Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 139 of 259
Found at i:45273738 original size:48 final size:47
Alignment explanation
Indices: 45273678--45273781 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 47
45273668 GTCCAACTAT
* * *
45273678 GGTCTTATACTAG-CTCTACTCTGCCCGTGCTGATGCCTATTCCC-GATA
1 GGTCTTACACTAGACTC-ACT-GGCCCGTGCCGATGCCTA-TCCCAGATA
* *
45273726 GGTCTTACACTAGAACTCACTGGGCTGTGCCGATGCCTATCCCAGATA
1 GGTCTTACACTAG-ACTCACTGGCCCGTGCCGATGCCTATCCCAGATA
45273774 GGTCTTAC
1 GGTCTTAC
45273782 GCTTAGCACA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
47 4 0.08
48 38 0.79
49 3 0.06
50 3 0.06
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (47 bp):
GGTCTTACACTAGACTCACTGGCCCGTGCCGATGCCTATCCCAGATA
Found at i:45275422 original size:38 final size:38
Alignment explanation
Indices: 45275374--45275481 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
45275364 GGCACGAAGG
* * * *
45275374 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
45275412 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* **
45275450 CCCAGATATTTTACCAGCACGAAGCCTGCGGG
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG
45275482 TCCTTAAGCC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:45279777 original size:43 final size:41
Alignment explanation
Indices: 45279730--45279878 Score: 135
Period size: 44 Copynumber: 3.5 Consensus size: 41
45279720 CAATGCCAAC
*
45279730 GTCCCAGACGTTGTCTTACATGTAATCAAACATCGATGCCATT
1 GTCCCAGACGTGGTCTTACATGTAATCAAA-ATCGATGCCA-T
*
45279773 GTCCCAGACAG-GGTCTTACATGAAATCATATAA--GATGCCGAT
1 GTCCCAGAC-GTGGTCTTACATGTAATCA-A-AATCGATGCC-AT
* * *
45279815 GTCCCAGACATGGTCTTACACGTAAAAT-AGAATTCGATGCCAAT
1 GTCCCAGACGTGGTCTTACATGT--AATCA-AAATCGATGCC-AT
45279859 GTCCCAGACGTGGTCTTACA
1 GTCCCAGACGTGGTCTTACA
45279879 CGAAATCACA
Statistics
Matches: 88, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
42 27 0.31
43 27 0.31
44 33 0.38
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (41 bp):
GTCCCAGACGTGGTCTTACATGTAATCAAAATCGATGCCAT
Found at i:45279823 original size:42 final size:42
Alignment explanation
Indices: 45279764--45279891 Score: 129
Period size: 44 Copynumber: 3.0 Consensus size: 42
45279754 ATCAAACATC
*
45279764 GATGCCATTGTCCCAGACAGGGTCTTACATGAAATCATATAA-
1 GATGCCA-TGTCCCAGACAGGGTCTTACACGAAATCATATAAT
* *
45279806 GATGCCGATGTCCCAGACATGGTCTTACACGTAAA--ATAGAATT
1 GATGCC-ATGTCCCAGACAGGGTCTTACACG-AAATCATATAA-T
*
45279849 CGATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCACATAA
1 -GATGCC-ATGTCCCAGACAG-GGTCTTACACGAAATCATATAA
45279892 CGAAATCCTA
Statistics
Matches: 71, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
41 5 0.07
42 27 0.38
43 7 0.10
44 28 0.39
45 4 0.06
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (42 bp):
GATGCCATGTCCCAGACAGGGTCTTACACGAAATCATATAAT
Found at i:45279866 original size:44 final size:43
Alignment explanation
Indices: 45279722--45279883 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
45279712 AACATATACA
* * * * *
45279722 ATGCCAACGTCCCAGACGTTGTCTTACATGTAATCA-A-ACATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAACATAGA-ATCG
* * * *
45279765 ATGCCATTGTCCCAGACAGGGTCTTACATGAAATCATATAA--G
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAA-CATAGAATCG
*
45279807 ATGCCGATGTCCCAGACATGGTCTTACACGTAAA-ATAGAATTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAACATAGAA-TCG
*
45279851 ATGCCAATGTCCCAGACGTGGTCTTACACGAAA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAA
45279884 TCACATAACG
Statistics
Matches: 99, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 5 0.05
42 29 0.29
43 33 0.33
44 31 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAACATAGAATCG
Found at i:45281644 original size:47 final size:47
Alignment explanation
Indices: 45281593--45281682 Score: 117
Period size: 47 Copynumber: 1.9 Consensus size: 47
45281583 TAAGCTCTAT
* ***
45281593 TGAGCTAAAACGGTAAGCTTTGACAAGATGAAAATAGTAAGCTTTTA
1 TGAGCTAAAACAGTAAGCTCCAACAAGATGAAAATAGTAAGCTTTTA
* * *
45281640 TGAGCTGAAACAGTAAGCTCCAACGAGCTGAAAATAGTAAGCT
1 TGAGCTAAAACAGTAAGCTCCAACAAGATGAAAATAGTAAGCT
45281683 CTTACAAGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 36 1.00
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.23
Consensus pattern (47 bp):
TGAGCTAAAACAGTAAGCTCCAACAAGATGAAAATAGTAAGCTTTTA
Found at i:45281648 original size:24 final size:24
Alignment explanation
Indices: 45281621--45281683 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
45281611 TTTGACAAGA
*** *
45281621 TGAAAATAGTAAGCTTTTATGAGC
1 TGAAAATAGTAAGCTCCAACGAGC
*
45281645 TG-AAACAGTAAGCTCCAACGAGC
1 TGAAAATAGTAAGCTCCAACGAGC
45281668 TGAAAATAGTAAGCTC
1 TGAAAATAGTAAGCTC
45281684 TTACAAGCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 18 0.56
24 14 0.44
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.24
Consensus pattern (24 bp):
TGAAAATAGTAAGCTCCAACGAGC
Found at i:45281692 original size:24 final size:24
Alignment explanation
Indices: 45281605--45281692 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
45281595 AGCTAAAACG
*
45281605 GTAAGCT-TTGACAAGATGAAAATA
1 GTAAGCTCTT-ACAAGCTGAAAATA
* ** *
45281629 GTAAGCTTTTATGAGCTG-AAACA
1 GTAAGCTCTTACAAGCTGAAAATA
** *
45281652 GTAAGCTCCAACGAGCTGAAAATA
1 GTAAGCTCTTACAAGCTGAAAATA
45281676 GTAAGCTCTTACAAGCT
1 GTAAGCTCTTACAAGCT
45281693 AATATATTGG
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 18 0.36
24 30 0.60
25 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (24 bp):
GTAAGCTCTTACAAGCTGAAAATA
Found at i:45287287 original size:19 final size:20
Alignment explanation
Indices: 45287253--45287302 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 20
45287243 TATTCTAGAA
45287253 ATTTTTTAAATATTTTTTA-G
1 ATTTTTTAAA-ATTTTTTATG
45287273 ATTTTTT-AAATTTTTTATG
1 ATTTTTTAAAATTTTTTATG
45287292 ATTTTTTAAAA
1 ATTTTTTAAAA
45287303 AAATATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.29
19 10 0.36
20 10 0.36
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (20 bp):
ATTTTTTAAAATTTTTTATG
Found at i:45287299 original size:10 final size:9
Alignment explanation
Indices: 45287264--45287299 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
45287254 TTTTTTAAAT
45287264 ATTTTTTAG
1 ATTTTTTAG
*
45287273 ATTTTTTAA
1 ATTTTTTAG
45287282 ATTTTTTATG
1 ATTTTTTA-G
45287292 ATTTTTTA
1 ATTTTTTA
45287300 AAAAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (9 bp):
ATTTTTTAG
Found at i:45287339 original size:10 final size:10
Alignment explanation
Indices: 45287311--45287382 Score: 62
Period size: 10 Copynumber: 7.5 Consensus size: 10
45287301 AAAAATATAA
*
45287311 ATTTTGAA-A
1 ATTTTGAATT
*
45287320 ATTTTAAATT
1 ATTTTGAATT
45287330 ATTTTGAA-T
1 ATTTTGAATT
**
45287339 -TTTAAAATT
1 ATTTTGAATT
45287348 ATTTTGAATT
1 ATTTTGAATT
*
45287358 -TTTTAAAATT
1 ATTTT-GAATT
45287368 ATTTTGAATT
1 ATTTTGAATT
45287378 ATTTT
1 ATTTT
45287383 ATAATTTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
8 5 0.10
9 13 0.27
10 27 0.55
11 4 0.08
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (10 bp):
ATTTTGAATT
Found at i:45287348 original size:18 final size:18
Alignment explanation
Indices: 45287319--45287377 Score: 93
Period size: 20 Copynumber: 3.2 Consensus size: 18
45287309 AAATTTTGAA
45287319 AATTTT-AAATTATTTTG
1 AATTTTAAAATTATTTTG
45287336 AATTTTAAAATTATTTTG
1 AATTTTAAAATTATTTTG
45287354 AATTTTTTAAAATTATTTTG
1 AA--TTTTAAAATTATTTTG
45287374 AATT
1 AATT
45287378 ATTTTATAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.15
18 15 0.38
20 18 0.46
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
AATTTTAAAATTATTTTG
Found at i:45287392 original size:10 final size:11
Alignment explanation
Indices: 45287337--45287394 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
45287327 ATTATTTTGA
45287337 ATTTTAAAATT
1 ATTTTAAAATT
*
45287348 ATTTT-GAATT
1 ATTTTAAAATT
45287358 -TTTTAAAATT
1 ATTTTAAAATT
*
45287368 ATTTT-GAATT
1 ATTTTAAAATT
*
45287378 ATTTTATAATT
1 ATTTTAAAATT
*
45287389 TTTTTA
1 ATTTTA
45287395 GAGAGACTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 4 0.10
10 17 0.44
11 18 0.46
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
ATTTTAAAATT
Found at i:45287700 original size:26 final size:26
Alignment explanation
Indices: 45287653--45287712 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
45287643 TTGGGATTTT
*
45287653 TATTTTTAAAATTTAATGTTTTTATA
1 TATTTTTAAAATTTAATATTTTTATA
* *
45287679 TATTCTTTAAAATTT-TTATTTTTTTA
1 TATT-TTTAAAATTTAATATTTTTATA
45287705 TAATTTTT
1 T-ATTTTT
45287713 GAATACTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (26 bp):
TATTTTTAAAATTTAATATTTTTATA
Found at i:45288171 original size:104 final size:104
Alignment explanation
Indices: 45288048--45288256 Score: 418
Period size: 104 Copynumber: 2.0 Consensus size: 104
45288038 CTCGTAACCC
45288048 TTATAAAAACACTAATGATTAATAATTATTAAAATAATAAGAAAATCCCTATACTACAAACCCTT
1 TTATAAAAACACTAATGATTAATAATTATTAAAATAATAAGAAAATCCCTATACTACAAACCCTT
45288113 ATATTTTTACATCTAAGCCTGTAACCTTTTACCTAATAT
66 ATATTTTTACATCTAAGCCTGTAACCTTTTACCTAATAT
45288152 TTATAAAAACACTAATGATTAATAATTATTAAAATAATAAGAAAATCCCTATACTACAAACCCTT
