Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 39 of 240
Found at i:13749049 original size:14 final size:14
Alignment explanation
Indices: 13749011--13749050 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13749001 ACAAAAAAGT
*
13749011 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
13749025 AAATCATTTTACGG
1 AAAACATTTTACAG
13749039 AAAACATTTTAC
1 AAAACATTTTAC
13749051 TGACAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:13750414 original size:32 final size:32
Alignment explanation
Indices: 13750370--13750433 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
13750360 AATTAAACAG
* *
13750370 TATGAGTTATTAAATTTAATTAATTAATTTAT
1 TATGAGTTATTAAATTTAACTAATCAATTTAT
*
13750402 TATGGGTTATTAAATTTAACTAATCAATTTAT
1 TATGAGTTATTAAATTTAACTAATCAATTTAT
13750434 AATGTTCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (32 bp):
TATGAGTTATTAAATTTAACTAATCAATTTAT
Found at i:13767733 original size:21 final size:21
Alignment explanation
Indices: 13767709--13767751 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13767699 GGTTCGCTGT
*
13767709 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
13767730 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
13767751 A
1 A
13767752 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:13767751 original size:16 final size:16
Alignment explanation
Indices: 13767732--13767764 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13767722 TGTATTGGAT
*
13767732 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
13767748 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
13767764 T
1 T
13767765 AGCAAATCAA
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:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:13767809 original size:45 final size:44
Alignment explanation
Indices: 13767743--13767837 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
13767733 GGATTAGAGG
* * *
13767743 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTAGTTGAA
* **
13767788 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTAGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTAGTTGAA
13767832 TGTAAT
1 TGTAAT
13767838 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTAGTTGAA
Found at i:13768020 original size:18 final size:17
Alignment explanation
Indices: 13767999--13768033 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13767989 TTATTATTTA
*
13767999 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13768017 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13768034 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13768027 original size:28 final size:27
Alignment explanation
Indices: 13767957--13768029 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
13767947 TTTATTATCA
*
13767957 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
13767985 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
13768012 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
13768030 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:13768146 original size:144 final size:147
Alignment explanation
Indices: 13767918--13768189 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
13767908 ATGATTATTG
13767918 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
13767983 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
13768048 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
* *
13768067 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAT
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
13768129 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
13768190 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 91 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:13768165 original size:18 final size:17
Alignment explanation
Indices: 13768143--13768177 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13768133 TTATTATTAA
*
13768143 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13768161 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13768178 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13768221 original size:54 final size:54
Alignment explanation
Indices: 13768163--13768341 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
13768153 ATTAAAATAT
*
13768163 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
13768217 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
13768280 TAT
53 -AC
*
13768283 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
13768337 ATAAT
1 ATAAT
13768342 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:13768237 original size:61 final size:61
Alignment explanation
Indices: 13768158--13768348 Score: 178
Period size: 61 Copynumber: 3.2 Consensus size: 61
13768148 TTTTAATTAA
* * *
13768158 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATGATCTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
13768219 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATGAT-CTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
* *
13768278 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATGATCTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
13768339 AATATATGAT
1 AATATATGAT
13768349 TATAACTAAT
Statistics
Matches: 96, Mismatches: 24, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
58 6 0.06
59 29 0.30
60 16 0.17
61 39 0.41
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (61 bp):
AATATATGATCTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:13768259 original size:120 final size:120
Alignment explanation
Indices: 13768129--13768348 Score: 413
Period size: 120 Copynumber: 1.8 Consensus size: 120
13768119 ATATTTAAAT
* *
13768129 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
13768194 TCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAATAAC
66 TCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAATAAC
13768249 ATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
13768314 TCTTATATGAATTTACTCAAATCATAATATATGAT
66 TCTTATATGAATTTACTCAAACCATAATATATGAT
13768349 TATAACTAAT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAATAAC
Found at i:13768284 original size:18 final size:17
Alignment explanation
Indices: 13768263--13768297 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13768253 TTATTATTAA
13768263 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
13768281 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
13768298 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:13768360 original size:17 final size:16
Alignment explanation
Indices: 13768338--13768384 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
13768328 ACTCAAATCA
13768338 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
13768355 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
13768369 TAAATATATGATTTAA
1 T-AATATATGATTTAA
13768385 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:13768385 original size:17 final size:17
Alignment explanation
Indices: 13768357--13768390 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13768347 ATTATAACTA
*
13768357 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
13768374 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
13768391 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:13768533 original size:93 final size:92
Alignment explanation
Indices: 13768423--13768617 Score: 277
Period size: 93 Copynumber: 2.1 Consensus size: 92
13768413 GATTATAGTT
* * *
13768423 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* * *
13768486 ATAAAATTCTTGATAGTAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
13768516 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
13768581 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
13768608 TATGAATTTA
1 TATGAATTTA
13768618 CTAAAATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
92 21 0.23
93 67 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:13772288 original size:16 final size:16
Alignment explanation
Indices: 13772267--13772303 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
13772257 TTGGTTCGCT
13772267 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
13772283 GTAATGGATTAGAGGC
1 GTAATGGAATAGAGGC
13772299 GTAAT
1 GTAAT
13772304 AACAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.35, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:13772558 original size:18 final size:17
Alignment explanation
Indices: 13772537--13772571 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13772527 TTATTATTAA
*
13772537 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13772555 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13772572 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13772618 original size:61 final size:60
Alignment explanation
Indices: 13772552--13773100 Score: 200
Period size: 61 Copynumber: 9.1 Consensus size: 60
13772542 TTTTAATTAA
* *
