 GTTGGACCATGGCAATGTATACATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAGACC
1 GTTGGACCATGGCAATATATACATGTAAGACCATAGCTGCGCTATGACATTCTGATGATAAGACC
* * * *
11461107 ATAATTGGGCTATAGCATTCT-GATGATAAGACCAT
66 ATAACTAGGCTATAGCACTATAGAT-ATAAGACCAT
11461142 AACTGGGTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 3 0.03
101 85 0.97
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (101 bp):
GTTGGACCATGGCAATATATACATGTAAGACCATAGCTGCGCTATGACATTCTGATGATAAGACC
ATAACTAGGCTATAGCACTATAGATATAAGACCATG
Found at i:11461143 original size:33 final size:33
Alignment explanation
Indices: 11460966--11461153 Score: 139
Period size: 33 Copynumber: 5.6 Consensus size: 33
11460956 TATATATATG
** *
11460966 TAAGACCATAGCTGCGCTATGACATTCTGATGA
1 TAAGACCATAATTGGGCTATGACATTCTGATGA
* * * * * *
11460999 TAAGACCATAACTAGGTTATGGCACTATAGAT-A
1 TAAGACCATAATTGGGCTATGACATTCT-GATGA
** * * * * *
11461032 TAAGACCATGGTTGGACCATGGCAATGTATACATG-
1 TAAGACCATAATTGGGCTATGAC-AT-TCT-GATGA
*
11461067 TAAGACCATAGTTGGGCTATGACATTCTGATGA
1 TAAGACCATAATTGGGCTATGACATTCTGATGA
11461100 TAAGACCATAATTGGGCTAT-AGCATTCTGATGA
1 TAAGACCATAATTGGGCTATGA-CATTCTGATGA
* *
11461133 TAAGACCATAACTGGGTTATG
1 TAAGACCATAATTGGGCTATG
11461154 GCACTATAGA
Statistics
Matches: 123, Mismatches: 25, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
32 4 0.03
33 88 0.72
34 6 0.05
35 25 0.20
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (33 bp):
TAAGACCATAATTGGGCTATGACATTCTGATGA
Found at i:11461155 original size:101 final size:100
Alignment explanation
Indices: 11460949--11461257 Score: 266
Period size: 101 Copynumber: 3.1 Consensus size: 100
11460939 TAGTTGGACC
* * * * *
11460949 ATGGCAGTATATATATGTAAGACCATAGCTGCGCTATGACATTCTGATGATAAGACCATAACTAG
1 ATGGCAATATATACATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAGACCATAACTGG
* * * *** ***
11461014 GTTATGGCACTATAGAT-ATAAGACCATGGTTGGACC
66 GCTAT-GCATTCT-GATGATAAGACCATAACTGGGTT
* *
11461050 ATGGCAATGTATACATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAGACCATAATTGG
1 ATGGCAATATATACATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAGACCATAACTGG
11461115 GCTATAGCATTCTGATGATAAGACCATAACTGGGTT
66 GCTAT-GCATTCTGATGATAAGACCATAACTGGGTT
* * * * * * * * * * *
11461151 ATGGCACTATAGAC--GTAAGACCATGGTTGGACCATGGCTGTGTATACATG-TAAGTCCATAGC
1 ATGGCAATATATACATGTAAGACCATAGTTGGGCTATGAC-AT-TCT-GATGATAAGACCATAAC
* *
11461213 TGGGCTATGATATTCTAATGATAAGACCATAACTGGGTT
63 TGGGCTATG-CATTCTGATGATAAGACCATAACTGGGTT
11461252 ATGGCA
1 ATGGCA
11461258 CTATGAACGT
Statistics
Matches: 171, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
99 20 0.12
100 5 0.03
101 143 0.84
102 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (100 bp):
ATGGCAATATATACATGTAAGACCATAGTTGGGCTATGACATTCTGATGATAAGACCATAACTGG
GCTATGCATTCTGATGATAAGACCATAACTGGGTT
Found at i:11461210 original size:134 final size:134
Alignment explanation
Indices: 11460966--11461254 Score: 445
Period size: 134 Copynumber: 2.2 Consensus size: 134
11460956 TATATATATG
* * *
11460966 TAAGACCATAGCTGCGCTATGACATTCTGATGATAAGACCATAACTAGGTTATGGCACTATAGAT
1 TAAGACCATAACTGGGCTATGACATTCTGATGATAAGACCATAACTAGGTTATGGCACTATAGAC
* *
11461031 ATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGTTGGGCTATGACATTCTG
66 ATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGCTGGGCTATGACATTCTA
11461096 ATGA
131 ATGA
* *
11461100 TAAGACCATAATTGGGCTAT-AGCATTCTGATGATAAGACCATAACTGGGTTATGGCACTATAGA
1 TAAGACCATAACTGGGCTATGA-CATTCTGATGATAAGACCATAACTAGGTTATGGCACTATAGA
* ** * *
11461164 CGTAAGACCATGGTTGGACCATGGCTGTGTATACATGTAAGTCCATAGCTGGGCTATGATATTCT
65 CATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGCTGGGCTATGACATTCT
11461229 AATGA
130 AATGA
*
11461234 TAAGACCATAACTGGGTTATG
1 TAAGACCATAACTGGGCTATG
11461255 GCACTATGAA
