Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 170 of 427
Found at i:47343675 original size:114 final size:114
Alignment explanation
Indices: 47343535--47343763 Score: 440
Period size: 114 Copynumber: 2.0 Consensus size: 114
47343525 GTGGAAGACG
47343535 GCAAAGATGTGAGATCAAGGAAAAAAAGCCCATTTGAACCTTAGGAATAGATTAGGATACAAGTG
1 GCAAAGATGTGAGATCAAGGAAAAAAAGCCCATTTGAACCTTAGGAATAGATTAGGATACAAGTG
*
47343600 ACATGTCACTAGGATGGTTGAGCATTCGAACTCGTTGAGTTGAGTCCGA
66 ACATGTCACTAGGATGGTTGAGCATCCGAACTCGTTGAGTTGAGTCCGA
*
47343649 GCAAAGATGTGAGATCAAGGAAAAAAAGCCCATTTGAACCTTAGGAATGGATTAGGATACAAGTG
1 GCAAAGATGTGAGATCAAGGAAAAAAAGCCCATTTGAACCTTAGGAATAGATTAGGATACAAGTG
47343714 ACATGTCACTAGGATGGTTGAGCATCCGAACTCGTTGAGTTGAGTCCGA
66 ACATGTCACTAGGATGGTTGAGCATCCGAACTCGTTGAGTTGAGTCCGA
47343763 G
1 G
47343764 TTCACTTATG
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.23
Consensus pattern (114 bp):
GCAAAGATGTGAGATCAAGGAAAAAAAGCCCATTTGAACCTTAGGAATAGATTAGGATACAAGTG
ACATGTCACTAGGATGGTTGAGCATCCGAACTCGTTGAGTTGAGTCCGA
Found at i:47343788 original size:46 final size:46
Alignment explanation
Indices: 47343738--47343910 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
47343728 TGGTTGAGCA
*
47343738 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
47343784 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
47343831 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
47343877 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47343911 GGGGTGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 61 0.59
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:47343894 original size:93 final size:93
Alignment explanation
Indices: 47343735--47343905 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
47343725 GGATGGTTGA
* *
47343735 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
47343800 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
47343828 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
47343893 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
47343906 ACTTAGGGGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:47349185 original size:20 final size:20
Alignment explanation
Indices: 47349162--47349206 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
47349152 ACCTATTAAG
*
47349162 GTTAACTGAAACTCATATGA
1 GTTAACTGAAACCCATATGA
* *
47349182 GTTAACTGAAGCCCATGTGA
1 GTTAACTGAAACCCATATGA
47349202 GTTAA
1 GTTAA
47349207 ACGAAAAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (20 bp):
GTTAACTGAAACCCATATGA
Found at i:47353980 original size:24 final size:24
Alignment explanation
Indices: 47353926--47353973 Score: 78
Period size: 26 Copynumber: 1.9 Consensus size: 24
47353916 TAGACCCAGT
47353926 GTCAATTAATGCATATATAGAACA
1 GTCAATTAATGCATATATAGAACA
47353950 GGGTCAATTAATGCATATATAGAA
1 --GTCAATTAATGCATATATAGAA
47353974 TCATCAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (24 bp):
GTCAATTAATGCATATATAGAACA
Found at i:47356858 original size:20 final size:20
Alignment explanation
Indices: 47356835--47356879 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
47356825 ACCTATTAAG
*
47356835 GTTAACTGAAACTCATATGA
1 GTTAACTGAAACCCATATGA
* *
47356855 GTTAACTGAAGCCCATGTGA
1 GTTAACTGAAACCCATATGA
47356875 GTTAA
1 GTTAA
47356880 ACGAAAAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (20 bp):
GTTAACTGAAACCCATATGA
Found at i:47364663 original size:30 final size:30
Alignment explanation
Indices: 47364629--47364687 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
47364619 ATATAACACT
47364629 CTAAACCCGACCTAGACGTCTAAACTAAGA
1 CTAAACCCGACCTAGACGTCTAAACTAAGA
47364659 CTAAACCCGACCTAGACGTCTAAACTAAG
1 CTAAACCCGACCTAGACGTCTAAACTAAG
47364688 TTTAGAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.31, G:0.14, T:0.17
Consensus pattern (30 bp):
CTAAACCCGACCTAGACGTCTAAACTAAGA
Found at i:47369246 original size:29 final size:30
Alignment explanation
Indices: 47369193--47369260 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
47369183 TCTTTGTAAA
47369193 TTTAGAATTTAGTCCCTATACTTTT-AT-T
1 TTTAGAATTTAGTCCCTATACTTTTCATAT
* * *
47369221 TTTAGGAATTTAGTCTCTCTATTTTTCATAT
1 TTTA-GAATTTAGTCCCTATACTTTTCATAT
47369252 TTTA-AATTT
1 TTTAGAATTT
47369261 TAGATCTAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 4 0.12
29 23 0.68
30 2 0.06
31 5 0.15
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (30 bp):
TTTAGAATTTAGTCCCTATACTTTTCATAT
Found at i:47369531 original size:29 final size:29
Alignment explanation
Indices: 47369474--47369530 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
47369464 TGGTTTAGTA
*
47369474 TGCAATTGTATATATGAATTTTAATTTTG
1 TGCAATTGTATATATAAATTTTAATTTTG
* *
47369503 TGCAATTTTATATATCAAATTTTGATTT
1 TGCAATTGTATATAT-AAATTTTAATTT
47369531 GATCCAACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (29 bp):
TGCAATTGTATATATAAATTTTAATTTTG
Found at i:47372333 original size:32 final size:32
Alignment explanation
Indices: 47372297--47372365 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
47372287 TACTCTAGTT
47372297 TTCATAGAGTTAAT-CAGAATTTTCAGCAACGC
1 TTCATAGA-TTAATCCAGAATTTTCAGCAACGC
** ** *
47372329 TTCATTTATTCTTCCGGAATTTTCAGCAACGC
1 TTCATAGATTAATCCAGAATTTTCAGCAACGC
47372361 TTCAT
1 TTCAT
47372366 TTATTCTTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.38
Consensus pattern (32 bp):
TTCATAGATTAATCCAGAATTTTCAGCAACGC
Found at i:47372366 original size:32 final size:32
Alignment explanation
Indices: 47372313--47372376 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
47372303 GAGTTAATCA
47372313 GAATTTTCAGCAACGCTTCATTTATTCTTCCG
1 GAATTTTCAGCAACGCTTCATTTATTCTTCCG
47372345 GAATTTTCAGCAACGCTTCATTTATTCTTCCG
1 GAATTTTCAGCAACGCTTCATTTATTCTTCCG
47372377 ATTTCAGGTA
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:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (32 bp):
GAATTTTCAGCAACGCTTCATTTATTCTTCCG
Found at i:47373071 original size:17 final size:19
Alignment explanation
Indices: 47373029--47373072 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
47373019 ATGAAATTTT
*
47373029 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
47373048 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
47373066 AA-TATTA
1 AATTATTA
47373073 CTATATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:47373184 original size:15 final size:15
Alignment explanation
Indices: 47373166--47373194 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47373156 ATATTTATAA
47373166 AATTATTATTATTAT
1 AATTATTATTATTAT
47373181 AATTATTATTATTA
1 AATTATTATTATTA
47373195 GATAGGATAG
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:47374163 original size:5 final size:5
Alignment explanation
Indices: 47374140--47374180 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
47374130 TAGGATTCAG
* * *
47374140 TTTTT TTTTC TTCTA TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
47374181 CCTCTCTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:47374168 original size:20 final size:20
Alignment explanation
Indices: 47374140--47374213 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 20
47374130 TAGGATTCAG
*
47374140 TTTTTTTTTCTTCTATTTTC
1 TTTTCTTTTCTTCTATTTTC
* *
47374160 TTTTCTTTTCTTTTCTTTTC
1 TTTTCTTTTCTTCTATTTTC
** * *
47374180 TCCTCTCTTCATCTA-TTTC
1 TTTTCTTTTCTTCTATTTTC
*
47374199 CTTTCTTCTTCTTCT
1 TTTTCTT-TTCTTCT
47374214 TTTCCTCTAT
Statistics
Matches: 39, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
19 7 0.18
20 32 0.82
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTCTTTTCTTCTATTTTC
Found at i:47375289 original size:27 final size:27
Alignment explanation
Indices: 47375259--47375319 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
47375249 TTTATTAAAC
*
47375259 TACCCCTAAGTATG-AAAATGACCATTT
1 TACCCCTAAG-ATGCAAAATGACCATTA
* *
47375286 TACCCCT-AGGTGCAAAATGACCGTTA
1 TACCCCTAAGATGCAAAATGACCATTA
47375312 TACCCCTA
1 TACCCCTA
47375320 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (27 bp):
TACCCCTAAGATGCAAAATGACCATTA
Found at i:47375715 original size:60 final size:59
Alignment explanation
Indices: 47375641--47375779 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 59
47375631 AACTGTGTTA
* * *
47375641 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGAGCTACGGCCGAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGCAA-AGAGCTACGGCCCAGATTAATATTG
* * * *
47375701 ATATGGGCTAGGCCCAATATACTCTGATACTGCAAGGGGCTATGGCCCCGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGCAAAGAGCTACGGCCCAGATTAATATTG
47375761 ATATGGGCTAAGGCCCAAT
1 ATATGGGCT-AGGCCCAAT
47375780 TAACACTGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
59 1 0.01
60 51 0.75
61 16 0.24
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGCAAAGAGCTACGGCCCAGATTAATATTG
Found at i:47377877 original size:17 final size:19
Alignment explanation
Indices: 47377835--47377878 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
47377825 ATGAAATTTT
*
47377835 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
47377854 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
47377872 AA-TATTA
1 AATTATTA
