Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 337 of 410
Found at i:104341931 original size:25 final size:25
Alignment explanation
Indices: 104341853--104341932 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
104341843 GTAATTTATT
104341853 TTAAATTCTATCTTTTATAAATCTA
1 TTAAATTCTATCTTTTATAAATCTA
** * ** * *
104341878 TTAAAGACT-TGTAGTGT-AATTTA
1 TTAAATTCTATCTTTTATAAATCTA
104341901 TTTTAAATTCTATCTTTTATAAATCTA
1 --TTAAATTCTATCTTTTATAAATCTA
104341928 TTAAA
1 TTAAA
104341933 GACTTAATTT
Statistics
Matches: 37, Mismatches: 14, Indels: 8
0.63 0.24 0.14
Matches are distributed among these distances:
23 5 0.14
24 4 0.11
25 19 0.51
26 4 0.11
27 5 0.14
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (25 bp):
TTAAATTCTATCTTTTATAAATCTA
Found at i:104347483 original size:46 final size:46
Alignment explanation
Indices: 104347433--104347608 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
104347423 TGGTTGAGCA
104347433 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
104347479 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
104347524 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
104347572 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104347609 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:104347589 original size:93 final size:93
Alignment explanation
Indices: 104347430--104347601 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
104347420 GGATGGTTGA
* *
104347430 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
104347495 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
104347523 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
104347588 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
104347602 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:104349727 original size:40 final size:40
Alignment explanation
Indices: 104349672--104349806 Score: 252
Period size: 40 Copynumber: 3.4 Consensus size: 40
104349662 TATGTGCATA
104349672 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
104349712 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
104349752 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
104349792 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
104349807 GTTACATCCG
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:104349830 original size:80 final size:80
Alignment explanation
Indices: 104349672--104349830 Score: 237
Period size: 80 Copynumber: 2.0 Consensus size: 80
104349662 TATGTGCATA
*
104349672 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTTATTACAACCG
* ** *
104349737 GGTTAAGTCCCGAAG
66 AGCCAAATCCCGAAG
* * *
104349752 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTACATCCG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTTATTACAACCG
*
104349817 AGCCAAATTCCGAA
66 AGCCAAATCCCGAA
104349831 AGTATTTATG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTTATTACAACCG
AGCCAAATCCCGAAG
Found at i:104352474 original size:18 final size:17
Alignment explanation
Indices: 104352432--104352488 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 17
104352422 TTTTTTGGAT
104352432 TTTTTAGAAAGTTTTAAAA
1 TTTTTA-AAA-TTTTAAAA
*
104352451 TTTTTAAAATTTTTAAA
1 TTTTTAAAATTTTAAAA
*
104352468 TATTTTAAATATTTTATAA
1 T-TTTTAAA-ATTTTAAAA
104352487 TT
1 TT
104352489 AAATTTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 8 0.24
18 11 0.33
19 14 0.42
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
TTTTTAAAATTTTAAAA
Found at i:104352886 original size:25 final size:26
Alignment explanation
Indices: 104352825--104352894 Score: 70
Period size: 30 Copynumber: 2.5 Consensus size: 26
104352815 ATACTAAAAT
104352825 AATATAAAAATAAAATACGAAAATAGG
1 AATA-AAAAATAAAATACGAAAATAGG
*
104352852 ATACTTTAAAAAATAAAATCCGAAAATA-G
1 A-A---TAAAAAATAAAATACGAAAATAGG
*
104352881 AATAAATAATAAAA
1 AATAAAAAATAAAA
104352895 ACAAATGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
25 11 0.30
27 1 0.03
28 2 0.05
29 2 0.05
30 19 0.51
31 2 0.05
ACGTcount: A:0.66, C:0.06, G:0.07, T:0.21
Consensus pattern (26 bp):
AATAAAAAATAAAATACGAAAATAGG
Found at i:104352982 original size:153 final size:150
Alignment explanation
Indices: 104352667--104353003 Score: 491
Period size: 154 Copynumber: 2.2 Consensus size: 150
104352657 GCGGGTTTTT
* *** *
104352667 TACTAAAATAATAT-AAAATAAAATACAAAAATATTTTATTTTAAAAAATAAAATACGAAAATAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGGATACTTTAAAAAATAAAATACGAAAATAA
* * * *
104352731 AAAAATAAGAACAAAAGGCCAAAACTAGAGTTTTTTATTAAATTAATATAAAATAATACTAAAAT
66 AAAAATAAAAACAAAAGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAATAACACTAAAAT
104352796 AATACATTTGAAACATTATA
131 AATACATTTGAAACATTATA
*
104352816 TACTAAAATAATATAAAAATAAAATACGAAAATAGGATACTTTAAAAAATAAAATCCGAAAATAG
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGGATACTTTAAAAAATAAAATACGAAAAT--
*
104352881 AATAAATAATAAAAACAAATGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAA-AACACTA
64 AA-AAA-AATAAAAACAAAAGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAATAACACTA
*
104352945 AAATAATACATTTGAAACATTATG
127 AAATAATACATTTGAAACATTATA
104352969 TACTAAAATAATATAAAAAATAAAAT-CTGAAAATA
1 TACTAAAATAATAT-AAAAATAAAATAC-GAAAATA
104353004 AAATAAAAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
149 14 0.08
150 42 0.25
152 2 0.01
153 47 0.28
154 64 0.38
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (150 bp):
TACTAAAATAATATAAAAATAAAATACGAAAATAGGATACTTTAAAAAATAAAATACGAAAATAA
AAAAATAAAAACAAAAGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAATAACACTAAAAT
AATACATTTGAAACATTATA
Found at i:104353046 original size:120 final size:121
Alignment explanation
Indices: 104352858--104353124 Score: 412
Period size: 121 Copynumber: 2.2 Consensus size: 121
104352848 TAGGATACTT
* * *
104352858 TAAAAAATAAAATCCGAAAATAGAATAAATAATAAAAACAAATGGCCAAAACCAGAGTTTTTTAC
1 TAAAAAATAAAAT-CGAAAAT---ATAAATAAAAAAAACAAACGGCCAAAACAAGAGTTTTTTAC
104352923 TAAATTAATAT-AAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
62 TAAATTAATATAAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
*
104352982 TAAAAAATAAAATCTGAAAATA-AAATAAAAAAAACAAACGGCCAAAATAAGAGTTTTTTACTAA
1 TAAAAAATAAAATC-GAAAATATAAATAAAAAAAACAAACGGCCAAAACAAGAGTTTTTTACTAA
* *
104353046 ATTAATATAAAAAAATACTAAAATAATACATTTGAAACATTATGTGCTAAAATAATA
65 ATTAATATAAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
104353103 TAAAAAATAAAATACGAAAATA
1 TAAAAAATAAAAT-CGAAAATA
104353125 GTATATTTTA
Statistics
Matches: 134, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
120 46 0.34
121 67 0.50
122 1 0.01
123 1 0.01
124 19 0.14
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.25
Consensus pattern (121 bp):
TAAAAAATAAAATCGAAAATATAAATAAAAAAAACAAACGGCCAAAACAAGAGTTTTTTACTAAA
TTAATATAAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
Found at i:104353122 original size:25 final size:25
Alignment explanation
Indices: 104353094--104353174 Score: 74
Period size: 30 Copynumber: 3.1 Consensus size: 25
104353084 ATTATGTGCT
104353094 AAAATAATATAAAAAATAAAATACGA
1 AAAATAATATAAAAAATAAAATAC-A
* *
104353120 AAATAGTATATTTTAAAAAATAAAATTCA
1 AAA-A-TA-A-TATAAAAAATAAAATACA
* *
104353149 AAAATAAAATAAATAATAAAA-ACA
1 AAAATAATATAAAAAATAAAATACA
104353173 AA
1 AA
104353175 GGGCCAAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
24 4 0.09
25 11 0.24
26 4 0.09
27 3 0.07
28 3 0.07
29 5 0.11
30 15 0.33
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATACA
Found at i:104353216 original size:146 final size:144
Alignment explanation
Indices: 104352982--104353608 Score: 703
Period size: 146 Copynumber: 4.2 Consensus size: 144
104352972 TAAAATAATA
** * **
104352982 TAAAAAATAAAATCTGAAAATAAAA-TAAAAAAAACAAACGGCCAAAATAAGAGTTTTTTACTAA
1 TAAAAAATAAAATCCAAAAATAAAATTAATAAAAACAAA-GGCCAAAACCAGAGTTTTTTACTAA
* *
104353046 ATTAATATAAAAAAATACTAAAATAATACATTTGAAACATTATGTGCTAAAATAATATAAAAAAT
65 ATTAATAT-----AACA-TAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAT
104353111 AAAATACGAAAATAGTATATTT
123 AAAATACGAAAATAGTATATTT
*
104353133 TAAAAAATAAAATTCAAAAATAAAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTAC
1 TAAAAAATAAAATCCAAAAATAAAAT---TAATAAAAACAAA-GGCCAAAACCAGAGTTTTTTAC
* *
104353198 TAAATTAATATAAAAAATACTAAAATAATATATTTGAAACATTATGTACTAAAATAATATAAAAA
62 TAAATTAATAT----AACA-TAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
*
104353263 TAAAATACAAAAATAGTATATTT
122 TAAAATACGAAAATAGTATATTT
* *
104353286 TAAAAAATAAAATCCAAAAATAAAATT--TAAAAA-AAAGGCCAAAACCAAAATTTTTTACTAAA
1 TAAAAAATAAAATCCAAAAATAAAATTAATAAAAACAAAGGCCAAAACCAGAGTTTTTTACTAAA
* * *
104353348 TTAATATAAAAAACACTAAAATAATATATTTAAAATATTATGTACTAAAATAATAT-AAAATAAA
66 TTAATAT----AACA-TAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATAAA
*
104353412 ATAAGAAAATAGTATATTT
126 ATACGAAAATAGTATATTT
* *
104353431 TAAAAAATAAAATCCGAAAATAAAATTAA-AAAAACAAACGGCC-AAACTTAGAGTTTTTTACTA
1 TAAAAAATAAAATCCAAAAATAAAATTAATAAAAACAAA-GGCCAAAAC-CAGAGTTTTTTACTA
*
104353494 AATTAATATAAAAAAAAACAATAAAATAATACATTTTAAACATTA-GTACTAAAATAATATAAAA
64 AATTAATAT-------AAC-ATAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAA
*
104353558 AATAAAATACGAAAATAATATATTT
120 AATAAAATACGAAAATAGTATATTT
*
104353583 TAAAAAATAAAATCCGAAAATAAAAT
1 TAAAAAATAAAATCCAAAAATAAAAT
104353609 AAATCCCAAA
Statistics
Matches: 434, Mismatches: 27, Indels: 29
0.89 0.06 0.06
Matches are distributed among these distances:
145 51 0.12
146 82 0.19
147 10 0.02
148 31 0.07
150 16 0.04
151 50 0.12
152 52 0.12
153 52 0.12
154 47 0.11
155 43 0.10
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.27
Consensus pattern (144 bp):
TAAAAAATAAAATCCAAAAATAAAATTAATAAAAACAAAGGCCAAAACCAGAGTTTTTTACTAAA
TTAATATAACATAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATAAAATACG
AAAATAGTATATTT
Found at i:104353225 original size:275 final size:274
Alignment explanation
Indices: 104352708--104353575 Score: 1049
Period size: 275 Copynumber: 3.1 Consensus size: 274
104352698 TATTTTATTT
* *
104352708 TAAAAAATAAAATACGAAAATAAAA-AAATAAGAACAAAAGGCCAAAACT-AGAGTTTTTTATTA
1 TAAAAAATAAAATACGAAAATAAAATAAA-AAAAACAAAAGGCCAAAA-TAAGAGTTTTTTACTA
* *
104352771 AATTAATATAAAATAATACTAAAATAATACATTTGAAACATTATATACTAAAATAATATAAAAAT
64 AATTAATATAAAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAT
* * * *
104352836 AAAATACGAAAATAGGATACTTTAAAAAATAAAATCCGAAAATAGAATAAATAATAAAAACAAAT
129 AAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAATAATAAAAACAAAC
*
104352901 GGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAAACATT
194 GGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAAAACTAAAATAATACATTTGAAACATT
104352966 ATGTACTAAAATAATA
259 ATGTACTAAAATAATA
*
104352982 TAAAAAATAAAAT-CTGAAAATAAAATAAAAAAAACAAACGGCCAAAATAAGAGTTTTTTACTAA
1 TAAAAAATAAAATAC-GAAAATAAAATAAAAAAAACAAAAGGCCAAAATAAGAGTTTTTTACTAA
