Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 37 of 172
Found at i:9292535 original size:17 final size:17
Alignment explanation
Indices: 9292513--9292558 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
9292503 TTTTAATGCT
*
9292513 ATAATTATAT-ATGTATA
1 ATAATTATATAAAGT-TA
9292530 ATAATTATATAAAGTTA
1 ATAATTATATAAAGTTA
9292547 ATAATTAT-TAAA
1 ATAATTATATAAA
9292559 ATCTATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 20 0.74
18 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
ATAATTATATAAAGTTA
Found at i:9294353 original size:38 final size:38
Alignment explanation
Indices: 9294302--9294376 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
9294292 GGTACACAAC
*
9294302 TAATTCAAAGAAAATGACTCTATCTTTTCTAAAGATGG
1 TAATTCAAAGAAAACGACTCTATCTTTTCTAAAGATGG
*
9294340 TAATTCAAAGAAAACGACTTTATCTTTTCTAAAGATG
1 TAATTCAAAGAAAACGACTCTATCTTTTCTAAAGATG
9294377 TGATATTAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (38 bp):
TAATTCAAAGAAAACGACTCTATCTTTTCTAAAGATGG
Found at i:9294717 original size:3 final size:3
Alignment explanation
Indices: 9294700--9294747 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
9294690 GAGAGAAAGG
*
9294700 AGA ATA AGA AG- AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
9294747 A
1 A
9294748 AGAAAGAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:9295002 original size:60 final size:60
Alignment explanation
Indices: 9294925--9295043 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
9294915 AATTTTTTTA
* *
9294925 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTGTGTTTG
*
9294985 TAATTATTTTAAAATTAATTTATTAGTAATTTATGATTATGTTATAAATTATTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTGTGTTT
9295044 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.55
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTGTGTTTG
Found at i:9295125 original size:84 final size:78
Alignment explanation
Indices: 9295026--9295221 Score: 245
Period size: 72 Copynumber: 2.6 Consensus size: 78
9295016 TATGATTATG
9295026 TTATAAATTATTGTGTTTAGTTTAGTATTTGGTGAGTTTTTAGTAATGTAAAATTATTTTGTTAA
1 TTATAAATTATTGTGTTT-G--T-GT-TTT-GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAA
9295091 ATATTTTGTTAGTAATTTA
60 ATATTTTGTTAGTAATTTA
*
9295110 TTAT-AA--A-T-T-TATGTGTTTTGTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTT
1 TTATAAATTATTGTGTTTGTGTTTTGTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTT
9295169 TGTTAGTAATTTA
66 TGTTAGTAATTTA
9295182 TTATAAATTA------TTGTGTTTTGTGAGTTTTTAGTAATGTAAA
1 TTATAAATTATTGTGTTTGTGTTTTGTGAGTTTTTAGTAATGTAAA
9295222 TTTTTTTAAA
Statistics
Matches: 107, Mismatches: 2, Indels: 18
0.84 0.02 0.14
Matches are distributed among these distances:
72 86 0.80
73 5 0.05
74 2 0.02
75 2 0.02
77 1 0.01
78 2 0.02
79 1 0.01
80 1 0.01
81 1 0.01
83 2 0.02
84 4 0.04
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (78 bp):
TTATAAATTATTGTGTTTGTGTTTTGTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTT
TGTTAGTAATTTA
Found at i:9295141 original size:38 final size:38
Alignment explanation
Indices: 9295099--9295216 Score: 122
Period size: 38 Copynumber: 3.2 Consensus size: 38
9295089 AAATATTTTG
9295099 TTAGTAATTTATTATAAATT-TATGTGTTTTGTGAGTTT
1 TTAGTAATTTATTATAAATTAT-TGTGTTTTGTGAGTTT
* * *** *
9295137 TTAGTAA--T-GTA-AAATTATTTTGTTAAAT-ATTTT
1 TTAGTAATTTATTATAAATTATTGTGTTTTGTGAGTTT
9295170 GTTAGTAATTTATTATAAATTATTGTGTTTTGTGAGTTT
1 -TTAGTAATTTATTATAAATTATTGTGTTTTGTGAGTTT
9295209 TTAGTAAT
1 TTAGTAAT
9295217 GTAAATTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
33 4 0.07
34 18 0.30
35 3 0.05
36 2 0.03
37 2 0.03
38 28 0.46
39 4 0.07
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (38 bp):
TTAGTAATTTATTATAAATTATTGTGTTTTGTGAGTTT
Found at i:9295175 original size:34 final size:34
Alignment explanation
Indices: 9295065--9295178 Score: 106
Period size: 34 Copynumber: 3.2 Consensus size: 34
9295055 TGGTGAGTTT
9295065 TTAGTAATGTAAAATTATTTTGTTAAATATTTTG
1 TTAGTAATGTAAAATTATTTTGTTAAATATTTTG
* * *** *
9295099 TTAGTAATTTATTATAAATT-TATGTGTTTTGTGAGTTT-
1 TTAGTAA--T-GTA-AAATTAT-TTTGTTAAAT-ATTTTG
9295137 TTAGTAATGTAAAATTATTTTGTTAAATATTTTG
1 TTAGTAATGTAAAATTATTTTGTTAAATATTTTG
9295171 TTAGTAAT
1 TTAGTAAT
9295179 TTATTATAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
33 4 0.07
34 26 0.43
35 3 0.05
36 2 0.03
37 3 0.05
38 18 0.30
39 4 0.07
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.54
Consensus pattern (34 bp):
TTAGTAATGTAAAATTATTTTGTTAAATATTTTG
Found at i:9295237 original size:72 final size:72
Alignment explanation
Indices: 9295057--9295221 Score: 314
Period size: 72 Copynumber: 2.3 Consensus size: 72
9295047 TTAGTATTTG
9295057 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGTAATTTATTATAAATTTAT
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGTAATTTATTATAAATTTAT
9295122 GTGTTTT
66 GTGTTTT
9295129 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGTAATTTATTATAAA-TTAT
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGTAATTTATTATAAATTTA-
9295193 TGTGTTTT
65 TGTGTTTT
9295201 GTGAGTTTTTAGTAATGTAAA
1 GTGAGTTTTTAGTAATGTAAA
9295222 TTTTTTTAAA
Statistics
Matches: 92, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
71 3 0.03
72 89 0.97
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (72 bp):
GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGTAATTTATTATAAATTTAT
GTGTTTT
Found at i:9295428 original size:107 final size:107
Alignment explanation
Indices: 9295312--9295562 Score: 323
Period size: 106 Copynumber: 2.4 Consensus size: 107
9295302 TTATAGTTAT
** * *
9295312 TTATTTTGTTAACAATTTATGGGGTTAGG-T-TACAAATTGTTAGTGTTTAG-TATAGAGTTTTG
1 TTATTTTGTTAGTAATTTAT-GGATTAGGTTATACAAATTGTTAGTGTTTAGTTAT-GAGTTTTA
**
9295374 TGATTTTTTAGTGATGTAAGTTTTTTTTAAAAAATAATTTTATAG
64 TGATTTTTTAGCAATGT-AGTTTTTTTTAAAAAATAATTTTATAG
* *
9295419 TTATTTTGTTAGTAATTTAT-GATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTATG
1 TTATTTTGTTAGTAATTTATGGATTAGGTTATACAAATTGTTAGTGTTTAGTTATGAGTTTTATG
* * *
9295483 ATTTTTTAGCAATGTATTTTTTTTTTAAAATTAATTTTATAG
66 ATTTTTTAGCAATGTAGTTTTTTTTAAAAAATAATTTTATAG
* *
9295525 TTATTCTGTTAGTAATTTAT-GATTAGGTTATATAAATT
1 TTATTTTGTTAGTAATTTATGGATTAGGTTATACAAATT
9295563 ACTTGTTTTT
Statistics
Matches: 129, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
105 6 0.05
106 62 0.48
107 58 0.45
108 3 0.02
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.54
Consensus pattern (107 bp):
TTATTTTGTTAGTAATTTATGGATTAGGTTATACAAATTGTTAGTGTTTAGTTATGAGTTTTATG
ATTTTTTAGCAATGTAGTTTTTTTTAAAAAATAATTTTATAG
Found at i:9295552 original size:106 final size:108
Alignment explanation
Indices: 9295345--9295596 Score: 361
Period size: 106 Copynumber: 2.4 Consensus size: 108
9295335 GTTAGGTTAC
* **
9295345 AAATTGTTAGTGTTTAG-TATAGAGTTTTGTGATTTTTTAGTGATGTAAGTTTTTTTTAAAAAAT
1 AAATTGTTAGTGTTTAGTTATAGTGTTTTGTGATTTTTTAGCAATGTAAGTTTTTTTTAAAAAAT
*
9295409 AATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATAT
66 AATTTTATAGTTATTCTGTTAGTAATTTATGATTAGGTTATAT
* * * *
9295452 AAATTGTTAGTGTTTAGTTAT-GTGTTTTATGATTTTTTAGCAATGT-ATTTTTTTTTTAAAATT
1 AAATTGTTAGTGTTTAGTTATAGTGTTTTGTGATTTTTTAGCAATGTAAGTTTTTTTTAAAAAAT
9295515 AATTTTATAGTTATTCTGTTAGTAATTTATGATTAGGTTATAT
66 AATTTTATAGTTATTCTGTTAGTAATTTATGATTAGGTTATAT
* * *
9295558 AAATTACTT-GTTTTTAGTT-TAGTGTTTTGTGTTTTTTTA
1 AAATT-GTTAGTGTTTAGTTATAGTGTTTTGTGATTTTTTA
9295597 ATGTACTTTT
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
105 1 0.01
106 86 0.66
107 40 0.31
108 3 0.02
ACGTcount: A:0.27, C:0.01, G:0.15, T:0.56
Consensus pattern (108 bp):
AAATTGTTAGTGTTTAGTTATAGTGTTTTGTGATTTTTTAGCAATGTAAGTTTTTTTTAAAAAAT
AATTTTATAGTTATTCTGTTAGTAATTTATGATTAGGTTATAT
Found at i:9295635 original size:106 final size:104
Alignment explanation
Indices: 9295397--9295624 Score: 288
Period size: 106 Copynumber: 2.2 Consensus size: 104
9295387 ATGTAAGTTT
* * *
9295397 TTTTTA-AAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTA
1 TTTTTATAAAATTAATTTTATAGTTATTCTGTTAGTAATTTATGATTAGGTTATATAAATTCTTA
*
9295461 GTGTTTAGTTATGTGTTTTATGATTTTTTAGCAATGTATTT
66 GTGTTTAGTTATGTGTTTTATGATTTTTTA-CAATGTA-TC
*
9295502 TTTTTTTAAAATTAATTTTATAGTTATTCTGTTAGTAATTTATGATTAGGTTATATAAATTACTT
1 TTTTTATAAAATTAATTTTATAGTTATTCTGTTAGTAATTTATGATTAGGTTATATAAATT-CTT
* * *
9295567 -GTTTTTAGTT-TAGTGTTTTGTG-TTTTTT-TAATGTA-C
65 AGTGTTTAGTTAT-GTGTTTTATGATTTTTTACAATGTATC
*
9295603 TTTTTATATAATGTAATTTTAT
1 TTTTTATAAAAT-TAATTTTAT
9295625 TTATTTTTAT
Statistics
Matches: 109, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
101 10 0.09
102 9 0.08
103 6 0.06
105 12 0.11
106 70 0.64
107 2 0.02
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (104 bp):
TTTTTATAAAATTAATTTTATAGTTATTCTGTTAGTAATTTATGATTAGGTTATATAAATTCTTA
GTGTTTAGTTATGTGTTTTATGATTTTTTACAATGTATC
Found at i:9310903 original size:31 final size:30
Alignment explanation
Indices: 9310863--9310920 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
9310853 TAAGATGTCT
* *
9310863 AAATTTAAAATTTTAATGAAAAATAATCTA
1 AAATTTAAAAATTAAATGAAAAATAATCTA
*
9310893 AAATATTAAAAATTAAATTAAAAATAAT
1 AAAT-TTAAAAATTAAATGAAAAATAAT
9310921 ATATATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (30 bp):
AAATTTAAAAATTAAATGAAAAATAATCTA
