Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 139 of 253
Found at i:44361689 original size:80 final size:80
Alignment explanation
Indices: 44361576--44361795 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
44361566 ACCCAAGTTT
* * * * * * * * *
44361576 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
44361639 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
44361655 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
44361719 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
44361735 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
44361796 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:44369776 original size:40 final size:40
Alignment explanation
Indices: 44369731--44369922 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
44369721 ATAACCACAA
* * *
44369731 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
44369771 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
44369811 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
44369851 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
44369891 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
44369923 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:44369815 original size:80 final size:80
Alignment explanation
Indices: 44369702--44369921 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
44369692 ACCCAAGTTT
* * * * * * * * *
44369702 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
44369765 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
44369781 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
44369845 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
44369861 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
44369922 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:44371850 original size:47 final size:47
Alignment explanation
Indices: 44371676--44371853 Score: 146
Period size: 47 Copynumber: 3.7 Consensus size: 47
44371666 TGAGATGTGA
* *
44371676 CAGTATAAGACCATGTCTGGGACATGGCATCAGCAC-GGAT-ATGCGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTCGATGA--C-AGAGC
* * * **
44371726 TAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATGACAGTAAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGATGACAG-AGC
* * ** *
44371775 CAGTGTAAGACTATATCTGGGATGTGGCATCGACTTGA-GACATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATGACA-GAGC
*
44371822 CAGTGTAAGACCATGTCTAGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
44371854 TCATCATACC
Statistics
Matches: 101, Mismatches: 23, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
47 32 0.32
48 8 0.08
49 28 0.28
50 32 0.32
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATGACAGAGC
Found at i:44378039 original size:48 final size:47
Alignment explanation
Indices: 44377986--44378413 Score: 306
Period size: 48 Copynumber: 9.0 Consensus size: 47
44377976 GGGTGAATTA
* * * * *
44377986 CCGATGCCATGTTCTAAACATGGTCTTACACTGGCCCACATGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-AGG
* * * * * * *
44378034 CCGATGCCATGTCCCAAACATGGTCTTATACTAGCTCTCATCTTAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAGG
* * * * **
44378082 TCGATGCCATATCCCAGACATGGTCTTACATTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCAGG
** * **
44378130 CCGATATCATG-CCCTAGACATGGTCTTACACTAG-TACACATAATGTGG
1 CCGATGCCATGTCCC-AGACATGGTCTTACACTGGCT-CACAT-ATCAGG
* * * *
44378178 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-AGG
* * * ** ** *
44378226 TCGATGCCATGTTCCAGACTTGGTCTTTTACCAGCTTCACA-A-CATCG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCACATATCA-GG
* * * * * *
44378273 CCGATGCCATGTTCCAAACATGGTCTTACAATGGCTCTCATAACATCG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA-GG
* * * *
44378321 TCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA-GG
* *
44378369 CAGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCA
44378414 CCCAAATGGC
Statistics
Matches: 308, Mismatches: 62, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
46 5 0.02
47 36 0.12
48 259 0.84
49 8 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAGG
Found at i:44378341 original size:23 final size:23
Alignment explanation
Indices: 44378266--44378341 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
44378256 CCAGCTTCAC
*
44378266 AACATCGCCGATGCCATGTTCCA
1 AACATCGTCGATGCCATGTTCCA
* * * * *
44378289 AACATGGTC-TTACAATGGCTCTCA
1 AACATCGTCGATGCCAT-GTTC-CA
44378313 TAACATCGTCGATGCCATGTTCCA
1 -AACATCGTCGATGCCATGTTCCA
44378337 AACAT
1 AACAT
44378342 GGTCTTACAC
Statistics
Matches: 38, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
22 4 0.11
23 15 0.39
24 4 0.11
25 11 0.29
26 4 0.11
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (23 bp):
AACATCGTCGATGCCATGTTCCA
Found at i:44385928 original size:48 final size:48
Alignment explanation
Indices: 44385862--44386191 Score: 288
Period size: 48 Copynumber: 6.9 Consensus size: 48
44385852 TGAACTGGCT
* * * *
44385862 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCCAGGCCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAATGCCG
* ** * *
44385910 ATACCATGACCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAATGCCG
* * **
44385958 ATGCTATGTTCCAGACTTGGTCTTACACTAGAGCACATATCAATGCCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAATGCCG
* * * * * * * *
44386006 ATGTCATGTTCTAGACATGGTCTTACACTGGCTCTCACAAC-ATCACCA
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAAT-GCCG
* * * * *
44386054 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAC-ATCACCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAAT-GCCG
* * * ** *
44386102 ATGCCATGTTCCAAACATGGTCTTACACTGGATCTTATATC-GTGGCCG
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAAT-GCCG
* * * *
44386150 ATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
1 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCA
44386192 CCCAAATGGC
Statistics
Matches: 235, Mismatches: 45, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
47 2 0.01
48 233 0.99
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCATGTTCCAGACATGGTCTTACACTAGCTCACATATCAATGCCG
Found at i:44388975 original size:34 final size:31
Alignment explanation
Indices: 44388907--44388979 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
44388897 TATTTGATTT
* *
44388907 AAGAACAAGAATCAAAGAACAACATTTAAGG
1 AAGAAGAAGAATCAAAGAAAAACATTTAAGG
* *
44388938 AAGAAGAAGAATGAAAGAAAAACATTTAAGA
1 AAGAAGAAGAATCAAAGAAAAACATTTAAGG
44388969 AAGAAGAAGAA
1 AAGAAGAAGAA
44388980 CCTCTTGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.63, C:0.07, G:0.19, T:0.11
Consensus pattern (31 bp):
AAGAAGAAGAATCAAAGAAAAACATTTAAGG
Found at i:44392023 original size:206 final size:206
Alignment explanation
Indices: 44391758--44392163 Score: 695
Period size: 206 Copynumber: 2.0 Consensus size: 206
44391748 CCCTCCTGAT
*
44391758 GCAATACATCTCACCTTACTTGAAACATAAATATAACATTTTTGTAAGTTCAAGAGAACTTAATG
1 GCAATACATCCCACCTTACTTGAAACATAAATATAACATTTTTGTAAGTTCAAGAGAACTTAATG
*
44391823 AGCTTTAATCAAAAATATACCTTGGCGGATATTAATTATGACTAATGAACATTTGTGCACCAATT
66 AGCTTTAATCAAAAATATACCTTGGCGAATATTAATTATGACTAATGAACATTTGTGCACCAATT
* * * * *
44391888 ATTCTTTTTAGACCACTTTCTTCTACCTCGGGTGGATACCACTACAGTTTTGGTATACAGTTACA
131 ATCCTTTTTAGACCACTTTCTTCTACCTCGGGCGGATACCACTACAATTTTGGTACACACTTACA
44391953 TGCCACCTAGC
196 TGCCACCTAGC
* *
44391964 GCAATACATCCCACTTTACTTGAAACATAAATATAACATTTTTGTAAGTTCAGGAGAACTTAATG
1 GCAATACATCCCACCTTACTTGAAACATAAATATAACATTTTTGTAAGTTCAAGAGAACTTAATG
* * * *
44392029 AGCTTTAATCCAAAATATACCTTGGCGAATATTGATTATGATTAATGAACATTTGTGCGCCAATT
66 AGCTTTAATCAAAAATATACCTTGGCGAATATTAATTATGACTAATGAACATTTGTGCACCAATT
44392094 ATCCTTTTTAGACCACTTTCTTCTACCTCGGGCGGATACCACTACAATTTTGGTACACACTTACA
131 ATCCTTTTTAGACCACTTTCTTCTACCTCGGGCGGATACCACTACAATTTTGGTACACACTTACA
44392159 TGCCA
196 TGCCA
44392164 ACTATCATAC
Statistics
Matches: 187, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
206 187 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (206 bp):
GCAATACATCCCACCTTACTTGAAACATAAATATAACATTTTTGTAAGTTCAAGAGAACTTAATG
AGCTTTAATCAAAAATATACCTTGGCGAATATTAATTATGACTAATGAACATTTGTGCACCAATT
ATCCTTTTTAGACCACTTTCTTCTACCTCGGGCGGATACCACTACAATTTTGGTACACACTTACA
TGCCACCTAGC
Found at i:44392938 original size:25 final size:25
Alignment explanation
Indices: 44392910--44392962 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
44392900 TAAGGGCCAA
*
44392910 ACAGAATATGCCACAAAGGCATCAT
1 ACAGAATACGCCACAAAGGCATCAT
* *
44392935 ACAGAATACGCCACTAAGGCGTCAT
1 ACAGAATACGCCACAAAGGCATCAT
44392960 ACA
1 ACA
44392963 AAATCTCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.26, G:0.17, T:0.15
Consensus pattern (25 bp):
ACAGAATACGCCACAAAGGCATCAT
Found at i:44393604 original size:15 final size:15
Alignment explanation
Indices: 44393584--44393615 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44393574 CATTTCACTA
*
44393584 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
44393599 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
44393614 TT
1 TT
44393616 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:44396040 original size:13 final size:13
Alignment explanation
Indices: 44396022--44396056 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
44396012 GGGACACACA
44396022 GCCGTGTGGTCAG
1 GCCGTGTGGTCAG
44396035 GCCGTGTGGTCAG
1 GCCGTGTGGTCAG
44396048 GCCGTGTGG
1 GCCGTGTGG
44396057 GCATTCGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.06, C:0.23, G:0.49, T:0.23
Consensus pattern (13 bp):
GCCGTGTGGTCAG
Found at i:44396995 original size:19 final size:19
Alignment explanation
Indices: 44396959--44396995 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44396949 TAATTAGGCT
* *
44396959 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
44396978 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
44396996 GAAAAATGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:44397506 original size:31 final size:32
Alignment explanation
Indices: 44397466--44397529 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
44397456 ATTTAGTAAA
*
44397466 AGATATTTAT-TAATTAAATA-ATTATATTATG
1 AGATATTTATGTAA-TAAATATATTAAATTATG
*
44397497 AGATTTTTATGTAATAAATATATTAAATTATG
