Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 50 of 56
Found at i:11435188 original size:48 final size:49
Alignment explanation
Indices: 11435119--11435341 Score: 308
Period size: 48 Copynumber: 4.6 Consensus size: 49
11435109 TTTTTTTCCG
* *
11435119 AAATGCACCATTATACATTTAAC-TGTCATTAGTGGCACCTTTATGCC-A
1 AAATGCACCATTATGCATTTAACTTG-CATTAGTGGCACCTTTCTGCCAA
* * **
11435167 AAATGCATCGTTATGCATTTAACTCCCATTAGTGGCACCTTTCTGCCAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
* * *
11435216 AAATACACCTTTATGCATTTAACTTGCATTAGTGGCACTTTTCTGCC-A
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
**
11435264 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCATATTTCTGCCAA
1 AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
*
11435313 AAATACACCATTATGCATTTAACTTGCAT
1 AAATGCACCATTATGCATTTAACTTGCAT
11435342 AATGGTGCAT
Statistics
Matches: 155, Mismatches: 17, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
48 84 0.54
49 71 0.46
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (49 bp):
AAATGCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAA
Found at i:11435264 original size:97 final size:97
Alignment explanation
Indices: 11435119--11435341 Score: 331
Period size: 97 Copynumber: 2.3 Consensus size: 97
11435109 TTTTTTTCCG
* * * *
11435119 AAATGCACCATTATACATTTAAC-TGTCATTAGTGGCACCTTTATGCCAAAATGCATCGTTATGC
1 AAATACACCATTATGCATTTAACTTG-CATTAGTGGCACCTTTATGCCAAAATGCACCATTATGC
*
11435183 ATTTAACTCCCATTAGTGGCACCTTTCTGCCAA
65 ATTTAACTCCCATTAGTGGCACATTTCTGCCAA
* * *
11435216 AAATACACCTTTATGCATTTAACTTGCATTAGTGGCACTTTTCTGCCAAAATGCACCATTATGCA
1 AAATACACCATTATGCATTTAACTTGCATTAGTGGCACCTTTATGCCAAAATGCACCATTATGCA
** *
11435281 TTTAACTTGCATTAGTGGCATATTTCTGCCAA
66 TTTAACTCCCATTAGTGGCACATTTCTGCCAA
11435313 AAATACACCATTATGCATTTAACTTGCAT
1 AAATACACCATTATGCATTTAACTTGCAT
11435342 AATGGTGCAT
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
97 111 0.98
98 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (97 bp):
AAATACACCATTATGCATTTAACTTGCATTAGTGGCACCTTTATGCCAAAATGCACCATTATGCA
TTTAACTCCCATTAGTGGCACATTTCTGCCAA
Found at i:11435433 original size:49 final size:49
Alignment explanation
Indices: 11435367--11435563 Score: 295
Period size: 49 Copynumber: 4.0 Consensus size: 49
11435357 GCATTGTATA
* *
11435367 AGTGGCACCTTTATGCCAAAAATGCACCATTATGCATTTAACTTGCATT
1 AGTGGCACATTTCTGCCAAAAATGCACCATTATGCATTTAACTTGCATT
* **
11435416 AGTGGCATATTTCTGCCAAAAATGCACTTTTATGCATTTAACTTGCATT
1 AGTGGCACATTTCTGCCAAAAATGCACCATTATGCATTTAACTTGCATT
* *
11435465 TGTGGCACATTTCTACCAAAAATGCACCATTATGCATTTAACTTGCATT
1 AGTGGCACATTTCTGCCAAAAATGCACCATTATGCATTTAACTTGCATT
* * * *
11435514 AGTGGCAGATTTCTTCCAAAAATGCACCATTATACATTTAACTTTCATT
1 AGTGGCACATTTCTGCCAAAAATGCACCATTATGCATTTAACTTGCATT
11435563 A
1 A
11435564 TAGTGAAGTT
Statistics
Matches: 133, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 133 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (49 bp):
AGTGGCACATTTCTGCCAAAAATGCACCATTATGCATTTAACTTGCATT
Found at i:11435512 original size:171 final size:170
Alignment explanation
Indices: 11435197--11435512 Score: 526
Period size: 171 Copynumber: 1.9 Consensus size: 170
11435187 AACTCCCATT
* *
11435197 AGTGGCACCTTTCTGCCAAAAATACACCTTTATGCATTTAACTTGCATTAGTGGCACTTTTCTGC
1 AGTGGCACCTTTATGCCAAAAATACACCATTATGCATTTAACTTGCATTAGTGGCACTTTTCTGC
* *
11435262 CAAAATGCACCATTATGCATTTAACTTGCATTAGTGGCATATTTCTGCCAAAAATACACCATTAT
66 CAAAATGCACCATTATGCATTTAACTTGCATTAGTGGCACATTTCTACCAAAAATACACCATTAT
11435327 GCATTTAACTTGCATAATGGTGCATTTTTGGCATTGTATA
131 GCATTTAACTTGCATAATGGTGCATTTTTGGCATTGTATA
*
11435367 AGTGGCACCTTTATGCCAAAAATGCACCATTATGCATTTAACTTGCATTAGTGGCA-TATTTCTG
1 AGTGGCACCTTTATGCCAAAAATACACCATTATGCATTTAACTTGCATTAGTGGCACT-TTTCTG
** * *
11435431 CCAAAAATGCACTTTTATGCATTTAACTTGCATTTGTGGCACATTTCTACCAAAAATGCACCATT
65 CC-AAAATGCACCATTATGCATTTAACTTGCATTAGTGGCACATTTCTACCAAAAATACACCATT
11435496 ATGCATTTAACTTGCAT
129 ATGCATTTAACTTGCAT
11435513 TAGTGGCAGA
Statistics
Matches: 135, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
169 1 0.01
170 61 0.45
171 73 0.54
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.35
Consensus pattern (170 bp):
AGTGGCACCTTTATGCCAAAAATACACCATTATGCATTTAACTTGCATTAGTGGCACTTTTCTGC
CAAAATGCACCATTATGCATTTAACTTGCATTAGTGGCACATTTCTACCAAAAATACACCATTAT
GCATTTAACTTGCATAATGGTGCATTTTTGGCATTGTATA
Found at i:11441403 original size:49 final size:49
Alignment explanation
Indices: 11441294--11441703 Score: 621
Period size: 49 Copynumber: 8.4 Consensus size: 49
11441284 AAATACACAG
* * *
11441294 TTATACATTTAAC-TGTCATTAGTGGCACCTTTCTACC-AAAATGCACCG
1 TTATGCATTTAACTTG-CATTAGTGGCACCTTTCTGCCAAAAATGCACCA
* ** *
11441342 TTATGCATTTAACTCGCATTAGTGGCACCTTTCTGTGAAAAATGCACCT
1 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
* * *
11441391 TTATGTATTTAACTTGCATTAGTGGCACCTTTTTG-CAAAAGTGCACCA
1 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
*
11441439 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGAACCA
1 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
*
11441488 TTATGCATTTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCACCA
1 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
*
11441537 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATACACCA
1 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
*
11441586 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCT
1 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
* * *
11441635 TTATGCATTTAACTTGCATTAGTGGCA-CTTTATGCAAAAAATACACCA
1 TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
*
11441683 TTATGCATTTAACTTTCATTA
1 TTATGCATTTAACTTGCATTA
11441704 TATAGCAGTT
Statistics
Matches: 332, Mismatches: 27, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
48 110 0.33
49 222 0.67
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (49 bp):
TTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCA
Found at i:11441570 original size:98 final size:98
Alignment explanation
Indices: 11441283--11441703 Score: 629
Period size: 97 Copynumber: 4.3 Consensus size: 98
11441273 GTTTTATGTC
* * *
11441283 AAAATACA-CAGTTATACATTTAAC-TGTCATTAGTGGCACCTTTCTACC-AAAATGCACCGTTA
1 AAAATACACCA-TTATGCATTTAACTTG-CATTAGTGGCACCTTTCTGCCAAAAATGCACCATTA
* **
11441345 TGCATTTAACTCGCATTAGTGGCACCTTTCTGTGA
64 TGCATTTAACTTGCATTAGTGGCACCTTTCTGCCA
* * * * *
11441380 AAAATGCACCTTTATGTATTTAACTTGCATTAGTGGCACCTTTTTG-CAAAAGTGCACCATTATG
1 AAAATACACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTATG
11441444 CATTTAACTTGCATTAGTGGCACCTTTCTGCCA
66 CATTTAACTTGCATTAGTGGCACCTTTCTGCCA
*
11441477 AAAATGA-ACCATTATGCATTTAACTTGCATTAGTGACACCTTTCTGCCAAAAATGCACCATTAT
1 AAAAT-ACACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTAT
11441541 GCATTTAACTTGCATTAGTGGCACCTTTCTGCCA
65 GCATTTAACTTGCATTAGTGGCACCTTTCTGCCA
*
11441575 AAAATACACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCTTTATG
1 AAAATACACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTATG
* *
11441640 CATTTAACTTGCATTAGTGGCA-CTTTATGCAA
66 CATTTAACTTGCATTAGTGGCACCTTTCTGCCA
*
11441672 AAAATACACCATTATGCATTTAACTTTCATTA
1 AAAATACACCATTATGCATTTAACTTGCATTA
11441704 TATAGCAGTT
Statistics
Matches: 296, Mismatches: 22, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
96 1 0.00
97 159 0.54
98 136 0.46
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (98 bp):
AAAATACACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCACCATTATG
CATTTAACTTGCATTAGTGGCACCTTTCTGCCA
Found at i:11446068 original size:15 final size:16
Alignment explanation
Indices: 11446043--11446072 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11446033 TATTATGACT
11446043 AATTGAATTTTGTCAA
1 AATTGAATTTTGTCAA
11446059 AATT-AATTTTGTCA
1 AATTGAATTTTGTCA
11446073 CTATTAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (16 bp):
AATTGAATTTTGTCAA
Found at i:11447271 original size:422 final size:416
Alignment explanation
Indices: 11446568--11447362 Score: 1130
Period size: 422 Copynumber: 1.9 Consensus size: 416
11446558 AATTATACTG
** *
11446568 ACAAAATATACTATCACAAAGATTTCCCTCCATATTTGTTTGCGCCAAAAAGGTCATATAGTGAC
1 ACAAAATATACTATCACAAAGATTTCCCTCCATATTTGTTTGCGCCAAAAAAATCATATAGTAAC
* *
11446633 AAATTTTGTAACTATAAGTGTTAATAATTATTACAAGAAACATTGTCACAAAAAATAATGATATT
66 AAATTTTGTAACTATAACTGTTAATAATTATTACAAAAAACATTGTCACAAAAAATAATGATATT
*** * *
11446698 CATGTTTTTGTGACAAATTATATTTGTAGTTATAAATTTTAACTATAGTGATAGCATATATTGTC
131 CACACTTTTGTGACAAATTATATTTGTAGCTATAAATTTTAACTATAGTGATAACATATATTGTC
* *
11446763 ATAACTATTTTTTCTCAACTTTTTTATTTCAAAAGTTATATTGATAATTTTTATAATTATAATTT