Found at i:9312110 original size:19 final size:18
Alignment explanation
Indices: 9312076--9312111 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9312066 AAAACTTGAA
*
9312076 AAATTATAAGATTTTAAT
1 AAATTATAAAATTTTAAT
9312094 AAATTATAAAAATTTTAA
1 AAATTAT-AAAATTTTAA
9312112 AAACAACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
AAATTATAAAATTTTAAT
Found at i:9312130 original size:29 final size:30
Alignment explanation
Indices: 9312094--9312153 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
9312084 AGATTTTAAT
* *
9312094 AAATTATAAAAATTTTA-AAAACAACTAAA
1 AAATTATAAAAATTTTATAAAAAAAATAAA
* *
9312123 AAATTATATAATTTTTATAAAAAAAATAAA
1 AAATTATAAAAATTTTATAAAAAAAATAAA
9312153 A
1 A
9312154 CCCTATAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (30 bp):
AAATTATAAAAATTTTATAAAAAAAATAAA
Found at i:9312778 original size:21 final size:21
Alignment explanation
Indices: 9312753--9312795 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9312743 TTATATTTTT
9312753 AAGAAAATATAAAAAAAATTA
1 AAGAAAATATAAAAAAAATTA
* *
9312774 AAGAATATATAAATAAAATTA
1 AAGAAAATATAAAAAAAATTA
9312795 A
1 A
9312796 CAATTAATAA
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:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
AAGAAAATATAAAAAAAATTA
Found at i:9317278 original size:2 final size:2
Alignment explanation
Indices: 9317271--9317302 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9317261 GCCACACTAG
9317271 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
9317303 AAAACAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:9318918 original size:67 final size:67
Alignment explanation
Indices: 9318814--9318945 Score: 194
Period size: 67 Copynumber: 2.0 Consensus size: 67
9318804 TGTTTCAAAA
* *
9318814 CTGTTGAAACCATTTTTTGTAAAAGAGGTCAAATTTTTTATTTAAAAATGAAAATGGAGTCGCCA
1 CTGTCGAAACCATTTTTTGTAAAAGAGGTCAAATTTTTTATTTAAAAACGAAAATGGAGTCGCCA
9318879 TG
66 TG
** * *
9318881 CTGTCGAAACCATTTTTTTGTAAAAG-GGTTGACTTTTTTATTTAAAAGCGAAAATGGAGTCGCC
1 CTGTCGAAACCA-TTTTTTGTAAAAGAGGTCAAATTTTTTATTTAAAAACGAAAATGGAGTCGCC
9318945 A
65 A
9318946 CCAATCCTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 45 0.78
68 13 0.22
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (67 bp):
CTGTCGAAACCATTTTTTGTAAAAGAGGTCAAATTTTTTATTTAAAAACGAAAATGGAGTCGCCA
TG
Found at i:9319540 original size:35 final size:35
Alignment explanation
Indices: 9319494--9319563 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
9319484 GTGAAAGTTG
9319494 ATGAAATATCTAAAAATAATATATGTGTAGTTTAT
1 ATGAAATATCTAAAAATAATATATGTGTAGTTTAT
9319529 ATGAAATATCTAAAAATAATATATGTGTAGTTTAT
1 ATGAAATATCTAAAAATAATATATGTGTAGTTTAT
9319564 TTGATTATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (35 bp):
ATGAAATATCTAAAAATAATATATGTGTAGTTTAT
Found at i:9333450 original size:27 final size:27
Alignment explanation
Indices: 9333399--9333460 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
9333389 TCAACAAAGA
**
9333399 TAATTGGATTAATGATTGATATTGTGCT
1 TAATT-GATTAATGATCAATATTGTGCT
* *
9333427 TATTTGATTAATGATCAATGTTGTGCT
1 TAATTGATTAATGATCAATATTGTGCT
9333454 TAATTGA
1 TAATTGA
9333461 CATTATGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.47
Consensus pattern (27 bp):
TAATTGATTAATGATCAATATTGTGCT
Found at i:9334419 original size:18 final size:20
Alignment explanation
Indices: 9334383--9334421 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
9334373 ATTTTATTTA
9334383 TAATTTAAGAAAAATATAAT
1 TAATTTAAGAAAAATATAAT
9334403 TAATTT-AGAAAAA-ATAAT
1 TAATTTAAGAAAAATATAAT
9334421 T
1 T
9334422 TATCAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 7 0.37
20 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TAATTTAAGAAAAATATAAT
Found at i:9337674 original size:9 final size:9
Alignment explanation
Indices: 9337662--9337687 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9337652 TTTATTTTTA
9337662 AAAATATTT
1 AAAATATTT
9337671 AAAATATTT
1 AAAATATTT
9337680 AAAATATT
1 AAAATATT
9337688 AATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:9338774 original size:15 final size:15
Alignment explanation
Indices: 9338754--9338782 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9338744 TTGATTTTAA
9338754 AAATTAAATTAAATC
1 AAATTAAATTAAATC
9338769 AAATTAAATTAAAT
1 AAATTAAATTAAAT
9338783 AGAATTTAAA
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:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTAAATTAAATC
Found at i:9341815 original size:3 final size:3
Alignment explanation
Indices: 9341807--9341836 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
9341797 TATACTAAAT
9341807 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9341837 TCTCATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9341863 original size:30 final size:30
Alignment explanation
Indices: 9341815--9341890 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 30
9341805 ATATAATAAT
* *
9341815 AATAATAATAATAATAATA-ATATCTCATTAA
1 AATATTAATAA-AATAATATATATCTAATT-A
*
9341846 AATATTAATAAAATAATATTTATCTAATTA
1 AATATTAATAAAATAATATATATCTAATTA
9341876 AATAATT-ATAAAATA
1 AAT-ATTAATAAAATA
9341891 TCATCAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 19 0.47
31 21 0.52
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (30 bp):
AATATTAATAAAATAATATATATCTAATTA
Found at i:9343589 original size:26 final size:27
Alignment explanation
Indices: 9343543--9343593 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
9343533 ATTTTTATTT
9343543 AATTTCTAATAATTTTATAAAATTTAA
1 AATTTCTAATAATTTTATAAAATTTAA
*
9343570 AATTT-TAATGATTATT-TAAAATTT
1 AATTTCTAATAATT-TTATAAAATTT
9343594 TTTATGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (27 bp):
AATTTCTAATAATTTTATAAAATTTAA
Found at i:9346612 original size:34 final size:34
Alignment explanation
Indices: 9346573--9346667 Score: 118
Period size: 34 Copynumber: 2.8 Consensus size: 34
9346563 CTCACAAGTG
* * *
9346573 AGGGTTTGCATAACATATAGGCTCGCATAGACTT
1 AGGGTTCGCATAACATATAGGCTCACATAGACCT
* * *
9346607 AGGGTTCACATAACATGTAGGCTCATATAGACCT
1 AGGGTTCGCATAACATATAGGCTCACATAGACCT
* *
9346641 AGGGTTCGCATAATATATAGGTTCACA
1 AGGGTTCGCATAACATATAGGCTCACA
9346668 CACTTAGGGG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (34 bp):
AGGGTTCGCATAACATATAGGCTCACATAGACCT
Found at i:9346928 original size:14 final size:14
Alignment explanation
Indices: 9346911--9346978 Score: 82
Period size: 14 Copynumber: 4.9 Consensus size: 14
9346901 TTACTTGGAT
*
9346911 ATATATTGAATCGC
1 ATATATTGACTCGC
*
9346925 ATATAATGACTCGC
1 ATATATTGACTCGC
*
9346939 ATATATTGACTAGC
1 ATATATTGACTCGC
* * *
9346953 ATATAATGATTTGC
1 ATATATTGACTCGC
9346967 ATATATTGACTC
1 ATATATTGACTC
9346979 ACATCTACAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 44 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (14 bp):
ATATATTGACTCGC
Found at i:9346976 original size:28 final size:28
Alignment explanation
Indices: 9346911--9346977 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
9346901 TTACTTGGAT
* *
9346911 ATATATTGAATCGCATATAATGACTCGC
1 ATATATTGACTAGCATATAATGACTCGC
* *
9346939 ATATATTGACTAGCATATAATGATTTGC
1 ATATATTGACTAGCATATAATGACTCGC
9346967 ATATATTGACT
1 ATATATTGACT
9346978 CACATCTACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (28 bp):
ATATATTGACTAGCATATAATGACTCGC
Found at i:9347423 original size:18 final size:18
Alignment explanation
Indices: 9347391--9347427 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
9347381 TTGTAATATG
9347391 ATTAGGAGTTATTTTAAA
1 ATTAGGAGTTATTTTAAA
*
9347409 ATTA-GAGTTATTTTTAA
1 ATTAGGAGTTATTTTAAA
9347426 AT
1 AT
9347428 CTGATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.49
Consensus pattern (18 bp):
ATTAGGAGTTATTTTAAA
Found at i:9349732 original size:46 final size:45
Alignment explanation
Indices: 9349650--9349825 Score: 129
Period size: 46 Copynumber: 3.8 Consensus size: 45
9349640 TTTTTTCCCT
* * * * * * *
9349650 GGTTTCGAGCACCTGCATATGTTCCGGGCTCAAGAATATATGAATA
1 GGTTT-GAGCTCCTTCATATGTTGCAGACTCGAGAATATAGGAATA
* * *
9349696 GGTTCTAAGCTCCTTCATATGTTGTAGACTCGAGAATACAGGAATA
1 GGTT-TGAGCTCCTTCATATGTTGCAGACTCGAGAATATAGGAATA
* * * * **
9349742 GGTTTCGAGCTCCTACATGTGTTGCAAACTAGAGAATATAGGTTTA
1 GGTTT-GAGCTCCTTCATATGTTGCAGACTCGAGAATATAGGAATA
** *
9349788 GGTTTTGAGCT-CTTGCATATGTTGGGGACTCGAAAATA
1 GG-TTTGAGCTCCTT-CATATGTTGCAGACTCGAGAATA
9349826 CATCAATATT
Statistics
Matches: 100, Mismatches: 26, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
45 3 0.03
46 93 0.93
47 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (45 bp):
GGTTTGAGCTCCTTCATATGTTGCAGACTCGAGAATATAGGAATA
Found at i:9357025 original size:34 final size:35
Alignment explanation
Indices: 9356987--9357085 Score: 105
Period size: 34 Copynumber: 2.9 Consensus size: 35
9356977 GGGTTCGCAT
* *
9356987 CTAGGGTTCACATAACATATAAGAC-CGCATAGAC
1 CTAGGGTTCACATAACATATAAGACTCGCACAAAC
* * *
9357021 CTAGGGTTCGCATAACATGT-AGGCTCGCACAAAC
1 CTAGGGTTCACATAACATATAAGACTCGCACAAAC
* * *
9357055 TTAGGGTTCACATAATATAT-AGGCTCGCACA
1 CTAGGGTTCACATAACATATAAGACTCGCACA
9357086 CTTAAGGGTT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 3 0.05
34 52 0.95
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (35 bp):
CTAGGGTTCACATAACATATAAGACTCGCACAAAC
