Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 111 of 255
Found at i:35159195 original size:58 final size:56
Alignment explanation
Indices: 35159129--35159268 Score: 174
Period size: 56 Copynumber: 2.5 Consensus size: 56
35159119 AACGTCCCAG
*
35159129 ACGTGGTCTTACAT-GTAATCACATATATCAGAATCACATATCGATGCCAACATATTAA
1 ACGTGGTCTTAC-TCG-AA-CACATATATCAGAATCACATATCAATGCCAACATATTAA
* * * * *
35159187 ATGTGGTCTTACTCGCACACATATATCGGAATCACGTATCAATGCCAACGTATTAA
1 ACGTGGTCTTACTCGAACACATATATCAGAATCACATATCAATGCCAACATATTAA
* *
35159243 ACGTGGTCTTACTTGCACACATATAT
1 ACGTGGTCTTACTCGAACACATATAT
35159269 TGATGCCATG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
56 59 0.81
57 2 0.03
58 12 0.16
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (56 bp):
ACGTGGTCTTACTCGAACACATATATCAGAATCACATATCAATGCCAACATATTAA
Found at i:35159232 original size:56 final size:56
Alignment explanation
Indices: 35159148--35159268 Score: 188
Period size: 56 Copynumber: 2.2 Consensus size: 56
35159138 TACATGTAAT
* *
35159148 CACATATATCAGAATCACATATCGATGCCAACATATTAAATGTGGTCTTACTCGCA
1 CACATATATCAGAATCACATATCAATGCCAACATATTAAACGTGGTCTTACTCGCA
* * * *
35159204 CACATATATCGGAATCACGTATCAATGCCAACGTATTAAACGTGGTCTTACTTGCA
1 CACATATATCAGAATCACATATCAATGCCAACATATTAAACGTGGTCTTACTCGCA
35159260 CACATATAT
1 CACATATAT
35159269 TGATGCCATG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (56 bp):
CACATATATCAGAATCACATATCAATGCCAACATATTAAACGTGGTCTTACTCGCA
Found at i:35164739 original size:11 final size:11
Alignment explanation
Indices: 35164718--35164748 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
35164708 CTACAGTGTT
35164718 TTTGAAGATAGA
1 TTTG-AGATAGA
35164730 TTTGAGATAGA
1 TTTGAGATAGA
35164741 TTTGAGAT
1 TTTGAGAT
35164749 CTGGCTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (11 bp):
TTTGAGATAGA
Found at i:35168697 original size:40 final size:40
Alignment explanation
Indices: 35168636--35168912 Score: 464
Period size: 40 Copynumber: 6.9 Consensus size: 40
35168626 GCATGAGCAT
*
35168636 TTGATATATCCGGGCTCAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
35168676 TCGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
35168716 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
35168756 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
35168796 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
35168836 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
35168876 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
35168913 TTGCGGTTAT
Statistics
Matches: 222, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 222 1.00
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:35176903 original size:40 final size:40
Alignment explanation
Indices: 35176848--35177084 Score: 402
Period size: 40 Copynumber: 5.9 Consensus size: 40
35176838 GCATGAGCAT
35176848 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
35176888 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
35176928 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
35176968 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
35177008 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
35177048 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
35177085 TTGCGGTTAT
Statistics
Matches: 185, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 185 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:35181425 original size:42 final size:43
Alignment explanation
Indices: 35181364--35181491 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 43
35181354 ACATAGGATC
*
35181364 CGATATGTG-TTTTAGTGTAAGACCATGTCTGGGACGTTGGCAT
1 CGATATTTGATTTT-GTGTAAGACCATGTCTGGGACGTTGGCAT
* *
35181407 C-ATATTTGATTTTGTGTAAGACCCTGTCTGGGGCCG-TGGCAT
1 CGATATTTGATTTTGTGTAAGACCATGTCT-GGGACGTTGGCAT
*** * *
35181449 CGATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATTTGATTTTGTGTAAGACCATGTCTGGGACGTTGGCAT
35181492 TGTATGAGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 32 0.45
43 39 0.55
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.34
Consensus pattern (43 bp):
CGATATTTGATTTTGTGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:35187253 original size:37 final size:37
Alignment explanation
Indices: 35187203--35187317 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
35187193 ACCTTTAGCT
* * *
35187203 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
35187240 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
35187277 CAGG-CAAAATCTCCACACGTAGTCATCGGGTCTCACC
1 C-GGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
35187314 CGGA
1 CGGA
35187318 ATATATTTCC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
36 2 0.03
37 68 0.94
38 2 0.03
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.20
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:35187532 original size:47 final size:47
Alignment explanation
Indices: 35187480--35187853 Score: 532
Period size: 47 Copynumber: 8.0 Consensus size: 47
35187470 TTTCACACTA
* * * * * *
35187480 GCCATTCGACTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
35187527 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
35187574 GCCATTCGGCCTTATCATATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
35187621 GCCATTCGGCCTCATCACATATATACATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
35187668 GCCATTCGGCCTTATCACATATATGGATGCTCACATTCGTCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
35187715 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
35187762 GCCATTCAGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* ***
35187809 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACAT
35187854 AAAATCCTAA
Statistics
Matches: 289, Mismatches: 38, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 289 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:35187780 original size:22 final size:22
Alignment explanation
Indices: 35187755--35187828 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 22
35187745 TCATATTCAC
35187755 CACATTGGCCATTCAGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
*
35187777 CACACATAT-G-CATGCTCA-CATTCAT
1 --CACAT-TGGCCAT--TCAGCCTT-AT
*
35187802 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
35187824 CACAT
1 CACAT
35187829 ATATACACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
22 10 0.25
23 12 0.30
24 12 0.30
25 6 0.15
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (22 bp):
CACATTGGCCATTCAGCCTTAT
Found at i:35192168 original size:120 final size:120
Alignment explanation
Indices: 35191955--35192466 Score: 799
Period size: 120 Copynumber: 4.3 Consensus size: 120
35191945 CCAGCATGAT
** * * * ** *
35191955 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
35192020 TATCAGTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
35192075 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACTAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
35192140 CATCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
35192195 TGCTCTTCGGAATTTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGACTTAGCCCGGATA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
35192260 CATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGAACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
35192315 TGCTCTTCGGGATTTAGCCCAGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
35192380 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAACACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
35192435 TGCTCTTCGGGATTTAGCCCGGACATTTCACT
1 TGCTCTTCGGGATTTAGCCCGGATATATCACT
35192467 CTCAATTCTC
Statistics
Matches: 360, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 360 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:35192466 original size:40 final size:40
Alignment explanation
Indices: 35191955--35192457 Score: 718
Period size: 40 Copynumber: 12.6 Consensus size: 40
35191945 CCAGCATGAT
* * * * *
35191955 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * * *
35191995 TGCTCTTCGGGGTTTAGCACGGATATATCAGTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
35192035 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
35192075 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACTAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
35192115 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
35192155 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
35192195 TGCTCTTCGGAATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
35192235 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
35192275 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGAACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
35192315 TGCTCTTCGGGATTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
35192355 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
35192395 TGCTCTTCGGAACTTAGTCCGGATACATCACTAACACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
35192435 TGCTCTTCGGGATTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
35192458 CATTTCACTC
Statistics
Matches: 414, Mismatches: 49, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 414 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:35193760 original size:37 final size:37
Alignment explanation
Indices: 35193710--35193861 Score: 232
Period size: 37 Copynumber: 4.1 Consensus size: 37
35193700 ACCTTTAGCT
* * *
35193710 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
35193747 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
35193784 CGGGCAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * * *
35193821 CGGACATACTCTCCACACGTAGTCATCGAGTCTCACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
35193858 CGGA
1 CGGA
35193862 ATATATTTCC
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:35194076 original size:47 final size:47
Alignment explanation
Indices: 35194024--35194397 Score: 559
Period size: 47 Copynumber: 8.0 Consensus size: 47
35194014 TTTCACACTA
* * * * *
35194024 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
35194071 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
35194118 GCCATTCGGCCTTATCATATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
35194165 GCCATTCGGCCTCATCACATATATACATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
35194212 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * *
35194259 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
35194306 GCCATTCAGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* ***
35194353 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACAT
35194398 AAAATCCTAA
Statistics
Matches: 294, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 294 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:35194324 original size:22 final size:22
Alignment explanation
Indices: 35194299--35194372 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 22
35194289 TCATATTCAC
35194299 CACATTGGCCATTCAGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
*
35194321 CACACATAT-G-CATGCTCA-CATTCAT
1 --CACAT-TGGCCAT--TCAGCCTT-AT
*
35194346 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
35194368 CACAT
1 CACAT
35194373 ATATACACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
22 10 0.25
23 12 0.30
