Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001448.1 Hibiscus syriacus cultivar Beakdansim tig00002799_pilon, whole genome shotgun sequence
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: 1849635
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:539 original size:3 final size:3
Alignment explanation
Indices: 531--598 Score: 129
Period size: 3 Copynumber: 23.0 Consensus size: 3
521 TATATATATT
531 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
578 ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
599 TGGGTAAAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 62 0.97
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:936 original size:116 final size:112
Alignment explanation
Indices: 732--1357 Score: 889
Period size: 111 Copynumber: 5.6 Consensus size: 112
722 TATTGAATAA
* ** *
732 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCT-CTGGAAAAGATGATCCATC
* *
796 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
64 AAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* * *
845 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC-TCTACCTGGCAATGTTGATCC
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTCT--CTGGAAAAGATGATCC
* *
909 ATCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
61 ATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
961 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGAT-ATCCATCAA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATGATCCATCAA
* *
1025 TTGATGAATTC-AGAAAAAGGTTGAACAAATTCTTCTCATTATGAA-
66 ATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
1070 --CTTCTTCCTTCTTCAGATG-GTTCTTCTCATTATGAACTTCTCTGGAAAAGATAATCCATC-A
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATGATCCATCAA
* *
1131 ATGATG-ATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 ATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
1177 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGAAAAGATGATCCATCA
* * *
1242 AAT--TGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
65 AATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* **
1288 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGATCTTTCAA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATGATCCATCAA
1353 ATGAT
66 ATGAT
1358 AGATTTGAAT
Statistics
Matches: 477, Mismatches: 19, Indels: 35
0.90 0.04 0.07
Matches are distributed among these distances:
105 4 0.01
106 71 0.15
107 26 0.05
109 19 0.04
110 76 0.16
111 120 0.25
112 12 0.03
113 26 0.05
114 15 0.03
115 3 0.01
116 85 0.18
117 20 0.04
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (112 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATGATCCATCAA
ATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:1203 original size:216 final size:222
Alignment explanation
Indices: 732--1340 Score: 862
Period size: 216 Copynumber: 2.7 Consensus size: 222
722 TATTGAATAA
* ** *
732 TTCTTC-TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGCTGGGGATGATGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT-CTGGAAAAGATGATCCATC
* * * *
796 AAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
65 AATTGATGAATTC-AGAAAAAGGTTGAACAAATTCTTCTCATTATGAA--TCTTCTTCCTTCTTC
* * * *
861 AGATGACGAGTTCTTCTCATTATGAAC-TCTACCTGGCAATGTTGATCCATCAAATGATGAATTC
127 AGAT---GAGTTCTTCTCATTATGAACTTCT--CTGGAAAAGATAATCCATCAAATGATGAATTC
*
925 AAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
187 AAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
961 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTGGAAAAGAT-ATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
1024 ATTGATGAATTCAGAAAAAGGTTGAACAAATTCTTCTCATTATGAA-CTTCTTCCTTCTTCAGAT
66 ATTGATGAATTCAGAAAAAGGTTGAACAAATTCTTCTCATTATGAATCTTCTTCCTTCTTCAGAT
* *
1088 G-GTTCTTCTCATTATGAACTTCTCTGGAAAAGATAATCCATC-AATGATG-ATTCAGGTAAAAG
131 GAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAAGCAAAAG
*
1150 GTTGAACAAATTCTTCTCATTATGAAC
196 ATTGAACAAATTCTTCTCATTATGAAC
*
1177 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATC-
*
1242 AATTG--G-ATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
65 AATTGATGAATTCA-GAAAAAGGTTGAACAAATTCTTCTCATTATGAA--TCTTCTTCCTTCTTC
1304 AGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAG
127 AGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAG
1341 CTGATCTTTC
Statistics
Matches: 352, Mismatches: 18, Indels: 28
0.88 0.05 0.07
Matches are distributed among these distances:
216 81 0.23
217 54 0.15
218 22 0.06
219 23 0.07
220 23 0.07
221 31 0.09
223 18 0.05
226 31 0.09
227 19 0.05
228 8 0.02
229 10 0.03
230 32 0.09
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (222 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATGATCCATCA
ATTGATGAATTCAGAAAAAGGTTGAACAAATTCTTCTCATTATGAATCTTCTTCCTTCTTCAGAT
GAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAAGCAAAAG
ATTGAACAAATTCTTCTCATTATGAAC
Found at i:2134 original size:83 final size:82
Alignment explanation
Indices: 1982--2446 Score: 749
Period size: 83 Copynumber: 5.7 Consensus size: 82
1972 CCTACTGAAT
* * * *
1982 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATGTTCCGAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG-GCAAATTCATCTTCCAAATTCAA
2047 TGATTGGTTCTGCCAAAC
65 TGATTGGTTCTGCCAAAC
* * *
2065 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGGCAAATTCATCTTCCAAATTCAA
2130 TGATTGGTTCTGCCAAAC
65 TGATTGGTTCTGCCAAAC
* *
2148 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATG-GCAAATTCATCTTCCAAATTCAA
2213 TGATTGGTTCTGCCAAAC
65 TGATTGGTTCTGCCAAAC
*
2231 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT-GCACATTCATCTT-CAAATTCAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGCAAATTCATCTTCCAAATTCAAT
2294 GATTGGTTCTGCCAAAC
66 GATTGGTTCTGCCAAAC
* *
2311 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGCAAATTCATCTTCTAAA-TCAAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGCAAATTCATCTTCCAAATTCAAT
2375 GATTGGTTCTGTCC-AAC
66 GATTGGTTCTG-CCAAAC
2392 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGGCAAATTCATCTT
2447 TCATTTAATG
Statistics
Matches: 360, Mismatches: 16, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
80 67 0.19
81 82 0.23
82 21 0.06
83 188 0.52
84 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (82 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGCAAATTCATCTTCCAAATTCAAT
GATTGGTTCTGCCAAAC
Found at i:3119 original size:19 final size:16
Alignment explanation
Indices: 3097--3144 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 16
3087 AATAGAAAAG
3097 AATAAATTGAATTTCCAAA
1 AATAAATTGAATTT-C--A
*
3116 AATAAATTGAATCTCA
1 AATAAATTGAATTTCA
3132 AATAAATTGAATT
1 AATAAATTGAATT
3145 GAAATAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 13 0.48
18 1 0.04
19 13 0.48
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.33
Consensus pattern (16 bp):
AATAAATTGAATTTCA
Found at i:15659 original size:23 final size:21
Alignment explanation
Indices: 15629--15671 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
15619 ATATTTAGTT
15629 TTTTTTCTGTTTCTCGTTCTCTC
1 TTTTTTCTGTTTC-CG-TCTCTC
15652 TTTTTTCTGTTTCCGTCTCT
1 TTTTTTCTGTTTCCGTCTCT
15672 GTCTGCTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.25
22 2 0.10
23 13 0.65
ACGTcount: A:0.00, C:0.26, G:0.09, T:0.65
Consensus pattern (21 bp):
TTTTTTCTGTTTCCGTCTCTC
Found at i:16108 original size:14 final size:15
Alignment explanation
Indices: 16089--16122 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16079 GTCTGTAATT
16089 ATTTATTT-ATATAA
1 ATTTATTTAATATAA
*
16103 ATTTATTTAATATAT
1 ATTTATTTAATATAA
16118 ATTTA
1 ATTTA
16123 ATAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTATTTAATATAA
Found at i:16129 original size:3 final size:3
Alignment explanation
Indices: 16121--16184 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
16111 AATATATATT
16121 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16169 TAA TAA -AA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
16185 TGGGTAAAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:21261 original size:37 final size:36
Alignment explanation
Indices: 21213--21321 Score: 175
Period size: 35 Copynumber: 3.0 Consensus size: 36
21203 ATTATTCAAC
* *
21213 AAACATCTACCAAACTTTGAAAAACTATTTTTCAAAG
1 AAACATTTACCAAACTTTG-AAAACCATTTTTCAAAG
21250 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
21285 AAACATTTACCAAACTTTGAAAACCATTTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTTCAAAG
21322 TTGGTTACCA
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
35 35 0.51
36 6 0.09
37 27 0.40
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (36 bp):
AAACATTTACCAAACTTTGAAAACCATTTTTCAAAG
Found at i:21277 original size:21 final size:21
Alignment explanation
Indices: 21253--21313 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
21243 TTCAAAGAAA
21253 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
21274 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
21288 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
21309 CATTT
1 CATTT
21314 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:21330 original size:35 final size:36
Alignment explanation
Indices: 21220--21348 Score: 142
Period size: 35 Copynumber: 3.6 Consensus size: 36
21210 AACAAACATC
* *
21220 TACCAAACTTTGAAAAAC-TATTTTTCAAAGAAACATT
1 TACCAAACTTTGAAAACCAT-TTTTTCAAAG-AACAGT
*
21257 TACCAAACTTTGAAAACCA--TTTTCAAAGAAACATT
1 TACCAAACTTTGAAAACCATTTTTTCAAAG-AACAGT
***
21292 TACCAAACTTTGAAAACCATTTTTTCAAAG-TTGGT
1 TACCAAACTTTGAAAACCATTTTTTCAAAGAACAGT
21327 TACCAAAC-TTGAAAACCATTTT
1 TACCAAACTTTGAAAACCATTTT
21349 AATACTTTCA
Statistics
Matches: 84, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
34 14 0.17
35 44 0.52
37 26 0.31
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (36 bp):
TACCAAACTTTGAAAACCATTTTTTCAAAGAACAGT
Found at i:25409 original size:16 final size:16
Alignment explanation
Indices: 25385--25418 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25375 TATCGCCGAC
*
25385 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
*
25401 CGAAATTCACTTTTCA
1 CGAAATTCACTATTCA
25417 CG
1 CG
25419 TGAATAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:25898 original size:36 final size:35