Statistics
Matches: 139, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
133 1 0.01
134 138 0.99
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (134 bp):
TAAGACCATAACTGGGCTATGACATTCTGATGATAAGACCATAACTAGGTTATGGCACTATAGAC
ATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGCTGGGCTATGACATTCTA
ATGA
Found at i:11461243 original size:33 final size:34
Alignment explanation
Indices: 11460958--11461254 Score: 128
Period size: 33 Copynumber: 8.9 Consensus size: 34
11460948 CATGGCAGTA
* *
11460958 TATATATG-TAAGACCATAGCTGCGCTATGACAT
1 TATACATGATAAGACCATAGCTGGGCTATGACAT
* * * * * * *
11460991 TCT-GATGATAAGACCATAACTAGGTTATGGCAC
1 TATACATGATAAGACCATAGCTGGGCTATGACAT
* * * * * *
11461024 TATAGAT-ATAAGACCATGGTTGGACCATGGCAAT
1 TATACATGATAAGACCATAGCTGGGCTATGAC-AT
*
11461058 GTATACATG-TAAGACCATAGTTGGGCTATGACAT
1 -TATACATGATAAGACCATAGCTGGGCTATGACAT
* * **
11461092 TCT-GATGATAAGACCATAATTGGGCTAT-AGCAT
1 TATACATGATAAGACCATAGCTGGGCTATGA-CAT
* * * * * *
11461125 TCT-GATGATAAGACCATAACTGGGTTATGGCAC
1 TATACATGATAAGACCATAGCTGGGCTATGACAT
* * * * * * * *
11461158 TATAGACG-TAAGACCATGGTTGGACCATGGCTGT
1 TATACATGATAAGACCATAGCTGGGCTATGAC-AT
* *
11461192 GTATACATG-TAAGTCCATAGCTGGGCTATGATAT
1 -TATACATGATAAGACCATAGCTGGGCTATGACAT
* * *
11461226 TCTA-ATGATAAGACCATAACTGGGTTATG
1 TATACATGATAAGACCATAGCTGGGCTATG
11461255 GCACTATGAA
Statistics
Matches: 199, Mismatches: 53, Indels: 24
0.72 0.19 0.09
Matches are distributed among these distances:
32 10 0.05
33 132 0.66
34 10 0.05
35 47 0.24
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (34 bp):
TATACATGATAAGACCATAGCTGGGCTATGACAT
Found at i:11461289 original size:134 final size:134
Alignment explanation
Indices: 11460966--11461290 Score: 368
Period size: 134 Copynumber: 2.4 Consensus size: 134
11460956 TATATATATG
* * * * * **
11460966 TAAGACCATAGCTGCGCTAT-GACATTCTGATGATAAGACCATAACTA-GGTTATGGCACTATAG
1 TAAGACCATAACTGGGCTATAG-CACTATGACGATAAGACCATAAC-AGGGCCATGGCACTATAG
* *
11461029 ATATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGTTGGGCTATGACATTC
64 ACATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGCTGGGCTATGACATTC
*
11461094 TGATGA
129 TAATGA
* * * * * **
11461100 TAAGACCATAATTGGGCTATAGCATTCTGATGATAAGACCATAACTGGGTTATGGCACTATAGAC
1 TAAGACCATAACTGGGCTATAGCACTATGACGATAAGACCATAACAGGGCCATGGCACTATAGAC
* ** * *
11461165 GTAAGACCATGGTTGGACCATGGCTGTGTATACATGTAAGTCCATAGCTGGGCTATGATATTCTA
66 ATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGCTGGGCTATGACATTCTA
11461230 ATGA
131 ATGA
* * **
11461234 TAAGACCATAACTGGGTTATGGCACTATGAACG-TAAGACCATGGCAGGGCCATGGCA
1 TAAGACCATAACTGGGCTATAGCACTATG-ACGATAAGACCATAACAGGGCCATGGCA
11461291 ATGTACATAT
Statistics
Matches: 165, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
134 162 0.98
135 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (134 bp):
TAAGACCATAACTGGGCTATAGCACTATGACGATAAGACCATAACAGGGCCATGGCACTATAGAC
ATAAGACCATGGTTGGACCATGGCAATGTATACATGTAAGACCATAGCTGGGCTATGACATTCTA
ATGA
Found at i:11467584 original size:16 final size:17
Alignment explanation
Indices: 11467557--11467590 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11467547 TTCTCCAACT
11467557 TAATTGAATTTTTAAAA
1 TAATTGAATTTTTAAAA
*
11467574 TAATT-AATTTTTTAAA
1 TAATTGAATTTTTAAAA
11467590 T
1 T
11467591 TATCTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TAATTGAATTTTTAAAA
Found at i:11470112 original size:40 final size:41
Alignment explanation
Indices: 11470050--11470165 Score: 112
Period size: 40 Copynumber: 2.9 Consensus size: 41
11470040 GTTTGGAACA
* * *
11470050 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTAGCC-
1 AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTAGCCG
** * * *
11470090 AAAGCGCCGCTAAAGGTAGAGCATCAGCGGTGA-TTATCCG
