Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_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: 6483253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 29
Found at i:9641 original size:14 final size:14
Alignment explanation
Indices: 9613--9657 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
9603 ATGCTTGAAG
*
9613 AAAAAAATGAA-AA
1 AAAAAAAAGAAGAA
*
9626 AATAAAAAGAAGAA
1 AAAAAAAAGAAGAA
9640 AAAAAAAAGAAAGAA
1 AAAAAAAAG-AAGAA
9655 AAA
1 AAA
9658 TGAATAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 9 0.33
14 10 0.37
15 8 0.30
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.04
Consensus pattern (14 bp):
AAAAAAAAGAAGAA
Found at i:9641 original size:15 final size:16
Alignment explanation
Indices: 9623--9658 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
9613 AAAAAAATGA
9623 AAAAATAAAAAG-AAG
1 AAAAATAAAAAGAAAG
9638 AAAAA-AAAAAGAAAG
1 AAAAATAAAAAGAAAG
9653 AAAAAT
1 AAAAAT
9659 GAATAAGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (16 bp):
AAAAATAAAAAGAAAG
Found at i:11020 original size:271 final size:270
Alignment explanation
Indices: 10618--11108 Score: 763
Period size: 271 Copynumber: 1.8 Consensus size: 270
10608 CAAAAAAGGT
* *
10618 GGATCAGCATTTTCAATGGAGAGTTCATAATGAGAAAAACTCATCCGACAGAGGGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAAAACTCATCCAACAGAGGGAGAAGAAGTT
* * *
10683 CATAATGAGAAGAGCTTGTTTGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCG
66 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCAAGACATTTCGAATCAGGGACACCTCG
** * * *
10748 CTTGAG-GAATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGA
131 CTTGAGCG-ATCAACATTTCCAATGAAGAGTTCATAATGAGAAAAACTCATCC--AAAAGAGAGA
*
10812 AGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGA
193 AGAAGTTCATAATGAGAAGAACTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGA
10877 CACCTCGCTTGAG
258 CACCTCGCTTGAG
*
10890 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAAC-GAGGGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAAAACTCATCCAACAGAGGGAGAAGAAGTT
* *
10954 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACAG-CATTTCGAGTCAGGGACGCCTC
66 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCA-AGACATTTCGAATCAGGGACACCTC
* * *
11018 GCTTGAGCGATCAACATTTTCAGTGAAGAGTTCATAGTGAGAAAAACTCATCCAAAAGAGAGAAG
130 GCTTGAGCGATCAACATTTCCAATGAAGAGTTCATAATGAGAAAAACTCATCCAAAAGAGAGAAG
*
11083 AAGTTCATAATGCGAAGAACTTGTTC
195 AAGTTCATAATGAGAAGAACTTGTTC
11109 AATCTAACAA
Statistics
Matches: 199, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
269 35 0.18
271 116 0.58
272 48 0.24
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (270 bp):
GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAAAACTCATCCAACAGAGGGAGAAGAAGTT
CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCAAGACATTTCGAATCAGGGACACCTCG
CTTGAGCGATCAACATTTCCAATGAAGAGTTCATAATGAGAAAAACTCATCCAAAAGAGAGAAGA
AGTTCATAATGAGAAGAACTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACAC
CTCGCTTGAG
Found at i:11030 original size:135 final size:134
Alignment explanation
Indices: 10618--11108 Score: 734
Period size: 136 Copynumber: 3.6 Consensus size: 134
10608 CAAAAAAGGT
* *
10618 GGATCAGCATTTTCAATGGAGAGTTCATAATGAGAAAAACTCATCCGACAGAGGGAGAAGAAGTT
1 GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAAAACTCATCCAACA-AGGGAGAAGAAGTT
*
10683 CATAATGAGAAGAGCTTGTTTGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCG
65 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCG
10748 CTTGA
130 CTTGA
** * * *
10753 GGAATTGACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAAAGGGAGAAGAAGT
1 GG-ATCAACATTTTCAATGGAGAGTTCATAATGAGAAAAACTCATCC-AACAAGGGAGAAGAAGT
10818 TCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTC
64 TCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTC
10883 GCTTGA
129 GCTTGA
* *
10889 GGGATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTT
1 -GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAAAACTCATCCAACAAGGGAGAAGAAGTT
* * * *
10954 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCA-CAGCATTTCGAGTCAGGGACGCCTC
65 CATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGA-CATTTCGAATCAGTGACACCTC
11018 GCTTGA
129 GCTTGA
* * * *
11024 GCGATCAACATTTTCAGTGAAGAGTTCATAGTGAGAAAAACTCATCCAA-AAGAGAGAAGAAGTT
1 G-GATCAACATTTTCAATGGAGAGTTCATAATGAGAAAAACTCATCCAACAAGGGAGAAGAAGTT
* *
11088 CATAATGCGAAGAACTTGTTC
65 CATAATGAGAAGAGCTTGTTC
11109 AATCTAACAA
Statistics
Matches: 326, Mismatches: 25, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
134 34 0.10
135 125 0.38
136 163 0.50
137 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (134 bp):
GGATCAACATTTTCAATGGAGAGTTCATAATGAGAAAAACTCATCCAACAAGGGAGAAGAAGTTC
ATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATTTCGAATCAGTGACACCTCGC
TTGA
Found at i:19320 original size:36 final size:36
Alignment explanation
Indices: 19274--19564 Score: 289
Period size: 36 Copynumber: 8.0 Consensus size: 36
19264 ATCAACATTG
* *
19274 ATCACCAGTAGCAAGCACAAGTATATCATGCATATA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATA
* *
19310 ATCATCAGTAGCAAGTACATGTAT-TGCATGAATATA
1 ATCATCAGTAGCAAGCACATGTATAT-CATGCATATA
* *
19346 ATCATCAGTAGAAAGCGCATGTATATCATGCATATA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATA
* * ** *
19382 ATAATTAGTAGCAAGTGCGTGTATATCATGCATATA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATA
* * * * *
19418 ATAATTAGTAACAAGCATATGTACATCATGCATATA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATA
* * *
19454 GTCATC-GATAGCAAACACATGTATATCATGTATATA
1 ATCATCAG-TAGCAAGCACATGTATATCATGCATATA
* *** *
19490 ATCATCAATAGCAAGTGTATGTATATCATGTATATA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATA
* * *
19526 ATCATCAGGACCAAGCACATATATGTATCATGCATATA
1 ATCATCAGTAGCAAGCACATGTA--TATCATGCATATA
19564 A
1 A
19565 CTATCAATAT
Statistics
Matches: 208, Mismatches: 41, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
35 2 0.01
36 192 0.92
37 1 0.00
38 13 0.06
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.30
Consensus pattern (36 bp):
ATCATCAGTAGCAAGCACATGTATATCATGCATATA
Found at i:29736 original size:36 final size:36
Alignment explanation
Indices: 29690--29978 Score: 355
Period size: 36 Copynumber: 8.0 Consensus size: 36
29680 ATCATCATTG
*
29690 ATCACCAGTAGCAAGCACATGTATATCATGCATATA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATA
* *
29726 ATCATCAGTAGCAAGCACATATATAACATGCATATA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATA
*
29762 ATCATCAGTAGCAAGCGCATGTATATCATGCATATA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATA
* * ** *
29798 ATAATTAGTAGCAAGTGCGTGTATATCATGCATATA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATA
* * *
29834 ATAATTAGTAGCAAG-AGCATGTACATCATGCATATA
1 ATCATCAGTAGCAAGCA-CATGTATATCATGCATATA
* * * *
29870 ATCATAAATAGCAAACACATGTATATCATGTATATA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATA
* ** *
29906 ATCATCAATAGCAAGTGCATGTATATCATGTATATA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATA
* * *
29942 ATCATCAGTAGCAAGAATATATATATCATGCATATA
1 ATCATCAGTAGCAAGCACATGTATATCATGCATATA
29978 A
1 A
29979 ATATCAATAT
Statistics
Matches: 222, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
36 221 1.00
37 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (36 bp):
ATCATCAGTAGCAAGCACATGTATATCATGCATATA
Found at i:41774 original size:17 final size:17
Alignment explanation
Indices: 41752--41813 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
41742 CATGAAATTA
* *
41752 AATGAATTAGTTTGATC
1 AATGAACTAGTTTAATC
*
41769 AATGAACTAGTTTAATT
1 AATGAACTAGTTTAATC
* *
41786 AATGAACTAACTTTATTC
1 AATGAACT-AGTTTAATC
41804 AATGAACTAG
1 AATGAACTAG
41814 ATGCATGAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
17 23 0.62
18 14 0.38
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (17 bp):
AATGAACTAGTTTAATC
Found at i:41807 original size:18 final size:19
Alignment explanation
Indices: 41767--41812 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
41757 ATTAGTTTGA
*
41767 TCAATGAACT-AGTTTAAT
1 TCAATGAACTAACTTTAAT
41785 T-AATGAACTAACTTT-AT
1 TCAATGAACTAACTTTAAT
41802 TCAATGAACTA
1 TCAATGAACTA
41813 GATGCATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (19 bp):
TCAATGAACTAACTTTAAT
Found at i:45504 original size:17 final size:17
Alignment explanation
Indices: 45464--45507 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
45454 TATTTTATTA
* * *
45464 AATGAACTAGTTTGATG
1 AATGAAGTAGATTCATG
45481 AATGAAGTAGATTCATG
1 AATGAAGTAGATTCATG
45498 AATGAAGTAG
1 AATGAAGTAG
45508 CTTACTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (17 bp):
AATGAAGTAGATTCATG
Found at i:59957 original size:11 final size:12
Alignment explanation
Indices: 59929--59954 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59919 AATTTTTTCC
59929 TTTATTCTTATT
1 TTTATTCTTATT
59941 TTTATTCTTATT
1 TTTATTCTTATT
59953 TT
1 TT
59955 ATTTTGTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTATTCTTATT
Found at i:64214 original size:16 final size:16
Alignment explanation
Indices: 64193--64227 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
64183 TTCCATTGTC
64193 GTGACATTTTATCTTA
1 GTGACATTTTATCTTA
64209 GTGACATTTTATCTTA
1 GTGACATTTTATCTTA
64225 GTG
1 GTG
64228 CATATCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (16 bp):
GTGACATTTTATCTTA
Found at i:74591 original size:290 final size:288
Alignment explanation
Indices: 74072--74611 Score: 873
Period size: 290 Copynumber: 1.9 Consensus size: 288
74062 TCTTGTGGCC
*
74072 AATTCATATTTTATTTAATTCATCGTAATTATGTCCTCCACGATTGTCACCATTGGAACCATTGT
1 AATTCATATTTTATTTAATTCATCGTAATTATGTCCTCCACGATTGTCACCATTGGAACCATTAT
* * * * * * * **
74137 GTTTACCTGTCATCCTTATTCGTTCGGTTTTCTTTGTTCATTGTTCTCCATGTCGTTTTTAATTG
66 GTTTACCTATCATCCTTATTCATTCAGTGTCCTTGGTTCATTATTCTCCATGTCGTTTTTAACCG
*
74202 AGAATGATTTGAATGTTTGTGTTTTGTTAAAAACCTCATCTCCATCATTATTTTCTAGAAAATAA
131 AGAATGATTTGAATGTTTATGTTTTGTTAAAAACCTCATCTCCATCATTATTTTCTAGAAAATAA
*
74267 TGTTTGTAAGTGACTCCTCAAGCTTCAAAACCCAATTCTACAATTTTTCTTATTTTTATGGTCAT
196 TGTTTGTAAGTGACTCCTCAAGCTTCAAAACCCAATTATACAA-TTTTCTTATTTTTATGGTCAT
74332 AGTAGCATGCCTTACGTGCCCTCGTGCGT
260 AGTAGCATGCCTTACGTGCCCTCGTGCGT
* * ** * *
74361 AATTCATATTTTATTTAATTCATCGTCATTCTGTCCTCCGTGGTTGTCACCATTGGCACCATTAT
1 AATTCATATTTTATTTAATTCATCGTAATTATGTCCTCCACGATTGTCACCATTGGAACCATTAT
*