196 ATAAATATTTTTTCTCAACTTTTTTATTTCAAAAGTTATATTGATAAGTTTTATAATTATAATTT
* * *
11446828 ATAGTTATTGTTATAGAAAAAATTATCACATCAAATAATAAAATTCAAGTTTTTTGTAATAAATT
261 ATAGTTATTGCTATAGAAAAAATTATCACATCAAATAATAAAAATCAAGTTTTTGGTAATAAATT
11446893 ATTTTTGTACTTATATATTTTAATCATTATGAAAAATAATACTATCAAAACCATTTATCCCTATT
326 ATTTTTGTACTTATATATTTTAATCATTATGAAAAATAATACTATCAAAACCATTTATCCCTATT
11446958 TTTAGTGTCAAAAATGTTATATAGTA
391 TTTAGTGTCAAAAATGTTATATAGTA
* * * * * *
11446984 ACAAAATATATTGTCATAAAGATTTTCCTCCATATTTTTTTGTGCCAAAAAAAATCATATAGTAA
1 ACAAAATATACTATCACAAAGATTTCCCTCCATATTTGTTTGCGCC-AAAAAAATCATATAGTAA
* * *
11447049 C-AATTTTCGTAACTTTAACTGTTTATAATTATTACAAAAAAAACATTGTCACAAAAAAAATATT
65 CAAATTTT-GTAACTATAACTGTTAATAATTATTAC--AAAAAACATTGTCAC--AAAAAATAAT
* * *
11447113 GGTATTCACACTTTTGT-AGCAAATTATACTTT-TAGCTATAAGTTTTAATTATAGTGATAACAT
125 GATATTCACACTTTTGTGA-CAAATTATA-TTTGTAGCTATAAATTTTAACTATAGTGATAACAT
* * * * *
11447176 ATATTGTGATAAATA-TTTTTCTCCACTTTTTTTGTTTCAAAAATTTATATTGATAAGTTTTGTA
188 ATATTGTCATAAATATTTTTTCTCAAC-TTTTTTATTTC-AAAAGTTATATTGATAAGTTTTATA
* **
11447240 ATTATAATTTATAGTTATTGCTATAGAAAAAATTATCACATTAGCTAATAAAAATCAAGTTTTTG
251 ATTATAATTTATAGTTATTGCTATAGAAAAAATTATCACATCAAATAATAAAAATCAAGTTTTTG
* * *
11447305 GTAATCAATTATTTTTGTAGTTATATATTTTAATCATTATGAAAAATTATACTATCAA
316 GTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATAATACTATCAA
11447363 CAAAAATAAA
Statistics
Matches: 331, Mismatches: 38, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
416 46 0.14
417 40 0.12
419 14 0.04
420 11 0.03
421 81 0.24
422 139 0.42
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (416 bp):
ACAAAATATACTATCACAAAGATTTCCCTCCATATTTGTTTGCGCCAAAAAAATCATATAGTAAC
AAATTTTGTAACTATAACTGTTAATAATTATTACAAAAAACATTGTCACAAAAAATAATGATATT
CACACTTTTGTGACAAATTATATTTGTAGCTATAAATTTTAACTATAGTGATAACATATATTGTC
ATAAATATTTTTTCTCAACTTTTTTATTTCAAAAGTTATATTGATAAGTTTTATAATTATAATTT
ATAGTTATTGCTATAGAAAAAATTATCACATCAAATAATAAAAATCAAGTTTTTGGTAATAAATT
ATTTTTGTACTTATATATTTTAATCATTATGAAAAATAATACTATCAAAACCATTTATCCCTATT
TTTAGTGTCAAAAATGTTATATAGTA
Found at i:11453472 original size:2 final size:2
Alignment explanation
Indices: 11453465--11453504 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
11453455 TATGATCATG
11453465 AT AT AT AT AT 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 AT AT AT AT AT
11453505 CTTATATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11463296 original size:22 final size:22
Alignment explanation
Indices: 11463268--11463312 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
11463258 CGAACTGCTG
11463268 AGCAATGGGAGCTTTGGCTTCA
1 AGCAATGGGAGCTTTGGCTTCA
11463290 AGCAATGGGAGCTTTGGCTTCA
1 AGCAATGGGAGCTTTGGCTTCA
11463312 A
1 A
11463313 TGGGTCTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (22 bp):
AGCAATGGGAGCTTTGGCTTCA
Found at i:11465374 original size:65 final size:63
Alignment explanation
Indices: 11465194--11465402 Score: 210
Period size: 65 Copynumber: 3.2 Consensus size: 63
11465184 TGGAACCTTA
* * *
11465194 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCCAGAGTGCATCAATGCATGACTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATATATCCAG-GTGCATCGATGCATGACTG
* * * * *
11465258 GTGCATCGATACATCAAATGCATTCGATGTTTTC-ATAAAACTCTAAGTGCATCGATGCATAGTA
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAT-ATA-TCCAGGTGCATCGATGCAT-G-A
11465322 -T-
61 CTG
* *
11465323 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATGGTTGCATCGATGCATGGAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATATA-TCCA-GG-TGCATCGATGCAT-GAC
11465387 TG
62 TG
11465389 GTGCATCGATGCAT
1 GTGCATCGATGCAT
11465403 CACTTTGAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
63 7 0.06
64 32 0.27
65 61 0.51
66 18 0.15
67 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAATATATCCAGGTGCATCGATGCATGACTG
Found at i:11466096 original size:28 final size:29
Alignment explanation
Indices: 11466065--11466122 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
11466055 ATATAAATAT
11466065 TAAGTTCAAAA-ATCCATA-AAACATCAAA
1 TAAGTTCAAAACATCCA-ACAAACATCAAA
*
11466093 TAAGTTCAAAACATCCAACAACCATCAAA
1 TAAGTTCAAAACATCCAACAAACATCAAA
11466122 T
1 T
11466123 TTAAACATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.53, C:0.22, G:0.03, T:0.21
Consensus pattern (29 bp):
TAAGTTCAAAACATCCAACAAACATCAAA
Found at i:11468094 original size:21 final size:21
Alignment explanation
Indices: 11468065--11468136 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
11468055 TAAGGCGTGC
*
11468065 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACCTTCATGGTGT
* * *
11468086 ATCGATGCACATTCAAGGTGCGC
1 ATCGATGCACCTTCATGGT--GT
* *
11468109 ATCGGTGTACCTTCATGGTGT
1 ATCGATGCACCTTCATGGTGT
11468130 ATCGATG
1 ATCGATG
11468137 TACATTCAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
21 23 0.59
23 16 0.41
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (21 bp):
ATCGATGCACCTTCATGGTGT
Found at i:11468111 original size:44 final size:44
Alignment explanation
Indices: 11468042--11468145 Score: 163
Period size: 44 Copynumber: 2.4 Consensus size: 44
11468032 TGATGGATGC
* *
11468042 ATCGATGCACATTTAAGGCGTGCATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGCGCGCATCGGTGCACCTTCATGGTGT
* *
11468086 ATCGATGCACATTCAAGGTGCGCATCGGTGTACCTTCATGGTGT
1 ATCGATGCACATTCAAGGCGCGCATCGGTGCACCTTCATGGTGT
*
11468130 ATCGATGTACATTCAA
1 ATCGATGCACATTCAA
11468146 AGGGATGCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCGCGCATCGGTGCACCTTCATGGTGT
Found at i:11468138 original size:21 final size:21
Alignment explanation
Indices: 11468076--11468144 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
11468066 TCGGTGCACC
*
11468076 TTCATGGTGTATCGATGCACA
1 TTCATGGTGTATCGATGTACA
* * * *
11468097 TTCAAGGTGCGCATCGGTGTACC
1 TTCATGGT--GTATCGATGTACA
11468120 TTCATGGTGTATCGATGTACA
1 TTCATGGTGTATCGATGTACA
11468141 TTCA
1 TTCA
11468145 AAGGGATGCA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
21 21 0.57
23 16 0.43
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (21 bp):
TTCATGGTGTATCGATGTACA
Found at i:11475361 original size:20 final size:20
Alignment explanation
Indices: 11475336--11475605 Score: 108
Period size: 26 Copynumber: 11.7 Consensus size: 20
11475326 TTCATTTATG
*
11475336 GCATCCTTACATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
11475356 GCATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
* *
11475381 GGCAACCTTTTATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
11475402 GCATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
11475427 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
11475448 GCATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
* *
11475473 GGAATCCTTTCATGCATTTTAGTTAT
1 -GCATCCTTTCATGC--CTTA---AT
* *
11475499 GGAATCCTTTCATGCATTTTAGTTAT
1 -GCATCCTTTCATGC--CTTA---AT
*
11475525 GGCATCCATTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
11475546 GCATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
11475571 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
11475592 GCATCCTTTCATGC
1 GCATCCTTTCATGC
11475606 ATTTTAGTTA
Statistics
Matches: 209, Mismatches: 17, Indels: 48
0.76 0.06 0.18
Matches are distributed among these distances:
20 66 0.32
21 8 0.04
22 12 0.06
24 12 0.06
25 8 0.04
26 103 0.49
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:11475383 original size:46 final size:46
Alignment explanation
Indices: 11475331--11475631 Score: 485
Period size: 46 Copynumber: 6.4 Consensus size: 46
11475321 TTAATTTCAT
*
11475331 TTATGGCATCCTTACATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* *
11475377 TTATGGCAACCTTTTATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
11475423 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* * *
11475469 TTATGGAATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGC--CTTA---AT-GCATCCTTTCATGCATTTTAG
*
11475521 TTATGGCATCCATTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
11475567 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
11475613 TTATGGCATCCTTTCATGC
1 TTATGGCATCCTTTCATGC
11475632 ATTTTAGTTA
Statistics
Matches: 236, Mismatches: 13, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
46 189 0.80
47 2 0.01
48 3 0.01
50 3 0.01
51 2 0.01
52 37 0.16
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (46 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
Found at i:11475432 original size:26 final size:26
Alignment explanation
Indices: 11475402--11475643 Score: 304
Period size: 26 Copynumber: 10.0 Consensus size: 26
11475392 ATGCCTTAAT