1 TTATAAAAACACTAATGATTAATAATTATTAAAATAATAAGAAAATCCCTATACTACAAACCCTT
45288217 ATATTTTTACATCTAAGCCTGTAACCTTTTACCTAATAT
66 ATATTTTTACATCTAAGCCTGTAACCTTTTACCTAATAT
45288256 T
1 T
45288257 CTGTTAAGCC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.36
Consensus pattern (104 bp):
TTATAAAAACACTAATGATTAATAATTATTAAAATAATAAGAAAATCCCTATACTACAAACCCTT
ATATTTTTACATCTAAGCCTGTAACCTTTTACCTAATAT
Found at i:45293140 original size:17 final size:16
Alignment explanation
Indices: 45293106--45293144 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
45293096 GTTTGGTTGA
* *
45293106 TTATTTTTTTAATGTT
1 TTATTTTTTGAATATT
45293122 TTATATTTTTGAATATT
1 TTAT-TTTTTGAATATT
45293139 TTATTT
1 TTATTT
45293145 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (16 bp):
TTATTTTTTGAATATT
Found at i:45295453 original size:21 final size:21
Alignment explanation
Indices: 45295417--45295473 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
45295407 TAACTTAACA
* *
45295417 ATAAAAGATCAGGAATCTATG
1 ATAAAAGATTAAGAATCTATG
*
45295438 ATAAATGATTAAGAATCTATG
1 ATAAAAGATTAAGAATCTATG
45295459 ATAAAAGATTAAGAA
1 ATAAAAGATTAAGAA
45295474 CCTAATTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.53, C:0.05, G:0.16, T:0.26
Consensus pattern (21 bp):
ATAAAAGATTAAGAATCTATG
Found at i:45295905 original size:37 final size:37
Alignment explanation
Indices: 45295855--45295932 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
45295845 TAAAAAAGAC
*
45295855 TAAATCGTGTAAAGTGAAAAAGTGTTGTTCTAATAGT
1 TAAATCATGTAAAGTGAAAAAGTGTTGTTCTAATAGT
**
45295892 TAAATCATGTAAAGTTTAAAAGTGTTGTTCTAATAGT
1 TAAATCATGTAAAGTGAAAAAGTGTTGTTCTAATAGT
45295929 TAAA
1 TAAA
45295933 GGTATTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (37 bp):
TAAATCATGTAAAGTGAAAAAGTGTTGTTCTAATAGT
Found at i:45295931 original size:21 final size:21
Alignment explanation
Indices: 45295872--45295932 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
45295862 TGTAAAGTGA
45295872 AAAAGTGTTGTTCTAATAGTT
1 AAAAGTGTTGTTCTAATAGTT
**
45295893 -AAA-TCATG---TAA-AGTTT
1 AAAAGTGTTGTTCTAATAG-TT
45295909 AAAAGTGTTGTTCTAATAGTT
1 AAAAGTGTTGTTCTAATAGTT
45295930 AAA
1 AAA
45295933 GGTATTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 14
0.62 0.09 0.30
Matches are distributed among these distances:
15 2 0.07
16 5 0.17
17 3 0.10
18 3 0.10
19 3 0.10
20 3 0.10
21 8 0.28
22 2 0.07
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (21 bp):
AAAAGTGTTGTTCTAATAGTT
Found at i:45299233 original size:6 final size:6
Alignment explanation
Indices: 45299196--45299289 Score: 70
Period size: 6 Copynumber: 15.3 Consensus size: 6
45299186 TTGCATTCAC
* *
45299196 ATTCTGG ATT-TG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACTTG
1 ATTCT-G ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-TC-TG
* *
45299246 ATTTTG ATTCTA ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
45299290 AATGTTTCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
5 8 0.11
6 51 0.73
7 9 0.13
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:45299235 original size:25 final size:25
Alignment explanation
Indices: 45299196--45299280 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 25
45299186 TTGCATTCAC
45299196 ATTCTGGATT-TGATTCTGTTACCTG
1 ATTCT-GATTCTGATTCTGTTACCTG
* * *
45299221 ATACTGATTCTGATTCTGTCACTTG
1 ATTCTGATTCTGATTCTGTTACCTG
* *
45299246 ATTTTGATTCTAATTCTGATT--CTG
1 ATTCTGATTCTGATTCTG-TTACCTG
45299270 ATTCTGATTCT
1 ATTCTGATTCT
45299281 AGTTCTGATA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
24 16 0.33
25 32 0.65
26 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:45301269 original size:27 final size:26
Alignment explanation
Indices: 45301238--45301332 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 26
45301228 TTAGTTTACC
* * *
45301238 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTAC-CAAATACCCTCGATTTGTA
* *
45301265 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAA-TACCCTCGATTTGTA
*
45301292 AAATTAGCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCTCGATTTGTA
45301319 AAATTACCGAAATA
1 AAATTACC-AAATA
45301333 AGATAGAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
26 5 0.09
27 47 0.82
28 5 0.09
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (26 bp):
AAATTACCAAATACCCTCGATTTGTA
Found at i:45301369 original size:27 final size:27
Alignment explanation
Indices: 45301339--45301508 Score: 178
Period size: 27 Copynumber: 6.3 Consensus size: 27
45301329 AATAAGATAG
45301339 AATTACCATTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
** *
45301366 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAA
*
45301393 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAA
* *
45301420 AATTACCATTTTACCTTCGATTTATAA
1 AATTACCATTTTACCCTCGATTTACAA
* *** * *
45301447 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
*** ** *
45301474 AATTACCAAAATACCCTCGATCAATAA
1 AATTACCATTTTACCCTCGATTTACAA
45301501 AATTACCA
1 AATTACCA
45301509 AAATACCCCT
Statistics
Matches: 121, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAA
Found at i:45301489 original size:81 final size:81
Alignment explanation
Indices: 45301337--45301494 Score: 208
Period size: 81 Copynumber: 2.0 Consensus size: 81
45301327 GAAATAAGAT
**** * *
45301337 AGAATTACCATTTTACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCAT
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAA
**
45301402 TTTACCCTCGATTTAC
66 AATACCCTCGATTTAC
* * * *
45301418 AGAATTACCATTTTACCTTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAA
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAA
45301483 AATACCCTCGAT
66 AATACCCTCGAT
45301495 CAATAAAATT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (81 bp):
AGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGATTTACAAAATTACCAA
AATACCCTCGATTTAC
Found at i:45301530 original size:27 final size:27
Alignment explanation
Indices: 45301438--45301546 Score: 112
Period size: 27 Copynumber: 4.0 Consensus size: 27
45301428 TTTTACCTTC
* *
45301438 GATTTATAAAATTACTAAAATACCCTT
1 GATTTATAAAATTACCAAAATACCCCT
* *
45301465 GGTTTACAAAATTACCAAAATA-CCCT
1 GATTTATAAAATTACCAAAATACCCCT
**
45301491 CGATCAATAAAATTACCAAAATACCCCT
1 -GATTTATAAAATTACCAAAATACCCCT
* * * *
45301519 GATTTGTGAAATTATCGAAATACCCCT
1 GATTTATAAAATTACCAAAATACCCCT
45301546 G
1 G
45301547 TAGGGTAGAA
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
26 3 0.05
27 59 0.89
28 4 0.06
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
GATTTATAAAATTACCAAAATACCCCT
Found at i:45303124 original size:29 final size:29
Alignment explanation
Indices: 45303087--45303189 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
45303077 GTTGAGAGAT
*
45303087 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
*
45303116 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* *
45303145 TGGCACTAAGTGTGCGAG-TTTAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
45303174 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
45303190 CGGTTGATTA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
28 5 0.07
29 65 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:45311067 original size:29 final size:29
Alignment explanation
Indices: 45311027--45311187 Score: 261
Period size: 29 Copynumber: 5.6 Consensus size: 29
45311017 GTTGAGAGAT
45311027 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTGAGTGTGCGAGCTTGAAATGCA
*
45311056 TGTCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTGAGTGTGCGAGCTTGAAATGCA
45311085 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTGAGTGTGCGAGCTTGAAATGCA
45311114 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTGAGTGTGCGAGCTTGAAATGCA
* * *
45311143 TGGCACTAAGTGTGCGAG-TTTAAAGTACA
1 TGGCACTGAGTGTGCGAGCTTGAAA-TGCA
*
45311172 TGGCACTAAGTGTGCG
1 TGGCACTGAGTGTGCG
45311188 CGGTTGATTA
Statistics
Matches: 126, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
28 5 0.04
29 121 0.96
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTGAGTGTGCGAGCTTGAAATGCA
Found at i:45312920 original size:23 final size:24
Alignment explanation
Indices: 45312831--45312922 Score: 116
Period size: 25 Copynumber: 3.8 Consensus size: 24
45312821 GGGTGTTACA
45312831 ACCCTTGTAGGTAGAATTACTGAAAT
1 ACCC-TGTAGGTAGAATTAC-GAAAT
*
45312857 ACCCTATAGGTAGAATTATCGAAAT
1 ACCCTGTAGGTAGAATTA-CGAAAT
*
45312882 ACCCT-TAGGTAGAATTACGAGAT
1 ACCCTGTAGGTAGAATTACGAAAT
*
45312905 ACCCTGTGGGTA-AATTAC
1 ACCCTGTAGGTAGAATTAC
45312923 CATTTTGCCC
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
23 16 0.26
24 17 0.28
25 23 0.38
26 5 0.08
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (24 bp):
ACCCTGTAGGTAGAATTACGAAAT
Found at i:45313360 original size:12 final size:12
Alignment explanation
Indices: 45313340--45313395 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
45313330 TTCTGTTACC
*
45313340 TGATACTGATTT
1 TGATTCTGATTT
*
45313352 TGATTCTGATTC
1 TGATTCTGATTT
*
45313364 TG-TCACTTGATTT
1 TGAT-TC-TGATTT
*
45313377 TGATTCTGATTA
1 TGATTCTGATTT
45313389 TGATTCT
1 TGATTCT
45313396 AATTCTAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 1 0.03
12 25 0.71
