Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 351 of 362
Found at i:116362366 original size:26 final size:26
Alignment explanation
Indices: 116362337--116362389 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
116362327 TACATATGTA
* *
116362337 GAAAATGTTCCGTTCATTTTCTAATT
1 GAAAATGTTCCATTCATTGTCTAATT
*
116362363 GAAAATGTTTCATTCATTGTCTAATT
1 GAAAATGTTCCATTCATTGTCTAATT
116362389 G
1 G
116362390 CACTCTCCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (26 bp):
GAAAATGTTCCATTCATTGTCTAATT
Found at i:116365355 original size:14 final size:15
Alignment explanation
Indices: 116365325--116365359 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
116365315 AGTTTGTAAC
*
116365325 AATATAGTATTTTTT
1 AATATAGTATGTTTT
116365340 AATATAGTA-GTTTT
1 AATATAGTATGTTTT
116365354 AATATA
1 AATATA
116365360 ATAAAAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (15 bp):
AATATAGTATGTTTT
Found at i:116366155 original size:24 final size:23
Alignment explanation
Indices: 116366105--116366160 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
116366095 AAATAATGTA
* *
116366105 ATTTCAAATTTAATAATTTTTAAT
1 ATTT-AAATTTAATAATATATAAT
*
116366129 ATTTAAATTTAATAATAATATATT
1 ATTTAAATTTAATAAT-ATATAAT
*
116366153 ATTCAAAT
1 ATTTAAAT
116366161 GTCTATGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTTAAATTTAATAATATATAAT
Found at i:116370617 original size:15 final size:15
Alignment explanation
Indices: 116370599--116370628 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
116370589 CATTATTCTC
*
116370599 ATTACTTTTATTATT
1 ATTAATTTTATTATT
116370614 ATTAATTTTATTATT
1 ATTAATTTTATTATT
116370629 TGACATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTAATTTTATTATT
Found at i:116372819 original size:19 final size:19
Alignment explanation
Indices: 116372797--116372840 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
116372787 TCCTTTCTTT
*
116372797 TGCATT-CATTTCATGCATC
1 TGCATTGCATTGCAT-CATC
*
116372816 TGCATTGCATTGCATTATC
1 TGCATTGCATTGCATCATC
116372835 TGCATT
1 TGCATT
116372841 AGACTTTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (19 bp):
TGCATTGCATTGCATCATC
Found at i:116375708 original size:15 final size:15
Alignment explanation
Indices: 116375688--116375735 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
116375678 ACTATTTTAA
116375688 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
116375703 GGTTTAGGGATTATG
1 GGTTTATGGATTATG
* *
116375718 GG-TTATGGTTTAAG
1 GGTTTATGGATTATG
116375732 GGTT
1 GGTT
116375736 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.44
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:116375708 original size:22 final size:21
Alignment explanation
Indices: 116375683--116375732 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
116375673 GAGTTACTAT
*
116375683 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
116375705 TTTAGGGATTATGGGTTATGG
1 TTTAAGGATTATGGATTATGG
116375726 TTTAAGG
1 TTTAAGG
116375733 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:116375765 original size:21 final size:21
Alignment explanation
Indices: 116375708--116375766 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
116375698 TTATGGGTTT
* **
116375708 AGGGATTATGGGTTATGGTTTA
1 AGGG-TTATGGGTTAAGACTTA
*
116375730 AGGGTTG-GGGTTTAAGACTTA
1 AGGGTTATGGG-TTAAGACTTA
116375751 AGGGTTATGGGTTAAG
1 AGGGTTATGGGTTAAG
116375767 TGTAGGTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 3 0.10
21 20 0.67
22 7 0.23
ACGTcount: A:0.24, C:0.02, G:0.39, T:0.36
Consensus pattern (21 bp):
AGGGTTATGGGTTAAGACTTA
Found at i:116379160 original size:23 final size:22
Alignment explanation
Indices: 116379127--116379980 Score: 510
Period size: 23 Copynumber: 37.3 Consensus size: 22
116379117 AAATATTGTT
*
116379127 AATTGAGGTGTTAAACTGCTGCA
1 AATTGAAGTGTTAAA-TGCTGCA
* * *
116379150 AACTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTG-TTAAATGCTGCA
* *
116379173 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTG-TTAAATGCTGCA
*
116379196 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTG-TTAAATGCTGCA
* *
116379219 AATTGAAATGCTTAAATGTTGCA
1 AATTGAAGTG-TTAAATGCTGCA
* *
116379242 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTG-TTAAATGCTGCA
** *
116379265 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTG-TTAAATGCTGCA
* ** *
116379288 TATTG-AGATGTTTTATCGCTG-T
1 AATTGAAG-TGTTAAAT-GCTGCA
* * **
116379310 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGT-TAAATGCTGCA
116379333 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAA-TGCTGCA
*
116379356 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTG-TTAAATGCTGCA
116379379 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAA-TGCTGCA
* *
116379402 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTG-TTAAATGCTGCA
*
116379425 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTG-TTAAATGCTGCA
** * *
116379448 AATTGAAGTGTTTAGTTGTTGGA
1 AATTGAAGTG-TTAAATGCTGCA
* ** *
116379471 CATTG-AGATGTTTTATCGCTG-T
1 AATTGAAG-TGTTAAAT-GCTGCA
* * *
116379493 AATTGAGGTGTATAAATGTTGTA
1 AATTGAAGTGT-TAAATGCTGCA
*
116379516 AATTG-AGATGCTAAAGTGCTGCA
1 AATTGAAG-TGTTAAA-TGCTGCA
*
116379539 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTG-TTAAATGCTGCA
*
116379562 AATTGAAGTGTTAACGTGCTGCA
1 AATTGAAGTGTTAA-ATGCTGCA
* *
116379585 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTG-TTAAATGCTGCA
* *
116379608 AGTTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTG-TTAAATGCTGCA
* *
116379631 AATTGATGTGCTTAAATGTTGCA
1 AATTGAAGTG-TTAAATGCTGCA
* * *
116379654 AATTGAAGTGTTTAAGTACTACA
1 AATTGAAGTG-TTAAATGCTGCA
* * *
116379677 AATTGAAGTGTTTAAGTACTGGA
1 AATTGAAGTG-TTAAATGCTGCA
* ** *
116379700 CATTG-AGATGTTTTATCGCTG-T
1 AATTGAAG-TGTTAAAT-GCTGCA
* * **
116379722 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGT-TAAATGCTGCA
*
116379745 AATTG-AGATGTAAAAGTGCTGCA
1 AATTGAAG-TGTTAAA-TGCTGCA
*
116379768 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTG-TTAAATGCTGCA
116379791 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAA-TGCTGCA
* *
116379814 AATTGAAGTGTTTGAATGGTGCA
1 AATTGAAGTG-TTAAATGCTGCA
* * *
116379837 AATTGAAGTGTTTAAGTACTACA
1 AATTGAAGTG-TTAAATGCTGCA
** * *
116379860 AATTGAAGTGTTTAGTTGTTGGA
1 AATTGAAGTG-TTAAATGCTGCA
* **
116379883 CATTG-AGATGTTTTAT-C-GCTA
1 AATTGAAG-TGTTAAATGCTGC-A
* **
116379904 TAATTGAAGTGTTTAAATGTTGTT
1 -AATTGAAGTG-TTAAATGCTGCA
116379928 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAA-TGCTGCA
116379951 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAA-TGCTGCA
116379974 AATTGAA
1 AATTGAA
116379981 TGTAGCTGTC
Statistics
Matches: 657, Mismatches: 130, Indels: 88
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.00
21 1 0.00
22 91 0.14
23 527 0.80
24 36 0.05
25 1 0.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (22 bp):
AATTGAAGTGTTAAATGCTGCA
Found at i:116379184 original size:46 final size:47
Alignment explanation
Indices: 116379127--116379980 Score: 591
Period size: 46 Copynumber: 18.6 Consensus size: 47
116379117 AAATATTGTT
* * * * *
116379127 AATTGAGGTG-TTAAACTGCTGCAAACTGAAGTGTTTGAA-TGCTGTA
1 AATTGAAGTGCTTAAA-TGCTGTAAATTGAAGTGTTTAAAGTGCTGCA
* * *
116379173 AATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAA-TGCTGTA
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTTAAAGTGCTGCA
* * * *
116379219 AATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTT-AAGTACTGCA
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTTAAAGTGCTGCA
* ** * * * *
116379265 AATTGAAGTGTTTAGTTGCTGGATATTG-AGATGTTT-TA-TCGCTG-T
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAG-TGTTTAAAGT-GCTGCA
* * *
116379310 AATTGAGGTG-TATAAATGTTGTTAATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAGTGCT-TAAATGCTGTAAATTGAAG-TGTTTAAAGTGCTGCA
116379356 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTTAAAGTGCTGCA
* * * *
116379402 AATTGAAGTGTTTGAATGCTGTAAATTGAAGTGCTTAAA-TGTTGCA
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTTAAAGTGCTGCA
* ** * * * * *
116379448 AATTGAAGTGTTTAGTTGTTGGACATTG-AGATGTTT-TA-TCGCTG-T
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAG-TGTTTAAAGT-GCTGCA
* * *
116379493 AATTGAGGTG-TATAAATGTTGTAAATTG-AGATG-CTAAAGTGCTGCA
1 AATTGAAGTGCT-TAAATGCTGTAAATTGAAG-TGTTTAAAGTGCTGCA
*
116379539 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTG-TTAACGTGCTGCA
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTTAAAGTGCTGCA
* * * *
116379585 AATTGAAGTGTTTGAATGCTGTAAGTTGAAGTGTTTAAA-TGCTGTA
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTTAAAGTGCTGCA
* * * * *
116379631 AATTGATGTGCTTAAATGTTGCAAATTGAAGTGTTT-AAGTACTACA
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTTAAAGTGCTGCA
* * * * * * *
116379677 AATTGAAGTGTTTAAGTACTGGACATTG-AGATGTTT-TA-TCGCTG-T
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAG-TGTTTAAAGT-GCTGCA
* * * *
116379722 AATTGAGGTG-TATAAATGTTGTTAATTG-AGATG-TAAAAGTGCTGCA
1 AATTGAAGTGCT-TAAATGCTGTAAATTGAAG-TGTTTAAAGTGCTGCA
116379768 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTTAAAGTGCTGCA
* * * * * *
116379814 AATTGAAGTGTTTGAATGGTGCAAATTGAAGTGTTT-AAGTACTACA
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTTAAAGTGCTGCA
* ** * * * *
116379860 AATTGAAGTGTTTAGTTGTTGGACATTG-AGATGTTT-TA-T-C-GCTA
1 AATTGAAGTGCTTAAATGCTGTAAATTGAAG-TGTTTAAAGTGCTGC-A
* * *
116379904 TAATTGAAGTGTTTAAATGTTGTTAATTG-AGATG-TTAAAGTGCTGCA
1 -AATTGAAGTGCTTAAATGCTGTAAATTGAAG-TGTTTAAAGTGCTGCA
*
116379951 AATTGAAGTG-TTAAAGTGCTGCAAATTGAA
1 AATTGAAGTGCTTAAA-TGCTGTAAATTGAA
116379981 TGTAGCTGTC
Statistics
Matches: 648, Mismatches: 121, Indels: 77
0.77 0.14 0.09
Matches are distributed among these distances:
43 1 0.00
44 11 0.02
45 140 0.22
46 467 0.72
47 27 0.04
48 2 0.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (47 bp):
AATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTTAAAGTGCTGCA
Found at i:116379399 original size:114 final size:115
Alignment explanation
Indices: 116379190--116379454 Score: 299
Period size: 114 Copynumber: 2.3 Consensus size: 115
116379180 GTGTTTGAAT
* * *
116379190 GCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTT
1 GCTGTAAATTGAAGTGTATAAATGCTGTAAATTGAAATGCTTAAATGCTGCAAATTGAAGTGCTT
* *
116379255 AAGTACTGCAAATTGAAGTGTTTAGTTGCTGGATATTGAGATGTTTTATC
66 AAATACTGCAAATTGAAGTGTTAAGTTGCTGGATATTGAGATGTTTTATC
* * * *
116379305 GCTGT-AATTGAGGTGTATAAATGTTGTTAATTGAGATG-TTAAAGTGCTGCAAATTGAAGTGCT
1 GCTGTAAATTGAAGTGTATAAATGCTGTAAATTGAAATGCTTAAA-TGCTGCAAATTGAAGTGCT
* * * * *
116379368 TAAATGCTGTAAATTGAAGTGTTAAAG-TGCTGCAAATTGA-AGTGTTTGAAT-
65 TAAATACTGCAAATTGAAGTGTT-AAGTTGCTGGATATTGAGA-TGTTT-TATC
* *
116379419 GCTGTAAATTGAAGTGCT-TAAATGTTGCAAATTGAA
1 GCTGTAAATTGAAGTG-TATAAATGCTGTAAATTGAA
116379455 GTGTTTAGTT
Statistics
Matches: 126, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
113 6 0.05
114 86 0.68
115 33 0.26
116 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (115 bp):
GCTGTAAATTGAAGTGTATAAATGCTGTAAATTGAAATGCTTAAATGCTGCAAATTGAAGTGCTT
AAATACTGCAAATTGAAGTGTTAAGTTGCTGGATATTGAGATGTTTTATC
Found at i:116379434 original size:183 final size:183
Alignment explanation
Indices: 116379166--116379980 Score: 789
Period size: 183 Copynumber: 4.5 Consensus size: 183
116379156 AGTGTTTGAA
* * * * *
116379166 TGCTGTAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAATGC
1 TGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGC
* * * * * *
116379230 TTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGATATTGAG
65 TTAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAGTTGTTGGAAATTGAG
*
116379295 ATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAG
130 ATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTAAATTGAGATGTTAAAG
*
116379349 TGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTT
1 TGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGCT
* * * *
116379414 TGAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAGTTGTTGGACATTGAGA
66 TAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAGTTGTTGGAAATTGAGA
*
