Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 56 of 255
Found at i:15987192 original size:19 final size:18
Alignment explanation
Indices: 15987168--15987216 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
15987158 ATTTATACTT
*
15987168 AATTTTTAACTATTTCATA
1 AATTTTAAAC-ATTTCATA
15987187 AATTTTAAACATTTCATA
1 AATTTTAAACATTTCATA
*
15987205 TTATTTTAAACA
1 -AATTTTAAACA
15987217 AAATTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTTTAAACATTTCATA
Found at i:15996106 original size:20 final size:20
Alignment explanation
Indices: 15996078--15996129 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
15996068 TGGGTGAGGG
* *
15996078 ACACAGGCGTGTTCCCAAGC
1 ACACGGGCGTGTCCCCAAGC
15996098 ACACGGGCGTGTCCCCAAGC
1 ACACGGGCGTGTCCCCAAGC
*
15996118 ACACGGGTGTGT
1 ACACGGGCGTGT
15996130 GTTTTGCCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (20 bp):
ACACGGGCGTGTCCCCAAGC
Found at i:16000125 original size:27 final size:27
Alignment explanation
Indices: 16000087--16000140 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
16000077 CTTCTGATTT
16000087 ACTATAAAATAGAAAAATAAAACTAAG
1 ACTATAAAATAGAAAAATAAAACTAAG
16000114 ACTATAAAATAGAAAAATAAAACTAAG
1 ACTATAAAATAGAAAAATAAAACTAAG
16000141 TAAGCATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (27 bp):
ACTATAAAATAGAAAAATAAAACTAAG
Found at i:16001164 original size:19 final size:19
Alignment explanation
Indices: 16001136--16001185 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
16001126 CTTATCGAGT
16001136 ATTATCATTTATTTC-TCGC
1 ATTATCATTTATTTCAT-GC
*
16001155 ATTTTCATTTATTTCATGC
1 ATTATCATTTATTTCATGC
16001174 ATTATCATTTAT
1 ATTATCATTTAT
16001186 CATGCTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (19 bp):
ATTATCATTTATTTCATGC
Found at i:16005975 original size:46 final size:45
Alignment explanation
Indices: 16005867--16006035 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 45
16005857 ATTGTGAGCT
* ** * *
16005867 AGTGTAAGACCATGTCTGGGACATGACATCGGCATTAAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATG-CATC-GCCTCGAGATGAG-GCC
16005915 AGTGTAAGA-CATGTCTGGGACATGCATCTGCCTCGAGATGTAGGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GCCTCGAGATG-AGGCC
* *
16005961 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGTGATGA-GCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGCCT-CGAGATGAGGCC
*
16006005 AGTGTAAGACCATGTCTGAGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG
16006036 GCATCCTACC
Statistics
Matches: 108, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
44 12 0.11
45 17 0.16
46 53 0.49
47 17 0.16
48 9 0.08
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGCCTCGAGATGAGGCC
Found at i:16007228 original size:21 final size:22
Alignment explanation
Indices: 16007189--16007229 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
16007179 TTGAGTCGGT
16007189 CACATGGGCGTGTTGCCCCTCC
1 CACATGGGCGTGTTGCCCCTCC
16007211 CACATGGGCGTG-TGCCCCT
1 CACATGGGCGTGTTGCCCCT
16007230 ATGTCTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.39, G:0.29, T:0.22
Consensus pattern (22 bp):
CACATGGGCGTGTTGCCCCTCC
Found at i:16017951 original size:27 final size:27
Alignment explanation
Indices: 16017913--16017967 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
16017903 TGCAAACATG
16017913 ATTAGTTAAAAAAGTTGAAGTGTCAAT
1 ATTAGTTAAAAAAGTTGAAGTGTCAAT
16017940 ATTAGTTAAAAAAGTTGAAGTGTCAAT
1 ATTAGTTAAAAAAGTTGAAGTGTCAAT
16017967 A
1 A
16017968 GACGTAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (27 bp):
ATTAGTTAAAAAAGTTGAAGTGTCAAT
Found at i:16023574 original size:27 final size:27
Alignment explanation
Indices: 16023544--16023719 Score: 201
Period size: 27 Copynumber: 6.5 Consensus size: 27
16023534 ATATTGAGTC
* * * *
16023544 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16023571 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16023598 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16023626 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16023653 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16023680 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16023707 CGCACACTTAGTG
1 CGCACACTTAGTG
16023720 TTGCACAATT
Statistics
Matches: 129, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16023683 original size:82 final size:81
Alignment explanation
Indices: 16023565--16023719 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 81
16023555 TGCTATATAA
* *
16023565 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16023630 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16023647 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16023711 CACTTAGTG
65 CACTTAGTG
16023720 TTGCACAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16029315 original size:20 final size:20
Alignment explanation
Indices: 16029286--16029337 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
16029276 TAACAGGGGT
16029286 ACCAAAGTGCAATCAGGAGC
1 ACCAAAGTGCAATCAGGAGC
* * *
16029306 ACGAATGTGCAATCAGGGGC
1 ACCAAAGTGCAATCAGGAGC
16029326 ACCAAAGTGCAA
1 ACCAAAGTGCAA
16029338 ACAAGGGCAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (20 bp):
ACCAAAGTGCAATCAGGAGC
Found at i:16029323 original size:40 final size:40
Alignment explanation
Indices: 16029279--16029444 Score: 174
Period size: 40 Copynumber: 4.2 Consensus size: 40
16029269 AGATGTATAA
*
16029279 CAGGGGTACCAAAGTGCAATC-AGGAGCAC-GAATGTGCAAT
1 CAGGGGTACCAAAGTGCAAACAAGG-GCACAG-ATGTGCAAT
* *
16029319 CAGGGGCACCAAAGTGCAAACAAGGGCACAGATGTGCATT
1 CAGGGGTACCAAAGTGCAAACAAGGGCACAGATGTGCAAT
** ** *
16029359 CAGGGGTACTGAAGTATAAACAAGGGCACAGATGTGCATT
1 CAGGGGTACCAAAGTGCAAACAAGGGCACAGATGTGCAAT
* * * * * *
16029399 CAAGGGTACCGAAGTACAAACATGGGCACAAATGTGCATT
1 CAGGGGTACCAAAGTGCAAACAAGGGCACAGATGTGCAAT
16029439 CAGGGG
1 CAGGGG
16029445 CACTTTTTCA
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 106 0.96
41 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.30, T:0.16
Consensus pattern (40 bp):
CAGGGGTACCAAAGTGCAAACAAGGGCACAGATGTGCAAT
Found at i:16029345 original size:20 final size:20
Alignment explanation
Indices: 16029286--16029347 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
16029276 TAACAGGGGT
16029286 ACCAAAGTGCAATC-AGGAGC
1 ACCAAAGTGCAATCAAGG-GC
* * *
16029306 ACGAATGTGCAATCAGGGGC
1 ACCAAAGTGCAATCAAGGGC
*
16029326 ACCAAAGTGCAAACAAGGGC
1 ACCAAAGTGCAATCAAGGGC
16029346 AC
1 AC
16029348 AGATGTGCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 32 0.94
21 2 0.06
ACGTcount: A:0.39, C:0.24, G:0.27, T:0.10
Consensus pattern (20 bp):
ACCAAAGTGCAATCAAGGGC
Found at i:16029355 original size:20 final size:20
Alignment explanation
Indices: 16029310--16029436 Score: 67
Period size: 20 Copynumber: 6.3 Consensus size: 20
16029300 AGGAGCACGA
* *
16029310 ATGTGCAATCAGGGGCACCA-
1 ATGTGCAAACAAGGGCA-CAG
*
16029330 AAGTGCAAACAAGGGCACAG
1 ATGTGCAAACAAGGGCACAG
** * * *
16029350 ATGTGCATTCAGGGGTACTG
1 ATGTGCAAACAAGGGCACAG
* **
16029370 AAGTATAAACAAGGGCACAG
1 ATGTGCAAACAAGGGCACAG
** * *
16029390 ATGTGCATTCAAGGGTACCG
1 ATGTGCAAACAAGGGCACAG
* * * *
16029410 AAGTACAAACATGGGCACAA
1 ATGTGCAAACAAGGGCACAG
16029430 ATGTGCA
1 ATGTGCA
16029437 TTCAGGGGCA
Statistics
Matches: 72, Mismatches: 34, Indels: 2
0.67 0.31 0.02
Matches are distributed among these distances:
19 2 0.03
20 70 0.97
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (20 bp):
ATGTGCAAACAAGGGCACAG
Found at i:16035180 original size:18 final size:19
Alignment explanation
Indices: 16035147--16035184 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
16035137 AGACTCCAGG
*
16035147 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
16035166 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
16035184 T
1 T
16035185 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:16044088 original size:34 final size:34
Alignment explanation
Indices: 16044045--16044111 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
16044035 ATACTTGAGA
*
16044045 GTTCCTCAATTGA-AGCCAAGTAATTTGGGTTCAT
1 GTTCCTCAATTGATA-CCAAGTAATTTAGGTTCAT
*
16044079 GTTCCTCAATTGATATCAAGTAATTTAGGTTCA
1 GTTCCTCAATTGATACCAAGTAATTTAGGTTCA
16044112 GTACAATCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (34 bp):
GTTCCTCAATTGATACCAAGTAATTTAGGTTCAT
Found at i:16055876 original size:5 final size:5
Alignment explanation
Indices: 16055866--16055895 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
16055856 TTAACATATC
16055866 CCCCT CCCCT CCCCT CCCCT CCCCT CCCCT
1 CCCCT CCCCT CCCCT CCCCT CCCCT CCCCT
16055896 GGGTCTTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.80, G:0.00, T:0.20
Consensus pattern (5 bp):
CCCCT
Found at i:16057997 original size:8 final size:8
Alignment explanation
Indices: 16057981--16058026 Score: 53
Period size: 7 Copynumber: 6.1 Consensus size: 8
16057971 CATCTTGGGA
*
16057981 TTGCTTTT
1 TTGCCTTT
16057989 TTGCC-TT
1 TTGCCTTT
*
16057996 TTGCTTTT
1 TTGCCTTT
16058004 TTGCC-TT
1 TTGCCTTT
16058011 TTG-CTTT
1 TTGCCTTT
16058018 TTGCCTTT
1 TTGCCTTT
16058026 T
1 T
16058027 GCTTTTCCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
6 1 0.03
7 16 0.50
8 15 0.47
ACGTcount: A:0.00, C:0.20, G:0.13, T:0.67
Consensus pattern (8 bp):
TTGCCTTT
Found at i:16057999 original size:7 final size:7
Alignment explanation
Indices: 16057987--16058032 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
16057977 GGGATTGCTT
16057987 TTTTGCC
1 TTTTGCC
*
16057994 TTTTGCTT
1 TTTTGC-C
16058002 TTTTGCC
1 TTTTGCC
*
16058009 TTTTGCT
1 TTTTGCC
16058016 TTTTGCC
1 TTTTGCC
16058023 TTTTG-C
1 TTTTGCC
16058029 TTTT
1 TTTT
16058033 CCCTCTTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
6 5 0.15
7 23 0.68
8 6 0.18
ACGTcount: A:0.00, C:0.20, G:0.13, T:0.67
Consensus pattern (7 bp):
TTTTGCC
Found at i:16058018 original size:14 final size:15