47377879 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:47377988 original size:15 final size:15
Alignment explanation
Indices: 47377970--47377998 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47377960 ATATTTATAA
47377970 AATTATTATTATTAT
1 AATTATTATTATTAT
47377985 AATTATTATTATTA
1 AATTATTATTATTA
47377999 GATAGGAAAG
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:47380511 original size:60 final size:59
Alignment explanation
Indices: 47380438--47380573 Score: 177
Period size: 60 Copynumber: 2.3 Consensus size: 59
47380428 TATATTAATT
*
47380438 TGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTAATACTGATA
1 TGGGCTAGGCCCAATATACTCT-GA-TATGT-ATAGGGCTACGGCCCAGATTAATACTGATA
* * *
47380498 TGGGCTAGGCCCAATATACTCTGATACTGTATGGGGCTATGGCCCAGATTAATATTGATA
1 TGGGCTAGGCCCAATATACTCTGATA-TGTATAGGGCTACGGCCCAGATTAATACTGATA
47380558 TGGGCTAAGGCCCAAT
1 TGGGCT-AGGCCCAAT
47380574 TAACACTGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
59 1 0.01
60 52 0.76
61 15 0.22
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (59 bp):
TGGGCTAGGCCCAATATACTCTGATATGTATAGGGCTACGGCCCAGATTAATACTGATA
Found at i:47380569 original size:28 final size:27
Alignment explanation
Indices: 47380471--47380583 Score: 95
Period size: 28 Copynumber: 3.9 Consensus size: 27
47380461 ACTTGTAATA
*
47380471 GGGCTACGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCA-ATTAATACTGATAT
47380499 GGGCT-AGGCCCAATATACTCTGATACTG-TAT
1 GGGCTAAGGCCCAAT-TA-----ATACTGATAT
* *
47380530 GGGGCTATGGCCCAGATTAATATTGATAT
1 -GGGCTAAGGCCCA-ATTAATACTGATAT
*
47380559 GGGCTAAGGCCCAATTAACACTGAT
1 GGGCTAAGGCCCAATTAATACTGAT
47380584 TTCTGAATAG
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
26 2 0.03
27 18 0.26
28 22 0.32
29 3 0.04
31 3 0.04
32 11 0.16
33 8 0.12
34 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (27 bp):
GGGCTAAGGCCCAATTAATACTGATAT
Found at i:47383777 original size:5 final size:5
Alignment explanation
Indices: 47383761--47383796 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
47383751 TAGGATTCAG
* *
47383761 TTTTT TTTTC TTCTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
47383797 CCTCTCTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:47385394 original size:28 final size:27
Alignment explanation
Indices: 47385354--47385406 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
47385344 ATACTGTAAG
* *
47385354 GGGCTATGGCCCAGATTAAGATTGATAT
1 GGGCTAAGGCCCAG-TTAACATTGATAT
47385382 GGGCTAAGGCCCAGTTAACATTGAT
1 GGGCTAAGGCCCAGTTAACATTGAT
47385407 TTCTAAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (27 bp):
GGGCTAAGGCCCAGTTAACATTGATAT
Found at i:47386184 original size:16 final size:17
Alignment explanation
Indices: 47386152--47386184 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47386142 CATCAAGAAG
47386152 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
47386170 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
47386185 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:47395410 original size:46 final size:46
Alignment explanation
Indices: 47395343--47395519 Score: 266
Period size: 46 Copynumber: 3.8 Consensus size: 46
47395333 GATATTTGGG
* * *
47395343 CATCCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
47395389 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** *
47395435 TGTCCGAACTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
47395481 C-TCCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47395520 GCGGGTTACA
Statistics
Matches: 120, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
45 5 0.04
46 115 0.96
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:47397595 original size:20 final size:20
Alignment explanation
Indices: 47397544--47397586 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
47397534 GAGATCATAC
47397544 ACACGCCCGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
*
47397564 ACACGCCCGTGTGTATTGGG
1 ACACGCCCGTGTGCATTGGG
47397584 ACA
1 ACA
47397587 TGCCTGTGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.21
Consensus pattern (20 bp):
ACACGCCCGTGTGCATTGGG
Found at i:47402774 original size:47 final size:48
Alignment explanation
Indices: 47402708--47402847 Score: 165
Period size: 47 Copynumber: 2.9 Consensus size: 48
47402698 CACATGGTAG
* *
47402708 GATGCCAATGCCATATCCCAGATATGGCCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAAACATGGCCTTACATGGGATCACATATC
* * * * **
47402756 GATGGCAATGTCAT-TCCCAAACATGGCCTTACATGGAATCATAGGTC
1 GATGCCAATGCCATATCCCAAACATGGCCTTACATGGGATCACATATC
* * * *
47402803 AATGCCAATGCCATGTCCCAAACATGGTCTTACATTGGATCACAT
1 GATGCCAATGCCATATCCCAAACATGGCCTTACATGGGATCACAT
47402848 GTTGGTGCTA
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
47 38 0.51
48 37 0.49
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAAACATGGCCTTACATGGGATCACATATC
Found at i:47405602 original size:30 final size:30
Alignment explanation
Indices: 47405568--47405628 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
47405558 TCCTTAACTC
47405568 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
47405598 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
47405628 A
1 A
47405629 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:47407116 original size:20 final size:19
Alignment explanation
Indices: 47407091--47407134 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
47407081 CCAGTAAAAT
47407091 ATTTTCCAGAAAATGATTTA
1 ATTTT-CAGAAAATGATTTA
* *
47407111 ATTTTCTGGAAATGATTTA
1 ATTTTCAGAAAATGATTTA
*
47407130 CTTTT
1 ATTTT
47407135 ATGGTGTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (19 bp):
ATTTTCAGAAAATGATTTA
Found at i:47407576 original size:46 final size:46
Alignment explanation
Indices: 47407520--47407641 Score: 210
Period size: 46 Copynumber: 2.7 Consensus size: 46
47407510 AATAATATTA
*
47407520 TCCAAATGCATAATTAGA-ATTACACCACATGATAACAACAACATTG
1 TCCAAATGCATAACTA-ATATTACACCACATGATAACAACAACATTG
*
47407566 TCCAAGTGCATAACTAATATTACACCACATGATAACAACAACATTG
1 TCCAAATGCATAACTAATATTACACCACATGATAACAACAACATTG
47407612 TCCAAATGCATAACTAATATTACACCACAT
1 TCCAAATGCATAACTAATATTACACCACAT
47407642 TAAAAGCATC
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
45 1 0.01
46 71 0.99
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.25
Consensus pattern (46 bp):
TCCAAATGCATAACTAATATTACACCACATGATAACAACAACATTG
Found at i:47408636 original size:32 final size:32
Alignment explanation
Indices: 47408590--47408650 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
47408580 TGTCAATCAT
47408590 TTCAATATCCAACAAGCTT-AAAGCATAATAAA
1 TTCAATATCCAACAAGCTTGAAA-CATAATAAA
*
47408622 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTGAAACATAAT
47408651 CAATATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 24 0.89
33 3 0.11
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTGAAACATAATAAA
Found at i:47419325 original size:14 final size:14
Alignment explanation
Indices: 47419306--47419336 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
47419296 AAATACATTA
47419306 ATTATTATTAAATG
1 ATTATTATTAAATG
47419320 ATTATTATTAAATG
1 ATTATTATTAAATG
47419334 ATT
1 ATT
47419337 TATTGATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATTATTATTAAATG
Found at i:47421525 original size:43 final size:43
Alignment explanation
Indices: 47421463--47421556 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
47421453 GATTAACGGG
* * *
47421463 ATGTGAATATGTGTCAGACCATGTCTGGAACATTGGCATCATT
1 ATGTGATTATGGGTAAGACCATGTCTGGAACATTGGCATCATT
* *
47421506 ATGTGATTATGGGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTATGGGTAAGACCATGTCTGGAACATTGGCATCATT
*
47421549 ATTTGATT
1 ATGTGATT
47421557 TCAAGACCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (43 bp):
ATGTGATTATGGGTAAGACCATGTCTGGAACATTGGCATCATT
Found at i:47426157 original size:24 final size:23
Alignment explanation
Indices: 47426095--47426223 Score: 152
Period size: 24 Copynumber: 5.3 Consensus size: 23
47426085 GGACTCACCG
*
47426095 CAGCTCGTATGAGCTTACTGATATAT
1 CAGCTCGTA-GAGCTTACTG-T-TCT
*
47426121 CAGCTTGTAAGAGCTTACTGTTCT
1 CAGCTCGT-AGAGCTTACTGTTCT
47426145 CAGCTCGTCAGAGCTTACTGTTCT
1 CAGCTCGT-AGAGCTTACTGTTCT
47426169 CAGCTCGTCAGAGCTTACTGTT-T
1 CAGCTCGT-AGAGCTTACTGTTCT
47426192 CCAGCTCGATAGAGCTTACTGTTCAT
1 -CAGCTCG-TAGAGCTTACTGTTC-T
47426218 CAGCTC
1 CAGCTC
47426224 AGAAGGAGCT
Statistics
Matches: 94, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
23 1 0.01
24 66 0.70
25 8 0.09
26 18 0.19
27 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (23 bp):
CAGCTCGTAGAGCTTACTGTTCT
Found at i:47428280 original size:30 final size:30
Alignment explanation
Indices: 47428244--47428303 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
47428234 TTATCACATA
*
47428244 ACACATTTCTAAACCATTTCATTCATGTAG
1 ACACATTTCTAAACCATTTCATACATGTAG
47428274 ACACATTTCTAAACCATTTCATACATGTAG
1 ACACATTTCTAAACCATTTCATACATGTAG
47428304 TTCATGGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (30 bp):
ACACATTTCTAAACCATTTCATACATGTAG
Found at i:47428632 original size:43 final size:42
Alignment explanation