Found at i:9360434 original size:19 final size:20
Alignment explanation
Indices: 9360406--9360444 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9360396 TTTTATTCCG
9360406 TATATATATATAT-TTTTAT
1 TATATATATATATGTTTTAT
*
9360425 TATATTTATATATGTTTTAT
1 TATATATATATATGTTTTAT
9360445 GTTTCTAATA
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:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TATATATATATATGTTTTAT
Found at i:9360501 original size:25 final size:25
Alignment explanation
Indices: 9360453--9360501 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
9360443 ATGTTTCTAA
*
9360453 TATTTTTTATAAATTTTAATTTTTT
1 TATTTTTTATAAATTATAATTTTTT
*
9360478 TATTTTTTATAGATTATATATTTT
1 TATTTTTTATAAATTATA-ATTTT
9360502 AGCTTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
TATTTTTTATAAATTATAATTTTTT
Found at i:9360533 original size:16 final size:16
Alignment explanation
Indices: 9360514--9360544 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9360504 CTTTTCATAA
*
9360514 TTTTTATAATTTTTAT
1 TTTTTAAAATTTTTAT
9360530 TTTTTAAAATTTTTA
1 TTTTTAAAATTTTTA
9360545 GATTATAACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTAAAATTTTTAT
Found at i:9361188 original size:31 final size:31
Alignment explanation
Indices: 9361153--9361221 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
9361143 TATTTGCGCC
* *
9361153 TGAACTTGACAATTGTTCTCACATTGGGGCT
1 TGAACTTGACAATTATTCTCACATTGGAGCT
* ** *
9361184 TGAACTAGGTAATTATTTTCACATTGGAGCT
1 TGAACTTGACAATTATTCTCACATTGGAGCT
*
9361215 TGGACTT
1 TGAACTT
9361222 TTTTTTGCCC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.38
Consensus pattern (31 bp):
TGAACTTGACAATTATTCTCACATTGGAGCT
Found at i:9361359 original size:57 final size:57
Alignment explanation
Indices: 9361275--9361432 Score: 183
Period size: 57 Copynumber: 2.8 Consensus size: 57
9361265 GGACAAAGAA
* * * * *
9361275 AAAAAAATTCAAACCCTAA-TTGAGAACAATTGTTAAGTTTAGGGACTAACTTTAAT
1 AAAAAAATTCAAACCCCAATTTGAGAACAATTGTCAAGTTTAGGAACTAACTTGAAC
* * * *
9361331 AAAAAAGTTCAAACCCCAATTTGAGAACAATTGTGAAGTTTAGGAATTAACTTGGAC
1 AAAAAAATTCAAACCCCAATTTGAGAACAATTGTCAAGTTTAGGAACTAACTTGAAC
* * * *
9361388 AAAAGAAATTCAAGCCTCAATGTGAAAACAATTGTCAAGTTTAGG
1 AAAA-AAATTCAAACCCCAATTTGAGAACAATTGTCAAGTTTAGG
9361433 CCCCAAATAG
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
56 17 0.20
57 35 0.41
58 34 0.40
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (57 bp):
AAAAAAATTCAAACCCCAATTTGAGAACAATTGTCAAGTTTAGGAACTAACTTGAAC
Found at i:9361938 original size:17 final size:14
Alignment explanation
Indices: 9361905--9361931 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9361895 AATTGTTGGA
9361905 TTGTTAAATTATTT
1 TTGTTAAATTATTT
9361919 TTGTTAAATTATT
1 TTGTTAAATTATT
9361932 AGTTTTGCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TTGTTAAATTATTT
Found at i:9370687 original size:25 final size:24
Alignment explanation
Indices: 9370659--9370730 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
9370649 GACATAAAAC
*
9370659 TAAGATTAGAACGTAGAACTTAG-CT
1 TAAG-TTAGAACTTAGAA-TTAGACT
* *
9370684 TAAGTTTGGAACTTAGGATTAGACT
1 TAAG-TTAGAACTTAGAATTAGACT
9370709 TAAGTTAAGAACTTAGAATTAG
1 TAAGTT-AGAACTTAGAATTAG
9370731 GTTTAGTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.15
25 33 0.85
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (24 bp):
TAAGTTAGAACTTAGAATTAGACT
Found at i:9370961 original size:15 final size:15
Alignment explanation
Indices: 9370941--9370973 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9370931 ACTTGAAATT
9370941 TGTTTTCTGCTAACA
1 TGTTTTCTGCTAACA
*
9370956 TGTTTTCTGCTAATA
1 TGTTTTCTGCTAACA
9370971 TGT
1 TGT
9370974 AAAGATCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (15 bp):
TGTTTTCTGCTAACA
Found at i:9373607 original size:24 final size:24
Alignment explanation
Indices: 9373580--9373631 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
9373570 TTAGTAAGTC
* *
9373580 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAACAAATACT
* *
9373604 AAATATATTATACTAACAAATACT
1 AAATAAACTATACTAACAAATACT
9373628 AAAT
1 AAAT
9373632 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACTAACAAATACT
Found at i:9375575 original size:24 final size:24
Alignment explanation
Indices: 9375548--9375599 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9375538 TTAGTAAGTC
*
9375548 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
9375572 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
9375596 AAAT
1 AAAT
9375600 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:9375850 original size:14 final size:14
Alignment explanation
Indices: 9375831--9375862 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
9375821 CAAGGCAAGG
9375831 TTGGCTAATTTAGT
1 TTGGCTAATTTAGT
9375845 TTGGCTAATTTAGT
1 TTGGCTAATTTAGT
9375859 TTGG
1 TTGG
9375863 GATTTGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (14 bp):
TTGGCTAATTTAGT
Found at i:9376347 original size:27 final size:27
Alignment explanation
Indices: 9376315--9376369 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
9376305 AGTTTTGGAA
*
9376315 TAATGATAAGGGTCCAGTCAAAGTTTG
1 TAATGATAAGGGTCCAGGCAAAGTTTG
9376342 TAATGATAAGGGTCCAGGCAAAGTTTG
1 TAATGATAAGGGTCCAGGCAAAGTTTG
9376369 T
1 T
9376370 TTGTTTGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (27 bp):
TAATGATAAGGGTCCAGGCAAAGTTTG
Found at i:9378416 original size:83 final size:83
Alignment explanation
Indices: 9378306--9378471 Score: 296
Period size: 83 Copynumber: 2.0 Consensus size: 83
9378296 AAGCACATAA
*
9378306 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGGTGATTTGCTTGAACCTTTTTAAGGA
1 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATTTGCTTGAACCTTTTTAAGGA
* *
9378371 TCTTGTGCAACCAATCTT
66 TCTTATACAACCAATCTT
*
9378389 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATTTGCTTGCACCTTTTTAAGGA
1 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATTTGCTTGAACCTTTTTAAGGA
9378454 TCTTATACAACCAATCTT
66 TCTTATACAACCAATCTT
9378472 GTGTTTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (83 bp):
CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATTTGCTTGAACCTTTTTAAGGA
TCTTATACAACCAATCTT
Found at i:9380880 original size:16 final size:16
Alignment explanation
Indices: 9380859--9380981 Score: 83
Period size: 16 Copynumber: 7.5 Consensus size: 16
9380849 AAGTGAACAA
9380859 AGCTCACACATAGTAT
1 AGCTCACACATAGTAT
* *
9380875 AGCTCACA-ATTCAGCAG
1 AGCTCACACA-T-AGTAT
*
9380892 AGCTCGCACAT-GTTAT
1 AGCTCACACATAG-TAT
*
9380908 AGCTCACA-ATTCAGTAG
1 AGCTCACACA-T-AGTAT
*
9380925 AGCTCGCACATAGTAT
1 AGCTCACACATAGTAT
*
9380941 AGCTCACA-ATTCAGTAG
1 AGCTCACACA-T-AGTAT
* *
9380958 AGTTCACACATATTAT
1 AGCTCACACATAGTAT
9380974 AGCTCACA
1 AGCTCACA
9380982 ATTTAGCAGA
Statistics
Matches: 81, Mismatches: 15, Indels: 22
0.69 0.13 0.19
Matches are distributed among these distances:
15 4 0.05
16 40 0.49
17 33 0.41
18 4 0.05
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (16 bp):
AGCTCACACATAGTAT
Found at i:9380896 original size:33 final size:33
Alignment explanation
Indices: 9380859--9380994 Score: 193
Period size: 33 Copynumber: 4.1 Consensus size: 33
9380849 AAGTGAACAA
9380859 AGCTCACACATAGTATAGCTCACAATTCAGCAG
1 AGCTCACACATAGTATAGCTCACAATTCAGCAG
* *
9380892 AGCTCGCACAT-GTTATAGCTCACAATTCAGTAG
1 AGCTCACACATAG-TATAGCTCACAATTCAGCAG
* *
9380925 AGCTCGCACATAGTATAGCTCACAATTCAGTAG
1 AGCTCACACATAGTATAGCTCACAATTCAGCAG
* * *
9380958 AGTTCACACATATTATAGCTCACAATTTAGCAG
1 AGCTCACACATAGTATAGCTCACAATTCAGCAG
9380991 AGCT
1 AGCT
9380995 TGCATAATAG
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
32 1 0.01
33 91 0.98
34 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (33 bp):
AGCTCACACATAGTATAGCTCACAATTCAGCAG
Found at i:9380911 original size:66 final size:66
Alignment explanation
Indices: 9380839--9380982 Score: 182
Period size: 66 Copynumber: 2.2 Consensus size: 66
9380829 TCGCAATTAA
* *
9380839 TATAGCT-AGCAAGTGAACAAAGCTCACACATAGTATAGCTCACAATTCAGCAGAGCTCGCACAT
1 TATAGCTCA-CAAGTCAACAAAGCTCACACATAGTATAGCTCACAATTCAGCAGAGCTCACACAT
*
9380903 GT
65 AT
* ** * * * *
9380905 TATAGCTCACAATTCAGTAGAGCTCGCACATAGTATAGCTCACAATTCAGTAGAGTTCACACATA
1 TATAGCTCACAAGTCAACAAAGCTCACACATAGTATAGCTCACAATTCAGCAGAGCTCACACATA
9380970 T
66 T
9380971 TATAGCTCACAA
1 TATAGCTCACAA
9380983 TTTAGCAGAG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
66 66 0.99
67 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (66 bp):
TATAGCTCACAAGTCAACAAAGCTCACACATAGTATAGCTCACAATTCAGCAGAGCTCACACATA
T
Found at i:9380964 original size:17 final size:17
Alignment explanation
Indices: 9380870--9380965 Score: 67
Period size: 17 Copynumber: 5.8 Consensus size: 17
9380860 GCTCACACAT
*
9380870 AGTATAGCTCACAATTC
1 AGTAGAGCTCACAATTC
* *
9380887 AGCAGAGCTCGC-A--C
1 AGTAGAGCTCACAATTC
*
9380901 ATGTTATAGCTCACAATTC
1 A-G-TAGAGCTCACAATTC
*
9380920 AGTAGAGCTCGCACA-T-
1 AGTAGAGCTCACA-ATTC
*
9380936 AGTATAGCTCACAATTC
1 AGTAGAGCTCACAATTC
*
9380953 AGTAGAGTTCACA
1 AGTAGAGCTCACA
9380966 CATATTATAG
Statistics
Matches: 59, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
14 2 0.03
15 2 0.03
16 20 0.34
17 31 0.53
18 2 0.03
19 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (17 bp):