24 12 0.30
25 6 0.15
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (22 bp):
CACATTGGCCATTCAGCCTTAT
Found at i:35208149 original size:42 final size:42
Alignment explanation
Indices: 35208068--35208208 Score: 160
Period size: 42 Copynumber: 3.3 Consensus size: 42
35208058 TCCTAGACGT
* * *
35208068 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATAG
1 GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGA-AG
*
35208111 GGTCTTACACGAAATCAAATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGA-AG
* * *
35208153 GGTCTTACACGTAAAT-AGAAAATCGATGCCAACGTCCCAGACG
1 GGTCTTACACG-AAATCA-AATATCGATGCCAATGTCCCAGAAG
35208196 TGGTCTTACACGA
1 -GGTCTTACACGA
35208209 TATCGCATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
42 30 0.35
43 27 0.32
44 28 0.33
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGAAG
Found at i:35208191 original size:44 final size:43
Alignment explanation
Indices: 35208049--35208207 Score: 164
Period size: 44 Copynumber: 3.7 Consensus size: 43
35208039 TGCTCGTACA
* * * * *
35208049 ATGCTAACGTCCTAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAAT-AAAAATCG
* * *
35208092 ATGCC-ACTGTCCCAGATAGGGTCTTACACG-AAAT-CAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATAAAAAT-CG
*
35208134 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATAGAAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATA-AAAATCG
*
35208178 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
35208208 ATATCGCATA
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
41 3 0.03
42 29 0.31
43 29 0.31
44 30 0.32
45 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATAAAAATCG
Found at i:35209023 original size:11 final size:12
Alignment explanation
Indices: 35209006--35209034 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
35208996 CCTAGCAAGC
35209006 ATTTTCTTTTCT
1 ATTTTCTTTTCT
35209018 -TTTTCTTTTCT
1 ATTTTCTTTTCT
35209029 ATTTTC
1 ATTTTC
35209035 GGCAATATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTCTTTTCT
Found at i:35217068 original size:42 final size:42
Alignment explanation
Indices: 35217005--35217086 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
35216995 ACCTCTTTGC
35217005 TGTGGTGATGTATCAAATTGGTACAACCCTTTATGGATGTGT
1 TGTGGTGATGTATCAAATTGGTACAACCCTTTATGGATGTGT
*
35217047 TGTGGTGATGTATCAACTTGGTACAACCCTTTATGGATGT
1 TGTGGTGATGTATCAAATTGGTACAACCCTTTATGGATGT
35217087 CACCCACCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (42 bp):
TGTGGTGATGTATCAAATTGGTACAACCCTTTATGGATGTGT
Found at i:35219418 original size:38 final size:40
Alignment explanation
Indices: 35219369--35219495 Score: 132
Period size: 38 Copynumber: 3.0 Consensus size: 40
35219359 TAATGAATCA
35219369 ATATATGTAACCGTGGCATATCCACTTAGCACCACATTAC
1 ATATATGTAACCGTGGCATATCCACTTAGCACCACATTAC
* * * *
35219409 AT-T-TTTAACCCTGGTATATCCACTTAGCACCACGTTAATGAATC
1 ATATATGTAACCGTGGCATATCCACTTAGCACCAC----AT-TA-C
*
35219453 AATATATGTAACCGTGGCATATCCACTTAGCACCACGTTAC
1 -ATATATGTAACCGTGGCATATCCACTTAGCACCACATTAC
35219494 AT
1 AT
35219496 GTATCAATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
38 27 0.39
39 1 0.01
40 4 0.06
41 1 0.01
42 3 0.04
43 2 0.03
44 1 0.01
45 2 0.03
46 1 0.01
47 27 0.39
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (40 bp):
ATATATGTAACCGTGGCATATCCACTTAGCACCACATTAC
Found at i:35219523 original size:48 final size:48
Alignment explanation
Indices: 35219420--35219595 Score: 255
Period size: 48 Copynumber: 3.7 Consensus size: 48
35219410 TTTTTAACCC
* *
35219420 TGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCG
1 TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAATCG
* * *
35219467 TGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATTG
1 TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAATCG
* * *
35219515 TGGTATATCCGCTTAGCACCACGTTACATGTATCAATATTTGTAATCA
1 TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAATCG
* *
35219563 TTGTATATCCACTTAGCACCACGTTACACGTAT
1 TGGTATATCCACTTAGCACCACGTTACATGTAT
35219596 AACCCTGGTA
Statistics
Matches: 115, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 25 0.22
48 90 0.78
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (48 bp):
TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAATCG
Found at i:35225659 original size:38 final size:38
Alignment explanation
Indices: 35225616--35225784 Score: 176
Period size: 38 Copynumber: 4.2 Consensus size: 38
35225606 TTTCAAATTA
35225616 ACATGTATAACCGTGGCATATCCACTTAGCACCACATT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACATT
* * * *
35225654 ACATGTTTAACTGTGGTATATCCACTTAGCACCACGTTAATGA
1 ACATGTATAACCGTGGCATATCCACTTAGCACCAC----AT-T
* *
35225697 ATCAATATATGTAACCGTGGCATATCCACTTAGCGCCACATT
1 A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACATT
* * *
35225739 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACATT
35225777 ACATGTAT
1 ACATGTAT
35225785 CAATATGTGT
Statistics
Matches: 106, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
38 67 0.63
40 3 0.03
41 1 0.01
42 3 0.03
43 3 0.03
44 1 0.01
45 3 0.03
47 25 0.24
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACATT
Found at i:35225720 original size:85 final size:86
Alignment explanation
Indices: 35225623--35225830 Score: 328
Period size: 85 Copynumber: 2.4 Consensus size: 86
35225613 TTAACATGTA
*
35225623 TAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACTGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAGCACCA
35225688 CGTTA-ATGAATCAATATATG
66 CGTTACATGAATCAATATATG
*
35225708 TAACCGTGGCATATCCACTTAGCGCCACATTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAGCACCA
* *
35225773 CGTTACATGTATCAATATGTG
66 CGTTACATGAATCAATATATG
* * * * *
35225794 TAATCGTGGTATATCCGCTTAGCACCACGTCACATGT
1 TAACCGTGGCATATCCACTTAGCACCACATTACATGT
35225831 ATCAATATGT
Statistics
Matches: 112, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
85 68 0.61
86 44 0.39
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (86 bp):
TAACCGTGGCATATCCACTTAGCACCACATTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTACATGAATCAATATATG
Found at i:35225806 original size:48 final size:48
Alignment explanation
Indices: 35225741--35225880 Score: 226
Period size: 48 Copynumber: 2.9 Consensus size: 48
35225731 GCCACATTAC
* *
35225741 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
35225789 ATGTGTAATCGTGGTATATCCGCTTAGCACCACGTCACATGTATCAAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
35225837 ATGTGTAATCGTTGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTAT
35225881 AATCGTGGTA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (48 bp):
ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:35227945 original size:12 final size:12
Alignment explanation
Indices: 35227928--35227960 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
35227918 AAGTCTATGG
35227928 GAAAGGAAATGA
1 GAAAGGAAATGA
*
35227940 GAAAGGGAATGA
1 GAAAGGAAATGA
35227952 G-AAGGAAAT
1 GAAAGGAAAT
35227961 TCAATTACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.36, T:0.09
Consensus pattern (12 bp):
GAAAGGAAATGA
Found at i:35228424 original size:10 final size:10
Alignment explanation
Indices: 35228411--35228440 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
35228401 TAAAAATTAG
35228411 AAAATTATAA
1 AAAATTATAA
35228421 AAAATTATAA
1 AAAATTATAA
*
35228431 AAAATCATAA
1 AAAATTATAA
35228441 CTTGTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAATTATAA
Found at i:35234146 original size:42 final size:42
Alignment explanation
Indices: 35234087--35234190 Score: 181
Period size: 42 Copynumber: 2.5 Consensus size: 42
35234077 ACTAAGCCTA
*
35234087 CGTGTAAGACCATATCTGGGATATGGCATCAGTATGAAACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAAACTT
*
35234129 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAAACTT
*
35234171 CGTGTAAGACCATAACTGGG
1 CGTGTAAGACCATATCTGGG
35234191 CTATTAGCAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCAATATGAAACTT
Found at i:35239100 original size:40 final size:40
Alignment explanation
Indices: 35239002--35239264 Score: 289
Period size: 40 Copynumber: 6.6 Consensus size: 40
35238992 TCCTCGTTCA
* * * * *
35239002 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
35239041 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
35239081 AATGCCTTCTGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
35239121 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
35239161 AATGCCTTCGAGACTTAACCCGGATTTAGTATCTCGCTCA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
35239201 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
35239241 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35239265 CAGCATTCAA
Statistics
Matches: 193, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
39 36 0.19
40 150 0.78
41 7 0.04
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:35247366 original size:44 final size:43
Alignment explanation
Indices: 35247260--35247387 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 43
35247250 GTAATTTAGT
* * *
35247260 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAA--TCAG
1 ATCGATGCCTATGTCCCAGACATGGTCTTACACGAAATCTCAA
*
35247301 ATACGATGCCTATGTCCCAGACATAGTCTTACACGTAAATCTCAA
1 AT-CGATGCCTATGTCCCAGACATGGTCTTACACG-AAATCTCAA
* * *
35247346 ATCGAGGCCTGTGTCCCAGACATGGTCTTACACGATATCTCA
1 ATCGATGCCTATGTCCCAGACATGGTCTTACACGAAATCTCA
35247388 GATTAGTGTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.03
42 29 0.39
43 10 0.13
44 29 0.39
45 5 0.07
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (43 bp):
ATCGATGCCTATGTCCCAGACATGGTCTTACACGAAATCTCAA
Found at i:35253398 original size:48 final size:48
Alignment explanation
Indices: 35253342--35253559 Score: 266
Period size: 48 Copynumber: 4.6 Consensus size: 48
35253332 TGAGATTCCA
*
35253342 TGTAAGACCATG-CTTGGGACATGGCATCGGGGATGATATATGTGCCTG
1 TGTAAGACCATGTC-TGGGACATGGCATCGGCGATGATATATGTGCCTG
**
35253390 TGTAAGACCATGTCTGGGACATGGCATCAACGATGATATATGTG-CTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT-G
*
35253438 TGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCCAT-
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCC-TG
** * ** *
35253486 CATAAGACCATGTCTGGGACAT-GCATTGGCGATGATATATG-GAATCA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCT-G
*
35253533 TGTAAGACCATGTCTAGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
35253560 TGGTACTTTA
Statistics
Matches: 148, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
47 38 0.26
48 105 0.71
49 2 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTG
Found at i:35253506 original size:96 final size:95
Alignment explanation
Indices: 35253340--35253559 Score: 295
Period size: 96 Copynumber: 2.3 Consensus size: 95
35253330 AATGAGATTC
**
35253340 CATGTAAGACCATG-CTTGGGACATGGCATCGGGGATGATATATGTGCCTGTGTAAGACCATGTC
1 CATGTAAGACCATGTC-TGGGACATGGCATCGGGGATGATATATGTGCCTGCATAAGACCATGTC
*
35253404 TGGGACATGGCATCAACGATGATATATGTG-CT
65 TGGGACAT-GCATCAACGATGATATATG-GAAT
*
35253436 -AGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCCAT-CATAAGACCATGT
1 CA-TGTAAGACCATGTCTGGGACATGGCATCGGGGATGATATATGTGCC-TGCATAAGACCATGT
***
35253499 CTGGGACATGCATTGGCGATGATATATGGAAT
64 CTGGGACATGCATCAACGATGATATATGGAAT