*
104353046 ATTAATATAAAAAAATACTAAAATAATACATTTGAAACATTATGTGCTAAAATAATATAAAAAAT
65 ATTAATATAAAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAT
* * *
104353111 AAAATACGAAAATAGTATATTTTAAAAAATAAAATTCAAAAATAAAATAAATAATAAAAACAAAG
129 AAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAATAATAAAAACAAAC
* *
104353176 GGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAATACTAAAATAATATATTTGAAACATT
194 GGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAAAACTAAAATAATACATTTGAAACATT
104353241 ATGTACTAAAATAATA
259 ATGTACTAAAATAATA
* * **** *
104353257 T-AAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATTTAAAAAAA
1 TAAAAAATAAAATAC---GA-A--A-A---T--AAAAT-AAA---AAAAACAAAAGGCCAAAATA
** * * * *
104353321 AGGCCAAAACCAAAATTTTTTACTAAATTAATAT-AAAAAACACTAAAATAATATATTTAAAATA
50 A-G---------AGT-TTTTTACTAAATTAATATAAAAAAATACTAAAATAATACATTTGAAACA
*
104353385 TTATGTACTAAAATAATAT-AAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCGAA
104 TTATGTACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAA
*
104353449 AATAAAAT---TAA-AAAAACAAACGGCC-AAACTTAGAGTTTTTTACTAAATTAATATAAAAAA
169 AATAAAATAAATAATAAAAACAAACGGCCAAAAC-CAGAGTTTTTTACTAAATTAATAT-AAAAA
*
104353509 AAACAATAAAATAATACATTTTAAACATTA-GTACTAAAATAATA
232 AAAC--TAAAATAATACATTTGAAACATTATGTACTAAAATAATA
104353553 TAAAAAATAAAATACGAAAATAA
1 TAAAAAATAAAATACGAAAATAA
104353576 TATATTTTAA
Statistics
Matches: 519, Mismatches: 39, Indels: 61
0.84 0.06 0.10
Matches are distributed among these distances:
273 2 0.00
274 119 0.23
275 149 0.29
277 1 0.00
278 1 0.00
280 1 0.00
281 1 0.00
284 1 0.00
285 2 0.00
286 5 0.01
287 4 0.01
290 15 0.03
291 2 0.00
293 5 0.01
294 37 0.07
295 11 0.02
296 15 0.03
297 35 0.07
298 50 0.10
300 45 0.09
301 18 0.03
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (274 bp):
TAAAAAATAAAATACGAAAATAAAATAAAAAAAACAAAAGGCCAAAATAAGAGTTTTTTACTAAA
TTAATATAAAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATAA
AATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAATAATAAAAACAAACGG
CCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAAAACTAAAATAATACATTTGAAACATTAT
GTACTAAAATAATA
Found at i:104353383 original size:14 final size:15
Alignment explanation
Indices: 104353362--104353415 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
104353352 TATAAAAAAC
104353362 ACTAAAATAATATAT
1 ACTAAAATAATATAT
* * *
104353377 -TTAAAATATTATGT
1 ACTAAAATAATATAT
*
104353391 ACTAAAATAATATAA
1 ACTAAAATAATATAT
*
104353406 AATAAAATAA
1 ACTAAAATAA
104353416 GAAAATAGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (15 bp):
ACTAAAATAATATAT
Found at i:104353572 original size:25 final size:25
Alignment explanation
Indices: 104353544--104353611 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 25
104353534 CATTAGTACT
104353544 AAAATAATATAAAAAATAAAATACG
1 AAAATAATATAAAAAATAAAATACG
*
104353569 AAAATAATATATTTTAAAAAATAAAATCCG
1 AAAAT-A-ATA---TAAAAAATAAAATACG
*
104353599 AAAATAAAATAAA
1 AAAATAATATAAA
104353612 TCCCAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
25 9 0.25
26 1 0.03
27 3 0.08
28 2 0.06
29 1 0.03
30 20 0.56
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.24
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATACG
Found at i:104353614 original size:17 final size:18
Alignment explanation
Indices: 104353586--104353621 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
104353576 TATATTTTAA
*
104353586 AAAATAAAATCCGAAAAT
1 AAAATAAAATCCCAAAAT
104353604 AAAAT-AAATCCCAAAAT
1 AAAATAAAATCCCAAAAT
104353621 A
1 A
104353622 TATTGAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.67, C:0.14, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAATAAAATCCCAAAAT
Found at i:104353758 original size:388 final size:387
Alignment explanation
Indices: 104353355--104354126 Score: 1510
Period size: 388 Copynumber: 2.0 Consensus size: 387
104353345 AAATTAATAT
104353355 AAAAAACACTAAAATAATATATTTAAAATATTATGTACTAAAATAATAT-AAAATAAAATAAGAA
1 AAAAAACACTAAAATAATATATTTAAAATATTATGTACTAAAATAATATAAAAATAAAATAAGAA
104353419 AATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATTAAAAAAACAAACGGCCAAACTTAGAG
66 AATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATTAAAAAAACAAACGGCCAAACTTAGAG
104353484 TTTTTTACTAAATTAATATAAAAAAAAACAATAAAATAATACATTTTAAACATTAGTACTAAAAT
131 TTTTTTACTAAATTAATAT-AAAAAAAACAATAAAATAATACATTTTAAACATTAGTACTAAAAT
104353549 AATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAATAAATC
195 AATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAATAAAT-
104353614 CCAAAATATATTGAACTACATGCCGGGTATATTATCTATATTATAATTTAAACCAAAATATTTTA
259 CCAAAATATATTGAACTACATGCCGGGTATATTATCTATATTATAATTTAAACCAAAATATTTTA
104353679 CTTATTATCATTTTAAAATAATAATAATATTTGTATTTGAATTGGATATATTTATTATTTTTAA
324 CTTATTATCATTTTAAAATAATAATAATATTTGTATTTGAATTGGATATATTTATTATTTTTAA
104353743 AAAAAACACTAAAATAATATATTTAAAATATTATGTACTAAAATAATATAAAAATAAAATAAGAA
1 AAAAAACACTAAAATAATATATTTAAAATATTATGTACTAAAATAATATAAAAATAAAATAAGAA
104353808 AATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATTAAAAAAACAAACGGCCAAACTTAGAG
66 AATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATTAAAAAAACAAACGGCCAAACTTAGAG
*
104353873 TTTTTTACTAAATTAATATAAAAAAAACACTAAAATAATACATTTTAAACATTAGTACTAAAATA
131 TTTTTTACTAAATTAATATAAAAAAAACAATAAAATAATACATTTTAAACATTAGTACTAAAATA
104353938 ATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAATAAATCC
196 ATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAATAAATCC
104354003 AAAATATATTGAACTACATGCCGGGTATATTATCTATATTATAATTTAAACCAAAATATTTTACT
261 AAAATATATTGAACTACATGCCGGGTATATTATCTATATTATAATTTAAACCAAAATATTTTACT
104354068 TATTATCATTTTAAAATAATAATAATATTTGTATTTGAATTGGATATATTTATTATTTT
326 TATTATCATTTTAAAATAATAATAATATTTGTATTTGAATTGGATATATTTATTATTTT
104354127 AATGTAGTAT
Statistics
Matches: 382, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
387 126 0.33
388 157 0.41
389 99 0.26
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (387 bp):
AAAAAACACTAAAATAATATATTTAAAATATTATGTACTAAAATAATATAAAAATAAAATAAGAA
AATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATTAAAAAAACAAACGGCCAAACTTAGAG
TTTTTTACTAAATTAATATAAAAAAAACAATAAAATAATACATTTTAAACATTAGTACTAAAATA
ATATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAATAAATCC
AAAATATATTGAACTACATGCCGGGTATATTATCTATATTATAATTTAAACCAAAATATTTTACT
TATTATCATTTTAAAATAATAATAATATTTGTATTTGAATTGGATATATTTATTATTTTTAA
Found at i:104353771 original size:14 final size:15
Alignment explanation
Indices: 104353750--104353792 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
104353740 TAAAAAAAAC
104353750 ACTAAAATAATATAT
1 ACTAAAATAATATAT
* * *
104353765 -TTAAAATATTATGT
1 ACTAAAATAATATAT
104353779 ACTAAAATAATATA
1 ACTAAAATAATATA
104353793 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (15 bp):
ACTAAAATAATATAT
Found at i:104353960 original size:25 final size:25
Alignment explanation
Indices: 104353932--104353999 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 25
104353922 CATTAGTACT
104353932 AAAATAATATAAAAAATAAAATACG
1 AAAATAATATAAAAAATAAAATACG
*
104353957 AAAATAATATATTTTAAAAAATAAAATCCG
1 AAAAT-A-ATA---TAAAAAATAAAATACG
*
104353987 AAAATAAAATAAA
1 AAAATAATATAAA
104354000 TCCAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
25 9 0.25
26 1 0.03
27 3 0.08
28 2 0.06
29 1 0.03
30 20 0.56
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.24
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATACG
Found at i:104354002 original size:17 final size:17
Alignment explanation
Indices: 104353974--104354008 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
104353964 TATATTTTAA
104353974 AAAATAAAATCCGAAAAT
1 AAAATAAAATCC-AAAAT
104353992 AAAAT-AAATCCAAAAT
1 AAAATAAAATCCAAAAT
104354008 A
1 A
104354009 TATTGAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 6 0.35
18 5 0.29
ACGTcount: A:0.69, C:0.11, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAATAAAATCCAAAAT
Found at i:104361256 original size:33 final size:33
Alignment explanation
Indices: 104361219--104361297 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
104361209 AGTAGAGTAT
* *
104361219 TGCGGTGGATATGGGCCGAGGGTAGTGCTGTAC
1 TGCGGTGGATATGGGCCGAGAGAAGTGCTGTAC
** **
104361252 TGCGGTGGATACAGGCCGAGAGAAGTGCTGTGT
1 TGCGGTGGATATGGGCCGAGAGAAGTGCTGTAC
*
104361285 TGCGATGGATATG
1 TGCGGTGGATATG
104361298 ACCTAAAGAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.19, C:0.14, G:0.43, T:0.24
Consensus pattern (33 bp):
TGCGGTGGATATGGGCCGAGAGAAGTGCTGTAC
Found at i:104363858 original size:154 final size:152
Alignment explanation
Indices: 104363354--104363974 Score: 923
Period size: 154 Copynumber: 4.1 Consensus size: 152
104363344 TATATTTTGG
*
104363354 TATTTATTTTATTTTCGGATTTTATTTTTTTAAAATATACTATTTTCTTATTTTATTTTTTATAT
1 TATTTATTTTATTTTCGGATTTTA-TTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
*
104363419 TATTTTAGTAC-TAATGTTTCAAATGTATTATTTT-AGTTTTTTATATTAATTTAGTAAAAAACT
65 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTATATTAATTTAGTAAAAAACT
* * *
104363482 CTAATTTTGGCCGTTT-ATTTTT
130 CTGATTTTGGCCCTTTGTTTTTT
* * * * *
104363504 TA--AATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTTGTATTTTATTTTGTATACT
1 TATTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
* *
104363567 ATTTTAATACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATTTAGTAAAAAAC
66 ATTTTAGTACATAATGTTTCAAATGTATTATTTTA--ATTTTTTTATATTAATTTAGTAAAAAAC
104363632 TCTTG-TTTTGGCCCTTTGTTTTTT
129 TC-TGATTTTGGCCCTTTGTTTTTT
*
104363656 TTTTTAAATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATA
1 TATTT--ATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATA
* *
104363721 TTATTTTAGTACATAATATTTCAAATGTATTATTTTAATTTTTTTATATTAATTTAATAAAAAAA
64 TTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTATATTAATTTAGT-AAAAAA
*
104363786 CTCTGGTTTTGGCCCTTTGTTTTTAT
128 CTCTGATTTTGGCCCTTTGTTTTT-T
104363812 TATTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
1 TATTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
* * *
104363877 ATTTTAGCATATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTC
66 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTATATTAATTTAGTAAAAAACTC
*
104363942 TGATTTTGGCCGC-TTATTTTTT
131 TGATTTTGGCC-CTTTGTTTTTT
104363964 TATTTTATTTT
1 TA-TTTATTTT
104363975 CAAATTTTAT
Statistics
Matches: 426, Mismatches: 30, Indels: 27
0.88 0.06 0.06
Matches are distributed among these distances:
147 46 0.11
148 41 0.10
150 2 0.00
151 39 0.09
152 10 0.02
153 34 0.08
154 133 0.31
155 27 0.06
156 94 0.22
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (152 bp):
TATTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
ATTTTAGTACATAATGTTTCAAATGTATTATTTTAATTTTTTTATATTAATTTAGTAAAAAACTC
TGATTTTGGCCCTTTGTTTTTT
Found at i:104363986 original size:118 final size:119
