Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007889.1 Hibiscus syriacus cultivar Beakdansim tig00110271_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: 1663484
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:884111 original size:35 final size:35
Alignment explanation
Indices: 884036--884111 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
884026 TTACTTAATT
*
884036 TTTATTATTTTAATATATTTTAAATCATTACTTTA
1 TTTATTATTTTAATATATTATAAATCATTACTTTA
* * *
884071 ATTATTGTTTTACTATATTATAAAT-ATATA-TATTA
1 TTTATTATTTTAATATATTATAAATCAT-TACT-TTA
884106 TTTATT
1 TTTATT
884112 TAATAATGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTATTATTTTAATATATTATAAATCATTACTTTA
Found at i:886898 original size:21 final size:21
Alignment explanation
Indices: 886874--886914 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
886864 TTTTTATACA
886874 TGCATTTACATTTTGTATTTG
1 TGCATTTACATTTTGTATTTG
*
886895 TGCATTTTCATTTTGTATTT
1 TGCATTTACATTTTGTATTT
886915 TTATATCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.61
Consensus pattern (21 bp):
TGCATTTACATTTTGTATTTG
Found at i:891637 original size:45 final size:45
Alignment explanation
Indices: 891493--891637 Score: 107
Period size: 45 Copynumber: 3.2 Consensus size: 45
891483 GAAGTGTTCT
891493 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
1 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
* * * * * * ** * ** *
891538 TTGAATT-T-GGAAGATGGATGTGCTCATAGCATCTTCTGGAAGT-GTTCT
1 TTGAATTATCTG-ATATGG-TTTGGT-AT-GAAACCAC-AGAA-TCAATCA
891586 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
1 TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
891631 TTGAATT
1 TTGAATT
891638 TGGAAGATGG
Statistics
Matches: 67, Mismatches: 24, Indels: 18
0.61 0.22 0.17
Matches are distributed among these distances:
43 1 0.01
44 7 0.10
45 23 0.34
46 6 0.09
47 6 0.09
48 16 0.24
49 7 0.10
50 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (45 bp):
TTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCAATCA
Found at i:891752 original size:93 final size:93
Alignment explanation
Indices: 891469--891707 Score: 478
Period size: 93 Copynumber: 2.6 Consensus size: 93
891459 TAAGGAGACC
891469 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
891534 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
891562 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
891627 ATCATTGAATTTGGAAGATGGATGTGCT
66 ATCATTGAATTTGGAAGATGGATGTGCT
891655 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAA
891708 CTCTAAAGTC
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 146 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.37
Consensus pattern (93 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATATGGTTTGGTATGAAACCACAGAATCA
ATCATTGAATTTGGAAGATGGATGTGCT
Found at i:894914 original size:113 final size:113
Alignment explanation
Indices: 894716--895407 Score: 924
Period size: 112 Copynumber: 6.0 Consensus size: 113
894706 TAGCAAAGAT
* *
894716 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATTAGAAGAGCTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
894781 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
894829 TCAAATCCATCATCTAATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
894894 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GC
** * * * * * * *
894943 TTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATC
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAA--C-TCATC
*
895008 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
895059 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAAAAAAAAAAAGTTCATAATGAGAA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCC------------AGAAAAAGTTCATAATGAGAA
* **
895124 GAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGC
54 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
895183 TCAAATCCATCA-CTTGATGGATCAGTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATC-TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
*
895247 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
895296 TCAAATCCATCA-CTTGATGGAGCAGCTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATC-TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* * *
895359 AAGAAGTAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
895408 ATAATTCTAT
Statistics
Matches: 511, Mismatches: 50, Indels: 37
0.85 0.08 0.06
Matches are distributed among these distances:
112 143 0.28
113 142 0.28
114 47 0.09
116 26 0.05
117 51 0.10
123 1 0.00
124 33 0.06
125 46 0.09
126 1 0.00
128 21 0.04
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:895316 original size:237 final size:241
Alignment explanation
Indices: 894863--895328 Score: 719
Period size: 237 Copynumber: 1.9 Consensus size: 241
894853 GCTTTTCCAG
*
894863 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAAAAGTTCATAATGAGAAGAACTT
* ** * *
894928 GTTCAACCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGA
66 GTTCAACCTTTTGGCTCAAATCCATCACTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGA
*
894993 GAAGAACTCGTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
131 GAAGAAC-CGTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTG
* *
895058 CTCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAAAAAA
195 CTCAAATCCATCCTCTGATGGAGCAGCTTTTCCAAAAAAAAAAAAAA
* *
895105 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAAAAGTTCATAATGAGAAGAACTT
*** *
895170 GTTCAACC-TTT-GCTCAAATCCATCACTTGATGGATCAGTTTTTCCAGAGAA-AGTTCATAATG
66 GTTCAACCTTTTGGCTCAAATCCATCACTTGATGGATCAACATTGCCAG-GAAGAGTTCATAATG
*
895232 AGAAGAA-C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTG
130 AGAAGAACCGTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTG
895295 CTCAAATCCATCACT-TGATGGAGCAGCTTTTCCA
195 CTCAAATCCATC-CTCTGATGGAGCAGCTTTTCCA
895329 GAGAAGTTCA
Statistics
Matches: 206, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
237 83 0.40
238 2 0.01
240 45 0.22
241 6 0.03
242 70 0.34
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (241 bp):
AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAAAAGTTCATAATGAGAAGAACTT
GTTCAACCTTTTGGCTCAAATCCATCACTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGA
GAAGAACCGTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGTTCAACCTTTTGC
TCAAATCCATCCTCTGATGGAGCAGCTTTTCCAAAAAAAAAAAAAA
Found at i:895420 original size:112 final size:112
Alignment explanation
Indices: 894716--895404 Score: 812
Period size: 113 Copynumber: 6.0 Consensus size: 112
894706 TAGCAAAGAT
* * * *
894716 TCAAATCCATCA-TCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATTAGAAGAGCTCATCTG
1 TCAAATCCATCACT-TGATGGAGCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* *
894780 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAA-CTTTTGC
* * *
894829 TCAAATCCATCA-TCTAATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACT-TGATGGAGCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* * * *
894893 AAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGT
65 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAA-CTTTT-GC
** * * * * * *
894943 TTGAATTCATCATTTGATGGATCAACATTGCCAG-GAAGAGTTCATAATGAGAAGAACTCGTCAT
1 TCAAATCCATCACTTGATGGAGCAGCTTTTCCAGAGAA-AGTTCATAATGAGAAGAA--C-TCAT
* *
895007 CTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
62 CTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAA-CTTTTGC
* * * *
895059 TCAAATCCATC-TTCTGATGGATCAGCTTTTCCAAAAAAAAAAAAAAAAAAAGTTCATAATGAGA
1 TCAAATCCATCACT-TGATGGAGCAGCTTTTCC------------AGAGAAAGTTCATAATGAGA
* * ** *
895123 AGAACTCATCTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTGC
53 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTGC
* *
895183 TCAAATCCATCACTTGATGGATCAGTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGAGCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
895248 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAA-CTTTTGC
895296 TCAAATCCATCACTTGATGGAGCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGAGCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
895360 AGAAGTAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTT
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTT
895405 TGCATAATTC
Statistics
Matches: 510, Mismatches: 44, Indels: 46
0.85 0.07 0.08
Matches are distributed among these distances:
111 5 0.01
112 134 0.26
113 147 0.29
114 44 0.09
115 3 0.01
116 25 0.05
117 51 0.10
124 34 0.07
125 45 0.09
126 1 0.00
128 19 0.04
129 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (112 bp):
TCAAATCCATCACTTGATGGAGCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTGC
Found at i:895895 original size:75 final size:76
Alignment explanation
Indices: 895815--896453 Score: 1088
Period size: 75 Copynumber: 8.5 Consensus size: 76
895805 CTATTTCCCA
*
895815 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
895879 ATCCTTAGGGT
66 AGCCTTAGGGT
*
895890 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
895954 AGCCTTAGGGT
66 AGCCTTAGGGT
*
895965 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
896029 AGCCTTAGGGT
66 AGCCTTAGGGT
896040 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
896105 ATCCTTCGGGT
66 AGCCTTAGGGT
*
896116 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
896181 ATCCTTCGGGT
66 AGCCTTAGGGT
* * *
896192 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
896256 AGCCTTAGGGT
66 AGCCTTAGGGT
896267 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
896332 ATCCTTCGGGT
66 AGCCTTAGGGT
* *
896343 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
896408 AGCCTTCGGGT
66 AGCCTTAGGGT
*
896419 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
896454 CATTTCCATC
Statistics
Matches: 544, Mismatches: 18, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
75 280 0.51
76 264 0.49
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:896261 original size:227 final size:227
Alignment explanation
Indices: 895815--896453 Score: 1183
Period size: 227 Copynumber: 2.8 Consensus size: 227
895805 CTATTTCCCA
*
895815 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
895879 ATCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTT
66 ATCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
895944 GATGTTTT-AAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTC
896008 GGGATCTTTTTGATGTTTTAAAGCCTTAGGGT
196 GGGATCTTTTTGATGTTTTAAAGCCTTAGGGT
896040 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
896105 ATCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 ATCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* *
896170 GATGTTTTCAAATCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTC
896235 GGGATCTTTTTGATGTTTTAAAGCCTTAGGGT
196 GGGATCTTTTTGATGTTTTAAAGCCTTAGGGT
896267 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
896332 ATCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
66 ATCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
896397 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
896454 CATTTCCATC
Statistics