11475402 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
11475428 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
11475448 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
11475474 GAATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
11475500 GAATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
* *
11475526 GCATCCATTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
11475546 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
11475572 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
11475592 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
11475618 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
11475644 AATTCATTTT
Statistics
Matches: 188, Mismatches: 10, Indels: 36
0.80 0.04 0.15
Matches are distributed among these distances:
20 41 0.22
21 6 0.03
22 9 0.05
24 9 0.05
25 6 0.03
26 117 0.62
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTAGTTATG
Found at i:11475480 original size:72 final size:72
Alignment explanation
Indices: 11475402--11475643 Score: 343
Period size: 72 Copynumber: 3.4 Consensus size: 72
11475392 ATGCCTTAAT
11475402 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
11475467 AGTTATG
66 AGTTATG
* * * *
11475474 GAATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATGCATTTTAGTTATGGCATCCATTCATG
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGC--CTTA---AT-GCATCCTTTCATG
*
11475539 C--CTTA---AT-
60 CATTTTAGTTATG
11475546 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
1 GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
11475611 AGTTATG
66 AGTTATG
11475618 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
11475644 AATTCATTTT
Statistics
Matches: 148, Mismatches: 10, Indels: 24
0.81 0.05 0.13
Matches are distributed among these distances:
66 13 0.09
67 2 0.01
68 3 0.02
70 3 0.02
71 2 0.01
72 102 0.69
73 2 0.01
74 3 0.02
76 3 0.02
77 2 0.01
78 13 0.09
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (72 bp):
GCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTT
AGTTATG
Found at i:11475618 original size:144 final size:144
Alignment explanation
Indices: 11475358--11475643 Score: 536
Period size: 144 Copynumber: 2.0 Consensus size: 144
11475348 GCCTTAATGC
* *
11475358 ATCCTTTCATGCATTTTAGTTATGGCAACCTTTTATGCCTTAATGCATCCTTTCATGCATTTTAG
1 ATCCTTTCATGCATTTTAGTTATGGCAACCATTCATGCCTTAATGCATCCTTTCATGCATTTTAG
11475423 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATGC
66 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATGC
11475488 ATTTTAGTTATGGA
131 ATTTTAGTTATGGA
*
11475502 ATCCTTTCATGCATTTTAGTTATGGCATCCATTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 ATCCTTTCATGCATTTTAGTTATGGCAACCATTCATGCCTTAATGCATCCTTTCATGCATTTTAG
*
11475567 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGCATCCTTTCATGC
66 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATGC
11475632 ATTTTAGTTATG
131 ATTTTAGTTATG
11475644 AATTCATTTT
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 138 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (144 bp):
ATCCTTTCATGCATTTTAGTTATGGCAACCATTCATGCCTTAATGCATCCTTTCATGCATTTTAG
TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGGAATCCTTTCATGC
ATTTTAGTTATGGA
Found at i:11476257 original size:96 final size:96
Alignment explanation
Indices: 11476064--11476265 Score: 241
Period size: 96 Copynumber: 2.1 Consensus size: 96
11476054 TACTACCCTG
* * *
11476064 GTATCGATACTTCTATACTATGGTACTGATACCCCCCTTTCAGTATCGATACCATTTTTATATTA
1 GTATCGATACTACTATACTATGGTACTGATACCCCCCTTTCAGTATCGATACCATTTTGACATTA
* * *
11476129 TGTGTTGCATGGTATCGATACATTTCTATCA
66 TGTGATCCATGGTATCGATACATTCCTATCA
* *
11476160 GTATCGATACTACTATACTATGGTA-TCGATA-CTCCCTTTTAGTATCGATACCATTTTGACATT
1 GTATCGATACTACTATACTATGGTACT-GATACCCCCCTTTCAGTATCGATACCATTTTGACATT
* * *
11476223 TTG-GATCCATGGTATGGATAC-TTCCCCTTGTCA
65 ATGTGATCCATGGTATCGATACATT--CC-TATCA
11476256 GTATCGATAC
1 GTATCGATAC
11476266 CCCCTCAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
93 2 0.02
94 15 0.16
95 32 0.35
96 42 0.46
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (96 bp):
GTATCGATACTACTATACTATGGTACTGATACCCCCCTTTCAGTATCGATACCATTTTGACATTA
TGTGATCCATGGTATCGATACATTCCTATCA
Found at i:11478199 original size:19 final size:19
Alignment explanation
Indices: 11478175--11478215 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11478165 AGTATCTAAA
* *
11478175 TTATCATTTTTATTTCGTT
1 TTATCACTTTTATTCCGTT
*
11478194 TTATCACTTTTGTTCCGTT
1 TTATCACTTTTATTCCGTT
11478213 TTA
1 TTA
11478216 GTATATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (19 bp):
TTATCACTTTTATTCCGTT
Found at i:11480014 original size:20 final size:19
Alignment explanation
Indices: 11479959--11480014 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
11479949 ACATATTCAA
*
11479959 GTGGTATCGATACCAAGAG
1 GTGGTATCGATACCATGAG
*
11479978 GGGAGTATCGATACCATGAG
1 GTG-GTATCGATACCATGAG
11479998 GATGGTATCGATACCAT
1 G-TGGTATCGATACCAT
11480015 TGATCATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.91
21 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (19 bp):
GTGGTATCGATACCATGAG
Found at i:11480510 original size:53 final size:52
Alignment explanation
Indices: 11480429--11480584 Score: 160
Period size: 52 Copynumber: 3.0 Consensus size: 52
11480419 ACCAAATGGA
*
11480429 ACTATGTGTGCAAACT-AGGAATTC-TACTAAGTGTATG-TTTTCGTATGGGC
1 ACTATGTGT-CAAACTAAGAAATTCATACTAAGTGTATGATTTTCGTATGGGC
* *
11480479 ACTATGTGTACAAAACTAAGAAATGCATACTAATTGTATGAATTTTC-TATGGGC
1 ACTATGTGT-C-AAACTAAGAAATTCATACTAAGTGTATG-ATTTTCGTATGGGC
* * * *
11480533 ATCAATGCGT-GAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGG
1 A-CTATGTGTCAAACTAAGAAATTCATACTAAGTGTATG-ATTTTCGTATGGG
11480585 AAATATATAC
Statistics
Matches: 89, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
50 10 0.11
51 5 0.06
52 37 0.42
53 18 0.20
54 8 0.09
55 11 0.12
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (52 bp):
ACTATGTGTCAAACTAAGAAATTCATACTAAGTGTATGATTTTCGTATGGGC
Found at i:11480945 original size:81 final size:81
Alignment explanation
Indices: 11480761--11481821 Score: 1376
Period size: 81 Copynumber: 13.1 Consensus size: 81
11480751 TTCTAAGATT
* * * * * *
11480761 AAAGATAAGTGGCCTAGCTGTACATTTGGCAGAAATGTGTCAATTATACCAGTTAGAAGAATGGT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGT
*
11480826 T-AATACCGTTGAGT-
66 TAAATACCATTGAGTA
* ** *
11480840 AAAGATAAATGGTCTAGCTGTGCATTTGGCAGAAAAATGTCAATTATGCCAGTTAAATGAACGGT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGT
*
11480905 TAAATACCATTAAGTA
66 TAAATACCATTGAGTA
* * * * * *
11480921 AAAGATAAATGGCCTAGCAGTGCATTTCGAAGAAATGTGTCAATTATACCAGTTAGATGAATGGT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGT
* *
11480986 TAAACATCATTGAGTA
66 TAAATACCATTGAGTA
* *
11481002 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTATCAATTATGCCAGTTAAATGAACGGT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGT
*
11481067 TAAATACCATTAAGTA
66 TAAATACCATTGAGTA
* * * *
11481083 AAAGATAAATGGCCTAGCTATGCATTTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAATGGT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGT
* * *
11481148 TAAACATCGTTGAGTA
66 TAAATACCATTGAGTA
* * *
11481164 AAAGATAAATGGCCTAGCTGCGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGT
11481229 TAAATA-CAGTTGAGTA
66 TAAATACCA-TTGAGTA
* * *
11481245 AAAGATAAATGTCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGAT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGT
*
11481310 TAAATACTATTGAGTA
66 TAAATACCATTGAGTA
* * * *
11481326 AAAGATAAATGGTCTAGCTTTGCATTTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGGT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGT
*
11481391 TAAATACCGTTGAGTA
66 TAAATACCATTGAGTA
* * *
11481407 AAAGATAAATGGCGTAGATGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGT
**
11481472 TAAATACTGTTGAGTA
66 TAAATACCATTGAGTA
* * * * *
11481488 AAAGATAAATGGCCTAGTTATGCATTTGGCAGAAATGTGTCAATTATTCCAGTTAGATGAACGAT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGT
***
11481553 TAAATATTGTTGAGTA
66 TAAATACCATTGAGTA
* * *
11481569 AAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTTAATTATGCCAGTTAGATGAACGGT
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGT
* *
11481634 TAAATATCGTTGAGTA
66 TAAATACCATTGAGTA
* * * * *
11481650 AAATATTAATGGCCTAGATGTGAATTTGGCA-AGAAGGTGTCAATTATGCCTGTTAGATGAACGG
1 AAAGATAAATGGCCTAGCTGTGCATTTGGCAGA-AAGGTGTCAATTATGCCAGTTAGATGAACGG
* *
11481714 TTAAATATCATTTAGTA
65 TTAAATACCATTGAGTA
* * * * *
11481731 CAAA-ATAAATGGCCTAGCTGTGTATTTGGCAGAAAAGTGTCAATCATGCAAGTTAGATGAAAGG
