Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 143 of 163
Found at i:47028195 original size:20 final size:20
Alignment explanation
Indices: 47028157--47028209 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
47028147 CATGCTTTAC
*
47028157 ATATATTTATTTTATAATT-TT
1 ATATA-TTA-TTTAAAATTATT
47028178 ATATATATATTTAAAATTAATT
1 ATATAT-TATTTAAAATT-ATT
47028200 ATATATTATT
1 ATATATTATT
47028210 ACCAATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 9 0.32
21 11 0.39
22 8 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATATTATTTAAAATTATT
Found at i:47034010 original size:30 final size:29
Alignment explanation
Indices: 47033976--47034047 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
47033966 TTAGATAAAT
* * * *
47033976 AAATTTTAATTTAGTATAATTATGTATATG
1 AAATTTTAATTTAGTATAA-AATATACATA
* *
47034006 AAATTTTTATTGTAGTTTAAAATATACATA
1 AAATTTTAATT-TAGTATAAAATATACATA
47034036 AAATTTTAATTT
1 AAATTTTAATTT
47034048 TTATTCAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 1 0.03
30 26 0.76
31 7 0.21
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (29 bp):
AAATTTTAATTTAGTATAAAATATACATA
Found at i:47039817 original size:20 final size:20
Alignment explanation
Indices: 47039781--47039821 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
47039771 AATAATTCTA
*
47039781 TTTAAAATTATCTTAATTTT
1 TTTAAAATTATCATAATTTT
47039801 TTTAAAATTTAT-ATAATTTT
1 TTTAAAA-TTATCATAATTTT
47039821 T
1 T
47039822 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAAAATTATCATAATTTT
Found at i:47040757 original size:2 final size:2
Alignment explanation
Indices: 47040750--47040777 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47040740 TTGTGAGCAA
47040750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47040778 GTCGACTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47049442 original size:39 final size:38
Alignment explanation
Indices: 47049376--47049453 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 38
47049366 ATGTGGTAAG
47049376 TTGGTAGGCAATTGAGGACAACTTTCCACTAGAAACAA
1 TTGGTAGGCAATTGAGGACAACTTTCCACTAGAAACAA
*
47049414 TTGGTAGGCAATCTGATGACAACTTTCCACTAGAAACAA
1 TTGGTAGGCAAT-TGAGGACAACTTTCCACTAGAAACAA
47049453 T
1 T
47049454 ATGCATACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 12 0.32
39 26 0.68
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (38 bp):
TTGGTAGGCAATTGAGGACAACTTTCCACTAGAAACAA
Found at i:47050839 original size:304 final size:305
Alignment explanation
Indices: 47050290--47050898 Score: 1202
Period size: 304 Copynumber: 2.0 Consensus size: 305
47050280 TAATTGTTAT
47050290 CCACTAATCTCACTTTTATACTTATATTTCGGGTTATGTTGAAAATATCTCATAAATTCATGTAT
1 CCACTAATCTCACTTTTATACTTATATTTCGGGTTATGTTGAAAATATCTCATAAATTCATGTAT
47050355 TTTTCAAAAAATTAGAATTTAGGATTTAACTTTTTATTTTTAACAATTTATATTTTAAATTTGAA
66 TTTTCAAAAAATTAGAATTTAGGATTTAACTTTTTATTTTTAACAATTTATATTTTAAATTTGAA
47050420 AAAATAGAGAGATTAAATTCTAGAAAATAAAAATATATAGACTAAATTTTAAATATTAGAAAAAT
131 AAAATAGAGAGATTAAATTCTAGAAAATAAAAATATATAGACTAAATTTTAAATATTAGAAAAAT
47050485 ATAGAAACTTCCGACGTATTTTAACCATTTAGCAATTACGTCTACTTTAGTAATTGTATAATTTT
196 ATAGAAACTTCCGACGTATTTTAACCATTTAGCAATTACGTCTACTTTAGTAATTGTATAATTTT
47050550 TTCATTACCAAAAAAAAAAAAAAACAAACAAA-AAAATTGCCAAA
261 TTCATTACCAAAAAAAAAAAAAAACAAACAAACAAAATTGCCAAA
47050594 CCACTAATCTCACTTTTATACTTATATTTCGGGTTATGTTGAAAATATCTCATAAATTCATGTAT
1 CCACTAATCTCACTTTTATACTTATATTTCGGGTTATGTTGAAAATATCTCATAAATTCATGTAT
47050659 TTTTCAAAAAATTAGAATTTAGGATTTAACTTTTTATTTTTAACAATTTATATTTTAAATTTGAA
66 TTTTCAAAAAATTAGAATTTAGGATTTAACTTTTTATTTTTAACAATTTATATTTTAAATTTGAA
47050724 AAAATAGAGAGATTAAATTCTAGAAAATAAAAATATATAGACTAAATTTTAAATATTAGAAAAAT
131 AAAATAGAGAGATTAAATTCTAGAAAATAAAAATATATAGACTAAATTTTAAATATTAGAAAAAT
47050789 ATAGAAACTTCCGACGTATTTTAACCATTTAGCAATTACGTCTACTTTAGTAATTGTATAATTTT
196 ATAGAAACTTCCGACGTATTTTAACCATTTAGCAATTACGTCTACTTTAGTAATTGTATAATTTT
*
47050854 TTCATTACCAAAAAAAAAAAAAAACAAACAAACATAATTGCCAAA
261 TTCATTACCAAAAAAAAAAAAAAACAAACAAACAAAATTGCCAAA
47050899 TTCAAGAGCA
Statistics
Matches: 303, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
304 292 0.96
305 11 0.04
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (305 bp):
CCACTAATCTCACTTTTATACTTATATTTCGGGTTATGTTGAAAATATCTCATAAATTCATGTAT
TTTTCAAAAAATTAGAATTTAGGATTTAACTTTTTATTTTTAACAATTTATATTTTAAATTTGAA
AAAATAGAGAGATTAAATTCTAGAAAATAAAAATATATAGACTAAATTTTAAATATTAGAAAAAT
ATAGAAACTTCCGACGTATTTTAACCATTTAGCAATTACGTCTACTTTAGTAATTGTATAATTTT
TTCATTACCAAAAAAAAAAAAAAACAAACAAACAAAATTGCCAAA
Found at i:47063244 original size:91 final size:90
Alignment explanation
Indices: 47063083--47063265 Score: 314
Period size: 91 Copynumber: 2.0 Consensus size: 90
47063073 AGTACAAAAT
*
47063083 ATAATATTATTTATATAAATATACCACATGTGTTTATATTTAATTATAATTATAAGTCAAATATG
1 ATAATATTATTTATATAAATATACCAAATGTGTTTATATTTAATTATAATTATAAGTCAAATAT-
47063148 CGCATTTAGCGTCTCCCGAACTTGAC
65 CGCATTTAGCGTCTCCCGAACTTGAC
*
47063174 ATAATATTATTTATATAAATATATCAAATGTGTTTATATTTAATTATAATTATAAGGCTCAAATA
1 ATAATATTATTTATATAAATATACCAAATGTGTTTATATTTAATTATAATTATAA-G-TCAAATA
47063239 T-GCATTTAGCGTCTCCCGAACTTGAC
64 TCGCATTTAGCGTCTCCCGAACTTGAC
47063265 A
1 A
47063266 CATTTTTTCA
Statistics
Matches: 88, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
91 79 0.90
92 1 0.01
93 8 0.09
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (90 bp):
ATAATATTATTTATATAAATATACCAAATGTGTTTATATTTAATTATAATTATAAGTCAAATATC
GCATTTAGCGTCTCCCGAACTTGAC
Found at i:47063501 original size:19 final size:19
Alignment explanation
Indices: 47063473--47063509 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
47063463 AAATTATATA
*
47063473 AAATTTTAAAATATAAAAT
1 AAATTATAAAATATAAAAT
*
47063492 AAATTATAAATTATAAAA
1 AAATTATAAAATATAAAA
47063510 ATATATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATTATAAAATATAAAAT
Found at i:47067742 original size:8 final size:8
Alignment explanation
Indices: 47067742--47067781 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
47067732 TATGTGTGTA
47067742 TGTATGTG
1 TGTATGTG
47067750 TGTATGTG
1 TGTATGTG
47067758 TG--TGTG
1 TGTATGTG
*
47067764 TGTATGTA
1 TGTATGTG
47067772 T-TATGTG
1 TGTATGTG
47067779 TGT
1 TGT
47067782 TTCTTGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
6 6 0.22
7 6 0.22
8 15 0.56
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (8 bp):
TGTATGTG
Found at i:47067745 original size:20 final size:20
Alignment explanation
Indices: 47067722--47067760 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
47067712 TTTGTGTTTG
47067722 TGTATGT-TCGTATGTGTGTA
1 TGTATGTGT-GTATGTGTGTA
47067742 TGTATGTGTGTATGTGTGT
1 TGTATGTGTGTATGTGTGT
47067761 GTGTGTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.13, C:0.03, G:0.33, T:0.51
Consensus pattern (20 bp):
TGTATGTGTGTATGTGTGTA
Found at i:47067748 original size:12 final size:12
Alignment explanation
Indices: 47067731--47067764 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
47067721 GTGTATGTTC
47067731 GTATGTGTGTAT
1 GTATGTGTGTAT
47067743 GTATGTGTGTAT
1 GTATGTGTGTAT
*
47067755 GTGTGTGTGT
1 GTATGTGTGT
47067765 GTATGTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (12 bp):
GTATGTGTGTAT
Found at i:47068044 original size:16 final size:15
Alignment explanation
Indices: 47068015--47068051 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
47068005 TGTTTTCCTT
47068015 TATGTTGTTAGTGTG
1 TATGTTGTTAGTGTG
*
47068030 TATGTATGTTTGTGTG
1 TATGT-TGTTAGTGTG
47068046 TATGTT
1 TATGTT
47068052 TGTATGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (15 bp):
TATGTTGTTAGTGTG
Found at i:47068049 original size:12 final size:12
Alignment explanation
Indices: 47068028--47068060 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
47068018 GTTGTTAGTG
47068028 TGTATGTATGTT
1 TGTATGTATGTT
*
47068040 TGTGTGTATGTT
1 TGTATGTATGTT
47068052 TGTATGTAT
1 TGTATGTAT
47068061 ATGTATGCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (12 bp):
TGTATGTATGTT
Found at i:47073363 original size:29 final size:28
Alignment explanation
Indices: 47073330--47073398 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 28
47073320 AAACCAAGGC
47073330 TTGCTTACATTATATATATATTGGCCAGA
1 TTGCTTACA-TATATATATATTGGCCAGA
47073359 TTGCTT--A-ATATATATATTGGCCAGA
1 TTGCTTACATATATATATATTGGCCAGA
47073384 TTGCTTACATA-ATAT
1 TTGCTTACATATATAT
47073399 TTAAAAAGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
25 24 0.65
27 6 0.16
28 1 0.03
29 6 0.16
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (28 bp):
TTGCTTACATATATATATATTGGCCAGA
Found at i:47073375 original size:25 final size:26
Alignment explanation
Indices: 47073341--47073398 Score: 102
Period size: 25 Copynumber: 2.3 Consensus size: 26
47073331 TGCTTACATT
47073341 ATATATATATTGGCCAGATTGCTTA-
1 ATATATATATTGGCCAGATTGCTTAC
47073366 ATATATATATTGGCCAGATTGCTTAC
1 ATATATATATTGGCCAGATTGCTTAC
47073392 ATA-ATAT
1 ATATATAT
47073399 TTAAAAAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 29 0.91
26 3 0.09
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (26 bp):
ATATATATATTGGCCAGATTGCTTAC
Found at i:47077236 original size:3 final size:3
Alignment explanation
Indices: 47077228--47077254 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
47077218 CTTTTTCTTA
47077228 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
47077255 CAAAGATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:47078322 original size:18 final size:20
Alignment explanation
Indices: 47078299--47078338 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
47078289 TATCTTTACT
*
47078299 AATTTAAA-ATTTTAAA-AA
1 AATTTAAAGAGTTTAAATAA
47078317 AATTTAAAGAGTTTAAATAA
1 AATTTAAAGAGTTTAAATAA
47078337 AA
1 AA
47078339 AAAATTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
AATTTAAAGAGTTTAAATAA
Found at i:47081181 original size:5 final size:6
Alignment explanation
Indices: 47081166--47081190 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
47081156 TTAGGACACG
47081166 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
47081191 GAATTTAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:47084506 original size:16 final size:16
Alignment explanation
Indices: 47084485--47084515 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47084475 AAAAATTACT
47084485 TTTGTCTGCATGGAAC
1 TTTGTCTGCATGGAAC
*
47084501 TTTGTCTTCATGGAA
1 TTTGTCTGCATGGAA
47084516 TTTTTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (16 bp):