Matches: 401, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
225 61 0.15
226 72 0.18
227 268 0.67
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (227 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ATCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTTC
GGGATCTTTTTGATGTTTTAAAGCCTTAGGGT
Found at i:896587 original size:3 final size:3
Alignment explanation
Indices: 896579--896645 Score: 80
Period size: 3 Copynumber: 22.0 Consensus size: 3
896569 TTCATTTTAA
** *
896579 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
896627 AGT AAT ATT ATTT ATT ATT
1 ATT ATT ATT A-TT ATT ATT
896646 TAAATATTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:896602 original size:18 final size:17
Alignment explanation
Indices: 896579--896654 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 17
896569 TTCATTTTAA
896579 ATTATTATTATTAAAATT
1 ATTATTATTATTAAAA-T
* *
896597 ATTATTATTATTATTATT
1 ATTATTATTATTA-AAAT
* *
896615 ATTATTATTAATAGTAAT
1 ATTATTATTATTA-AAAT
*
896633 ATTATTTATTATTTAAAT
1 ATTA-TTATTATTAAAAT
896651 ATTA
1 ATTA
896655 CAAAGCCCAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
18 40 0.83
19 8 0.17
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (17 bp):
ATTATTATTATTAAAAT
Found at i:898127 original size:52 final size:54
Alignment explanation
Indices: 898060--898163 Score: 133
Period size: 53 Copynumber: 2.0 Consensus size: 54
898050 ATAATTTTAC
* * * * *
898060 ATTTATTATTATTTT-ATTTATTTATAGTCATT-GTTTAGTTATTTTTTTACTTA
1 ATTTATTATTATTTTAATATATTTA-AATCATTACTTTAATTATTGTTTTACTTA
898113 ATTT-TTATTATTTTAATATATTTAAATCATTACTTTAATTATTGTTTTACT
1 ATTTATTATTATTTTAATATATTTAAATCATTACTTTAATTATTGTTTTACT
898164 ATATTATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
52 16 0.36
53 28 0.64
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (54 bp):
ATTTATTATTATTTTAATATATTTAAATCATTACTTTAATTATTGTTTTACTTA
Found at i:901239 original size:9 final size:10
Alignment explanation
Indices: 901193--901238 Score: 67
Period size: 10 Copynumber: 4.7 Consensus size: 10
901183 ACAAAATTGG
*
901193 CGGTTTTTTC
1 CGGTTTTTCC
*
901203 C-GTTTTTTC
1 CGGTTTTTCC
901212 CGGTTTTTCC
1 CGGTTTTTCC
901222 CGGTTTTTCC
1 CGGTTTTTCC
901232 CGGTTTT
1 CGGTTTT
901239 CAGCCGGTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
9 9 0.26
10 25 0.74
ACGTcount: A:0.00, C:0.24, G:0.20, T:0.57
Consensus pattern (10 bp):
CGGTTTTTCC
Found at i:901277 original size:32 final size:32
Alignment explanation
Indices: 901254--901329 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
901244 GGTCTGGTTA
901254 TAAAGGTTCAACGGTTCTGGCCGGTTCACTAG
1 TAAAGGTTCAACGGTTCTGGCCGGTTCACTAG
**
901286 TAGCGGTTCAACGGTTCTGGCCGGTTCACTAG
1 TAAAGGTTCAACGGTTCTGGCCGGTTCACTAG
**
901318 TAGCGGTTCAAC
1 TAAAGGTTCAAC
901330 CGATTTAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.28
Consensus pattern (32 bp):
TAAAGGTTCAACGGTTCTGGCCGGTTCACTAG
Found at i:901281 original size:18 final size:18
Alignment explanation
Indices: 901258--901313 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
901248 TGGTTATAAA
901258 GGTTCAACGGTTCTGGCC
1 GGTTCAACGGTTCTGGCC
** *
901276 GGTTC-AC--TAGTAG-C
1 GGTTCAACGGTTCTGGCC
901290 GGTTCAACGGTTCTGGCC
1 GGTTCAACGGTTCTGGCC
901308 GGTTCA
1 GGTTCA
901314 CTAGTAGCGG
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 6 0.21
15 5 0.18
17 5 0.18
18 12 0.43
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.29
Consensus pattern (18 bp):
GGTTCAACGGTTCTGGCC
Found at i:917753 original size:20 final size:20
Alignment explanation
Indices: 917661--917751 Score: 164
Period size: 20 Copynumber: 4.5 Consensus size: 20
917651 GTTTCCAGAT
917661 TCGCAATGCGATTACATAAA
1 TCGCAATGCGATTACATAAA
917681 TCGCAATGCGATTACATAAA
1 TCGCAATGCGATTACATAAA
917701 TCGCAATGCGATTACATAAA
1 TCGCAATGCGATTACATAAA
* *
917721 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGATTACATAAA
917741 TCGCAATGCGA
1 TCGCAATGCGA
917752 ATCTGACTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGATTACATAAA
Found at i:917767 original size:60 final size:60
Alignment explanation
Indices: 917661--917779 Score: 154
Period size: 60 Copynumber: 2.0 Consensus size: 60
917651 GTTTCCAGAT
*
917661 TCGCAATGCGATTACATAAATCGCAATGCGATTACATAAATCGCAATGCGA-TTACATAAA
1 TCGCAATGCGAATACATAAATCGCAATGCGATTACAT-AATCGCAATGCGATTTACATAAA
* *
917721 TCGCAATGCGAATACGTAAATCGCAATGCGAATCTGAC-T-ATTGCAATGCGATTTACATA
1 TCGCAATGCGAATACATAAATCGCAATGCG-AT-T-ACATAATCGCAATGCGATTTACATA
917780 GCGCCATTCG
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
60 39 0.75
61 9 0.17
62 2 0.04
63 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (60 bp):
TCGCAATGCGAATACATAAATCGCAATGCGATTACATAATCGCAATGCGATTTACATAAA
Found at i:917973 original size:22 final size:22
Alignment explanation
Indices: 917948--918009 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 22
917938 GGCGACATCC
917948 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
917970 GTCCCCA----CGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
917988 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
918010 TTCACGGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 16 0.50
22 16 0.50
ACGTcount: A:0.26, C:0.39, G:0.16, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:918422 original size:20 final size:20
Alignment explanation
Indices: 918379--918446 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
918369 CGATTCTTGC
** **
918379 GTTGCGATAGTCAAATTCAC
1 GTTGCGATAGTCATTTTCGT
918399 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
918419 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
918439 GTTGCGAT
1 GTTGCGAT
918447 TTAAAGTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.43
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:918456 original size:20 final size:20
Alignment explanation
Indices: 918413--918456 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
918403 CGATAGTCAT
** *
918413 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
918433 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
918453 TTTC
1 TTTC
918457 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:920351 original size:20 final size:19
Alignment explanation
Indices: 920326--920385 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
920316 AATGCGAAAA
920326 TGCGATAGTCATTTTCGCAT
1 TGCGATAGTCATTTTCGC-T
*
920346 TGCGAT--TC--TCTCG-T
1 TGCGATAGTCATTTTCGCT
920360 TGCGATAGTCATTTTCGCGT
1 TGCGATAGTCATTTTCGC-T
920380 TGCGAT
1 TGCGAT
920386 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 7 0.22
16 6 0.19
18 6 0.19
20 13 0.41
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.40
Consensus pattern (19 bp):
TGCGATAGTCATTTTCGCT
Found at i:920960 original size:21 final size:21
Alignment explanation
Indices: 920869--920972 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 21
920859 GACTCACCTG
**
920869 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTA
*
920891 T-ATCATTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
** * *
920911 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
* * *
920932 CCACCGTTCAAGAGGCCACTA
1 TCATCGTTCAAGAGGCCCCTA
* *
920953 TCATCGTTGAAGAGGTCCCT
1 TCATCGTTCAAGAGGCCCCT
920973 CCCAACATTC
Statistics
Matches: 62, Mismatches: 19, Indels: 3
0.74 0.23 0.04
Matches are distributed among these distances:
20 3 0.05
21 58 0.94
22 1 0.02
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:920966 original size:42 final size:42
Alignment explanation
Indices: 920896--920976 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
920886 TCCCCTATCA
*
920896 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACCG
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCACCG
** *
920938 TTCAAGAGGCCACTATCATCGTTGAAGAGGTCCCTCCCA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
920977 ACATTCTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (42 bp):
TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCACCG
Found at i:922344 original size:14 final size:14
Alignment explanation
Indices: 922325--922360 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
922315 ATTGTTTAAT
922325 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
922339 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
922353 TGATTTGT
1 TGATTTGT
922361 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:922511 original size:33 final size:33
Alignment explanation
Indices: 922483--922556 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
922473 AAATGACTAT
922483 CGCAACGAGAGAATCGCAATGCGAAATGAAAAC
1 CGCAACGAGAGAATCGCAATGCGAAATGAAAAC
* * *
922516 CGCAACGAGTGAATCGCAATGCGAAAATAAAAAT
1 CGCAACGAGAGAATCGCAATGCG-AAATGAAAAC
922550 CGCAACG
1 CGCAACG
922557 CGAAACTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 22 0.59
34 15 0.41
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.11
Consensus pattern (33 bp):
CGCAACGAGAGAATCGCAATGCGAAATGAAAAC
Found at i:922628 original size:33 final size:34
Alignment explanation
Indices: 922571--922666 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 34
922561 ACTAATTTCG
922571 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
922605 CGTTGCGGTTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
922638 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
922667 AGTCAATTCC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 29 0.54
34 25 0.46
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:922663 original size:20 final size:20
Alignment explanation
Indices: 922639--922726 Score: 133
Period size: 20 Copynumber: 4.4 Consensus size: 20
922629 CGATTCTCTC
*
922639 GTTGCGATAGTCATTTCCGC
1 GTTGCGATAGTCATTTCCGT
*
922659 GTTGCGATAGTCAATTCCGT
1 GTTGCGATAGTCATTTCCGT
*
922679 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTCCGT
922699 GTTGCGATAGTCATATT-CGT
1 GTTGCGATAGTCAT-TTCCGT
922719 GTTGCGAT
1 GTTGCGAT
922727 TTCCGCGTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:925186 original size:24 final size:23
Alignment explanation
Indices: 925147--925200 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
925137 TCTGAAAATC
925147 ATCAAATCCGAGTATTGACCAAG
1 ATCAAATCCGAGTATTGACCAAG
925170 ATCAAAGTCCG-GTTATTGACCAAG
1 ATCAAA-TCCGAG-TATTGACCAAG
925194 ATCAAAT
1 ATCAAAT
925201 TTCGAATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.28
24 21 0.72
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (23 bp):
ATCAAATCCGAGTATTGACCAAG
Found at i:925213 original size:24 final size:24
Alignment explanation
Indices: 925147--925213 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
925137 TCTGAAAATC
* *
925147 ATCAAA-TCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
925170 ATCAAAGTCCGGTTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
925194 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
925214 TAGTACTCAC
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 6 0.17
24 30 0.83
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:925935 original size:21 final size:21
Alignment explanation
Indices: 925911--925956 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