Alignment explanation
Indices: 25827--25945 Score: 152
Period size: 35 Copynumber: 3.3 Consensus size: 35
25817 ATCCCATTAT
* ** *
25827 CATTTTTC-AACAAACAACTACTAAACTTTGAAAAA
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAA
25862 CTATTTTTCAAAGAAACATTTACCAAACTTTGAAAA
1 C-ATTTTTCAAAGAAACATTTACCAAACTTTGAAAA
25898 CCA-TTTTCAAAGAAACATTTACCAAACTTTGAAAA
1 -CATTTTTCAAAGAAACATTTACCAAACTTTGAAAA
25933 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
25946 TTGGTTACCA
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
34 2 0.03
35 33 0.44
36 21 0.28
37 19 0.25
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (35 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAA
Found at i:25935 original size:20 final size:20
Alignment explanation
Indices: 25875--25937 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
25865 TTTTTCAAAG
25875 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
*
25895 AAACCATTT-TCAAA----G-
1 AAA-CATTTACCAAACTTTGA
25910 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
25930 AAACATTT
1 AAACATTT
25938 TTTCAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 1 0.03
19 1 0.03
20 15 0.44
21 5 0.15
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (20 bp):
AAACATTTACCAAACTTTGA
Found at i:27019 original size:42 final size:43
Alignment explanation
Indices: 26969--27082 Score: 158
Period size: 43 Copynumber: 2.7 Consensus size: 43
26959 GGTGTTTTTA
* *
26969 TACAAACGCTGCTAAATACTGATACTTTAGT-CCGTTTTTGTT
1 TACAAACGCCGCTAAAGACTGATACTTTAGTACCGTTTTTGTT
* * *
27011 TACAAACGCCGCTAAAGACTGGTACTTTGGTAGCGTTTTTGTT
1 TACAAACGCCGCTAAAGACTGATACTTTAGTACCGTTTTTGTT
* *
27054 TACAAACACCACTAAAGACTGATACTTTA
1 TACAAACGCCGCTAAAGACTGATACTTTA
27083 ATGACATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (43 bp):
TACAAACGCCGCTAAAGACTGATACTTTAGTACCGTTTTTGTT
Found at i:27037 original size:83 final size:85
Alignment explanation
Indices: 26926--27082 Score: 185
Period size: 85 Copynumber: 1.9 Consensus size: 85
26916 AGCGTCGTTT
* * * * * ** *
26926 TTTACAAATGCCGTTATAGACTCTTACTTTAGT-G-GTGTTTT-TATACAAACGCTGCTAAATAC
1 TTTACAAACGCCGCTAAAGACTCGTACTTTAGTAGCGT-TTTTGTATACAAACACCACTAAAGAC
26988 TGATACTTTAGTCCGTTTTTG
65 TGATACTTTAGTCCGTTTTTG
* * *
27009 TTTACAAACGCCGCTAAAGACTGGTACTTTGGTAGCGTTTTTGTTTACAAACACCACTAAAGACT
1 TTTACAAACGCCGCTAAAGACTCGTACTTTAGTAGCGTTTTTGTATACAAACACCACTAAAGACT
27074 GATACTTTA
66 GATACTTTA
27083 ATGACATTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
83 27 0.45
84 5 0.08
85 28 0.47
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (85 bp):
TTTACAAACGCCGCTAAAGACTCGTACTTTAGTAGCGTTTTTGTATACAAACACCACTAAAGACT
GATACTTTAGTCCGTTTTTG
Found at i:27069 original size:43 final size:43
Alignment explanation
Indices: 26980--27116 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 43
26970 ACAAACGCTG
* * * * *
26980 CTAAATACTGATACTTTAGT-CCGTTTTTGTTTACAAACGCCG
1 CTAAAGACTGATACTTTAATGACGTTTTTGTTTACAAACACCA
* **
27022 CTAAAGACTGGTACTTTGGT-AGCGTTTTTGTTTACAAACACCA
1 CTAAAGACTGATACTTTAATGA-CGTTTTTGTTTACAAACACCA
* * * *
27065 CTAAAGACTGATACTTTAATGACATTTTTATTTATAAACACCT
1 CTAAAGACTGATACTTTAATGACGTTTTTGTTTACAAACACCA
27108 CTAAAGACT
1 CTAAAGACT
27117 CTGGTGTTTA
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 17 0.21
43 62 0.77
44 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (43 bp):
CTAAAGACTGATACTTTAATGACGTTTTTGTTTACAAACACCA
Found at i:29552 original size:33 final size:34
Alignment explanation
Indices: 29510--29586 Score: 120
Period size: 33 Copynumber: 2.3 Consensus size: 34
29500 CTATTTAATG
29510 AACTACAACTGCAACACCAAGATGTAGAAA-AAA
1 AACTACAACTGCAACACCAAGATGTAGAAACAAA
* *
29543 AACTACAACTGTAACACCAAGCTGTAGAAACAAA
1 AACTACAACTGCAACACCAAGATGTAGAAACAAA
*
29577 AACTAAAACT
1 AACTACAACT
29587 AGTGAACAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 28 0.70
34 12 0.30
ACGTcount: A:0.53, C:0.22, G:0.10, T:0.14
Consensus pattern (34 bp):
AACTACAACTGCAACACCAAGATGTAGAAACAAA
Found at i:29986 original size:42 final size:42
Alignment explanation
Indices: 29931--30027 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
29921 ATTTGTAGCA
* * ** **
29931 TTTTTCTAAAAAATGCCGCTATAGATCTTGATTTTTTGCGGCG
1 TTTTTCT-TAAAATGCCGCTATAGAGCTTGACCTACTGCGGCG
* *
29974 TTTTTCTTAAAATGTCGCTATAGAGCTTGACCTACTGTGGCG
1 TTTTTCTTAAAATGCCGCTATAGAGCTTGACCTACTGCGGCG
30016 TTTTTCTTAAAA
1 TTTTTCTTAAAA
30028 ACGCCGTTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 39 0.85
43 7 0.15
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (42 bp):
TTTTTCTTAAAATGCCGCTATAGAGCTTGACCTACTGCGGCG
Found at i:34282 original size:58 final size:57
Alignment explanation
Indices: 34163--34284 Score: 183
Period size: 58 Copynumber: 2.1 Consensus size: 57
34153 TGTGATATTT
*
34163 TACCATGAATGTTATTTCAGGTATGAACTTTCCAATTTTAAATATATGGTTATATGA
1 TACCATGAATGTTATTTCAGGTATGAACTTTCCAATGTTAAATATATGGTTATATGA
** *
34220 TACCATGAATGTTATTTTGGGTATGAA-TTGCTCTAATGTTAAATATATGGTTATATGA
1 TACCATGAATGTTATTTCAGGTATGAACTT--TCCAATGTTAAATATATGGTTATATGA
34278 TACCATG
1 TACCATG
34285 GATGAATGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.03
57 25 0.42
58 32 0.54
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (57 bp):
TACCATGAATGTTATTTCAGGTATGAACTTTCCAATGTTAAATATATGGTTATATGA
Found at i:34467 original size:59 final size:59
Alignment explanation
Indices: 34368--34496 Score: 168
Period size: 59 Copynumber: 2.2 Consensus size: 59
34358 CAACAGGCTG
* * ** * * *
34368 CATATTCGGGATTATACTAAAGGATACTTAGTGTATATGGTGGACACGACCTTATGTGT
1 CATATTCGGGACTATACTAAAGGATACCTAGTACAGATGGTGAACACAACCTTATGTGT
* *
34427 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGAACACAACCTTATGTGT
1 CATATTCGGGACTATACTAAAGGATACCTAGTACAGATGGTGAACACAACCTTATGTGT
*
34486 CATACTCGGGA
1 CATATTCGGGA
34497 TTGCATTACG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (59 bp):
CATATTCGGGACTATACTAAAGGATACCTAGTACAGATGGTGAACACAACCTTATGTGT
Found at i:34625 original size:45 final size:45
Alignment explanation
Indices: 34576--34683 Score: 207
Period size: 45 Copynumber: 2.4 Consensus size: 45
34566 ATGGTTTATG
*
34576 GTATATTGGTAAAATAAGCTTATGAGCTTATGGGATAAATGGTAA
1 GTATATTGGTAAAATAAGCTTATGAGCTTATGGGATAAATGATAA
34621 GTATATTGGTAAAATAAGCTTATGAGCTTATGGGATAAATGATAA
1 GTATATTGGTAAAATAAGCTTATGAGCTTATGGGATAAATGATAA
34666 GTATATTGGTAAAATAAG
1 GTATATTGGTAAAATAAG
34684 AAATTTTATA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (45 bp):
GTATATTGGTAAAATAAGCTTATGAGCTTATGGGATAAATGATAA
Found at i:37018 original size:8 final size:7
Alignment explanation
Indices: 36997--37126 Score: 82
Period size: 6 Copynumber: 19.0 Consensus size: 7
36987 AAAGAAATAG
36997 AAAAAG-
1 AAAAAGA
37003 AAAAA-A
1 AAAAAGA
*
37009 AAATAG-
1 AAAAAGA
37015 AAAAAGA
1 AAAAAGA
37022 AAAAA-A
1 AAAAAGA
*
37028 GAAAAG-
1 AAAAAGA
37034 AAAAA-A
1 AAAAAGA
37040 AAAAAGA
1 AAAAAGA
*
37047 AGAAAGA
1 AAAAAGA
*
37054 AATAAAAA
1 AA-AAAGA
37062 TAAAAAG-
1 -AAAAAGA
37069 AAAAAGA
1 AAAAAGA
37076 AAAGAAGA
1 AAA-AAGA
37084 AAAAA-A
1 AAAAAGA
37090 AGAGAGAAG-
1 A-A-A-AAGA
37099 AAAAAGA
1 AAAAAGA
37106 AAAAA-A
1 AAAAAGA
*
37112 AAGGAAGA
1 AA-AAAGA
37120 AAAAAGA
1 AAAAAGA
37127 TGAGAGATAA
Statistics
Matches: 97, Mismatches: 10, Indels: 33
0.69 0.07 0.24
Matches are distributed among these distances:
6 42 0.43
7 31 0.32
8 19 0.20
9 5 0.05
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:37041 original size:34 final size:32
Alignment explanation
Indices: 36981--37124 Score: 112
Period size: 36 Copynumber: 4.3 Consensus size: 32
36971 CTAGAAAATG
* * * *
36981 AAGAAGAAAGAAATAGAAAA-AGAAAAAAAAA
1 AAGAAAAAAAAAAAAGAAAAGAAAAAAAAAAA
*
37012 TAGAAAAAGAAAAAAAGAAAAGAAAAAAAAAAA
1 AAGAAAAA-AAAAAAAGAAAAGAAAAAAAAAAA
* *
37045 GAAGAAAGAAATAAAAATA-AAAAGAAAAAGAAAAG
1 -AAGAAA-AAA-AAAAA-AGAAAAGAAAAAAAAAAA
**
37080 AAGAAAAAAAAGAGAGAAGAAAAAGAAAAAAAAAGG
1 AAGAAAAAAAA-A-A-AAG-AAAAGAAAAAAAAAAA
37116 AAGAAAAAA
1 AAGAAAAAA
37125 GATGAGAGAT
Statistics
Matches: 92, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
31 6 0.07
32 12 0.13
33 14 0.15
34 14 0.15
35 22 0.24
36 24 0.26
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (32 bp):
AAGAAAAAAAAAAAAGAAAAGAAAAAAAAAAA
Found at i:37055 original size:50 final size:47
Alignment explanation
Indices: 36997--37124 Score: 82
Period size: 50 Copynumber: 2.6 Consensus size: 47
36987 AAAGAAATAG
*
36997 AAAAAGAAAAAAA-AATAGAAAAAGAAAAAAAGAAAAGAAAAAAAAAAAGA
1 AAAAAGAAAAAAAGAA-AGAGAAA-AAAAAAAG-AAAGAAAAAAAAAAA-A
* * * *
37047 AGAAAGAAATAAAAATAAAAAGAAAAAGAAAAG-AAGAAAAAAAAGAGAGAA
1 AAAAAG-AA-AAAAAGAAAGAGAAAAAAAAAAGAAAGAAAAAAAA-A-A-AA
*
37098 GAAAAAGAAAAAAA-AAGGAAGAAAAAA
1 -AAAAAGAAAAAAAGAAAG-AGAAAAAA
37125 GATGAGAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
49 13 0.21
50 18 0.29
51 13 0.21
52 16 0.26
53 2 0.03
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (47 bp):
AAAAAGAAAAAAAGAAAGAGAAAAAAAAAAGAAAGAAAAAAAAAAAA
Found at i:37109 original size:66 final size:62
Alignment explanation
Indices: 36981--37121 Score: 171
Period size: 62 Copynumber: 2.2 Consensus size: 62
36971 CTAGAAAATG
*
36981 AAGAAGAAAGAAATAGAAAAAGAAAAAAAAATAGAAAAAGAAAAAAAGAAAAGAAAAAAAAA
1 AAGAAGAAAGAAATAGAAAAAGAAAAAAAAAGAGAAAAAGAAAAAAAGAAAAGAAAAAAAAA
37043 AAGAAGAAAGAAATA-AAAATA-AAAAGAAAAAGA-AAAGAAGAAAAAAAAGAGAGAAGAAAAAG
1 AAGAAGAAAGAAATAGAAAA-AGAAAA-AAAAAGAGAAA-AAG-AAAAAAAGA-A-AAGAAAAA-
37105 AAAA
59 AAAA
* *
37109 AAAAAGGAAGAAA
1 AAGAAGAAAGAAA
37122 AAAGATGAGA
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
61 11 0.16
62 25 0.36
63 9 0.13
64 1 0.01
65 8 0.12
66 15 0.22
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (62 bp):
AAGAAGAAAGAAATAGAAAAAGAAAAAAAAAGAGAAAAAGAAAAAAAGAAAAGAAAAAAAAA
Found at i:37122 original size:11 final size:10
Alignment explanation
Indices: 36997--37126 Score: 67
Period size: 10 Copynumber: 12.7 Consensus size: 10
36987 AAAGAAATAG
36997 AAAAAGAA-A
1 AAAAAGAAGA
37006 AAAAA-ATAGA
1 AAAAAGA-AGA
* *
37016 AAAAGAAAAAA
1 AAAA-AGAAGA
37027 AGAAAAGAA-A
1 A-AAAAGAAGA
*
37037 AAAAAAAAGA
1 AAAAAGAAGA
*
37047 AGAAAGAA-A
1 AAAAAGAAGA
*
37056 TAAAAATAA-A
1 -AAAAAGAAGA
37066 AAGAAA-AAGA
1 AA-AAAGAAGA
37076 AAAGAAGAA-A
1 AAA-AAGAAGA
37086 AAAAAGAGAGAA
1 AAAAAGA-AG-A
*
