Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 183 of 325
Found at i:56251001 original size:40 final size:40
Alignment explanation
Indices: 56250953--56251158 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
56250943 GGACTAAGAT
56250953 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
56250993 TCGAAGGCATTTGTGCTAGTTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAG-TC
*
56251033 CCGAAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
56251073 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
56251113 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
56251152 CCGAAGG
1 CCGAAGG
56251159 TACTTGGGTT
Statistics
Matches: 149, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 16 0.11
40 130 0.87
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:56253332 original size:32 final size:34
Alignment explanation
Indices: 56253296--56253360 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
56253286 TAACAGTGGT
*
56253296 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
56253328 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
56253361 TGGCTCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:56253706 original size:25 final size:27
Alignment explanation
Indices: 56253669--56253721 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
56253659 TCAAACATGC
56253669 ATTTAGGTCAATTTAACT-CTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
56253695 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
56253721 A
1 A
56253722 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:56255244 original size:26 final size:26
Alignment explanation
Indices: 56255213--56255320 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
56255203 TGAAATGTCC
56255213 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
56255239 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
56255265 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
56255291 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
56255317 ATCA
1 ATCA
56255321 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:56263019 original size:42 final size:42
Alignment explanation
Indices: 56262963--56263127 Score: 154
Period size: 42 Copynumber: 3.9 Consensus size: 42
56262953 ACATTAGGGT
* * *
56262963 TATGAG-TTTACGTGTAAGACTATATCTGGGATATGACATCGT
1 TATGAGATTT-CGTGTAAGACCATATCTGGGATATGGCATCGA
* * * * *
56263005 TATGAGATTTCGTGTAGGACCATGTTTGGGACATGGCATCAA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
* * * * *
56263047 TATAAGA-ATCGTGTAAGACCATAGCTGGGCTATTGGCATTGA
1 TATGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGA
** *
56263089 TATGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
56263128 TGGTGTGATT
Statistics
Matches: 96, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
41 18 0.19
42 55 0.57
43 23 0.24
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
Found at i:56263119 original size:84 final size:83
Alignment explanation
Indices: 56262973--56263127 Score: 184
Period size: 84 Copynumber: 1.9 Consensus size: 83
56262963 TATGAGTTTA
* * * ** * * * *
56262973 CGTGTAAGACTATATCTGGGATATGACATCGTTATGAGATTTCGTGTAGGACCATGTTTGGGACA
1 CGTGTAAGACCATAGCTGGGATATGACATCGATATGAGATCCCATGTAAGACCATATCTGGGACA
56263038 TGGCATCAATATAAGAAT
66 TGGCATCAATATAAGAAT
* * * *
56263056 CGTGTAAGACCATAGCTGGGCTATTGGCATTGATATGAGATCCCATGTAAGACCATATCTGGGAT
1 CGTGTAAGACCATAGCTGGGATA-TGACATCGATATGAGATCCCATGTAAGACCATATCTGGGAC
56263121 ATGGCAT
65 ATGGCAT
56263128 TGGTGTGATT
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
83 20 0.34
84 38 0.66
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (83 bp):
CGTGTAAGACCATAGCTGGGATATGACATCGATATGAGATCCCATGTAAGACCATATCTGGGACA
TGGCATCAATATAAGAAT
Found at i:56266805 original size:2 final size:2
Alignment explanation
Indices: 56266798--56266823 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56266788 TTGGTTGTCT
56266798 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
56266824 CCTTCGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56267605 original size:49 final size:49
Alignment explanation
Indices: 56267478--56267694 Score: 343
Period size: 49 Copynumber: 4.5 Consensus size: 49
56267468 CCCTTCGGGA
* *
56267478 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56267525 CTTATCAC--ATATATACACCTTCACTTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56267572 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56267621 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56267670 CTTATCACATATATATACACTTTCA
1 CTTATCACATATATATACACTTTCA
56267695 TGTACAGACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 48 0.31
49 105 0.68
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.35
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56268987 original size:2 final size:2
Alignment explanation
Indices: 56268954--56268978 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56268944 TAAGGCATAC
56268954 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
56268979 CCTATATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56270962 original size:16 final size:17
Alignment explanation
Indices: 56270933--56270964 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
56270923 AAGGTCACTT
56270933 TCATAATGATCATGAAC
1 TCATAATGATCATGAAC
56270950 TCATAAT-ATCATGAA
1 TCATAATGATCATGAA
56270965 GCCAATGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (17 bp):
TCATAATGATCATGAAC
Found at i:56271229 original size:41 final size:42
Alignment explanation
Indices: 56271177--56271256 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
56271167 TAGCCCAGCT
** * *
56271177 ATGGTCTTACACG-TGTCTCATATCGATGCCATGTCCCAAAC
1 ATGGTCTTACACGAAATCACATATCGATGCCATATCCCAAAC
56271218 ATGGTCTTACACGAAATCACATATCGATGCCATATCCCA
1 ATGGTCTTACACGAAATCACATATCGATGCCATATCCCA
56271257 GATATTGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 13 0.38
42 21 0.62
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCACATATCGATGCCATATCCCAAAC
Found at i:56272955 original size:29 final size:29
Alignment explanation
Indices: 56272922--56272986 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
56272912 GTGACGAGAT
56272922 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
56272951 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
56272980 CGGCACT
1 TGGCACT
56272987 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:56282579 original size:43 final size:43
Alignment explanation
Indices: 56282527--56282613 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
56282517 ATATGTGATT
* *
56282527 TCGATATGTGTTTATGA-GTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCGATATGTGGTTA-CATGTAAGACCAC-GTCTGGGAC-GTTGGCA
56282570 TCGATATGTGGTTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGGTTACATGTAAGACCACGTCTGGGACGTTGGCA
56282613 T
1 T
56282614 TGTATGATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 36 0.92
44 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (43 bp):
TCGATATGTGGTTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:56294468 original size:46 final size:46
Alignment explanation
Indices: 56294418--56294546 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
56294408 TGGTTGAGCA
*
56294418 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
56294464 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
56294510 CCCGAGCTCGCTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56294547 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:56299303 original size:24 final size:24
Alignment explanation
Indices: 56299012--56299301 Score: 519
Period size: 24 Copynumber: 12.1 Consensus size: 24
56299002 GCAAAGACCA
56299012 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
56299036 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
56299060 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
56299084 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
56299108 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
56299132 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
56299156 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
56299180 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
56299204 TATGGCACTATGTGTGCGA-TTAC
1 TATGGCACTATGTGTGCGATTTAC
56299227 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
56299251 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
56299275 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
56299299 TAT
1 TAT
56299302 AGTCACATTC
Statistics
Matches: 259, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
23 22 0.08
24 237 0.92
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:56309153 original size:24 final size:24
Alignment explanation
Indices: 56309123--56309411 Score: 510
Period size: 24 Copynumber: 12.1 Consensus size: 24
56309113 GAATGTGACT
* *
56309123 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
56309147 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56309171 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56309195 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
56309219 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
56309243 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56309267 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
56309291 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56309315 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56309338 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56309362 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56309385 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56309409 ATA
1 ATA
56309412 TGGTCTTTGC
Statistics
Matches: 258, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