AGTAGAGCTCACAATTC
Found at i:9386709 original size:18 final size:18
Alignment explanation
Indices: 9386645--9386722 Score: 54
Period size: 18 Copynumber: 4.4 Consensus size: 18
9386635 TCCATATAAT
* *
9386645 AACAACAAAATAATATCA
1 AACAACAAAACAATAACA
* *
9386663 ACACAATAACAA-AATTACA
1 A-ACAACAA-AACAATAACA
* *
9386682 AA-AA-ACAACAATAACC
1 AACAACAAAACAATAACA
*
9386698 AACAACAAAACAGTAACA
1 AACAACAAAACAATAACA
9386716 AACAACA
1 AACAACA
9386723 GCAGGGACAA
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
15 2 0.04
16 8 0.17
17 4 0.09
18 18 0.39
19 12 0.26
20 2 0.04
ACGTcount: A:0.67, C:0.22, G:0.01, T:0.10
Consensus pattern (18 bp):
AACAACAAAACAATAACA
Found at i:9394497 original size:21 final size:21
Alignment explanation
Indices: 9394471--9394513 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9394461 CACTAATAAG
*
9394471 AAGATAAAAAAAAAGATAAAT
1 AAGATAAAAAAAAAGAAAAAT
* *
9394492 AAGATAACAAAATAGAAAAAT
1 AAGATAAAAAAAAAGAAAAAT
9394513 A
1 A
9394514 GTCGAAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.14
Consensus pattern (21 bp):
AAGATAAAAAAAAAGAAAAAT
Found at i:9396126 original size:6 final size:6
Alignment explanation
Indices: 9396110--9396158 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
9396100 TACCAATATA
*
9396110 ACTAAT TCTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
9396158 A
1 A
9396159 AAAAGATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (6 bp):
ACTAAT
Found at i:9400900 original size:15 final size:16
Alignment explanation
Indices: 9400871--9400903 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
9400861 TTTTTCTTTC
9400871 TTTTTTATTGATAAATT
1 TTTTTTATT-ATAAATT
9400888 TTTTTTATT-TAAATT
1 TTTTTTATTATAAATT
9400903 T
1 T
9400904 AATTAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTTTTATTATAAATT
Found at i:9401266 original size:17 final size:18
Alignment explanation
Indices: 9401244--9401278 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9401234 AAATATCTTA
9401244 TTATAAATAT-AATATAT
1 TTATAAATATAAATATAT
*
9401261 TTATAAGTATAAATATAT
1 TTATAAATATAAATATAT
9401279 GTTTGATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TTATAAATATAAATATAT
Found at i:9401946 original size:24 final size:24
Alignment explanation
Indices: 9401919--9401967 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
9401909 CTTTTCTGAT
*
9401919 ATTTCTTTCTTTAGATTACGCCAA
1 ATTTCTTTCTTTAAATTACGCCAA
*
9401943 ATTTCTTTCTTTAAATTAGGCCAA
1 ATTTCTTTCTTTAAATTACGCCAA
9401967 A
1 A
9401968 AGTCCACGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (24 bp):
ATTTCTTTCTTTAAATTACGCCAA
Found at i:9403339 original size:18 final size:19
Alignment explanation
Indices: 9403316--9403354 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9403306 TGTTGGAAAT
9403316 TTTGACTTAG-ATTTTGAC
1 TTTGACTTAGAATTTTGAC
*
9403334 TTTGACTTGGAATTTTGAC
1 TTTGACTTAGAATTTTGAC
9403353 TT
1 TT
9403355 AAGTGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGACTTAGAATTTTGAC
Found at i:9406206 original size:18 final size:20
Alignment explanation
Indices: 9406167--9406206 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9406157 GCTATGGTGT
*
9406167 AATGTGATATAGTGAGACTA
1 AATGCGATATAGTGAGACTA
9406187 AATGCGATA-AGTGA-ACTA
1 AATGCGATATAGTGAGACTA
9406205 AA
1 AA
9406207 GGTAATACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
20 8 0.42
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (20 bp):
AATGCGATATAGTGAGACTA
Found at i:9413674 original size:172 final size:171
Alignment explanation
Indices: 9413365--9413877 Score: 803
Period size: 172 Copynumber: 3.0 Consensus size: 171
9413355 ATGGCCAAAC
* *
9413365 CACATGAAAATCATGCCCAAACATTACCACATCATTCCAACATGAATCAAAACATTAAGAATAAA
1 CACATGAAAATCATGTCCAAACATTACCAAATCATTCCAACATGAATCAAAACATTAA-AATAAA
*
9413430 TAATTAAACTCATTTTGGCATAAAACATGACATAAACATATTCAAATCAGAATGGAATAAATTTT
65 TATTTAAACTCA-TTTGGCATAAAACATGACATAAACATATTCAAATCAGAATGGAATAAATTTT
9413495 TAGCTAAACAATTTCAAAAACAAATAATCCAAAACAAGCCATT
129 TAGCTAAACAATTTCAAAAACAAATAATCCAAAACAAGCCATT
** * * *
9413538 CGTATGAAAATCATGTCTAAACATTATCAAATCATTCCAGCATGAATCAAAACATTAAAATTAAA
1 CACATGAAAATCATGTCCAAACATTACCAAATCATTCCAACATGAATCAAAACATTAAAA-TAAA
* * * *
9413603 TATTTAAATTCATTTGGAATAAAACATGACATAAACATATTCAAATCGGAATGGAATAAATTTTA
65 TATTTAAACTCATTTGGCATAAAACATGACATAAACATATTCAAATCAGAATGGAATAAATTTTT
*
9413668 AGCTAAACAATTTCAAAAACAAATAATCCAAAACAAGTCATT
130 AGCTAAACAATTTCAAAAACAAATAATCCAAAACAAGCCATT
*
9413710 CACATGAAAATCATGTCGAAACATTACCAAATCATTCCAACATGAATCAAAACATTAAAAATAAA
1 CACATGAAAATCATGTCCAAACATTACCAAATCATTCCAACATGAATCAAAACATT-AAAATAAA
* *
9413775 TATTTAAACTCATTTGGCATAAAACATGACACAAACATATTCAAACCAGAAT-GACATAAATTTT
65 TATTTAAACTCATTTGGCATAAAACATGACATAAACATATTCAAATCAGAATGGA-ATAAATTTT
* *
9413839 TAGCTAAACAATTTCCAAAAATAAATAATCCAAGACAAG
129 TAGCTAAACAATTT-CAAAAACAAATAATCCAAAACAAG
9413878 TTTTTCACAT
Statistics
Matches: 310, Mismatches: 26, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
171 2 0.01
172 217 0.70
173 91 0.29
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.26
Consensus pattern (171 bp):
CACATGAAAATCATGTCCAAACATTACCAAATCATTCCAACATGAATCAAAACATTAAAATAAAT
ATTTAAACTCATTTGGCATAAAACATGACATAAACATATTCAAATCAGAATGGAATAAATTTTTA
GCTAAACAATTTCAAAAACAAATAATCCAAAACAAGCCATT
Found at i:9425739 original size:18 final size:18
Alignment explanation
Indices: 9425712--9425759 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
9425702 ATCGATTAGT
9425712 TACA-ATACAAATG-AAA
1 TACAGATACAAATGCAAA
*
9425728 TTGCAGATACAAATGCAAA
1 -TACAGATACAAATGCAAA
9425747 TACAGATACAAAT
1 TACAGATACAAAT
9425760 CCTACCCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 3 0.11
18 21 0.78
19 3 0.11
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (18 bp):
TACAGATACAAATGCAAA
Found at i:9436533 original size:9 final size:9
Alignment explanation
Indices: 9436515--9436547 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
9436505 TTCGCATCAT
9436515 TTTCTCTTA
1 TTTCTCTTA
*
9436524 TTTCTTTTA
1 TTTCTCTTA
9436533 TTTCTCTTA
1 TTTCTCTTA
9436542 TTTCTC
1 TTTCTC
9436548 GATAGCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTCTCTTA
Found at i:9446895 original size:26 final size:26
Alignment explanation
Indices: 9446866--9446927 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
9446856 TACCTAAAGT
*
9446866 AGTTTCAGAATATCATAATACATATC
1 AGTTTCAGAATATCATAACACATATC
* **
9446892 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAACACATATC
9446918 AGTTTCAGAA
1 AGTTTCAGAA
9446928 CACTTATAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.34
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACACATATC
Found at i:9454850 original size:29 final size:29
Alignment explanation
Indices: 9454808--9454940 Score: 169
Period size: 29 Copynumber: 4.6 Consensus size: 29
9454798 ATGTAGGTGT
*
9454808 TCCTTTTGACAGAGATAGCCACAAA-GATA
1 TCCTTTTGACAGAGATAGCCACAAATG-CA
* *
9454837 TCCTTTTGACAGAGATAGGCATAAATGCA
1 TCCTTTTGACAGAGATAGCCACAAATGCA
* * *
9454866 TCCTTTTGACAGAGACAACCACAAATGTA
1 TCCTTTTGACAGAGATAGCCACAAATGCA
* * *
9454895 TCCTTTTGACAAAGATAGTCAGAAATGCA
1 TCCTTTTGACAGAGATAGCCACAAATGCA
9454924 TCCTTTTGACAGAGATA
1 TCCTTTTGACAGAGATA
9454941 AACATAAAGG
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
29 87 0.99
30 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (29 bp):
TCCTTTTGACAGAGATAGCCACAAATGCA
Found at i:9454878 original size:58 final size:58
Alignment explanation
Indices: 9454808--9454941 Score: 207
Period size: 58 Copynumber: 2.3 Consensus size: 58
9454798 ATGTAGGTGT
* * *
9454808 TCCTTTTGACAGAGATAGCCACAAA-GATATCCTTTTGACAGAGATAGGCATAAATGCA
1 TCCTTTTGACAGAGATAACCACAAATG-TATCCTTTTGACAAAGATAGGCAGAAATGCA
* *
9454866 TCCTTTTGACAGAGACAACCACAAATGTATCCTTTTGACAAAGATAGTCAGAAATGCA
1 TCCTTTTGACAGAGATAACCACAAATGTATCCTTTTGACAAAGATAGGCAGAAATGCA
9454924 TCCTTTTGACAGAGATAA
1 TCCTTTTGACAGAGATAA
9454942 ACATAAAGGC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
58 68 0.99
59 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (58 bp):
TCCTTTTGACAGAGATAACCACAAATGTATCCTTTTGACAAAGATAGGCAGAAATGCA
Found at i:9455031 original size:29 final size:29
Alignment explanation
Indices: 9454996--9455090 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
9454986 TACGGAAACT
9454996 GCCACAAAGGCACTTCTTTAACAGAGATA
1 GCCACAAAGGCACTTCTTTAACAGAGATA
9455025 GCCACAAAGGCTCAC-T-TTTAACTA-AGATA
1 GCCACAAAGG--CACTTCTTTAAC-AGAGATA
* *
9455054 GCCACAAAGGCA-TCCTTT--CAGAGTTA
1 GCCACAAAGGCACTTCTTTAACAGAGATA
9455080 GCCACAAAGGC
1 GCCACAAAGGC
9455091 TCACTTATAC
Statistics
Matches: 58, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
25 1 0.02
26 16 0.28
27 2 0.03
28 3 0.05
29 31 0.53
30 2 0.03
31 3 0.05
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (29 bp):
GCCACAAAGGCACTTCTTTAACAGAGATA
Found at i:9457099 original size:16 final size:16
Alignment explanation
Indices: 9457078--9457108 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9457068 CCGATTTCTA
9457078 TGAGAGTGAGAGAGAG
1 TGAGAGTGAGAGAGAG
9457094 TGAGAGTGAGAGAGA
1 TGAGAGTGAGAGAGA
9457109 TTTACTTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.48, T:0.13
Consensus pattern (16 bp):
TGAGAGTGAGAGAGAG
Found at i:9458561 original size:24 final size:24