13772552 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGGATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAAT-AATATTATTATATGAATTTACTAAAATCAT
* * * * *
13772613 AATATATGATATT-ATAAAATATAATTTGA-AATAATTATTATTAAAT-ATATTT--T--AATTA
1 AATATATAAT-TTAATAAAAT-T--CTTAATAATAA-TATTATTATATGA-ATTTACTAAAATCA
*
13772671 A
60 T
* * *
13772672 AATATATAATTTAATAAAATTCTTAGTATTAAATATTTTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAAT-AATATTATTATATGAATTTACTAAAATCAT
* * * * * *
13772733 AATATATGATACT-ATAAAATATAATTTGA-AATAATAATTATTAAAT-ATATTT--T--AATTA
1 AATATATAAT-TTAATAAAAT-T--CTTAATAATAAT-ATTATTATATGA-ATTTACTAAAATCA
*
13772791 A
60 T
* * * * * *
13772792 AATTTATAATTTAATAAAGTTTTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAAT-AATATTATTATATGAATTTACTAAAATCAT
* * * * * *
13772853 AATATATGATACT-ATAAAATATAATTTGA-AATAATAATTATTAAAT-ATATTT--T--AATTA
1 AATATATAAT-TTAATAAAAT-T--CTTAATAATAAT-ATTATTATATGA-ATTTACTAAAATCA
*
13772911 A
60 T
* * * * * *
13772912 AATTTATAATTTAATAAAGTTTTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAAT-AATATTATTATATGAATTTACTAAAATCAT
* * * * * *
13772973 AATATATGATACT-ATAAAATATAATTTGA-AATAATAATTATTAAAT-ATATTT--T--AATTA
1 AATATATAAT-TTAATAAAAT-T--CTTAATAATAAT-ATTATTATATGA-ATTTACTAAAATCA
*
13773031 A
60 T
* * * * *
13773032 AATTTATAATTTAATAAAATTTTTAGTATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAAT-AATATTATTATATGAATTTACTAAAATCAT
13773093 AATATATA
1 AATATATA
13773101 GTACTATAAA
Statistics
Matches: 350, Mismatches: 82, Indels: 112
0.64 0.15 0.21
Matches are distributed among these distances:
56 11 0.03
57 57 0.16
58 24 0.07
59 79 0.23
61 87 0.25
62 23 0.07
63 58 0.17
64 11 0.03
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATAATAATATTATTATATGAATTTACTAAAATCAT
Found at i:13772636 original size:22 final size:24
Alignment explanation
Indices: 13772591--13772637 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
13772581 TCAATATTCT
13772591 TATATGGATTTACTAAAATCATAA
1 TATATGGATTTACTAAAATCATAA
13772615 TATAT-GATATTA-TAAAAT-ATAA
1 TATATGGAT-TTACTAAAATCATAA
13772637 T
1 T
13772638 TTGAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.40
Consensus pattern (24 bp):
TATATGGATTTACTAAAATCATAA
Found at i:13772678 original size:18 final size:17
Alignment explanation
Indices: 13772657--13772691 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13772647 TTATTATTAA
*
13772657 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
13772675 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
13772692 TCTTAGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:13772736 original size:120 final size:120
Alignment explanation
Indices: 13772523--13773159 Score: 1080
Period size: 120 Copynumber: 5.3 Consensus size: 120
13772513 ATATTTTAAC
* * * * *
13772523 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAGTATTAAATAT
* *
13772588 TCTTATATGGATTTACTAAAATCATAATATATGATATTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
* *
13772643 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAGTATTAAATAT
1 ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAGTATTAAATAT
*
13772708 TTTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
* *
13772763 ATAATAATTATTAAATATATTTTAATTAAAATTTATAATTTAATAAAGTTTTTAGTATTAAATAT
1 ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAGTATTAAATAT
13772828 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
* *
13772883 ATAATAATTATTAAATATATTTTAATTAAAATTTATAATTTAATAAAGTTTTTAGTATTAAATAT
1 ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAGTATTAAATAT
13772948 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
*
13773003 ATAATAATTATTAAATATATTTTAATTAAAATTTATAATTTAATAAAATTTTTAGTATTAAATAT
1 ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAGTATTAAATAT
*
13773068 TCTTATATGAATTTACTAAAATCATAATATAT-AGTACTATAAAATATAATTTAAA
66 TCTTATATGAATTTACTAAAATCATAATATATGA-TACTATAAAATATAATTTGAA
* **
13773123 ATAATTATTATTAAATATAACTTAA-TAAAATATATAA
1 ATAATAATTATTAAATATATTTTAATTAAAATATATAA
13773160 ATTCTTAACA
Statistics
Matches: 499, Mismatches: 17, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
119 12 0.02
120 487 0.98
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (120 bp):
ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTTTTAGTATTAAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:13773063 original size:18 final size:18
Alignment explanation
Indices: 13773018--13773053 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13773008 AATTATTAAA
*
13773018 TATATTTTAATTAAAATT
1 TATAATTTAATTAAAATT
13773036 TATAATTTAA-TAAAATT
1 TATAATTTAATTAAAATT
13773053 T
1 T
13773054 TTAGTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATAATTTAATTAAAATT
Found at i:13774522 original size:31 final size:32
Alignment explanation
Indices: 13774484--13774546 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
13774474 AGGCAAATTA
*
13774484 CAAGAGTAATTG-AATCTTAATAAAACTCTTT
1 CAAGAGTAATTGAAATCCTAATAAAACTCTTT
13774515 CAAGAGTAATTGAAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAAATCCTAATAAAACTCTTT
13774547 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (32 bp):
CAAGAGTAATTGAAATCCTAATAAAACTCTTT
Found at i:13780116 original size:18 final size:18
Alignment explanation
Indices: 13780095--13780138 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
13780085 TTTTTTGCAG
13780095 TTTTTTTTCGTTTTTTAC
1 TTTTTTTTCGTTTTTTAC
* *
13780113 TTTTTTTTCTTTTTTTGC
1 TTTTTTTTCGTTTTTTAC
13780131 TTTTTTTT
1 TTTTTTTT
13780139 AAAATAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.02, C:0.09, G:0.05, T:0.84
Consensus pattern (18 bp):
TTTTTTTTCGTTTTTTAC
Found at i:13780698 original size:31 final size:32
Alignment explanation
Indices: 13780663--13780725 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
13780653 AGGTAAATTA
13780663 CAAGAGTAATTG-AATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAAATCCTAATAAAACTCTTT
13780694 CAAGAGTAATTGAAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAAATCCTAATAAAACTCTTT
13780726 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAAATCCTAATAAAACTCTTT
Found at i:13787643 original size:14 final size:14
Alignment explanation
Indices: 13787624--13787654 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13787614 GGCTTCCTCT
13787624 TATAAGCATTTTAA
1 TATAAGCATTTTAA
*
13787638 TATAAGTATTTTAA
1 TATAAGCATTTTAA
13787652 TAT
1 TAT
13787655 TATTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (14 bp):
TATAAGCATTTTAA
Found at i:13788099 original size:16 final size:18
Alignment explanation
Indices: 13788079--13788119 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
13788069 CTAAAAAATA
13788079 AATATTAC-AAAAA-AAT
1 AATATTACTAAAAATAAT
*
13788095 TATATTTACTAAAAATAAT
1 AATA-TTACTAAAAATAAT
13788114 AATATT
1 AATATT
13788120 TGTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 3 0.15
17 4 0.20
18 7 0.35
19 6 0.30
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATTACTAAAAATAAT
Found at i:13788103 original size:17 final size:19
Alignment explanation
Indices: 13788071--13788120 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
13788061 GATATGGACT
13788071 AAAA-AATAA-ATATTAC-A
1 AAAATAATAATAT-TTACTA
*
13788088 AAAA-AATTATATTTACTA
1 AAAATAATAATATTTACTA
13788106 AAAATAATAATATTT
1 AAAATAATAATATTT
13788121 GTAATAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 12 0.43
18 7 0.25
19 9 0.32
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATAATAATATTTACTA
Found at i:13792141 original size:51 final size:51
Alignment explanation
Indices: 13792080--13792230 Score: 277
Period size: 51 Copynumber: 3.0 Consensus size: 51
13792070 AAATTAAAAG
13792080 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
13792131 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
*
13792182 ATTATACATACACCAGCAATGTTTTTTAGGG-ACAATAACATTAAACCAA
1 ATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAA
13792231 TAAGTAATTT
Statistics
Matches: 98, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
50 1 0.01
51 97 0.99
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:13792263 original size:33 final size:33
Alignment explanation
Indices: 13792180--13792289 Score: 118
Period size: 33 Copynumber: 3.3 Consensus size: 33
13792170 ATTAAACCAA
* * *
13792180 CAATTATACATACACCAGCAATGT-TTTTTAGGGA
1 CAATTATACATACACCAACAA-GTAATTTTA-GGT
* *
13792214 CAA-TA-ACATTAAACCAATAAGTAATTTTAGGT
1 CAATTATACA-TACACCAACAAGTAATTTTAGGT
*
13792246 CAATTATACATACACCAACAATTAATTTTAGGT
1 CAATTATACATACACCAACAAGTAATTTTAGGT
13792279 CAATTATACAT
1 CAATTATACAT
13792290 GCTTTATAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
32 10 0.16
33 48 0.75
34 6 0.09
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (33 bp):
CAATTATACATACACCAACAAGTAATTTTAGGT
Found at i:13795512 original size:120 final size:120