925901 TATTCGCATT
925911 GCGAATTAGGA-AAATCGCAAC
1 GCGAATT-GGAGAAATCGCAAC
* *
925932 GCGAATTTGAGAAATCGCAAT
1 GCGAATTGGAGAAATCGCAAC
925953 GCGA
1 GCGA
925957 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTGGAGAAATCGCAAC
Found at i:926028 original size:19 final size:19
Alignment explanation
Indices: 926004--926054 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
925994 CGATACCGGA
926004 GATCGCGTTGCGAATTATC
1 GATCGCGTTGCGAATTATC
926023 GATCGCGTTGCGAATTATC
1 GATCGCGTTGCGAATTATC
*
926042 GATCGCATTGCGA
1 GATCGCGTTGCGA
926055 TTTAGTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (19 bp):
GATCGCGTTGCGAATTATC
Found at i:938481 original size:337 final size:336
Alignment explanation
Indices: 937867--938541 Score: 1341
Period size: 337 Copynumber: 2.0 Consensus size: 336
937857 AAATTGGGAA
937867 TTTAGTAGTTATGATAGGCATTTATCCTAAATAAACAATAGACAGATAGTGACTAAAACATAGAC
1 TTTAGTAGTTATGATAGGCATTTATCCTAAATAAACAATAGACAGATAGTGACTAAAACATAGAC
937932 ATGGAACAATTCAAAGCCTGGAACAGAACATGCAATAATTTTTATTTATGACCAAAATGGAAAAT
66 ATGGAACAATTCAAAGCCTGGAACAGAACATGCAATAATTTTTATTTATGACCAAAATGGAAAAT
937997 TACAAAACACGAGGGCTCCGAATAGGGTTAACCCAAATGCCAAAATACATGTTTATCCCCTCGGA
131 TACAAAACACGAGGGCTCCGAATAGGGTTAACCCAAATGCCAAAATACATGTTTATCCCCTCGGA
938062 ACGACGTCTTTCCACGCGTGACATATATGGCCGAAAACCAGGCAGAAAATCGTCCATACTCTCTC
196 ACGACGTCTTTCCACGCGTGACATATATGGCCGAAAACCAGGCAGAAAATCGTCCATACTCTCTC
938127 GTTAGTTTTATTATTTTCCTTTGGCCTAAAAGGGAGAGAGCCAAAAGCTCTCAACTTTCCCTCTT
261 GTTAGTTTTATTATTTTCCTTTGGCCTAAAAGGGAGAGAGCCAAAAGCTCTCAACTTTCCCTCTT
938192 TCCTTCTCGTT
326 TCCTTCTCGTT
938203 TTTAGTAGTTATGATAGGCATTTATCCTAAATAAACAATAGACAGATAGTGACTAAAACATAGAC
1 TTTAGTAGTTATGATAGGCATTTATCCTAAATAAACAATAGACAGATAGTGACTAAAACATAGAC
938268 ATGGAACAATTCAAAGCCTGGAACAGAACATGCAATAATTTTTATTTAATGACCAAAATGGAAAA
66 ATGGAACAATTCAAAGCCTGGAACAGAACATGCAATAATTTTTATTT-ATGACCAAAATGGAAAA
938333 TTACAAAACACGAGGGCTCCGAATAGGGTTAACCCAAATGCCAAAATACATGTTTATCCCCTCGG
130 TTACAAAACACGAGGGCTCCGAATAGGGTTAACCCAAATGCCAAAATACATGTTTATCCCCTCGG
938398 AACGACGTCTTTCCACGCGTGACATATATGGCCGAAAACCAGGCAGAAAATCGTCCATACTCTCT
195 AACGACGTCTTTCCACGCGTGACATATATGGCCGAAAACCAGGCAGAAAATCGTCCATACTCTCT
938463 CGTTAGTTTTATTATTTTCCTTTGGCCTAAAAGGGAGAGAGCCAAAAGCTCTCAACTTTCCCTCT
260 CGTTAGTTTTATTATTTTCCTTTGGCCTAAAAGGGAGAGAGCCAAAAGCTCTCAACTTTCCCTCT
938528 TTCCTTCTCGTT
325 TTCCTTCTCGTT
938540 TT
1 TT
938542 CAGGTGAGAA
Statistics
Matches: 338, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
336 112 0.33
337 226 0.67
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (336 bp):
TTTAGTAGTTATGATAGGCATTTATCCTAAATAAACAATAGACAGATAGTGACTAAAACATAGAC
ATGGAACAATTCAAAGCCTGGAACAGAACATGCAATAATTTTTATTTATGACCAAAATGGAAAAT
TACAAAACACGAGGGCTCCGAATAGGGTTAACCCAAATGCCAAAATACATGTTTATCCCCTCGGA
ACGACGTCTTTCCACGCGTGACATATATGGCCGAAAACCAGGCAGAAAATCGTCCATACTCTCTC
GTTAGTTTTATTATTTTCCTTTGGCCTAAAAGGGAGAGAGCCAAAAGCTCTCAACTTTCCCTCTT
TCCTTCTCGTT
Found at i:941867 original size:43 final size:44
Alignment explanation
Indices: 941805--941895 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 44
941795 TATATTAAAT
* * * *
941805 TATTTCATTTGATTTTTTACTATATTA-T-TATTATATTATATATA
1 TATTTCATTTAATATTTTACT-TATAAGTCTA-TATACTATATATA
941849 TATTTC-TTTAATATTTTACTTATAAGTCTATATACTATATATA
1 TATTTCATTTAATATTTTACTTATAAGTCTATATACTATATATA
941892 TATT
1 TATT
941896 AAATTATCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
42 4 0.10
43 29 0.71
44 8 0.20
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (44 bp):
TATTTCATTTAATATTTTACTTATAAGTCTATATACTATATATA
Found at i:946055 original size:86 final size:86
Alignment explanation
Indices: 945905--946074 Score: 331
Period size: 86 Copynumber: 2.0 Consensus size: 86
945895 ATCACCCTCC
945905 ACACGGGGGGGCAATGTGGAAGAAATCTGCTCACATGAGTGAAGACATCAATCCAAAGGAGTTAC
1 ACACGGGGGGGCAATGTGGAAGAAATCTGCTCACATGAGTGAAGACATCAATCCAAAGGAGTTAC
945970 CAAAAGGTGAACCAGATGCCA
66 CAAAAGGTGAACCAGATGCCA
*
945991 ACACTGGGGGGCAATGTGGAAGAAATCTGCTCACATGAGTGAAGACATCAATCCAAAGGAGTTAC
1 ACACGGGGGGGCAATGTGGAAGAAATCTGCTCACATGAGTGAAGACATCAATCCAAAGGAGTTAC
946056 CAAAAGGTGAACCAGATGC
66 CAAAAGGTGAACCAGATGC
946075 AAGTGTAAAT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.16
Consensus pattern (86 bp):
ACACGGGGGGGCAATGTGGAAGAAATCTGCTCACATGAGTGAAGACATCAATCCAAAGGAGTTAC
CAAAAGGTGAACCAGATGCCA
Found at i:946119 original size:18 final size:18
Alignment explanation
Indices: 946104--946147 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
946094 GAATAAAAGG
946104 GCAAAAAAGAAAAAAAAA
1 GCAAAAAAGAAAAAAAAA
*
946122 GCAAAAAAAAAGAACAAAAA
1 GCAAAAAAGAA-AA-AAAAA
946142 G-AAAAA
1 GCAAAAA
946148 GGGACAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.43
19 7 0.30
20 6 0.26
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (18 bp):
GCAAAAAAGAAAAAAAAA
Found at i:946127 original size:11 final size:10
Alignment explanation
Indices: 946106--946147 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
946096 ATAAAAGGGC
946106 AAAAAAGAAA
1 AAAAAAGAAA
946116 AAAAAAGCAAA
1 AAAAAAG-AAA
946127 AAAAAAG-AA
1 AAAAAAGAAA
*
946136 CAAAAAGAAA
1 AAAAAAGAAA
946146 AA
1 AA
946148 GGGACAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.29
10 10 0.36
11 10 0.36
ACGTcount: A:0.86, C:0.05, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:946793 original size:22 final size:22
Alignment explanation
Indices: 946746--946793 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
946736 GCTACCCCAT
*
946746 CAAACCTTTGAGCATCAAATGT
1 CAAACCTTTGAGCATCAAATGA
946768 CAAACCATTT-AGCATC-AATGAA
1 CAAACC-TTTGAGCATCAAATG-A
946790 CAAA
1 CAAA
946794 AATGCCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 16 0.70
23 3 0.13
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGA
Found at i:947843 original size:36 final size:36
Alignment explanation
Indices: 947735--947858 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
947725 ATTGAAAACA
* * *
947735 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
* *
947771 TTTCCCTTGGAACTAAGTTTT-GTCTCTCTTAAGACAG
1 TTTCCCTTGAAAC-AA-TTTTCGTCTCTCTTGAGACAG
* *
947808 TTTCTCTTGAAACAATTTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
947844 TTTCCCTTGAAACAA
1 TTTCCCTTGAAACAA
947859 AACCTTTGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 4 0.05
36 41 0.55
37 27 0.36
38 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAATTTTCGTCTCTCTTGAGACAG
Found at i:947919 original size:64 final size:64
Alignment explanation
Indices: 947834--947988 Score: 188
Period size: 66 Copynumber: 2.4 Consensus size: 64
947824 TTTCGTCTAT
* ** *
947834 CTTGAGACAGTTTCCCTTGAAACAAAACCTTTGAATTTATTTCCCCTAAAACA-AATTTTTTCTC
1 CTTGAGACAGTTTCTCTTGAAACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTGTTTC-C
* * *
947898 CTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTGTTTC
1 CTTGAGACAGTTTCTCTTG-AA-ACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTGTTTC
947963 C
64 C
*
947964 CTTGAGACCA-TTTCTCATGAAACAA
1 CTTGAGA-CAGTTTCTCTTGAAACAA
947989 CAGATATCTT
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
64 21 0.27
65 4 0.05
66 43 0.55
67 10 0.13
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (64 bp):
CTTGAGACAGTTTCTCTTGAAACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTGTTTCC
Found at i:948808 original size:105 final size:105
Alignment explanation
Indices: 948625--949348 Score: 1113
Period size: 105 Copynumber: 7.0 Consensus size: 105
948615 GCACTCGAGG
* * ** * *
948625 CAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
948690 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
** * *
948731 CAACGCAAGTTCAACTTCACGGTGAAGGGACCACTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
948796 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
948836 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGT---CAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* * *
948898 ACCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
948938 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
**
949003 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTAAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * **
949043 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAATAACTTCCCAATCGCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
949108 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * *
949148 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCATA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
949213 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
949253 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** * *
949313 TTCAATTTCAACTTCACGACGGAGGATATTGGACTC
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTC
949349 TGAACAATGC
Statistics
Matches: 579, Mismatches: 36, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
100 36 0.06
101 1 0.00
102 101 0.17
103 2 0.00
104 2 0.00
105 399 0.69
106 38 0.07
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:949165 original size:210 final size:209
Alignment explanation
Indices: 948625--949348 Score: 1127
Period size: 207 Copynumber: 3.5 Consensus size: 209
948615 GCACTCGAGG
* * ** * *
948625 CAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AA-AACTTCTCAATTTCAG
**
948690 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGGTG
64 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* * *
948755 AAGGGACCACTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAG
129 AAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
948820 GATATTGGACTTCAGA
194 GATATTGGACTTCAGA
* *
948836 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAAC--AACTTCTCAATTTCAGAA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAACTTCTCAATTTCAGAG
* *
948899 CCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAA
66 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
948964 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
131 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
*
949029 TATTGGACTTAAGA
196 TATTGGACTTCAGA
* **
949043 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAATAACTTCCCAATCGCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AACTTCTCAATTTCAGA
*
949108 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGA
65 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
* * *
949173 AGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCATAGCCAATTTCAACTTCACAACGAAGG
130 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
*
949238 ATATTGGACTCCAGA
195 ATATTGGACTTCAGA
*
949253 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAA-TT-TC-A-TTCAGAT
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAACTTCTCAATTTCAGAG
* * *
949314 TCAATTTCAACTTCACGACGGAGGATATTGGACTC
66 CCAATTTCAACTTCACAACGAAGGATATTGGACTC
949349 TGAACAATGC
Statistics
Matches: 474, Mismatches: 36, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
205 36 0.08
206 1 0.00
207 197 0.42
208 2 0.00
209 2 0.00
210 197 0.42
211 39 0.08
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (209 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAACTTCTCAATTTCAGAG
CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
TATTGGACTTCAGA
Found at i:950505 original size:16 final size:18
Alignment explanation
Indices: 950484--950523 Score: 66
Period size: 16 Copynumber: 2.3 Consensus size: 18
950474 ATTATATGGA
950484 TATTATTCAT-TTATT-T
1 TATTATTCATGTTATTAT
950500 TATTATTCATGTTATTAT
1 TATTATTCATGTTATTAT
950518 TATTAT
1 TATTAT
950524 ATATATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.45
17 5 0.23
18 7 0.32
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (18 bp):
TATTATTCATGTTATTAT
Found at i:950546 original size:52 final size:53
Alignment explanation
Indices: 950484--950583 Score: 136
Period size: 52 Copynumber: 1.9 Consensus size: 53
950474 ATTATATGGA
950484 TATTATTCATTT-ATTTTATTA-T-TCATGTTATTATTATTATATATATATTAAAT
1 TATTATTCATTTGATTTT-TTACTAT-ATGTTA-TATTATTATATATATATTAAAT
*
950537 TATT-TTCATTTGATTTTTTACTATATTTTATATTATTATATATATAT
1 TATTATTCATTTGATTTTTTACTATATGTTATATTATTATATATATAT
950584 ATTTCTTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
52 27 0.63
53 15 0.35
54 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (53 bp):
TATTATTCATTTGATTTTTTACTATATGTTATATTATTATATATATATTAAAT
Found at i:952905 original size:18 final size:18
Alignment explanation
Indices: 952879--952913 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
952869 TCGAAAGGAC
*
952879 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
952897 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
952914 CCAGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:960976 original size:15 final size:15
Alignment explanation
Indices: 960915--960979 Score: 112
Period size: 15 Copynumber: 4.3 Consensus size: 15
960905 AACGAGCCCC
960915 CCGTCACTCATCCAT
1 CCGTCACTCATCCAT
*
960930 CTGTCACTCATCCAT
1 CCGTCACTCATCCAT
*
960945 CTGTCACTCATCCAT
1 CCGTCACTCATCCAT
960960 CCGTCACTCATCCAT
1 CCGTCACTCATCCAT
960975 CCGTC
1 CCGTC
960980 GGTCACTCAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.18, C:0.45, G:0.08, T:0.29
Consensus pattern (15 bp):
CCGTCACTCATCCAT
Found at i:963243 original size:13 final size:12
Alignment explanation
Indices: 963225--963270 Score: 58
Period size: 13 Copynumber: 3.7 Consensus size: 12
963215 AGGAAAAACC
963225 AGAAAAAAGAAGA
1 AGAAAAAAGAA-A
963238 AG-AAAAAGAAA
1 AGAAAAAAGAAA
963249 AGAAAAAAAGAAAA
1 AG-AAAAAAG-AAA
963263 AGAAAAAA
1 AGAAAAAA
963271 CAGAAAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.10
12 8 0.27
13 14 0.47
14 5 0.17
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AGAAAAAAGAAA
Found at i:963245 original size:12 final size:12
Alignment explanation
Indices: 963228--963260 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
963218 AAAAACCAGA
963228 AAAAAGAAGAAG
1 AAAAAGAAGAAG
963240 AAAAAGAA-AAG
1 AAAAAGAAGAAG
963251 AAAAA-AAGAA
1 AAAAAGAAGAA
963261 AAAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.10
11 10 0.50
12 8 0.40
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAGAAGAAG
Found at i:963249 original size:19 final size:18
Alignment explanation
Indices: 963225--963270 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
963215 AGGAAAAACC
*
963225 AGAAAAAAGAAGAAGAAAA
1 AGAAAAAA-AAAAAGAAAA
963244 AGAAAAGAAAAAAAGAAAA
1 AGAAAA-AAAAAAAGAAAA
963263 AGAAAAAA
1 AGAAAAAA
963271 CAGAAAAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 21 0.84
20 2 0.08
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AGAAAAAAAAAAAGAAAA
Found at i:963251 original size:14 final size:13
Alignment explanation
Indices: 963234--963279 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 13
963224 CAGAAAAAAG
963234 AAGAAGAAAAAGAA
1 AAGAA-AAAAAGAA
963248 AAGAAAAAAAGAAA
1 AAGAAAAAAAG-AA
963262 AAGAAAAAACAGAA
1 AAGAAAAAA-AGAA
963276 AAGA
1 AAGA
963280 TTGAAAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.20
14 22 0.73
15 2 0.07
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAGAA
Found at i:963267 original size:6 final size:6
Alignment explanation
Indices: 963228--963269 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
963218 AAAAACCAGA
* *
963228 AAAAAG AAGAAG AAAAAG AAAAGAA AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAA-AG AAAAAG AAAAAG AAAAA
963270 ACAGAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:964789 original size:89 final size:90
Alignment explanation
Indices: 964633--964813 Score: 355
Period size: 89 Copynumber: 2.0 Consensus size: 90
964623 TCCGCTAGGG
964633 TAAATTGAGATCGAACTCGATTCTCATTGAGATAACATAGTCCGAGTCGGGTTTTTCCAAAGCTT
1 TAAATTGAGATCGAACTCGATTCTCATTGAGATAACATAGTCCGAGTCGGGTTTTTCCAAAGCTT
964698 TTAGAATTGAGTTGATGCTAACAAA
66 TTAGAATTGAGTTGATGCTAACAAA
964723 TAAA-TGAGATCGAACTCGATTCTCATTGAGATAACATAGTCCGAGTCGGGTTTTTCCAAAGCTT
1 TAAATTGAGATCGAACTCGATTCTCATTGAGATAACATAGTCCGAGTCGGGTTTTTCCAAAGCTT
964787 TTAGAATTGAGTTGATGCTAACAAA
66 TTAGAATTGAGTTGATGCTAACAAA
964812 TA
1 TA
964814 TAGTTGTAGT
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 87 0.96
90 4 0.04
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (90 bp):
TAAATTGAGATCGAACTCGATTCTCATTGAGATAACATAGTCCGAGTCGGGTTTTTCCAAAGCTT
TTAGAATTGAGTTGATGCTAACAAA
Found at i:969304 original size:14 final size:15
Alignment explanation
Indices: 969274--969307 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
969264 GAAACACGGA
969274 CAACTCTACTCGATT
1 CAACTCTACTCGATT
969289 CAACTCTACT-GATT
1 CAACTCTACTCGATT
969303 CAACT
1 CAACT
969308 TGAAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.32
Consensus pattern (15 bp):
CAACTCTACTCGATT
Found at i:970282 original size:21 final size:21
Alignment explanation
Indices: 970214--970467 Score: 197
Period size: 21 Copynumber: 11.7 Consensus size: 21
970204 AACGAATTTG
** * *
970214 TCTTCATGTTAGTATTATATC
1 TCTTCATGTTAACATCACATC
* *
970235 TCTTTATGTTAACATCACACAAC
1 TCTTCATGTTAACAT--CACATC
*
970258 TCTTCATGTTAACATCACATG
1 TCTTCATGTTAACATCACATC
* * *
970279 TCTTCAAGTTAACAACATATC
1 TCTTCATGTTAACATCACATC
*
970300 TC-TCTATATTAACATCACATC
1 TCTTC-ATGTTAACATCACATC
*
970321 CCTTCATGTTAACATCACACATC
1 TCTTCATGTTAACAT--CACATC
* * *
970344 TCTTTATGTTAACATTATATC
1 TCTTCATGTTAACATCACATC
* * *
970365 TCTTTATGTTGACATTATTCATC
1 TCTTCATGTTAACATCA--CATC
970388 TCTTCA-GATTAACATCACATC
1 TCTTCATG-TTAACATCACATC
*
970409 TCTTCATGTTAACATCATATC
1 TCTTCATGTTAACATCACATC
* *
970430 TCTTCATTTTAATATCACAAGTC
1 TCTTCATGTTAACATCAC-A-TC
* *
970453 TCTTTATGTAAACAT
1 TCTTCATGTTAACAT
970468 ACCATAGATG
Statistics
Matches: 185, Mismatches: 36, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.01
21 114 0.62
22 5 0.03
23 64 0.35
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.41
Consensus pattern (21 bp):
TCTTCATGTTAACATCACATC
Found at i:970290 original size:44 final size:44
Alignment explanation
Indices: 970214--970467 Score: 214
Period size: 44 Copynumber: 5.8 Consensus size: 44
970204 AACGAATTTG
** * * * *
970214 TCTTCATGTTAGTATTATATCTCTTTATGTTAACATCACACAAC
1 TCTTCATGTTAACATCACATCTCTTCATGTTAACATCACACATC
* * *
970258 TCTTCATGTTAACATCACATGTCTTCAAGTTAACA--ACATATC
1 TCTTCATGTTAACATCACATCTCTTCATGTTAACATCACACATC
* *
970300 TC-TCTATATTAACATCACATCCCTTCATGTTAACATCACACATC
1 TCTTC-ATGTTAACATCACATCTCTTCATGTTAACATCACACATC
* * * * * * **
970344 TCTTTATGTTAACATTATATCTCTTTATGTTGACATTATTCATC
1 TCTTCATGTTAACATCACATCTCTTCATGTTAACATCACACATC
*
970388 TCTTCA-GATTAACATCACATCTCTTCATGTTAACAT--CATATC
1 TCTTCATG-TTAACATCACATCTCTTCATGTTAACATCACACATC
* * * *
970430 TCTTCATTTTAATATCACAAGTCTCTTTATGTAAACAT
1 TCTTCATGTTAACATCAC-A-TCTCTTCATGTTAACAT
970468 ACCATAGATG
Statistics
Matches: 166, Mismatches: 36, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.01
42 51 0.31
43 2 0.01
44 110 0.66
45 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.41
Consensus pattern (44 bp):
TCTTCATGTTAACATCACATCTCTTCATGTTAACATCACACATC
Found at i:970316 original size:65 final size:64
Alignment explanation
Indices: 970214--970448 Score: 242
Period size: 65 Copynumber: 3.6 Consensus size: 64
970204 AACGAATTTG
** * *
970214 TCTTCATGTTAGTATTATATCTCTTTATGTTAACATCACACAACTCTTCATGTTAACATCACATG
1 TCTTCATGTTAACATCATATCTCTTTATGTTAACATCACAC-ACTCTTCATGTTAACATCACATC
* * * *
970279 TCTTCAAGTTAACAACATATCTCTCTATATTAACATCACATC-C-CTTCATGTTAACATCACACA
1 TCTTCATGTTAACATCATATCTCTTTATGTTAACATCACA-CACTCTTCATGTTAACAT--CACA
970342 TC
63 TC
* * * * **
970344 TCTTTATGTTAACATTATATCTCTTTATGTTGACATTATTCATCTCTTCA-GATTAACATCACAT
1 TCTTCATGTTAACATCATATCTCTTTATGTTAACATCACACA-CTCTTCATG-TTAACATCACAT
970408 C
64 C
* * *
970409 TCTTCATGTTAACATCATATCTCTTCATTTTAATATCACA
1 TCTTCATGTTAACATCATATCTCTTTATGTTAACATCACA
970449 AGTCTCTTTA
Statistics
Matches: 136, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
63 14 0.10
64 2 0.01
65 105 0.77
66 3 0.02
67 12 0.09
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.41
Consensus pattern (64 bp):
TCTTCATGTTAACATCATATCTCTTTATGTTAACATCACACACTCTTCATGTTAACATCACATC
Found at i:972098 original size:32 final size:32
Alignment explanation
Indices: 972026--972178 Score: 161
Period size: 32 Copynumber: 4.8 Consensus size: 32
972016 ACCCTAGGCC
* * * *
972026 CATT-GGGCGTAAGAGCCAACCTAAGGGAATA
1 CATTGGGGCCTAAGAGCCTACCCAAGGAAATA
* **
972057 TC-TTAGGGCCTAAGAGCCTACCCAA-GAGTGTA
1 -CATTGGGGCCTAAGAGCCTACCCAAGGA-AATA
972089 CATTGGGGCCTAAGAGCCTACCCAAGGAAATA
1 CATTGGGGCCTAAGAGCCTACCCAAGGAAATA
* *
972121 CCTTGGGGCCTTAGAGCCTACCCAAGGAAATA
1 CATTGGGGCCTAAGAGCCTACCCAAGGAAATA
*
972153 CATTAGGGCCTCAA-AGCCTACCCAAG
1 CATTGGGGCCT-AAGAGCCTACCCAAG
972179 TGACACCTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
31 4 0.04
32 95 0.93
33 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (32 bp):
CATTGGGGCCTAAGAGCCTACCCAAGGAAATA
Found at i:976399 original size:18 final size:22
Alignment explanation
Indices: 976353--976401 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
976343 AAATATTGGG
976353 AAAGTAGAAACCCAATTTGATTA
1 AAAGTAGAAACCC-ATTTGATTA
976376 AAAGTAGAAA-CC-TTT-ATT-
1 AAAGTAGAAACCCATTTGATTA
976394 AAAGTAGA
1 AAAGTAGA
976402 TTTCTACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 3 0.12
22 2 0.08
23 10 0.38
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (22 bp):
AAAGTAGAAACCCATTTGATTA
Found at i:981165 original size:15 final size:15
Alignment explanation
Indices: 981147--981179 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
981137 GCTTGGCAGG
981147 AATACCATGGATTAT
1 AATACCATGGATTAT
981162 AATACCATGGATTAT
1 AATACCATGGATTAT
981177 AAT
1 AAT
981180 GCCAGAGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (15 bp):
AATACCATGGATTAT
Found at i:981555 original size:88 final size:88
Alignment explanation
Indices: 981406--981583 Score: 356
Period size: 88 Copynumber: 2.0 Consensus size: 88
981396 GATGGAAAGG
981406 AGCTCAGCAGGTCATCCTCCATTTCTTCTCTAACATAGTATATTAACAATACAGTTCTGAACTAA
1 AGCTCAGCAGGTCATCCTCCATTTCTTCTCTAACATAGTATATTAACAATACAGTTCTGAACTAA
981471 GATGTATCGGCAAATATCATTGC
66 GATGTATCGGCAAATATCATTGC
981494 AGCTCAGCAGGTCATCCTCCATTTCTTCTCTAACATAGTATATTAACAATACAGTTCTGAACTAA