*
35253531 CATGTAAGACCATGTCTAGGACATGGCAT
1 CATGTAAGACCATGTCTGGGACATGGCAT
35253560 TGGTACTTTA
Statistics
Matches: 111, Mismatches: 8, Indels: 11
0.85 0.06 0.08
Matches are distributed among these distances:
94 1 0.01
95 44 0.40
96 64 0.58
97 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (95 bp):
CATGTAAGACCATGTCTGGGACATGGCATCGGGGATGATATATGTGCCTGCATAAGACCATGTCT
GGGACATGCATCAACGATGATATATGGAAT
Found at i:35254524 original size:12 final size:12
Alignment explanation
Indices: 35254504--35254535 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
35254494 AAAATTTGTC
*
35254504 CACATGGGTAGA
1 CACACGGGTAGA
35254516 CACACGGGTAGA
1 CACACGGGTAGA
35254528 CACACGGG
1 CACACGGG
35254536 CATGTGTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.34, T:0.09
Consensus pattern (12 bp):
CACACGGGTAGA
Found at i:35267916 original size:39 final size:39
Alignment explanation
Indices: 35267838--35267980 Score: 191
Period size: 39 Copynumber: 3.7 Consensus size: 39
35267828 CCAACATAAT
* * *
35267838 TGCCTTCGGGA-ATTAGCTC-GATATAACACCAACTCGAA
1 TGCCTTCGGGACA-TAGCCCGGATATAACACCAGCACGAA
** *
35267876 TGCCTTCGGGATTTAGCCCGGATATAACACCAGCAGGAA
1 TGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAA
* *
35267915 TGCCTTCGGGACATAGCCCAGATATAACACCAGCATGAA
1 TGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAA
35267954 TGCCTTCGGGACATAGCCCGGATATAA
1 TGCCTTCGGGACATAGCCCGGATATAA
35267981 ATCTCACACA
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
38 16 0.17
39 77 0.83
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (39 bp):
TGCCTTCGGGACATAGCCCGGATATAACACCAGCACGAA
Found at i:35272373 original size:29 final size:29
Alignment explanation
Indices: 35272340--35272413 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
35272330 GTTGTGAGAT
* * *
35272340 TGGCACTAAGAGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
35272369 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
35272398 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35272414 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:35274387 original size:47 final size:46
Alignment explanation
Indices: 35274235--35274409 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
35274225 CCTCTATCGA
* * *
35274235 GGCC-AACGCATGTCCCGGACATGTCTTACTCTGGCACTCATAATAT
1 GGCCGAAC-CATGTCCCAGACATGTCTTACACTGGCACTCATAATGT
* * * * * *
35274281 GGCTGAACCATGTCCCAAACATGTCTTACACTAGCCCTCGT-CTAGAT
1 GGCCGAACCATGTCCCAGACATGTCTTACACTGGCACTCATAAT-G-T
*
35274328 -GCC-AATGCCATGTCCCAGACATAGTCTTACACTGGCTCTCATAATGT
1 GGCCGAA--CCATGTCCCAGACAT-GTCTTACACTGGCACTCATAATGT
*
35274375 GGCCGAAACATGTCCCAGACATGTCTTACACTGGC
1 GGCCGAACCATGTCCCAGACATGTCTTACACTGGC
35274410 GCACAAATCA
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
45 3 0.03
46 45 0.43
47 33 0.32
48 20 0.19
49 3 0.03
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (46 bp):
GGCCGAACCATGTCCCAGACATGTCTTACACTGGCACTCATAATGT
Found at i:35282116 original size:47 final size:46
Alignment explanation
Indices: 35282017--35282273 Score: 234
Period size: 45 Copynumber: 5.6 Consensus size: 46
35282007 TTCTATCGAG
* ** * * * *
35282017 TAAGACCATAGTTGAAAAACGTTATGGCATCATGAATCAAAGA--AA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACG-ATGAAAAATGAA
* * *
35282062 TAAGACCATATTTGAAAGACGCTACGGCAACACGATGGAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGAT-GAAAAATGAA
35282109 TAAGACCATAGTTGAAAGACACTATGGCAACACGATGAAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGATGAAAAATGAA
* * * * * *
35282155 TAAGACCATGGTTGAAAGACACTATGGCATCAAGACG-AGAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGATGAAAAATGAA
* * * * * * * *
35282200 TAAGACCATGGTTGATAGACACTATGACATCAAGA-CAAGAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGATGAAAAATGAA
* *
35282245 TAAGACCATGGTTGAAAGACACCATGGCA
1 TAAGACCATAGTTGAAAGACACTATGGCA
35282274 CACTTCGATC
Statistics
Matches: 185, Mismatches: 23, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
44 2 0.01
45 105 0.57
46 43 0.23
47 35 0.19
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (46 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACACGATGAAAAATGAA
Found at i:35282169 original size:46 final size:46
Alignment explanation
Indices: 35282059--35282273 Score: 245
Period size: 45 Copynumber: 4.7 Consensus size: 46
35282049 TGAATCAAAG
** * * *
35282059 AAATAAGACCATATTTGAAAGACGCTACGGCAACACGATGGAAAAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGAT-GAAAAAT
* * *
35282106 GAATAAGACCATAGTTGAAAGACACTATGGCAACACGATGAAAAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGATGAAAAAT
* * * *
35282152 GAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACG-AGAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGATGAAAAAT
* * * * *
35282197 AAATAAGACCATGGTTGATAGACACTATGACATCAAGA-CAAGAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGATGAAAAAT
*
35282242 AAATAAGACCATGGTTGAAAGACACCATGGCA
1 AAATAAGACCATGGTTGAAAGACACTATGGCA
35282274 CACTTCGATC
Statistics
Matches: 151, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
45 73 0.48
46 43 0.28
47 35 0.23
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (46 bp):
AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGATGAAAAAT
Found at i:35288894 original size:19 final size:18
Alignment explanation
Indices: 35288872--35288911 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
35288862 TGAATAAAAC
35288872 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
35288891 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
35288909 TTA
1 TTA
35288912 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:35292612 original size:19 final size:18
Alignment explanation
Indices: 35292590--35292629 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
35292580 TGAATAAAAC
35292590 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
35292609 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
35292627 TTA
1 TTA
35292630 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:35293804 original size:21 final size:21
Alignment explanation
Indices: 35293780--35293830 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
35293770 ATCCTAACTC
35293780 AATTAAAACACACTATTTTCA
1 AATTAAAACACACTATTTTCA
35293801 AATTAAAACACACTATTTTCA
1 AATTAAAACACACTATTTTCA
35293822 AATTAAAAC
1 AATTAAAAC
35293831 CTCGTAAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (21 bp):
AATTAAAACACACTATTTTCA
Found at i:35296041 original size:120 final size:119
Alignment explanation
Indices: 35295819--35296081 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 119
35295809 TCCTCGTTCA
* * **
35295819 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACTTAACCCGGATT
* * * *
35295884 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCAC
66 TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC-ACTTAGCAC
* *
35295937 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACAC-AATGCCTTCGGGACTTAACCCGGA
** * ** *
35296002 TTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
64 TTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATACACTTAGCAC
*
35296058 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
35296082 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 36 0.30
120 80 0.66
121 6 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATACACTTAGCAC
Found at i:35296042 original size:40 final size:40
Alignment explanation
Indices: 35295819--35296028 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
35295809 TCCTCGTTCA
* * * ** *
35295819 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
35295858 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
35295898 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
35295938 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
35295978 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
35296018 AAGGCCTTCGG
1 AATGCCTTCGG
35296029 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:35296065 original size:80 final size:80
Alignment explanation
Indices: 35295822--35296081 Score: 267
Period size: 80 Copynumber: 3.3 Consensus size: 80
35295812 TCGTTCAAAT
* * * ** * * *
35295822 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
35295886 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
* * *
35295901 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
35295966 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
** * **
35295981 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
*
35296045 ATTC-ACTTAGCAC-AAA
65 A-ACAAC-TAGCACGAAA
*
35296061 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
35296082 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 33 0.21
80 120 0.75
81 6 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ACAACTAGCACGAAA
Found at i:35296090 original size:41 final size:41
Alignment explanation
Indices: 35296013--35296090 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35296003 TTAGTATCTC
* * *
35296013 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35296054 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35296091 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35298881 original size:16 final size:16
Alignment explanation
Indices: 35298860--35298930 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
35298850 GTTTGGTTCA
*
35298860 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
35298876 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
35298892 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
* *
35298908 TTGTAATGGAATAGAA
1 CTGTAATGGAATAGAG
35298924 CTGTAAT
1 CTGTAAT
35298931 AAGTAATTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:35298969 original size:46 final size:44
Alignment explanation
Indices: 35298912--35299005 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
35298902 ATAGAGTTGT
35298912 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTGTTTGGTTGAATGG
***
35298958 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGG
35299002 AATG
1 AATG
35299006 ATGCTGTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 23 0.51
45 3 0.07
46 19 0.42
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTGTTTGGTTGAATGG
Found at i:35299000 original size:39 final size:39
Alignment explanation
Indices: 35298907--35299020 Score: 104
Period size: 39 Copynumber: 2.7 Consensus size: 39
35298897 ATGGAATAGA
35298907 GTTGTAATGGAATAGAACTGTAATAAGTAATTCAACTGTTTG
1 GTTG-AATGGAATAGAACTGTAAT-AGT-ATTCAACTGTTTG
***
35298949 GTTGAATGGAATGGAATAGAACTGTAATAGTATTCTTGTGTTTG
1 G-T---T-GAATGGAATAGAACTGTAATAGTATTCAACTGTTTG
*
35298993 GTTGAATGGAAT-GATGCTGTAATAGTAT
1 GTTGAATGGAATAGA-ACTGTAATAGTAT
35299021 AAGGAAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
38 2 0.03
39 21 0.34
40 1 0.02
42 1 0.02
43 2 0.03
44 11 0.18
45 3 0.05
46 20 0.32
47 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.37
Consensus pattern (39 bp):
GTTGAATGGAATAGAACTGTAATAGTATTCAACTGTTTG
Found at i:35299199 original size:17 final size:17
Alignment explanation
Indices: 35299177--35299209 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
35299167 AATTATTATT
35299177 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
35299194 AAATATAATTTAATAA
