Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003524.1 Hibiscus syriacus cultivar Beakdansim tig00007445_pilon, whole genome shotgun sequence
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: 90671
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:7174 original size:55 final size:53
Alignment explanation
Indices: 7097--7207 Score: 186
Period size: 55 Copynumber: 2.1 Consensus size: 53
7087 CTATTCAGCT
*
7097 TCTCAACTTACTCAACATTCAGAATTTACTCTCCAAGTATTTTCTAAATATTC
1 TCTCAACTTACTCAACATTCAGAATTCACTCTCCAAGTATTTTCTAAATATTC
*
7150 TCTCAACTTATTCTCAACATTCAGAATTCACTCTCCAAGTGTTTTCTAAATATTC
1 TCTCAACTTA--CTCAACATTCAGAATTCACTCTCCAAGTATTTTCTAAATATTC
7205 TCT
1 TCT
7208 TTGTGTTCTT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
53 10 0.19
55 44 0.81
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (53 bp):
TCTCAACTTACTCAACATTCAGAATTCACTCTCCAAGTATTTTCTAAATATTC
Found at i:9358 original size:19 final size:19
Alignment explanation
Indices: 9334--9372 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
9324 TCGAATGCAT
9334 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
9353 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
9372 T
1 T
9373 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:9467 original size:61 final size:65
Alignment explanation
Indices: 9320--9477 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
9310 GAATTAATTG
* * * * *
9320 AACATCGAATGCATTCCATGCACCGATGCAC-TCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAACTCCATGCATAGATGCACGCT-AATATTTTCA
9384 A
65 A
* * *
9385 AACATCGAATGCATTTGATGCATCGATGCACAAGT-CATGCATAGATGCAGGCT-AT-TTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACAACTCCATGCATAGATGCACGCTAATATTTTCAA
9446 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
9478 CTTGGGCACC
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
61 32 0.39
62 5 0.06
63 2 0.02
65 43 0.52
66 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAACTCCATGCATAGATGCACGCTAATATTTTCAA
Found at i:11072 original size:47 final size:47
Alignment explanation
Indices: 11003--11099 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
10993 TCTTCCCACC
*
11003 ATCCCCTACTTTTCCACTTGGCACATGTTGTATCATGACCTAGTACT
1 ATCCCCTACTTTTCCACATGGCACATGTTGTATCATGACCTAGTACT
11050 ATCCCCTACTTTTCCACATGGCACATGTTGTATCATGACCTAGTACT
1 ATCCCCTACTTTTCCACATGGCACATGTTGTATCATGACCTAGTACT
11097 ATC
1 ATC
11100 AGATTATCTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.35
Consensus pattern (47 bp):
ATCCCCTACTTTTCCACATGGCACATGTTGTATCATGACCTAGTACT
Found at i:11205 original size:29 final size:28
Alignment explanation
Indices: 11163--11217 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
11153 TCAACGAAAC
*
11163 TAACTCGGGTCATTATCAATATCAAATTT
1 TAACTCGGATCATTATCAATAT-AAATTT
11192 TAACTCGGATCATTATCAATATAAAT
1 TAACTCGGATCATTATCAATATAAAT
11218 ATCAACGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (28 bp):
TAACTCGGATCATTATCAATATAAATTT
Found at i:18254 original size:24 final size:24
Alignment explanation
Indices: 18194--18318 Score: 101
Period size: 24 Copynumber: 5.2 Consensus size: 24
18184 TCACTGAACA
* *
18194 AACATGTTCGTGAACA-CTAAATG
1 AACATGTTCGTGAACATATAAACG
* **
18217 AACACGTTTATGAACATATAAACG
1 AACATGTTCGTGAACATATAAACG
* * *
18241 AATATGTTCGTGAACATATAGATG
1 AACATGTTCGTGAACATATAAACG
* ** *
18265 AGCATGTTCACGAACAT-TAAGCG
1 AACATGTTCGTGAACATATAAACG
18288 AACATGTTCGTGAACAATAAATAAACG
1 AACATGTTCGTGAAC-AT--ATAAACG
18315 AACA
1 AACA
18319 CGATACTAAA
Statistics
Matches: 75, Mismatches: 22, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
23 28 0.37
24 38 0.51
27 9 0.12
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (24 bp):
AACATGTTCGTGAACATATAAACG
Found at i:18295 original size:47 final size:47
Alignment explanation
Indices: 18194--18309 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 47
18184 TCACTGAACA
* *
18194 AACATGTTCGTGAACACTAAATGAACACGTTTATGAACATATAAACG
1 AACATGTTCGTGAACACTAAATGAACACGTTCACGAACATATAAACG
* * * *
18241 AATATGTTCGTGAACA-TATAGATGAGCATGTTCACGAACAT-TAAGCG
1 AACATGTTCGTGAACACTA-A-ATGAACACGTTCACGAACATATAAACG
*
18288 AACATGTTCGTGAACAATAAAT
1 AACATGTTCGTGAACACTAAAT
18310 AAACGAACAC
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
46 4 0.07
47 37 0.63
48 18 0.31
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.27
Consensus pattern (47 bp):
AACATGTTCGTGAACACTAAATGAACACGTTCACGAACATATAAACG
Found at i:21634 original size:12 final size:12
Alignment explanation
Indices: 21617--21641 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21607 CTAAATCATA
21617 AAACTTTTGTTC
1 AAACTTTTGTTC
21629 AAACTTTTGTTC
1 AAACTTTTGTTC
21641 A
1 A
21642 TATTCATTTT
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:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (12 bp):
AAACTTTTGTTC
Found at i:22946 original size:214 final size:216
Alignment explanation
Indices: 22577--24663 Score: 2944
Period size: 214 Copynumber: 9.7 Consensus size: 216
22567 CAACACATGT
* * * * * * * * * *
22577 CCATATCCAACACAATCAAGTCTGAGTAGCATA-ATCACCAGCATGACAAATA-GCGTAAAACCA
1 CCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAA-AGGTGTAAAGCCA
* * * *
22640 TGATGTTTATAGGAAAGT--AACTAGTACTCGTTTCCATTTCAGAGAGTTTGAGCTAAGCTCTAC
65 TGATGTTTATACGAAGGTAAAAC-AGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTAC
* * *
22703 ACATGCTTGAAAGACAGAACTTCATGACCAAAACTCGTGTAGGGGATATGGCTGTTCGAAGATCT
129 ACATGCTTGAAAGACAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCT
22768 CCCAAACCCACATTGG-ACACAC
194 CCCAAACCCACATTGGAACACAC
* * *
22790 CCATATCCAAGACACTCAAGTCGGAGTAACATAGACCATCGGCGTGAGAAAAGGTGTAAAGCCAT
1 CCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* * * * * *
22855 GATGTTTGTAGGAAGGTAAAACGGTACTCGTTTCCCTTTTAGAGAGTTTGAGCTAAGCTTTACAC
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
*
22920 -TGCTTGAAAGACAGAACTTTATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCC
131 ATGCTTGAAAGACAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCC
22984 CAAACCCACATTGGACACACAC
196 CAAACCCACATTGGA-ACACAC
* *
23006 CCATATCCGACACACTCAAGTCAGAGTAACATAGACGATCGGCATGAGAAAAGGTGTAAAGCCAT
1 CCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* * * * *
23071 GATGTTTATACGAAGGTAAAACATTACTCGTTTCCATCTCCGAGAGCTTGAGCTAAGCTATACAC
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
** * *
23136 ATGCAAG-AAG--AGAACTTCATGACCAAAACTCCTGCAGGGGATATGACTGTTCGAAGATCTCC
131 ATGCTTGAAAGACAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCC
*
23198 CAAACCCACATTGGACACGCAC
196 CAAACCCACATTGGA-ACACAC
* **
23220 CCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCGTGAGAAAAGGTGTAAAGATAT
1 CCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* * * * * *
23285 GATGTTTGTAGGAAGGTAAAACGGTACTCGTTTCCCTTTCAAAGTGTTTGAGCTAAGCTCTACAC
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
23350 ATGCTTGAAAGAC--AACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCC
131 ATGCTTGAAAGACAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCC
*
23413 CAAACCCAAATTGGACACACAC
196 CAAACCCACATTGGA-ACACAC
* *
23435 CCATATCCGACACACTCAAGTCAGAGTAGCATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
1 CCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* * * * *
23500 GATGTTTATACGAAGGTAAAACATTACTAGTTTCCCTCTCCGAGAGCTTGAGCTAAGCTATACAC
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
* * * * *
23565 ATGC-AGAAAGAGAGAACTTCATGACCAAAACTCTTGCAGGGGATATGATCGTTCAAAGATCT-C
131 ATGCTTGAAAGACAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCC
23628 CAAACCCACATTGGACACACAC
196 CAAACCCACATTGGA-ACACAC
* *
23650 CCATATCCAACACACTCAAGTCGGAGTAACATAGACTATCGGCATGAG-AAAGGTGTAAAGCCAT
1 CCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* * * * *
23714 GATGTTTATACGAAGGTAAAACCGTACTCGTTTCCATCTCCGAGAGCTTGAGCTAAGCTATACAC
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
** * * *
23779 ATGCAAG-AAG--AGAACTTCATGACCAAAACTCGGGCAGGAGATATGACCGTTCGAAGATCTTC
131 ATGCTTGAAAGACAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCC
23841 CAAACCCACATTGG-ACAAGCAC
196 CAAACCCACATTGGAAC-A-CAC
* * **
23863 CCATATCCAACACACTCAAGTCGGAGTAACATAGACCATCGGCGTGAGAAAAGGTGTAAAGATAT
1 CCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* * * * *
23928 GATGTTTGTAGGAAGGTAAAACGGTACTCGTTTCCCTTTCAAAGAGTTTGAGCTAAGCTCTACAC
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
23993 ATGCTTGAAAGAC--AACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCC
131 ATGCTTGAAAGACAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCC
24056 CAAACCCACATTGGACACACAC
196 CAAACCCACATTGGA-ACACAC
*
24078 CCATATCCGACACACTCAAGTCAGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
1 CCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* * * *
24143 GATGTTTATACGAAGGTAAAACATTACTCGTTTCCCTCTCTGAGAGCTTGAGCTAAGCTATACAC