116379479 TGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTAAATTGAGATGCTAAAG
131 TGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTAAATTGAGATGTTAAAG
* *
116379532 TGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAACGTGCTGCAAATTGAAGTGTT
1 TGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGCT
* * * * * ** *
116379597 TGAATGCTGTAAGTTGAAGTGTTTAAATGCTGTAAATTGATGTGCTTAAATGTTGCAAATTGA-A
66 TAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAGTTGTTGGAAATTGAGA
* * ** * * * ** * * **
116379661 GTGTTTAAGT-ACTACAAATTGAAGTGTTTAAGTACTGGACATTGAGATGTTTTA-
131 -TGTTTTA-TCGCT-GTAATTGAGGTGTATAAATGTTGTAAATTGAGATGTTAAAG
* * * * *
116379715 TCGCTG-TAATTGAGGTG-TATAAATGTTGTTAATTG-AGATGTAAAAGTGCTGCAAATTGAAGT
1 T-GCTGCAAATTGAAGTGCT-TAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGT
* * *
116379777 GCTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTT-GAATGGTGCAAAT
63 GCTTAAATGCTGTAAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAG-TTGTTGGAAAT
* * ** * * ** * * **
116379840 TGA-AGTGTTTAAGT-ACTACAAATTGAAGTGTTTAGTTGTTGGACATTGAGATGTTTTA-
126 TGAGA-TGTTTTA-TCGCT-GTAATTGAGGTGTATAAATGTTGTAAATTGAGATGTTAAAG
* * *
116379898 T-C-GCTATAATTGAAGTGTTTAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGT
1 TGCTGC-A-AATTGAAGTGCTTAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGT
*
116379960 G-TTAAAGTGCTGCAAATTGAA
63 GCTTAAA-TGCTGTAAATTGAA
116379981 TGTAGCTGTC
Statistics
Matches: 554, Mismatches: 64, Indels: 28
0.86 0.10 0.04
Matches are distributed among these distances:
180 1 0.00
181 1 0.00
182 19 0.03
183 499 0.90
184 34 0.06
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (183 bp):
TGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGCT
TAAATGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAGTTGTTGGAAATTGAGA
TGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTAAATTGAGATGTTAAAG
Found at i:116379583 original size:229 final size:227
Alignment explanation
Indices: 116379127--116379872 Score: 851
Period size: 229 Copynumber: 3.3 Consensus size: 227
116379117 AAATATTGTT
* * * *
116379127 AATTGAGGTG-TTAAACTGCTGCAAACTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTGAATG
1 AATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTGAATG
* * * * * *
116379191 CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAATTGA-AGTGTTT
65 CTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-TTTAGTGTTGGACATTGAGA-TGTTT
* * * * * ** * * * ** * *
116379255 AAGT-ACTGCAAATTGAAGTGTTTAGTTGCTGGATATTGAGATGTTTTA-TCGCTG-TAATTGAG
128 TA-TCGCTG-TAATTGAGGTGTATAAATGTTGTAAATTGAGATG-TAAAGT-GCTGCAAATTGAA
* *
116379317 GTG-TATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCA
189 GTGCT-TAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCA
* *
116379356 AATTGAAGTGCTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATG
1 AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTGAATG
* *
116379420 CTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAGTTGTTGGACATTGAGATGTTTT
65 CTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAG-TGTTGGACATTGAGATGTTTT
116379485 ATCGCTGTAATTGAGGTGTATAAATGTTGTAAATTGAGATGCTAAAGTGCTGCAAATTGAAGTGC
129 ATCGCTGTAATTGAGGTGTATAAATGTTGTAAATTGAGATG-TAAAGTGCTGCAAATTGAAGTGC
*
116379550 TTAAATGCTGTAAATTGAAGTGTTAACGTGCTGCA
193 TTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
* * * * * * * *
116379585 AATTGAAGTGTTTGAATGCTGTAAGTTGAAGTGTTTAAATGCTGTAAATTGATGTGCTTAAATGT
1 AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTGAATGC
* * * * **
116379650 TGCAAATTGAAGTGTTTAAGTACTACAAATTGAAGTGTTTAAGTACTGGACATTGAGATGTTTTA
66 TGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTT-AGTGTTGGACATTGAGATGTTTTA
*
116379715 TCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCT
130 TCGCTGTAATTGAGGTGTATAAATGTTGTAAATTGAGATGT-AAAGTGCTGCAAATTGAAGTGCT
116379780 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
194 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
* * * * *
116379814 AATTGAAGTGTTTGAATGGTGCAAATTGAAGTGTTTAAGTACTACAAATTGAAGTGTTT
1 AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTT
116379873 AGTTGTTGGA
Statistics
Matches: 447, Mismatches: 58, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
228 41 0.09
229 390 0.87
230 16 0.04
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (227 bp):
AATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTGAATGC
TGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAGTGTTGGACATTGAGATGTTTTAT
CGCTGTAATTGAGGTGTATAAATGTTGTAAATTGAGATGTAAAGTGCTGCAAATTGAAGTGCTTA
AATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
Found at i:116379923 original size:412 final size:412
Alignment explanation
Indices: 116379127--116379980 Score: 1428
Period size: 412 Copynumber: 2.1 Consensus size: 412
116379117 AAATATTGTT
* * *
116379127 AATTGAGGTGTTAAACTGCTGCAAACTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTGAATGC
1 AATTGAAGTGTTAAACTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTGAATGC
116379192 TGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTTAA
66 TGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTTAA
* * *
116379257 GTACTGCAAATTGAAGTGTTTAGTTGCTGGATATTGAGATGTTTTATCGCTGTAATTGAGGTGTA
131 GTACTACAAATTGAAGTGTTTAGTTACTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTA
*
116379322 TAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAG
196 TAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAG
* ** *
116379387 TGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATT
261 TGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGCTTAAATACTACAAATT
* *
116379452 GAAGTGTTTAGTTGTTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTAA
326 GAAGTGTTTAGTTGTTGGACATTGAGATGTTTTATCGCTATAATTGAAGTGTATAAATGTTGTAA
116379517 ATTGAGATGCTAAAGTGCTGCA
391 ATTGAGATGCTAAAGTGCTGCA
*
116379539 AATTGAAGTGCTTAAA-TGCTGTAAATTGAAGTG-TT-AACGTGCTGCAAATTGAAGTGTTTGAA
1 AATTGAAGTG-TTAAACTGCTGCAAATTGAAGTGTTTGAA--TGCTGCAAATTGAAGTGTTTGAA
* **
116379601 TGCTGTAAGTTGAAGTGTTTAAATGCTGTAAATTGATGTGCTTAAATGTTGCAAATTGAAGTGTT
63 TGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAATTGAAGTGTT
116379666 TAAGTACTACAAATTGAAGTGTTTAAG-TACTGGACATTGAGATGTTTTATCGCTGTAATTGAGG
128 TAAGTACTACAAATTGAAGTGTTT-AGTTACTGGACATTGAGATGTTTTATCGCTGTAATTGAGG
116379730 TGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATT
192 TGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATT
* * *
116379795 GAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGGTGCAAATTGAAGTGTTTAAGTACTACA
257 GAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGCTTAAATACTACA
*
116379860 AATTGAAGTGTTTAGTTGTTGGACATTGAGATGTTTTATCGCTATAATTGAAGTGTTTAAATGTT
322 AATTGAAGTGTTTAGTTGTTGGACATTGAGATGTTTTATCGCTATAATTGAAGTGTATAAATGTT
* *
116379925 GTTAATTGAGATGTTAAAGTGCTGCA
387 GTAAATTGAGATGCTAAAGTGCTGCA
*
116379951 AATTGAAGTGTTAAAGTGCTGCAAATTGAA
1 AATTGAAGTGTTAAACTGCTGCAAATTGAA
116379981 TGTAGCTGTC
Statistics
Matches: 413, Mismatches: 24, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
410 2 0.00
411 7 0.02
412 397 0.96
413 7 0.02
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (412 bp):
AATTGAAGTGTTAAACTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTGAATGC
TGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAATGCTTAAATGTTGCAAATTGAAGTGTTTAA
GTACTACAAATTGAAGTGTTTAGTTACTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTA
TAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAG
TGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGCTTAAATACTACAAATT
GAAGTGTTTAGTTGTTGGACATTGAGATGTTTTATCGCTATAATTGAAGTGTATAAATGTTGTAA
ATTGAGATGCTAAAGTGCTGCA
Found at i:116380306 original size:42 final size:43
Alignment explanation
Indices: 116380241--116380349 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 43
116380231 ATAATTTTTT
116380241 TAAAGGTTATATTCTTTAGCGGCGTTTGT-GGAAAAAGTGCCGC
1 TAAAGGTTATATTCTTTAGCGGCGTTTGTAGG-AAAAGTGCCGC
* *
116380284 TAAAGGTT-TATT-TTATAGCGGCGTTTGTAGGAAAAGTGCTGT
1 TAAAGGTTATATTCTT-TAGCGGCGTTTGTAGGAAAAGTGCCGC
*
116380326 TAAAGGTTATGACT-TTTAGCGGCG
1 TAAAGGTTAT-ATTCTTTAGCGGCG
116380350 CTTTTCCAAC
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
41 2 0.03
42 34 0.58
43 19 0.32
44 4 0.07
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (43 bp):
TAAAGGTTATATTCTTTAGCGGCGTTTGTAGGAAAAGTGCCGC
Found at i:116380386 original size:43 final size:43
Alignment explanation
Indices: 116380334--116380428 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
116380324 GTTAAAGGTT
* * *
116380334 ATGACTTTTAGCGGCGCTTTTCCAACAAATGTCGCTAAAAGCC
1 ATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAACC
* * * *
116380377 ATGATTTTTAGCTGTGCTTTTCCCACAAACGCCGCTAAAAACC
1 ATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAACC
116380420 ATGACTTTT
1 ATGACTTTT
116380429 CGCAGCGTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (43 bp):
ATGACTTTTAGCGGCGCTTTTCCAACAAACGCCGCTAAAAACC
Found at i:116381221 original size:3 final size:3
Alignment explanation
Indices: 116381203--116381242 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
116381193 TTAAAAAAAA
* * *
116381203 AAG AAA AAG AAA AAG AAG AAG AAG AAA AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
116381243 TCATGGAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:116381221 original size:15 final size:15
Alignment explanation
Indices: 116381197--116381242 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
116381187 CAAATCTTAA
* *
116381197 AAAAAAAAGAAAAAG
1 AAAAAGAAGAAGAAG
116381212 AAAAAGAAGAAGAAG
1 AAAAAGAAGAAGAAG
116381227 AAAAAGAAGAAGAAG
1 AAAAAGAAGAAGAAG
116381242 A
1 A
116381243 TCATGGAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAAGAAGAAGAAG
Found at i:116383051 original size:66 final size:66
Alignment explanation
Indices: 116382929--116383057 Score: 186
Period size: 66 Copynumber: 2.0 Consensus size: 66
116382919 ATTCATATAT
* * * *
116382929 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCGATCATAACATTCTAATTATTTGAC
1 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCAGAACATCCTAATCATTTGAC
116382994 A
66 A
* * **
116382995 CATTCATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATTAGAGTATCCTAATCATTTG
1 CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCAGAACATCCTAATCATTTG
116383058 GCATAAGTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (66 bp):
CATTCATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCAGAACATCCTAATCATTTGAC
A
Found at i:116383159 original size:44 final size:44
Alignment explanation
Indices: 116383093--116383247 Score: 152
Period size: 44 Copynumber: 3.5 Consensus size: 44
116383083 TAGATTTTAT
*
116383093 CCCCCTAAGCAGTAAGGAAACAGATCGAAGGTGACAAGCCTTAA
1 CCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAA
* * * * * * * *
116383137 CCCCCTAAGTAGTAGGGTAACAG-GCTGAAGATTTA-TAGATCTTAT
1 CCCCCTAAGCAGTAGGGAAACAGATC-GAAG-GTGACAAG-CCTTAA
* * *
116383182 CCCCCTAAGCAATAGGGAAACAGATCGAAGGTGACGAGCTTTAA
1 CCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAA
*
116383226 CCCCCTAAGCAGTAGGGTAACA
1 CCCCCTAAGCAGTAGGGAAACA
116383248 AGCTAAAGTT
Statistics
Matches: 85, Mismatches: 21, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
43 1 0.01
44 51 0.60
45 32 0.38
46 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (44 bp):
CCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAA
Found at i:116383230 original size:89 final size:88
Alignment explanation
Indices: 116383079--116383295 Score: 326
Period size: 89 Copynumber: 2.5 Consensus size: 88
116383069 TGAAACTGAT
* *
116383079 TTTATAGATTTTATCCCCCTAAGCAGTAAGGAAACAGATCGAAGGTGACAAGCCTTAACCCCCTA
1 TTTATAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAACCCCCTA
* * *
116383144 AGTAGTAGGGTAACAGGCTGAAG
66 AGCAGTAGGGTAACAAGCTAAAG
* * *
116383167 ATTTATAGATCTTATCCCCCTAAGCAATAGGGAAACAGATCGAAGGTGACGAGCTTTAACCCCCT
1 -TTTATAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAACCCCCT
116383232 AAGCAGTAGGGTAACAAGCTAAAG
65 AAGCAGTAGGGTAACAAGCTAAAG
* * *
116383256 TTCATAGATCTTATCACCCTAAGCAGTAGGGAAGCAGATC