23 46 0.18
24 212 0.82
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:56317203 original size:24 final size:24
Alignment explanation
Indices: 56317173--56317462 Score: 519
Period size: 24 Copynumber: 12.1 Consensus size: 24
56317163 GAATGTGACT
* *
56317173 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
56317197 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56317221 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56317245 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
56317269 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
56317293 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56317317 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
56317341 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56317365 ATAGT-AATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56317388 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56317412 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56317436 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
56317460 ATA
1 ATA
56317463 TGGTCTTTGC
Statistics
Matches: 260, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
23 23 0.09
24 237 0.91
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:56323273 original size:20 final size:20
Alignment explanation
Indices: 56323245--56323376 Score: 201
Period size: 20 Copynumber: 6.6 Consensus size: 20
56323235 ATTGCTGCAA
* *
56323245 TATTTATGGCTTTGTGCCGC
1 TATTGATGGCTTTGTGCCAC
*
56323265 TATTGATGGCTTTGTACCAC
1 TATTGATGGCTTTGTGCCAC
56323285 TATTGATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
* *
56323305 TATTGATGGCTTCGTGACAC
1 TATTGATGGCTTTGTGCCAC
56323325 TATTGATGGCTTTGTGCCAC
1 TATTGATGGCTTTGTGCCAC
*
56323345 TATTGATGGCTTTGTGCCGC
1 TATTGATGGCTTTGTGCCAC
*
56323365 TACTGATGGCTT
1 TATTGATGGCTT
56323377 CAAGCCGCTA
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 102 1.00
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (20 bp):
TATTGATGGCTTTGTGCCAC
Found at i:56323294 original size:40 final size:40
Alignment explanation
Indices: 56323245--56323403 Score: 194
Period size: 40 Copynumber: 4.0 Consensus size: 40
56323235 ATTGCTGCAA
* *
56323245 TATTTATGGCTTTGTGCCGCTATTGATGGCTTTGTACCAC
1 TATTGATGGCTTTGTGCCACTATTGATGGCTTTGTACCAC
*
56323285 TATTGATGGCTTTGTGCCACTATTGATGGCTTCGTGA-CAC
1 TATTGATGGCTTTGTGCCACTATTGATGGCTTTGT-ACCAC
* *
56323325 TATTGATGGCTTTGTGCCACTATTGATGGCTTTGTGCCGC
1 TATTGATGGCTTTGTGCCACTATTGATGGCTTTGTACCAC
* *** * * *
56323365 TACTGATGGCTTCAAGCCGCTACTCATGGCTTTGTACCA
1 TATTGATGGCTTTGTGCCACTATTGATGGCTTTGTACCA
56323404 TATACTGATA
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
40 101 0.99
41 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (40 bp):
TATTGATGGCTTTGTGCCACTATTGATGGCTTTGTACCAC
Found at i:56323394 original size:60 final size:60
Alignment explanation
Indices: 56323260--56323403 Score: 207
Period size: 60 Copynumber: 2.4 Consensus size: 60
56323250 ATGGCTTTGT
* **
56323260 GCCGCTATTGATGGCTTTGTACCACTATTGATGGCTTTGTGCCACTATTGATGGCTTCGT
1 GCCGCTATTGATGGCTTTGTACCACTATTGATGGCTTTGTGCCACTACTGATGGCTTCAA
* * * *
56323320 GACACTATTGATGGCTTTGTGCCACTATTGATGGCTTTGTGCCGCTACTGATGGCTTCAA
1 GCCGCTATTGATGGCTTTGTACCACTATTGATGGCTTTGTGCCACTACTGATGGCTTCAA
* *
56323380 GCCGCTACTCATGGCTTTGTACCA
1 GCCGCTATTGATGGCTTTGTACCA
56323404 TATACTGATA
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 72 1.00
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (60 bp):
GCCGCTATTGATGGCTTTGTACCACTATTGATGGCTTTGTGCCACTACTGATGGCTTCAA
Found at i:56324436 original size:20 final size:20
Alignment explanation
Indices: 56324413--56324496 Score: 123
Period size: 20 Copynumber: 4.2 Consensus size: 20
56324403 GATATTTATA
*
56324413 GCTTTGTGCCGCTATTGATG
1 GCTTTGTGCCGCTATTAATG
*
56324433 GCTTTGTGCCTCTATTAATG
1 GCTTTGTGCCGCTATTAATG
56324453 GCTTTGTGCCGCTATTAATG
1 GCTTTGTGCCGCTATTAATG
* * *
56324473 GCTTTGTGTCGCTACTGATG
1 GCTTTGTGCCGCTATTAATG
56324493 GCTT
1 GCTT
56324497 CGAGCCACTA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.12, C:0.20, G:0.26, T:0.42
Consensus pattern (20 bp):
GCTTTGTGCCGCTATTAATG
Found at i:56326642 original size:40 final size:39
Alignment explanation
Indices: 56326539--56326715 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 39
56326529 TGGATGATAA
* *
56326539 CCGGGATAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
* *
56326579 CTGGGCTAAG-CCCGAAGGCATTTGTACGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
56326618 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* * * *
56326658 CCGGGCTAAGTACCGAAGGCATTTGAGCAAGTAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
* *
56326698 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56326716 TACTTGGTTT
Statistics
Matches: 116, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 48 0.41
40 68 0.59
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:56329018 original size:24 final size:25
Alignment explanation
Indices: 56328986--56329035 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
56328976 GGAAGAATAA
56328986 AGAAATGAA-AAAAA-AAAAAAAAG
1 AGAAATGAAGAAAAACAAAAAAAAG
*
56329009 AGAATATGAAGAAAAACAAAGAAAAG
1 AGAA-ATGAAGAAAAACAAAAAAAAG
56329035 A
1 A
56329036 AAAAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 5 0.22
25 5 0.22
26 9 0.39
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (25 bp):
AGAAATGAAGAAAAACAAAAAAAAG
Found at i:56329036 original size:24 final size:22
Alignment explanation
Indices: 56328984--56329044 Score: 63
Period size: 25 Copynumber: 2.7 Consensus size: 22
56328974 TAGGAAGAAT
56328984 AAAGAAATGAAAAAAAAAAAAA
1 AAAGAAATGAAAAAAAAAAAAA
* *
56329006 AAGAGAATATGAAGAAAAACAAAGA
1 AA-AGAA-ATGAA-AAAAAAAAAAA
56329031 AAAGAAA--AAAAAAA
1 AAAGAAATGAAAAAAA
56329045 GTGTTCATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 5 0.15
21 2 0.06
22 2 0.06
23 5 0.15
24 9 0.26
25 11 0.32
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.05
Consensus pattern (22 bp):
AAAGAAATGAAAAAAAAAAAAA
Found at i:56330268 original size:29 final size:29
Alignment explanation
Indices: 56330205--56330268 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
56330195 TGACGAGATT
* *
56330205 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCAAGCTGGAAAAATAC
* *
56330234 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCAAGCTGGAAAAATAC
56330263 GGCACT
1 GGCACT
56330269 GGGTGTGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (29 bp):
GGCACTAAGTGTGCAAGCTGGAAAAATAC
Found at i:56330274 original size:29 final size:29
Alignment explanation
Indices: 56330207--56330281 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
56330197 ACGAGATTGG
* * *
56330207 CACTAAGTGTGCATGCTGGAAAAATATGA
1 CACTAGGTGTGCAAGCTGGAAAAATACGA
* *
56330236 CACTATGTGTGCAAGCTGGAAAAATACGG
1 CACTAGGTGTGCAAGCTGGAAAAATACGA
* *
56330265 CACTGGGTGTGCGAGCT
1 CACTAGGTGTGCAAGCT
56330282 CGGAGGGTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (29 bp):
CACTAGGTGTGCAAGCTGGAAAAATACGA
Found at i:56333397 original size:80 final size:80
Alignment explanation
Indices: 56333313--56333461 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
56333303 TATGGTAACC
* * * *
56333313 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
56333377 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
56333393 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
56333458 CCGG
66 CCGG
56333462 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:56333403 original size:40 final size:38
Alignment explanation
Indices: 56333354--56333461 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
56333344 ATCACGATTT
*
56333354 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
56333394 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
56333434 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
56333462 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:56340198 original size:21 final size:18
Alignment explanation
Indices: 56340160--56340212 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
56340150 GGAAGAATAA
56340160 AGAAATGAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
56340178 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAA-AAAAA-AAAG
56340199 A-AAA-GAAAAAAAAA
1 AGAAATGAAAAAAAAA
56340213 GTGTTCATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 7 0.22
19 6 0.19
20 7 0.22
21 5 0.16
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (18 bp):
AGAAATGAAAAAAAAAAG
Found at i:56341434 original size:29 final size:29
Alignment explanation
Indices: 56341371--56341434 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
56341361 TGACGAGATT
* *
56341371 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCAAGCTGGAAAAATAC
* *
56341400 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCAAGCTGGAAAAATAC
56341429 GGCACT
1 GGCACT
56341435 GGGTGTGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (29 bp):
GGCACTAAGTGTGCAAGCTGGAAAAATAC
Found at i:56341440 original size:29 final size:29
Alignment explanation
Indices: 56341373--56341447 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
56341363 ACGAGATTGG
* * *
56341373 CACTAAGTGTGCATGCTGGAAAAATATGA
1 CACTAGGTGTGCAAGCTGGAAAAATACGA
* *
56341402 CACTATGTGTGCAAGCTGGAAAAATACGG
1 CACTAGGTGTGCAAGCTGGAAAAATACGA
* *
56341431 CACTGGGTGTGCGAGCT
1 CACTAGGTGTGCAAGCT
56341448 CGGAGGGTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (29 bp):
CACTAGGTGTGCAAGCTGGAAAAATACGA
Found at i:56346388 original size:40 final size:40
Alignment explanation
Indices: 56346280--56346389 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
56346270 ATTGAATGAT
* * * * *