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
* * * * *
24208 ATGCTGGAAAG--AGAACTTCATGGCCAAAACTCCTGCAGGGGATATGATCGTTCAAAGATCT-C
131 ATGCTTGAAAGACAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCC
24270 CAAACCCACATTGGACACACAC
196 CAAACCCACATTGGA-ACACAC
*
24292 CCATATCCAACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
1 CCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* * *
24357 GATGTTTATACGAAGGTTAAACCGTACTCGTTTCCCTTTCAGAGAG-TATGAGGTAAGCTCTACA
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCT-TGAGCTAAGCTCTACA
* *
24421 CATGCTTGAAAGACAGAACTTCATGACCAAAACTCGGGCAGGAGATATGACCGTTCGAAGATCTC
130 CATGCTTGAAAGACAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTC
24486 CCAAACCCACATTGGACACACAC
195 CCAAACCCACATTGGA-ACACAC
** *
24509 CCATATCCGACACACTCAAGTTAGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGTCAT
1 CCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* *
24574 GATGTTTATACAAAGGTAAAACAGTACTCGTTTCCCTTTCCGAGAGCTTGAGCTAAGCTCTACAC
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
* * *
24639 ATGCATGAAAGAGAGAACTTAATGA
131 ATGCTTGAAAGACAGAACTTCATGA
24664 AATAAACAAA
Statistics
Matches: 1681, Mismatches: 164, Indels: 54
0.89 0.09 0.03
Matches are distributed among these distances:
211 2 0.00
212 46 0.03
213 95 0.06
214 617 0.37
215 533 0.32
216 217 0.13
217 170 0.10
218 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (216 bp):
CCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
ATGCTTGAAAGACAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCC
CAAACCCACATTGGAACACAC
Found at i:23501 original size:429 final size:430
Alignment explanation
Indices: 22577--24650 Score: 2983
Period size: 429 Copynumber: 4.8 Consensus size: 430
22567 CAACACATGT
* * * * * * * * *
22577 CCATATCCAACACAATCAAGTCTGAGTAGCATA-ATCACCAGCATGACAAATA-GCGTAAAACCA
1 CCATATCCAACACACTCAAGTCAGAGTAACATAGACCATCGGCATGAGAAA-AGGTGTAAAGCCA
* * * *
22640 TGATGTTTATAGGAAAGT--AACTAGTACTCGTTTCCATTTCAGAGAGTTTGAGCTAAGCTCTAC
65 TGATGTTTATACGAAGGTAAAAC-AGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTAC
* *
22703 ACATGCTTGAAAGACAGAACTTCATGACCAAAACTCGTGTAGGGGATATGGCTGTTCGAAGATCT
129 ACATGCTTGAAAG--AGAACTTCATGACCAAAACTCGTGCAGGGGATATGACTGTTCGAAGATCT
* *
22768 CCCAAACCCACATTGG--ACACACCCATATCCAAGACACTCAAGTCGGAGTAACATAGACCATCG
192 CCCAAACCCACATTGGACACACACCCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCG
* * * * *
22831 GCGTGAGAAAAGGTGTAAAGCCATGATGTTTGTAGGAAGGTAAAACGGTACTCGTTTCCCTTTTA
257 GCATGAGAAAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCA
* * *
22896 GAGAGTTTGAGCTAAGCTTTACAC-TGCTTGAAAGACAGAACTTTATGACCAAAACTCGTGCAGG
322 GAGAGCTTGAGCTAAGCTATACACATGCTTGAAAGAC--AACTTCATGACCAAAACTCGTGCAGG
22960 GGATATGACCGTTCGAAGATCTCCCAAACCCACATTGGACACACAC
385 GGATATGACCGTTCGAAGATCTCCCAAACCCACATTGGACACACAC
* *
23006 CCATATCCGACACACTCAAGTCAGAGTAACATAGACGATCGGCATGAGAAAAGGTGTAAAGCCAT
1 CCATATCCAACACACTCAAGTCAGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* * * * *
23071 GATGTTTATACGAAGGTAAAACATTACTCGTTTCCATCTCCGAGAGCTTGAGCTAAGCTATACAC
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
** *
23136 ATGCAAG-AAGAGAACTTCATGACCAAAACTCCTGCAGGGGATATGACTGTTCGAAGATCTCCCA
131 ATGCTTGAAAGAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACTGTTCGAAGATCTCCCA
* *
23200 AACCCACATTGGACACGCACCCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCGT
196 AACCCACATTGGACACACACCCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCAT
** * * * * *
23265 GAGAAAAGGTGTAAAGATATGATGTTTGTAGGAAGGTAAAACGGTACTCGTTTCCCTTTCAAAGT
261 GAGAAAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGA
* *
23330 GTTTGAGCTAAGCTCTACACATGCTTGAAAGACAACTTCATGACCAAAACTCGTGCAGGGGATAT
326 GCTTGAGCTAAGCTATACACATGCTTGAAAGACAACTTCATGACCAAAACTCGTGCAGGGGATAT
*
23395 GACCGTTCGAAGATCTCCCAAACCCAAATTGGACACACAC
391 GACCGTTCGAAGATCTCCCAAACCCACATTGGACACACAC
* *
23435 CCATATCCGACACACTCAAGTCAGAGTAGCATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
1 CCATATCCAACACACTCAAGTCAGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* * * * *
23500 GATGTTTATACGAAGGTAAAACATTACTAGTTTCCCTCTCCGAGAGCTTGAGCTAAGCTATACAC
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
* * *
23565 ATGC-AGAAAGAGAGAACTTCATGACCAAAACTCTTGCAGGGGATATGA-TCGTTCAAAGATCT-
131 ATGCTTG-AA-AGAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACT-GTTCGAAGATCTC
* *
23627 CCAAACCCACATTGGACACACACCCATATCCAACACACTCAAGTCGGAGTAACATAGACTATCGG
193 CCAAACCCACATTGGACACACACCCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGG
* * * *
23692 CATGAG-AAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACCGTACTCGTTTCCATCTCCG
258 CATGAGAAAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAG
** * * *
23756 AGAGCTTGAGCTAAGCTATACACATGCAAG-AAGAGAACTTCATGACCAAAACTCGGGCAGGAGA
323 AGAGCTTGAGCTAAGCTATACACATGCTTGAAAGACAACTTCATGACCAAAACTCGTGCAGGGGA
*
23820 TATGACCGTTCGAAGATCTTCCAAACCCACATTGGACA-AGCAC
388 TATGACCGTTCGAAGATCTCCCAAACCCACATTGGACACA-CAC
* * **
23863 CCATATCCAACACACTCAAGTCGGAGTAACATAGACCATCGGCGTGAGAAAAGGTGTAAAGATAT
1 CCATATCCAACACACTCAAGTCAGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* * * * *
23928 GATGTTTGTAGGAAGGTAAAACGGTACTCGTTTCCCTTTCAAAGAGTTTGAGCTAAGCTCTACAC
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
* *
23993 ATGCTTGAAAGACAACTTCATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCCCA
131 ATGCTTGAAAGAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACTGTTCGAAGATCTCCCA
*
24058 AACCCACATTGGACACACACCCATATCCGACACACTCAAGTCAGAGTAACATAGACCATCGGCAT
196 AACCCACATTGGACACACACCCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCAT
* * *
24123 GAGAAAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACATTACTCGTTTCCCTCTCTGAGA
261 GAGAAAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGA
* * * *
24188 GCTTGAGCTAAGCTATACACATGCTGGAAAGAGAACTTCATGGCCAAAACTCCTGCAGGGGATAT
326 GCTTGAGCTAAGCTATACACATGCTTGAAAGACAACTTCATGACCAAAACTCGTGCAGGGGATAT
* *
24253 GATCGTTCAAAGATCT-CCAAACCCACATTGGACACACAC
391 GACCGTTCGAAGATCTCCCAAACCCACATTGGACACACAC
*
24292 CCATATCCAACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
1 CCATATCCAACACACTCAAGTCAGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
* * *
24357 GATGTTTATACGAAGGTTAAACCGTACTCGTTTCCCTTTCAGAGAG-TATGAGGTAAGCTCTACA
66 GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCT-TGAGCTAAGCTCTACA
* * *
24421 CATGCTTGAAAGACAGAACTTCATGACCAAAACTCGGGCAGGAGATATGACCGTTCGAAGATCTC
130 CATGCTTGAAAG--AGAACTTCATGACCAAAACTCGTGCAGGGGATATGACTGTTCGAAGATCTC
**
24486 CCAAACCCACATTGGACACACACCCATATCCGACACACTCAAGTTAGAGTAACATAGACCATCGG
193 CCAAACCCACATTGGACACACACCCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGG
* * *
24551 CATGAGAAAAGGTGTAAAGTCATGATGTTTATACAAAGGTAAAACAGTACTCGTTTCCCTTTCCG
258 CATGAGAAAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAG
* *
24616 AGAGCTTGAGCTAAGCTCTACACATGCATGAAAGA
323 AGAGCTTGAGCTAAGCTATACACATGCTTGAAAGA
24651 GAGAACTTAA
Statistics
Matches: 1504, Mismatches: 120, Indels: 40
0.90 0.07 0.02
Matches are distributed among these distances:
427 48 0.03
428 324 0.22
429 538 0.36
430 284 0.19
431 307 0.20
432 3 0.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (430 bp):
CCATATCCAACACACTCAAGTCAGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCAT
GATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGAGCTTGAGCTAAGCTCTACAC
ATGCTTGAAAGAGAACTTCATGACCAAAACTCGTGCAGGGGATATGACTGTTCGAAGATCTCCCA
AACCCACATTGGACACACACCCATATCCGACACACTCAAGTCGGAGTAACATAGACCATCGGCAT
GAGAAAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACAGTACTCGTTTCCCTTTCAGAGA
GCTTGAGCTAAGCTATACACATGCTTGAAAGACAACTTCATGACCAAAACTCGTGCAGGGGATAT
GACCGTTCGAAGATCTCCCAAACCCACATTGGACACACAC
Found at i:23806 original size:643 final size:644
Alignment explanation
Indices: 22663--24650 Score: 3261
Period size: 643 Copynumber: 3.1 Consensus size: 644
22653 AAAGTAACTA
* *
22663 GTACTCGTTTCCATTTCAGAGAGTTTGAGCTAAGCTCTACACATGCTTGAAAGACAGAACTTCAT
1 GTACTCGTTTCCCTTTCAAAGAGTTTGAGCTAAGCTCTACACATGCTTGAAAGAC--AACTTCAT
* * *
22728 GACCAAAACTCGTGTAGGGGATATGGCTGTTCGAAGATCTCCCAAACCCACATTGG--ACACACC
64 GACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCCCAAACCCACATTGGACACACACC
* * * *
22791 CATATCCAAGACACTCAAGTCGGAGTAACATAGACCATCGGCGTGAGAAAAGGTGTAAAGCCATG
129 CATATCCGACACACTCAAGTCAGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCATG
* * ** * * * *
22856 ATGTTTGTAGGAAGGTAAAACGGTACTCGTTTCCCTTTTAGAGAGTTTGAGCTAAGCTTTACAC-
194 ATGTTTATACGAAGGTAAAACATTACTCGTTTCCCTCTCAGAGAGCTTGAGCTAAGCTATACACA
* * * * *
22920 TGCTTGAAAGACAGAACTTTATGACCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCCC
259 TGC-TGAAAGAGAGAACTTCATGACCAAAACTCCTGCAGGGGATATGATCGTTCAAAGATCT-CC
* * *
22985 AAACCCACATTGGACACACACCCATATCCGACACACTCAAGTCAGAGTAACATAGACGATCGGCA
322 AAACCCACATTGGACACACACCCATATCCAACACACTCAAGTCGGAGTAACATAGACCATCGGCA