1 TTTATAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATC
116383296 AAAAGATGGC
Statistics
Matches: 116, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
88 36 0.31
89 80 0.69
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (88 bp):
TTTATAGATCTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTTAACCCCCTA
AGCAGTAGGGTAACAAGCTAAAG
Found at i:116383276 original size:44 final size:44
Alignment explanation
Indices: 116383132--116383286 Score: 143
Period size: 44 Copynumber: 3.5 Consensus size: 44
116383122 GGTGACAAGC
* * * *
116383132 CTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTTATAGAT
1 CTTATCCCCCTAAGCAGTAGGGTAACAAGCTGAAG-TTCATAGAT
* * * * * * *
116383177 CTTATCCCCCTAAGCAATAGGGAAAC-AGATCGAAGGTGA-CGAG
1 CTTATCCCCCTAAGCAGTAGGGTAACAAGCT-GAAGTTCATAGAT
* *
116383220 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAAGTTCATAGAT
1 C-TTATCCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAGAT
*
116383265 CTTATCACCCTAAGCAGTAGGG
1 CTTATCCCCCTAAGCAGTAGGG
116383287 AAGCAGATCA
Statistics
Matches: 85, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
43 3 0.04
44 50 0.59
45 32 0.38
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (44 bp):
CTTATCCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAGAT
Found at i:116383427 original size:45 final size:43
Alignment explanation
Indices: 116383355--116383503 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
116383345 ACCACCAAGC
* * * * * *
116383355 CTTAATCCCCTAAGTAGTAGGGTAACAGGTTGAAGATCTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGAT-GA-AGAT
* *
116383400 TTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
* * **
116383443 CTTATCACCCTAAGCAGTAGGGAAACAGATC-AA-ATG--GGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
116383482 CTTAACCCCCTAAGCAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGG
116383504 TAATAGGTTG
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 21 0.24
41 3 0.03
42 2 0.02
43 31 0.35
44 1 0.01
45 31 0.35
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGAT
Found at i:116383799 original size:87 final size:87
Alignment explanation
Indices: 116383611--116383817 Score: 247
Period size: 87 Copynumber: 2.4 Consensus size: 87
116383601 CAAACCACCA
** * * * * *
116383611 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGATGAAGTTTATAGATATTATTGCCCTAAGTAGT
1 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAG-CCAAATTTACAGACATTAATGCCCTAAGCAGT
* *
116383676 AGGGAAACAGATCGAAGATGATG
65 AGGGAAACAGATCGAAGACGACG
* * * *
116383699 GGC-TAAACCCCCTAAGCGGTAGGGTAACAAGCCAAATTTACAGACCTTGAAT-CCCTAAGCAGT
1 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACATT-AATGCCCTAAGCAGT
*
116383762 AGGGAAACAGATCGAAGGCGACG
65 AGGGAAACAGATCGAAGACGACG
*
116383785 AGCTTTAACTCCCTAAGCAGTAGGGTAACAAGC
1 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGC
116383818 TGACGTTCAT
Statistics
Matches: 99, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
86 43 0.43
87 54 0.55
88 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (87 bp):
AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAGACATTAATGCCCTAAGCAGTA
GGGAAACAGATCGAAGACGACG
Found at i:116386085 original size:15 final size:15
Alignment explanation
Indices: 116386067--116386096 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
116386057 CATTATTCTC
*
116386067 ATTACTTTTATTATT
1 ATTAATTTTATTATT
116386082 ATTAATTTTATTATT
1 ATTAATTTTATTATT
116386097 TGACATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTAATTTTATTATT
Found at i:116390636 original size:3 final size:3
Alignment explanation
Indices: 116390628--116390681 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
116390618 AACCTTCACA
* * * *
116390628 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TTT TAC TAT CTAA TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
116390673 TAT TAT TAT
1 TAT TAT TAT
116390682 ACTTATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:116390786 original size:18 final size:17
Alignment explanation
Indices: 116390739--116390792 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
116390729 TTATTATACG
*
116390739 TATATA-TATACTTTTA
1 TATATAGTATATTTTTA
116390755 TATATAGTATTATTTTTA
1 TATATAGTA-TATTTTTA
*
116390773 TATATCATTATATTTATTA
1 TATAT-AGTATATTT-TTA
116390792 T
1 T
116390793 TATGCTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 17 0.53
19 7 0.22
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATAGTATATTTTTA
Found at i:116391407 original size:18 final size:18
Alignment explanation
Indices: 116391386--116391440 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 18
116391376 ATTTGGATCC
116391386 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
116391404 C-AAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
* *
116391421 AAAAAATTCTCGT-TTTT
1 CAAAAATTTTCGTGTTTT
116391438 CAA
1 CAA
116391441 TCGGATCACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (18 bp):
CAAAAATTTTCGTGTTTT
Found at i:116402876 original size:75 final size:75
Alignment explanation
Indices: 116402722--116403212 Score: 629
Period size: 75 Copynumber: 6.6 Consensus size: 75
116402712 ATTTTTACGG
* * * * * * *
116402722 TTCAAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACATGTTGAGGTATTTT
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGACACGCTGAGGTAATTT
*
116402787 CAATTTCTGCCT
64 CAATTTCTGTCT
*
116402799 TTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
116402864 ATTTCTGTCT
66 ATTTCTGTCT
* *
116402874 TTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGATAAT
1 TTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
**
116402939 TTTTATTTCTG--T
62 TTCAATTTCTGTCT
* * * * * * *
116402951 TTC--AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
116403014 ATTTCTGTCT
66 ATTTCTGTCT
* *
116403024 TTC-AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
116403088 ATTTCTGTCT
66 ATTTCTGTCT
* **
116403098 TTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTT
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
*
116403163 ATCTCTGT-T
66 ATTTCTGTCT
*
116403172 TTC--AAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTC
1 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
116403213 GGATCACATG
Statistics
Matches: 366, Mismatches: 40, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
71 56 0.15
72 36 0.10
73 4 0.01
74 70 0.19
75 92 0.25
76 2 0.01
77 42 0.11
79 64 0.17
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (75 bp):
TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTCTGTCT
Found at i:116403061 original size:74 final size:74
Alignment explanation
Indices: 116402726--116403331 Score: 613
Period size: 75 Copynumber: 7.9 Consensus size: 74
116402716 TTACGGTTCA
* * * * * *
116402726 AAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACTGACATGTTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GGACACGCTGAGGTATTTTCAAT
*
116402791 TTCTGCCTTTC
64 TTCTGTCTTTC
* *
116402802 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
116402867 TCTGTCTTTC
65 TCTGTCTTTC
* *
116402877 AAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGATAATTTT
1 -----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTT
*
116402942 -TATTTCTG--TTTC
60 CAATTTCTGTCTTTC
* * * * * *
116402954 -AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
116403018 CTGTCTTTC
66 CTGTCTTTC
* * *
116403027 AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
116403092 CTGTCTTTC
66 CTGTCTTTC
*
116403101 AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-TAT
1 AAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAAT
*
116403165 CTCTGT-TTTC
64 TTCTGTCTTTC
*
116403175 -AAAAATCAACTCATATTGCGAGAGGTGAGTGGAGCCTC-GGATCACATG-TCGAGGTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CAC--GCT-GAGGTATTTTC-
*
116403237 AATTTTGCTTTTCAAATTAAGTTTC
61 AA-TTT-C-TGTC--------TTTC
* * *
116403262 -AAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGCTCACACGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAA
116403325 TTTCTGT
63 TTTCTGT
116403332 TTTTAATGTC
Statistics
Matches: 452, Mismatches: 44, Indels: 60
0.81 0.08 0.11
Matches are distributed among these distances:
70 5 0.01
71 55 0.12
72 37 0.08
73 13 0.03
74 80 0.18
75 85 0.19
76 8 0.02
77 39 0.09
78 2 0.00
79 59 0.13
80 4 0.01
83 2 0.00
84 1 0.00
85 3 0.01
86 2 0.00
87 52 0.12
88 1 0.00
89 3 0.01
90 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
CTGTCTTTC
Found at i:116404993 original size:23 final size:23
Alignment explanation
Indices: 116404966--116405011 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
116404956 TTTTTACATA
116404966 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
116404989 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
116405012 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:116404998 original size:14 final size:14
Alignment explanation
Indices: 116404975--116405051 Score: 50
Period size: 15 Copynumber: 5.4 Consensus size: 14
116404965 ATTATTAATA
116404975 TTATTACTATTATT
1 TTATTACTATTATT
*
116404989 TTATTTCTATTATT
1 TTATTACTATTATT
* *
116405003 ATCTT--TATTATT
1 TTATTACTATTATT
* * *
116405015 ACTGTTAGTATTATT
1 -TTATTACTATTATT
*
116405030 TTCATTACTGTTATTT
1 TT-ATTACTATTA-TT
116405046 TTATTA
1 TTATTA
116405052 ACATATTAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
12 7 0.14
13 3 0.06
14 17 0.35
15 18 0.37
16 4 0.08
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.64
Consensus pattern (14 bp):
TTATTACTATTATT
Found at i:116405139 original size:14 final size:13
Alignment explanation
Indices: 116405111--116405169 Score: 52
Period size: 12 Copynumber: 4.7 Consensus size: 13
116405101 CTAGTTTTAT
*
116405111 TATTAT-TATGAA
1 TATTATATATGTA
*
116405123 TATTAGTGTATGTA
1 TATTA-TATATGTA
116405137 TATTATATATGTA
1 TATTATATATGTA
* *
116405150 T-GTATATATGTT
1 TATTATATATGTA
116405162 TA-TATATA
1 TATTATATA
116405170 GTACTATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 21 0.52
13 9 0.22
14 10 0.25
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.53
Consensus pattern (13 bp):
TATTATATATGTA
Found at i:116405371 original size:8 final size:9
Alignment explanation
Indices: 116405358--116405408 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 9
116405348 GTTTTCAATA
116405358 TTATAT-TT
1 TTATATATT
116405366 TTATATATT
1 TTATATATT
116405375 ATTATATATT
1 -TTATATATT
116405385 TTAGTATTATT
1 TTA-TA-TATT
116405396 AGTTATATATT
1 --TTATATATT
116405407 TT
1 TT
116405409 TTTATACTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 6 0.16
9 7 0.19
10 11 0.30
11 8 0.22
12 2 0.05
13 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (9 bp):
TTATATATT
Found at i:116405373 original size:15 final size:16
Alignment explanation
Indices: 116405336--116405376 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
116405326 TTCATATATG
116405336 TTATATA-TATATGTT
1 TTATATATTATATGTT
116405351 TTCA-ATATTATAT-TT
1 TT-ATATATTATATGTT
116405366 TTATATATTAT
1 TTATATATTAT
116405377 TATATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.04
15 16 0.70
16 6 0.26
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (16 bp):
TTATATATTATATGTT
Found at i:116405377 original size:18 final size:18
Alignment explanation
Indices: 116405356--116405423 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 18
116405346 ATGTTTTCAA
116405356 TATTATATTTTTATATAT
1 TATTATATTTTTATATAT
116405374 TATTATATATTTTAGTATTAT
1 TATTATAT-TTTTA-TA-TAT
* *
116405395 TAGTTATATATTTTTTTATAC
1 TA--T-TATATTTTTATATAT
116405416 TATTATAT
1 TATTATAT
116405424 GCATATTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
18 13 0.31
19 6 0.14
20 2 0.05
21 9 0.21
22 2 0.05
23 5 0.12
24 5 0.12
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (18 bp):
TATTATATTTTTATATAT
Found at i:116405404 original size:22 final size:19
Alignment explanation
Indices: 116405356--116405483 Score: 78
Period size: 22 Copynumber: 6.0 Consensus size: 19
116405346 ATGTTTTCAA
116405356 TATTATAT-TTTTATATAT
1 TATTATATATTTTATATAT
116405374 TATTATATATTTTAGTATTAT
1 TATTATATATTTTA-TA-TAT