Alignment explanation
Indices: 16057981--16058032 Score: 97
Period size: 15 Copynumber: 3.5 Consensus size: 15
16057971 CATCTTGGGA
16057981 TTGCTTTTTTGCCTT
1 TTGCTTTTTTGCCTT
16057996 TTGCTTTTTTGCCTT
1 TTGCTTTTTTGCCTT
16058011 TTGC-TTTTTGCCTT
1 TTGCTTTTTTGCCTT
16058025 TTGCTTTT
1 TTGCTTTT
16058033 CCCTCTTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.39
15 22 0.61
ACGTcount: A:0.00, C:0.19, G:0.13, T:0.67
Consensus pattern (15 bp):
TTGCTTTTTTGCCTT
Found at i:16058100 original size:4 final size:4
Alignment explanation
Indices: 16058091--16058116 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
16058081 CCCCCCTTCT
16058091 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
16058117 CATTCACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:16061707 original size:40 final size:40
Alignment explanation
Indices: 16061614--16061740 Score: 102
Period size: 40 Copynumber: 3.2 Consensus size: 40
16061604 TTTGAACAAA
* * *
16061614 AAACGCCACTAGAGTTC-AGCATTAGCGGCGTTTCTAAAC
1 AAACGCCACAATAGATCGAGCATTAGCGGCGTTTCTAAAC
*
16061653 AAACGCCACAATAGATAG-GACATTAGCGGCGTTTTTCT-AA-
1 AAACGCCACAATAGATCGAG-CATTAGCGGCG--TTTCTAAAC
* * * *
16061693 AAGCGCCGCTATAGATCGAGCATTAGCGGTGCTTT-TATAAC
1 AAACGCCACAATAGATCGAGCATTAGCGGCG-TTTCTA-AAC
16061734 AAACGCC
1 AAACGCC
16061741 GCAAATGCTC
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
38 1 0.01
39 17 0.25
40 37 0.54
41 9 0.13
42 5 0.07
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (40 bp):
AAACGCCACAATAGATCGAGCATTAGCGGCGTTTCTAAAC
Found at i:16062430 original size:7 final size:7
Alignment explanation
Indices: 16062413--16062508 Score: 57
Period size: 7 Copynumber: 13.3 Consensus size: 7
16062403 AGGGATTAGT
16062413 GGTTAAAG
1 GGTT-AAG
16062421 GGTTAAG
1 GGTTAAG
*
16062428 GGTTATG
1 GGTTAAG
* *
16062435 GATTATG
1 GGTTAAG
16062442 GGTTTAAG
1 GG-TTAAG
*
16062450 GATTAAG
1 GGTTAAG
*
16062457 GGTTATG
1 GGTTAAG
*
16062464 GGTTACG
1 GGTTAAG
* * *
16062471 GATTTAT
1 GGTTAAG
16062478 GGTTAAAG
1 GGTT-AAG
* *
16062486 GGATAGG
1 GGTTAAG
*
16062493 GGTTAGG
1 GGTTAAG
16062500 GGTTAAG
1 GGTTAAG
16062507 GG
1 GG
16062509 CCGGTTTAAT
Statistics
Matches: 67, Mismatches: 19, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
7 54 0.81
8 13 0.19
ACGTcount: A:0.26, C:0.01, G:0.41, T:0.32
Consensus pattern (7 bp):
GGTTAAG
Found at i:16062438 original size:29 final size:29
Alignment explanation
Indices: 16062405--16062464 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
16062395 TAAAGTAAAG
*
16062405 GGATTA-GTGGTTAAAGGGTTAAGGGTTAT
1 GGATTATG-GGTTAAAGGATTAAGGGTTAT
*
16062434 GGATTATGGGTTTAAGGATTAAGGGTTAT
1 GGATTATGGGTTAAAGGATTAAGGGTTAT
16062463 GG
1 GG
16062465 GTTACGGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.38, T:0.35
Consensus pattern (29 bp):
GGATTATGGGTTAAAGGATTAAGGGTTAT
Found at i:16062449 original size:22 final size:22
Alignment explanation
Indices: 16062423--16062467 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16062413 GGTTAAAGGG
* *
16062423 TTAAGGGTTATGGATTATGGGT
1 TTAAGGATTAAGGATTATGGGT
*
16062445 TTAAGGATTAAGGGTTATGGGT
1 TTAAGGATTAAGGATTATGGGT
16062467 T
1 T
16062468 ACGGATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (22 bp):
TTAAGGATTAAGGATTATGGGT
Found at i:16062467 original size:36 final size:36
Alignment explanation
Indices: 16062418--16062504 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
16062408 TTAGTGGTTA
* *
16062418 AAGGGTTAAGGGTTATGGA-TTATGGGTTTAA-GGATT
1 AAGGGTTAAGGGTTACGGATTTAT-GGTTAAAGGGA-T
*
16062454 AAGGGTTATGGGTTACGGATTTATGGTTAAAGGGAT
1 AAGGGTTAAGGGTTACGGATTTATGGTTAAAGGGAT
* *
16062490 AGGGGTTAGGGGTTA
1 AAGGGTTAAGGGTTA
16062505 AGGGCCGGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
36 37 0.84
37 7 0.16
ACGTcount: A:0.26, C:0.01, G:0.39, T:0.33
Consensus pattern (36 bp):
AAGGGTTAAGGGTTACGGATTTATGGTTAAAGGGAT
Found at i:16062486 original size:29 final size:28
Alignment explanation
Indices: 16062421--16062497 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 28
16062411 GTGGTTAAAG
* * *
16062421 GGTTAAGGGTTATGGATTATGGGTTTAA
1 GGTTAAGGGTTATGGGTTACGGATTTAA
*
16062449 GGATTAAGGGTTATGGGTTACGGATTTAT
1 GG-TTAAGGGTTATGGGTTACGGATTTAA
* *
16062478 GGTTAAAGGGATAGGGGTTA
1 GGTT-AAGGGTTATGGGTTA
16062498 GGGGTTAAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.26, C:0.01, G:0.38, T:0.35
Consensus pattern (28 bp):
GGTTAAGGGTTATGGGTTACGGATTTAA
Found at i:16062555 original size:7 final size:7
Alignment explanation
Indices: 16062545--16062675 Score: 59
Period size: 7 Copynumber: 17.7 Consensus size: 7
16062535 ATGGGAAAGG
16062545 GGTTTAT
1 GGTTTAT
16062552 GGTTTAT
1 GGTTTAT
*
16062559 GAGTTAAT
1 G-GTTTAT
* *
16062567 GTTTTAA
1 GGTTTAT
*
16062574 GGTTTAG
1 GGTTTAT
16062581 GGATTT-T
1 GG-TTTAT
16062588 GGTTTAT
1 GGTTTAT
*
16062595 GGTTTAA
1 GGTTTAT
* *
16062602 GGGTT-G
1 GGTTTAT
*
16062608 GGCTTTAA
1 GG-TTTAT
*
16062616 GGTTTAGA
1 GGTTTA-T
*
16062624 GGTTAAT
1 GGTTTAT
16062631 GGTTATTCAT
1 GG-T-TT-AT
*
16062641 GGTTTAA
1 GGTTTAT
16062648 GGTTTCAT
1 GGTTT-AT
*
16062656 GGTTTAGG
1 GGTTTA-T
16062664 GGTTTAT
1 GGTTTAT
16062671 GGTTT
1 GGTTT
16062676 GGGGTTTAAA
Statistics
Matches: 94, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
6 5 0.05
7 51 0.54
8 32 0.34
9 2 0.02
10 4 0.04
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.47
Consensus pattern (7 bp):
GGTTTAT
Found at i:16062656 original size:15 final size:16
Alignment explanation
Indices: 16062636--16062675 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
16062626 TTAATGGTTA
16062636 TTCATGGTTTA-AGGT
1 TTCATGGTTTAGAGGT
*
16062651 TTCATGGTTTAGGGGT
1 TTCATGGTTTAGAGGT
16062667 TT-ATGGTTT
1 TTCATGGTTT
16062676 GGGGTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.15, C:0.05, G:0.30, T:0.50
Consensus pattern (16 bp):
TTCATGGTTTAGAGGT
Found at i:16074608 original size:12 final size:12
Alignment explanation
Indices: 16074593--16074624 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
16074583 TCATCATCAC
16074593 CATCATCATTGT
1 CATCATCATTGT
16074605 CATCATCATTGT
1 CATCATCATTGT
16074617 CATCATCA
1 CATCATCA
16074625 CCATCGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.38
Consensus pattern (12 bp):
CATCATCATTGT
Found at i:16085157 original size:19 final size:20
Alignment explanation
Indices: 16085122--16085159 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16085112 TTTGGTTAGG
16085122 GACTAAATTGTAATAAATTA
1 GACTAAATTGTAATAAATTA
16085142 GACTAAATTG-AATAAATT
1 GACTAAATTGTAATAAATT
16085160 TCAAAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (20 bp):
GACTAAATTGTAATAAATTA
Found at i:16088612 original size:38 final size:40
Alignment explanation
Indices: 16088555--16088630 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
16088545 TAAATGTCAT
16088555 AAAAATTAAAAAAAATAAAA-T-ATTAT-AAAATATTGTA
1 AAAAATTAAAAAAAATAAAATTCATTATCAAAATATTGTA
*
16088592 AAAAATATAAAAAAATTAAAATTCATTATCAAAATATTG
1 AAAAAT-TAAAAAAAATAAAATTCATTATCAAAATATTG
16088631 ATAAGAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 6 0.18
38 13 0.38
39 1 0.03
40 5 0.15
41 9 0.26
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (40 bp):
AAAAATTAAAAAAAATAAAATTCATTATCAAAATATTGTA
Found at i:16092823 original size:23 final size:22
Alignment explanation
Indices: 16092804--16092866 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
16092794 TAAAAAATGC
16092804 TAATACAATTACATATAAAATTT
1 TAATACAATTACATATAAAA-TT
*
16092827 TAATA-AATATAAAT-TAAAAATT
1 TAATACAAT-TACATAT-AAAATT
16092849 TAAATACAATTACATATA
1 T-AATACAATTACATATA
16092867 TAGGATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 7 0.21
23 22 0.67
24 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATACAATTACATATAAAATT
Found at i:16093397 original size:7 final size:7
Alignment explanation
Indices: 16093323--16093397 Score: 53
Period size: 7 Copynumber: 10.7 Consensus size: 7
16093313 TATTATTTTT
*
16093323 CTAAACT
1 CTAAACC
*
16093330 CTAAATC
1 CTAAACC
*
16093337 CTTAACC
1 CTAAACC
*
16093344 CTTAACC
1 CTAAACC
*
16093351 CCAAACC
1 CTAAACC
*
16093358 CTTACACC
1 C-TAAACC
* *
16093366 TTAAACT
1 CTAAACC
16093373 CT-AACC
1 CTAAACC
*
16093379 CTAACCC
1 CTAAACC
16093386 CTAAACC
1 CTAAACC
16093393 CTAAA
1 CTAAA
16093398 TTATAATCCC
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
6 5 0.10
7 42 0.82
8 4 0.08
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:16093481 original size:21 final size:21
Alignment explanation
Indices: 16093457--16093541 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
16093447 ACTCATAAAC
*
16093457 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
16093478 CTTAAACCATAGTTAACTCAAAAAT
1 CTTAAACCATA---AAC-CATATAT
* *
16093503 CTTAAACCCTAAACTATATAT
1 CTTAAACCATAAACCATATAT
16093524 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
16093542 AACTATAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 30 0.59
22 3 0.06
24 3 0.06
25 15 0.29
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:16093493 original size:46 final size:46
Alignment explanation
Indices: 16093441--16093534 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
16093431 CTTCAAATAC
*
16093441 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
* *
16093487 TAGTTAACTCAAAAATCTTAAACCCTAAACTATATATCTTAAACCA
1 TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
16093533 TA
1 TA
16093535 AACCATAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:16093870 original size:12 final size:12
Alignment explanation
Indices: 16093855--16093880 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16093845 GTTTTTTGAT
16093855 AAAACGCCGCTA
1 AAAACGCCGCTA
16093867 AAAACGCCGCTA
1 AAAACGCCGCTA
16093879 AA
1 AA
16093881 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:16095140 original size:12 final size:11