Alignment explanation
Indices: 9458515--9458568 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
9458505 TCTTTCTAGA
* **
9458515 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAATATTTATTAACATAAT
9458539 ATATTTAATATTTATTAACATAAT
1 ATATTTAATATTTATTAACATAAT
*
9458563 TTATTT
1 ATATTT
9458569 GACCTACGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
ATATTTAATATTTATTAACATAAT
Found at i:9490169 original size:22 final size:20
Alignment explanation
Indices: 9490128--9490169 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9490118 TCATTGTAGA
*
9490128 GAAATTGATGAATTAGGCTT
1 GAAATTGATGAATTAAGCTT
9490148 GAAATTGATAGATATTAAGCTT
1 GAAATTGAT-GA-ATTAAGCTT
9490170 AGATAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (20 bp):
GAAATTGATGAATTAAGCTT
Found at i:9498685 original size:19 final size:20
Alignment explanation
Indices: 9498649--9498686 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
9498639 GGCTGTGTGA
*
9498649 CACTTGTTTCTAAAATTTTT
1 CACTTGTTTCCAAAATTTTT
*
9498669 CACTT-TTTCCAATATTTT
1 CACTTGTTTCCAAAATTTT
9498687 ATATTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.24, C:0.18, G:0.03, T:0.55
Consensus pattern (20 bp):
CACTTGTTTCCAAAATTTTT
Found at i:9502842 original size:16 final size:17
Alignment explanation
Indices: 9502814--9502847 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9502804 TGTGGTATGG
*
9502814 CTTTCTCTTAATTTTCT
1 CTTTCTCTTAATTCTCT
9502831 CTTTCT-TTAATTCTCT
1 CTTTCTCTTAATTCTCT
9502847 C
1 C
9502848 ATCTCAAGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (17 bp):
CTTTCTCTTAATTCTCT
Found at i:9503902 original size:20 final size:20
Alignment explanation
Indices: 9503877--9503916 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9503867 CGTAAAATAA
9503877 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGTTTTACT
9503897 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGTTTTACT
9503917 GGAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGTTTTACT
Found at i:9503932 original size:14 final size:14
Alignment explanation
Indices: 9503896--9503932 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
9503886 AATGTTTTAC
*
9503896 TTTTCTGGAAAATG
1 TTTTCTGGAAAATA
9503910 TTTTACTGGAAAATA
1 TTTT-CTGGAAAATA
9503925 TTTTCTGG
1 TTTTCTGG
9503933 TGTTTGATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (14 bp):
TTTTCTGGAAAATA
Found at i:9515228 original size:10 final size:10
Alignment explanation
Indices: 9515209--9515250 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
9515199 AACTGTTATA
9515209 AATAAATATT
1 AATAAATATT
*
9515219 AATAACTATT
1 AATAAATATT
9515229 -ATAAATA--
1 AATAAATATT
9515236 AATAAATATT
1 AATAAATATT
9515246 AATAA
1 AATAA
9515251 CTCTCGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
8 7 0.26
9 6 0.22
10 14 0.52
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
AATAAATATT
Found at i:9518205 original size:19 final size:20
Alignment explanation
Indices: 9518176--9518222 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
9518166 TAGAATGAAT
9518176 ATAACATATAATATA-ATATAA
1 ATAA-ATATAATA-ACATATAA
9518197 A-AAATATAATAACATATAA
1 ATAAATATAATAACATATAA
9518216 ATAAATA
1 ATAAATA
9518223 AACAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.04
19 15 0.62
20 7 0.29
21 1 0.04
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAAATATAATAACATATAA
Found at i:9518209 original size:29 final size:27
Alignment explanation
Indices: 9518176--9518229 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
9518166 TAGAATGAAT
9518176 ATAACATATAATATAATATAAAAAATATA
1 ATAACATATAA-ATAA-ATAAAAAATATA
*
9518205 ATAACATATAAATAAATAAACAATA
1 ATAACATATAAATAAATAAAAAATA
9518230 AATTAAATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 9 0.38
28 4 0.17
29 11 0.46
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (27 bp):
ATAACATATAAATAAATAAAAAATATA
Found at i:9519784 original size:19 final size:20
Alignment explanation
Indices: 9519760--9519809 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
9519750 GATATATGTT
9519760 GATTAATTAAGTAAAATA-A
1 GATTAATTAAGTAAAATATA
*
9519779 GATTAATTAAGAAAAATATA
1 GATTAATTAAGTAAAATATA
9519799 -ATTAATTAAGT
1 GATTAATTAAGT
9519810 TAATTAACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (20 bp):
GATTAATTAAGTAAAATATA
Found at i:9519839 original size:2 final size:2
Alignment explanation
Indices: 9519832--9519856 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9519822 AATCTACACG
9519832 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9519857 GAAATTAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9524055 original size:14 final size:15
Alignment explanation
Indices: 9524025--9524058 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9524015 CCTCCTTTAG
*
9524025 AAATTTTGTCCTCGA
1 AAATTTTCTCCTCGA
9524040 AAATTTTCTCCT-GA
1 AAATTTTCTCCTCGA
9524054 AAATT
1 AAATT
9524059 GTTTCATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (15 bp):
AAATTTTCTCCTCGA
Found at i:9528310 original size:14 final size:14
Alignment explanation
Indices: 9528291--9528323 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9528281 GCATTTGTAT
9528291 CAAATCAATCATTC
1 CAAATCAATCATTC
9528305 CAAATCAATCATTC
1 CAAATCAATCATTC
*
9528319 AAAAT
1 CAAAT
9528324 GTATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
CAAATCAATCATTC
Found at i:9528975 original size:27 final size:26
Alignment explanation
Indices: 9528935--9529003 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
9528925 GTATAGACAC
*
9528935 TTCATATAACCATTTCATATATTTAT
1 TTCATATAACCATTTCATATATCTAT
* **
9528961 TTCCATATAAACATTTTGTATATCTAT
1 TT-CATATAACCATTTCATATATCTAT
*
9528988 TTCATATTACCATTTC
1 TTCATATAACCATTTC
9529004 CGTTTACTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
26 13 0.37
27 22 0.63
ACGTcount: A:0.32, C:0.17, G:0.01, T:0.49
Consensus pattern (26 bp):
TTCATATAACCATTTCATATATCTAT
Found at i:9529168 original size:26 final size:26
Alignment explanation
Indices: 9529110--9529160 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
9529100 ACAAGCTTTG
* *
9529110 GAATAGGCCTGCTCACACGAGCTGTA
1 GAATGGGCCTGCTCACACGAGCTATA
9529136 GAATGGGCCTGCTCACACGAGCTAT
1 GAATGGGCCTGCTCACACGAGCTAT
9529161 GGGTTGGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.20
Consensus pattern (26 bp):
GAATGGGCCTGCTCACACGAGCTATA
Found at i:9533607 original size:26 final size:26
Alignment explanation
Indices: 9533547--9533609 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
9533537 TTACCCCTAG
* * *
9533547 TAAAATTTTAACAGTTTTACCCTCGA
1 TAAAATTTTAACAATTTTACCATCAA
* * *
9533573 CAAATTTTTGACAATTTTACCATCAA
1 TAAAATTTTAACAATTTTACCATCAA
9533599 TAAAATTTTAA
1 TAAAATTTTAA
9533610 GAAAATATGT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (26 bp):
TAAAATTTTAACAATTTTACCATCAA
Found at i:9541674 original size:183 final size:185
Alignment explanation
Indices: 9541320--9541717 Score: 484
Period size: 183 Copynumber: 2.2 Consensus size: 185
9541310 AACCACATAA
* *
9541320 AAAAAT-TTTATTTTATACCCAAAAAAATATAGACAAATGTTTATAATGTATAATTTAAACACTC
1 AAAAATGTTTATTTTATACCC-AAAAAGTATAAACAAATGTTTATAATGTATAATTTAAACACTC
* * * * * * * *
9541384 TAGAAGTATTTTAATATAATATTAGAATCCCTGCTTTTGCATGTTTTTTCTTTCTTTATTCCAAT
65 TAGAACTATTTTAATATAATATTAGAAACACTGCTTCTACAGGTTTTTTCTTCCTTTATTCCAAC
* *
9541449 GAAGTGCATTAGTTTTTATTTTACACTTAAACATGTTTTTTTTCTAAATTGTACCT
130 GAAGTGCATTAGTTTTTATTTTACACTTAAACATGGTTTTTTTATAAATTGTACCT
* * * ** *
9541505 AAATA-GTTT-TTTTATACCCAAAAAGTATAAATAAATTTTTATAATGTATCGTTTAAACATTCT
1 AAAAATGTTTATTTTATACCCAAAAAGTATAAACAAATGTTTATAATGTATAATTTAAACACTCT
* * * *
9541568 GGCACTATTTTAATATAATATTAGAAACTAC-GCTTCTATAGGTTTTTT-TTCCTTT-TCTTCAA
66 AGAACTATTTTAATATAATATTAGAAAC-ACTGCTTCTACAGGTTTTTTCTTCCTTTAT-TCCAA
*
9541630 CGAAGTGCATTAGTTTTTTATTTTACACTTAAACATGGTTTTTTTATAAATTGTACTT
129 CGAAGTGCATTAG-TTTTTATTTTACACTTAAACATGGTTTTTTTATAAATTGTACCT
* * *
9541688 AAAAATTTTTATTTTATACCGAATAAGTAT
1 AAAAATGTTTATTTTATACCCAAAAAGTAT
9541718 TTTTCAAATT
Statistics
Matches: 180, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
181 1 0.01
182 22 0.12
183 119 0.66
184 14 0.08
185 24 0.13
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.46
Consensus pattern (185 bp):
AAAAATGTTTATTTTATACCCAAAAAGTATAAACAAATGTTTATAATGTATAATTTAAACACTCT
AGAACTATTTTAATATAATATTAGAAACACTGCTTCTACAGGTTTTTTCTTCCTTTATTCCAACG
AAGTGCATTAGTTTTTATTTTACACTTAAACATGGTTTTTTTATAAATTGTACCT
Found at i:9543733 original size:62 final size:59
Alignment explanation
Indices: 9543626--9543739 Score: 165
Period size: 62 Copynumber: 1.9 Consensus size: 59
9543616 AATTTAGTAA
* * *
9543626 TAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAACATTAAATCTTAT
1 TAAATTAATAAAATATTTATCAAGATAAACATTAAATTAAATTTAACATTAAATCTTAT
*
9543685 TAAATTAATAAAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TAAATTAATAAAATATTTA--T-CAAGATAAACATTAAATTAAATTTAACATTAA
9543740 GATAATCACT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
59 18 0.38
61 1 0.02
62 29 0.60
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (59 bp):
TAAATTAATAAAATATTTATCAAGATAAACATTAAATTAAATTTAACATTAAATCTTAT
Found at i:9544442 original size:21 final size:21
Alignment explanation