1 AGCTCAGCAGGTCATCCTCCATTTCTTCTCTAACATAGTATATTAACAATACAGTTCTGAACTAA
981559 GATGTATCGGCAAATATCATTGC
66 GATGTATCGGCAAATATCATTGC
981582 AG
1 AG
981584 GAATGTTTAT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.31
Consensus pattern (88 bp):
AGCTCAGCAGGTCATCCTCCATTTCTTCTCTAACATAGTATATTAACAATACAGTTCTGAACTAA
GATGTATCGGCAAATATCATTGC
Found at i:981823 original size:32 final size:32
Alignment explanation
Indices: 981782--981845 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
981772 ACATTAAATC
981782 AAGATTTAACGTCAAACAGCGGAAGGGGGAAA
1 AAGATTTAACGTCAAACAGCGGAAGGGGGAAA
981814 AAGATTTAACGTCAAACAGCGGAAGGGGGAAA
1 AAGATTTAACGTCAAACAGCGGAAGGGGGAAA
981846 GAGTGCGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.12, G:0.31, T:0.12
Consensus pattern (32 bp):
AAGATTTAACGTCAAACAGCGGAAGGGGGAAA
Found at i:987053 original size:9 final size:9
Alignment explanation
Indices: 986981--987301 Score: 72
Period size: 9 Copynumber: 35.3 Consensus size: 9
986971 ATTGAAACAA
*
986981 ATATAATAT
1 ATATATTAT
986990 ATATA-TAT
1 ATATATTAT
986998 ATATA-TAT
1 ATATATTAT
*
987006 ATATATAAT
1 ATATATTAT
* *
987015 ATAAACTAT
1 ATATATTAT
987024 ATA-ACTTAT
1 ATATA-TTAT
* *
987033 ATGTAAAGTAT
1 A--TATATTAT
987044 ATATATTAT
1 ATATATTAT
*
987053 ATATATAAACT
1 ATATAT-TA-T
987064 ATATAGCTTAT
1 ATATA--TTAT
987075 ATTTATATTATT
1 A--TATATTA-T
*
987087 ATATACTAT
1 ATATATTAT
987096 ATATATTAT
1 ATATATTAT
* * *
987105 GTACA-AACT
1 ATATATTA-T
987114 ATATA-TAT
1 ATATATTAT
987122 ATATTATGTAT
1 ATA-TAT-TAT
*
987133 AAACTATATAT
1 ATA-TAT-TAT
987144 ATATCATGTAT
1 ATAT-AT-TAT
*
987155 A-A-ACTAT
1 ATATATTAT
987162 A-ATATTAT
1 ATATATTAT
987170 ATA-ATT-T
1 ATATATTAT
*
987177 ATATATGA-
1 ATATATTAT
987185 A-ATATTGA-
1 ATATATT-AT
987193 ACTATA-TAT
1 A-TATATTAT
* *
987202 AAACTA-CAT
1 ATA-TATTAT
*
987211 AGTTTATTAAT
1 A-TATATT-AT
*
987222 ATAAATTAT
1 ATATATTAT
987231 ATATA--A-
1 ATATATTAT
*
987237 ACTATATAAT
1 A-TATATTAT
*
987247 TTATATT-T
1 ATATATTAT
987255 ATATATTAT
1 ATATATTAT
*
987264 GTATAATTAT
1 ATAT-ATTAT
987274 A-A-ATTAT
1 ATATATTAT
*
987281 ATATATTGT
1 ATATATTAT
*
987290 ATAAATTAT
1 ATATATTAT
987299 ATA
1 ATA
987302 GTTTATTAAT
Statistics
Matches: 232, Mismatches: 43, Indels: 74
0.66 0.12 0.21
Matches are distributed among these distances:
6 1 0.00
7 24 0.10
8 46 0.20
9 92 0.40
10 21 0.09
11 39 0.17
12 4 0.02
13 5 0.02
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (9 bp):
ATATATTAT
Found at i:987059 original size:42 final size:42
Alignment explanation
Indices: 986997--987101 Score: 138
Period size: 42 Copynumber: 2.4 Consensus size: 42
986987 TATATATATA
986997 TATATATATATATATAATATAAACTATATAACTTATATGTAAAG
1 TATATATAT-TATAT-ATATAAACTATATAACTTATATGTAAAG
* * * *
987041 TATATATATTATATATATAAACTATATAGCTTATATTTATAT
1 TATATATATTATATATATAAACTATATAACTTATATGTAAAG
*
987083 TATTATATACTATATATAT
1 TA-TATATATTATATATAT
987102 TATGTACAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
42 26 0.47
43 20 0.36
44 9 0.16
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.47
Consensus pattern (42 bp):
TATATATATTATATATATAAACTATATAACTTATATGTAAAG
Found at i:987202 original size:2 final size:2
Alignment explanation
Indices: 986981--987182 Score: 97
Period size: 2 Copynumber: 103.0 Consensus size: 2
986971 ATTGAAACAA
*
986981 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AA ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * *
987022 AT AT A- ACT -T AT AT GT AA AGT AT AT AT AT -T AT AT AT AT AA ACT
1 AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T
* * *
987064 AT AT AG CT -T AT AT TT AT AT -T AT -T AT AT ACT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * * * *
987103 AT GT AC AA ACT AT AT AT AT AT AT -T AT GT AT AA ACT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * *
987146 AT CAT GT AT AA ACT AT A- AT AT -T AT AT A- AT TT AT AT AT
1 AT -AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT
987183 GAAATATTGA
Statistics
Matches: 150, Mismatches: 28, Indels: 44
0.68 0.13 0.20
Matches are distributed among these distances:
1 13 0.09
2 127 0.85
3 10 0.07
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:987268 original size:24 final size:23
Alignment explanation
Indices: 987241--987300 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
987231 ATATAAACTA
987241 TATAATTTATATTTATATAT-TATG
1 TATAA-TTATATTTATATATAT-TG
*
987265 TATAATTATAAATTATATATATTG
1 TATAATTAT-ATTTATATATATTG
987289 TATAAATTATAT
1 TAT-AATTATAT
987301 AGTTTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 4 0.13
24 20 0.65
25 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (23 bp):
TATAATTATATTTATATATATTG
Found at i:987429 original size:31 final size:31
Alignment explanation
Indices: 987388--987466 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
987378 TCTATGGAAT
* *
987388 TATATATAAACTATATAGTTTATTAGTGAAC
1 TATATTTAAACTATATAGTTAATTAGTGAAC
987419 TATATTTAAACTATATAGTTAATTAGTGAAC
1 TATATTTAAACTATATAGTTAATTAGTGAAC
987450 TATATTTAAACTATATA
1 TATATTTAAACTATATA
987467 TAAACAATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (31 bp):
TATATTTAAACTATATAGTTAATTAGTGAAC
Found at i:987544 original size:13 final size:13
Alignment explanation
Indices: 987521--987557 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
987511 TATAGTTTGC
*
987521 ATATGAACTATAT
1 ATATAAACTATAT
*
987534 GTATAAACTATAT
1 ATATAAACTATAT
987547 ATATAAACTAT
1 ATATAAACTAT
987558 GTAAACTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (13 bp):
ATATAAACTATAT
Found at i:987554 original size:53 final size:54
Alignment explanation
Indices: 987491--987593 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 54
987481 TAACTTATAC
* * *
987491 TATATGTAAACTATATAAAC-TATAGTTTGCATATGAACTATATGTATAAACTA
1 TATATATAAACTATATAAACATATAGTTTACATATGAACTATATATATAAACTA
*
987544 TATATATAAACTATGTAAACTATATAGTTTACATATGAACTATATATATA
1 TATATATAAACTATATAAAC-ATATAGTTTACATATGAACTATATATATA
987594 GTTTATTAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 18 0.41
55 26 0.59
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.39
Consensus pattern (54 bp):
TATATATAAACTATATAAACATATAGTTTACATATGAACTATATATATAAACTA
Found at i:987562 original size:22 final size:21
Alignment explanation
Indices: 987537--987593 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
987527 ACTATATGTA
987537 TAAACTATATATATAAACTATG
1 TAAACTATATATATAAA-TATG
* *
987559 TAAACTATATAGTTTACATATG
1 TAAACTATATA-TATAAATATG
987581 --AACTATATATATA
1 TAAACTATATATATA
987594 GTTTATTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.10
20 9 0.29
22 15 0.48
23 4 0.13
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (21 bp):
TAAACTATATATATAAATATG
Found at i:987622 original size:24 final size:25
Alignment explanation
Indices: 987567--987628 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
987557 TGTAAACTAT
* *
987567 ATAGTTTACATA-TGAACTATATAT
1 ATAGTTTATATAGTGAACTATATAA
987591 ATAGTTTAT-TAGTGAACTATATAA
1 ATAGTTTATATAGTGAACTATATAA
987615 ACTA-TTTATATAGT
1 A-TAGTTTATATAGT
987629 ATATACTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 25 0.76
25 6 0.18
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (25 bp):
ATAGTTTATATAGTGAACTATATAA
Found at i:987640 original size:14 final size:14
Alignment explanation
Indices: 987621--987703 Score: 64
Period size: 14 Copynumber: 5.9 Consensus size: 14
987611 ATAAACTATT
*
987621 TATATAGTATATAC
1 TATATATTATATAC
* *
987635 TATATATAAACTATAG
1 TATATAT-TA-TATAC
*
987651 TTTATATTATATAC
1 TATATATTATATAC
*
987665 TACATATTATAGT--
1 TATATATTATA-TAC
*
987678 GATAT-TTATATAC
1 TATATATTATATAC
987691 TATATATTATATA
1 TATATATTATATA
987704 AAATATATAG
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
11 1 0.02
12 5 0.10
13 7 0.13
14 26 0.50
15 3 0.06
16 10 0.19
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (14 bp):
TATATATTATATAC
Found at i:987686 original size:63 final size:59
Alignment explanation
Indices: 987617--987808 Score: 166
Period size: 56 Copynumber: 3.2 Consensus size: 59
987607 CTATATAAAC
987617 TATTTATATAGTATATACTATATATAAACTATAGTTTATATTATATACTACATATTATAGTGA
1 TATTTATATA-TATATACT-TATATAAACTATAGTTTATA-TATATACTA-ATATTATAGTGA
* *
987680 TATTTATATACTATATA-TTATATAAAATATA-TAGTATATATAGTA-TAAT-TTACCTA-TGA
1 TATTTATATA-TATATACTTATATAAACTATAGT-TTATATATA-TACTAATATTA--TAGTGA
* * * * *
987739 -A-CTATATATAAAAAC-TATATAAACTATAGTTTATATATAAACTATATAGTATAGTTGA
1 TATTTATATATATATACTTATATAAACTATAGTTTATATATATACTA-ATATTATAG-TGA
987797 TATTTATATATA
1 TATTTATATATA
987809 AACTATATAC
Statistics
Matches: 105, Mismatches: 11, Indels: 29
0.72 0.08 0.20
Matches are distributed among these distances:
55 1 0.01
56 28 0.27
57 9 0.09
58 9 0.09
59 6 0.06
60 17 0.16
61 18 0.17
62 1 0.01
63 16 0.15
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (59 bp):
TATTTATATATATATACTTATATAAACTATAGTTTATATATATACTAATATTATAGTGA
Found at i:987897 original size:18 final size:18
Alignment explanation
Indices: 987874--987973 Score: 119
Period size: 18 Copynumber: 5.2 Consensus size: 18
987864 AGTTAAACTA
* *
987874 TATAGTTTATATACGAAC
1 TATAGTTTACATATGAAC
*
987892 TATAGTTTACATATAAAC
1 TATAGTTTACATATGAAC
987910 TATAGTTGATATTTACATATGAAC
1 TATA---G---TTTACATATGAAC
987934 TATAGTTTACATATGAAC
1 TATAGTTTACATATGAAC
987952 TATAGTTTACATATGAAC
1 TATAGTTTACATATGAAC
987970 TATA
1 TATA
987974 TATATAGTTA
Statistics
Matches: 72, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
18 54 0.75
21 2 0.03
24 16 0.22
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (18 bp):
TATAGTTTACATATGAAC
Found at i:987934 original size:42 final size:42
Alignment explanation
Indices: 987879--987958 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
987869 AACTATATAG
*
987879 TTTATATACGAACTATAGTTTACATATAAACTATAGTTGATA
1 TTTACATACGAACTATAGTTTACATATAAACTATAGTTGATA
* *
987921 TTTACATATGAACTATAGTTTACATATGAACTATAGTT
1 TTTACATACGAACTATAGTTTACATATAAACTATAGTT
987959 TACATATGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (42 bp):
TTTACATACGAACTATAGTTTACATATAAACTATAGTTGATA
Found at i:987980 original size:42 final size:41
Alignment explanation
Indices: 987889--987982 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 41
987879 TTTATATACG
* **
987889 AACTATAGTTTACATATAAACTATAGTTGATATTTACATAT
1 AACTATAGTTTACATATAAACTATAGTTCATATGAACATAT
*
987930 GAACTATAGTTTACATATGAACTATAGTTTACATATGAAC-TAT
1 -AACTATAGTTTACATATAAACTATAG-TT-CATATGAACATAT
987973 ATA-TATAGTT
1 A-ACTATAGTT
987983 AATTAGTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
42 33 0.73
43 6 0.13
44 6 0.13
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (41 bp):
AACTATAGTTTACATATAAACTATAGTTCATATGAACATAT
Found at i:987993 original size:60 final size:59
Alignment explanation
Indices: 987826--987997 Score: 190
Period size: 60 Copynumber: 2.9 Consensus size: 59
987816 TACTTGATAA
* * * *
987826 ATGAATTATAGTTTACATATGAACTATATATA-AGCT-ATAGTTAAACTATATAGTTTATAT
1 ATGAACTATAGTTTACATATGAACTATATATATAGTTAATAG-TGAAC--TATAGTTTACAT
* * *
987886 ACGAACTATAGTTTACATATAAACTATAGT-TGATATTTACATA-TGAACTATAGTTTACAT