Indices: 47428584--47428747 Score: 134
Period size: 43 Copynumber: 3.8 Consensus size: 42
47428574 CAATGCCAAC
* *
47428584 GTCCCAGACGTGGTCTTACATGTATTCACATATCGATGTCACT
1 GTCCCAGACGTGGTCTTACACGTAATCACATATCGATGTCA-T
* * *
47428627 GTCCCAGACAG-GGTCCTACACGGAATCAAATA-CGATGTCGAT
1 GTCCCAGAC-GTGGTCTTACACGTAATCACATATCGATGTC-AT
* * * * * *
47428669 ATCCCATACATGGTCTTACACGTAAATCTCAAATCGATGCCAAT
1 GTCCCAGACGTGGTCTTACACGT-AATCACATATCGATGTC-AT
* * * *
47428713 GTTCCAGATGTGGTCTTACACGAAATTACATATCG
1 GTCCCAGACGTGGTCTTACACGTAATCACATATCG
47428748 GAAATCCTAT
Statistics
Matches: 92, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
42 25 0.27
43 41 0.45
44 26 0.28
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACACGTAATCACATATCGATGTCAT
Found at i:47433034 original size:39 final size:39
Alignment explanation
Indices: 47432948--47433034 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
47432938 CCGGCAATTA
* *
47432948 GCCTGCTAAGTATAAACCTGAACTTATCACCGGTACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
* *
47432987 GCTTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
47433026 GCCTGCTAG
1 GCCTGCTAG
47433035 ACAATAAGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
Found at i:47439976 original size:18 final size:18
Alignment explanation
Indices: 47439953--47439990 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
47439943 ATGAAGAAGA
47439953 TTCCTCCAATAACTTTTG
1 TTCCTCCAATAACTTTTG
*
47439971 TTCCTCCACTAACTTTTG
1 TTCCTCCAATAACTTTTG
47439989 TT
1 TT
47439991 TTATTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.29, G:0.05, T:0.47
Consensus pattern (18 bp):
TTCCTCCAATAACTTTTG
Found at i:47440446 original size:10 final size:10
Alignment explanation
Indices: 47440431--47440455 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47440421 GTGACCTTGT
47440431 TTTTTTTCTC
1 TTTTTTTCTC
47440441 TTTTTTTCTC
1 TTTTTTTCTC
47440451 TTTTT
1 TTTTT
47440456 GACCTTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:47441723 original size:59 final size:58
Alignment explanation
Indices: 47441659--47441770 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
47441649 AACAACCTTG
* * * * *
47441659 TAAAAAAAACTTAAGTACCACATTA-AGAAAAAGTGTCAAATTCATGTACTAAATTGGAC
1 TAAAAAAAACTTAA-CACCAAATTAGA-AAAAAATATCAAATTCATGTACCAAATTGGAC
*
47441718 TAAAAAAAGCTTAACACCAAATTAGAAAAAAATATCAAATTCATGTACCAAAT
1 TAAAAAAAACTTAACACCAAATTAGAAAAAAATATCAAATTCATGTACCAAAT
47441771 ATTATATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 32 0.70
59 14 0.30
ACGTcount: A:0.53, C:0.14, G:0.09, T:0.24
Consensus pattern (58 bp):
TAAAAAAAACTTAACACCAAATTAGAAAAAAATATCAAATTCATGTACCAAATTGGAC
Found at i:47443545 original size:2 final size:2
Alignment explanation
Indices: 47443538--47443567 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47443528 CTTTTTCTTT
47443538 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47443568 ACTCTAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47450052 original size:33 final size:34
Alignment explanation
Indices: 47449975--47450054 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 34
47449965 TATGGGCCAT
*
47449975 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
47450009 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
47450042 ACTGTTATCTGAA
1 ACTGTTATCTGAA
47450055 CAGGTTTAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:47453413 original size:30 final size:30
Alignment explanation
Indices: 47453379--47453439 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47453369 TCCTTAACTC
47453379 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
47453409 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
47453439 A
1 A
47453440 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:47459362 original size:19 final size:19
Alignment explanation
Indices: 47459340--47459381 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
47459330 TATAAATATA
47459340 CAAAATATAATTCAATTTC
1 CAAAATATAATTCAATTTC
47459359 CAAAATATAATTCAATTTC
1 CAAAATATAATTCAATTTC
47459378 CAAA
1 CAAA
47459382 GCCAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (19 bp):
CAAAATATAATTCAATTTC
Found at i:47460462 original size:15 final size:15
Alignment explanation
Indices: 47460439--47460470 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47460429 AATTGTCAAA
47460439 ATTTCAATACAAAAC
1 ATTTCAATACAAAAC
*
47460454 ATTTTAATACAAAAC
1 ATTTCAATACAAAAC
47460469 AT
1 AT
47460471 ATATTTCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTTCAATACAAAAC
Found at i:47463237 original size:31 final size:31
Alignment explanation
Indices: 47463202--47463265 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
47463192 CCTTTTCATG
47463202 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
47463233 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
47463264 TT
1 TT
47463266 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:47463508 original size:24 final size:24
Alignment explanation
Indices: 47463457--47463599 Score: 182
Period size: 24 Copynumber: 6.0 Consensus size: 24
47463447 GCTTTATCAT
*
47463457 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
47463482 ATAACTGGGGTAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
*
47463506 ATAACTGGGGCATAAGCCCGTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
47463529 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
47463553 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
47463577 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
47463600 TCACTTCCTC
Statistics
Matches: 105, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
23 22 0.21
24 71 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:47463536 original size:47 final size:48
Alignment explanation
Indices: 47463482--47463598 Score: 173
Period size: 47 Copynumber: 2.5 Consensus size: 48
47463472 GCCTCTTTTA
* * *
47463482 ATAACTGGGGTAAAAGCCCTTTCAATAACTGGGGCATAAGCCCGTTT-
1 ATAACTGGGGCATAAGCCCTTTCAATAACTAGGGCATAAGCCCGTTTG
** *
47463529 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTCAATAACTAGGGCATAAGCCCGTTTG
47463577 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
47463599 TTCACTTCCT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 41 0.65
48 22 0.35
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTCAATAACTAGGGCATAAGCCCGTTTG
Found at i:47463557 original size:71 final size:72
Alignment explanation
Indices: 47463456--47463595 Score: 194
Period size: 71 Copynumber: 2.0 Consensus size: 72
47463446 TGCTTTATCA
* * *
47463456 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGTAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
47463521 GCCCGTT
66 GCCCGTT
* * **
47463528 TATAACTGG-GGCATAAGCC-CTTTTGATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCAATAACTGGGGCATA
47463591 AGCCC
65 AGCCC
47463596 TTTTTCACTT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
71 47 0.78
72 13 0.22
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCGTT
Found at i:47463674 original size:20 final size:20
Alignment explanation
Indices: 47463649--47463729 Score: 135
Period size: 20 Copynumber: 4.0 Consensus size: 20
47463639 TTATGATTAC
47463649 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
47463669 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
47463689 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
47463709 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
47463729 A
1 A
47463730 CCATATTTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:47463680 original size:11 final size:11
Alignment explanation
Indices: 47463649--47463704 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
47463639 TTATGATTAC
47463649 ATCATGTGCAT
1 ATCATGTGCAT
*
47463660 ATCA--TACAT
1 ATCATGTGCAT
47463669 ATCATGTGCAT
1 ATCATGTGCAT
*
47463680 ATCA--TACAT
1 ATCATGTGCAT
*
47463689 GTCATGTGCAT
1 ATCATGTGCAT
47463700 ATCAT
1 ATCAT
47463705 ACATGTCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:47465111 original size:27 final size:27
Alignment explanation
Indices: 47465057--47465390 Score: 419
Period size: 27 Copynumber: 12.5 Consensus size: 27
47465047 AGGTATTTTA
* *
47465057 GTAATTTTGTAAATCG-GGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
47465083 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
47465110 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
47465137 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
47465164 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
47465191 ATAATTATGTAAATTG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
47465217 GTAATTATGTAAATTG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
47465243 ATAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
47465270 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
47465297 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
47465324 GTAATTTTACAAATCG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
47465350 GTAATTCTAT-AACCTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
47465377 GTAATTCTATAAAT
1 GTAATTCTGTAAAT
47465391 TGGGAGTACT
Statistics