74426 GTTTTCCTCATCATCCTTATTCATTCAGTGTCCTTGGTTCATTATTCTCCATGTCGTTTTTAACC
66 GTTTACCT-ATCATCCTTATTCATTCAGTGTCCTTGGTTCATTATTCTCCATGTCGTTTTTAACC
* *
74491 GAGAATGATTTGAATGTTTATGTTTTGTTAAAAACCTCATCTCCGTCATTCTTTTCTAGAAAATA
130 GAGAATGATTTGAATGTTTATGTTTTGTTAAAAACCTCATCTCCATCATTATTTTCTAGAAAATA
74556 ATGTTTGTAAGTGACTCCTCAAGCTTCAAAACCCAATTATACAATTTTCTTATTTT
195 ATGTTTGTAAGTGACTCCTCAAGCTTCAAAACCCAATTATACAATTTTCTTATTTT
74612 CTTGTGGCCA
Statistics
Matches: 229, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
289 77 0.34
290 152 0.66
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (288 bp):
AATTCATATTTTATTTAATTCATCGTAATTATGTCCTCCACGATTGTCACCATTGGAACCATTAT
GTTTACCTATCATCCTTATTCATTCAGTGTCCTTGGTTCATTATTCTCCATGTCGTTTTTAACCG
AGAATGATTTGAATGTTTATGTTTTGTTAAAAACCTCATCTCCATCATTATTTTCTAGAAAATAA
TGTTTGTAAGTGACTCCTCAAGCTTCAAAACCCAATTATACAATTTTCTTATTTTTATGGTCATA
GTAGCATGCCTTACGTGCCCTCGTGCGT
Found at i:74834 original size:260 final size:261
Alignment explanation
Indices: 74361--74872 Score: 823
Period size: 260 Copynumber: 2.0 Consensus size: 261
74351 CCTCGTGCGT
74361 AATTCATATTTTATTTAATTCATCGTCATTCTGTCCTCCGTGGTTGTCACCATTGGCACCATTAT
1 AATTCATATTTTATTTAATTCATCGTCATTCTGTCCTCCGTGGTTGTCACCATTGGCACCATTAT
* *
74426 GTTTTCCTCATCATCCTTATTCATTCAGTGTCCTTGGTTCATTATTCTCCATGTCGTTTTTAACC
66 GTTTGCCTCATCACCCTTATTCATTCAGTGTCCTTGGTTCATTATTCTCCATGTCGTTTTTAACC
** *
74491 GAGAATGATTTGAATGTTTATGTTTTGTTAAAAACCTCATCTCCGTCATTCTTTTCTAGAAAATA
131 GAGAATGATTCAAATGTTTATGTTTTGTTAAAAACCTCATCTCCATCATTCTTTTCTAGAAAATA
74556 ATGTTTGTAAGTGACTCCTCAAGCTTCAAAACCCAATTATACAA-TTTTCTTATTTTCTTGTGGC
196 ATGTTTGTAAGTGACTCCTCAAGCTTCAAAACCCAATTATACAATTTTTCTTATTTTCTTGTGGC
74620 C
261 C
* * * *
74621 AATTGATATTTTATTTAATTCATCGTTATTCTGTCCTCCTTGGTTGTCACCATTGGCACCATTGT
1 AATTCATATTTTATTTAATTCATCGTCATTCTGTCCTCCGTGGTTGTCACCATTGGCACCATTAT
* * * *
74686 GTTTGCCTCATCACCCTTATTCGTTC-GATGTCCTTGGTTCATTGTTCTCTATGTCTTTTTTAAC
66 GTTTGCCTCATCACCCTTATTCATTCAG-TGTCCTTGGTTCATTATTCTCCATGTCGTTTTTAAC
* *
74750 CGAGAATGATTCAAATGTTTGTGTTTTGTTAAAAACCTCATCTCTATCATTCTTTTCTAGAAAAT
130 CGAGAATGATTCAAATGTTTATGTTTTGTTAAAAACCTCATCTCCATCATTCTTTTCTAGAAAAT
* * *
74815 AATGTTTGTTAAG-GACTCCTCAAGCTTCAATACCCAATTCTATAATTTTTCTTATTTT
195 AATGTTTG-TAAGTGACTCCTCAAGCTTCAAAACCCAATTATACAATTTTTCTTATTTT
74873 TATGGTCATA
Statistics
Matches: 231, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
259 1 0.00
260 214 0.93
261 16 0.07
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (261 bp):
AATTCATATTTTATTTAATTCATCGTCATTCTGTCCTCCGTGGTTGTCACCATTGGCACCATTAT
GTTTGCCTCATCACCCTTATTCATTCAGTGTCCTTGGTTCATTATTCTCCATGTCGTTTTTAACC
GAGAATGATTCAAATGTTTATGTTTTGTTAAAAACCTCATCTCCATCATTCTTTTCTAGAAAATA
ATGTTTGTAAGTGACTCCTCAAGCTTCAAAACCCAATTATACAATTTTTCTTATTTTCTTGTGGC
C
Found at i:78901 original size:39 final size:40
Alignment explanation
Indices: 78830--78941 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 40
78820 AGGGCCAGTT
78830 GTAAGGACTTACCCTGTGCACAAAGCAA-AGAAGCT-TGCG
1 GTAAGGACTTACCCTGTGCACAAA-CAAGAGAAGCTCTGCG
* * * *
78869 GTAAGGACTTACCCTATGTACAAATAAGAGAAG-TCTGTG
1 GTAAGGACTTACCCTGTGCACAAACAAGAGAAGCTCTGCG
* ** *
78908 GAAAAAACTTACCCTGTGCACAAAGAAGAGAAGC
1 GTAAGGACTTACCCTGTGCACAAACAAGAGAAGC
78942 CCACAGTAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
38 3 0.05
39 57 0.95
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (40 bp):
GTAAGGACTTACCCTGTGCACAAACAAGAGAAGCTCTGCG
Found at i:80511 original size:20 final size:20
Alignment explanation
Indices: 80488--80525 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
80478 GTTATGCTAG
*
80488 AATTTAATGTTAGAATGTTT
1 AATTTAATATTAGAATGTTT
*
80508 AATTTGATATTAGAATGT
1 AATTTAATATTAGAATGT
80526 GAAATTAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (20 bp):
AATTTAATATTAGAATGTTT
Found at i:81672 original size:26 final size:26
Alignment explanation
Indices: 81638--81693 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
81628 CTGACTTAAT
81638 TAAAATCTTATTTAATTATTTTGAAA
1 TAAAATCTTATTTAATTATTTTGAAA
* *
81664 TAAAGTCTTATTTAATTATTTTGAAT
1 TAAAATCTTATTTAATTATTTTGAAA
81690 TAAA
1 TAAA
81694 TATTCATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (26 bp):
TAAAATCTTATTTAATTATTTTGAAA
Found at i:88155 original size:100 final size:101
Alignment explanation
Indices: 88034--88258 Score: 407
Period size: 100 Copynumber: 2.2 Consensus size: 101
88024 ATTAGGATGA
* *
88034 GATGTTACCCTCCGAAGAGGATCCTAGATAGAAAATAGAAAGCATGATGAAGATGTTACCCTCGG
1 GATGTTACCTTACGAAGAGGATCCTAGATAGAAAATAGAAAGCATGATGAAGATGTTACCCTCGG
*
88099 AAGAGGGTCTAAAACATT-AAAAAAACTGAAAAGGG
66 AAGAGGGTCTAAAACATTAAAAAAAACTGAAAAGAG
*
88134 GATGTTACCTTACAAAGAGGATCCTAGATAGAAAATAGAAAGCATGATGAAGATGTTACCCTCGG
1 GATGTTACCTTACGAAGAGGATCCTAGATAGAAAATAGAAAGCATGATGAAGATGTTACCCTCGG
88199 AAGAGGGTCTAAAACATTAAAAAAAACTGAAAAGAG
66 AAGAGGGTCTAAAACATTAAAAAAAACTGAAAAGAG
88235 GATGTTACCTTACGAAGAGGATCC
1 GATGTTACCTTACGAAGAGGATCC
88259 CAAACAGAAA
Statistics
Matches: 119, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
100 80 0.67
101 39 0.33
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (101 bp):
GATGTTACCTTACGAAGAGGATCCTAGATAGAAAATAGAAAGCATGATGAAGATGTTACCCTCGG
AAGAGGGTCTAAAACATTAAAAAAAACTGAAAAGAG
Found at i:88193 original size:51 final size:51
Alignment explanation
Indices: 87971--88204 Score: 180
Period size: 51 Copynumber: 4.6 Consensus size: 51
87961 CATTAATGAT
* * * * * *
87971 AAGCATGATGGAGATGTTGCCTTTCCGAAGAGGATACC-AAATAAAAAACAGA
1 AAGCATGATGAAGATGTTACC-CTCCGAAGAGGAT-CCTAGATAGAAAATAGA
** *
88023 AATTAGGATG-AGATGTTACCCTCCGAAGAGGATCCTAGATAGAAAATAGA
1 AAGCATGATGAAGATGTTACCCTCCGAAGAGGATCCTAGATAGAAAATAGA
* * * *
88073 AAGCATGATGAAGATGTTACCCTCGGAAGAGGGT-CTA-AAACATTAAA-A-A
1 AAGCATGATGAAGATGTTACCCTCCGAAGAGGATCCTAGATAGA--AAATAGA
* * * *
88122 AA-C-TGA-AAAGGGGATGTTACCTTACAAAGAGGATCCTAGATAGAAAATAGA
1 AAGCATGATGAA---GATGTTACCCTCCGAAGAGGATCCTAGATAGAAAATAGA
*
88173 AAGCATGATGAAGATGTTACCCTCGGAAGAGG
1 AAGCATGATGAAGATGTTACCCTCCGAAGAGG
88205 GTCTAAAACA
Statistics
Matches: 140, Mismatches: 28, Indels: 29
0.71 0.14 0.15
Matches are distributed among these distances:
46 2 0.01
47 3 0.02
48 1 0.01
49 28 0.20
50 38 0.27
51 55 0.39
52 8 0.06
53 3 0.02
54 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.20
Consensus pattern (51 bp):
AAGCATGATGAAGATGTTACCCTCCGAAGAGGATCCTAGATAGAAAATAGA
Found at i:88264 original size:50 final size:50
Alignment explanation
Indices: 88085--88264 Score: 129
Period size: 50 Copynumber: 3.6 Consensus size: 50
88075 GCATGATGAA
* * * *
88085 GATGTTACCCT-CGGAAGAGGGTCTAAAACATT-AAAAAAACTGAAAAGGG
1 GATGTTACCTTAC-GAAGAGGATCCAAAACATTAAAAAAAACTGAAAAGAG
* * * * * * *
88134 GATGTTACCTTACAAAGAGGATCCTAGATA-GAAAATAGAAAGCATG--ATGAA
1 GATGTTACCTTACGAAGAGGATCCAAAACATTAAAA-A-AAA-C-TGAAAAGAG
* * *
88185 GATGTTACCCT-CGGAAGAGGGTCTAAAACATTAAAAAAAACTGAAAAGAG
1 GATGTTACCTTAC-GAAGAGGATCCAAAACATTAAAAAAAACTGAAAAGAG
*
88235 GATGTTACCTTACGAAGAGGATCCCAAACA
1 GATGTTACCTTACGAAGAGGATCCAAAACA
88265 GAAAATAAAA
Statistics
Matches: 95, Mismatches: 25, Indels: 21
0.67 0.18 0.15
Matches are distributed among these distances:
48 2 0.02
49 25 0.26
50 33 0.35
51 28 0.29
52 5 0.05
53 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.19
Consensus pattern (50 bp):
GATGTTACCTTACGAAGAGGATCCAAAACATTAAAAAAAACTGAAAAGAG
Found at i:95074 original size:7 final size:7
Alignment explanation
Indices: 95062--95092 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
95052 GTCAAAGAAA
95062 GTCAACG
1 GTCAACG
95069 GTCAACG
1 GTCAACG
95076 GTCAACG
1 GTCAACG
95083 GTCAACG
1 GTCAACG
95090 GTC
1 GTC
95093 GGGTAAGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:95109 original size:29 final size:29
Alignment explanation
Indices: 95075--95136 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
95065 AACGGTCAAC
95075 GGTCAACGGTCAACGGTCGGGT-AA-GGTCG
1 GGTCAACGGTC--CGGTCGGGTCAACGGTCG
*
95104 GGTCAACGGTCGGGTCGGGTCAACGGTCG
1 GGTCAACGGTCCGGTCGGGTCAACGGTCG
95133 GGTC
1 GGTC
95137 GGGTCAGACC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 8 0.27
28 2 0.07
29 20 0.67
ACGTcount: A:0.16, C:0.23, G:0.44, T:0.18
Consensus pattern (29 bp):
GGTCAACGGTCCGGTCGGGTCAACGGTCG
Found at i:95119 original size:17 final size:17
Alignment explanation
Indices: 95099--95142 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
95089 GGTCGGGTAA
95099 GGTCGGGTCAACGGTCG
1 GGTCGGGTCAACGGTCG
95116 GGTCGGGTCAACGGTCG
1 GGTCGGGTCAACGGTCG
95133 GGTCGGGTCA
1 GGTCGGGTCA
95143 GACCGGTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (17 bp):
GGTCGGGTCAACGGTCG
Found at i:95162 original size:19 final size:18
Alignment explanation
Indices: 95138--95216 Score: 79
Period size: 19 Copynumber: 4.2 Consensus size: 18
95128 GGTCGGGTCG
95138 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
95156 GGCTCAGACCGGTCAAACC
1 GG-TCAGACCGGTCAAACC
*
95175 GGTTC-GAACCGGTTCAGACC
1 GG-TCAG-ACCGG-TCAAACC
* *
95195 GGTCAAACCGGTTCGAACC
1 GGTCAGACCGG-TCAAACC
95214 GGT
1 GGT
95217 TAAACCGGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.06
19 41 0.79
20 8 0.15
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.15
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:95184 original size:10 final size:10
Alignment explanation
Indices: 95144--95226 Score: 93
Period size: 10 Copynumber: 8.7 Consensus size: 10
95134 GTCGGGTCAG
95144 ACCGG-TCAA
1 ACCGGTTCAA
* *
95153 ACCGGCTCAG
1 ACCGGTTCAA
95163 ACCGG-TCAA
1 ACCGGTTCAA
*
95172 ACCGGTTCGA
1 ACCGGTTCAA
*
95182 ACCGGTTCAG
1 ACCGGTTCAA
95192 ACCGG-TCAA
1 ACCGGTTCAA
*
95201 ACCGGTTCGA
1 ACCGGTTCAA
95211 ACCGGTT-AA
1 ACCGGTTCAA
95220 ACCGGTT
1 ACCGGTT
95227 TCCAGCAGCC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
9 29 0.46
10 34 0.54
ACGTcount: A:0.25, C:0.31, G:0.27, T:0.17
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:95192 original size:29 final size:29
Alignment explanation
Indices: 95152--95225 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
95142 AGACCGGTCA
*
95152 AACCGGCTCAGACCGGTCAAACCGGTTCG
1 AACCGGTTCAGACCGGTCAAACCGGTTCG
95181 AACCGGTTCAGACCGGTCAAACCGGTTCG
1 AACCGGTTCAGACCGGTCAAACCGGTTCG
*
95210 AACCGGTT-AAACCGGT
1 AACCGGTTCAGACCGGT
95226 TTCCAGCAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
28 7 0.16
29 36 0.84
ACGTcount: A:0.26, C:0.31, G:0.27, T:0.16
Consensus pattern (29 bp):
AACCGGTTCAGACCGGTCAAACCGGTTCG