1 ATGAACTATAGTTTACATATGAACTATA-TAT-ATAGTTA-ATAGTGAACTATAGTTTACAT
987946 ATGAACTATAGTTTACATATGAACTATATATATAGTTAATTAGTGAACTATA
1 ATGAACTATAGTTTACATATGAACTATATATATAGTTAA-TAGTGAACTATA
987998 TAAACTATTT
Statistics
Matches: 94, Mismatches: 10, Indels: 16
0.78 0.08 0.13
Matches are distributed among these distances:
58 1 0.01
59 9 0.10
60 73 0.78
61 2 0.02
62 6 0.06
64 3 0.03
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (59 bp):
ATGAACTATAGTTTACATATGAACTATATATATAGTTAATAGTGAACTATAGTTTACAT
Found at i:988022 original size:18 final size:18
Alignment explanation
Indices: 987996--988054 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 18
987986 TAGTGAACTA
987996 TATAAACTATTTGTATAG
1 TATAAACTATTTGTATAG
*
988014 TATATACTA---G-ATA-
1 TATAAACTATTTGTATAG
*
988027 TATAAACTATTTATATAG
1 TATAAACTATTTGTATAG
*
988045 TATATACTAT
1 TATAAACTAT
988055 ATATATAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
13 8 0.25
14 3 0.09
15 1 0.03
17 3 0.09
18 17 0.53
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (18 bp):
TATAAACTATTTGTATAG
Found at i:988030 original size:13 final size:14
Alignment explanation
Indices: 988014--988077 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 14
988004 ATTTGTATAG
*
988014 TATATACTAGA-TA
1 TATATACTATACTA
* *
988027 TATAAACTAT-TTA
1 TATATACTATACTA
988040 TATAGTA-TATACTA
1 TATA-TACTATACTA
*
988054 TATATA-TAAACTA
1 TATATACTATACTA
988067 TATATACTATA
1 TATATACTATA
988078 TAGTATAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
13 31 0.76
14 10 0.24
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (14 bp):
TATATACTATACTA
Found at i:988032 original size:31 final size:31
Alignment explanation
Indices: 987994--988079 Score: 131
Period size: 31 Copynumber: 2.8 Consensus size: 31
987984 ATTAGTGAAC
*
987994 TATATAAACTATTTGTATAGTATATACTAGA
1 TATATAAACTATTTATATAGTATATACTAGA
*
988025 TATATAAACTATTTATATAGTATATACTATA
1 TATATAAACTATTTATATAGTATATACTAGA
*
988056 TATATAAACTA--TATATACTATATA
1 TATATAAACTATTTATATAGTATATA
988080 GTATAATTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
29 12 0.23
31 40 0.77
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (31 bp):
TATATAAACTATTTATATAGTATATACTAGA
Found at i:988163 original size:15 final size:14
Alignment explanation
Indices: 988143--988177 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
988133 AGACTATATA
988143 ATATAATTTATACTT
1 ATATAATTTATAC-T
988158 ATATAATTTATACT
1 ATATAATTTATACT
988172 ATATAA
1 ATATAA
988178 ATTCAAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATAATTTATACT
Found at i:988286 original size:21 final size:22
Alignment explanation
Indices: 988266--988331 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
988256 CATAAATAAA
*
988266 CTATATATACTATATAGTAAAAT
1 CTATATATACTATATA-TAAAAC
* *
988289 TTACATATGAACTATATATAAAAC
1 CTATATAT--ACTATATATAAAAC
988313 CTATATATA-TATATATAAA
1 CTATATATACTATATATAAA
988332 GTATATGGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 10 0.28
22 1 0.03
23 6 0.17
24 11 0.31
25 8 0.22
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (22 bp):
CTATATATACTATATATAAAAC
Found at i:988295 original size:36 final size:33
Alignment explanation
Indices: 988241--988308 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
988231 ATAAATGATT
*
988241 TATATAGTATATTTACATAAATAAACTATATATAC
1 TATATAGTAAATTTACAT--ATAAACTATATATAC
*
988276 TATATAGTAAAATTTACATATGAACTATATATA
1 TATATAGT-AAATTTACATATAAACTATATATA
988309 AAACCTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 13 0.43
35 8 0.27
36 9 0.30
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (33 bp):
TATATAGTAAATTTACATATAAACTATATATAC
Found at i:988319 original size:2 final size:2
Alignment explanation
Indices: 988314--988475 Score: 50
Period size: 2 Copynumber: 77.0 Consensus size: 2
988304 ATATAAAACC
* * * *
988314 TA TA TA TA TA TA TA TA AA GTA TA TGG TA TA TA CA AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA T-A TA TA TA TA TA -TA TA TA
* *
988357 T- TA TT TA GT- TA T- TA GTA TA TA TA AA CTA TA TA -A TA TA TA
1 TA TA TA TA -TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
988396 TA AA CTA TA TGG TA TA TA TA AA CTA TA T- TA TA TA GTCA TA GTA
1 TA TA -TA TA T-A TA TA TA TA TA -TA TA TA TA TA TA -T-A TA -TA
*
988439 TA TA TA -A CTA TA TA GTA TA TA AA CTA TA TA T- TA TA TA
1 TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA
988476 ATAGTATAAC
Statistics
Matches: 119, Mismatches: 19, Indels: 44
0.65 0.10 0.24
Matches are distributed among these distances:
1 7 0.06
2 93 0.78
3 18 0.15
4 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (2 bp):
TA
Found at i:988345 original size:18 final size:18
Alignment explanation
Indices: 988301--988475 Score: 119
Period size: 18 Copynumber: 10.3 Consensus size: 18
988291 ACATATGAAC
*
988301 TATATATAAAACCTATATATA
1 TATATAT-AAA-CTATATA-G
* *
988322 TATATATAAAGTATATGG
1 TATATATAAACTATATAG
*
988340 TATATACAAACTATATA-
1 TATATATAAACTATATAG
* **
988357 T-TAT-TTAGTTAT-TAG
1 TATATATAAACTATATAG
*
988372 TATATATAAACTATATAA
1 TATATATAAACTATATAG
*
988390 TATATATAAACTATATGG
1 TATATATAAACTATATAG
988408 TATATATAAACTATAT--
1 TATATATAAACTATATAG
988424 TATATAGT---C---ATAG
1 TATATA-TAAACTATATAG
988437 TATATAT-AACTATATAG
1 TATATATAAACTATATAG
*
988454 --TATATAAACTATATAT
1 TATATATAAACTATATAG
988470 TATATA
1 TATATA
988476 ATAGTATAAC
Statistics
Matches: 122, Mismatches: 17, Indels: 33
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.02
12 1 0.01
13 6 0.05
14 4 0.03
15 10 0.08
16 21 0.17
17 11 0.09
18 52 0.43
19 5 0.04
20 3 0.02
21 7 0.06
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
TATATATAAACTATATAG
Found at i:988388 original size:9 final size:9
Alignment explanation
Indices: 988374--988423 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
988364 GTTATTAGTA
988374 TATATAAAC
1 TATATAAAC
988383 TATATAATA-
1 TATATAA-AC
988392 TATATAAAC
1 TATATAAAC
**
988401 TATATGGTA-
1 TATAT-AAAC
988410 TATATAAAC
1 TATATAAAC
988419 TATAT
1 TATAT
988424 TATATAGTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
8 2 0.06
9 29 0.88
10 2 0.06
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (9 bp):
TATATAAAC
Found at i:988458 original size:46 final size:44
Alignment explanation
Indices: 988390--988483 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 44
988380 AACTATATAA
* *
988390 TATATATAAACTATATGGTATATATAAACTATAT-TATATAGTCATAG
1 TATATATAAACTATATAG--TATATAAACTATATAT-TATA-TAATAG
988437 TATATAT-AACTATATAGTATATAAACTATATATTATATAATAG
1 TATATATAAACTATATAGTATATAAACTATATATTATATAATAG
988480 TATA
1 TATA
988484 ACATAATATT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
43 9 0.20
44 18 0.41
45 1 0.02
46 9 0.20
47 7 0.16
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.41
Consensus pattern (44 bp):
TATATATAAACTATATAGTATATAAACTATATATTATATAATAG
Found at i:988468 original size:28 final size:26
Alignment explanation
Indices: 988408--988469 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
988398 AACTATATGG
**
988408 TATATATAAACTATATTATATAGTCA
1 TATATATAAACTATATTATATAAACA
988434 TAGTATATATAACTATATAGTATATAAAC-
1 TA-TATATA-AACTATAT--TATATAAACA
988463 TATATAT
1 TATATAT
988470 TATATAATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 2 0.07
27 6 0.20
28 13 0.43
29 2 0.07
30 7 0.23
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (26 bp):
TATATATAAACTATATTATATAAACA
Found at i:988501 original size:43 final size:44
Alignment explanation
Indices: 988410--988505 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 44
988400 CTATATGGTA
* *
988410 TATATAAACTATATTATATAGTCATAGTATATATAACTATATAG
1 TATATAAACTATATTATATAGTAATAGTATACATAACTATATAG
*
988454 TATATAAACTATA-TATTATA-TAATAGTATAACATAA-TAT-TATT
1 TATATAAACTATATTA-TATAGTAATAGTAT-ACATAACTATATA-G
988497 TATATAAAC
1 TATATAAAC
988506 ATTCATCCGT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
42 2 0.04
43 22 0.48
44 22 0.48
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (44 bp):
TATATAAACTATATTATATAGTAATAGTATACATAACTATATAG
Found at i:988959 original size:6 final size:6
Alignment explanation
Indices: 988944--989025 Score: 92
Period size: 6 Copynumber: 13.7 Consensus size: 6
988934 TCTTACCCCG
* * *
988944 AACCCT AACCTA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCG
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * * * *
988992 AACCCG AACCCG AACCCG AACCCG AACCCG AACC
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACC
989026 TGAGCTCGAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 72 1.00
ACGTcount: A:0.41, C:0.49, G:0.07, T:0.02
Consensus pattern (6 bp):
AACCCA
Found at i:989073 original size:12 final size:12
Alignment explanation
Indices: 988940--989073 Score: 115
Period size: 12 Copynumber: 11.2 Consensus size: 12
988930 CTTCTCTTAC
*
988940 CCCGAACCCTAA
1 CCCGAACCCGAA
** *
988952 CCTAAACCCAAA
1 CCCGAACCCGAA
* *
988964 CCCAAACCCAAA
1 CCCGAACCCGAA
* *
988976 CCCAAACCCAAA
1 CCCGAACCCGAA
988988 CCCGAACCCGAA
1 CCCGAACCCGAA
989000 CCCGAACCCGAA
1 CCCGAACCCGAA
989012 CCCGAACCCGAA
1 CCCGAACCCGAA
* * *
989024 CCTGAGCTCGAA
1 CCCGAACCCGAA
* * *
989036 CCTGAGCTCGAA
1 CCCGAACCCGAA
* *
989048 CCCAAACCCAAA
1 CCCGAACCCGAA
*
989060 CCCGAACCTGAA
1 CCCGAACCCGAA
989072 CC
1 CC
989074 TAAACATGAA
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 105 1.00
ACGTcount: A:0.37, C:0.46, G:0.11, T:0.05
Consensus pattern (12 bp):
CCCGAACCCGAA
Found at i:989078 original size:18 final size:18
Alignment explanation
Indices: 988940--989132 Score: 125
Period size: 18 Copynumber: 10.7 Consensus size: 18
988930 CTTCTCTTAC
* **
988940 CCCGAACCCTAACCTAAA
1 CCCGAACCCAAACCCGAA
* *
988958 CCCAAACCCAAACCCAAA
1 CCCGAACCCAAACCCGAA
*
988976 CCCAAACCCAAACCCGAA
1 CCCGAACCCAAACCCGAA
*
988994 CCCGAACCCGAACCCGAA
1 CCCGAACCCAAACCCGAA
* * *
989012 CCCGAACCCGAACCTGAG
1 CCCGAACCCAAACCCGAA
* ** * *
989030 CTCGAACCTGAGCTCGAA
1 CCCGAACCCAAACCCGAA
*
989048 CCCAAACCCAAACCCGAA
1 CCCGAACCCAAACCCGAA
* * **
989066 CCTGAACCTAAACATGAA
1 CCCGAACCCAAACCCGAA
* * ** **
989084 TCCAAACCTTAACCTTAA
1 CCCGAACCCAAACCCGAA
* *
989102 CCCGAACCCAAATCCAAA
1 CCCGAACCCAAACCCGAA
*
989120 CCCGAATCCAAAC
1 CCCGAACCCAAAC
989133 TATTTGAAAC
Statistics
Matches: 135, Mismatches: 40, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 135 1.00
ACGTcount: A:0.39, C:0.43, G:0.09, T:0.08
Consensus pattern (18 bp):
CCCGAACCCAAACCCGAA
Found at i:989112 original size:24 final size:24
Alignment explanation
Indices: 988950--989113 Score: 87
Period size: 24 Copynumber: 6.8 Consensus size: 24
988940 CCCGAACCCT
* **
988950 AACCTAAACCCAAACCCAAACCCA
1 AACCTAAACCCGAACCCAAACCTG
* * * *
988974 AACCCAAACCCAAACCCGAACCCG
1 AACCTAAACCCGAACCCAAACCTG
** * *
988998 AACCCGAACCCGAACCCGAACCCG
1 AACCTAAACCCGAACCCAAACCTG
* * * ** *
989022 AACCTGAGCTCGAA-CCTGAGCTCG
1 AACCTAAACCCGAACCCAAACCT-G
* * *
989046 AACCCAAACCCAAACCCGAACCTG
1 AACCTAAACCCGAACCCAAACCTG
** * *
989070 AACCTAAACATGAATCCAAACCTT
1 AACCTAAACCCGAACCCAAACCTG
*