TTTGTCTGCATGGAAC
Found at i:47085736 original size:2 final size:2
Alignment explanation
Indices: 47085729--47085759 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
47085719 AATGTTACTT
47085729 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47085760 GAATTATAAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47092683 original size:13 final size:13
Alignment explanation
Indices: 47092665--47092690 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47092655 AAATAACTCA
47092665 ACTAAGCTAGATT
1 ACTAAGCTAGATT
47092678 ACTAAGCTAGATT
1 ACTAAGCTAGATT
47092691 TCAACCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ACTAAGCTAGATT
Found at i:47100431 original size:21 final size:20
Alignment explanation
Indices: 47100407--47100449 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
47100397 CCTAATTGAA
*
47100407 TTTTACATGTTTGAGTCTCTT
1 TTTTACATCTTT-AGTCTCTT
* *
47100428 TTTTATATCTTTATTCTCTT
1 TTTTACATCTTTAGTCTCTT
47100448 TT
1 TT
47100450 CTTTGATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTACATCTTTAGTCTCTT
Found at i:47102322 original size:2 final size:2
Alignment explanation
Indices: 47102315--47102353 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
47102305 AGAAACCGAC
*
47102315 AT AT AT AT AT AT AT AT AC 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 AT AT AT AT A
47102354 CACACCACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:47108627 original size:40 final size:40
Alignment explanation
Indices: 47108572--47108652 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
47108562 AAGAAGAACG
47108572 TTATGGGCAACAATGTAAGGTTCTGTGGCTGCATTACCAT
1 TTATGGGCAACAATGTAAGGTTCTGTGGCTGCATTACCAT
47108612 TTATGGGCAACAATGTAAGGTTCTGTGGCTGCATTACCAT
1 TTATGGGCAACAATGTAAGGTTCTGTGGCTGCATTACCAT
47108652 T
1 T
47108653 GGGACACATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
TTATGGGCAACAATGTAAGGTTCTGTGGCTGCATTACCAT
Found at i:47110437 original size:31 final size:31
Alignment explanation
Indices: 47110401--47110459 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
47110391 AAAACTTTCA
*
47110401 AATAGTTTAATGACTTAAATGAAAATTTTTG
1 AATAGTGTAATGACTTAAATGAAAATTTTTG
* *
47110432 AATAGTGTAGTGACTTAAATGAATATTT
1 AATAGTGTAATGACTTAAATGAAAATTT
47110460 CAGTGAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (31 bp):
AATAGTGTAATGACTTAAATGAAAATTTTTG
Found at i:47112425 original size:6 final size:6
Alignment explanation
Indices: 47112416--47112440 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
47112406 TATATATATT
47112416 TATAAA TATAAA TATAAA TATAAA T
1 TATAAA TATAAA TATAAA TATAAA T
47112441 NNNNNNNNNN
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TATAAA
Found at i:47114880 original size:4 final size:4
Alignment explanation
Indices: 47114871--47114898 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
47114861 TTTGTTGGTA
47114871 TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT
47114899 GGTAGAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:47117499 original size:23 final size:24
Alignment explanation
Indices: 47117473--47117521 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
47117463 CTCTTTTAGA
47117473 CCATTCCTTAG-TACCAGTATTTT
1 CCATTCCTTAGCTACCAGTATTTT
* **
47117496 CCATTTCTTAGCTTGCAGTATTTT
1 CCATTCCTTAGCTACCAGTATTTT
47117520 CC
1 CC
47117522 GGGAATCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.18, C:0.27, G:0.10, T:0.45
Consensus pattern (24 bp):
CCATTCCTTAGCTACCAGTATTTT
Found at i:47126294 original size:115 final size:115
Alignment explanation
Indices: 47126062--47126963 Score: 1081
Period size: 115 Copynumber: 7.9 Consensus size: 115
47126052 AAAATAAGCA
* * * *
47126062 TTAGCAGCGTTTTTCAGAAAGCGCCGCAAAA-AAACTAAGCCCAACGACGTCGTATTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * * *
47126126 TCGCAGATTTAGTGGCGTTTTTTA-GAAAGCGTCGCTAATGGTTAGGACTT
66 TCGCGGATTTAGTGGCGTTTTTTAGGAAAGCGCCGCTAATGCTCAGGGC-T
* * **
47126176 TTAGCGGCGATTTTGAGAAAGCGCCGCAAAA-AGACATAAGCCCAACGGTGCCGTTTTCTGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAAC-TAAGCCCAACGACGCCGTTTTCTGAGCT
* * * * * *
47126240 TTCGGGGACTTAGCT-GCGTTTCTTAGGAAAACGCCGCTAATACTGAGGGCT
65 TTCGCGGATTTAG-TGGCGTTTTTTAGGAAAGCGCCGCTAATGCTCAGGGCT
* * *
47126291 TTAGCGGCGTTTTTGATG-AAGCACCGCAAAATAAACTAAGCCTAACGACGCCGTTTTCTGAGCA
1 TTAGCGGCGTTTTTGA-GAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCT
* * * *
47126355 TTCACGAATTTAGTGGCATTTTTCAGG-AAGCGCCGCTAATGCTCAGGGCTT
65 TTCGCGGATTTAGTGGCGTTTTTTAGGAAAGCGCCGCTAATGCTCAGGGC-T
* *
47126406 TTA-CGGCGTTTTTGATAAAGCGCCACAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
** * ** * * *
47126470 TCGTAGATTTAGTGGCGTTTCTTAATACAGCGTCGCTAATGCTGAGGGCT
66 TCGCGGATTTAGTGGCGTTTTTTAGGAAAGCGCCGCTAATGCTCAGGGCT
* *
47126520 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
47126585 TTGCGGATTCAGTGGCGTTTTTTATG-AAGCGCCGCTAATGCTCAGGGAT
66 TCGCGGATTTAGTGGCGTTTTTTAGGAAAGCGCCGCTAATGCTCAGGGCT
* *
47126634 TTAGCGGCGTTTGTGAGAAAGCGCCGCAAAA-AGACATAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAAC-TAAGCCCAACGACGCCGTTTTCTGAGCT
** * ** *
47126698 TTCGTAGATTTAGTGGCGTTTCTTAATAAAGCGCCGCTAATGCTGAGGGCT
65 TTCGCGGATTTAGTGGCGTTTTTTAGGAAAGCGCCGCTAATGCTCAGGGCT
* * *
47126749 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAATAAACTAAGCCTAAAGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
47126814 TTGCGGATTTAGTGGCGTTTTTTAGG-AAGCACTGCTAATGCTCAGTGCT
66 TCGCGGATTTAGTGGCGTTTTTTAGGAAAGCGCCGCTAATGCTCAGGGCT
* * *
47126863 TTAGCGGCGTTTGTGAGAAAGCG-CGCAAAA-AGACATAAGACCAACGACGCCGTTTTCTGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAAC-TAAGCCCAACGACGCCGTTTTCTGAGC-
* * *
47126926 TTTGGGGGATTTAGCGGCGTTTTTTAGGAAAGCGCCGC
64 TTTCGCGGATTTAGTGGCGTTTTTTAGGAAAGCGCCGC
47126964 AAAAAAAAAC
Statistics
Matches: 666, Mismatches: 106, Indels: 31
0.83 0.13 0.04
Matches are distributed among these distances:
112 3 0.00
113 34 0.05
114 287 0.43
115 316 0.47
116 26 0.04
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (115 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGCGGATTTAGTGGCGTTTTTTAGGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:47126461 original size:229 final size:230
Alignment explanation
Indices: 47126062--47126963 Score: 1219
Period size: 229 Copynumber: 3.9 Consensus size: 230
47126052 AAAATAAGCA
* * * * *
47126062 TTAGCAGCGTTTTTCAGAAAGCGCCGCAAAA-AAACTAAGCCCAACGACGTCGTATTCTGAGCTT
1 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * * *
47126126 TCGC-AGATTTAGTGGCGTTTTTTAGAAAGCGTCGCTAATGGTTAGGACTTTTAGCGGCGATTT-
66 TCGCGA-ATTTAGTGGCGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTTAGCGGCG-TTTG
** * *
47126189 TGAGAAAGCGCCGCAAAAAGACATAAGCCCAACGGTGCCGTTTTCTGAGCTTTCGGGGACTTAGC
129 TGAGAAAGCGCCGCAAAAAGACATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGAGATTTAG-
* * *
47126254 T-GCGTTTCTTAGGAAAACGCCGCTAATACTGAGGGCT
193 TGGCGTTTCTTAAGAAAGCGCCGCTAATGCTGAGGGCT
* * * *
47126291 TTAGCGGCGTTTTTGATGAAGCACCGCAAAATAAACTAAGCCTAACGACGCCGTTTTCTGAGCAT
1 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
47126356 TCACGAATTTAGTGGCATTTTTCAGGAAGCGCCGCTAATGCTCAGGGCTTTTA-CGGCGTTTTTG
66 TCGCGAATTTAGTGGCGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTTAGCGGCGTTTGTG
* * * *
47126420 ATAAAGCGCCACAAAATAAAC-TAAGCCCAACGACGCCGTTTTCTGAGCTTTCGTAGATTTAGTG
131 AGAAAGCGCCGCAAAA-AGACATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGAGATTTAGTG
* * *
47126484 GCGTTTCTTAATACAGCGTCGCTAATGCTGAGGGCT
195 GCGTTTCTTAAGAAAGCGCCGCTAATGCTGAGGGCT
*
47126520 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * * *
47126585 TTGCGGATTCAGTGGCGTTTTTTATGAAGCGCCGCTAATGCTCAGGG-ATTTAGCGGCGTTTGTG
66 TCGCGAATTTAGTGGCGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTTAGCGGCGTTTGTG
*
47126649 AGAAAGCGCCGCAAAAAGACATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGTAGATTTAGTGG
131 AGAAAGCGCCGCAAAAAGACATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGAGATTTAGTGG
*
47126714 CGTTTCTTAATAAAGCGCCGCTAATGCTGAGGGCT
196 CGTTTCTTAAGAAAGCGCCGCTAATGCTGAGGGCT
* *
47126749 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAATAAACTAAGCCTAAAGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * * *
47126814 TTGCGGATTTAGTGGCGTTTTTTAGGAAGCACTGCTAATGCTCAGTGC-TTTAGCGGCGTTTGTG
66 TCGCGAATTTAGTGGCGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTTAGCGGCGTTTGTG
* * * *
47126878 AGAAAGCG-CGCAAAAAGACATAAGACCAACGACGCCGTTTTCTGAGCTTTTGGGGGATTTAGCG
131 AGAAAGCGCCGCAAAAAGACATAAGCCCAACGACGCCGTTTTCTGAGC-TTTCGGAGATTTAGTG
* *
47126942 GCGTTTTTTAGGAAAGCGCCGC
195 GCGTTTCTTAAGAAAGCGCCGC
47126964 AAAAAAAAAC
Statistics
Matches: 598, Mismatches: 66, Indels: 18
0.88 0.10 0.03
Matches are distributed among these distances:
228 49 0.08
229 473 0.79
230 75 0.13
231 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (230 bp):
TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGCGAATTTAGTGGCGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTTAGCGGCGTTTGTG
AGAAAGCGCCGCAAAAAGACATAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGAGATTTAGTGG
CGTTTCTTAAGAAAGCGCCGCTAATGCTGAGGGCT
Found at i:47127079 original size:14 final size:14
Alignment explanation
Indices: 47127060--47127086 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47127050 GAGTATGGGT
47127060 TTAGGGATTATGGA
1 TTAGGGATTATGGA
47127074 TTAGGGATTATGG
1 TTAGGGATTATGG
47127087 TTTAAGGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:47127129 original size:15 final size:15
Alignment explanation
Indices: 47127109--47127157 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
47127099 GATTTAAGGT
*
47127109 TTAGGGGTTAGAGGG
1 TTAGGGGTTAGAGAG
*
47127124 TTAGGGGTTAGA-CG
1 TTAGGGGTTAGAGAG
*
47127138 TTTGGGGTTA-AGAG
1 TTAGGGGTTAGAGAG
47127152 TTAGGG
1 TTAGGG
47127158 ATTTAGAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 1 0.03
14 16 0.55
15 12 0.41
ACGTcount: A:0.20, C:0.02, G:0.47, T:0.31
Consensus pattern (15 bp):
TTAGGGGTTAGAGAG
Found at i:47127365 original size:15 final size:14
Alignment explanation
Indices: 47127345--47127393 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
47127335 CATATTTTAA
*
47127345 GGTTTAGGGAGTAT
1 GGTTTAGGGACTAT
*
47127359 GGGTTTAGGGATTAT
1 -GGTTTAGGGACTAT
*
47127374 GGATTAGGGACTAT
1 GGTTTAGGGACTAT
47127388 GGTTTA
1 GGTTTA
47127394 AGGGTTGGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.22, C:0.02, G:0.39, T:0.37
Consensus pattern (14 bp):