Alignment explanation
Indices: 13795311--13796415 Score: 1998
Period size: 120 Copynumber: 9.2 Consensus size: 120
13795301 TTTTCAAGTT
13795311 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
13795376 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
13795431 ATACATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
13795496 TAATATAAGAACATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
13795551 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
13795616 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
13795671 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
13795736 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
13795791 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
13795856 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
13795911 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
13795976 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
13796031 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
13796096 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
13796152 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
13796217 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
13796273 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
13796338 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
13796393 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
13796416 TAAATATGAT
Statistics
Matches: 967, Mismatches: 15, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
119 2 0.00
120 729 0.75
121 234 0.24
122 2 0.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:13796392 original size:18 final size:17
Alignment explanation
Indices: 13796364--13796398 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13796354 ATTATTAAGA
*
13796364 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13796381 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13796399 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:13796612 original size:44 final size:45
Alignment explanation
Indices: 13796563--13796653 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
13796553 ACCTCTATTC
* * *
13796563 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
13796607 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
13796652 CA
1 CA
13796654 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:13796655 original size:16 final size:16
Alignment explanation
Indices: 13796634--13796702 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
13796624 GATTAGCTAT
13796634 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13796650 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
13796667 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
13796683 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
13796699 TACA
1 TACA
13796703 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:13796676 original size:33 final size:32
Alignment explanation
Indices: 13796634--13796702 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
13796624 GATTAGCTAT
13796634 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
13796667 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
13796699 TACA
1 TACA
13796703 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:13806311 original size:6 final size:6
Alignment explanation
Indices: 13806302--13806328 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13806292 GTTATATATT
13806302 AATTTA AATTTA AATTTA AATTTA AAT
1 AATTTA AATTTA AATTTA AATTTA AAT
13806329 CTATAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTTA
Found at i:13812078 original size:124 final size:124
Alignment explanation
Indices: 13811726--13812121 Score: 499
Period size: 126 Copynumber: 3.2 Consensus size: 124
13811716 TAAGGCCAAA
* * *
13811726 CAGGAACTACTGTAGAAAAATAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACT-GTG
1 CAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGA-TAGTG
* * * * ** *
13811790 CATACTGCTTGAAGCATTTTTGGCACTAATTTTTCAAAATTGTCTTCTCAAAATTATTTTTT
65 CATCCTGCTTGAAGCATTTTTGACA-TTATTTTTCAGAACCGTATTCTCAAAATTA-TTTTT
* *
13811852 CAAGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGATAGTGC
1 CAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGC
* * *
13811917 ATCCTGCTTGAAGCATTTTTGAAACTATTTTTCCAGAACCGTGTTCTCAAAATTATTTTT
66 ATCCTGCTTGAAGCATTTTTGACATTATTTTT-CAGAACCGTATTCTCAAAATTATTTTT
* * * * *
13811977 CAGGAACTACTGTAGAAAAAGAGTGTCCACATGGTAG-TTTTTTCAATCATTTTGCTGATAGTAC
1 CAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGC
*
13812041 ATCCTGCTTGAAGCGTTTTTGACATTATCTTTTCAGAACCGTATTCTCAAAATTAATTTTT
66 ATCCTGCTTGAAGCATTTTTGACATTAT-TTTTCAGAACCGTATTCTCAAAATT-ATTTTT
** * *
13812102 GTGAAACTACTGTAAAAAAA
1 CAGGAACTACTGTAGAAAAA
13812122 ATAAAATCCT
Statistics
Matches: 237, Mismatches: 29, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
124 68 0.29
125 72 0.30
126 97 0.41
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (124 bp):
CAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGC
ATCCTGCTTGAAGCATTTTTGACATTATTTTTCAGAACCGTATTCTCAAAATTATTTTT
Found at i:13812233 original size:34 final size:33
Alignment explanation
Indices: 13812176--13812309 Score: 162
Period size: 34 Copynumber: 3.9 Consensus size: 33
13812166 CTAAACACAA
*
13812176 AATTATTTTAAAAA-ACTAAACCCTAATTTAATT
1 AATT-TTTTAAAAACTCTAAACCCTAATTTAATT
13812209 AATTTTCTTAAAAACTCTAAACCCTAATTTAATT
1 AATTTT-TTAAAAACTCTAAACCCTAATTTAATT
* * * *
13812243 TATTTATTTAAAACCCCTAAAACCTAATTTAATT
1 AATTT-TTTAAAAACTCTAAACCCTAATTTAATT
13812277 ATTATTTTTTAAAAAACTCTAAACCCTAATTTA
1 A--ATTTTTT-AAAAACTCTAAACCCTAATTTA
13812310 TGTTTTTAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
32 2 0.02
33 11 0.13
34 46 0.53
35 4 0.05
36 23 0.27
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (33 bp):
AATTTTTTAAAAACTCTAAACCCTAATTTAATT
Found at i:13812250 original size:68 final size:69
Alignment explanation
Indices: 13812182--13812309 Score: 190
Period size: 70 Copynumber: 1.9 Consensus size: 69
13812172 ACAAAATTAT
*
13812182 TTTAAAA-AACTAAACCCTAATTTAATTA-ATTTTCTT-AAAAACTCTAAACCCTAATTTAATTT
1 TTTAAAACAACTAAAACCTAATTTAATTATATTTT-TTAAAAAACTCTAAACCCTAATTTAATTT
13812244 ATTTA
65 ATTTA
**
13812249 TTTAAAACCCCTAAAACCTAATTTAATTATTATTTTTTAAAAAACTCTAAACCCTAATTTA
1 TTTAAAACAACTAAAACCTAATTTAATTA-TATTTTTTAAAAAACTCTAAACCCTAATTTA
13812310 TGTTTTTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
67 7 0.13
68 18 0.33
69 2 0.04
70 27 0.50
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (69 bp):
TTTAAAACAACTAAAACCTAATTTAATTATATTTTTTAAAAAACTCTAAACCCTAATTTAATTTA
TTTA
Found at i:13812310 original size:29 final size:29
Alignment explanation
Indices: 13812278--13812334 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
13812268 AATTTAATTA
13812278 TTAT-TTTTTAAAAAACTCTAAACCCTAAT
1 TTATGTTTTTAAAAAACT-TAAACCCTAAT
**
13812307 TTATGTTTTTAAAATTCTTAAACCCTAA
1 TTATGTTTTTAAAAAACTTAAACCCTAA
13812335 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.44
Consensus pattern (29 bp):
TTATGTTTTTAAAAAACTTAAACCCTAAT
Found at i:13815451 original size:25 final size:24
Alignment explanation
Indices: 13815417--13815488 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
13815407 TGTATTGTTT
*
13815417 ATATTATGTTTTTGTTATTTTTTTA
1 ATATAATGTTTTT-TTATTTTTTTA
* *
13815442 TTA-ACATGTTATTTTTATTATTTTA
1 ATATA-ATGTT-TTTTTATTTTTTTA
*
13815467 ATATAATTTTTTTTTATTTTTT
1 ATATAATGTTTTTTTATTTTTT
13815489 ATGTAGGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
24 11 0.29
25 23 0.61
26 4 0.11
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.71
Consensus pattern (24 bp):
ATATAATGTTTTTTTATTTTTTTA
Found at i:13821896 original size:16 final size:18
Alignment explanation
Indices: 13821870--13821904 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
13821860 AAAAATTTCT
13821870 AAAGTTATATTATA-AAA
1 AAAGTTATATTATATAAA
13821887 AAAG-TATATTATATAAA
1 AAAGTTATATTATATAAA
13821904 A
1 A
13821905 TAATGTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (18 bp):
AAAGTTATATTATATAAA
Found at i:13825386 original size:2 final size:2
Alignment explanation
Indices: 13825379--13825411 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
13825369 AGCGAAAAAT
13825379 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13825412 TGGAGAGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13835255 original size:69 final size:69
Alignment explanation
Indices: 13835172--13835313 Score: 203
Period size: 69 Copynumber: 2.1 Consensus size: 69
13835162 CTGTTCTGGA
* ** *
13835172 TGAAAGTACTAGTACTATGACTGATTCTCAAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
1 TGAAAGTACAAGTACTATGAAGGATTCCCAAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
*
13835237 CGGT
66 CAGT
* * * *
13835241 TGAAAGTAGAAGTACTATGAAGGATTCCCTAGTGGTGTTGGATGAGGATTCACCAACCATGGATG