Found at i:95221 original size:19 final size:18
Alignment explanation
Indices: 95171--95226 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
95161 AGACCGGTCA
*
95171 AACCGGTTCGAACCGGTTC
1 AACCGGTT-AAACCGGTTC
*
95190 AGACCGGTCAAACCGGTTC
1 A-ACCGGTTAAACCGGTTC
95209 GAACCGGTTAAACCGGTT
1 -AACCGGTTAAACCGGTT
95227 TCCAGCAGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 25 0.78
20 7 0.22
ACGTcount: A:0.25, C:0.29, G:0.27, T:0.20
Consensus pattern (18 bp):
AACCGGTTAAACCGGTTC
Found at i:102434 original size:12 final size:12
Alignment explanation
Indices: 102401--102438 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
102391 AACGGTCAAC
102401 GGTCAACGGTCG
1 GGTCAACGGTCG
*
102413 GGTCGA--GTCG
1 GGTCAACGGTCG
102423 GGTCAACGGTCG
1 GGTCAACGGTCG
102435 GGTC
1 GGTC
102439 GGGTCAGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.41
12 13 0.59
ACGTcount: A:0.13, C:0.24, G:0.45, T:0.18
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:102464 original size:19 final size:18
Alignment explanation
Indices: 102440--102518 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 18
102430 GGTCGGGTCG
102440 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
102458 GGCTCAGACCGGTCAAACC
1 GG-TCAGACCGGTCAAACC
*
102477 GGTTC-GAACCGGTTGAAACC
1 GG-TCAG-ACCGG-TCAAACC
*
102497 GGTCAAACCGGTCAGAACC
1 GGTCAGACCGGTCA-AACC
102516 GGT
1 GGT
102519 TTCCAGCAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
18 5 0.10
19 39 0.75
20 8 0.15
ACGTcount: A:0.27, C:0.30, G:0.29, T:0.14
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:105385 original size:182 final size:181
Alignment explanation
Indices: 105077--105491 Score: 616
Period size: 182 Copynumber: 2.3 Consensus size: 181
105067 TAAAAATATA
* * ** *
105077 ACAAAACCGGTAAAGCGCTACCGGATATATTAAAAGTGTCGATACTTTTTAAGTTTGTGTCGACA
1 ACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATAC--TTTAAATGAGTATCGACA
* *
105142 CTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCTTATAAAGTGTCGATACTTTATAAAAATGTA
64 CTTTGTGAATTTAAAAGAAAAACAGTTTTAGCGCTTATAAAGTGTCGATACTTTATAAAAATGTA
* * *
105207 TCGATCCATAACGATACAACAAATAAAAATATGATAAAACCGGTCTCGAAATG
129 TCGATCCATAACGATACAACAAATAAAAATATAACAAAACCGGTCTAGAAATG
*
105260 ACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTTGATACTTTAACATGAGTATCGACAC
1 ACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAA-ATGAGTATCGACAC
*
105325 TTTG-GTAATTTAAAAGAAAAACATTTTTAGCGCTTATAAAGTGTCGATACTTTATAAAAATGTA
65 TTTGTG-AATTTAAAAGAAAAACAGTTTTAGCGCTTATAAAGTGTCGATACTTTATAAAAATGTA
* **
105389 TCGATCCATAACGATATAACAGGTAAAAATATAACAAAACCGGTCTAGAAATG
129 TCGATCCATAACGATACAACAAATAAAAATATAACAAAACCGGTCTAGAAATG
* * * *
105442 ACAAAATCGATAAAGAGCTACCAGATATATTGAAAGTGTCGATACTTTAA
1 ACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAA
105492 TAAGTACGCG
Statistics
Matches: 210, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
181 6 0.03
182 161 0.77
183 43 0.20
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (181 bp):
ACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAAATGAGTATCGACACT
TTGTGAATTTAAAAGAAAAACAGTTTTAGCGCTTATAAAGTGTCGATACTTTATAAAAATGTATC
GATCCATAACGATACAACAAATAAAAATATAACAAAACCGGTCTAGAAATG
Found at i:107501 original size:22 final size:23
Alignment explanation
Indices: 107450--107505 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
107440 AACGTTTTTG
* *
107450 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAGAA
*
107473 TAGTTATTATATAAAATGATA-AA
1 T-TTTATTATATAAAATGATAGAA
107496 TTTTATTATA
1 TTTTATTATA
107506 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
TTTTATTATATAAAATGATAGAA
Found at i:108011 original size:19 final size:19
Alignment explanation
Indices: 107987--108034 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
107977 ATGTAGGGTC
107987 AATTTTGTATAAGATTTAT
1 AATTTTGTATAAGATTTAT
*
108006 AATTTTGTATACGATTTAT
1 AATTTTGTATAAGATTTAT
108025 AATTTTGTAT
1 AATTTTGTAT
108035 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.54
Consensus pattern (19 bp):
AATTTTGTATAAGATTTAT
Found at i:108784 original size:200 final size:200
Alignment explanation
Indices: 108387--109397 Score: 1386
Period size: 200 Copynumber: 5.0 Consensus size: 200
108377 GTAAGCAGAT
* * *
108387 GTGTCAATACATTTATAAAATGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * *
108452 GGTGATTTTGTAATATAACTGGTATAAATATACC-GATTTTATGTGAGAATATGACTTCATAATG
66 GGTAATTTTGCAATGTAACTGGTATAAATATACCAG-TTTTATGAGAGAATAGGTCTACATAATG
** * *
108516 TATCGACACTT-TTTAATTTGGTGTCGATA-TATTTTGTCCAGAATGAATGCCCAAAATGGTGAA
130 TATCGACACTTGTGGAATTT-GTGTCGATACT-TTTTGTCCAGAATGAATGCCCAAAAGGGTGCA
108579 CGCATAAA
193 CGCATAAA
*
108587 GTGTCGATACATTTATAAAAAGTATCAATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
108652 GGTAAATTTACAATGTAACCGGTATAATTATACCAGTTTTATGAGAGAATAGGTCTACATAATGT
66 GGTAATTTTGCAATGTAACTGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGT
* *
108717 ATCGACACTTGTGGAA-TTGTGTCGATACTTTTTATCCAGAATGAATGACCAAAAGGGGTGCACG
131 ATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA-GGGTGCACG
108781 CATAAA
195 CATAAA
*
108787 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAGACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * *
108852 GGTAATTTTGTAATGTAACTGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGCAATGTAACTGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGT
** * *
108917 ATCGACACTT-TTTAATTTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAAAAATGGTGC
131 ATCGACACTTGTGGAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC---AAAAGGGTGC
108981 ACGCATAAA
192 ACGCATAAA
* *
108990 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATCATATTGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
109055 GGTAATTTTTCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGATATAGAAAATGT
66 GGTAATTTTGCAATGTAACTGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGT
* * * *
109120 ATCGACGCTTGTGGATTTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAGGGTGCACC
131 ATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC-AAAAGGGTGCACG
109185 CATAAA
195 CATAAA
* * * * * *
109191 TTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATATAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * *
109256 GGTAAATTT-CAATGAAAATAGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACAAAATGT
66 GGTAATTTTGCAATGTAACTGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGT
* * *
109320 ATCAACACATGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACCC
131 ATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGC
109385 ATAAA
196 ATAAA
109390 GTGTCGAT
1 GTGTCGAT
109398 CCCAAAAACA
Statistics
Matches: 721, Mismatches: 80, Indels: 21
0.88 0.10 0.03
Matches are distributed among these distances:
199 61 0.08
200 362 0.50
201 118 0.16
203 174 0.24
204 6 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGCAATGTAACTGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGT
ATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACGC
ATAAA
Found at i:109282 original size:403 final size:400
Alignment explanation
Indices: 108387--109397 Score: 1499
Period size: 403 Copynumber: 2.5 Consensus size: 400
108377 GTAAGCAGAT
* *
108387 GTGTCAATACATTTATAAAATGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
108452 GGTGATTTTGTAAT-ATAACTGGTATAAATATACCGATTTTATGTGAGAATATGACTTCATAATG
66 GGTAATTTTGTAATGA-AACTGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATG
* *
108516 TATCGACACTTTTTAATTTGGTGTCGATA-TATTTTGTCCAGAATGAATGCCCAAAATGGTGAAC
130 TATCGACACTTTTTAATTTTGTGTCGATACT-TTTTGTCCAGAATGAATGCCCAAAATGGTGCAC
*
108580 GCATAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAGAAACATCGAAACCCATAATTATAA
194 GCATAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAGAAACATCGAAACCCATAATCATAA
* * *
108645 TGTAATAGGTAAATTTACAATGTAACCGGTATAATTATACCAGTTTTATGAGAGAATAGGTCTAC
259 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGATATAC
* * *
108710 ATAATGTATCGACACTTGTGGAATTGTGTCGATACTTTTTATCCAGAATGAATGACCAAAAGGGG
324 AAAATGTATCGACACTTGTGGAATTGTGTCGATACTTTTTATCCAGAAGGAATGACCAAAAAGGG
*
108775 TGCACGCATAAA
389 TGCACCCATAAA
* *
108787 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAGACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
*
108852 GGTAATTTTGTAATGTAACTGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATGAAACTGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
*
108917 ATCGACACTTTTTAATTTTGTGTTGATACTTTTTGTCCAGAATGAATGCCCAAAAAAATGGTGCA
131 ATCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCC---AAAATGGTGCA
*
108982 CGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATCATA
193 CGCATAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAGAAACATCGAAACCCATAATCATA
* * *
109047 TTGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGATATA
258 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGATATA
* * * * *
109112 GAAAATGTATCGACGCTTGTGGATTTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAAG
323 CAAAATGTATCGACACTTGTGGA-ATTGTGTCGATACTTTTTATCCAGAAGGAATGACCAAAAAG
109177 GGTGCACCCATAAA
387 GGTGCACCCATAAA
* * * * *
109191 TTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAATATAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * *
109256 GGTAAATTT-CAATGAAAATAGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACAAAATGT
66 GGTAATTTTGTAATGAAACTGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
* * ** * *
109320 ATCAACACATGTGGAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACC
131 ATCGACAC-TTTTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACG
109384 CATAAAGTGTCGAT
195 CATAAAGTGTCGAT
109398 CCCAAAAACA
Statistics
Matches: 552, Mismatches: 52, Indels: 14
0.89 0.08 0.02
Matches are distributed among these distances:
400 191 0.35
401 1 0.00
403 241 0.44
404 119 0.22
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (400 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGTAATGAAACTGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
ATCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGCACGC
ATAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAGAAACATCGAAACCCATAATCATAATG
TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGATATACAA
AATGTATCGACACTTGTGGAATTGTGTCGATACTTTTTATCCAGAAGGAATGACCAAAAAGGGTG
CACCCATAAA
Found at i:111013 original size:3 final size:3
Alignment explanation