13 8 0.23
14 1 0.03
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (12 bp):
TGATTCTGATTT
Found at i:45313419 original size:24 final size:24
Alignment explanation
Indices: 45313380--45313425 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
45313370 TTGATTTTGA
*
45313380 TTCTGATTATGATTCTAATTCTAG
1 TTCTGATAATGATTCTAATTCTAG
* *
45313404 TTCTGATAATGTTTCTTATTCT
1 TTCTGATAATGATTCTAATTCT
45313426 GTAATGGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.13, G:0.11, T:0.54
Consensus pattern (24 bp):
TTCTGATAATGATTCTAATTCTAG
Found at i:45320939 original size:27 final size:27
Alignment explanation
Indices: 45320834--45320940 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 27
45320824 AGCATGGCTG
* * * *
45320834 CCAGAACAGATAA-TATGACAGAGTCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
* *
45320860 CCA-ATACAGATAATCGTGGCAGAACCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
*
45320887 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGATCAGATAAT-TGTGGCAGAGCCA
*
45320914 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
45320941 GCAGGACGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
25 1 0.02
26 12 0.18
27 49 0.75
28 3 0.05
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.17
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGCCA
Found at i:45336256 original size:27 final size:27
Alignment explanation
Indices: 45336225--45336402 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45336215 TAAATTGTAC
45336225 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
45336252 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45336278 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
45336306 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
45336334 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45336361 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
45336388 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45336403 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:45336339 original size:82 final size:81
Alignment explanation
Indices: 45336226--45336381 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45336216 AAATTGTACA
* *
45336226 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
45336290 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
45336307 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
45336372 TGCGAGTTGA
65 TGCGAATTGA
45336382 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45336393 original size:82 final size:81
Alignment explanation
Indices: 45336222--45336402 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
45336212 GATTAAATTG
* *
45336222 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
45336287 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
45336303 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
45336367 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
45336385 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
45336403 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:45344347 original size:27 final size:27
Alignment explanation
Indices: 45344316--45344493 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45344306 TAAATTGTAC
45344316 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
45344343 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45344369 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
45344397 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
45344425 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
45344452 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
45344479 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45344494 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:45344430 original size:82 final size:81
Alignment explanation
Indices: 45344317--45344472 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45344307 AAATTGTACA
* *
45344317 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
45344381 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
45344398 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
45344463 TGCGAGTTGA
65 TGCGAATTGA
45344473 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45344484 original size:82 final size:81
Alignment explanation
Indices: 45344313--45344493 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
45344303 GATTAAATTG
* *
45344313 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
45344378 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
45344394 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
45344458 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
45344476 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
45344494 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:45349802 original size:27 final size:27
Alignment explanation
Indices: 45349772--45349949 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45349762 ATATTGAGTC
* * * *
45349772 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45349799 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45349826 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45349854 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45349881 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45349908 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45349935 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45349950 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45349911 original size:82 final size:81
Alignment explanation
Indices: 45349793--45349948 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45349783 TGCTATATAA
* *
45349793 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45349858 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45349875 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45349939 CACTTAGTGC
65 CACTTAGTGC
45349949 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45357901 original size:27 final size:27
Alignment explanation
Indices: 45357871--45358047 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
45357861 TATTGAGCCT
* * * *
45357871 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
* *
45357898 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
45357925 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
45357953 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
45357980 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
45358007 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
45358034 GCACACTTAGTGCT
1 GCACACTTAGTGCT
45358048 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:45358009 original size:82 final size:81
Alignment explanation
Indices: 45357891--45358046 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45357881 TGCTATATAA
* *
45357891 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45357956 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45357973 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45358037 CACTTAGTGC
65 CACTTAGTGC
45358047 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45361037 original size:27 final size:27
Alignment explanation
Indices: 45361006--45361183 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45360996 TAAATTGTAC
*
45361006 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
45361033 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
45361059 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
*
45361087 GGCACTAAGTGTGCGAGATTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
45361115 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
45361142 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
45361169 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45361184 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:45361120 original size:82 final size:81
Alignment explanation
Indices: 45361007--45361162 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
45360997 AAATTGTACA
* * *
45361007 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
45361071 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
45361088 GCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
45361153 TGCGAGTTGA
65 TGCGAATTGA
45361163 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45361174 original size:82 final size:81
Alignment explanation
Indices: 45361003--45361183 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
45360993 GATTAAATTG
* * *
45361003 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
45361068 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
45361084 TGCGGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
45361148 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
45361166 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
45361184 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:45368928 original size:27 final size:27
Alignment explanation
Indices: 45368897--45369074 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45368887 TAAATTGTAC
*
45368897 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
45368924 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
45368950 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