GGTTTAGGGACTAT
Found at i:47127424 original size:7 final size:7
Alignment explanation
Indices: 47127412--47127460 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
47127402 GATTCAAGGT
47127412 TTAGGGG
1 TTAGGGG
47127419 TTAGGGG
1 TTAGGGG
47127426 TTTAGGGG
1 -TTAGGGG
**
47127434 TTAGACG
1 TTAGGGG
47127441 TTAGGGG
1 TTAGGGG
* *
47127448 TTAAGAG
1 TTAGGGG
47127455 TTAGGG
1 TTAGGG
47127461 ATTTAAGGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.20, C:0.02, G:0.47, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:47127429 original size:15 final size:15
Alignment explanation
Indices: 47127408--47127475 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
47127398 TTGGGATTCA
47127408 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
47127423 GGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
47127438 ACG-TTAGGGGTTA-
1 AGGTTTAGGGGTTAG
*
47127451 AGAG-TTAGGGATTTA-
1 AG-GTTTAGGG-GTTAG
47127466 AGGTTTAGGG
1 AGGTTTAGGG
47127476 ATTCAATTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
13 1 0.02
14 18 0.40
15 26 0.58
ACGTcount: A:0.22, C:0.01, G:0.44, T:0.32
Consensus pattern (15 bp):
AGGTTTAGGGGTTAG
Found at i:47127668 original size:303 final size:299
Alignment explanation
Indices: 47127036--47127642 Score: 721
Period size: 303 Copynumber: 2.0 Consensus size: 299
47127026 AAAGTTAGGT
* *
47127036 TTTTAAGGTATATGGAGTATGGGTTTAGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGAGA
1 TTTTAAGGT-T-TAGAGTATGGGTTTAGGGATTATGGATTAGGGACTATGGTTTAAGGGTTGAGA
* *
47127101 TTTAAGGTTTAGGGGTTAGAGGGTTAGGGGTTAGACGTTTGGGGTTAAGAGTTAGGGATTTAGAG
64 TTCAAGGTTTAGGGGTTAGAGGGTTAGGGGTTAGACGTTAGGGGTTAAGAGTTAGGGATTTAGAG
* *
47127166 TTTAGGGATTCAGGGGTCAAGTTAGGATTTTGGGCGTTTAGATTAATTTTTTTAATTTATATTTT
129 TTTAGGGATTCAAGGGTCAAGTTAGGATTTT-GGAGTTTAGATTAATTTTTTTAATTTATATTTT
* * *** * *
47127231 AAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTGGTTTAGGG
193 AAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATATATTTAGAAATTATGGTATA-GG
* * ** ** * * *
47127296 TATATGATTTATTTAAGATTTAAGGCTGGTTTAGGAGTTCATA
257 TATATAAATTATTTAAGAGATAAGAATAGTATAGGACTTCATA
*
47127339 TTTTAAGGTTTAGGGAGTATGGGTTTAGGGATTATGGATTAGGGACTATGGTTTAAGGGTTGGGA
1 TTTTAAGGTTTA--GAGTATGGGTTTAGGGATTATGGATTAGGGACTATGGTTTAAGGGTTGAGA
47127404 TTCAAGGTTTAGGGGTTAG-GGGTTTAGGGGTTAGACGTTAGGGGTTAAGAGTTAGGGATTTA-A
64 TTCAAGGTTTAGGGGTTAGAGGG-TTAGGGGTTAGACGTTAGGGGTTAAGAGTTAGGGATTTAGA
** *
47127467 GGTTTAGGGATTCAATTGTCGAGTTAAGG-TTTT-GAGTTTAGATTAATTATTTTTTTAATTTAT
128 -GTTTAGGGATTCAAGGGTCAAGTT-AGGATTTTGGAGTTTAGATT-A--ATTTTTTTAATTTAT
*
47127530 ATTTTAAATATGTTCTTATATAATTGTAAAATAGATAATAATAAATCAAATATATT-GAAATTAT
188 ATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAAT---ATAT-TTAGAAATTAT
* *
47127594 GAGTATA-GT-T-TAAATTATTTAAGAGATATATAATAG-ATA-GACTTTATA
249 G-GTATAGGTATATAAATTATTTAAGAGATA-AGAATAGTATAGGACTTCATA
47127642 T
1 T
47127643 GTATTGAATG
Statistics
Matches: 261, Mismatches: 29, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
301 11 0.04
302 6 0.02
303 146 0.56
304 79 0.30
305 4 0.02
306 2 0.01
307 7 0.03
308 6 0.02
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.41
Consensus pattern (299 bp):
TTTTAAGGTTTAGAGTATGGGTTTAGGGATTATGGATTAGGGACTATGGTTTAAGGGTTGAGATT
CAAGGTTTAGGGGTTAGAGGGTTAGGGGTTAGACGTTAGGGGTTAAGAGTTAGGGATTTAGAGTT
TAGGGATTCAAGGGTCAAGTTAGGATTTTGGAGTTTAGATTAATTTTTTTAATTTATATTTTAAA
TATGTTCTTATATAATTGTAAAAGAGATAATAATAAATATATTTAGAAATTATGGTATAGGTATA
TAAATTATTTAAGAGATAAGAATAGTATAGGACTTCATA
Found at i:47127923 original size:114 final size:114
Alignment explanation
Indices: 47127720--47127929 Score: 332
Period size: 115 Copynumber: 1.8 Consensus size: 114
47127710 AAAAATTAGC
***
47127720 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATTTTGCAAAAGATAACAAATAGCGGC
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATGCCGCAAAAGATAACAAATAGCGGC
* * *
47127785 GTTTTCTATACAAACGCCGCAAAAAATAAATCAATTTATAGAAAACAAA
66 GTTTTATATAAAAACGCCGAAAAAAATAAATCAATTTATAGAAAACAAA
*
47127834 ATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATAATATCGCCGCAAAAGATAAGC-AATAGCG
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATAT-GCCGCAAAAGATAA-CAAATAGCG
47127898 GCGTTTTATATAAAAACGCCGAAAAAAATAAA
64 GCGTTTTATATAAAAACGCCGAAAAAAATAAA
47127930 AAAATTATAA
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
114 39 0.45
115 47 0.54
116 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (114 bp):
ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATGCCGCAAAAGATAACAAATAGCGGC
GTTTTATATAAAAACGCCGAAAAAAATAAATCAATTTATAGAAAACAAA
Found at i:47127938 original size:114 final size:114
Alignment explanation
Indices: 47127720--47127943 Score: 326
Period size: 114 Copynumber: 2.0 Consensus size: 114
47127710 AAAAATTAGC
***
47127720 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATTTTGCAAAAGATAACAAATAGCGGC
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATGCCGCAAAAGATAACAAATAGCGGC
* * * * * *
47127785 GTTTTCTATACAAACGCCGCAAAAAATAAATCAATTTATAGAAAACAAA
66 GTTTTATATAAAAACGCCGAAAAAAATAAATAAAATTATAAAAAACAAA
*
47127834 ATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATAATATCGCCGCAAAAGATAAGC-AATAGCG
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATAT-GCCGCAAAAGATAA-CAAATAGCG
47127898 GCGTTTTATATAAAAACGCCGAAAAAAATAAA-AAAATTATAAAAAA
64 GCGTTTTATATAAAAACGCCGAAAAAAATAAATAAAATTATAAAAAA
47127944 TTATTTACAT
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
114 50 0.51
115 47 0.48
116 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (114 bp):
ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATGCCGCAAAAGATAACAAATAGCGGC
GTTTTATATAAAAACGCCGAAAAAAATAAATAAAATTATAAAAAACAAA
Found at i:47128522 original size:105 final size:108
Alignment explanation
Indices: 47128283--47128547 Score: 392
Period size: 105 Copynumber: 2.5 Consensus size: 108
47128273 ATAAATTATA
* * * * * *
47128283 AAAAAATTTATTTGCATAGCAAAATGGCGCCGTTTTTGTTCAAAATAAAATAGCGGCGTTTTTCG
1 AAAAAATTT-TGTGCATAGCAAAACGGCGTC-ATTTTGTTCAAAATGAAATAGCGGCGTTTTTCC
47128348 TAAAAACGCCGCAAAAAAAGTAAATCAATTTATAAAAAACAAAAT
64 TAAAAACGCCGCAAAAAAAGTAAATCAATTTATAAAAAACAAAAT
* * * *
47128393 AAAAAATTTTGTGCATAGCAAAACGGCATCATTTTGTTCAAATTGAAGTTGCGGCGTTTTTCCTA
1 AAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTTCCTA
*
47128458 GAAACGCCGC-AAAAAA-TAAATCAATTT-TAAAAAACAAAAT
66 AAAACGCCGCAAAAAAAGTAAATCAATTTATAAAAAACAAAAT
47128498 AAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATA
1 AAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATA
47128548 ATATTTTGCA
Statistics
Matches: 140, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
105 59 0.42
106 11 0.08
107 6 0.04
108 38 0.27
109 17 0.12
110 9 0.06
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.28
Consensus pattern (108 bp):
AAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTTCCTA
AAAACGCCGCAAAAAAAGTAAATCAATTTATAAAAAACAAAAT
Found at i:47128715 original size:114 final size:114
Alignment explanation
Indices: 47128512--47128721 Score: 332
Period size: 115 Copynumber: 1.8 Consensus size: 114
47128502 AATTTTGTGC
***
47128512 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATTTTGCAAAAGATAACAAATAGCGGC
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATGCCGCAAAAGATAACAAATAGCGGC
* * *
47128577 GTTTTCTATACAAACGCCGCAAAAAATAAATCAATTTATAGAAAACAAA
66 GTTTTATATAAAAACGCCGAAAAAAATAAATCAATTTATAGAAAACAAA
*
47128626 ATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATAATATCGCCGCAAAAGATAAGC-AATAGCG
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATAT-GCCGCAAAAGATAA-CAAATAGCG
47128690 GCGTTTTATATAAAAACGCCGAAAAAAATAAA
64 GCGTTTTATATAAAAACGCCGAAAAAAATAAA
47128722 AAAATTATAA
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
114 39 0.45
115 47 0.54
116 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (114 bp):
ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATGCCGCAAAAGATAACAAATAGCGGC
GTTTTATATAAAAACGCCGAAAAAAATAAATCAATTTATAGAAAACAAA
Found at i:47128730 original size:114 final size:114
Alignment explanation
Indices: 47128512--47128735 Score: 326
Period size: 114 Copynumber: 2.0 Consensus size: 114
47128502 AATTTTGTGC
***
47128512 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATTTTGCAAAAGATAACAAATAGCGGC
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATGCCGCAAAAGATAACAAATAGCGGC
* * * * * *
47128577 GTTTTCTATACAAACGCCGCAAAAAATAAATCAATTTATAGAAAACAAA
66 GTTTTATATAAAAACGCCGAAAAAAATAAATAAAATTATAAAAAACAAA
*
47128626 ATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATAATATCGCCGCAAAAGATAAGC-AATAGCG
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATAT-GCCGCAAAAGATAA-CAAATAGCG
47128690 GCGTTTTATATAAAAACGCCGAAAAAAATAAA-AAAATTATAAAAAA
64 GCGTTTTATATAAAAACGCCGAAAAAAATAAATAAAATTATAAAAAA
47128736 TTATTTACAT
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
114 50 0.51
115 47 0.48
116 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (114 bp):
ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATGCCGCAAAAGATAACAAATAGCGGC
GTTTTATATAAAAACGCCGAAAAAAATAAATAAAATTATAAAAAACAAA
Found at i:47138027 original size:114 final size:114
Alignment explanation
Indices: 47137824--47138033 Score: 332
Period size: 115 Copynumber: 1.8 Consensus size: 114
47137814 NNNNNNNNNC
***
47137824 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATTTTGCAAAAGATAACAAATAGCGGC
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATGCCGCAAAAGATAACAAATAGCGGC
* * *
47137889 GTTTTCTATACAAACGCCGCAAAAAATAAATCAATTTATAGAAAACAAA
66 GTTTTATATAAAAACGCCGAAAAAAATAAATCAATTTATAGAAAACAAA
*
47137938 ATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATAATATCGCCGCAAAAGATAAGC-AATAGCG
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATAT-GCCGCAAAAGATAA-CAAATAGCG
47138002 GCGTTTTATATAAAAACGCCGAAAAAAATAAA
64 GCGTTTTATATAAAAACGCCGAAAAAAATAAA
47138034 AAAATTATAA
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
114 39 0.45
115 47 0.54
116 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (114 bp):
ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATGCCGCAAAAGATAACAAATAGCGGC
GTTTTATATAAAAACGCCGAAAAAAATAAATCAATTTATAGAAAACAAA
Found at i:47138042 original size:114 final size:114
Alignment explanation
Indices: 47137824--47138047 Score: 326
Period size: 114 Copynumber: 2.0 Consensus size: 114
47137814 NNNNNNNNNC
***
47137824 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATTTTGCAAAAGATAACAAATAGCGGC