1 AGATATTTATGTAATAAATATATTAAATTATG
44397529 A
1 A
44397530 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATGTAATAAATATATTAAATTATG
Found at i:44397588 original size:154 final size:153
Alignment explanation
Indices: 44397308--44397588 Score: 340
Period size: 154 Copynumber: 1.8 Consensus size: 153
44397298 AATTTTAGAA
* *
44397308 TAAAAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTGTTTAATAAATAAATTAAATAA
1 TAAAAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATAA
* * * * * *
44397373 TGAAAGTTGTAATAAATTTATTGGTACGAATGTGAAAATATAAGTGTGTACAATGTGAAAATTTA
66 TGAAAGATGTAATAAATTTAGTGGTAC-AATGTGAAAATAAAAATGTATACAATATGAAAATTTA
44397438 TTAAATAAGATATTTATTATTTAG
130 TTAAATAAGATATTTATTATTTAG
* * * *
44397462 TAAAAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATATATTAAATTA
1 TAAAAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATAA
44397527 TGACAA-ATGTATGATAAAATTT-GT-G-AC-ATGTGTAATAATAAAAATGTATACAAATAT-AA
66 TGA-AAGATGTA--AT-AAATTTAGTGGTACAATGTG-AA-AATAAAAATGTATAC-AATATGAA
44397586 AAT
124 AAT
44397589 AAATATTAAT
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
152 5 0.05
153 2 0.02
154 85 0.79
155 7 0.06
156 3 0.03
157 6 0.06
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (153 bp):
TAAAAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATAA
TGAAAGATGTAATAAATTTAGTGGTACAATGTGAAAATAAAAATGTATACAATATGAAAATTTAT
TAAATAAGATATTTATTATTTAG
Found at i:44398445 original size:15 final size:15
Alignment explanation
Indices: 44398421--44398476 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
44398411 GATGAATTTC
*
44398421 TTGAATTTATATTGA
1 TTGAAATTATATTGA
* *
44398436 TTGAAATTATTTTAA
1 TTGAAATTATATTGA
44398451 TTGAAATTATATTGA
1 TTGAAATTATATTGA
44398466 TTG-AATTATAT
1 TTGAAATTATAT
44398477 AATATATATG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 8 0.22
15 28 0.78
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.52
Consensus pattern (15 bp):
TTGAAATTATATTGA
Found at i:44398626 original size:10 final size:10
Alignment explanation
Indices: 44398611--44398638 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
44398601 TGAAAAGTGA
44398611 ATTGAATTGT
1 ATTGAATTGT
44398621 ATTGAATTGT
1 ATTGAATTGT
44398631 ATTGAATT
1 ATTGAATT
44398639 ATGAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (10 bp):
ATTGAATTGT
Found at i:44398905 original size:41 final size:37
Alignment explanation
Indices: 44398859--44398968 Score: 94
Period size: 37 Copynumber: 2.8 Consensus size: 37
44398849 TCGACCTCGA
44398859 GTCGATGAGACACTGGGTGTCATTATATTTCTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA--A-ATTTCTTCGGATAG
* ** ** * * *
44398899 ATTCGATGAGGTACTGGGTACCAACTTTGTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCAAATTTCTTCGGATAG
*
44398937 GTCGATGAGACACTGGGTGTCAACTTTGCTTC
1 GTCGATGAGACACTGGGTGTCAAATTT-CTTC
44398969 AAACTATCTG
Statistics
Matches: 54, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
37 22 0.41
38 14 0.26
39 1 0.02
41 17 0.31
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (37 bp):
GTCGATGAGACACTGGGTGTCAAATTTCTTCGGATAG
Found at i:44399141 original size:19 final size:20
Alignment explanation
Indices: 44399117--44399158 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
44399107 ATGAAACGAG
44399117 AAATTGA-AT-TGAGAATTGA
1 AAATTGAGATATGAG-ATTGA
44399136 AAATTGAGATATGAGATTGA
1 AAATTGAGATATGAGATTGA
44399156 AAA
1 AAA
44399159 CATGAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (20 bp):
AAATTGAGATATGAGATTGA
Found at i:44400491 original size:25 final size:25
Alignment explanation
Indices: 44400415--44400493 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
44400405 ACGAGCTATA
* * *
44400415 AACGGAAAGCTCCTCCAAGCTGAAT
1 AACGGGAAGCTCATGCAAGCTGAAT
*
44400440 AACGGGAAGCTCATGCAAGCTAAAT
1 AACGGGAAGCTCATGCAAGCTGAAT
* * *
44400465 AATGGGAAGCTCATGCTAGCTGTAT
1 AACGGGAAGCTCATGCAAGCTGAAT
44400490 AACG
1 AACG
44400494 AAAAGCTGAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (25 bp):
AACGGGAAGCTCATGCAAGCTGAAT
Found at i:44402920 original size:18 final size:18
Alignment explanation
Indices: 44402897--44402933 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
44402887 TGATGTTAAA
44402897 AAGTATTAAAGACGATTT
1 AAGTATTAAAGACGATTT
44402915 AAGTATTAAAGACGATTT
1 AAGTATTAAAGACGATTT
44402933 A
1 A
44402934 GGTTTTGAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (18 bp):
AAGTATTAAAGACGATTT
Found at i:44406055 original size:39 final size:40
Alignment explanation
Indices: 44405997--44406091 Score: 149
Period size: 39 Copynumber: 2.4 Consensus size: 40
44405987 TCCTTGTTCA
44405997 GACATGTTTTTGATGATTGAACCATTATTATGGTCG-TTT
1 GACATGTTTTTGATGATTGAACCATTATTATGGTCGTTTT
* *
44406036 GACATGTTTTTTATTATTGAACCATTATTATGGTCGTTTT
1 GACATGTTTTTGATGATTGAACCATTATTATGGTCGTTTT
44406076 GACAAT-TTTTTGATGA
1 GAC-ATGTTTTTGATGA
44406092 GGAAAAAGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 34 0.68
40 14 0.28
41 2 0.04
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.48
Consensus pattern (40 bp):
GACATGTTTTTGATGATTGAACCATTATTATGGTCGTTTT
Found at i:44406276 original size:20 final size:20
Alignment explanation
Indices: 44406248--44406297 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
44406238 GTGTAAATTG
44406248 GTATCGATACCATATCACGA
1 GTATCGATACCATATCACGA
* *
44406268 GTATTGATACCATATCATGA
1 GTATCGATACCATATCACGA
44406288 GTATCGATAC
1 GTATCGATAC
44406298 TCGGGATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACCATATCACGA
Found at i:44409219 original size:51 final size:51
Alignment explanation
Indices: 44409139--44409242 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
44409129 GTGCCTAAAC
*
44409139 ATATCATGCATGCCACTTATCCATCTCAACCAGTTGATACCCAAATTACCA
1 ATATCATGCATGCAACTTATCCATCTCAACCAGTTGATACCCAAATTACCA
*
44409190 ATATCATGCATGCAACTTATCCATTTCAACCAGTTGATACCCAAATTACCA
1 ATATCATGCATGCAACTTATCCATCTCAACCAGTTGATACCCAAATTACCA
44409241 AT
1 AT
44409243 TCACAAACAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.29
Consensus pattern (51 bp):
ATATCATGCATGCAACTTATCCATCTCAACCAGTTGATACCCAAATTACCA
Found at i:44421317 original size:20 final size:19
Alignment explanation
Indices: 44421288--44421326 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
44421278 TGAAACGCGC
*
44421288 TAATTTTTTTGAATTTTTA
1 TAATTTTTTTAAATTTTTA
44421307 TAATATTTTTTAAATTTTTA
1 TAAT-TTTTTTAAATTTTTA
44421327 CCTACTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TAATTTTTTTAAATTTTTA
Found at i:44421337 original size:22 final size:20
Alignment explanation
Indices: 44421291--44421342 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
44421281 AACGCGCTAA
*
44421291 TTTTTTTGAATTTTTATAAT
1 TTTTTTTAAATTTTTATAAT
* *
44421311 ATTTTTTAAATTTTTACCTACT
1 TTTTTTTAAATTTTTA--TAAT
44421333 TTTTTTTAAA
1 TTTTTTTAAA
44421343 AATTTTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 14 0.54
22 12 0.46
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTTTAAATTTTTATAAT
Found at i:44425003 original size:19 final size:19
Alignment explanation
Indices: 44424979--44425016 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44424969 TTGTGGGAGT
44424979 AAGGATTTTGAATGACAAA
1 AAGGATTTTGAATGACAAA
44424998 AAGGATTTTGAATGACAAA
1 AAGGATTTTGAATGACAAA
44425017 CTCTTTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.26
Consensus pattern (19 bp):
AAGGATTTTGAATGACAAA
Found at i:44427081 original size:16 final size:17
Alignment explanation
Indices: 44427060--44427093 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
44427050 ATCTGTTTGA
44427060 AATACAAG-AAAATGAT
1 AATACAAGAAAAATGAT
*
44427076 AATACATGAAAAATGAT
1 AATACAAGAAAAATGAT
44427093 A
1 A
44427094 TATGAAAACA
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:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (17 bp):
AATACAAGAAAAATGAT
Found at i:44448380 original size:80 final size:81
Alignment explanation
Indices: 44448296--44448579 Score: 301
Period size: 80 Copynumber: 3.5 Consensus size: 81
44448286 ACACTATAAG
* * * *
44448296 GGTATTTCGA-TAATTTTACAAATTACGAGTGTTTCGGTAATTTTACAAATCGAGGTATTTTGGT
1 GGTATTTCGAGTAATTTTACAAATTAGGGGTATTTCGATAATTTTACAAATCGAGGTATTTTGGT
44448360 AATTTTACAAATTGAA
66 AATTTTACAAATTGAA
* **
44448376 GGTATTTC-AGTAATTTTACAAATTGGGGGTACATCGATAATTTTACAAA-CTGAGGGTATTTTG
1 GGTATTTCGAGTAATTTTACAAATTAGGGGTATTTCGATAATTTTACAAATC-GA-GGTATTTTG
* *
44448439 GTAATTTTAAAAATTGAT
64 GTAATTTTACAAATTGAA
* ** * * *
44448457 GGTATTTTG-GTAATTTTACAAATCGGGGGTATTTCGATAATTTTACAAACTGGGGGT-TTTCGG
1 GGTATTTCGAGTAATTTTACAAATTAGGGGTATTTCGATAATTTTACAAA-TCGAGGTATTTTGG
* **
44448520 TAATTTTACAAACTGGG
65 TAATTTTACAAATTGAA
* * * *
44448537 GGTATTT-TAGTAATTTTACAAACTATGGGTATTTCGGTAATTT
1 GGTATTTCGAGTAATTTTACAAATTAGGGGTATTTCGATAATTT
44448580 CTCTTTGTTA
Statistics
Matches: 171, Mismatches: 26, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
79 2 0.01
80 96 0.56
81 72 0.42
82 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
GGTATTTCGAGTAATTTTACAAATTAGGGGTATTTCGATAATTTTACAAATCGAGGTATTTTGGT
AATTTTACAAATTGAA
Found at i:44448463 original size:81 final size:81
Alignment explanation
Indices: 44448333--44448558 Score: 314
Period size: 81 Copynumber: 2.8 Consensus size: 81
44448323 AGTGTTTCGG
*
44448333 TAATTTTACAAA-TCGA-GGTATTTTGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTTACA
1 TAATTTTACAAACT-GAGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTTAGTAATTTTACA
*
44448396 AATTGGGGGTACATCGA
65 AATCGGGGGTACATCGA
* * *
44448413 TAATTTTACAAACTGAGGGTATTTTGGTAATTTTAAAAATTGATGGTATTTTGGTAATTTTACAA
1 TAATTTTACAAACTGAGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTTAGTAATTTTACAA
**
44448478 ATCGGGGGTATTTCGA
66 ATCGGGGGTACATCGA
* * * **
44448494 TAATTTTACAAACTGGGGGT-TTTCGGTAATTTTACAAACTGGGGGTATTTTAGTAATTTTACAA
1 TAATTTTACAAACTGAGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTTAGTAATTTTACAA
44448558 A
66 A
44448559 CTATGGGTAT
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 53 0.41
81 77 0.59
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (81 bp):
TAATTTTACAAACTGAGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTTAGTAATTTTACAA
ATCGGGGGTACATCGA