Alignment explanation
Indices: 16095116--16095153 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
16095106 ATCGAATTTT
16095116 ATATTTTTTAA
1 ATATTTTTTAA
16095127 ATATTTTTTAA
1 ATATTTTTTAA
*
16095138 A-ATTTTATAA
1 ATATTTTTTAA
16095148 AT-TTTT
1 ATATTTT
16095154 AATAATCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 13 0.52
11 12 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATATTTTTTAA
Found at i:16113493 original size:40 final size:41
Alignment explanation
Indices: 16113416--16113495 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
16113406 ATTTTATTCA
* *
16113416 TTATTATAATATAACATATATATATACACATTTCATATTAT
1 TTATTATAATATAACACATATATATACACATTACATATTAT
*
16113457 TTATT-TATTATAACACATATATATACAACA-TACATATTA
1 TTATTATAATATAACACATATATATAC-ACATTACATATTA
16113496 ATGCCGTCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
40 27 0.77
41 8 0.23
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.44
Consensus pattern (41 bp):
TTATTATAATATAACACATATATATACACATTACATATTAT
Found at i:16114488 original size:17 final size:18
Alignment explanation
Indices: 16114466--16114499 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16114456 CACATTGAAG
16114466 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
16114483 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
16114500 CTTCCTCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:16126296 original size:152 final size:153
Alignment explanation
Indices: 16126019--16126314 Score: 522
Period size: 152 Copynumber: 1.9 Consensus size: 153
16126009 AATTATTTGT
* *
16126019 TTCTATGTAAATGATTTGTTAATTTTTGGGATGAACATGAAAGGTGTTCGTGAGACCAAAAAGTA
1 TTCTATGTAAATGATTTGTTAATTTTTGGGACGAACATGAAAGGTATTCGTGAGACCAAAAAGTA
*
16126084 TCTAGCCTCAAATTTTAAGATGAAGGATCTCAACGAGGTAGATAGAATTTTAGGTATAAAGGTGA
66 TCTAGCCTCAAATTTTAAGATGAAGGATCTCAACGAGGTAGATAGAATTCTAGGTATAAAGGTGA
*
16126149 AAAAGTAT-AAAGGTAGATAGAA
131 AAAAGCATGAAAGGTAGATAGAA
* *
16126171 TTCTATGTAGATGATTTGTTAATTTTTGGGACGAACATGAAAGGTATTCGTGAGACCAAAGAGTA
1 TTCTATGTAAATGATTTGTTAATTTTTGGGACGAACATGAAAGGTATTCGTGAGACCAAAAAGTA
*
16126236 TCTAGCCTCAAATTTTAAGATGAAGGATCTCAACGAGGTAGATAGAATTCTAGGTCTAAAGGTGA
66 TCTAGCCTCAAATTTTAAGATGAAGGATCTCAACGAGGTAGATAGAATTCTAGGTATAAAGGTGA
16126301 AAAAGCATGAAAGG
131 AAAAGCATGAAAGG
16126315 GAAATTGCAC
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
152 131 0.96
153 5 0.04
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (153 bp):
TTCTATGTAAATGATTTGTTAATTTTTGGGACGAACATGAAAGGTATTCGTGAGACCAAAAAGTA
TCTAGCCTCAAATTTTAAGATGAAGGATCTCAACGAGGTAGATAGAATTCTAGGTATAAAGGTGA
AAAAGCATGAAAGGTAGATAGAA
Found at i:16128022 original size:25 final size:25
Alignment explanation
Indices: 16127988--16128038 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
16127978 GTGTTAAAGA
16127988 TGATTTTACATGCCATGAAAAAATT
1 TGATTTTACATGCCATGAAAAAATT
*
16128013 TGATTTTACATGCCATGGAAAAATT
1 TGATTTTACATGCCATGAAAAAATT
16128038 T
1 T
16128039 ATTCTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (25 bp):
TGATTTTACATGCCATGAAAAAATT
Found at i:16128555 original size:18 final size:18
Alignment explanation
Indices: 16128519--16128555 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16128509 TGAGTTTTTG
* *
16128519 AATTCGAATAACTCGAAT
1 AATTCGAATAAATCAAAT
16128537 AATTCGAATAAATCAAAT
1 AATTCGAATAAATCAAAT
16128555 A
1 A
16128556 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:16131042 original size:21 final size:21
Alignment explanation
Indices: 16130983--16131043 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
16130973 GATTATATGA
* * *
16130983 ATTGGATTGAATATTGATTAT
1 ATTGAATTGATTATTGAATAT
16131004 ATTGAATTGATT-TATGAATAT
1 ATTGAATTGATTAT-TGAATAT
16131025 ATGTGAATTG-TTATTGAAT
1 AT-TGAATTGATTATTGAAT
16131044 TGAAATTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (21 bp):
ATTGAATTGATTATTGAATAT
Found at i:16131050 original size:6 final size:6
Alignment explanation
Indices: 16131037--16131076 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
16131027 GTGAATTGTT
16131037 ATTG-A ATTGAA ATTGAA ATTGAA ATTGAA A-TGTAA ATTGA
1 ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTG-AA ATTGA
16131077 TTGGAAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 6 0.19
6 24 0.75
7 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.35
Consensus pattern (6 bp):
ATTGAA
Found at i:16131261 original size:20 final size:20
Alignment explanation
Indices: 16131236--16131274 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16131226 ACAATAAATA
*
16131236 AATAAATAA-AAAATGAATTG
1 AATAAA-AATAAAATAAATTG
16131256 AATAAAAATAAAATAAATT
1 AATAAAAATAAAATAAATT
16131275 ATGAATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
AATAAAAATAAAATAAATTG
Found at i:16131915 original size:45 final size:45
Alignment explanation
Indices: 16131851--16131998 Score: 246
Period size: 45 Copynumber: 3.3 Consensus size: 45
16131841 CTGTTACCGC
*
16131851 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
16131896 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
* *
16131941 TACTGCTACTGTTATCGATTCGACAC--TGTGTGTCAAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
*
16131984 TACTGTTACTGTTAC
1 TACTGCTACTGTTAC
16131999 TGTTCCGGAT
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 30 0.31
45 68 0.69
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (45 bp):
TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGT
Found at i:16132189 original size:18 final size:18
Alignment explanation
Indices: 16132166--16132367 Score: 143
Period size: 18 Copynumber: 11.3 Consensus size: 18
16132156 AAAGGTATAA
* *
16132166 AATAATTGATTATTACTG
1 AATAATTGACTGTTACTG
16132184 AATAATTGACTGTTACCTG
1 AATAATTGACTGTTA-CTG
*
16132203 -ATAATTAACTGTTACT-
1 AATAATTGACTGTTACTG
16132219 AGAT-ATTAGACTGTTACTG
1 A-ATAATT-GACTGTTACTG
* * *
16132238 AATAACTGAATATTACTG
1 AATAATTGACTGTTACTG
*
16132256 AATAATTGA-TCATTACTG
1 AATAATTGACT-GTTACTG
* * *
16132274 AATAACTGATTGTCACTG
1 AATAATTGACTGTTACTG
*
16132292 AATGAA-TGACTG-CACTG
1 AAT-AATTGACTGTTACTG
*
16132309 AATAACTT-AATAGTTACTG
1 AATAA-TTGACT-GTTACTG
*
16132328 AAT-ATCTGA-TTTTACTG
1 AATAAT-TGACTGTTACTG
16132345 AATAATTGACTGTTACTG
1 AATAATTGACTGTTACTG
*
16132363 GATAA
1 AATAA
16132368 CCGATCAATT
Statistics
Matches: 150, Mismatches: 17, Indels: 34
0.75 0.08 0.17
Matches are distributed among these distances:
16 2 0.01
17 29 0.19
18 102 0.68
19 17 0.11
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (18 bp):
AATAATTGACTGTTACTG
Found at i:16132218 original size:36 final size:36
Alignment explanation
Indices: 16132166--16132447 Score: 136
Period size: 36 Copynumber: 7.6 Consensus size: 36
16132156 AAAGGTATAA
* *
16132166 AATAATTGATTATTACTGAATAATTGACTGTTACCTG
1 AATAACTGAATATTACTGAATAATTGACTGTTA-CTG
* *
16132203 -ATAA-TTAACTGTTACT-AGAT-ATTAGACTGTTACTG
1 AATAACTGAA-TATTACTGA-ATAATT-GACTGTTACTG
*
16132238 AATAACTGAATATTACTGAATAATTGA-TCATTACTG
1 AATAACTGAATATTACTGAATAATTGACT-GTTACTG
* * * *
16132274 AATAACTGATTGTCACTGAATGAA-TGACTG-CACTG
1 AATAACTGAATATTACTGAAT-AATTGACTGTTACTG
* *
16132309 AATAACTTAATAGTTACTGAAT-ATCTGA-TTTTACTG
1 AATAACTGAATA-TTACTGAATAAT-TGACTGTTACTG
* * * *
16132345 AATAATTGACTGTTACTGGATAACCGATCAATTGA-TCGATACTG
1 AATAACTGAATATTACT-G---A---AT-AATTGACT-GTTACTG
* * * *
16132389 AATAACT-AGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGA-ATATTACTGAATAATTGACTGTTACTG
* *
16132425 AATAACTGACTGTTACTGAATAA
1 AATAACTGAATATTACTGAATAA
16132448 ATAATTATTC
Statistics
Matches: 186, Mismatches: 32, Indels: 55
0.68 0.12 0.20
Matches are distributed among these distances:
34 1 0.01
35 29 0.16
36 114 0.61
37 14 0.08
39 1 0.01
40 1 0.01
42 2 0.01
43 6 0.03
44 18 0.10
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTGACTGTTACTG
Found at i:16132347 original size:53 final size:53
Alignment explanation
Indices: 16132252--16132356 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 53
16132242 ACTGAATATT
*
16132252 ACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAA-TGACTGC
1 ACTGAATAATTAATCATTACTGAATAACTGATTGTCACTGAAT-AATTGACTGC
* *
16132305 ACTGAATAACTTAAT-AGTTACTGAATATCTGATT-TTACTGAATAATTGACTG
1 ACTGAATAA-TTAATCA-TTACTGAATAACTGATTGTCACTGAATAATTGACTG
16132357 TTACTGGATA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
52 2 0.04
53 24 0.52
54 20 0.43
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.35
Consensus pattern (53 bp):
ACTGAATAATTAATCATTACTGAATAACTGATTGTCACTGAATAATTGACTGC
Found at i:16132368 original size:54 final size:54
Alignment explanation
Indices: 16132172--16132367 Score: 174
Period size: 54 Copynumber: 3.6 Consensus size: 54
16132162 ATAAAATAAT
16132172 TGATTATTACTGAATAATTGACTGTTACCTG-ATAATTAACT-GTTACT-AGATAT-
1 TGATTATTACTGAATAATTGACTGTTA-CTGAATAATTAA-TAGTTACTGA-ATATC
* * * * * * *
16132225 TAGACTGTTACTGAATAACTGAATATTACTGAATAATTGATCA-TTACTGAATAAC
1 T-GATTATTACTGAATAATTGACTGTTACTGAATAATTAAT-AGTTACTGAATATC
* * *
16132280 TGATTGTCACTGAATGAA-TGACTG-CACTGAATAACTTAATAGTTACTGAATATC
1 TGATTATTACTGAAT-AATTGACTGTTACTGAATAA-TTAATAGTTACTGAATATC
*
16132334 TGATT-TTACTGAATAATTGACTGTTACTGGATAA
1 TGATTATTACTGAATAATTGACTGTTACTGAATAA
16132368 CCGATCAATT
Statistics
Matches: 115, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
52 2 0.02
53 29 0.25
54 80 0.70
55 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (54 bp):
TGATTATTACTGAATAATTGACTGTTACTGAATAATTAATAGTTACTGAATATC
Found at i:16132427 original size:18 final size:18
Alignment explanation
Indices: 16132406--16132447 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16132396 AGTTATTATT
* *
16132406 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
*
16132424 GAATAACTGACTGTTACT
1 GAATAACTGACTGTTACC
16132442 GAATAA
1 GAATAA
16132448 ATAATTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:16144850 original size:14 final size:16