*
45368978 GGCACTAAGTGTGCGAGATTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
45369006 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
45369033 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
45369060 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45369075 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:45369011 original size:82 final size:81
Alignment explanation
Indices: 45368898--45369053 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
45368888 AAATTGTACA
* * *
45368898 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
45368962 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
45368979 GCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
45369044 TGCGAGTTGA
65 TGCGAATTGA
45369054 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45369065 original size:82 final size:81
Alignment explanation
Indices: 45368894--45369074 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
45368884 GATTAAATTG
* * *
45368894 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
45368959 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
45368975 TGCGGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
45369039 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
45369057 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
45369075 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:45373832 original size:27 final size:28
Alignment explanation
Indices: 45373794--45373855 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
45373784 GTCATTATCA
45373794 ACCCCATAAGTTAT-AAACTCTTCCTAT
1 ACCCCATAAGTTATGAAACTCTTCCTAT
* *
45373821 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATGAAACTCTTCCTAT
45373849 ACCCCAT
1 ACCCCAT
45373856 TAATATGGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 14 0.44
28 18 0.56
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATGAAACTCTTCCTAT
Found at i:45376344 original size:57 final size:57
Alignment explanation
Indices: 45376235--45376358 Score: 162
Period size: 57 Copynumber: 2.2 Consensus size: 57
45376225 AATAGAGGGA
* * *
45376235 ACCCAACTATGGTTATTTTTTTTTGGTCACCCAATTATGAAAAGTTACAAAATGGTC
1 ACCCAACTATGGTTATTTTTTTTTGATCACCCAACTATGAAAAGTTACAAAATGATC
* *
45376292 ACCCAACTATGGTTTTTTTCTCTTTTGATCACCCAACTATG-AAAG-TATAAAATGATC
1 ACCCAACTATGGTTATTTT-T-TTTTGATCACCCAACTATGAAAAGTTACAAAATGATC
*
45376349 ATCCAACTAT
1 ACCCAACTAT
45376359 CCAATTTGTC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
57 37 0.63
58 5 0.08
59 17 0.29
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.36
Consensus pattern (57 bp):
ACCCAACTATGGTTATTTTTTTTTGATCACCCAACTATGAAAAGTTACAAAATGATC
Found at i:45376375 original size:57 final size:59
Alignment explanation
Indices: 45376253--45376380 Score: 143
Period size: 57 Copynumber: 2.2 Consensus size: 59
45376243 ATGGTTATTT
* * **** *
45376253 TTTTTTGGTCACCCAATTATGAAAAGTTACAAAATGGTCACCCAACTATGGTTTTTTTC
1 TTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGATCACCCAACTATCCAATTTGTC
* * * *
45376312 TCTTTTGATCACCCAACTATG-AAAG-TATAAAATGATCATCCAACTATCCAATTTGTC
1 TTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGATCACCCAACTATCCAATTTGTC
45376369 TTTTTTGGTCAC
1 TTTTTTGGTCAC
45376381 TAGTTGGCTA
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
57 34 0.61
58 4 0.07
59 18 0.32
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (59 bp):
TTTTTTGGTCACCCAACTATGAAAAGTTACAAAATGATCACCCAACTATCCAATTTGTC
Found at i:45377088 original size:16 final size:16
Alignment explanation
Indices: 45377054--45377087 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
45377044 ATTAAACATG
45377054 AAATGATCCAAACCCA
1 AAATGATCCAAACCCA
*
45377070 AAATGA-CCTAACCCA
1 AAATGATCCAAACCCA
45377085 AAA
1 AAA
45377088 AAACTCAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.53, C:0.29, G:0.06, T:0.12
Consensus pattern (16 bp):
AAATGATCCAAACCCA
Found at i:45383614 original size:27 final size:27
Alignment explanation
Indices: 45383576--45383627 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
45383566 ATAAGGGGTT
45383576 TAAAAAAGATGTGTTTGAAAAATTGCA
1 TAAAAAAGATGTGTTTGAAAAATTGCA
45383603 TAAAAAAGATGTGTTTGAAAAATTG
1 TAAAAAAGATGTGTTTGAAAAATTG
45383628 TATGGCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.19, T:0.31
Consensus pattern (27 bp):
TAAAAAAGATGTGTTTGAAAAATTGCA
Found at i:45384630 original size:16 final size:13
Alignment explanation
Indices: 45384605--45384644 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
45384595 CTACATATAC
45384605 TTTTACAACAACA
1 TTTTACAACAACA
45384618 TTTTACAACAACA
1 TTTTACAACAACA
45384631 TTTTACAACAACA
1 TTTTACAACAACA
45384644 T
1 T
45384645 AAAAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTTACAACAACA
Found at i:45385395 original size:11 final size:11
Alignment explanation
Indices: 45385379--45385403 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45385369 ACAAAAGAGG
45385379 GGAAAATGAAA
1 GGAAAATGAAA
45385390 GGAAAATGAAA
1 GGAAAATGAAA
45385401 GGA
1 GGA
45385404 GAACGAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (11 bp):
GGAAAATGAAA
Found at i:45386406 original size:4 final size:4
Alignment explanation
Indices: 45386397--45386425 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
45386387 CTTATTTTTA
45386397 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
45386426 TCAATGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:45387376 original size:2 final size:2
Alignment explanation
Indices: 45387364--45387393 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
45387354 ATCCTATAAA
45387364 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45387394 AACAACGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:45387877 original size:67 final size:67
Alignment explanation
Indices: 45387793--45387923 Score: 210
Period size: 67 Copynumber: 2.0 Consensus size: 67
45387783 TTAATAATCA
* * *
45387793 ATTGAGTTTTTAATCAAAAGTTAGTAATTAATCGAACCTTTTAAATAT-AGTTTTTCGTCGAAGC
1 ATTGAGTTCTTAATCAAAAGTTAGTAATTAATCAAACCTTTTAAATATGA-TTTTCCGTCGAAGC
45387857 CCC
65 CCC
*
45387860 ATTGAGTTCTTAATCAAAAGTTAGTAATTAATCAAACTTTTTAAATATGATTTTCCGTCGAAGC
1 ATTGAGTTCTTAATCAAAAGTTAGTAATTAATCAAACCTTTTAAATATGATTTTCCGTCGAAGC
45387924 TCTTGATGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 58 0.98
68 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (67 bp):
ATTGAGTTCTTAATCAAAAGTTAGTAATTAATCAAACCTTTTAAATATGATTTTCCGTCGAAGCC
CC
Found at i:45388043 original size:30 final size:30
Alignment explanation
Indices: 45387970--45388048 Score: 113
Period size: 31 Copynumber: 2.6 Consensus size: 30
45387960 GAACATAAAA
*
45387970 GCTTAATTGATTCTTTAAATTATTTTATGAG
1 GCTTAATTGATT-TTTAAATTATTTTAAGAG
*
45388001 GACTTAATTGATTTTTTAATTATTTTAAGAG
1 G-CTTAATTGATTTTTAAATTATTTTAAGAG
*
45388032 GCTTAAATGATTTTTAA
1 GCTTAATTGATTTTTAA
45388049 GGATTATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 14 0.33
31 18 0.42
32 11 0.26
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.51
Consensus pattern (30 bp):
GCTTAATTGATTTTTAAATTATTTTAAGAG
Found at i:45388169 original size:19 final size:19
Alignment explanation
Indices: 45388118--45388176 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 19
45388108 AATTTTAATT
45388118 TTTTAATAATATTTAATAAC
1 TTTTAATAAT-TTTAATAAC
45388138 TTCTATAAT-ATTTT-ATAAC
1 TT-T-TAATAATTTTAATAAC
45388157 ATTTTAATAATTTCTAATAA
1 -TTTTAATAATTT-TAATAA
45388177 TTGTTAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
18 4 0.12
19 10 0.30
20 8 0.24
21 7 0.21
22 4 0.12
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAATAATTTTAATAAC
Found at i:45388178 original size:10 final size:9
Alignment explanation
Indices: 45388108--45388193 Score: 52
Period size: 10 Copynumber: 8.9 Consensus size: 9
45388098 AAGGGGTAGC
45388108 AATTTTAAT
1 AATTTTAAT
*
45388117 -TTTTTAAT
1 AATTTTAAT
45388125 AATATTTAAT
1 AAT-TTTAAT
45388135 AACTTCTATAAT
1 AA-TT-T-TAAT
45388147 -ATTTT-AT
1 AATTTTAAT
45388154 AACATTTTAAT
1 -A-ATTTTAAT
45388165 AATTTCTAAT
1 AATTT-TAAT
*
45388175 AATTGTTAAAA
1 AATT-TT-AAT
45388186 AATTTTAA
1 AATTTTAA
45388194 ATAAAAAGTT
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
7 2 0.03
8 8 0.13
9 8 0.13
10 28 0.45
11 12 0.19
12 4 0.06
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (9 bp):
AATTTTAAT
Found at i:45388191 original size:30 final size:30
Alignment explanation
Indices: 45388129--45388193 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
45388119 TTTAATAATA
* * *
45388129 TTTAATAACTTCTATAATATTTTATAACAT
1 TTTAATAACTTCTATAATATGTTAAAAAAT
*
45388159 TTTAATAATTTCTAATAAT-TGTTAAAAAAT
1 TTTAATAACTTCT-ATAATATGTTAAAAAAT
45388189 TTTAA
1 TTTAA
45388194 ATAAAAAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (30 bp):
TTTAATAACTTCTATAATATGTTAAAAAAT
Found at i:45388512 original size:17 final size:18
Alignment explanation
Indices: 45388475--45388515 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
45388465 TTTTTACAAA
45388475 TATATTTTTAATAAGTTTT
1 TATA-TTTTAATAAGTTTT
*
45388494 TATATTTTAATTA-TTTT
1 TATATTTTAATAAGTTTT
45388511 TATAT
1 TATAT
45388516 AGATTCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 8 0.38