Found at i:44448538 original size:27 final size:26
Alignment explanation
Indices: 44448295--44448579 Score: 257
Period size: 27 Copynumber: 10.7 Consensus size: 26
44448285 TACACTATAA
* **
44448295 GGGTATTTCGATAATTTTACAAATTAC
1 GGGTATTTCGGTAATTTTACAAA-TGG
* * *
44448322 GAGTGTTTCGGTAATTTTACAAATCG
1 GGGTATTTCGGTAATTTTACAAATGG
* * *
44448348 AGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAA-TGG
* *
44448375 AGGTATTTCAGTAATTTTACAAATTGG
1 GGGTATTTCGGTAATTTTACAAA-TGG
** * *
44448402 GGGTACATCGATAATTTTACAAACTGA
1 GGGTATTTCGGTAATTTTACAAA-TGG
* * *
44448429 GGGTATTTTGGTAATTTTAAAAATTGA
1 GGGTATTTCGGTAATTTTACAAA-TGG
* *
44448456 TGGTATTTTGGTAATTTTACAAATCGG
1 GGGTATTTCGGTAATTTTACAAAT-GG
*
44448483 GGGTATTTCGATAATTTTACAAACTGG
1 GGGTATTTCGGTAATTTTACAAA-TGG
44448510 GGGT-TTTCGGTAATTTTACAAACTGG
1 GGGTATTTCGGTAATTTTACAAA-TGG
** **
44448536 GGGTATTTTAGTAATTTTACAAACTAT
1 GGGTATTTCGGTAATTTTACAAA-TGG
44448563 GGGTATTTCGGTAATTT
1 GGGTATTTCGGTAATTT
44448580 CTCTTTGTTA
Statistics
Matches: 214, Mismatches: 40, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
26 46 0.21
27 167 0.78
28 1 0.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTTACAAATGG
Found at i:44449188 original size:21 final size:21
Alignment explanation
Indices: 44449162--44449202 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
44449152 ATCTGGTTCG
44449162 CTCTATTTAAAGTCAGCTTCA
1 CTCTATTTAAAGTCAGCTTCA
44449183 CTCTATTTAAAGTCAGCTTC
1 CTCTATTTAAAGTCAGCTTC
44449203 TCACCAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (21 bp):
CTCTATTTAAAGTCAGCTTCA
Found at i:44452027 original size:39 final size:40
Alignment explanation
Indices: 44451982--44452204 Score: 240
Period size: 40 Copynumber: 5.7 Consensus size: 40
44451972 GCTCCTCGTT
* * * *
44451982 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
44452022 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44452061 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
44452101 CAAAGGCCTTCGGG-CTTAACCCGGAATT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
44452139 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
44452180 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44452205 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
37 2 0.01
38 20 0.13
39 57 0.36
40 67 0.43
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44452085 original size:79 final size:78
Alignment explanation
Indices: 44451982--44452204 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 78
44451972 GCTCCTCGTT
* * *
44451982 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
*
44452047 TTTAATAACTCGCA
66 ATT-ATAACTCGCA
* * * *
44452061 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG
* *
44452125 AATTGTATCTCGCA
65 AATTATAACTCGCA
* * * * * *
44452139 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCG
44452203 GA
64 GA
44452205 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 42 0.35
79 66 0.55
80 9 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
ATTATAACTCGCA
Found at i:44452213 original size:41 final size:41
Alignment explanation
Indices: 44452136--44452213 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44452126 ATTGTATCTC
* * *
44452136 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44452177 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44452214 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44459934 original size:39 final size:40
Alignment explanation
Indices: 44459889--44460111 Score: 240
Period size: 40 Copynumber: 5.7 Consensus size: 40
44459879 GCTCCTCGTT
* * * *
44459889 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
44459929 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44459968 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
44460008 CAAAGGCCTTCGGG-CTTAACCCGGAATT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
44460046 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
44460087 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44460112 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
37 2 0.01
38 20 0.13
39 57 0.36
40 67 0.43
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44459992 original size:79 final size:78
Alignment explanation
Indices: 44459889--44460111 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 78
44459879 GCTCCTCGTT
* * *
44459889 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
*
44459954 TTTAATAACTCGCA
66 ATT-ATAACTCGCA
* * * *
44459968 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGG
* *
44460032 AATTGTATCTCGCA
65 AATTATAACTCGCA
* * * * * *
44460046 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCG
44460110 GA
64 GA
44460112 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 42 0.35
79 66 0.55
80 9 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA
ATTATAACTCGCA
Found at i:44460120 original size:41 final size:41
Alignment explanation
Indices: 44460043--44460120 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44460033 ATTGTATCTC
* * *
44460043 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44460084 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44460121 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44462514 original size:30 final size:30
Alignment explanation
Indices: 44462478--44462534 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
44462468 TAATACGAAA
*
44462478 TTTTGCAAAATTACATTTTTGCCCCTAAAC
1 TTTTGCAAAATTACACTTTTGCCCCTAAAC
*
44462508 TTTTGCATAATTACACTTTTGCCCCTA
1 TTTTGCAAAATTACACTTTTGCCCCTA
44462535 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGCAAAATTACACTTTTGCCCCTAAAC
Found at i:44463122 original size:41 final size:41
Alignment explanation
Indices: 44463065--44463143 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
44463055 ATAGACTTAG
*
44463065 AAATTGGTCAAATTGATATTTAAGACCTCCTCATTAATTAT
1 AAATTGGTCAAATTGATAGTTAAGACCTCCTCATTAATTAT
44463106 AAATTGGTCAAATTGATAGTTAAGACCTCCTCATTAAT
1 AAATTGGTCAAATTGATAGTTAAGACCTCCTCATTAAT
44463144 ATTCCAAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (41 bp):
AAATTGGTCAAATTGATAGTTAAGACCTCCTCATTAATTAT
Found at i:44469660 original size:30 final size:30
Alignment explanation
Indices: 44469624--44469680 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
44469614 TAATACGAAA
*
44469624 TTTTGCAAAATTACATTTTTGCCCCTAAAC
1 TTTTGCAAAATTACACTTTTGCCCCTAAAC
*
44469654 TTTTGCATAATTACACTTTTGCCCCTA
1 TTTTGCAAAATTACACTTTTGCCCCTA
44469681 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGCAAAATTACACTTTTGCCCCTAAAC
Found at i:44500121 original size:46 final size:45
Alignment explanation
Indices: 44500071--44500199 Score: 125
Period size: 46 Copynumber: 2.8 Consensus size: 45
44500061 TCATCTTGTA
*
44500071 GCCGATGCATGTCCCAGTCATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATCCATGTCCCAGTCATGTCTTACACTGGCTT-CGTCTCGAG
* * * * * * *
44500117 GCCGATTCATGTCCCAGACATGCCTCACACTAGCCCTCGTCTCGAT
1 GCCGATCCATGTCCCAGTCATGTCTTACACT-GGCTTCGTCTCGAG
*
44500163 GCTGATTCCATGTCCCA-TACATGGTCTTACACTGGCT
1 GCCGA-TCCATGTCCCAGT-CAT-GTCTTACACTGGCT
44500200 CTCATTATAT
Statistics
Matches: 65, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
46 39 0.60
47 18 0.28
48 8 0.12
ACGTcount: A:0.19, C:0.33, G:0.20, T:0.28
Consensus pattern (45 bp):
GCCGATCCATGTCCCAGTCATGTCTTACACTGGCTTCGTCTCGAG
Found at i:44514198 original size:47 final size:46
Alignment explanation
Indices: 44513993--44514262 Score: 145
Period size: 47 Copynumber: 5.8 Consensus size: 46
44513983 GTAAGGGGCT
* * * * * *
44513993 GATGCCATATCCCAGACAAGGTCTTACACTAGCACTTGTCTCG-TGTC
1 GATG-CATGTCCCAGAC-ATGTCTTACACTAGCCCTCGTCTTGATGCC
* ** * *
44514040 GATGCCATGTCTCAGACATGGTCTTACA-TAGACTATCATCTCG-TAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CCCTCGTCTTGAT-GCC
* * * * * * *
44514088 GTTGCATGTCCTAGACATGTCTTACACT-GGCTTACGTTTTGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCT-CGTCTTGATGCC
* * *
44514134 AATGCATGTCCCGGGCATGTCTTACACTAGCCCTCGTCTTGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTTGATGCC
* * * * ** *
44514180 GATGCCATGTCCCAGGCATGGTCTTACACTGGCTCTCATAAT-ATAGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCGTCTTGAT-GCC
* *
44514228 GATGCATGTCCCAGGCATGTATTACACTAGCCCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCTC
44514263 AATAACCCAT
Statistics
Matches: 173, Mismatches: 40, Indels: 21
0.74 0.17 0.09
Matches are distributed among these distances:
45 1 0.01
46 68 0.39
47 76 0.44
48 28 0.16
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTTGATGCC
Found at i:44514212 original size:94 final size:92
Alignment explanation
Indices: 44514092--44514262 Score: 220
Period size: 94 Copynumber: 1.8 Consensus size: 92
44514082 GTAGCCGTTG
* * * * *
44514092 CATGTCCTAGACATGTCTTACACTGGCT-TACGT-TTTGAGGCTAATGCATGTCCCGGGCATGTC
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATATAT-A-GCTAATGCATGTCCCAGGCATGTA
44514155 TTACACTAGCCCTCGTCTTGATGCCGATGC
63 TTACACTAGCCCTCGTCTTGATGCCGATGC
* *
44514185 CATGTCCCAGGCATGGTCTTACACTGGCTCTCATAATATAGCTGATGCATGTCCCAGGCATGTAT
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-ATATAGCTAATGCATGTCCCAGGCATGTAT
44514250 TACACTAGCCCTC
64 TACACTAGCCCTC
44514263 AATAACCCAT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
93 12 0.18
94 51 0.76
95 2 0.03
96 2 0.03
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATATATAGCTAATGCATGTCCCAGGCATGTATTA
CACTAGCCCTCGTCTTGATGCCGATGC
Found at i:44516754 original size:8 final size:8
Alignment explanation
Indices: 44516741--44516771 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
44516731 ATTACAAACC
44516741 CAAAATAT
1 CAAAATAT
44516749 CAAAATAT
1 CAAAATAT
44516757 CAAAATAT
1 CAAAATAT
44516765 CAAAATA
1 CAAAATA
44516772 AAATTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.65, C:0.13, G:0.00, T:0.23
Consensus pattern (8 bp):
CAAAATAT
Found at i:44522259 original size:31 final size:31
Alignment explanation
Indices: 44522216--44522280 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
44522206 GTAAAATTAT
44522216 TTTATGCAAAATATTATTACTTTAAGGTTAC
1 TTTATGCAAAATATTATTACTTTAAGGTTAC
* *
44522247 TTTATGCCAAATATTATTACTTTAAGGTTTC
1 TTTATGCAAAATATTATTACTTTAAGGTTAC