1 -AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGG
* * *
11481795 TTAAATGCCTTTGGGTA
65 TTAAATACCATTGAGTA
11481812 AAAGACTAAA
1 AAAGA-TAAA
11481822 GGAATTATAA
Statistics
Matches: 859, Mismatches: 114, Indels: 15
0.87 0.12 0.02
Matches are distributed among these distances:
79 57 0.07
80 16 0.02
81 777 0.90
82 9 0.01
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (81 bp):
AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGT
TAAATACCATTGAGTA
Found at i:11485927 original size:20 final size:19
Alignment explanation
Indices: 11485872--11485927 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
11485862 CATATTTCAA
*
11485872 GTGGTATCGATACCAAGAG
1 GTGGTATCGATACCATGAG
*
11485891 GGGAGTATCGATACCATGAG
1 GTG-GTATCGATACCATGAG
11485911 GATGGTATCGATACCAT
1 G-TGGTATCGATACCAT
11485928 TGATCACTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.91
21 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (19 bp):
GTGGTATCGATACCATGAG
Found at i:11486442 original size:54 final size:54
Alignment explanation
Indices: 11486344--11486541 Score: 186
Period size: 54 Copynumber: 3.6 Consensus size: 54
11486334 ACCAAATGGA
* *
11486344 ACTATGTGTGCAAAACTAAGGAATTAATACTAAGTGTATGAATTTTCGTATGGGC
1 ACTATGTGT-CAAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGC
* * *
11486399 ACTATGTGTACAAAACTAA-AAATGCATACTAATTGTATGAATTTTCGTATAGGC
1 ACTATGTGT-CAAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGC
* * * * *
11486453 AGTCAATGCGT--GAACTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGA
1 A--CTATGTGTCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGC
* * * * * *
11486507 AATATATATACAAAAATAAGAAGTTCATAATAAGT
1 ACTATGTGT-CAAAACTAAGAAATTCATACTAAGT
11486542 AGGTGAATTT
Statistics
Matches: 114, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
52 3 0.03
53 6 0.05
54 62 0.54
55 37 0.32
56 6 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (54 bp):
ACTATGTGTCAAAACTAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGC
Found at i:11486830 original size:81 final size:81
Alignment explanation
Indices: 11486695--11487759 Score: 1432
Period size: 81 Copynumber: 13.1 Consensus size: 81
11486685 ATTCTAAGAT
* * * * * *
11486695 TAAAAGATAAGTGGCCTAGCTGTACATTTGGCAGAAATGTGTCAATTATACCAGTTAGAAGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
11486760 GTTAAATACCGTTGAG
66 GTTAAATACCGTTGAG
* *
11486776 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAAATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* *
11486841 GTTAAATACCATTAAG
66 GTTAAATACCGTTGAG
* * * * * *
11486857 TAAAAGATAAATGGCCTAGCAGTGCATTTCGAAGAAATGTGTCAATTATACCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* * *
11486922 GTTAAACATCATTGAG
66 GTTAAATACCGTTGAG
* * *
11486938 TAAAAGATAAATGGCCTAGTTGTGCATTTGGCAGAAAGGTATCAATTATGCCAGTTAAATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* *
11487003 GTTAAATACCATTAAG
66 GTTAAATACCGTTGAG
* * *
11487019 TAAAAGATAAATGGCCTAGCTGTGCATTTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* * *
11487084 GTTAAACATCATTGAG
66 GTTAAATACCGTTGAG
** * *
11487100 TAAAAGATAAATGGCCTAGCTACGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
*
11487165 GTTAAATACAGTTGAG
66 GTTAAATACCGTTGAG
* * *
11487181 TAAAAGATAAATGTCCTAGTTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* *
11487246 ATTAAATACCGTTTAG
66 GTTAAATACCGTTGAG
* * * * *
11487262 TAAAAGATAAATGGTCTAGCTTTGCATTTGGTAGAAATGTATCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
11487327 GTTAAATACCGTTGAG
66 GTTAAATACCGTTGAG
* * *
11487343 TAAAAGATAAATGGCGTAGATGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
*
11487408 GTTAAATACTGTTGAG
66 GTTAAATACCGTTGAG
* * *
11487424 TAAAAGATAAATGGCCTAGCTATGCATTTGGCAGAAATGTGTCAATTATTCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* **
11487489 ATTAAATATTGTTGAG
66 GTTAAATACCGTTGAG
* * *
11487505 TAAAAGATTAATGGCCTAGATGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
*
11487570 GTTAAATATCGTTGAG
66 GTTAAATACCGTTGAG
* * * *
11487586 TAAAATATTAATGGCCTAGATGTGCATTTGGCA-AGAAGGTGTCAATTATGCCTGTTAGATGAAC
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGA-AAGGTGTCAATTATGCCAGTTAGATGAAC
* *
11487650 GGTTAAATATCATTGAG
65 GGTTAAATACCGTTGAG
* * * * *
11487667 TACAAA-ATAAATGGCCTAGCTGTGTATTTGGCAGAAAAGTGTCAATCATGCAAGTTAGATGAAA
1 TA-AAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAC
* * *
11487731 GGTTAAATGCCTTTGGG
65 GGTTAAATACCGTTGAG
11487748 TAAAAGACTAAA
1 TAAAAGA-TAAA
11487760 GGAATTATAA
Statistics
Matches: 866, Mismatches: 113, Indels: 9
0.88 0.11 0.01
Matches are distributed among these distances:
80 4 0.00
81 854 0.99
82 8 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.30
Consensus pattern (81 bp):
TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
GTTAAATACCGTTGAG
Found at i:11491855 original size:20 final size:18
Alignment explanation
Indices: 11491809--11491863 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
11491799 ACCTATTCAA
11491809 GTGGTATCGATACCAATAG
1 GTGGTATCGATACC-ATAG
*
11491828 GGGAGTATCGATACCATGAG
1 GTG-GTATCGATACCAT-AG
*
11491848 GATGGTATTGATACCA
1 G-TGGTATCGATACCA
11491864 GTTCTGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 4 0.13
20 25 0.83
21 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (18 bp):
GTGGTATCGATACCATAG
Found at i:11491957 original size:116 final size:116
Alignment explanation
Indices: 11491753--11491979 Score: 445
Period size: 116 Copynumber: 2.0 Consensus size: 116
11491743 GAATAGTACC
11491753 GATACTATAGGCTTAAAATCAGTAGAATCTGTTGAGTAATATCGATACCTATTCAAGTGGTATCG
1 GATACTATAGGCTTAAAATCAGTAGAATCTGTTGAGTAATATCGATACCTATTCAAGTGGTATCG
*
11491818 ATACCAATAGGGGAGTATCGATACCATGAGGATGGTATTGATACCAGTTCT
66 ATACCAATAGGGGAGTATCGATACCATGAGGATGGTATCGATACCAGTTCT
11491869 GATACTATAGGCTTAAAATCAGTAGAATCTGTTGAGTAATATCGATACCTATTCAAGTGGTATCG
1 GATACTATAGGCTTAAAATCAGTAGAATCTGTTGAGTAATATCGATACCTATTCAAGTGGTATCG
11491934 ATACCAATAGGGGAGTATCGATACCATGAGGATGGTATCGATACCA
66 ATACCAATAGGGGAGTATCGATACCATGAGGATGGTATCGATACCA
11491980 TTGATCACAT
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 110 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (116 bp):
GATACTATAGGCTTAAAATCAGTAGAATCTGTTGAGTAATATCGATACCTATTCAAGTGGTATCG
ATACCAATAGGGGAGTATCGATACCATGAGGATGGTATCGATACCAGTTCT
Found at i:11491971 original size:20 final size:18
Alignment explanation
Indices: 11491925--11491980 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 18
11491915 ACCTATTCAA
11491925 GTGGTATCGATACCAATAG
1 GTGGTATCGATACC-ATAG
*
11491944 GGGAGTATCGATACCATGAG
1 GTG-GTATCGATACCAT-AG
11491964 GATGGTATCGATACCAT
1 G-TGGTATCGATACCAT
11491981 TGATCACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 4 0.12
20 27 0.84
21 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (18 bp):
GTGGTATCGATACCATAG
Found at i:11492045 original size:22 final size:22
Alignment explanation
Indices: 11492020--11492074 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
11492010 GTCGTACTAG
11492020 AGTATCGATACAATAGTATAGT
1 AGTATCGATACAATAGTATAGT
*
11492042 AGTATCAATACAATAGTATAGT
1 AGTATCGATACAATAGTATAGT
11492064 AGTATCGATAC
1 AGTATCGATAC
11492075 CATGGTGGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (22 bp):
AGTATCGATACAATAGTATAGT
Found at i:11492807 original size:81 final size:81
Alignment explanation
Indices: 11492672--11493548 Score: 1140
Period size: 81 Copynumber: 11.1 Consensus size: 81
11492662 ATTCTAAGAT
** * * *
11492672 TAAAAGATACGTGGCATAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTAAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
11492737 GTTAAATACCGTTGAG
66 GTTAAATACCGTTGAG
* *
11492753 TAAAAGATAAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
11492818 GTTAAATACCGTTGAG
66 GTTAAATACCGTTGAG
* ** * * * *
11492834 TAAAAGATAAATGGCCTAGTTGTGCATTTTCCAGAAATGTGTCAATTATGCTAGTTAGATAAACA
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
*
11492899 GTTAAATACTGTTGAG
66 GTTAAATACCGTTGAG
* * * *
11492915 TGAAAGATAAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAAGTATGCCAGTTAGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
11492980 GTTAAATACCGTTGAG
66 GTTAAATACCGTTGAG
* * *
11492996 TAAAAGATAAATGGTCTAGCCGTGCATTTGGCAGAAAGGCGTCAATTATGCC----------A--
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
11493049 GTTAAATACCGTTGAG
66 GTTAAATACCGTTGAG
*
11493065 TAAAAGATAAATGGACTAGCT-TGCATTTGGCAGAAAGGTGTCAATTATGCCAGTT--A--AA--
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
11493123 --T--AT--CGTTGAG
66 GTTAAATACCGTTGAG
11493133 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