* *
116405395 TAGTTATATATTTTTTTATAC
1 TA-TTATATA-TTTTATATAT
116405416 TATTATATGCATATTTATAATATT
1 TATTATAT--AT-TTTAT-ATA-T
*
116405440 ATATTGTATATTTCTAATACTAT
1 -TATTATATATTT-T-ATA-TAT
*
116405463 TATTTATATATGTATATATAT
1 TA-TTATATAT-TTTATATAT
116405484 GTATGTGTGT
Statistics
Matches: 87, Mismatches: 7, Indels: 29
0.71 0.06 0.24
Matches are distributed among these distances:
18 8 0.09
19 5 0.06
20 8 0.09
21 13 0.15
22 21 0.24
23 20 0.23
24 5 0.06
25 7 0.08
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (19 bp):
TATTATATATTTTATATAT
Found at i:116405452 original size:21 final size:21
Alignment explanation
Indices: 116405409--116405471 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
116405399 TATATATTTT
* *
116405409 TTTATACTATTATA-TGCATA
1 TTTATAATATTATATTGTATA
116405429 TTTATAATATTATATTGTATA
1 TTTATAATATTATATTGTATA
* *
116405450 TTTCTAATACTATTATT-TATA
1 TTTATAATATTA-TATTGTATA
116405471 T
1 T
116405472 ATGTATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 13 0.35
21 20 0.54
22 4 0.11
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (21 bp):
TTTATAATATTATATTGTATA
Found at i:116405717 original size:31 final size:32
Alignment explanation
Indices: 116405657--116405718 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
116405647 CCATCTTATG
* **
116405657 TATATTTTTAAATACAATATTGTGTATATATA
1 TATATTCTTAAATACAATATTGTACATATATA
*
116405689 TATATTCTTAAA-ACCATATTGTACATATAT
1 TATATTCTTAAATACAATATTGTACATATAT
116405719 CATTATTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (32 bp):
TATATTCTTAAATACAATATTGTACATATATA
Found at i:116406898 original size:23 final size:22
Alignment explanation
Indices: 116406860--116406907 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
116406850 ACATATATAA
* *
116406860 ATAATAATGGTATTAGAAGTAT
1 ATAATAATAGTATTAGAAATAT
116406882 ATAATATATAGTATTAGAAATAT
1 ATAATA-ATAGTATTAGAAATAT
116406905 ATA
1 ATA
116406908 CACAAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (22 bp):
ATAATAATAGTATTAGAAATAT
Found at i:116406969 original size:17 final size:16
Alignment explanation
Indices: 116406947--116406980 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
116406937 ATGACATTAA
116406947 AATATATACATAATAAT
1 AATATATACATAA-AAT
*
116406964 AATATATATATAAAAT
1 AATATATACATAAAAT
116406980 A
1 A
116406981 TTAGAAGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
AATATATACATAAAAT
Found at i:116407125 original size:16 final size:16
Alignment explanation
Indices: 116407100--116407138 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
116407090 TGATAAAACT
*
116407100 ACATAAATATATACAC
1 ACATATATATATACAC
*
116407116 ACATATATATATATAC
1 ACATATATATATACAC
*
116407132 ATATATA
1 ACATATA
116407139 ATAACATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (16 bp):
ACATATATATATACAC
Found at i:116413847 original size:26 final size:26
Alignment explanation
Indices: 116413811--116413920 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
116413801 TGATACAAAT
*
116413811 TGATAATAGGTTAAGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
116413837 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
116413863 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
116413889 TGATAATTGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
116413915 TGATAA
1 TGATAA
116413921 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:116415952 original size:137 final size:137
Alignment explanation
Indices: 116415706--116415981 Score: 507
Period size: 137 Copynumber: 2.0 Consensus size: 137
116415696 GAGTAGCCTC
*
116415706 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * * *
116415771 TGTTATCTGAATAAGGGGCTAAGGCCCGGTTTATTGTAATCTGAAAAGGGTTCTTGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
116415836 ACTGTTA
131 ACTGTTA
116415843 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
116415908 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
116415973 ACTGTTA
131 ACTGTTA
116415980 CC
1 CC
116415982 TGTATAGGCC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 134 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:116416195 original size:22 final size:22
Alignment explanation
Indices: 116416160--116416216 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
116416150 CATGAAGCAA
116416160 CCCCATA-CCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
116416181 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
* *
116416203 TCCCATACCTCCAC
1 CCCCATACCCCCAC
116416217 AGTCCTCGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 7 0.21
22 26 0.79
ACGTcount: A:0.30, C:0.54, G:0.04, T:0.12
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:116416635 original size:11 final size:12
Alignment explanation
Indices: 116416607--116416645 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
116416597 CTTATAAACT
116416607 AATAAAATAAACA
1 AATAAAATAAA-A
*
116416620 AATAACA-AAAA
1 AATAAAATAAAA
116416631 AATAAAATAAAA
1 AATAAAATAAAA
116416643 AAT
1 AAT
116416646 TAGAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 7 0.30
12 10 0.43
13 6 0.26
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAAAATAAAA
Found at i:116417295 original size:26 final size:26
Alignment explanation
Indices: 116417261--116417326 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
116417251 CCTATTACTT
116417261 TATTCTTATTTTATTTTTATATCATTA
1 TATT-TTATTTTATTTTTATATCATTA
** *
116417288 TATTTTA-TCCACTTTTTATATTATTA
1 TATTTTATTTTA-TTTTTATATCATTA
*
116417314 TATTAT-TTTTATT
1 TATTTTATTTTATT
116417327 ACTATGGTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
25 4 0.13
26 23 0.74
27 4 0.13
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (26 bp):
TATTTTATTTTATTTTTATATCATTA
Found at i:116419157 original size:137 final size:137
Alignment explanation
Indices: 116418907--116419196 Score: 535
Period size: 137 Copynumber: 2.1 Consensus size: 137
116418897 CGTCGCTACA
116418907 TTACCCAAATGGGCTTGCATATGTTTACTGATGTTGCACGTATTTTGAAATGGGCCTATGGGCCA
1 TTACCCAAATGGGCTTGCATATGTTTACTGATGTTGCACGTATTTTGAAATGGGCCTATGGGCCA
*
116418972 TACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAAT
66 TACTATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAAT
116419037 ACCACTG
131 ACCACTG
116419044 TTACCCAAATGGGCTTGCATATGTTTACTGATGTTGCACGTATTTTGAAATGGGCCTATGGGCCA
1 TTACCCAAATGGGCTTGCATATGTTTACTGATGTTGCACGTATTTTGAAATGGGCCTATGGGCCA
* *
116419109 TACTATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGT
66 TACTATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAAT
116419174 ACCACTG
131 ACCACTG
**
116419181 TTACCTGAATGGGCTT
1 TTACCCAAATGGGCTT
116419197 AGGCCCAATG
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (137 bp):
TTACCCAAATGGGCTTGCATATGTTTACTGATGTTGCACGTATTTTGAAATGGGCCTATGGGCCA
TACTATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAAT
ACCACTG
Found at i:116423009 original size:26 final size:26
Alignment explanation
Indices: 116422973--116423082 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 26
116422963 TGATACAAAT
*
116422973 TGATAATAGGTTAGGTAAATGTTCCG
1 TGATAATAGGTTAGGTAAATGTTCCA
*
116422999 TAATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
116423025 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
116423051 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
116423077 TGATAA
1 TGATAA
116423083 GAATTTCATG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:116424597 original size:26 final size:26
Alignment explanation
Indices: 116424568--116424620 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
116424558 ATTATAGTTT
116424568 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
116424594 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
116424620 T
1 T
116424621 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:116425114 original size:137 final size:137
Alignment explanation
Indices: 116424868--116425291 Score: 758
Period size: 137 Copynumber: 3.1 Consensus size: 137
116424858 GAGTAGTCTC
* *
116424868 CCCAAATGGGCTTGCATATGTTTATTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
116424933 TGTTATCTGAATAAGGGGCTAAGGCCCGGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
116424998 ACTGTTA
131 ACTGTTA
116425005 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
116425070 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
116425135 ACTGTTA
131 ACTGTTA
* *
116425142 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCACGTATTTTGAAATGGGCCTATGGGCCATAT
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
116425207 TGTTATTTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACT
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
116425272 ACTGTTA
131 ACTGTTA
**
116425279 CCTGAATGGGCTT
1 CCCAAATGGGCTT
116425292 AGGCCCAATG
Statistics
Matches: 276, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 276 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:116432960 original size:20 final size:20
Alignment explanation
Indices: 116432935--116432978 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
116432925 CGCCTACGGG
116432935 CAGGTCACATGGGCATGTCC
1 CAGGTCACATGGGCATGTCC
116432955 CAGGTCACATGGGCATGTCC
1 CAGGTCACATGGGCATGTCC
116432975 CAGG
1 CAGG
116432979 CCATACGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.30, G:0.32, T:0.18
Consensus pattern (20 bp):
CAGGTCACATGGGCATGTCC
Found at i:116432988 original size:20 final size:20
Alignment explanation
Indices: 116432935--116432988 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
116432925 CGCCTACGGG
* *
116432935 CAGGTCACATGGGCATGTCC
1 CAGGCCACACGGGCATGTCC
* *
116432955 CAGGTCACATGGGCATGTCC
1 CAGGCCACACGGGCATGTCC
*
116432975 CAGGCCATACGGGC
1 CAGGCCACACGGGC
116432989 GTGTGCCCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.17
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:116440533 original size:45 final size:44
Alignment explanation
Indices: 116440484--116440570 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 44
116440474 TAGAAAAATA
*
116440484 TTACTGTA-AGT-ATGTTTGAAATTTTTTTATGAAAATTATTATTAT
1 TTACTGTATAGTGATATTTGAAA--TTTTTAT-AAAATTATTATTAT
*
116440529 TTACTGTATTATTGATATTTGAAATTTTTATAAAATTATTAT
1 TTACTGTA-TAGTGATATTTGAAATTTTTATAAAATTATTAT
116440571 AATTATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
45 19 0.51
46 7 0.19
47 2 0.05
48 9 0.24
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.54
Consensus pattern (44 bp):
TTACTGTATAGTGATATTTGAAATTTTTATAAAATTATTATTAT
Found at i:116440628 original size:12 final size:12
Alignment explanation
Indices: 116440611--116440635 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
116440601 ATAATAATTA
116440611 TAAAAGTATTGT
1 TAAAAGTATTGT
116440623 TAAAAGTATTGT
1 TAAAAGTATTGT
116440635 T
1 T
116440636 GTTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TAAAAGTATTGT
Found at i:116441136 original size:25 final size:25
Alignment explanation
Indices: 116441103--116441150 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
116441093 TTATAATATG
* * *
116441103 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
116441128 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
116441151 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:116441221 original size:9 final size:9
Alignment explanation
Indices: 116441193--116441245 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
116441183 ATAAACATGG
116441193 TATGTATGA
1 TATGTATGA
*
116441202 TATGCACATGA
1 TATG--TATGA
*
116441213 CATGTATGA
1 TATGTATGA
116441222 TATGTACATGA
1 TATGT--ATGA
116441233 TATGTATGA
1 TATGTATGA
116441242 TATG
1 TATG
116441246 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:116441234 original size:11 final size:11
Alignment explanation
Indices: 116441198--116441253 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
116441188 CATGGTATGT
*
116441198 ATGATATGCAC
1 ATGATATGTAC
*
116441209 ATGACATGT--
1 ATGATATGTAC
116441218 ATGATATGTAC
1 ATGATATGTAC
116441229 ATGATATGT--
1 ATGATATGTAC
*
116441238 ATGATATGCAC
1 ATGATATGTAC
116441249 ATGAT
1 ATGAT