44522278 TTT
1 TTT
44522281 TAAACTAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (31 bp):
TTTATGCAAAATATTATTACTTTAAGGTTAC
Found at i:44526754 original size:43 final size:43
Alignment explanation
Indices: 44526676--44526788 Score: 99
Period size: 43 Copynumber: 2.7 Consensus size: 43
44526666 AGCATATACA
* * * *
44526676 ATGCCAAC-GTCCCAGAC-GTGGTCTTATATGTAATCAAACATTG
1 ATGCCAACTGTCCCAGACAG-GGTCTTACAAGAAATCAAACA-CG
* *
44526719 ATGCC-ACTGTCCCAGACAGGGTCTTACAAGAAATCAGATACG
1 ATGCCAACTGTCCCAGACAGGGTCTTACAAGAAATCAAACACG
* * *
44526761 ATGCCGA-TGTCCCAAACATGGTCTTACA
1 ATGCCAACTGTCCCAGACAGGGTCTTACA
44526789 CATAAAATAG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 27 0.46
43 31 0.53
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACAAGAAATCAAACACG
Found at i:44527435 original size:52 final size:53
Alignment explanation
Indices: 44527342--44527468 Score: 211
Period size: 52 Copynumber: 2.4 Consensus size: 53
44527332 AAATTATGAT
*
44527342 GAAAAAAAAAGAAAGAAAGAAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
1 GAAAGAAAAAGAAAG-AA-AAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
44527397 GAAAGAAAAAGAAAGAAAAAA-AAGCTCTCATGTTGTTCTTGGCCGAATAGAA
1 GAAAGAAAAAGAAAGAAAAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
*
44527449 GAAAGAAAAAGAAGGAAAAA
1 GAAAGAAAAAGAAAGAAAAA
44527469 GAGCTTTGAG
Statistics
Matches: 70, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
52 50 0.71
53 4 0.06
54 2 0.03
55 14 0.20
ACGTcount: A:0.53, C:0.09, G:0.22, T:0.16
Consensus pattern (53 bp):
GAAAGAAAAAGAAAGAAAAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAA
Found at i:44528710 original size:40 final size:40
Alignment explanation
Indices: 44528608--44528771 Score: 230
Period size: 40 Copynumber: 4.2 Consensus size: 40
44528598 TTGATAACCA
* *
44528608 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
44528648 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
44528687 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-CG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-ATCCG
* *
44528727 GGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
44528766 GGCTAA
1 GGCTAA
44528772 ACTCTGAAGG
Statistics
Matches: 115, Mismatches: 4, Indels: 11
0.88 0.03 0.08
Matches are distributed among these distances:
39 45 0.39
40 68 0.59
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:44528770 original size:79 final size:79
Alignment explanation
Indices: 44528608--44528771 Score: 235
Period size: 79 Copynumber: 2.1 Consensus size: 79
44528598 TTGATAACCA
* * *
44528608 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGCCCGAAGGCATTTGAGCG
44528673 AGTTACTATATCCG
66 AGTTACTATATCCG
*
44528687 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTAAGTCCCGAAGGCATTTGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-AATCCGGGCTAAG-CCCGAAGGCATTTGAG
*
44528751 CTAG-TAGCTATATCC-
64 CGAGTTA-CTATATCCG
44528766 GGCTAA
1 GGCTAA
44528772 ACTCTGAAGG
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
79 49 0.64
80 28 0.36
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGCCCGAAGGCATTTGAGCG
AGTTACTATATCCG
Found at i:44529047 original size:22 final size:21
Alignment explanation
Indices: 44529006--44529049 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
44528996 GAATGTGCAT
44529006 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
44529028 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
44529050 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:44536857 original size:40 final size:40
Alignment explanation
Indices: 44536773--44536997 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
44536763 TTGAATGATG
* * * *
44536773 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
44536813 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44536853 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44536892 TCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
44536932 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44536973 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44536998 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 118 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44537015 original size:80 final size:80
Alignment explanation
Indices: 44536773--44537030 Score: 208
Period size: 79 Copynumber: 3.2 Consensus size: 80
44536763 TTGAATGATG
* * * * * * * *
44536773 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAA-TTACTAAATCCGGGCTAA-TTCCCGAAGGCAT
** *
44536836 TTGTGCGAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* * *
44536853 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAATTACTAAATCCGGGCTAATTCCCGAAGGCATTT
** *
44536917 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
44536932 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAA-CCGGGCT-ATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAATTACTA-AATCCGGGCTAAT-TCCCGAAGGCAT
*
44536995 TTGAACGAG-GAGCTATA
64 TTGAACGAGTGA-CTAAA
* *
44537012 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
44537031 TACGTGATTT
Statistics
Matches: 150, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.01
79 73 0.49
80 73 0.49
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAATTACTAAATCCGGGCTAATTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:44538662 original size:50 final size:48
Alignment explanation
Indices: 44538582--44538697 Score: 162
Period size: 50 Copynumber: 2.3 Consensus size: 48
44538572 ATGATGAAAA
*
44538582 AAAAAAGAAGAAAAGAAGCTCTCATGTTGTTCTT-GCCGAATAGAAGAAAG
1 AAAAAAGAA-AGAA-AAGCTCTCATGTTGTTCTTGGCCGAATAGAAG-AAG
44538632 AAATGAAAGAAAGAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAG
1 AAA--AAAGAAAGAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAG
*
44538682 AAAAAAGAAGGAAAAG
1 AAAAAAGAAAGAAAAG
44538698 AGCTTTGAGG
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
48 12 0.20
50 28 0.46
51 15 0.25
52 6 0.10
ACGTcount: A:0.48, C:0.10, G:0.23, T:0.18
Consensus pattern (48 bp):
AAAAAAGAAAGAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAG
Found at i:44540054 original size:40 final size:40
Alignment explanation
Indices: 44539817--44540040 Score: 353
Period size: 40 Copynumber: 5.6 Consensus size: 40
44539807 GGATTGATAA
* *
44539817 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
44539857 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44539896 CCGGGCTAAGTCCTGCAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44539936 CCGGGCTAAGTCCTGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44539976 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44540016 CCAGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44540041 AGCTAGTAGC
Statistics
Matches: 172, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 35 0.20
40 137 0.80
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44540334 original size:22 final size:21
Alignment explanation
Indices: 44540292--44540336 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
44540282 TATGAAAGTG
44540292 CATATGAAGTTATCCATTTAGC
1 CATATGAAGTTATCCA-TTAGC
44540314 CATATGAATGTTATACC-TTAGC
1 CATATGAA-GTTAT-CCATTAGC
44540336 C
1 C
44540337 GAAACTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 14 0.67
23 5 0.24
24 2 0.10
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (21 bp):
CATATGAAGTTATCCATTAGC
Found at i:44546598 original size:104 final size:103
Alignment explanation
Indices: 44546418--44546640 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
44546408 TGTATATAAA
** * *
44546418 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
44546483 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
44546522 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
44546586 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
44546625 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
44546641 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 21 0.19
104 90 0.80
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:44546692 original size:70 final size:72
Alignment explanation
Indices: 44546560--44546710 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
44546550 TCATTGGTGG
* *
44546560 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
44546624 GAGGGGT
66 GAGGGGT
***
44546631 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
44546695 GAGGGGT
66 GAGGGGT
44546702 TGCTAAGTG
1 TGCTAAGTG
44546711 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:44549463 original size:53 final size:54
Alignment explanation
Indices: 44549382--44549504 Score: 212
Period size: 53 Copynumber: 2.3 Consensus size: 54
44549372 ATGATGATGA
*
44549382 AAAAAAAAAGAAAGAAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAG
1 AAAAAGAAAGAAA-AAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAG
44549437 AAAAAGAAAGAAAAAAA-AAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAG
1 AAAAAGAAAGAAAAAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAG
*
44549490 AAAAAGAAGGAAAAA
1 AAAAAGAAAGAAAAA
44549505 GAGCTTTGAG
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
53 50 0.76
54 4 0.06
55 12 0.18
ACGTcount: A:0.53, C:0.10, G:0.21, T:0.16
Consensus pattern (54 bp):
AAAAAGAAAGAAAAAAAGAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAG
Found at i:44550744 original size:40 final size:40
Alignment explanation
Indices: 44550639--44550845 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
44550629 GGATTGATAA
* * *
44550639 CCGGGCTAAGTCCCGAAGGAATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
44550679 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44550718 CTGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44550758 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
44550798 CCAGGCTAAGTCCCGAAGGCGTTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
44550838 CC-GGCTAA
1 CCGGGCTAA
44550846 ACTCTGAAGG
Statistics
Matches: 151, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 41 0.27
40 110 0.73
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44551121 original size:22 final size:21
Alignment explanation
Indices: 44551080--44551123 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