Alignment explanation
Indices: 104363851--104364071 Score: 381
Period size: 118 Copynumber: 1.9 Consensus size: 119
104363841 TAAAATATAC
** *
104363851 TATTTTCGTATTTTATTTTTTATATTATTTTAGCATATAATGTTTCAAATGTATTATTTTAGT-T
1 TATTTTCAAATTTTATTTTTTATATTATTTTAGCACATAATGTTTCAAATGTATTATTTTAGTAT
104363915 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCGCTTATTTTTTTATTT
66 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCGCTTATTTTTTTATTT
* *
104363969 TATTTTCAAATTTTATTTTTTTTATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTAT
1 TATTTTCAAATTTTATTTTTTATATTATTTTAGCACATAATGTTTCAAATGTATTATTTTAGTAT
*
104364034 TTTTTATATTAATTTAGTAAAAAACTCTGGTTTTGGCC
66 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCC
104364072 ATTTGTTTTT
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
118 58 0.60
119 38 0.40
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (119 bp):
TATTTTCAAATTTTATTTTTTATATTATTTTAGCACATAATGTTTCAAATGTATTATTTTAGTAT
TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCGCTTATTTTTTTATTT
Found at i:104363997 original size:272 final size:274
Alignment explanation
Indices: 104363697--104364276 Score: 936
Period size: 272 Copynumber: 2.1 Consensus size: 274
104363687 TAAAATATAC
**
104363697 TATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAAT-T
1 TATTTTCAAATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAATAT
* *
104363761 TTTTTATATTAATTTAATAAAAAAACTCTGGTTTTGGCCCTTTGTTTTTATTATTTATTTTATTT
66 TTTTTATATTAATTTAAT-AAAAAACTCTGGTTTTGGCCATTTGTTTTTATTATTTATTCTATTT
*
104363826 TCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGCATATAA
130 TCGGATTTTATTTTTTAAAATACACTATTTTCGTATTTTA-TTTTTATATTATTTTAGCATATAA
*
104363891 TGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCGC
194 TGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCAC
104363955 TTATT-TT-TTTATTT
259 TTATTCTTATTTATTT
* * *
104363969 TATTTTCAAATTTTATTTTTTTTATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTAT
1 TATTTTCAAATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAATAT
*
104364034 TTTTTATATTAATTTAGTAAAAAACTCTGGTTTTGGCCATTTGTTTTTATTATTTATTCTATTTT
66 TTTTTATATTAATTTAATAAAAAACTCTGGTTTTGGCCATTTGTTTTTATTATTTATTCTATTTT
* * *
104364099 CGGATTTTATTTTTTAAAGTACCCTATTTTCGTATTTTATTTTTATATTATTTTAGTATATAATG
131 CGGATTTTATTTTTTAAAATACACTATTTTCGTATTTTATTTTTATATTATTTTAGCATATAATG
* * *
104364164 TTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTATTAAAAAACTCTGGTTTTGGCCATTT
196 TTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCACTT
* *
104364229 GTTCTTATTTTTTT
261 ATTCTTATTTATTT
*
104364243 TATTTTCAGATTTTA-TTTTTATATTATTTTAGTA
1 TATTTTCAAATTTTATTTTTTATATTATTTTAGTA
104364277 AAAAACCCGC
Statistics
Matches: 284, Mismatches: 20, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
271 46 0.16
272 180 0.63
273 38 0.13
274 20 0.07
ACGTcount: A:0.27, C:0.07, G:0.08, T:0.59
Consensus pattern (274 bp):
TATTTTCAAATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAATAT
TTTTTATATTAATTTAATAAAAAACTCTGGTTTTGGCCATTTGTTTTTATTATTTATTCTATTTT
CGGATTTTATTTTTTAAAATACACTATTTTCGTATTTTATTTTTATATTATTTTAGCATATAATG
TTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCACTT
ATTCTTATTTATTT
Found at i:104364162 original size:153 final size:151
Alignment explanation
Indices: 104363969--104364262 Score: 491
Period size: 153 Copynumber: 1.9 Consensus size: 151
104363959 TTTTTTATTT
*
104363969 TATTTTCAAATTTTATTTTTTTTATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTAT
1 TATTTTCAAATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTAT
*
104364034 TTTTTATATTAATTTAGTAAAAAACTCTGGTTTTGGCCATTTGTTTTTATTATTTATTCTATTTT
66 TTTTTATATTAATTTAGTAAAAAACTCTGGTTTTGGCCATTTGTTCTTATT-TTT-TT-TATTTT
*
104364099 CGGATTTTATTTTTTAAAGTACCC
128 CAGATTTTATTTTTTAAAGTACCC
** *
104364123 TATTTTCGTATTTTA-TTTTTATATTATTTTAGTATATAATGTTTCAAATGTATTATTTTAGTAT
1 TATTTTCAAATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTAT
*
104364187 TTTTTATATTAATTTATTAAAAAACTCTGGTTTTGGCCATTTGTTCTTATTTTTTTTATTTTCAG
66 TTTTTATATTAATTTAGTAAAAAACTCTGGTTTTGGCCATTTGTTCTTATTTTTTTTATTTTCAG
104364252 ATTTTATTTTT
131 ATTTTATTTTT
104364263 ATATTATTTT
Statistics
Matches: 133, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
150 19 0.14
151 2 0.02
152 3 0.02
153 96 0.72
154 13 0.10
ACGTcount: A:0.26, C:0.07, G:0.08, T:0.59
Consensus pattern (151 bp):
TATTTTCAAATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTAT
TTTTTATATTAATTTAGTAAAAAACTCTGGTTTTGGCCATTTGTTCTTATTTTTTTTATTTTCAG
ATTTTATTTTTTAAAGTACCC
Found at i:104364765 original size:27 final size:27
Alignment explanation
Indices: 104364719--104364774 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
104364709 TAATAATAAC
104364719 AATTAAAATAAATAATTTATTTCCTTA
1 AATTAAAATAAATAATTTATTTCCTTA
*
104364746 AATTAACAACTAAA-AA-TTATTTTCTTA
1 AATTAA-AA-TAAATAATTTATTTCCTTA
104364773 AA
1 AA
104364775 AAAAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 18 0.69
28 4 0.15
29 4 0.15
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (27 bp):
AATTAAAATAAATAATTTATTTCCTTA
Found at i:104364834 original size:12 final size:12
Alignment explanation
Indices: 104364805--104364846 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
104364795 CTTCCCTCCC
* *
104364805 TCTTCTTCTCCT
1 TCTTCTTTTTCT
104364817 TC-TCTTTTTCT
1 TCTTCTTTTTCT
104364828 TCTTCTTTTTCT
1 TCTTCTTTTTCT
*
104364840 TTTTCTT
1 TCTTCTT
104364847 CCCTCACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TCTTCTTTTTCT
Found at i:104365305 original size:26 final size:26
Alignment explanation
Indices: 104365276--104365326 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
104365266 AAAAATCCTG
104365276 ACCTATTGTTTTTTTTTTACCTATAA
1 ACCTATTGTTTTTTTTTTACCTATAA
104365302 ACCTATTGTTTTTTTTTTACCTATA
1 ACCTATTGTTTTTTTTTTACCTATA
104365327 GATGTCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.04, T:0.59
Consensus pattern (26 bp):
ACCTATTGTTTTTTTTTTACCTATAA
Found at i:104365430 original size:181 final size:181
Alignment explanation
Indices: 104365120--104365452 Score: 465
Period size: 181 Copynumber: 1.8 Consensus size: 181
104365110 TTTATTTTTT
* * * *
104365120 AACCTATTATTTTTTTTTTACCTGTAGATGTCAGAAAATTGAGGGTGGTACTACCTATGCACCAC
1 AACCTATTATTTTTTTTTTACCTATAGATGTCAAAAAATTGAGGATGGTACCACCTATGCACCAC
* * * **
104365185 CCTCTATCACTTGGAATAGCCTATTTTCGTATATAATTTTGAAAGCAACCTATTTTGGTTTTTTT
66 CCTCTATCACGTGGAATAACCTATTTTCATATATAATTTTGAAAGCAACCTATTTACGTTTTTTT
*
104365250 TTAATATTATTATAGTAAAAATCCTGACCTATTGTTTTTTTTTTACCTATA
131 TCAATATTATTATAGTAAAAATCCTGACCTATTGTTTTTTTTTTACCTATA
* * *
104365301 AACCTATTGTTTTTTTTTTACCTATAGATGTCAAAAAATTGAGGATGGTACCGCCTATGTACCAC
1 AACCTATTATTTTTTTTTTACCTATAGATGTCAAAAAATTGAGGATGGTACCACCTATGCACCAC
** * *
104365366 CCT-TCATCACGTGGAATAACCTATTTT-ATATATAATTTT-ATGGGAAGCCTATTTAACTTTTT
66 CCTCT-ATCACGTGGAATAACCTATTTTCATATATAATTTTGAAAGCAA-CCTATTT-ACGTTTT
104365428 TTTTCAATATTATTATAGTAAAAAT
128 TTTTCAATATTATTATAGTAAAAAT
104365453 TCCACAAAAT
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
179 4 0.03
180 19 0.14
181 109 0.83
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (181 bp):
AACCTATTATTTTTTTTTTACCTATAGATGTCAAAAAATTGAGGATGGTACCACCTATGCACCAC
CCTCTATCACGTGGAATAACCTATTTTCATATATAATTTTGAAAGCAACCTATTTACGTTTTTTT
TCAATATTATTATAGTAAAAATCCTGACCTATTGTTTTTTTTTTACCTATA
Found at i:104368538 original size:3 final size:3
Alignment explanation
Indices: 104368530--104368603 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
104368520 AAATAGTTTA
104368530 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
104368578 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
104368604 AGTTTTAAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:104370484 original size:18 final size:17
Alignment explanation
Indices: 104370463--104370506 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
104370453 TACATGTATA
*
104370463 TATATATATATACCTTTT
1 TATATATATAT-CATTTT
104370481 TATATATAGTATCATTTT
1 TATATATA-TATCATTTT
104370499 T-TATATAT
1 TATATATAT
104370507 CATTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 1 0.04
17 6 0.25
18 14 0.58
19 3 0.12
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (17 bp):
TATATATATATCATTTT
Found at i:104370521 original size:19 final size:19
Alignment explanation
Indices: 104370463--104370521 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
104370453 TACATGTATA
*
104370463 TATATATA-TATACCTTT-T
1 TATATATAGTAT-CATTTAT
*
104370481 TATATATAGTATCATTTTT
1 TATATATAGTATCATTTAT
*
104370500 TATATATCATTAT-ATTTAT
1 TATATAT-AGTATCATTTAT
104370519 TAT
1 TAT
104370522 CGTACTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 12 0.34
19 19 0.54
20 4 0.11
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (19 bp):
TATATATAGTATCATTTAT
Found at i:104371908 original size:26 final size:25
Alignment explanation
Indices: 104371866--104372011 Score: 130
Period size: 26 Copynumber: 5.6 Consensus size: 25
104371856 AATCAAATCA
* *
104371866 AATATATAAAACCATTTAAAATAAAC
1 AATATATAAAA-AATTTAAAATAAAT
*
104371892 AATATATATAAAAATTTGAAATAAAT
1 AATATATA-AAAAATTTAAAATAAAT
** *
104371918 AACGTATAAGACAATTTAAAATAAAT
1 AATATATAA-AAAATTTAAAATAAAT
*
104371944 AGTATATAAAACAATTTAAAATAAAT
1 AATATATAAAA-AATTTAAAATAAAT
*** * *
104371970 AGCGTATAAATAGTTTAAAATAAAT
1 AATATATAAAAAATTTAAAATAAAT
*
104371995 AATATATATAATAATTT
1 AATATATA-AAAAATTT
104372012 GAAGCTAAAA
Statistics
Matches: 97, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
25 20 0.21
26 74 0.76
27 3 0.03
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (25 bp):
AATATATAAAAAATTTAAAATAAAT
Found at i:104371935 original size:52 final size:51
Alignment explanation
Indices: 104371874--104372014 Score: 185
Period size: 52 Copynumber: 2.7 Consensus size: 51
104371864 CAAATATATA
* *
104371874 AAACCATTTAAAATAAACAATATATATAAAAATTTGAAATAAATAACGTAT
1 AAACAATTTAAAATAAATAATATATATAAAAATTTGAAATAAATAACGTAT
* * *
104371925 AAGACAATTTAAAATAAATAGTATATA-AAACAATTTAAAATAAATAGCGTAT
1 AA-ACAATTTAAAATAAATAATATATATAAA-AATTTGAAATAAATAACGTAT
* * *
104371977 AAATAGTTTAAAATAAATAATATATATAATAATTTGAA
1 AAACAATTTAAAATAAATAATATATATAAAAATTTGAA
104372015 GCTAAAAGGC
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
51 33 0.43
52 44 0.57
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (51 bp):
AAACAATTTAAAATAAATAATATATATAAAAATTTGAAATAAATAACGTAT
Found at i:104373216 original size:14 final size:14
Alignment explanation
Indices: 104373197--104373224 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
104373187 ATTTTGGACT
104373197 GTTTTAATTATTTA
1 GTTTTAATTATTTA
104373211 GTTTTAATTATTTA
1 GTTTTAATTATTTA
104373225 TTTATTTTTG
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:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (14 bp):