19 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TATATTTTAATAAGTTTT
Found at i:45388516 original size:19 final size:20
Alignment explanation
Indices: 45388474--45388516 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
45388464 TTTTTTACAA
45388474 ATATATTTTTAATAAGTTTT
1 ATATATTTTTAATAAGTTTT
* *
45388494 -TATA-TTTTAATTATTTTT
1 ATATATTTTTAATAAGTTTT
45388512 ATATA
1 ATATA
45388517 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
ATATATTTTTAATAAGTTTT
Found at i:45389410 original size:18 final size:18
Alignment explanation
Indices: 45389376--45389413 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45389366 TTTTGAATTA
*
45389376 ATTTAAATATTTAAATAC
1 ATTTAAATAATTAAATAC
45389394 ATTTCAAATAATT-AATAC
1 ATTT-AAATAATTAAATAC
45389412 AT
1 AT
45389414 AGAAGGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTTAAATAATTAAATAC
Found at i:45391992 original size:2 final size:2
Alignment explanation
Indices: 45391985--45392011 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45391975 CAGTTCAAGA
45391985 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
45392012 AACCAAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45392300 original size:33 final size:34
Alignment explanation
Indices: 45392254--45392319 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
45392244 ACAGTGCATG
* *
45392254 CAGTAACAGTCTGGGCC-TGAGCCCTATTCAGTAT
1 CAGTAACAATCTGGGCCAT-AGCCCTATACAGTAT
45392288 CAGT-ACAATCTGGGCCATAGCCCTATACAGTA
1 CAGTAACAATCTGGGCCATAGCCCTATACAGTA
45392320 ATAGTGTGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 24 0.83
34 5 0.17
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (34 bp):
CAGTAACAATCTGGGCCATAGCCCTATACAGTAT
Found at i:45392563 original size:27 final size:27
Alignment explanation
Indices: 45392504--45392563 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
45392494 AGCATAGCTG
* *
45392504 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
* * * *
45392531 CTAGTAACAGTGAATGTGACATAGTCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
45392558 CCAGTA
1 CCAGTA
45392564 CAATACTTTC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGACAAAGCCA
Found at i:45392746 original size:27 final size:27
Alignment explanation
Indices: 45392716--45392824 Score: 114
Period size: 27 Copynumber: 4.1 Consensus size: 27
45392706 CATTTTACTA
*
45392716 TACAGGGATATTATGGTCATTTTATCC
1 TACAGGGATATTACGGTCATTTTATCC
** *
45392743 TACAGGGGCATTACAGTCATTTTATCC
1 TACAGGGATATTACGGTCATTTTATCC
* *
45392770 TACA-AGAGTATTACGGTCATTTTACCC
1 TACAGGGA-TATTACGGTCATTTTATCC
* * *
45392797 TATAGGGGTATTACGGTCGTTTTA-CC
1 TACAGGGATATTACGGTCATTTTATCC
45392823 TA
1 TA
45392825 TTTTGAGGTT
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.07
27 61 0.91
28 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
TACAGGGATATTACGGTCATTTTATCC
Found at i:45394032 original size:20 final size:21
Alignment explanation
Indices: 45394002--45394043 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
45393992 AATAGGGGGA
45394002 AAAAAGAAGAAAATGGAGAAC
1 AAAAAGAAGAAAATGGAGAAC
45394023 AAAAAG-AGAAAATGGAGAAC
1 AAAAAGAAGAAAATGGAGAAC
45394043 A
1 A
45394044 GAAGGGGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.67, C:0.05, G:0.24, T:0.05
Consensus pattern (21 bp):
AAAAAGAAGAAAATGGAGAAC
Found at i:45396094 original size:84 final size:86
Alignment explanation
Indices: 45395940--45396099 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 86
45395930 CATAATTAAA
* * * *
45395940 TTATATATTTTTATGATAATAAAAATGTAATTTTATCATTTCAATAGTTTATATTTTTATAATTT
1 TTATATATTTTTATGATAATAAAAATATAATTTTATCATTTCAATAATTTAAAATTTTATAATTT
* *
45396005 TTAAAATATTAAATTAAATTT
66 ATAAAAAATTAAATTAAATTT
*
45396026 TTAT-TATTTTTA-GA-AAGTAAAAATATAATTTTATCA-TT-ATTAATTTAAAATTTTATAAAT
1 TTATATATTTTTATGATAA-TAAAAATATAATTTTATCATTTCAATAATTTAAAATTTTAT-AAT
45396086 TATATAAAAAATTA
64 T-TATAAAAAATTA
45396100 CCAGGGACAT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
82 14 0.22
83 8 0.12
84 30 0.47
85 8 0.12
86 4 0.06
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (86 bp):
TTATATATTTTTATGATAATAAAAATATAATTTTATCATTTCAATAATTTAAAATTTTATAATTT
ATAAAAAATTAAATTAAATTT
Found at i:45403730 original size:17 final size:18
Alignment explanation
Indices: 45403697--45403731 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45403687 ATAGAAGTTG
45403697 AAATAACTATAAATTTAA
1 AAATAACTATAAATTTAA
*
45403715 AAATAATTAT-AATTTAA
1 AAATAACTATAAATTTAA
45403732 TAAAGTTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATAACTATAAATTTAA
Found at i:45405052 original size:26 final size:27
Alignment explanation
Indices: 45405023--45405081 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
45405013 TTAGAATAGG
* *
45405023 TAATATA-GGCGAAAGTTTGAAATAAA
1 TAATATACGGCAAAAGTTTAAAATAAA
*
45405049 TAATATACGGTAAAAGTTTAAAATAAA
1 TAATATACGGCAAAAGTTTAAAATAAA
45405076 TAATAT
1 TAATAT
45405082 GTAAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.53, C:0.03, G:0.14, T:0.31
Consensus pattern (27 bp):
TAATATACGGCAAAAGTTTAAAATAAA
Found at i:45405315 original size:25 final size:25
Alignment explanation
Indices: 45405235--45405319 Score: 70
Period size: 27 Copynumber: 3.4 Consensus size: 25
45405225 TAATATATAT
* *
45405235 AATTTTAAAGTAAATAA--TAAAAC
1 AATTTTAAAATAAATAATGTAAAAG
*
45405258 AA-TTTAAAATGAAA-AATGCATAAAG
1 AATTTTAAAAT-AAATAATGTA-AAAG
* *
45405283 CGAGTTTAAAATAAATAATGTAAAAG
1 -AATTTTAAAATAAATAATGTAAAAG
45405309 AATTTTAAAAT
1 AATTTTAAAAT
45405320 CTATATTACA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
22 9 0.19
23 5 0.10
24 1 0.02
25 12 0.25
26 8 0.17
27 13 0.27
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (25 bp):
AATTTTAAAATAAATAATGTAAAAG
Found at i:45405625 original size:17 final size:17
Alignment explanation
Indices: 45405603--45405640 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
45405593 TGAAATACAT
*
45405603 AATATACAATAACTTAA
1 AATATAAAATAACTTAA
*
45405620 AATATAAAATAATTTAA
1 AATATAAAATAACTTAA
45405637 AATA
1 AATA
45405641 AATATATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
AATATAAAATAACTTAA
Found at i:45405672 original size:21 final size:20
Alignment explanation
Indices: 45405619--45405672 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
45405609 CAATAACTTA
*
45405619 AAATATAAAATAATTTAAAAT
1 AAATAT-AAATAATTTAAAAG
*
45405640 AAATATATAATAATTTTTAAAG
1 AAATATA-AATAA-TTTAAAAG
*
45405662 AATTATAAATA
1 AAATATAAATA
45405673 TCTAAAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.04
21 15 0.54
22 12 0.43
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAATATAAATAATTTAAAAG
Found at i:45407587 original size:45 final size:45
Alignment explanation
Indices: 45407486--45407603 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 45
45407476 TAGCCTTAAT
* * * **
45407486 CTGCCCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAGT
1 CTGCTCTACTGCAACTTTAGGGAGATAAGACTTGCTATCTTCAAA
** * *
45407531 CTATTCCACTGCAACTTTAGGGAGATAAGACTTGGTAAT-TTCAAA
1 CTGCTCTACTGCAACTTTAGGGAGATAAGACTTGCT-ATCTTCAAA
* *
45407576 CTGCTCTACTGCATCTTCAGGGAGATAA
1 CTGCTCTACTGCAACTTTAGGGAGATAA
45407604 TGTTAATGGC
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
45 56 0.97
46 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (45 bp):
CTGCTCTACTGCAACTTTAGGGAGATAAGACTTGCTATCTTCAAA
Found at i:45407915 original size:44 final size:44
Alignment explanation
Indices: 45407779--45407916 Score: 109
Period size: 44 Copynumber: 3.1 Consensus size: 44
45407769 CCACTACAAT
* * * * *
45407779 TTCAGAGAGATAAGA-CTTGTAACTTTAACCTGCCCCACTGCAAC
1 TTCAGAGAGATAAGATC-TGTAACTTTAATCTACTCCTCTGTAAC
* * * * * ** *
45407823 TTCAGGGGGATAAGGTTTGCTATTCTTCGATCTATTCCAT-TGTAAC
1 TTCAGAGAGATAAGATCTG-TA-ACTTTAATCTACTCC-TCTGTAAC
45407869 TTCAGAGAGATAAGATCTGTAACTTTAATCTACTCCTCTGTAAC
1 TTCAGAGAGATAAGATCTGTAACTTTAATCTACTCCTCTGTAAC
45407913 TTCA
1 TTCA
45407917 AGGAGATGAG
Statistics
Matches: 68, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
43 1 0.01
44 35 0.51
45 4 0.06
46 28 0.41
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (44 bp):
TTCAGAGAGATAAGATCTGTAACTTTAATCTACTCCTCTGTAAC
Found at i:45410882 original size:30 final size:30
Alignment explanation
Indices: 45410834--45410893 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45410824 TTCCCGAGCC
*
45410834 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
45410864 TAGGGG-AAAAATGATAATTTTGCCAAAGTT
1 TAGGGGCAAAAATG-TAATTATGCAAAAGTT
45410894 CGTATTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:45411366 original size:47 final size:47
Alignment explanation
Indices: 45411309--45411491 Score: 191
Period size: 47 Copynumber: 3.9 Consensus size: 47
45411299 CTAGGATGGT
*
45411309 TGAACA-TCCGACCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
1 TGAACAGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
** * *
45411355 TGAA-ATGTCCGAACTCGTTGAGTTGAGTCAAAGTTC-GTGA--GATG
1 TGAACA-GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
45411399 T-AACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
1 TGAAC-A-G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