1 AAATATAATTTAATAA
35299210 CATTCATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:35299744 original size:18 final size:18
Alignment explanation
Indices: 35299712--35299746 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35299702 ACGTGGTAGT
**
35299712 CCAACTAGATTTTAAGTG
1 CCAACTAGAGCTTAAGTG
35299730 CCAACTAGAGCTTAAGT
1 CCAACTAGAGCTTAAGT
35299747 ATATCTGTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (18 bp):
CCAACTAGAGCTTAAGTG
Found at i:35299805 original size:40 final size:40
Alignment explanation
Indices: 35299754--35299998 Score: 373
Period size: 40 Copynumber: 6.1 Consensus size: 40
35299744 AGTATATCTG
* * *
35299754 TTAATACATACTTTATCCGGGTAAATTATACAATTTTCTG
1 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
35299794 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
1 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
* * * *
35299834 TTAATACATACTTTATCCGGATAAATTATATAGTTTTCTG
1 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
35299874 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
1 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
*
35299914 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTTTA
1 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
* * * * *
35299954 TTAATATATACTTCATCCGGATAAATTATACAATTTTCTA
1 TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
35299994 TTAAT
1 TTAAT
35299999 GTGCTTGTGA
Statistics
Matches: 187, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 187 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.42
Consensus pattern (40 bp):
TTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTA
Found at i:35299911 original size:120 final size:120
Alignment explanation
Indices: 35299750--35299998 Score: 417
Period size: 120 Copynumber: 2.1 Consensus size: 120
35299740 CTTAAGTATA
* *
35299750 TCTGTTAATACATACTTTATCCGGGTAAATTATACAATTTTCTGTTAATACATACTTTACCCGGG
1 TCTGTTAATACATACTTTACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
* * *
35299815 TAAATTATACAGTTTTCTATTAATACATACTTTATCCGGATAAATTATATAGTTT
66 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAATTT
*
35299870 TCTGTTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTATTAATACATACTTTACCCGGG
1 TCTGTTAATACATACTTTACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
* *
35299935 TAAATTATACAGTTTTTTATTAATATATACTTCATCCGGATAAATTATACAATTT
66 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAATTT
*
35299990 TCTATTAAT
1 TCTGTTAAT
35299999 GTGCTTGTGA
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (120 bp):
TCTGTTAATACATACTTTACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAATTT
Found at i:35305724 original size:17 final size:17
Alignment explanation
Indices: 35305702--35305735 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35305692 TGACTAGTTT
35305702 GATCAGATTATAGCTGA
1 GATCAGATTATAGCTGA
35305719 GATCAGATTATAGCTGA
1 GATCAGATTATAGCTGA
35305736 TAATGGACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (17 bp):
GATCAGATTATAGCTGA
Found at i:35306113 original size:31 final size:31
Alignment explanation
Indices: 35306078--35306141 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
35306068 TTTTAATCTC
35306078 AAAGTTAAAAACAATGGGAGCTAAAGCAAAT
1 AAAGTTAAAAACAATGGGAGCTAAAGCAAAT
*
35306109 AAAGTTAAAAACAGTGGGAGCTAAAGCAAAT
1 AAAGTTAAAAACAATGGGAGCTAAAGCAAAT
35306140 AA
1 AA
35306142 TTCCTTTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.55, C:0.09, G:0.20, T:0.16
Consensus pattern (31 bp):
AAAGTTAAAAACAATGGGAGCTAAAGCAAAT
Found at i:35311581 original size:28 final size:28
Alignment explanation
Indices: 35311541--35311594 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
35311531 AAGAACAAAT
35311541 AATTCTTTCTTTTTGACATTCCAGCTAG
1 AATTCTTTCTTTTTGACATTCCAGCTAG
35311569 AATTCTTTCTTTTTGACATTCCAGCT
1 AATTCTTTCTTTTTGACATTCCAGCT
35311595 CCTGTCTAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.09, T:0.48
Consensus pattern (28 bp):
AATTCTTTCTTTTTGACATTCCAGCTAG
Found at i:35311715 original size:33 final size:33
Alignment explanation
Indices: 35311584--35311713 Score: 215
Period size: 33 Copynumber: 3.9 Consensus size: 33
35311574 TTTCTTTTTG
*
35311584 ACATTCCAGCTCCTGTCTAGCAACAAAACACCC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
*
35311617 ACATTCTAGCTCCTGTCCAGCAACAAAACACCC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
*
35311650 ACATTCCAGCTCCTGTCCAGCAACAAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
* *
35311683 ACATTCCAGCTCCTGTCCAACAACCAAACAC
1 ACATTCCAGCTCCTGTCCAGCAACAAAACAC
35311714 TCCCACTCAG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 91 1.00
ACGTcount: A:0.34, C:0.40, G:0.08, T:0.18
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACAAAACACCC
Found at i:35314722 original size:51 final size:52
Alignment explanation
Indices: 35314645--35314743 Score: 191
Period size: 51 Copynumber: 1.9 Consensus size: 52
35314635 ATATTAATAT
35314645 ATAAAAAATAAAAAAACTTACAAGCACCATGTTTTTCTTTATTTTGAGAGAG
1 ATAAAAAATAAAAAAACTTACAAGCACCATGTTTTTCTTTATTTTGAGAGAG
35314697 ATAAAAAAT-AAAAAACTTACAAGCACCATGTTTTTCTTTATTTTGAG
1 ATAAAAAATAAAAAAACTTACAAGCACCATGTTTTTCTTTATTTTGAG
35314744 GGAGCAAGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 38 0.81
52 9 0.19
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (52 bp):
ATAAAAAATAAAAAAACTTACAAGCACCATGTTTTTCTTTATTTTGAGAGAG
Found at i:35320903 original size:23 final size:22
Alignment explanation
Indices: 35320852--35320904 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
35320842 TAAGCTTTAT
35320852 TTGATAAATGTTTTGATATAAAA
1 TTGAT-AATGTTTTGATATAAAA
**
35320875 AAGATAATGTTTTTGA-ATAAAA
1 TTGATAATG-TTTTGATATAAAA
35320897 CTTGATAA
1 -TTGATAA
35320905 ATTTCAAGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.45, C:0.02, G:0.13, T:0.40
Consensus pattern (22 bp):
TTGATAATGTTTTGATATAAAA
Found at i:35321297 original size:20 final size:20
Alignment explanation
Indices: 35321268--35321319 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
35321258 AAAAAACTGT
35321268 TCAAGTATCGATACCCTCAT-
1 TCAAGTATCGATA-CCTCATA
* *
35321288 TTAGGTATCGA-ACCTCATA
1 TCAAGTATCGATACCTCATA
35321307 TCAAGTATCGATA
1 TCAAGTATCGATA
35321320 TTTCCTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 6 0.23
19 10 0.38
20 10 0.38
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (20 bp):
TCAAGTATCGATACCTCATA
Found at i:35321316 original size:19 final size:20
Alignment explanation
Indices: 35321267--35321319 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
35321257 AAAAAAACTG
35321267 TTCAAGTATCGATACCCTCA
1 TTCAAGTATCGATACCCTCA
* *
35321287 TTTAGGTATCGA-A-CCTCA
1 TTCAAGTATCGATACCCTCA
35321305 TATCAAGTATCGATA
1 T-TCAAGTATCGATA
35321320 TTTCCTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 6 0.22
19 10 0.37
20 11 0.41
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (20 bp):
TTCAAGTATCGATACCCTCA
Found at i:35328707 original size:15 final size:15
Alignment explanation
Indices: 35328665--35328709 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
35328655 AAGCAATACT
*
35328665 AAACAGAATAGAACA
1 AAACAGAATAGAGCA
* **
35328680 GAACAGAGCAGAGCA
1 AAACAGAATAGAGCA
35328695 AAACAGAATAGAGCA
1 AAACAGAATAGAGCA
35328710 TGTATGTTTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.58, C:0.16, G:0.22, T:0.04
Consensus pattern (15 bp):
AAACAGAATAGAGCA
Found at i:35330007 original size:85 final size:85
Alignment explanation
Indices: 35329864--35330042 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
35329854 GGCCGGCCAT
35329864 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
35329929 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
35329949 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
35330014 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
35330034 GGGCATGGG
1 GAGCATGGG
35330043 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:35332310 original size:47 final size:47
Alignment explanation
Indices: 35332251--35332567 Score: 447
Period size: 47 Copynumber: 6.6 Consensus size: 47
35332241 ACCCGTATAT
*
35332251 ATATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* **
35332298 GTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATAT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C-----ATGC
*
35332351 ATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
35332398 GTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
35332445 GTATGTGTGATAAGGCCGGAA-GGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCC-GAATGGCCAATGTGATGAATGTGAACATGC
* * *
35332492 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGA
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * *
35332539 ATATATGTGGTAAGGCCGAATGGCTAATG
1 ATATGTGTGATAAGGCCGAATGGCCAATG
35332568 CGAAACGTGT
Statistics
Matches: 245, Mismatches: 17, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
46 3 0.01
47 195 0.80
48 4 0.02
52 1 0.00
53 42 0.17
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:35332404 original size:23 final size:23
Alignment explanation
Indices: 35332377--35332451 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
35332367 CGAATGGCCA
35332377 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
35332400 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
35332424 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
35332447 ATGTG
1 ATGTG
35332452 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:35332630 original size:46 final size:46
Alignment explanation
Indices: 35332541--35332631 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
35332531 GAACATGAAT
* * * *
35332541 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
35332587 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
35332632 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:35332638 original size:141 final size:140
Alignment explanation
Indices: 35332251--35332576 Score: 411
Period size: 147 Copynumber: 2.3 Consensus size: 140
35332241 ACCCGTATAT
* * * * *
35332251 ATATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACATGCGTATGTGTGATAAAGCCG
* ** *
35332316 AATGGCCAATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGT
65 AAAGGCCAATGTGATGAATGTGAA-C---ATGCATATAT--GAGATAAGGCCGAATGGCCAATGT
*
35332381 GATGAATGTGAACATGC
124 GATGAATGTGAACATGA
* * * * *
35332398 GTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCG
1 ATATATGTGATAAGGCCGAATGGCCAATGCGA-GAACGTGAACATGCGTATGTGTGATAAAGCCG
*
35332463 GAAGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAA
65 AAAGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAA
35332528 TGTGAACATGA
130 TGTGAACATGA
* *
35332539 ATATATGTGGTAAGGCCGAATGGCTAATGCGA-AACGTG
1 ATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTG
35332577 TATGAGATGG
Statistics
Matches: 165, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
139 5 0.03
141 66 0.40
143 8 0.05
146 1 0.01
147 85 0.52
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.25
Consensus pattern (140 bp):
ATATATGTGATAAGGCCGAATGGCCAATGCGAGAACGTGAACATGCGTATGTGTGATAAAGCCGA
AAGGCCAATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAT
GTGAACATGA
Found at i:35332886 original size:37 final size:37