56346280 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
56346320 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
56346360 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
56346390 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:56346404 original size:40 final size:39
Alignment explanation
Indices: 56346280--56346429 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
56346270 ATTGAATGAT
* * * * * * *
56346280 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
56346320 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
56346360 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
56346400 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
56346430 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:56352116 original size:12 final size:12
Alignment explanation
Indices: 56352099--56352126 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
56352089 TTAGATATAT
56352099 TTATAATTATTA
1 TTATAATTATTA
56352111 TTATAATTATTA
1 TTATAATTATTA
56352123 TTAT
1 TTAT
56352127 TAGATAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATAATTATTA
Found at i:56353087 original size:5 final size:5
Alignment explanation
Indices: 56353069--56353102 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
56353059 GGATTCAGTT
56353069 TTTTC TTCTTC TTTTC TTTTC TTTTC TTTATC TT
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTT-TC TT
56353103 CATCTACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 18 0.67
6 9 0.33
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:56357106 original size:47 final size:47
Alignment explanation
Indices: 56357054--56357350 Score: 522
Period size: 47 Copynumber: 6.3 Consensus size: 47
56357044 GTACAAGATA
56357054 TATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
*
56357101 TATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTA
1 TATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
56357148 TATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
*
56357195 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
* *
56357242 TATATATGTGATAAGGCCGAGTGGCCAAGGTGATGAATGTGAAAGTC
1 TATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
* * *
56357289 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
*
56357336 TATAAATGTGATAAG
1 TATATATGTGATAAG
56357351 TCCCGAAGGG
Statistics
Matches: 240, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 240 1.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
Found at i:56359349 original size:33 final size:34
Alignment explanation
Indices: 56359312--56359407 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 34
56359302 CTATGGCCCA
*
56359312 TACTGTTATCTGAAAAGGGCTTACGGCCCAGT-T
1 TACTGTTATCTGAAAAGGGCTTACGGCCCAGTAC
56359345 TACTG-TATTCTGAAAAGGGCTT-CGGCCCAGTACC
1 TACTGTTA-TCTGAAAAGGGCTTACGGCCCAGTA-C
** *
56359379 CGCTGTTATCTGAATAGGGCTTA-GGCCCA
1 TACTGTTATCTGAAAAGGGCTTACGGCCCA
56359408 ATGGGCTTGA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
32 11 0.20
33 19 0.35
34 22 0.41
35 2 0.04
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (34 bp):
TACTGTTATCTGAAAAGGGCTTACGGCCCAGTAC
Found at i:56362113 original size:27 final size:28
Alignment explanation
Indices: 56362083--56362152 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
56362073 ATAGTGTGTC
*
56362083 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
56362110 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
56362138 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56362153 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:56366041 original size:39 final size:39
Alignment explanation
Indices: 56365987--56366149 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
56365977 TGTGAATGAA
56365987 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
56366026 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
56366065 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56366104 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
56366144 TGTGCG
1 TGTGCG
56366150 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56366165 original size:40 final size:39
Alignment explanation
Indices: 56365987--56366179 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
56365977 TGTGAATGAA
* *
56365987 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
56366026 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
56366065 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56366104 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
56366144 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
56366180 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56371426 original size:28 final size:29
Alignment explanation
Indices: 56371395--56371471 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
56371385 ATACCCTCCG
** *
56371395 AGCTCGCACACCCAGTGCCGTAT-TTTTC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
56371423 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
56371452 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
56371472 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 19 0.47
29 21 0.52
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:56377037 original size:39 final size:39
Alignment explanation
Indices: 56376983--56377145 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
56376973 TGTGAATGAA
*
56376983 TGTGCGAATTGTGATATCTGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
56377022 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
56377061 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56377100 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
56377140 TGTGCG
1 TGTGCG
56377146 GGTTACCATA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 98 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56377161 original size:40 final size:39
Alignment explanation
Indices: 56376983--56377175 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
56376973 TGTGAATGAA
* * *
56376983 TGTGCGAATTGTGATATCTGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
56377022 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
56377061 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56377100 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
56377140 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
56377176 TGTTTTGAAC
Statistics
Matches: 138, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 98 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56384311 original size:27 final size:28
Alignment explanation
Indices: 56384281--56384350 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
56384271 ATAGTGTGTC
*
56384281 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
56384308 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
56384336 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56384351 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:56386727 original size:25 final size:26
Alignment explanation
Indices: 56386693--56386741 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
56386683 TTTTACTATA
*
56386693 TTTATTATTACGA-ATATTT-TAAATT
1 TTTATGATTA-GATATATTTATAAATT
56386718 TTTATGATTAGATATATTTATAAA
1 TTTATGATTAGATATATTTATAAA
56386742 ATTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 15 0.71
26 4 0.19
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (26 bp):
TTTATGATTAGATATATTTATAAATT
Found at i:56386759 original size:15 final size:15
Alignment explanation
Indices: 56386741--56386769 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56386731 ATATTTATAA
56386741 AATTATTATTATTAT
1 AATTATTATTATTAT
56386756 AATTATTATTATTA
1 AATTATTATTATTA
56386770 GATAGGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:56387724 original size:5 final size:5
Alignment explanation
Indices: 56387706--56387737 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
56387696 GGATTCAATT
56387706 TTTTC TTCTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC T
56387738 CTTCATCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:56387734 original size:15 final size:16
Alignment explanation
Indices: 56387706--56387761 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
56387696 GGATTCAATT
56387706 TTTTCTTCTTCTTTTC
1 TTTTCTTCTTCTTTTC
56387722 TTTTCTT-TTCTTTTC
1 TTTTCTTCTTCTTTTC
* * *
56387737 TCTTCATCTAC-TTTC
1 TTTTCTTCTTCTTTTC
*
56387752 TCTTCTTCTT
1 TTTTCTTCTT
56387762 TTCCCCCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 25 0.74
16 9 0.26
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTTCTTCTTTTC
Found at i:56389121 original size:21 final size:20
Alignment explanation
Indices: 56389091--56389133 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
56389081 CATGTTTAAC
56389091 TGTTACTATT-TACTGCATGCA
1 TGTTACTATTAT-CTG-ATGCA
*
56389112 TGTTATTATTATCTGATGCA
1 TGTTACTATTATCTGATGCA
56389132 TG
1 TG
56389134 GGACTGGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 12 0.60
22 1 0.05
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (20 bp):
TGTTACTATTATCTGATGCA
Found at i:56393760 original size:28 final size:26
Alignment explanation
Indices: 56393727--56393778 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
56393717 TTTAACCATA
56393727 TATTTTCACATTTTCACAAATAAATCCC
1 TATTTT-ACATTTTCACAAA-AAATCCC
* *
56393755 TATTTTTCATTTTCACTAAAAATC
1 TATTTTACATTTTCACAAAAAATC
56393779 ACTTAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 11 0.50
28 6 0.27
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (26 bp):
TATTTTACATTTTCACAAAAAATCCC
Found at i:56398213 original size:27 final size:27
Alignment explanation
Indices: 56398182--56398257 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
56398172 ATAAATACCT