**
23050 TGAGAAAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACATTACTCGTTTCCATCTCCGAG
387 TGAGAAAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACCGTACTCGTTTCCATCTCCGAG
** *
23115 AGCTTGAGCTAAGCTATACACATGCAAGAAGAGAACTTCATGACCAAAACTCCTGCAGGGGATAT
452 AGCTTGAGCTAAGCTATACACATGCAAGAAGAGAACTTCATGACCAAAACTCGGGCAGGAGATAT
*
23180 GACTGTTCGAAGATCTCCCAAACCCACATTGGACACGCACCCATATCCGACACACTCAAGTCGGA
517 GACCGTTCGAAGATCTCCCAAACCCACATTGGACACGCACCCATATCCGACACACTCAAGTCGGA
23245 GTAACATAGACCATCGGCGTGAGAAAAGGTGTAAAGATATGATGTTTGTAGGAAGGTAAAACG
582 GTAACATAGACCATCGGCGTGAGAAAAGGTGTAAAGATATGATGTTTGTAGGAAGGTAAAACG
*
23308 GTACTCGTTTCCCTTTCAAAGTGTTTGAGCTAAGCTCTACACATGCTTGAAAGACAACTTCATGA
1 GTACTCGTTTCCCTTTCAAAGAGTTTGAGCTAAGCTCTACACATGCTTGAAAGACAACTTCATGA
*
23373 CCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCCCAAACCCAAATTGGACACACACCCA
66 CCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCCCAAACCCACATTGGACACACACCCA
*
23438 TATCCGACACACTCAAGTCAGAGTAGCATAGACCATCGGCATGAGAAAAGGTGTAAAGCCATGAT
131 TATCCGACACACTCAAGTCAGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCATGAT
* *
23503 GTTTATACGAAGGTAAAACATTACTAGTTTCCCTCTCCGAGAGCTTGAGCTAAGCTATACACATG
196 GTTTATACGAAGGTAAAACATTACTCGTTTCCCTCTCAGAGAGCTTGAGCTAAGCTATACACATG
* *
23568 CAGAAAGAGAGAACTTCATGACCAAAACTCTTGCAGGGGATATGATCGTTCAAAGATCTCCAAAC
261 CTGAAAGAGAGAACTTCATGACCAAAACTCCTGCAGGGGATATGATCGTTCAAAGATCTCCAAAC
*
23633 CCACATTGGACACACACCCATATCCAACACACTCAAGTCGGAGTAACATAGACTATCGGCATGAG
326 CCACATTGGACACACACCCATATCCAACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAG
23698 -AAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACCGTACTCGTTTCCATCTCCGAGAGCT
391 AAAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACCGTACTCGTTTCCATCTCCGAGAGCT
23762 TGAGCTAAGCTATACACATGCAAGAAGAGAACTTCATGACCAAAACTCGGGCAGGAGATATGACC
456 TGAGCTAAGCTATACACATGCAAGAAGAGAACTTCATGACCAAAACTCGGGCAGGAGATATGACC
* * *
23827 GTTCGAAGATCTTCCAAACCCACATTGGACAAGCACCCATATCCAACACACTCAAGTCGGAGTAA
521 GTTCGAAGATCTCCCAAACCCACATTGGACACGCACCCATATCCGACACACTCAAGTCGGAGTAA
23892 CATAGACCATCGGCGTGAGAAAAGGTGTAAAGATATGATGTTTGTAGGAAGGTAAAACG
586 CATAGACCATCGGCGTGAGAAAAGGTGTAAAGATATGATGTTTGTAGGAAGGTAAAACG
23951 GTACTCGTTTCCCTTTCAAAGAGTTTGAGCTAAGCTCTACACATGCTTGAAAGACAACTTCATGA
1 GTACTCGTTTCCCTTTCAAAGAGTTTGAGCTAAGCTCTACACATGCTTGAAAGACAACTTCATGA
24016 CCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCCCAAACCCACATTGGACACACACCCA
66 CCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCCCAAACCCACATTGGACACACACCCA
24081 TATCCGACACACTCAAGTCAGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCATGAT
131 TATCCGACACACTCAAGTCAGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCATGAT
*
24146 GTTTATACGAAGGTAAAACATTACTCGTTTCCCTCTCTGAGAGCTTGAGCTAAGCTATACACATG
196 GTTTATACGAAGGTAAAACATTACTCGTTTCCCTCTCAGAGAGCTTGAGCTAAGCTATACACATG
* *
24211 CTGGAA-AGAGAACTTCATGGCCAAAACTCCTGCAGGGGATATGATCGTTCAAAGATCTCCAAAC
261 CTGAAAGAGAGAACTTCATGACCAAAACTCCTGCAGGGGATATGATCGTTCAAAGATCTCCAAAC
24275 CCACATTGGACACACACCCATATCCAACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAG
326 CCACATTGGACACACACCCATATCCAACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAG
* * * *
24340 AAAAGGTGTAAAGCCATGATGTTTATACGAAGGTTAAACCGTACTCGTTTCCCTTTCAGAGAG-T
391 AAAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACCGTACTCGTTTCCATCTCCGAGAGCT
* * **
24404 ATGAGGTAAGCTCTACACATGCTTGAAAGACAGAACTTCATGACCAAAACTCGGGCAGGAGATAT
456 -TGAGCTAAGCTATACACATGCAAG-AAG--AGAACTTCATGACCAAAACTCGGGCAGGAGATAT
* **
24469 GACCGTTCGAAGATCTCCCAAACCCACATTGGACACACACCCATATCCGACACACTCAAGTTAGA
517 GACCGTTCGAAGATCTCCCAAACCCACATTGGACACGCACCCATATCCGACACACTCAAGTCGGA
* * ** *
24534 GTAACATAGACCATCGGCATGAGAAAAGGTGTAAAG-TCATGATGTTTATACAAAGGTAAAACA
582 GTAACATAGACCATCGGCGTGAGAAAAGGTGTAAAGAT-ATGATGTTTGTAGGAAGGTAAAACG
** * *
24597 GTACTCGTTTCCCTTTCCGAGAGCTTGAGCTAAGCTCTACACATGCATGAAAGA
1 GTACTCGTTTCCCTTTCAAAGAGTTTGAGCTAAGCTCTACACATGCTTGAAAGA
24651 GAGAACTTAA
Statistics
Matches: 1261, Mismatches: 73, Indels: 17
0.93 0.05 0.01
Matches are distributed among these distances:
642 121 0.10
643 641 0.51
644 71 0.06
645 226 0.18
646 202 0.16
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (644 bp):
GTACTCGTTTCCCTTTCAAAGAGTTTGAGCTAAGCTCTACACATGCTTGAAAGACAACTTCATGA
CCAAAACTCGTGCAGGGGATATGACCGTTCGAAGATCTCCCAAACCCACATTGGACACACACCCA
TATCCGACACACTCAAGTCAGAGTAACATAGACCATCGGCATGAGAAAAGGTGTAAAGCCATGAT
GTTTATACGAAGGTAAAACATTACTCGTTTCCCTCTCAGAGAGCTTGAGCTAAGCTATACACATG
CTGAAAGAGAGAACTTCATGACCAAAACTCCTGCAGGGGATATGATCGTTCAAAGATCTCCAAAC
CCACATTGGACACACACCCATATCCAACACACTCAAGTCGGAGTAACATAGACCATCGGCATGAG
AAAAGGTGTAAAGCCATGATGTTTATACGAAGGTAAAACCGTACTCGTTTCCATCTCCGAGAGCT
TGAGCTAAGCTATACACATGCAAGAAGAGAACTTCATGACCAAAACTCGGGCAGGAGATATGACC
GTTCGAAGATCTCCCAAACCCACATTGGACACGCACCCATATCCGACACACTCAAGTCGGAGTAA
CATAGACCATCGGCGTGAGAAAAGGTGTAAAGATATGATGTTTGTAGGAAGGTAAAACG
Found at i:30825 original size:38 final size:37
Alignment explanation
Indices: 30778--30864 Score: 140
Period size: 38 Copynumber: 2.4 Consensus size: 37
30768 TAAAAATAAT
30778 AATTATATATATATATAATATTAATAAATTTAATTTA
1 AATTATATATATATATAATATTAATAAATTTAATTTA
* *
30815 AATTAATATATATATATAATATTTATATATTTAATTTA
1 AATT-ATATATATATATAATATTAATAAATTTAATTTA
30853 AA-TATATATATA
1 AATTATATATATA
30865 CCCGACCTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 9 0.19
37 5 0.11
38 33 0.70
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (37 bp):
AATTATATATATATATAATATTAATAAATTTAATTTA
Found at i:30835 original size:32 final size:33
Alignment explanation
Indices: 30786--30864 Score: 92
Period size: 32 Copynumber: 2.4 Consensus size: 33
30776 ATAATTATAT
30786 ATATATATAATATTAATAAATT-TA-ATTTAAATTA
1 ATATATAT-ATA-TAAT-AATTATATATTTAAATTA
* *
30820 ATATATATATATAATATTTATATATTTAATTTA
1 ATATATATATATAATAATTATATATTTAAATTA
30853 A-ATATATATATA
1 ATATATATATATA
30865 CCCGACCTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
31 3 0.07
32 17 0.41
33 13 0.32
34 8 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
ATATATATATATAATAATTATATATTTAAATTA
Found at i:30843 original size:15 final size:15
Alignment explanation
Indices: 30776--30862 Score: 55
Period size: 13 Copynumber: 6.2 Consensus size: 15
30766 ATTAAAAATA
30776 ATAATTATATATATAT
1 ATAATT-TATATATAT
*
30792 ATAATATTA-ATAAAT
1 ATAAT-TTATATATAT
* *
30807 TTAATTTAAAT-TA-
1 ATAATTTATATATAT
*
30820 AT-ATATATATATA-
1 ATAATTTATATATAT
30833 AT-ATTTATATAT-T
1 ATAATTTATATATAT
*
30846 -TAATTTAAATATAT
1 ATAATTTATATATAT
30860 ATA
1 ATA
30863 TACCCGACCT
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
12 7 0.12
13 23 0.41
14 5 0.09
15 13 0.23
16 7 0.12
17 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAATTTATATATAT
Found at i:30843 original size:17 final size:17
Alignment explanation
Indices: 30776--30864 Score: 60
Period size: 17 Copynumber: 5.2 Consensus size: 17
30766 ATTAAAAATA
30776 ATAA-TTATATATATAT
1 ATAATTTATATATATAT
* *
30792 ATAATATTAATAAATTTAAT
1 ATAAT-TT-ATATATAT-AT
* *
30812 TTAAATTAATATATATAT
1 AT-AATTTATATATATAT
30830 ATAATATT-TATATAT-T
1 ATAAT-TTATATATATAT
*
30846 -TAATTTAAATATATAT
1 ATAATTTATATATATAT
30862 ATA
1 ATA
30865 CCCGACCTGA
Statistics
Matches: 55, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
14 2 0.04
15 10 0.18
16 6 0.11
17 12 0.22
18 6 0.11
19 12 0.22
20 4 0.07
21 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAATTTATATATATAT
Found at i:36789 original size:9 final size:9
Alignment explanation
Indices: 36759--36810 Score: 56
Period size: 8 Copynumber: 6.1 Consensus size: 9
36749 ATCTGCAAAA
36759 AAATTAAAT
1 AAATTAAAT
*
36768 -AAGTAAA-
1 AAATTAAAT
*
36775 ATATTAAAT
1 AAATTAAAT
36784 AAATTAAAT
1 AAATTAAAT
*
36793 -ACTTAAAT
1 AAATTAAAT
36801 AAATTAAAT
1 AAATTAAAT
36810 A
1 A
36811 CAAAATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 18 0.53
9 16 0.47
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
AAATTAAAT
Found at i:36791 original size:17 final size:17
Alignment explanation
Indices: 36756--36808 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
36746 TATATCTGCA
* *
36756 AAAAAATTAAAT-AAGT
1 AAAATATTAAATAAATT
36772 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
36789 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
36806 AAA
1 AAA
36809 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 16 0.50
17 14 0.44
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:36809 original size:17 final size:17
Alignment explanation
Indices: 36762--36811 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
36752 TGCAAAAAAA
* *
36762 TTAAATAAGTAAAATA-
1 TTAAATAAATTAAATAC
36778 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
36795 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
36812 AAAATATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:37254 original size:29 final size:29