* * * *
45411449 CGAACA-CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TGAACAGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45411492 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 14, Indels: 20
0.77 0.10 0.14
Matches are distributed among these distances:
43 2 0.02
44 5 0.04
45 3 0.03
46 40 0.35
47 53 0.47
48 2 0.02
50 5 0.04
51 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (47 bp):
TGAACAGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
Found at i:45418156 original size:30 final size:30
Alignment explanation
Indices: 45418109--45418166 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
45418099 TTCCCGAGCC
45418109 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* * *
45418139 TAGGGGGAAAA-TGGTAATTTTGCCAAAG
1 TAGGGGCAAAAGT-GTAATTATGCAAAAG
45418167 CTCGTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.38, C:0.07, G:0.29, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:45418641 original size:47 final size:47
Alignment explanation
Indices: 45418590--45418766 Score: 193
Period size: 47 Copynumber: 3.8 Consensus size: 47
45418580 TGGTTGAACA
* *
45418590 TCCGAACTCGTTGAGATGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
45418637 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
*
45418684 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * * *
45418730 CCCGAGCTCATTTAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45418767 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 17
0.78 0.09 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 36 0.33
47 57 0.52
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:45426196 original size:19 final size:20
Alignment explanation
Indices: 45426172--45426215 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
45426162 GGGTCCTTTC
* *
45426172 ATGAAATTTAATGCATATG-
1 ATGAAATGTAATGCAAATGA
45426191 ATGAAATGTAATGCAAATGA
1 ATGAAATGTAATGCAAATGA
45426211 ATGAA
1 ATGAA
45426216 TGCAAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.30
Consensus pattern (20 bp):
ATGAAATGTAATGCAAATGA
Found at i:45430324 original size:26 final size:25
Alignment explanation
Indices: 45430294--45430362 Score: 61
Period size: 27 Copynumber: 2.7 Consensus size: 25
45430284 AAAGCAAATA
45430294 ATAAAACAATTTAAAATGAAA-AATG
1 ATAAAACAATTTAAAAT-AAATAATG
* *
45430319 CATAAAGCGAGTTTAAAATAAATAATG
1 -ATAAAAC-AATTTAAAATAAATAATG
*
45430346 -TAAAAGAATTTTAAAAT
1 ATAAAACAA-TTTAAAAT
45430363 CTATATTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
24 1 0.03
25 12 0.34
26 9 0.26
27 13 0.37
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.28
Consensus pattern (25 bp):
ATAAAACAATTTAAAATAAATAATG
Found at i:45430685 original size:17 final size:17
Alignment explanation
Indices: 45430646--45430685 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
45430636 TTTGAAATAC
*
45430646 ATAATATACAATAACTT
1 ATAATATAAAATAACTT
* *
45430663 AAAATATAAAATAATTT
1 ATAATATAAAATAACTT
45430680 ATAATA
1 ATAATA
45430686 AATATATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATATAAAATAACTT
Found at i:45435026 original size:26 final size:26
Alignment explanation
Indices: 45434997--45435104 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
45434987 TGATACAAAT
45434997 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
45435023 TGATAATAGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
45435049 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
45435075 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45435101 TGAT
1 TGAT
45435105 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:45442135 original size:26 final size:26
Alignment explanation
Indices: 45442106--45442211 Score: 185
Period size: 26 Copynumber: 4.1 Consensus size: 26
45442096 ATACAAACTA
45442106 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
45442132 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
45442158 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
45442184 ATAATGGTTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
45442210 AT
1 AT
45442212 GGGAATTTTA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:45461269 original size:3 final size:3
Alignment explanation
Indices: 45461250--45461332 Score: 59
Period size: 3 Copynumber: 27.7 Consensus size: 3
45461240 TTATTTTCAA
* *
45461250 ATT ACTT ATT TTT ATT ATT ATT -TT ATGT -TGT -TT ATT ATT ACT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT
*
45461295 AATT ATA ATT -TCT A-T ATT ATT ATT ATT ATT ATT ATT AT
1 -ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT AT
45461333 AATATAGTAG
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
2 6 0.09
3 53 0.80
4 7 0.11
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:45461498 original size:3 final size:3
Alignment explanation
Indices: 45461441--45461478 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
45461431 TGAATTTCAA
* *
45461441 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
45461479 GTGCATATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:45461687 original size:3 final size:3
Alignment explanation
Indices: 45461646--45461670 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45461636 CTATCCAATG
45461646 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
45461671 GTATTATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:45461875 original size:22 final size:22
Alignment explanation
Indices: 45461854--45461902 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
45461844 CTTAGATTAT
*
45461854 TTATTATTTGT-CTTATCGTTA
1 TTATTATTTGTACTTACCGTTA
*
45461875 TTACTATTTGTACTTACCGTTA
1 TTATTATTTGTACTTACCGTTA
45461897 TTATTA
1 TTATTA
45461903 CTATTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.57
Consensus pattern (22 bp):
TTATTATTTGTACTTACCGTTA
Found at i:45461902 original size:3 final size:3
Alignment explanation
Indices: 45461894--45461987 Score: 72
Period size: 3 Copynumber: 32.3 Consensus size: 3
45461884 GTACTTACCG
* * *
45461894 TTA TTA TTA CTA TTA TTT TTA CTT- TTA TTA CTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA -TTA
* * * *
45461940 TTA TTA CTA TTA TTA TCA CTA TTA TT- TT- TTA TT- TT- TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45461984 TTA T
1 TTA T
45461988 CATTTTAAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
2 10 0.14
3 57 0.79
4 5 0.07
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:45462086 original size:12 final size:12
Alignment explanation
Indices: 45462069--45462102 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45462059 ATGTTTCTAT
*
45462069 TATACATGTATA
1 TATACATATATA
*
45462081 TATACATATATT
1 TATACATATATA
45462093 TATACATATA
1 TATACATATA
45462103 GTATTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (12 bp):
TATACATATATA
Found at i:45466668 original size:17 final size:19
Alignment explanation
Indices: 45466645--45466687 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 19
45466635 ATTATTATCG
45466645 TTATTATTTTATC-TTATT
1 TTATTATTTTATCGTTATT
45466663 TT-TTA--TTATCGTTATT
1 TTATTATTTTATCGTTATT
45466679 TTATTATTT
1 TTATTATTT
45466688 CTTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
17 6 0.29
18 2 0.10
19 1 0.05
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (19 bp):
TTATTATTTTATCGTTATT
Found at i:45466685 original size:29 final size:29
Alignment explanation
Indices: 45466633--45466698 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
45466623 CTTTGCATAA
45466633 TTATTATTATCGTTATTATTTTATCTTATT
1 TTATTATTATCGTTATTATTTTAT-TTATT
*
45466663 TT-TTATTATCGTTATT-TTATTATTTCTT
1 TTATTATTATCGTTATTATT-TTATTTATT
45466691 TTATTATT
1 TTATTATT
45466699 TCCAGCACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 8 0.24
29 23 0.70
30 2 0.06
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.70
Consensus pattern (29 bp):
TTATTATTATCGTTATTATTTTATTTATT
Found at i:45477962 original size:27 final size:27
Alignment explanation
Indices: 45477932--45478109 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45477922 ATATTGAGTC
* * * *
45477932 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45477959 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45477986 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45478014 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45478041 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45478068 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45478095 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45478110 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45478071 original size:82 final size:81
Alignment explanation
Indices: 45477953--45478108 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45477943 TGCTATATAA
* *
45477953 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45478018 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45478035 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45478099 CACTTAGTGC
65 CACTTAGTGC
45478109 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45484256 original size:14 final size:13
Alignment explanation