GTTTTAATTATTTA
Found at i:104378053 original size:60 final size:59
Alignment explanation
Indices: 104377929--104378069 Score: 171
Period size: 60 Copynumber: 2.4 Consensus size: 59
104377919 CCCAACTGTG
* * *
104377929 TTGATATGGGCAAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCTAGATTGATA
1 TTGATATGGGCTAGGCCCAGTATATCTCGACTTGTATAGGGCTACGGCCTAGATTAATA
* *
104377988 CTGATATGGGCTAGGCCCAGTATA-CTCTGTTAC-TGTA-AGGGGCTATGGCCTAGATTAATA
1 TTGATATGGGCTAGGCCCAGTATATCTC-G--ACTTGTATA-GGGCTACGGCCTAGATTAATA
104378048 TTGATATGGGCTAAGGCCCAGT
1 TTGATATGGGCT-AGGCCCAGT
104378070 TAACACTAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
58 3 0.04
59 23 0.32
60 34 0.48
61 11 0.15
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (59 bp):
TTGATATGGGCTAGGCCCAGTATATCTCGACTTGTATAGGGCTACGGCCTAGATTAATA
Found at i:104380780 original size:7 final size:7
Alignment explanation
Indices: 104380768--104380814 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
104380758 AAATAGTATT
104380768 TAATATA
1 TAATATA
104380775 TAATATA
1 TAATATA
104380782 TAATATA
1 TAATATA
104380789 TAATATA
1 TAATATA
104380796 TAATATA
1 TAATATA
104380803 TAATATA
1 TAATATA
104380810 TAATA
1 TAATA
104380815 ACAAGAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TAATATA
Found at i:104380824 original size:21 final size:21
Alignment explanation
Indices: 104380768--104380824 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
104380758 AAATAGTATT
* *
104380768 TAATATATAATATATAATATA
1 TAATATACAAAATATAATATA
* *
104380789 TAATATATAATATATAATATA
1 TAATATACAAAATATAATATA
104380810 TAATA-ACAAGAATAT
1 TAATATACAA-AATAT
104380825 TTACAAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TAATATACAAAATATAATATA
Found at i:104380918 original size:12 final size:11
Alignment explanation
Indices: 104380910--104380939 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
104380900 ATGAAATGAT
104380910 ATAATAAATAA
1 ATAATAAATAA
104380921 ATAAATAAATAA
1 AT-AATAAATAA
104380933 ATAATAA
1 ATAATAA
104380940 TGAAATGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATAAATAA
Found at i:104380921 original size:4 final size:4
Alignment explanation
Indices: 104380912--104380936 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
104380902 GAAATGATAT
104380912 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
104380937 TAATGAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:104381146 original size:12 final size:13
Alignment explanation
Indices: 104381100--104381149 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
104381090 CAAGTAAAAC
104381100 ATAATAAATATTAT
1 ATAATAAATA-TAT
104381114 ATAATAAA-ATAT
1 ATAATAAATATAT
* *
104381126 ATGAGAAATA-AT
1 ATAATAAATATAT
104381138 ATAATAAATATA
1 ATAATAAATATA
104381150 GCATATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
12 19 0.63
13 3 0.10
14 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (13 bp):
ATAATAAATATAT
Found at i:104381229 original size:20 final size:20
Alignment explanation
Indices: 104381195--104381243 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
104381185 ATGTATAAAT
* *
104381195 AAATAT-ATAATATATGTAA
1 AAATATAATAACATATATAA
104381214 AAATATAATAACATATATAA
1 AAATATAATAACATATATAA
104381234 AAATAATAAT
1 AAAT-ATAAT
104381244 TATGAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 6 0.23
20 15 0.58
21 5 0.19
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATATAATAACATATATAA
Found at i:104381361 original size:19 final size:19
Alignment explanation
Indices: 104381324--104381374 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
104381314 GAAGTAAAAT
* *
104381324 TAAAATAAAAACA-AATAA
1 TAAAATAAATATAGAATAA
*
104381342 TAAAATATATATAGAATAA
1 TAAAATAAATATAGAATAA
104381361 TAAAATAAATATAG
1 TAAAATAAATATAG
104381375 GACTAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (19 bp):
TAAAATAAATATAGAATAA
Found at i:104383089 original size:83 final size:83
Alignment explanation
Indices: 104382991--104383290 Score: 261
Period size: 83 Copynumber: 3.7 Consensus size: 83
104382981 AGCACGTGAA
* *
104382991 AGCCAAATCAGCTACGT-CTCCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT-AGG
1 AGCCAAATCAGCTACGTCCT-CGATTTGCTCCTTGTAAACACAAGAATGCCAAACCATCTTGA-G
* *
104383054 TCTGTTTGAGAACTTTTGAG
64 TCTGTTTGAGAACATCTGAG
* * * *
104383074 AGCCAAATCTA-CTACGTCCTTGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTGAGT
1 AGCCAAATC-AGCTACGTCCTCGATTTGCTCCTTGTAAACACAAGAATGCCAAACCATCTTGAGT
*
104383138 TTGTTTGAGAACATCTGAG
65 CTGTTTGAGAACATCTGAG
* * * *
104383157 AGTCC-ATTCTGCTATGTCCTCGATTTG----TT-T-----CAAGAATGCCAAATCATCTTGAGT
1 AG-CCAAATCAGCTACGTCCTCGATTTGCTCCTTGTAAACACAAGAATGCCAAACCATCTTGAGT
*
104383211 TTGTTTGAGAACATCTGAG
65 CTGTTTGAGAACATCTGAG
* * * * * * *
104383230 AGTCC-ACTCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
1 AG-CCAAATCAGCTACGTCCTCGATTTGCTCCTTGTAAACACAAGAATGCCAAACCATCTTG
104383291 GATCTGCTTC
Statistics
Matches: 187, Mismatches: 15, Indels: 30
0.81 0.06 0.13
Matches are distributed among these distances:
73 69 0.37
77 2 0.01
78 2 0.01
79 2 0.01
83 106 0.57
84 6 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (83 bp):
AGCCAAATCAGCTACGTCCTCGATTTGCTCCTTGTAAACACAAGAATGCCAAACCATCTTGAGTC
TGTTTGAGAACATCTGAG
Found at i:104383194 original size:73 final size:73
Alignment explanation
Indices: 104383114--104383260 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
104383104 CTTGTAAACA
*
104383114 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCATTCTGCTATGTCCTCG
1 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCACTCTGCTATGTCCTCG
104383179 ATTTGTTT
66 ATTTGTTT
104383187 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCACTCTGCTATGTCCTCG
1 CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCACTCTGCTATGTCCTCG
104383252 ATTTGTTT
66 ATTTGTTT
104383260 C
1 C
104383261 TTGTAAACAC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (73 bp):
CAAGAATGCCAAATCATCTTGAGTTTGTTTGAGAACATCTGAGAGTCCACTCTGCTATGTCCTCG
ATTTGTTT
Found at i:104383427 original size:119 final size:119
Alignment explanation
Indices: 104383216--104383923 Score: 1200
Period size: 119 Copynumber: 5.9 Consensus size: 119
104383206 TGAGTTTGTT
* * * * *
104383216 TGAGAACATCTGAGAGTCCACTCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
104383281 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* *
104383335 TGAGAACGTCTGAGAATCAAATCTGCTATGTCCTCGATTTGTTCTTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
104383400 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* * *
104383454 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCAATTTGTTCCTTGTAAACAAAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
*
104383519 AATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
104383573 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
*
104383638 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAATGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* *
104383692 TGAGAACGTATGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
*
104383757 AATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
* * *
104383811 TCAGAACTTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
* * *** *
104383876 AATCATCTTGGATTTGCTTCAGTCTAATTGTCTGAAGGTTAAATCTGC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGC
104383924 CATGCTATGG
Statistics
Matches: 555, Mismatches: 34, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 555 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (119 bp):
TGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAACACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATC
Found at i:104384747 original size:8 final size:8
Alignment explanation
Indices: 104384734--104384785 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
104384724 TGGCCTCTCC
104384734 ATTTTTTT
1 ATTTTTTT
104384742 A-TTTTTT
1 ATTTTTTT
104384749 ATTTTTTT
1 ATTTTTTT
*
104384757 ATTTTTCT
1 ATTTTTTT
*
104384765 CTTTTTTT
1 ATTTTTTT
*
104384773 CTCTTTTTT
1 AT-TTTTTT
104384782 -TTTT
1 ATTTT
104384786 GAAACATCCC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
7 10 0.26
8 23 0.59
9 6 0.15
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (8 bp):
ATTTTTTT
Found at i:104384754 original size:15 final size:15
Alignment explanation
Indices: 104384734--104384785 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
104384724 TGGCCTCTCC
104384734 ATTTTTTTATTTTTT
1 ATTTTTTTATTTTTT
104384749 ATTTTTTTATTTTTCT
1 ATTTTTTTATTTTT-T
* * *
104384765 CTTTTTTTCTCTTTT
1 ATTTTTTTATTTTTT
104384780 -TTTTTT
1 ATTTTTT
104384786 GAAACATCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 6 0.18
15 15 0.45
16 12 0.36
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (15 bp):
ATTTTTTTATTTTTT
Found at i:104395670 original size:7 final size:7
Alignment explanation
Indices: 104395658--104395683 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
104395648 AAATAGTATT
104395658 TAATATA
1 TAATATA
104395665 TAATATA
1 TAATATA
104395672 TAATATA
1 TAATATA
104395679 TAATA
1 TAATA
104395684 ACAAGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAATATA
Found at i:104395935 original size:2 final size:2
Alignment explanation
Indices: 104395928--104395958 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
104395918 TATACATAAC
104395928 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104395959 AAATAATAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104396112 original size:20 final size:20
Alignment explanation
Indices: 104396065--104396129 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
104396055 TATACGTAAA
*
104396065 AATAATATGTATAAATAA-AT
1 AATAATATATATAAA-AATAT
*
104396085 ATATAATATATGTAAAAATAT
1 A-ATAATATATATAAAAATAT
104396106 AATAATATATATAAAAATAAT
1 AATAATATATATAAAAAT-AT
104396127 AAT
1 AAT
104396130 TATGAGAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
20 19 0.49
21 20 0.51
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AATAATATATATAAAAATAT
Found at i:104396125 original size:18 final size:18
Alignment explanation
Indices: 104396061--104396178 Score: 84
Period size: 18 Copynumber: 6.5 Consensus size: 18
104396051 AATTTATACG
*
104396061 TAAAAATAAT-ATGTATA
1 TAAAAATAATAATATATA
*
104396078 -AATAAATATATAATATATG
1 TAA-AAATA-ATAATATATA
104396097 TAAAAATATAATAATATATA
1 T-AAAA-ATAATAATATATA
104396117 TAAAAATAATAAT-TATGA
1 TAAAAATAATAATATAT-A
* * *
104396135 GAGAATTAAT-ATATA-A
1 TAAAAATAATAATATATA
* *
104396151 TAAACAATTATAATACATA
1 TAAA-AATAATAATATATA
104396170 TAAAAATAA
1 TAAAAATAA
104396179 CACTTATAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
16 5 0.06
17 14 0.18
18 28 0.36
19 14 0.18
20 12 0.15
21 5 0.06
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (18 bp):
TAAAAATAATAATATATA