Matches: 273, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
25 3 0.01
26 82 0.30
27 185 0.68
28 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:47465241 original size:133 final size:132
Alignment explanation
Indices: 47465058--47465390 Score: 470
Period size: 133 Copynumber: 2.5 Consensus size: 132
47465048 GGTATTTTAG
* **
47465058 TAATTTTGTAAATCGGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAA
1 TAATTTTGTAAATCGGGGTAAAACGGTAATTCTGTAAAT-TGGGGTAAAAC-GTAATTCTATAAA
* *
47465123 TCGAGGGTAAAATGGTAATTCTGTAAA-TCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAA
64 TCGAGGGTAAAATAGTAATTCTGTAAACT-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
47465187 AACGA
128 AACGA
* * * *
47465192 TAATTATGTAAATTGGGGTAAAACGGTAATTATGTAAATTGGGGTAAAACGATAATTCTGTAAAT
1 TAATTTTGTAAATCGGGGTAAAACGGTAATTCTGTAAATTGGGGTAAAACG-TAATTCTATAAAT
47465257 CGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
65 CGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
*
47465322 CGG
130 CGA
** * **
47465325 TAATTTTACAAATCGGGGTAAAACGGTAATTCTATAACCTGAGGGTAAAACGGTAATTCTATAAA
1 TAATTTTGTAAATCGGGGTAAAACGGTAATTCTGTAAATTG-GGGTAAAAC-GTAATTCTATAAA
47465390 T
64 T
47465391 TGGGAGTACT
Statistics
Matches: 176, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
132 1 0.01
133 117 0.66
134 57 0.32
135 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (132 bp):
TAATTTTGTAAATCGGGGTAAAACGGTAATTCTGTAAATTGGGGTAAAACGTAATTCTATAAATC
GAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
GA
Found at i:47465291 original size:160 final size:160
Alignment explanation
Indices: 47465057--47465394 Score: 493
Period size: 160 Copynumber: 2.1 Consensus size: 160
47465047 AGGTATTTTA
* *
47465057 GTAATTTTGTAAATCGGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
1 GTAATTATGTAAATTGGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
* **
47465122 ATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAA
66 ATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCG-GGGTAA
* *
47465187 AACGATAATTATGTAAATTG-GGGTAAAACG
130 AACGATAATTATATAAACTGAGGGTAAAACG
* * *
47465217 GTAATTATGTAAATTGGGGTAAAAC-GATAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTATGTAAATTGGGGTAAAACAG-TAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
47465281 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGGGGTA
65 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGGGGTA
* * *
47465345 AAACGGTAATTCTATAACCTGAGGGTAAAACG
129 AAACGATAATTATATAAACTGAGGGTAAAACG
* *
47465377 GTAATTCTATAAATTGGG
1 GTAATTATGTAAATTGGG
47465395 AGTACTTTGG
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
159 23 0.14
160 137 0.86
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (160 bp):
GTAATTATGTAAATTGGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
ATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGGGGTAAA
ACGATAATTATATAAACTGAGGGTAAAACG
Found at i:47465415 original size:80 final size:81
Alignment explanation
Indices: 47465057--47465390 Score: 401
Period size: 80 Copynumber: 4.2 Consensus size: 81
47465047 AGGTATTTTA
* * * ** *
47465057 GTAATTTTGTAAATCG-GGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
*
47465121 AA-TCGAGGGTAAAATG
66 AACT-GAGGGTAAAACG
** * *
47465137 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAG-TAATTCTAT
*
47465201 AAATTG-GGGTAAAACG
65 AAACTGAGGGTAAAACG
* * * * ** * *
47465217 GTAATTATGTAAATTG-GGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
47465281 AACTGAGGGTAAAACG
66 AACTGAGGGTAAAACG
*
47465297 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCG-GGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
*
47465361 ACCTGAGGGTAAAACG
66 AACTGAGGGTAAAACG
*
47465377 GTAATTCTATAAAT
1 GTAATTCTGTAAAT
47465391 TGGGAGTACT
Statistics
Matches: 223, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
79 46 0.21
80 110 0.49
81 66 0.30
82 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
AACTGAGGGTAAAACG
Found at i:47470458 original size:27 final size:27
Alignment explanation
Indices: 47470427--47470931 Score: 213
Period size: 27 Copynumber: 18.7 Consensus size: 27
47470417 TTAGTTTACC
* * *
47470427 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
47470454 AAATTACCAAAGTACCC-CTAATTTATA
1 AAATTACTAAAATACCCTC-GATTTGTA
** **
47470481 AAATTACCCAAATATTCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * **
47470508 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACTAAAATACCCTCGATTTGTA
* ***
47470535 AAATTACCAAAATACCCTCGATCAATA
1 AAATTACTAAAATACCCTCGATTTGTA
*
47470562 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACTAAAATACCCTC-GATTTGTA
*
47470589 AAATTACTAAAATACCCCCTGATTTGTA
1 AAATTACTAAAATACCCTC-GATTTGTA
* *
47470617 AAATTACTGAAATACCCTCGACTTGTAA
1 AAATTACTAAAATACCCTCGATTTGT-A
* * *
47470645 AAATTA-TCAAAGTACCTTCGATTTATA
1 AAATTACT-AAAATACCCTCGATTTGTA
* **** **
47470672 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTGTA
* *** * **
47470699 GAATTACTATTTTACCCTTGATTTACA
1 AAATTACTAAAATACCCTCGATTTGTA
** * *
47470726 AAATTATCGT--TTTACCCTCGA-ATGTG
1 AAATTA-C-TAAAATACCCTCGATTTGTA
* **
47470752 AAATTACTAAAATACCC-CTATAGGGTA
1 AAATTACTAAAATACCCTCGAT-TTGTA
* * * *
47470779 GAATTACCAAAACACCC-CTAGTTTGTA
1 AAATTACTAAAATACCCTCGA-TTTGTA
* * * *
47470806 AAGTTACCAAAATACCACT-GGTTTGTG
1 AAATTACTAAAATACC-CTCGATTTGTA
** * *
47470833 AAATTACCGAATTACCCTCAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* **
47470860 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACTAAAATACCCTC-GATTTGTA
*
47470887 AAATTACAAAAATACCCAT-GATTTGTA
1 AAATTACTAAAATACCC-TCGATTTGTA
* * * *
47470914 GATTTACCAAAACACCCT
1 AAATTACTAAAATACCCT
47470932 TGTAGGATGA
Statistics
Matches: 368, Mismatches: 90, Indels: 41
0.74 0.18 0.08
Matches are distributed among these distances:
24 1 0.00
25 3 0.01
26 18 0.05
27 294 0.80
28 51 0.14
29 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:47470668 original size:55 final size:53
Alignment explanation
Indices: 47470497--47470680 Score: 174
Period size: 55 Copynumber: 3.4 Consensus size: 53
47470487 CCCAAATATT
* * *
47470497 CTCGATTTGTAAAATTACTGAAATACCCTTGGTT-TACAAAATTACCAAAATACC
1 CTCGATTTATAAAATTACTGAAATACCCTCGCTTGTA-AAAATTA-CAAAATACC
** * * *
47470551 CTCGATCAATAAAATTACTAAAATACCCCTGGTTTGT-AAAATTACTAAAATACC
1 CTCGATTTATAAAATTACTGAAATA-CCCTCGCTTGTAAAAATTAC-AAAATACC
* * *
47470605 CCCTGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATTATCAAAGTACC
1 CTC-GATTTATAAAATTACTGAAATACCCTCG-CTTGTAAAAATTA-CAAAATACC
* *
47470661 TTCGATTTATAGAATTACTG
1 CTCGATTTATAAAATTACTG
47470681 TTTTACCCTC
Statistics
Matches: 105, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
53 1 0.01
54 43 0.41
55 44 0.42
56 16 0.15
57 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (53 bp):
CTCGATTTATAAAATTACTGAAATACCCTCGCTTGTAAAAATTACAAAATACC
Found at i:47470994 original size:27 final size:27
Alignment explanation
Indices: 47470951--47471024 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
47470941 AAAAGACTAA
*
47470951 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
47470978 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
47471005 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
47471025 TGATGAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:47471760 original size:20 final size:20
Alignment explanation
Indices: 47471735--47471821 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
47471725 GATATGATAT
*
47471735 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
47471755 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
47471775 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
47471795 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
47471815 ACATGAT
1 ACATGAT
47471822 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:47471901 original size:26 final size:26
Alignment explanation
Indices: 47471871--47472006 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
47471861 GAGGAAGTGC
* *
47471871 AAAAGGGCATATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
47471897 AAAAGGGCTTGTGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
47471923 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
47471949 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
47471974 AAAATGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
47471997 AAAAGAGGCT
1 AAAAG-GGCT
47472007 AGGCCTCCAA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
23 4 0.04
24 7 0.07
25 30 0.31
26 56 0.58
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:47471949 original size:52 final size:51
Alignment explanation
Indices: 47471871--47472006 Score: 197
Period size: 52 Copynumber: 2.7 Consensus size: 51
47471861 GAGGAAGTGC
* * *
47471871 AAAAGGGCATATGCCCTAGTTTATTGAAAAGGGCTTGTGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
47471923 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
*
47471974 AAAATGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
47472007 AGGCCTCCAA
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 23 0.29
52 34 0.43
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:47472197 original size:42 final size:42