1 TGAAAGTACAAGTACTATGAAGGATTCCCAAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
13835306 CAGT
66 CAGT
13835310 TGAA
1 TGAA
13835314 GTTGCCATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (69 bp):
TGAAAGTACAAGTACTATGAAGGATTCCCAAGTAGTGTTGGATGAGGATTCACCAACCATGGACG
CAGT
Found at i:13836807 original size:19 final size:19
Alignment explanation
Indices: 13836772--13836817 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
13836762 AATTTAGTTG
13836772 ATATTTTT--TATTAATAT
1 ATATTTTTAATATTAATAT
*
13836789 ATATTTTTAATATTTATAT
1 ATATTTTTAATATTAATAT
13836808 -TATTATTTAA
1 ATATT-TTTAA
13836818 ATGTTTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 8 0.32
18 4 0.16
19 13 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTTTTAATATTAATAT
Found at i:13848835 original size:3 final size:3
Alignment explanation
Indices: 13848829--13848858 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
13848819 TGTTGTTTAG
*
13848829 TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13848859 CCTTACTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:13849118 original size:15 final size:15
Alignment explanation
Indices: 13849095--13849126 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13849085 TGTTTATATA
*
13849095 TTATGTTATTTTATT
1 TTATCTTATTTTATT
13849110 TTATCTTATTTTATT
1 TTATCTTATTTTATT
13849125 TT
1 TT
13849127 CCATATATGT
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:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (15 bp):
TTATCTTATTTTATT
Found at i:13861592 original size:43 final size:43
Alignment explanation
Indices: 13861371--13861694 Score: 161
Period size: 43 Copynumber: 7.6 Consensus size: 43
13861361 ATTATACAGG
* *
13861371 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGG-AGAGA-CGAAG-ATTTCAGA
* * *
13861417 TCTTATCTCCCTGAGATTACA-CGGAGCAGATTGAAGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAG-AGA-CGAAGAT-TTCAGA
* **
13861460 TCCTATCTCCCTGAGATTACAGT-G-GAG-CG--GATTAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGAGACGAAGATTTCA-GA
* * * *
13861499 TCTTATCTCTCTGA-AGTTACAG-AGAGTAGATCG--CA--TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAG-AGA-CGAAGATTTCAGA
13861539 TCTTAT-TCCCTGAG-TTACAGTGGAGAGACGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGAGACGAAG-ATTTCAGA
* * *
13861581 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTG-AG---CCAGAAA
1 TCTTATCTCCCTGAGATTACAGTGGAG-AGA-CGAAGATTTCAG--A
* * *
13861624 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAG-AGA-CGAAGAT-TTCAGA
*
13861668 TCTTATCTCCCTGAGATTACAGCGGAG
1 TCTTATCTCCCTGAGATTACAGTGGAG
13861695 TAGATTGAAG
Statistics
Matches: 222, Mismatches: 26, Indels: 62
0.72 0.08 0.20
Matches are distributed among these distances:
37 6 0.03
38 10 0.05
39 30 0.14
40 9 0.04
41 8 0.04
42 11 0.05
43 66 0.30
44 45 0.20
45 14 0.06
46 22 0.10
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGAGACGAAGATTTCAGA
Found at i:13861683 original size:44 final size:44
Alignment explanation
Indices: 13861580--13861720 Score: 212
Period size: 44 Copynumber: 3.2 Consensus size: 44
13861570 AGAATTTCAG
* * ** *
13861580 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTG-AGCCAGAA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
13861623 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
*
13861667 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
*
13861711 ATCCTATCTC
1 ATCTTATCTC
13861721 TTTGAAGTTG
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
43 33 0.37
44 57 0.63
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA
Found at i:13862129 original size:23 final size:23
Alignment explanation
Indices: 13862103--13862152 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
13862093 GCCAAATTAA
*
13862103 CCCATTAGACAAACAAACCCAAG
1 CCCATTAAACAAACAAACCCAAG
** *
13862126 CCCATTAAACACCCAAACCCGAG
1 CCCATTAAACAAACAAACCCAAG
13862149 CCCA
1 CCCA
13862153 ATACCCAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.42, G:0.08, T:0.08
Consensus pattern (23 bp):
CCCATTAAACAAACAAACCCAAG
Found at i:13862485 original size:14 final size:14
Alignment explanation
Indices: 13862449--13862490 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
13862439 CTGTTCTTGC
* *
13862449 TTTTTGTTTCTTTA
1 TTTTTTTTTTTTTA
*
13862463 TTTTCTTTTTTTTA
1 TTTTTTTTTTTTTA
13862477 TTTTTTTTTTTTTA
1 TTTTTTTTTTTTTA
13862491 CAATCTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.07, C:0.05, G:0.02, T:0.86
Consensus pattern (14 bp):
TTTTTTTTTTTTTA
Found at i:13863346 original size:3 final size:3
Alignment explanation
Indices: 13863340--13863384 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
13863330 TGTTGTTTAG
*
13863340 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13863385 CCTTACTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:13863642 original size:15 final size:15
Alignment explanation
Indices: 13863619--13863650 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13863609 TGTTTATATA
*
13863619 TTATGTTATTTTATT
1 TTATCTTATTTTATT
13863634 TTATCTTATTTTATT
1 TTATCTTATTTTATT
13863649 TT
1 TT
13863651 CCATATATGT
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:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (15 bp):
TTATCTTATTTTATT
Found at i:13883249 original size:43 final size:41
Alignment explanation
Indices: 13883199--13883306 Score: 128
Period size: 43 Copynumber: 2.6 Consensus size: 41
13883189 TGATACAGGT
* *
13883199 AATCAGCACATAGCAACCCCTTTCACAATCAAGGATAT-GGTGG
1 AATCAGCACTTAGCAACCCCTTT-ACAATCAAGAAT-TCGG-GG
* * *
13883242 AATCAGCACTTAACAACCACCTTTAGAATCAATAATTCGGGG
1 AATCAGCACTTAGCAACC-CCTTTACAATCAAGAATTCGGGG
13883284 AATCAGCACTTAGCAACCCCTTT
1 AATCAGCACTTAGCAACCCCTTT
13883307 TTGATCAGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
41 5 0.09
42 20 0.35
43 27 0.47
44 5 0.09
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (41 bp):
AATCAGCACTTAGCAACCCCTTTACAATCAAGAATTCGGGG
Found at i:13883321 original size:41 final size:41
Alignment explanation
Indices: 13883151--13883345 Score: 148
Period size: 41 Copynumber: 4.7 Consensus size: 41
13883141 TAACCGTTAC
*
13883151 TCGGTGGAATCAGCACTTAGCAACCAAC-TTAT-ATTCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACC-CCTTTATGA-TCAGTGAT
* * * * **
13883193 ACAGGTAATCAGCACATAGCAACCCCTTTCACAATCAAG-GAT
1 TCGGGGAATCAGCACTTAGCAACCCCTTT-ATGATC-AGTGAT
* * *
13883235 AT-GGTGGAATCAGCACTTAACAACCACCTTTA-GAATCAATAAT
1 -TCGG-GGAATCAGCACTTAGCAACC-CCTTTATG-ATCAGTGAT
*
13883278 TCGGGGAATCAGCACTTAGCAACCCCTTTTTGATCAGTGAT
1 TCGGGGAATCAGCACTTAGCAACCCCTTTATGATCAGTGAT
* * *
13883319 TCGGGGAATCTGCACTTGGTAACCCCT
1 TCGGGGAATCAGCACTTAGCAACCCCT
13883346 AACATTTAAT
Statistics
Matches: 121, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
40 1 0.01
41 56 0.46
42 31 0.26
43 28 0.23
44 5 0.04
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
TCGGGGAATCAGCACTTAGCAACCCCTTTATGATCAGTGAT
Found at i:13887437 original size:43 final size:42
Alignment explanation
Indices: 13887329--13887439 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 42
13887319 AACCGTTACT
* * *
13887329 CGGTGGAATCAGCACTTAGCAACCAAC-TTATATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACC-CCTTTACAATCAGTGATA
* * *
13887371 CGG-GAAATCATCACATAGCAACCCCTTTCACAATCAAG-GATA
1 CGGTGGAATCAGCACTTAGCAACCCCTTT-ACAATC-AGTGATA
*
13887413 CGGTGGAATCAGCACTTAGTAACCCCT
1 CGGTGGAATCAGCACTTAGCAACCCCT
13887440 CGGGGAATCA
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
40 1 0.02
41 19 0.35
42 14 0.25
43 21 0.38
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
CGGTGGAATCAGCACTTAGCAACCCCTTTACAATCAGTGATA
Found at i:13887484 original size:41 final size:40
Alignment explanation
Indices: 13887439--13887548 Score: 157
Period size: 41 Copynumber: 2.7 Consensus size: 40
13887429 TAGTAACCCC
*
13887439 TCGGGGAATCAGCACTTAGCAACCCCTTTTTGATCAGTGAT
1 TCGGGGAATCA-CACTTAGCAACCCCTTTTTGATAAGTGAT
* * *
13887480 TCGGGGAATCTCCACTTAGTAAGCCCTTTTTGATAAGTGAT
1 TCGGGGAATC-ACACTTAGCAACCCCTTTTTGATAAGTGAT
13887521 TCGGGGAATCTACACTTAGCAACCCCTT
1 TCGGGGAATC-ACACTTAGCAACCCCTT
13887549 ACATTCAATG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (40 bp):
TCGGGGAATCACACTTAGCAACCCCTTTTTGATAAGTGAT
Found at i:13892027 original size:21 final size:22
Alignment explanation
Indices: 13891987--13892037 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
13891977 CTTTTTTTTT
* *
13891987 TCTATTCTCTTCTGCTTCTCCA
1 TCTATTTTCTTCTCCTTCTCCA
13892009 TCTATTTTCTT-TCCTTCTCCA
1 TCTATTTTCTTCTCCTTCTCCA
*
13892030 TCTCTTTT
1 TCTATTTT
13892038 AATGTAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.08, C:0.33, G:0.02, T:0.57
Consensus pattern (22 bp):
TCTATTTTCTTCTCCTTCTCCA
Found at i:13906337 original size:30 final size:31
Alignment explanation
Indices: 13906301--13906360 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