56398182 CACATAAGGGC-AAATGAGTCATCTCAC
1 CACATAAGGGCAAAAT-AGTCATCTCAC
* *
56398209 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATCTCAC
* *
56398236 CATATAAGGGTAAAATAGTCAT
1 CACATAAGGGCAAAATAGTCAT
56398258 TTTATCAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 40 0.91
28 4 0.09
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATCTCAC
Found at i:56401559 original size:40 final size:40
Alignment explanation
Indices: 56401515--56401695 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
56401505 GCTCGATTGT
* * *
56401515 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGATT-TAGTAACTCGCACAAATGC
*
56401555 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCATAAATGC
1 CTTCGGGACA-TAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
56401595 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
56401635 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
56401676 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACATAGCCCGGAT
56401696 ATCATTCGAA
Statistics
Matches: 116, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 2 0.02
40 85 0.73
41 27 0.23
42 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:56401613 original size:80 final size:81
Alignment explanation
Indices: 56401515--56401693 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 81
56401505 GCTCGATTGT
* * * *
56401515 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
* * *
56401579 TAAC-TCGCATAAATGC
65 TAACTTAGCACAAAAGC
* * *
56401595 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
56401660 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
56401676 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
56401694 ATATCATTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 58 0.68
81 27 0.32
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:56402409 original size:2 final size:2
Alignment explanation
Indices: 56402402--56402431 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56402392 ATGTACAAAC
56402402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56402432 GCTAGAGCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56407106 original size:37 final size:36
Alignment explanation
Indices: 56407056--56407142 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
56407046 TACGAAGTCT
56407056 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
56407092 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
56407129 TCACCCGGAACATA
1 T-ACCCGG-ACATA
56407143 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:56407280 original size:49 final size:49
Alignment explanation
Indices: 56407213--56407462 Score: 457
Period size: 49 Copynumber: 5.1 Consensus size: 49
56407203 TACCACATAT
* *
56407213 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
56407262 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
56407311 ATATATATACA-TTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
56407359 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
56407408 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
56407457 ATATAT
1 ATATAT
56407463 TATTATGTAC
Statistics
Matches: 195, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
48 47 0.24
49 148 0.76
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:56407346 original size:97 final size:98
Alignment explanation
Indices: 56407213--56407462 Score: 466
Period size: 97 Copynumber: 2.6 Consensus size: 98
56407203 TACCACATAT
* *
56407213 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACATTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTC
56407278 ACATTCATCACATCGGCCATTAGGCCTTATCAC
66 ACATTCATCACATCGGCCATTAGGCCTTATCAC
56407311 ATATATATACA-TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTC
56407375 ACATTCATCACATCGGCCATTAGGCCTTATCAC
66 ACATTCATCACATCGGCCATTAGGCCTTATCAC
*
56407408 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATAT
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATAT
56407463 TATTATGTAC
Statistics
Matches: 149, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
97 95 0.64
98 54 0.36
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (98 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTC
ACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:56411371 original size:79 final size:79
Alignment explanation
Indices: 56411269--56411458 Score: 326
Period size: 79 Copynumber: 2.4 Consensus size: 79
56411259 CCAGCATGAT
* * *
56411269 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAACTTAGTCCGGATAC
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAACTTAGTCCGGATAC
56411334 ATCACTAGCACGAA
66 ATCACTAGCACGAA
* *
56411348 TGCTCTTCGGAACTTAGTCCGGATACATCACAAGCACGAATGCTCTTCGAATTTAGTCCGGATAC
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAACTTAGTCCGGATAC
56411413 ATCACTAGCACGAA
66 ATCACTAGCACGAA
*
56411427 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
56411459 CTCAATTCTC
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 104 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (79 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAACTTAGTCCGGATAC
ATCACTAGCACGAA
Found at i:56411372 original size:40 final size:40
Alignment explanation
Indices: 56411269--56411458 Score: 312
Period size: 39 Copynumber: 4.8 Consensus size: 40
56411259 CCAGCATGAT
* * *
56411269 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
56411309 TGCTCTTC-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
56411348 TGCTCTTCGGAACTTAGTCCGGATACATCACAAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
56411388 TGCTCTTC-GAATTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
56411427 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
56411459 CTCAATTCTC
Statistics
Matches: 140, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 73 0.52
40 67 0.48
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:56413103 original size:49 final size:49
Alignment explanation
Indices: 56413035--56413352 Score: 546
Period size: 49 Copynumber: 6.5 Consensus size: 49
56413025 ATTCACATTA
* * * * *
56413035 GCCATTCGGCTTTACCACATATATATACACTTTCACATTCATCACGTCG
1 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
56413084 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
*
56413133 GCCATTAGGCCTTATCACATATATATACATCTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
* *
56413182 GCCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACATCA
1 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
*
56413231 GCCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
56413280 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
*
56413329 GCCATTAGGCCTCATCACATATAT
1 GCCATTAGGCCTTATCACATATAT
56413353 TATTATGTAC
Statistics
Matches: 257, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 257 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCG
Found at i:56413223 original size:27 final size:27
Alignment explanation
Indices: 56413193--56413277 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
56413183 CCATTAGGCC
56413193 TCATCACATATATATACATTTTCACAT
1 TCATCACATATATATACATTTTCACAT
* ** **
56413220 TCATCAC--AT-CAGCCATTAGGC-C--
1 TCATCACATATATATACATT-TTCACAT
56413242 TCATCACATATATATACATTTTCACAT
1 TCATCACATATATATACATTTTCACAT
56413269 TCATCACAT
1 TCATCACAT
56413278 CGGCCATTAG
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
22 7 0.17
24 9 0.22
25 9 0.22
27 16 0.39
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (27 bp):
TCATCACATATATATACATTTTCACAT
Found at i:56422085 original size:39 final size:39
Alignment explanation
Indices: 56422028--56422247 Score: 309
Period size: 39 Copynumber: 5.6 Consensus size: 39
56422018 GTTCAAAACA
* * ** *
56422028 CCTTCGGGACATAGCCCGGTTATGGTAAC-CGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
56422067 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
56422107 CCTTCGGGCTTAGCCCGTG-TATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCG-GATATCATAACTCGCACAATTG
*
56422146 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
56422185 CCTTCGGGCTTAGCCCGGGTATCATAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
56422224 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
56422248 CTCGAACATT
Statistics
Matches: 165, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 146 0.88
40 18 0.11
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.25
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:56425168 original size:25 final size:25
Alignment explanation
Indices: 56425094--56425171 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
56425084 CTCGGCCCTG
56425094 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
56425119 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
56425141 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
56425166 TCACAT
1 TCACAT
56425172 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:56425217 original size:49 final size:47
Alignment explanation
Indices: 56425043--56425455 Score: 582
Period size: 47 Copynumber: 8.7 Consensus size: 47
56425033 CCCTTCGGGA
* * * * * *
56425043 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* * *
56425090 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
56425137 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
56425184 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
56425233 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
56425282 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
56425329 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
56425378 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
56425425 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
56425456 GCGTAAAATC
Statistics
Matches: 332, Mismatches: 20, Indels: 28