Alignment explanation
Indices: 16144816--16144850 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
16144806 GTGCAACATG
16144816 TTTTGAGAAATATGCT
1 TTTTGAGAAATATGCT
16144832 TTTTG-GAAATATG-T
1 TTTTGAGAAATATGCT
16144846 TTTTG
1 TTTTG
16144851 TAAGTGGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 8 0.42
16 5 0.26
ACGTcount: A:0.26, C:0.03, G:0.20, T:0.51
Consensus pattern (16 bp):
TTTTGAGAAATATGCT
Found at i:16146065 original size:48 final size:48
Alignment explanation
Indices: 16146000--16147250 Score: 2115
Period size: 48 Copynumber: 25.7 Consensus size: 48
16145990 GGTCATTCGG
* * *
16146000 CCACAATATACACATCTCCTACATATTTCACACTAGCCATTCGGCTTTA
1 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
16146049 CCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
16146097 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
16146145 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
16146193 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTCTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
16146243 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
16146291 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
16146339 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
16146389 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
16146437 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
16146485 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
16146535 CCACATATATACATTTCTCATACATATTTCATATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
16146585 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
16146633 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
16146681 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
16146731 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
16146779 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* *
16146829 CCACAAATATACATTTCTCATACATATTTCATATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
16146879 CCACGTATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
16146927 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
16146975 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
16147025 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
16147073 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTA
1 CCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* * *
16147123 CCACATATACATATCTCATATATATTTCACAGTAGCCATTCGGCTTTG
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
* * * *
16147171 CCACATATACATATCTCATATATTTTTCACAGTAGCCATTCGGCTTTG
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
16147219 CCACATATACATATCTCATACATATTTCACAT
1 CCACATATACATATCTCATACATATTTCACAT
16147251 ATCTCATACA
Statistics
Matches: 1153, Mismatches: 35, Indels: 29
0.95 0.03 0.02
Matches are distributed among these distances:
48 724 0.63
49 4 0.00
50 425 0.37
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:16146245 original size:146 final size:147
Alignment explanation
Indices: 16146000--16147250 Score: 2166
Period size: 146 Copynumber: 8.6 Consensus size: 147
16145990 GGTCATTCGG
* * * *
16146000 CCACAATATACACATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCAC--ATATACATAT
1 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTT
*
16146063 CTCATACACATTTCACATTAGCCATTCGGCTTTACCAC-ATATACATATCTCATACATATTTCAC
65 CTCATACATATTTCACATTAGCCATTCGGCTTTACCACAATATACATATCTCATACATATTTCAC
16146127 ATTAGCCATTCGGCTTTA
130 ATTAGCCATTCGGCTTTA
16146145 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
*
16146210 TCATACATATTTCACATTAGCCATTCGGCTCTACCAC-ATATACATATCTCATACATATTTCACA
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACAATATACATATCTCATACATATTTCACA
16146274 TTAGCCATTCGGCTTTA
131 TTAGCCATTCGGCTTTA
16146291 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
16146356 TCATACATATTTCACATTAGCCATTCGGCTTTACCAC-ATATACATATCTCATACATATTTCACA
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACAATATACATATCTCATACATATTTCACA
16146420 TTAGCCATTCGGCTTTA
131 TTAGCCATTCGGCTTTA
16146437 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
* *
16146502 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCAT
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACA-ATATACATATCTCATACATATTTCAC
16146567 ATTAGCCATTCGGCTTTA
130 ATTAGCCATTCGGCTTTA
*
16146585 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATATC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
*
16146648 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCAC
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACA-ATATACATATCTCATACATATTTCAC
16146713 ATTAGCCATTCGGCTTTA
130 ATTAGCCATTCGGCTTTA
16146731 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
* *
16146796 TCATACATATTTCACATTAGCCATTCGGCTTTACCACAAATATACATTTCTCATACATATTTCAT
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCAC-AATATACATATCTCATACATATTTCAC
16146861 ATTAGCCATTCGGCTTTA
130 ATTAGCCATTCGGCTTTA
* *
16146879 CCACGTATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATATC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
*
16146942 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCAC
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACA-ATATACATATCTCATACATATTTCAC
16147007 ATTAGCCATTCGGCTTTA
130 ATTAGCCATTCGGCTTTA
16147025 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
*
16147090 TCATACATATTTCACATTAGCCATTCGGCTTTACCAC-ATATACATATCTCATATATATTTCACA
66 TCATACATATTTCACATTAGCCATTCGGCTTTACCACAATATACATATCTCATACATATTTCACA
* *
16147154 GTAGCCATTCGGCTTTG
131 TTAGCCATTCGGCTTTA
* * * * *
16147171 CCACATATACATATCTCATATATTTTTCACAGTAGCCATTCGGCTTTGCCAC--ATATACATATC
1 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
16147234 TCATACATATTTCACAT
66 TCATACATATTTCACAT
16147251 ATCTCATACA
Statistics
Matches: 1069, Mismatches: 27, Indels: 21
0.96 0.02 0.02
Matches are distributed among these distances:
144 72 0.07
145 5 0.00
146 709 0.66
148 282 0.26
149 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (147 bp):
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTC
TCATACATATTTCACATTAGCCATTCGGCTTTACCACAATATACATATCTCATACATATTTCACA
TTAGCCATTCGGCTTTA
Found at i:16146262 original size:98 final size:97
Alignment explanation
Indices: 16146000--16147250 Score: 2136
Period size: 98 Copynumber: 12.8 Consensus size: 97
16145990 GGTCATTCGG
* * *
16146000 CCACAATATACACATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
1 CCACAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
*
16146065 CATACACATTTCACATTAGCCATTCGGCTTTA
66 CATACATATTTCACATTAGCCATTCGGCTTTA
16146097 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 CCACAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
16146161 CATACATATTTCACATTAGCCATTCGGCTTTA
66 CATACATATTTCACATTAGCCATTCGGCTTTA
* *
16146193 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTCTACCACATATACATATC
1 CCACA-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
16146258 TCATACATATTTCACATTAGCCATTCGGCTTTA
65 TCATACATATTTCACATTAGCCATTCGGCTTTA
*
16146291 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTT
1 CCACAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATAT
16146355 CTCATACATATTTCACATTAGCCATTCGGCTTTA
64 CTCATACATATTTCACATTAGCCATTCGGCTTTA
16146389 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 CCACAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
16146453 CATACATATTTCACATTAGCCATTCGGCTTTA
66 CATACATATTTCACATTAGCCATTCGGCTTTA
* *
16146485 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATT
1 CCACA-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATA
*
16146550 TCTCATACATATTTCATATTAGCCATTCGGCTTTA
63 TCTCATACATATTTCACATTAGCCATTCGGCTTTA
16146585 CCAC-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 CCACAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
16146649 CATACATATTTCACATTAGCCATTCGGCTTTA
66 CATACATATTTCACATTAGCCATTCGGCTTTA
*
16146681 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
1 CCACA-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
16146746 TCATACATATTTCACATTAGCCATTCGGCTTTA
65 TCATACATATTTCACATTAGCCATTCGGCTTTA
* *
16146779 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACAAATATACATT
1 CCACA-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATA
*
16146844 TCTCATACATATTTCATATTAGCCATTCGGCTTTA
63 TCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
16146879 CCAC-GTATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 CCACAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
16146943 CATACATATTTCACATTAGCCATTCGGCTTTA
66 CATACATATTTCACATTAGCCATTCGGCTTTA
*
16146975 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
1 CCACA-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
16147040 TCATACATATTTCACATTAGCCATTCGGCTTTA
65 TCATACATATTTCACATTAGCCATTCGGCTTTA
*
16147073 CCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
1 CCACA-ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
* * *
16147138 TCATATATATTTCACAGTAGCCATTCGGCTTTG
65 TCATACATATTTCACATTAGCCATTCGGCTTTA
* * * *
16147171 CCAC-ATATACATATCTCATATATTTTTCACAGTAGCCATTCGGCTTTGCCACATATACATATCT
1 CCACAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
16147235 CATACATATTTCACAT
66 CATACATATTTCACAT
16147251 ATCTCATACA
Statistics
Matches: 1105, Mismatches: 35, Indels: 29
0.95 0.03 0.02
Matches are distributed among these distances:
96 346 0.31
97 4 0.00
98 663 0.60
100 92 0.08
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (97 bp):
CCACAATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
CATACATATTTCACATTAGCCATTCGGCTTTA
Found at i:16147241 original size:11 final size:11
Alignment explanation
Indices: 16147225--16147263 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
16147215 TTTGCCACAT
16147225 ATACATATCTC
1 ATACATATCTC
*
16147236 ATACATATTTC