Alignment explanation
Indices: 35332778--35332886 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
35332768 GGAAATATAT
*
35332778 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
35332815 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
35332852 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
35332887 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:35333935 original size:42 final size:42
Alignment explanation
Indices: 35333863--35333973 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
35333853 ATAGCCTGGA
* * * * * *
35333863 CACACGCCCATGTCTTTACCCGTATGGCTCACATGGGCTAGG
1 CACACGCCCATGTCCTTGCCCATGTAGCTCACACGGGCTAGG
*
35333905 CACACGCCCATGTCCTTGCCCATGTAGCTCACACGGTCTAGG
1 CACACGCCCATGTCCTTGCCCATGTAGCTCACACGGGCTAGG
* * *
35333947 CACATGCCCATATCCTTGGCCATGTAG
1 CACACGCCCATGTCCTTGCCCATGTAG
35333974 TGTCGATAGT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.20, C:0.35, G:0.22, T:0.23
Consensus pattern (42 bp):
CACACGCCCATGTCCTTGCCCATGTAGCTCACACGGGCTAGG
Found at i:35336315 original size:49 final size:49
Alignment explanation
Indices: 35336262--35336493 Score: 257
Period size: 49 Copynumber: 4.7 Consensus size: 49
35336252 CTAGTACGCA
* *
35336262 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * ** ** *
35336311 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * ** * * *
35336361 TAGTAGCCAGCACTTAATACTATACACGTAATCGAAGTTATCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
35336412 TAGTAGCCTGCACTTAGTACTATACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
35336461 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
35336494 TCACAATAGA
Statistics
Matches: 148, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 72 0.49
50 41 0.28
51 35 0.24
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:35338270 original size:40 final size:40
Alignment explanation
Indices: 35338215--35338392 Score: 238
Period size: 40 Copynumber: 4.5 Consensus size: 40
35338205 CGGATGATAA
35338215 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
*
35338255 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
* * *
35338295 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-T
* *
35338335 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-CTAAT-T
*
35338375 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35338393 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 18 0.14
40 110 0.86
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
Found at i:35342484 original size:21 final size:20
Alignment explanation
Indices: 35342460--35342505 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
35342450 AAAAAAATTT
35342460 AAAAAAAATCA-AAATTAAGA
1 AAAAAAAATCATAAATTAA-A
* *
35342480 AAAAAGATTCATAAATTAAA
1 AAAAAAAATCATAAATTAAA
35342500 AAAAAA
1 AAAAAA
35342506 TTGGTGCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (20 bp):
AAAAAAAATCATAAATTAAA
Found at i:35343125 original size:19 final size:19
Alignment explanation
Indices: 35343086--35343122 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
35343076 TAGTACGGCC
35343086 ATTTAATTTGTCTTGAGTT
1 ATTTAATTTGTCTTGAGTT
35343105 ATTTAATTTGTCTT-AGTT
1 ATTTAATTTGTCTTGAGTT
35343123 TATACAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
ATTTAATTTGTCTTGAGTT
Found at i:35343159 original size:28 final size:27
Alignment explanation
Indices: 35343104--35343159 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
35343094 TGTCTTGAGT
** *
35343104 TATTTAATTTGTCTTAGTTTATACAAC
1 TATTTAAAGTGTCTTAGTTTAGACAAC
*
35343131 TATTTAAAGTGTCTTAAGTTTAGATAAC
1 TATTTAAAGTGTCTT-AGTTTAGACAAC
35343159 T
1 T
35343160 TAATTGCGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (27 bp):
TATTTAAAGTGTCTTAGTTTAGACAAC
Found at i:35346123 original size:30 final size:31
Alignment explanation
Indices: 35346099--35346157 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
35346089 GTAAATACTC
* * *
35346099 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAAGTTGAAGGACTAATAGTGTAAATATGA
35346129 AAAAGTTGAAGGACTAATAGTGTAAATAT
1 AAAAGTTGAAGGACTAATAGTGTAAATAT
35346158 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (31 bp):
AAAAGTTGAAGGACTAATAGTGTAAATATGA
Found at i:35346432 original size:30 final size:30
Alignment explanation
Indices: 35346367--35346432 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
35346357 TATTTTATAG
*
35346367 TTATTTAATTAGATAATTATTATTTATTTA
1 TTATTTAATAAGATAATTATTATTTATTTA
* *
35346397 ATATTTAATAAGATATTTATTA-TTATTTTA
1 TTATTTAATAAGATAATTATTATTTA-TTTA
35346427 TTATTT
1 TTATTT
35346433 TATTTAGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (30 bp):
TTATTTAATAAGATAATTATTATTTATTTA
Found at i:35348776 original size:17 final size:16
Alignment explanation
Indices: 35348742--35348782 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
35348732 CAATTTATTG
*
35348742 AAAAAGGAAAAGAAAA
1 AAAAAGAAAAAGAAAA
35348758 AAAAAGAAAATAGAGAAA
1 AAAAAGAAAA-AGA-AAA
35348776 AAAAAGA
1 AAAAAGA
35348783 GGAAAAAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 3 0.14
18 10 0.45
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAGAAAA
Found at i:35348798 original size:20 final size:21
Alignment explanation
Indices: 35348752--35348798 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
35348742 AAAAAGGAAA
35348752 AGAAAAAAAAAGAAAATAGAG
1 AGAAAAAAAAAGAAAATAGAG
* *
35348773 A-AAAAAAAGAGGAAAA-AGTG
1 AGAAAAAAA-AAGAAAATAGAG
35348793 AGAAAA
1 AGAAAA
35348799 GTGAGGCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.04
Consensus pattern (21 bp):
AGAAAAAAAAAGAAAATAGAG
Found at i:35354475 original size:42 final size:43
Alignment explanation
Indices: 35354382--35354492 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 43
35354372 GTTGGTGAAT
* *
35354382 AATATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATACCGGTGA
* *
35354425 GATAATATCGGGCTTCGGGCCTAGCA-GCTATAATACTGGTGA
1 AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATACCGGTGA
* **
35354467 AATGATATCGGGCTTCAAGCCTAGCA
1 AATAATATCGGGCTTCGGGCCTAGCA
35354493 AGCAAAATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 36 0.60
43 24 0.40
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (43 bp):
AATAATATCGGGCTTCGGGCCTAGCAGGCTATAATACCGGTGA
Found at i:35362753 original size:18 final size:18
Alignment explanation
Indices: 35362730--35362764 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35362720 ATTAGGTGGT
35362730 TTTCCATTACCATCATTC
1 TTTCCATTACCATCATTC
*
35362748 TTTCCATTGCCATCATT
1 TTTCCATTACCATCATT
35362765 GTCATTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.31, G:0.03, T:0.46
Consensus pattern (18 bp):
TTTCCATTACCATCATTC
Found at i:35364271 original size:25 final size:24
Alignment explanation
Indices: 35364211--35364273 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
35364201 TAGTTTTAGT
*
35364211 AATATT-ATT-AAATTTTAATATA
1 AATATTAATTAAAATTTTAATACA
*
35364233 ATAAATTAATTTAAAATTTTACATACA
1 A-ATATTAA-TTAAAATTTTA-ATACA
35364260 AATATTAATTAAAA
1 AATATTAATTAAAA
35364274 AGATTTAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
22 1 0.03
23 4 0.12
24 1 0.03
25 8 0.24
26 14 0.42
27 5 0.15
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (24 bp):
AATATTAATTAAAATTTTAATACA
Found at i:35373045 original size:39 final size:39
Alignment explanation
Indices: 35372965--35373176 Score: 277
Period size: 39 Copynumber: 5.5 Consensus size: 39
35372955 TTTAACCGAA
* * * *
35372965 CTAAGACCCGCAGGCATT-GTG-TGAGATTTATATCTGGG
1 CTAAGTCCCGAAGGCATTCGTGCTGATA-TTATATCCGGG
* * *
35373003 CTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGAG
1 CTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCGGG
35373042 CTAAGTCCCGAAGGCATTCGTGCT-AGTATTATATCCGGG
1 CTAAGTCCCGAAGGCATTCGTGCTGA-TATTATATCCGGG
*
35373081 CTAAGTCCCGAAGGCATTCATGCTGATATTATATCCGGG
1 CTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCGGG
* *
35373120 CTAAGTCCCGAAGGCATTCGTGCTGATGTTATATTCGGG
1 CTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCGGG
* *
35373159 CTAAGTTCTGAAGGCATT
1 CTAAGTCCCGAAGGCATT
35373177 TGGGTTGAAA
Statistics
Matches: 154, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 16 0.10
39 135 0.88
40 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (39 bp):
CTAAGTCCCGAAGGCATTCGTGCTGATATTATATCCGGG
Found at i:35374717 original size:34 final size:34
Alignment explanation
Indices: 35374642--35374721 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
35374632 GCATGACTGC
* **
35374642 TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
1 TACTGATACTGAGATGGGCTAAGGCCCTAAACCA
* *
35374676 TATTGATACTGAGATGGGCTAAGGCTC-AAACCA
1 TACTGATACTGAGATGGGCTAAGGCCCTAAACCA
35374709 TTACTGATACTGA
1 -TACTGATACTGA
35374722 AAGGGGTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 4 0.10
34 35 0.90
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (34 bp):
TACTGATACTGAGATGGGCTAAGGCCCTAAACCA
Found at i:35379675 original size:40 final size:43
Alignment explanation
Indices: 35379631--35379729 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 43
35379621 GTTATAAATA
35379631 GCACTAAGTGTGCGA-AATG-GAATAGCTTTGGCTATAT-GA-G
1 GCACTAAGTGTGCGATAATGAGAA-AGCTTTGGCTATATAGATG
* * * *
35379671 GCACTAAGTATGCGATACTGAGGAAGCTTTGGCTATTTGAGATG
1 GCACTAAGTGTGCGATAATGAGAAAGCTTTGGCTATAT-AGATG
35379715 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
35379730 GATCATTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
40 14 0.29
41 16 0.33
42 2 0.04
43 2 0.04
44 15 0.31
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGATAATGAGAAAGCTTTGGCTATATAGATG
Found at i:35385133 original size:25 final size:25
Alignment explanation
Indices: 35385099--35385152 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
35385089 ATATATATAC
35385099 ATAAAAAAATATTAATATGAAATCA
1 ATAAAAAAATATTAATATGAAATCA
35385124 ATAAAAAAATATTAATATGAAATCA
1 ATAAAAAAATATTAATATGAAATCA
35385149 ATAA
1 ATAA
35385153 CGTGGACTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (25 bp):
ATAAAAAAATATTAATATGAAATCA
Found at i:35387548 original size:180 final size:174
Alignment explanation
Indices: 35387166--35387694 Score: 658
Period size: 180 Copynumber: 3.0 Consensus size: 174
35387156 CAAATTACTC
*
35387166 CAATCTTCAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTTTCTTG
1 CAATCTT-AGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTG
* * * *
35387231 CTACCTCAGAGAGATAAGGCTAGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
65 CTACCTCAGAGAGATAAGG-TTG-GGTTAAATCTGCTCCATTGCAGATACATGGAGATAAGATTT
* * ** * *
35387296 ACCATTTTCG--ATCCACTCCGCTGCAACCTTAGGGAGATAAGATCTT
128 GCCATCTTCGATATCTGCTCTGCTGCAA-CTTAGGGAGATAAAATCTT
* * * * * *
35387342 CAATCTTTAGTTTGCTTTCTTGCTACCTTAGAAATATAAGACTCATTCTTCAACCTGCTCTCTTA
1 CAATC-TTAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTG
* * * * *
35387407 CTACCTAAGAGAGATAAGGTTTGGGGCTTCAATCTGTTCCATTGTATATACATGGAGATAAGATT
65 CTACCTCAGAGAGATAAGG-TT-GGG-TTAAATCTGCTCCATTGCAGATACATGGAGATAAGATT
35387472 TGCCATCTTCGATAATCTGCTCTGCTGCAACTTCAGGGAGATAAAATCTT
127 TGCCATCTTCGAT-ATCTGCTCTGCTGCAACTT-AGGGAGATAAAATCTT
* *
35387522 CAATTCTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCACTCTTCAACCTGCTCTCTTG
1 CAA-TCTTAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTG
*
35387587 CTACCTCAGAGAGATAAGGCT---TTAAATCTGCTCCATTGCAGATACATGGAGATAAGATTTGC
65 CTACCTCAGAGAGATAAGGTTGGGTTAAATCTGCTCCATTGCAGATACATGGAGATAAGATTTGC
* *
35387649 CATCTTCG--GTCTGCTTTGCTGCAACTTTAGGGAGATAAAATCTT
130 CATCTTCGATATCTGCTCTGCTGCAAC-TTAGGGAGATAAAATCTT
35387693 CA
1 CA
35387695 GTTTTCACCA
Statistics
Matches: 306, Mismatches: 38, Indels: 23
0.83 0.10 0.06
Matches are distributed among these distances:
171 33 0.11
172 2 0.01
174 45 0.15
176 76 0.25
177 43 0.14
179 4 0.01
180 101 0.33
181 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (174 bp):
CAATCTTAGTATGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGC
TACCTCAGAGAGATAAGGTTGGGTTAAATCTGCTCCATTGCAGATACATGGAGATAAGATTTGCC
ATCTTCGATATCTGCTCTGCTGCAACTTAGGGAGATAAAATCTT
Found at i:35392013 original size:27 final size:27
Alignment explanation
Indices: 35391947--35391999 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
35391937 AGAATGTTAA
35391947 CTCAAAATGATAACAAAAATGTACTTG
1 CTCAAAATGATAACAAAAATGTACTTG
35391974 CTCAAAATGATAACAAAAATGTACTT
1 CTCAAAATGATAACAAAAATGTACTT
35392000 CATTGAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.26
Consensus pattern (27 bp):
CTCAAAATGATAACAAAAATGTACTTG
Found at i:35395638 original size:19 final size:19
Alignment explanation
Indices: 35395614--35395653 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
35395604 TACGATCTTT
*
35395614 AATGCATATG-ATGTAATGC
1 AATGCAAATGCATG-AATGC
35395633 AATGCAAATGCATGAATGC
1 AATGCAAATGCATGAATGC
35395652 AA
1 AA
35395654 AGGAGGCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (19 bp):
AATGCAAATGCATGAATGC
Found at i:35398905 original size:47 final size:47
Alignment explanation
Indices: 35398834--35399284 Score: 733
Period size: 47 Copynumber: 9.6 Consensus size: 47
35398824 CCCTTCGGGA
* * * * * *
35398834 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35398881 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35398928 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35398975 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35399022 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35399069 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35399116 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35399165 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
35399212 CTTATCACATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* *
35399259 CTTATCACATATATGCACATTCACAT
1 CTTATCACATATATACACTTTCACAT
35399285 CACAATTATC
Statistics
Matches: 382, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 336 0.88
49 45 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35408166 original size:40 final size:40
Alignment explanation
Indices: 35408129--35408312 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
35408119 GCTACTCGTT
*
35408129 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
35408169 CAAATGCCTTCGGAACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
35408209 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
35408248 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
35408289 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
35408313 GCATCATTCG
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 75 0.61
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:35408232 original size:79 final size:78
Alignment explanation
Indices: 35408096--35408312 Score: 242
Period size: 79 Copynumber: 2.7 Consensus size: 78
35408086 GAATCACGTA
* ** * * *
35408096 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGAACTTAACCGGATATAG-TACTCGCACCAATGCCTTCGGGACTTAGCCCGGAAT-TAG
35408160 TAACTCGCACAAATG
64 TAACTCGCACAAATG
*
35408175 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAG
1 CCTTCGGAACTTAA-CCGGATATAGT-ACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATTAG
35408239 TAACTCGCACAAATG
64 TAACTCGCACAAATG
* * * * *
35408254 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
1 CCTTCGGAACTTA-ACCGGATATAGT-AC-TCGCACCAATGCCTTCGGGACTTAGCCCGG
35408313 GCATCATTCG
Statistics
Matches: 118, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
79 76 0.64
80 42 0.36
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CCTTCGGAACTTAACCGGATATAGTACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATTAGTA
ACTCGCACAAATG
Found at i:35409609 original size:85 final size:85
Alignment explanation
Indices: 35409480--35409658 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
35409470 TATTTTATTG
35409480 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
35409545 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
35409565 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
35409630 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
35409650 CCCATGCTC
1 CCCATGCTC
35409659 ATGGCCGGCC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:35412368 original size:773 final size:775
Alignment explanation
Indices: 35410831--35412375 Score: 2112
Period size: 774 Copynumber: 2.0 Consensus size: 775
35410821 GTTACAGTGG
* * *
35410831 ATGCATGGATCATTGAAACTTAATAACTGGTAATTGCATATAATTTGGTTTAAGTAAAATTGATA
1 ATGCATGGATCATTGAAACGTAATAACTGGTAATTGCATATAATTTGATTTAAGTAAAATTCATA
* * ** *
35410896 TTTTTCATCAATTTCCACTATATTACAAATTTTTGGTTTGTGTAAAACAAAACATTAACTCAATT
66 TTTTTCATCAATTTCCACCACATTACAAAGATTTGATTTGTGTAAAACAAAACATTAACTCAATT
** *
35410961 AGTTTTTCTTAAATTTCGCAAATAATAATAAAATGGCGACCATACTAATGGTTTTCTAAAATATC
131 AGTTTTTCTTAAATTTCAAAAATAATAATAAAATGGCAACCATACTAATGGTTTTCTAAAATATC
***
35411026 ACTATCGACAATAATGAATCCTGTGTACAGACAGCTTAATGGGCGATTTAATCGTATTTATTGGC
196 ACTATCGACAATAATGAATCCTAAATACAGACAGCTTAATGGGCGATTTAATCGTATTTATTGGC
* * *
35411091 AATTCATATGCATTATTGATATTGGTGGCTAGTCCACATTATCGGCAGCTTATCTTCTTTTTACT
261 AATTCATATGCATTATTAATATTGGTGGCTAGTCCACATTATCGGCAACTTATCTTCATTTTACT
35411156 GATAGTTTAACTACATTATTGATTGGGGATTTATCCACATCAAGCTTTCGCTCACACTACTTAGA
326 GATAGTTTAACTACATTATTGATTGGGGATTTAT-C-CATCAAGC-TTCG------CTA-TTAGA
* * ** * * * *
35411221 GTTTGATAGACGGGTTTTGGGGAACTCGTGGTGTGTAGAGGATGGTTGGGTAGGAGCCTTTTTGC
381 GTTTGATACACGGGTTCTAAGGAACTCGTGGTGTGCAGAGGATGATTGGGTAGGAACCTTTTTAC
*
35411286 ATTACATCATATGCATGACATGTTCAAACACTGATTGGTTTGCCATGTACTATTTTGAAATGCTA
446 ATTACATCATATGCATGACATGTTCAAACACTGATTGGTTTGCCATGTACTATTCTGAAATGCTA
* *
35411351 ATGATGATTATTACCCGTTTCGATTATCTGTATGATTGTTTATTGTATTTATTCACACTGAGCTT
511 ATGATGATTATTACCCATTTCGATTATCTGTATGATTGTTTATTGTATTTACTCACACTGAGCTT
* * * * *
35411416 TCATAAACCCATGCCATTAGTTTCAAAACTTCTTAAGTAATGCACGAGACTAAGACCAGACTCAG
576 TCATAAACCCATCCCATTAGTCTCAAAACTTCTTAAGTAATACACGAGACTAAGACCAAACCCAG
* * *
35411481 TAAAGGGAGCACCACCTCAGACATCATACTATTTTCAAATAAAGTACTTTAAATAAGTTTTCTAT
641 CAAAGGGAGCACCACCTCAGACATCAGACTATTTTCAAATAAAGTACTTTAAAGAAGTTTTCTAT
*
35411546 TAGTTTGGTTGTGTATTTTTTAAAGTCTTTGGTCAGTGGCTTGATTATTTTTTATTTGGGTATTT
706 TAGTTTGGTTGTGTAATTTTTAAAGTCTTTGGTCAGTGGCTTGATTATTTTTTATTTGGGTATTT
35411611 TGCGC
771 TGCGC
* *
35411616 ATGCATGGATCATTGAAACGTAATAATTGGTAATTGCATGTAATTTGATTTAAGTAAAACTAACA
1 ATGCATGGATCATTGAAACGTAATAACTGGTAATTGCATATAATTTGATTTAAGTAAAA-T----
* * * *
35411681 TCTTTTTTTTTATCAATTTCCACCACATTACAAAGATTTGATTTTTGTAAAACAAAACATTAACT
61 TCATATTTTTCATCAATTTCCACCACATTACAAAGATTTGATTTGTGTAAAACAAAACATTAACT
35411746 CAATTAGTTTTTTCTTAAATTTCAAAAATAATAATAAAATGGCAACCATACTAATGGTTTTCTAA
126 CAATTAG-TTTTTCTTAAATTTCAAAAATAATAATAAAATGGCAACCATACTAATGGTTTTCTAA
* ** *
35411811 AATATCACTATCGACAATAAATGAATCCTAAATATAGATGGCTTAATGGGTGATTTAATC-TCAT
190 AATATCACTATCGACAAT-AATGAATCCTAAATACAGACAGCTTAATGGGCGATTTAATCGT-AT
* * * *
35411875 TTATTGGCAATTCATCTGCATTATTAATATTGGTGGCTAGTCCATATTATGGGCAACTTGTCTTC
253 TTATTGGCAATTCATATGCATTATTAATATTGGTGGCTAGTCCACATTATCGGCAACTTATCTTC
* * * * *
35411940 ATTTTACT-AGTAGTTTAATTGCATTATTGATTTGTGATTTAT-CA-C-A-C-T-G-T-TTGGAG
318 ATTTTACTGA-TAGTTTAACTACATTATTGATTGGGGATTTATCCATCAAGCTTCGCTATTAGAG
* * *
35411996 TTTGGTACATGGGTTCTAAGGAACTTGTGGTGTGCA-ACGGATGATTGGGTAGGAACCTTTTTAC
382 TTTGATACACGGGTTCTAAGGAACTCGTGGTGTGCAGA-GGATGATTGGGTAGGAACCTTTTTAC
* * *
35412060 ATTGCATCATGTGCATGACATGTTCATACACTGATTGGTTTGCCATGTACTATTCTGAAATGCTA
446 ATTACATCATATGCATGACATGTTCAAACACTGATTGGTTTGCCATGTACTATTCTGAAATGCTA
* * *
35412125 ATTATGATTGTTACCCATTTTGATTAT-TAGTATGATTGTTTATTGT-TTTGACTCACACTGAGC
511 ATGATGATTATTACCCATTTCGATTATCT-GTATGATTGTTTATTGTATTT-ACTCACACTGAGC
* * * *
35412188 TTTCATAATCTCA-CCCTATTAGTCT-AAAACTTCTTAGGTAATACATGAGACTAAGACCAAACC
574 TTTCATAAACCCATCCC-ATTAGTCTCAAAACTTCTTAAGTAATACACGAGACTAAGACCAAACC
* * *
35412251 CGGCATAGGGAGCACCACCTCAGACATTAGACTATTTTCAAATAAAGTACTTTAAAGAAGTTTTC
638 CAGCAAAGGGAGCACCACCTCAGACATCAGACTATTTTCAAATAAAGTACTTTAAAGAAGTTTTC
* *
35412316 TATTAGTTTGGTTGTGTAATTTTTAAATTCTTTGGTCTGTGGCTTGATTATTTTTTATTT
703 TATTAGTTTGGTTGTGTAATTTTTAAAGTCTTTGGTCAGTGGCTTGATTATTTTTTATTT
35412376 AGGGCTTTTA
Statistics
Matches: 673, Mismatches: 74, Indels: 38
0.86 0.09 0.05
Matches are distributed among these distances:
773 156 0.23
774 187 0.28
776 1 0.00
783 1 0.00
784 1 0.00
785 55 0.08
786 2 0.00
787 1 0.00
788 1 0.00
789 2 0.00
790 62 0.09
791 74 0.11
792 130 0.19
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (775 bp):
ATGCATGGATCATTGAAACGTAATAACTGGTAATTGCATATAATTTGATTTAAGTAAAATTCATA
TTTTTCATCAATTTCCACCACATTACAAAGATTTGATTTGTGTAAAACAAAACATTAACTCAATT
AGTTTTTCTTAAATTTCAAAAATAATAATAAAATGGCAACCATACTAATGGTTTTCTAAAATATC
ACTATCGACAATAATGAATCCTAAATACAGACAGCTTAATGGGCGATTTAATCGTATTTATTGGC
AATTCATATGCATTATTAATATTGGTGGCTAGTCCACATTATCGGCAACTTATCTTCATTTTACT
GATAGTTTAACTACATTATTGATTGGGGATTTATCCATCAAGCTTCGCTATTAGAGTTTGATACA
CGGGTTCTAAGGAACTCGTGGTGTGCAGAGGATGATTGGGTAGGAACCTTTTTACATTACATCAT
ATGCATGACATGTTCAAACACTGATTGGTTTGCCATGTACTATTCTGAAATGCTAATGATGATTA
TTACCCATTTCGATTATCTGTATGATTGTTTATTGTATTTACTCACACTGAGCTTTCATAAACCC
ATCCCATTAGTCTCAAAACTTCTTAAGTAATACACGAGACTAAGACCAAACCCAGCAAAGGGAGC
ACCACCTCAGACATCAGACTATTTTCAAATAAAGTACTTTAAAGAAGTTTTCTATTAGTTTGGTT
GTGTAATTTTTAAAGTCTTTGGTCAGTGGCTTGATTATTTTTTATTTGGGTATTTTGCGC
Found at i:35415570 original size:38 final size:38
Alignment explanation
Indices: 35415515--35415660 Score: 179
Period size: 38 Copynumber: 3.8 Consensus size: 38
35415505 GGCTTAAAGA
* *
35415515 CCCGCAGGCTAT-ATGCTGGAATTATATCCGGGATAAAT
1 CCCGCAGGCT-TCGTGCTGGAATTATATCCGGGTTAAAT
35415553 CCCGCAGGCTTCGTGCTGGTAA-TATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGG-AATTATATCCGGGTTAAAT
* * *
35415591 CCTGCAAGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAAT
* * * *
35415629 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGAATTATATCCGGG
35415661 CCTTTGAGCC
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
37 2 0.02
38 91 0.96
39 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGAATTATATCCGGGTTAAAT
Found at i:35441421 original size:18 final size:18
Alignment explanation
Indices: 35441398--35441433 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
35441388 TGATTACAAC
35441398 TCTATTCAATTACAGTGA
1 TCTATTCAATTACAGTGA
*
35441416 TCTATTCCATTACAGTGA
1 TCTATTCAATTACAGTGA
35441434 ACCAAACGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTATTCAATTACAGTGA
Found at i:35444369 original size:49 final size:47
Alignment explanation