116441254 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGTAC
Found at i:116441253 original size:20 final size:20
Alignment explanation
Indices: 116441187--116441253 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
116441177 ATTTTGATAA
*
116441187 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
116441207 ACATGACATGTATGATATGT
1 ACATGATATGTATGATATGC
116441227 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
116441247 ACATGAT
1 ACATGAT
116441254 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:116441365 original size:23 final size:24
Alignment explanation
Indices: 116441302--116441396 Score: 122
Period size: 25 Copynumber: 3.9 Consensus size: 24
116441292 GAGGAAGTGT
*
116441302 AAAGGGCTTATGCCCCAGTTATGA
1 AAAGGGCTTATGCCCCAGTTATTA
116441326 TAAAGGGCTTATGCCCCAGTTATTA
1 -AAAGGGCTTATGCCCCAGTTATTA
*
116441351 AAAGGGCTT-TTCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTA
*
116441374 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
116441397 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
23 18 0.29
24 14 0.22
25 31 0.49
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTA
Found at i:116441393 original size:48 final size:49
Alignment explanation
Indices: 116441302--116441396 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 49
116441292 GAGGAAGTGT
*
116441302 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTATTA
* *
116441351 AAAGGGCTT-TTCCCCAGTTATTA-AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTATGATAAAG-GGCTTAGGCC-CCAGTTAT
116441397 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
47 9 0.22
48 23 0.56
49 9 0.22
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTAGGCCCCAGTTATTA
Found at i:116441625 original size:31 final size:31
Alignment explanation
Indices: 116441590--116441649 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
116441580 CGTTTACAGT
116441590 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATAA
**
116441621 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
116441650 GAAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:116445193 original size:46 final size:46
Alignment explanation
Indices: 116445141--116445316 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
116445131 TGGTTGAGCA
116445141 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
116445187 TTCGAACT-AGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCA-TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
116445232 CATCCGAGCTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
116445280 CCCGAGCTGGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
116445317 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 61 0.58
47 25 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:116445297 original size:93 final size:93
Alignment explanation
Indices: 116445138--116445309 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
116445128 GGATGGTTGA
* * **
116445138 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTAGTTGAGT
1 GCATCCGAACTCATTGACTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTAGTTGAGT
116445203 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * * *
116445231 GCATCCGAGCTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTGGTTGAGT
1 GCATCCGAACTCATTGACTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTAGTTGAGT
116445296 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
116445310 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGACTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTAGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:116448125 original size:46 final size:45
Alignment explanation
Indices: 116448064--116448241 Score: 155
Period size: 46 Copynumber: 3.9 Consensus size: 45
116448054 ATCGGTATTG
* * *
116448064 AGATGAGGGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAC
1 AGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC
* * *
116448109 AGTATGAGAGCCAGTGTAAGACATGCCTTGGACATGCAT-AGGCCTC
1 AG-ATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCA-GCCAC
** * * * * *
116448155 GAGATGTTAGCCAGTGTCAGACATGTTTGGGACATGCGTCGGCTAC
1 -AGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC
* * *
116448201 -GA-GATGTGCTAGTGTAAGACATGTCCGGGACATGCATCAGC
1 AGATGA-GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGC
116448242 ACGGTTACAT
Statistics
Matches: 104, Mismatches: 24, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
43 1 0.01
44 30 0.29
45 3 0.03
46 68 0.65
47 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
AGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC
Found at i:116451068 original size:20 final size:18
Alignment explanation
Indices: 116451043--116451079 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
116451033 ATTGCTAAGT
116451043 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
116451063 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
116451080 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:116451691 original size:46 final size:46
Alignment explanation
Indices: 116451641--116451814 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
116451631 TTTGAGCATC
* *
116451641 CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGAT
* * *
116451687 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G-AT
* * * **
116451733 CCAAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCC
1 CGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGAT
* *
116451780 CGAGCTGGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
116451815 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.58
47 24 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGAT
Found at i:116451795 original size:93 final size:93
Alignment explanation
Indices: 116451636--116451806 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
116451626 GGATGTTTGA
* **
116451636 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
116451701 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
** * *
116451729 GCATCC-AAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTGGTTGAG
1 GCATCCGAA-CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
116451793 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
116451807 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:116454594 original size:25 final size:25
Alignment explanation
Indices: 116454557--116454612 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
116454547 ATATATGTAT
*
116454557 ACATA-TTTAAATACTATATTATAC
1 ACATATTTTAAATACCATATTATAC
* * *
116454581 ACATATTTTTAATACCATGTTATAT
1 ACATATTTTAAATACCATATTATAC
116454606 ACATATT
1 ACATATT
116454613 ATTATTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (25 bp):
ACATATTTTAAATACCATATTATAC
Found at i:116454711 original size:21 final size:20
Alignment explanation
Indices: 116454668--116454719 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
116454658 TAGTATGTGT
*
116454668 TTTAT-TATATGTATATATC
1 TTTATGTATATATATATATC
116454687 TTTAATGTATATATATATAAT-
1 TTT-ATGTATATATATAT-ATC
116454708 TTTATGTA-ATAT
1 TTTATGTATATAT
116454720 TATTAATAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 7 0.24
20 7 0.24
21 13 0.45
22 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTATGTATATATATATATC
Found at i:116455186 original size:17 final size:16
Alignment explanation
Indices: 116455151--116455217 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
116455141 ATTATATGTG
116455151 TATATATATATACTTT
1 TATATATATATACTTT
116455167 TATATATAGTATTA-TTT
1 TATATATA-TA-TACTTT
*
116455184 TATATATATTTA-TATT
1 TATATATATATACT-TT
116455200 TAT-TA-ATATACTTAT
1 TATATATATATACTT-T
116455215 TAT
1 TAT
116455218 TTTCACTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
14 5 0.11
15 10 0.23
16 14 0.32
17 13 0.30
18 2 0.05
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (16 bp):
TATATATATATACTTT
Found at i:116455202 original size:33 final size:36
Alignment explanation
Indices: 116455151--116455220 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 36
116455141 ATTATATGTG
116455151 TATATATATATACTTTTA-T-ATATA-GTATTATTT
1 TATATATATATACTTTTATTAATATACGTATTATTT
* *
116455184 TATATATATTTA-TATTTATTAATATACTTATTATTT
1 TATATATATATACT-TTTATTAATATACGTATTATTT
116455220 T
1 T
116455221 CACTATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
32 1 0.03
33 15 0.48
34 1 0.03
35 5 0.16
36 9 0.29
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (36 bp):
TATATATATATACTTTTATTAATATACGTATTATTT
Found at i:116456891 original size:5 final size:5
Alignment explanation
Indices: 116456867--116456918 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
116456857 CTTTGAAACC
* *
116456867 TTTAT TTTACT ATTATT TTTATT TTTAT TTTAT TTCAAT TTTAT TTTAT
1 TTTAT TTTA-T TTTA-T TTTA-T TTTAT TTTAT TT-TAT TTTAT TTTAT
116456916 TTT
1 TTT
116456919 TTATTTCTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 22 0.55
6 18 0.45
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:116456897 original size:11 final size:11
Alignment explanation
Indices: 116456867--116456924 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
116456857 CTTTGAAACC
*
116456867 TTTATTTTACT
1 TTTATTTTATT
*
116456878 ATTATTTTTATT
1 TTTA-TTTTATT
116456890 TTTATTTTATT
1 TTTATTTTATT
**
116456901 TCAATTTTATT
1 TTTATTTTATT
*
116456912 TTATTTTTTATT
1 TT-TATTTTATT
116456924 T
1 T
116456925 CTTTTTGAAG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
11 20 0.54
12 17 0.46
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:116457901 original size:14 final size:16
Alignment explanation
Indices: 116457877--116457908 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
116457867 TGCTGAATTA
116457877 TTTCTTATTA-TGTAC
1 TTTCTTATTATTGTAC
116457892 TTTC-TATTATTGTAC
1 TTTCTTATTATTGTAC
116457907 TT
1 TT
116457909 GTTCTTGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTCTTATTATTGTAC
Found at i:116461417 original size:38 final size:40
Alignment explanation
Indices: 116461356--116461437 Score: 107
Period size: 38 Copynumber: 2.1 Consensus size: 40
116461346 TATAATAAAG
* * *
116461356 TATATAAATAATATGATATTT-AAAATATATATATACGTAA
1 TATATAAATAATATAATATTTAAAAAAATA-ATATACATAA
116461396 TATATAAA-AATATAATA-TTAAAAAAATAATATACATAA
1 TATATAAATAATATAATATTTAAAAAAATAATATACATAA
116461434 TATA
1 TATA
116461438 AGAGTATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 15 0.39
39 15 0.39
40 8 0.21
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (40 bp):
TATATAAATAATATAATATTTAAAAAAATAATATACATAA
Found at i:116461419 original size:14 final size:15
Alignment explanation
Indices: 116461393--116461428 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
116461383 TATATATACG
*
116461393 TAATATATAAAAATA
1 TAATATATAAAAAAA
116461408 TAATAT-TAAAAAAA
1 TAATATATAAAAAAA
116461422 TAATATA
1 TAATATA
116461429 CATAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATATATAAAAAAA
Found at i:116461435 original size:28 final size:29
Alignment explanation
Indices: 116461411--116461519 Score: 87
Period size: 30 Copynumber: 3.6 Consensus size: 29
116461401 AAAAATATAA
116461411 TATTAAAAAAATAATATACATAATATAAGAG
1 TATTAAAAAAATAATATACAT-A-ATAAGAG
* *
116461442 TATTAAAATAATAAATAATAAATAATAA-AG
1 TATTAAAAAAAT-AAT-ATACATAATAAGAG
* * *
116461472 AAATAAGTAAAAATAATATACATAATAATA-
1 TATTAA--AAAAATAATATACATAATAAGAG
* *
116461502 TAGTAAGAAAATAATATA
1 TATTAAAAAAATAATATA
116461520 TTTATAATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
28 11 0.17
30 20 0.31
31 19 0.30
32 9 0.14
33 5 0.08
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (29 bp):
TATTAAAAAAATAATATACATAATAAGAG
Found at i:116461459 original size:7 final size:7
Alignment explanation
Indices: 116461447--116461499 Score: 54
Period size: 7 Copynumber: 7.3 Consensus size: 7
116461437 AAGAGTATTA
116461447 AAATAAT
1 AAATAAT
116461454 AAATAAT
1 AAATAAT
116461461 AAATAAT
1 AAATAAT
*
116461468 AAAGAAAT
1 AAA-TAAT
*
116461476 AAGTAA-
1 AAATAAT
116461482 AAATAAT
1 AAATAAT
116461489 ATACATAAT
1 A-A-ATAAT
116461498 AA
1 AA