1 AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTAGCCG
* * *
11470130 GAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA
1 AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTA
11470166 TATAAAGCGC
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
39 14 0.24
40 45 0.76
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.18
Consensus pattern (41 bp):
AAAGCGCCGCTAAAAATAGAGCATTAGCGGCGATTTAGCCG
Found at i:11470280 original size:41 final size:41
Alignment explanation
Indices: 11470223--11470501 Score: 244
Period size: 41 Copynumber: 6.8 Consensus size: 41
11470213 TTTTTTAAAC
* *
11470223 CTTTAGCGGCATTTTTGTGTAAGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* *
11470264 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATTCTTGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* * *
11470305 CTTTAGCGGCGTTTTTGTCTATGCACCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* * *
11470346 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCTAATTCTCGAAT
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAATGCTCGGAT
* ** * * *
11470387 CTTTAGTGGC-TTTTCTAACTGAGCGCCACTAATTCGCT-TG-T
1 CTTTAGCGGCGTTTT-TGTCTAAGCGCCGCTAA-T-GCTCGGAT
* * * * *** *
11470428 CTTCAGCGGCGTTTGTATTTAAGCGCCGCTAATG-TATTTAC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGAT
* *
11470469 CTTTAGCGGCGTTTTTGCCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
11470502 AGTAACAAAA
Statistics
Matches: 192, Mismatches: 37, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 7 0.04
41 176 0.92
42 5 0.03
43 2 0.01
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.36
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
Found at i:11470457 original size:123 final size:123
Alignment explanation
Indices: 11470223--11470461 Score: 277
Period size: 123 Copynumber: 1.9 Consensus size: 123
11470213 TTTTTTAAAC
* ** * **
11470223 CTTTAGCGGCATTTTTGTGTAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTGTCTAAGC
1 CTTTAGCGGCATTTTTATACAAGCGCCGCTAATGCTCGAATCTTTAGCGGCGTTTTTAACTAAGC
* * * * *
11470288 GCCGCTAATTCTTGGATCTTTAGCGGCGTTTTTGTCTATGCACCGCTAATGCTCGGGT
66 GCCACTAATTCTTGGATCTTCAGCGGCGTTTGTATCTAAGCACCGCTAATGCTCGGGT
* * * *
11470346 CTTTAGCGGCGTTTTTATACAAGCGCCGCTAATTCTCGAATCTTTAGTGGC-TTTTCTAACTGAG
1 CTTTAGCGGCATTTTTATACAAGCGCCGCTAATGCTCGAATCTTTAGCGGCGTTTT-TAACTAAG
* *
11470410 CGCCACTAATTCGCTT-G-TCTTCAGCGGCGTTTGTATTTAAGCGCCGCTAATG
65 CGCCACTAATT--CTTGGATCTTCAGCGGCGTTTGTATCTAAGCACCGCTAATG
11470462 TATTTACCTT
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
122 4 0.04
123 88 0.92
124 1 0.01
125 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (123 bp):
CTTTAGCGGCATTTTTATACAAGCGCCGCTAATGCTCGAATCTTTAGCGGCGTTTTTAACTAAGC
GCCACTAATTCTTGGATCTTCAGCGGCGTTTGTATCTAAGCACCGCTAATGCTCGGGT
Found at i:11470977 original size:16 final size:17
Alignment explanation
Indices: 11470956--11470987 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11470946 TACGGAGTAT
11470956 AGATTTAAGG-TAATTG
1 AGATTTAAGGTTAATTG
11470972 AGATTTAAGGTTAATT
1 AGATTTAAGGTTAATT
11470988 TAGGGGTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (17 bp):
AGATTTAAGGTTAATTG
Found at i:11472655 original size:35 final size:36
Alignment explanation
Indices: 11472616--11472685 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
11472606 AATTTATTTA
* *
11472616 TTTAT-CAATAAAATTAAATATTATAA-ATTTCAAAC
1 TTTATACAA-AAAAATAAATATTATAATATTACAAAC
11472651 TTTATACAAAAAAATAAATATTATAATATTACAAA
1 TTTATACAAAAAAATAAATATTATAATATTACAAA
11472686 TTAAAAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 21 0.68
36 10 0.32
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (36 bp):
TTTATACAAAAAAATAAATATTATAATATTACAAAC
Found at i:11475563 original size:31 final size:31
Alignment explanation