13906291 ACTCTAGTAA
13906301 CTTAAAT-AAAACTTTTAAATAGTTCAATGG
1 CTTAAATGAAAACTTTTAAATAGTTCAATGG
* *
13906331 CTTAAATGAAAATTTTTTAATAGTTCAATG
1 CTTAAATGAAAACTTTTAAATAGTTCAATG
13906361 ACCATTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (31 bp):
CTTAAATGAAAACTTTTAAATAGTTCAATGG
Found at i:13911125 original size:21 final size:20
Alignment explanation
Indices: 13911101--13911151 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
13911091 CCCGCCTATA
13911101 TTATTTTTTAA-AATATTTATT
1 TTATTTTTTAATAAT-TTTA-T
*
13911122 TTATTATTTAATAATTTTAT
1 TTATTTTTTAATAATTTTAT
*
13911142 ATATTTTTTA
1 TTATTTTTTA
13911152 TTTATTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 9 0.35
21 14 0.54
22 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTTTTAATAATTTTAT
Found at i:13913402 original size:14 final size:14
Alignment explanation
Indices: 13913383--13913410 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13913373 GTTTGTGCAT
13913383 TTATTTATATATAA
1 TTATTTATATATAA
13913397 TTATTTATATATAA
1 TTATTTATATATAA
13913411 AATGTTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATTTATATATAA
Found at i:13913637 original size:21 final size:22
Alignment explanation
Indices: 13913611--13913663 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
13913601 GAAATCTAAC
13913611 TAAAAATCCTA-CAAATCAAGAG
1 TAAAAAT-CTAGCAAATCAAGAG
*
13913633 TAAAAATCTAGCAAATCAATAG
1 TAAAAATCTAGCAAATCAAGAG
13913655 TAAAAATCT
1 TAAAAATCT
13913664 GATTTGTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.55, C:0.15, G:0.08, T:0.23
Consensus pattern (22 bp):
TAAAAATCTAGCAAATCAAGAG
Found at i:13925315 original size:30 final size:30
Alignment explanation
Indices: 13925279--13925335 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
13925269 ACCATGATGG
*
13925279 GGTGAAACAGAAGCAGGAGAAACAGGCTGA
1 GGTGAAACAGAACCAGGAGAAACAGGCTGA
* *
13925309 GGTGAAACAGAACCAGGTGAAGCAGGC
1 GGTGAAACAGAACCAGGAGAAACAGGC
13925336 AGGTATTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.37, T:0.07
Consensus pattern (30 bp):
GGTGAAACAGAACCAGGAGAAACAGGCTGA
Found at i:13925317 original size:72 final size:72
Alignment explanation
Indices: 13925198--13925333 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
13925188 ATTCATACCT
*** * *
13925198 CCATGATGGGGTGAAACATGAGCAGGAGAGGGAGACTGAGATAAAACAGGACCAGGTGAGGCAGT
1 CCATGATGGGGTGAAACATGAGCAGGAGAAACAGACTGAGATAAAACAGAACCAGGTGAAGCAGT
13925263 CCTATCA
66 CCTATCA
* * *
13925270 CCATGATGGGGTGAAACA-GAAGCAGGAGAAACAGGCTGAGGTGAAACAGAACCAGGTGAAGCAG
1 CCATGATGGGGTGAAACATG-AGCAGGAGAAACAGACTGAGATAAAACAGAACCAGGTGAAGCAG
13925334 GCAGGTATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 1 0.02
72 54 0.98
ACGTcount: A:0.37, C:0.16, G:0.35, T:0.12
Consensus pattern (72 bp):
CCATGATGGGGTGAAACATGAGCAGGAGAAACAGACTGAGATAAAACAGAACCAGGTGAAGCAGT
CCTATCA
Found at i:13925326 original size:15 final size:15
Alignment explanation
Indices: 13925279--13925329 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
13925269 ACCATGATGG
*
13925279 GGTGAAACAGAAGCA
1 GGTGAAACAGAACCA
* * *
13925294 GGAGAAACAG-GCTGA
1 GGTGAAACAGAAC-CA
13925309 GGTGAAACAGAACCA
1 GGTGAAACAGAACCA
13925324 GGTGAA
1 GGTGAA
13925330 GCAGGCAGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.43, C:0.14, G:0.35, T:0.08
Consensus pattern (15 bp):
GGTGAAACAGAACCA
Found at i:13935839 original size:6 final size:6
Alignment explanation
Indices: 13935823--13935852 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
13935813 TCTTTGAAGC
13935823 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
13935853 GCAAGAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:13943218 original size:15 final size:15
Alignment explanation
Indices: 13943198--13943238 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
13943188 AACATAAGGG
*
13943198 AAAAAGAAAGAGAAA
1 AAAAAGAAAAAGAAA
13943213 AAAAAGAAAAAGAAA
1 AAAAAGAAAAAGAAA
13943228 AAGAAAGAAAA
1 AA-AAAGAAAA
13943239 GTTAATGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAGAAA
Found at i:13943222 original size:21 final size:21
Alignment explanation
Indices: 13943197--13943239 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13943187 AAACATAAGG
*
13943197 GAAAAAGAAAGAGAAAAAAAA
1 GAAAAAGAAAAAGAAAAAAAA
*
13943218 GAAAAAGAAAAAGAAAGAAAA
1 GAAAAAGAAAAAGAAAAAAAA
13943239 G
1 G
13943240 TTAATGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (21 bp):
GAAAAAGAAAAAGAAAAAAAA
Found at i:13943778 original size:206 final size:204
Alignment explanation
Indices: 13943404--13943828 Score: 697
Period size: 206 Copynumber: 2.1 Consensus size: 204
13943394 ATTTTAGTAC
* * *
13943404 TAGGGATTAAATTGATAGATTTTTAAGTTAGAATTGAAAAAGGATTGAATTGTAGAATAAGTTGT
1 TAGGGATTAAATTGATAGATTTTTAAGTTAGAAGTGAAAAAGGATTGAATTGTAGAATAAATTAT
* * * *
13943469 AAATTTTGAGTAATAGGGACTAAATTGTAAATTTTGAAATTTAGGGATTTAAGTGAGATTAGAGA
66 AAATTTTGAGTAACAGGAACTAAATTGTAAATTTTAAAATTTAGGGATTTAAGTGAAATTAGAGA
13943534 GTTAAAACTAGTTTAAAGTGGAAATTGAATGAAAATATAGAATTAATTGTGAAGAAATAAAATTA
131 GTTAAAACTAGTTTAAAGTGGAAATTGAATGAAAATATAGAATTAATTGTGAAGAAATAAAATTA
13943599 GTCTCAGTT
196 GTCTCAGTT
* * * *
13943608 TTGGGATTAATTTGATAGATTTTTAAGTTAGAAGTGAAAAATGATTGAATTGTATAATAAATTAT
1 TAGGGATTAAATTGATAGATTTTTAAGTTAGAAGTGAAAAAGGATTGAATTGTAGAATAAATTAT
13943673 AAATTTTGAGTAACAGGAACTAAATTGTGAAAATTTTAAAATTTAGGGATTTAAGTGAAATTAGA
66 AAATTTTGAGTAACAGGAACTAAATTGT--AAATTTTAAAATTTAGGGATTTAAGTGAAATTAGA
* *
13943738 GAGTTAAATCTAGTTTAAAGTGGAAATTGAATGAAAATATAGAATTGATTGTGAAGAAATAAAAT
129 GAGTTAAAACTAGTTTAAAGTGGAAATTGAATGAAAATATAGAATTAATTGTGAAGAAATAAAAT
*
13943803 TAGTCTCGGTT
194 TAGTCTCAGTT
*
13943814 TAGGGACTAAATTGA
1 TAGGGATTAAATTGA
13943829 AATTTAGACA
Statistics
Matches: 202, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
204 84 0.42
206 118 0.58
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.35
Consensus pattern (204 bp):
TAGGGATTAAATTGATAGATTTTTAAGTTAGAAGTGAAAAAGGATTGAATTGTAGAATAAATTAT
AAATTTTGAGTAACAGGAACTAAATTGTAAATTTTAAAATTTAGGGATTTAAGTGAAATTAGAGA
GTTAAAACTAGTTTAAAGTGGAAATTGAATGAAAATATAGAATTAATTGTGAAGAAATAAAATTA
GTCTCAGTT
Found at i:13944423 original size:40 final size:40
Alignment explanation
Indices: 13944354--13944443 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
13944344 GTGGAGGCAT
13944354 TGGGTGCCAA--T-TTACTTCGGTTTAACCGATGAGACAC
1 TGGGTGCCAATTTATTACTTCGGTTTAACCGATGAGACAC
* * *
13944391 TGGGTGTCAATTTATTACTTC-GTATTATCCGATGAGGCAC
1 TGGGTGCCAATTTATTACTTCGGT-TTAACCGATGAGACAC
13944431 TGGGTGCCAATTT
1 TGGGTGCCAATTT
13944444 GGTGTGTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
37 9 0.20
39 3 0.07
40 33 0.73
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (40 bp):
TGGGTGCCAATTTATTACTTCGGTTTAACCGATGAGACAC
Found at i:13944762 original size:13 final size:13
Alignment explanation
Indices: 13944713--13944763 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
13944703 TTTAAACTAA
*
13944713 ACTTTTCAAATGC
1 ACTTTTCAAAAGC
* *
13944726 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
13944739 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
13944752 ACTTTTCAAAAG
1 ACTTTTCAAAAG
13944764 TAATGAAGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:13947313 original size:21 final size:21
Alignment explanation
Indices: 13947271--13947313 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
13947261 ATTAAAACAT
* *
13947271 TTTTATATAATTTTATCGAAA
1 TTTTATATAAATTTATCAAAA
13947292 TTTTATATAAAATTTAT-AAAA
1 TTTTATAT-AAATTTATCAAAA
13947313 T
1 T
13947314 AATTTCCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTTATATAAATTTATCAAAA
Found at i:13951976 original size:92 final size:92
Alignment explanation
Indices: 13951819--13951999 Score: 326
Period size: 92 Copynumber: 2.0 Consensus size: 92
13951809 AGTTGTTTAT
*
13951819 ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGAAGCTTTTATTCTGTTGTTCATGATG
1 ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGAAGCTTTTATTCTGTTGCTCATGATG
13951884 GATGAGATGGAGATGACTAGCACAGCC
66 GATGAGATGGAGATGACTAGCACAGCC
* * *
13951911 ATTATTAGGTGAATTTAGCTGCATCTATGTATCTATATGATGCTTTTATTCTGTTGCTCATGATG
1 ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGAAGCTTTTATTCTGTTGCTCATGATG
13951976 GATGAGATGGAGATGACTAGCACA
66 GATGAGATGGAGATGACTAGCACA
13952000 ACTATGAAAG
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 85 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (92 bp):
ATTATTAGATGAATTTAGCTGCATCTATGCATCTATATGAAGCTTTTATTCTGTTGCTCATGATG
GATGAGATGGAGATGACTAGCACAGCC
Found at i:13965589 original size:18 final size:18
Alignment explanation
Indices: 13965568--13965606 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13965558 TTTTCTGCTG
* *
13965568 CTTCTCCATCTTCTTCTT
1 CTTCTCCATCATCATCTT
*
13965586 CTTCTTCATCATCATCTT
1 CTTCTCCATCATCATCTT
13965604 CTT
1 CTT