*
11493198 GTTAAATACTGTTGAG
66 GTTAAATACCGTTGAG
* * *
11493214 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAG-TGGATGAATG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
11493278 GTTAAATACCGTTGAG
66 GTTAAATACCGTTGAG
* *
11493294 TAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
11493359 GTTAAATACCGTTGAG
66 GTTAAATACCGTTGAG
* * * * *
11493375 TAAAATATTAATGGCCTAGTTGTGCATTTGGCAGGAAGGTGTCAATTATACCAGTTAGATGAACG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
*
11493440 GTTAAATACCGTTAAG
66 GTTAAATACCGTTGAG
* * * * ** * * *
11493456 TAAAAGATAAATGGCATAGTTGTGCATTTGGCAGAAAAGTATCAAACATGCAAGTTAGATAAAAG
1 TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
* * *
11493521 GTTAAATGCCTTTGGG
66 GTTAAATACCGTTGAG
11493537 TAAAAGACTAAA
1 TAAAAGA-TAAA
11493549 GGAATTATAA
Statistics
Matches: 706, Mismatches: 69, Indels: 41
0.87 0.08 0.05
Matches are distributed among these distances:
68 56 0.08
69 69 0.10
70 2 0.00
71 2 0.00
72 1 0.00
73 2 0.00
74 1 0.00
77 1 0.00
79 2 0.00
80 74 0.10
81 492 0.70
82 4 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (81 bp):
TAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG
GTTAAATACCGTTGAG
Found at i:11493390 original size:161 final size:162
Alignment explanation
Indices: 11493117--11493548 Score: 623
Period size: 161 Copynumber: 2.7 Consensus size: 162
11493107 AATTATGCCA
*
11493117 GTTAAATATCGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAT
1 GTTAAATACCGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAT
*
11493182 GCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCA
66 GCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCA
* * * *
11493247 GAAATGTGTCAATTATGCCAG-TGGATGAATG
131 GAAAGGTGTCAATTATACCAGTTAGATGAACG
* *
11493278 GTTAAATACCGTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTAT
1 GTTAAATACCGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAT
* * *
11493343 GCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAATATTAATGGCCTAGTTGTGCATTTGGCA
66 GCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCA
*
11493408 GGAAGGTGTCAATTATACCAGTTAGATGAACG
131 GAAAGGTGTCAATTATACCAGTTAGATGAACG
* * * * * **
11493440 GTTAAATACCGTTAAGTAAAAGATAAATGGCATAGTTGTGCATTTGGCAGAAAAGTATCAAACAT
1 GTTAAATACCGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAT
* * * * * *
11493505 GCAAGTTAGATAAAAGGTTAAATGCCTTTGGGTAAAAGACTAAA
66 GCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGA-TAAA
11493549 GGAATTATAA
Statistics
Matches: 240, Mismatches: 29, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
161 141 0.59
162 96 0.40
163 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (162 bp):
GTTAAATACCGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAT
GCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATAAATGGCCTAGCTGTGCATTTGGCA
GAAAGGTGTCAATTATACCAGTTAGATGAACG
Found at i:11496259 original size:18 final size:18
Alignment explanation
Indices: 11496212--11496282 Score: 97
Period size: 18 Copynumber: 3.8 Consensus size: 18
11496202 GCGTAGAATT
*
11496212 TGTCCCGAAGGACCATGTAGA
1 TGTCCCGAAGGACCA-CT--A
*
11496233 TGTCTCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
11496251 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
11496269 TGTCCCGAAGGACC
1 TGTCCCGAAGGACC
11496283 GCGTAGACCC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
18 32 0.68
20 1 0.02
21 14 0.30
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:11497292 original size:64 final size:67
Alignment explanation
Indices: 11497219--11497365 Score: 176
Period size: 68 Copynumber: 2.2 Consensus size: 67
11497209 CCCTTAACAT
* *
11497219 GTGCATCGATGCACTACC-CATGCATAGATACAC-AAAT-CA-CCTTCGATGTTTTCATTTTAAA
1 GTGCATCGATGCACT-CCTCATGCATAGATACACTAAATGCATCATTCGATGTTTCCATTTTAAA
11497280 GGG
65 GGG
* * * * *
11497283 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCATTCGATGTTTCCATTTTTAA
1 GTGCATCGATGCACTCCTCATGCATAGATACACTAAATGCA-TCATTCGATGTTTCCATTTTAAA
*
11497348 TGG
65 GGG
11497351 GTGCATCGATGCACT
1 GTGCATCGATGCACT
11497366 TTCTGTGCAT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 2 0.03
64 27 0.39
65 3 0.04
66 2 0.03
68 36 0.51
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (67 bp):
GTGCATCGATGCACTCCTCATGCATAGATACACTAAATGCATCATTCGATGTTTCCATTTTAAAG
GG
Found at i:11498672 original size:2 final size:2
Alignment explanation
Indices: 11498667--11498698 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
11498657 TATGTGTGAA
*
11498667 AT AT AT AA 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 AT
11498699 GAAAGAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11504901 original size:14 final size:14
Alignment explanation
Indices: 11504884--11504949 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
11504874 TGTGTTTGTA
11504884 TTTTATTTATTTAT
1 TTTTATTTATTTAT
11504898 TTTTATTTATTTAT
1 TTTTATTTATTTAT
* * *
11504912 TATTA-TTAGTTCT
1 TTTTATTTATTTAT
* *
11504925 TATTATTTTTTTAT
1 TTTTATTTATTTAT
11504939 TACTTTATTTA
1 T--TTTATTTA
11504950 ACATTTTTCC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
13 11 0.27
14 24 0.59
16 6 0.15
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTATTTATTTAT
Found at i:11505028 original size:36 final size:36
Alignment explanation
Indices: 11504953--11505028 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
11504943 TTATTTAACA
* *
11504953 TTTTTCCTTTGATTTATTTAATATATATTTTTTTCT
1 TTTTTCCTTTGATTTATATAATATATATTTTTATCT
*
11504989 TTTTTCCTTTGATTTATATAATATTTATTTATTAT-T
1 TTTTTCCTTTGATTTATATAATATATATTT-TTATCT
11505025 TTTT
1 TTTT
11505029 GACTTTTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 33 0.92
37 3 0.08
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.70
Consensus pattern (36 bp):
TTTTTCCTTTGATTTATATAATATATATTTTTATCT
Found at i:11505453 original size:19 final size:19
Alignment explanation
Indices: 11505421--11505460 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
11505411 AAAATAGTAA
*
11505421 ATTTAGATTTTAATTTATTT
1 ATTTAGATTCTAA-TTATTT
11505441 ATTT-GATTCTAATTATTT
1 ATTTAGATTCTAATTATTT
11505459 AT
1 AT
11505461 CTTTGATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (19 bp):
ATTTAGATTCTAATTATTT
Found at i:11508993 original size:147 final size:147
Alignment explanation
Indices: 11508763--11509221 Score: 765
Period size: 147 Copynumber: 3.1 Consensus size: 147
11508753 GATGGTGGTT
*
11508763 GCTCAACTTCACAGCGTAGGAGCGTCTGTCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATT
1 GCTCAACTTCACAGCGAAGGAGCGTCTGTCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATT
*
11508828 TCAACTTCACAACAAAGGATATTGGACTCGAAACAACACAAGATTGGATTTCAACTTCACAACGA
66 TCAACTTCACAACGAAGGATATTGGACTCGAAACAACACAAGATTGGATTTCAACTTCACAACGA
*
11508893 ATTATATCCAATTCAAA
131 ATGATATCCAATTCAAA
* **
11508910 TCTCAACTTCACAGAAAAGGAGCGTCTGTCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATT
1 GCTCAACTTCACAGCGAAGGAGCGTCTGTCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATT
***
11508975 TCAACTTCACGGTGAAGGATATTGGACTCGAAACAACACAAGATTGGATTTCAACTTCACAACGA
66 TCAACTTCACAACGAAGGATATTGGACTCGAAACAACACAAGATTGGATTTCAACTTCACAACGA
11509040 ATGATATCCAATTCAAA
131 ATGATATCCAATTCAAA
*
11509057 GCTCAACTTCACAGCGAAGGAGCGTCTATCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATT
1 GCTCAACTTCACAGCGAAGGAGCGTCTGTCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATT
* * * *
11509122 TCAACTTCACAACGAAGGATATTAGACTCGAAATAACGCAAGATTGGATTTCAACTTCACAATGA
66 TCAACTTCACAACGAAGGATATTGGACTCGAAACAACACAAGATTGGATTTCAACTTCACAACGA
* *
11509187 AGGATATCCAATTTAAA
131 ATGATATCCAATTCAAA
*
11509204 GCTCAACTTCACAACGAA
1 GCTCAACTTCACAGCGAA
11509222 TGAGTCATCC
Statistics
Matches: 289, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 289 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.25
Consensus pattern (147 bp):
GCTCAACTTCACAGCGAAGGAGCGTCTGTCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATT
TCAACTTCACAACGAAGGATATTGGACTCGAAACAACACAAGATTGGATTTCAACTTCACAACGA
ATGATATCCAATTCAAA
Found at i:11509302 original size:121 final size:121
Alignment explanation
Indices: 11509165--11509799 Score: 871
Period size: 121 Copynumber: 5.2 Consensus size: 121
11509155 TAACGCAAGA
* * *
11509165 TTGGATTTCAACTTCACAATGAAGGATATCCAATTTAAAGCTCAACTTCACAACGAATGAGTCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
** *
11509230 CCACGATTTCAACTTCACGACGAAGGATGA-CGTGCCCACAATCATCAATGCAACCC
66 CCACGATTTCAACTTCACGACGAAGGAT-ATCGTGCCCACAAGAAGCAATGCAACCC
* * ** * *