Found at i:104396247 original size:19 final size:19
Alignment explanation
Indices: 104396210--104396260 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
104396200 GAAGTAAAAT
* *
104396210 TAAAATAAAAACA-AATAA
1 TAAAATAAATATAGAATAA
*
104396228 TAAAATATATATAGAATAA
1 TAAAATAAATATAGAATAA
104396247 TAAAATAAATATAG
1 TAAAATAAATATAG
104396261 GACTAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (19 bp):
TAAAATAAATATAGAATAA
Found at i:104401508 original size:18 final size:18
Alignment explanation
Indices: 104401485--104401530 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
104401475 ACTTAGGGCG
104401485 CGTTTTCAAAATGATACT
1 CGTTTTCAAAATGATACT
104401503 CGTTTTCAAAATGATACT
1 CGTTTTCAAAATGATACT
*
104401521 CATTTTCAAA
1 CGTTTTCAAA
104401531 TAACACAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (18 bp):
CGTTTTCAAAATGATACT
Found at i:104401801 original size:23 final size:23
Alignment explanation
Indices: 104401771--104401828 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
104401761 TAATTAAAAC
104401771 ATGAGTTTTACAATAACGCTCCA
1 ATGAGTTTTACAATAACGCTCCA
104401794 ATGAGTTTTACAATAACGCTCCA
1 ATGAGTTTTACAATAACGCTCCA
104401817 ATGAGTTTTACA
1 ATGAGTTTTACA
104401829 TCAAGAAGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (23 bp):
ATGAGTTTTACAATAACGCTCCA
Found at i:104404606 original size:20 final size:19
Alignment explanation
Indices: 104404560--104404597 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
104404550 ATCCAAAACA
104404560 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
*
104404579 CCAAAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
104404598 TCTGGAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:104405921 original size:9 final size:9
Alignment explanation
Indices: 104405907--104406019 Score: 54
Period size: 9 Copynumber: 12.0 Consensus size: 9
104405897 TTTTGGTACA
104405907 ATAATTTTT
1 ATAATTTTT
104405916 ATAATTTTT
1 ATAATTTTT
*
104405925 -TACGAATTTT
1 ATA--ATTTTT
104405935 AT-ATTCTTT
1 ATAATT-TTT
* *
104405944 ACATTTTTTT
1 ATA-ATTTTT
104405954 ATAATTTTCTT
1 ATAA-TTT-TT
*
104405965 ATGAATTTAT
1 AT-AATTTTT
*
104405975 A-AAATTTT
1 ATAATTTTT
104405983 ATAATTTTT
1 ATAATTTTT
* *
104405992 CTATATTTCT
1 ATA-ATTTTT
104406002 AT-ATATTTT
1 ATAAT-TTTT
104406011 ATAATTTTT
1 ATAATTTTT
104406020 TTACAATTTT
Statistics
Matches: 77, Mismatches: 14, Indels: 26
0.66 0.12 0.22
Matches are distributed among these distances:
8 12 0.16
9 30 0.39
10 23 0.30
11 10 0.13
12 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:104405926 original size:10 final size:10
Alignment explanation
Indices: 104405907--104406065 Score: 54
Period size: 10 Copynumber: 16.2 Consensus size: 10
104405897 TTTTGGTACA
104405907 ATAA-TTTTT
1 ATAATTTTTT
104405916 ATAATTTTTT
1 ATAATTTTTT
*
104405926 ACGAA--TTTT
1 A-TAATTTTTT
*
104405935 AT-ATTCTTT
1 ATAATTTTTT
* *
104405944 ACATTTTTTT
1 ATAATTTTTT
104405954 ATAATTTTCTT
1 ATAATTTT-TT
104405965 ATGAA---TTT
1 AT-AATTTTTT
**
104405973 ATAAAATTTT
1 ATAATTTTTT
104405983 ATAATTTTTCT
1 ATAATTTTT-T
*
104405994 AT-A-TTTCT
1 ATAATTTTTT
*
104406002 AT-ATATTTT
1 ATAATTTTTT
104406011 ATAATTTTTT
1 ATAATTTTTT
*
104406021 -TACAATTTTT
1 ATA-ATTTTTT
*
104406031 A-AGTTTTTT
1 ATAATTTTTT
*
104406040 AAATTATTTTTT
1 --ATAATTTTTT
104406052 ATAAATTTTATT
1 AT-AATTTT-TT
104406064 AT
1 AT
104406066 TTATTATTTT
Statistics
Matches: 110, Mismatches: 20, Indels: 37
0.66 0.12 0.22
Matches are distributed among these distances:
7 3 0.03
8 8 0.07
9 29 0.26
10 43 0.39
11 15 0.14
12 12 0.11
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:104405936 original size:19 final size:19
Alignment explanation
Indices: 104405912--104405982 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 19
104405902 GTACAATAAT
104405912 TTTTATAATTTTTTACGAA
1 TTTTATAATTTTTTACGAA
* *
104405931 TTTTAT-ATTCTTTAC-ATTT
1 TTTTATAATTTTTTACGA--A
*
104405950 TTTTATAATTTTCTTATGAA
1 TTTTATAATTTT-TTACGAA
*
104405970 TTTATAAAATTTT
1 TTT-TATAATTTT
104405983 ATAATTTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
17 1 0.03
18 8 0.20
19 12 0.30
20 7 0.17
21 11 0.28
22 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAA
Found at i:104405991 original size:38 final size:37
Alignment explanation
Indices: 104405907--104405991 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 37
104405897 TTTTGGTACA
* *
104405907 ATAATTTTTATAATTTTTTACGAATTTTATATTCTTT
1 ATAATTTTTATAATTTTTTACGAATTTTAAAATCTTT
* * *
104405944 ACATTTTTTTATAATTTTCTTATGAATTTATAAAAT-TTT
1 ATA-ATTTTTATAATTTT-TTACGAATTT-TAAAATCTTT
104405983 ATAATTTTT
1 ATAATTTTT
104405992 CTATATTTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
37 2 0.05
38 18 0.47
39 14 0.37
40 4 0.11
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (37 bp):
ATAATTTTTATAATTTTTTACGAATTTTAAAATCTTT
Found at i:104406004 original size:29 final size:29
Alignment explanation
Indices: 104405950--104406019 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 29
104405940 CTTTACATTT
104405950 TTTTATAA-TTTTCTTATGAATTTATAAAA
1 TTTTATAATTTTTCTTATGAATTTAT-AAA
* *
104405979 TTTTATAATTTTTC-TAT-ATTTCTATATA
1 TTTTATAATTTTTCTTATGAATT-TATAAA
104406007 TTTTATAATTTTT
1 TTTTATAATTTTT
104406020 TTACAATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 18 0.49
29 14 0.38
30 5 0.14
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (29 bp):
TTTTATAATTTTTCTTATGAATTTATAAA
Found at i:104406028 original size:29 final size:27
Alignment explanation
Indices: 104405950--104406028 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 27
104405940 CTTTACATTT
*
104405950 TTTTATAATTTTCTTATGAATTTATAAAA
1 TTTTATAATTTT-TT-TAAATTTATAAAA
* * * *
104405979 TTTTATAATTTTTCTATATTTCTATATA
1 TTTTATAATTTTTTTAAATTTATA-AAA
104406007 TTTTATAATTTTTTTACAATTT
1 TTTTATAATTTTTTTA-AATTT
104406029 TTAAGTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
27 7 0.17
28 18 0.44
29 16 0.39
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTTATAATTTTTTTAAATTTATAAAA
Found at i:104406227 original size:17 final size:17
Alignment explanation
Indices: 104406202--104406235 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
104406192 ATTGAGTGCA
104406202 AAAAAAAAAAAGAAAAG
1 AAAAAAAAAAAGAAAAG
* *
104406219 AAAAGAAAAAAGCAAAG
1 AAAAAAAAAAAGAAAAG
104406236 GTTTAATTGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAGAAAAG
Found at i:104406345 original size:23 final size:24
Alignment explanation
Indices: 104406314--104406360 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
104406304 AAATGTAAAA
**
104406314 AAAATAAAAATTTAATTACTTTTT
1 AAAATAAAAATTTAACAACTTTTT
*
104406338 AAAA-AAAAGTTTAACAACTTTTT
1 AAAATAAAAATTTAACAACTTTTT
104406361 GCATCAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (24 bp):
AAAATAAAAATTTAACAACTTTTT
Found at i:104407953 original size:16 final size:16
Alignment explanation
Indices: 104407915--104407953 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
104407905 ATATCAATTA
* *
104407915 TTAAAAATATTATAAT
1 TTAAAAATAATAGAAT
104407931 TTGAAAAATAATAGAAT
1 TT-AAAAATAATAGAAT
104407948 TTAAAA
1 TTAAAA
104407954 GTAAACAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (16 bp):
TTAAAAATAATAGAAT
Found at i:104415371 original size:18 final size:19
Alignment explanation
Indices: 104415348--104415387 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
104415338 CTTAAATTAC
104415348 TAACATAATAAATTTT-AT
1 TAACATAATAAATTTTAAT
*
104415366 TAACATAATGAATTTTAAT
1 TAACATAATAAATTTTAAT
104415385 TAA
1 TAA
104415388 TTTTGTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
TAACATAATAAATTTTAAT
Found at i:104432901 original size:28 final size:28
Alignment explanation
Indices: 104432810--104432914 Score: 131
Period size: 28 Copynumber: 3.8 Consensus size: 28
104432800 CGCATACTTG
* *
104432810 ATGTCTCGCACACTAAGTTCCATAATCA
1 ATGTCTCACACACTAAGTGCCATAATCA
* *
104432838 ATG-CATCGCACACTAAGTGCCACAATCA
1 ATGTC-TCACACACTAAGTGCCATAATCA
*
104432866 ATGCCTCACACACTAAGTGCCATAATCA
1 ATGTCTCACACACTAAGTGCCATAATCA
**
104432894 ATGTCTCACATGCTAAGTGCC
1 ATGTCTCACACACTAAGTGCC
104432915 GTACATAGCC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.01
28 66 0.97
29 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.24
Consensus pattern (28 bp):
ATGTCTCACACACTAAGTGCCATAATCA
Found at i:104433540 original size:27 final size:28
Alignment explanation
Indices: 104433499--104433553 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
104433489 GTTTAACTAA
*
104433499 CATCAAATATTCATA-ATCTATCATCAAT
1 CATCAAATATTCATACATAT-TCATCAAT
104433527 CATCAAA-ATTCATACATATTCATCAAT
1 CATCAAATATTCATACATATTCATCAAT
104433554 GGAAACATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.35
Consensus pattern (28 bp):
CATCAAATATTCATACATATTCATCAAT
Found at i:104435811 original size:18 final size:18
Alignment explanation
Indices: 104435790--104435826 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
104435780 ACACACTTTT
104435790 TACAAAATTTTTACAAAA
1 TACAAAATTTTTACAAAA
*
104435808 TACAAAGTTTTTACAAAA
1 TACAAAATTTTTACAAAA
104435826 T
1 T
104435827 TTGTGTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (18 bp):
TACAAAATTTTTACAAAA
Found at i:104438607 original size:2 final size:2
Alignment explanation
Indices: 104438600--104438626 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
104438590 ATTATGAACA
104438600 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
104438627 ACAAAACCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104445999 original size:28 final size:27
Alignment explanation
Indices: 104445933--104446002 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
104445923 ATAGTGAGTC
*
104445933 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
*
104445960 CGCACACTTAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
104445988 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
104446003 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:104446075 original size:42 final size:42
Alignment explanation
Indices: 104446011--104446117 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
104446001 CTGTACAAAT
*
104446011 TTTAAACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
104446053 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
104446095 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
104446118 GAGACCAATA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:104451651 original size:18 final size:18
Alignment explanation
Indices: 104451628--104451665 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
104451618 CGAAAGAATG
104451628 ACCTTTCCCATAATACAC
1 ACCTTTCCCATAATACAC
104451646 ACCTTTCCCATAATACAC
1 ACCTTTCCCATAATACAC
104451664 AC
1 AC
104451666 AGGAAACTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.39, G:0.00, T:0.26