44551070 GAATGTGCAT
44551080 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
44551102 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
44551124 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:44564730 original size:43 final size:43
Alignment explanation
Indices: 44564573--44564731 Score: 132
Period size: 42 Copynumber: 3.7 Consensus size: 43
44564563 TATGTGATTT
* *
44564573 CGTGTAAGACCACGTCT-GAAGTGTTGGCATCG-ATTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACTGTTGGCATCGTATTTG-G--TTA
* * * * * *
44564617 CGTGTAAGACCATGTGTGGGAC-ATTGGCATCGTATATGATTT
1 CGTGTAAGACCACGTCTGGGACTGTTGGCATCGTATTTGGTTA
* *
44564659 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGGTAA
1 CGTGTAAGACCAC-GTCTGGGACTGTTGGCATCG-TATTTGGTTA
*
44564702 CATGTAAGACCACGTCTGGGA-TGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACTGTTGGCAT
44564732 TGTACGAGTT
Statistics
Matches: 91, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
42 30 0.33
43 30 0.33
44 25 0.27
45 6 0.07
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACTGTTGGCATCGTATTTGGTTA
Found at i:44576570 original size:55 final size:54
Alignment explanation
Indices: 44576451--44576570 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 54
44576441 TATATGGGCC
* * *
44576451 CATGCCCGTGTTAATTTAACAGGTTCGACCACAGGTTCTAGACAAGGGCGTGTCG
1 CATGCCCGTGTTAATTTAACAGGTTCAACCACAAGTTCAAGACAA-GGCGTGTCG
* * *
44576506 CACGTCCGTGTTAATTTGACAGGTTCAACCACAAGTTCAAGGCACAA-GCGTGTCG
1 CATGCCCGTGTTAATTTAACAGGTTCAACCACAAGTTCAA-G-ACAAGGCGTGTCG
44576561 CATGCCCGTG
1 CATGCCCGTG
44576571 CTGTTTTGGC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
55 50 0.91
56 1 0.02
57 4 0.07
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (54 bp):
CATGCCCGTGTTAATTTAACAGGTTCAACCACAAGTTCAAGACAAGGCGTGTCG
Found at i:44580677 original size:13 final size:13
Alignment explanation
Indices: 44580659--44580683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44580649 TCGACAGGGA
44580659 CACGCCCGTGTGC
1 CACGCCCGTGTGC
44580672 CACGCCCGTGTG
1 CACGCCCGTGTG
44580684 AGTCGTGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.44, G:0.32, T:0.16
Consensus pattern (13 bp):
CACGCCCGTGTGC
Found at i:44581149 original size:27 final size:27
Alignment explanation
Indices: 44581108--44581162 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
44581098 TAAGAAAGAG
*
44581108 AATGTACAGATTCTGAAACTGAGCAAC
1 AATGTACAGAATCTGAAACTGAGCAAC
44581135 AATGTACAGAATCTGAAACTGAGCAAC
1 AATGTACAGAATCTGAAACTGAGCAAC
44581162 A
1 A
44581163 CCTCAGCTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (27 bp):
AATGTACAGAATCTGAAACTGAGCAAC
Found at i:44587853 original size:20 final size:20
Alignment explanation
Indices: 44587816--44587854 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44587806 AGATTTTATT
*
44587816 TTTATTTTTTTTTCTTTTTG
1 TTTATTTTTTTATCTTTTTG
44587836 TTTATTTATTTTAT-TTTTT
1 TTTATTT-TTTTATCTTTTT
44587855 TATTATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (20 bp):
TTTATTTTTTTATCTTTTTG
Found at i:44587860 original size:20 final size:19
Alignment explanation
Indices: 44587814--44587860 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
44587804 TTAGATTTTA
*
44587814 TTTTTATT-TTTTTTTCTT
1 TTTTTATTATTTTTTTATT
*
44587832 TTTGT-TTATTTATTTTATT
1 TTTTTATTATTT-TTTTATT
44587851 TTTTTATTAT
1 TTTTTATTAT
44587861 GAAAAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 2 0.09
18 7 0.30
19 10 0.43
20 4 0.17
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (19 bp):
TTTTTATTATTTTTTTATT
Found at i:44588803 original size:18 final size:20
Alignment explanation
Indices: 44588767--44588804 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
44588757 ACATGGTCGT
44588767 GTGTCGCCTTTCACATGGGC
1 GTGTCGCCTTTCACATGGGC
44588787 GTGT-GCCTTTC-CATGGGC
1 GTGTCGCCTTTCACATGGGC
44588805 ATGTTGACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.08, C:0.29, G:0.32, T:0.32
Consensus pattern (20 bp):
GTGTCGCCTTTCACATGGGC
Found at i:44590871 original size:46 final size:46
Alignment explanation
Indices: 44590821--44590996 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
44590811 TGGTTGAGCA
* *
44590821 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
44590867 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* * *
44590914 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATTTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * * *
44590960 CCCGAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44590997 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:44590977 original size:93 final size:93
Alignment explanation
Indices: 44590818--44590989 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
44590808 GGATGGTTGA
* * * *
44590818 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAGT
44590883 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*** *
44590911 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATTTGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAGT
*
44590976 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
44590990 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44605362 original size:23 final size:23
Alignment explanation
Indices: 44605321--44605369 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
44605311 TTGTTACACC
*
44605321 TTTTACTATTATTACTATTGTAT
1 TTTTACTATTATTACTATTATAT
**
44605344 TTTTACTATTATTGTTATTATAT
1 TTTTACTATTATTACTATTATAT
44605367 TTT
1 TTT
44605370 CCTCTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTACTATTATTACTATTATAT
Found at i:44605585 original size:3 final size:3
Alignment explanation
Indices: 44605577--44605702 Score: 53
Period size: 3 Copynumber: 42.7 Consensus size: 3
44605567 TGTATTTACC
* * * *
44605577 ATT ATT ATT ACT ATT ATT -TT CATT -TT -TT ATT ACT ATT ACT AAT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
* ** * * * *
44605620 ATC ATT CCT -TT ATT ATT TTCT ATT ATT ATT ATC ACT ATT ATT AAT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
44605665 ATA AAT ATT AAT ACT CTT ATT ATT ATT TTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
44605703 CATCAATATT
Statistics
Matches: 87, Mismatches: 31, Indels: 10
0.68 0.24 0.08
Matches are distributed among these distances:
2 7 0.08
3 76 0.87
4 4 0.05
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:44617764 original size:44 final size:44
Alignment explanation
Indices: 44617625--44617780 Score: 136
Period size: 44 Copynumber: 3.5 Consensus size: 44
44617615 CACAGATCTT
* * * ** *
44617625 ACCCCATAAGCAATAGGGGAACAGATCGAAGGCAACGAGCTTTA
1 ACCCCCTAAGCAATAGGGTAACAAATCGAAGATAATGAGCTTTA
* * * * *
44617669 ACCCCCTAAGCAGTAGGGTAAC-AAGCTGAAGTTCAT-AGATCTTA
1 ACCCCCTAAGCAATAGGGTAACAAATC-GAAGATAATGAGCT-TTA
* * * *
44617713 TCACCCTAAGCAATAGGGAAACAAATCGAAAATAATGAGCTTTA
1 ACCCCCTAAGCAATAGGGTAACAAATCGAAGATAATGAGCTTTA
*
44617757 ACCCCCTAAGCAGTAGGGTAACAA
1 ACCCCCTAAGCAATAGGGTAACAA
44617781 GCCAAATTTA
Statistics
Matches: 85, Mismatches: 23, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
43 5 0.06
44 74 0.87
45 6 0.07
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (44 bp):
ACCCCCTAAGCAATAGGGTAACAAATCGAAGATAATGAGCTTTA
Found at i:44617766 original size:88 final size:86
Alignment explanation
Indices: 44617609--44617809 Score: 251
Period size: 88 Copynumber: 2.3 Consensus size: 86
44617599 CTAGAATCAG
* * **
44617609 TGAATTCACAGATCTTACCCCATAAGCAATAGGGGAACAGATCGAAGGCAACGAGCTTTAACCCC
1 TGAATTCACAGATCTTACCCCATAAGCAATAGGGAAACAAATCGAAAACAACGAGCTTTAACCCC
44617674 CTAAGCAGTAGGGTAACAAGC
66 CTAAGCAGTAGGGTAACAAGC
* * *
44617695 TGAAGTTCATAGATCTTATCACCC-TAAGCAATAGGGAAACAAATCGAAAATAATGAGCTTTAAC
1 TGAA-TTCACAGATCTTA-C-CCCATAAGCAATAGGGAAACAAATCGAAAACAACGAGCTTTAAC
44617759 CCCCTAAGCAGTAGGGTAACAAGC
63 CCCCTAAGCAGTAGGGTAACAAGC
** * * *
44617783 CAAATTTACAGACCTTAACCCCCTAAG
1 TGAATTCACAGATCTT-ACCCCATAAG
44617810 TAGTAGGGTA
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
86 7 0.07
87 26 0.27
88 62 0.63
89 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (86 bp):
TGAATTCACAGATCTTACCCCATAAGCAATAGGGAAACAAATCGAAAACAACGAGCTTTAACCCC
CTAAGCAGTAGGGTAACAAGC
Found at i:44617994 original size:44 final size:43
Alignment explanation
Indices: 44617937--44618271 Score: 196
Period size: 44 Copynumber: 7.7 Consensus size: 43
44617927 AGATCTCAAC
*
44617937 CCCCTAAGCAGTAGGGAAACAGGTTGAAGATGATGAGTCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGATTGAA-ATGATGAGTCTTAAA
* * * * *
44617981 CCCCTAAGCAGTAGGGTAACAGACT-AAAT-TTACAGAT-TTCAAC
1 CCCCTAAGCAGTAGGGAAACAGATTGAAATGAT-GAG-TCTT-AAA
* * **
44618024 CCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGAGTCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGATTGAA-ATGATGAGTCTTAAA
* * ** * * *
44618068 CCCCTAAGCAGTAGGGTAATAGGCT-AAAT-TTACAGATCTTAAC
1 CCCCTAAGCAGTAGGGAAACAGATTGAAATGAT-GAG-TCTTAAA
* * *
44618111 CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAGCCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGATTGAAA-TGATGAGTCTTAAA
* ** ** * **
44618155 CCCCTAAGCAGTAGGGTAACAGGCTGATTTTACAAGATCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGATTGAAATGATGAG-TCTTAAA
* * ** ** *
44618199 CCCCTAAGCAGTAGGAAAATAGATCAAAGATGACAAGCCTT-AA
1 CCCCTAAGCAGTAGGGAAACAGATTGAA-ATGATGAGTCTTAAA
* *
44618242 CCCCTTAAGCAGTAGGGTAACAGGTTGAAA
1 CCCC-TAAGCAGTAGGGAAACAGATTGAAA
44618272 ATCAAATATC
Statistics
Matches: 214, Mismatches: 62, Indels: 31
0.70 0.20 0.10
Matches are distributed among these distances:
41 2 0.01
42 8 0.04
43 64 0.30
44 126 0.59
45 12 0.06
46 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (43 bp):
CCCCTAAGCAGTAGGGAAACAGATTGAAATGATGAGTCTTAAA
Found at i:44618012 original size:87 final size:87
Alignment explanation
Indices: 44617921--44618265 Score: 460
Period size: 87 Copynumber: 4.0 Consensus size: 87
44617911 CAGATTGAAG
* * * *
44617921 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGGTTGAAGATGATGAGTCTTAAACCCCT
1 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGAGCCTTAAACCCCT
*
44617986 AAGCAGTAGGGTAACAGACTAA
66 AAGCAGTAGGGTAACAGGCTAA
* * * *
44618008 ATTTACAGATTTCAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGAGTCTTAAACCCCT
1 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGAGCCTTAAACCCCT
*
44618073 AAGCAGTAGGGTAATAGGCTAA
66 AAGCAGTAGGGTAACAGGCTAA
*
44618095 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-AGCGATGAGCCTTAAACCCC
1 ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-CGATGAGCCTTAAACCCC
*
44618159 TAAGCAGTAGGGTAACAGGCTGA
65 TAAGCAGTAGGGTAACAGGCTAA
* * * * * * * **
44618182 TTTTACAAGATCTTAAACCCCTAAGCAGTAGGAAAATAGATCAAAGATGACAAGCCTT-AACCCC
1 ATTTAC-AGATCTCAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGAGCCTTAAACCCC
44618246 TTAAGCAGTAGGGTAACAGG
65 -TAAGCAGTAGGGTAACAGG
44618266 TTGAAAATCA
Statistics
Matches: 231, Mismatches: 23, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
87 169 0.73
88 61 0.26
89 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (87 bp):
ATTTACAGATCTCAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGAGCCTTAAACCCCT
AAGCAGTAGGGTAACAGGCTAA
Found at i:44620367 original size:18 final size:19
Alignment explanation
Indices: 44620316--44620361 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
44620306 ACAAAATAAT
* *
44620316 TTCAAAATAATTTTTAAAA
1 TTCAAAATAATTATAAAAA
44620335 TTCAAAATAATTATAAAAA
1 TTCAAAATAATTATAAAAA
44620354 TTCCAAAA
1 TT-CAAAA
44620362 CTTATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.35
Consensus pattern (19 bp):
TTCAAAATAATTATAAAAA
Found at i:44634023 original size:17 final size:18
Alignment explanation
Indices: 44634001--44634034 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44633991 AATTTTGTAA
*
44634001 GTTTTATTG-AGATTTTT
1 GTTTTAATGTAGATTTTT
44634018 GTTTTAATGTAGATTTT
1 GTTTTAATGTAGATTTT
44634035 ATTTGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.62
Consensus pattern (18 bp):
GTTTTAATGTAGATTTTT
Found at i:44636587 original size:27 final size:28
Alignment explanation
Indices: 44636503--44636600 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
44636493 CATGAGATTG
* * * *
44636503 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
44636532 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
44636560 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44636587 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44636601 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44636611 original size:27 final size:27
Alignment explanation
Indices: 44636531--44636613 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
44636521 TAAATTGTAC
* *
44636531 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
44636559 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
44636586 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
44636613 A
1 A
44636614 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:44636614 original size:29 final size:27
Alignment explanation
Indices: 44636503--44636614 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
44636493 CATGAGATTG
** * *
44636503 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
44636532 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
44636560 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
44636587 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
44636615 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:44644661 original size:27 final size:28
Alignment explanation
Indices: 44644577--44644674 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
44644567 CATGAGATTG
* * * *
44644577 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
44644606 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
44644634 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44644661 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44644675 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44644685 original size:27 final size:27
Alignment explanation
Indices: 44644605--44644687 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
44644595 TAAATTGTAC
* *
44644605 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
44644633 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
44644660 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
44644687 A
1 A
44644688 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:44644688 original size:29 final size:27
Alignment explanation
Indices: 44644577--44644688 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
44644567 CATGAGATTG
** * *
44644577 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
44644606 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
44644634 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
44644661 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
44644689 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:44663689 original size:40 final size:40
Alignment explanation
Indices: 44663625--44663734 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
44663615 ACTCGATATG
* * * *
44663625 TCACACACTAAGTGTCGTACATAGCTGAAGATACCTCAAA
1 TCACACACTAAGTGCCATATATAGCCGAAGATACCTCAAA
* ** *
44663665 TCACACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCACACACTAAGTGCCATATATAGCCGAAGATACCTCAAA
*
44663705 TCGCACACTAAGTGCCATATATAGCCGAAG
1 TCACACACTAAGTGCCATATATAGCCGAAG
44663735 CTCTGTCGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (40 bp):
TCACACACTAAGTGCCATATATAGCCGAAGATACCTCAAA
Found at i:44663735 original size:40 final size:40
Alignment explanation
Indices: 44663663--44663758 Score: 165
Period size: 40 Copynumber: 2.4 Consensus size: 40
44663653 AGATACCTCA
*
44663663 AATCACACACTAAGTGCCATATATAGCCGAAGCTATGTCG
1 AATCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCG
*
44663703 AATCGCACACTAAGTGCCATATATAGCCGAAGCTCTGTCG
1 AATCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCG
*
44663743 TATCGCACACTAAGTG
1 AATCGCACACTAAGTG
44663759 ACACAAATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (40 bp):
AATCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCG
Found at i:44677025 original size:12 final size:12
Alignment explanation
Indices: 44677008--44677041 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
44676998 TAAAGAGGTC
44677008 CACACGGGTAGG
1 CACACGGGTAGG
44677020 CACACGGGTAGG
1 CACACGGGTAGG
*
44677032 TACACGGGTA
1 CACACGGGTA
44677042 TGTGTCTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.24, G:0.38, T:0.12
Consensus pattern (12 bp):
CACACGGGTAGG
Found at i:44686183 original size:40 final size:40
Alignment explanation
Indices: 44686116--44686322 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
44686106 CCTTCGGAGT
* *
44686116 TTAG-CCGGATATAGCT-ACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGAC
* *
44686155 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
*
44686195 TTAGCCTGGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
44686235 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
44686274 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
44686314 TTAGCCCGG
1 TTAGCCCGG
44686323 TTATCAATCC
Statistics
Matches: 154, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 40 0.26
40 113 0.73
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:44687524 original size:14 final size:14
Alignment explanation
Indices: 44687505--44687531 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44687495 AACATGAGAG
44687505 CTTTTTCTTTCTTT
1 CTTTTTCTTTCTTT
44687519 CTTTTTCTTTCTT
1 CTTTTTCTTTCTT
44687532 CTATTCAGCC
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:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
CTTTTTCTTTCTTT
Found at i:44687533 original size:53 final size:55
Alignment explanation
Indices: 44687459--44687579 Score: 192
Period size: 53 Copynumber: 2.2 Consensus size: 55
44687449 CAAAGCTCTT
* * * *
44687459 TTTCCTTCATTTTCTTTCTTCTATTCGGTCAAGAACAACATGAGAGC-T-TTTTC
1 TTTCTTTCTTTTTCTTTCTTCTATTCAGCCAAGAACAACATGAGAGCTTCTTTTC
44687512 TTTCTTTCTTTTTCTTTCTTCTATTCAGCCAAGAACAACATGAGAGCTTCTTTTC
1 TTTCTTTCTTTTTCTTTCTTCTATTCAGCCAAGAACAACATGAGAGCTTCTTTTC
44687567 TTTCTTTCTTTTT
1 TTTCTTTCTTTTT
44687580 TTTTTCATCA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
53 43 0.69
54 1 0.02
55 18 0.29
ACGTcount: A:0.18, C:0.22, G:0.09, T:0.50
Consensus pattern (55 bp):
TTTCTTTCTTTTTCTTTCTTCTATTCAGCCAAGAACAACATGAGAGCTTCTTTTC
Found at i:44696960 original size:93 final size:93
Alignment explanation
Indices: 44696801--44696971 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
44696791 GCCCATAAGT
* *
44696801 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCACATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
44696866 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
44696894 GAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CATTCACATCCATAAGTGAACTCGGACTCAACTCA
44696958 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
44696972 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44696967 original size:46 final size:47
Alignment explanation
Indices: 44696793--44696968 Score: 220
Period size: 46 Copynumber: 3.8 Consensus size: 47
44696783 TGTAACCCGC
* *
44696793 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACAT
*
44696839 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCACAT
* * *
44696889 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACAT
44696932 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44696969 TGCTCAACCA
Statistics
Matches: 113, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.54
47 31 0.27
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACAT
Found at i:44700813 original size:11 final size:11
Alignment explanation
Indices: 44700797--44700826 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44700787 TTGCTTATTC
44700797 TTTATTTTTAT
1 TTTATTTTTAT
*
44700808 TTTATTTTTCT
1 TTTATTTTTAT
44700819 TTTATTTT
1 TTTATTTT
44700827 CAGCAATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:44703388 original size:30 final size:30
Alignment explanation
Indices: 44703320--44703376 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
44703310 GTGTTCTAGG
44703320 CCGTGTAG-CACACACGATTAAGACACAAGC
1 CCGTGT-GTCACACACGATTAAGACACAAGC
44703350 CCGTGTGTCACACACGATCT-AGACACA
1 CCGTGTGTCACACACGAT-TAAGACACA
44703377 TGCTTGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 1 0.04