Indices: 110994--111037 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
110984 CAAGCGGTTA
* * *
110994 ATG AAG ATG AAG ATG ATG ATG AAG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
111038 CCAAACAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (3 bp):
ATG
Found at i:111014 original size:12 final size:12
Alignment explanation
Indices: 110994--111037 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
110984 CAAGCGGTTA
*
110994 ATGAAGATGAAG
1 ATGATGATGAAG
111006 ATGATGATGAAG
1 ATGATGATGAAG
*
111018 ATGATGATGATG
1 ATGATGATGAAG
111030 ATGATGAT
1 ATGATGAT
111038 CCAAACAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (12 bp):
ATGATGATGAAG
Found at i:112372 original size:18 final size:18
Alignment explanation
Indices: 112351--112387 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
112341 GTAATTGGAG
112351 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
112369 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
112387 T
1 T
112388 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:112394 original size:24 final size:24
Alignment explanation
Indices: 112343--112395 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
112333 TTTCATATGT
* * *
112343 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
112367 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
112391 AATTT
1 AATTT
112396 TGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:113115 original size:199 final size:197
Alignment explanation
Indices: 112623--113597 Score: 1030
Period size: 203 Copynumber: 4.9 Consensus size: 197
112613 TAAAATTTCC
* *
112623 CATAAAGTGTCGATACATTTTTAAAAAATATCGATCCAAAAAACATCAAAACCGAAAATTATAAT
1 CATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAAT
* * * * * *
112688 GTAATAGGTAAATTTACAATGTGACCGGTATAAATATACCAATTTTATGAAAAAATATGTCA-GC
65 GTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGT-ATAC
* * * * * ** * *
112752 ATAAAGTATCGACACCATTTAAATTTGTGTCGATACTTTTTGTGTGAGGCTTTGTTTGTTCAACA
129 ATAATGTATCGACA-CTTTTAAATTTGTGTCGATACATTTTGTCT-A-G-TATGAAT-TCCAACG
*
112817 AGGTACACG
189 AGGTGCACG
* * *
112826 CATAAAGTGTCAATATAATTATT-AAAAGTATCGATCCAAAAAATATCGAAACCGAAAATTATAA
1 CATAAAGTGTCGATA-CATT-TTAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAA
* * * *
112890 TGTAATAGGTAAATTTACAATGTAACTGGTAAAAATATATCGGTTTTATGAGAAAATCGGTATAC
64 TGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGTATAC
* * *
112955 ATAATGTATCGACACTATATAAATTTGTGTCGACACATTTTGTCTA-TAATGAATTCCAAACGGG
129 ATAATGTATCGACACT-TTTAAATTTGTGTCGATACATTTTGTCTAGT-ATGAATTCC-AACGAG
*
113019 GTGCACT
191 GTGCACG
* ** * * *
113026 CATAAAGTGTCGATACATTTGAAATTGTATTGATCCCAAAAACATCGAAACCGATAATTATAATG
1 CATAAAGTGTCGATACATTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAATG
** *
113091 TAATACATAAATTTAGAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGTATACAT
66 TAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGTATACAT
* * * * *
113156 AATGTATCGACACTGTTTAAATTTTTGTCGATACATTTTTTCCA-TAATGAATGCCAAACGGGGT
131 AATGTATCGACACT-TTTAAATTTGTGTCGATACATTTTGTCTAGT-ATGAATTCC-AACGAGGT
113220 GCACG
193 GCACG
* * *
113225 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAAACATCGGAACCCATAATTATAA
1 CATAAAGTGTCGATACATTT-TAAAAAGTATCGAT-CCAAAAAACATCGAAACCGAAAATTATAA
* * * * * *
113290 TGTAATAGGTAATTTTACAATGTAACCGGCATAAATATACCGATTTAATTAGAAAAGAGGTCA-A
64 TGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGT-ATA
* * * * * *
113354 CATAATGTATCGACACTTGTTAAATTTGTGTCAATACTTTTTGTGCGAGGCTTTG-TTTGCTCTA
128 CATAATGTATCGACACTT-TTAAATTTGTGTCGATACATTTTGT-CTA-G-TATGAATT-C-CAA
113418 CGAGGTGCACG
187 CGAGGTGCACG
* * * *
113429 CATAAAGTGACGATATATTTATTAAAAGTATCGATCCAAAAAACATCGAAACTGAAAATTATAAT
1 CATAAAGTGTCGATACATTT-TAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAAT
* * * *
113494 GTAATAGGTAAATTTAAAATGTAA-TCGGTATAAATATATCGGTTTTATGAGAAAATGGGT-TAA
65 GTAATAGGTAAATTTACAATGTAACT-GGTATAAATATACCGATTTTATGAGAAAATAGGTAT-A
* * *
113557 CATAATGTATAGACACTTTTATATTTGTGTCGATACGTTTT
128 CATAATGTATCGACACTTTTAAATTTGTGTCGATACATTTT
113598 TAAATTACAC
Statistics
Matches: 652, Mismatches: 100, Indels: 41
0.82 0.13 0.05
Matches are distributed among these distances:
198 1 0.00
199 182 0.28
200 37 0.06
201 117 0.18
202 26 0.04
203 238 0.37
204 49 0.08
205 2 0.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (197 bp):
CATAAAGTGTCGATACATTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGAAAATTATAATG
TAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGTATACAT
AATGTATCGACACTTTTAAATTTGTGTCGATACATTTTGTCTAGTATGAATTCCAACGAGGTGCA
CG
Found at i:114617 original size:60 final size:60
Alignment explanation
Indices: 114524--114642 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
114514 TAAACGCATC
114524 AGCATGATAGGCATGATTGCAAAGTTGGGTTTAGGGTTTAAAATACTTACAGTTGTGTGT
1 AGCATGATAGGCATGATTGCAAAGTTGGGTTTAGGGTTTAAAATACTTACAGTTGTGTGT
*
114584 AGCATGATAGGCATGATTGCAAAGTTGGGTTTAGGGTTTAAAATACTTGCAGTTGTGTG
1 AGCATGATAGGCATGATTGCAAAGTTGGGTTTAGGGTTTAAAATACTTACAGTTGTGTG
114643 CAAATCCTAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.28, C:0.08, G:0.29, T:0.34
Consensus pattern (60 bp):
AGCATGATAGGCATGATTGCAAAGTTGGGTTTAGGGTTTAAAATACTTACAGTTGTGTGT
Found at i:114634 original size:30 final size:30
Alignment explanation
Indices: 114540--114634 Score: 70
Period size: 30 Copynumber: 3.2 Consensus size: 30
114530 ATAGGCATGA
114540 TTGCAAAGTTGGGTTTAGGGTTTAAAATAC
1 TTGCAAAGTTGGGTTTAGGGTTTAAAATAC
* * * ** * **
114570 TT--ACAGTTGTGTGTAGCATGATAGGCATGA-
1 TTGCAAAGTTGGGTTTAGGGT-TTA-AAAT-AC
114600 TTGCAAAGTTGGGTTTAGGGTTTAAAATAC
1 TTGCAAAGTTGGGTTTAGGGTTTAAAATAC
114630 TTGCA
1 TTGCA
114635 GTTGTGTGCA
Statistics
Matches: 43, Mismatches: 16, Indels: 12
0.61 0.23 0.17
Matches are distributed among these distances:
28 12 0.28
29 3 0.07
30 13 0.30
31 3 0.07
32 12 0.28
ACGTcount: A:0.28, C:0.08, G:0.27, T:0.36
Consensus pattern (30 bp):
TTGCAAAGTTGGGTTTAGGGTTTAAAATAC
Found at i:116014 original size:11 final size:11
Alignment explanation
Indices: 115981--116007 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
115971 TTTTTTTTTC
115981 AAAAAAACAAA
1 AAAAAAACAAA
115992 AAAAAAACAAA
1 AAAAAAACAAA
116003 AAAAA
1 AAAAA
116008 GCCAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:120860 original size:19 final size:19
Alignment explanation
Indices: 120833--120881 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
120823 AATGTATGGT
120833 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
* *
120852 TAATGTTGTATATGATTTA
1 TAATTTTGTATAAGATTTA
120871 TAATTTTGTAT
1 TAATTTTGTAT
120882 GTGAATGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:123844 original size:200 final size:198
Alignment explanation
Indices: 123487--123970 Score: 607
Period size: 200 Copynumber: 2.4 Consensus size: 198
123477 TGTCCAGAAT
* * *
123487 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCACAATAACATCGAAACCAATAATTATAATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAA-AAAATCGAAACCGATAATTATAATG
* * * * * *
123552 TAATAGGTAAATCTACAATGTAACTGGTATAAATATACCAGTTTTATGAGAAAATAAGTCAGCAT
65 TAATAGGTAAATTTACAATGTAACCGATAGAAATATACCAGTTTTATAAGAAAATAAGTCAGAAT
* * *
123617 AAAGTATCGACACCATTTAAATTTGTGTCGATACTTTTAGTCCATAATGAATGCCAAACGGGGTG
130 AAAGTATCGACACCATTTAAATTTGTGTCGATACTTTT-GTCCAGAATGAATACCAAACGAGGTG
123682 CACGAC
194 CACG-C
123688 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAATCGAAACCGATAATTACT-ATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAATCGAAACCGATAATTA-TAATG
* * * * *
123752 TGATAAGTAAATTTACAATGTACCCGATAGAAATATACCGGTTTTATAAGAAAATAGGTCTA-AA
65 TAATAGGTAAATTTACAATGTAACCGATAGAAATATACCAGTTTTATAAGAAAATAAGTC-AGAA
* * ** * * *
123816 TTATGTATCGACACTTTTTAACTTTGTGTCGATACTTTTTTCCAGAATGAATACCCAACGAGGTG
129 TAAAGTATCGACACCATTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATACCAAACGAGGTG
*
123881 CATGC
194 CACGC
* * * *
123886 ATAAAGTGTCGATGCATTTA--AAATTGTATCGATCCAAAAAACATCGAAGCCGATAATTATAAT
1 ATAAAGTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAA-ATCGAAACCGATAATTATAAT
*
123949 GTAATAGGTAAATTTGCAATGT
64 GTAATAGGTAAATTTACAATGT
123971 TACTGGTATA
Statistics
Matches: 246, Mismatches: 32, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
196 3 0.01
197 16 0.07
198 57 0.23
199 24 0.10
200 106 0.43
201 40 0.16
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (198 bp):
ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAAATCGAAACCGATAATTATAATGT
AATAGGTAAATTTACAATGTAACCGATAGAAATATACCAGTTTTATAAGAAAATAAGTCAGAATA
AAGTATCGACACCATTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATACCAAACGAGGTGCA
CGC
Found at i:124938 original size:17 final size:17
Alignment explanation
Indices: 124916--124948 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
124906 AAATTAAACT
*
124916 ATTAATAATAGTTAACC
1 ATTAATAATAGCTAACC
124933 ATTAATAATAGCTAAC
1 ATTAATAATAGCTAAC
124949 GATTTCAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (17 bp):
ATTAATAATAGCTAACC
Found at i:125714 original size:33 final size:33
Alignment explanation
Indices: 125672--125736 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
125662 AGTTATCATT
* *
125672 GATGATCTTGAAACTT-ATGTGCGTTAATGAATC
1 GATGATCTTGAAA-TTCATGCGAGTTAATGAATC
125705 GATGATCTTGAAATTCATGCGAGTTAATGAAT
1 GATGATCTTGAAATTCATGCGAGTTAATGAAT
125737 AGAAAATCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 2 0.07
33 27 0.93
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (33 bp):
GATGATCTTGAAATTCATGCGAGTTAATGAATC
Found at i:127331 original size:18 final size:18
Alignment explanation
Indices: 127308--127344 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
127298 ACCAGAGTAG
127308 AACAAATACTGATATCCA
1 AACAAATACTGATATCCA
127326 AACAAATACTGATATCCA
1 AACAAATACTGATATCCA
127344 A
1 A
127345 CACACCCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (18 bp):
AACAAATACTGATATCCA
Found at i:127459 original size:18 final size:18
Alignment explanation
Indices: 127436--127472 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
127426 CTGACAATCA
127436 GAAACTAAAAGTGAACCT
1 GAAACTAAAAGTGAACCT
127454 GAAACTAAAAGTGAACCT
1 GAAACTAAAAGTGAACCT
127472 G
1 G
127473 CGTAACATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.16, G:0.19, T:0.16
Consensus pattern (18 bp):
GAAACTAAAAGTGAACCT
Found at i:142498 original size:2 final size:2