Indices: 35444309--35444667 Score: 540
Period size: 47 Copynumber: 7.6 Consensus size: 47
35444299 GATAATTGTG
* *
35444309 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
35444356 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
35444403 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
35444452 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
35444501 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
35444548 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
35444595 ATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGAGGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
35444642 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
35444668 TCCCGAAGGG
Statistics
Matches: 290, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
46 2 0.01
47 192 0.66
48 2 0.01
49 94 0.32
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:35446986 original size:40 final size:40
Alignment explanation
Indices: 35446926--35447134 Score: 348
Period size: 40 Copynumber: 5.2 Consensus size: 40
35446916 AGGTCTCGAC
*
35446926 GATG-ATCCGGGCTAATTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
35446965 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
35447005 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
35447045 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
35447085 GATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
35447125 GTTGTATCCG
1 GATGTATCCG
35447135 AACTAAGTTC
Statistics
Matches: 158, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 4 0.03
40 154 0.97
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:35447216 original size:96 final size:96
Alignment explanation
Indices: 35447052--35447243 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 96
35447042 AGTGATGTAT
35447052 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
35447117 GTGCTAGTGTTGTATCCGAACTAAGTTCCGA
66 GTGCTAGTGTTGTATCCGAACTAAGTTCCGA
35447148 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
*
35447213 GTGCTAGTGTTGTATCCGGACTAAGTTCCGA
66 GTGCTAGTGTTGTATCCGAACTAAGTTCCGA
35447244 AGAGCATTCG
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (96 bp):
CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
GTGCTAGTGTTGTATCCGAACTAAGTTCCGA
Found at i:35447261 original size:136 final size:136
Alignment explanation
Indices: 35447012--35447283 Score: 400
Period size: 136 Copynumber: 2.0 Consensus size: 136
35447002 AGTGATGTAT
* * * *
35447012 CCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTC
1 CCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGACTAAATCCCGAAGAGCATTC
* * *
35447077 GTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGTTGTATCCGAACTAAG
66 GTGCTAGTGATATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGAACTAAG
35447142 TTCCGA
131 TTCCGA
* * *
35447148 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
1 CCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGACTAAATCCCGAAGAGCATTC
* * * * **
35447213 GTGCTAGTGTTGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAG
66 GTGCTAGTGATATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGAACTAAG
35447278 TTCCGA
131 TTCCGA
35447284 AGAGCATTCG
Statistics
Matches: 120, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
136 120 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (136 bp):
CCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGACTAAATCCCGAAGAGCATTC
GTGCTAGTGATATATCCGGACTAAATCCCGAAGAGCATTCGTGCTAGTGATATATCCGAACTAAG
TTCCGA
Found at i:35447284 original size:80 final size:80
Alignment explanation
Indices: 35447148--35447329 Score: 292
Period size: 80 Copynumber: 2.3 Consensus size: 80
35447138 TAAGTTCCGA
35447148 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
*
35447213 GTGCTAGTGTTGTAT
66 GTGCTAGTGTTATAT
* * *
35447228 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAGTTCCGAAGAGCATTC
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
*
35447293 GTGCTGGTGTTATAT
66 GTGCTAGTGTTATAT
* * *
35447308 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGACTAAGTTCCGAAGAGCA
35447330 ATCATGCTGG
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 94 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
GTGCTAGTGTTATAT
Found at i:35447286 original size:176 final size:176
Alignment explanation
Indices: 35446972--35447310 Score: 579
Period size: 176 Copynumber: 1.9 Consensus size: 176
35446962 AGTGATGTAT
* * *
35446972 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTC
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
35447037 ATGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAA
66 ATGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAA
*
35447102 TCCCGAAGAGCATTCGTGCTAGTGTTGTATCCGAACTAAGTTCCGA
131 TCCCGAAGAGCATTCGTGCTAGTGTTATATCCGAACTAAGTTCCGA
*
35447148 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
* * * *
35447213 GTGCTAGTGTTGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAG
66 ATGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAA
* *
35447278 TTCCGAAGAGCATTCGTGCTGGTGTTATATCCG
131 TCCCGAAGAGCATTCGTGCTAGTGTTATATCCG
35447311 GGCTAGGTCC
Statistics
Matches: 152, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
176 152 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (176 bp):
CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
ATGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAA
TCCCGAAGAGCATTCGTGCTAGTGTTATATCCGAACTAAGTTCCGA
Found at i:35447341 original size:40 final size:40
Alignment explanation
Indices: 35447148--35447329 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
35447138 TAAGTTCCGA
* *
35447148 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
35447188 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGTTGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* *
35447228 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * * *
35447268 CCGTGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
*
35447308 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
35447330 ATCATGCTGG
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:35450989 original size:96 final size:94
Alignment explanation
Indices: 35450919--35451226 Score: 465
Period size: 96 Copynumber: 3.2 Consensus size: 94
35450909 GATAATTGTG
35450919 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
35450984 GTGATAAGGCCG-AATGGCCAATGTGATGA
66 GTGATAAGG-CGTAATGGCCAATGTGATGA
*
35451013 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATAT
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
* *
35451078 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCGTAATGGCCAATGTGATGA
* * *
35451111 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
35451176 GTGATGAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCGTAATGGCCAATGTGATGA
* *
35451205 ATGTGAAAGTGTATATATGTGA
1 ATGTGAATGTATATATATGTGA
35451227 CAGAGCCGAG
Statistics
Matches: 201, Mismatches: 8, Indels: 10
0.92 0.04 0.05
Matches are distributed among these distances:
94 62 0.31
95 2 0.01
96 97 0.48
97 3 0.01
98 37 0.18
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (94 bp):
ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCGTAATGGCCAATGTGATGA
Found at i:35451241 original size:47 final size:47
Alignment explanation
Indices: 35450919--35451226 Score: 517
Period size: 47 Copynumber: 6.5 Consensus size: 47
35450909 GATAATTGTG
* *
35450919 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
35450966 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
35451013 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
35451062 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
35451111 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
35451158 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
35451205 ATGTGAAAGTGTATATATGTGA
1 ATGTGAAAGTGTATATATGTGA
35451227 CAGAGCCGAG
Statistics
Matches: 248, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 156 0.63
49 92 0.37
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:35466909 original size:67 final size:67
Alignment explanation
Indices: 35466800--35466932 Score: 189
Period size: 67 Copynumber: 2.0 Consensus size: 67
35466790 CACTGTAATT
* *
35466800 TGGTGGCCTCACCACATATATCTGTTCTGGTGACTTCGTCACAATATCTGGCAGGCTCGCTACAA
1 TGGTGGCCTCACCACATATATCTGTTCTGGTGACTTCATCACAATATCTGGCAGCCTCGCTACAA
35466865 TC
66 TC
* * *
35466867 TGGTGGCCT-AGC-CATAATATCTGTATTTGGTGACTTCATCACAATATCTGGCAGCCTCGCTGC
1 TGGTGGCCTCACCACAT-ATATCTGT-TCTGGTGACTTCATCACAATATCTGGCAGCCTCGCTAC
35466930 AAT
64 AAT
35466933 TTTTGTGGCG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 3 0.05
66 10 0.17
67 46 0.78
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (67 bp):
TGGTGGCCTCACCACATATATCTGTTCTGGTGACTTCATCACAATATCTGGCAGCCTCGCTACAA
TC
Found at i:35473103 original size:8 final size:8
Alignment explanation
Indices: 35473087--35473126 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
35473077 ATGGGCCGAA
35473087 AACGGGCC
1 AACGGGCC
*
35473095 AATGGGCC
1 AACGGGCC
35473103 AACGGGCC
1 AACGGGCC
*
35473111 AATGGGCC
1 AACGGGCC
35473119 AACGGGCC
1 AACGGGCC
35473127 CACTTTGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.25, C:0.33, G:0.38, T:0.05
Consensus pattern (8 bp):
AACGGGCC
Found at i:35473108 original size:16 final size:16
Alignment explanation
Indices: 35473087--35473126 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
35473077 ATGGGCCGAA
35473087 AACGGGCCAATGGGCC
1 AACGGGCCAATGGGCC
35473103 AACGGGCCAATGGGCC
1 AACGGGCCAATGGGCC
35473119 AACGGGCC
1 AACGGGCC
35473127 CACTTTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.33, G:0.38, T:0.05
Consensus pattern (16 bp):
AACGGGCCAATGGGCC
Found at i:35480358 original size:39 final size:40
Alignment explanation
Indices: 35480263--35480563 Score: 408
Period size: 39 Copynumber: 7.7 Consensus size: 40
35480253 TTGAATGATG
*
35480263 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
35480301 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
35480342 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
35480381 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
35480420 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35480459 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
35480498 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
35480537 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35480564 AACGAGGAGC
Statistics
Matches: 242, Mismatches: 11, Indels: 17
0.90 0.04 0.06
Matches are distributed among these distances:
39 171 0.71
40 59 0.24
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35488476 original size:39 final size:39
Alignment explanation
Indices: 35488332--35488592 Score: 311
Period size: 39 Copynumber: 6.6 Consensus size: 39
35488322 TTGAATGATG
*
35488332 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
35488370 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
35488411 TCCGGGCTAAG-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
35488449 TTCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35488488 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
35488527 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