Alignment explanation
Indices: 47472138--47472229 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
47472128 TAGTCTCCCC
* **
47472138 AAATGGGCTTGCATACATTCATTGGTATT-TCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTAT-ATATGATATTG
*
47472180 AAATGGGCTTGCATACATCCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTATATATGATATTG
47472222 AAATGGGC
1 AAATGGGC
47472230 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTATATATGATATTG
Found at i:47480878 original size:40 final size:40
Alignment explanation
Indices: 47480833--47481020 Score: 247
Period size: 40 Copynumber: 4.7 Consensus size: 40
47480823 ACAACCACAA
* * *
47480833 GCACAATTGCCTTCGGGTCTTAACCC-GAGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TATAACAACTC
*
47480873 GCACAAATGCCTTCGGGTCTTGGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
47480913 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
47480953 GCATAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
47480993 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
47481021 GTATCATTCA
Statistics
Matches: 138, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 135 0.98
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:47488943 original size:40 final size:38
Alignment explanation
Indices: 47488893--47489105 Score: 205
Period size: 40 Copynumber: 5.7 Consensus size: 38
47488883 TAACCACAAG
* * * *
47488893 CACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCA
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATATC-ACT-A
*
47488933 CACAAATGCCTTC-GGTCTTAGCCCGGATATAACAACT-
1 CACAAATGCCTTCGGGTCTTAGCCCGGATATATC-ACTA
47488970 CACAAAATGCCTTC-GGTCTT---CCGG--ATATCACTA
1 CAC-AAATGCCTTCGGGTCTTAGCCCGGATATATCACTA
*
47489003 GCATAAATGCCTTCGGGTCTTAG-CCGGATATATCACT-
1 -CACAAATGCCTTCGGGTCTTAGCCCGGATATATCACTA
*
47489040 -GCAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTA
1 CACAAATGCCTTCGGGTCTTAGCCCGGATAT-ATCACTA
* *
47489078 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 -CACAAATGCCTTCGGGTCTTAGCCCGG
47489106 GTATCATTCA
Statistics
Matches: 149, Mismatches: 11, Indels: 26
0.80 0.06 0.14
Matches are distributed among these distances:
32 3 0.02
33 14 0.09
34 8 0.05
35 23 0.15
36 12 0.08
37 9 0.06
38 24 0.16
39 21 0.14
40 35 0.23
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
CACAAATGCCTTCGGGTCTTAGCCCGGATATATCACTA
Found at i:47500675 original size:40 final size:40
Alignment explanation
Indices: 47500630--47500797 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
47500620 CGGAATATAA
47500630 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
47500670 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
47500710 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
47500750 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
47500790 CCGGATAT
1 CCGGATAT
47500798 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47500780 original size:80 final size:80
Alignment explanation
Indices: 47500646--47500795 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
47500636 ATAACCACGT
* *
47500646 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
47500711 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
47500726 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
47500789 CCCGGAT
64 CCCGGAT
47500796 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:47515033 original size:16 final size:16
Alignment explanation
Indices: 47515012--47515044 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47515002 GTGTAACGCC
47515012 CCAAAAAACCCAAAAT
1 CCAAAAAACCCAAAAT
*
47515028 CCAAAAACCCCAAAAT
1 CCAAAAAACCCAAAAT
47515044 C
1 C
47515045 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.36, G:0.00, T:0.06
Consensus pattern (16 bp):
CCAAAAAACCCAAAAT
Found at i:47516307 original size:24 final size:24
Alignment explanation
Indices: 47516265--47516319 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
47516255 ATGAATCAGC
* * *
47516265 AAAAGCCAAAATGCCGAAATGCCG
1 AAAAGCCAAAAAGCCGAAATACCA
**
47516289 AAAAGCCAAAAAGTTGAAATACCA
1 AAAAGCCAAAAAGCCGAAATACCA
47516313 AAAAGCC
1 AAAAGCC
47516320 GAAGTTGGGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.53, C:0.22, G:0.16, T:0.09
Consensus pattern (24 bp):
AAAAGCCAAAAAGCCGAAATACCA
Found at i:47516609 original size:29 final size:29
Alignment explanation
Indices: 47516557--47516653 Score: 115
Period size: 29 Copynumber: 3.4 Consensus size: 29
47516547 TTGGGTTTAA
* *
47516557 TGGGCCATATGAATGTGAATTGGGCCTAG
1 TGGGCCATATGAATATAAATTGGGCCTAG
* * * *
47516586 TGGGCCATAAGAATATAAACTGGGCCAAA
1 TGGGCCATATGAATATAAATTGGGCCTAG
* *
47516615 TGGGCCATTTGAATA-AGATTGGGCCTAG
1 TGGGCCATATGAATATAAATTGGGCCTAG
47516643 TGGGCCATATG
1 TGGGCCATATG
47516654 CATGTTTGTA
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
28 19 0.35
29 36 0.65
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGGCCATATGAATATAAATTGGGCCTAG
Found at i:47520744 original size:24 final size:24
Alignment explanation
Indices: 47520710--47520768 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
47520700 ATGAATCGAC
* *
47520710 AAAAGTCGAAATGCCGAAATGCCA
1 AAAAGTTGAAAAGCCGAAATGCCA
* *
47520734 AAAAGTTGAAAAGCTGAAATGCCG
1 AAAAGTTGAAAAGCCGAAATGCCA
*
47520758 AAAAGCTGAAA
1 AAAAGTTGAAA
47520769 GTTGGGCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.49, C:0.15, G:0.22, T:0.14
Consensus pattern (24 bp):
AAAAGTTGAAAAGCCGAAATGCCA
Found at i:47521036 original size:29 final size:29
Alignment explanation
Indices: 47520994--47521074 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 29
47520984 ATATAATTTG
* **
47520994 GGCCTAATGGGCCATATGAATGTGAGTTC
1 GGCCTAGTGGGCCATATGAATGTGAACTC
* * *
47521023 GGCCTAGTGGGCCATAAGAATATGAACTG
1 GGCCTAGTGGGCCATATGAATGTGAACTC
*
47521052 GGCCTAGTGGGCCATATGCATGT
1 GGCCTAGTGGGCCATATGAATGT
47521075 ATGTAGGGGT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (29 bp):
GGCCTAGTGGGCCATATGAATGTGAACTC
Found at i:47528033 original size:29 final size:29
Alignment explanation
Indices: 47527943--47528102 Score: 162
Period size: 29 Copynumber: 5.5 Consensus size: 29
47527933 ACTCGATTTC
* * **
47527943 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
47527972 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** * *
47528000 CGCACACCCAGTGCCGTAAATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
*
47528030 GCACACTTAGTGTCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
47528059 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
47528088 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
47528103 ATCTCGTCAC
Statistics
Matches: 108, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
28 2 0.02
29 105 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:47533575 original size:55 final size:56
Alignment explanation
Indices: 47533510--47533624 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
47533500 AGCATGGCTG
* *
47533510 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
47533566 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
47533621 CCAG
1 CCAG
47533625 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:47533587 original size:27 final size:27
Alignment explanation
Indices: 47533535--47533624 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
47533525 GTGACAGAGT
47533535 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
47533564 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
47533591 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
47533619 CACCAG
1 CACCAG
47533625 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:47533777 original size:28 final size:28
Alignment explanation
Indices: 47533730--47533822 Score: 116
Period size: 28 Copynumber: 3.3 Consensus size: 28
47533720 AAATTAACCC
*
47533730 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
47533758 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
**** *
47533786 TCTCTGTATAATGGTAATATTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
47533814 TAGGGGTAT
1 TAGGGGTAT
47533823 TCTAGTACAT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 1 0.02
28 53 0.98
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:47541068 original size:37 final size:37
Alignment explanation
Indices: 47541022--47541096 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
47541012 CTGATATCTT
*
47541022 CATTTAACCCATCTTCGAATCTCTTACACATGATAGC
1 CATTCAACCCATCTTCGAATCTCTTACACATGATAGC
*
47541059 CATTCAACCCATTTTCGAATCTCTTACACATGATAGC
1 CATTCAACCCATCTTCGAATCTCTTACACATGATAGC
47541096 C
1 C
47541097 TCGGTGGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (37 bp):
CATTCAACCCATCTTCGAATCTCTTACACATGATAGC
Found at i:47552407 original size:46 final size:46
Alignment explanation
Indices: 47552357--47552532 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
47552347 TGGTTGAGCA
47552357 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47552403 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
47552448 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