Indices: 11475538--11476135 Score: 686
Period size: 31 Copynumber: 19.8 Consensus size: 31
11475528 AATATAAGAT
11475538 ATTACATAACTTACATTAGTTAATATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* *
11475570 ATTACATAACTTAGTTAATTAATAT---T--
1 ATTACATAACTTAATTAGTTAATATACATAA
* *
11475596 A-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
*
11475626 ATTACATAACTTAATTAGTTAATACACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
* * *
11475657 ATTACATAACATACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* *
11475688 ATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTAATTAGTTAATATACATAA
* *
11475714 A-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
11475744 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
*
11475775 ATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
*
11475806 ATTACATAACTTAATTAGTTACTATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
11475837 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
*
11475868 ATTACATAACATAATTAGTTAATTATACATAA
1 ATTACATAACTTAATTAGTTAA-TATACATAA
*
11475900 ATTACATAACTTAATTAGTTACTATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
11475931 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
* * *
11475962 ATTACATAACATACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* *
11475993 ATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTAATTAGTTAATATACATAA
* *
11476019 A-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
*
11476049 ATTACATAACTTAATTAGTTAATACACATAA
1 ATTACATAACTTAATTAGTTAATATACATAA
* * *
11476080 ATTACATAACATACATTA-ATATTATACATAA
1 ATTACATAACTTA-ATTAGTTAATATACATAA
* * *
11476111 ATTACGTAACTTAGTTATTTAATAT
1 ATTACATAACTTAATTAGTTAATAT
11476136 TATACATAAC
Statistics
Matches: 484, Mismatches: 51, Indels: 63
0.81 0.09 0.11
Matches are distributed among these distances:
25 48 0.10
26 12 0.02
28 6 0.01
30 24 0.05
31 340 0.70
32 54 0.11
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (31 bp):
ATTACATAACTTAATTAGTTAATATACATAA
Found at i:11475605 original size:25 final size:22
Alignment explanation
Indices: 11475572--11475625 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 22
11475562 ATACATAAAT
11475572 TACATAACTTAGTTAATTAATATTA
1 TACATAACTTA---AATTAATATTA
*
11475597 TACATAACTTACATTAATATTA
1 TACATAACTTAAATTAATATTA
11475619 TACATAA
1 TACATAA
11475626 ATTACATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 17 0.61
25 11 0.39
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (22 bp):
TACATAACTTAAATTAATATTA
Found at i:11475615 original size:22 final size:22
Alignment explanation
Indices: 11475587--11475750 Score: 88
Period size: 22 Copynumber: 7.1 Consensus size: 22
11475577 AACTTAGTTA
11475587 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTTAC
*
11475609 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAACTTAC
* *
11475631 A-TAACTTAATTAGTTA-ATACACATAA
1 ATTAA--T-ATTA--TACATA-ACTTAC
** *
11475657 ATTACATAACATACATTAATATTATAC
1 ATTA-ATATTATACA-T-A-ACT-TAC
*
11475684 A-TAA-A-T-TACATAACTTAGTT
1 ATTAATATTATACATAACTTA--C
11475704 ATTTAATATTATACATAACTTAC
1 A-TTAATATTATACATAACTTAC
*
11475727 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAACTTAC
11475749 AT
1 AT
11475751 AACTTAATTA
Statistics
Matches: 108, Mismatches: 15, Indels: 38
0.67 0.09 0.24
Matches are distributed among these distances:
18 2 0.02
19 2 0.02
20 2 0.02
21 4 0.04
22 51 0.47
23 5 0.05
24 7 0.06
25 18 0.17
26 11 0.10
27 5 0.05
28 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.40
Consensus pattern (22 bp):
ATTAATATTATACATAACTTAC
Found at i:11475672 original size:62 final size:62
Alignment explanation
Indices: 11475538--11476135 Score: 779
Period size: 62 Copynumber: 9.9 Consensus size: 62
11475528 AATATAAGAT
* * * *