Indices: 45484221--45484252 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
45484211 CATGCCGAGA
45484221 TATTTTCAATTTC
1 TATTTTCAATTTC
45484234 TATTTTCAATTTC
1 TATTTTCAATTTC
*
45484247 TGTTTT
1 TATTTT
45484253 TCAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.03, T:0.66
Consensus pattern (13 bp):
TATTTTCAATTTC
Found at i:45484327 original size:90 final size:89
Alignment explanation
Indices: 45484153--45484329 Score: 230
Period size: 90 Copynumber: 2.0 Consensus size: 89
45484143 TGATATTTTT
* * * *
45484153 ATTTCTGTTTTTTAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTCGGGACACATGCCG
1 ATTTCTGTTTTTAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCCG
*
45484218 AGATATTTTCAATTTCTATTTTCA
66 AGATATTTTCAATTCCTATTTTCA
* * * *
45484242 ATTTCTGTTTTTCAAAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTTGGGTCACACGCT
1 ATTTCTGTTTTT-AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCC
* *
45484307 GAGGTATCTTT-AGTTCCTATTTT
65 GAGATAT-TTTCAATTCCTATTTT
45484330 TCAAAAAATC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
89 12 0.16
90 60 0.80
91 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (89 bp):
ATTTCTGTTTTTAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACACGCCG
AGATATTTTCAATTCCTATTTTCA
Found at i:45484376 original size:76 final size:77
Alignment explanation
Indices: 45484249--45484402 Score: 229
Period size: 76 Copynumber: 2.0 Consensus size: 77
45484239 TCAATTTCTG
* ** **
45484249 TTTTTCAAAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTTGGGTCACACGCTGAGGTAT
1 TTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAAATAT
45484314 CTTTAGTTCCTA
66 CTTTAGTTCCTA
*
45484326 TTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAAATAT
1 TTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAAATAT
* *
45484390 TTTTAGTTTCTA
66 CTTTAGTTCCTA
45484402 T
1 T
45484403 CTACTCATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
76 63 0.91
77 6 0.09
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (77 bp):
TTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAAATAT
CTTTAGTTCCTA
Found at i:45486313 original size:3 final size:3
Alignment explanation
Indices: 45486294--45486379 Score: 65
Period size: 3 Copynumber: 28.7 Consensus size: 3
45486284 TTATTTTCAA
* *
45486294 ATT ACTT ATT TTT ATT ATT ATT -TT ATGT -TGT -TT ATT ATT ACT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT ATT ATT
*
45486339 AATT ATA ATT -TCT A-T ATT ATT ATT ATT ATT ATT ATT ATT AT
1 -ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
45486380 ATAGTAGTGT
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
2 6 0.09
3 56 0.81
4 7 0.10
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:45486497 original size:9 final size:9
Alignment explanation
Indices: 45486481--45486514 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
45486471 TTTGTATTTC
45486481 AATATTATT
1 AATATTATT
*
45486490 ACTATTATT
1 AATATTATT
*
45486499 ATTATTATT
1 AATATTATT
45486508 AATATTA
1 AATATTA
45486515 GTGCATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (9 bp):
AATATTATT
Found at i:45486584 original size:149 final size:151
Alignment explanation
Indices: 45486368--45486645 Score: 402
Period size: 149 Copynumber: 1.9 Consensus size: 151
45486358 TTATTATTAT
* * * *
45486368 TATTATTATTATATAGTAGTGTATGTTTATTTATATATATATGTATATATAGTATTATTTTTAAT
1 TATTATTATTATATAGTAGTGTATGTATATGTATACATATATGTAAATATAGTATTATTTTTAAT
* *
45486433 TACTTTATTTTAACATTATTATTATGTTATATTTACTTTTTGTATTTCAATATTATTACTATTAT
66 TACTTTATTTTAACATTATTATTATATTATATATACTTTTTG-ATTTCAATATTATTACTATTAT
45486498 TATTATTATTAATATTAGTGCA
130 TATTATTATTAATATTAGTGCA
* *
45486520 TATTATTTTTATTATA-TA-TGTATGTATATGTATACATAT-T-TAAATATAGTATTATTTTTTA
1 TATTATTATTA-TATAGTAGTGTATGTATATGTATACATATATGTAAATATAGTATTATTTTTAA
* * * *
45486581 TTACTTTATTTTGATATTTTTATTATATTATATATGCTTTTTGATTTCAATATTATTACTATTAT
65 TTACTTTATTTTAACATTATTATTATATTATATATACTTTTTGATTTCAATATTATTACTATTAT
45486646 CATCATATTA
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
148 22 0.19
149 56 0.50
150 1 0.01
151 18 0.16
152 12 0.11
153 4 0.04
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (151 bp):
TATTATTATTATATAGTAGTGTATGTATATGTATACATATATGTAAATATAGTATTATTTTTAAT
TACTTTATTTTAACATTATTATTATATTATATATACTTTTTGATTTCAATATTATTACTATTATT
ATTATTATTAATATTAGTGCA
Found at i:45486689 original size:3 final size:3
Alignment explanation
Indices: 45486681--45486707 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
45486671 CTATCCAATG
45486681 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
45486708 ATTTTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:45486890 original size:22 final size:22
Alignment explanation
Indices: 45486869--45486917 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
45486859 CTTAGATTAT
*
45486869 TTATTATTTGT-CTTATCGTTA
1 TTATTATTTGTACTTACCGTTA
* *
45486890 TTACTATTTGTATTTACCGTTA
1 TTATTATTTGTACTTACCGTTA
45486912 TTATTA
1 TTATTA
45486918 CTATTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.59
Consensus pattern (22 bp):
TTATTATTTGTACTTACCGTTA
Found at i:45486917 original size:3 final size:3
Alignment explanation
Indices: 45486909--45487072 Score: 74
Period size: 3 Copynumber: 56.0 Consensus size: 3
45486899 GTATTTACCG
* * *
45486909 TTA TTA TTA CTA TTA TTT TTA CTT- TTA TTA CTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA -TTA
* * * *
45486955 TTA TTA CTA TTA TTA TCA CTA TTA TT- TT- TTA TT- TT- TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * * * **
45486999 TTA TCA TT- TTA -AA ACA TTG TTA CTA TTA TTC TT- TTA CCA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
45487042 ATA CGTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
45487073 GTGTATGTTT
Statistics
Matches: 119, Mismatches: 32, Indels: 20
0.70 0.19 0.12
Matches are distributed among these distances:
2 15 0.13
3 96 0.81
4 8 0.07
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:45487104 original size:12 final size:12
Alignment explanation
Indices: 45487087--45487120 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45487077 ATGTTTCTAT
*
45487087 TATACATGTATA
1 TATACATATATA
*
45487099 TATACATATATT
1 TATACATATATA
45487111 TATACATATA
1 TATACATATA
45487121 GTATTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (12 bp):
TATACATATATA
Found at i:45490955 original size:29 final size:29
Alignment explanation
Indices: 45490922--45490979 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
45490912 TGTCTAAGAG
*
45490922 AAAAAAAAGGGAGAAAGGAAGTTTTTTTTT
1 AAAACAAAGGGAGAAAGGAA-TTTTTTTTT
* * *
45490952 AAAACAAGGGGTGAAATGAATTTTTTTT
1 AAAACAAAGGGAGAAAGGAATTTTTTTT
45490980 AGAAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.43, C:0.02, G:0.22, T:0.33
Consensus pattern (29 bp):
AAAACAAAGGGAGAAAGGAATTTTTTTTT
Found at i:45491669 original size:17 final size:19
Alignment explanation
Indices: 45491646--45491688 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 19
45491636 ATTATTATCA
45491646 TTATTATTTTATC-TTATT
1 TTATTATTTTATCGTTATT
45491664 TT-TTA--TTATCGTTATT
1 TTATTATTTTATCGTTATT
45491680 TTATTATTT
1 TTATTATTT
45491689 CTTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
17 6 0.29
18 2 0.10
19 1 0.05
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (19 bp):
TTATTATTTTATCGTTATT
Found at i:45491686 original size:29 final size:29
Alignment explanation
Indices: 45491634--45491699 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
45491624 CTTTGCATAC
45491634 TTATTATTATCATTATTATTTTATCTTATT
1 TTATTATTATCATTATTATTTTAT-TTATT
* *
45491664 TT-TTATTATCGTTATT-TTATTATTTCTT
1 TTATTATTATCATTATTATT-TTATTTATT
45491692 TTATTATT
1 TTATTATT
45491700 TCCAGCACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 8 0.25
29 22 0.69
30 2 0.06
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.70
Consensus pattern (29 bp):
TTATTATTATCATTATTATTTTATTTATT
Found at i:45493583 original size:15 final size:15
Alignment explanation
Indices: 45493551--45493579 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45493541 ATTTTCAGTG
45493551 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
45493566 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
45493580 ATTTTCGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:45494857 original size:43 final size:41
Alignment explanation
Indices: 45494702--45494858 Score: 113
Period size: 43 Copynumber: 3.7 Consensus size: 41
45494692 TGTGTTCTCG
* * *
45494702 TGTAAGACCAAGTCTAGGATGTTGGCATCGGTATGTGATTTCGA
1 TGTAAGACCACGTCTGGGATGTTGGCATC-GAATGTGA-TTC-A
* * ** * *
45494746 -GTAAGACCATGTCTGGAACATTGCCATCGTAATTGTGATTCG
1 TGTAAGACCACGTCTGGGATGTTGGCATCG-AA-TGTGATTCA
*
45494788 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGACATGTGATTACA
1 TGTAAGACCAC-GTCTGGGA-TGTTGGCATCGA-ATGTGATT-CA
*
45494831 TGTAAAACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
45494859 TGTACAATAT
Statistics
Matches: 88, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
42 10 0.11
43 72 0.82
44 6 0.07
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGAATGTGATTCA
Found at i:45501826 original size:343 final size:343
Alignment explanation