0.87 0.05 0.07
Matches are distributed among these distances:
46 3 0.01
47 193 0.58
48 4 0.01
49 130 0.39
50 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:56425240 original size:96 final size:94
Alignment explanation
Indices: 56425043--56425455 Score: 616
Period size: 96 Copynumber: 4.3 Consensus size: 94
56425033 CCCTTCGGGA
* * * * * * * *
56425043 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACAC
* *
56425108 CTTCACATTCATCACATTGGCTATTCA-GC
66 CTTCACATTCATCACATCGGCCATT-AGGC
56425137 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATT-AGGCCTTATCACATATATAT
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTCA-GCCTTATCAC--ATATAT
*
56425200 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACCTTCACATTCATCACATCGGCCATTAGGC
56425233 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
56425298 ACCTTCACATTCATCACATCGGCCATTAGGC
64 ACCTTCACATTCATCACATCGGCCATTAGGC
56425329 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
56425394 ACCTTCACATTCATCACATCGGCCATTAGGC
64 ACCTTCACATTCATCACATCGGCCATTAGGC
*
56425425 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
56425456 GCGTAAAATC
Statistics
Matches: 297, Mismatches: 13, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
94 56 0.19
95 2 0.01
96 204 0.69
97 2 0.01
98 32 0.11
99 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:56429256 original size:43 final size:43
Alignment explanation
Indices: 56429195--56429498 Score: 533
Period size: 43 Copynumber: 7.1 Consensus size: 43
56429185 CCTTGCTCGA
** * *
56429195 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
56429238 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
56429281 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
56429324 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
56429367 ATCA-CGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
56429409 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
56429452 ATCA-CGGCACAAAGCCTGCTAGGCACGAA-GCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
56429493 ATCACC
1 ATCACC
56429499 AGCATGACTG
Statistics
Matches: 253, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
41 16 0.06
42 68 0.27
43 169 0.67
ACGTcount: A:0.33, C:0.32, G:0.22, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:56429424 original size:128 final size:128
Alignment explanation
Indices: 56429195--56429497 Score: 529
Period size: 128 Copynumber: 2.4 Consensus size: 128
56429185 CCTTGCTCGA
** * *
56429195 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACATATCACCGGCACAAAGCCTGCTA
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCA-CGGCACAAAGCCTGCTA
* *
56429260 GGCTCGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
65 GGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
56429324 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACGGCACAAAGCCTGCTAG
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACGGCACAAAGCCTGCTAG
56429389 GCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
66 GCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
56429452 ATCA-CGGCACAAAGCCTGCTAGGCACGAA-GCCCGAATACATATCAC
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCAC
56429498 CAGCATGACT
Statistics
Matches: 168, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
126 17 0.10
127 25 0.15
128 83 0.49
129 43 0.26
ACGTcount: A:0.33, C:0.32, G:0.22, T:0.13
Consensus pattern (128 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACATATCACGGCACAAAGCCTGCTAG
GCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:56429429 original size:85 final size:85
Alignment explanation
Indices: 56429207--56429498 Score: 532
Period size: 85 Copynumber: 3.4 Consensus size: 85
56429197 CACCGGCATT
* * *
56429207 AAGCCTGCTAAGCACGAAGACCCGAATACATATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCC
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCC
56429272 CGAATACATATCACCGGCACA
66 CGAATACATATCA-CGGCACA
*
56429293 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCC
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCC
56429358 CGAATACATATCACGGCACA
66 CGAATACATATCACGGCACA
56429378 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCC
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCC
56429443 CGAATACATATCACGGCACA
66 CGAATACATATCACGGCACA
56429463 AAGCCTGCTAGGCACGAA-GCCCGAATACATATCACC
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACC
56429499 AGCATGACTG
Statistics
Matches: 201, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
84 18 0.09
85 109 0.54
86 74 0.37
ACGTcount: A:0.33, C:0.32, G:0.22, T:0.13
Consensus pattern (85 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGCC
CGAATACATATCACGGCACA
Found at i:56434850 original size:40 final size:40
Alignment explanation
Indices: 56434800--56434905 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
56434790 GTCAGTATCA
* *
56434800 CACACTTAGTGCC-TTCTATAATGGAAGCTAT-GCCAACTCG
1 CACACTTAGTGCCATT-TATAATCGAAGCTATAGCAAACT-G
* **
56434840 CACACTTAGTGCCATTTATAGTCGAAGCTATATTAAACTG
1 CACACTTAGTGCCATTTATAATCGAAGCTATAGCAAACTG
* *
56434880 CACACTTAGTGCCAATTATAGTCGAA
1 CACACTTAGTGCCATTTATAATCGAA
56434906 TATCATTATA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
40 52 0.90
41 6 0.10
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (40 bp):
CACACTTAGTGCCATTTATAATCGAAGCTATAGCAAACTG
Found at i:56438699 original size:54 final size:54
Alignment explanation
Indices: 56438636--56438743 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
56438626 TTATTCTTGA
56438636 CAGTCACTTTATTCAACTGACGATAATCAATACACATTCTCATCGTACCGTCTT
1 CAGTCACTTTATTCAACTGACGATAATCAATACACATTCTCATCGTACCGTCTT
56438690 CAGTCACTTTATTCAACTGACGATAATCAATACACATTCTCATCGTACCGTCTT
1 CAGTCACTTTATTCAACTGACGATAATCAATACACATTCTCATCGTACCGTCTT
56438744 TCTTTTTCAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (54 bp):
CAGTCACTTTATTCAACTGACGATAATCAATACACATTCTCATCGTACCGTCTT
Found at i:56441315 original size:32 final size:34
Alignment explanation
Indices: 56441279--56441343 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
56441269 CAATAGTGGT
*
56441279 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
56441311 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
56441344 TGGCCCATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:56441500 original size:136 final size:137
Alignment explanation
Indices: 56441273--56441541 Score: 477
Period size: 136 Copynumber: 2.0 Consensus size: 137
56441263 TTCAGGCAAT
* * *
56441273 AGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
1 AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAAATA
56441338 ACAATATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGCCCATTT
66 ACAATATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
56441402 GGGTAAC
131 GGGTAAC
56441409 AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAAATA
1 AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAAATA
* * *
56441474 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCCATTT
66 ACAATATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
56441539 GGG
131 GGG
56441542 GAGACTACTC
Statistics
Matches: 126, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 104 0.83
137 22 0.17
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (137 bp):
AGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAAATA
ACAATATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
GGGTAAC
Found at i:56441826 original size:25 final size:27
Alignment explanation
Indices: 56441789--56441841 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
56441779 TCAAACATGC
56441789 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
56441815 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
56441841 A
1 A
56441842 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:56443335 original size:26 final size:26
Alignment explanation
Indices: 56443297--56443354 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
56443287 CATGATATTC
56443297 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
56443323 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
56443349 TTATCA
1 TTATCA
56443355 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:56443668 original size:29 final size:28
Alignment explanation
Indices: 56443635--56443689 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
56443625 AAGTTATACC
*
56443635 GATTTGGCTTTGGGCCATGTATATCAGCT
1 GATTTGGCTTCGGGCCATG-ATATCAGCT
56443664 GATTTGGCTTCGGGCCATGATATCAG
1 GATTTGGCTTCGGGCCATGATATCAG
56443690 TACTTCGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (28 bp):
GATTTGGCTTCGGGCCATGATATCAGCT
Found at i:56447057 original size:21 final size:21
Alignment explanation
Indices: 56447033--56447076 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
56447023 ACTCAAATTC
56447033 ATCCTAAATTTAAAATTTTGA
1 ATCCTAAATTTAAAATTTTGA
56447054 ATCCTAAATTTAAAATTTTGA
1 ATCCTAAATTTAAAATTTTGA
56447075 AT
1 AT
56447077 TATAAACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (21 bp):
ATCCTAAATTTAAAATTTTGA
Found at i:56447082 original size:21 final size:21
Alignment explanation
Indices: 56447037--56447082 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
56447027 AAATTCATCC
*
56447037 TAAATTTAAAATTTTGAATCC
1 TAAATTTAAAATTTTGAATCA
*
56447058 TAAATTTAAAATTTTGAATTA
1 TAAATTTAAAATTTTGAATCA
56447079 TAAA
1 TAAA
56447083 CATTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (21 bp):
TAAATTTAAAATTTTGAATCA
Found at i:56452123 original size:20 final size:21
Alignment explanation
Indices: 56452100--56452138 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56452090 CCTTTAAAAC
* *
56452100 AGAG-AACATGCCCGTGTGGA