37098 GAAAAAGAAAA
1 -AAAAAGAAGA
37109 AAAAAGGAAGA
1 AAAAA-GAAGA
37120 AAAAAGA
1 AAAAAGA
37127 TGAGAGATAA
Statistics
Matches: 96, Mismatches: 9, Indels: 31
0.71 0.07 0.23
Matches are distributed among these distances:
8 1 0.01
9 22 0.23
10 41 0.43
11 19 0.20
12 6 0.06
13 7 0.07
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAAGAAGA
Found at i:37124 original size:1 final size:1
Alignment explanation
Indices: 36997--37113 Score: 54
Period size: 1 Copynumber: 117.0 Consensus size: 1
36987 AAAGAAATAG
* * * * * * * * * *
36997 AAAAAGAAAAAAAAATAGAAAAAGAAAAAAAGAAAAGAAAAAAAAAAAGAAGAAAGAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * *
37062 TAAAAAGAAAAAGAAAAGAAGAAAAAAAAGAGAGAAGAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
37114 GGAAGAAAAA
Statistics
Matches: 76, Mismatches: 40, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.03
Consensus pattern (1 bp):
A
Found at i:37126 original size:46 final size:46
Alignment explanation
Indices: 36995--37121 Score: 84
Period size: 46 Copynumber: 2.7 Consensus size: 46
36985 AGAAAGAAAT
* *
36995 AGAAAAAGAAAA-AAAAATAGAAAAAGAAAAAAAGAAAAGAAAAAAAAAA
1 AGAAAAAGAAAAGAAAAA-A-AAAAAG-AAGAAAG-AAATAAAAAAAAAA
* *
37044 AGAAGAAAG-AAATAAAAATAAAAAGAA-AAAGAAA-AGAAGAAAAAAA
1 AGAA-AAAGAAAAGAAAAAAAAAAAGAAGAAAGAAATA-AA-AAAAAAA
* *
37090 AGAGAGAAGAAAA-AGAAAAAAAAAGGAAGAAA
1 AGA-AAAAGAAAAGA-AAAAAAAAAAGAAGAAA
37122 AAAGATGAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
44 1 0.02
45 5 0.08
46 18 0.27
47 17 0.26
48 9 0.14
49 7 0.11
50 9 0.14
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (46 bp):
AGAAAAAGAAAAGAAAAAAAAAAAGAAGAAAGAAATAAAAAAAAAA
Found at i:40662 original size:24 final size:24
Alignment explanation
Indices: 40635--40683 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
40625 TGCATGACAT
40635 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
40659 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
40683 T
1 T
40684 CGGGATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:40692 original size:20 final size:20
Alignment explanation
Indices: 40667--40704 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
40657 CATGTACATA
40667 GATGTTTTATACATCATCGG
1 GATGTTTTATACATCATCGG
40687 GATGTTTTATACATCATC
1 GATGTTTTATACATCATC
40705 TGGAAGACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (20 bp):
GATGTTTTATACATCATCGG
Found at i:40902 original size:57 final size:58
Alignment explanation
Indices: 40833--40958 Score: 191
Period size: 58 Copynumber: 2.2 Consensus size: 58
40823 TGTGATATTT
* * *
40833 TACCATAAATGTTATTTCGGGTATGAATTGCCC-AATGTTAAATATATGGTTATATGA
1 TACCATAGATGTTATTTCGGGTATGAATTGCCCTAATATTAAATATATAGTTATATGA
* *
40890 TACCATAGATGTTATTTTGGGTATGAATTTCCCTAATATTAAATATATAGTTATATGA
1 TACCATAGATGTTATTTCGGGTATGAATTGCCCTAATATTAAATATATAGTTATATGA
*
40948 TACCATGGATG
1 TACCATAGATG
40959 AATGAAATAG
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
57 30 0.48
58 32 0.52
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (58 bp):
TACCATAGATGTTATTTCGGGTATGAATTGCCCTAATATTAAATATATAGTTATATGA
Found at i:41300 original size:45 final size:45
Alignment explanation
Indices: 41243--41394 Score: 234
Period size: 45 Copynumber: 3.4 Consensus size: 45
41233 TATGTTTATG
*
41243 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGTTAAATGGTAA
1 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
* * *
41288 GTATATTGGTAAAATAAGCTTACAAGTTTATGTGATAAATGGTAA
1 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
* * *
41333 ATATATTGGTAAAATAAGCATATGAGCTTATGGGATAAAT-GTAA
1 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
41377 GTATATTGGTAAAATAAG
1 GTATATTGGTAAAATAAG
41395 AAATTTTATA
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 21 0.22
45 75 0.78
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.34
Consensus pattern (45 bp):
GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
Found at i:43379 original size:22 final size:22
Alignment explanation
Indices: 43354--43404 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
43344 TATGAAAATT
43354 AAAGAACCTAAAGGCTCAAGCC
1 AAAGAACCTAAAGGCTCAAGCC
43376 AAAGAACCTAAAGGCTCAAGCC
1 AAAGAACCTAAAGGCTCAAGCC
*
43398 TAAGAAC
1 AAAGAAC
43405 GTAGGCTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.25, G:0.18, T:0.10
Consensus pattern (22 bp):
AAAGAACCTAAAGGCTCAAGCC
Found at i:45347 original size:112 final size:111
Alignment explanation
Indices: 44984--45344 Score: 451
Period size: 112 Copynumber: 3.2 Consensus size: 111
44974 CACCCATGAA
* * * * *
44984 ACATTGAATCAAGGTAGACTTGTTCCATTGTTACTTATGGAATATCAAATCTT-GACAGAGAGAG
1 ACATTGAATCGAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGA-AGAGAGAG
* * * * *
45048 ATATGTTTCGCTTCTTCT--AAGGGAATATCATATATGGGAAAGTTGAT
65 ATTTGTTCCGCTTCTT-TGAAAGGGAATATCAAATCT-GGAAAATTGAT
* *
45095 ATATTGAATCG-GAGTATACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGAG
1 ACATTGAATCGAG-GTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGAG
* *
45159 ATTTGTTCTGCTTCTTTGAAAGGGAATATCAGATCTGTGAAAATTGAT
65 ATTTGTTCCGCTTCTTTGAAAGGGAATATCAAATCTG-GAAAATTGAT
* * *
45207 TCATTGAATCGAGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGGGA
1 ACATTGAATCGAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGAGA
*
45272 TTTGTTCCACTTCTTTGAAAGGGAATATCAAATCTGGAAAAATTGAT
66 TTTGTTCCGCTTCTTTGAAAGGGAATATCAAATCTGG-AAAATTGAT
* * *
45319 CCATTAAATCGAGGTAGACTTATTCC
1 ACATTGAATCGAGGTAGACTTGTTCC
45345 GCTTCTTTGA
Statistics
Matches: 219, Mismatches: 24, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
110 2 0.01
111 67 0.31
112 149 0.68
113 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (111 bp):
ACATTGAATCGAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGAGA
TTTGTTCCGCTTCTTTGAAAGGGAATATCAAATCTGGAAAATTGAT
Found at i:46558 original size:12 final size:12
Alignment explanation
Indices: 46541--46565 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46531 CTTGAACCCT
46541 TTTTATTTTTTC
1 TTTTATTTTTTC
46553 TTTTATTTTTTC
1 TTTTATTTTTTC
46565 T
1 T
46566 ATTCTTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTTTC
Found at i:53342 original size:21 final size:21
Alignment explanation
Indices: 53318--53359 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
53308 TTCTTCAGAG
* *
53318 GTAATACCAATAGTTAGAGCT
1 GTAACACCAATAGTTAAAGCT
53339 GTAACACCAATAGTTAAAGCT
1 GTAACACCAATAGTTAAAGCT
53360 TTTCCACGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (21 bp):
GTAACACCAATAGTTAAAGCT
Found at i:53754 original size:21 final size:21
Alignment explanation
Indices: 53728--53776 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
53718 ATTAAGATTT
53728 TGAAAATTTAGAAAAAAAATA
1 TGAAAATTTAGAAAAAAAATA
*
53749 TGAAAATTTAGAAAAAACATA
1 TGAAAATTTAGAAAAAAAATA
53770 TGAAAAT
1 TGAAAAT
53777 ACAAATGCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.24
Consensus pattern (21 bp):
TGAAAATTTAGAAAAAAAATA
Found at i:57958 original size:19 final size:17
Alignment explanation
Indices: 57936--57970 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
57926 CAAAATAATA
57936 AAAATTACAAATAATACAG
1 AAAATTA-AAAT-ATACAG
57955 AAAATTAAAATATACA
1 AAAATTAAAATATACA
57971 AGGATCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.66, C:0.09, G:0.03, T:0.23
Consensus pattern (17 bp):
AAAATTAAAATATACAG
Found at i:59639 original size:20 final size:20
Alignment explanation
Indices: 59602--59646 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
59592 TTAACCTTTC
**
59602 ATATTTTTAGTTTATCATTT
1 ATATTTTTACCTTATCATTT
*
59622 ATATTTTTACCTTGTCATTT
1 ATATTTTTACCTTATCATTT
*
59642 TTATT
1 ATATT
59647 AATAAATCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.64
Consensus pattern (20 bp):
ATATTTTTACCTTATCATTT
Found at i:68732 original size:8 final size:8
Alignment explanation
Indices: 68721--68749 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
68711 ATATTAAAAT
68721 TTTAATAA
1 TTTAATAA
68729 TTTAATAA
1 TTTAATAA
68737 TTTAATAA
1 TTTAATAA
68745 TTTAA
1 TTTAA
68750 ATAAAACTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTAATAA
Found at i:68965 original size:20 final size:22
Alignment explanation
Indices: 68940--69000 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 22
68930 ATTTAAACAT
*
68940 ATAAAATTAAA-ATATAAA-TA
1 ATAAAATTAAATATAAAAAGTA
68960 ATAAAATTAAATATAAAAAGTA
1 ATAAAATTAAATATAAAAAGTA
68982 ATAAAACTTATAAT-TAAAA
1 ATAAAA-TTA-AATATAAAA
69001 TTAGTGACTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 11 0.31
21 6 0.17
22 8 0.22
23 8 0.22
24 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAAAATTAAATATAAAAAGTA
Found at i:70214 original size:3 final size:3
Alignment explanation
Indices: 70206--70286 Score: 69
Period size: 3 Copynumber: 27.0 Consensus size: 3
70196 CCTGTTTGTA
* *
70206 AAT AAT AAT TAT -TT AAT AAT AAT -AT AAT -AT ATAT ATAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT
* **
70250 AAT ATTT AAT AAT AAT AAT AAT AAT TTT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
70287 TTAAGTAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
2 5 0.08
3 50 0.78
4 9 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
AAT
Found at i:70250 original size:16 final size:16
Alignment explanation
Indices: 70219--70284 Score: 68
Period size: 16 Copynumber: 4.3 Consensus size: 16
70209 AATAATTATT
70219 TAATA-ATAAT-ATAA
1 TAATATATAATAATAA
70233 T-ATATATATATAATAA
1 TAATATATA-ATAATAA
*
70249 TAATATTTAATAATAA
1 TAATATATAATAATAA
**
70265 TAATA-ATAATTTTAA
1 TAATATATAATAATAA
70280 TAATA
1 TAATA
70285 ATTTAAGTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
13 3 0.07
14 4 0.09
15 14 0.32
16 17 0.39
17 6 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATATAATAATAA
Found at i:70251 original size:19 final size:19
Alignment explanation
Indices: 70206--70272 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
70196 CCTGTTTGTA
*
70206 AATAATAAT-TATTTA-AT
1 AATAATAATATATATATAT
70223 AATAATATAATATATATATAT
1 AAT-A-ATAATATATATATAT
*
70244 AATAATAATATTTA-ATAAT
1 AATAATAATATATATAT-AT
70263 AATAATAATA
1 AATAATAATA
70273 ATTTTAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.07
18 3 0.07
19 26 0.60
20 6 0.14