Alignment explanation
Indices: 37181--37248 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
37171 CTGTTAAGGA
37181 TGTTAGATCGAGAAATATAATCTGACCGG
1 TGTTAGATCGAGAAATATAATCTGACCGG
*
37210 TGTTAGATCGAGAAATATAGTCTGACCGG
1 TGTTAGATCGAGAAATATAATCTGACCGG
37239 TGTTAGATCG
1 TGTTAGATCG
37249 GTAAATTACC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (29 bp):
TGTTAGATCGAGAAATATAATCTGACCGG
Found at i:38984 original size:2 final size:2
Alignment explanation
Indices: 38977--39001 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38967 TAGGTATAAC
38977 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 A
39002 GCTAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:41087 original size:20 final size:20
Alignment explanation
Indices: 41062--41103 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
41052 ACTTGTTTTA
*
41062 AAATTCAAATTCAATAGATC
1 AAATTCAAATTCAAAAGATC
* *
41082 AAATTCGAATTTAAAAGATC
1 AAATTCAAATTCAAAAGATC
41102 AA
1 AA
41104 CTTGGGATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (20 bp):
AAATTCAAATTCAAAAGATC
Found at i:43177 original size:3 final size:3
Alignment explanation
Indices: 43169--43193 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43159 TTAATCAGTG
43169 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
43194 GTGTGTTAAC
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:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:44143 original size:2 final size:2
Alignment explanation
Indices: 44136--44168 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
44126 TCTGCTTTCC
44136 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44169 GATAATAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48860 original size:37 final size:39
Alignment explanation
Indices: 48815--48887 Score: 114
Period size: 37 Copynumber: 1.9 Consensus size: 39
48805 ATCATCGTTA
* *
48815 TTACATCGGAAATCAAATG-GAAAAAA-TTGTATATCGT
1 TTACATCGGAAACCAAATGCAAAAAAATTTGTATATCGT
48852 TTACATCGGAAACCAAATGCAAAAAAATTTGTATAT
1 TTACATCGGAAACCAAATGCAAAAAAATTTGTATAT
48888 GAATAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 18 0.56
38 6 0.19
39 8 0.25
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (39 bp):
TTACATCGGAAACCAAATGCAAAAAAATTTGTATATCGT
Found at i:58036 original size:6 final size:6
Alignment explanation
Indices: 58025--58049 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
58015 TGAAAATCGC
58025 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
58050 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:58192 original size:21 final size:21
Alignment explanation
Indices: 58166--58235 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
58156 TAGAAAATCG
58166 CAACGCGATTTTCAACTATCA
1 CAACGCGATTTTCAACTATCA
** ** *
58187 CAACGCGAAATGGAA-AATCA
1 CAACGCGATTTTCAACTATCA
*
58207 CAACGCGATTTTCAACTATCG
1 CAACGCGATTTTCAACTATCA
58228 CAACGCGA
1 CAACGCGA
58236 AATGCAACGC
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 15 0.41
21 22 0.59
ACGTcount: A:0.37, C:0.27, G:0.16, T:0.20
Consensus pattern (21 bp):
CAACGCGATTTTCAACTATCA
Found at i:58203 original size:41 final size:41
Alignment explanation
Indices: 58158--58239 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
58148 GACAACTGTA
*
58158 GAAAATCGCAACGCGATTTTCAACTATCACAACGCGAAATG
1 GAAAATCACAACGCGATTTTCAACTATCACAACGCGAAATG
*
58199 GAAAATCACAACGCGATTTTCAACTATCGCAACGCGAAATG
1 GAAAATCACAACGCGATTTTCAACTATCACAACGCGAAATG
58240 CAACGCGAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
GAAAATCACAACGCGATTTTCAACTATCACAACGCGAAATG
Found at i:58243 original size:21 final size:21
Alignment explanation
Indices: 58178--58243 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
58168 ACGCGATTTT
58178 CAACTATCACAACGCGAAATG
1 CAACTATCACAACGCGAAATG
* * ** *
58199 GAA-AATCACAACGCGATTTT
1 CAACTATCACAACGCGAAATG
*
58219 CAACTATCGCAACGCGAAATG
1 CAACTATCACAACGCGAAATG
58240 CAAC
1 CAAC
58244 GCGAATTTGA
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.41, C:0.27, G:0.15, T:0.17
Consensus pattern (21 bp):
CAACTATCACAACGCGAAATG
Found at i:58295 original size:20 final size:20
Alignment explanation
Indices: 58272--58336 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
58262 AGATCGCGTT
*
58272 GCGATTTCAACTATCGCAAC
1 GCGATTCCAACTATCGCAAC
* ** *
58292 GCGAAATGGAA-AATCGCAAC
1 GCG-ATTCCAACTATCGCAAC
58312 GCGATCTCCAACTATCGCAAC
1 GCGAT-TCCAACTATCGCAAC
58333 GCGA
1 GCGA
58337 AATGGAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.03
20 17 0.50
21 16 0.47
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (20 bp):
GCGATTCCAACTATCGCAAC
Found at i:58329 original size:41 final size:41
Alignment explanation
Indices: 58279--58381 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 41
58269 GTTGCGATTT
*
58279 CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
* * *
58320 CAACTATCGCAACGCGAAATGGAAAAACGTAACGCGATTTT
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
*
58361 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
58382 CAACGTGAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.17
Consensus pattern (41 bp):
CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
Found at i:58385 original size:21 final size:21
Alignment explanation
Indices: 58279--58385 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 21
58269 GTTGCGATTT
58279 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
* * ** *
58300 GAA-AATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATG
58320 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
* * * * ** *
58341 GAA-AAACGTAACGCGATTTT
1 CAACTATCGCAACGCGAAATG
*
58361 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
58382 CAAC
1 CAAC
58386 GTGAATTTGC
Statistics
Matches: 59, Mismatches: 25, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (21 bp):
CAACTATCGCAACGCGAAATG
Found at i:58417 original size:142 final size:142
Alignment explanation
Indices: 58158--58417 Score: 405
Period size: 142 Copynumber: 1.8 Consensus size: 142
58148 GACAACTGTA
* * *
58158 GAAAATCGCAACGCGATTTTCAACTATCACAACGCGAAATGGAAAATCACAACGCGATTTTCAAC
1 GAAAATCGCAACGCGATCTCCAACTATCACAACGCGAAATGGAAAAACACAACGCGATTTTCAAC
**
58223 TATCGCAACGCGAAATGCAACGCGAATTTGAGATGATGGAGATCGCGTTGCGATTTCAACTATCG
66 TATCGCAACGCGAAATGCAACGCGAATTTGAGATGATGGAGATCGCAATGCGATTTCAACTATCG
58288 CAACGCGAAATG
131 CAACGCGAAATG
* **
58300 GAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAAACGTAACGCGATTTTCAAC
1 GAAAATCGCAACGCGATCTCCAACTATCACAACGCGAAATGGAAAAACACAACGCGATTTTCAAC
* * *
58365 TATCGCAATGCGAAATGCAACGTGAATTTGCGAT-AGTGGAGATCGCAATGCGA
66 TATCGCAACGCGAAATGCAACGCGAATTTGAGATGA-TGGAGATCGCAATGCGA
58418 ATTAGAGATC
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
141 1 0.01
142 105 0.99
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (142 bp):
GAAAATCGCAACGCGATCTCCAACTATCACAACGCGAAATGGAAAAACACAACGCGATTTTCAAC
TATCGCAACGCGAAATGCAACGCGAATTTGAGATGATGGAGATCGCAATGCGATTTCAACTATCG
CAACGCGAAATG
Found at i:62561 original size:78 final size:78
Alignment explanation
Indices: 62432--62587 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
62422 GCTGTGTCAG
62432 AGGCTTCGTTAAGGGATCAGTAATATTGTCATCCGTGTGTACTATGTATATTTCCATATATCATC
1 AGGCTTCGTTAAGGGATCAGTAATATTGTCATCCGTGTGTACTATGTATATTTCCATATATCATC
62497 GATCTATGATCTT
66 GATCTATGATCTT
*
62510 AGGCTTCGTTAAGGGATCAGTAATGTTGTCATCCGTGTGTACTATGTATATTTCCATATATCATC
1 AGGCTTCGTTAAGGGATCAGTAATATTGTCATCCGTGTGTACTATGTATATTTCCATATATCATC
62575 GATCTATGATCTT
66 GATCTATGATCTT
62588 TTGAATGAGA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (78 bp):
AGGCTTCGTTAAGGGATCAGTAATATTGTCATCCGTGTGTACTATGTATATTTCCATATATCATC
GATCTATGATCTT
Found at i:68434 original size:20 final size:21
Alignment explanation
Indices: 68321--68435 Score: 87
Period size: 20 Copynumber: 5.7 Consensus size: 21
68311 AAATAACCAA
***
68321 CAAATTCGCAACGCGA-ACAC
1 CAAATTCGCAACGCGATTTTC
* * *
68341 CAATTTCGCAACAC-AGTTTC
1 CAAATTCGCAACGCGATTTTC
* *
68361 CAAATTCGCAACTC-AGTTTC
1 CAAATTCGCAACGCGATTTTC
* * *
68381 GGAAA-TCGTAACACGATTTTC
1 -CAAATTCGCAACGCGATTTTC
68402 CAAATTCGCAACGCGATTTT-
1 CAAATTCGCAACGCGATTTTC
68422 CAAATTCGCAACGC
1 CAAATTCGCAACGC
68436 TAATTACCGA
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
19 1 0.01
20 55 0.71
21 21 0.27
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (21 bp):
CAAATTCGCAACGCGATTTTC
Found at i:68571 original size:58 final size:57
Alignment explanation
Indices: 68407--68573 Score: 255
Period size: 57 Copynumber: 2.9 Consensus size: 57
68397 TTTTCCAAAT
*
68407 TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACATAACTA
1 TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACACAACTA
* *
68464 TCGCAACGCGATTTTCAAATTAGCAACGCTAATTACCGATATAGATAAACACAACTA
1 TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACACAACTA
* * *
68521 TCGCAACGCGAATTCGTCAATTTCGCAAC-TTAATTACCGATATAGGTAAACAC
1 TCGCAACGCG-ATT-TTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAC
68574 GGTAGAAAAA
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
57 64 0.64
58 25 0.25
59 11 0.11
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (57 bp):
TCGCAACGCGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACACAACTA
Found at i:68941 original size:20 final size:20
Alignment explanation
Indices: 68915--68969 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
68905 AATTAAGTTG
*
68915 CGAAATTCGCATTGCAAAAAT
1 CGAAATTCGTATTGC-AAAAT
68936 -GAAATTCGTATTGCAAAAT
1 CGAAATTCGTATTGCAAAAT
68955 CGAAATTCGTATTGC
1 CGAAATTCGTATTGC
68970 GAATTTGGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 5 0.16
20 27 0.84
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (20 bp):
CGAAATTCGTATTGCAAAAT
Found at i:69046 original size:20 final size:21
Alignment explanation
Indices: 69016--69152 Score: 122
Period size: 20 Copynumber: 6.7 Consensus size: 21
69006 CTATATCGGT
*
69016 AATTAGCGTTGCGAA-TTGGA
1 AATTCGCGTTGCGAATTTGGA
* ***
69036 AAATCGCGTTGCGAA-AAAGA
1 AATTCGCGTTGCGAATTTGGA
* *
69056 AATTCGCGTTGCGATTTTCGA
1 AATTCGCGTTGCGAATTTGGA
* *
69077 AACT-GAGTTGCGAATTTGTGA
1 AATTCGCGTTGCGAATTTG-GA
69098 AATTCGCGTTGCGAATTTGGA
1 AATTCGCGTTGCGAATTTGGA
* *
69119 AACT-GTGTTGCGAATTTGG-
1 AATTCGCGTTGCGAATTTGGA
*
69138 AGTTCGCGTTGCGAA
1 AATTCGCGTTGCGAA
69153 GTTGTTGGTT
Statistics
Matches: 92, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
19 2 0.02
20 62 0.67
21 15 0.16
22 13 0.14
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (21 bp):
AATTCGCGTTGCGAATTTGGA
Found at i:69109 original size:42 final size:41
Alignment explanation
Indices: 69054--69152 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 41
69044 TTGCGAAAAA
*
69054 GAAATTCGCGTTGCGATTTTCGAAACTGAGTTGCGAATTTG
1 GAAATTCGCGTTGCGAATTTCGAAACTGAGTTGCGAATTTG
* *
69095 TGAAATTCGCGTTGCGAATTTGGAAACTGTGTTGCGAATTTG
1 -GAAATTCGCGTTGCGAATTTCGAAACTGAGTTGCGAATTTG
*
69137 G-AGTTCGCGTTGCGAA
1 GAAATTCGCGTTGCGAA
69153 GTTGTTGGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 14 0.26
41 1 0.02
42 38 0.72
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.33
Consensus pattern (41 bp):
GAAATTCGCGTTGCGAATTTCGAAACTGAGTTGCGAATTTG
Found at i:71083 original size:125 final size:125
Alignment explanation
Indices: 70859--71110 Score: 441
Period size: 125 Copynumber: 2.0 Consensus size: 125
70849 TTAAATTTCG
* *
70859 TCTTGATTAATCTAAATTGATCCGAATCACATACTTAACTTTGGTGAATGAGTCTTCTAACGAGG
1 TCTTGATTAATCTAAATTGATCCAAATCACATACTTAACTTTGGTGAATGAATCTTCTAACGAGG
* *
70924 ATTTTCTACATATATAAAAACTCGAATTCTAAAATTGTTTAAGCAATATTAAACTACTTA
66 ATTTTCTACATATACAAAAACTCGAATTCGAAAATTGTTTAAGCAATATTAAACTACTTA
* *
70984 TCTTGATTAATCTAAATTGATCCAAATCACATACTTAATTTTGGTGAATGAATCTTCTAATGAGG
1 TCTTGATTAATCTAAATTGATCCAAATCACATACTTAACTTTGGTGAATGAATCTTCTAACGAGG
*
71049 ATTTTCTATATATACAAAAACTCGAATTCGAAAATTGTTTAAGCAATATTAAACTACTTA
66 ATTTTCTACATATACAAAAACTCGAATTCGAAAATTGTTTAAGCAATATTAAACTACTTA
71109 TC
1 TC
71111 ACTTGAACTA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 120 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (125 bp):
TCTTGATTAATCTAAATTGATCCAAATCACATACTTAACTTTGGTGAATGAATCTTCTAACGAGG
ATTTTCTACATATACAAAAACTCGAATTCGAAAATTGTTTAAGCAATATTAAACTACTTA
Found at i:73768 original size:34 final size:33
Alignment explanation
Indices: 73696--73792 Score: 99
Period size: 34 Copynumber: 2.9 Consensus size: 33
73686 TTTTTCCTAC
* *
73696 TTTATT-ATTCTTGTTATATATGCATAT-TATTT
1 TTTATTAATT-TTATTATATATGTATATATATTT
* *
73728 TCTATTAATTTTATTATATATGTATATATGTTTT
1 TTTATTAATTTTATTATATATGTATATAT-ATTT
* * *
73762 TTTATTAGTGTTATTATATATATATATATAT
1 TTTATTAATTTTATTATATATGTATATATAT
73793 ATATATATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
32 20 0.38
33 5 0.09
34 28 0.53
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (33 bp):
TTTATTAATTTTATTATATATGTATATATATTT
Found at i:73781 original size:2 final size:2
Alignment explanation
Indices: 73776--73808 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
73766 TTAGTGTTAT
*
73776 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
73809 TTCCTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:73925 original size:2 final size:2
Alignment explanation
Indices: 73877--73905 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
73867 TTATTTTACT
73877 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
73906 GTTTTTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:73930 original size:17 final size:17
Alignment explanation
Indices: 73908--74002 Score: 50
Period size: 18 Copynumber: 5.2 Consensus size: 17
73898 ATATATATGT
73908 TTTTACTTTTTTATATA
1 TTTTACTTTTTTATATA
*
73925 TTTTACTCATTTATTTATCTA
1 TTTTA--C-TTT-TTTATATA
**
73946 TTTTA-TATTTATCCTATA
1 TTTTACT-TTT-TTATATA
*
73964 TTTTA-TGTTTTTATATTC
1 TTTTACT-TTTTTATA-TA
*
73982 TTTTACTTGTTTTATTTA
1 TTTTACTT-TTTTATATA
74000 TTT
1 TTT
74003 ATTTGCATTA
Statistics
Matches: 59, Mismatches: 10, Indels: 17
0.69 0.12 0.20
Matches are distributed among these distances:
17 10 0.17
18 26 0.44
19 8 0.14
20 3 0.05
21 12 0.20
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTACTTTTTTATATA
Found at i:73947 original size:21 final size:19
Alignment explanation
Indices: 73857--73957 Score: 64
Period size: 20 Copynumber: 5.1 Consensus size: 19
73847 ATTTTCTTTT
73857 TTTAT-TATTATTAT-TTTA
1 TTTATATATT-TTATATTTA
* *
73875 CTTATATATATATATATATATA
1 -TT-TATATAT-TTTATATTTA
* *
73897 TATATATATGTTTTTACTTT-
1 TTTATATAT-TTTATA-TTTA
73917 TTTATATATTTTACTCATTTA
1 TTTATATATTTTA-T-ATTTA
*
73938 TTTATCTATTTTATATTTA
1 TTTATATATTTTATATTTA
73957 T
1 T
73958 CCTATATTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
19 11 0.17
20 27 0.42
21 22 0.34
22 4 0.06
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTATATATTTTATATTTA
Found at i:77174 original size:10 final size:10
Alignment explanation
Indices: 77161--77211 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
77151 CAAAAAGGGC
77161 AAAAAGAAAA
1 AAAAAGAAAA
77171 AAAAAGAAGCAA
1 AAAAAGAA--AA
*
77183 AAAAGGAAAA
1 AAAAAGAAAA
* *
77193 AACAAGAACA
1 AAAAAGAAAA
77203 AAAAAGAAA
1 AAAAAGAAA
77212 GAACAAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 24 0.73
12 9 0.27
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:77182 original size:20 final size:21
Alignment explanation
Indices: 77161--77211 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
77151 CAAAAAGGGC
77161 AAAAAGAAAAAAAAAGAAGCA
1 AAAAAGAAAAAAAAAGAAGCA
*
77182 AAAAAGGAAAAAACAAGAA-CA
1 AAAAA-GAAAAAAAAAGAAGCA
77203 AAAAAGAAA
1 AAAAAGAAA
77212 GAACAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.14
21 12 0.43
22 12 0.43
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAAAAAGAAGCA
Found at i:77191 original size:22 final size:21
Alignment explanation
Indices: 77161--77239 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
77151 CAAAAAGGGC
77161 AAAAA-GAAAAAAAAAGAAGCA
1 AAAAAGGAAAAAAAAAGAA-CA
*
77182 AAAAAGGAAAAAACAAGAACA
1 AAAAAGGAAAAAAAAAGAACA
* *
77203 AAAAA-GAAAGAACAAA-AATA
1 AAAAAGGAAA-AAAAAAGAACA
* *
77223 AAAAAGGGAACAAAAAG
1 AAAAAGGAAAAAAAAAG
77240 TACATGCAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
20 16 0.34
21 19 0.40
22 12 0.26
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.01
Consensus pattern (21 bp):
AAAAAGGAAAAAAAAAGAACA
Found at i:77216 original size:20 final size:20
Alignment explanation
Indices: 77161--77228 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
77151 CAAAAAGGGC
*
77161 AAAAAGAAAAAAAAAGAAGCA
1 AAAAAGAAAAAACAAGAA-CA
77182 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
77203 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
77223 AAAAAG
1 AAAAAG
77229 GGAACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 18 0.43
21 12 0.29
22 12 0.29
ACGTcount: A:0.79, C:0.06, G:0.13, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:77864 original size:22 final size:22
Alignment explanation
Indices: 77836--77886 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
77826 CCCCATCAAT
77836 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
77858 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
77880 CCTTTGA
1 CCTTTGA
77887 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:78793 original size:36 final size:36
Alignment explanation
Indices: 78746--78850 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 36
78736 GTGCTCATCA
78746 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
* *
78782 TTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
* * *
78819 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
78851 TAAACATTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
36 31 0.50
37 31 0.50