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATGCCGCAAAAGATAACAAATAGCGGC
* * * * * *
47137889 GTTTTCTATACAAACGCCGCAAAAAATAAATCAATTTATAGAAAACAAA
66 GTTTTATATAAAAACGCCGAAAAAAATAAATAAAATTATAAAAAACAAA
*
47137938 ATAGCAAAACGGCGTCATTTTGTTGAAAATGAAATAATATCGCCGCAAAAGATAAGC-AATAGCG
1 ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATAT-GCCGCAAAAGATAA-CAAATAGCG
47138002 GCGTTTTATATAAAAACGCCGAAAAAAATAAA-AAAATTATAAAAAA
64 GCGTTTTATATAAAAACGCCGAAAAAAATAAATAAAATTATAAAAAA
47138048 TTATTTACAT
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
114 50 0.51
115 47 0.48
116 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (114 bp):
ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATGCCGCAAAAGATAACAAATAGCGGC
GTTTTATATAAAAACGCCGAAAAAAATAAATAAAATTATAAAAAACAAA
Found at i:47138275 original size:89 final size:88
Alignment explanation
Indices: 47138125--47138286 Score: 288
Period size: 89 Copynumber: 1.8 Consensus size: 88
47138115 CGCAAAAAAG
*
47138125 TAAATCAATTTAAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACAGCGTCATTTTGTTCAA
1 TAAATCAATTTAAAAAAACAAAATAAAAAATTTTGTCCATAGCAAAACAGCGTCATTTTGTTCAA
*
47138190 ATTGAAATTGCGGCGTTTGAGAA
66 AATGAAATTGCGGCGTTTGAGAA
*
47138213 TAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTCCATAGCAAAACGGCGTCATTTTGTTCA
1 TAAATCAATTTA-AAAAAACAAAATAAAAAATTTTGTCCATAGCAAAACAGCGTCATTTTGTTCA
47138278 AAATGAAAT
65 AAATGAAAT
47138287 AATATTTTGC
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
88 12 0.17
89 58 0.83
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (88 bp):
TAAATCAATTTAAAAAAACAAAATAAAAAATTTTGTCCATAGCAAAACAGCGTCATTTTGTTCAA
AATGAAATTGCGGCGTTTGAGAA
Found at i:47138621 original size:105 final size:108
Alignment explanation
Indices: 47138382--47138646 Score: 392
Period size: 105 Copynumber: 2.5 Consensus size: 108
47138372 ATAAATTATA
* * * * * *
47138382 AAAAAATTTATTTGCATAGCAAAATGGCGCCGTTTTTGTTCAAAATAAAATAGCGGCGTTTTTCG
1 AAAAAATTT-TGTGCATAGCAAAACGGCGTC-ATTTTGTTCAAAATGAAATAGCGGCGTTTTTCC
47138447 TAAAAACGCCGCAAAAAAAGTAAATCAATTTATAAAAAACAAAAT
64 TAAAAACGCCGCAAAAAAAGTAAATCAATTTATAAAAAACAAAAT
* * * *
47138492 AAAAAATTTTGTGCATAGCAAAACGGCATCATTTTGTTCAAATTGAAGTTGCGGCGTTTTTCCTA
1 AAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTTCCTA
*
47138557 GAAACGCCGC-AAAAAA-TAAATCAATTT-TAAAAAACAAAAT
66 AAAACGCCGCAAAAAAAGTAAATCAATTTATAAAAAACAAAAT
47138597 AAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATA
1 AAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATA
47138647 ATATTTTGCG
Statistics
Matches: 140, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
105 59 0.42
106 11 0.08
107 6 0.04
108 38 0.27
109 17 0.12
110 9 0.06
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.28
Consensus pattern (108 bp):
AAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTTTTCCTA
AAAACGCCGCAAAAAAAGTAAATCAATTTATAAAAAACAAAAT
Found at i:47139384 original size:22 final size:22
Alignment explanation
Indices: 47139358--47139407 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
47139348 TGTAAGTTTA
*
47139358 TTTTAGGTCAACTTTGAACCTT
1 TTTTAGGGCAACTTTGAACCTT
47139380 TTTTAGGGCAACTTTGAACCTT
1 TTTTAGGGCAACTTTGAACCTT
47139402 TTTTAG
1 TTTTAG
47139408 TGTAGGCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (22 bp):
TTTTAGGGCAACTTTGAACCTT
Found at i:47141144 original size:30 final size:30
Alignment explanation
Indices: 47141101--47141161 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
47141091 TATAACTTGC
* *
47141101 ATAATTTACATAACTTATAAATTTTTAATAT
1 ATAACTTACATAACTTATAAATATTT-ATAT
*
47141132 ATAACTTA-ATAACTTATTAATATTTATAT
1 ATAACTTACATAACTTATAAATATTTATAT
47141161 A
1 A
47141162 CATTTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 5 0.19
30 15 0.56
31 7 0.26
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (30 bp):
ATAACTTACATAACTTATAAATATTTATAT
Found at i:47141151 original size:23 final size:22
Alignment explanation
Indices: 47141110--47141154 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
47141100 CATAATTTAC
*
47141110 ATAACTTATAAATTTTTAATAT
1 ATAACTTATAAATTATTAATAT
*
47141132 ATAACTTAATAACTTATTAATAT
1 ATAACTT-ATAAATTATTAATAT
47141155 TTATATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAACTTATAAATTATTAATAT
Found at i:47141197 original size:42 final size:42
Alignment explanation
Indices: 47141116--47141198 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
47141106 TTACATAACT
*
47141116 TATAAATTTTTAATATATAACTTAATAACTTATTAATATTTA
1 TATAAATTTTTAATATATAACTTAAAAACTTATTAATATTTA
* *
47141158 TATACATTTTTAATATATATA-TTAAAAATTTA-TATATATTT
1 TATAAATTTTTAATATATA-ACTTAAAAACTTATTA-ATATTT
47141199 TTAATAACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 2 0.06
42 33 0.92
43 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (42 bp):
TATAAATTTTTAATATATAACTTAAAAACTTATTAATATTTA
Found at i:47141202 original size:20 final size:19
Alignment explanation
Indices: 47141170--47141213 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
47141160 TACATTTTTA
*
47141170 ATATATATATTAAAAATTT
1 ATATATATATTAAAAACTT
* *
47141189 ATATATATTTTTAATAACTT
1 ATATATA-TATTAAAAACTT
47141209 ATATA
1 ATATA
47141214 CAACTTTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATATATATTAAAAACTT
Found at i:47141233 original size:9 final size:9
Alignment explanation
Indices: 47141215--47141576 Score: 94
Period size: 9 Copynumber: 41.7 Consensus size: 9
47141205 ACTTATATAC
*
47141215 AACTTTCAT
1 AACTTACAT
47141224 AACTTACAT
1 AACTTACAT
*
47141233 AA-TAACATAAT
1 AACTTAC---AT
47141244 AACTTACAT
1 AACTTACAT
47141253 AA--TACAT
1 AACTTACAT
* *
47141260 AGCCTACAT
1 AACTTACAT
* *
47141269 GACTTGCAT
1 AACTTACAT
*
47141278 AA--TACAC
1 AACTTACAT
47141285 AACTTACAT
1 AACTTACAT
*
47141294 AAATTACAT
1 AACTTACAT
47141303 AA--TACAT
1 AACTTACAT
*
47141310 AACTTTCAT
1 AACTTACAT
47141319 AACTTACAT
1 AACTTACAT
*
47141328 TA--TACAT
1 AACTTACAT
*
47141335 AACTTATA-
1 AACTTACAT
*
47141343 AATCATATCAT
1 AA-CTTA-CAT
*
47141354 AACTTAAAT
1 AACTTACAT
47141363 AAC-T-CA-
1 AACTTACAT
*
47141369 AATTTATCA-
1 AACTTA-CAT
* *
47141378 ATCATATCAT
1 AACTTA-CAT
*
47141388 AACTTATATAT
1 AAC-T-TACAT
47141399 ACACTTACAT
1 A-ACTTACAT
47141409 AA--TACAT
1 AACTTACAT
* *
47141416 AGCCTACAT
1 AACTTACAT
*
47141425 AACTTATAT
1 AACTTACAT
**
47141434 AACTTATGTT
1 AACTTA-CAT
*
47141444 GAC--ACCACT
1 AACTTA-CA-T
* * *
47141453 TACATAAAT
1 AACTTACAT
*
47141462 AACTTGCAT
1 AACTTACAT
47141471 AA--TACAT
1 AACTTACAT
* *
47141478 AGCCTACAT
1 AACTTACAT
*
47141487 AACTTACTT
1 AACTTACAT
47141496 AACTTACAT
1 AACTTACAT
*
47141505 AA--TACAC
1 AACTTACAT
*
47141512 CACTTACAT
1 AACTTACAT
*
47141521 AACTTAAAT
1 AACTTACAT
47141530 AACTTACAT
1 AACTTACAT
*
47141539 AA--TACTT
1 AACTTACAT
47141546 AACTTTA-AT
1 AAC-TTACAT
*
47141555 AA--TACAC
1 AACTTACAT
47141562 AACTTACAT
1 AACTTACAT
47141571 AACTTA
1 AACTTA
47141577 ATTACATTAT
Statistics
Matches: 252, Mismatches: 63, Indels: 76
0.64 0.16 0.19
Matches are distributed among these distances:
6 4 0.02
7 51 0.20
8 7 0.03
9 155 0.62
10 17 0.07
11 11 0.04
12 7 0.03
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:47141245 original size:20 final size:19
Alignment explanation
Indices: 47141222--47141260 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
47141212 TACAACTTTC
47141222 ATAACTTACATAATAACATA
1 ATAACTTACATAAT-ACATA
47141242 ATAACTTACATAATACATA
1 ATAACTTACATAATACATA
47141261 GCCTACATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:47141278 original size:25 final size:25
Alignment explanation
Indices: 47141234--47141337 Score: 111
Period size: 25 Copynumber: 4.2 Consensus size: 25
47141224 AACTTACATA
*
47141234 ATAACATA-ATAACTTACATAATAC
1 ATAACCTACATAACTTACATAATAC
* * *
47141258 ATAGCCTACATGACTTGCATAATAC
1 ATAACCTACATAACTTACATAATAC
* * *
47141283 ACAACTTACATAAATTACATAATAC
1 ATAACCTACATAACTTACATAATAC
* * *
47141308 ATAACTTTCATAACTTACATTATAC
1 ATAACCTACATAACTTACATAATAC
47141333 ATAAC
1 ATAAC
47141338 TTATAAATCA
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
24 6 0.09
25 59 0.91
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (25 bp):
ATAACCTACATAACTTACATAATAC
Found at i:47141506 original size:34 final size:34
Alignment explanation
Indices: 47141457--47141543 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 34
47141447 ACCACTTACA
* *
47141457 TAAATAACTTGCATAATACA-TAGCCTACATAACT
1 TAAATAACTTACATAATACACCA-CCTACATAACT
** *
47141491 TACTTAACTTACATAATACACCACTTACATAACT
1 TAAATAACTTACATAATACACCACCTACATAACT
47141525 TAAATAACTTACATAATAC
1 TAAATAACTTACATAATAC
47141544 TTAACTTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 44 0.98
35 1 0.02
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (34 bp):
TAAATAACTTACATAATACACCACCTACATAACT
Found at i:47141510 original size:25 final size:24
Alignment explanation
Indices: 47141482--47141578 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
47141472 ATACATAGCC
* *
47141482 TACATAACTTACTTAACTTACATAA
1 TACACAACTTACATAACTTA-ATAA
*
47141507 TACACCACTTACATAACTTAAATAA
1 TACACAACTTACATAACTT-AATAA
* *
47141532 CTTACATAA--TACTTAACTTTAATAA
1 --TACACAACTTACATAAC-TTAATAA
47141557 TACACAACTTACATAACTTAAT
1 TACACAACTTACATAACTTAAT
47141579 TACATTATAC
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
23 6 0.10
24 5 0.09
25 39 0.67
26 3 0.05
27 5 0.09
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (24 bp):
TACACAACTTACATAACTTAATAA
Found at i:47141518 original size:16 final size:16
Alignment explanation
Indices: 47141496--47141572 Score: 75
Period size: 16 Copynumber: 4.7 Consensus size: 16
47141486 TAACTTACTT
47141496 AACTTACATAATACAC
1 AACTTACATAATACAC
* * *
47141512 CACTTACATAACTTAAAT
1 AACTTACATAA--TACAC
**
47141530 AACTTACATAATACTT
1 AACTTACATAATACAC
47141546 AACTTTA-ATAATACAC
1 AAC-TTACATAATACAC
47141562 AACTTACATAA
1 AACTTACATAA
47141573 CTTAATTACA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
15 3 0.06
16 30 0.61
17 3 0.06
18 13 0.27
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:47143717 original size:42 final size:43
Alignment explanation
Indices: 47143577--47143730 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 43
47143567 AACGCCTCTA
* * ** * *
47143577 AAAGAACATGACCTTTAGTGGCGTTTGTGGAGAAAGTGCCGCC
1 AAAGAACATGACCTTTAGCGGCGTTTTTTAAGAAAGCGCCGCT
* * **
47143620 AAAGAACATGATCTTTAGCGGCG-TTTGTAAGAAATGCGCCATT
1 AAAGAACATGACCTTTAGCGGCGTTTTTTAAGAAA-GCGCCGCT