1 ATACATATCTC
16147247 --ACATATCTC
1 ATACATATCTC
16147256 ATACATAT
1 ATACATAT
16147264 TTCACATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (11 bp):
ATACATATCTC
Found at i:16147252 original size:20 final size:20
Alignment explanation
Indices: 16147227--16147270 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
16147217 TGCCACATAT
16147227 ACATATCTCATACATATTTC
1 ACATATCTCATACATATTTC
16147247 ACATATCTCATACATATTTC
1 ACATATCTCATACATATTTC
16147267 ACAT
1 ACAT
16147271 TAGCCATTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (20 bp):
ACATATCTCATACATATTTC
Found at i:16147294 original size:68 final size:68
Alignment explanation
Indices: 16147179--16147313 Score: 207
Period size: 68 Copynumber: 2.0 Consensus size: 68
16147169 TGCCACATAT
* * *
16147179 ACATATCTCATATATTTTTCACAGTAGCCATTCGGCTTTGCCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
16147244 TTC
66 TTC
* * * *
16147247 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTATCGCATATACATATCTCATATATAT
1 ACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
16147312 TT
66 TT
16147314 ATCTTGTACA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (68 bp):
ACATATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
TTC
Found at i:16149403 original size:11 final size:11
Alignment explanation
Indices: 16149387--16149411 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16149377 CATTTTAGTT
16149387 TTATTGAAATA
1 TTATTGAAATA
16149398 TTATTGAAATA
1 TTATTGAAATA
16149409 TTA
1 TTA
16149412 AAAAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
TTATTGAAATA
Found at i:16149622 original size:17 final size:17
Alignment explanation
Indices: 16149600--16149635 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
16149590 AAATAGATGG
16149600 AAAAATTAAAGTTTTCT
1 AAAAATTAAAGTTTTCT
16149617 AAAAATTAAAGTTTTCT
1 AAAAATTAAAGTTTTCT
16149634 AA
1 AA
16149636 CTTTGTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAAAATTAAAGTTTTCT
Found at i:16153971 original size:51 final size:48
Alignment explanation
Indices: 16153893--16153992 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 48
16153883 ACGTCGATAT
16153893 ACATTATGCTTGGAACTAATGACCAATTTTGGTTGTTGTTTATGTAATTTA
1 ACATTATGCTTGGAACTAATGACCAATTTT-G--GTTGTTTATGTAATTTA
* *
16153944 ACATTATGCTTGGAATTAATGATCAATTTTGGTTGTTTATGTAATTTA
1 ACATTATGCTTGGAACTAATGACCAATTTTGGTTGTTTATGTAATTTA
16153992 A
1 A
16153993 TTTAGCTTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
48 18 0.38
50 1 0.02
51 28 0.60
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (48 bp):
ACATTATGCTTGGAACTAATGACCAATTTTGGTTGTTTATGTAATTTA
Found at i:16161346 original size:4 final size:4
Alignment explanation
Indices: 16161337--16161361 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
16161327 TGCTTTGCTT
16161337 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
16161362 AAAACAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:16169391 original size:24 final size:24
Alignment explanation
Indices: 16169349--16169412 Score: 94
Period size: 24 Copynumber: 2.6 Consensus size: 24
16169339 AGTTGAGATT
*
16169349 TAACACCAAAAATTAAACAATGAAG
1 TAACACCAAAAA-TAAACAATGAAA
16169374 TAACACCAAAAA-ACAACAATGAAA
1 TAACACCAAAAATA-AACAATGAAA
16169398 TAACACCAAAAATAA
1 TAACACCAAAAATAA
16169413 CCTAGAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
23 1 0.03
24 22 0.61
25 13 0.36
ACGTcount: A:0.64, C:0.19, G:0.05, T:0.12
Consensus pattern (24 bp):
TAACACCAAAAATAAACAATGAAA
Found at i:16171158 original size:21 final size:21
Alignment explanation
Indices: 16171133--16171172 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16171123 AGAAAGTTAA
*
16171133 GAAAATGTAAGAAATCAAGGT
1 GAAAAGGTAAGAAATCAAGGT
16171154 GAAAAGGTAAGAAATCAAG
1 GAAAAGGTAAGAAATCAAG
16171173 AGTTCTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.25, T:0.15
Consensus pattern (21 bp):
GAAAAGGTAAGAAATCAAGGT
Found at i:16180597 original size:27 final size:27
Alignment explanation
Indices: 16180556--16180609 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
16180546 ACAATTTCCA
*
16180556 TAGTTCCCTCTTCTGTGGACATAACAT
1 TAGTTCCCTCATCTGTGGACATAACAT
16180583 TAGTTCCCTCATCTGTGGACATAACAT
1 TAGTTCCCTCATCTGTGGACATAACAT
16180610 CCAAATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (27 bp):
TAGTTCCCTCATCTGTGGACATAACAT
Found at i:16181174 original size:14 final size:15
Alignment explanation
Indices: 16181150--16181183 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16181140 AGCTGACGAT
16181150 AAAAATGAAAAAGAA
1 AAAAATGAAAAAGAA
*
16181165 AAAAAT-AAAAATAA
1 AAAAATGAAAAAGAA
16181179 AAAAA
1 AAAAA
16181184 ATTAGGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAAATGAAAAAGAA
Found at i:16191407 original size:24 final size:24
Alignment explanation
Indices: 16191380--16191433 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
16191370 ATAAGTTAGG
16191380 TAATACAATCATTATAATAGAACA
1 TAATACAATCATTATAATAGAACA
*
16191404 TAATACAATCATTATAATATAACA
1 TAATACAATCATTATAATAGAACA
16191428 TAATAC
1 TAATAC
16191434 TTACAGGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.31
Consensus pattern (24 bp):
TAATACAATCATTATAATAGAACA
Found at i:16194657 original size:13 final size:14
Alignment explanation
Indices: 16194636--16194668 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16194626 CTCAAAAAGA
16194636 AAAACTAAAATTT-T
1 AAAA-TAAAATTTCT
16194650 AAAATAAAATTTCT
1 AAAATAAAATTTCT
16194664 AAAAT
1 AAAAT
16194669 CTAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATAAAATTTCT
Found at i:16196707 original size:21 final size:21
Alignment explanation
Indices: 16196678--16196730 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
16196668 GTTCGCTTCT
*
16196678 CCCATGCCCGTATGCTAAAGC
1 CCCACGCCCGTATGCTAAAGC
* * *
16196699 CCCACGCCCATGTGTTAAAGC
1 CCCACGCCCGTATGCTAAAGC
*
16196720 CTCACGCCCGT
1 CCCACGCCCGT
16196731 GTTAATTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.42, G:0.19, T:0.19
Consensus pattern (21 bp):
CCCACGCCCGTATGCTAAAGC
Found at i:16196734 original size:19 final size:20
Alignment explanation
Indices: 16196693--16196735 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
16196683 GCCCGTATGC
16196693 TAAAGCCCCACGCCCATGTGT
1 TAAAGCCCCACGCCCA-GTGT
*
16196714 TAAAGCCTCACGCCC-GTGT
1 TAAAGCCCCACGCCCAGTGT
16196733 TAA
1 TAA
16196736 TTAAACAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
21 14 0.67
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.21
Consensus pattern (20 bp):
TAAAGCCCCACGCCCAGTGT
Found at i:16202898 original size:3 final size:3
Alignment explanation
Indices: 16202885--16202915 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
16202875 TACTTATAAT
*
16202885 TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
16202916 AATTTACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:16208237 original size:35 final size:35
Alignment explanation
Indices: 16208166--16208277 Score: 127
Period size: 35 Copynumber: 3.2 Consensus size: 35
16208156 AGATAACTTT
* * *
16208166 ACATATAACCGAGTATACAAGTTCAATATAAGCTC
1 ACATGTAACCGAATATACAAATTCAATATAAGCTC
* *
16208201 ACATGTAATCGAATACTA-AAATTCAATATAACCTC
1 ACATGTAACCGAATA-TACAAATTCAATATAAGCTC
* * * *
16208236 ACATGCAGCCGAATATACAAGTTCAATATAAGCTT
1 ACATGTAACCGAATATACAAATTCAATATAAGCTC
16208271 ACATGTA
1 ACATGTA
16208278 CTTACCTATA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
34 2 0.03
35 59 0.94
36 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.27
Consensus pattern (35 bp):
ACATGTAACCGAATATACAAATTCAATATAAGCTC
Found at i:16210022 original size:13 final size:13
Alignment explanation
Indices: 16210004--16210028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16209994 CCGAAACTAG
16210004 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
16210017 AAAGAAAAAAAA
1 AAAGAAAAAAAA
16210029 TGCTCATCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:16211190 original size:40 final size:39
Alignment explanation
Indices: 16211106--16211329 Score: 208
Period size: 40 Copynumber: 5.6 Consensus size: 39
16211096 TTGAATGCTG
*
16211106 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACAAAT
* *
16211145 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACAAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACAAAT
* * *
16211186 TCCGGGTTAAGCCCGAAGGAATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACAAAT
* *
16211225 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTATTAAA-
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATA-CAAAT
* **
16211264 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGACTTACTATAA-
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATAC-A-AAT
*
16211305 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
16211330 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 66 0.42
40 77 0.49
41 14 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACAAAT
Found at i:16211210 original size:39 final size:39
Alignment explanation
Indices: 16211159--16211294 Score: 202
Period size: 39 Copynumber: 3.5 Consensus size: 39
16211149 GGACTAAGAT
16211159 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGC
* * *
16211198 CCGAAGGAATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGC
* *
16211237 CCGAAGGCATTTGTGCGAGTTATTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAG-C
16211277 CCGAAGGCATTTGTGCGA
1 CCGAAGGCATTTGTGCGA
16211295 CTTACTATAA
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 66 0.76
40 21 0.24
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGC
Found at i:16211294 original size:79 final size:80
Alignment explanation
Indices: 16211106--16211329 Score: 255
Period size: 79 Copynumber: 2.8 Consensus size: 80
16211096 TTGAATGCTG
* * * *
16211106 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-T-ACTAATATCCGGGCTAAGACCCGAAGGCAT