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
Found at i:78840 original size:37 final size:37
Alignment explanation
Indices: 78746--78855 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
78736 GTGCTCATCA
78746 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* *
78782 TTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
78819 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
78856 ATTGAAAACA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 30 0.46
37 32 0.49
38 3 0.05
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:79011 original size:15 final size:15
Alignment explanation
Indices: 78991--79021 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
78981 AAGTTTTGTC
78991 TCTCTTGAGACAGTT
1 TCTCTTGAGACAGTT
79006 TCTCTTGAGACAGTT
1 TCTCTTGAGACAGTT
79021 T
1 T
79022 TCGTCTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (15 bp):
TCTCTTGAGACAGTT
Found at i:79040 original size:36 final size:37
Alignment explanation
Indices: 78957--79054 Score: 123
Period size: 36 Copynumber: 2.7 Consensus size: 37
78947 TACCATTTCC
* *
78957 CTTGAGACAGTTTCTTTTG-GAACTAAGTTTTGTCTCT
1 CTTGAGACAGTTTCTCTTGAGAAC-AAGTTTTGTCTAT
78994 CTTGAGACAGTTTCTCTTGAG-AC-AGTTTTCGTCTAT
1 CTTGAGACAGTTTCTCTTGAGAACAAGTTTT-GTCTAT
*
79030 CTTGAGACAGTTTCCCTTGA-AACAA
1 CTTGAGACAGTTTCTCTTGAGAACAA
79055 AATCTTTGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
35 6 0.11
36 26 0.48
37 21 0.39
38 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40
Consensus pattern (37 bp):
CTTGAGACAGTTTCTCTTGAGAACAAGTTTTGTCTAT
Found at i:79140 original size:67 final size:68
Alignment explanation
Indices: 79030--79186 Score: 214
Period size: 68 Copynumber: 2.4 Consensus size: 68
79020 TTTCGTCTAT
* **
79030 CTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTT-CCTCTAAAACA-AATTTTGT
1 CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT-TAAAACATAATTTTGT
79091 CTCC
65 CTCC
* *
79095 CTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTC
79160 TCC
66 TCC
* *
79163 CTTGAGACCGTTTCTCATGAAACA
1 CTTGAGACAGTTTCTCTTGAAACA
79187 ACAGATATCT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 17 0.21
66 2 0.03
67 26 0.32
68 35 0.44
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (68 bp):
CTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTC
TCC
Found at i:80146 original size:105 final size:104
Alignment explanation
Indices: 79791--80962 Score: 1685
Period size: 105 Copynumber: 11.3 Consensus size: 104
79781 GCCATCCGCG
* * * * * *
79791 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
79856 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAAC-AACAACTTCCCAA-TTCAGAGCCA
79900 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
79965 ACCGCTGGTTGTCAATAAACAATTTTCCCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAA-CAACAA-CTTCCCAA-TTCAGAGCCA
* *
80007 ATTTCAACTTCACAGCGAAGGATATTGGATTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
80072 ACCGCTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
*
80112 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
80177 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
80217 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
80282 AGCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
** *
80317 ATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
80382 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
*
80422 ATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA-GG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
80486 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
*
80521 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
80586 ACCGCTGCTTGTCAGCAA-AA-TT-TC-ATTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
* *
80621 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
80686 ACCGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCCA
*
80726 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
80791 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
* * *
80826 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * **
80891 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCGCTGCTTGTCAAC-AACAACTTCCCAATT-CAGAGCCA
* *
80932 ATTTCAACTTCACGACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
80963 TGGAACAATG
Statistics
Matches: 985, Mismatches: 58, Indels: 43
0.91 0.05 0.04
Matches are distributed among these distances:
99 69 0.07
100 287 0.29
101 11 0.01
102 10 0.01
103 10 0.01
104 30 0.03
105 355 0.36
106 93 0.09
107 98 0.10
109 22 0.02
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (104 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCCA
Found at i:80392 original size:205 final size:207
Alignment explanation
Indices: 79791--80962 Score: 1726
Period size: 205 Copynumber: 5.7 Consensus size: 207
79781 GCCATCCGCG
* * * * * *
79791 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
79856 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
63 GGGACCGCTGGTTGTCAAC-AACAACTTCTCAA-TTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
79921 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
126 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACA
79986 ATTTTCCCAATTTCAGAGCCA
190 A-TTT-CCAA-TTCAGAGCCA
* *
80007 ATTTCAACTTCACAGCGAAGGATATTGGATTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
80072 ACCGCTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
66 ACCGCTGGTTGTCAACAACAACTTCTCAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATAT
*
80137 TGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTT
130 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA-TTT
80202 CCAATCTCAGAGCCA
194 CCAAT-TCAGAGCCA
80217 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * **
80282 AGCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCAATTTCAACTTCACAGTGAAGGATATT
66 ACCGCTGGTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
*
80343 GGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTC
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA-TTTC
80408 CAATCTCAGAGCCA
195 CAAT-TCAGAGCCA
*
80422 ATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA-GG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
80486 ACCGCTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATT
66 ACCGCTGGTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
*
80547 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAGCAA-AATTT-C
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCC
80610 -ATTCAGAGCCA
196 AATTCAGAGCCA
* *
80621 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
80686 ACCGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCAATTTCAACTTCACAACGAAAGATAT
66 ACCGCTGGTTGTCAACAACAACTTCTCAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATAT
80751 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AATTT-
130 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTC
**
80814 C-ATTCAGATTCA
195 CAATTCAGAGCCA
* * *
80826 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * ** * *
80891 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATA
66 ACCGCTGGTTGTCAAC-AACAACTTCTCAATT-CAGAGCCAATTTCAACTTCACAACGAAGGATA
80956 TTGGACT
129 TTGGACT
80963 TGGAACAATG
Statistics
Matches: 895, Mismatches: 51, Indels: 30
0.92 0.05 0.03
Matches are distributed among these distances:
199 68 0.08
200 21 0.02
201 3 0.00
202 5 0.01
203 3 0.00
204 118 0.13
205 350 0.39
206 49 0.05
207 1 0.00
208 2 0.00
209 3 0.00
210 92 0.10
211 9 0.01
212 99 0.11
213 48 0.05
214 3 0.00
216 21 0.02
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (207 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGGTTGTCAACAACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCC
AATTCAGAGCCA
Found at i:80655 original size:304 final size:311
Alignment explanation
Indices: 79791--80962 Score: 1805
Period size: 304 Copynumber: 3.8 Consensus size: 311
79781 GCCATCCGCG
* * * * * *
79791 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
79856 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
63 GGGACCGCTGCTTGTCAAC-AACAACTT-TCAA-TTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
79921 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACA
125 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAA-CAACA
* *
79986 ATTTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGATTCCAGACAACGCAA
189 A-TTT-CCAA-TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAA
*
80051 GTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATCTCAGAGCCA
251 GTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
80112 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
80177 ACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATAT
66 ACCGCTGCTTGTCAACAACAACTTT-CAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATAT
*
80242 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAGCGCTGCTTGTCAACAA-AATTT-