11475538 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAGTTAATTAATAT---T--
1 ATTACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
*
11475596 A-TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATACACATAA
1 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * *
11475657 ATTACATAACATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
11475714 A-TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * * *
11475775 ATTACATAACATA-ATTAGTTAATATACATAAATTACATAACTTAATTAGTTACTATACATAA
1 ATTACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * *
11475837 ATTACATAACTTA-ATTAGTTAATATACATAAATTACATAACATAATTAGTTAATTATACATAA
1 ATTACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAA-TATACATAA
* *
11475900 ATTACATAACTTA-ATTAGTTACTATACATAAATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * *
11475962 ATTACATAACATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATAT---T--
1 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
*
11476019 A-TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATACACATAA
1 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * * *
11476080 ATTACATAACATACATTAATATTATACATAAATTACGTAACTTAGTTATTTAATAT
1 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATAT
11476136 TATACATAAC
Statistics
Matches: 484, Mismatches: 35, Indels: 38
0.87 0.06 0.07
Matches are distributed among these distances:
56 134 0.28
57 18 0.04
58 1 0.00
59 5 0.01
61 7 0.01
62 255 0.53
63 64 0.13
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (62 bp):
ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
Found at i:11475690 original size:118 final size:121
Alignment explanation
Indices: 11475538--11476135 Score: 749
Period size: 118 Copynumber: 5.0 Consensus size: 121
11475528 AATATAAGAT
* *
11475538 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAGTTAATTAATAT-TA-TACA
1 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATATATATTACA
*
11475601 TAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATACACATAA
66 TAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * * * *
11475657 ATTACATAACATACATTA-ATATTATACATAAATTACATAACTTAGTTATTTAATAT-TA-TACA
1 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATATATATTACA
11475719 TAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
66 TAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* *
11475775 ATTACATAACATA-ATTAGTTAATATACATAAATTACATAACTTAATTAGTTACTATACATAAAT
1 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAATTAGTTA--AT--ATATAT
* * *
11475839 TACATAACTTA-ATTAGTTAATATACATAAATTACATAACATAATTAGTTAATTATACATAA
62 TACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAA-TATACATAA
*
11475900 ATTACATAACTTA-ATTAGTTACTATACATAAATTACATAACTTAATTAGTTAATATACATAAAT
1 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATAT--AT--AT
* * *
11475964 TACATAACATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATAT---T--
62 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * *
11476019 A-TACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATACACATAAAT
1 ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAATTAGTTAAT----ATATAT
* * * *
11476082 TACATAACATACATTAATATTATACATAAATTACGTAACTTAGTTATTTAATAT
62 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATAT
11476136 TATACATAAC
Statistics
Matches: 434, Mismatches: 26, Indels: 39
0.87 0.05 0.08
Matches are distributed among these distances:
117 4 0.01
118 239 0.55
119 22 0.05
120 3 0.01
121 3 0.01
122 4 0.01
123 8 0.02
124 46 0.11
125 101 0.23
126 4 0.01
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (121 bp):
ATTACATAACTTACATTAGTTAATATACATAAATTACATAACTTAATTAGTTAATATATATTACA
TAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
Found at i:11476039 original size:22 final size:22
Alignment explanation