116461500 TATAGTAAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 5 0.13
7 20 0.53
8 7 0.18
9 6 0.16
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (7 bp):
AAATAAT
Found at i:116461603 original size:12 final size:12
Alignment explanation
Indices: 116461588--116461702 Score: 55
Period size: 12 Copynumber: 9.5 Consensus size: 12
116461578 TAATAGTGAA
116461588 AATAATAAATAT
1 AATAATAAATAT
*
116461600 AATAATAGAA-AC
1 AATAATA-AATAT
* *
116461612 GATAAT-ACTAT
1 AATAATAAATAT
116461623 -ATAA-AAAT-T
1 AATAATAAATAT
*
116461632 ATATATATACATAT
1 A-ATA-ATAAATAT
116461646 -ATAATAAAATAT
1 AATAAT-AAATAT
*
116461658 ATATACT-AATATT
1 A-ATAATAAATA-T
116461671 AATAATAAATAT
1 AATAATAAATAT
*
116461683 AATATTATAATACT
1 AATAATA-AATA-T
116461697 AATAAT
1 AATAAT
116461703 GATAATATGA
Statistics
Matches: 77, Mismatches: 11, Indels: 28
0.66 0.09 0.24
Matches are distributed among these distances:
9 1 0.01
10 7 0.09
11 6 0.08
12 37 0.48
13 15 0.19
14 11 0.14
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:116461641 original size:22 final size:21
Alignment explanation
Indices: 116461616--116461694 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 21
116461606 AGAAACGATA
116461616 ATACTATATAA-AAATTATATAT
1 ATACTATATAATAAA--ATATAT
116461638 ATACATATATAATAAAATATAT
1 ATAC-TATATAATAAAATATAT
* *
116461660 ATACTA-ATATTAATAATAAAT
1 ATACTATATAATAA-AATATAT
*
116461681 ATAATATTATAATA
1 ATACTA-TATAATA
116461695 CTAATAATGA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
20 6 0.12
21 13 0.27
22 14 0.29
23 12 0.25
24 3 0.06
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
ATACTATATAATAAAATATAT
Found at i:116461675 original size:26 final size:24
Alignment explanation
Indices: 116461613--116461702 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 24
116461603 AATAGAAACG
*
116461613 ATAATACTATATAA-AAATTATATAT
1 ATAATA-TA-ATAATAAAATATATAT
116461638 ATACATAT-ATAATAAAATATATAT
1 ATA-ATATAATAATAAAATATATAT
116461662 ACTAATATTAATAAT-AAATATAATATT
1 A-TAATA-TAATAATAAAATAT-ATA-T
116461689 ATAATACTAATAAT
1 ATAATA-TAATAAT
116461703 GATAATATGA
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
23 4 0.07
24 14 0.25
25 13 0.23
26 23 0.41
27 2 0.04
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
ATAATATAATAATAAAATATATAT
Found at i:116461792 original size:9 final size:9
Alignment explanation
Indices: 116461778--116461829 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
116461768 TATATAAAAA
116461778 TAATAATAT
1 TAATAATAT
*
116461787 TGATAATAT
1 TAATAATAT
116461796 TAATAATAT
1 TAATAATAT
*
116461805 TAGA-AATAA
1 TA-ATAATAT
116461814 TAATAATATT
1 TAATAATA-T
116461824 TAATAA
1 TAATAA
116461830 AGAAACAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 1 0.03
9 28 0.78
10 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (9 bp):
TAATAATAT
Found at i:116461799 original size:18 final size:18
Alignment explanation
Indices: 116461776--116461823 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
116461766 AATATATAAA
116461776 AATAATAATATT-GATAAT
1 AATAATAATATTAGA-AAT
*
116461794 ATTAATAATATTAGAAAT
1 AATAATAATATTAGAAAT
116461812 AATAATAATATT
1 AATAATAATATT
116461824 TAATAAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 25 0.93
19 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
AATAATAATATTAGAAAT
Found at i:116463626 original size:14 final size:14
Alignment explanation
Indices: 116463607--116463642 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
116463597 AGTTGATTTT
*
116463607 TTTGAAAAGTAGAA
1 TTTGAAAAGCAGAA
116463621 TTTGAAAAGCAGAA
1 TTTGAAAAGCAGAA
*
116463635 ATTGAAAA
1 TTTGAAAA
116463643 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (14 bp):
TTTGAAAAGCAGAA
Found at i:116463668 original size:89 final size:87
Alignment explanation
Indices: 116463478--116464047 Score: 414
Period size: 89 Copynumber: 6.7 Consensus size: 87
116463468 TACTCGGCAT
* * * *
116463478 GTGATCCTGA-GCTCAACTCACTTCTCGCAATATGAGTTG-TCTCTTT-AAAAAAGACATT-AAA
1 GTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGA-ATTGAAA
* *
116463539 AACAAAAATTGAAAATACATCAGC
64 AACAGAAATTGAAAATACCTCAGC
* *
116463563 GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGTAGAATTTGAAA
1 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-TAGAA-TTGAAA
*
116463628 AGCAGAAATTGAAAATACCTCAGC
64 AACAGAAATTGAAAATACCTCAGC
* **
116463652 GTGCCCTGAGGCTCAACTCACCTCTCAAAATATGAGTTGATTTTTTTTTTGAAAAGTAGAAATTG
1 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAA-TAG-AATTG
* *
116463717 AAAAACAGAAATTGAAAATATCTCGGC
61 AAAAACAGAAATTGAAAATACCTCAGC
* * * * *
116463744 GTGTGACCTGA-GCTCAACTCACTTCTCGCAATACGAGTTGACTTTTTTTTAAAA-A-AAAT-AG
1 --GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAATAGAATTGAA
* ** * ** ** *
116463805 GAATTGAAAAT--ACCT-CAGC-GT
63 AAACAGAAATTGAAAATACCTCAGC
116463826 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAACATA-AATTG----
1 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ATAGAATTGAAAA
** ** *
116463884 --A-AAA-T--ACCT-CGGCA-T
65 ACAGAAATTGAAAATACCTCAGC
* *
116463899 GTGACCCGAGGATCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAGCATA-AATTGAA
1 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAA--ATAGAATTGAA
**
116463961 AAATGGAAATTGAAAATACCTCAGC
63 AAACAGAAATTGAAAATACCTCAGC
*
116463986 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAACATA-AATTGAAAA
1 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ATAGAATTGAAAA
116464048 TACCTCGGCA
Statistics
Matches: 402, Mismatches: 52, Indels: 62
0.78 0.10 0.12
Matches are distributed among these distances:
73 53 0.13
74 6 0.01
75 9 0.02
78 8 0.02
79 1 0.00
80 13 0.03
81 28 0.07
82 4 0.01
83 2 0.00
84 6 0.01
85 46 0.11
86 19 0.05
87 51 0.13
88 5 0.01
89 61 0.15
91 11 0.03
92 43 0.11
93 28 0.07
94 8 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (87 bp):
GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAATAGAATTGAAAAA
CAGAAATTGAAAATACCTCAGC
Found at i:116463810 original size:80 final size:77
Alignment explanation
Indices: 116463717--116464482 Score: 523
Period size: 73 Copynumber: 9.9 Consensus size: 77
116463707 GTAGAAATTG
* * * *
116463717 AAAAACAGAAATTGAAAATATCTCGGCGTGTGACCTGA-GCTCAACTCACTTCTCGCAATACGAG
1 AAAAATAG-AATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
116463781 TTGACTTTTTTTTAAA
65 TTGA-TTTTTTTT--A
*
116463797 AAAAATAGGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAATA-GAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
116463862 TTGA---TTTTTG
65 TTGATTTTTTTTA
* * * *
116463872 AAACATA-AATTGAAAATACCTCGGCATGTGACCCGAGGATCAACTCACCTCTCGCAATATGAGT
1 AAAAATAGAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
***
116463936 TGATTTTTGAAA
66 TGATTTTTTTTA
* * * ** ** * *
116463948 AGCATAAATTGAAAAATGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
1 A--A-AAA-T--AGAATTGAAAAT--ACCT-CGGC-GTGTGACCTGAGGCTCAACTCACCTCTCG
*
116464013 CAATATGAGTTGA---TTTTTG
56 CAATATGAGTTGATTTTTTTTA
* * * * *
116464032 AAACATA-AATTGAAAATACCTCGGCATGTGA-TTCGAGGCTCAACTCGCCTCTCGCAATACGAG
1 AAAAATAGAATTGAAAATACCTCGGCGTGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAG
* *
116464095 TT-A--ATTTTTG
65 TTGATTTTTTTTA
* * * *
116464105 ACAAATAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAATAG-AATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
116464168 TTGATTTTCTTTG
65 TTGATTTTTTTTA
* * *
116464181 AAACATA-AATTGAAAAATACCTCAGCGTGT--CCTAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAATAGAATTG-AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
116464243 TCGA--TTTTTGA
65 TTGATTTTTTTTA
* * *
116464254 AAAACA-AAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCACAATATGAG
1 AAAA-ATAGAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
116464316 TTGATTTTTTGAAACATAAATTA
65 TTGA-TTTTT------T---TTA
* * * * * *
116464339 AAAAACAAAAACTGAACATACCTC--AGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG-G
1 AAAAA-TAGAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
116464401 TCGA---TTTTTG
65 TTGATTTTTTTTA
* * * * *
116464411 AAAAACAGAAATTGAAAAAACCTC-G-GTGTGTCCTAAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAAATAG-AATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
116464474 TTGATTTTT
65 TTGATTTTT
116464483 GAAACAGAAA
Statistics
Matches: 553, Mismatches: 84, Indels: 102
0.75 0.11 0.14
Matches are distributed among these distances:
71 1 0.00
72 54 0.10
73 189 0.34
74 15 0.03
75 77 0.14
76 18 0.03
77 13 0.02
78 2 0.00
79 2 0.00
80 35 0.06
81 33 0.06
82 3 0.01
83 8 0.01
84 8 0.01
85 12 0.02
86 46 0.08
87 37 0.07
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (77 bp):
AAAAATAGAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTTA
Found at i:116464023 original size:87 final size:86
Alignment explanation
Indices: 116463878--116464047 Score: 270
Period size: 87 Copynumber: 2.0 Consensus size: 86
116463868 TTTGAAACAT
*
116463878 AAATTGAAAATACCTCGGCATGTGACCCGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCA-GTGACCCGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTT
116463943 TGAAAAGCATAAATTGAAAAATGG
65 TG-AAA-CATAAATTGAAAAATGG
* * *
116463967 AAATTGAAAATACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGCAGTGACCCGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTT
116464031 GAAACATAAATTGAAAA
66 GAAACATAAATTGAAAA
116464048 TACCTCGGCA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
85 13 0.17
86 3 0.04
87 43 0.56
89 18 0.23
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (86 bp):
AAATTGAAAATACCTCAGCAGTGACCCGAGGATCAACTCACCTCTCGCAATATGAGTTGATTTTT
GAAACATAAATTGAAAAATGG
Found at i:116464024 original size:160 final size:152
Alignment explanation
Indices: 116463719--116464493 Score: 779
Period size: 160 Copynumber: 5.1 Consensus size: 152
116463709 AGAAATTGAA
* * * * * *
116463719 AAACAGAAATTGAAAATATCTCGGCGTGTGACCTGA-GCTCAACTCACTTCTCGCAATACGAGTT
1 AAACATAAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*** * *
116463783 GACTTTTT-TTTAAAAAAAATAGGAATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCAC
66 GA-TTTTTGAGCAAATAAAA-AGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCAC
116463847 CTCTCGCAATATGAGTTGA-TTTTTG
127 CTCTCGCAATATGAGTTGATTTTTTG
*
116463872 AAACATAAATTGAAAATACCTCGGCATGTGACCCGAGGATCAACTCACCTCTCGCAATATGAGTT
1 AAACATAAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
116463937 GATTTTTGAAAAGCATAAATTGAAAAATGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
66 GATTTTTG---AGC--AAA-T-AAAAA--GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
116464002 CTCACCTCTCGCAATATGAGTTGA-TTTTTG
122 CTCACCTCTCGCAATATGAGTTGATTTTTTG
** * *
116464032 AAACATAAATTGAAAATACCTCGGCATGTGATTCGAGGCTCAACTCGCCTCTCGCAATACGAGTT
1 AAACATAAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
116464097 AATTTTTGA-CAAAT----AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCT
66 GATTTTTGAGCAAATAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
116464157 CGCAATATGAGTTGATTTTCTTTG
131 CGCAATATGAGTTGA-TTT-TTTG
* * **
116464181 AAACATAAATTGAAAAATACCTCAGC--GTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAACATAAATTG-AAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
116464244 CGATTTTT--G-AAA-AACAA-AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
65 TGATTTTTGAGCAAATAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
116464304 TCACAATATGAGTTGATTTTTTG
130 TCGCAATATGAGTTGATTTTTTG
* * **
116464327 AAACATAAATTAAAAAACAAAAACTGAACATACCTCAGTGTG-CCCTGAGGCTCAACTCACCTCT
1 AAACATAAATT-------GAAAA-T--ACCT-CGGCA-TGTGACCC-GAGGCTCAACTCACCTCT
* * * * * *
116464391 CGCAATATG-GTCGATTTTT--G--AA-AAACAGAAATTGAAAAAACCTCGGTGTGTCCTAAGGC
53 CGCAATATGAGTTGATTTTTGAGCAAATAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGC
*
116464450 TCAACTCACCTCTTGCAATATGAGTTGA-TTTTTG
118 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
*
116464484 AAACAGAAAT
1 AAACATAAAT
116464494 AAAAATATCA
Statistics
Matches: 538, Mismatches: 48, Indels: 68
0.82 0.07 0.10
Matches are distributed among these distances:
146 76 0.14
147 3 0.01
148 95 0.18