129 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTC
*
80305 C-ATTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCCAGACAATGCAAGTTCAACT
194 CAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACT
*
80369 TCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTTCCAATCTCAGAGCCA
259 TCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
80422 ATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA-GG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
80486 ACCGCTGCTTGTCAACAA-AA-TTTC-ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTG
66 ACCGCTGCTTGTCAACAACAACTTTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
*
80548 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAGCAA-AATTT-C-
131 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCCA
80610 ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTC
196 ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTC
* *
80675 ACGACGAAGGGACCGCTGTTTGTCAACAACAACTTCCCAATCCCAGAGCCA
261 ACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
80726 ATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
80791 ACCGCTGCTTGTCAACAA-AA-TTTC-ATTCAGATTCAATTTCAACTTCACAACGAAGGATATTG
66 ACCGCTGCTTGTCAACAACAACTTTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* * * * *
80853 GACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCC
131 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAATTT-C
** *
80918 CGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACT
194 CAATT-CAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACT
80963 TGGAACAATG
Statistics
Matches: 802, Mismatches: 39, Indels: 30
0.92 0.04 0.03
Matches are distributed among these distances:
304 267 0.33
305 111 0.14
306 3 0.00
307 8 0.01
308 2 0.00
309 21 0.03
310 173 0.22
311 37 0.05
312 1 0.00
314 3 0.00
315 2 0.00
316 4 0.00
317 98 0.12
318 47 0.06
319 3 0.00
321 22 0.03
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (311 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATTTCCA
ATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTC
ACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
Found at i:82020 original size:2 final size:2
Alignment explanation
Indices: 82015--82045 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
82005 TTATTAGTGT
*
82015 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
82046 TCCTATTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:82166 original size:38 final size:40
Alignment explanation
Indices: 82091--82167 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 40
82081 TGATTTTCTT
* *
82091 TTTTTTATTATTATTTACTTATATATATATATGTTTTTAC
1 TTTTTTATTATTATTTACTCATATATATATATATTTTTAC
* * *
82131 TTTTTTA-TA-TATTTACTCATTTATTTATCTATTTTTA
1 TTTTTTATTATTATTTACTCATATATATATATATTTTTA
82168 TATTTATCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 23 0.72
39 2 0.06
40 7 0.22
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.66
Consensus pattern (40 bp):
TTTTTTATTATTATTTACTCATATATATATATATTTTTAC
Found at i:82184 original size:17 final size:16
Alignment explanation
Indices: 82152--82185 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
82142 TTTACTCATT
*
82152 TATTTATCTATTTTTA
1 TATTTATCTATATTTA
82168 TATTTATCCTATATTTA
1 TATTTAT-CTATATTTA
82185 T
1 T
82186 GTTTTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTATCTATATTTA
Found at i:85211 original size:21 final size:21
Alignment explanation
Indices: 85094--85231 Score: 68
Period size: 21 Copynumber: 6.7 Consensus size: 21
85084 ACGCGAAATA
**
85094 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
85114 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
* *
85134 AAAATCGCAACACGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* ** *
85155 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
85176 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * * *
85197 AGAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
85217 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
85232 ACACATAAAT
Statistics
Matches: 86, Mismatches: 28, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
19 1 0.01
20 38 0.44
21 45 0.52
22 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.20
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:85224 original size:20 final size:20
Alignment explanation
Indices: 85199--85392 Score: 87
Period size: 20 Copynumber: 9.7 Consensus size: 20
85189 GATTTTCCAG
* *
85199 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
85219 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
85239 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
85259 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
85279 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
85299 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
85319 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
85339 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
85360 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
85380 AATCGCAACGCGA
1 AATCGCAACGCGA
85393 TATTTAAAGC
Statistics
Matches: 149, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
19 3 0.02
20 130 0.87
21 15 0.10
22 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:85246 original size:40 final size:39
Alignment explanation
Indices: 85199--85392 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 39
85189 GATTTTCCAG
* ** *
85199 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
85239 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* * *
85279 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
85319 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
85360 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
85393 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 98 0.74
41 33 0.25
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:85282 original size:60 final size:60
Alignment explanation
Indices: 85199--85391 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
85189 GATTTTCCAG
* ** *
85199 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
* * * *
85259 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACATAAATCGCAACGCGTATCCGTA
* ** *
85319 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT-AAATCGCAACGCGTATCCGTA
85380 AATCGCAACGCG
1 AATCGCAACGCG
85392 ATATTTAAAG
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
59 1 0.01
60 79 0.70
61 33 0.29
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
Found at i:85808 original size:33 final size:33
Alignment explanation
Indices: 85769--85839 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
85759 TTCACTTAGA
85769 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
85802 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
85835 TTTCA
1 TTTCA
85840 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:85963 original size:20 final size:20
Alignment explanation
Indices: 85919--86028 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
85909 TGCAGAAGAG
*
85919 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
85940 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
85960 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
85981 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
85995 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
86014 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
86029 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:85976 original size:41 final size:38
Alignment explanation
Indices: 85912--86028 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
85902 TTCAATTTGC
* *
85912 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
85950 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
85991 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
86024 AGAAT
1 AGAAT
86029 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:85998 original size:14 final size:14
Alignment explanation
Indices: 85979--86035 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
85969 GAGAAATGAA
85979 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
85993 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
86012 AATCGCAACGAGAG
1 AATCGCAACGAGAG
86026 AATCGCAACG
1 AATCGCAACG
86036 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:86011 original size:33 final size:33
Alignment explanation
Indices: 85971--86051 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
85961 CGCAACGAGA
85971 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
86004 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
86037 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
86052 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:86069 original size:19 final size:19
Alignment explanation
Indices: 86047--86174 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