Indices: 45501200--45501887 Score: 1358
Period size: 343 Copynumber: 2.0 Consensus size: 343
45501190 AGAAAAAACG
45501200 GCTAGACTTGAATCACCTGTCAATGAGCTAGTAACTAAGAACGAGGCTAAGGAATTCTTTAAGTT
1 GCTAGACTTGAATCACCTGTCAATGAGCTAGTAACTAAGAACGAGGCTAAGGAATTCTTTAAGTT
45501265 CTTCAAACATAGCAAGTATAGTGTTGTAGAATAGTTGCACAAACTCGCATATCAGTATTAGCATT
66 CTTCAAACATAGCAAGTATAGTGTTGTAGAATAGTTGCACAAACTCGCATATCAGTATTAGCATT
*
45501330 GCTCTTAAGCTCAAAGATACATCGTAACGCGTTGATGAAGGTGTTAAATGAAATTTATGTCGCTG
131 GCTCTTAAGCTCAAAGATACATCGTAACGCGTTGATGAAGGTGTTAAATGAAATTTATGTCACTG
45501395 ATAATATCTCTGTAAACAAGCTAGATCATTTGGTTAACAATTTGAGTGCCAACAATTTCATCTTT
196 ATAATATCTCTGTAAACAAGCTAGATCATTTGGTTAACAATTTGAGTGCCAACAATTTCATCTTT
45501460 TTCAATGATGATGAAATACCTCCATAAGGCATGGGATCCACGAAGACTCTACACATCACTACCTA
261 TTCAATGATGATGAAATACCTCCATAAGGCATGGGATCCACGAAGACTCTACACATCACTACCTA
45501525 CTACAAAGGATATACATT
326 CTACAAAGGATATACATT
45501543 GCTAGACTTGAATCACCTGTCAATGAGCTAGTAACTAAGAACGAGGCTAAGGAATTCTTTAAGTT
1 GCTAGACTTGAATCACCTGTCAATGAGCTAGTAACTAAGAACGAGGCTAAGGAATTCTTTAAGTT
45501608 CTTCAAACATAGCAAGTATAGTGTTGTAGAATAGTTGCACAAACTCGCATATCAGTATTAGCATT
66 CTTCAAACATAGCAAGTATAGTGTTGTAGAATAGTTGCACAAACTCGCATATCAGTATTAGCATT
45501673 GCTCTTAAGCTCAAAGATACATCGTAACGCGTTGATGAAGGTGTTAAATGAAATTTATGTCACTG
131 GCTCTTAAGCTCAAAGATACATCGTAACGCGTTGATGAAGGTGTTAAATGAAATTTATGTCACTG
45501738 ATAATATCTCTGTAAACAAGCTAGATCATTTGGTTAACAATTTGAGTGCCAACAATTTCATCTTT
196 ATAATATCTCTGTAAACAAGCTAGATCATTTGGTTAACAATTTGAGTGCCAACAATTTCATCTTT
45501803 TTCAATGATGATGAAATACCTCCATAAGGCATGGGATCCACGAAGACTCTACACATCACTACCTA
261 TTCAATGATGATGAAATACCTCCATAAGGCATGGGATCCACGAAGACTCTACACATCACTACCTA
*
45501868 CTGCAAAGGATATACATT
326 CTACAAAGGATATACATT
45501886 GC
1 GC
45501888 CAGGAGTGTT
Statistics
Matches: 343, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
343 343 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (343 bp):
GCTAGACTTGAATCACCTGTCAATGAGCTAGTAACTAAGAACGAGGCTAAGGAATTCTTTAAGTT
CTTCAAACATAGCAAGTATAGTGTTGTAGAATAGTTGCACAAACTCGCATATCAGTATTAGCATT
GCTCTTAAGCTCAAAGATACATCGTAACGCGTTGATGAAGGTGTTAAATGAAATTTATGTCACTG
ATAATATCTCTGTAAACAAGCTAGATCATTTGGTTAACAATTTGAGTGCCAACAATTTCATCTTT
TTCAATGATGATGAAATACCTCCATAAGGCATGGGATCCACGAAGACTCTACACATCACTACCTA
CTACAAAGGATATACATT
Found at i:45503208 original size:30 final size:30
Alignment explanation
Indices: 45503173--45503229 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
45503163 CAGGCACTTC
**
45503173 CACACGGGTAAACCACACGCCCGTGTGAGG
1 CACACGGACAAACCACACGCCCGTGTGAGG
**
45503203 CACACGGACAGGCCACACGCCCGTGTG
1 CACACGGACAAACCACACGCCCGTGTG
45503230 TCCTGGCCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.25, C:0.37, G:0.30, T:0.09
Consensus pattern (30 bp):
CACACGGACAAACCACACGCCCGTGTGAGG
Found at i:45508840 original size:44 final size:44
Alignment explanation
Indices: 45508772--45509075 Score: 132
Period size: 44 Copynumber: 6.6 Consensus size: 44
45508762 TTACGATGGT
*
45508772 GAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGA-TAAAGCTAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAA-ATTAAAGCTAC
* * * *
45508816 GAATTTTATCTCTCTGTAGTTGCAGTGGAGCAAATTAAAGCTAT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAC
* * * * * ** * *
45508860 AAATCCTA-CACCCTTAAAGTTGTAGTGGTTCAGATTGAATCTACCATAGC
1 GAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAAATT-AA---AGC-TA-C
* * * *
45508910 GAATCTTATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGCTAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAC
* * * * * *
45508954 AAATCCTATAC-CCCTAAAGTTGTAGTGG-GTCAGATTGAATCTACCATAGC
1 GAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAAATT-AA---AGC-TA-C
* * * *
45509004 GAATATTATCTCCCTGAAGTTGCTGTGGAGCATATTGAAGCTAC
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAC
* * * *
45509048 AAATCCTATAC-CCCTAAAGTTGTAGTGG
1 GAATCTTAT-CTCCCTGAAGTTGCAGTGG
45509076 GTCTGATTGA
Statistics
Matches: 190, Mismatches: 50, Indels: 40
0.68 0.18 0.14
Matches are distributed among these distances:
43 5 0.03
44 107 0.56
45 9 0.05
46 4 0.02
48 4 0.02
49 7 0.04
50 49 0.26
51 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (44 bp):
GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAC
Found at i:45508919 original size:94 final size:94
Alignment explanation
Indices: 45508815--45509121 Score: 470
Period size: 94 Copynumber: 3.3 Consensus size: 94
45508805 GATAAAGCTA
* * * * * * * *
45508815 CGAATTTTATCTCTCTGTAGTTGCAGTGGAGCAAATTAAAGCTATAAATCCTACACCCTTAAAGT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
*
45508880 TGTAGTGGTTCAGATTGAATCTACCATAG
66 TGTAGTGGGTCAGATTGAATCTACCATAG
* *
45508909 CGAATCTTATCTCCCTAAAGTTGCTGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
45508974 TGTAGTGGGTCAGATTGAATCTACCATAG
66 TGTAGTGGGTCAGATTGAATCTACCATAG
* *
45509003 CGAATATTATCTCCCTGAAGTTGCTGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
* *
45509068 TGTAGTGGGTCTGATTGAATATACCATAG
66 TGTAGTGGGTCAGATTGAATCTACCATAG
*
45509097 CGAATCTTATTTCCCTGAAGTTGCA
1 CGAATCTTATCTCCCTGAAGTTGCA
45509122 ACTGTAACAA
Statistics
Matches: 195, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 195 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (94 bp):
CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGCTACAAATCCTATACCCCTAAAGT
TGTAGTGGGTCAGATTGAATCTACCATAG
Found at i:45508975 original size:138 final size:137
Alignment explanation
Indices: 45508582--45508981 Score: 389
Period size: 138 Copynumber: 2.9 Consensus size: 137
45508572 GGTCAATGAA
* *
45508582 ACAAATCCTATC-CCCCTGAAGTTGCAGTGGGTCGGATTGAATTTACCATAGTGAATCTTATCTC
1 ACAAATCCTA-CACCCCAGAAGTTGCAGTGGTTCGGATTGAA-TTACCATAGTGAATCTTATCTC
* * * * *
45508646 CCTGAAGTTG-TAGTAGAGTAAGATGAACCTACAAATCCTATATCCTTAAAGTTGTAGTGGATCA
64 CCTGAAGTTGCT-GTGGAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGAGCA
*
45508710 AACTGAAGCT
128 AACTAAAGCT
* * * * * *
45508720 ACAATTTCTATACCCCAGAAGTTGCAGTGGGTT-GGAATGAAATTACGATGGTGAATCTTATCTC
1 ACAAATCCTACACCCCAGAAGTTGCAGT-GGTTCGGATTG-AATTACCATAGTGAATCTTATCTC
* * * ** * ** *
45508784 CCTGAAGTTGCAGTGGAGTAAGATAAAGCTACGAATTTTAT-CTCTCTGTAGTTGCAGTGGAGCA
64 CCTGAAGTTGCTGTGGAGTAAGATGAAGCTACAAATCCTATAC-CCCTAAAGTTGTAGTGGAGCA
*
45508848 AATTAAAGCT
128 AACTAAAGCT
* * * * *
45508858 ATAAATCCTACACCCTTA-AAGTTGTAGTGGTTCAGATTGAATCTACCATAGCGAATCTTATCTC
1 ACAAATCCTACACCC-CAGAAGTTGCAGTGGTTCGGATTGAAT-TACCATAGTGAATCTTATCTC
* * *
45508922 CCTAAAGTTGCTGTGGAGCATA-TTGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGG
64 CCTGAAGTTGCTGTGGAGTA-AGATGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGG
45508982 GTCAGATTGA
Statistics
Matches: 205, Mismatches: 47, Indels: 20
0.75 0.17 0.07
Matches are distributed among these distances:
137 7 0.03
138 190 0.93
139 8 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (137 bp):
ACAAATCCTACACCCCAGAAGTTGCAGTGGTTCGGATTGAATTACCATAGTGAATCTTATCTCCC
TGAAGTTGCTGTGGAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGTAGTGGAGCAAAC
TAAAGCT
Found at i:45511323 original size:21 final size:21
Alignment explanation
Indices: 45511298--45511360 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
45511288 TAGCCTCCGG
45511298 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
45511319 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
*
45511337 GCTGCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
45511358 GCT
1 GCT
45511361 CCAGCTAGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
18 6 0.19
19 8 0.25
20 8 0.25
21 10 0.31
ACGTcount: A:0.13, C:0.25, G:0.24, T:0.38
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:45511338 original size:39 final size:39
Alignment explanation
Indices: 45511280--45511360 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
45511270 GCTCTGATGA
*
45511280 GCTTCAATTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAATTAGCCTCCGGGCTGCCGTTTAGCACTTATGT
* *
45511319 GCTTCAGTTAGCCTTCGGGCTGCCGTTTAGCACTTATGT
1 GCTTCAATTAGCCTCCGGGCTGCCGTTTAGCACTTATGT
45511358 GCT
1 GCT
45511361 CCAGCTAGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.14, C:0.27, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAATTAGCCTCCGGGCTGCCGTTTAGCACTTATGT
Found at i:45511375 original size:39 final size:39
Alignment explanation
Indices: 45511295--45511375 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
45511285 AATTAGCCTC
* * * *
45511295 CGGGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTT
1 CGGGCTGCCGTTTAGCACTTATGTGCTCCAGCTAGACTT
*
45511334 CGGGCTGCCGTTTAGCACTTATGTGCTCCAGCTAGATTT
1 CGGGCTGCCGTTTAGCACTTATGTGCTCCAGCTAGACTT
45511373 CGG
1 CGG
45511376 ACTTCAGATC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.35
Consensus pattern (39 bp):
CGGGCTGCCGTTTAGCACTTATGTGCTCCAGCTAGACTT
Found at i:45512442 original size:18 final size:20
Alignment explanation
Indices: 45512413--45512450 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
45512403 TTTTGCCCGG
45512413 CCCAACACAAAT-AAACAAA
1 CCCAACACAAATAAAACAAA
45512432 CCCAA-ACAAATAAAACAAA
1 CCCAACACAAATAAAACAAA
45512451 ATCCAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.05
Consensus pattern (20 bp):
CCCAACACAAATAAAACAAA
Done.