Consensus pattern (18 bp):
ACCTTTCCCATAATACAC
Found at i:104459581 original size:68 final size:68
Alignment explanation
Indices: 104459507--104459658 Score: 168
Period size: 67 Copynumber: 2.2 Consensus size: 68
104459497 CATCATGTGT
* * * * *
104459507 ACAAGAAAGCTACGAGACATTATAATGTAGCTGGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAAAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
104459570 TGTAG
64 TGTAG
* * *
104459575 ACAAGAAAGCTACG-G-GATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAAAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
104459638 GTAG
65 GTAG
*
104459642 ACAAGAGAGCTACGAGA
1 ACAAGAAAGCTACGAGA
104459659 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
64 23 0.33
65 3 0.04
66 3 0.04
67 26 0.37
68 15 0.21
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (68 bp):
ACAAGAAAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:104460124 original size:28 final size:28
Alignment explanation
Indices: 104460093--104460198 Score: 101
Period size: 28 Copynumber: 3.8 Consensus size: 28
104460083 TTGATGATGA
104460093 CACTTAGTGTGCGAAACATCCGA-AATGG
1 CACTTAGTGTGCGAAACAT-CGAGAATGG
* ** *
104460121 CACTTAGTGTGAGAAGTATCGAGGATGG
1 CACTTAGTGTGCGAAACATCGAGAATGG
* *
104460149 CACTTAGTGTGCGAAACATTCG-GTATCG
1 CACTTAGTGTGCGAAACA-TCGAGAATGG
*
104460177 CACTTAGCGTGC-AAGACATCGA
1 CACTTAGTGTGCGAA-ACATCGA
104460199 TTGTGCAGCG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
27 8 0.12
28 53 0.83
29 3 0.05
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (28 bp):
CACTTAGTGTGCGAAACATCGAGAATGG
Found at i:104460183 original size:56 final size:55
Alignment explanation
Indices: 104460010--104460167 Score: 216
Period size: 54 Copynumber: 2.9 Consensus size: 55
104460000 CAAACGAACG
*
104460010 GCACTTAGTGTGAGAAGTATTAAGGATGGCACTTAGTGTGC-AAGACATCCGAAAT
1 GCACTTAGTGTGAGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGAAAT
* *
104460065 GACAC--AGTGT-ATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGAAAT
1 G-CACTTAGTGTGA-GAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
*
104460119 GGCACTTAGTGTGAGAAGTATCGAGGATGGCACTTAGTGTGCGAAACAT
1 -GCACTTAGTGTGAGAAGTATTGAGGATGGCACTTAGTGTGCGAAACAT
104460168 TCGGTATCGC
Statistics
Matches: 90, Mismatches: 6, Indels: 13
0.83 0.06 0.12
Matches are distributed among these distances:
53 1 0.01
54 44 0.49
55 4 0.04
56 40 0.44
57 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (55 bp):
GCACTTAGTGTGAGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
Found at i:104460198 original size:56 final size:56
Alignment explanation
Indices: 104460088--104460198 Score: 134
Period size: 56 Copynumber: 2.0 Consensus size: 56
104460078 AAGTATTGAT
* * * *
104460088 GATGACACTTAGTGTGCGAAACATCCGAAATGGCACTTAGTGTGAGAAGTATCGAG
1 GATGACACTTAGTGTGCGAAACATCCGAAATCGCACTTAGCGTGACAAGCATCGAG
* * **
104460144 GATGGCACTTAGTGTGCGAAACATTCGGTATCGCACTTAGCGTG-CAAGACATCGA
1 GATGACACTTAGTGTGCGAAACATCCGAAATCGCACTTAGCGTGACAAG-CATCGA
104460199 TTGTGCAGCG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 3 0.07
56 43 0.93
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (56 bp):
GATGACACTTAGTGTGCGAAACATCCGAAATCGCACTTAGCGTGACAAGCATCGAG
Found at i:104464385 original size:68 final size:68
Alignment explanation
Indices: 104464313--104464464 Score: 177
Period size: 67 Copynumber: 2.2 Consensus size: 68
104464303 CATCATGTGT
* * * *
104464313 ACAAGAAAGCTACGAGACATTATAATGTAGCTAGGTCGCATGGGTGATACTA-T-ATGTACACCA
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACTAGTGAAGGACACCA
104464376 TGTAG
64 TGTAG
* * *
104464381 ACAAGAGAGCTAC-A-AGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACTA-GTGAAGGACACCAT
104464444 GTAG
65 GTAG
*
104464448 ACAACAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
104464465 TAAACTGGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 25 0.35
65 3 0.04
66 3 0.04
67 26 0.37
68 13 0.18
69 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACTAGTGAAGGACACCATG
TAG
Found at i:104464855 original size:28 final size:27
Alignment explanation
Indices: 104464815--104464969 Score: 118
Period size: 28 Copynumber: 5.6 Consensus size: 27
104464805 CCAAACGAAC
104464815 GGCACTTAGTGTGCGAAGTATTGAGGAT
1 GGCACTTAGTGTGCGAAGTATTGA-GAT
* * *
104464843 GGCACTTAGTGTGC-AAGACATCCGAAAT
1 GGCACTTAGTGTGCGAAG-TAT-TGAGAT
* ** *
104464871 GACAC--AGTGTATGAAGTATTAATGAT
1 GGCACTTAGTGTGCGAAGTATTGA-GAT
* ** *
104464897 GACACTTAGTGTGCGAAACATTCGAAAT
1 GGCACTTAGTGTGCGAAGTATT-GAGAT
*
104464925 GGCACTTAGTGTGCGAAGTATCGAGGAT
1 GGCACTTAGTGTGCGAAGTATTGA-GAT
*
104464953 GGCACTTAGTGAGCGAA
1 GGCACTTAGTGTGCGAA
104464970 ACATCCGGTA
Statistics
Matches: 97, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
25 1 0.01
26 14 0.14
27 8 0.08
28 71 0.73
29 3 0.03
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (27 bp):
GGCACTTAGTGTGCGAAGTATTGAGAT
Found at i:104464985 original size:28 final size:27
Alignment explanation
Indices: 104464899--104464989 Score: 92
Period size: 28 Copynumber: 3.3 Consensus size: 27
104464889 TTAATGATGA
*
104464899 CACTTAGTGTGCGAAACATTCGAAATGG
1 CACTTAGTGTGCGAAACA-TCGGAATGG
** *
104464927 CACTTAGTGTGCGAAGTATCGAGGATGG
1 CACTTAGTGTGCGAAACATCG-GAATGG
* * *
104464955 CACTTAGTGAGCGAAACATCCGGTATAG
1 CACTTAGTGTGCGAAACAT-CGGAATGG
104464983 CACTTAG
1 CACTTAG
104464990 CATGCAAGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 3 0.06
28 47 0.90
29 2 0.04
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (27 bp):
CACTTAGTGTGCGAAACATCGGAATGG
Found at i:104464989 original size:56 final size:55
Alignment explanation
Indices: 104464816--104464976 Score: 202
Period size: 54 Copynumber: 2.9 Consensus size: 55
104464806 CAAACGAACG
104464816 GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAAT
1 GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGAAAT
** * * * *
104464871 GACAC--AGTGTATGAAGTATTAATGATGACACTTAGTGTGCGAAACATTCGAAAT
1 G-CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
* *
104464925 GGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGAGCGAAACATCCG
1 -GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCG
104464977 GTATAGCACT
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
54 43 0.49
55 4 0.05
56 40 0.46
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (55 bp):
GCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
Found at i:104465004 original size:56 final size:56
Alignment explanation
Indices: 104464894--104465004 Score: 125
Period size: 56 Copynumber: 2.0 Consensus size: 56
104464884 AAGTATTAAT
* * * ** *
104464894 GATGACACTTAGTGTGCGAAACATTCGAAATGGCACTTAGTGTGCGAAGTATCGAG
1 GATGACACTTAGTGAGCGAAACATCCGAAATAGCACTTAGCATGCGAAGCATCGAG
* **
104464950 GATGGCACTTAGTGAGCGAAACATCCGGTATAGCACTTAGCATGC-AAGACATCGA
1 GATGACACTTAGTGAGCGAAACATCCGAAATAGCACTTAGCATGCGAAG-CATCGA
104465005 TTGTGCAGCG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
55 3 0.07
56 42 0.93
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.23
Consensus pattern (56 bp):
GATGACACTTAGTGAGCGAAACATCCGAAATAGCACTTAGCATGCGAAGCATCGAG
Found at i:104467881 original size:42 final size:42
Alignment explanation
Indices: 104467822--104467913 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
104467812 TGGCCCATAG
**
104467822 GCCCATTTCAATATCACAT-ATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATGA-AATACCAATGAAAGAATGCAA
* *
104467864 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
*
104467906 ACCCATTT
1 GCCCATTT
104467914 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
Found at i:104468083 original size:23 final size:23
Alignment explanation
Indices: 104468053--104468213 Score: 261
Period size: 23 Copynumber: 7.0 Consensus size: 23
104468043 CCTTGCCTCT
*
104468053 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
104468076 TTTAATAACT-GGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
104468098 TTTTAATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
104468122 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
104468145 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
104468169 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
104468192 TTTAATAACTGGGGCATAAGCC
1 TTTAATAACTGGGGCATAAGCC
104468214 TTTTTGCACT
Statistics
Matches: 128, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
22 10 0.08
23 85 0.66
24 33 0.26
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:104468160 original size:47 final size:47
Alignment explanation
Indices: 104468051--104468213 Score: 276
Period size: 47 Copynumber: 3.5 Consensus size: 47
104468041 GGCCTTGCCT
* *
104468051 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACT-GGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
104468097 CTTTTAATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
104468144 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
104468191 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
104468214 TTTTTGCACT
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 54 0.49
47 56 0.51
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:104468185 original size:70 final size:70
Alignment explanation
Indices: 104468053--104468219 Score: 266
Period size: 70 Copynumber: 2.4 Consensus size: 70
104468043 CCTTGCCTCT
* * * *
104468053 TTTAATAACTGGGGCAAAAGCCC-TTTAATAACTGGGCGTAAGCCCTTTTAATCACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGCATAAGCCCTTTTAATAACTGGGGCATA
104468117 AGCCC
66 AGCCC
104468122 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACT-GGGCATAAGCCCTTTTAATAACTGGGGCAT
104468186 AAGCCC
65 AAGCCC
*
104468192 TTTAATAACTGGGGCATAAGCCTTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
104468220 CACTTCCTCC
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
69 22 0.24
70 58 0.64
71 11 0.12
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGCATAAGCCCTTTTAATAACTGGGGCATA
AGCCC
Found at i:104468290 original size:9 final size:9
Alignment explanation
Indices: 104468276--104468332 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
104468266 ATCTCATGTG
104468276 CATATCATA
1 CATATCATA
*
104468285 CATATCATGTG
1 CATATCA--TA
104468296 CATATCATA
1 CATATCATA
* *
104468305 CATGTCATGTG
1 CATATCA--TA
104468316 CATATCATA
1 CATATCATA
104468325 CATATCAT
1 CATATCAT
104468333 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:104468292 original size:20 final size:20
Alignment explanation
Indices: 104468264--104468334 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
104468254 GCATTTATGA
*
104468264 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
104468284 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
104468304 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
104468324 ACATATCATGT
1 ACATATCATGT