86037 GAAACCAAAA
*
86047 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
86066 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
86080 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
86099 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
86113 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
86133 ATCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
86153 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
86173 TC
1 TC
86175 AACCAAAAGA
Statistics
Matches: 86, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.26
20 18 0.21
21 14 0.16
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:86088 original size:14 final size:14
Alignment explanation
Indices: 86069--86125 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
86059 TTTCATTTCG
86069 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
86083 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
86102 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
86116 CGTTGCGATT
1 CGTTGCGATT
86126 TTCATTTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:86094 original size:33 final size:33
Alignment explanation
Indices: 86052--86174 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
86042 CAAAATCGCA
86052 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
86085 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
86118 TTGCGATTTTCATTTATCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
86159 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
86175 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:86139 original size:21 final size:21
Alignment explanation
Indices: 86113--86173 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
86103 GTTGCGATTC
86113 TCTCGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTA
*** *
86134 TCTCGTTGCGACAGTCA-TTC
1 TCTCGTTGCGATTTTCATTTA
86154 TCTCGTTGCGATTTTCATTT
1 TCTCGTTGCGATTTTCATTT
86174 CAACCAAAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTA
Found at i:86159 original size:20 final size:20
Alignment explanation
Indices: 86109--86164 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
86099 TCGCGTTGCG
***
86109 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACAGTC
*
86129 ATTTATCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGACAGTC
86150 ATTCTCTCGTTGCGA
1 ATTCTCTCGTTGCGA
86165 TTTTCATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACAGTC
Found at i:88030 original size:93 final size:93
Alignment explanation
Indices: 87871--88246 Score: 727
Period size: 93 Copynumber: 4.1 Consensus size: 93
87861 TAGATTGCTT
*
87871 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
87936 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
87964 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
88029 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
88057 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
88122 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
88150 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATTGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
88215 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
88242 AGTAA
1 AGTAA
88247 TGCAATCCAT
Statistics
Matches: 281, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 275 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:88331 original size:19 final size:19
Alignment explanation
Indices: 88291--88419 Score: 134
Period size: 19 Copynumber: 7.3 Consensus size: 19
88281 TAGTTTACTT
* *
88291 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
88311 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
88330 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
88349 TCGCAA--C-AAA--AGAA
1 TCGCAACGCGAAACCAAAA
88363 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
88382 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAACCAAAA
88396 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
88415 TCGCA
1 TCGCA
88420 TTGCGATTTC
Statistics
Matches: 93, Mismatches: 6, Indels: 21
0.77 0.05 0.17
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.06
17 6 0.06
18 1 0.01
19 46 0.49
20 13 0.14
ACGTcount: A:0.48, C:0.28, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:88365 original size:33 final size:33
Alignment explanation
Indices: 88326--88419 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 33
88316 ACGCGAAACC
**
88326 AAAATCGCAACGCGAAATGAAAATCGCAAC-AA
1 AAAATCGCAACGCGAAACCAAAATCGCAACGAA
*
88358 AAGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 AA-AATCGCAACGCGAAACCAAAATCGCAACGAA
88392 AAAATCGCAACGCGAAACCAAAATCGCA
1 AAAATCGCAACGCGAAACCAAAATCGCA
88420 TTGCGATTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 52 0.91
34 3 0.05
ACGTcount: A:0.50, C:0.27, G:0.16, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGAA
Found at i:88396 original size:14 final size:14
Alignment explanation
Indices: 88377--88403 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88367 AACGCGAAAC
88377 CAAAATCGCAACGA
1 CAAAATCGCAACGA
88391 CAAAATCGCAACG
1 CAAAATCGCAACG
88404 CGAAACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (14 bp):
CAAAATCGCAACGA
Found at i:88417 original size:52 final size:52
Alignment explanation
Indices: 88291--88419 Score: 147
Period size: 52 Copynumber: 2.5 Consensus size: 52
88281 TAGTTTACTT
** *
88291 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACAAAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
* *
88343 T-G-AAAATCGCAACAAAAGAATCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACA-CGAAACAAAA-AATCGCAACGCGAAACCAAAATCGCAACG-CAAAA
* *
88396 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACAAAAAATCGCA
88420 TTGCGATTTC
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
50 3 0.05
51 8 0.13
52 37 0.59
53 7 0.11
54 6 0.10
55 2 0.03
ACGTcount: A:0.48, C:0.28, G:0.16, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACAAAAAATCGCAACGCGAAACCAAAATCGCAACGCAAAA
Found at i:88455 original size:14 final size:14
Alignment explanation
Indices: 88436--88488 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
88426 TTTCATTTCG
88436 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
88450 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
88467 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
88483 CGTTGC
1 CGTTGC
88489 AATTTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
14 12 0.36
16 7 0.21
17 8 0.24
19 6 0.18
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:88467 original size:33 final size:33
Alignment explanation
Indices: 88420--88511 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
88410 CAAAATCGCA
*
88420 TTGCGA-TTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
88452 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
* * *
88485 TTGCAATTTTAATTTCGCGCTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
88512 TTGGTTTCGC
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 6 0.11
33 47 0.89
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:88476 original size:19 final size:19
Alignment explanation
Indices: 88415--88586 Score: 132
Period size: 19 Copynumber: 9.6 Consensus size: 19
88405 GAAACCAAAA
*
88415 TCGCATTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
88433 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
88449 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
88466 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
* *
88482 T--CGTTGCAATTTTAATT
1 TCGCGTTGCGATTTTCATT
* **
88499 TCGCGCTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
88518 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
88537 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATT
*
88556 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
88576 TCGTGTTGCGA
1 TCGCGTTGCGA
88587 AAGTAAACTA
Statistics
Matches: 123, Mismatches: 20, Indels: 20
0.75 0.12 0.12
Matches are distributed among these distances:
14 14 0.11
16 10 0.08
17 11 0.09
18 10 0.08
19 66 0.54
20 12 0.10
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:90515 original size:14 final size:14
Alignment explanation
Indices: 90484--90522 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
90474 GATTGTTTAA
90484 TTGATTTGT-AAAG
1 TTGATTTGTAAAAG
*
90497 ATGATTTGTAAAAG
1 TTGATTTGTAAAAG
90511 TTGATTGTGTAA
1 TTGATT-TGTAA
90523 TTGATGCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 8 0.36
14 9 0.41
15 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:90639 original size:19 final size:19
Alignment explanation
Indices: 90623--90667 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
90613 AAAAATGACT
90623 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
90642 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
90661 ATCGCAA
1 ATCGCAA
90668 CGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Done.