* * * ** *
47143663 AAAGACCTTGACCTTTAGTGGCGTTTTTTTTG-TAGCGCCGCT
1 AAAGAACATGACCTTTAGCGGCGTTTTTTAAGAAAGCGCCGCT
47143705 AAAGAACATGACCTTTAGCGGCGTTT
1 AAAGAACATGACCTTTAGCGGCGTTT
47143731 ATAAAAATAA
Statistics
Matches: 86, Mismatches: 23, Indels: 5
0.75 0.20 0.04
Matches are distributed among these distances:
42 36 0.42
43 45 0.52
44 5 0.06
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
AAAGAACATGACCTTTAGCGGCGTTTTTTAAGAAAGCGCCGCT
Found at i:47165637 original size:20 final size:20
Alignment explanation
Indices: 47165608--47165648 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
47165598 AATTTGGATA
47165608 AAAAAGAAAAACCCATCAAT
1 AAAAAGAAAAACCCATCAAT
* *
47165628 AAAAATAAAACCCCATCAAT
1 AAAAAGAAAAACCCATCAAT
47165648 A
1 A
47165649 TATATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.63, C:0.22, G:0.02, T:0.12
Consensus pattern (20 bp):
AAAAAGAAAAACCCATCAAT
Found at i:47169203 original size:39 final size:36
Alignment explanation
Indices: 47169160--47169244 Score: 98
Period size: 39 Copynumber: 2.3 Consensus size: 36
47169150 TGTGGCCCTA
*
47169160 AGATATCACAAGAATCTTCTAATTTTTGCTTTGCTTCTG
1 AGATATCACAAGAATCTTCTAATTTCT--TTTGCTT-TG
* * *
47169199 AGATATCAGATGAATCTTCTGATTTCTTTTGCTTTG
1 AGATATCACAAGAATCTTCTAATTTCTTTTGCTTTG
*
47169235 AGTTATCACA
1 AGATATCACA
47169245 GGCATTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 10 0.25
37 7 0.17
39 23 0.57
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (36 bp):
AGATATCACAAGAATCTTCTAATTTCTTTTGCTTTG
Found at i:47170476 original size:159 final size:159
Alignment explanation
Indices: 47170187--47170508 Score: 626
Period size: 159 Copynumber: 2.0 Consensus size: 159
47170177 GCAAAACTGC
47170187 TAGAGTTGGAGAGACTTGTCAAGTAAAGGTGTAGAAGAATGGGACTGTTTTGCTTACTTTAGCAA
1 TAGAGTTGGAGAGACTTGTCAAGTAAAGGTGTAGAAGAATGGGACTGTTTTGCTTACTTTAGCAA
47170252 TGCTAATGGGGTAATAGAGACATAATCTTACATTTAAGAAATTTATTTTCCTAGTTTTGCTCTCC
66 TGCTAATGGGGTAATAGAGACATAATCTTACATTTAAGAAATTTATTTTCCTAGTTTTGCTCTCC
*
47170317 TATGCAAGCTCGGTTTCTCCAGATCATTT
131 TATGCAAGCTCGGTTTCTACAGATCATTT
47170346 TAGAGTTGGAGAGACTTGTCAAGTAAAGGTGTAGAAGAATGGGACTGTTTTGCTTACTTTAGCAA
1 TAGAGTTGGAGAGACTTGTCAAGTAAAGGTGTAGAAGAATGGGACTGTTTTGCTTACTTTAGCAA
*
47170411 TGCTAATGGGGTAATAGAGACATAATCTTACATTTAAGACATTTATTTTCCTAGTTTTGCTCTCC
66 TGCTAATGGGGTAATAGAGACATAATCTTACATTTAAGAAATTTATTTTCCTAGTTTTGCTCTCC
47170476 TATGCAAGCTCGGTTTCTACAGATCATTT
131 TATGCAAGCTCGGTTTCTACAGATCATTT
47170505 TAGA
1 TAGA
47170509 TGTCGGTTGC
Statistics
Matches: 161, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 161 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (159 bp):
TAGAGTTGGAGAGACTTGTCAAGTAAAGGTGTAGAAGAATGGGACTGTTTTGCTTACTTTAGCAA
TGCTAATGGGGTAATAGAGACATAATCTTACATTTAAGAAATTTATTTTCCTAGTTTTGCTCTCC
TATGCAAGCTCGGTTTCTACAGATCATTT
Found at i:47172224 original size:2 final size:2
Alignment explanation
Indices: 47172217--47172241 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47172207 TTACTACTTC
47172217 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
47172242 TTGGTAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47172271 original size:6 final size:6
Alignment explanation
Indices: 47172260--47172287 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
47172250 GGGAAAAGGA
47172260 TAGGGG TAGGGG TAGGGG TAGGGG TAGG
1 TAGGGG TAGGGG TAGGGG TAGGGG TAGG
47172288 AATTGTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.64, T:0.18
Consensus pattern (6 bp):
TAGGGG
Found at i:47176264 original size:18 final size:18
Alignment explanation
Indices: 47176241--47176280 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
47176231 TAAGTTTTTT
47176241 ATTAAATAAATTT-AATTA
1 ATTAAA-AAATTTAAATTA
*
47176259 ATTAAAAATTTTAAATTA
1 ATTAAAAAATTTAAATTA
47176277 ATTA
1 ATTA
47176281 CACCTTGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAAAAATTTAAATTA
Found at i:47178849 original size:29 final size:30
Alignment explanation
Indices: 47178787--47178860 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
47178777 ACTATAAAAA
**
47178787 TAGTCACTTTTGTTTGCCTCATGTTACATTT
1 TAGTCACTTTTGTTTG-CAAATGTTACATTT
*
47178818 TAGTCACTTTTGTTTG-AAATGTTACGTTT
1 TAGTCACTTTTGTTTGCAAATGTTACATTT
*
47178847 TAGTCACTTATGTT
1 TAGTCACTTTTGTT
47178861 ATTATTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 23 0.59
31 16 0.41
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (30 bp):
TAGTCACTTTTGTTTGCAAATGTTACATTT
Found at i:47179854 original size:16 final size:18
Alignment explanation
Indices: 47179825--47179860 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
47179815 GTTTAAAATT
47179825 TTTAATTAATTAAATTTA
1 TTTAATTAATTAAATTTA
47179843 TTTAATT-A-TAAATTTA
1 TTTAATTAATTAAATTTA
47179859 TT
1 TT
47179861 CTCATCCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 1 0.06
18 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATTAATTAAATTTA
Found at i:47180051 original size:31 final size:29
Alignment explanation
Indices: 47179979--47180052 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
47179969 ACAAAATAAT
* *
47179979 AACATAAGTGACTAAAACGTAATATTTTA
1 AACAAAAGTGACTAAAACGTAATATTGTA
*
47180008 AACATAAGTGACTAAAACGTAACCTGA-TGTA
1 AACAAAAGTGACTAAAACGTAA--T-ATTGTA
*
47180039 AATAAAAGTGACTA
1 AACAAAAGTGACTA
47180053 TTTTTATAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 22 0.56
31 16 0.41
32 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.26
Consensus pattern (29 bp):
AACAAAAGTGACTAAAACGTAATATTGTA
Found at i:47199677 original size:30 final size:31
Alignment explanation
Indices: 47199643--47199720 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
47199633 AAAAAAAACC
47199643 CTAATAGTTCAATAACTT-AATAAAAACTTT
1 CTAATAGTTCAATAACTTAAATAAAAACTTT
* * * *
47199673 CTAATAGATCAGTAATTTAAATGAAAACTTT
1 CTAATAGTTCAATAACTTAAATAAAAACTTT
* *
47199704 CAAATTGTTCAATAACT
1 CTAATAGTTCAATAACT
47199721 ATTTTGTAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 15 0.39
31 23 0.61
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (31 bp):
CTAATAGTTCAATAACTTAAATAAAAACTTT
Found at i:47201808 original size:24 final size:23
Alignment explanation
Indices: 47201761--47201808 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
47201751 TATTTATATA
** *
47201761 TTTTATAATTAATTTTTATGAAT
1 TTTTATAATTAATTTAAATAAAT
47201784 TTTTATAATTAAATTTAAATAAAT
1 TTTTATAATT-AATTTAAATAAAT
47201808 T
1 T
47201809 ATTTGGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTTATAATTAATTTAAATAAAT
Found at i:47206228 original size:4 final size:4
Alignment explanation
Indices: 47206219--47206244 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
47206209 CTGGATCTAC
47206219 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
47206245 ACTCTTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:47211538 original size:16 final size:16
Alignment explanation
Indices: 47211517--47211560 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
47211507 GCATTATTAC
47211517 AGGCTTTATGCCTAGA
1 AGGCTTTATGCCTAGA
47211533 AGGCTTTATGCCTAGA
1 AGGCTTTATGCCTAGA
47211549 AGGCTTTATGCC
1 AGGCTTTATGCC
47211561 GATGTGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (16 bp):
AGGCTTTATGCCTAGA
Found at i:47211675 original size:2 final size:2
Alignment explanation
Indices: 47211668--47211693 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47211658 TGATCATGAA
47211668 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
47211694 TCGGTTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47212017 original size:18 final size:18
Alignment explanation
Indices: 47211994--47212028 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47211984 TGTGCTTAGC
47211994 TAAATT-ATATATTATTAA
1 TAAATTGAT-TATTATTAA
47212012 TAAATTGATTATTATTA
1 TAAATTGATTATTATTA
47212029 TTATTAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TAAATTGATTATTATTAA
Found at i:47212029 original size:21 final size:22
Alignment explanation
Indices: 47211997--47212037 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
47211987 GCTTAGCTAA
47211997 ATTATATATTATTAATAAATTG
1 ATTATATATTATTAATAAATTG
*
47212019 ATTAT-TATTATTATTAAAT
1 ATTATATATTATTAATAAAT
47212038 CATTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
ATTATATATTATTAATAAATTG
Found at i:47213409 original size:457 final size:457
Alignment explanation
Indices: 47212555--47213469 Score: 1776
Period size: 457 Copynumber: 2.0 Consensus size: 457
47212545 TGTGATGTTC
* *
47212555 ATTATATGATTCGGTAAAGGGGTAATGATAAGCATATTGTATATTCGGTCATGATGCTAAATTAT
1 ATTATATGATTCGGTAAAGGGGTAATGATAAGCATATTGTATATTCGGTCAAGAAGCTAAATTAT
47212620 TTAAATTCAAATTAGTAAGATAAATAATGAATATAGTTGAGGTGGTTTGAATGGAAGTTAATTTG
66 TTAAATTCAAATTAGTAAGATAAATAATGAATATAGTTGAGGTGGTTTGAATGGAAGTTAATTTG
*
47212685 GTTGACCGAATATGTATATGTGGTTAATTGATATGGTTATATGTGTATATATTTGTGATATGAGA
131 GTTGACCGAATATGTATATGTGGCTAATTGATATGGTTATATGTGTATATATTTGTGATATGAGA
47212750 AGGATATATTTGGTTCTTGAAATGATATTTGTTTATGCATAATGTTTACCTATTTATATGTTTTG
196 AGGATATATTTGGTTCTTGAAATGATATTTGTTTATGCATAATGTTTACCTATTTATATGTTTTG
47212815 TACGCTGCATGAATAATTTAAGTGTAATCTACAAATATAGTCACTTTTGTTTGCCTCAGGTTACA
261 TACGCTGCATGAATAATTTAAGTGTAATCTACAAATATAGTCACTTTTGTTTGCCTCAGGTTACA
47212880 TTTTAGCCACTTATGTTTGAAATGTTACGTTTTAGTCACTTATGTTATTATTTTATTACGAAGTG
326 TTTTAGCCACTTATGTTTGAAATGTTACGTTTTAGTCACTTATGTTATTATTTTATTACGAAGTG
47212945 ATCACTCTACCGTTAAGTTCCGTTATCTCTCTAACAGTAATCCTATGTGGCAGTCCAACTAGATT
391 ATCACTCTACCGTTAAGTTCCGTTATCTCTCTAACAGTAATCCTATGTGGCAGTCCAACTAGATT
47213010 TT
456 TT
*
47213012 ATTATATGATTTGGTAAAGGGGTAATGATAAGCATATTGTATATTCGGTCAAGAAGCTAAATTAT
1 ATTATATGATTCGGTAAAGGGGTAATGATAAGCATATTGTATATTCGGTCAAGAAGCTAAATTAT
* *
47213077 TTAAATTCAGATTAGTAAGATAAATAATGAATATAGTTGAGGTGGTTTGAATGGAGGTTAATTTG
66 TTAAATTCAAATTAGTAAGATAAATAATGAATATAGTTGAGGTGGTTTGAATGGAAGTTAATTTG
47213142 GTTGACCGAATATGTATATGTGGCTAATTGATATGGTTATATGTGTATATATTTGTGATATGAGA
131 GTTGACCGAATATGTATATGTGGCTAATTGATATGGTTATATGTGTATATATTTGTGATATGAGA
47213207 AGGATATATTTGGTTCTTGAAATGATATTTGTTTATGCATAATGTTTACCTATTTATATGTTTTG
196 AGGATATATTTGGTTCTTGAAATGATATTTGTTTATGCATAATGTTTACCTATTTATATGTTTTG
47213272 TACGCTGCATGAATAATTTAAGTGTAATCTACAAATATAGTCACTTTTGTTTGCCTCAGGTTACA
261 TACGCTGCATGAATAATTTAAGTGTAATCTACAAATATAGTCACTTTTGTTTGCCTCAGGTTACA
47213337 TTTTAGCCACTTATGTTTGAAATGTTACGTTTTAGTCACTTATGTTATTATTTTATTACGAAGTG
326 TTTTAGCCACTTATGTTTGAAATGTTACGTTTTAGTCACTTATGTTATTATTTTATTACGAAGTG