47552496 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47552533 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47552513 original size:93 final size:93
Alignment explanation
Indices: 47552354--47552524 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
47552344 GGATGGTTGA
* *
47552354 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47552419 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
47552447 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47552512 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
47552525 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47555496 original size:15 final size:15
Alignment explanation
Indices: 47555476--47555544 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
47555466 GTATCTTGGG
47555476 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
47555491 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
47555506 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
47555521 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
47555536 TTTCTTTAT
1 TTTCTTTAT
47555545 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:47555545 original size:30 final size:30
Alignment explanation
Indices: 47555467--47555554 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
47555457 CATAGTATCG
* * * *
47555467 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
47555497 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
47555527 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
47555555 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:47557964 original size:46 final size:46
Alignment explanation
Indices: 47557914--47558089 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
47557904 ATGGTTGGCA
47557914 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47557960 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
47558005 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
47558053 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47558090 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47558069 original size:93 final size:93
Alignment explanation
Indices: 47557910--47558081 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47557900 TAGGATGGTT
* *
47557910 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
47557975 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
47558003 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
47558068 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
47558082 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:47560018 original size:40 final size:40
Alignment explanation
Indices: 47559929--47560205 Score: 402
Period size: 40 Copynumber: 7.0 Consensus size: 40
47559919 TGATAACCGA
* * *
47559929 GCTAAGTCCCGAAGGCA-TTGCGCTAGTGACTAGT-TCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGG
47559968 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
47560008 GCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTA-ATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
47560046 GCTAAGTGCCGAAGGCATTTGTGCGAGATACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
47560086 ACTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
47560126 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* * * *
47560166 GCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
47560206 TTCAATCCCG
Statistics
Matches: 220, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
38 22 0.10
39 49 0.22
40 149 0.68
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:47560136 original size:118 final size:119
Alignment explanation
Indices: 47559929--47560205 Score: 409
Period size: 118 Copynumber: 2.3 Consensus size: 119
47559919 TGATAACCGA
* * *
47559929 GCTAAGTCCCGAAGGCA-TTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GCTAAGTCCCGAAGGCATTTGAGCGAGT-ACTA-TATCCGGACTAAGTCCCGAAGGCATTTGTGC
*
47559992 GAGTTACTATATCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTA-ATCCGG
64 GAGATACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
47560046 GCTAAGTGCCGAAGGCATTTGTGCGAGATACTATATCCGGACTAAGTCCCGAAGGCATTTGTGCG
1 GCTAAGTCCCGAAGGCATTTGAGCGAG-TACTATATCCGGACTAAGTCCCGAAGGCATTTGTGCG
47560111 AGATACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
65 AGATACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* * *
47560166 GCTATGTCCCGAAGGTATTCGAGCGAGTAGCTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGAGCGAGTA-CTATATCCGG
47560206 TTCAATCCCG
Statistics
Matches: 144, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
117 17 0.12
118 71 0.49
119 18 0.12
120 38 0.26
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (119 bp):
GCTAAGTCCCGAAGGCATTTGAGCGAGTACTATATCCGGACTAAGTCCCGAAGGCATTTGTGCGA
GATACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:47568131 original size:40 final size:40
Alignment explanation
Indices: 47568075--47568398 Score: 472
Period size: 40 Copynumber: 8.1 Consensus size: 40
47568065 TGGACGATAA
* *
47568075 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAG-TGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAT-ACTA-TAT
* *
47568115 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
*
47568155 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
* *
47568195 CTGGGCTAAGTCCCGAAGGCATTTGTGTGAGATACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
*
47568235 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGATACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
47568275 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
* *
47568315 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
* * * * * *
47568355 CCGGGCTATGTCCCGAAGGTATTCGAGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
47568395 CCGG
1 CCGG
47568399 TTCAATCCAG
Statistics
Matches: 263, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.00
40 261 0.99
41 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
Found at i:47579549 original size:16 final size:17
Alignment explanation
Indices: 47579520--47579553 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
47579510 GAAACCACCA
47579520 TTCTCTATTCTTCTTCT
1 TTCTCTATTCTTCTTCT
*
47579537 TTCT-TATTTTTCTTCT
1 TTCTCTATTCTTCTTCT
47579553 T
1 T
47579554 CAAAACCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCTCTATTCTTCTTCT
Found at i:47583915 original size:40 final size:39
Alignment explanation
Indices: 47583788--47583955 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 39
47583778 CGGAATATAA
47583788 CCGGATATAATC-ACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* * *
47583828 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
* * *
47583868 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * * *
47583908 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
47583948 CCGGATAT
1 CCGGATAT
47583956 CATTCAATTT
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 104 0.97
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:47583938 original size:80 final size:80
Alignment explanation
Indices: 47583804--47583955 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
47583794 ATAATCACGT
* *
47583804 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
47583869 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
47583884 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGGCTTAG
47583947 CCCGGATAT
64 CCCGGATAT
47583956 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:47590797 original size:29 final size:29
Alignment explanation
Indices: 47590657--47590806 Score: 151
Period size: 30 Copynumber: 5.2 Consensus size: 29
47590647 CACATACCTG
* * * *
47590657 TATATGGCCCACTAGACCC-AATTATATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * * *
47590685 CACATGGCCCATTAGGCCTAAAGCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
47590714 TATATGGCCCCTTTAGGCCTAAATCACATT
1 TATATGG-CCCATTAGGCCCAAATCACATT
* *
47590744 TATATGACCCCTTTAGGCCCAAATCACATT
1 TATATG-GCCCATTAGGCCCAAATCACATT
*
47590774 TATGTGGCCCATTAGGCCCAAATCACA-T
1 TATATGGCCCATTAGGCCCAAATCACATT
47590802 TATAT
1 TATAT
47590807 TCATGCTCAT
Statistics
Matches: 101, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
28 19 0.19
29 30 0.30
30 52 0.51
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:47591049 original size:16 final size:16
Alignment explanation
Indices: 47591024--47591060 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
47591014 AAACTTTTGG
*
47591024 CTTTTTGGCATTTCGA
1 CTTTTCGGCATTTCGA
*
47591040 CTTTTCGGCATTTCGG
1 CTTTTCGGCATTTCGA
47591056 CTTTT
1 CTTTT
47591061 ACCGATCTAC
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:0.08, C:0.22, G:0.19, T:0.51
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:47594829 original size:15 final size:16
Alignment explanation
Indices: 47594793--47594829 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
47594783 ACATATCATT
47594793 TATTTCATTATATCCA
1 TATTTCATTATATCCA
47594809 TATTTCA-TATA-CCA
1 TATTTCATTATATCCA
47594823 TAGTTTC
1 TA-TTTC
47594830 CATGTATTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 8 0.40
16 7 0.35
ACGTcount: A:0.30, C:0.19, G:0.03, T:0.49
Consensus pattern (16 bp):