1 AGAGTAACACGCCCATGTGGA
56452120 AGAGTAACACGCCCATGTG
1 AGAGTAACACGCCCATGTG
56452139 ATCATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (21 bp):
AGAGTAACACGCCCATGTGGA
Found at i:56457523 original size:29 final size:29
Alignment explanation
Indices: 56457452--56457566 Score: 144
Period size: 29 Copynumber: 4.0 Consensus size: 29
56457442 CTCACATACT
* * *
56457452 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
56457480 TGCATATGGCCCATTAGGCCCAAATTACC
1 TGTATATGGCCCATTAGGCCCAAATCACA
56457509 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
56457538 TTTATATGGCCCGTTAGGCCC-AATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
56457566 T
1 T
56457567 TCATATTCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
28 26 0.35
29 49 0.65
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:56457807 original size:16 final size:16
Alignment explanation
Indices: 56457788--56457828 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
56457778 AAACTTTCAG
56457788 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
56457804 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
56457820 -TATTTCGGC
1 CT-TTTCGGC
56457829 TTTTGCTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 1 0.04
16 23 0.96
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:56458505 original size:52 final size:52
Alignment explanation
Indices: 56458411--56458514 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
56458401 AGTGGAACAA
* * *
56458411 AGAAATCGGCACAAAGAAAATAAAAAGAAGAACAAGGATTTTTAGCTTTTAG
1 AGAAATCGGCACAAAGAAAAGAAAAAGAACAAAAAGGATTTTTAGCTTTTAG
* * * *
56458463 AGAAATCGGCAGAAAGAAAAGGAAGAA-AACAAAAAGGGTTTTTGGCTTTTAG
1 AGAAATCGGCACAAAGAAAA-GAAAAAGAACAAAAAGGATTTTTAGCTTTTAG
56458515 GGAAGAGGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 40 0.91
53 4 0.09
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.20
Consensus pattern (52 bp):
AGAAATCGGCACAAAGAAAAGAAAAAGAACAAAAAGGATTTTTAGCTTTTAG
Found at i:56462868 original size:27 final size:28
Alignment explanation
Indices: 56462806--56462877 Score: 119
Period size: 29 Copynumber: 2.6 Consensus size: 28
56462796 GTGACGAGAT
56462806 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGG-AATATA
56462835 TGGCACTAAGTGTGCGTGCTGG-ATATA
1 TGGCACTAAGTGTGCGTGCTGGAATATA
*
56462862 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
56462878 ATTTACTATG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
27 20 0.48
29 22 0.52
ACGTcount: A:0.22, C:0.15, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGTGCTGGAATATA
Found at i:56462892 original size:24 final size:24
Alignment explanation
Indices: 56462860--56462926 Score: 116
Period size: 24 Copynumber: 2.8 Consensus size: 24
56462850 GTGCTGGATA
*
56462860 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
56462884 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTCAC
56462908 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
56462927 ACATAATAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.34
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:56470750 original size:24 final size:24
Alignment explanation
Indices: 56470697--56470808 Score: 185
Period size: 24 Copynumber: 4.8 Consensus size: 24
56470687 GCTGGAAATA
56470697 TATGGCACTATGTGTGCGA--TA-
1 TATGGCACTATGTGTGCGATTTAC
56470718 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
56470742 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
56470766 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
56470790 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
56470809 ACATAATAAG
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
21 19 0.22
23 2 0.02
24 65 0.76
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:56470822 original size:48 final size:47
Alignment explanation
Indices: 56470697--56470830 Score: 182
Period size: 48 Copynumber: 2.9 Consensus size: 47
56470687 GCTGGAAATA
*
56470697 TATGGCACTATGTGTGCGATAT-AT-GGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATATAATAGGCACTATGTGTGCGATTCAC
* * *
56470742 TATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATATAATA-GGCACTATGTGTGCGATTCAC
* *
56470790 TATGGCACTATGTGTGCGAACATAATAAGCACTATGTGTGC
1 TATGGCACTATGTGTGCG-ATATAATAGGCACTATGTGTGC
56470831 CACATTCGGT
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
45 21 0.27
46 1 0.01
48 50 0.65
49 5 0.06
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (47 bp):
TATGGCACTATGTGTGCGATATAATAGGCACTATGTGTGCGATTCAC
Found at i:56470822 original size:72 final size:69
Alignment explanation
Indices: 56470697--56470830 Score: 180
Period size: 72 Copynumber: 1.9 Consensus size: 69
56470687 GCTGGAAATA
** * *
56470697 TATGGCACTATGTGTGCGATATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAT
1 TATGGCACTATGTGTGCGATATATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGAT
56470762 TTAC
66 TTAC
*
56470766 TATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATAATA-AGCACTATGTGTG
1 TATGGCACTATGTGTGCGA-T--ATATGGCACTATGTGTGCG-ACATAATATAGCACTATGTGTG
56470830 C
62 C
56470831 CACATTCGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
69 19 0.34
70 1 0.02
72 31 0.55
73 5 0.09
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (69 bp):
TATGGCACTATGTGTGCGATATATGGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGAT
TTAC
Found at i:56481093 original size:28 final size:29
Alignment explanation
Indices: 56481053--56481125 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
56481043 CCTCCGAGCT
** * *
56481053 CGCACACCCAGTGCCGTAT-TTTTCAGCT
1 CGCACACTTAGTGCCGTATATTTCCAGCA
* *
56481081 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCA
56481110 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
56481126 ATCTCGTCAC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 15 0.42
29 21 0.58
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:56483435 original size:68 final size:66
Alignment explanation
Indices: 56483363--56483534 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
56483353 CTTCATGTGT
* * * *
56483363 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
56483426 TGTAG
62 TGTAG
** * *
56483431 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
56483496 AG
65 AG
* * * *
56483498 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
56483535 AGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:56483468 original size:64 final size:64
Alignment explanation
Indices: 56483387--56483570 Score: 201
Period size: 67 Copynumber: 2.8 Consensus size: 64
56483377 AGACATTATG
* * * *
56483387 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGAGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
56483451 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGAGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
56483516 AA
63 AA
* * * *
56483518 AT-TGGCTAGGTCACATGAGTGGTACTGA-GTGTTCACCATGTATACAAGAGAGC
1 ATGTAGCTAGGTCGCATGAGTGGTACT-ATGTGTACACCATGTAGACAAGAGAGC
56483571 CGAACTACAT
Statistics
Matches: 99, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
63 20 0.20
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGAGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:56490006 original size:27 final size:27
Alignment explanation
Indices: 56489975--56490077 Score: 80
Period size: 27 Copynumber: 3.5 Consensus size: 27
56489965 GTTGGATTTA
*
56489975 AGCACTATGTGTGTGAATTAATTTCTG
1 AGCACTAAGTGTGTGAATTAATTTCTG
* * *
56490002 AGCACTAAGTGTGCGAATGTGTACGAGTTGGATTTA
1 AGCACTAAGTGTGTGAA--T-TA--A-TT---TCTG
*
56490038 AGCACTATGTGTGTGAATTAATTTCTG
1 AGCACTAAGTGTGTGAATTAATTTCTG
56490065 AGCACTAAGTGTG
1 AGCACTAAGTGTG
56490078 CGAAGTCAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
27 29 0.50
29 1 0.02
30 4 0.07
31 1 0.02
32 1 0.02
33 4 0.07
34 1 0.02
36 17 0.29
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (27 bp):
AGCACTAAGTGTGTGAATTAATTTCTG
Found at i:56490061 original size:63 final size:63
Alignment explanation
Indices: 56489957--56490081 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
56489947 TGACCATTAA
*
56489957 GTGTGCGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGAGCACTAAGTGTGCGAAT
1 GTGTACGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGAGCACTAAGTGTGCGAAT
56490020 GTGTACGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGAGCACTAAGTGTGCGAA
1 GTGTACGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGAGCACTAAGTGTGCGAA
56490082 GTCAGTTATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (63 bp):
GTGTACGAGTTGGATTTAAGCACTATGTGTGTGAATTAATTTCTGAGCACTAAGTGTGCGAAT
Found at i:56490670 original size:38 final size:38
Alignment explanation
Indices: 56490621--56490737 Score: 171
Period size: 38 Copynumber: 3.1 Consensus size: 38
56490611 TAAGAGTTCA
*
56490621 GGTTATAATCTCGCAGGCTTCGTGCTAGTCTTATATCCG
1 GGTTA-AATCTCGCAGGCTTCGTGCTGGTCTTATATCCG
56490660 GGTTAAATCTCGCAGGCTTCGTGCTGGTCTTATATCCG
1 GGTTAAATCTCGCAGGCTTCGTGCTGGTCTTATATCCG
* * * * *
56490698 GGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATTCG
1 GGTTAAATCTCGCAGGCTTCGTGCTGGTCTTATATCCG
56490736 GG
1 GG
56490738 CCTTTAGGCC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
38 67 0.93
39 5 0.07
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.33
Consensus pattern (38 bp):
GGTTAAATCTCGCAGGCTTCGTGCTGGTCTTATATCCG
Found at i:56494983 original size:30 final size:30
Alignment explanation
Indices: 56494949--56495017 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
56494939 ATGGGGATGA
56494949 CCGTGTGTCACACACGGCCTAGACACATGC
1 CCGTGTGTCACACACGGCCTAGACACATGC
56494979 CCGTGTGTCACACACGGCCTAGACACATGC
1 CCGTGTGTCACACACGGCCTAGACACATGC
56495009 CCGTGTGTC
1 CCGTGTGTC