Alignment explanation
Indices: 142491--142534 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
142481 AAATTATTTA
142491 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
142533 AT
1 AT
142535 TTCTTAAAAA
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:142717 original size:16 final size:18
Alignment explanation
Indices: 142686--142724 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
142676 TAATTGATAA
*
142686 TGTATCAAATAATAATTT
1 TGTATCAAATAATAATAT
142704 TGTAT-AAA-AATAATAT
1 TGTATCAAATAATAATAT
142720 TGTAT
1 TGTAT
142725 TTATAAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (18 bp):
TGTATCAAATAATAATAT
Found at i:146116 original size:40 final size:40
Alignment explanation
Indices: 146061--146141 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
146051 GTCGTTGATG
146061 AACAAAGTGACATAACAATTAAAAAACTTGATTTAATTAC
1 AACAAAGTGACATAACAATTAAAAAACTTGATTTAATTAC
146101 AACAAAGTGACATAACAATTAAAAAACTTGATTTAATTAC
1 AACAAAGTGACATAACAATTAAAAAACTTGATTTAATTAC
146141 A
1 A
146142 CAATTTATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.27
Consensus pattern (40 bp):
AACAAAGTGACATAACAATTAAAAAACTTGATTTAATTAC
Found at i:153850 original size:3 final size:3
Alignment explanation
Indices: 153844--153910 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
153834 TTTGGTGAAC
153844 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
153892 ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
153911 GGCTAAACTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:165164 original size:22 final size:19
Alignment explanation
Indices: 165131--165177 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
165121 ATGCTCCATC
165131 AAAAAAAAAGTT-GAATGCGA
1 AAAAAAAAAGTTCGAA--CGA
165151 AAAAAATAACAGTTCGAACGA
1 AAAAAA-AA-AGTTCGAACGA
165172 AAAAAA
1 AAAAAA
165178 GAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.25
21 11 0.46
22 4 0.17
23 3 0.12
ACGTcount: A:0.64, C:0.09, G:0.15, T:0.13
Consensus pattern (19 bp):
AAAAAAAAAGTTCGAACGA
Found at i:166318 original size:26 final size:25
Alignment explanation
Indices: 166274--166322 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
166264 TTTATAAAAG
*
166274 TTTTATCTTTTTCTTTTCAAGTTCT
1 TTTTATCTTTTTATTTTCAAGTTCT
*
166299 TTTTATTTTCTTTATTTTCAAGTT
1 TTTTATCTT-TTTATTTTCAAGTT
166323 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.14, C:0.12, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTTATCTTTTTATTTTCAAGTTCT
Found at i:175685 original size:35 final size:36
Alignment explanation
Indices: 175637--175707 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
175627 AAAAACCTGG
*
175637 GGGGAATCCGTACCCCCT-AGGGGGACTCTATTCCC
1 GGGGAATCCGTACCCCCTGAGGGGGAATCTATTCCC
* *
175672 GGGGAATCGGTACCCCCTGGGGGGGAATCTATTCCC
1 GGGGAATCCGTACCCCCTGAGGGGGAATCTATTCCC
175708 TCTGGGCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 17 0.53
36 15 0.47
ACGTcount: A:0.17, C:0.31, G:0.32, T:0.20
Consensus pattern (36 bp):
GGGGAATCCGTACCCCCTGAGGGGGAATCTATTCCC
Found at i:175924 original size:19 final size:20
Alignment explanation
Indices: 175900--175940 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
175890 TAATTTAATC
*
175900 CAATATATAAT-TTAAAATT
1 CAATATAAAATCTTAAAATT
175919 CAATATAAAATCTTAAAATT
1 CAATATAAAATCTTAAAATT
175939 CA
1 CA
175941 TTAACACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (20 bp):
CAATATAAAATCTTAAAATT
Found at i:182373 original size:2 final size:2
Alignment explanation
Indices: 182368--182427 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
182358 TATCTTATTC
182368 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
182410 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
182428 CCGCAAGCAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:182915 original size:20 final size:22
Alignment explanation
Indices: 182890--182947 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
182880 TTCCCCTTGA
182890 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
182910 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
182933 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
182948 CTACTCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:186745 original size:2 final size:2
Alignment explanation
Indices: 186740--186765 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
186730 TATCTTATTC
186740 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
186766 CCGCAAGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:187253 original size:20 final size:20
Alignment explanation
Indices: 187228--187265 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
187218 TTCCCCTTGA
187228 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
*
187248 AGTGCATCGATGCCTTCT
1 AGTGCATCGATGCATTCT
187266 TTAACATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:190094 original size:31 final size:31
Alignment explanation
Indices: 190047--190120 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
190037 TTAAAACTTG
*
190047 CAATATAGT-CCCCAACATTTAGCCCATTTA
1 CAATATGGTCCCCCAACATTTAGCCCATTTA
* * * *
190077 TAATATGGTCCCCCAACATTTAGTCTATTTG
1 CAATATGGTCCCCCAACATTTAGCCCATTTA
190108 CAATATGGTCCCC
1 CAATATGGTCCCC
190121 GACGTAACCG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 7 0.19
31 30 0.81
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.32
Consensus pattern (31 bp):
CAATATGGTCCCCCAACATTTAGCCCATTTA
Found at i:191030 original size:21 final size:21
Alignment explanation
Indices: 191004--191052 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
190994 TATTCAGTGT
191004 TAGTTTTAAACCAAAACCATC
1 TAGTTTTAAACCAAAACCATC
*
191025 TAGTTTTGAACCAAAACCATC
1 TAGTTTTAAACCAAAACCATC
*
191046 TATTTTT
1 TAGTTTT
191053 CTTTCTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (21 bp):
TAGTTTTAAACCAAAACCATC
Found at i:192145 original size:31 final size:31
Alignment explanation
Indices: 192104--192171 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
192094 TGGTTCTGCA
192104 GGGGACCATATTGCAAATAGACTAAATGTTG
1 GGGGACCATATTGCAAATAGACTAAATGTTG
* * * *
192135 GGGGATCATATTGTAAATGGACTAGATGTTG
1 GGGGACCATATTGCAAATAGACTAAATGTTG
192166 GGGGAC
1 GGGGAC
192172 TGTATTACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.26
Consensus pattern (31 bp):
GGGGACCATATTGCAAATAGACTAAATGTTG
Found at i:193733 original size:59 final size:59
Alignment explanation
Indices: 193638--193753 Score: 171
Period size: 59 Copynumber: 2.0 Consensus size: 59
193628 TGATTTTTCT
* * * * *
193638 TAAAATTGTTTTAAAAATATTTTTAGGTATTTGATCTGCCTAATCCAATGGTCGATGGC
1 TAAAATTGTTTTAAAAATAGTTTTAAGTATTCGATCTACCTAATCCAAAGGTCGATGGC
193697 TAAAATTGTTTTAAAAGAT-GTTTTAAGTATTCGATCTACCTAATCCAAAGGTCGATG
1 TAAAATTGTTTTAAAA-ATAGTTTTAAGTATTCGATCTACCTAATCCAAAGGTCGATG
193754 ACGGCTCCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 49 0.96
60 2 0.04
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (59 bp):
TAAAATTGTTTTAAAAATAGTTTTAAGTATTCGATCTACCTAATCCAAAGGTCGATGGC
Found at i:200844 original size:17 final size:16
Alignment explanation
Indices: 200808--200884 Score: 59
Period size: 17 Copynumber: 4.6 Consensus size: 16
200798 TTTAGCTATC
*
200808 TTTTATATTCTTTT-TT
1 TTTTAT-TTATTTTCTT
200824 TTTTCATTTATTTTCTT
1 TTTT-ATTTATTTTCTT
* *
200841 TTTTA-ATATTATCCATT
1 TTTTATTTATT-TTC-TT
200858 TTTATATTTATTTTCTTT
1 TTT-TATTTATTTTC-TT
200876 TTTTATTTA
1 TTTTATTTA
200885 GCTATTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
15 4 0.08
16 13 0.27
17 19 0.39
18 9 0.18
19 4 0.08
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTATTTATTTTCTT
Found at i:200878 original size:19 final size:19
Alignment explanation
Indices: 200809--200881 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 19
200799 TTAGCTATCT
* *
200809 TTTATATTCTTTTTTTTTTCA
1 TTTATTTTC-TTTTTTTAT-A
200830 TTTATTTTC-TTTTTTA-A
1 TTTATTTTCTTTTTTTATA
* **
200847 --TATTATCCATTTTTATA
1 TTTATTTTCTTTTTTTATA
200864 TTTATTTTCTTTTTTTAT
1 TTTATTTTCTTTTTTTAT
200882 TTAGCTATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
15 6 0.15
16 6 0.15
17 2 0.05
19 19 0.46
21 8 0.20
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTTTCTTTTTTTATA
Found at i:200892 original size:33 final size:34
Alignment explanation
Indices: 200829--200893 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
200819 TTTTTTTTTC
*
200829 ATTTATTTTCTTTTTTAATATTATCCATTTTTAT
1 ATTTATTTTCTTTTTTAATATTAGCCATTTTTAT
* *
200863 ATTTATTTTCTTTTTTTAT-TTAGCTATTTTT
1 ATTTATTTTCTTTTTTAATATTAGCCATTTTT
200894 TGGGTTTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 10 0.36
34 18 0.64
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.71
Consensus pattern (34 bp):
ATTTATTTTCTTTTTTAATATTAGCCATTTTTAT
Found at i:200894 original size:34 final size:36
Alignment explanation
Indices: 200820--200894 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 36
200810 TTATATTCTT
* *
200820 TTTTTTTTCATTTATTTTCTTTTTTAATATTATCCA
1 TTTTTTATCATTTATTTTCTTTTTTAATATTAGCCA
* *
200856 -TTTTTAT-ATTTATTTTCTTTTTTTAT-TTAGCTA
1 TTTTTTATCATTTATTTTCTTTTTTAATATTAGCCA
200889 TTTTTT
1 TTTTTT
200895 GGGTTTTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
33 5 0.15
34 23 0.68
35 6 0.18
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.73
Consensus pattern (36 bp):
TTTTTTATCATTTATTTTCTTTTTTAATATTAGCCA
Found at i:202264 original size:21 final size:21
Alignment explanation
Indices: 202231--202282 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
202221 TCGCTAACTT
*
202231 TTTCCTTTAATTTT-TGTTTTC
1 TTTCATTTAATTTTAT-TTTTC
*
202252 TTTCATTTTATTTTATTTTTC
1 TTTCATTTAATTTTATTTTTC
*
202273 TATCATTTAA
1 TTTCATTTAA
202283 ATCATTCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.17, C:0.12, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTCATTTAATTTTATTTTTC
Found at i:216953 original size:2 final size:2
Alignment explanation
Indices: 216946--216994 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
216936 TTATATTCAT
216946 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
216988 TA TA TA T
1 TA TA TA T
216995 CTTTTTACTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:227156 original size:34 final size:34
Alignment explanation
Indices: 227086--227187 Score: 152
Period size: 34 Copynumber: 3.0 Consensus size: 34
227076 TGAATTATAT
*
227086 ATTAAATAACTCATTTCAACTTATTAA-AATTCA