16211169 TTGTGCGAGATACAAAT
64 TTGTGCGAGATACAAAT
*
16211186 TCCGGGTTAAG-CCCGAAGGAATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATACTAATATCCGGGCTAAGACCCGAAGGCATT
* *
16211248 TGTGCGAGTTATTAAA-
65 TGTGCGAGATA-CAAAT
* * * *
16211264 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGACTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATACTAATATCCGGGCTAAGACCCGAAGGCATT
16211328 TG
65 TG
16211330 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
78 34 0.27
79 54 0.43
80 36 0.29
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATACTAATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACAAAT
Found at i:16211351 original size:79 final size:79
Alignment explanation
Indices: 16211106--16211362 Score: 199
Period size: 79 Copynumber: 3.3 Consensus size: 79
16211096 TTGAATGCTG
* * * * *
16211106 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGAATTTGTGCGACA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
**
16211168 TTTGTGCGAGAT-AC-AAA
62 TTTGAACGAG-TGACTAAA
* *
16211185 TTCCGGGTTAAG-CCCGAAGGAATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTT
1 -TCCGGGTTAAGTCCCGAAGGAATTTGTGCGACATACTAATACCGGGCTAAGCCCGAAGGCATTT
** * *
16211249 GTGCGAGTTATTAAA
65 GAACGAGTGACTAAA
* * *
16211264 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGACTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGAATTTGTGCGACATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
16211328 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
16211344 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
16211363 TACGTGATTT
Statistics
Matches: 149, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
77 1 0.01
78 33 0.22
79 68 0.46
80 46 0.31
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGAATTTGTGCGACATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:16219153 original size:35 final size:35
Alignment explanation
Indices: 16219082--16219193 Score: 127
Period size: 35 Copynumber: 3.2 Consensus size: 35
16219072 AGATAACTTT
* * *
16219082 ACATATAACCGAGTATACAAGTTCAATATAAGCTC
1 ACATGTAACCGAATATACAAATTCAATATAAGCTC
* *
16219117 ACATGTAATCGAATACTA-AAATTCAATATAACCTC
1 ACATGTAACCGAATA-TACAAATTCAATATAAGCTC
* * * *
16219152 ACATGCAGCCGAATATACAAGTTCAATATAAGCTT
1 ACATGTAACCGAATATACAAATTCAATATAAGCTC
16219187 ACATGTA
1 ACATGTA
16219194 CTTACCTATG
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
34 2 0.03
35 59 0.94
36 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.27
Consensus pattern (35 bp):
ACATGTAACCGAATATACAAATTCAATATAAGCTC
Found at i:16224390 original size:3 final size:3
Alignment explanation
Indices: 16224384--16224418 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
16224374 CTTATTATTT
*
16224384 ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
16224419 TATTATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16226051 original size:13 final size:13
Alignment explanation
Indices: 16226028--16226062 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
16226018 CATAGTTTGG
16226028 TATGAATTTATATA
1 TATG-ATTTATATA
*
16226042 TATGATTTATATG
1 TATGATTTATATA
16226055 TATGATTT
1 TATGATTT
16226063 TCTAATTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (13 bp):
TATGATTTATATA
Found at i:16227431 original size:17 final size:17
Alignment explanation
Indices: 16227401--16227433 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16227391 AACGAAACAA
16227401 AAGAAGAAAAAAAAAGG
1 AAGAAGAAAAAAAAAGG
16227418 AAGAA-AAAAGAAAAAG
1 AAGAAGAAAA-AAAAAG
16227434 AGTGAGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAAAAAGG
Found at i:16249115 original size:41 final size:41
Alignment explanation
Indices: 16249070--16249277 Score: 213
Period size: 41 Copynumber: 5.1 Consensus size: 41
16249060 ACAAAAGTGC
*
16249070 ATTCAGGGGTACTGAAGTACAAACAAGGGGACGTATGTGTA
1 ATTCAGGGGTACCGAAGTACAAACAAGGGGACGTATGTGTA
* *
16249111 ATTCAGGGGTACCGAAGTACTAAC-AGGGGAACGTATGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAAGGGG-ACGTATGTGTA
* ** * * * *
16249152 ATTCAGGGGAACTAAAGTACAAACATGAGTAAGTATGTGTA
1 ATTCAGGGGTACCGAAGTACAAACAAGGGGACGTATGTGTA
* * * *
16249193 ATTCAGGGGAACCGAAGTACAAA-TAGGGGCACATATGTGCA
1 ATTCAGGGGTACCGAAGTACAAACAAGGGG-ACGTATGTGTA
* * * * *
16249234 ATTTAGGGTTACCGAAATATAAACAAGGGCACGTATGTGTA
1 ATTCAGGGGTACCGAAGTACAAACAAGGGGACGTATGTGTA
16249275 ATT
1 ATT
16249278 TAGAGATATT
Statistics
Matches: 133, Mismatches: 30, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
40 7 0.05
41 120 0.90
42 6 0.05
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (41 bp):
ATTCAGGGGTACCGAAGTACAAACAAGGGGACGTATGTGTA
Found at i:16249207 original size:82 final size:82
Alignment explanation
Indices: 16249066--16249241 Score: 237
Period size: 82 Copynumber: 2.2 Consensus size: 82
16249056 TGGTACAAAA
* * * * *
16249066 GTGC-ATTCAGGGGTACTGAAGTACAAACAAGGGGACGTATGTGTAATTCAGGGGTACCGAAGTA
1 GTGCAATTCAGGGGAACTAAAGTACAAACAAGAGGAAGTATGTGTAATTCAGGGGAACCGAAGTA
* *
16249130 CTAACAGGGGAACGTAT
66 CAAACAGGGGAACATAT
* *
16249147 GTGCAATTCAGGGGAACTAAAGTACAAACATGAGTAAGTATGTGTAATTCAGGGGAACCGAAGTA
1 GTGCAATTCAGGGGAACTAAAGTACAAACAAGAGGAAGTATGTGTAATTCAGGGGAACCGAAGTA
* *
16249212 CAAATAGGGGCACATAT
66 CAAACAGGGGAACATAT
*
16249229 GTGCAATTTAGGG
1 GTGCAATTCAGGG
16249242 TTACCGAAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 4 0.05
82 78 0.95
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.22
Consensus pattern (82 bp):
GTGCAATTCAGGGGAACTAAAGTACAAACAAGAGGAAGTATGTGTAATTCAGGGGAACCGAAGTA
CAAACAGGGGAACATAT
Found at i:16251734 original size:43 final size:43
Alignment explanation
Indices: 16251673--16251758 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
16251663 TAGGATACCG
* *
16251673 TTAGGTGTCAGGCATGTGTCTGACTTAAAGAAAAATCTCATCT
1 TTAGGTGTCAGACATGTGTCTAACTTAAAGAAAAATCTCATCT
16251716 TTAGGTGTCAGACATGTGTCTAACTTAAAGAAAAATCTCATCT
1 TTAGGTGTCAGACATGTGTCTAACTTAAAGAAAAATCTCATCT
16251759 CCTTGAGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (43 bp):
TTAGGTGTCAGACATGTGTCTAACTTAAAGAAAAATCTCATCT
Found at i:16255871 original size:26 final size:26
Alignment explanation
Indices: 16255811--16255871 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
16255801 AAATTTCACA
16255811 TTTTA-TACTATTTATATTATTAAAT
1 TTTTATTACTATTTATATTATTAAAT
16255836 TGTTTAATTA-TATTTA-ATTATTATAAGT
1 T-TTT-ATTACTATTTATATTATTA-AA-T
16255864 TTTTATTA
1 TTTTATTA
16255872 AAATTAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
25 1 0.03
26 14 0.45
27 12 0.39
28 4 0.13
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (26 bp):
TTTTATTACTATTTATATTATTAAAT
Found at i:16256398 original size:21 final size:20
Alignment explanation
Indices: 16256373--16256419 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
16256363 TTTATATAAA
* *
16256373 ATAAATTCTTTTTAAAAAATT
1 ATAAATTCTGTAT-AAAAATT
16256394 ATAAAATTCTGTATAAAAATT
1 AT-AAATTCTGTATAAAAATT
16256415 ATAAA
1 ATAAA
16256420 AATTCTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 11 0.48
22 9 0.39
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (20 bp):
ATAAATTCTGTATAAAAATT
Found at i:16256430 original size:10 final size:9
Alignment explanation
Indices: 16256405--16256450 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
16256395 TAAAATTCTG
16256405 TATAAAAAT
1 TATAAAAAT
16256414 TATAAAAAT
1 TATAAAAAT
*
16256423 TCTAAAAAT
1 TATAAAAAT
*
16256432 ACATAGAAAAT
1 -TATA-AAAAT
16256443 TATAAAAA
1 TATAAAAA
16256451 AATTAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 21 0.68
10 5 0.16
11 5 0.16
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.28
Consensus pattern (9 bp):
TATAAAAAT
Found at i:16256466 original size:29 final size:29
Alignment explanation
Indices: 16256409--16256467 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
16256399 ATTCTGTATA
* *
16256409 AAAATTATAAAAATTCTAAAAATACATAG
1 AAAATTATAAAAAATCTAAAAATAAATAG
16256438 AAAATTATAAAAAAAT-TAAATAA-AAATAG
1 AAAATTAT-AAAAAATCTAAA-AATAAATAG
16256467 A
1 A
16256468 TAAAGTGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (29 bp):
AAAATTATAAAAAATCTAAAAATAAATAG
Found at i:16258538 original size:43 final size:43
Alignment explanation
Indices: 16258491--16258645 Score: 136
Period size: 43 Copynumber: 3.6 Consensus size: 43
16258481 ATCGAGATGT
16258491 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * * * *
16258534 GATTATATGTGAGACCATGTCTAGGACATTGGCATCAT-TAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATTGA
* * * * * *
16258577 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
* * *
16258620 GATAACATGTAAGAGCATATCTGGGA
1 GATTACATGTAAGACCATGTCTGGGA
16258646 TATGACATTG
Statistics
Matches: 86, Mismatches: 21, Indels: 10
0.74 0.18 0.09
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 80 0.93
44 3 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:16261168 original size:46 final size:45
Alignment explanation
Indices: 16261110--16261284 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 45
16261100 TCACTTGTTT
* * *
16261110 GAGCTAGTGTAAGACATCTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTAAGA
16261156 GAGCCAGTGTAAGACGATGTCTGGGACATGGCATCGG--CATTAAGA
1 GAGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCCATTAAGA
* * **
16261201 CGAGTGCTAGTGTAA-AAATGTCTGGGACATGCATCGG-CC-TCGAGA
1 -GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAAGA
16261246 CGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 -G--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
16261285 TAAGAGTTGT
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
45 29 0.26
46 51 0.46
47 14 0.13
48 16 0.15
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAAGA
Found at i:16264763 original size:28 final size:28
Alignment explanation
Indices: 16264723--16264776 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