104468335 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:104468299 original size:11 final size:11
Alignment explanation
Indices: 104468269--104468323 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
104468259 TATGAACATC
104468269 TCATGTGCATA
1 TCATGTGCATA
*
104468280 TCA--TACATA
1 TCATGTGCATA
104468289 TCATGTGCATA
1 TCATGTGCATA
* *
104468300 TCA--TACATG
1 TCATGTGCATA
104468309 TCATGTGCATA
1 TCATGTGCATA
104468320 TCAT
1 TCAT
104468324 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:104469636 original size:27 final size:27
Alignment explanation
Indices: 104469574--104469638 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
104469564 GGGCATATTC
104469574 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
104469601 GTCACTTTACCCTACAGGGG-ATTTACG
1 GTCATTTTACCATACAGGGGTA-TTACG
*
104469628 GTCTTTTTACC
1 GTCATTTTACC
104469639 TTTTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:104469880 original size:27 final size:27
Alignment explanation
Indices: 104469780--104469885 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 27
104469770 TTTGTAAATC
104469780 AGGGGTATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * * *
104469806 TGAGGGTATTTCGGTAATTTCACAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACT
*
104469834 AAGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
104469861 AGGGGTATTTTAGTAATTTTGCAAA
1 AGGGGTATTTTGGTAATTTTACAAA
104469886 TCGAGGGTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.02
27 65 0.98
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:104469893 original size:27 final size:27
Alignment explanation
Indices: 104469691--104469921 Score: 128
Period size: 27 Copynumber: 8.5 Consensus size: 27
104469681 GGTAAATCTA
* * *
104469691 CAAACCAAAGGTATTTCAGTAATTTTG
1 CAAATCAAGGGTATTTTAGTAATTTTG
* * *
104469718 TAAACCAATGGTATTTCTA-TAATTTTTAG
1 CAAATCAAGGGTATTT-TAGTAA-TTTT-G
*
104469747 -AAAGTCAAGGGTATTTCT-GTAACTTTG
1 CAAA-TCAAGGGTATTT-TAGTAATTTTG
* * * *
104469774 TAAATCAGGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTTAGTAATTTTG
** ** **
104469801 CAAATTGAGGGTATTTCGGTAATTTCA
1 CAAATCAAGGGTATTTTAGTAATTTTG
* * *
104469828 CAAACCAAGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTTAGTAATTTTG
*
104469855 CAAA-CTAGGGGTATTTTAGTAATTTTG
1 CAAATC-AAGGGTATTTTAGTAATTTTG
* **** *
104469882 CAAATCGAGGGTAAAACAGTAATTCTG
1 CAAATCAAGGGTATTTTAGTAATTTTG
*
104469909 TAAATCAAGGGTA
1 CAAATCAAGGGTA
104469922 AAACAGTAAT
Statistics
Matches: 163, Mismatches: 32, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
26 2 0.01
27 130 0.80
28 15 0.09
29 16 0.10
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.36
Consensus pattern (27 bp):
CAAATCAAGGGTATTTTAGTAATTTTG
Found at i:104469893 original size:54 final size:52
Alignment explanation
Indices: 104469754--104469894 Score: 149
Period size: 54 Copynumber: 2.6 Consensus size: 52
104469744 TAGAAAGTCA
* * *
104469754 AGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTT-TGTAATTTTGCAAATCA-GGGTATTTTGGTAATTTTACAAATAG
* ** *
104469808 AGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTT-TGTAATTTTGCAAATC-AGGGTATTTTGGTAATTTTACAAA-TAG
104469863 -GGGTATTTTAGTAATTTTGCAAATCGAGGGTA
1 AGGGTATTTT-GTAATTTTGCAAATC-AGGGTA
104469895 AAACAGTAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
54 69 0.96
55 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (52 bp):
AGGGTATTTTGTAATTTTGCAAATCAGGGTATTTTGGTAATTTTACAAATAG
Found at i:104469921 original size:81 final size:81
Alignment explanation
Indices: 104469751--104469905 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 81
104469741 TTTTAGAAAG
* * * **
104469751 TCAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
1 TCAAGGGTATTTCTGTAACTTTGTAAAACAGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAA
* *
104469816 TCGGTAATTTCACAAA
66 ACAGTAATTTCACAAA
* *
104469832 CCAAGGGTATTT-TGGTAA-TTT-TACAAACTAGGGGTATTTTAGTAATTTTGCAAATCGAGGGT
1 TCAAGGGTATTTCT-GTAACTTTGTA-AAAC-AGGGGTATTTTAGTAATTTTACAAATCGAGGGT
104469894 AAAACAGTAATT
63 AAAACAGTAATT
104469906 CTGTAAATCA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
79 2 0.03
80 7 0.11
81 53 0.85
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (81 bp):
TCAAGGGTATTTCTGTAACTTTGTAAAACAGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAA
ACAGTAATTTCACAAA
Found at i:104469922 original size:27 final size:27
Alignment explanation
Indices: 104469872--104470103 Score: 232
Period size: 27 Copynumber: 8.6 Consensus size: 27
104469862 GGGGTATTTT
* * *
104469872 AGTAATTTTGCAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
104469899 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
104469926 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
104469953 AGTAATTCAGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * **
104469980 GGTAATTCTGTAAGTTGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * * *
104470007 -GATAGTTATGTAAATCAGGGGTAAAAT
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* * * *
104470034 GGTAATTATGTAAATTAGGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * * *
104470061 GGTAATTATGTAAATTAGGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
104470088 GGTAATTTTGTAAATC
1 AGTAATTCTGTAAATC
104470104 GGGGTACTTT
Statistics
Matches: 180, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 178 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:104470144 original size:27 final size:26
Alignment explanation
Indices: 104470106--104470204 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 26
104470096 TGTAAATCGG
104470106 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAA-TCGAA
* *
104470133 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTAC-AATCGAA
* * * *
104470160 GGTATTTCAGTATTTTTACAAACTAA
1 GGTATTTCGGTAATTTTACAATCGAA
104470186 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
104470205 GTAAACTAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.12
27 50 0.85
28 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTACAATCGAA
Found at i:104470144 original size:53 final size:54
Alignment explanation
Indices: 104470087--104470209 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 54
104470077 AGGGGTAAAA
* *
104470087 CGGTAATTTTGTAAATCG-GGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTT
1 CGGTAATTTTGTAAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTT
* ** * *
104470140 CGGTAAATTTACAAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTT
1 CGGTAATTTTGTAAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTT
104470194 CGGTAATTTTAGTAAA
1 CGGTAATTTT-GTAAA
104470210 CTAAAGTATT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
53 21 0.38
54 32 0.57
55 3 0.05
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
CGGTAATTTTGTAAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTT
Found at i:104470218 original size:27 final size:27
Alignment explanation
Indices: 104470115--104470219 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
104470105 GGGTACTTTG
* * *
104470115 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
104470142 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
104470169 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
104470196 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
104470220 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:104473125 original size:43 final size:42
Alignment explanation
Indices: 104473052--104473144 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 42
104473042 TGGCCCATAG
**
104473052 GCCCATTTCAATATCACATATAATGTCAATGAAAAGAATGCAA
1 GCCCATTTCAATATCACATATAATACCAATG-AAAGAATGCAA
* *
104473095 GCCCATTTCAATATCACATGA-AATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACAT-ATAATACCAATGAAAGAATGCAA
*
104473137 ACCCATTT
1 GCCCATTT
104473145 GGGGAGGCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
42 16 0.36
43 27 0.61
44 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATATCACATATAATACCAATGAAAGAATGCAA
Found at i:104473316 original size:23 final size:23
Alignment explanation
Indices: 104473286--104473446 Score: 252
Period size: 23 Copynumber: 7.0 Consensus size: 23
104473276 CCTTGCCTCT
*
104473286 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
104473309 TTTAATAACT-GGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
104473331 TTTTGATCACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
104473355 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
104473378 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
104473402 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
104473425 TTTAATAACTGGGGCATAAGCC
1 TTTAATAACTGGGGCATAAGCC
104473447 TTTTGCACTT
Statistics
Matches: 126, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
22 10 0.08
23 83 0.66
24 33 0.26
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:104473393 original size:47 final size:47
Alignment explanation
Indices: 104473284--104473446 Score: 267
Period size: 47 Copynumber: 3.5 Consensus size: 47
104473274 GGCCTTGCCT
* *
104473284 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACT-GGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
104473330 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
104473377 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
104473424 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
104473447 TTTTGCACTT
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 53 0.48
47 57 0.52
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:104473522 original size:9 final size:9
Alignment explanation
Indices: 104473508--104473564 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
104473498 ATCTCATGTG
104473508 CATATCATA
1 CATATCATA
*
104473517 CATATCATGTG
1 CATATCA--TA
104473528 CATATCATA
1 CATATCATA
* *
104473537 CATGTCATGTG
1 CATATCA--TA
104473548 CATATCATA
1 CATATCATA
104473557 CATATCAT
1 CATATCAT
104473565 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:104473524 original size:20 final size:20
Alignment explanation
Indices: 104473496--104473566 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
104473486 GCATTTATGA
*
104473496 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
104473516 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
104473536 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
104473556 ACATATCATGT
1 ACATATCATGT
104473567 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:104473531 original size:11 final size:11
Alignment explanation
Indices: 104473501--104473555 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
104473491 TATGAACATC
104473501 TCATGTGCATA
1 TCATGTGCATA
*
104473512 TCA--TACATA
1 TCATGTGCATA
104473521 TCATGTGCATA
1 TCATGTGCATA
* *
104473532 TCA--TACATG
1 TCATGTGCATA
104473541 TCATGTGCATA
1 TCATGTGCATA
104473552 TCAT
1 TCAT