21 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAATAATATATATATAT
Found at i:70260 original size:37 final size:34
Alignment explanation
Indices: 70206--70286 Score: 110
Period size: 37 Copynumber: 2.3 Consensus size: 34
70196 CCTGTTTGTA
70206 AATAATAATTATTTAATAATAAT-ATAATATATATATAT
1 AATAATAA-TATTTAATAATAATAATAATA-AT-T-T-T
70244 AATAATAATATTTAATAATAATAATAATAATTTT
1 AATAATAATATTTAATAATAATAATAATAATTTT
70278 AATAATAAT
1 AATAATAAT
70287 TTAAGTAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
34 10 0.24
35 1 0.02
36 1 0.02
37 16 0.38
38 14 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (34 bp):
AATAATAATATTTAATAATAATAATAATAATTTT
Found at i:70280 original size:21 final size:21
Alignment explanation
Indices: 70219--70286 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 21
70209 AATAATTATT
* *
70219 TAATAATAATATAATATATATATA
1 TAATAATAATTTTA-ATA-ATA-A
70243 TAATAATAATATTTAATAATAA
1 TAATAATAAT-TTTAATAATAA
70265 TAATAATAATTTTAATAATAA
1 TAATAATAATTTTAATAATAA
70286 T
1 T
70287 TTAAGTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
21 12 0.29
22 11 0.27
23 3 0.07
24 13 0.32
25 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAATAATAATTTTAATAATAA
Found at i:70532 original size:76 final size:76
Alignment explanation
Indices: 70440--71151 Score: 1302
Period size: 76 Copynumber: 9.4 Consensus size: 76
70430 GAGGTCTTAA
** *
70440 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGATTTTGAAAACATTAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
70505 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
70516 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCAA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
70581 AGGCTTTTTGG
66 AGGCTTTTTGG
70592 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
70657 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
70668 AAACATCATGCACTGCAGGACTTACAGATGACCTTAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
70733 AGGCTTTTTGG
66 AGGCTTTTTGG
*
70744 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
70808 AGGCTTTTTGG
66 AGGCTTTTTGG
*
70819 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAATATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
70884 AGGCTTTTTGG
66 AGGCTTTTTGG
*
70895 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
70959 AGGCTTTTTGG
66 AGGCTTTTTGG
*
70970 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
71035 AGGCTTTTTGG
66 AGGCTTTTTGG
71046 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
71111 AGGCTTTTTGG
66 AGGCTTTTTGG
*
71122 AAACATCATGCACTGCATGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
71152 TGGGAAATAG
Statistics
Matches: 616, Mismatches: 18, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
75 146 0.24
76 470 0.76
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:70857 original size:151 final size:151
Alignment explanation
Indices: 70440--71151 Score: 1298
Period size: 151 Copynumber: 4.7 Consensus size: 151
70430 GAGGTCTTAA
* *
70440 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGATTTTGAAAACATTAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAG-GTTTGAAAACATCAAAAAGCTCCCGA
*
70505 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAA
65 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
*
70570 AAAGCTCCCAAAGGCTTTTTGG
130 AAAGCTCCCGAAGGCTTTTTGG
70592 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCTCCCGA
* *
70657 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCTTAAGGCTTTAAAAACATCAA
65 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
70722 AAAGCTCCCGAAGGCTTTTTGG
130 AAAGCTCCCGAAGGCTTTTTGG
*
70744 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTGAAAACATCAAAAAGCTCCCGAA
*
70809 GGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAATATCAAA
66 GGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
70874 AAGCTCCCGAAGGCTTTTTGG
131 AAGCTCCCGAAGGCTTTTTGG
*
70895 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTGAAAACATCAAAAAGCTCCCGAA
70960 GGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
*
71025 AAGCTCCTGAAGGCTTTTTGG
131 AAGCTCCCGAAGGCTTTTTGG
71046 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCTCCCGA
*
71111 AGGCTTTTTGGAAACATCATGCACTGCATGACTTACAGATG
65 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
71152 TGGGAAATAG
Statistics
Matches: 544, Mismatches: 14, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
151 296 0.54
152 248 0.46
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (151 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTGAAAACATCAAAAAGCTCCCGAA
GGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
AAGCTCCCGAAGGCTTTTTGG
Found at i:70889 original size:227 final size:227
Alignment explanation
Indices: 70440--71151 Score: 1300
Period size: 227 Copynumber: 3.1 Consensus size: 227
70430 GAGGTCTTAA
* *
70440 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGATTTTGAAAACATTAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAG-GTTTGAAAACATCAAAAAGCTCCCGA
*
70505 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAA
65 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
*
70570 AAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
130 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
70635 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
195 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
* *
70668 AAACATCATGCACTGCAGGACTTACAGATGACCTTAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGG-TTTGAAAACATCAAAAAGCTCCCGA
*
70733 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAA
65 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
70797 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
130 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTT
*
70862 GAAAATATCAAAAAGCTCCCGAAGGCTTTTTGG
195 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
70895 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCCCGAA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTGAAAACATCAAAAAGCTCCCGAA
70960 GGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
66 GGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
*
71025 AAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTG
131 AAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTG
71090 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
196 AAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
71122 AAACATCATGCACTGCATGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
71152 TGGGAAATAG
Statistics
Matches: 468, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
226 73 0.16
227 286 0.61
228 109 0.23
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (227 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTGAAAACATCAAAAAGCTCCCGAA
GGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAA
AAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTG
AAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
Found at i:72019 original size:22 final size:22
Alignment explanation
Indices: 71994--72048 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
71984 CATAAAGCTT
*
71994 TCATTTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
72016 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
72038 TCATCTTTGAA
1 TCATCTTTGAA
72049 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:74784 original size:114 final size:114
Alignment explanation
Indices: 74584--74918 Score: 553
Period size: 114 Copynumber: 2.9 Consensus size: 114
74574 GATCATGCAG
* * * *
74584 TTCATCTTTTAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCCTACCAAATCAGATCAGATAACTCAAAGA
*
74649 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATAAGCAAA
*
74698 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTCCTACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCCTACCAAATCAGATCAGATAACTCAAAGA
*
74763 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTATACTATAAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATAAGCAAA
* * * *
74812 CTCATCTTTCAAATCCAATGATTTGGTTTTGGGGCTCATACCAAATCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGA-TTGGTTCTGGGGTTCCTACCAAATCAGATCAGATAACTCAAAG
*
74877 AACACTTCCAGAAGATGCTATTAGGTCTCCTTATTTCTACTA
65 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
74919 CGAGAACGTG
Statistics
Matches: 206, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
114 127 0.62
115 79 0.38
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCCTACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATAAGCAAA
Found at i:79151 original size:21 final size:22
Alignment explanation
Indices: 79125--79165 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
79115 AAAAAGTAAG
79125 AATAC-AAAATGGAAATGCACA
1 AATACAAAAATGGAAATGCACA
*
79146 AATACAAAAATGTAAATGCA
1 AATACAAAAATGGAAATGCA
79166 TGTATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.17
Consensus pattern (22 bp):
AATACAAAAATGGAAATGCACA
Found at i:82190 original size:21 final size:22
Alignment explanation
Indices: 82166--82209 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
82156 AAACATTTTC
82166 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
82187 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
82209 T
1 T
82210 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:82510 original size:21 final size:21
Alignment explanation
Indices: 82462--82558 Score: 76
Period size: 21 Copynumber: 4.5 Consensus size: 21
82452 GAATAAGATA
*
82462 ATAATA-AAATAATTATGAAAATA
1 ATAATATAAA-AA-TAT-AAAATT
* *
82485 ATAATTTAAACATATAAAATT
1 ATAATATAAAAATATAAAATT
*
82506 ATAATATAAATA-ATAAAATT
1 ATAATATAAAAATATAAAATT
82526 A-AATATAAAAAGTAATAAAACTT
1 ATAATATAAAAA-T-ATAAAA-TT
82549 ATAAT-TAAAA
1 ATAATATAAAA
82559 TTAGTGACTA
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
19 9 0.15
20 9 0.15
21 15 0.24
22 9 0.15
23 14 0.23
24 6 0.10
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
ATAATATAAAAATATAAAATT
Found at i:83775 original size:3 final size:3
Alignment explanation
Indices: 83767--83849 Score: 71
Period size: 3 Copynumber: 27.0 Consensus size: 3
83757 CCTATTTATA
* *
83767 AAT AAT AAT TAT -TT AAT AAT AAT -AT AAT ATAT ATAT ATAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT A-AT AAT AAT
* **