149 17 0.03
150 12 0.02
152 4 0.01
153 39 0.07
154 30 0.06
155 3 0.01
156 3 0.01
157 21 0.04
158 66 0.12
159 32 0.06
160 110 0.20
161 4 0.01
162 23 0.04
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (152 bp):
AAACATAAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAGCAAATAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTG
Found at i:116464282 original size:148 final size:146
Alignment explanation
Indices: 116463956--116464500 Score: 663
Period size: 148 Copynumber: 3.7 Consensus size: 146
116463946 AAAGCATAAA
**
116463956 TTGAAAAATGGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
116464021 GTTGA-TTTTTGAAACATAAATTG-AAAATACCTCGGCATGTGATTC-GAGGCTCAACTCGCCTC
66 GTTGATTTTTTGAAACATAAATTGAAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTC
* **
116464083 TCGCAATACGAGTTAATTT
128 TCGCAATATGAGTCGATTT
* * * *
116464102 TTGACAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
116464167 GTTGATTTTCTTTGAAACATAAATTGAAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCT
66 GTTGA-TTT-TTTGAAACATAAATTGAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
116464232 CGCAATATGAGTCGATTT
129 CGCAATATGAGTCGATTT
* *
116464250 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
116464315 GTTGATTTTTTGAAACATAAATTAAAAAACAAAAACTGAACATACCTCAGTGTGCCCTGAGGCTC
66 GTTGATTTTTTGAAACATAAATT---------GAA---AA-ATACCTCAGCGTGTCCTGAGGCTC
116464380 AACTCACCTCTCGCAATATG-GTCGATTT
118 AACTCACCTCTCGCAATATGAGTCGATTT
* * * * *
116464408 TTGAAAAACAGAAATTGAAAAAACCTCGGTGTGTCCTAAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
116464473 GTTGA-TTTTTGAAACAGAAA-T-AAAAATA
66 GTTGATTTTTTGAAACATAAATTGAAAAATA
116464501 TCAGAATACC
Statistics
Matches: 352, Mismatches: 29, Indels: 40
0.84 0.07 0.10
Matches are distributed among these distances:
142 3 0.01
143 2 0.01
146 83 0.24
147 5 0.01
148 100 0.28
149 16 0.05
150 12 0.03
155 2 0.01
156 1 0.00
157 14 0.04
158 73 0.21
159 41 0.12
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (146 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTGAAACATAAATTGAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTCGATTT
Found at i:116464398 original size:86 final size:86
Alignment explanation
Indices: 116464253--116464431 Score: 254
Period size: 86 Copynumber: 2.1 Consensus size: 86
116464243 TCGATTTTTG
* * *
116464253 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTT
1 AAAAACAAAAACTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATG-GTC
*
116464318 GATTTTTTG-AAACATAAATT-A
65 GA-TTTTTGAAAACAGAAATTGA
* * *
116464339 AAAAACAAAAACTGAACATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGGTCG
1 AAAAACAAAAACTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGGTCG
116464404 ATTTTTGAAAAACAGAAATTGA
66 ATTTTTG-AAAACAGAAATTGA
116464426 AAAAAC
1 AAAAAC
116464432 CTCGGTGTGT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
84 6 0.07
85 4 0.05
86 66 0.80
87 7 0.08
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (86 bp):
AAAAACAAAAACTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCACAATATGGTCG
ATTTTTGAAAACAGAAATTGA
Found at i:116464456 original size:72 final size:73
Alignment explanation
Indices: 116464339--116464493 Score: 208
Period size: 72 Copynumber: 2.2 Consensus size: 73
116464329 ACATAAATTA
* * * * *
116464339 AAAAACAAAAACTGAACATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG-GTC
1 AAAAACAGAAATTGAAAAAACCTCAGTGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGTC
116464403 GATTTTTG
66 GATTTTTG
* * * *
116464411 AAAAACAGAAATTGAAAAAACCTCGGTGTGTCCTAAGGCTCAACTCACCTCTTGCAATATGAGTT
1 AAAAACAGAAATTGAAAAAACCTCAGTGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGTC
116464476 GATTTTTG
66 GATTTTTG
116464484 --AAACAGAAAT
1 AAAAACAGAAAT
116464494 AAAAATATCA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
71 10 0.14
72 53 0.73
73 10 0.14
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (73 bp):
AAAAACAGAAATTGAAAAAACCTCAGTGTGCCCTAAGGCTCAACTCACCTCTCGCAATATGAGTC
GATTTTTG
Found at i:116465166 original size:3 final size:3
Alignment explanation
Indices: 116465158--116465194 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
116465148 TTCATCTTGA
116465158 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
116465195 TTAAGGCGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:116467091 original size:46 final size:46
Alignment explanation
Indices: 116466594--116467091 Score: 757
Period size: 46 Copynumber: 10.8 Consensus size: 46
116466584 TGATGTCATA
* * * * *
116466594 GTATCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATG
** * *
116466640 GTATCTTTCAACCATGGTCTTATTCATTTTCCCT-TCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTT-CATATCAGGTTGCCATG
* *
116466687 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
* * ** *
116466733 GTATCTTTCAACTATGGCCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
116466779 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
116466825 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
116466871 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
* *
116466917 GTATCTTTCAACCATGGTCTTACACATTCCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
* *
116466963 GTATCTTTCAACCATGGTCTTACACATTCCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
116467009 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
116467055 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
116467092 AGAGCACACT
Statistics
Matches: 428, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
45 2 0.00
46 386 0.90
47 39 0.09
48 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
Found at i:116469965 original size:14 final size:15
Alignment explanation
Indices: 116469942--116469974 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
116469932 GACCTCTCCA
116469942 TTTTCTTTTCTTTCT
1 TTTTCTTTTCTTTCT
116469957 TTTTC-TTTCTTTCT
1 TTTTCTTTTCTTTCT
116469971 TTTT
1 TTTT
116469975 TGCTTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTCTTTCT
Found at i:116475873 original size:22 final size:21
Alignment explanation
Indices: 116475843--116475889 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
116475833 TACAAATTAA
116475843 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
116475865 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
116475886 ATCT
1 ATCT
116475890 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:116475895 original size:19 final size:19
Alignment explanation
Indices: 116475860--116475938 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
116475850 AGATTACAAG
116475860 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
116475881 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
116475898 ATCATATCTAAGATTGTAT
1 ATCATATCTAAGATTGCAT
116475917 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
116475936 ATC
1 ATC
116475939 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
20 1 0.02
21 8 0.15
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:116475919 original size:36 final size:38
Alignment explanation
Indices: 116475860--116475932 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 38
116475850 AGATTACAAG
116475860 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
*
116475898 ATCATATC-T-AAGATTGTATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
116475933 CATATCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 8 0.24
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:116475947 original size:36 final size:35
Alignment explanation
Indices: 116475861--116475948 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 35
116475851 GATTACAAGA
116475861 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
*
116475897 TATCATATC-TAAGATTGTATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
116475933 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
116475949 ATATTTTCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 31 0.67
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:116476315 original size:45 final size:45
Alignment explanation
Indices: 116476260--116476482 Score: 172
Period size: 45 Copynumber: 5.1 Consensus size: 45
116476250 GGAAGGCAAT
*
116476260 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
116476305 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * ** * * * *
116476350 ATTTGCT-TCTTCAATCTGCTCCTTG-CAAACT-CA-TGACTGTCAT
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAA-TACAGAGAC-GCCAA
* * * * * *
116476393 GT-TGTTATCTTCGATCTGCTCTCCGTCGAACACAAAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * *
116476437 ATCTG-TTTCTTCGATTTGTTCCCTGAC-AATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
116476480 ATC
1 ATC
116476483 ATCTTAGATT
Statistics
Matches: 137, Mismatches: 34, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
42 5 0.04
43 39 0.28
44 41 0.30
45 52 0.38
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:116477181 original size:205 final size:205
Alignment explanation
Indices: 116476445--116477158 Score: 1187
Period size: 205 Copynumber: 3.5 Consensus size: 205
116476435 AAATCTGTTT
* * *
116476445 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* ** *
116476510 GTGAAAGCCAAATTAGCTATGTCTTTTATTTGCTCCTTGTAAGCACAAGGAGGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * * *
116476575 GGATCTGCTTTAGTATAAACATCTGAAGGTTGGATCAACTATGTGCCTGCCCTCCATCAAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
116476640 AGATGCCAGA
196 AGATGCCAGA
116476650 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
116476715 GTGAAAGCC-AATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
116476779 GGATCTACTTCAGTATAAACATCTGAAGTTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
*
116476844 AGATGCTAGA
196 AGATGCCAGA
* * * *
116476854 CTTCGATTTGTTCTCTGGCAATACAGATATGCCAAATCATCTTAGATTTGTTTCAATGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
116476919 GTGAAAGCCAAATCAGCTCTGTCTTCAATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
116476984 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTTGAAGCGG
131 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
116477049 AGATGCCAGA
196 AGATGCCAGA
*
116477059 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
116477124 GTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
116477159 TCCGCCAATA
Statistics
Matches: 474, Mismatches: 34, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
204 187 0.39
205 287 0.61
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
AGATGCCAGA
Found at i:116477196 original size:44 final size:44
Alignment explanation
Indices: 116477145--116477237 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
116477135 ATCAGCTATG
** * *
116477145 TCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGGTA
1 TCTTCGATCTGCTCTCCGAAAATACAGAGATGCCAAATATGCTA
*
116477189 TCTTCGATCTGCTCTCTGAAAATACAGAGATGCCAAATATGCTA
1 TCTTCGATCTGCTCTCCGAAAATACAGAGATGCCAAATATGCTA
116477233 TCTTC
1 TCTTC
116477238 AACTTGTTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCCGAAAATACAGAGATGCCAAATATGCTA
Found at i:116477265 original size:44 final size:44
Alignment explanation
Indices: 116477168--116477624 Score: 362
Period size: 44 Copynumber: 10.4 Consensus size: 44
116477158 CTCCGCCAAT
* * * * *
116477168 ACAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCTGA-AAAT
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCT-ATAAAC
* * *
116477212 ACAGAGATGCCAAATATGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * * * *
116477256 ACAGGGATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * *
116477300 ACA-GGAGTGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
* *
116477344 ACAGGGATGCCAAATCTGCTATCTTC-AACTTATTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * * * *
116477388 ACAGGGATGCC--ATGCTGAAATCCTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * * * *
116477432 ACA-GGAGTGTCAGATCTGTTATCCTCGATCTGTTCCTTATAAAC
1 ACAGGGA-TGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
*
116477476 ACAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATC-TGTTCCCTATAAAC