16264713 ACCTATAAGA
* *
16264723 AATTTGGTATAAGTAATTTTCATTGAAC
1 AATTTGGTATAAGCAAATTTCATTGAAC
16264751 AATTTGGTATAAGCAAATTTCATTGA
1 AATTTGGTATAAGCAAATTTCATTGA
16264777 CTCTTAGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (28 bp):
AATTTGGTATAAGCAAATTTCATTGAAC
Found at i:16265885 original size:71 final size:70
Alignment explanation
Indices: 16265770--16265909 Score: 253
Period size: 71 Copynumber: 2.0 Consensus size: 70
16265760 CGAAAAAAAT
16265770 ATGATAGTGAGAATTTTTCCTTGAATCTATTGAATTAGAAGAGATAGAAACGTCATGTTCTCCTA
1 ATGATAGTGAGAATTTTTCCTTGAATCTATTGAATTAGAAGAGATAGAAACGTCATGTTCTCCTA
16265835 TTGAA
66 TTGAA
* *
16265840 ATGATAGTGAGAATTTTTTCCTTGAATCTATTGAGTTAGAAGAGATAGAAATGTCATGTTCTCCT
1 ATGATAGTGAGAA-TTTTTCCTTGAATCTATTGAATTAGAAGAGATAGAAACGTCATGTTCTCCT
16265905 ATTGA
65 ATTGA
16265910 GATGTATTGA
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 13 0.19
71 54 0.81
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (70 bp):
ATGATAGTGAGAATTTTTCCTTGAATCTATTGAATTAGAAGAGATAGAAACGTCATGTTCTCCTA
TTGAA
Found at i:16269839 original size:50 final size:50
Alignment explanation
Indices: 16269631--16270069 Score: 556
Period size: 50 Copynumber: 8.9 Consensus size: 50
16269621 ACGGTAAGGT
* * * *
16269631 GCCGATGCCATGTCCCGGACATGGTCTTACACT-G-GCTCATA-CATCAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-TCGAG
* * * * * *
16269679 GCCAATGCCATGTCCTAGACATGGTCTTACACTGGCTTTCATCTATC-AG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * * *
16269728 TGCCGATG-CATGTCCCAGACATAGTCTTACACT-G-ACACATA-C-C-AA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
*
16269773 GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
*
16269823 GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* *
16269873 GCCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATATCTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* *
16269923 GCCGATGCCATGTCCCAGACATTGTCTTACACTAGCTCTTATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * *
16269973 GCCGATTCTATGTCCTAGACATGGTCTTACACTAGCTCTCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * *
16270023 GCCGATTCTATATCCCAGACATGGTCTTACACTAGCTCTCATATCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
16270070 TCTAGCATCA
Statistics
Matches: 347, Mismatches: 34, Indels: 18
0.87 0.09 0.05
Matches are distributed among these distances:
44 7 0.02
45 25 0.07
46 1 0.00
47 8 0.02
48 32 0.09
49 26 0.07
50 248 0.71
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
Found at i:16271004 original size:26 final size:25
Alignment explanation
Indices: 16270968--16271019 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 25
16270958 TGCCTGAATG
16270968 TTTGGGCTCTCAAAACCCTCATCTTT
1 TTTGGGCTCTCAAAACCCTCAT-TTT
16270994 TTTGGGCTCTCAAAACCCTCATTTT
1 TTTGGGCTCTCAAAACCCTCATTTT
16271019 T
1 T
16271020 GCCGCCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (25 bp):
TTTGGGCTCTCAAAACCCTCATTTT
Found at i:16275668 original size:25 final size:25
Alignment explanation
Indices: 16275640--16275688 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
16275630 TCCAGGGACC
* *
16275640 AATCATATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* *
16275665 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
16275689 AATAATAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:16284076 original size:45 final size:45
Alignment explanation
Indices: 16284014--16284101 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
16284004 CTTAACGATC
* * * *
16284014 ATATAAATTTCTTTTTTAATTAGTTTCTAACCTTTGCCTCTCATA
1 ATATAAATGTCTCTTTTAATTAGATTCTAACATTTGCCTCTCATA
* *
16284059 ATATAAATGTCTCTTTTACTTAGATTCTAACATTTGTCTCTCA
1 ATATAAATGTCTCTTTTAATTAGATTCTAACATTTGCCTCTCA
16284102 CAACATTGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.49
Consensus pattern (45 bp):
ATATAAATGTCTCTTTTAATTAGATTCTAACATTTGCCTCTCATA
Found at i:16284832 original size:22 final size:22
Alignment explanation
Indices: 16284793--16284834 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16284783 TTTCCAATTT
*
16284793 ATTTCAAGATACACATATAACC
1 ATTTCAAGATACAAATATAACC
* *
16284815 ATTTCAATATGCAAATATAA
1 ATTTCAAGATACAAATATAA
16284835 GCAATCCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.31
Consensus pattern (22 bp):
ATTTCAAGATACAAATATAACC
Found at i:16289070 original size:68 final size:69
Alignment explanation
Indices: 16288925--16289077 Score: 184
Period size: 68 Copynumber: 2.2 Consensus size: 69
16288915 AAGGAAATAT
* * *
16288925 AAGAACATGTTCTTCCCACTAATTTTAAGAAACAGAAAAATAGATCGTTCTCACCTTTTTAGAGA
1 AAGAGCATGTTCTTCCCACTAATTTTAAGAAACAGAAAAAGAGATCATTCTCACCTTTTTAGAGA
*
16288990 AATA
66 AACA
* * * * *
16288994 AAGAGCATGTTCTTCCCACTATTTTTAAGAAACA-CAATAGAGGTCATTCTC-CCTTGTTTGGAG
1 AAGAGCATGTTCTTCCCACTAATTTTAAGAAACAGAAAAAGAGATCATTCTCACCTT-TTTAGAG
16289057 AAACA
65 AAACA
* *
16289062 AGGAGCATGCTCTTCC
1 AAGAGCATGTTCTTCC
16289078 TTTTTTCTAG
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
67 4 0.06
68 36 0.50
69 32 0.44
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (69 bp):
AAGAGCATGTTCTTCCCACTAATTTTAAGAAACAGAAAAAGAGATCATTCTCACCTTTTTAGAGA
AACA
Found at i:16291788 original size:20 final size:20
Alignment explanation
Indices: 16291776--16292090 Score: 220
Period size: 20 Copynumber: 15.8 Consensus size: 20
16291766 AGTTCAAATT
*
16291776 AGAGTACCAAAGTACATACA
1 AGAGTACCAAAGTACAAACA
16291796 AGAGTACCAAAGTACAAACA
1 AGAGTACCAAAGTACAAACA
* * * * *
16291816 GGGGTACCGAAGTCCATACA
1 AGAGTACCAAAGTACAAACA
*
16291836 AGAGTACCAAAGTACAAATA
1 AGAGTACCAAAGTACAAACA
* * * *
16291856 GGGGTACCGAAGTACATACA
1 AGAGTACCAAAGTACAAACA
* *
16291876 AGAGTACCGAAGTACATACA
1 AGAGTACCAAAGTACAAACA
*
16291896 AGAGTACCGAAGTACAAACA
1 AGAGTACCAAAGTACAAACA
* * * * *
16291916 GGGGTACCGAAGTATAAA-T
1 AGAGTACCAAAGTACAAACA
* * *
16291935 AGGGATACCGAAGTACATACA
1 AGAG-TACCAAAGTACAAACA
16291956 AGAGTACCAAAGTACAAACA
1 AGAGTACCAAAGTACAAACA
* * * * *
16291976 GGGGTATCGAAGTACAAATA
1 AGAGTACCAAAGTACAAACA
* * * *
16291996 GGAGTATCGAAGTACATACA
1 AGAGTACCAAAGTACAAACA
* *** *
16292016 GGAGTATTGAAGTACATACA
1 AGAGTACCAAAGTACAAACA
** *
16292036 AGAGTACTGAAGCACAAAC-
1 AGAGTACCAAAGTACAAACA
* *
16292055 AGGGTACCAAAATACAAACA
1 AGAGTACCAAAGTACAAACA
* *
16292075 GGAGTACCGAAGTACA
1 AGAGTACCAAAGTACA
16292091 TTCACATATA
Statistics
Matches: 239, Mismatches: 53, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
19 17 0.07
20 219 0.92
21 3 0.01
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (20 bp):
AGAGTACCAAAGTACAAACA
Found at i:16291834 original size:40 final size:40
Alignment explanation
Indices: 16291779--16292090 Score: 347
Period size: 40 Copynumber: 7.8 Consensus size: 40
16291769 TCAAATTAGA
* *
16291779 GTACCAAAGTACATACAAGAGTACCAAAGTACAAACAGGG
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
* * *
16291819 GTACCGAAGTCCATACAAGAGTACCAAAGTACAAATAGGG
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
* * *
16291859 GTACCGAAGTACATACAAGAGTACCGAAGTACATACAAGA
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
* * * * *
16291899 GTACCGAAGTACAAACAGGGGTACCGAAGTATAAATAGGG
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
* *
16291939 ATACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGG
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
* * * * * * *
16291979 GTATCGAAGTACAAATAGGAGTATCGAAGTACATACAGGA
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
** * *
16292019 GTATTGAAGTACATACAAGAGTACTGAAGCACAAACA-GG
1 GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
* * * *
16292058 GTACCAAAATACAAACAGGAGTACCGAAGTACA
1 GTACCGAAGTACATACAAGAGTACCGAAGTACA
16292091 TTCACATATA
Statistics
Matches: 222, Mismatches: 50, Indels: 1
0.81 0.18 0.00
Matches are distributed among these distances:
39 26 0.12
40 196 0.88
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (40 bp):
GTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGG
Found at i:16291843 original size:60 final size:60
Alignment explanation
Indices: 16291746--16292090 Score: 352
Period size: 60 Copynumber: 5.8 Consensus size: 60
16291736 CAGGAACACT
* * * ** * * * *
16291746 AAGT-CAAACAGGGGTACTGAAGTTCAAATTAGAGTACCAAAGTACATACAAGAGTACCA
1 AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTACCG
* *
16291805 AAGTACAAACAGGGGTACCGAAGTCCATACAAGAGTACCAAAGTACAAATAGGGGTACCG
1 AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTACCG
* * * *
16291865 AAGTACATACAAGAGTACCGAAGTACATACAAGAGTACCGAAGTACAAACAGGGGTACCG
1 AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTACCG
* * * *
16291925 AAGTATAAATAGGGATACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTATCG
1 AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTACCG
* * * * *** * * * *
16291985 AAGTACAAATAGGAGTATCGAAGTACATACAGGAGTATTGAAGTACATACAAGAGTACTG
1 AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTACCG
* * * * * *
16292045 AAGCACAAACA-GGGTACCAAAATACAAACAGGAGTACCGAAGTACA
1 AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACA
16292091 TTCACATATA
Statistics
Matches: 239, Mismatches: 46, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
59 32 0.13
60 207 0.87
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (60 bp):
AAGTACAAACAGGGGTACCGAAGTACATACAAGAGTACCAAAGTACAAACAGGGGTACCG
Found at i:16297843 original size:52 final size:52
Alignment explanation
Indices: 16297734--16297843 Score: 141
Period size: 52 Copynumber: 2.1 Consensus size: 52
16297724 GTTACCGATC
* *
16297734 ACTCACATATTTAAAAACTTTGTAGGGAACATAATCATATTGGAATCTGATC
1 ACTCACATATTTAAAAACTTTGTAGGGAACATAATCATATTAGAATCTGATA
* * * * *
16297786 TCTCACATCTTTAAAAATTTTGTAGGGAACATGATCATGTTAGAA-CTTGATA
1 ACTCACATATTTAAAAACTTTGTAGGGAACATAATCATATTAGAATC-TGATA
16297838 ACTCAC
1 ACTCAC
16297844 CAGAAATGGA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 1 0.02