83813 AAT ATTT AAT AAT AAT AAT AAT AAT TTT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
83850 TTAAGTAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
2 3 0.04
3 51 0.76
4 13 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
AAT
Found at i:83831 original size:37 final size:37
Alignment explanation
Indices: 83767--83849 Score: 75
Period size: 34 Copynumber: 2.2 Consensus size: 37
83757 CCTATTTATA
* *
83767 AATAATAAT-TATTTAATAATAATATAATATATATATATAT
1 AATAATAATATA-ATAATAAT-ATATAATA-ATA-ATATTT
*
83807 AATAATAATAT-TTAATAATA-ATAATAATAAT-TTT
1 AATAATAATATAATAATAATATATAATAATAATATTT
83841 AATAATAAT
1 AATAATAAT
83850 TTAAGTAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
34 11 0.27
35 2 0.05
36 3 0.07
37 6 0.15
38 1 0.02
39 8 0.20
40 9 0.22
41 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (37 bp):
AATAATAATATAATAATAATATATAATAATAATATTT
Found at i:88061 original size:2 final size:2
Alignment explanation
Indices: 88054--88097 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
88044 AAATAGCTTA
88054 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88096 AT
1 AT
88098 TTATTACTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88770 original size:14 final size:15
Alignment explanation
Indices: 88733--88762 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
88723 CAGATAGCAT
88733 ACAATAAAA-AATTA
1 ACAATAAAATAATTA
88747 ACAATAAAATAATTA
1 ACAATAAAATAATTA
88762 A
1 A
88763 ATTAAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (15 bp):
ACAATAAAATAATTA
Found at i:90506 original size:48 final size:50
Alignment explanation
Indices: 90384--90510 Score: 177
Period size: 48 Copynumber: 2.6 Consensus size: 50
90374 ATGTATATAT
90384 TTACACCAGTGTAAGTATGTGTTAAGTGCTACACCCTTTTATTTTATTCAC
1 TTACACCAGTGTAAGTATGTGTTAAGTGCTACA-CCTTTTATTTTATTCAC
* *
90435 TTACATCAGTGTAAGTATGTGTTAAGTGCTGCA-CTTTT-TTTTATTCAC
1 TTACACCAGTGTAAGTATGTGTTAAGTGCTACACCTTTTATTTTATTCAC
* * * *
90483 TTACACCGGTGTTAGTGTATGTTAAGTG
1 TTACACCAGTGTAAGTATGTGTTAAGTG
90511 TTAAACATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 33 0.48
49 5 0.07
51 31 0.45
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.43
Consensus pattern (50 bp):
TTACACCAGTGTAAGTATGTGTTAAGTGCTACACCTTTTATTTTATTCAC
Found at i:96550 original size:57 final size:57
Alignment explanation
Indices: 96486--97029 Score: 802
Period size: 57 Copynumber: 9.5 Consensus size: 57
96476 GTGCAAAATA
96486 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * *
96543 TAAGAAATCATACCAAGTTTATGAATTTCAGATAGGGCGTTTCGTATGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * * *
96600 TAAGAAATCATACTAAGTGTATGAATTTCAGATAAGGCGTTTTGTATGCTAAAATAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * * ** * *
96657 AAATAAATCATACTAAGTGTCTGAATTTTGGATAGGGCATTTCGTACGCTAAAATAT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
96714 TAAGAAATCATACTAAGTGTATGAATTTCAAATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* *
96771 TAAGAAATCATACTAAGTGTATGAATTTAAGATAAGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
*
96828 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGTGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* * *
96885 TAAGAAATCATACTAAGTGTATGAATTTCAAATAGGGCGATTCATACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
* ** *** *
96942 TAAGAAATCATACTAAGCGTATGAATTTCTAGATAGGGCACTTCGTGTTCTAACAA-GA
1 TAAGAAATCATACTAAGTGTATGAATTTC-AGATAGGGCGTTTCGTACGCTAA-AATGT
97000 TAAGAAATTCATACTAAGTGTATGAATTTC
1 TAAGAAA-TCATACTAAGTGTATGAATTTC
97030 TGTATTGGAC
Statistics
Matches: 439, Mismatches: 45, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
57 392 0.89
58 24 0.05
59 23 0.05
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
Found at i:97514 original size:2 final size:2
Alignment explanation
Indices: 97507--97542 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
97497 ATGAAGGGAT
97507 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
97543 ATGTATAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:115504 original size:181 final size:183
Alignment explanation
Indices: 115190--115527 Score: 466
Period size: 181 Copynumber: 1.9 Consensus size: 183
115180 TTACAGTGAC
* * * *
115190 TAAATAATTTTGTTACAATTTGTTATTGTGAAAGAATATTATTTGTCACATTTATTTTTATAATG
1 TAAATAATTTTGTTACAATTTGTTATTGTGAAAAAATATTACTTGTCACATATATTTTTATAATA
* ** * ** *
115255 AGAAATTAATATTTTTTTATAAATTTTTATTTTGATTAAATAAATTTATCAATTTTTTTTAATTT
66 AAAAATTAATATTTTGCTATAAATTATTATTTTGATTAAATAAATTTATCAAAATATTTTAATTT
* *
115320 GACAAAGTATTGGGACGAAATAAATTTAACATGACTGTTTACTTTGATTAAAT
131 GACAAAATATTGGGACAAAATAAATTTAACATGACTGTTTACTTTGATTAAAT
* * * *
115373 TAAATAATTTTTTTGCAATTTGTTATTTTGAAAAAAATATTACTTGTCACA-AT-TTTTTATGAT
1 TAAATAATTTTGTTACAATTTGTTATTGTG-AAAAAATATTACTTGTCACATATATTTTTATAAT
* *
115436 AAAAAATTAATA-TTTGCTATAAATTATTATTTTGATTAAATAAATTTGTCAAAATATTTTATTT
65 AAAAAATTAATATTTTGCTATAAATTATTATTTTGATTAAATAAATTTATCAAAATATTTTAATT
*
115500 TGACAAAATATTGTGACAAAATAAATTT
130 TGACAAAATATTGGGACAAAATAAATTT
115528 GATATAAAAT
Statistics
Matches: 134, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
181 69 0.51
182 19 0.14
183 28 0.21
184 18 0.13
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.48
Consensus pattern (183 bp):
TAAATAATTTTGTTACAATTTGTTATTGTGAAAAAATATTACTTGTCACATATATTTTTATAATA
AAAAATTAATATTTTGCTATAAATTATTATTTTGATTAAATAAATTTATCAAAATATTTTAATTT
GACAAAATATTGGGACAAAATAAATTTAACATGACTGTTTACTTTGATTAAAT
Found at i:120229 original size:20 final size:20
Alignment explanation
Indices: 120204--120247 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
120194 AGATAGTATT
*
120204 GATATTGTATGAACATTATC
1 GATATTGTATGAACAATATC
120224 GATATTGTATGAACAATATC
1 GATATTGTATGAACAATATC
120244 GATA
1 GATA
120248 CTATTCATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (20 bp):
GATATTGTATGAACAATATC
Found at i:120894 original size:19 final size:18
Alignment explanation
Indices: 120872--120918 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
120862 AGTGAATAAT
120872 AATATAAGTAATGAAAAGA
1 AATATAAG-AATGAAAAGA
*
120891 AATAATAAGAATGAAATGA
1 AAT-ATAAGAATGAAAAGA
120910 AATA-AAGAA
1 AATATAAGAA
120919 ACGATAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 15 0.58
20 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (18 bp):
AATATAAGAATGAAAAGA
Found at i:121371 original size:19 final size:19
Alignment explanation
Indices: 121344--121380 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
121334 ACATGATTTT
*
121344 TTTTGATGAAAATACATGA
1 TTTTAATGAAAATACATGA
*
121363 TTTTAATGAAGATACATG
1 TTTTAATGAAAATACATG
121381 CTCTTGGCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (19 bp):
TTTTAATGAAAATACATGA
Found at i:122299 original size:30 final size:31
Alignment explanation
Indices: 122260--122319 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
122250 ACATGCTGCC
**
122260 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
* *
122291 ATGA-ATCTAAAACATATGTAAGCATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
122320 TAGAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:124760 original size:18 final size:18
Alignment explanation
Indices: 124734--124788 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
124724 CTTTTTGAAC
*
124734 TTCTCTTTTTCTTTTCTT
1 TTCTATTTTTCTTTTCTT
*
124752 TTCTTTTTTTC-TTT-TT
1 TTCTATTTTTCTTTTCTT
*
124768 TTCTGATTTTTCTCTTCTT
1 TTCT-ATTTTTCTTTTCTT
124787 TT
1 TT
124789 TGCACTCCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 9 0.29
18 12 0.39
19 4 0.13
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (18 bp):
TTCTATTTTTCTTTTCTT
Found at i:125076 original size:19 final size:18
Alignment explanation
Indices: 125054--125100 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
125044 AGTGAATAAT
125054 AATATAAGTAATGAAAAGA
1 AATATAAG-AATGAAAAGA
*
125073 AATAATAAGAATGAAATGA
1 AAT-ATAAGAATGAAAAGA
125092 AATA-AAGAA
1 AATATAAGAA
125101 ATGATAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 15 0.58
20 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (18 bp):
AATATAAGAATGAAAAGA
Found at i:125547 original size:19 final size:20
Alignment explanation
Indices: 125509--125553 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
125499 GAAACCCATT
*
125509 TGAAAATACATGATTTTTTTGA
1 TGAAAATACATGA--TTTTTAA
125531 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
125550 TGAA
1 TGAA
125554 GATTCATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
22 13 0.59
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:129292 original size:64 final size:65
Alignment explanation
Indices: 129176--129311 Score: 186
Period size: 64 Copynumber: 2.1 Consensus size: 65
129166 ACACTAATTA
* **
129176 CATTCGATGTTTCAAACAAGCCAGGAGTGCATTGATGCATTGTCTGTGCATCAGTACACAAAATG
1 CATTCGATGTTTCAAACAAGCCAGGAGTGCATCGATGCATTGTCTGCACATCAGTACACAAAATG
* * * *
129241 CATTCGATGTTTCAATA-AA-TCATGAGTGCATCGATGCATTGTGTGCACATCAGTACACTAAAT
1 CATTCGATGTTTCAA-ACAAGCCAGGAGTGCATCGATGCATTGTCTGCACATCAGTACACAAAAT
129304 G
65 G
129305 CATTCGA
1 CATTCGA
129312 AATGGAGTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
64 45 0.71
65 17 0.27
66 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (65 bp):
CATTCGATGTTTCAAACAAGCCAGGAGTGCATCGATGCATTGTCTGCACATCAGTACACAAAATG
Found at i:131240 original size:20 final size:20
Alignment explanation
Indices: 131215--131265 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
131205 TGATGAGGGT
*
131215 ATCGATACACAACAGAGTAC
1 ATCGATGCACAACAGAGTAC
*
131235 ATCGATGCACAGCAGAGTAC
1 ATCGATGCACAACAGAGTAC
131255 ATCGATGCACA
1 ATCGATGCACA
131266 TTCAAGGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGATGCACAACAGAGTAC
Found at i:131286 original size:23 final size:22
Alignment explanation
Indices: 131254--131324 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
131244 CAGCAGAGTA
131254 CATCGATGCACATTCAAGGAATG
1 CATCGATGCACATTCAAGG-ATG
* *
131277 CATCGGTGCATC-TTC-ATGATG
1 CATCGATGCA-CATTCAAGGATG
*
131298 TATCGATGCACATTCAAGGCATG
1 CATCGATGCACATTCAAGG-ATG
131321 CATC
1 CATC
131325 AGTACGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.37
22 4 0.11
23 18 0.47
24 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (22 bp):
CATCGATGCACATTCAAGGATG