Indices: 11476011--11476055 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11476001 ACTTAGTTAT
*
11476011 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
11476033 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
11476055 T
1 T
11476056 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:11476162 original size:9 final size:9
Alignment explanation
Indices: 11476138--11476240 Score: 71
Period size: 9 Copynumber: 12.3 Consensus size: 9
11476128 TTTAATATTA
11476138 TACATAACT
1 TACATAACT
11476147 TAC--AACT
1 TACATAACT
11476154 TACATAACT
1 TACATAACT
**
11476163 TACATATTTT
1 TACATA-ACT
*
11476173 TA-ATTA-T
1 TACATAACT
*
11476180 T-CATAAAT
1 TACATAACT
11476188 TACATAACT
1 TACATAACT
*
11476197 TACATAATT
1 TACATAACT
*
11476206 TTCATAA--
1 TACATAACT
*
11476213 TAAATAACT
1 TACATAACT
11476222 TACATAA--
1 TACATAACT
11476229 TACATAACT
1 TACATAACT
11476238 TAC
1 TAC
11476241 GTAGCTTAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
7 24 0.33
8 2 0.03
9 44 0.60
10 3 0.04
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:11476170 original size:34 final size:33
Alignment explanation
Indices: 11476095--11476170 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 33
11476085 ATAACATACA
* * *
11476095 TTAATATTATACATAAATTACGTAACTTAGTTAT
1 TTAATATTATACATAAATTACG-AACTTAATAAC
*
11476129 TTAATATTATACATAACTTAC-AACTTACATAAC
1 TTAATATTATACATAAATTACGAACTTA-ATAAC
11476162 TTACATATT
1 TTA-ATATT
11476171 TTTAATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 6 0.17
33 5 0.14
34 25 0.69
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (33 bp):
TTAATATTATACATAAATTACGAACTTAATAAC
Found at i:11476225 original size:34 final size:34
Alignment explanation
Indices: 11476150--11476235 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 34
11476140 CATAACTTAC
* * **
11476150 AACTTACATAACTTACATATTTTTAATTATTCAT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
* *
11476184 AAATTACATAACTTACATAATTTTCATAATAAAT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
11476218 AACTTACATAA--TACATAA
1 AACTTACATAACTTACATAA
11476236 CTTACGTAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 7 0.16
34 38 0.84
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (34 bp):
AACTTACATAACTTACATAATTTTAATAATAAAT
Found at i:11476227 original size:16 final size:16
Alignment explanation
Indices: 11476208--11476240 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11476198 ACATAATTTT
11476208 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
11476224 CATAATACATAACTTA
1 CATAATAAATAACTTA
11476240 C
1 C
11476241 GTAGCTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:11476251 original size:305 final size:303
Alignment explanation
Indices: 11475539--11476252 Score: 908
Period size: 305 Copynumber: 2.3 Consensus size: 303
11475529 ATATAAGATA
* ** * * *
11475539 TTACATAACTTACAT-TAGTTAA-TATACATAAATTACATAACTTAGTTAATTAAT-ATTATACA
1 TTACATAACTTACATATAATTAATTATACATAAATTACATAACTTACATAATT-TTCATAATAAA
11475601 TAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAA
65 TAACTTAC----ATA--ATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAA
11475666 CATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTATACATAACTTACATTA
124 CATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTATACATAACTTACATTA
* *
11475731 ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAATTAGTTA
189 ATATTATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAACATAATTAGATA
11475796 ATATACATAAATTACATAACTTAATTAGTTACTATACATAAATTACATAAC
254 ATATACATAAATTACATAACTTAATTAGTTACTATACATAAATTACA-AAC
* * * ** * * *
11475847 TTA-ATTAGTTA-ATATACATAAATTACATAACAT-AATTAGTTAATTATACATAAATTACATAA
1 TTACATAACTTACATATA-ATTAATT--AT-ACATAAATTACATAACT-TACATAATTTTCATAA
* * * *