104473556 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:104474868 original size:27 final size:27
Alignment explanation
Indices: 104474806--104474870 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
104474796 GGGCATATTC
104474806 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
104474833 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
104474860 GTCTTTTTACC
1 GTCATTTTACC
104474871 TTTTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:104475112 original size:27 final size:27
Alignment explanation
Indices: 104475012--104475117 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
104475002 TTTGTAAATC
*
104475012 AGGGGTATTTTGGTAATTTTATAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * * *
104475038 TGAGGGTATTTCGGTAATTTCACAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACT
*
104475066 AAGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
104475093 AGGGGTATTTTAGTAATTTTGCAAA
1 AGGGGTATTTTGGTAATTTTACAAA
104475118 TCGAGGGTAA
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.02
27 64 0.98
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:104475125 original size:27 final size:27
Alignment explanation
Indices: 104474923--104475153 Score: 119
Period size: 27 Copynumber: 8.5 Consensus size: 27
104474913 GGTAAATCTA
* * *
104474923 CAAACCAAAGGTATTTCAGTAATTTTG
1 CAAATCAAGGGTATTTTAGTAATTTTG
* * *
104474950 TAAACCAATGGTATTTCTA-TAATTTTTAG
1 CAAATCAAGGGTATTT-TAGTAA-TTTT-G
*
104474979 -AAAGTCAAGGGTATTTCT-GTAACTTTG
1 CAAA-TCAAGGGTATTT-TAGTAATTTTG
* * * *
104475006 TAAATCAGGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTTAGTAATTTTG
* ** ** **
104475033 TAAATTGAGGGTATTTCGGTAATTTCA
1 CAAATCAAGGGTATTTTAGTAATTTTG
* * *
104475060 CAAACCAAGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTTAGTAATTTTG
*
104475087 CAAA-CTAGGGGTATTTTAGTAATTTTG
1 CAAATC-AAGGGTATTTTAGTAATTTTG
* **** *
104475114 CAAATCGAGGGTAAAACAGTAATTCTG
1 CAAATCAAGGGTATTTTAGTAATTTTG
*
104475141 TAAATCAAGGGTA
1 CAAATCAAGGGTA
104475154 AAACAGTAAT
Statistics
Matches: 163, Mismatches: 32, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
26 2 0.01
27 130 0.80
28 15 0.09
29 16 0.10
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (27 bp):
CAAATCAAGGGTATTTTAGTAATTTTG
Found at i:104475125 original size:54 final size:52
Alignment explanation
Indices: 104474986--104475126 Score: 140
Period size: 54 Copynumber: 2.6 Consensus size: 52
104474976 TAGAAAGTCA
* * * *
104474986 AGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTATAAATTG
1 AGGGTATTT-TGTAATTTTGCAAATCA-GGGTATTTTGGTAATTTTACAAATAG
* ** *
104475040 AGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
1 AGGGTATTT-TGTAATTTTGCAAATC-AGGGTATTTTGGTAATTTTACAAA-TAG
104475095 -GGGTATTTTAGTAATTTTGCAAATCGAGGGTA
1 AGGGTATTTT-GTAATTTTGCAAATC-AGGGTA
104475127 AAACAGTAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
54 68 0.96
55 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (52 bp):
AGGGTATTTTGTAATTTTGCAAATCAGGGTATTTTGGTAATTTTACAAATAG
Found at i:104475154 original size:27 final size:27
Alignment explanation
Indices: 104475104--104475315 Score: 246
Period size: 27 Copynumber: 7.9 Consensus size: 27
104475094 GGGGTATTTT
* * *
104475104 AGTAATTTTGCAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
104475131 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
104475158 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
104475185 AGTAATTCAGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
104475212 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
104475239 -GATAATTATGTAAATCAGGGGTAAAAC
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* * * *
104475266 GGTAATTATGTAAATTAGGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
104475293 GGTAATTTTGTAAATCGAGGGTA
1 AGTAATTCTGTAAATCAAGGGTA
104475316 CTTTGGTAAT
Statistics
Matches: 164, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 162 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:104475350 original size:54 final size:54
Alignment explanation
Indices: 104475292--104475415 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
104475282 AGGGGTAAAA
* **
104475292 CGGTAATTTTGTAAATCGAGGGTACTTT-GGTAATTTTACAAGTTGAA-GGTATTT
1 CGGTAATTTTGTAAATCGAGGGTA-TTTCAGTAATTTTACAAACT-AAGGGTATTT
* ** *
104475346 CGGTAAATTTACAAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTT
1 CGGTAATTTTGTAAATCGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTT
104475400 CGGTAATTTTAGTAAA
1 CGGTAATTTT-GTAAA
104475416 CTAAAGTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
53 5 0.09
54 49 0.86
55 3 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
CGGTAATTTTGTAAATCGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTT
Found at i:104475369 original size:27 final size:27
Alignment explanation
Indices: 104475292--104475410 Score: 125
Period size: 27 Copynumber: 4.4 Consensus size: 27
104475282 AGGGGTAAAA
**
104475292 CGGTAATTTTGTAAATCGAGGGTACTTT
1 CGGTAATTTTACAAATCGAGGGTA-TTT
* * *
104475320 -GGTAATTTTACAAGTTGAAGGTATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
*
104475346 CGGTAAATTTACAAATCGAGGGTATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
* * *
104475373 CAGTATTTTTACAAA-CTAAGGGTATTT
1 CGGTAATTTTACAAATC-GAGGGTATTT
104475400 CGGTAATTTTA
1 CGGTAATTTTA
104475411 GTAAACTAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.05
27 70 0.95
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CGGTAATTTTACAAATCGAGGGTATTT
Found at i:104475424 original size:27 final size:27
Alignment explanation
Indices: 104475321--104475425 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
104475311 GGGTACTTTG
** *
104475321 GTAATTTTACAAGTTGAAG-GTATTTCG
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
104475348 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
104475375 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
104475402 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
104475426 CTAAACAGGG
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
26 3 0.05
27 52 0.83
28 8 0.13
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:104476860 original size:22 final size:23
Alignment explanation
Indices: 104476830--104476872 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
104476820 GGGTGAACTT
104476830 GATACGAAAAACACGGGCGTGGG
1 GATACGAAAAACACGGGCGTGGG
*
104476853 GATA-GAAAACCACGGGCGTG
1 GATACGAAAAACACGGGCGTG
104476873 CCAGGGACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.35, C:0.19, G:0.37, T:0.09
Consensus pattern (23 bp):
GATACGAAAAACACGGGCGTGGG
Found at i:104481885 original size:25 final size:25
Alignment explanation
Indices: 104481838--104481885 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
104481828 TTATAGTATG
* * * *
104481838 AAAATGACTATTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
104481863 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
104481886 GTTTATGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:104481938 original size:9 final size:9
Alignment explanation
Indices: 104481924--104481980 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
104481914 TTTAATAAAC
104481924 ATGATATGT
1 ATGATATGT
*
104481933 ATGATATGCAC
1 ATGATATG--T
*
104481944 ATGACATGT
1 ATGATATGT
*
104481953 ATGATATGCAC
1 ATGATATG--T
104481964 ATGATATGT
1 ATGATATGT
104481973 ATGATATG
1 ATGATATG
104481981 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:104481947 original size:20 final size:20
Alignment explanation
Indices: 104481922--104481992 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
104481912 ATTTTAATAA
104481922 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
104481942 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
104481962 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
104481982 ACATGAGATGT
1 ACATGATATGT
104481993 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:104481969 original size:11 final size:11
Alignment explanation
Indices: 104481933--104481987 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
104481923 CATGATATGT
104481933 ATGATATGCAC
1 ATGATATGCAC
* *
104481944 ATGACATG--T
1 ATGATATGCAC
104481953 ATGATATGCAC
1 ATGATATGCAC
*
104481964 ATGATATG--T
1 ATGATATGCAC
104481973 ATGATATGCAC
1 ATGATATGCAC
104481984 ATGA
1 ATGA
104481988 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:104482094 original size:24 final size:24
Alignment explanation
Indices: 104482037--104482203 Score: 232
Period size: 24 Copynumber: 7.0 Consensus size: 24
104482027 GGAGGAAGTG
104482037 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
104482061 -TAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
104482084 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
104482108 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
104482131 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
104482155 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
104482179 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
104482204 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
23 43 0.33
24 75 0.58
25 11 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:104482106 original size:47 final size:47
Alignment explanation
Indices: 104482037--104482203 Score: 264
Period size: 47 Copynumber: 3.5 Consensus size: 47
104482027 GGAGGAAGTG
*
104482037 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
104482084 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
104482131 CAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTAT
* *
104482179 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
104482204 ATGATAAAGC
Statistics
Matches: 113, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
47 71 0.63
48 31 0.27
49 11 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:104486725 original size:6 final size:6
Alignment explanation
Indices: 104486705--104486770 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
104486695 AAGAAACATT
* *
104486705 ATCAGA A-CTAGA ATCAAA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
104486754 ATCAAA ATCAGA ATCAG
1 ATCAGA ATCAGA ATCAG
104486771 TATTAGGTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
5 3 0.06
6 41 0.84
7 4 0.08
8 1 0.02
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:104486757 original size:31 final size:31
Alignment explanation
Indices: 104486722--104486791 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
104486712 CTAGAATCAA
*
104486722 AATCAGAATCAGAATCAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAGTATCAGGTAACAG
*
104486753 AATCAAAATCAGAATCAGTATTAGGTAACAG
1 AATCAAAATCAGAATCAGTATCAGGTAACAG
104486784 AATCAAAA
1 AATCAAAA
104486792 ATCAAAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (31 bp):
AATCAAAATCAGAATCAGTATCAGGTAACAG
Done.