Found at i:143555 original size:26 final size:26
Alignment explanation
Indices: 143523--143599 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
143513 TTAATTGGAC
143523 TAAAAGAGCT-AATAAATCT-TTTCTAA
1 TAAAAGAG-TAAATAAATCTCTTT-TAA
143549 TAAAAGAGTAAATAAATCTCTTTTAA
1 TAAAAGAGTAAATAAATCTCTTTTAA
*
143575 TAAAAGA-TGAATTAAATCTCTTTTA
1 TAAAAGAGT-AAATAAATCTCTTTTA
143600 TCTTTATCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
25 2 0.04
26 42 0.89
27 3 0.06
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (26 bp):
TAAAAGAGTAAATAAATCTCTTTTAA
Found at i:146347 original size:18 final size:19
Alignment explanation
Indices: 146326--146363 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
146316 TCGATACTGA
146326 CCTT-TCAGTATCAATACC
1 CCTTCTCAGTATCAATACC
146344 CCTTCCTCAGTATCAATACC
1 CCTT-CTCAGTATCAATACC
146364 TCAACTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
20 14 0.78
ACGTcount: A:0.26, C:0.37, G:0.05, T:0.32
Consensus pattern (19 bp):
CCTTCTCAGTATCAATACC
Found at i:148328 original size:120 final size:120
Alignment explanation
Indices: 148112--148480 Score: 576
Period size: 120 Copynumber: 3.1 Consensus size: 120
148102 TACACTTATG
* * *
148112 CGATTTAGGTTCGATCTTTGTAGACATCTGATGTTTGACATAAGGTTCGCAACCCCAAATCTTCA
1 CGATTTAGGTTCGAGCTTTGTACACATCTGATGTTTGACATAAGGTTCGTAACCCCAAATCTTCA
* * * *
148177 TTAAAGTCATATTAGGACGCTTCCCAGTCCATATCTCATATAGTGTCTTTTGAAC
66 TAAAAGACATACTAGGACGCTTCCCAGTCCATATCTCATATGGTGTCTTTTGAAC
148232 CGATTTAGGTTCGAGCTTTGTACACATCTGATGTTTGACATAAGGTTCGTAACCCCAAATCTTCA
1 CGATTTAGGTTCGAGCTTTGTACACATCTGATGTTTGACATAAGGTTCGTAACCCCAAATCTTCA
* *
148297 TAAAAGACATACTAGGACACTTCCCAATCCATATCTCATATGGTGTCTTTTGAAC
66 TAAAAGACATACTAGGACGCTTCCCAGTCCATATCTCATATGGTGTCTTTTGAAC
* * * * *
148352 CGATTTAGGTTTGAGCTTTGTATACATCTGATGTTTGACATAAAGTTTGTAACCCCAAATCATCA
1 CGATTTAGGTTCGAGCTTTGTACACATCTGATGTTTGACATAAGGTTCGTAACCCCAAATCTTCA
* *
148417 TAAAAGACGTACTAGGATGCTTCCCAGTCCATATCTCATATGGTGTCTTTTGAAC
66 TAAAAGACATACTAGGACGCTTCCCAGTCCATATCTCATATGGTGTCTTTTGAAC
*
148472 AAGATTTAG
1 -CGATTTAG
148481 TGTGAAAGCG
Statistics
Matches: 229, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
120 222 0.97
121 7 0.03
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (120 bp):
CGATTTAGGTTCGAGCTTTGTACACATCTGATGTTTGACATAAGGTTCGTAACCCCAAATCTTCA
TAAAAGACATACTAGGACGCTTCCCAGTCCATATCTCATATGGTGTCTTTTGAAC
Found at i:151295 original size:16 final size:16
Alignment explanation
Indices: 151266--151298 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
151256 TTATGTATCA
151266 AACATACGTCGTTACT
1 AACATACGTCGTTACT
151282 AACA-ACGTCTGTTACT
1 AACATACGTC-GTTACT
151298 A
1 A
151299 TAAAAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (16 bp):
AACATACGTCGTTACT
Found at i:152071 original size:2 final size:2
Alignment explanation
Indices: 152012--152055 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
152002 TAAACATGTC
152012 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
152054 AT
1 AT
152056 GATCTTAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:172767 original size:18 final size:19
Alignment explanation
Indices: 172744--172786 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
172734 GTACAAAAAG
172744 AAAGAAAAG-ACAAAAGAA
1 AAAGAAAAGAACAAAAGAA
*
172762 AAAGAAAAGAAGAAAAGAA
1 AAAGAAAAGAACAAAAGAA
172781 AAAGAA
1 AAAGAA
172787 TAATTTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAACAAAAGAA
Found at i:182425 original size:18 final size:17
Alignment explanation
Indices: 182398--182445 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
182388 TTTTCTATCT
*
182398 TTATTT-CATTTTTTTT
1 TTATTTCCATTTTTTTA
182414 TCTATTTCCATTATTTTTA
1 T-TATTTCCATT-TTTTTA
182433 TTATTATCCATTT
1 TTATT-TCCATTT
182446 CTTAATTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 1 0.04
17 5 0.19
18 9 0.33
19 12 0.44
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTTCCATTTTTTTA
Found at i:187717 original size:82 final size:82
Alignment explanation
Indices: 187619--187785 Score: 334
Period size: 82 Copynumber: 2.0 Consensus size: 82
187609 AAGGAAGATA
187619 AACATTCTTTGTTTGTTCAGCAAGAGGGAAAATATCACAAGTAAAGGTTTTAGGACTTTTATTGA
1 AACATTCTTTGTTTGTTCAGCAAGAGGGAAAATATCACAAGTAAAGGTTTTAGGACTTTTATTGA
187684 TAAATAGATGTGGAAAC
66 TAAATAGATGTGGAAAC
187701 AACATTCTTTGTTTGTTCAGCAAGAGGGAAAATATCACAAGTAAAGGTTTTAGGACTTTTATTGA
1 AACATTCTTTGTTTGTTCAGCAAGAGGGAAAATATCACAAGTAAAGGTTTTAGGACTTTTATTGA
187766 TAAATAGATGTGGAAAC
66 TAAATAGATGTGGAAAC
187783 AAC
1 AAC
187786 TTTGCAAGAT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 85 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (82 bp):
AACATTCTTTGTTTGTTCAGCAAGAGGGAAAATATCACAAGTAAAGGTTTTAGGACTTTTATTGA
TAAATAGATGTGGAAAC
Found at i:195261 original size:81 final size:81
Alignment explanation
Indices: 195156--195358 Score: 223
Period size: 81 Copynumber: 2.5 Consensus size: 81
195146 AAAATGCCGA
* * * * * *
195156 AACAG-ATCAGTACTTCAGCGGCGTTTTTATACAAATGTCGCAATAGGTTAATCCATAGTGGCAT
1 AACAGAAT-AGTACTTTAGCGGCGTTTTTATACAAACGCCGCAAGAGGGTAATCCATAGTGGC-G
* *
195220 TTTTTCAATGAACTCC-C
64 TTTTTCAATAAACGCCAC
* * * * * **
195237 AACATAGTGGTACTTTAGCGGCGTTTTTATACAAACGCCGCAGGAGGGTCATCTGTAGTGGCGTT
1 AACAGAATAGTACTTTAGCGGCGTTTTTATACAAACGCCGCAAGAGGGTAATCCATAGTGGCGTT
195302 TTTCAATAAACGCCAC
66 TTTCAATAAACGCCAC
*
195318 AACCGAATAGTACTTT-GCGGCGTTTTTATACAAACGCCGCA
1 AACAGAATAGTACTTTAGCGGCGTTTTTATACAAACGCCGCA
195359 TAGTATTCAT
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
80 39 0.39
81 61 0.60
82 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (81 bp):
AACAGAATAGTACTTTAGCGGCGTTTTTATACAAACGCCGCAAGAGGGTAATCCATAGTGGCGTT
TTTCAATAAACGCCAC
Found at i:195369 original size:80 final size:82
Alignment explanation
Indices: 195246--195395 Score: 216
Period size: 80 Copynumber: 1.9 Consensus size: 82
195236 CAACATAGTG
* * *
195246 GTACTTTAGCGGCGTTTTTATACAAACGCCGCAGGAGGGTCATCTGTAGTGGCGTTT-TTCAATA
1 GTACTTTAGCGGCGTTTTTATACAAACGCCGCAGGAGAGTCATCTATAGTGGCGTTTATTCAACA
195310 AACGCCACAACCGAATA
66 AACGCCACAACCGAATA
* * *
195327 GTACTTT-GCGGCGTTTTTATACAAACGCCGCA-TAGTATTCATCTATATTGGCGTTTATTCAAC
1 GTACTTTAGCGGCGTTTTTATACAAACGCCGCAGGAG-AGTCATCTATAGTGGCGTTTATTCAAC
195390 AAACGC
65 AAACGC
195396 TGCAATAGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
79 2 0.03
80 41 0.67
81 18 0.30
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (82 bp):
GTACTTTAGCGGCGTTTTTATACAAACGCCGCAGGAGAGTCATCTATAGTGGCGTTTATTCAACA
AACGCCACAACCGAATA
Found at i:195438 original size:81 final size:81
Alignment explanation
Indices: 195246--195466 Score: 182
Period size: 81 Copynumber: 2.7 Consensus size: 81
195236 CAACATAGTG
* * * ** * *
195246 GTACTTTAGCGGCGTTTTTATACAAACGCCGC-AGGAG-GGTCATCTGTAGTGGCGTTTTTCAAT
1 GTACTTT-GCGGCGGTTATATACAAACGCCGCTA-TAGTATTCATCTATAGTGGCGTTTTTCAAC
*
195309 AAACGCCACAACCGAATA
64 AAACGCCACAACAGAATA
* * *
195327 GTACTTTGCGGCGTTTTTATACAAACGCCGC-ATAGTATTCATCTATATTGGCGTTTATTCAACA
1 GTACTTTGCGGCGGTTATATACAAACGCCGCTATAGTATTCATCTATAGTGGCGTTT-TTCAACA
** * *
195391 AACGCTGCAATAGAGTA
65 AACGCCACAACAGAATA
* * * * *
195408 GTACTTTAGTGGCGGTTAT-TACAAATGCCGCTATAG-ACTCTTACTTTAGTGGCGTTTTT
1 GTACTTT-GCGGCGGTTATATACAAACGCCGCTATAGTATTCAT-CTATAGTGGCGTTTTT
195467 AGAAAAACAC
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
79 2 0.02
80 41 0.35
81 49 0.42
82 24 0.21
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (81 bp):
GTACTTTGCGGCGGTTATATACAAACGCCGCTATAGTATTCATCTATAGTGGCGTTTTTCAACAA
ACGCCACAACAGAATA
Found at i:195444 original size:40 final size:40
Alignment explanation
Indices: 195388--195632 Score: 156
Period size: 42 Copynumber: 6.0 Consensus size: 40
195378 CGTTTATTCA
* * * *
195388 ACAAACGCTGCAATAGAGTAGTACTTTAGTGGCGGTTATT
1 ACAAACGCCGCTATAGACTAGTACTTTAGTGGCGGTTTTT
* **
195428 ACAAATGCCGCTATAGACTCTTACTTTAGTGGC-GTTTTT
1 ACAAACGCCGCTATAGACTAGTACTTTAGTGGCGGTTTTT
* * * * *
195467 AGAAAAACACCGCTATGGACTCGTACTTTAGTGGCGTTTTTAT
1 --ACAAACGCCGCTATAGACTAGTACTTTAGTGGCGGTTTT-T
* * *
195510 ACAAACGCTGCTAAAGACTAGTACTTTAGT-GCGTTTTTGTTT
1 ACAAACGCCGCTATAGACTAGTACTTTAGTGGCG--GTT-TTT
* * * * * * *
195552 ACAGACGCCACTAAAGACTGGTATTTTAGTAGCGTTTTGTTT
1 ACAAACGCCGCTATAGACTAGTACTTTAGTGGCG-GTT-TTT
* * *
195594 ACAAACGCCGCTAAATACT-GATACTTTAGTGAC-GTTTTT
1 ACAAACGCCGCTATAGACTAG-TACTTTAGTGGCGGTTTTT
195633 GTTTACCAAC
Statistics
Matches: 165, Mismatches: 31, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
39 8 0.05
40 32 0.19
41 53 0.32
42 66 0.40
43 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (40 bp):
ACAAACGCCGCTATAGACTAGTACTTTAGTGGCGGTTTTT
Found at i:195494 original size:41 final size:41
Alignment explanation
Indices: 195435--195547 Score: 147
Period size: 41 Copynumber: 2.8 Consensus size: 41
195425 ATTACAAATG
*
195435 CCGCTATAGACTCTTACTTTAGTGGCGTTTTTAGAAAAACA
1 CCGCTATAGACTCGTACTTTAGTGGCGTTTTTAGAAAAACA
* * * *
195476 CCGCTATGGACTCGTACTTTAGTGGCGTTTTTATACAAACG
1 CCGCTATAGACTCGTACTTTAGTGGCGTTTTTAGAAAAACA
* * *
195517 CTGCTAAAGACTAGTACTTTAGT-GCGTTTTT
1 CCGCTATAGACTCGTACTTTAGTGGCGTTTTT
195548 GTTTACAGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
40 8 0.13
41 55 0.87
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (41 bp):
CCGCTATAGACTCGTACTTTAGTGGCGTTTTTAGAAAAACA
Found at i:195580 original size:42 final size:41
Alignment explanation
Indices: 195484--195655 Score: 179
Period size: 42 Copynumber: 4.1 Consensus size: 41
195474 CACCGCTATG
* * *
195484 GACTCGTACTTTAGTGGCG-TTTT-TATACAAACGCTGCTAAA
1 GACTGGTACTTTAGT-GCGTTTTTGTTTAC-AACGCCGCTAAA
* *
195525 GACTAGTACTTTAGTGCGTTTTTGTTTACAGACGCCACTAAA
1 GACTGGTACTTTAGTGCGTTTTTGTTTACA-ACGCCGCTAAA
*
195567 GACTGGTATTTTAGTAGCG-TTTTGTTTACAAACGCCGCTAAA
1 GACTGGTACTTTAGT-GCGTTTTTGTTTAC-AACGCCGCTAAA
* * *
195609 TACTGATACTTTAGTGACGTTTTTGTTTACCAACACCGCTAAA
1 GACTGGTACTTTAGTG-CGTTTTTGTTTA-CAACGCCGCTAAA
195652 GACT
1 GACT
195656 CTTGTGTTTG
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
40 3 0.03
41 20 0.18
42 60 0.54
43 27 0.24
44 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (41 bp):
GACTGGTACTTTAGTGCGTTTTTGTTTACAACGCCGCTAAA
Found at i:195608 original size:84 final size:84
Alignment explanation
Indices: 195484--195656 Score: 226