Indices: 9544416--9544458 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9544406 GGTTCGCTGT
*
9544416 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
9544437 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
9544458 A
1 A
9544459 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:9544458 original size:16 final size:16
Alignment explanation
Indices: 9544439--9544471 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9544429 TGTATTGGAT
*
9544439 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
9544455 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
9544471 T
1 T
9544472 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:9544516 original size:45 final size:44
Alignment explanation
Indices: 9544450--9544544 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
9544440 GGATTAGAGG
* *
9544450 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
9544495 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
9544539 TGTAAT
1 TGTAAT
9544545 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:9544727 original size:18 final size:17
Alignment explanation
Indices: 9544706--9544740 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9544696 TTATTATTTA
*
9544706 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9544724 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9544741 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:9544734 original size:28 final size:27
Alignment explanation
Indices: 9544664--9544736 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
9544654 TTTATTATCA
*
9544664 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
9544692 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
9544719 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
9544737 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:9544853 original size:144 final size:147
Alignment explanation
Indices: 9544625--9544896 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
9544615 ATGATTATTG
9544625 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
9544690 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
9544755 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
9544774 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
9544836 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
9544897 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 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:9544871 original size:18 final size:17
Alignment explanation
Indices: 9544850--9544884 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9544840 TTATTATTAA
*
9544850 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
9544868 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
9544885 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:9564783 original size:10 final size:10
Alignment explanation
Indices: 9564768--9564798 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9564758 CTCCATGTAT
9564768 TAAATATATA
1 TAAATATATA
9564778 TAAATATATA
1 TAAATATATA
*
9564788 TATATATATA
1 TAAATATATA
9564798 T
1 T
9564799 GCCTCTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
TAAATATATA
Found at i:9565471 original size:22 final size:22
Alignment explanation
Indices: 9565411--9565468 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
9565401 AATCTTCAAG
9565411 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
9565430 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
9565452 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
9565469 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:9565716 original size:23 final size:23
Alignment explanation
Indices: 9565668--9565716 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9565658 TTGTTCTTAT
* *
9565668 TTTATTGATTTGTGTATAATTTA
1 TTTATTGATTTGTATATAATTGA
**
9565691 TTTATTGATTTGTATATTGTTGA
1 TTTATTGATTTGTATATAATTGA
9565714 TTT
1 TTT
9565717 CAAATCTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.63
Consensus pattern (23 bp):
TTTATTGATTTGTATATAATTGA
Found at i:9566086 original size:35 final size:35
Alignment explanation
Indices: 9566014--9566086 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
9566004 CATACATACG
*
9566014 TTTTATAATATATATATACGTACACATTTTTTAATT
1 TTTTATAATATATATATACG-ACACATTTTATAATT
*
9566050 TTTTATAA-ATATATATAC-ACATACTTTTATATATT
1 TTTTATAATATATATATACGACACA-TTTTATA-ATT
9566085 TT
1 TT
9566087 CCATGTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
33 4 0.12
34 6 0.18
35 15 0.45
36 8 0.24
ACGTcount: A:0.37, C:0.08, G:0.01, T:0.53
Consensus pattern (35 bp):
TTTTATAATATATATATACGACACATTTTATAATT
Found at i:9566471 original size:20 final size:18
Alignment explanation
Indices: 9566446--9566486 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
9566436 TTTATATTTA
9566446 CATTATCACAATTGTTACTC
1 CATTAT-ACAATTGTTAC-C
*
9566466 CATTATATAATTGTTACC
1 CATTATACAATTGTTACC
9566484 CAT
1 CAT
9566487 ATTCGTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (18 bp):
CATTATACAATTGTTACC
Found at i:9570414 original size:31 final size:31
Alignment explanation
Indices: 9570376--9570435 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
9570366 TAGGTACCCA
9570376 GATATCAATGACATGAGTGACGCTGCTACGG
1 GATATCAATGACATGAGTGACGCTGCTACGG
9570407 GATATCAATGACATGAGTGACGCTGCTAC
1 GATATCAATGACATGAGTGACGCTGCTAC
9570436 AGACTCAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (31 bp):
GATATCAATGACATGAGTGACGCTGCTACGG
Found at i:9571394 original size:10 final size:10
Alignment explanation
Indices: 9571379--9571415 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
9571369 ATCCAATTCA
9571379 AAAAAAACCC
1 AAAAAAACCC
*
9571389 AAAAAAACAC
1 AAAAAAACCC
*
9571399 AAAAAAAACC
1 AAAAAAACCC
9571409 AAAAAAA
1 AAAAAAA
9571416 TCAAAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACCC
Found at i:9571403 original size:21 final size:20
Alignment explanation
Indices: 9571377--9571415 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9571367 AGATCCAATT
9571377 CAAAAAAAACCCAAAAAAACA
1 CAAAAAAAA-CCAAAAAAACA
9571398 CAAAAAAAACCAAAAAAA
1 CAAAAAAAACCAAAAAAA
9571416 TCAAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (20 bp):
CAAAAAAAACCAAAAAAACA
Found at i:9571415 original size:9 final size:9
Alignment explanation
Indices: 9571379--9571422 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
9571369 ATCCAATTCA
9571379 AAAAAAACCC
1 AAAAAAA-CC
9571389 AAAAAAACAC
1 AAAAAAAC-C
9571399 AAAAAAAACC
1 -AAAAAAACC
*
9571409 AAAAAAATC
1 AAAAAAACC
9571418 AAAAA
1 AAAAA
9571423 TCAAAATCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
9 14 0.45
10 9 0.29
11 8 0.26
ACGTcount: A:0.80, C:0.18, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAACC
Found at i:9571434 original size:20 final size:20
Alignment explanation
Indices: 9571411--9571449 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9571401 AAAAAACCAA
*
9571411 AAAAATCAAAAATCAAAATC
1 AAAAATAAAAAATCAAAATC
* *
9571431 AAAATTAAAAAATGAAAAT
1 AAAAATAAAAAATCAAAAT
9571450 GACAAAAAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.18
Consensus pattern (20 bp):
AAAAATAAAAAATCAAAATC
Found at i:9572797 original size:44 final size:43
Alignment explanation
Indices: 9572735--9573108 Score: 471
Period size: 44 Copynumber: 8.7 Consensus size: 43
9572725 CACAAAGCTT
* *
9572735 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGGTTGTAAGTCT
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAA-TCC
* *
9572779 TATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
** *
9572823 TATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
*
9572867 TATCTCCCTGGTCAGCAGTGAAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAA-TCC
*
9572911 TATCTCCCTGGTCAGTAGTGG-A-A---T-AAG--TG-AATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAATCC
* **
9572945 TATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGAAGGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
*
9572989 TATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
9573033 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
* *
9573077 TATCTCCCTAAG-CAGCAGTGGAGTAGGTTGAA
1 TATCTCCCT-GGTCAGCAGTGGAATAGGTTGAA
9573109 AATTACAGAT
Statistics
Matches: 296, Mismatches: 21, Indels: 26
0.86 0.06 0.08
Matches are distributed among these distances:
34 22 0.07
35 3 0.01
36 3 0.01
38 3 0.01
39 2 0.01
40 3 0.01
42 2 0.01
43 2 0.01
44 254 0.86
45 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAATCC
Found at i:9572993 original size:166 final size:166
Alignment explanation
Indices: 9572779--9573085 Score: 508
Period size: 166 Copynumber: 1.8 Consensus size: 166
9572769 TTGTAAGTCT
** * *
9572779 TATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAATAGTGG
1 TATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGAAGGTGAATCCTATCTCCCTGGTCAACAGTGG
*
9572844 AATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGAAATAGGTTGAAGATTGT-AAG
66 AATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGAAATAGGTTGAAGATTGTGAA-
9572908 TCCTATCTCCCTGGTCAGTAGTGGAATAAGTGAATCC
130 TCCTATCTCCCTGGTCAGTAGTGGAATAAGTGAATCC
* * * *
9572945 TATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGAAGGTGAATCCTATCTCCCTGGTTAGCAGTGG
1 TATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGAAGGTGAATCCTATCTCCCTGGTCAACAGTGG