TATTTCATTATATCCA
Found at i:47596775 original size:30 final size:30
Alignment explanation
Indices: 47596741--47596801 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
47596731 TCCTTAACTC
47596741 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
47596771 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
47596801 A
1 A
47596802 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:47600151 original size:79 final size:80
Alignment explanation
Indices: 47600055--47600202 Score: 219
Period size: 79 Copynumber: 1.9 Consensus size: 80
47600045 CACTAGCTCA
* *
47600055 AAGCCTGCGGAACTTTAAGCCCGG-ATATAGTACCAGCATGAAGCCTGCGAGATTTAACCCGGAT
1 AAGCCTGCGGAACTTTAA-CCCGGTATATAGTACCAGCACGAAGCCTGCGAAATTTAACCCGGAT
47600119 ATATATTACCAACACG
65 ATATATTACCAACACG
* * * *
47600135 AAGCCTGCGGGA-TTTAACCGGGTATATATTACCAGCACGAAGCCTGCGAAATTTAACCCTGATA
1 AAGCCTGCGGAACTTTAACCCGGTATATAGTACCAGCACGAAGCCTGCGAAATTTAACCCGGATA
47600199 TATA
66 TATA
47600203 ATATATCGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
78 4 0.07
79 46 0.75
80 11 0.18
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (80 bp):
AAGCCTGCGGAACTTTAACCCGGTATATAGTACCAGCACGAAGCCTGCGAAATTTAACCCGGATA
TATATTACCAACACG
Found at i:47600174 original size:39 final size:40
Alignment explanation
Indices: 47600055--47600202 Score: 167
Period size: 40 Copynumber: 3.7 Consensus size: 40
47600045 CACTAGCTCA
* * *
47600055 AAGCCTGCGGAACTTTAAGCCC-GG-ATATAGTACCAGCATG
1 AAGCCTGC-GAAATTTAA-CCCGGGTATATATTACCAGCACG
* * *
47600095 AAGCCTGCGAGATTTAACCCGGATATATATTACCAACACG
1 AAGCCTGCGAAATTTAACCCGGGTATATATTACCAGCACG
**
47600135 AAGCCTGCGGGATTTAA-CCGGGTATATATTACCAGCACG
1 AAGCCTGCGAAATTTAACCCGGGTATATATTACCAGCACG
* *
47600174 AAGCCTGCGAAATTTAACCCTGATATATA
1 AAGCCTGCGAAATTTAACCCGGGTATATA
47600203 ATATATCGAG
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
38 3 0.03
39 43 0.47
40 46 0.50
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (40 bp):
AAGCCTGCGAAATTTAACCCGGGTATATATTACCAGCACG
Found at i:47602175 original size:30 final size:31
Alignment explanation
Indices: 47602135--47602197 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
47602125 CCTTTTCATA
47602135 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
47602166 TTTCA-ATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
47602196 TT
1 TT
47602198 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:47602453 original size:24 final size:24
Alignment explanation
Indices: 47602389--47602505 Score: 179
Period size: 23 Copynumber: 5.0 Consensus size: 24
47602379 GCTTTATCAT
*
47602389 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
47602414 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47602437 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47602460 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47602483 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
47602506 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
23 64 0.73
24 16 0.18
25 8 0.09
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:47602582 original size:20 final size:20
Alignment explanation
Indices: 47602559--47602601 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
47602549 GAACATCTCG
47602559 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
47602579 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
47602599 TGT
1 TGT
47602602 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:47602670 original size:25 final size:25
Alignment explanation
Indices: 47602638--47602685 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47602628 ATGTATAAAC
* * *
47602638 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
47602663 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
47602686 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:47610189 original size:30 final size:31
Alignment explanation
Indices: 47610149--47610211 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
47610139 CCTTTTCATA
47610149 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
47610180 TTTCA-ATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
47610210 TT
1 TT
47610212 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:47610451 original size:24 final size:24
Alignment explanation
Indices: 47610404--47610544 Score: 211
Period size: 23 Copynumber: 6.0 Consensus size: 24
47610394 GCTTTATCAT
*
47610404 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
47610429 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
47610453 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47610476 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47610500 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
47610522 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
47610545 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 1, Indels: 13
0.89 0.01 0.11
Matches are distributed among these distances:
22 10 0.09
23 48 0.44
24 37 0.34
25 14 0.13
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:47610621 original size:20 final size:20
Alignment explanation
Indices: 47610598--47610640 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
47610588 GAACATCTCG
47610598 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
47610618 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
47610638 TGT
1 TGT
47610641 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:47610703 original size:25 final size:25
Alignment explanation
Indices: 47610675--47610722 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47610665 TCATATAAAC
* * *
47610675 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
47610700 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
47610723 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:47616110 original size:68 final size:66
Alignment explanation
Indices: 47616038--47616209 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
47616028 CATCATGTGT
* * * *
47616038 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
47616101 TGTAG
62 TGTAG
** * *
47616106 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
47616171 AG
65 AG
* * * *
47616173 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
47616210 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:47616143 original size:64 final size:64
Alignment explanation
Indices: 47616062--47616245 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
47616052 AGACATTATG
* * *
47616062 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
47616126 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
47616191 AA
63 AA
* * *
47616193 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
47616246 CGAACTCTAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:47630866 original size:40 final size:40
Alignment explanation
Indices: 47630822--47630979 Score: 246
Period size: 40 Copynumber: 4.0 Consensus size: 40
47630812 CCGGATATAG
*
47630822 TACCAGCACT-AAGCCTGCGGGATTTAACCCAGATATACTT
1 TACCAGCA-TGAAGCCTGCGGGATTTAACCCGGATATACTT
*
47630862 TACCAGCATGAAGCCTGCGGAATTTAACCCGGATATACTT
1 TACCAGCATGAAGCCTGCGGGATTTAACCCGGATATACTT
*
47630902 TACCAGCATGAAGCCTGCGGGATTTAACCCGGATATACAT
1 TACCAGCATGAAGCCTGCGGGATTTAACCCGGATATACTT
* * *
47630942 TACTAGCACGATGCCTGCGGGATTTAACCCGGATATAC
1 TACCAGCATGAAGCCTGCGGGATTTAACCCGGATATAC
47630980 ATTATATTGA
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 109 0.99
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
TACCAGCATGAAGCCTGCGGGATTTAACCCGGATATACTT
Found at i:47635646 original size:48 final size:48
Alignment explanation
Indices: 47635515--47635662 Score: 212
Period size: 47 Copynumber: 3.1 Consensus size: 48
47635505 AATGTCTCAT
47635515 ATCA-ATGCCAATGCCAATGCCATATCCCAGATATGGTCTTACATGGG
1 ATCACATGCCAATGCCAATGCCATATCCCAGATATGGTCTTACATGGG
* * *
47635562 ATCACATGTC-ATGCCAATGTCATATCCCAAATATGGTCTTACATGGG
1 ATCACATGCCAATGCCAATGCCATATCCCAGATATGGTCTTACATGGG
* * *
47635609 ATCACATGCCAATGCCAATGCCATGTTCCAGACATGGTCTTGA-ATGGG
1 ATCACATGCCAATGCCAATGCCATATCCCAGATATGGTCTT-ACATGGG
47635657 ATCACA
1 ATCACA
47635663 CATAACCCTA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
47 48 0.54
48 40 0.45
49 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
ATCACATGCCAATGCCAATGCCATATCCCAGATATGGTCTTACATGGG
Found at i:47640827 original size:27 final size:27
Alignment explanation
Indices: 47640622--47640826 Score: 268
Period size: 27 Copynumber: 7.6 Consensus size: 27
47640612 AAAGTACCTC
* *
47640622 CGATTTACAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCATTTTACCCT
* *
47640649 CGATTTACATAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCATTTTACCCT
* *
47640675 CTGATTTACATAATTATCATTTTACCCT
1 C-GATTTACAGAATTACCATTTTACCCT
*
47640703 CGACTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
47640730 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* * *
47640757 TGATTTATAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* **
47640784 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
*
47640811 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
47640827 TAAAATACCC
Statistics