Period size: 84 Copynumber: 2.1 Consensus size: 84
195474 CACCGCTATG
* *
195484 GACTCGTACTTTAGTGGCGTTTTTATACAAACGCTGCTAAAGACT-AGTACTTTAGTG-CGTTTT
1 GACTCGTACTTTAGTAGCGTTTTTATACAAACGCCGCTAAAGACTGA-TACTTTAGTGACGTTTT
*
195547 TGTTTA-CAGACGCCACTAAA
65 TGTTTACCA-ACACCACTAAA
* * * *
195567 GACTGGTATTTTAGTAGCGTTTTGTTTACAAACGCCGCTAAATACTGATACTTTAGTGACGTTTT
1 GACTCGTACTTTAGTAGCGTTTT-TATACAAACGCCGCTAAAGACTGATACTTTAGTGACGTTTT
*
195632 TGTTTACCAACACCGCTAAA
65 TGTTTACCAACACCACTAAA
195652 GACTC
1 GACTC
195657 TTGTGTTTGT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
83 20 0.26
84 29 0.38
85 26 0.34
86 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (84 bp):
GACTCGTACTTTAGTAGCGTTTTTATACAAACGCCGCTAAAGACTGATACTTTAGTGACGTTTTT
GTTTACCAACACCACTAAA
Found at i:200827 original size:24 final size:24
Alignment explanation
Indices: 200800--200848 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
200790 TGCATGACAT
200800 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
*
200824 TGTACATAGATTTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
200848 T
1 T
200849 CAGGAAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:201046 original size:57 final size:58
Alignment explanation
Indices: 200978--201099 Score: 210
Period size: 58 Copynumber: 2.1 Consensus size: 58
200968 TGTGATATTT
*
200978 TACCATGAATGTTATTTCGGGTATGAAGTGTCC-AATGTTAAATATATGGTTATATGA
1 TACCATGAATGTTATTTCGGGTATGAAGTGCCCTAATGTTAAATATATGGTTATATGA
* *
201035 TACCATGAATGTTATTTTGGGTATGAATTGCCCTAATGTTAAATATATGGTTATATGA
1 TACCATGAATGTTATTTCGGGTATGAAGTGCCCTAATGTTAAATATATGGTTATATGA
201093 TACCATG
1 TACCATG
201100 GATGAATGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
57 30 0.49
58 31 0.51
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (58 bp):
TACCATGAATGTTATTTCGGGTATGAAGTGCCCTAATGTTAAATATATGGTTATATGA
Found at i:201283 original size:59 final size:59
Alignment explanation
Indices: 201184--201317 Score: 178
Period size: 59 Copynumber: 2.3 Consensus size: 59
201174 CAACAGGCTG
* * ** *
201184 CATATTTGGGATTACACTAAAGGATACTTAGTGTATATGGTCGACACGACCTTATGTGT
1 CATATTTGGGATTGCACTAAAGGATACCTAGTACAGATGGTCGACACGACCTTATGTGT
* * *
201243 CATATTTGGGATTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTTGGGATTGCACTAAAGGATACCTAGTACAGATGGTCGACACGACCTTATGTGT
* *
201302 CATACTCGGGATTGCA
1 CATATTTGGGATTGCA
201318 TTACGGTGCA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (59 bp):
CATATTTGGGATTGCACTAAAGGATACCTAGTACAGATGGTCGACACGACCTTATGTGT
Found at i:201449 original size:45 final size:45
Alignment explanation
Indices: 201392--201544 Score: 279
Period size: 45 Copynumber: 3.4 Consensus size: 45
201382 ATGGTTTATG
*
201392 GTATATTGGTAAAATAAGCTTACGAGCTTATAGGATAAATGGTAA
1 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
* *
201437 GTATATTGGTAAAATAAGCTTACGATCTTATGGGATAAATGATAA
1 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
201482 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
1 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
201527 GTATATTGGTAAAATAAG
1 GTATATTGGTAAAATAAG
201545 AAATTTTATA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 103 1.00
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (45 bp):
GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
Found at i:203587 original size:22 final size:22
Alignment explanation
Indices: 203562--203706 Score: 94
Period size: 22 Copynumber: 6.8 Consensus size: 22
203552 GCATAAGAGC
*
203562 TAGAAAATGAAGAAGAAAGAAA
1 TAGAAAATGAAGAAAAAAGAAA
* * *
203584 TAGAAAAAGAAAAAAAACAAAAA
1 TAGAAAATGAAGAAAAA-AGAAA
*
203607 AAGAAAA-GAAGAAAACAA-AAA
1 TAGAAAATGAAGAAAA-AAGAAA
203628 -A-AAAAT-AAGAAAAAAGAAGA
1 TAGAAAATGAAGAAAAAAGAA-A
203648 -AGAAAAT-AAGAAAATAAGAAA
1 TAGAAAATGAAGAAAA-AAGAAA
* * *
203669 AAGAAAA-AAAGGAAGAAA-AAA
1 TAGAAAATGAA-GAAAAAAGAAA
*
203690 TAGAAAA-AAAGAAAAAA
1 TAGAAAATGAAGAAAAAA
203707 AAGATGAGAG
Statistics
Matches: 104, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
18 2 0.02
19 13 0.12
20 9 0.09
21 28 0.27
22 37 0.36
23 15 0.14
ACGTcount: A:0.79, C:0.01, G:0.15, T:0.05
Consensus pattern (22 bp):
TAGAAAATGAAGAAAAAAGAAA
Found at i:203605 original size:8 final size:8
Alignment explanation
Indices: 203587--203707 Score: 95
Period size: 8 Copynumber: 14.6 Consensus size: 8
203577 AAAGAAATAG
203587 AAAAAGAAA
1 AAAAAG-AA
*
203596 AAAAACAA
1 AAAAAGAA
203604 AAAAAGAA
1 AAAAAGAA
*
203612 AAGAAGAA
1 AAAAAGAA
203620 AACAAA-AA
1 AA-AAAGAA
*
203628 AAAAATAA
1 AAAAAGAA
*
203636 GAAAAA-AG
1 -AAAAAGAA
*
203644 AAGAAGAA
1 AAAAAGAA
*
203652 AATAAGAA
1 AAAAAGAA
*
203660 AATAAGAA
1 AAAAAGAA
203668 AAAGAA-AA
1 AAA-AAGAA
203676 AAAGGAAGAA
1 AAA--AAGAA
203686 AAAATAGAA
1 AAAA-AGAA
203695 AAAAAGAA
1 AAAAAGAA
203703 AAAAA
1 AAAAA
203708 AGATGAGAGG
Statistics
Matches: 95, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
7 7 0.07
8 58 0.61
9 25 0.26
10 5 0.05
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.03
Consensus pattern (8 bp):
AAAAAGAA
Found at i:203609 original size:29 final size:27
Alignment explanation
Indices: 203577--203708 Score: 94
Period size: 29 Copynumber: 4.9 Consensus size: 27
203567 AATGAAGAAG
203577 AAAGAAATAGAAAAAGAAAAAAAACAAAA
1 AAAGAAA-AGAAAAAGAAAAAAAA-AAAA
*
203606 AAAGAAAAGAAGAAA-ACAAAAAAAAAA
1 AAAGAAAAGAA-AAAGAAAAAAAAAAAA
* * * * *
203633 TAAGAAAA-AAGAAG-AAGAAAATAAG
1 AAAGAAAAGAAAAAGAAAAAAAAAAAA
*
203658 AAA-ATAAGAAAAAGAAAAAAAGGAAGAAA
1 AAAGAAAAGAAAAAGAAAAAAA--AA-AAA
* *
203687 AAATAGAA-AAAAAGAAAAAAAA
1 AAAGAAAAGAAAAAGAAAAAAAA
203709 GATGAGAGGT
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
24 3 0.04
25 16 0.20
26 7 0.09
27 12 0.15
28 12 0.15
29 28 0.35
30 3 0.04
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.04
Consensus pattern (27 bp):
AAAGAAAAGAAAAAGAAAAAAAAAAAA
Found at i:203652 original size:57 final size:56
Alignment explanation
Indices: 203585--203705 Score: 136
Period size: 57 Copynumber: 2.1 Consensus size: 56
203575 AGAAAGAAAT
*
203585 AGAAAAAGAAAAAAAACAAAAAAAG-AAAAGAAGAAAACAAAAAAAAAATAAGAAAAA
1 AGAAAAAG-AAAAAAACAAAAAAAGAAAAAGAAAAAAACAAAAAAAAAAT-AGAAAAA
* * * * ** *
203642 AGAAGAAGAAAATAAGAAAATAAGAAAAAGAAAAAAAGGAAGAAAAAATAGAAAAAA
1 AGAAAAAGAAAAAAACAAAAAAAGAAAAAGAAAAAAACAAAAAAAAAATAG-AAAAA
203699 AGAAAAA
1 AGAAAAA
203706 AAAGATGAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
56 15 0.28
57 38 0.72
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (56 bp):
AGAAAAAGAAAAAAACAAAAAAAGAAAAAGAAAAAAACAAAAAAAAAATAGAAAAA
Found at i:206635 original size:48 final size:48
Alignment explanation
Indices: 206580--206677 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
206570 GGTCTGGAAA
*
206580 TGATGTAGGAAATATTTTGCAAGCTCTAGAAAAATTTGGGGACCATTT
1 TGATGTAGGAAATATTTTGCAAGCTCTAGAAAAATTTGGGAACCATTT
*
206628 TGATGTAGGAAATATTTTGCAATCTCTAGAAAAATTTGGGAACCATTT
1 TGATGTAGGAAATATTTTGCAAGCTCTAGAAAAATTTGGGAACCATTT
206676 TG
1 TG
206678 TAATTTTTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (48 bp):
TGATGTAGGAAATATTTTGCAAGCTCTAGAAAAATTTGGGAACCATTT
Found at i:207286 original size:24 final size:24
Alignment explanation
Indices: 207259--207307 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
207249 TGCATGACAT
*
207259 TGTACATTGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
207283 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
207307 T
1 T
207308 CAGGAAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:207550 original size:58 final size:57
Alignment explanation
Indices: 207444--207560 Score: 198
Period size: 58 Copynumber: 2.0 Consensus size: 57
207434 TTTACCATAA
207444 ATGTTATTTCGGGTATGAACTGACCAATGTTAAATATATGGTTATATGATACCATGG
1 ATGTTATTTCGGGTATGAACTGACCAATGTTAAATATATGGTTATATGATACCATGG
* * *
207501 ATGTTATTTTGGGTATGAATTGCCCTAATGTTAAATATATGGTTATATGATACCATGG
1 ATGTTATTTCGGGTATGAACTGACC-AATGTTAAATATATGGTTATATGATACCATGG
207559 AT
1 AT
207561 AATGAAATAG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 22 0.39
58 34 0.61
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (57 bp):
ATGTTATTTCGGGTATGAACTGACCAATGTTAAATATATGGTTATATGATACCATGG
Found at i:207909 original size:45 final size:45
Alignment explanation
Indices: 207849--208001 Score: 252
Period size: 45 Copynumber: 3.4 Consensus size: 45
207839 ATGATTTATG
*
207849 GTATATTAGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
1 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
* *
207894 GTATATTGGTCAAATAAGCTTACGAGCTTATGGGATAAATGATAA
1 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
* *
207939 GTATATTGGTAAAATAAGCTTATGAGCTTTTGGGATAAATGGTAA
1 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
*
207984 GTATATTGGTATAATAAG
1 GTATATTGGTAAAATAAG
208002 AAATTTTATA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 100 1.00
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (45 bp):
GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGGTAA
Found at i:207933 original size:25 final size:25
Alignment explanation
Indices: 207860--207933 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
207850 TATATTAGTA
207860 AAATAAGCTTACGAGCTTATGGGAT
1 AAATAAGCTTACGAGCTTATGGGAT
* *
207885 AAAT--G-GTA--AG-TATATTGG-T
1 AAATAAGCTTACGAGCT-TATGGGAT
207904 CAAATAAGCTTACGAGCTTATGGGAT
1 -AAATAAGCTTACGAGCTTATGGGAT
207930 AAAT
1 AAAT
207934 GATAAGTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 18
0.62 0.07 0.31
Matches are distributed among these distances:
19 2 0.06
20 11 0.31
22 3 0.08
23 3 0.08
25 15 0.42
26 2 0.06
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (25 bp):
AAATAAGCTTACGAGCTTATGGGAT
Found at i:211278 original size:4 final size:4
Alignment explanation
Indices: 211269--211293 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
211259 AAATTGAAAA
211269 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
211294 CATATTATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:211946 original size:112 final size:112
Alignment explanation
Indices: 211702--212138 Score: 519
Period size: 112 Copynumber: 3.9 Consensus size: 112
211692 ACCCATGAAA
* * ** * * *
211702 CATTGAATCGAGGCAGACTTGTTACATTGTTACTTATGGAATATCAAATCTT-GACAGAGAGAGA
1 CATTGAATCGAGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGA-AGAGAGAGA