*
9573010 AATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
66 AATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGAAATAGGTTGAAGATTGTGAAT
9573075 CCTATCTCCCT
131 CCTATCTCCCT
9573086 AAGCAGCAGT
Statistics
Matches: 130, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
166 128 0.98
167 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (166 bp):
TATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGAAGGTGAATCCTATCTCCCTGGTCAACAGTGG
AATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGAAATAGGTTGAAGATTGTGAAT
CCTATCTCCCTGGTCAGTAGTGGAATAAGTGAATCC
Found at i:9573037 original size:122 final size:122
Alignment explanation
Indices: 9572815--9573057 Score: 380
Period size: 122 Copynumber: 2.0 Consensus size: 122
9572805 GTTGAAGATT
* * ** *
9572815 GTGAGTCCTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTC
1 GTGAATCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGAAGGTGAATCCTATCTCCCTGGTC
*
9572880 AGCAGTGAAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGTAGTGGAATAA
66 AGCAGTGAAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAA
* * *
9572937 GTGAATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGAAGGTGAATCCTATCTCCCTGGTT
1 GTGAATCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGAAGGTGAATCCTATCTCCCTGGTC
*
9573002 AGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTATCTCCCTGGTCAGCAGTGGAATA
66 AGCAGTGAAATAGGTTGAAGATTGT-AAGTCCTATCTCCCTGGTCAGCAGTGGAATA
9573058 GGTTGAAGAT
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
122 108 0.98
123 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (122 bp):
GTGAATCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGAAGGTGAATCCTATCTCCCTGGTC
AGCAGTGAAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAA
Found at i:9573125 original size:44 final size:43
Alignment explanation
Indices: 9573002--9573274 Score: 144
Period size: 44 Copynumber: 6.2 Consensus size: 43
9572992 CTCCCTGGTT
* * ** * *
9573002 AGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCT-GGTC
1 AGCAGTGGAGTAGGTTGAAAATTCAG-ATCTTATCTCCCTAAG-C
* * ** *
9573046 AGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTAAGC
1 AGCAGTGGAGTAGGTTGAAAATTCAG-ATCTTATCTCCCTAAGC
9573090 AGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGC
1 AGCAGTGGAGTAGGTTGAAAATT-CAGATCTTATCTCCCTAAGC
* * * ** * *
9573134 AGTAGTGGAGCAGATTGAAGACGGTGA-ATCTTATCTTCCC-AAGGT
1 AGCAGTGGAGTAGGTTGAA-A-ATTCAGATCTTATC-TCCCTAA-GC
* * * * * * * *
9573179 AGTAG-GGAAGTAGATTTAAGCCACT-AG-CCTTATCTCCTTGAGC
1 AGCAGTGG-AGTAGGTTGAA--AATTCAGATCTTATCTCCCTAAGC
*
9573222 AGCAGTGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGC
1 AGCAGTGGAGTAGGTTGAAAATT-CAGATCTTATCTCCCTAAGC
*
9573266 AGTAGTGGA
1 AGCAGTGGA
9573275 ACAGATCGAA
Statistics
Matches: 183, Mismatches: 32, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.01
43 19 0.10
44 137 0.75
45 24 0.13
46 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
AGCAGTGGAGTAGGTTGAAAATTCAGATCTTATCTCCCTAAGC
Found at i:9573125 original size:88 final size:88
Alignment explanation
Indices: 9572939--9573169 Score: 261
Period size: 88 Copynumber: 2.6 Consensus size: 88
9572929 TGGAATAAGT
* * *
9572939 GAATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGAAGGTGAATCCTATCTCCCTGGTTAG
1 GAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGAAGGTGAATCCTATCTCCCTAGTCAG
* **
9573004 CAGTGGAATAGGTTGAAGATTGT
66 CAGTGGAATAGGTTGAAAATTCA
**
9573027 GAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTAAG-CA
1 GAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGAAGGTGAATCCTATCTCCCT-AGTCA
*
9573091 GCAGTGGAGTAGGTTGAAAATTACA
65 GCAGTGGAATAGGTTGAAAATT-CA
* * * ** * * *
9573116 G-ATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATTGAAGACGGTGAATCTTATCT
1 GAATCCTATCTCCCT-GGTCAGCAGTGGAATAGGTTGAAGAAGGTGAATCCTATCT
9573170 TCCCAAGGTA
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
88 119 0.98
89 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (88 bp):
GAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGAAGGTGAATCCTATCTCCCTAGTCAG
CAGTGGAATAGGTTGAAAATTCA
Found at i:9573127 original size:210 final size:210
Alignment explanation
Indices: 9572735--9573142 Score: 585
Period size: 210 Copynumber: 1.9 Consensus size: 210
9572725 CACAAAGCTT
* *
9572735 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGGTTGTAAGTCTTATCTCCCTAGTCAGCAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGGGTGTAAGTCCTATCTCCCTAGTCAGCAGTGG
* * *
9572800 AATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTGAGT
66 AATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTGAAT
* * *
9572865 CCTATCTCCCTGGTCAGCAGTGAAATAGGTTGAAGATTGTAAGTCCTATCTCCCT-GGTCAGTAG
131 CCTATCTCCCTAGTCAGCAGTGAAATAGGTTGAAGAATGTAAGTCCTATCTCCCTAAG-CAGTAG
9572929 TGGAATAAGTGAATCC
195 TGGAATAAGTGAATCC
* * *
9572945 TATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGAAGGTG-AA-TCCTATCTCCCTGGTTAGCAGT
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAG--GGTGTAAGTCCTATCTCCCTAGTCAGCAGT
*
9573008 GGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGA
64 GGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTGA
* * *
9573073 ATCCTATCTCCCTAAG-CAGCAGTGGAGTAGGTTGAA-AAT-TACAGATCTTATCTCCCTAAGCA
129 ATCCTATCTCCCT-AGTCAGCAGTGAAATAGGTTGAAGAATGTA-AG-TCCTATCTCCCTAAGCA
9573135 GTAGTGGA
191 GTAGTGGA
9573143 GCAGATTGAA
Statistics
Matches: 177, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
208 2 0.01
209 4 0.02
210 164 0.93
211 4 0.02
212 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (210 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGGGTGTAAGTCCTATCTCCCTAGTCAGCAGTGG
AATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTGAAT
CCTATCTCCCTAGTCAGCAGTGAAATAGGTTGAAGAATGTAAGTCCTATCTCCCTAAGCAGTAGT
GGAATAAGTGAATCC
Found at i:9573213 original size:132 final size:132
Alignment explanation
Indices: 9573077--9573417 Score: 522
Period size: 132 Copynumber: 2.6 Consensus size: 132
9573067 TTGTGAATCC
9573077 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* *
9573142 AGCAGATTGAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAAGCCACTAGC
66 AGCAGATTGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGC
9573207 CT
131 CT
* * *
9573209 TATCTCCTTGAGCAGCAGTGGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* * * * *
9573274 AACAGATCGAAGACGGCGAATCTTGTCTTCCCAAGGTAGTAGGGAAGCATATTTAAGCCACTAGT
66 AGCAGATTGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGC
9573339 CT
131 CT
* * * ** *
9573341 TATCTCCCTGAA-CAGTAGTGGAGTAGGTTGAAAATAACAGATTTTATCTCCCTAAGTTGCAGTG
1 TATCTCCCT-AAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTG
9573405 GAGCAGATTGAAG
65 GAGCAGATTGAAG
9573418 CCAGTAGTCC
Statistics
Matches: 187, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
132 186 0.99
133 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATTGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGC
CT
Found at i:9573405 original size:44 final size:45
Alignment explanation
Indices: 9573338--9573500 Score: 154
Period size: 44 Copynumber: 3.7 Consensus size: 45
9573328 AAGCCACTAG
** * * * *
9573338 TCTTATCTCCCTGAA-CAGTAGTGGAGTAGGTTGAAAATAACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAATAGA
* *** *
9573382 TTTTATCTCCCT-AAGTTGCAGTGGAGCAGATTGAAGCCAGTAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAATAGA
* *
9573425 TCCTATCTCCCTGAAGTTGCAGTTGAGCAGATT-AAAATAATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAATAGA
* * *
9573469 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
9573501 CATATCAGGT
Statistics
Matches: 94, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
43 18 0.19
44 76 0.81
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAATAGA
Found at i:9574110 original size:22 final size:22
Alignment explanation
Indices: 9574050--9574107 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
9574040 AATCTCCAAG
9574050 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
9574069 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
9574091 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
9574108 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:9574402 original size:15 final size:16
Alignment explanation
Indices: 9574375--9574407 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
9574365 TTTTCCTTTT
9574375 TTCATTCATTTTCAAA
1 TTCATTCATTTTCAAA
9574391 TTCATT-ATTTTCAAA
1 TTCATTCATTTTCAAA
9574406 TT
1 TT
9574408 TGTTTACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (16 bp):
TTCATTCATTTTCAAA
Found at i:9575112 original size:20 final size:18
Alignment explanation
Indices: 9575087--9575127 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
9575077 TTTATATTTA
9575087 CATTATCACAATTGTTACTC
1 CATTAT-ACAATTGTTAC-C
*
9575107 CATTATATAATTGTTACC
1 CATTATACAATTGTTACC
9575125 CAT
1 CAT
9575128 ATTCGTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (18 bp):
CATTATACAATTGTTACC
Found at i:9579356 original size:20 final size:20
Alignment explanation
Indices: 9579319--9579357 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9579309 CCATTCATCG
* *
9579319 TATTATTTTTAGTATTATTT
1 TATTATTATTACTATTATTT
*
9579339 TATTATTATTACTCTTATT
1 TATTATTATTACTATTATT