989094 AACCTTAACCCGAACCCAAA
1 AACCTAAACCCGAACCCAAA
989114 TCCAAACCCG
Statistics
Matches: 107, Mismatches: 31, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
23 4 0.04
24 98 0.92
25 5 0.05
ACGTcount: A:0.40, C:0.42, G:0.10, T:0.08
Consensus pattern (24 bp):
AACCTAAACCCGAACCCAAACCTG
Found at i:997420 original size:20 final size:20
Alignment explanation
Indices: 997395--997456 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
997385 TTTTGGTGCA
*
997395 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
997415 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGA-TCCCCCCTT
*
997436 GAAGGGGAACCGATTCCCCCT
1 G-A-GGGAACCGATCCCCCCT
997457 ACAGGGGGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 10 0.29
21 9 0.26
22 7 0.20
23 9 0.26
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.19
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:997447 original size:23 final size:21
Alignment explanation
Indices: 997395--997456 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
997385 TTTTGGTGCA
* *
997395 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCTTT
997415 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCTTT
997436 GAAGGGGAACCGATTCCCCCT
1 G-A-GGGAACCGATTCCCCCT
997457 ACAGGGGGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 10 0.27
21 9 0.24
22 1 0.03
23 17 0.46
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.19
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCTTT
Found at i:997464 original size:22 final size:23
Alignment explanation
Indices: 997417--997465 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
997407 CCCCCCTTGA
**
997417 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTACAAG
*
997440 GGGAACCGATTCCCCC-TACAGG
1 GGGAACCGATTCCCCCTTACAAG
997462 GGGA
1 GGGA
997466 TTGATACCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.16
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTACAAG
Found at i:1001209 original size:20 final size:20
Alignment explanation
Indices: 1001170--1001218 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1001160 AAATAGTTGG
*
1001170 TGCTTGATTATGCTTTATAT
1 TGCTTGCTTATGCTTTATAT
*
1001190 TGTTTGCTTATG-TTTGATAT
1 TGCTTGCTTATGCTTT-ATAT
1001210 TGCTTGCTT
1 TGCTTGCTT
1001219 CTACTTGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.14, C:0.10, G:0.18, T:0.57
Consensus pattern (20 bp):
TGCTTGCTTATGCTTTATAT
Found at i:1001972 original size:13 final size:13
Alignment explanation
Indices: 1001953--1001990 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
1001943 TAATTTAGTG
1001953 ATTATAAATAA-A
1 ATTATAAATAAGA
1001965 ATTTATAATATAAGA
1 A-TTATAA-ATAAGA
1001980 ATTATAAATAA
1 ATTATAAATAA
1001991 TATAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (13 bp):
ATTATAAATAAGA
Found at i:1002000 original size:19 final size:19
Alignment explanation
Indices: 1001969--1002015 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1001959 AATAAAATTT
*
1001969 ATAATAT-AAGAATTATAA
1 ATAATATAAAGAATTAGAA
*
1001987 ATAATATAAAGAATTGGAA
1 ATAATATAAAGAATTAGAA
*
1002006 TTAATATAAA
1 ATAATATAAA
1002016 AACCAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (19 bp):
ATAATATAAAGAATTAGAA
Found at i:1002893 original size:2 final size:2
Alignment explanation
Indices: 1002886--1003102 Score: 116
Period size: 2 Copynumber: 115.5 Consensus size: 2
1002876 AATACACTAC
*
1002886 AT AT AT AT ACT AT AT A- AT AC A- AT AT AT AT A- AT A- AT AT A-
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
1002924 AT AT AT GCT AT AA AT A- AT AT AT AA 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
*
1002966 AT -T AT A- AT AA AT AT AT AT AT A- AT AT AGT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * *
1003005 TT AT AGC AT AT AT -T AT AT -T AT -T AT AT AT GT -T GT AT -T AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
1003043 AT AGT AT AT AT AT AGC AT AT -T AT -T AT -T AT AT AT -T TT AT -T
1 AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1003082 AT AT TT AT A- ACT AT AT AT AT A
1 AT AT AT AT AT A-T AT AT AT AT A
1003103 CAACCCCATT
Statistics
Matches: 167, Mismatches: 20, Indels: 56
0.69 0.08 0.23
Matches are distributed among these distances:
1 21 0.13
2 136 0.81
3 10 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1002947 original size:45 final size:47
Alignment explanation
Indices: 1002886--1002991 Score: 128
Period size: 47 Copynumber: 2.3 Consensus size: 47
1002876 AATACACTAC
* *
1002886 ATATATATACTATAT-AATACA-ATATATATA-ATAATATAATATAT
1 ATATATATAATATATAAATACATATATATATATATAATATAATAAAT
* * * *
1002930 GCTATAAATAATATATAAATATATATATATATATATATTATAATAAAT
1 -ATATATATAATATATAAATACATATATATATATATAATATAATAAAT
1002978 ATATATATAATATA
1 ATATATATAATATA
1002992 GTATATATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
45 12 0.24
46 5 0.10
47 21 0.42
48 12 0.24
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (47 bp):
ATATATATAATATATAAATACATATATATATATATAATATAATAAAT
Found at i:1003030 original size:47 final size:48
Alignment explanation
Indices: 1002932--1003068 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 48
1002922 TAATATATGC
* * *
1002932 TATAAATAATATATAAATATATATATATA-TATATATTATAATAAATA
1 TATATATAATATATATATATATATATATAGCATATATTATAATAAATA
* * *
1002979 TATATATAATATAGTATATATATTATTTATAGCATATATTAT-ATTATTA
1 TATATATAATATA-TATATATA-TATATATAGCATATATTATAATAAATA
* **
1003028 TATATGTTGTAT-TATATAGTATATATATAGCATATTATTAT
1 TATATATAATATATATATA-TATATATATAGCATA-TATTAT
1003069 TATATATTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
47 30 0.40
48 15 0.20
49 21 0.28
50 9 0.12
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (48 bp):
TATATATAATATATATATATATATATATAGCATATATTATAATAAATA
Found at i:1008771 original size:46 final size:45
Alignment explanation
Indices: 1008704--1008804 Score: 193
Period size: 46 Copynumber: 2.2 Consensus size: 45
1008694 ATTATTTGGG
1008704 TAAATATTGAATGCTGGAAAATTTATTAGTATGCTTAATTTTGAAT
1 TAAATATTGAATGCTGGAAAATTTATTAGTATGCTTAA-TTTGAAT
1008750 TAAATATTGAATGCTGGAAAATTTATTAGTATGCTTAATTTGAAT
1 TAAATATTGAATGCTGGAAAATTTATTAGTATGCTTAATTTGAAT
1008795 TAAATATTGA
1 TAAATATTGA
1008805 GTTGGGGTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 17 0.31
46 38 0.69
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.43
Consensus pattern (45 bp):
TAAATATTGAATGCTGGAAAATTTATTAGTATGCTTAATTTGAAT
Found at i:1013122 original size:28 final size:27
Alignment explanation
Indices: 1013091--1013145 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1013081 TACTTTGGTT
*
1013091 AGGTTAAATTAAAAAAAATACCCTTATG
1 AGGTAAAATT-AAAAAAATACCCTTATG
**
1013119 AGGTAAAATTATGAAAATACCCTTATG
1 AGGTAAAATTAAAAAAATACCCTTATG
1013146 TTGCAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (27 bp):
AGGTAAAATTAAAAAAATACCCTTATG
Found at i:1017153 original size:27 final size:26
Alignment explanation
Indices: 1017096--1017155 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1017086 AATTTGGTTA
* *
1017096 TGTAAAATTTTGAAATACCCTTATGG
1 TGTAAAATTATGAAATACCCTTATAG
* *
1017122 GGTAAAATTATGAAAATACCCTTATAT
1 TGTAAAATTATG-AAATACCCTTATAG
1017149 TGTAAAA
1 TGTAAAA
1017156 AATAACAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (26 bp):
TGTAAAATTATGAAATACCCTTATAG
Found at i:1019140 original size:35 final size:35
Alignment explanation
Indices: 1019101--1019238 Score: 109
Period size: 35 Copynumber: 3.9 Consensus size: 35
1019091 AAATCTCTGC
**
1019101 AGGTTCAGTTCGATCAAACTGGTAATTCCTTAAAT
1 AGGTTCAGACCGATCAAACTGGTAATTCCTTAAAT
* **
1019136 AGGTTC-GAACCGTTCAAACTGGTAATTCCTTACGGT
1 AGGTTCAG-ACCGATCAAACTGGTAATTCCTTA-AAT
* * * * * *
1019172 AAGTTCA-TCTTGGTCAAATTGGTAATTCCTTATAT
1 AGGTTCAGAC-CGATCAAACTGGTAATTCCTTAAAT
* * *
1019207 AGGTTTAGACCGATCGAGCTGGTAATTCCTTA
1 AGGTTCAGACCGATCAAACTGGTAATTCCTTA
1019239 CGGATCTAGG
Statistics
Matches: 78, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
34 1 0.01
35 51 0.65
36 26 0.33
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (35 bp):
AGGTTCAGACCGATCAAACTGGTAATTCCTTAAAT
Found at i:1033474 original size:105 final size:105
Alignment explanation
Indices: 1033351--1034298 Score: 971
Period size: 105 Copynumber: 9.0 Consensus size: 105
1033341 GTATTGTGAT
*
1033351 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCTCA
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* * *
1033416 ATTTCATAGCCAATTTCAACTTCACAGTGAATGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
1033456 ACTCAAGACAACACAAGTTCAATTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCTCA
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* * *
1033521 ATTTTAGAGCCAATTTCAACTTCACAGTGAAGGATATAGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
1033561 ACTCTAGACAACACAAGTTCAACTTCTCGATGAAGGGACCGCTGGTTGTCAACAAAAACATCCCA
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* * **
1033626 ATCTCAGAGCCGATTTCAACTTCACAGCGAAGGATATCAG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
1033666 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGTTGGTTGTCGATA-AACAACTTCC
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC-A-ACAACAACTTCC
** * *
1033730 CAATTTTGGATCCAATTTCAACTTCACAACGAAGGATATTGG
64 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * * *
1033772 ACTCTAGACAACGCAAGTTCAACTTCACAATGAAGGGACCACTGATTGTCAACAAAAACATCCCA
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
* * *
1033837 ATCTCAGAGCCGATTTCAACTTCACAGCGAAGGATATCGG
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** * * *
1033877 ACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAATAAACAACTTCTC
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCC
* *
1033942 AATTTCAGAGCTAATTTCAACTTCACAGCGAAGGATATTCG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** * * * * **
1033983 ACTCAAGATAGTACAAGCTCAACTTCAC-AGCAAAGGGGCGGCTGACTGTCAAC-A-AA--T---
1 ACTCAAGACAACACAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAACAACTTCCC
* * * *
1034040 AACTTCGGGGCCAATCTCAACTTCACAGCGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
1034081 ACTCGAGACAACACAAAATTCAACTTCACGATGAA-GGAACGACTGGTTGTCAACAATAATTTCC
1 ACTCAAGACAACAC-AAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAACAACTTCC
* *
1034145 CAGTTTCAGGGCCAATTTCAACTTCACAGCGAAGGATATTGG
64 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * * * * ** * * *
1034187 ACCCAGGACAACATAAGCTCAACTTCGCAATGAAGGGGCGGCTGACTGTCGACAAACAATTTTCC
1 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCC
* * * * **
1034252 AGTTTTAGAGTCAATATTCAACTTCACGGTAAAGGATATTGG
65 AATTTCAGAGCCAAT-TTCAACTTCACAGCGAAGGATATTGG
*
1034294 CCTCA
1 ACTCA
1034299 GAACAAAGTA
Statistics
Matches: 698, Mismatches: 127, Indels: 34
0.81 0.15 0.04
Matches are distributed among these distances:
98 48 0.07
99 24 0.03
100 2 0.00
101 3 0.00
103 3 0.00
104 2 0.00
105 351 0.50
106 238 0.34
107 27 0.04
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (105 bp):
ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:1033810 original size:211 final size:210
Alignment explanation
Indices: 1033351--1034242 Score: 1012