13965607 TAAGTAGAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.10, C:0.36, G:0.00, T:0.54
Consensus pattern (18 bp):
CTTCTCCATCATCATCTT
Found at i:13967835 original size:31 final size:31
Alignment explanation
Indices: 13967797--13967856 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
13967787 TGCAGATAGT
* * *
13967797 AAAAAAGTCGATTTAGAGATGCGTATGGAAA
1 AAAAAAGTAGATATAGAGATGCATATGGAAA
13967828 AAAAAAGTAGATATAGAGATGCATATGGA
1 AAAAAAGTAGATATAGAGATGCATATGGA
13967857 TCAAAGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.05, G:0.25, T:0.22
Consensus pattern (31 bp):
AAAAAAGTAGATATAGAGATGCATATGGAAA
Found at i:13973292 original size:14 final size:15
Alignment explanation
Indices: 13973275--13973304 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13973265 TGGCCCTAAT
13973275 AAAAT-AAGAAAATA
1 AAAATAAAGAAAATA
13973289 AAAATAAAGAAAATA
1 AAAATAAAGAAAATA
13973304 A
1 A
13973305 TGCTTCTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAATAAAGAAAATA
Found at i:13978341 original size:82 final size:81
Alignment explanation
Indices: 13978250--13978499 Score: 186
Period size: 82 Copynumber: 3.1 Consensus size: 81
13978240 CATATAAGAA
*
13978250 TATTGATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTATG
13978315 TTTAAATATGATTAAAT
65 TTTAAATATGATTAAAT
* * * * * * * *
13978332 TATTTATTATT---CATATTAATAATCTTATCAAAATTTAA-ATAACA-A--TAACAATAA-TA-
1 TATTTATTATTAAGAATTTTATTAA-ATTAT-ATATTTTAATATAATATATTTAATAATAATTAT
* *
13978388 ATTTACCAA-A--A-CAAAT
64 GTTTA--AATATGATTAAAT
* *
13978404 T-TCTGGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAAT
*
13978468 TATGTTTAAATATGATTAAAA
61 TATGTTTAAATATGATTAAAT
13978489 TATTTATTATT
1 TATTTATTATT
13978500 GATAATAATA
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 5 0.04
75 9 0.07
76 17 0.14
77 4 0.03
78 13 0.11
79 13 0.11
80 4 0.03
81 17 0.14
82 19 0.16
83 5 0.04
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (81 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATATAATATATTTAATAATAATTATGT
TTAAATATGATTAAAT
Found at i:13978421 original size:157 final size:157
Alignment explanation
Indices: 13978255--13978562 Score: 535
Period size: 157 Copynumber: 2.0 Consensus size: 157
13978245 AAGAATATTG
*
13978255 ATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTTAA
* *
13978320 ATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAATA
66 ATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAATA
13978385 ATAATTTACCAAAACAAATTTCTGGTA
131 ATAATTTACCAAAACAAATTTCTGGTA
* *
13978412 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTTAA
* *
13978477 ATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAATA
* *
13978542 ATCATTTACCAAAATAAATTT
131 ATAATTTACCAAAACAAATTT
13978563 ATGCTAAGGG
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 142 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
ATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTTAA
ATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAATA
ATAATTTACCAAAACAAATTTCTGGTA
Found at i:13978713 original size:16 final size:16
Alignment explanation
Indices: 13978692--13978759 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
13978682 GATTTGCTAT
13978692 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13978708 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
13978724 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
**
13978740 TACATTTCTAATCCAA
1 TACACCTCTAATCCAA
13978756 TACA
1 TACA
13978760 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:13982495 original size:15 final size:15
Alignment explanation
Indices: 13982471--13982507 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
13982461 TCATTGAGCA
13982471 AAAC-AAAAAATAAG
1 AAACAAAAAAATAAG
13982485 AAACAAAAAAATAAG
1 AAACAAAAAAATAAG
13982500 AAACAAAA
1 AAACAAAA
13982508 TATATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.81, C:0.08, G:0.05, T:0.05
Consensus pattern (15 bp):
AAACAAAAAAATAAG
Found at i:13982705 original size:3 final size:3
Alignment explanation
Indices: 13982697--13982721 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13982687 CTCTATTACA
13982697 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
13982722 TTCACGCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13999860 original size:15 final size:14
Alignment explanation
Indices: 13999836--13999874 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
13999826 ATATATTTCA
13999836 AATATTTATTTTTG
1 AATATTTATTTTTG
13999850 AATATTTTATTTTT-
1 AATA-TTTATTTTTG
13999864 AATTATTTATT
1 AA-TATTTATT
13999875 GAGTTATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (14 bp):
AATATTTATTTTTG
Found at i:14001196 original size:39 final size:39
Alignment explanation
Indices: 14001153--14001231 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
14001143 ATCAATGGCT
14001153 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
*
14001192 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
14001231 A
1 A
14001232 TAATCGTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (39 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
Found at i:14001214 original size:17 final size:17
Alignment explanation
Indices: 14001152--14001218 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 17
14001142 CATCAATGGC
*
14001152 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
14001169 TACAATTAGAACTCTAAGATTA
1 TACAATTAGAA-GCT--G--TA
*
14001191 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
14001208 TACAATTAGAA
1 TACAATTAGAA
14001219 CTCTAAGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
17 22 0.55
18 2 0.05
19 1 0.03
20 1 0.03
21 2 0.05
22 12 0.30
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:14006184 original size:22 final size:22
Alignment explanation
Indices: 14006159--14006220 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
14006149 AAAGCTGTAT
14006159 ACAATTAGAACTCTAAGATTAC
1 ACAATTAGAACTCTAAGATTAC
* *
14006181 ACAATTAGAAGT-T--G--TAT
1 ACAATTAGAACTCTAAGATTAC
14006198 ACAATTAGAACTCTAAGATTAC
1 ACAATTAGAACTCTAAGATTAC
14006220 A
1 A
14006221 TAATCATATC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
17 13 0.42
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
22 14 0.45
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (22 bp):
ACAATTAGAACTCTAAGATTAC
Found at i:14006185 original size:39 final size:39
Alignment explanation
Indices: 14006142--14006220 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
14006132 ATCACTGGCT
14006142 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
* *
14006181 ACAATTAGAAGTTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
14006220 A
1 A
14006221 TAATCATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (39 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
Found at i:14008980 original size:49 final size:45
Alignment explanation
Indices: 14008910--14009012 Score: 161
Period size: 49 Copynumber: 2.2 Consensus size: 45
14008900 GGACGGTGGA
14008910 GGAGAGGGAAAGAATCAGAGTAGGAGGAGGGATGGTGGGGAAGAGGG
1 GGAGAGGGAAAGAATCAGAGTAGGAGGAGGGATGGTGGGGAAGA--G
*
14008957 GGAGAGGGAGAGAGAATCAGAGTAGGGGGAGGGATGGTGGGGAAGAG
1 GGAGAGGGA-A-AGAATCAGAGTAGGAGGAGGGATGGTGGGGAAGAG
14009004 GGAGAGGGA
1 GGAGAGGGA
14009013 TGGGAGGGGG
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
47 19 0.36
48 1 0.02
49 33 0.62
ACGTcount: A:0.33, C:0.02, G:0.57, T:0.08
Consensus pattern (45 bp):
GGAGAGGGAAAGAATCAGAGTAGGAGGAGGGATGGTGGGGAAGAG
Found at i:14009061 original size:30 final size:30
Alignment explanation
Indices: 14009025--14009094 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
14009015 GGAGGGGGAT
* *
14009025 GGAAAATGGTAG-TTTGGTTAAGTCTATAAC
1 GGAAAATGGTAGCTCT-ATTAAGTCTATAAC
*
14009055 GGAAAATGGTAGCTCTATTACGTCTATAAC
1 GGAAAATGGTAGCTCTATTAAGTCTATAAC
*
14009085 AGAAAATGGT
1 GGAAAATGGT
14009095 TAGTGGTGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (30 bp):
GGAAAATGGTAGCTCTATTAAGTCTATAAC
Found at i:14009362 original size:30 final size:31
Alignment explanation
Indices: 14009318--14009377 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
14009308 ACAAGAATTG
* *
14009318 TTAAATTTTAATTTTGATCCCTATA-TTTAC
1 TTAAATTTGAATTTTAATCCCTATACTTTAC
* *
14009348 TTAAATTTGGATTTTAATCTCTATACTTTA
1 TTAAATTTGAATTTTAATCCCTATACTTTA
14009378 ATTTTGACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (31 bp):
TTAAATTTGAATTTTAATCCCTATACTTTAC
Found at i:14010439 original size:8 final size:8
Alignment explanation
Indices: 14010417--14010470 Score: 58
Period size: 8 Copynumber: 7.0 Consensus size: 8
14010407 TCTTGAAAAT
14010417 TATATAAA
1 TATATAAA
14010425 -ATATAAA
1 TATATAAA
*
14010432 TTTATAAA
1 TATATAAA
*
14010440 AATATAAA
1 TATATAAA
*
14010448 -ATAAAAA
1 TATATAAA
*
14010455 TTTATAAA
1 TATATAAA
14010463 TATATAAA
1 TATATAAA
14010471 ATAATAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