11509286 TTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAATATTAACTTCACAACGAATGAGTCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
* * * * * *
11509351 CCACGATTTCAACTTTACGACGAATGATATCGTGCCCATAAGGAGAAATACAACCC
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGAAGCAATGCAACCC
* * *
11509407 TTTGATTTCAACTTCATAACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
** * * *
11509472 CCATAATTTCAACTTCACGACGAAAGATATTGTGCCCACAAGAAACAATGCAACCC
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGAAGCAATGCAACCC
* * *
11509528 TTGTATTTCAACTTCACGACGAAGGATATCCAATTCAAAGATCAACTTCACAACGAATGAGCCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
* *
11509593 CCATGATTTCAACTTCACGACGAATGATATCGTGCCCACAAGAAGCAATGCAACCC
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGAAGCAATGCAACCC
* * * *
11509649 TTGGATTTCAACTTCACGACGAAGGATATCCAAATCAAAGCACAACTTCACAACGAATGAGCTAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
* * * *
11509714 CCACGATTTCAACTTCACAACAAAGGATATCGTACCCACAA-ACAGCAATGCAACCT
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGA-AGCAATGCAACCC
11509770 TTGGATTTCAACTTCACGAA-GAAGGATATC
1 TTGGATTTCAACTTCAC-AACGAAGGATATC
11509800 ATGTCCACAA
Statistics
Matches: 457, Mismatches: 54, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
120 2 0.00
121 454 0.99
122 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (121 bp):
TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
CCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGAAGCAATGCAACCC
Found at i:11509543 original size:55 final size:54
Alignment explanation
Indices: 11509477--11509853 Score: 166
Period size: 55 Copynumber: 6.5 Consensus size: 54
11509467 GCCATCCATA
* *
11509477 ATTTCAACTTCACGACGAAAGATATTGTGCCCACAAGAAACAATGCAACCCTTG
1 ATTTCAACTTCACGACGAAGGATATAGTGCCCACAAGAAACAATGCAACCCTTG
* * ** * * * *
11509531 TATTTCAACTTCACGACGAAGGATATCCAATTCAAAGATCAACTTCACAACGAATGAGCCATCCA
1 -ATTTCAACTTCACGACGAAGGATAT--AGTGC--CCA-CAA---GA-AAC-AAT--GCAACCCT
11509596 TG
53 TG
* * *
11509598 ATTTCAACTTCACGACGAATGATATCGTGCCCACAAGAAGCAATGCAACCCTTGG
1 ATTTCAACTTCACGACGAAGGATATAGTGCCCACAAGAAACAATGCAACCCTT-G
* * * * * *
11509653 ATTTCAACTTCACGACGAAGGATATCCAAAT-CAAAGCACAACTTCACAACGAATGAGCTATCCA
1 ATTTCAACTTCACGACGAAGGATAT---AGTGC---CCACAA---GA-AAC-AAT--GCAACCCT
*
11509717 CG
53 TG
* * * * * *
11509719 ATTTCAACTTCACAACAAAGGATATCGTACCCACAA-ACAGCAATGCAACCTTTGG
1 ATTTCAACTTCACGACGAAGGATATAGTGCCCACAAGA-AACAATGCAACCCTT-G
* * * *
11509774 ATTTCAACTTCACGAAGAAGGATATCA-TGTCCACAAGCAGCAATGCAACCCTTGG
1 ATTTCAACTTCACGACGAAGGATAT-AGTGCCCACAAGAAACAATGCAACCCTT-G
* *
11509829 ATTTCAACTTCATGGCGAAGGATAT
1 ATTTCAACTTCACGACGAAGGATAT
11509854 CTAATTCAAA
Statistics
Matches: 239, Mismatches: 53, Indels: 60
0.68 0.15 0.17
Matches are distributed among these distances:
54 10 0.04
55 117 0.49
56 6 0.03
57 9 0.04
58 2 0.01
59 1 0.00
60 8 0.03
61 8 0.03
62 1 0.00
63 3 0.01
64 8 0.03
65 6 0.03
66 48 0.20
67 12 0.05
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (54 bp):
ATTTCAACTTCACGACGAAGGATATAGTGCCCACAAGAAACAATGCAACCCTTG
Found at i:11509608 original size:66 final size:65
Alignment explanation
Indices: 11509532--11510161 Score: 190
Period size: 55 Copynumber: 10.4 Consensus size: 65
11509522 CAACCCTTGT
*
11509532 ATTTCAACTTCACGACGAAGGATATCCAATTCAAAGATCAACTTCACAACGAATGAGCCATCCAT
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAAGA-CAACTTCACAACGAATGAGCAATCCAT
11509597 G
65 G
* * * ** * * * *
11509598 ATTTCAACTTCACGACGAATGATAT-C-GTGC--CCACAA---GA-AGC-AAT--GCAACCCTTG
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAAGACAACTTCACAACGAATGAGCAATCCAT-
11509652 G
65 G
* * *
11509653 ATTTCAACTTCACGACGAAGGATATCCAAATCAAAGCACAACTTCACAACGAATGAGCTATCCAC
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAAG-ACAACTTCACAACGAATGAGCAATCCAT
11509718 G
65 G
* * * *** * *
11509719 ATTTCAACTTCACAACAAAGGATAT-C--GT-ACCCACAA----ACAGC-AAT--GCAA-CCTTT
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAAGACAACTTCACAACGAATGAGCAATCC-AT
11509772 GG
65 -G
* * * * * *
11509774 ATTTCAACTTCACGAAGAAGGATAT-C-ATGTC---CACAA----GCAGC-AAT--GCAACCCTT
1 ATTTCAACTTCACGACGAAGGATATCCAAT-TCAAAGACAACTTCACAACGAATGAGCAATCCAT
11509827 GG
65 -G
* * * * * *
11509829 ATTTCAACTTCATGGCGAAGGATATCTAATTCAAAGCTCAACTTCACAATGAATGAGCCATCCAT
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAAG-ACAACTTCACAACGAATGAGCAATCCAT
11509894 G
65 G
* * ** * * *
11509895 ATTTCAACTTCACGACGAAGGATAT-C-GTGC--CCACAA----GCAGC-AAT--GCAATCCTTG
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAAGACAACTTCACAACGAATGAGCAATCCAT-
11509949 G
65 G
* * * * * *
11509950 ATTTCAACTTCACGATGAAGGATATCTAATTCAAAGCTCAACTTCATAACGAATGAGCCATCCAC
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAAG-ACAACTTCACAACGAATGAGCAATCCAT
11510015 G
65 G
** * * * * * *
11510016 ATTTCAACTTCACGATAAAGGATAT-C-GTTC-----C--CATAAGCAGC-AAT--GCAACCCTT
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAAGACAACTTCA-CAACGAATGAGCAATCCAT
11510069 GG
65 -G
* * *
11510071 ATTTCAACTTCACGATGAAGGATATCCAATTCAAAG-CTAAACTTCATAACGAATGAGCCATCCA
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAAGAC--AACTTCACAACGAATGAGCAATCCA
*
11510135 TA
64 TG
*
11510137 ATTTTAACTTCACGACGAAGGATAT
1 ATTTCAACTTCACGACGAAGGATAT
11510162 AGTTCCTAAC
Statistics
Matches: 406, Mismatches: 98, Indels: 120
0.65 0.16 0.19
Matches are distributed among these distances:
53 2 0.00
54 21 0.05
55 141 0.35
56 21 0.05
57 19 0.05
58 2 0.00
60 10 0.02
61 11 0.03
62 2 0.00
63 2 0.00
64 15 0.04
65 17 0.04
66 120 0.30
67 23 0.06
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (65 bp):
ATTTCAACTTCACGACGAAGGATATCCAATTCAAAGACAACTTCACAACGAATGAGCAATCCATG
Found at i:11509810 original size:297 final size:297
Alignment explanation
Indices: 11509477--11510096 Score: 979
Period size: 297 Copynumber: 2.1 Consensus size: 297
11509467 GCCATCCATA
* * ** *
11509477 ATTTCAACTTCACGACGAAAGATATTGTGCCCACAAGAAACAATGCAACCCTTGTATTTCAACTT
1 ATTTCAACTTCACGAAGAAGGATATCATGCCCACAAGAAACAATGCAACCCTTGGATTTCAACTT
11509542 CACGACGAAGGATATCCAATTCAAAGATCAACTTCACAACGAATGAGCCATCCATGATTTCAACT
66 CACGACGAAGGATATCCAATTCAAAGATCAACTTCACAACGAATGAGCCATCCATGATTTCAACT
*
11509607 TCACGACGAATGATATCGTGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACTTCACGACGAA
131 TCACGACGAAGGATATCGTGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACTTCACGACGAA
*
11509672 GGATATCCAAATCAAAGCACAACTTCACAACGAATGAGCTATCCACGATTTCAACTTCACAACAA
196 GGATATCCAAATCAAAGCACAACTTCACAACGAATGAGCCATCCACGATTTCAACTTCACAACAA
*
11509737 AGGATATCGTACCCACAAACAGCAATGCAACCTTTGG
261 AGGATATCGTACCCACAAACAGCAATGCAACCCTTGG
* * *
11509774 ATTTCAACTTCACGAAGAAGGATATCATGTCCACAAGCAGCAATGCAACCCTTGGATTTCAACTT
1 ATTTCAACTTCACGAAGAAGGATATCATGCCCACAAGAAACAATGCAACCCTTGGATTTCAACTT
* * * * *
11509839 CATGGCGAAGGATATCTAATTCAAAGCTCAACTTCACAATGAATGAGCCATCCATGATTTCAACT
66 CACGACGAAGGATATCCAATTCAAAGATCAACTTCACAACGAATGAGCCATCCATGATTTCAACT
* * *
11509904 TCACGACGAAGGATATCGTGCCCACAAGCAGCAATGCAATCCTTGGATTTCAACTTCACGATGAA
131 TCACGACGAAGGATATCGTGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACTTCACGACGAA
* * * * * *
11509969 GGATATCTAATTCAAAGCTCAACTTCATAACGAATGAGCCATCCACGATTTCAACTTCACGATAA
196 GGATATCCAAATCAAAGCACAACTTCACAACGAATGAGCCATCCACGATTTCAACTTCACAACAA
* * *
11510034 AGGATATCGTTCCCATAAGCAGCAATGCAACCCTTGG
261 AGGATATCGTACCCACAAACAGCAATGCAACCCTTGG
*
11510071 ATTTCAACTTCACGATGAAGGATATC
1 ATTTCAACTTCACGAAGAAGGATATC
11510097 CAATTCAAAG
Statistics
Matches: 294, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
297 294 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (297 bp):
ATTTCAACTTCACGAAGAAGGATATCATGCCCACAAGAAACAATGCAACCCTTGGATTTCAACTT
CACGACGAAGGATATCCAATTCAAAGATCAACTTCACAACGAATGAGCCATCCATGATTTCAACT
TCACGACGAAGGATATCGTGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACTTCACGACGAA
GGATATCCAAATCAAAGCACAACTTCACAACGAATGAGCCATCCACGATTTCAACTTCACAACAA
AGGATATCGTACCCACAAACAGCAATGCAACCCTTGG
Found at i:11509818 original size:176 final size:176
Alignment explanation
Indices: 11509597--11509975 Score: 580
Period size: 176 Copynumber: 2.2 Consensus size: 176
11509587 AGCCATCCAT
* * *
11509597 GATTTCAACTTCACGACGAATGATATCGTGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACT
1 GATTTCAACTTCACGAAGAAGGATATCATGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACT
*
11509662 TCACGACGAAGGATATCCAAATCAAAGCACAACTTCACAACGAATGAGCTATCCACGATTTCAAC
66 TCACGACGAAGGATATCCAAATCAAAGCACAACTTCACAACGAATGAGCCATCCACGATTTCAAC
11509727 TTCACAACAAAGGATATCGTACCCACAAACAGCAATGCAA-CCTTTG
131 TTCACAACAAAGGATATCGTACCCACAAACAGCAATGCAATCC-TTG
* *