* * *
211766 TATGTTCCGCTTCTTCT--AAGGGAATATCAGATATGGGAAAGTTGATAT
65 TATGTTCAGCTTCTT-TGAAAGGGAATATCAGATATGTGAAAATTGAT-T
211814 -ATTGAATCG-GAGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGAGA
1 CATTGAATCGAG-GTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGAGA
*
211877 TATATTCAGCTTCTTTGAAAGGGAATATCAGATATGTGAAAATTGATT
65 TATGTTCAGCTTCTTTGAAAGGGAATATCAGATATGTGAAAATTGATT
* * *
211925 CATTGAATCGAGGTAGACTTGTTCTGCTGTCACTCAGGGAATATCAAATCTTAGAAGAGAGGGAT
1 CATTGAATCGAGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGAGAT
* * * * *
211990 TTGTTCCA-CTTATTTGAAAGGGAATATCAAATTTGT-AAACATTGATC
66 ATGTT-CAGCTTCTTTGAAAGGGAATATCAGATATGTGAAA-ATTGATT
* * * *
212037 CATTAAATCGAGCTAGACTTGTTCCGCTGCCACTCAGGGAATATCAAATCTTGGAAGAGATAGAT
1 CATTGAATCGAGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGAGAT
* * * *
212102 CTGTTCCGCTTCTTTGAAAAAGGAATATCATATATGT
66 ATGTTCAGCTTCTTTG-AAAGGGAATATCAGATATGT
212139 AGGGGTCGAT
Statistics
Matches: 282, Mismatches: 33, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
110 2 0.01
111 69 0.24
112 191 0.68
113 20 0.07
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (112 bp):
CATTGAATCGAGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAGAGAGAGAT
ATGTTCAGCTTCTTTGAAAGGGAATATCAGATATGTGAAAATTGATT
Found at i:215039 original size:101 final size:102
Alignment explanation
Indices: 214863--215066 Score: 374
Period size: 101 Copynumber: 2.0 Consensus size: 102
214853 TTTAATGTAT
214863 TACAAGATGTCGTAATACCAGGGATTTCCATCATTTTTTCTCTTCTATACTATAGCAATGGGCTG
1 TACAAGATGTCGTAATACCAGGGATTTCCATCATTTTTTCTCTTCTATACTATAGCAATGGGCTG
214928 GATACCCATAAGCTTGTATCGTAATAGGCATCATGCC
66 GATACCCATAAGCTTGTATCGTAATAGGCATCATGCC
* * *
214965 TACAAGATGTCGTAATACTAGGGATTTCCATCA-TTTTTCTCTTTTATGCTATAGCAATGGGCTG
1 TACAAGATGTCGTAATACCAGGGATTTCCATCATTTTTTCTCTTCTATACTATAGCAATGGGCTG
215029 GATACCCATAAGCTTGTATCGTAATAGGCATCATGCC
66 GATACCCATAAGCTTGTATCGTAATAGGCATCATGCC
215066 T
1 T
215067 GAATATTCAT
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
101 67 0.68
102 32 0.32
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (102 bp):
TACAAGATGTCGTAATACCAGGGATTTCCATCATTTTTTCTCTTCTATACTATAGCAATGGGCTG
GATACCCATAAGCTTGTATCGTAATAGGCATCATGCC
Found at i:226222 original size:6 final size:6
Alignment explanation
Indices: 226211--226236 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
226201 GGTGATTACA
226211 ATATTT ATATTT ATATTT ATATTT AT
1 ATATTT ATATTT ATATTT ATATTT AT
226237 CTTTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATATTT
Found at i:231500 original size:10 final size:10
Alignment explanation
Indices: 231477--231511 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
231467 TTCATATACC
231477 ATTTTCCC-T
1 ATTTTCCCAT
231486 ATTTTCCCAT
1 ATTTTCCCAT
*
231496 ATTTTTCCAT
1 ATTTTCCCAT
231506 ATTTTC
1 ATTTTC
231512 TTTAGCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (10 bp):
ATTTTCCCAT
Found at i:240245 original size:28 final size:28
Alignment explanation
Indices: 240205--240279 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
240195 CGTAGAAATG
*
240205 TCCCAAAGGACCACATATAACACATATA
1 TCCCGAAGGACCACATATAACACATATA
*
240233 TCCCGAAGGACCACATATAACACATATG
1 TCCCGAAGGACCACATATAACACATATA
*
240261 TCCCGAAGGACCATATATA
1 TCCCGAAGGACCACATATA
240280 TTCTAATGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.41, C:0.28, G:0.12, T:0.19
Consensus pattern (28 bp):
TCCCGAAGGACCACATATAACACATATA
Found at i:241548 original size:12 final size:13
Alignment explanation
Indices: 241531--241559 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
241521 TTATATATTA
241531 GAAAT-AAGAAAT
1 GAAATAAAGAAAT
241543 GAAATAAAGAAAT
1 GAAATAAAGAAAT
241556 GAAA
1 GAAA
241560 GGATAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (13 bp):
GAAATAAAGAAAT
Found at i:241640 original size:35 final size:35
Alignment explanation
Indices: 241601--241673 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
241591 CAAAGGTAGG
241601 ATGCGCAAGTGTTTTAGAAATCTCCTTCAAATGCA
1 ATGCGCAAGTGTTTTAGAAATCTCCTTCAAATGCA
*
241636 ATGCGCAAGTGTTTTAGAAATCTCCTTCAAATGTA
1 ATGCGCAAGTGTTTTAGAAATCTCCTTCAAATGCA
241671 ATG
1 ATG
241674 TCTCGACCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (35 bp):
ATGCGCAAGTGTTTTAGAAATCTCCTTCAAATGCA
Found at i:245491 original size:16 final size:16
Alignment explanation
Indices: 245465--245499 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
245455 GAGTCTTTTA
245465 TTTTTCTTTTTTCTTCT
1 TTTTTCTTTTTTC-TCT
245482 TTTTTC-TTTTTCTCT
1 TTTTTCTTTTTTCTCT
245497 TTT
1 TTT
245500 GTTGCAGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 6 0.33
17 6 0.33
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTCTTTTTTCTCT
Found at i:245666 original size:12 final size:13
Alignment explanation
Indices: 245649--245677 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
245639 TTATATATTG
245649 GAAAT-AAGAAAT
1 GAAATAAAGAAAT
245661 GAAATAAAGAAAT
1 GAAATAAAGAAAT
245674 GAAA
1 GAAA
245678 GGATAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (13 bp):
GAAATAAAGAAAT
Found at i:258262 original size:10 final size:9
Alignment explanation
Indices: 258245--258327 Score: 52
Period size: 8 Copynumber: 9.4 Consensus size: 9
258235 TTTTATTATT
258245 TATAATATA
1 TATAATATA
258254 TATAGATATA
1 TATA-ATATA
*
258264 TTTAATA-A
1 TATAATATA
* *
258272 AAT-TTATA
1 TATAATATA
*
258280 TACAA-ATA
1 TATAATATA
258288 GCT-TAATATA
1 --TATAATATA
258298 TAT-ATATA
1 TATAATATA
258306 TAT-ATATA
1 TATAATATA
258314 TATATATATA
1 TATA-ATATA
258324 TATA
1 TATA
258328 TTACTTTGAA
Statistics
Matches: 57, Mismatches: 8, Indels: 17
0.70 0.10 0.21
Matches are distributed among these distances:
7 2 0.04
8 24 0.42
9 10 0.18
10 21 0.37
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (9 bp):
TATAATATA
Found at i:258298 original size:2 final size:2
Alignment explanation
Indices: 258293--258328 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
258283 AAATAGCTTA
258293 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
258329 TACTTTGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:258997 original size:14 final size:15
Alignment explanation
Indices: 258960--258989 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
258950 CAGATAGCAT
258960 ACAATAAAA-AATTA
1 ACAATAAAATAATTA
258974 ACAATAAAATAATTA
1 ACAATAAAATAATTA
258989 A
1 A
258990 ATTAAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (15 bp):
ACAATAAAATAATTA
Found at i:259326 original size:22 final size:22
Alignment explanation
Indices: 259298--259339 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
259288 AACAAAATCA
259298 AAGATTCAAATTAAAACAAACT
1 AAGATTCAAATTAAAACAAACT
*
259320 AAGATTCAAATTAAAGCAAA
1 AAGATTCAAATTAAAACAAA
259340 GGGAGAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.12, G:0.07, T:0.21
Consensus pattern (22 bp):
AAGATTCAAATTAAAACAAACT
Found at i:260695 original size:20 final size:20
Alignment explanation
Indices: 260650--260704 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
260640 ATACTGAGCC
260650 ACTTGGTATCGATACCCACT
1 ACTTGGTATCGATACCCACT
** *
260670 TTTTGGTATCGATACCC-GT
1 ACTTGGTATCGATACCCACT
260689 GACTTGGTATCGATAC
1 -ACTTGGTATCGATAC
260705 TCTAAGTGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (20 bp):
ACTTGGTATCGATACCCACT
Found at i:264053 original size:32 final size:31
Alignment explanation
Indices: 263990--264053 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
263980 TTATTTCGAC
* *
263990 ACTAAATATTTTTTATAACTTTTTTACTGTG
1 ACTAAATATTTTTTACAACTTTGTTACTGTG
*
264021 ACTAAATAATTTTGTTACAA-TTTGTTATTGTG
1 ACTAAAT-ATTTT-TTACAACTTTGTTACTGTG
264053 A
1 A
264054 AAGAATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 7 0.25
32 16 0.57
33 5 0.18
ACGTcount: A:0.31, C:0.08, G:0.09, T:0.52
Consensus pattern (31 bp):
ACTAAATATTTTTTACAACTTTGTTACTGTG
Found at i:264337 original size:182 final size:181
Alignment explanation
Indices: 264023--264367 Score: 503
Period size: 182 Copynumber: 1.9 Consensus size: 181
264013 TTACTGTGAC
* * * *
264023 TAAATAATTTTGTTACAATTTGTTATTGTGAAAGAATATTATTTGTCACATTTTTTTATAATGAG
1 TAAATAATTTTGTTACAATTTGTTATTGTGAAAAAATATTACTTGTCACATTTTTTTATAATAAA
* * **
264088 AAATTAATATTTTTTTTATAAATTTTTATTTTGATTAAATAAATTTATCAATTTTTTTTAATTTG
66 AAATTAATA-TTTTGTTATAAATTATTATTTTGATTAAATAAATTTATCAAAATTTTTTAATTTG
*
264153 ACAAAATATTGGGACGAAATAAATTTGACATAACTGTTTACTTTGATTAAAT
130 ACAAAATATTGGGACAAAATAAATTTGACATAACTGTTTACTTTGATTAAAT
* * * *
264205 TAAATAATTTTTTTGCAATTTGTTATTTTGAAAAAAATATTACTTGTCACAATTTTTTTATGATA
1 TAAATAATTTTGTTACAATTTGTTATTGTG-AAAAAATATTACTTGTCAC-ATTTTTTTATAATA
* *
264270 AAAAATTAATA-TTTGTTATAAATTATTATTTTGATTAAATAAATTTGTCAAAATTTTTTATTTT
64 AAAAATTAATATTTTGTTATAAATTATTATTTTGATTAAATAAATTTATCAAAATTTTTTAATTT
* *
264334 GACAAAATATTGTGACAAAATAAATTTGATATAA
129 GACAAAATATTGGGACAAAATAAATTTGACATAA
264368 AATTTTGTAG
Statistics
Matches: 144, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
182 105 0.73
183 17 0.12
184 22 0.15
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (181 bp):
TAAATAATTTTGTTACAATTTGTTATTGTGAAAAAATATTACTTGTCACATTTTTTTATAATAAA
AAATTAATATTTTGTTATAAATTATTATTTTGATTAAATAAATTTATCAAAATTTTTTAATTTGA
CAAAATATTGGGACAAAATAAATTTGACATAACTGTTTACTTTGATTAAAT
Found at i:269654 original size:19 final size:18
Alignment explanation
Indices: 269632--269678 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
269622 AGTGAATAAT
269632 AATATAAGTAATGAAAAGA
1 AATATAAG-AATGAAAAGA
*
269651 AATAATAAGAATGAAATGA
1 AAT-ATAAGAATGAAAAGA
269670 AATA-AAGAA
1 AATATAAGAA
269679 AGGATAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 15 0.58
20 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (18 bp):
AATATAAGAATGAAAAGA
Found at i:270129 original size:19 final size:20
Alignment explanation
Indices: 270087--270138 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
270077 AAAACCCCTT
*
270087 TGAAAATACATGATTTTTTGA
1 TGAAAATACATGA-TTTTTAA
270108 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
270127 TGAAGATACATG
1 TGAAAATACATG
270139 CTCTTGGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 16 0.55
21 13 0.45
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Done.