7 13 0.35
8 24 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TATATAAA
Found at i:14010445 original size:23 final size:23
Alignment explanation
Indices: 14010418--14010479 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
14010408 CTTGAAAATT
*
14010418 ATATAAAATATAAATTTATAAAA
1 ATATAAAATAAAAATTTATAAAA
*
14010441 ATATAAAATAAAAATTTATAAAT
1 ATATAAAATAAAAATTTATAAAA
*
14010464 ATATAAAATAATAATT
1 ATATAAAATAAAAATT
14010480 AATTAAAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATAAAATAAAAATTTATAAAA
Found at i:14010449 original size:17 final size:18
Alignment explanation
Indices: 14010412--14010449 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
14010402 TATTTTCTTG
14010412 AAAA-TTATATAAAATAT
1 AAAATTTATATAAAATAT
14010429 -AAATTTATA-AAAATAT
1 AAAATTTATATAAAATAT
14010445 AAAAT
1 AAAAT
14010450 AAAAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTTATATAAAATAT
Found at i:14011124 original size:9 final size:8
Alignment explanation
Indices: 14011099--14011127 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14011089 AATTTATTTT
14011099 AAAAAT-A
1 AAAAATAA
14011106 AAAAATAA
1 AAAAATAA
14011114 AAAAATAA
1 AAAAATAA
14011122 AAAAAT
1 AAAAAT
14011128 TATTTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAATAA
Found at i:14011131 original size:35 final size:37
Alignment explanation
Indices: 14011086--14011158 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
14011076 AATAAACACC
*
14011086 AAAAATTTATTTT-AAAAA-TAAAAAATAAAAAAATA
1 AAAAAATTATTTTAAAAAATTAAAAAATAAAAAAATA
*
14011121 AAAAAATTATTTTAAAAAATTTTAAAAATAAAAAAATA
1 AAAAAATTATTTTAAAAAA-TTAAAAAATAAAAAAATA
14011159 TATATTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 12 0.36
36 5 0.15
38 16 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (37 bp):
AAAAAATTATTTTAAAAAATTAAAAAATAAAAAAATA
Found at i:14013006 original size:26 final size:26
Alignment explanation
Indices: 14012971--14013023 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
14012961 TGACATATTC
14012971 AAAATTTTCAAATTTATTAAATCCTA
1 AAAATTTTCAAATTTATTAAATCCTA
14012997 AAAATTTTCAAATTTATTAAATCCTA
1 AAAATTTTCAAATTTATTAAATCCTA
14013023 A
1 A
14013024 CTTATATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (26 bp):
AAAATTTTCAAATTTATTAAATCCTA
Found at i:14013359 original size:23 final size:23
Alignment explanation
Indices: 14013332--14013375 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
14013322 ACCTAGCCGA
14013332 ATAAAATTTAAACACCATATATT
1 ATAAAATTTAAACACCATATATT
14013355 ATAAAATTTAAACACCATATA
1 ATAAAATTTAAACACCATATA
14013376 AGATTTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAAAATTTAAACACCATATATT
Found at i:14013617 original size:132 final size:132
Alignment explanation
Indices: 14013375--14013661 Score: 443
Period size: 132 Copynumber: 2.2 Consensus size: 132
14013365 AACACCATAT
* *
14013375 AAGATTTCATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCC
1 AAGATTTCAGATCTTATCTCCCTAAGCAGTACTGGAGCAGATCGAAGATGGCGGATTTTACCTCC
* *
14013440 CTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGAT
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATCCTACTTCCCTGGGCAACAGTGGAATAGAT
14013505 TG
131 TG
* *
14013507 AAGATTTCAGATCTTATCTCCCTAAGCAGTACTGGAGTAGATCGAAGATGGTGGATTTTACCTCC
1 AAGATTTCAGATCTTATCTCCCTAAGCAGTACTGGAGCAGATCGAAGATGGCGGATTTTACCTCC
* * * *
14013572 CTGTGGTTACAGTGGAGTACATTGAAGTCAGTAATCCTA-TCTCCCTGGTCAGCAGTGGAATAGG
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATCCTACT-TCCCTGGGCAACAGTGGAATAGA
14013636 TTG
130 TTG
*
14013639 AAGATTGTAAG-TCTTATCTCCCT
1 AAGATT-TCAGATCTTATCTCCCT
14013662 GCAGTTGCAG
Statistics
Matches: 142, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
131 1 0.01
132 138 0.97
133 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (132 bp):
AAGATTTCAGATCTTATCTCCCTAAGCAGTACTGGAGCAGATCGAAGATGGCGGATTTTACCTCC
CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATCCTACTTCCCTGGGCAACAGTGGAATAGAT
TG
Found at i:14013640 original size:43 final size:44
Alignment explanation
Indices: 14013581--14013686 Score: 110
Period size: 43 Copynumber: 2.4 Consensus size: 44
14013571 CCTGTGGTTA
* *
14013581 CAGTGGAGTACATTGAAG-TCAGTAA-TCCTATCTCCCTG-GTCAG
1 CAGTGGAATAGATTGAAGAT-AGTAAGTCCTATCTCCCTGAGT-AG
* * * *
14013624 CAGTGGAATAGGTTGAAGATTGTAAGTCTTATCTCCCTGCAGTTG
1 CAGTGGAATAGATTGAAGATAGTAAGTCCTATCTCCCTG-AGTAG
14013669 CAGTGGAATAGATTGAAG
1 CAGTGGAATAGATTGAAG
14013687 CACTAGCTCC
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
43 19 0.37
44 13 0.25
45 18 0.35
46 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
CAGTGGAATAGATTGAAGATAGTAAGTCCTATCTCCCTGAGTAG
Found at i:14013955 original size:21 final size:19
Alignment explanation
Indices: 14013890--14013983 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
14013880 AATTTTTGAG
14013890 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
14013909 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
14013928 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
14013947 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
14013968 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
14013984 ATATATGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:14013965 original size:40 final size:38
Alignment explanation
Indices: 14013890--14013990 Score: 152
Period size: 40 Copynumber: 2.7 Consensus size: 38
14013880 AATTTTTGAG
14013890 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
*
14013928 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
*
14013968 GATATGTAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
14013991 ATTTTGTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
36 5 0.08
38 20 0.34
39 2 0.03
40 32 0.54
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
Found at i:14014001 original size:23 final size:22
Alignment explanation
Indices: 14013924--14014006 Score: 86
Period size: 21 Copynumber: 3.9 Consensus size: 22
14013914 GCAATCCTAG
*
14013924 ATATGATATGCAATCTTAG-AT
1 ATATGATATGTAATCTTAGAAT
*
14013945 ATGAT-ATATGCAATCTTAG---
1 AT-ATGATATGTAATCTTAGAAT
14013964 ATATGATATGTAATCTTAGAAT
1 ATATGATATGTAATCTTAGAAT
*
14013986 ATATGATTTTGTAATCTTAGA
1 ATATGA-TATGTAATCTTAGA
14014007 GATTTAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.28
21 16 0.30
22 8 0.15
23 13 0.24
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.41
Consensus pattern (22 bp):
ATATGATATGTAATCTTAGAAT
Found at i:14015027 original size:9 final size:9
Alignment explanation
Indices: 14015015--14015039 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14015005 GATGATGTAT
14015015 TTATTATTG
1 TTATTATTG
14015024 TTATTATTG
1 TTATTATTG
14015033 TTATTAT
1 TTATTAT
14015040 AGCATTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:14015436 original size:98 final size:98
Alignment explanation
Indices: 14015322--14015512 Score: 355
Period size: 98 Copynumber: 1.9 Consensus size: 98
14015312 AATAATAAAG
* *
14015322 GAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
14015387 TCTTGGATAAGTGGATGTTCTTTTAAAGAAAAT
66 TCTTGGATAAGTGGATGTTCTTTTAAAGAAAAT
*
14015420 GAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
14015485 TCTTGGATAAGTGGATGTTCTTTTAAAG
66 TCTTGGATAAGTGGATGTTCTTTTAAAG
14015513 TTTTATTGTA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
TCTTGGATAAGTGGATGTTCTTTTAAAGAAAAT
Found at i:14020988 original size:132 final size:132
Alignment explanation
Indices: 14020809--14021593 Score: 1295
Period size: 132 Copynumber: 5.9 Consensus size: 132
14020799 CTGCATTGAC
*
14020809 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * *
14020874 GTAATTCTACTTCCCTGGGCAACAGTGAAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
14020939 GT
131 GT
*
14020941 AGTAGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
14021006 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
14021071 GT
131 GT
* *
14021073 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTATAGTGGAGTACATTGAAGCTA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
14021138 GTAATTCTACTTCCATGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
14021203 GT
131 GT
* *
14021205 AGTGGAGAAGATCGGAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * * *
14021270 GTAAGTCTACTTCCCTAGACAATAGTGGAATAGATTGAAGATTTCATATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
14021335 GT
131 GT
*
14021337 AGTGGAGCAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
14021402 GTAATTCTACTTCCCTGGGCAACGGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
14021467 GT
131 GT
* * * *
14021469 AGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGTCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * * * *
14021534 GTAATCCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
66 GTAATTCTACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