9579358 ATACCCACGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (20 bp):
TATTATTATTACTATTATTT
Found at i:9579489 original size:20 final size:20
Alignment explanation
Indices: 9579464--9579506 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9579454 TAAAATTTTC
* *
9579464 TTTTTATAAATATATACATT
1 TTTTTACAAACATATACATT
*
9579484 TTTTTACAAACATATATATT
1 TTTTTACAAACATATACATT
9579504 TTT
1 TTT
9579507 ATATTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTACAAACATATACATT
Found at i:9583593 original size:46 final size:45
Alignment explanation
Indices: 9583514--9583602 Score: 106
Period size: 46 Copynumber: 2.0 Consensus size: 45
9583504 GAAGGAGAAG
** * * * *
9583514 AGACCAAGGTGAAAACCTGCAGAGGGCGTTTTGAGTCCTAAAAAAA
1 AGACCAAGGTGAAAACCCACAAAGAGCGCTTTGACT-CTAAAAAAA
*
9583560 AGACTAAGGTGAAAACCCACAAAGAGCGCTTTGACTCTAAAAA
1 AGACCAAGGTGAAAACCCACAAAGAGCGCTTTGACTCTAAAAA
9583603 TAAAAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 7 0.19
46 29 0.81
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (45 bp):
AGACCAAGGTGAAAACCCACAAAGAGCGCTTTGACTCTAAAAAAA
Found at i:9584955 original size:45 final size:45
Alignment explanation
Indices: 9584898--9585984 Score: 1235
Period size: 45 Copynumber: 24.2 Consensus size: 45
9584888 GGAGTAGGTT
* * * * *
9584898 GAAGATAGCAGATCCTGTCTTCCTATATCGGTAGCGGAGTAGATT
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * *
9584943 TAAAATAACAGATATTGTCTTCCTGTATTGGCAGCGAAGCAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * *
9584988 AAAGATAGCAAATCTTGTCTTCTTATGTTGGTAGC-AGAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGA-AGTAGATC
* *
9585033 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* *
9585078 AAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGGAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* *
9585123 GAAGATAACAGATCTTGTCTTCCTATATTGGCAACGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * * * *
9585168 GAAGATAGCAAATCTTATCTTTCTATGTTGGTAGTGGAGCAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * **
9585213 GAAGATAACAAATCTTGTCTTCCTGTATTGGCAATGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
9585258 AAAAATAACAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
9585303 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
9585348 GAAGATAATAGATATTGACTTCCTATATTGGCAGCGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * * *
9585393 AAATATAGCAGATTTTTTCTTCCTATGTTGGTAGCAAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
9585438 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * *
9585483 GAAAATAATAGATATTGTCTTCCTGTATTGGCAGCGAAGCAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *
9585528 AAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGC-AGAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGA-AGTAGATC
* * *
9585573 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
9585618 GAAGATAGCAGATCTTGTCTTTCTATGTTGGTAGCGGAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
9585663 GAAGATAATAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * *
9585708 AAAGATAGA-AGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATC
1 GAAGATA-ACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
9585753 GAAGATAATAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
9585798 GAAGATAGCAGATCTTGCCTTCCTATGTTGGTAGCGGAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * *
9585843 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGATGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * *
9585888 GAAGATAACAGATCTAGTATTTCTGTATTGGCAGCGATGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
* * * * * * * *
9585933 GAAGATAACAGATCTAGTATTTCTGTATCGGCAGTGAAGAAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
9585978 GAAGATA
1 GAAGATA
9585985 CAAGTCTTAT
Statistics
Matches: 878, Mismatches: 158, Indels: 12
0.84 0.15 0.01
Matches are distributed among these distances:
44 3 0.00
45 872 0.99
46 3 0.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (45 bp):
GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
Found at i:9585052 original size:90 final size:90
Alignment explanation
Indices: 9584898--9585984 Score: 1447
Period size: 90 Copynumber: 12.1 Consensus size: 90
9584888 GGAGTAGGTT
* * * ** * *
9584898 GAAGATAGCAGATCCTGTCTTCCTATATCGGTAGCGGAGTAGATTTAAAATAACAGATATTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
*
9584963 TCCTGTATTGGCAGCGAAGCAGATC
66 TCCTGTATTGGCAGCGAAGTAGATC
* * * *
9584988 AAAGATAGCAAATCTTGTCTTCTTATGTTGGTAGCAGAGTAGATCGAAGATAACAGATCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
9585053 TCCTGTATTGGCAGCGAAGTAGATC
66 TCCTGTATTGGCAGCGAAGTAGATC
* * *
9585078 AAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
* *
9585143 TCCTATATTGGCAACGAAGTAGATC
66 TCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
9585168 GAAGATAGCAAATCTTATCTTTCTATGTTGGTAGTGGAGCAGATCGAAGATAACAAATCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
**
9585233 TCCTGTATTGGCAATGAAGTAGATC
66 TCCTGTATTGGCAGCGAAGTAGATC
* * *
9585258 AAAAATAACAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
* *
9585323 TCCTATATTGGTAGCGAAGTAGATC
66 TCCTGTATTGGCAGCGAAGTAGATC
** * * * * * * * * * *
9585348 GAAGATAATAGATATTGACTTCCTATATTGGCAGCGAAGTAGATCAAATATAGCAGATTTTTTCT
1 GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
* * * *
9585413 TCCTATGTTGGTAGCAAAGTAGATC
66 TCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
9585438 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAAATAATAGATATTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
*
9585503 TCCTGTATTGGCAGCGAAGCAGATC
66 TCCTGTATTGGCAGCGAAGTAGATC
* *
9585528 AAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCAGAGTAGATCGAAGATAACAGATCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
*
9585593 TCCTGTATTGGCAGCAAAGTAGATC
66 TCCTGTATTGGCAGCGAAGTAGATC
* *
9585618 GAAGATAGCAGATCTTGTCTTTCTATGTTGGTAGCGGAGTAGATCGAAGATAATAGATCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
*
9585683 TCCTGTATTGGCAACGAAGTAGATC
66 TCCTGTATTGGCAGCGAAGTAGATC
* * *
9585708 AAAGATAGAAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAATAGATCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
*
9585773 TCCTGTATTGGCAACGAAGTAGATC
66 TCCTGTATTGGCAGCGAAGTAGATC
* *
9585798 GAAGATAGCAGATCTTGCCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAGCAGATCTTGTCT
1 GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
*
9585863 TCCTGTATTGGCAGCGATGTAGATC
66 TCCTGTATTGGCAGCGAAGTAGATC
* * * * * * * * *
9585888 GAAGATAACAGATCTAGTATTTCTGTATTGGCAGC-GATGTAGATCGAAGATAACAGATCTAGTA
1 GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGA-GTAGATCGAAGATAACAGATCTTGTC
* * * *
9585952 TTTCTGTATCGGCAGTGAAGAAGATC
65 TTCCTGTATTGGCAGCGAAGTAGATC
9585978 GAAGATA
1 GAAGATA
9585985 CAAGTCTTAT
Statistics
Matches: 881, Mismatches: 115, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
89 2 0.00
90 879 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (90 bp):
GAAGATAGCAGATCTTGTCTTCCTATGTTGGTAGCGGAGTAGATCGAAGATAACAGATCTTGTCT
TCCTGTATTGGCAGCGAAGTAGATC
Found at i:9587560 original size:20 final size:20
Alignment explanation
Indices: 9587522--9587561 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9587512 TCCATTCATC
* *
9587522 TTATTATTTTTAGTATTATT
1 TTATTATTATTACTATTATT
*
9587542 TTATTATTATTACTCTTATT
1 TTATTATTATTACTATTATT
9587562 ATATCCACGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
TTATTATTATTACTATTATT
Found at i:9589338 original size:16 final size:16
Alignment explanation
Indices: 9589317--9589381 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
9589307 TTCGCTGTAT
9589317 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
9589333 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
9589349 TGGAATAGATGTGTAA
1 TGGAATAGAGGCGTAA
9589365 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
9589381 T
1 T
9589382 AGCAAATCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.37, C:0.05, G:0.35, T:0.23
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:9589421 original size:45 final size:44
Alignment explanation
Indices: 9589360--9589450 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 44
9589350 GGAATAGATG
9589360 TGTAATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAA
* *
9589405 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
9589449 TG
1 TG
9589451 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.42
45 24 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:9589632 original size:16 final size:16
Alignment explanation
Indices: 9589595--9589636 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
9589585 TTAATCATAT
*
9589595 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
9589611 TT-AAATATATTATAA
1 TTAAAATATATTATAA
9589626 TTAAAATATAT
1 TTAAAATATAT
9589637 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:9589643 original size:14 final size:15
Alignment explanation
Indices: 9589604--9589645 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9589594 TTTAAACATA
*
9589604 ATTATTATTAAATAT
1 ATTATAATTAAATAT
9589619 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
9589633 A-TATAATTTAATA
1 ATTATAATTAAATA
9589646 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Done.