47213402 ATCACTCTACCGTTAAGTTCCGTTATCTCTCTAACAGTAATCCTATGTGGCAGTCCAACTAGATT
391 ATCACTCTACCGTTAAGTTCCGTTATCTCTCTAACAGTAATCCTATGTGGCAGTCCAACTAGATT
47213467 TT
456 TT
47213469 A
1 A
47213470 AGTGCCAATT
Statistics
Matches: 452, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
457 452 1.00
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (457 bp):
ATTATATGATTCGGTAAAGGGGTAATGATAAGCATATTGTATATTCGGTCAAGAAGCTAAATTAT
TTAAATTCAAATTAGTAAGATAAATAATGAATATAGTTGAGGTGGTTTGAATGGAAGTTAATTTG
GTTGACCGAATATGTATATGTGGCTAATTGATATGGTTATATGTGTATATATTTGTGATATGAGA
AGGATATATTTGGTTCTTGAAATGATATTTGTTTATGCATAATGTTTACCTATTTATATGTTTTG
TACGCTGCATGAATAATTTAAGTGTAATCTACAAATATAGTCACTTTTGTTTGCCTCAGGTTACA
TTTTAGCCACTTATGTTTGAAATGTTACGTTTTAGTCACTTATGTTATTATTTTATTACGAAGTG
ATCACTCTACCGTTAAGTTCCGTTATCTCTCTAACAGTAATCCTATGTGGCAGTCCAACTAGATT
TT
Found at i:47214724 original size:9 final size:9
Alignment explanation
Indices: 47214707--47214743 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
47214697 TGAGTTTTCG
47214707 AATTCGAAT
1 AATTCGAAT
*
47214716 AACTCGAAT
1 AATTCGAAT
47214725 AATTCGAAT
1 AATTCGAAT
47214734 AATTCGAAT
1 AATTCGAAT
47214743 A
1 A
47214744 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:47214850 original size:29 final size:30
Alignment explanation
Indices: 47214793--47214850 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
47214783 AACCCTTTTT
* * *
47214793 CTTTTCCCTCAAAACTTTTACTCATTCCCA
1 CTTTCCCCCCAAAACTTTTACTCACTCCCA
47214823 CTTTCCCCCCAAAACTTTTACTC-CTCCC
1 CTTTCCCCCCAAAACTTTTACTCACTCCC
47214851 CCCTCCCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (30 bp):
CTTTCCCCCCAAAACTTTTACTCACTCCCA
Found at i:47214991 original size:30 final size:31
Alignment explanation
Indices: 47214957--47215016 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
47214947 AAACCTTTTA
*
47214957 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
47214987 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
47215017 TCTNNNNNNN
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:47215591 original size:5 final size:5
Alignment explanation
Indices: 47215581--47215606 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47215571 CTCGAAAATT
47215581 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
47215607 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:47218642 original size:3 final size:3
Alignment explanation
Indices: 47218634--47218665 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
47218624 TGTACATTAC
47218634 AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A
47218666 GTGAAACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:47218655 original size:13 final size:13
Alignment explanation
Indices: 47218637--47218663 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47218627 ACATTACAAT
47218637 AATAATAATAATA
1 AATAATAATAATA
47218650 AATAATAATAATA
1 AATAATAATAATA
47218663 A
1 A
47218664 TAGTGAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:47218655 original size:16 final size:16
Alignment explanation
Indices: 47218634--47218665 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47218624 TGTACATTAC
47218634 AATAATAATAATAATA
1 AATAATAATAATAATA
47218650 AATAATAATAATAATA
1 AATAATAATAATAATA
47218666 GTGAAACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:47228866 original size:14 final size:14
Alignment explanation
Indices: 47228847--47228873 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47228837 ATAATTTAAA
47228847 TATATTTTATTATT
1 TATATTTTATTATT
47228861 TATATTTTATTAT
1 TATATTTTATTAT
47228874 AAATACATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATATTTTATTATT
Found at i:47232595 original size:46 final size:46
Alignment explanation
Indices: 47232542--47232681 Score: 244
Period size: 46 Copynumber: 3.0 Consensus size: 46
47232532 CCATGGCAAA
*
47232542 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
*
47232588 TTGTGAAAAGTAGATATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
47232634 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
47232680 TT
1 TT
47232682 ATAGCATTGT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:47232617 original size:24 final size:24
Alignment explanation
Indices: 47232544--47232618 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
47232534 ATGGCAAATT
*
47232544 GTGAAAAGTAGGTATGGTGTTTCA
1 GTGAAAAGTAGATATGGTGTTTCA
* * * *
47232568 GTGAAGAA-AACCATATTGAG-TT--
1 GTGAA-AAGTA-GATATGGTGTTTCA
47232590 GTGAAAAGTAGATATGGTGTTTCA
1 GTGAAAAGTAGATATGGTGTTTCA
47232614 GTGAA
1 GTGAA
47232619 GAAAACCATA
Statistics
Matches: 36, Mismatches: 9, Indels: 12
0.63 0.16 0.21
Matches are distributed among these distances:
21 8 0.22
22 8 0.22
24 13 0.36
25 7 0.19
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (24 bp):
GTGAAAAGTAGATATGGTGTTTCA
Found at i:47235622 original size:906 final size:906
Alignment explanation
Indices: 47233950--47235761 Score: 3624
Period size: 906 Copynumber: 2.0 Consensus size: 906
47233940 TTTTTAGGGA
47233950 AATATTGAATAAGCGTGAGTGAATTAATTTTAAAAGCAAATTTTTATGCTCTGAACTAGTAAGTT
1 AATATTGAATAAGCGTGAGTGAATTAATTTTAAAAGCAAATTTTTATGCTCTGAACTAGTAAGTT
47234015 AAGTCAGGTAATGCCTCGTGCTCGACTCCGGCAACGGTCTCGGGTAAGGGGTGTTACAATCATTT
66 AAGTCAGGTAATGCCTCGTGCTCGACTCCGGCAACGGTCTCGGGTAAGGGGTGTTACAATCATTT
47234080 TCAGTTCTAAAATAGACATTGAAGAGGTTTTAGGCTGGTTTTTCAATTTGTGCTTCTTGTAAGTT
131 TCAGTTCTAAAATAGACATTGAAGAGGTTTTAGGCTGGTTTTTCAATTTGTGCTTCTTGTAAGTT
47234145 CAATTCTTACCCGTTTCTTATAATTTTTATGTTTTTGTGATTGTTACAATTAGGTCCAATTAACC
196 CAATTCTTACCCGTTTCTTATAATTTTTATGTTTTTGTGATTGTTACAATTAGGTCCAATTAACC
47234210 TTTACCTTAGTTTTTGATTTTATTGAAAATCTTGGAAGTTACCATTGATGTGTTCATATGATTTT
261 TTTACCTTAGTTTTTGATTTTATTGAAAATCTTGGAAGTTACCATTGATGTGTTCATATGATTTT
47234275 AGTTATTAGATGATGAATTTGAGATGTTGATGAGTATTTAAAAGTATTTTATTAAATAATTTTGA
326 AGTTATTAGATGATGAATTTGAGATGTTGATGAGTATTTAAAAGTATTTTATTAAATAATTTTGA
47234340 TGAAAACATGATTTAGGGATTAAATTGAAAAGATGTTCATTTTATGGTAAATTCTAAATTTTATG
391 TGAAAACATGATTTAGGGATTAAATTGAAAAGATGTTCATTTTATGGTAAATTCTAAATTTTATG
47234405 GAATTCATGGGTTTCTAATGTTATATATGAAAATTTCTAGGCTTGGAATGAAGATTAAATTTCAT
456 GAATTCATGGGTTTCTAATGTTATATATGAAAATTTCTAGGCTTGGAATGAAGATTAAATTTCAT
47234470 GAATTTCATTTTCCGAGCCTAGGGACGAAATCGAGATTAATTAAACGTATAAAGGCAAAATAGTA
521 GAATTTCATTTTCCGAGCCTAGGGACGAAATCGAGATTAATTAAACGTATAAAGGCAAAATAGTA
47234535 ATTTTGCCTAAGGTGTGAATTAGATTGAAATGAATGTAAATTGTATTAAATTGATGCTACTTCAT
586 ATTTTGCCTAAGGTGTGAATTAGATTGAAATGAATGTAAATTGTATTAAATTGATGCTACTTCAT
47234600 TCATATAGATCTGGATAGACCAAATACGGAGTTAGATCGAGGAAAAGAAATGGTGTCGGATTAGT
651 TCATATAGATCTGGATAGACCAAATACGGAGTTAGATCGAGGAAAAGAAATGGTGTCGGATTAGT
47234665 AAATTTTGCATACACGAATATTGTCGAGGTAAGTTCATGTAACTAAATTGTATATTTATATTTTT
716 AAATTTTGCATACACGAATATTGTCGAGGTAAGTTCATGTAACTAAATTGTATATTTATATTTTT
47234730 GAATTGAATGTTGTGTATGTGAATTAAATTGTGTAATTGACATGTATGAAAATTGAACACACATC
781 GAATTGAATGTTGTGTATGTGAATTAAATTGTGTAATTGACATGTATGAAAATTGAACACACATC
47234795 CAAATATATATGACAAGTATTAAGTCCCGTTTGAATAAATGAATTCGATGGATACAGGGTT
846 CAAATATATATGACAAGTATTAAGTCCCGTTTGAATAAATGAATTCGATGGATACAGGGTT
47234856 AATATTGAATAAGCGTGAGTGAATTAATTTTAAAAGCAAATTTTTATGCTCTGAACTAGTAAGTT
1 AATATTGAATAAGCGTGAGTGAATTAATTTTAAAAGCAAATTTTTATGCTCTGAACTAGTAAGTT
47234921 AAGTCAGGTAATGCCTCGTGCTCGACTCCGGCAACGGTCTCGGGTAAGGGGTGTTACAATCATTT
66 AAGTCAGGTAATGCCTCGTGCTCGACTCCGGCAACGGTCTCGGGTAAGGGGTGTTACAATCATTT
47234986 TCAGTTCTAAAATAGACATTGAAGAGGTTTTAGGCTGGTTTTTCAATTTGTGCTTCTTGTAAGTT
131 TCAGTTCTAAAATAGACATTGAAGAGGTTTTAGGCTGGTTTTTCAATTTGTGCTTCTTGTAAGTT
47235051 CAATTCTTACCCGTTTCTTATAATTTTTATGTTTTTGTGATTGTTACAATTAGGTCCAATTAACC
196 CAATTCTTACCCGTTTCTTATAATTTTTATGTTTTTGTGATTGTTACAATTAGGTCCAATTAACC
47235116 TTTACCTTAGTTTTTGATTTTATTGAAAATCTTGGAAGTTACCATTGATGTGTTCATATGATTTT
261 TTTACCTTAGTTTTTGATTTTATTGAAAATCTTGGAAGTTACCATTGATGTGTTCATATGATTTT
47235181 AGTTATTAGATGATGAATTTGAGATGTTGATGAGTATTTAAAAGTATTTTATTAAATAATTTTGA
326 AGTTATTAGATGATGAATTTGAGATGTTGATGAGTATTTAAAAGTATTTTATTAAATAATTTTGA
47235246 TGAAAACATGATTTAGGGATTAAATTGAAAAGATGTTCATTTTATGGTAAATTCTAAATTTTATG
391 TGAAAACATGATTTAGGGATTAAATTGAAAAGATGTTCATTTTATGGTAAATTCTAAATTTTATG
47235311 GAATTCATGGGTTTCTAATGTTATATATGAAAATTTCTAGGCTTGGAATGAAGATTAAATTTCAT
456 GAATTCATGGGTTTCTAATGTTATATATGAAAATTTCTAGGCTTGGAATGAAGATTAAATTTCAT
47235376 GAATTTCATTTTCCGAGCCTAGGGACGAAATCGAGATTAATTAAACGTATAAAGGCAAAATAGTA
521 GAATTTCATTTTCCGAGCCTAGGGACGAAATCGAGATTAATTAAACGTATAAAGGCAAAATAGTA
47235441 ATTTTGCCTAAGGTGTGAATTAGATTGAAATGAATGTAAATTGTATTAAATTGATGCTACTTCAT
586 ATTTTGCCTAAGGTGTGAATTAGATTGAAATGAATGTAAATTGTATTAAATTGATGCTACTTCAT
47235506 TCATATAGATCTGGATAGACCAAATACGGAGTTAGATCGAGGAAAAGAAATGGTGTCGGATTAGT
651 TCATATAGATCTGGATAGACCAAATACGGAGTTAGATCGAGGAAAAGAAATGGTGTCGGATTAGT
47235571 AAATTTTGCATACACGAATATTGTCGAGGTAAGTTCATGTAACTAAATTGTATATTTATATTTTT
716 AAATTTTGCATACACGAATATTGTCGAGGTAAGTTCATGTAACTAAATTGTATATTTATATTTTT
47235636 GAATTGAATGTTGTGTATGTGAATTAAATTGTGTAATTGACATGTATGAAAATTGAACACACATC
781 GAATTGAATGTTGTGTATGTGAATTAAATTGTGTAATTGACATGTATGAAAATTGAACACACATC
47235701 CAAATATATATGACAAGTATTAAGTCCCGTTTGAATAAATGAATTCGATGGATACAGGGTT
846 CAAATATATATGACAAGTATTAAGTCCCGTTTGAATAAATGAATTCGATGGATACAGGGTT
47235762 CCCAAATGGA
Statistics
Matches: 906, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
906 906 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (906 bp):
AATATTGAATAAGCGTGAGTGAATTAATTTTAAAAGCAAATTTTTATGCTCTGAACTAGTAAGTT
AAGTCAGGTAATGCCTCGTGCTCGACTCCGGCAACGGTCTCGGGTAAGGGGTGTTACAATCATTT
TCAGTTCTAAAATAGACATTGAAGAGGTTTTAGGCTGGTTTTTCAATTTGTGCTTCTTGTAAGTT
CAATTCTTACCCGTTTCTTATAATTTTTATGTTTTTGTGATTGTTACAATTAGGTCCAATTAACC
TTTACCTTAGTTTTTGATTTTATTGAAAATCTTGGAAGTTACCATTGATGTGTTCATATGATTTT
AGTTATTAGATGATGAATTTGAGATGTTGATGAGTATTTAAAAGTATTTTATTAAATAATTTTGA
TGAAAACATGATTTAGGGATTAAATTGAAAAGATGTTCATTTTATGGTAAATTCTAAATTTTATG
GAATTCATGGGTTTCTAATGTTATATATGAAAATTTCTAGGCTTGGAATGAAGATTAAATTTCAT
GAATTTCATTTTCCGAGCCTAGGGACGAAATCGAGATTAATTAAACGTATAAAGGCAAAATAGTA
ATTTTGCCTAAGGTGTGAATTAGATTGAAATGAATGTAAATTGTATTAAATTGATGCTACTTCAT
TCATATAGATCTGGATAGACCAAATACGGAGTTAGATCGAGGAAAAGAAATGGTGTCGGATTAGT
AAATTTTGCATACACGAATATTGTCGAGGTAAGTTCATGTAACTAAATTGTATATTTATATTTTT
GAATTGAATGTTGTGTATGTGAATTAAATTGTGTAATTGACATGTATGAAAATTGAACACACATC
CAAATATATATGACAAGTATTAAGTCCCGTTTGAATAAATGAATTCGATGGATACAGGGTT
Found at i:47235970 original size:26 final size:26
Alignment explanation
Indices: 47235935--47236032 Score: 114