14021594 GCAATTGTAG
Statistics
Matches: 611, Mismatches: 40, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 607 0.99
133 3 0.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GT
Found at i:14021887 original size:21 final size:19
Alignment explanation
Indices: 14021822--14021915 Score: 134
Period size: 19 Copynumber: 4.8 Consensus size: 19
14021812 AATTTTTGAG
* *
14021822 GATATGCAATTTTAGTTAT
1 GATATGCAATCTTAGATAT
*
14021841 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
14021860 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
14021879 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
14021900 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
14021916 ATATATGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
19 49 0.72
21 19 0.28
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:14021897 original size:40 final size:38
Alignment explanation
Indices: 14021822--14021922 Score: 134
Period size: 40 Copynumber: 2.7 Consensus size: 38
14021812 AATTTTTGAG
* *
14021822 GATATGCAATTTTAGTTATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
*
14021860 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
*
14021900 GATATGTAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
14021923 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
36 5 0.09
38 18 0.32
39 2 0.04
40 32 0.56
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
Found at i:14021933 original size:23 final size:22
Alignment explanation
Indices: 14021856--14021938 Score: 86
Period size: 21 Copynumber: 3.9 Consensus size: 22
14021846 GCAATCCTAG
*
14021856 ATATGATATGCAATCTTAG-AT
1 ATATGATATGTAATCTTAGAAT
*
14021877 ATGAT-ATATGCAATCTTAG---
1 AT-ATGATATGTAATCTTAGAAT
14021896 ATATGATATGTAATCTTAGAAT
1 ATATGATATGTAATCTTAGAAT
*
14021918 ATATGATTTTGTAATCTTAGA
1 ATATGA-TATGTAATCTTAGA
14021939 GATTTAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.04
19 15 0.28
21 16 0.30
22 8 0.15
23 13 0.24
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.41
Consensus pattern (22 bp):
ATATGATATGTAATCTTAGAAT
Found at i:14022962 original size:9 final size:9
Alignment explanation
Indices: 14022950--14022974 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14022940 GATGATGTAT
14022950 TTATTATTG
1 TTATTATTG
14022959 TTATTATTG
1 TTATTATTG
14022968 TTATTAT
1 TTATTAT
14022975 AGCATTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:14023372 original size:98 final size:98
Alignment explanation
Indices: 14023258--14023448 Score: 346
Period size: 98 Copynumber: 1.9 Consensus size: 98
14023248 AATAATAAAG
* *
14023258 GAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
14023323 TATTGGATAAGTGGATGTTCTTTTAAAGAAAAT
66 TATTGGATAAGTGGATGTTCTTTTAAAGAAAAT
*
14023356 GAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
*
14023421 TCTTGGATAAGTGGATGTTCTTTTAAAG
66 TATTGGATAAGTGGATGTTCTTTTAAAG
14023449 TTTTATTATA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
TATTGGATAAGTGGATGTTCTTTTAAAGAAAAT
Found at i:14028895 original size:9 final size:9
Alignment explanation
Indices: 14028868--14028904 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14028858 TGAGTTTTTG
14028868 AATTCGAAT
1 AATTCGAAT
* *
14028877 AACTCCAAT
1 AATTCGAAT
14028886 AATTCGAAT
1 AATTCGAAT
14028895 AATTCGAAT
1 AATTCGAAT
14028904 A
1 A
14028905 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14029316 original size:19 final size:20
Alignment explanation
Indices: 14029280--14029318 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14029270 CAAACTTTTA
14029280 TTCCCCAAAACTTTTTATTT
1 TTCCCCAAAACTTTTTATTT
*
14029300 TTCCCCTAAAC-TTTTATTT
1 TTCCCCAAAACTTTTTATTT
14029319 CTCATCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCCCCAAAACTTTTTATTT
Found at i:14031316 original size:19 final size:20
Alignment explanation
Indices: 14031287--14031325 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
14031277 GAACTTTGAG
14031287 ATTTTTATATTTTTAAAATT
1 ATTTTTATATTTTTAAAATT
*
14031307 ATTTTT-TATTTTTTAAATT
1 ATTTTTATATTTTTAAAATT
14031326 TTAAAGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTATATTTTTAAAATT
Found at i:14031341 original size:30 final size:28
Alignment explanation
Indices: 14031288--14031382 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 28
14031278 AACTTTGAGA
* *
14031288 TTTTTATATTTTTAAAATTATTTTTTAT
1 TTTTTAAATTTTAAAAATTATTTTTTAT
14031316 TTTTTAAATTTTAAAGAATTTATTTTTTAT
1 TTTTTAAATTTTAAA-AA-TTATTTTTTAT
14031346 AATTTTT--ATTTTAAGAAATGTGATTTTTTTAT
1 --TTTTTAAATTTTAA-AAAT-T-A-TTTTTTAT
14031378 TTTTT
1 TTTTT
14031383 TAAAATATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
28 13 0.23
29 3 0.05
30 26 0.46
31 2 0.04
32 13 0.23
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.66
Consensus pattern (28 bp):
TTTTTAAATTTTAAAAATTATTTTTTAT
Found at i:14032858 original size:19 final size:20
Alignment explanation
Indices: 14032818--14032869 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
14032808 TTTTTAAATA
14032818 AAAATTATAAAAATACTCTTT
1 AAAATTA-AAAAATACTCTTT
14032839 AAAATTAAAAAATGA-T-TTT
1 AAAATTAAAAAAT-ACTCTTT
*
14032858 AAAAATAAAAAA
1 AAAATTAAAAAA
14032870 AATCAAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 14 0.48
20 7 0.24
21 8 0.28
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATTAAAAAATACTCTTT
Found at i:14034193 original size:13 final size:14
Alignment explanation
Indices: 14034160--14034194 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14034150 TTTATTTCAC
14034160 AGAAAATGGTTCTT
1 AGAAAATGGTTCTT
14034174 AGAAAATGGTT-TT
1 AGAAAATGGTTCTT
*
14034187 GGAAAATG
1 AGAAAATG
14034195 ATTTGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (14 bp):
AGAAAATGGTTCTT
Found at i:14036000 original size:103 final size:103
Alignment explanation
Indices: 14035860--14036227 Score: 560
Period size: 103 Copynumber: 3.6 Consensus size: 103
14035850 TTGCATATAA
** * * *
14035860 AGGGGTTGCTGTGTGCTGATTCCCCTATTCATCGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
14035925 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
*
14035963 AGGGGTTGCTAAGTGCTGATTCCCCTAC-CTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
14036027 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
65 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* * * *
14036066 AGGGGTTGCTAAGTGTTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
* *
14036131 TGAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCCA
65 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
** * *
14036169 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGAATCCACC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACC
14036228 AATAACGGTT
Statistics
Matches: 246, Mismatches: 16, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
102 28 0.11
103 178 0.72
104 40 0.16
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:14038793 original size:98 final size:98
Alignment explanation
Indices: 14038621--14038815 Score: 318
Period size: 98 Copynumber: 2.0 Consensus size: 98
14038611 ACAATAAAAT
* * *
14038621 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACGCCCAATATGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
14038686 TCTAGAATCCCGAACTCGGAATATTTCATTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCATTTAC
14038719 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* * *
14038784 TTTAAAATCCTAAACTCGGAATATTTCTTTTA
66 TCTAAAATCCCAAACTCGGAATATTTCATTTA
14038816 TTGTTTTTAG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCATTTAC
Found at i:14039727 original size:25 final size:24
Alignment explanation
Indices: 14039660--14039710 Score: 84
Period size: 25 Copynumber: 2.1 Consensus size: 24
14039650 ATACATATAT
*
14039660 ATATGATAAAATAATAATAATTAC
1 ATATGAAAAAATAATAATAATTAC
14039684 ATATGAAAATAATAATAATAATTAC
1 ATATGAAAA-AATAATAATAATTAC
14039709 AT
1 AT
14039711 TAACAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
ATATGAAAAAATAATAATAATTAC
Found at i:14040294 original size:19 final size:19
Alignment explanation
Indices: 14040270--14040420 Score: 239
Period size: 19 Copynumber: 7.8 Consensus size: 19
14040260 AATCATATAT
14040270 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
14040289 TCTAAGATTATATATAATA
1 TCTAAGATTGCATATCATA
14040308 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
14040327 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
14040348 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
14040367 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
14040386 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
14040405 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
14040421 CTCAAAAATT
Statistics
Matches: 122, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
19 103 0.84
21 19 0.16
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Done.