52 48 0.98
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (52 bp):
ACTCACATATTTAAAAACTTTGTAGGGAACATAATCATATTAGAATCTGATA
Found at i:16300614 original size:17 final size:17
Alignment explanation
Indices: 16300592--16300624 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16300582 CAAAGAATTA
*
16300592 AAGATACAATATTCAGG
1 AAGATACAACATTCAGG
16300609 AAGATACAACATTCAG
1 AAGATACAACATTCAG
16300625 TCAAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.21
Consensus pattern (17 bp):
AAGATACAACATTCAGG
Found at i:16310557 original size:24 final size:24
Alignment explanation
Indices: 16310530--16310577 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
16310520 TTTAATTCTT
16310530 TCTTTCTTT-CTTTTATCTTATTTC
1 TCTTTCTTTACTTTTAT-TTATTTC
16310554 TCTTTCTTTACCTTTTATTTATTT
1 TCTTTCTTTA-CTTTTATTTATTT
16310578 ATTTCCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
25 6 0.27
26 7 0.32
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (24 bp):
TCTTTCTTTACTTTTATTTATTTC
Found at i:16313720 original size:24 final size:24
Alignment explanation
Indices: 16313693--16313753 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
16313683 TATATTCTAA
*
16313693 TTATATCTTATAAATAATTAATAT
1 TTATATCTTATAAATAATTAAAAT
* *
16313717 TTAT-TGCTTAAAAATATTTAAAAT
1 TTATAT-CTTATAAATAATTAAAAT
16313741 TTATATTCTTATA
1 TTATA-TCTTATA
16313754 TTAAAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
23 1 0.03
24 23 0.77
25 5 0.17
26 1 0.03
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (24 bp):
TTATATCTTATAAATAATTAAAAT
Found at i:16317277 original size:12 final size:12
Alignment explanation
Indices: 16317260--16317285 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16317250 AAAAACAGTC
16317260 TTATGTACTAGT
1 TTATGTACTAGT
16317272 TTATGTACTAGT
1 TTATGTACTAGT
16317284 TT
1 TT
16317286 GGACCTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTATGTACTAGT
Found at i:16322818 original size:29 final size:29
Alignment explanation
Indices: 16322776--16322834 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
16322766 ATAGGATAAC
16322776 CATATCAATGAAAATTTCAAACATCTTCT
1 CATATCAATGAAAATTTCAAACATCTTCT
16322805 CATATCAATGAAAATTTCAAACATCTTCT
1 CATATCAATGAAAATTTCAAACATCTTCT
16322834 C
1 C
16322835 CACACTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.34
Consensus pattern (29 bp):
CATATCAATGAAAATTTCAAACATCTTCT
Found at i:16328913 original size:22 final size:22
Alignment explanation
Indices: 16328886--16328939 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
16328876 TTATAGAAAT
16328886 AGATCAGATAAGACCACAGAAC
1 AGATCAGATAAGACCACAGAAC
***
16328908 AGATCAGATAAGATTGCAGAAC
1 AGATCAGATAAGACCACAGAAC
16328930 AGATCAGATA
1 AGATCAGATA
16328940 CAGATCTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (22 bp):
AGATCAGATAAGACCACAGAAC
Found at i:16336005 original size:22 final size:22
Alignment explanation
Indices: 16335950--16336011 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
16335940 GTATTATAGC
* *
16335950 AACAGATCAGATAAGATCATAG
1 AACAGATCAGATAAGATCACAA
* *
16335972 AATATATCAGATAAGATCACAA
1 AACAGATCAGATAAGATCACAA
*
16335994 AACAGATTAGATACAGAT
1 AACAGATCAGATA-AGAT
16336012 GCAGTTTCCT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.52, C:0.13, G:0.15, T:0.21
Consensus pattern (22 bp):
AACAGATCAGATAAGATCACAA
Found at i:16337351 original size:22 final size:22
Alignment explanation
Indices: 16337309--16337362 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
16337299 ATAAGGCAAT
* *
16337309 AAAAGGAAGAATAAAATGAAAG
1 AAAAAGAAGAAGAAAATGAAAG
*
16337331 GAAAAGAAGAAGAGAAA-GAAAG
1 AAAAAGAAGAAGA-AAATGAAAG
*
16337353 AAAAATAAGA
1 AAAAAGAAGA
16337363 GGAAGAGAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (22 bp):
AAAAAGAAGAAGAAAATGAAAG
Found at i:16340444 original size:49 final size:49
Alignment explanation
Indices: 16340380--16340554 Score: 233
Period size: 49 Copynumber: 3.5 Consensus size: 49
16340370 CTGGTACGCA
* *
16340380 TAGTAGCCTGCACTTAGTACTACACATGCGACTAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
* * * * *
16340429 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCAGGTACACG
** *
16340480 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
*
16340529 TAGTAGCCTGCACTTAGTGCTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
16340555 CGTGACCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 63 0.58
50 6 0.06
51 40 0.37
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
Found at i:16340491 original size:51 final size:49
Alignment explanation
Indices: 16340361--16340556 Score: 230
Period size: 49 Copynumber: 3.9 Consensus size: 49
16340351 CACTTGTAGC
* *
16340361 CGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
1 CGAA-CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA
* * * * *
16340411 CTAATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
1 CGAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA
* * * *
16340460 TCGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA
1 -CGAA-CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA
* * * *
16340511 CCAACAATCTGGTACACGTAGTAGCCTGCACTTAGTGCTACACACG
1 CGAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACG
16340557 TGACCTCACA
Statistics
Matches: 123, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 74 0.60
50 9 0.07
51 40 0.33
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (49 bp):
CGAACTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA
Found at i:16340534 original size:100 final size:100
Alignment explanation
Indices: 16340361--16340559 Score: 335
Period size: 100 Copynumber: 2.0 Consensus size: 100
16340351 CACTTGTAGC
* * **
16340361 CGAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAATTATCCGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
16340426 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
* *
16340461 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTAC
1 CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
*
16340526 ACGTAGTAGCCTGCACTTAGTGCTACACACGTGA
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGA
16340560 CCTCACAATA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (100 bp):
CGAAGCTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTAC
ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
Found at i:16341240 original size:30 final size:30
Alignment explanation
Indices: 16341206--16341265 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16341196 CTTTAATACG
16341206 AACTTTTAAAAAATTAC-CATTTTGCCCCTA
1 AACTTTTAAAAAATTACTC-TTTTGCCCCTA
** *
16341236 AACTTTTGCATAATTACTCTTTTGCCCCTA
1 AACTTTTAAAAAATTACTCTTTTGCCCCTA
16341266 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTAAAAAATTACTCTTTTGCCCCTA
Found at i:16349203 original size:19 final size:19
Alignment explanation
Indices: 16349159--16349203 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
16349149 AACAATAGAT
16349159 AAATAGATAAATAATAAGTA
1 AAATA-ATAAATAATAAGTA
*
16349179 AAATAATAAATGATAA-TA
1 AAATAATAAATAATAAGTA
16349197 AAGATAA
1 AA-ATAA
16349204 ATTAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 14 0.61
20 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (19 bp):
AAATAATAAATAATAAGTA
Found at i:16349520 original size:14 final size:13
Alignment explanation
Indices: 16349473--16349516 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
16349463 AAGAGTAATG
*
16349473 ATATATAAAAATA
1 ATATAAAAAAATA
*
16349486 AAATAAAATAAATA
1 ATATAAAA-AAATA
*
16349500 TTATAAAAAAATA
1 ATATAAAAAAATA
16349513 ATAT
1 ATAT
16349517 TAAATTATGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
ATATAAAAAAATA
Found at i:16349586 original size:3 final size:3
Alignment explanation
Indices: 16349571--16349724 Score: 148
Period size: 3 Copynumber: 51.3 Consensus size: 3
16349561 ATATATATAT
* * * *
16349571 ATA ATA ATG ATA ATA ATA ATA GTA AT- ACA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
16349618 ATA ATA ATA ACA AAA ATA GTA ATA ATA ATG GTA ATA AAA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
16349666 ATA GTA ATA ATA ATA ATA ATA ATA ATAA ATG GTA ATA ATA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
*
16349712 ATA TTA ATA ATA A
1 ATA ATA ATA ATA A
16349725 AAGCAAAATT
Statistics
Matches: 118, Mismatches: 31, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
2 1 0.01
3 114 0.97
4 3 0.03
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:16350327 original size:22 final size:22
Alignment explanation
Indices: 16350271--16350327 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
16350261 CCACTGCGCC
*
16350271 CGCCGCCGGTCACCTACAGCGA
1 CGCCGCCGGTCATCTACAGCGA
16350293 CGCCGCCGGTCATCTACAGCGA
1 CGCCGCCGGTCATCTACAGCGA
*
16350315 CGCCGCCGTTCAT
1 CGCCGCCGGTCAT
16350328 GGTGGCTGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.16, C:0.44, G:0.26, T:0.14
Consensus pattern (22 bp):
CGCCGCCGGTCATCTACAGCGA
Found at i:16352579 original size:18 final size:17
Alignment explanation
Indices: 16352556--16352591 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
16352546 CAATTCTTTA
16352556 GCTTATTGTTCATATGAT
1 GCTTATTGTTCAT-TGAT
*
16352574 GCTTATTTTTCATTGAT
1 GCTTATTGTTCATTGAT
16352591 G
1 G
16352592 ATTACATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.19, C:0.11, G:0.17, T:0.53
Consensus pattern (17 bp):
GCTTATTGTTCATTGAT
Found at i:16359687 original size:16 final size:16
Alignment explanation
Indices: 16359668--16359704 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
16359658 GGGAAAAGGG
*
16359668 AAAAGTCGAAAAAAGA
1 AAAAGTAGAAAAAAGA
*
16359684 AAAAGTAGAGAAAAGA
1 AAAAGTAGAAAAAAGA
16359700 AAAAG
1 AAAAG
16359705 AAAAAGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.70, C:0.03, G:0.22, T:0.05
Consensus pattern (16 bp):
AAAAGTAGAAAAAAGA
Done.