1 ATTAAATAACTCATTTCGACTTATTAAGAATTCA
* *
227119 ATTAAATAATTTATTTCGACTTATTAAGAATTCA
1 ATTAAATAACTCATTTCGACTTATTAAGAATTCA
* *
227153 ATTACATAACGCATTTCGACTTATTAAGAATTCA
1 ATTAAATAACTCATTTCGACTTATTAAGAATTCA
227187 A
1 A
227188 ATTGAATCCA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
33 24 0.39
34 37 0.61
ACGTcount: A:0.42, C:0.14, G:0.05, T:0.39
Consensus pattern (34 bp):
ATTAAATAACTCATTTCGACTTATTAAGAATTCA
Found at i:231919 original size:31 final size:30
Alignment explanation
Indices: 231832--231926 Score: 145
Period size: 30 Copynumber: 3.1 Consensus size: 30
231822 CTCATTAATC
* *
231832 AAAACTTAATAAAACATAGCGTAAATGACG
1 AAAACTTAATAAAACATAGCATAAGTGACG
231862 AAAACTTAATAAAACATAGCATAAGTGACG
1 AAAACTTAATAAAACATAGCATAAGTGACG
* *
231892 AAAACTTAATAAAACAATAACATAAGTGACA
1 AAAACTTAATAAAAC-ATAGCATAAGTGACG
231923 AAAA
1 AAAA
231927 ATTATGTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 43 0.72
31 17 0.28
ACGTcount: A:0.58, C:0.13, G:0.11, T:0.19
Consensus pattern (30 bp):
AAAACTTAATAAAACATAGCATAAGTGACG
Found at i:234633 original size:19 final size:20
Alignment explanation
Indices: 234487--234633 Score: 160
Period size: 19 Copynumber: 7.5 Consensus size: 20
234477 CATTCCCAAT
*
234487 TTCGCAACACAGAA-GTCAAA
1 TTCGCAACAC-GAATTTCAAA
*
234507 TTCGCAACGCG-ATTTCCAAA
1 TTCGCAACACGAATTT-CAAA
234527 TTCGCAACACTGAATTTCAAA
1 TTCGCAACAC-GAATTTCAAA
*
234548 TTCGCAAC-TGAATTTCAAA
1 TTCGCAACACGAATTTCAAA
*
234567 TTCGCAAC-TGAATTTCAAA
1 TTCGCAACACGAATTTCAAA
* * *
234586 TTCGCAACTCGATTTTCGAA
1 TTCGCAACACGAATTTCAAA
*
234606 TTCGCAACACGAATTT-AAT
1 TTCGCAACACGAATTTCAAA
234625 TTCGCAACA
1 TTCGCAACA
234634 GGTTTTAGTT
Statistics
Matches: 111, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.01
19 49 0.44
20 44 0.40
21 13 0.12
22 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.28
Consensus pattern (20 bp):
TTCGCAACACGAATTTCAAA
Found at i:234824 original size:16 final size:15
Alignment explanation
Indices: 234789--234827 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
234779 TCCCCATCTC
*
234789 TAATTTTTTTTTACA
1 TAATTTTTTTCTACA
*
234804 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
234820 TAATTTTT
1 TAATTTTT
234828 CAATGATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:235600 original size:23 final size:24
Alignment explanation
Indices: 235570--235622 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
235560 GTATTCAAAA
*
235570 TTTGATCTT-GTTAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
235593 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
235617 TTTGAT
1 TTTGAT
235623 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:237856 original size:18 final size:18
Alignment explanation
Indices: 237833--237868 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
237823 AAGCAAAAGG
*
237833 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
237851 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
237869 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:238186 original size:20 final size:20
Alignment explanation
Indices: 238161--238199 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
238151 TCGTTGCAAT
238161 AGTCAAATTCGCAAGGCGAA
1 AGTCAAATTCGCAAGGCGAA
* *
238181 AGTCAAATTTGCAATGCGA
1 AGTCAAATTCGCAAGGCGA
238200 TTGTTGCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (20 bp):
AGTCAAATTCGCAAGGCGAA
Found at i:238308 original size:20 final size:20
Alignment explanation
Indices: 238252--238308 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
238242 AAATCGCAAC
*
238252 GCGAATTTGACTTTCACCTT
1 GCGAATTTGACTTTCGCCTT
*
238272 GCGAATTTCACTTTCGCCTT
1 GCGAATTTGACTTTCGCCTT
*
238292 GCGAATTTGACTATCGC
1 GCGAATTTGACTTTCGC
238309 AACGTGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (20 bp):
GCGAATTTGACTTTCGCCTT
Found at i:238485 original size:64 final size:64
Alignment explanation
Indices: 238406--238563 Score: 280
Period size: 64 Copynumber: 2.5 Consensus size: 64
238396 TGAATTTAAC
*
238406 AACAAATCAACTTTTACAAATCAATTAAACAAGCATAAAATAATTCTTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
* *
238470 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
238534 AACAAATCAACTTTTACAAATCAATGTAAA
1 AACAAATCAACTTTTACAAATCAAT-TAAA
238564 ATTCAATTAA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 86 0.96
65 4 0.04
ACGTcount: A:0.50, C:0.18, G:0.02, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
Found at i:239937 original size:21 final size:21
Alignment explanation
Indices: 239910--240028 Score: 125
Period size: 21 Copynumber: 5.7 Consensus size: 21
239900 GTGAACCAGG
* *
239910 CTCTTGAACGGTGGGAGGGAC
1 CTCTTGAACGATGAGAGGGAC
* *
239931 TTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGAC
* *
239952 CTCTTGAATGAT-AGGAGGGGC
1 CTCTTGAACGATGA-GAGGGAC
* *
239973 CTCCTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGAC
*
239994 CTCTTGAACGAT-ATGAGGCAC
1 CTCTTGAACGATGA-GAGGGAC
240015 CTCTTGAACGATGA
1 CTCTTGAACGATGA
240029 CAGGTGAATC
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.02
21 79 0.95
22 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGAC
Found at i:239969 original size:42 final size:42
Alignment explanation
Indices: 239910--240028 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
239900 GTGAACCAGG
* * *
239910 CTCTTGAACGGTGGGAGGGACTTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATAGGAGGGACCTCTTGAACGATGAGAGGGGC
* * *
239952 CTCTTGAATGATAGGAGGGGCCTCCTGAACGATGAGAGGGGC
1 CTCTTGAACGATAGGAGGGACCTCTTGAACGATGAGAGGGGC
* *
239994 CTCTTGAACGATATGAGGCACCTCTTGAACGATGA
1 CTCTTGAACGATAGGAGGGACCTCTTGAACGATGA
240029 CAGGTGAATC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGATAGGAGGGACCTCTTGAACGATGAGAGGGGC
Found at i:242214 original size:20 final size:20
Alignment explanation
Indices: 242178--242259 Score: 128
Period size: 20 Copynumber: 4.1 Consensus size: 20
242168 AAACTTAAAT
* *
242178 TCGCATCGCAAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
242198 TCGCAACGCGAACATGAAAA
1 TCGCAACGCGAAAATGAAAA
242218 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
242238 TCGCAACGAGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
242258 TC
1 TC
242260 ACAAAACTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:242272 original size:40 final size:40
Alignment explanation
Indices: 242188--242272 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
242178 TCGCATCGCA
* * * **
242188 AAAATGAAAATCGCAACGCGAACATGAAAATCGCAACGCG
1 AAAATGAAAATCGCAACGAGAAAATGAAAATCACAAAACG
*
242228 AAAATGAAAATCGCAACGAGAAAATGAAAATCACAAAACT
1 AAAATGAAAATCGCAACGAGAAAATGAAAATCACAAAACG
242268 AAAAT
1 AAAAT
242273 CGCGTTGCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.55, C:0.18, G:0.15, T:0.12
Consensus pattern (40 bp):
AAAATGAAAATCGCAACGAGAAAATGAAAATCACAAAACG
Found at i:242672 original size:22 final size:22
Alignment explanation
Indices: 242645--242695 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
242635 GATGGAGATA
242645 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
**
242667 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
242689 GACGGAT
1 GACGGAT
242696 ATCGCTGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:242891 original size:20 final size:20
Alignment explanation
Indices: 242868--242919 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
242858 TTGACCTCTG
242868 TGTTGCGAATTTAACTTATA
1 TGTTGCGAATTTAACTTATA
** * *
242888 TGTTATGAATTTGACTTATG
1 TGTTGCGAATTTAACTTATA
242908 TGTTGCG-ATTTA
1 TGTTGCGAATTTA
242920 CAAATTCGCG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.48
Consensus pattern (20 bp):
TGTTGCGAATTTAACTTATA
Found at i:242952 original size:20 final size:20
Alignment explanation
Indices: 242922--242980 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
242912 GCGATTTACA
*
242922 AATTCGCGTTGCGAATTTGG
1 AATTTGCGTTGCGAATTTGG
* *
242942 AAATTTG-GTTGCAAAATTGG
1 -AATTTGCGTTGCGAATTTGG
*
242962 AGTTTGCGTTGCGAATTTG
1 AATTTGCGTTGCGAATTTG
242981 TTGGTCATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 5 0.16
20 21 0.68
21 5 0.16
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.37
Consensus pattern (20 bp):
AATTTGCGTTGCGAATTTGG
Found at i:246486 original size:21 final size:21
Alignment explanation
Indices: 246460--246508 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
246450 CATGGCATAA
246460 CTCAAAACCCAAAGGAAATTG
1 CTCAAAACCCAAAGGAAATTG
*
246481 CTCAAAATCCAAAGGAAATTG
1 CTCAAAACCCAAAGGAAATTG
246502 CTCAAAA
1 CTCAAAA
246509 ATTGAAAAGA
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:0.49, C:0.22, G:0.12, T:0.16
Consensus pattern (21 bp):
CTCAAAACCCAAAGGAAATTG
Found at i:247952 original size:24 final size:24
Alignment explanation
Indices: 247908--247957 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
247898 ATAAATAACC
*
247908 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
247932 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
247956 AA
1 AA
247958 GCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:258186 original size:24 final size:24
Alignment explanation
Indices: 258142--258191 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
258132 ATAAAGAACC
*
258142 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
258166 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
258190 AA
1 AA
258192 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:280440 original size:135 final size:136
Alignment explanation
Indices: 280284--280556 Score: 539
Period size: 135 Copynumber: 2.0 Consensus size: 136
280274 ATTTTTAAGG
280284 CAGAAGTTGAGAATTAGTTAGATAGGAGAATCAAATGACTTAGATTTGATAGAGGTGGTGAATAC
1 CAGAAGTTGAGAATTAGTTAGATAGGAGAATCAAATGACTTAGATTTGATAGAGGTGGTGAATAC
280349 GGATCGATTTCTTAAAAGAGATGTGTGAGAAGAATAACATAATTCACGAAACTTTTT-TCCTTAT
66 GGATCGATTTCTTAAAAGAGATGTGTGAGAAGAATAACATAATTCACGAAACTTTTTCTCCTTAT
280413 TTTCCT
131 TTTCCT
280419 CAGAAGTTGAGAATTAGTTAGATAGGAGAATCAAATGACTTAGATTTGATAGAGGTGGTGAATAC
1 CAGAAGTTGAGAATTAGTTAGATAGGAGAATCAAATGACTTAGATTTGATAGAGGTGGTGAATAC
280484 GGATCGATTTCTTAAAAGAGATGTGTGAGAAGAATAACATAATTCACGAAACTTTTTCTCCTTAT
66 GGATCGATTTCTTAAAAGAGATGTGTGAGAAGAATAACATAATTCACGAAACTTTTTCTCCTTAT
280549 TTTCCT
131 TTTCCT
280555 CA
1 CA
280557 ACAAAACGAT
Statistics
Matches: 137, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
135 122 0.89
136 15 0.11