Matches: 162, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 160 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCATTTTACCCT
Found at i:47640835 original size:27 final size:27
Alignment explanation
Indices: 47640516--47640972 Score: 147
Period size: 27 Copynumber: 16.9 Consensus size: 27
47640506 AATACTTTAG
* * *
47640516 TTTACTAAAATTACCGAAATACCCTTAGT
1 TTTAC-AAAATTACCAAAATACCC-TCGA
**
47640545 TTGTA-AAAA-TACTGAAATACCCTCGA
1 TT-TACAAAATTACCAAAATACCCTCGA
** ** *
47640571 TTTGTAAAATTACTGAAATACCTTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ** *
47640598 CTTGTAAAATTACCAAAGTA-CCTCCGA
1 TTTACAAAATTACCAAAATACCCT-CGA
* **** *
47640625 TTTACAGAATTACCGTTTTACCCCCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ****
47640652 TTTACATAATTACCGTTTTACCC-CTGA
1 TTTACAAAATTACCAAAATACCCTC-GA
* * ***
47640679 TTTACATAATTATCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * ***
47640706 CTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* *** *
47640733 TTTACAGAATTACCATTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * * *** *
47640760 TTTATAGAATTACTATTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGA
* *****
47640787 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* *
47640814 TTTACAAAATTACTAAAATACCCT-TA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
47640840 GTTTGTAAAATTACCAAAATACCC-CTA
1 -TTTACAAAATTACCAAAATACCCTCGA
** * *
47640867 GTTTGTAAAATTACCAAAATACCCTTGG
1 -TTTACAAAATTACCAAAATACCCTCGA
*** * *
47640895 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
**
47640922 TTTGTAAAATTACCAAAATACCC-CTGA
1 TTTACAAAATTACCAAAATACCCTC-GA
*
47640949 TTTACAAAGTTA-CAGAAATACCCT
1 TTTACAAAATTACCA-AAATACCCT
47640973 TGACTTTCTA
Statistics
Matches: 360, Mismatches: 55, Indels: 27
0.81 0.12 0.06
Matches are distributed among these distances:
25 1 0.00
26 15 0.04
27 333 0.93
28 7 0.02
29 2 0.01
30 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:47640838 original size:81 final size:81
Alignment explanation
Indices: 47640622--47640826 Score: 295
Period size: 81 Copynumber: 2.5 Consensus size: 81
47640612 AAAGTACCTC
* * * * *
47640622 CGATTTACAGAATTACCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCCTGATTTACATA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTACAGA
47640687 ATTATCATTTTACCCT
66 ATTATCATTTTACCCT
* * * *
47640703 CGACTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTATAGA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTACAGA
47640768 ATTA-CTATTTTACCCT
66 ATTATC-ATTTTACCCT
* *
47640784 TGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTAC
47640827 TAAAATACCC
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 109 0.99
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
CGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTACAGA
ATTATCATTTTACCCT
Found at i:47640863 original size:54 final size:54
Alignment explanation
Indices: 47640805--47640944 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
47640795 ATTACTGTTT
* ** *
47640805 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
47640859 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
47640913 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
47640945 CTGATTTACA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:47640863 original size:81 final size:81
Alignment explanation
Indices: 47640562--47640863 Score: 250
Period size: 81 Copynumber: 3.7 Consensus size: 81
47640552 AATACTGAAA
** ** * *
47640562 TACCCTCGATTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTACCAAAGTA-CCTCCGA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTT-GATTTGTAAAATTACCAAATTACCCT-CGA
47640625 TTTACAGAATTACCGTTT
64 TTTACAGAATTACCGTTT
* * **** * ** * * ** *
47640643 TACCCCCGATTTACATAATTACCGTTTTACCCCTGATTTACATAATTATCATTTTACCCTCGACT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAATTACCCTCGATT
*
47640708 TACAGAATTACCATTT
66 TACAGAATTACCGTTT
* *** * * * ** *
47640724 TACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAATTACCCTCGATT
*
47640789 TACAGAATTACTGTTT
66 TACAGAATTACCGTTT
* *
47640805 TACCCTCGATTTACAAAATTACTAAAATACCCTT-AGTTTGTAAAATTACCAAAATACCC
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTGA-TTTGTAAAATTACCAAATTACCC
47640864 CTAGTTTGTA
Statistics
Matches: 176, Mismatches: 42, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
80 1 0.01
81 169 0.96
82 6 0.03
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAATTACCCTCGATT
TACAGAATTACCGTTT
Found at i:47640968 original size:81 final size:81
Alignment explanation
Indices: 47640820--47640974 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
47640810 TCGATTTACA
* * * *
47640820 AAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAA
47640885 ATACCCTTGGTTTGTG
66 ATACCCTTGGTTTGTG
*
47640901 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CA
1 AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACCA
47640963 GAAATACCCTTG
64 -AAATACCCTTG
47640975 ACTTTCTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
79 2 0.03
80 8 0.12
81 56 0.85
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAA
ATACCCTTGGTTTGTG
Found at i:47641151 original size:27 final size:27
Alignment explanation
Indices: 47641087--47641151 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
47641077 ACCTCTATTA
* *
47641087 GGTAAAAAGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
47641114 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
47641141 GGTAAAATGAC
1 GGTAAAATGAC
47641152 GAATATGCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:47642339 original size:25 final size:25
Alignment explanation
Indices: 47642310--47642357 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47642300 TTATAATATG
* * *
47642310 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
47642335 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
47642358 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:47642408 original size:9 final size:9
Alignment explanation
Indices: 47642396--47642472 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
47642386 TTTGATAAAC
47642396 ATGATATGT
1 ATGATATGT
*
47642405 ATGATATGCAC
1 ATGATATG--T
47642416 ATGATATGT
1 ATGATATGT
*
47642425 ATGATATGCAC
1 ATGATATG--T
*
47642436 ATGACATGT
1 ATGATATGT
*
47642445 ATGATATGCAC
1 ATGATATG--T
47642456 ATGATATGT
1 ATGATATGT
47642465 ATGATATG
1 ATGATATG
47642473 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:47642421 original size:11 final size:11
Alignment explanation
Indices: 47642405--47642476 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
47642395 CATGATATGT
47642405 ATGATATGCAC
1 ATGATATGCAC
*
47642416 ATGATATG--T
1 ATGATATGCAC
47642425 ATGATATGCAC
1 ATGATATGCAC
* *
47642436 ATGACATG--T
1 ATGATATGCAC
47642445 ATGATATGCAC
1 ATGATATGCAC
*
47642456 ATGATATG--T
1 ATGATATGCAC
47642465 ATGATATGCAC
1 ATGATATGCAC
47642476 A
1 A
47642477 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:47642484 original size:20 final size:20
Alignment explanation
Indices: 47642394--47642476 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
47642384 ATTTTGATAA
47642394 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
47642414 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
47642434 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
47642454 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
47642474 ACA
1 ACA
47642477 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:47642634 original size:23 final size:24
Alignment explanation
Indices: 47642531--47642719 Score: 278
Period size: 24 Copynumber: 8.0 Consensus size: 24
47642521 AGGAAGTGCA
*
47642531 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
47642555 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
47642579 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
**
47642603 AAAAGGGCTTATGCCATAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
47642627 -AAAGGGCTTATGCACCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
47642650 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
47642673 AAAAGGGCTT-TGCCCCAGTTGTT
1 AAAAGGGCTTATGCCCCAGTTATT
*
47642696 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
47642720 ATGATAAAGC
Statistics
Matches: 151, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
23 60 0.40
24 84 0.56
25 7 0.05
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:47642947 original size:31 final size:31
Alignment explanation
Indices: 47642912--47642975 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
47642902 CGTTTATAGT
*
47642912 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
47642943 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
47642974 AA
1 AA
47642976 TATGAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:47642974 original size:7 final size:7
Alignment explanation
Indices: 47642962--47642989 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
47642952 GGCCCAGTGT
47642962 TATGAAA
1 TATGAAA
47642969 TATGAAA
1 TATGAAA
47642976 TATGAAA
1 TATGAAA
47642983 TATGAAA
1 TATGAAA
47642990 AGGGCTATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Done.