30 23 0.92
31 1 0.04
ACGTcount: A:0.33, C:0.32, G:0.19, T:0.16
Consensus pattern (30 bp):
CCGTGTGTCACACACGATTAAGACACAAGC
Found at i:44710641 original size:66 final size:65
Alignment explanation
Indices: 44710531--44710662 Score: 176
Period size: 66 Copynumber: 2.0 Consensus size: 65
44710521 AAAAACTAAA
* *
44710531 ATAATCCTAACTAAAACTTACCCTTGATGATAGAACACTATGGGACTCA-AAAATATAATTACAA
1 ATAATCCTAACTAAAACTTACCCATGATAATAGAACACTATGGGA-TCAGAAAATATAATTACAA
44710595 C
65 C
* * * * *
44710596 ATAATCCTAACTAAAAACTTACCCATGATAATAGGACATTGTGGGATTAGAAAATATAATTGCAA
1 ATAATCCTAACT-AAAACTTACCCATGATAATAGAACACTATGGGATCAGAAAATATAATTACAA
44710661 C
65 C
44710662 A
1 A
44710663 CAAATAGACT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
65 14 0.24
66 44 0.76
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (65 bp):
ATAATCCTAACTAAAACTTACCCATGATAATAGAACACTATGGGATCAGAAAATATAATTACAAC
Found at i:44710675 original size:65 final size:65
Alignment explanation
Indices: 44710538--44710680 Score: 157
Period size: 66 Copynumber: 2.2 Consensus size: 65
44710528 AAAATAATCC
* * *
44710538 TAACT-AAAACTTACCCTTGATGATAGAACACTATGGGACTCAAAAATATAATTACAACATAATC
1 TAACTAAAAACTTACCCATGATAATAGAACACTATGGGACTCAAAAATATAATTACAACACAA-C
*
44710602 C
65 A
* * * * *
44710603 TAACTAAAAACTTACCCATGATAATAGGACATTGTGGGA-TTAGAAAATATAATTGCAACACAA-
1 TAACTAAAAACTTACCCATGATAATAGAACACTATGGGACTCA-AAAATATAATTACAACACAAC
44710666 A
65 A
44710667 TAGACTAAAAACTT
1 TA-ACTAAAAACTT
44710681 TACGCATATA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
64 2 0.03
65 18 0.27
66 46 0.70
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (65 bp):
TAACTAAAAACTTACCCATGATAATAGAACACTATGGGACTCAAAAATATAATTACAACACAACA
Found at i:44715293 original size:40 final size:40
Alignment explanation
Indices: 44715155--44715335 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
44715145 CGGATGTAAC
44715155 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
44715195 AACCCA-CACGAATACCTTTGGGACTTAACCCAGTTATAAT
1 AA-CCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
44715235 AACCCGCACGAATTCCTTCGGGACTTAACCTGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* ** * * *
44715275 AACTAGCAC-AATTGCCTTC-GGATCTTAGTCTGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* *
44715315 AACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATGCCTTCGG
44715336 ATCTTAGTCT
Statistics
Matches: 120, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
39 7 0.06
40 107 0.89
41 6 0.05
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:44715336 original size:40 final size:40
Alignment explanation
Indices: 44715229--44715351 Score: 149
Period size: 40 Copynumber: 3.1 Consensus size: 40
44715219 TTAACCCAGT
** * * ** *
44715229 TATAATAACCCGCACGAATTCCTTCGGGA-CTTAACCTGGT
1 TATAATAACTAGCACAAATGCCTTC-GGATCTTAGTCTGGA
*
44715269 TATAATAACTAGCACAATTGCCTTCGGATCTTAGTCTGGA
1 TATAATAACTAGCACAAATGCCTTCGGATCTTAGTCTGGA
*
44715309 TATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCTGGA
1 TATAATAACTAGCACAAATGCCTTCGGATCTTAGTCTGGA
44715349 TAT
1 TAT
44715352 CATCCGAATA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 3 0.04
40 69 0.96
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (40 bp):
TATAATAACTAGCACAAATGCCTTCGGATCTTAGTCTGGA
Found at i:44717957 original size:18 final size:19
Alignment explanation
Indices: 44717934--44717969 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
44717924 ATTGTTTTTA
44717934 TACCTT-TAGGTATATCAC
1 TACCTTGTAGGTATATCAC
44717952 TACCTTGTAGGTATATCA
1 TACCTTGTAGGTATATCA
44717970 TTAATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (19 bp):
TACCTTGTAGGTATATCAC
Found at i:44719032 original size:18 final size:18
Alignment explanation
Indices: 44719009--44719044 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44718999 CCTATTGTAT
44719009 TACTGATTTATGCTTACA
1 TACTGATTTATGCTTACA
44719027 TACTGATTTATGCTTACA
1 TACTGATTTATGCTTACA
44719045 CTTGTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (18 bp):
TACTGATTTATGCTTACA
Found at i:44720298 original size:32 final size:32
Alignment explanation
Indices: 44720262--44720414 Score: 225
Period size: 32 Copynumber: 4.8 Consensus size: 32
44720252 ACTATGCTAG
44720262 TTTTTTATATGTAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* * *
44720294 TTTTTCATTTGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* * *
44720326 TTTTTTATATGTGAACCTAATGTATTATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
*
44720358 TTTTTTATATGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
* *
44720390 TTTTTTATACGTAAACCTAATGTAT
1 TTTTTTATATGTAAAACTAATGTAT
44720415 CATATTTTTT
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 105 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.46
Consensus pattern (32 bp):
TTTTTTATATGTAAAACTAATGTATGATCTAC
Found at i:44720371 original size:64 final size:64
Alignment explanation
Indices: 44720262--44720414 Score: 252
Period size: 64 Copynumber: 2.4 Consensus size: 64
44720252 ACTATGCTAG
* *
44720262 TTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATTTGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
* * *
44720326 TTTTTTATATGTGAACCTAATGTATTATCTACTTTTTTATATGCAAAACTAATGTATGATCTAC
1 TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
*
44720390 TTTTTTATACGTAAACCTAATGTAT
1 TTTTTTATATGTAAACCTAATGTAT
44720415 CATATTTTTT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 82 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.46
Consensus pattern (64 bp):
TTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGATCTAC
Found at i:44723966 original size:21 final size:21
Alignment explanation
Indices: 44723940--44723992 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
44723930 TGCTGTTTCT
*
44723940 AATCTCACCGCTACAATATCC
1 AATCTCACCGCTACAATAACC
* * *
44723961 AATCTCATCGCTACAGTAACT
1 AATCTCACCGCTACAATAACC
44723982 AATCTCACCGC
1 AATCTCACCGC
44723993 CACCGCTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAATAACC
Found at i:44728691 original size:7 final size:7
Alignment explanation
Indices: 44728679--44728725 Score: 60
Period size: 7 Copynumber: 6.4 Consensus size: 7
44728669 AAATATATAA
44728679 AAATATT
1 AAATATT
44728686 AAATATT
1 AAATATT
44728693 AAATATT
1 AAATATT
44728700 AAAT-TT
1 AAATATT
44728706 AAAATAATAT
1 -AAAT-AT-T
44728716 AAATATT
1 AAATATT
44728723 AAA
1 AAA
44728726 AAATAATATG
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
6 2 0.06
7 26 0.72
8 2 0.06
9 5 0.14
10 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAATATT
Found at i:44728691 original size:17 final size:16
Alignment explanation
Indices: 44728669--44728727 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 16
44728659 ATAAATAGAA
44728669 AAATATATAAAAATATT
1 AAATAT-TAAAAATATT
44728686 AAATATT--AAATATT
1 AAATATTAAAAATATT
44728700 AAAT-TT-AAAATAATAT
1 AAATATTAAAAAT-AT-T
44728716 AAATATTAAAAA
1 AAATATTAAAAA
44728728 ATAATATGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.05
14 15 0.41
15 2 0.05
16 6 0.16
17 8 0.22
18 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATATTAAAAATATT
Found at i:44729789 original size:32 final size:32
Alignment explanation
Indices: 44729734--44729794 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
44729724 ACTTTTCCTA
44729734 TCTAGAATTTTTTAAACACTAAATTAGTGGAT
1 TCTAGAATTTTTTAAACACTAAATTAGTGGAT
* *
44729766 TCTATAATTTGTTT-AACATTAAATTAGTG
1 TCTAGAATTT-TTTAAACACTAAATTAGTG
44729795 TAATTATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 23 0.88
33 3 0.12
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (32 bp):
TCTAGAATTTTTTAAACACTAAATTAGTGGAT
Found at i:44729987 original size:21 final size:21
Alignment explanation
Indices: 44729963--44730007 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
44729953 CTCAATGTGC
*
44729963 TAATCTAAGGATTATGTCAAA
1 TAATCTAAGAATTATGTCAAA
* *
44729984 TAATTTAATAATTATGTCAAA
1 TAATCTAAGAATTATGTCAAA
44730005 TAA
1 TAA
44730008 GCTTAAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.38
Consensus pattern (21 bp):
TAATCTAAGAATTATGTCAAA
Found at i:44731360 original size:30 final size:30
Alignment explanation
Indices: 44731324--44731397 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
44731314 TTAAGTAGGC
*
44731324 CACACGATCGTGTGGTATGGTTGTGTGTGG
1 CACACGACCGTGTGGTATGGTTGTGTGTGG
44731354 CACACGACCGTGTGGTATGGTTGTGTGTGG
1 CACACGACCGTGTGGTATGGTTGTGTGTGG
44731384 CACACGACCGTGTG
1 CACACGACCGTGTG
44731398 ACAACCCATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.15, C:0.19, G:0.38, T:0.28
Consensus pattern (30 bp):
CACACGACCGTGTGGTATGGTTGTGTGTGG
Found at i:44733170 original size:46 final size:46
Alignment explanation
Indices: 44733119--44733329 Score: 194
Period size: 46 Copynumber: 4.5 Consensus size: 46
44733109 ATTATGGGCT
* * *
44733119 AGTGTAAGACATGTTTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGA-GACGAGAGCC
* * * * *
44733165 AGTGTAAGACCATGTCTAGGACATGGCATCA-ACATCAAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGACGAGAGCC
* *
44733213 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACG-AGAGCC
* ** * * * *
44733259 AGTGTAAGACATGTCTAGGACATGCATTGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACGAGAGCC
44733305 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
44733330 GCATTGACAT
Statistics
Matches: 136, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 69 0.51
47 43 0.32
48 22 0.16
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACGAGAGCC
Found at i:44733344 original size:47 final size:48
Alignment explanation
Indices: 44733164--44733379 Score: 173
Period size: 47 Copynumber: 4.6 Consensus size: 48
44733154 TTATGAGAGC
* * * **
44733164 CAGTGTAAGACCATGTCTAGGACATGGCATCAACATCA-A-GACGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAGATGATAAGT
* * * *
44733210 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACG-TAAGC
1 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGACAT-GAGATGATAAGT
* * * *
44733258 CAGTGTAAGA-CATGTCTAGGACAT-GCATTGGCTACGAGATGAT-AGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGAC-ATGAGATGATAAGT
* *