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (136 bp):
CAGAAGTTGAGAATTAGTTAGATAGGAGAATCAAATGACTTAGATTTGATAGAGGTGGTGAATAC
GGATCGATTTCTTAAAAGAGATGTGTGAGAAGAATAACATAATTCACGAAACTTTTTCTCCTTAT
TTTCCT
Found at i:286839 original size:6 final size:6
Alignment explanation
Indices: 286825--286888 Score: 83
Period size: 6 Copynumber: 10.7 Consensus size: 6
286815 CAGCTTTAGC
* * * *
286825 AGAAGA AGAACA AGAACA AGAACA AGAACA AGAAGA ACAAGA AGAACA
1 AGAACA AGAACA AGAACA AGAACA AGAACA AGAACA AGAACA AGAACA
*
286873 AGAAGA AGAACA AGAA
1 AGAACA AGAACA AGAA
286889 TTGGGCTATA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.67, C:0.11, G:0.22, T:0.00
Consensus pattern (6 bp):
AGAACA
Found at i:286845 original size:12 final size:12
Alignment explanation
Indices: 286825--286888 Score: 92
Period size: 12 Copynumber: 5.3 Consensus size: 12
286815 CAGCTTTAGC
286825 AGAAGAAGAACA
1 AGAAGAAGAACA
*
286837 AGAACAAGAACA
1 AGAAGAAGAACA
* *
286849 AGAACAAGAAGA
1 AGAAGAAGAACA
*
286861 ACAAGAAGAACA
1 AGAAGAAGAACA
286873 AGAAGAAGAACA
1 AGAAGAAGAACA
286885 AGAA
1 AGAA
286889 TTGGGCTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.67, C:0.11, G:0.22, T:0.00
Consensus pattern (12 bp):
AGAAGAAGAACA
Found at i:286888 original size:9 final size:9
Alignment explanation
Indices: 286827--286879 Score: 79
Period size: 9 Copynumber: 5.9 Consensus size: 9
286817 GCTTTAGCAG
286827 AAGAAGAAC
1 AAGAAGAAC
* *
286836 AAGAACAAG
1 AAGAAGAAC
*
286845 AACAAGAAC
1 AAGAAGAAC
286854 AAGAAGAAC
1 AAGAAGAAC
286863 AAGAAGAAC
1 AAGAAGAAC
286872 AAGAAGAA
1 AAGAAGAA
286880 GAACAAGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.68, C:0.11, G:0.21, T:0.00
Consensus pattern (9 bp):
AAGAAGAAC
Found at i:287496 original size:18 final size:18
Alignment explanation
Indices: 287473--287510 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
287463 ATTGCAGTCG
287473 CTACTATTGTTGTCGTCA
1 CTACTATTGTTGTCGTCA
*
287491 CTACTATTGTTGTTGTCA
1 CTACTATTGTTGTCGTCA
287509 CT
1 CT
287511 GCAGCTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (18 bp):
CTACTATTGTTGTCGTCA
Found at i:287840 original size:32 final size:33
Alignment explanation
Indices: 287798--287860 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
287788 TGTGTAAAAA
* *
287798 TAATTTAAAC-AATAATAATTTAATATAAACAT
1 TAATTGAAACAAAAAATAATTTAATATAAACAT
*
287830 TAATTGAAACAAAAAATAATTTAATCTAAAC
1 TAATTGAAACAAAAAATAATTTAATATAAAC
287861 TAACAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (33 bp):
TAATTGAAACAAAAAATAATTTAATATAAACAT
Found at i:288048 original size:26 final size:26
Alignment explanation
Indices: 288019--288071 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
288009 CAAAAATCAA
288019 TTTAATAAACCAAACAAATTAAAAAT
1 TTTAATAAACCAAACAAATTAAAAAT
* *
288045 TTTAATAAATCGAACAAATTAAAAAT
1 TTTAATAAACCAAACAAATTAAAAAT
288071 T
1 T
288072 ATCTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (26 bp):
TTTAATAAACCAAACAAATTAAAAAT
Found at i:288130 original size:4 final size:4
Alignment explanation
Indices: 288121--288173 Score: 60
Period size: 4 Copynumber: 13.8 Consensus size: 4
288111 ACCTTCGAAC
288121 TCTT TCTT TC-T TC-T TCTT TCTT TCGTCT TCTT TCTT TC-T TC-T TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TC-T-T TCTT TCTT TCTT TCTT TCTT
288167 TCTT TCT
1 TCTT TCT
288174 CTTTTCCCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 12 0.27
4 28 0.62
5 2 0.04
6 3 0.07
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (4 bp):
TCTT
Found at i:288140 original size:14 final size:14
Alignment explanation
Indices: 288121--288173 Score: 97
Period size: 14 Copynumber: 3.8 Consensus size: 14
288111 ACCTTCGAAC
288121 TCTTTCTTTCTTCT
1 TCTTTCTTTCTTCT
*
288135 TCTTTCTTTCGTCT
1 TCTTTCTTTCTTCT
288149 TCTTTCTTTCTTCT
1 TCTTTCTTTCTTCT
288163 TCTTTCTTTCT
1 TCTTTCTTTCT
288174 CTTTTCCCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (14 bp):
TCTTTCTTTCTTCT
Found at i:288177 original size:10 final size:10
Alignment explanation
Indices: 288124--288170 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
288114 TTCGAACTCT
288124 TTCTTTCTTC
1 TTCTTTCTTC
288134 TTCTTTC-T-
1 TTCTTTCTTC
*
288142 TTC-GTCTTC
1 TTCTTTCTTC
288151 TTTCTTTCTTC
1 -TTCTTTCTTC
288162 TTCTTTCTT
1 TTCTTTCTT
288171 TCTCTTTTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
7 2 0.06
8 4 0.13
9 1 0.03
10 19 0.61
11 5 0.16
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (10 bp):
TTCTTTCTTC
Found at i:290146 original size:16 final size:17
Alignment explanation
Indices: 290109--290146 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
290099 CGCATACCAA
290109 TTTTTGTCTTAAAAATG
1 TTTTTGTCTTAAAAATG
* *
290126 ATTTT-TCTTAAAATTG
1 TTTTTGTCTTAAAAATG
290142 TTTTT
1 TTTTT
290147 AAAAGACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (17 bp):
TTTTTGTCTTAAAAATG
Found at i:290979 original size:19 final size:19
Alignment explanation
Indices: 290957--290995 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
290947 TCTCATTAAC
* *
290957 TTTTCCTTTCATTTTGTTT
1 TTTTCATTTCATTTTATTT
*
290976 TTTTTATTTCATTTTATTT
1 TTTTCATTTCATTTTATTT
290995 T
1 T
290996 CATCATTTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (19 bp):
TTTTCATTTCATTTTATTT
Found at i:293553 original size:2 final size:2
Alignment explanation
Indices: 293546--293582 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
293536 ATTATTATTA
293546 AT AT AT AT AT AT -T 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
293583 TTATGTGACT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:293624 original size:16 final size:17
Alignment explanation
Indices: 293592--293624 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
293582 TTTATGTGAC
293592 TAATATGAAAATAATAA
1 TAATATGAAAATAATAA
*
293609 TAATAT-AAAGTAATAA
1 TAATATGAAAATAATAA
293625 CAAATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (17 bp):
TAATATGAAAATAATAA
Found at i:293649 original size:16 final size:16
Alignment explanation
Indices: 293630--293662 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
293620 AATAACAAAT
293630 TAATA-TTATAAATAAA
1 TAATATTTA-AAATAAA
293646 TAATATTTAAAATAAA
1 TAATATTTAAAATAAA
293662 T
1 T
293663 TTAAAAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATATTTAAAATAAA
Found at i:294950 original size:3 final size:3
Alignment explanation
Indices: 294942--295000 Score: 72
Period size: 3 Copynumber: 21.0 Consensus size: 3
294932 ATTATTTATT
* *
294942 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAA TAA TAT TAA -AA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
294987 -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
295001 ATAAAACAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
2 8 0.16
3 42 0.84
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:294966 original size:19 final size:20
Alignment explanation
Indices: 294942--295004 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 20
294932 ATTATTTATT
294942 TAATAATAATAAT-ATAATA
1 TAATAATAATAATAATAATA
*
294961 TAATAATAATAATAATATTA
1 TAATAATAATAATAATAATA
* *
294981 AAACAA-AATAATAATAATA
1 TAATAATAATAATAATAATA
295000 -AATAA
1 TAATAA
295005 AACAAATGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
18 4 0.11
19 25 0.66
20 9 0.24
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TAATAATAATAATAATAATA
Found at i:294970 original size:22 final size:22
Alignment explanation
Indices: 294942--295003 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
294932 ATTATTTATT
*
294942 TAATAATAATAATATAATATAA
1 TAATAATAATAATATAATACAA
*
294964 TAATAATAATAATATTAAAACAA
1 TAATAATAATAATA-TAATACAA
294987 -AATAATAATAATA-AATA
1 TAATAATAATAATATAATA
295004 AAACAAATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 3 0.08
22 27 0.75
23 6 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
TAATAATAATAATATAATACAA
Found at i:294976 original size:25 final size:25
Alignment explanation
Indices: 294942--295010 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
294932 ATTATTTATT
* * *
294942 TAATAATAATAATATAATATAATAA
1 TAATAATAATAATAAAACAAAATAA
*
294967 TAATAATAATATTAAAACAAAATAA
1 TAATAATAATAATAAAACAAAATAA
294992 TAATAAT-A-AATAAAACAAA
1 TAATAATAATAATAAAACAAA
295011 TGAAATAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 10 0.26
24 1 0.03
25 28 0.72
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (25 bp):
TAATAATAATAATAAAACAAAATAA
Found at i:295011 original size:22 final size:22
Alignment explanation
Indices: 294943--295011 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
294933 TTATTTATTT
* *
294943 AATAATAATAATATAATATAA-T
1 AATAATAATAATA-AATAAAACA
*
294965 AATAATAATAAT-ATTAAAACAA
1 AATAATAATAATAAATAAAAC-A
294987 AATAATAATAATAAATAAAACA
1 AATAATAATAATAAATAAAACA
295009 AAT
1 AAT
295012 GAAATAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 5 0.12
22 28 0.70
23 7 0.17
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAATAATAATAAATAAAACA
Found at i:295401 original size:84 final size:84
Alignment explanation
Indices: 295288--295521 Score: 389
Period size: 84 Copynumber: 2.8 Consensus size: 84
295278 GGCAATGTTG
* * * *
295288 ATGCTGATCTATCTTCTTCTGGGACAGAATCTTGCAAAAGGTTGAACAAGTTCTTCTTATTATGA
1 ATGCTAATCTATCTCCTTCTGTGATAGAATCTTGCAAAAGGTTGAACAAGTTCTTCTTATTATGA
*
295353 ATTTTCTCTGGAAAAGTGT
66 ATTTTCTCTAGAAAAGTGT
295372 ATGCTAATCTATCTCCTTCTGTGATAGAATCTTGCAAAAGGTTGAACAAGTTCTTCTTATTATGA
1 ATGCTAATCTATCTCCTTCTGTGATAGAATCTTGCAAAAGGTTGAACAAGTTCTTCTTATTATGA
295437 ATTTTCTCTAGAAAAGTGT
66 ATTTTCTCTAGAAAAGTGT
* *
295456 ATGCTAATCTATCTCCTTCTGTGATA-AAGTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATG
1 ATGCTAATCTATCTCCTTCTGTGATAGAA-TCTTGCAAAAGGTTGAACAAGTTCTTCTTATTATG
295520 AA
65 AA
295522 CTTCTTCTTC
Statistics
Matches: 142, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
83 2 0.01
84 140 0.99
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (84 bp):
ATGCTAATCTATCTCCTTCTGTGATAGAATCTTGCAAAAGGTTGAACAAGTTCTTCTTATTATGA
ATTTTCTCTAGAAAAGTGT
Found at i:295452 original size:41 final size:40
Alignment explanation
Indices: 295323--295452 Score: 94
Period size: 41 Copynumber: 3.1 Consensus size: 40
295313 AGAATCTTGC
295323 AAAAGGTTGAACAAGTTCTTCTTATTATGAATTTTCTCTGG
1 AAAAGGTTGAACAAGTTCTTCTTATTATGAATTTTCTCT-G
*
295364 AAAAGTGTATGCTAATCTA-TCTCCTTCTGTGA-TA-GAA---TCT-TG