56495018 TACCCGTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.19
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCCTAGACACATGC
Found at i:56498005 original size:42 final size:42
Alignment explanation
Indices: 56497943--56498060 Score: 146
Period size: 42 Copynumber: 2.8 Consensus size: 42
56497933 ATGTCTGTGC
* * *
56497943 CAATGCCATGTCCCAAACATGGTCTTACATGAGACCTTACAT
1 CAATGCCATGTCCCAGACATGGTCTTACATGAAACCTCACAT
* * * *
56497985 CGATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATAT
1 CAATGCCATGTCCCAGACATGGTCTTACATGAAACCTCACAT
* * *
56498027 CAATGCCATATCCTAGATATGGTCTTACATGAAA
1 CAATGCCATGTCCCAGACATGGTCTTACATGAAA
56498061 TCACATACAG
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (42 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGAAACCTCACAT
Found at i:56498010 original size:90 final size:89
Alignment explanation
Indices: 56497852--56498024 Score: 222
Period size: 90 Copynumber: 1.9 Consensus size: 89
56497842 ACATAAAATT
** * ** *
56497852 CCAAAGCCATGTCCCAAACATGGTCTTACATAGGTCTACATATTGATGGTATATCCCAGATATGG
1 CCAAAGCCATGTCCCAAACATGGTCTTACATAGACCTACA-ATCGATGCCATATCCCAGACATGG
* *
56497917 TCTTATATGAAATCTCATGTCTGTG
65 TCTTACACGAAATCTCATGTCTGTG
* *
56497942 CCAATGCCATGTCCCAAACATGGTCTTACATGAGACCTTAC-ATCGATGCCATGTCCCAGACATG
1 CCAAAGCCATGTCCCAAACATGGTCTTACAT-AGACC-TACAATCGATGCCATATCCCAGACATG
56498006 GTCTTACACGAAATCTCAT
64 GTCTTACACGAAATCTCAT
56498025 ATCAATGCCA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
90 65 0.92
91 3 0.04
92 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (89 bp):
CCAAAGCCATGTCCCAAACATGGTCTTACATAGACCTACAATCGATGCCATATCCCAGACATGGT
CTTACACGAAATCTCATGTCTGTG
Found at i:56498061 original size:42 final size:42
Alignment explanation
Indices: 56497857--56498067 Score: 145
Period size: 42 Copynumber: 4.9 Consensus size: 42
56497847 AAATTCCAAA
* * ** **
56497857 GCCATGTCCCAAACATGGTCTTACAT-AGGTCTACATATTGAT
1 GCCATATCCCAGACATGGTCTTACATGAAATCT-CATATCAAT
** * * *
56497899 GGTATATCCCAGATATGGTCTTATATGAAATCTCATGTCTGTGCCAAT
1 GCCATATCCCAGACATGGTCTTACATGAAATCTCA----TAT--CAAT
* * * * * * *
56497947 GCCATGTCCCAAACATGGTCTTACATGAGACCTTACATCGAT
1 GCCATATCCCAGACATGGTCTTACATGAAATCTCATATCAAT
* *
56497989 GCCATGTCCCAGACATGGTCTTACACGAAATCTCATATCAAT
1 GCCATATCCCAGACATGGTCTTACATGAAATCTCATATCAAT
* * *
56498031 GCCATATCCTAGATATGGTCTTACATGAAATCACATA
1 GCCATATCCCAGACATGGTCTTACATGAAATCTCATA
56498068 CAGAGGCCGA
Statistics
Matches: 127, Mismatches: 35, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
42 92 0.72
43 4 0.03
44 1 0.01
46 2 0.02
48 28 0.22
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
GCCATATCCCAGACATGGTCTTACATGAAATCTCATATCAAT
Found at i:56498145 original size:48 final size:48
Alignment explanation
Indices: 56498085--56498201 Score: 146
Period size: 48 Copynumber: 2.4 Consensus size: 48
56498075 CGACGTCATA
* * * * *
56498085 TCCCAGATATGGTCTTATAGTGGCCCA-CATATCAATGCTGATGCCATG
1 TCCCAGACATGGTCTTACACTAG-CCATCATATCAATGCCGATGCCATG
* *
56498133 TCCTAGACATGGTCTTACACTAGCTATCATATCAATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTAGCCATCATATCAATGCCGATGCCATG
*
56498181 TCCCAGACGTGGTCTTACACT
1 TCCCAGACATGGTCTTACACT
56498202 GGCTCTCATT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 2 0.03
48 57 0.97
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACACTAGCCATCATATCAATGCCGATGCCATG
Found at i:56502275 original size:49 final size:49
Alignment explanation
Indices: 56502152--56502373 Score: 335
Period size: 49 Copynumber: 4.6 Consensus size: 49
56502142 TTCGGGATTC
* * * * * *
56502152 ATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
56502199 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
56502246 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
*
56502295 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTT
1 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
56502344 ATCTCATATATATACACATTCACATTCATC
1 ATCACATATATATACACTTTCACATTCATC
56502374 GCATAAAATC
Statistics
Matches: 162, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.01
47 43 0.27
49 118 0.73
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (49 bp):
ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:56507810 original size:23 final size:23
Alignment explanation
Indices: 56507784--56507829 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
56507774 ACCTGTAGAG
*
56507784 ATTAAATAAAACT-AATCAAATTA
1 ATTAAA-AAAACTAAACCAAATTA
*
56507807 ATTAAAATAACTAAACCAAATTA
1 ATTAAAAAAACTAAACCAAATTA
56507830 CACCAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (23 bp):
ATTAAAAAAACTAAACCAAATTA
Found at i:56510917 original size:40 final size:40
Alignment explanation
Indices: 56510873--56511096 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
56510863 GCTACTCGTT
* * *
56510873 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
56510913 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
56510953 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
*
56510993 CAAATGCCTTC-GGATCTTAG-TCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
56511032 C-AATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
56511072 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56511097 CATCATTCGA
Statistics
Matches: 168, Mismatches: 10, Indels: 12
0.88 0.05 0.06
Matches are distributed among these distances:
38 18 0.11
39 35 0.21
40 108 0.64
41 7 0.04
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:56511090 original size:78 final size:80
Alignment explanation
Indices: 56510901--56511096 Score: 294
Period size: 78 Copynumber: 2.5 Consensus size: 80
56510891 AGCCCGGTTA
* *
56510901 TAGTAGCTCGCACAAATGCCTTCGGGACTTA-TCCCGGATTTAGTAACTCGCACAAATGCCTTCG
1 TAGTAACTAGCACAAATGCCTTCGGGACTTAGT-CCGGATTTAGTAACTCGCACAAATGCCTTCG
56510965 GATCTTAGTCCGGATT
65 GATCTTAGTCCGGATT
*
56510981 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CGGATTTAGTAACTCGCAC-AATGCCTTCG
1 TAGTAACTAGCACAAATGCCTTCGGGA-CTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCG
56511043 GATCTTAGTCCGGATT
65 GATCTTAGTCCGGATT
*
56511059 TAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TAGCACAAATGCCTTCGGGACTTAGTCCGGA
56511097 CATCATTCGA
Statistics
Matches: 108, Mismatches: 3, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
78 44 0.41
79 37 0.34
80 26 0.24
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (80 bp):
TAGTAACTAGCACAAATGCCTTCGGGACTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGG
ATCTTAGTCCGGATT
Found at i:56519069 original size:40 final size:40
Alignment explanation
Indices: 56519025--56519249 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
56519015 GCTACTCGTT
* * *
56519025 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
*
56519065 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
56519105 -AAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
56519144 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * *
56519184 CAATTGCCTTCGGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
56519225 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
56519250 CATCATTCGA
Statistics
Matches: 170, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
38 3 0.02
39 33 0.19
40 122 0.72
41 12 0.07
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:56524830 original size:21 final size:18
Alignment explanation
Indices: 56524785--56524832 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 18
56524775 TAACCTGATC
56524785 TTTTCT-AATTCTTTCCA
1 TTTTCTCAATTCTTTCCA
56524802 TTTCTCTCAATTCTTTTCTCA
1 TTT-TCTCAATTC-TTTC-CA
56524823 TTCTTCTCAA
1 TT-TTCTCAA
56524833 GGTTTTCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.12
18 3 0.12
19 5 0.19
20 4 0.15
21 10 0.38
22 1 0.04
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTCTCAATTCTTTCCA
Found at i:56527464 original size:23 final size:23
Alignment explanation
Indices: 56527436--56527493 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
56527426 ATCGCAGCGT
56527436 AGCTGCTAATAGTAACACAACAA
1 AGCTGCTAATAGTAACACAACAA
* *
56527459 AGCTGCTAATAGTAACGCAGCAA
1 AGCTGCTAATAGTAACACAACAA
56527482 AGCTGCTAATAG
1 AGCTGCTAATAG
56527494 CAGTAAACGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (23 bp):
AGCTGCTAATAGTAACACAACAA
Found at i:56527517 original size:27 final size:27
Alignment explanation
Indices: 56527487--56527541 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
56527477 AGCAAAGCTG
56527487 CTAATAGCAGTAA-ACGTGGC-ATAGCCA
1 CTAATAGCAG-AATACGTGGCGA-AGCCA
*
56527514 CTAATATCAGAATACGTGGCGAAGCCA
1 CTAATAGCAGAATACGTGGCGAAGCCA
56527541 C
1 C
56527542 CAGAACAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 2 0.08
27 22 0.88
28 1 0.04
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (27 bp):
CTAATAGCAGAATACGTGGCGAAGCCA
Found at i:56529061 original size:27 final size:27
Alignment explanation
Indices: 56529029--56529110 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
56529019 ATCATAAAGA
*
56529029 GCCATAAAGGCTTCATTTTCATAGTTT
1 GCCATAAAGGCTTCATTTTCATAGATT
** * *
56529056 TTCATAAATGTTTCATTTTCATAGATT
1 GCCATAAAGGCTTCATTTTCATAGATT
* *
56529083 GCCACAAAGGCTTCATTTTCATAAATT
1 GCCATAAAGGCTTCATTTTCATAGATT
56529110 G
1 G
56529111 TTTCTAGTGT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (27 bp):
GCCATAAAGGCTTCATTTTCATAGATT
Found at i:56533491 original size:46 final size:46
Alignment explanation
Indices: 56533441--56533616 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
56533431 TGGTTGAGCA
*
56533441 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56533487 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
56533532 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