Period size: 211 Copynumber: 4.3 Consensus size: 210
1033341 GTATTGTGAT
* * * * * *
1033351 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCTCA
1 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGATTGTCAACAAAAACATCCCA
* * * * * * *
1033416 ATTTCATAGCCAATTTCAACTTCACAGTGAATGATATTGGACTCAAGACAACACAAGTTCAATTT
66 ATCTCAGAGCCAATTTCAACTTCACAGCGAAGGATATCGGACTCCAGACAACACAAGTTCAACTT
* *
1033481 CACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCTCAATTTTAGAGCCAATTTCAACTTCAC
131 CACGACGAAGGGACTGCTGGTTGTCAACAACAACTTCCCAATTTTAGAGCCAATTTCAACTTCAC
* *
1033546 AGTGAAGGATATAGG
196 AGCGAAGGATATTGG
* * * *
1033561 ACTCTAGACAACACAAGTTCAACTTCTCGATGAAGGGACCGCTGGTTGTCAACAAAAACATCCCA
1 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGATTGTCAACAAAAACATCCCA
* * *
1033626 ATCTCAGAGCCGATTTCAACTTCACAGCGAAGGATATCAGACTCCAGACAACGCAAGTTCAACTT
66 ATCTCAGAGCCAATTTCAACTTCACAGCGAAGGATATCGGACTCCAGACAACACAAGTTCAACTT
* * *
1033691 CACGACGAAGGGACTGTTGGTTGTCGATA-AACAACTTCCCAATTTTGGATCCAATTTCAACTTC
131 CACGACGAAGGGACTGCTGGTTGTC-A-ACAACAACTTCCCAATTTTAGAGCCAATTTCAACTTC
*
1033755 ACAACGAAGGATATTGG
194 ACAGCGAAGGATATTGG
* * *
1033772 ACTCTAGACAACGCAAGTTCAACTTCACAATGAAGGGACCACTGATTGTCAACAAAAACATCCCA
1 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGATTGTCAACAAAAACATCCCA
* **
1033837 ATCTCAGAGCCGATTTCAACTTCACAGCGAAGGATATCGGACTCCAGACAACGTAAGTTCAACTT
66 ATCTCAGAGCCAATTTCAACTTCACAGCGAAGGATATCGGACTCCAGACAACACAAGTTCAACTT
* * * *
1033902 CACGACGAAGGGA-TCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGAGCTAATTTCAACTTC
131 CACGACGAAGGGACT-GCTGGTTGTCAA-CAACAACTTCCCAATTTTAGAGCCAATTTCAACTTC
*
1033966 ACAGCGAAGGATATTCG
194 ACAGCGAAGGATATTGG
* ** * *** * * * *
1033983 ACTCAAGATAGTACAAGCTCAACTTCACAGCAAAGGGGCGGCTGACTGTCAACAAATA-A---C-
1 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGATTGTCAACAAAAACATCCCA
* * * * * *
1034043 -T-TCGGGGCCAATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAAATTCAACT
66 ATCTCAGAGCCAATTTCAACTTCACAGCGAAGGATATCGGACTCCAGACAACAC-AAGTTCAACT
* * * * * * *
1034106 TCACGATGAAGGAAC-GACTGGTTGTCAACAATAATTTCCCAGTTTCAGGGCCAATTTCAACTTC
130 TCACGACGAAGGGACTG-CTGGTTGTCAACAACAACTTCCCAATTTTAGAGCCAATTTCAACTTC
1034170 ACAGCGAAGGATATTGG
194 ACAGCGAAGGATATTGG
* * * * * * * * *
1034187 ACCCAGGACAACATAAGCTCAACTTCGCAATGAAGGGGCGGCTGACTGTCGACAAA
1 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGATTGTCAACAAA
1034243 CAATTTTCCA
Statistics
Matches: 591, Mismatches: 83, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
204 134 0.23
205 33 0.06
207 1 0.00
209 1 0.00
210 140 0.24
211 281 0.48
212 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (210 bp):
ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACCGCTGATTGTCAACAAAAACATCCCA
ATCTCAGAGCCAATTTCAACTTCACAGCGAAGGATATCGGACTCCAGACAACACAAGTTCAACTT
CACGACGAAGGGACTGCTGGTTGTCAACAACAACTTCCCAATTTTAGAGCCAATTTCAACTTCAC
AGCGAAGGATATTGG
Found at i:1038781 original size:20 final size:20
Alignment explanation
Indices: 1038756--1038801 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
1038746 TTGAATCGGA
1038756 ATTTTACGAAAATTTGAAGG
1 ATTTTACGAAAATTTGAAGG
1038776 ATTTTACGAAAATTTGAAGG
1 ATTTTACGAAAATTTGAAGG
1038796 ATTTTA
1 ATTTTA
1038802 TAAAATGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.39
Consensus pattern (20 bp):
ATTTTACGAAAATTTGAAGG
Found at i:1045927 original size:35 final size:35
Alignment explanation
Indices: 1045875--1045941 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
1045865 TCCTCGATTT
*
1045875 TATTCTAAACCCCAAATTCCAAAATAATTCAATTA
1 TATTCTAAACCCAAAATTCCAAAATAATTCAATTA
* * *
1045910 TATTTTAAACCCAAAATTCTAAAATACTTCAA
1 TATTCTAAACCCAAAATTCCAAAATAATTCAA
1045942 ATTAGGGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (35 bp):
TATTCTAAACCCAAAATTCCAAAATAATTCAATTA
Found at i:1045997 original size:35 final size:35
Alignment explanation
Indices: 1045946--1046014 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
1045936 CTTCAAATTA
1045946 GGGTTTATAATATAATTAAAGTATTTTGGAATTTG
1 GGGTTTATAATATAATTAAAGTATTTTGGAATTTG
* * * *
1045981 GGGTTTATAATGTAATTGAAGTGTTTTTGAATTT
1 GGGTTTATAATATAATTAAAGTATTTTGGAATTT
1046015 TGAACATGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (35 bp):
GGGTTTATAATATAATTAAAGTATTTTGGAATTTG
Found at i:1055499 original size:83 final size:83
Alignment explanation
Indices: 1055360--1055525 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
1055350 GAATCCCTTA
1055360 AAGCTGGTTTCCACACCATCTTTACCAATCTGTCAGTCTCAGCTCCCTTATTACTAACTCCAACC
1 AAGCTGGTTTCCACACCATCTTTACCAATCTGTCAGTCTCAGCTCCCTTATTACTAACTCCAACC
1055425 TCTTTGTTATGATAAACT
66 TCTTTGTTATGATAAACT
1055443 AAGCTGGTTTCCACACCATCTTTACCAATCTGTCAGTCTCAGCTCCCTTATTACTAACTCCAACC
1 AAGCTGGTTTCCACACCATCTTTACCAATCTGTCAGTCTCAGCTCCCTTATTACTAACTCCAACC
1055508 TCTTTGTTATGATAAACT
66 TCTTTGTTATGATAAACT
1055526 TTAATTTTAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (83 bp):
AAGCTGGTTTCCACACCATCTTTACCAATCTGTCAGTCTCAGCTCCCTTATTACTAACTCCAACC
TCTTTGTTATGATAAACT
Found at i:1056972 original size:16 final size:15
Alignment explanation
Indices: 1056945--1057002 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 15
1056935 TTATTACATT
1056945 ATATAGTATATATGATA
1 ATATA-TATATAT-ATA
1056962 ATATATATATATAATA
1 ATATATATATAT-ATA
*
1056978 ATTTCA-ATAATATATA
1 ATAT-ATAT-ATATATA
1056994 ATATATATA
1 ATATATATA
1057003 GTTTTTGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
15 2 0.06
16 23 0.66
17 10 0.29
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:1057020 original size:21 final size:22
Alignment explanation
Indices: 1056994--1057040 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
1056984 ATAATATATA
* *
1056994 ATATA-TATAGTTTTTGGAAAT
1 ATATATTATAGTTTTTGAAAAC
1057015 ATATATTATAGTTTTTGAAAAC
1 ATATATTATAGTTTTTGAAAAC
1057037 ATAT
1 ATAT
1057041 TTTTGAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (22 bp):
ATATATTATAGTTTTTGAAAAC
Found at i:1057045 original size:14 final size:14
Alignment explanation
Indices: 1057026--1057130 Score: 59
Period size: 14 Copynumber: 8.1 Consensus size: 14
1057016 TATATTATAG
1057026 TTTTTGAAAACATA
1 TTTTTGAAAACATA
1057040 TTTTTGAAAACATA
1 TTTTTGAAAACATA
* *
1057054 ----T-AATATATA
1 TTTTTGAAAACATA
* *
1057063 GCTTTT-AAAAAATA
1 -TTTTTGAAAACATA
1057077 GTTTTTGAAAACATA
1 -TTTTTGAAAACATA
* *
1057092 --TAT-AAAACA-G
1 TTTTTGAAAACATA
1057102 TTTTTGAAAACATA
1 TTTTTGAAAACATA
*
1057116 TTTTTGGAAACATA
1 TTTTTGAAAACATA
1057130 T
1 T
1057131 AATATAGTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
9 6 0.09
10 1 0.01
11 6 0.09
12 4 0.06
13 6 0.09
14 40 0.57
15 7 0.10
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.40
Consensus pattern (14 bp):
TTTTTGAAAACATA
Found at i:1057082 original size:38 final size:37
Alignment explanation
Indices: 1057004--1057221 Score: 261
Period size: 38 Copynumber: 5.9 Consensus size: 37
1056994 ATATATATAG
* *
1057004 TTTTTGGAAATATATAT-TATAGTTTTTGAAAACATA
1 TTTTTGAAAACATATATATATAGTTTTTGAAAACATA
* *
1057040 TTTTTGAAAACATATAATATATAGCTTTT-AAAAAATA
1 TTTTTGAAAACATAT-ATATATAGTTTTTGAAAACATA
* *
1057077 GTTTTTGAAAACATATATAAAACAGTTTTTGAAAACATA
1 -TTTTTGAAAACATATAT-ATATAGTTTTTGAAAACATA
*
1057116 TTTTTGGAAACATATA-ATATAGTTTTT-AAAACGAT-
1 TTTTTGAAAACATATATATATAGTTTTTGAAAAC-ATA
1057151 TTTTTG-AAACATATATCATATAGTTTTTGAAAACATA
1 TTTTTGAAAACATATAT-ATATAGTTTTTGAAAACATA
1057188 TTATTTTGAAAACATAT-TATATAGTTTTTGAAAA
1 -T-TTTTGAAAACATATATATATAGTTTTTGAAAA
1057222 TATAATATAT
Statistics
Matches: 158, Mismatches: 11, Indels: 24
0.82 0.06 0.12
Matches are distributed among these distances:
34 9 0.06
35 11 0.07
36 37 0.23
37 16 0.10
38 64 0.41
39 13 0.08
40 8 0.05
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (37 bp):
TTTTTGAAAACATATATATATAGTTTTTGAAAACATA
Found at i:1057083 original size:74 final size:74
Alignment explanation
Indices: 1057000--1057221 Score: 249
Period size: 74 Copynumber: 3.0 Consensus size: 74
1056990 TATAATATAT
1057000 ATAGTTTTTGGAAATATATATTATAGTTTTTGAAAACATATTTTTGAAAACATATAATATATAGC
1 ATAGTTTTTGGAAATATATATTATAGTTTTTGAAAACATATTTTTGAAAACATAT-ATATATAGC
1057065 TTTTAAAA-A
65 TTTTAAAACA
* ** * *
1057074 ATAGTTTTTGAAAACATATATAAAACAGTTTTTGAAAACATATTTTTGGAAACATATA-ATATAG
1 ATAGTTTTTG-GAA-ATATATATTATAGTTTTTGAAAACATATTTTTGAAAACATATATATATAG
* *
1057138 TTTTTAAAACG
64 CTTTTAAAACA
*
1057149 AT--TTTTT-GAAACATATATCATATAGTTTTTGAAAACATATTATTTTGAAAACATAT-TATAT
1 ATAGTTTTTGGAAATATATAT--TATAGTTTTTGAAAACATA-T-TTTTGAAAACATATATATAT
*
1057210 AGTTTTTGAAAA
62 AGCTTTT-AAAA
1057222 TATAATATAT
Statistics
Matches: 126, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
70 6 0.05
71 2 0.02
72 17 0.13
73 6 0.05
74 48 0.38
75 9 0.07
76 38 0.30
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.42
Consensus pattern (74 bp):
ATAGTTTTTGGAAATATATATTATAGTTTTTGAAAACATATTTTTGAAAACATATATATATAGCT
TTTAAAACA
Found at i:1057098 original size:24 final size:24
Alignment explanation
Indices: 1057071--1057116 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
1057061 TAGCTTTTAA
*
1057071 AAAATAGTTTTTGAAAACATATAT
1 AAAACAGTTTTTGAAAACATATAT
1057095 AAAACAGTTTTTGAAAACATAT
1 AAAACAGTTTTTGAAAACATAT
1057117 TTTTGGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.35
Consensus pattern (24 bp):
AAAACAGTTTTTGAAAACATATAT
Found at i:1057196 original size:16 final size:16
Alignment explanation
Indices: 1057175--1057207 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1057165 ATCATATAGT
1057175 TTTTGAAAACATATTA
1 TTTTGAAAACATATTA
1057191 TTTTGAAAACATATTA
1 TTTTGAAAACATATTA
1057207 T
1 T
1057208 ATAGTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTTGAAAACATATTA
Found at i:1057230 original size:22 final size:22
Alignment explanation
Indices: 1057151--1057231 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 22
1057141 TTAAAACGAT
1057151 TTTTTGAAACATAT-ATCATATAG
1 TTTTTGAAA-ATATAAT-ATATAG
*
1057174 TTTTTG-AAA-A-CATAT-TA-
1 TTTTTGAAAATATAATATATAG
* *
1057191 -TTTTGAAAACATATTATATAG
1 TTTTTGAAAATATAATATATAG
1057212 TTTTTGAAAATATAATATAT
1 TTTTTGAAAATATAATATAT
1057232 GTTGTATAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
16 5 0.11
17 3 0.06
18 3 0.06
19 5 0.11
20 5 0.11
21 1 0.02
22 19 0.40
23 6 0.13
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (22 bp):
TTTTTGAAAATATAATATATAG
Found at i:1057283 original size:15 final size:15
Alignment explanation
Indices: 1057265--1057293 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1057255 ATAGTGTAAA
1057265 TATTATTTATTATAG
1 TATTATTTATTATAG
1057280 TATTATTTATTATA
1 TATTATTTATTATA
1057294 CTCTACTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATTTATTATAG
Found at i:1057343 original size:5 final size:5
Alignment explanation
Indices: 1057292--1057340 Score: 80
Period size: 5 Copynumber: 9.8 Consensus size: 5
1057282 TTATTTATTA
* *
1057292 TACTC TACTC TACTC TACTA TACTC TACTC TACTC TACTC TACTA TACT
1 TACTC TACTC TACTC TACTC TACTC TACTC TACTC TACTC TACTC TACT
1057341 ATATTAGGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (5 bp):
TACTC
Done.