44733304 CAGTGTAAGACCATGTCTGGGACATGGCATTGACATGAGAT-ATGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAGATGATAAGT
*
44733350 CTAGTGTAAGACCGTGTCTGGGACATGGCA
1 C-AGTGTAAGACCATGTCTGGGACATGGCA
44733380 CCAGCACCTT
Statistics
Matches: 141, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
46 56 0.40
47 65 0.46
48 19 0.13
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAGATGATAAGT
Found at i:44733371 original size:140 final size:140
Alignment explanation
Indices: 44733119--44733376 Score: 333
Period size: 140 Copynumber: 1.8 Consensus size: 140
44733109 ATTATGGGCT
* * *
44733119 AGTGTAAGACATGTTTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCTAG
*
44733184 GACATGGCATCAACATCAAGACGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
66 GACATGGCATCAACATCAAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
44733249 GACGTAAGCC
131 GACGTAAGCC
** * * * *
44733259 AGTGTAAGACATGTCTAGGACATGCATTGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTAGGACATGCATCAGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCTA
** * * *
44733323 GGACATGGCATTGACAT-GAGA-TATGAGCTAGTGTAAGACCGTGTCTGGGACATG
65 GGACATGGCATCAACATCAAGACGA-GAGCTAGTGTAAGA-CATGTCTGGGACATG
44733377 GCACCAGCAC
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 1 0.01
139 16 0.16
140 82 0.82
141 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCTAG
GACATGGCATCAACATCAAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
GACGTAAGCC
Found at i:44736198 original size:26 final size:26
Alignment explanation
Indices: 44736163--44736212 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
44736153 AATGTGAAAG
*
44736163 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
44736189 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
44736213 AGTTCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:44736295 original size:103 final size:103
Alignment explanation
Indices: 44736084--44736348 Score: 399
Period size: 103 Copynumber: 2.6 Consensus size: 103
44736074 GTTGTACATA
** *
44736084 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* * **
44736149 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCC
66 CTAAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCC
*
44736187 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
44736251 TCTAAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTAAAATGAAAAAGGGGGTTGCTATGTGCTGATT-CCCC
* * *
44736290 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
44736349 AATAACGGTT
Statistics
Matches: 147, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
102 25 0.17
103 121 0.82
104 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTAAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCC
Found at i:44739446 original size:29 final size:31
Alignment explanation
Indices: 44739416--44739477 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 31
44739406 ATTATTAAAT
*
44739416 TTTAAAACTTTC-ATG-TAA-AAAAAATCAA
1 TTTAAAACATTCTATGTTAATAAAAAATCAA
44739444 TTTAAAACATTCTATGTTAATAAAAAA--AA
1 TTTAAAACATTCTATGTTAATAAAAAATCAA
44739473 TTTAA
1 TTTAA
44739478 TTTACTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 11 0.37
29 10 0.33
30 3 0.10
31 6 0.20
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.35
Consensus pattern (31 bp):
TTTAAAACATTCTATGTTAATAAAAAATCAA
Found at i:44748329 original size:20 final size:22
Alignment explanation
Indices: 44748278--44748330 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
44748268 GTAATATATA
44748278 TAGGGTTCGCATATTTGAATAC
1 TAGGGTTCGCATATTTGAATAC
* *
44748300 -AGGATTCGCATATTT-AA-CC
1 TAGGGTTCGCATATTTGAATAC
44748319 TAGGGTTCGCAT
1 TAGGGTTCGCAT
44748331 GAAACAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 12 0.44
21 14 0.52
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (22 bp):
TAGGGTTCGCATATTTGAATAC
Found at i:44749295 original size:23 final size:23
Alignment explanation
Indices: 44749263--44749306 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
44749253 TAACTTTATG
44749263 TTCTTCTTTGTAAGTTCTAAATC
1 TTCTTCTTTGTAAGTTCTAAATC
*
44749286 TTCTTTTTTGTAAGTTCTAAA
1 TTCTTCTTTGTAAGTTCTAAA
44749307 GCAGGTGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.55
Consensus pattern (23 bp):
TTCTTCTTTGTAAGTTCTAAATC
Found at i:44757751 original size:383 final size:367
Alignment explanation
Indices: 44757006--44757761 Score: 1136
Period size: 383 Copynumber: 2.0 Consensus size: 367
44756996 CACCCACCGA
* ** *
44757006 AAAGAAGATAGTTGGTTGCAAGTGGGTATTCAAAAATAAGAAAGGAGGTTTAGGTGACACAAGAT
1 AAAGAAGATAGTTGGTTGCAAGTGGGCATTCAAAAATAAGAAAGGAGGTCCAGGTGACACAAGAC
* * * *
44757071 ATAAGGCAAGGTTGGTCGCAAAGGGCTGTAGTCAAGTGGAGGAAGTTGATTTTCATGATGTGTTA
66 ATAAGGCAAGGTTAGTCGCAAAGGGCTATAGTCAAATAGAGGAAGTTGATTTTCATGATGTGTTA
*
44757136 TCTCTTCATCCATTCGACCATTGTTAGCTCTTGTTGCATTAAACAACCTTGAATTAGAGTAGTTA
131 TCTCTTCATCCATTCGACCATTGTTAGCTCTTGTTGCATTAAAAAACCTTGAATTAGAGTAGTTA
* * *
44757201 GATATGAAAATTGTATTCCTTCATGGGGACCTAGAGGGGGATATTTATATGCCGCAACTTGAAGG
196 GATATGAAAATTGCATTCCTTCATGGGGACCTAGAGGGGGATATTTATATGCCACAACCTGAAGG
* * ***
44757266 CTTTAGAATTGAAGGCATGAAAGACAATTTATGCCTTCTACAGAAATCTTTGTATGGCCTGAAGC
261 CTTTAGAATTGAAGGCAAGAAAGACAATGTATGCCTTCTACAGAAATCTTTGTACAACCTGAAGC
44757331 AGTCTCCTCGTCAATGGTATAAGAAGTTTGATTCCTTTATGT
326 AGTCTCCTCGTCAATGGTATAAGAAGTTTGATTCCTTTATGT
* *
44757373 AAAGAAGATAGTTGGTTGCAAGTGGGCATTCGAAAAGT-AGGAAGGATTAGGTCCAGGTGACACA
1 AAAGAAGATAGTTGGTTGCAAGTGGGCATTC-AAAAATAAGAAAGG---AGGTCCAGGTGACACA
44757437 AGACATAAGGCAAGGTTAGTCGCAAAGGGCTATAGTCAAATAGAGGAAGTTGATTTTCATGATGT
62 AGACATAAGGCAAGGTTAGTCGCAAAGGGCTATAGTCAAATAGAGGAAGTTGATTTTCATGATGT
*
44757502 GTTATCTCTTATTTTGAAGCATACGTCCATTCGGCCATTGTTAGCTCTTGTTGCATTAAAAAACC
127 GTTATCTC-----TT----C--A--TCCATTCGACCATTGTTAGCTCTTGTTGCATTAAAAAACC
* * *
44757567 TTGAATTAGAGTAGTTAGATGTGAAAATTGCATTCCTTCATGGTGACCTAGAGGTGGATATTTAT
179 TTGAATTAGAGTAGTTAGATATGAAAATTGCATTCCTTCATGGGGACCTAGAGGGGGATATTTAT
44757632 ATGCCACAACCTGAAGGCTTTAGAATTGAAGGCAAGAAAGACAATGTATGCCTTCTACAGAAATC
244 ATGCCACAACCTGAAGGCTTTAGAATTGAAGGCAAGAAAGACAATGTATGCCTTCTACAGAAATC
44757697 TTTGTACAACCTGAAGCAGTCTCCTCGTCAATGGTATAAGAAGTTTGATTCCTTTATGT
309 TTTGTACAACCTGAAGCAGTCTCCTCGTCAATGGTATAAGAAGTTTGATTCCTTTATGT
*
44757756 TAAGAA
1 AAAGAA
44757762 TTGGTTTTGT
Statistics
Matches: 348, Mismatches: 24, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
367 36 0.10
368 5 0.01
370 82 0.24
375 2 0.01
379 1 0.00
381 1 0.00
383 221 0.64
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (367 bp):
AAAGAAGATAGTTGGTTGCAAGTGGGCATTCAAAAATAAGAAAGGAGGTCCAGGTGACACAAGAC
ATAAGGCAAGGTTAGTCGCAAAGGGCTATAGTCAAATAGAGGAAGTTGATTTTCATGATGTGTTA
TCTCTTCATCCATTCGACCATTGTTAGCTCTTGTTGCATTAAAAAACCTTGAATTAGAGTAGTTA
GATATGAAAATTGCATTCCTTCATGGGGACCTAGAGGGGGATATTTATATGCCACAACCTGAAGG
CTTTAGAATTGAAGGCAAGAAAGACAATGTATGCCTTCTACAGAAATCTTTGTACAACCTGAAGC
AGTCTCCTCGTCAATGGTATAAGAAGTTTGATTCCTTTATGT
Found at i:44762447 original size:49 final size:50
Alignment explanation
Indices: 44762374--44762506 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 50
44762364 TAGGGTATAC
* *
44762374 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAACTAT-AGAAATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATC-AG
* * * * * *
44762424 -GCCGACGCCATGTCCCTGACATGGTCTTACACTAGCTCTCACATATCTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATCAG
*
44762473 TGTCGATGCCATGTCCCAGACATGGTCTTACACT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT
44762507 GACACATCTC
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 35 0.50
50 35 0.50
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCACAAATCAG
Found at i:44762572 original size:46 final size:46
Alignment explanation
Indices: 44762422--44762690 Score: 179
Period size: 46 Copynumber: 5.7 Consensus size: 46
44762412 ATAGAAATCA
* * *
44762422 AGGCCGACGCCATGTCCCTGACATGGTCTTACACTAGCTCTCACATATCTG
1 AGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT--CATAT-TG
* * * * * *
44762473 -TGTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCG
1 AGGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATATTG
* * *
44762518 TA-GTCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACATTTTG
1 -AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATATTG
* * * * **
44762564 AGGCCGATGCATGTCCCATACATGTCTTACACTAGCTCTCGTCTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATTG
* * * *
44762610 ATGCCGATGCCATATCTCAGACATGATCTTACACTGGCTCTCATAATG
1 AGGCCGATG-CATGTCCCAGACATG-TCTTACACTGGCTCTCATATTG
* * *
44762658 TGGCTGATGCCTGTCCCAGACATGTCTTACACT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACT
44762691 AGCACACAAA
Statistics
Matches: 173, Mismatches: 36, Indels: 23
0.75 0.16 0.10
Matches are distributed among these distances:
44 10 0.06
45 16 0.09
46 68 0.39
47 25 0.14
48 23 0.13
49 1 0.01
50 30 0.17
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATTG
Found at i:44762634 original size:138 final size:144
Alignment explanation
Indices: 44762377--44762645 Score: 327
Period size: 138 Copynumber: 1.9 Consensus size: 144
44762367 GGTATACTGC
*
44762377 CGATGCCATGTCCCAAACATGGTCTTACACTAACTATAGAAATCAAGGCCGACGCCATGTCCCTG
1 CGATGCCATGTCCCAAACATGGTCTTACACTAACTATACAAATCAAGGCCGACGCCATGTCCCTG
** * * *
44762442 ACATGGTCTTACACTAGCTCTCACATATCTGTGTCGATGCCATGTCCCAGACATGGTCTTACACT
66 ACATGGTCTTACACTAGCTCT-ACATATCAATGCCGATGCCATATCCCAGACATGATCTTACACT
44762507 GACACATCTCGTAGT
130 GACACATCTCGTAGT
** ** ** *
44762522 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACATTTTGAGGCCGATG-CATGTCCCAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAACTATACAAATCAAGGCCGACGCCATGTCCC-T
* * *
44762583 -ACAT-GTCTTACACTAGCTCT-CGTCTCAATGCCGATGCCATATCTCAGACATGATCTTACACT
65 GACATGGTCTTACACTAGCTCTACATATCAATGCCGATGCCATATCCCAGACATGATCTTACACT
44762645 G
130 G
44762646 GCTCTCATAA
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
138 35 0.33
140 16 0.15
141 12 0.11
142 13 0.12
143 12 0.11
144 14 0.13
145 5 0.05
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (144 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAACTATACAAATCAAGGCCGACGCCATGTCCCTG
ACATGGTCTTACACTAGCTCTACATATCAATGCCGATGCCATATCCCAGACATGATCTTACACTG
ACACATCTCGTAGT
Done.