11509773 GATTTCAACTTCACGAAGAAGGATATCATGTCCACAAGCAGCAATGCAACCCTTGGATTTCAACT
1 GATTTCAACTTCACGAAGAAGGATATCATGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACT
* * * * * * *
11509838 TCATGGCGAAGGATATCTAATTCAAAGCTCAACTTCACAATGAATGAGCCATCCATGATTTCAAC
66 TCACGACGAAGGATATCCAAATCAAAGCACAACTTCACAACGAATGAGCCATCCACGATTTCAAC
* * * *
11509903 TTCACGACGAAGGATATCGTGCCCACAAGCAGCAATGCAATCCTTG
131 TTCACAACAAAGGATATCGTACCCACAAACAGCAATGCAATCCTTG
*
11509949 GATTTCAACTTCACGATGAAGGATATC
1 GATTTCAACTTCACGAAGAAGGATATC
11509976 TAATTCAAAG
Statistics
Matches: 184, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
176 182 0.99
177 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (176 bp):
GATTTCAACTTCACGAAGAAGGATATCATGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACT
TCACGACGAAGGATATCCAAATCAAAGCACAACTTCACAACGAATGAGCCATCCACGATTTCAAC
TTCACAACAAAGGATATCGTACCCACAAACAGCAATGCAATCCTTG
Found at i:11509898 original size:121 final size:121
Alignment explanation
Indices: 11509773--11510161 Score: 602
Period size: 121 Copynumber: 3.2 Consensus size: 121
11509763 GCAACCTTTG
*
11509773 GATTTCAACTTCACGAAGAAGGATATCATGTCCACAAGCAGCAATGCAACCCTTGGATTTCAACT
1 GATTTCAACTTCACGAAGAAGGATATCGTGTCCACAAGCAGCAATGCAACCCTTGGATTTCAACT
* ** * *
11509838 TCATGGCGAAGGATATCTAATTCAAAGCTCAACTTCACAATGAATGAGCCATCCAT
66 TCACGATGAAGGATATCTAATTCAAAGCTCAACTTCATAACGAATGAGCCATCCAT
* * *
11509894 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAGCAATGCAATCCTTGGATTTCAACT
1 GATTTCAACTTCACGAAGAAGGATATCGTGTCCACAAGCAGCAATGCAACCCTTGGATTTCAACT
*
11509959 TCACGATGAAGGATATCTAATTCAAAGCTCAACTTCATAACGAATGAGCCATCCAC
66 TCACGATGAAGGATATCTAATTCAAAGCTCAACTTCATAACGAATGAGCCATCCAT
*
11510015 GATTTCAACTTCACGATA-AAGGATATCGT-TCCCATAAGCAGCAATGCAACCCTTGGATTTCAA
1 GATTTCAACTTCACGA-AGAAGGATATCGTGT-CCACAAGCAGCAATGCAACCCTTGGATTTCAA
* *
11510078 CTTCACGATGAAGGATATCCAATTCAAAGCTAAACTTCATAACGAATGAGCCATCCAT
64 CTTCACGATGAAGGATATCTAATTCAAAGCTCAACTTCATAACGAATGAGCCATCCAT
* * *
11510136 AATTTTAACTTCACGACGAAGGATAT
1 GATTTCAACTTCACGAAGAAGGATAT
11510162 AGTTCCTAAC
Statistics
Matches: 245, Mismatches: 20, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
121 245 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (121 bp):
GATTTCAACTTCACGAAGAAGGATATCGTGTCCACAAGCAGCAATGCAACCCTTGGATTTCAACT
TCACGATGAAGGATATCTAATTCAAAGCTCAACTTCATAACGAATGAGCCATCCAT
Found at i:11510011 original size:418 final size:418
Alignment explanation
Indices: 11509355--11510161 Score: 1220
Period size: 418 Copynumber: 1.9 Consensus size: 418
11509345 AGTCATCCAC
* * * * * * *
11509355 GATTTCAACTTTACGACGAATGATATCGTGCCCATAAGGAGAAATACAACCCTTTGATTTCAACT
1 GATTTCAACTTCACGAAGAAGGATATCATGCCCACAAGCAGAAATACAACCCTTGGATTTCAACT
11509420 TCATAACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCATAATTTCAAC
66 TCATAACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCATAATTTCAAC
* *
11509485 TTCACGACGAAAGATATTGTGCCCACAAGAAACAATGCAACCCTTGTATTTCAACTTCACGACGA
131 TTCACGACGAAAGATATCGTGCCCACAAGAAACAATGCAACCCTTGGATTTCAACTTCACGACGA
* *
11509550 AGGATATCCAATTCAAAGATCAACTTCACAACGAATGAGCCATCCATGATTTCAACTTCACGACG
196 AGGATATCCAATTCAAAGATCAACTTCACAACGAATGAGCCATCCACGATTTCAACTTCACGACA
*
11509615 AATGATATCGTGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCC
261 AAGGATATCGTGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCC
* *
11509680 AAATCAAAGC-ACAACTTCACAACGAATGAGCTATCCACGATTTCAACTTCACAACAAAGGATAT
326 AAATCAAAGCTA-AACTTCACAACGAATGAGCCATCCACAATTTCAACTTCACAACAAAGGATAT
11509744 CGTACCCACAAACAGCAATGCAACCTTTG
390 CGTACCCACAAACAGCAATGCAACCTTTG
* * *
11509773 GATTTCAACTTCACGAAGAAGGATATCATGTCCACAAGCAGCAATGCAACCCTTGGATTTCAACT
1 GATTTCAACTTCACGAAGAAGGATATCATGCCCACAAGCAGAAATACAACCCTTGGATTTCAACT
** * * * *
11509838 TCATGGCGAAGGATATCTAATTCAAAGCTCAACTTCACAATGAATGAGCCATCCATGATTTCAAC
66 TCATAACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCATAATTTCAAC
* * * * *
11509903 TTCACGACGAAGGATATCGTGCCCACAAGCAGCAATGCAATCCTTGGATTTCAACTTCACGATGA
131 TTCACGACGAAAGATATCGTGCCCACAAGAAACAATGCAACCCTTGGATTTCAACTTCACGACGA
* * * *
11509968 AGGATATCTAATTCAAAGCTCAACTTCATAACGAATGAGCCATCCACGATTTCAACTTCACGATA
196 AGGATATCCAATTCAAAGATCAACTTCACAACGAATGAGCCATCCACGATTTCAACTTCACGACA
* * * *
11510033 AAGGATATCGTTCCCATAAGCAGCAATGCAACCCTTGGATTTCAACTTCACGATGAAGGATATCC
261 AAGGATATCGTGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCC
* * * * * *
11510098 AATTCAAAGCTAAACTTCATAACGAATGAGCCATCCATAATTTTAACTTCACGACGAAGGATAT
326 AAATCAAAGCTAAACTTCACAACGAATGAGCCATCCACAATTTCAACTTCACAACAAAGGATAT
11510162 AGTTCCTAAC
Statistics
Matches: 346, Mismatches: 42, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
418 345 1.00
419 1 0.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (418 bp):
GATTTCAACTTCACGAAGAAGGATATCATGCCCACAAGCAGAAATACAACCCTTGGATTTCAACT
TCATAACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCATAATTTCAAC
TTCACGACGAAAGATATCGTGCCCACAAGAAACAATGCAACCCTTGGATTTCAACTTCACGACGA
AGGATATCCAATTCAAAGATCAACTTCACAACGAATGAGCCATCCACGATTTCAACTTCACGACA
AAGGATATCGTGCCCACAAGAAGCAATGCAACCCTTGGATTTCAACTTCACGACGAAGGATATCC
AAATCAAAGCTAAACTTCACAACGAATGAGCCATCCACAATTTCAACTTCACAACAAAGGATATC
GTACCCACAAACAGCAATGCAACCTTTG
Found at i:11510375 original size:85 final size:85
Alignment explanation
Indices: 11510232--11510414 Score: 251
Period size: 85 Copynumber: 2.2 Consensus size: 85
11510222 TGCATTATAA
* * *
11510232 CTCAAGGCGAGAAGGATTATCTGTCAACCAAGACCCTCGAGTTCGATTACACTCAGCTC-CGAGG
1 CTCAAGGCGAGAAGGACTATCTGTCAACCAAGACCCTCGAGTTCAATTACACTCAGCTCAAG-GG
11510296 CACATCAAATTTACAGCATAG
65 CACATCAAATTTACAGCATAG
* * *
11510317 CTCAAGGCGAGAGGGGCTATCTGTCAACCAAGACCTTCGAGTTCAATTACACTCAGCTCAAGGGC
1 CTCAAGGCGAGAAGGACTATCTGTCAACCAAGACCCTCGAGTTCAATTACACTCAGCTCAAGGGC
** *
11510382 ATGTCAAATTTGCAGCATAG
66 ACATCAAATTTACAGCATAG
* *
11510402 CTTAAGTCGAGAA
1 CTCAAGGCGAGAA
11510415 AAGCTATCTA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 84 0.99
86 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (85 bp):
CTCAAGGCGAGAAGGACTATCTGTCAACCAAGACCCTCGAGTTCAATTACACTCAGCTCAAGGGC
ACATCAAATTTACAGCATAG
Found at i:11510442 original size:85 final size:85
Alignment explanation
Indices: 11510232--11510460 Score: 203
Period size: 85 Copynumber: 2.7 Consensus size: 85
11510222 TGCATTATAA
* * * * * * *
11510232 CTCAAGGCGAG-AAGGATTATCTGTCAACCAAGACCCTCGAGTTCGATTACACTCAGCTCCGAGG
1 CTCAAGGCGAGAAAAG-CTATCTATCAACCAAAAACTTCGAGTTCGATTACACTCAGCTCAGAGG
11510296 CACATCAAATTTACAGCATAG
65 CACATCAAATTTACAGCATAG
*** * * * *
11510317 CTCAAGGCGAGAGGGGCTATCTGTCAACCAAGACCTTCGAGTTCAATTACACTCAGCTCA-AGGG
1 CTCAAGGCGAGAAAAGCTATCTATCAACCAAAAACTTCGAGTTCGATTACACTCAGCTCAGA-GG
** *
11510381 CATGTCAAATTTGCAGCATAG
65 CACATCAAATTTACAGCATAG
* * * * * *
11510402 CTTAAGTCGAGAAAAGCTATCTATTAA-CAAAAATTATCGAGTTCGATTATATTCAGCTC
1 CTCAAGGCGAGAAAAGCTATCTATCAACCAAAAACT-TCGAGTTCGATTACACTCAGCTC
11510461 GATGACACAT
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
84 6 0.05
85 111 0.93
86 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (85 bp):
CTCAAGGCGAGAAAAGCTATCTATCAACCAAAAACTTCGAGTTCGATTACACTCAGCTCAGAGGC
ACATCAAATTTACAGCATAG
Found at i:11512290 original size:15 final size:16
Alignment explanation
Indices: 11512270--11512310 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
11512260 AGTATGCTTT
11512270 TATTTTATTTAT-TTA
1 TATTTTATTTATATTA
*
11512285 TATTTTATTTATATTT
1 TATTTTATTTATATTA
11512301 TATTATTATT
1 TATT-TTATT
11512311 ATTAGTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.52
16 6 0.26
17 5 0.22
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTATTTATATTA
Found at i:11512293 original size:11 final size:11
Alignment explanation
Indices: 11512267--11512304 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
11512257 TTTAGTATGC
11512267 TTTTATTT-TA
1 TTTTATTTATA
11512277 -TTTATTTATA
1 TTTTATTTATA
11512287 TTTTATTTATA
1 TTTTATTTATA
11512298 TTTTATT
1 TTTTATT
11512305 ATTATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 7 0.27
10 2 0.08
11 17 0.65
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATTTATA
Found at i:11512299 original size:6 final size:5
Alignment explanation
Indices: 11512267--11512334 Score: 57
Period size: 6 Copynumber: 12.4 Consensus size: 5
11512257 TTTAGTATGC
11512267 TTTTA TTTTA -TTTA TTTATA TTTTA TTTATA TTTTA TTATTA TTATTA
1 TTTTA TTTTA TTTTA TTT-TA TTTTA TTT-TA TTTTA TT-TTA TT-TTA
*
11512315 GTTCTTA TTATTT TTTTA TT
1 -TT-TTA TT-TTA TTTTA TT
11512335 ACTTTATTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
4 4 0.07
5 20 0.37
6 25 0.46
7 5 0.09
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:11512307 original size:19 final size:18