11475909 CTTAATTAGTTAC-T-ATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAAC
61 -TAAATAACTTACATAATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAAC
11475972 ATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTATACATAACTTACATTAA
125 ATACATTAATATTATACATAAATTACATAACTTAGTTATTTAATATTATACATAACTTACATTAA
11476037 TATTATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAACATACATTA-ATA
190 TATTATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAACATA-ATTAGATA
* * * * * *
11476101 TTATACATAAATTACGTAACTTAGTTATTTAATATTATACATAACTTAC-AAC
254 ATATACATAAATTACATAACTTAATTA-GT--TACTATACATAAATTACAAAC
** *
11476153 TTACATAACTTACATATTTTTAATTATTCATAAATTACATAACTTACATAATTTTCATAATAAAT
1 TTACATAACTTACATATAATTAATTATACATAAATTACATAACTTACATAATTTTCATAATAAAT
* * *
11476218 AACTTACATAATACATAACTTACGTAGCTTAATTA
66 AACTTACATAATACATAAATTACATAACTTAATTA
11476253 TACTTATTCC
Statistics
Matches: 345, Mismatches: 43, Indels: 39
0.81 0.10 0.09
Matches are distributed among these distances:
303 9 0.03
304 18 0.05
305 227 0.66
306 13 0.04
307 19 0.06
308 26 0.08
309 1 0.00
311 11 0.03
312 13 0.04
313 8 0.02
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (303 bp):
TTACATAACTTACATATAATTAATTATACATAAATTACATAACTTACATAATTTTCATAATAAAT
AACTTACATAATACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAACATACAT
TAATATTATACATAAATTACATAACTTAGTTATTTAATATTATACATAACTTACATTAATATTAT
ACATAAATTACATAACTTAATTAGTTAATACACATAAATTACATAACATAATTAGATAATATACA
TAAATTACATAACTTAATTAGTTACTATACATAAATTACAAAC
Found at i:11481764 original size:66 final size:65
Alignment explanation
Indices: 11481658--11481812 Score: 204
Period size: 66 Copynumber: 2.4 Consensus size: 65
11481648 AGCAAATTAC
* * * *
11481658 ACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAG
11481722 CT
65 -T
* *
11481724 ACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGT
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGT
* *
11481789 AGCAGCTTAAAGCAGATGCGGCAG
1 A-CAACTTAAAGCAGATGCAGCAG
11481813 TAAGAGAAAC
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 2 0.03
66 72 0.92
67 4 0.05
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (65 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGT
Found at i:11481839 original size:21 final size:21
Alignment explanation
Indices: 11481801--11481841 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11481791 CAGCTTAAAG
* *
11481801 CAGATGCGGCAGTAAGAGAAA
1 CAGAGGCGGCAGCAAGAGAAA
*
11481822 CAGAGGCGGCAGCGAGAGAA
1 CAGAGGCGGCAGCAAGAGAA
11481842 GTACAGGCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.17, G:0.39, T:0.05
Consensus pattern (21 bp):
CAGAGGCGGCAGCAAGAGAAA
Found at i:11481869 original size:42 final size:42
Alignment explanation
Indices: 11481822--11481910 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
11481812 GTAAGAGAAA
** * *
11481822 CAGAGGCGGCAGCGAGAGAAGTACAGGCTACAGCGAGGGAAG
1 CAGAGGCGAAAGCGAGAGAAGCACAGGCTAAAGCGAGGGAAG
* * *
11481864 CAGAGGCTAAAGCGAGGGAAGCAGAGGCTAAAGCGAGGGAAG
1 CAGAGGCGAAAGCGAGAGAAGCACAGGCTAAAGCGAGGGAAG
11481906 CAGAG
1 CAGAG
11481911 CAACGTCAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.43, T:0.04
Consensus pattern (42 bp):
CAGAGGCGAAAGCGAGAGAAGCACAGGCTAAAGCGAGGGAAG
Found at i:11481870 original size:21 final size:21
Alignment explanation
Indices: 11481832--11481910 Score: 122
Period size: 21 Copynumber: 3.8 Consensus size: 21
11481822 CAGAGGCGGC
* * * *
11481832 AGCGAGAGAAGTACAGGCTAC
1 AGCGAGGGAAGCAGAGGCTAA
11481853 AGCGAGGGAAGCAGAGGCTAA
1 AGCGAGGGAAGCAGAGGCTAA
11481874 AGCGAGGGAAGCAGAGGCTAA
1 AGCGAGGGAAGCAGAGGCTAA
11481895 AGCGAGGGAAGCAGAG
1 AGCGAGGGAAGCAGAG
11481911 CAACGTCAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.38, C:0.15, G:0.42, T:0.05
Consensus pattern (21 bp):
AGCGAGGGAAGCAGAGGCTAA
Done.