** * * *
116477520 ACAGGGATGCC--ATGCTGAAATCTTCGATCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAAT-CTGCTATCTTCGATCTG-TTCCCTATAAAC
* * *
116477564 ACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
*
116477608 ACAAGGATGCCAAATCT
1 ACAGGGATGCCAAATCT
116477625 TGTTTCTTTG
Statistics
Matches: 325, Mismatches: 65, Indels: 46
0.75 0.15 0.11
Matches are distributed among these distances:
42 6 0.02
43 42 0.13
44 221 0.68
45 50 0.15
46 6 0.02
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
ACAGGGATGCCAAATCTGCTATCTTCGATCTGTTCCCTATAAAC
Found at i:116477418 original size:132 final size:132
Alignment explanation
Indices: 116477181--116477624 Score: 755
Period size: 132 Copynumber: 3.4 Consensus size: 132
116477171 GAGATGCCAA
* * * * * *
116477181 ATCTGGTATCTTCGATCTGCTCTCTGA-AAATACAGAGATGCCAAATATGCTATCTTCAACTTGT
1 ATCTGTTATCTTCGATCTGTTCCCT-ATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGT
116477245 TCCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAGTGT
65 TCCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAGTGT
116477310 CAG
130 CAG
*
116477313 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTATT
1 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
116477378 CCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTC
66 CCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTC
116477443 AG
131 AG
* *
116477445 ATCTGTTATCCTCGATCTGTTCCTTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
1 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
* *
116477510 CCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTC
66 CCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTC
116477575 AG
131 AG
* *
116477577 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAAGGATGCCAAATCT
1 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
116477625 TGTTTCTTTG
Statistics
Matches: 295, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
131 1 0.00
132 294 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
CCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAGTGTC
AG
Found at i:116478508 original size:27 final size:26
Alignment explanation
Indices: 116478478--116478533 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
116478468 GGCCTCTCCA
*
116478478 TTTTTCT-TTTTTCTTTTTTTTTTATT
1 TTTTTCTCTTTTTCTTTTCTTTTT-TT
116478504 TTTTTCTCTTTTTCTTTTCTTTTTTT
1 TTTTTCTCTTTTTCTTTTCTTTTTTT
116478530 TTTT
1 TTTT
116478534 GAAATAGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 13 0.46
27 15 0.54
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.88
Consensus pattern (26 bp):
TTTTTCTCTTTTTCTTTTCTTTTTTT
Found at i:116478513 original size:21 final size:20
Alignment explanation
Indices: 116478484--116478530 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
116478474 TCCATTTTTC
*
116478484 TTTTTTCTTTTTTTTTTATT
1 TTTTTTCTTTTTCTTTTATT
*
116478504 TTTTTCTCTTTTTCTTTTCTT
1 TTTTT-TCTTTTTCTTTTATT
116478525 TTTTTT
1 TTTTTT
116478531 TTTGAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTTCTTTTTCTTTTATT
Found at i:116485257 original size:22 final size:21
Alignment explanation
Indices: 116485227--116485292 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
116485217 TACAAATTAA
116485227 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
116485249 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
116485270 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
116485289 ATCT
1 ATCT
116485293 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:116485279 original size:19 final size:19
Alignment explanation
Indices: 116485244--116485341 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
116485234 AGATTACAAG
116485244 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
116485265 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
116485284 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
116485301 ATCATATCTAAGACTGCAT
1 ATCATATCTAAGATTGCAT
116485320 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
116485339 ATC
1 ATC
116485342 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:116485308 original size:36 final size:37
Alignment explanation
Indices: 116485244--116485341 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
116485234 AGATTACAAG
*
116485244 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGACTGCAT
116485284 ATCATATCTAAGATTG-TATCATATCTAAGACTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGACTGCAT
116485320 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
116485342 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGACTGCAT
Found at i:116485668 original size:26 final size:25
Alignment explanation
Indices: 116485600--116485668 Score: 59
Period size: 26 Copynumber: 2.6 Consensus size: 25
116485590 TATATACATG
* * *
116485600 ATATATAAAAATACAATATTAAAAAG
1 ATATAT-ATAATATAATATTAAAAAC
*
116485626 GTATATAT-ATACGTAATATATAAAAAC
1 ATATATATAATA--TAATAT-TAAAAAC
116485653 ATATATATAATATAAT
1 ATATATATAATATAAT
116485669 GTTAGAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
24 3 0.09
25 1 0.03
26 14 0.41
27 13 0.38
28 3 0.09
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (25 bp):
ATATATATAATATAATATTAAAAAC
Found at i:116485868 original size:14 final size:15
Alignment explanation
Indices: 116485842--116485877 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
116485832 TATATATACG
*
116485842 TAATATATAAAAATA
1 TAATATATAAAAAAA
116485857 TAATAT-TAAAAAAA
1 TAATATATAAAAAAA
116485871 TAATATA
1 TAATATA
116485878 CATAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATATATAAAAAAA
Found at i:116485884 original size:28 final size:31
Alignment explanation
Indices: 116485860--116485947 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
116485850 AAAAATATAA
116485860 TATTAAAAAAATAATATACATAATATAAGAG
1 TATTAAAAAAATAATATACATAATATAAGAG
* * *
116485891 TATTAAAATAATAA-ATAAAAAATAATAA-AG
1 TATTAAAAAAATAATATACATAAT-ATAAGAG
* *
116485921 AAATAAGTAAAAATAATATACATAATA
1 TATTAA--AAAAATAATATACATAATA
116485948 ATATAGTAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
30 13 0.29
31 17 0.38
32 8 0.18
33 7 0.16
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (31 bp):
TATTAAAAAAATAATATACATAATATAAGAG
Found at i:116485886 original size:38 final size:42
Alignment explanation
Indices: 116485803--116485886 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 42
116485793 TATAATAAAG
* *
116485803 TATATAAATAATATGATATTTAAAAAATATATATATACGTAA
1 TATATAAATAATATAATATTTAAAAAATATATATATACATAA
116485845 TATATAAA-AATATAATA-TTAAAAAA-ATA-ATATACATAA
1 TATATAAATAATATAATATTTAAAAAATATATATATACATAA
116485883 TATA
1 TATA
116485887 AGAGTATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
38 13 0.32
39 3 0.08
40 8 0.20
41 8 0.20
42 8 0.20
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (42 bp):
TATATAAATAATATAATATTTAAAAAATATATATATACATAA
Found at i:116485919 original size:22 final size:21
Alignment explanation
Indices: 116485863--116485948 Score: 59
Period size: 22 Copynumber: 4.0 Consensus size: 21
116485853 AATATAATAT
*
116485863 TAAAAA-AATAATATACATAATA
1 TAAAAATAATAAAATA-ATAA-A
* * *
116485885 TAAGAGTATTAAAATAATAAA
1 TAAAAATAATAAAATAATAAA
*
116485906 TAAAAAATAATAAAGA-AATAAG
1 T-AAAAATAATAAA-ATAATAAA
*
116485928 TAAAAATAATATACATAATAA
1 TAAAAATAATA-AAATAATAA
116485949 TATAGTAAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
21 13 0.26
22 29 0.58
23 8 0.16
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (21 bp):
TAAAAATAATAAAATAATAAA
Found at i:116486031 original size:3 final size:3
Alignment explanation
Indices: 116486009--116486172 Score: 53
Period size: 3 Copynumber: 55.0 Consensus size: 3
116485999 GTATATACGT
* * *
116486009 ATA ATA ATG ATA A-A AAA ATA ATA GTGA A-A ATA ATA A-A TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA -ATA ATA
** * * *
116486053 ATA A-A TATA ATA ATA GA-A ACG ATA ATA CTA TATA AAA ATT AT- ATA
1 ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* *
116486098 TATA CAT- ATA TATA ATA A-A AT- ATA TATA CTA ATA TTA ATA ATA A-A
1 -ATA -ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* *
116486143 TATA AT- ATT ATA ATA CTA ATA ATA ATA ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
116486173 TGAAATTAAA
Statistics
Matches: 120, Mismatches: 21, Indels: 40
0.66 0.12 0.22
Matches are distributed among these distances:
2 18 0.15
3 84 0.70
4 18 0.15
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:116486052 original size:12 final size:12
Alignment explanation
Indices: 116486037--116486167 Score: 85
Period size: 12 Copynumber: 10.7 Consensus size: 12
116486027 TAATAGTGAA
116486037 AATAATAAATAT
1 AATAATAAATAT
116486049 AATAATAAATAT
1 AATAATAAATAT
*
116486061 AATAATAGAA-AC
1 AATAATA-AATAT
* *
116486073 GATAAT-ACTAT
1 AATAATAAATAT
116486084 -ATAA-AAAT-T
1 AATAATAAATAT
*
116486093 ATATATATACATAT
1 A-ATA-ATAAATAT
116486107 ATATAATAAAATAT
1 A-ATAAT-AAATAT
*
116486121 ATATACT-AATATT
1 A-ATAATAAATA-T
116486134 AATAATAAATAT
1 AATAATAAATAT
*
116486146 AATATTATAATACT
1 AATAATA-AATA-T
116486160 AATAATAA
1 AATAATAA
116486168 TAATATGAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
9 1 0.01
10 7 0.07
11 4 0.04
12 41 0.43
13 18 0.19
14 24 0.25
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:116486111 original size:14 final size:13
Alignment explanation
Indices: 116486076--116486125 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
116486066 TAGAAACGAT
116486076 AATACTATATA-AA
1 AATA-TATATATAA
116486089 AAT-TATATATATA
1 AATATATATATA-A
*
116486102 CATATATATAATAA
1 AATATATAT-ATAA
116486116 AATATATATA
1 AATATATATA
116486126 CTAATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 6 0.19
12 1 0.03
13 7 0.23
14 14 0.45
15 3 0.10
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATATATATAA
Found at i:116486132 original size:26 final size:26
Alignment explanation
Indices: 116486074--116486173 Score: 102
Period size: 26 Copynumber: 3.8 Consensus size: 26
116486064 AATAGAAACG
*
116486074 ATAATACTATATAA-AAATTATATAT
1 ATAATACTATATAATAAAATATATAT
116486099 ATACATA-TATATAATAAAATATATAT
1 ATA-ATACTATATAATAAAATATATAT
*
116486125 ACTAATATTA-ATAAT-AAATATAATATT
1 A-TAATACTATATAATAAAATAT-ATA-T
116486152 ATAATACTA-ATAATAATAATAT
1 ATAATACTATATAATAA-AATAT
116486174 GAAATTAAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 13
0.81 0.03 0.16
Matches are distributed among these distances:
25 16 0.25
26 37 0.57
27 7 0.11
28 5 0.08
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (26 bp):
ATAATACTATATAATAAAATATATAT
Found at i:116486189 original size:29 final size:28
Alignment explanation
Indices: 116486037--116486198 Score: 77
Period size: 26 Copynumber: 6.1 Consensus size: 28
116486027 TAATAGTGAA
*
116486037 AATAATA-AATATAATAATA--AAT-AT
1 AATAATATAATATTATAATACTAATAAT
* ** *
116486061 AATAATAGAA-ACGATAATACTATATAAA
1 AATAATATAATATTATAATACTA-ATAAT
* *
116486089 AATTATAT-ATA-TA-CATA-TATATAAT
1 AATAATATAATATTATAATACTA-ATAAT
*
116486114 AA-AATAT-ATA-TACTAATATTAATAAT
1 AATAATATAATATTA-TAATACTAATAAT
116486140 -A-AATATAATATTATAATACTAATAAT
1 AATAATATAATATTATAATACTAATAAT
*
116486166 AATAATATGAA-ATTA-AAGTAACTAAAAAT
1 AATAATAT-AATATTATAA-T-ACTAATAAT
116486195 AATA
1 AATA
116486199 CCGTATGCAT
Statistics
Matches: 110, Mismatches: 12, Indels: 27
0.74 0.08 0.18
Matches are distributed among these distances:
24 23 0.21
25 17 0.15
26 27 0.25
27 11 0.10
28 18 0.16
29 14 0.13
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (28 bp):
AATAATATAATATTATAATACTAATAAT
Found at i:116486251 original size:18 final size:17
Alignment explanation
Indices: 116486228--116486283 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
116486218 AAATATACAT
116486228 TAATATATAAAATAATAA
1 TAATAT-TAAAATAATAA
* *
116486246 TAATATTGATAATATTAA
1 TAATATT-AAAATAATAA
116486264 TAATATTAGAAATAATAA
1 TAATATTA-AAATAATAA
116486282 TA
1 TA
116486284 TTTAATAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 30 0.94
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (17 bp):
TAATATTAAAATAATAA
Done.