Period size: 26 Copynumber: 3.8 Consensus size: 26
47235925 ATAGCTCTTA
*
47235935 TGAGCGTCCCGATATATGGCTCTTCG
1 TGAGCTTCCCGATATATGGCTCTTCG
* *
47235961 TGAGCTTCCCGAGTA-AAGGCTCTTTG
1 TGAGCTTCCCGA-TATATGGCTCTTCG
*
47235987 TGAGCTTCCAGAT-TAATGGCTCTTCG
1 TGAGCTTCCCGATAT-ATGGCTCTTCG
47236013 -GAGCTTCCCGATAT-TGGCTC
1 TGAGCTTCCCGATATATGGCTC
47236033 GCTTGAACCT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
24 6 0.10
25 12 0.20
26 41 0.67
27 2 0.03
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.32
Consensus pattern (26 bp):
TGAGCTTCCCGATATATGGCTCTTCG
Found at i:47251707 original size:71 final size:71
Alignment explanation
Indices: 47251574--47251708 Score: 182
Period size: 71 Copynumber: 1.9 Consensus size: 71
47251564 AGTAGATTGC
* *
47251574 TTCCTCGTTGATTCAATCCATAGCCCTCATTAAGGCTCAATCCAAGTCATAACATGGAAAGGAAA
1 TTCCTCATTGATTCAATCCATAGCCCTCATTAAGGCTCAATCCAAGTCATAACATAGAAAGGAAA
47251639 AGATTA
66 AGATTA
* * ** * *
47251645 TTCCTCATTGATTCAATCCATTGCTCTTGTTAAGGCTCAATTCAAGTCATATGCATAG-AAGGAA
1 TTCCTCATTGATTCAATCCATAGCCCTCATTAAGGCTCAATCCAAGTCATA-ACATAGAAAGGAA
47251709 CATTATAATC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 51 0.93
72 4 0.07
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (71 bp):
TTCCTCATTGATTCAATCCATAGCCCTCATTAAGGCTCAATCCAAGTCATAACATAGAAAGGAAA
AGATTA
Found at i:47254458 original size:3 final size:3
Alignment explanation
Indices: 47254450--47254507 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
47254440 NNCCTTTTTA
47254450 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
47254498 TAT TAT TAT T
1 TAT TAT TAT T
47254508 GTGGGTTTAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:47255295 original size:18 final size:20
Alignment explanation
Indices: 47255269--47255305 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
47255259 TTTTAATTTT
47255269 ATTAATATA-ATA-TTTTAC
1 ATTAATATAGATAGTTTTAC
*
47255287 ATTATTATAGATAGTTTTA
1 ATTAATATAGATAGTTTTA
47255306 GATAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 3 0.19
20 5 0.31
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTAATATAGATAGTTTTAC
Found at i:47256125 original size:6 final size:7
Alignment explanation
Indices: 47256099--47256123 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47256089 TATATATTTT
47256099 TTTTTAA
1 TTTTTAA
47256106 TTTTTAA
1 TTTTTAA
47256113 TTTTTAA
1 TTTTTAA
47256120 TTTT
1 TTTT
47256124 AAAATACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:47259785 original size:24 final size:25
Alignment explanation
Indices: 47259742--47259788 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
47259732 AGTTCAGATA
47259742 ATTTCACTTCACTTCGATTCAATTC
1 ATTTCACTTCACTTCGATTCAATTC
**
47259767 ATTTCA-TTCACTTTTATTCAAT
1 ATTTCACTTCACTTCGATTCAAT
47259789 GCAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.26, C:0.23, G:0.02, T:0.49
Consensus pattern (25 bp):
ATTTCACTTCACTTCGATTCAATTC
Found at i:47259830 original size:14 final size:14
Alignment explanation
Indices: 47259811--47259839 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47259801 TACTCACCTC
47259811 AATTTCACTTACCA
1 AATTTCACTTACCA
47259825 AATTTCACTTACCA
1 AATTTCACTTACCA
47259839 A
1 A
47259840 GTACTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTTCACTTACCA
Found at i:47260727 original size:5 final size:5
Alignment explanation
Indices: 47260706--47260773 Score: 61
Period size: 5 Copynumber: 13.4 Consensus size: 5
47260696 TTACTTTATT
*
47260706 TAATA TATATAA TAATA TAATA TAATA TAAT- TAATA TAATTTA TTATA
1 TAATA TA-AT-A TAATA TAATA TAATA TAATA TAATA TAA--TA TAATA
*
47260754 TTATA TAATA -AA-A TAATA TA
1 TAATA TAATA TAATA TAATA TA
47260774 CATAACATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
3 1 0.02
4 8 0.15
5 34 0.63
6 4 0.07
7 7 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TAATA
Found at i:47260740 original size:31 final size:29
Alignment explanation
Indices: 47260705--47260778 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
47260695 TTTACTTTAT
47260705 TTAATATATATAATAATATAATATAATATAA
1 TTAATATA-ATAATAATATAATATAATA-AA
* * *
47260736 TTAATATAATTTATTATATTATATAATAAA
1 TTAATATAA-TAATAATATAATATAATAAA
*
47260766 ATAATATACATAA
1 TTAATATA-ATAA
47260779 CATAAAAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 12 0.33
31 24 0.67
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (29 bp):
TTAATATAATAATAATATAATATAATAAA
Found at i:47276075 original size:6 final size:6
Alignment explanation
Indices: 47276064--47276091 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
47276054 TTATGCAACA
47276064 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
47276092 TCTTAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTCC
Found at i:47290449 original size:83 final size:83
Alignment explanation
Indices: 47290310--47290807 Score: 960
Period size: 83 Copynumber: 6.0 Consensus size: 83
47290300 AAAGAAGTAA
47290310 GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAAGAAAACCTGAATTACCCTGTAGGCATTGAG
1 GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAAGAAAACCTGAATTACCCTGTAGGCATTGAG
47290375 TTCGCTCTCGAGTTTATC
66 TTCGCTCTCGAGTTTATC
* *
47290393 GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAACAAAAACTGAATTACCCTGTAGGCATTGAG
1 GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAAGAAAACCTGAATTACCCTGTAGGCATTGAG
47290458 TTCGCTCTCGAGTTTATC
66 TTCGCTCTCGAGTTTATC
* *
47290476 GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAACAAAAACTGAATTACCCTGTAGGCATTGAG
1 GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAAGAAAACCTGAATTACCCTGTAGGCATTGAG
47290541 TTCGCTCTCGAGTTTATC
66 TTCGCTCTCGAGTTTATC
47290559 GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAAGAAAACCTGAATTACCCTGTAGGCATTGAG
1 GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAAGAAAACCTGAATTACCCTGTAGGCATTGAG
47290624 TTCGCTCTCGAGTTTATC
66 TTCGCTCTCGAGTTTATC
47290642 GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAAGAAAACCTGAATTACCCTGTAGGCATTGAG
1 GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAAGAAAACCTGAATTACCCTGTAGGCATTGAG
47290707 TTCGCTCTCGAGTTTATC
66 TTCGCTCTCGAGTTTATC
47290725 GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAAGAAAACCTGAATTACCCTGTAGGCATTGAG
1 GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAAGAAAACCTGAATTACCCTGTAGGCATTGAG
47290790 TTCGCTCTCGAGTTTATC
66 TTCGCTCTCGAGTTTATC
47290808 TTTCCTTTGG
Statistics
Matches: 411, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 411 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (83 bp):
GCCCTAACTAGTTTCTAGAAAATAATTTGAAGTAAGAAAACCTGAATTACCCTGTAGGCATTGAG
TTCGCTCTCGAGTTTATC
Found at i:47315318 original size:12 final size:12
Alignment explanation
Indices: 47315301--47315326 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47315291 AATCTGAGAA
47315301 CATTTTTTGCCT
1 CATTTTTTGCCT
47315313 CATTTTTTGCCT
1 CATTTTTTGCCT
47315325 CA
1 CA
47315327 GCCCAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.27, G:0.08, T:0.54
Consensus pattern (12 bp):
CATTTTTTGCCT
Found at i:47315565 original size:125 final size:125
Alignment explanation
Indices: 47315338--47315625 Score: 443
Period size: 125 Copynumber: 2.3 Consensus size: 125
47315328 CCCAAACATG
*
47315338 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAGTATTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAGTATTTCTGATAAAACATCCTGC
* * * *
47315403 CTGGAGCATTTTTTATACTATTTTCTCAGAAATGTCAACTTGAAATTATTTTTTCAGAAC
66 CTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGAAC
* * *
47315463 CTACTGTAGCAAAAGCGCGTCCACGTGAGAGCGATTTCAGAAATTCTTT-TGATAAAACATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCA-AAAGTATTTCTGATAAAACATCCTG
* * *
47315527 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CCTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGAAC
* *
47315588 CTACTGTATCAAAAACGCGTCCACGTGGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
47315626 CTTAATAGAT
Statistics
Matches: 148, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
125 141 0.95
126 7 0.05
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAGTATTTCTGATAAAACATCCTGC
CTGAAGCATTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGAAC
Found at i:47316133 original size:18 final size:18
Alignment explanation
Indices: 47316112--47316160 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
47316102 AATTTAAAAT
47316112 AAAAAATTAATTACTATA
1 AAAAAATTAATTACTATA
* * *
47316130 AAAAAATTCA-TAGTTTA
1 AAAAAATTAATTACTATA
*
47316147 AAAATATTAATTAC
1 AAAAAATTAATTAC
47316161 AATTAATTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAAAATTAATTACTATA
Found at i:47316628 original size:24 final size:24
Alignment explanation
Indices: 47316600--47316654 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
47316590 AACTTCCATA
* *
47316600 ATTTTTAGTATAATTTATTTATT-T
1 ATTTTTAATATAAATT-TTTATTAT
47316624 ATTTTTAATATAAATTTTTATTAT
1 ATTTTTAATATAAATTTTTATTAT
*
47316648 AATTTTA
1 ATTTTTA
47316655 TAAAATACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
ATTTTTAATATAAATTTTTATTAT
Found at i:47316642 original size:13 final size:12
Alignment explanation
Indices: 47316597--47316653 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
47316587 TCTAACTTCC
*
47316597 ATAATTTTTAGT
1 ATAATTTTTAAT
*
47316609 ATAATTTATTTAT
1 ATAATTT-TTAAT
*
47316622 -TTATTTTTAAT
1 ATAATTTTTAAT
*
47316633 ATAAATTTTTATT
1 AT-AATTTTTAAT
47316646 ATAATTTT
1 ATAATTTT
47316654 ATAAAATACA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
11 4 0.11
12 19 0.53
13 13 0.36
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (12 bp):
ATAATTTTTAAT
Found at i:47316855 original size:152 final size:152
Alignment explanation
Indices: 47316676--47316975 Score: 600
Period size: 152 Copynumber: 2.0 Consensus size: 152
47316666 TAATTATAGT
47316676 TATTGTTGAAACCTCTTTTTAAAATAAAAAGCGTTTCGACTTTTATTTTGAAAATAAAAAGAATG
1 TATTGTTGAAACCTCTTTTTAAAATAAAAAGCGTTTCGACTTTTATTTTGAAAATAAAAAGAATG
47316741 GGAGTCGCCACCGACATTTTTTTGAGGTGTGATCGGATCACCTTGGATAATTTTTAATTTGATCG
66 GGAGTCGCCACCGACATTTTTTTGAGGTGTGATCGGATCACCTTGGATAATTTTTAATTTGATCG
47316806 TCCCGATTTCGGAAAAGATAAA
131 TCCCGATTTCGGAAAAGATAAA
47316828 TATTGTTGAAACCTCTTTTTAAAATAAAAAGCGTTTCGACTTTTATTTTGAAAATAAAAAGAATG
1 TATTGTTGAAACCTCTTTTTAAAATAAAAAGCGTTTCGACTTTTATTTTGAAAATAAAAAGAATG
47316893 GGAGTCGCCACCGACATTTTTTTGAGGTGTGATCGGATCACCTTGGATAATTTTTAATTTGATCG
66 GGAGTCGCCACCGACATTTTTTTGAGGTGTGATCGGATCACCTTGGATAATTTTTAATTTGATCG