56533580 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56533617 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56533597 original size:93 final size:93
Alignment explanation
Indices: 56533438--56533609 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
56533428 GGATGGTTGA
* *
56533438 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56533503 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
56533531 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
56533596 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
56533610 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56542201 original size:49 final size:49
Alignment explanation
Indices: 56542148--56542380 Score: 288
Period size: 49 Copynumber: 4.7 Consensus size: 49
56542138 CTGGTACGCA
56542148 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* ** * *
56542197 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * *
56542247 TAGTAGCCTGCACTTAGTAGTAACACACGTGATCGAAGTTA-CCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACT-ACACATGTGA-CCAA-TTATCC-GGTACACG
* * *
56542299 TAATAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
*
56542348 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
56542381 TCACAATAGA
Statistics
Matches: 152, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
49 70 0.46
50 36 0.24
51 20 0.13
52 26 0.17
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:56542316 original size:102 final size:98
Alignment explanation
Indices: 56542148--56542380 Score: 306
Period size: 102 Copynumber: 2.3 Consensus size: 98
56542138 CTGGTACGCA
* * *
56542148 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAATAGCCTACACTTA
* * *
56542213 GTACTACACATGTGACCTAACCATCTGATACACG
66 GTACTACACATGCGACC-AACAATCCGATACACG
* * * *
56542247 TAGTAGCCTGCACTTAGTAGTAACACACGTGATCGAAGTTA-CCGGGTACGCATAATAGCCTGCA
1 TAGTAGCCTGCACTTAGTACT-ACACACGTGA-CCAA-TTATCC-GGTACACATAATAGCCTACA
* *
56542311 CTTAGTACTACACATGCGACCAATAATCCGGTACACG
62 CTTAGTACTACACATGCGACCAACAATCCGATACACG
56542348 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
56542381 TCACAATAGA
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
99 21 0.18
100 19 0.16
101 37 0.32
102 39 0.34
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAATAGCCTACACTTA
GTACTACACATGCGACCAACAATCCGATACACG
Found at i:56548024 original size:27 final size:27
Alignment explanation
Indices: 56547980--56548116 Score: 193
Period size: 27 Copynumber: 5.1 Consensus size: 27
56547970 GGGTGTTACA
* *
56547980 TACCACATAAGGGAAAAACAATCATTG
1 TACCACATAAGGGCAAAACAATCATTT
* * *
56548007 TACCACATAAAGGTAAAACAGTCATTT
1 TACCACATAAGGGCAAAACAATCATTT
* *
56548034 TACCACATAAGGGCAAAATAGTCATTT
1 TACCACATAAGGGCAAAACAATCATTT
* *
56548061 TACCATATAAAGGCAAAACAATCATTT
1 TACCACATAAGGGCAAAACAATCATTT
56548088 TACCACATAAGGGCAAAACAATCATTT
1 TACCACATAAGGGCAAAACAATCATTT
56548115 TA
1 TA
56548117 TCAATTAGGG
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.24
Consensus pattern (27 bp):
TACCACATAAGGGCAAAACAATCATTT
Found at i:56553881 original size:40 final size:40
Alignment explanation
Indices: 56553837--56554050 Score: 308
Period size: 40 Copynumber: 5.3 Consensus size: 40
56553827 AGCAGCTCGG
*
56553837 ACAAATACCTTCGGGA-CTTA-TCCCGGATTTAGTAACTCAC
1 ACAAATGCCTTC-GGATCTTAGT-CCGGATTTAGTAACTCAC
56553877 ACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCAC
1 ACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCAC
* *
56553917 ACAAATGCCTTCGGATCTTAGTCCAGATTTAGTAACTCGC
1 ACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCAC
*
56553957 ACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGC
1 ACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCAC
* * * *
56553997 ATAATTGCCTTCGGATCTTAGTCTGGATTTAGTAACTTAGC
1 ACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCA-C
56554038 ACAAA-GCCTTCGG
1 ACAAATGCCTTCGG
56554051 GACTTTGCCC
Statistics
Matches: 160, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
39 3 0.02
40 152 0.95
41 5 0.03
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (40 bp):
ACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCAC
Found at i:56561432 original size:6 final size:6
Alignment explanation
Indices: 56561421--56561692 Score: 231
Period size: 6 Copynumber: 44.8 Consensus size: 6
56561411 AACCAAAATA
*
56561421 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * * *
56561469 AGTAA-C AAAATC AGAATC AGAATC AAAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
56561518 AGAATC AGTAAT- AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
56561566 AGAATC AAAATC AGAATT ACGTGA-C AGAATC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AG-AATC
* *
56561615 AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
56561663 AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
56561693 GTGAATGCAA
Statistics
Matches: 215, Mismatches: 28, Indels: 46
0.74 0.10 0.16
Matches are distributed among these distances:
5 17 0.08
6 178 0.83
7 16 0.07
8 4 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:56561520 original size:85 final size:85
Alignment explanation
Indices: 56561421--56561692 Score: 490
Period size: 85 Copynumber: 3.2 Consensus size: 85
56561411 AACCAAAATA
* *
56561421 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAAAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
* *
56561486 CAGAATCAAAATTAGGTGAC
66 CAGAATCAGAATTACGTGAC
*
56561506 AGAATCAGAATCAGAATCAGTAATAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
*
56561571 CAAAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
56561591 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
56561656 CAGAATCAGAATTACGTGAC
66 CAGAATCAGAATTACGTGAC
56561676 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
56561693 GTGAATGCAA
Statistics
Matches: 179, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 179 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTGAC
Found at i:56561865 original size:27 final size:26
Alignment explanation
Indices: 56561810--56561883 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
56561800 AGCATGGCTG
* * **
56561810 CCAGAACAGATATCGTGACAGAGTTA
1 CCAGAACAGATATTGTGGCAGAGCCA
56561836 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
56561863 CCAGAATCAGATAATGTGGCA
1 CCAGAA-CAGATATTGTGGCA
56561884 AACCCACCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:56561890 original size:27 final size:27
Alignment explanation
Indices: 56561835--56561891 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
56561825 TGACAGAGTT
* * *
56561835 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGATACAGATAATGTGGCAAACCC
56561862 ACCAGA-ATCAGATAATGTGGCAAACCC
1 ACCAGATA-CAGATAATGTGGCAAACCC
56561889 ACC
1 ACC
56561892 TAACAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (27 bp):
ACCAGATACAGATAATGTGGCAAACCC
Found at i:56562079 original size:22 final size:22
Alignment explanation
Indices: 56562031--56562089 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
56562021 GTAAGTACGT
*
56562031 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
56562053 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
56562075 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
56562090 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:56562256 original size:27 final size:26
Alignment explanation
Indices: 56562177--56562259 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
56562167 TCGATCGGTC
* * *
56562177 AACAGATATTGTGACAAAGTCACCAA
1 AACAGATATTGTGGCAAAGCCACCAG
*
56562203 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
56562230 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
56562257 AAC
1 AAC
56562260 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:56562488 original size:27 final size:27
Alignment explanation
Indices: 56562458--56562653 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
56562448 GGGGCAAAAT
* * * *
56562458 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
56562485 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56562512 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56562539 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
56562566 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56562593 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56562620 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56562647 AGTAATT
1 GGTAATT
56562654 TCACAATCAA
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:56562688 original size:27 final size:27
Alignment explanation
Indices: 56562658--56563012 Score: 464
Period size: 27 Copynumber: 13.1 Consensus size: 27
56562648 GTAATTTCAC
*
56562658 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56562685 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
56562712 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
56562739 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
56562766 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56562793 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
56562820 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56562847 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
56562874 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56562901 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
56562928 AATCGAGGGTAAAATGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56562955 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
56562982 AATCGACGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
56563009 AATC
1 AATC
56563013 AGGAGTACTT
Statistics
Matches: 292, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.01
27 286 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Done.