1 AAAAG-GT-TG--AA-CAAGT-T-CTTCT-T-ATTATGAATTTTCTCTG
295406 CAAAAGGTTGAACAAGTTCTTCTTATTATGAATTTTCTCTAG
1 -AAAAGGTTGAACAAGTTCTTCTTATTATGAATTTTCTCT-G
295448 AAAAG
1 AAAAG
295453 TGTATGCTAA
Statistics
Matches: 69, Mismatches: 2, Indels: 36
0.64 0.02 0.34
Matches are distributed among these distances:
35 1 0.01
36 3 0.04
37 8 0.12
38 3 0.04
39 3 0.04
40 3 0.04
41 13 0.19
42 6 0.09
43 8 0.12
44 3 0.04
45 3 0.04
46 3 0.04
47 8 0.12
48 3 0.04
49 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (40 bp):
AAAAGGTTGAACAAGTTCTTCTTATTATGAATTTTCTCTG
Found at i:295682 original size:112 final size:111
Alignment explanation
Indices: 295490--295792 Score: 509
Period size: 112 Copynumber: 2.7 Consensus size: 111
295480 TAAAGTCATG
* *
295490 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CATCTTCAGATAAGTTCTTCTCA
1 CAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
295554 TTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAA
65 TTATGAACTCT-TCTGGAAATGTTGATCCATCAAGTGATGAATTTGAA
* * *
295602 CAAAAGTTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
295667 TTATGAACTCTTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAA
65 TTATGAACTCTTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAA
295714 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 C-AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
295779 TTATGAACTCTTCT
65 TTATGAACTCTTCT
295793 TCTTCAGATG
Statistics
Matches: 179, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
111 1 0.01
112 143 0.80
113 35 0.20
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (111 bp):
CAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAA
Found at i:295798 original size:35 final size:36
Alignment explanation
Indices: 295728--295822 Score: 147
Period size: 35 Copynumber: 2.6 Consensus size: 36
295718 AAGTTGAACA
295728 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1 AGTTCTTCTCATTATGAA---C-TCTTCCTTCTTCAGATG
295768 AGTTCTTCTCATTATGAACTCTT-CTTCTTCAGATG
1 AGTTCTTCTCATTATGAACTCTTCCTTCTTCAGATG
295803 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
295823 TTACCTAGAA
Statistics
Matches: 55, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
35 32 0.58
36 4 0.07
37 1 0.02
40 18 0.33
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (36 bp):
AGTTCTTCTCATTATGAACTCTTCCTTCTTCAGATG
Found at i:295813 original size:260 final size:263
Alignment explanation
Indices: 295504--296049 Score: 847
Period size: 260 Copynumber: 2.1 Consensus size: 263
295494 AGGTTGAACA
295504 AGTTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATAAGTTCTTCTCATTATGAACTTT-CTC
1 AGTTCTTCTCATTATGAAC-TCTTCTT-ATCTTCAGATAAGTTCTTCTCATTATGAACTTTAC-C
* * *
295568 TGGAAATGTTGATCCATCAAGTGATGAATTTGAA-C-AAAAGTTTAAACAAGTTCTTCTCATTAT
63 TAGAAATGTTGATCCATCAAATGATGAA-TTCAAGCGAAAAG-TTAAACAAGTTCTTCTCATTAT
* ** *
295631 GAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTC-TTCTGGAAATGTTGATCC
126 GAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGAAATGCTGATCC
*
295695 ATC-AAGTGATGAATTTGAA-CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
191 ATCGAA-TGATGAA-TTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
295758 TCTTCAGATG
254 TCTTCAGATG
*
295768 AGTTCTTCTCATTATGAACTCTTC-T-TCTTCAGATGAGTTCTTCTCATTATGAACTTTACCTAG
1 AGTTCTTCTCATTATGAACTCTTCTTATCTTCAGATAAGTTCTTCTCATTATGAACTTTACCTAG
*
295831 AAATGTTGATCCATCAAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACT
66 AAATGTTGATCCATCAAATGATGAATTCAAGCGAAAAGTTAAACAAGTTCTTCTCATTATGAACT
* *
295896 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGTAATGCTGATCCATCGA
131 TCCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGAAATGCTGATCCATCGA
* *
295961 ATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAG
196 ATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
296026 ATG
261 ATG
296029 AGTTCTTCTCATTATGAACTC
1 AGTTCTTCTCATTATGAACTC
296050 AACCTGAGAT
Statistics
Matches: 262, Mismatches: 14, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
259 4 0.02
260 128 0.49
261 103 0.39
262 3 0.01
263 5 0.02
264 19 0.07
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (263 bp):
AGTTCTTCTCATTATGAACTCTTCTTATCTTCAGATAAGTTCTTCTCATTATGAACTTTACCTAG
AAATGTTGATCCATCAAATGATGAATTCAAGCGAAAAGTTAAACAAGTTCTTCTCATTATGAACT
TCCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGAAATGCTGATCCATCGA
ATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATG
Found at i:295855 original size:148 final size:148
Alignment explanation
Indices: 295616--295936 Score: 513
Period size: 148 Copynumber: 2.1 Consensus size: 148
295606 AGTTTAAACA
*
295616 AGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTTCT
1 AGTTCTTCTCATTATGAA----CTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
* * *
295681 GGAAATGTTGATCCATCAAGTGATGAATTTGAA-CAAAAAGTTGAACAAGTTCTTCTCATTATGA
62 AGAAATGTTGATCCATCAAATGATGAA-TTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGA
295745 ACTTCTTCTTCCTTCTTCAGATG
126 ACTTCTTCTTCCTTCTTCAGATG
295768 AGTTCTTCTCATTATGAACTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTACCTAG
1 AGTTCTTCTCATTATGAACTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTT--CTAG
*
295831 AAATGTTGATCCATCAAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACT
64 AAATGTTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
295896 TCTTCTTCCTTCTTCAGATG
129 TCTTCTTCCTTCTTCAGATG
295916 AGTTCTTCTCATTATGAACTC
1 AGTTCTTCTCATTATGAACTC
295937 GACCTGGTAA
Statistics
Matches: 161, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
146 2 0.01
147 35 0.22
148 106 0.66
152 18 0.11
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (148 bp):
AGTTCTTCTCATTATGAACTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTAGAA
ATGTTGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC
TTCTTCCTTCTTCAGATG
Found at i:295918 original size:113 final size:112
Alignment explanation
Indices: 295768--296078 Score: 488
Period size: 113 Copynumber: 2.8 Consensus size: 112
295758 TCTTCAGATG
**
295768 AGTTCTTCTCATTATGAA---C-TCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAACC
*
295828 TAGAAATGTTGATCCATCAAATGATGAATTCAAGCGAAAAGTTGAACA
66 T-GAAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
*
295876 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAACC
* *
295941 TGGTAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
66 T-GAAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
*
295989 AGTTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTCAACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAACC
* *
296054 TGAGATGTTGATCCATTGAATGATG
66 TGAAATGTTGATCCATCGAATGATG
296079 GATTTGAACC
Statistics
Matches: 186, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
108 18 0.10
111 1 0.01
112 24 0.13
113 143 0.77
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (112 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAACC
TGAAATGTTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACA
Found at i:295968 original size:148 final size:148
Alignment explanation
Indices: 295682--295968 Score: 407
Period size: 148 Copynumber: 1.9 Consensus size: 148
295672 AACTCTTCTG
* *
295682 GAAATGTTGATCCATCAAGTGATGAATTTGAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
1 GAAATGTTGATCCATCAAATGATGAATTTCAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
** * * * * * *
295747 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTTCTTCAGATGAGTTCTTCT
66 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTCGTAAGATGAGTCCATCG
* *
295812 CATTATGAACTTTACCTA
131 AATGATGAACTTTACCTA
*
295830 GAAATGTTGATCCATCAAATGATGAA-TTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAA
1 GAAATGTTGATCCATCAAATGATGAATTTCAA-CAAAAAGTTGAACAAGTTCTTCTCATTATGAA
* *
295894 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGTAATGCTGA-TCCAT
65 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTCGTAA-GATGAGTCCAT
295958 CGAATGATGAA
129 CGAATGATGAA
295969 TTCAAGCGAA
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
147 4 0.03
148 114 0.93
149 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (148 bp):
GAAATGTTGATCCATCAAATGATGAATTTCAACAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTCGTAAGATGAGTCCATCG
AATGATGAACTTTACCTA
Found at i:296511 original size:22 final size:22
Alignment explanation
Indices: 296486--296539 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
296476 GATAAAGCTT
*
296486 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
296508 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
296530 TCATCTTTGA
1 TCATCTTTGA
296540 TGAGTGTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:298998 original size:31 final size:30
Alignment explanation
Indices: 298958--299015 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
298948 TGTGGTCCGA
*
298958 ATTTATCAATTGCAAAGTTGATAGATTCTG
1 ATTTATCAATTGCAAAGTTGACAGATTCTG
*
298988 ATTTCATCAATTGCAGAGTTGACAGATT
1 ATTT-ATCAATTGCAAAGTTGACAGATT
299016 TTATATATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (30 bp):
ATTTATCAATTGCAAAGTTGACAGATTCTG
Found at i:301471 original size:10 final size:10
Alignment explanation
Indices: 301436--301528 Score: 65
Period size: 10 Copynumber: 9.6 Consensus size: 10
301426 TCTTGGTTCA
301436 ATTTTTTC-C
1 ATTTTTTCTC
*
301445 TTTTTTTC-C
1 ATTTTTTCTC
*
301454 TTTTTTTCTC
1 ATTTTTTCTC
301464 ATTTTTTCTC
1 ATTTTTTCTC
*
301474 ATTTTCCTTTTTC
1 A-TTT--TTTCTC
*
301487 ATCTTTT-TC
1 ATTTTTTCTC
301496 ATCTTTTT-TC
1 AT-TTTTTCTC
301506 -TTTTTT-TC
1 ATTTTTTCTC
301514 -TTTTTTCTC
1 ATTTTTTCTC
301523 ATTTTT
1 ATTTTT
301529 CTTTTTTTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
8 13 0.18
9 23 0.32
10 25 0.35
11 3 0.04
12 2 0.03
13 6 0.08
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTTTTCTC
Found at i:301494 original size:16 final size:16
Alignment explanation
Indices: 301456--301545 Score: 76
Period size: 16 Copynumber: 5.3 Consensus size: 16
301446 TTTTTTCCTT
301456 TTTTTCTCATTTTTTCTC
1 TTTTTCTC--TTTTTCTC
*
301474 ATTTTC-CTTTTTCATC
1 TTTTTCTCTTTTTC-TC
301490 TTTTTCATCTTTTT-TC
1 TTTTTC-TCTTTTTCTC
*
301506 TTTTTTTCTTTTTTCTC
1 TTTTTCTC-TTTTTCTC
*
301523 ATTTTTCTTTTTTTCATC
1 -TTTTTCTCTTTTTC-TC
301541 TTTTT
1 TTTTT
301546 TTTTTCTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
15 8 0.13
16 19 0.32
17 14 0.23
18 19 0.32
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTCTCTTTTTCTC
Done.