47316958 TCCCGATTTCGGAAAAGA
131 TCCCGATTTCGGAAAAGA
47316976 GATTATATCT
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 148 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.36
Consensus pattern (152 bp):
TATTGTTGAAACCTCTTTTTAAAATAAAAAGCGTTTCGACTTTTATTTTGAAAATAAAAAGAATG
GGAGTCGCCACCGACATTTTTTTGAGGTGTGATCGGATCACCTTGGATAATTTTTAATTTGATCG
TCCCGATTTCGGAAAAGATAAA
Found at i:47317261 original size:17 final size:17
Alignment explanation
Indices: 47317239--47317282 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
47317229 TGATAATGTA
47317239 CAAAAAAATATATAAAT
1 CAAAAAAATATATAAAT
*
47317256 C-AAAAAATGGTATAAAT
1 CAAAAAAAT-ATATAAAT
*
47317273 TAAAAAAATA
1 CAAAAAAATA
47317283 GTATTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 7 0.32
17 8 0.36
18 7 0.32
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (17 bp):
CAAAAAAATATATAAAT
Found at i:47317444 original size:22 final size:23
Alignment explanation
Indices: 47317416--47317459 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
47317406 AACTATATAA
47317416 AATAATAGATG-GAAATTAAAAT
1 AATAATAGATGAGAAATTAAAAT
* *
47317438 AATAATATATGATAAATTAAAA
1 AATAATAGATGAGAAATTAAAA
47317460 AAAGTAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (23 bp):
AATAATAGATGAGAAATTAAAAT
Found at i:47317532 original size:24 final size:24
Alignment explanation
Indices: 47317431--47317564 Score: 107
Period size: 24 Copynumber: 5.5 Consensus size: 24
47317421 TAGATGGAAA
*
47317431 TTAAAATAATAATATATGATAAA-
1 TTAAAATAATAATACATGATAAAC
*
47317454 TTAAAAAAAGTAATTACACATGA-AAAC
1 TTAAAATAA-TAA-T--ACATGATAAAC
*
47317481 TTAGAATAATAATACAT-ATAAAAC
1 TTAAAATAATAATACATGAT-AAAC
*
47317505 TTAAAATAATAATACATGATGAA-
1 TTAAAATAATAATACATGATAAAC
* *
47317528 TTTAAATACCA-AATACATGATAAAT
1 TTAAAATA--ATAATACATGATAAAC
47317553 TTAAAAATAATA
1 TT-AAAATAATA
47317565 TTAAGCTTAA
Statistics
Matches: 89, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
22 1 0.01
23 19 0.21
24 38 0.43
25 8 0.09
26 11 0.12
27 12 0.13
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (24 bp):
TTAAAATAATAATACATGATAAAC
Found at i:47317605 original size:24 final size:24
Alignment explanation
Indices: 47317548--47317605 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 24
47317538 AAATACATGA
*
47317548 TAAATTTAAAAATAATATTAAGCT
1 TAAAATTAAAAATAATATTAAGCT
* *
47317572 TAAACA-TAAAAATAATGTT-AGATT
1 TAAA-ATTAAAAATAATATTAAG-CT
47317596 TAAAATTAAA
1 TAAAATTAAA
47317606 CGCATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (24 bp):
TAAAATTAAAAATAATATTAAGCT
Found at i:47318461 original size:19 final size:19
Alignment explanation
Indices: 47318438--47318498 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
47318428 TCGATTTTTA
47318438 TTTTTCCTTTATTTTTTCTG
1 TTTTT-CTTTATTTTTTCTG
* *
47318458 TTTTTCTATATTTCTTC-G
1 TTTTTCTTTATTTTTTCTG
*
47318476 TTTCTTCTTTTTTCTTTTCTG
1 TTT-TTCTTTATT-TTTTCTG
47318497 TT
1 TT
47318499 ATTGTTGCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 4 0.12
19 17 0.52
20 9 0.27
21 3 0.09
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTTCTTTATTTTTTCTG
Found at i:47318734 original size:22 final size:22
Alignment explanation
Indices: 47318708--47318751 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
47318698 AATTGGGCTG
47318708 GTATTGGGCTATTTGGGTTAAT
1 GTATTGGGCTATTTGGGTTAAT
47318730 GTATTGGGCTATTTGGGTTAAT
1 GTATTGGGCTATTTGGGTTAAT
47318752 AGATATTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.05, G:0.32, T:0.45
Consensus pattern (22 bp):
GTATTGGGCTATTTGGGTTAAT
Found at i:47319228 original size:6 final size:7
Alignment explanation
Indices: 47319209--47319239 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
47319199 AAATTTTTAT
47319209 ATAAAAA
1 ATAAAAA
47319216 ATAAAAA
1 ATAAAAA
47319223 ATAAAAA
1 ATAAAAA
47319230 ATAAAAA
1 ATAAAAA
47319237 ATA
1 ATA
47319240 TTAACCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
ATAAAAA
Found at i:47319346 original size:7 final size:7
Alignment explanation
Indices: 47319332--47319362 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
47319322 AAATTTTTAT
47319332 ATAAAAA
1 ATAAAAA
*
47319339 AAAAAAA
1 ATAAAAA
47319346 ATAAAAA
1 ATAAAAA
47319353 ATAAAAA
1 ATAAAAA
47319360 ATA
1 ATA
47319363 TTAACCACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
ATAAAAA
Found at i:47319352 original size:123 final size:125
Alignment explanation
Indices: 47319121--47319376 Score: 480
Period size: 123 Copynumber: 2.1 Consensus size: 125
47319111 TTTGGTCTCA
47319121 AAAATAAATTTAATATTTTGTTCAAACTCGACCCGAATAAAAATATTAAAACTAGGTCTAATTTG
1 AAAATAAATTTAATATTTTGTTCAAACTCGACCCGAATAAAAATATTAAAACTAGGTCTAATTTG
*
47319186 ATATGCATGTATTAAATTTTTATATAAAAAATAAAAAATAAAAAATAAAAAATATTAACC
66 ATATGCATGTATTAAATTTTTATATAAAAAAAAAAAAATAAAAAATAAAAAATATTAACC
47319246 AAAATAAA-TT-ATATTTTGTTCAAACTCGACCCGAATAAAAATATTAAAACTAGGTCTAATTTG
1 AAAATAAATTTAATATTTTGTTCAAACTCGACCCGAATAAAAATATTAAAACTAGGTCTAATTTG
47319309 ATATGCATGTATTAAATTTTTATATAAAAAAAAAAAAATAAAAAATAAAAAATATTAACC
66 ATATGCATGTATTAAATTTTTATATAAAAAAAAAAAAATAAAAAATAAAAAATATTAACC
*
47319369 ACAATAAA
1 AAAATAAA
47319377 AACATTAAAA
Statistics
Matches: 129, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
123 119 0.92
124 2 0.02
125 8 0.06
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (125 bp):
AAAATAAATTTAATATTTTGTTCAAACTCGACCCGAATAAAAATATTAAAACTAGGTCTAATTTG
ATATGCATGTATTAAATTTTTATATAAAAAAAAAAAAATAAAAAATAAAAAATATTAACC
Found at i:47320696 original size:7 final size:8
Alignment explanation
Indices: 47320672--47320704 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
47320662 TTTAAATATA
47320672 TTAATTTTT
1 TTAA-TTTT
47320681 TTAATTTT
1 TTAATTTT
47320689 TTAATTTT
1 TTAATTTT
47320697 TTAATTTT
1 TTAATTTT
47320705 AATCTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 20 0.83
9 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTAATTTT
Found at i:47323840 original size:16 final size:16
Alignment explanation
Indices: 47323819--47323858 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
47323809 CGTTTGGTTC
47323819 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
47323835 GCTGTAACGGAATAGA
1 GCTGTAATGGAATAGA
*
47323851 GTTGTAAT
1 GCTGTAAT
47323859 TCAATTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:47325456 original size:22 final size:23
Alignment explanation
Indices: 47325428--47325471 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
47325418 AACTATATAA
47325428 AATAATAGATG-GAAATTAAAAT
1 AATAATAGATGAGAAATTAAAAT
* *
47325450 AATAATATATGATAAATTAAAA
1 AATAATAGATGAGAAATTAAAA
47325472 AAAGTAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (23 bp):
AATAATAGATGAGAAATTAAAAT
Found at i:47325472 original size:24 final size:24
Alignment explanation
Indices: 47325443--47325576 Score: 107
Period size: 24 Copynumber: 5.5 Consensus size: 24
47325433 TAGATGGAAA
*
47325443 TTAAAATAATAATATATGATAAA-
1 TTAAAATAATAATACATGATAAAC
*
47325466 TTAAAAAAAGTAATTACACATGA-AAAC
1 TTAAAATAA-TAA-T--ACATGATAAAC
*
47325493 TTAGAATAATAATACAT-ATAAAAC
1 TTAAAATAATAATACATGAT-AAAC
*
47325517 TTAAAATAATAATACATGATGAA-
1 TTAAAATAATAATACATGATAAAC
* *
47325540 TTTAAATACCA-AATACATGATAAAT
1 TTAAAATA--ATAATACATGATAAAC
47325565 TTAAAAATAATA
1 TT-AAAATAATA
47325577 TTAAGCTTAA
Statistics
Matches: 89, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
22 1 0.01
23 19 0.21
24 38 0.43
25 8 0.09
26 11 0.12
27 12 0.13
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (24 bp):
TTAAAATAATAATACATGATAAAC
Found at i:47325617 original size:24 final size:24
Alignment explanation
Indices: 47325560--47325617 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 24
47325550 AAATACATGA
*
47325560 TAAATTTAAAAATAATATTAAGCT
1 TAAAATTAAAAATAATATTAAGCT
* *
47325584 TAAACA-TAAAAATAATGTT-AGATT
1 TAAA-ATTAAAAATAATATTAAG-CT
47325608 TAAAATTAAA
1 TAAAATTAAA
47325618 CGCATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (24 bp):
TAAAATTAAAAATAATATTAAGCT
Found at i:47326439 original size:131 final size:131
Alignment explanation
Indices: 47326301--47326562 Score: 524
Period size: 131 Copynumber: 2.0 Consensus size: 131
47326291 AAGAAAAGCA
47326301 ACGAAAAAAAAACTCCAGTCACCTTTAGAAAAAATTCTGATTTGCCTCTTAACTTTCTTTTTTTT
1 ACGAAAAAAAAACTCCAGTCACCTTTAGAAAAAATTCTGATTTGCCTCTTAACTTTCTTTTTTTT
47326366 TTGAAGTTTTTTTCTATTGATTTCGTATCCCCCAAAACAATACAGAAATAGGGCTTTTATAGCCC
66 TTGAAGTTTTTTTCTATTGATTTCGTATCCCCCAAAACAATACAGAAATAGGGCTTTTATAGCCC
47326431 C
131 C
47326432 ACGAAAAAAAAACTCCAGTCACCTTTAGAAAAAATTCTGATTTGCCTCTTAACTTTCTTTTTTTT
1 ACGAAAAAAAAACTCCAGTCACCTTTAGAAAAAATTCTGATTTGCCTCTTAACTTTCTTTTTTTT
47326497 TTGAAGTTTTTTTCTATTGATTTCGTATCCCCCAAAACAATACAGAAATAGGGCTTTTATAGCCC
66 TTGAAGTTTTTTTCTATTGATTTCGTATCCCCCAAAACAATACAGAAATAGGGCTTTTATAGCCC
47326562 C
131 C
47326563 GAAATACATC
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (131 bp):
ACGAAAAAAAAACTCCAGTCACCTTTAGAAAAAATTCTGATTTGCCTCTTAACTTTCTTTTTTTT
TTGAAGTTTTTTTCTATTGATTTCGTATCCCCCAAAACAATACAGAAATAGGGCTTTTATAGCCC
C
Found at i:47326604 original size:19 final size:19
Alignment explanation
Indices: 47326581--47326641 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
47326571 TCGATTTTTA
47326581 TTTTTCCTTTATTTTTTCTG
1 TTTTT-CTTTATTTTTTCTG
* *
47326601 TTTTTCTATATTTCTTC-G
1 TTTTTCTTTATTTTTTCTG
*
47326619 TTTCTTCTTTTTTCTTTTCTG
1 TTT-TTCTTTATT-TTTTCTG
47326640 TT
1 TT
47326642 ATTGTTGCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 4 0.12
19 17 0.52
20 9 0.27
21 3 0.09
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTTCTTTATTTTTTCTG
Found at i:47326877 original size:22 final size:22
Alignment explanation
Indices: 47326851--47326894 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
47326841 AATTGGGCTG
47326851 GTATTGGGCTATTTGGGTTAAT
1 GTATTGGGCTATTTGGGTTAAT
47326873 GTATTGGGCTATTTGGGTTAAT
1 GTATTGGGCTATTTGGGTTAAT
47326895 AGATATTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.05, G:0.32, T:0.45
Consensus pattern (22 bp):
GTATTGGGCTATTTGGGTTAAT
Found at i:47327371 original size:6 final size:7
Alignment explanation
Indices: 47327352--47327382 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
47327342 AAATTTTTAT
47327352 ATAAAAA
1 ATAAAAA
47327359 ATAAAAA
1 ATAAAAA
47327366 ATAAAAA
1 ATAAAAA
47327373 ATAAAAA
1 ATAAAAA
47327380 ATA
1 ATA
47327383 TTAACCACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
ATAAAAA
Done.