35488566 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
35488593 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 15, Indels: 15
0.87 0.07 0.07
Matches are distributed among these distances:
38 37 0.19
39 92 0.46
40 58 0.29
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35488614 original size:79 final size:77
Alignment explanation
Indices: 35488332--35488625 Score: 287
Period size: 79 Copynumber: 3.7 Consensus size: 77
35488322 TTGAATGATG
* * *
35488332 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAG-GACTATATCCGG-TTAAG-TCCCGAAGGCAT
35488394 TTGTGCGAGATACTAAT
61 TTGTGCGAGATACTAAT
* * * *
35488411 TCCGGGCTAAG-CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAG-CCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAG-GACT-ATATCCGGTTAAGTCCCGAAGGCATTTG
35488474 TGCGAGATACTAAT
64 TGCGAGATACTAAT
* *
35488488 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAG-GACTATATCC-GGTTAAGTCCCGAAGGCATTTG
35488553 TGCGA-ATTACT-AT
64 TGCGAGA-TACTAAT
* * ** * *
35488566 AACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCCGGTTAAATTCCGAAGG
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGGA-CTATATCCGGTTAAGTCCCGAAGG
35488626 TACGTGATTT
Statistics
Matches: 185, Mismatches: 19, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
77 49 0.26
78 41 0.22
79 70 0.38
80 25 0.14
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (77 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGGACTATATCCGGTTAAGTCCCGAAGGCATTTGTG
CGAGATACTAAT
Found at i:35499237 original size:17 final size:17
Alignment explanation
Indices: 35499215--35499259 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
35499205 TTTTATTCAT
*
35499215 GTGGGGCCCACGCCGTC
1 GTGGGGCCCACGCCATC
*
35499232 GTGGGGCCCACGCTATC
1 GTGGGGCCCACGCCATC
35499249 GTGGGGCCCAC
1 GTGGGGCCCAC
35499260 ATAGCCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.09, C:0.38, G:0.40, T:0.13
Consensus pattern (17 bp):
GTGGGGCCCACGCCATC
Found at i:35506369 original size:12 final size:13
Alignment explanation
Indices: 35506352--35506383 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
35506342 ATAGCACATT
35506352 TCAAAAC-ATGCA
1 TCAAAACTATGCA
35506364 TCAAAACTATGCA
1 TCAAAACTATGCA
35506377 -CAAAACT
1 TCAAAACT
35506384 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:35513508 original size:12 final size:13
Alignment explanation
Indices: 35513491--35513522 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
35513481 ATAGCACATT
35513491 TCAAAAC-ATGCA
1 TCAAAACTATGCA
35513503 TCAAAACTATGCA
1 TCAAAACTATGCA
35513516 -CAAAACT
1 TCAAAACT
35513523 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:35527096 original size:20 final size:20
Alignment explanation
Indices: 35527073--35527110 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35527063 ATTTATTCGC
* *
35527073 GATTTTCAATATTTTGTAAA
1 GATTTTAAAAATTTTGTAAA
35527093 GATTTTAAAAATTTTGTA
1 GATTTTAAAAATTTTGTA
35527111 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (20 bp):
GATTTTAAAAATTTTGTAAA
Found at i:35538658 original size:47 final size:45
Alignment explanation
Indices: 35538590--35538804 Score: 146
Period size: 46 Copynumber: 4.6 Consensus size: 45
35538580 TGTGAGCTAA
35538590 TGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGAGCCAG
*** * * * *
35538636 TGTAAGACCATGTCTGGGACATGGCATC-AATATTGAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATATGAGAGCCAG
* * * * * * * *
35538684 TGTCAGACATGTCTAGGACCTACTTTGGCCTCGAAATGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATG-AGAGCCAG
* * * * *
35538730 TGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGATAGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGAGAGCCAG
35538776 TGTAAGACCATGTCTGGGACATGGCATCG
1 TGTAAGA-CATGTCTGGGACAT-GCATCG
35538805 ACTTGAGATA
Statistics
Matches: 128, Mismatches: 31, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
45 1 0.01
46 59 0.46
47 41 0.32
48 26 0.20
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGAGCCAG
Found at i:35538777 original size:46 final size:46
Alignment explanation
Indices: 35538590--35538851 Score: 194
Period size: 47 Copynumber: 5.6 Consensus size: 46
35538580 TGTGAGCTAA
* *
35538590 TGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAGAGCCAG
** * * *
35538636 TGTAAGACCATGTCTGGGACATGGCATC-AATATTGAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGAGAGCCAG
* * * * * * *
35538684 TGTCAGACATGTCTAGGACCTACTTTGGCCT-CGAAATGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATG-AGAGCCAG
* * *
35538730 TGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGATAGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCCAG
* * *
35538776 TGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGAT-ATGAGCCAA
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGA-GAGCCAG
*
35538823 TGTAAGACCATGTTTGGGACATTGCATCG
1 TGTAAGA-CATGTCTGGGACA-TGCATCG
35538852 ACACCTTACC
Statistics
Matches: 170, Mismatches: 33, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
45 3 0.02
46 60 0.35
47 76 0.45
48 30 0.18
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCCAG
Found at i:35540895 original size:170 final size:171
Alignment explanation
Indices: 35540609--35540957 Score: 434
Period size: 170 Copynumber: 2.0 Consensus size: 171
35540599 TATATAAACT
* * * *
35540609 TTATGTGACAGCCCTAAAGTAACCCTAGTTGGAAAGCGATCTCGGGACCGCTAGACCGAGTCACC
1 TTATGTGACAGCCCAAAAGTAACCCTAGTCGGAAAGCGATCTCAGGACCGCTAAACCGAGTCACC
* * * *
35540674 AAATTATTTGAATGTGATAATTATTGCCTAAAATATGTGAATATAAATGTGTGAAAGTTTTAAGC
66 AAATTATTCGAATGTGATAATTATGGCCTAAAATATGTGAATATAAATGTGTGAAAATTTCAAGC
* **
35540739 TTCGATTTAGTTAATTGCATGTCA-ATTTAGTTGATAGGAC
131 TTCGATTTAGTCAATTGCATGTCAGATTTAGTAAATAGGAC
* * * * * *
35540779 TTATGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCAGGACCGCTAAACCGAGTCACC
1 TTATGTGACAGCCCAAAAGTAACCCTAGTCGGAAAGCGATCTCAGGACCGCTAAACCGAGTCACC
* * * * *
35540844 GAAA-TGTTCGAATGTGATATTTATGGTCTAGAATATGT-AATTATGAATGTGTGAAAATTTCAA
66 -AAATTATTCGAATGTGATAATTATGGCCTAAAATATGTGAA-TATAAATGTGTGAAAATTTCAA
* * *
35540907 GCTTCGATTTAGTCGATTGCATGTGAGTTTTAGTAAATAGGAC
129 GCTTCGATTTAGTCAATTGCATGTCAGATTTAGTAAATAGGAC
35540950 TTATGTGA
1 TTATGTGA
35540958 GAAAATTTTG
Statistics
Matches: 151, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
169 2 0.01
170 125 0.83
171 24 0.16
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.32
Consensus pattern (171 bp):
TTATGTGACAGCCCAAAAGTAACCCTAGTCGGAAAGCGATCTCAGGACCGCTAAACCGAGTCACC
AAATTATTCGAATGTGATAATTATGGCCTAAAATATGTGAATATAAATGTGTGAAAATTTCAAGC
TTCGATTTAGTCAATTGCATGTCAGATTTAGTAAATAGGAC
Found at i:35542521 original size:79 final size:81
Alignment explanation
Indices: 35542385--35542569 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
35542375 TTGAATGATG
*
35542385 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35542449 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35542464 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35542526 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
35542544 ACCGGGTTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35542570 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:35542576 original size:40 final size:40
Alignment explanation
Indices: 35542385--35542569 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
35542375 TTGAATGATG
* * * * *
35542385 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
35542425 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35542465 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
35542504 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35542545 -CCGGGTTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
35542570 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 35 0.27
40 83 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35542591 original size:79 final size:79
Alignment explanation
Indices: 35542438--35542602 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
35542428 GGACTAAGAT
* **
35542438 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
35542503 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
35542517 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGTTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
35542580 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35542596 CCGAAGG
1 CCGAAGG
35542603 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35545669 original size:40 final size:40
Alignment explanation
Indices: 35545610--35545897 Score: 357
Period size: 40 Copynumber: 7.2 Consensus size: 40
35545600 CATTTGAATG
* * * *
35545610 ATATCCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
*
35545650 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
35545689 ATTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 A-TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * *
35545730 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
* *
35545770 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
35545810 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * ** *
35545850 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
35545890 ATATCCGG
1 ATATCCGG
35545898 ATAAATTCCG
Statistics
Matches: 216, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.01
40 207 0.96
41 6 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:35545827 original size:120 final size:120
Alignment explanation
Indices: 35545625--35545897 Score: 485
Period size: 120 Copynumber: 2.3 Consensus size: 120
35545615 CGGGCTATGT
* *
35545625 CCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTA
1 CCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTA
35545690 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGA
66 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGA
35545745 CCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-A
1 CCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTA
35545809 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGA
66 T-TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGA
* * *
35545865 CCCGAAGGCAATTGTGCTTGTGGTTATATCCGG
1 CCCGAAGGCAATTGTGCTAGTGATTTTATCCGG
35545898 ATAAATTCCG
Statistics
Matches: 147, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
119 2 0.01
120 145 0.99
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
CCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTA
TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGA
Found at i:35553932 original size:40 final size:40
Alignment explanation
Indices: 35553873--35554091 Score: 291
Period size: 40 Copynumber: 5.5 Consensus size: 40
35553863 CATTTGAATG
* * *
35553873 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
35553913 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
*
35553953 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
** * * *
35553993 ATCCCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
35554033 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
35554073 ATATCCGGGCTAAGACCCG
1 ATATCCGGGCTAAGACCCG
35554092 TTTTGTTGGC
Statistics
Matches: 157, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 149 0.95
41 6 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Done.