Alignment explanation
Indices: 11512269--11512333 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
11512259 TAGTATGCTT
11512269 TTATTTTATT-TA-TTTA
1 TTATTTTATTATATTTTA
11512285 -TATTTTATTTATATTTTA
1 TTATTTTA-TTATATTTTA
*
11512303 TTATTATTATTAGT-TCTTA
1 TTATT-TTATTA-TATTTTA
*
11512322 TTATTTTTTTAT
1 TTATTTTATTAT
11512334 TACTTTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
15 7 0.17
16 2 0.05
17 3 0.07
18 9 0.22
19 16 0.39
20 4 0.10
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (18 bp):
TTATTTTATTATATTTTA
Found at i:11512310 original size:11 final size:10
Alignment explanation
Indices: 11512267--11512334 Score: 57
Period size: 11 Copynumber: 6.2 Consensus size: 10
11512257 TTTAGTATGC
11512267 TTTTATTTTA
1 TTTTATTTTA
11512277 -TTTATTTATA
1 TTTTATTT-TA
11512287 TTTTATTTATA
1 TTTTATTT-TA
11512298 TTTTATTATTA
1 TTTTATT-TTA
11512309 TTATTAGTTCTTA
1 TT-TTA-TT-TTA
*
11512322 TTATTTTTTTA
1 TT-TTATTTTA
11512333 TT
1 TT
11512335 ACTTTATTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
9 7 0.14
10 2 0.04
11 26 0.51
12 6 0.12
13 10 0.20
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:11512402 original size:11 final size:11
Alignment explanation
Indices: 11512274--11512403 Score: 59
Period size: 11 Copynumber: 12.5 Consensus size: 11
11512264 TGCTTTTATT
11512274 TTATTTATTTA
1 TTATTTATTTA
11512285 -TATTTTATTTA
1 TTA-TTTATTTA
11512296 -TA--T-TTTA
1 TTATTTATTTA
11512303 TTA-TTA-TTA
1 TTATTTATTTA
* *
11512312 TTAGTT-CTTA
1 TTATTTATTTA
*
11512322 TTATTTTTTTA
1 TTATTTATTTA
11512333 TTACTTTATTTA
1 TTA-TTTATTTA
**
11512345 ACATTT-TTTA
1 TTATTTATTTA
* *
11512355 TTTTTTATCT-
1 TTATTTATTTA
11512365 TT-TTTATCCTT-
1 TTATTTAT--TTA
*
11512376 TTATTTATATA
1 TTATTTATTTA
*
11512387 ATATTTATTTA
1 TTATTTATTTA
11512398 TTATTT
1 TTATTT
11512404 TTTGACTTTT
Statistics
Matches: 92, Mismatches: 14, Indels: 26
0.70 0.11 0.20
Matches are distributed among these distances:
7 4 0.04
8 3 0.03
9 12 0.13
10 22 0.24
11 38 0.41
12 13 0.14
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.70
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:11513093 original size:2 final size:2
Alignment explanation
Indices: 11513086--11513128 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
11513076 GTTTTTCTAA
11513086 AT AT AT AT AT AT 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 AT AT AT AT AT AT
11513128 A
1 A
11513129 ATAATGACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11514206 original size:39 final size:43
Alignment explanation
Indices: 11514143--11514225 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 43
11514133 TAGTTTTTAG
* *
11514143 AAAACGGTTATTTTGAAAACATATA-A-TATATACTTTTTAAA
1 AAAACGGTTATTTCGAAAACATATATATTATATACTTTTGAAA
* *
11514184 AAAACGG-T-TTTCGAAAATATATATATTATATAGTTTTGAAA
1 AAAACGGTTATTTCGAAAACATATATATTATATACTTTTGAAA
11514225 A
1 A
11514226 TGGTATTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 13 0.36
40 2 0.06
41 21 0.58
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.39
Consensus pattern (43 bp):
AAAACGGTTATTTCGAAAACATATATATTATATACTTTTGAAA
Found at i:11514245 original size:38 final size:38
Alignment explanation
Indices: 11514197--11514330 Score: 155
Period size: 38 Copynumber: 3.5 Consensus size: 38
11514187 ACGGTTTTCG
*
11514197 AAAATATATATATTATATAGTTTTGAAAATGGTATTCA
1 AAAATATATATATTATATAGTTTTGAAAATAGTATTCA
* * * *
11514235 AAAATATATATAATATATAGTTTTGAAAATATTTTTGA
1 AAAATATATATATTATATAGTTTTGAAAATAGTATTCA
*
11514273 AAATATATATATATTATATAGTTTTGAATATA-TATAT-A
1 AAA-ATATATATATTATATAGTTTTGAAAATAGTAT-TCA
* *
11514311 TATATATATATATATATATA
1 AAAATATATATAT-TATATA
11514331 TATATATATA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
37 10 0.12
38 46 0.55
39 27 0.33
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.46
Consensus pattern (38 bp):
AAAATATATATATTATATAGTTTTGAAAATAGTATTCA
Found at i:11514282 original size:2 final size:2
Alignment explanation
Indices: 11514275--11514340 Score: 84
Period size: 2 Copynumber: 33.5 Consensus size: 2
11514265 ATTTTTGAAA
*
11514275 AT AT AT AT AT AT -T AT AT AGT -T TT GA- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT AT AT AT AT AT AT AT
11514316 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
11514341 GTTTTTGAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
1 3 0.05
2 54 0.93
3 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11514366 original size:38 final size:38
Alignment explanation
Indices: 11514324--11514726 Score: 174
Period size: 38 Copynumber: 10.6 Consensus size: 38
11514314 ATATATATAT
*
11514324 ATATATATATATATATAGTTTTTGAAAATATTTTAAAA
1 ATATATATATATATATAGTTTTTGAAAATATTTTGAAA
* *
11514362 ATATAT-TTTAATATATAGTTTTTAAAAATATTTTGAAA
1 ATATATATAT-ATATATAGTTTTTGAAAATATTTTGAAA
* * * * *
11514400 ACATATATTTAGTATATAGTTTTCGGAAACATTTTGAATA
1 ATATATATATA-TATATAGTTTTTGAAAATATTTTGAA-A
* **
11514440 TATATATATATATATATA-TATAATATATAGTTTTTAAAAAATATTTTGAA
1 -ATATATATATATATATAGT-T--T-T-T-G-----AAAATAT-TTTGAAA
* * * *
11514490 A-ACATATATATAATATA-TAGTTTTTGAAAATATTTTAAAA
1 ATATATATATAT-ATATAGT-TTTTG--AAAATATTTTGAAA
*
11514530 ATATATATATAATATATAGTTTTTAAAAATATTTTGAAA
1 ATATATATATA-TATATAGTTTTTGAAAATATTTTGAAA
*
11514569 ATATATATA-ATA-A-A-----T---AGT--TTTGAAA
1 ATATATATATATATATAGTTTTTGAAAATATTTTGAAA
*
11514594 ATATATATA-ATATATAG-TTTTGAAAATACTGTTGAAA
1 ATATATATATATATATAGTTTTTGAAAATA-TTTTGAAA
11514631 ATATATAT-TATATA-A--TTTT-AAAATAATTTTTGAAA
1 ATATATATATATATATAGTTTTTGAAAAT-A-TTTTGAAA
* * * *
11514666 ATATATTTAT-TATAT-GGTTTTGAAAACAATTTTTAAAA
1 ATATATATATATATATAGTTTTTGAAAA-TA-TTTTGAAA
*
11514704 ACATATATATGATATATAGTTTT
1 ATATATATAT-ATATATAGTTTT
11514727 AAAAATGATT
Statistics
Matches: 284, Mismatches: 37, Indels: 85
0.70 0.09 0.21
Matches are distributed among these distances:
25 19 0.07
26 1 0.00
27 3 0.01
30 1 0.00
31 1 0.00
34 7 0.02
35 24 0.08
36 3 0.01
37 27 0.10
38 60 0.21
39 48 0.17
40 19 0.07
41 36 0.13
42 3 0.01
43 1 0.00
45 2 0.01
46 1 0.00
47 1 0.00
48 9 0.03
49 8 0.03
50 6 0.02
51 4 0.01
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (38 bp):
ATATATATATATATATAGTTTTTGAAAATATTTTGAAA
Found at i:11514369 original size:13 final size:13
Alignment explanation
Indices: 11514351--11514409 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 13
11514341 GTTTTTGAAA
11514351 ATATTTTAAAAAT
1 ATATTTTAAAAAT
*
11514364 ATATTTT-AATAT
1 ATATTTTAAAAAT
11514376 ATAGTTTTTAAAAAT
1 ATA--TTTTAAAAAT
*
11514391 AT-TTTGAAAACAT
1 ATATTTTAAAA-AT
11514404 ATATTT
1 ATATTT
11514410 AGTATATAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
12 14 0.37
13 11 0.29
14 7 0.18
15 6 0.16
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (13 bp):
ATATTTTAAAAAT
Found at i:11514444 original size:2 final size:2
Alignment explanation
Indices: 11514437--11514468 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11514427 AACATTTTGA
11514437 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11514469 GTTTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11514489 original size:91 final size:89
Alignment explanation
Indices: 11514361--11514547 Score: 277
Period size: 91 Copynumber: 2.1 Consensus size: 89
11514351 ATATTTTAAA
* * *
11514361 AATATAT-TTTAATATATAGTTTTTAAAAATATTTTGAAAACATATATTTAGTATATAGTTTTCG
1 AATATATATATAATATATAGTTTTTAAAAATATTTTGAAAACATATATATAATATATAGTTTTCG
* * *
11514425 GAAACATTTTGAATATATATATAT
66 AAAACATTTTAAAAATATATATAT
11514449 ATATATATATATAATATATAGTTTTTAAAAAATATTTTGAAAACATATATATAATATATAGTTTT
1 A-ATATATATATAATATATAGTTTTT-AAAAATATTTTGAAAACATATATATAATATATAGTTTT
* *
11514514 TGAAAATATTTTAAAAATATATATAT
64 CGAAAACATTTTAAAAATATATATAT
11514540 AATATATA
1 AATATATA
11514548 GTTTTTAAAA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
88 1 0.01
89 6 0.07
90 23 0.26
91 58 0.66
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (89 bp):
AATATATATATAATATATAGTTTTTAAAAATATTTTGAAAACATATATATAATATATAGTTTTCG
AAAACATTTTAAAAATATATATAT
Found at i:11514520 original size:39 final size:38
Alignment explanation
Indices: 11514453--11514599 Score: 215
Period size: 39 Copynumber: 3.8 Consensus size: 38
11514443 ATATATATAT
11514453 ATATATATAATATATAGTTTTTAAAAAATATTTTGAAAA
1 ATATATATAATATATAGTTTTT-AAAAATATTTTGAAAA
* *
11514492 CATATATATAATATATAGTTTTTGAAAATATTTTAAAAA
1 -ATATATATAATATATAGTTTTTAAAAATATTTTGAAAA
11514531 TATATATATAATATATAGTTTTTAAAAATATTTTG-AAA
1 -ATATATATAATATATAGTTTTTAAAAATATTTTGAAAA
* *
11514569 ATATATATAATAAATAGTTTTGAAAATATAT
1 ATATATATAATATATAGTTTTTAAAA-ATAT
11514600 ATAATATATA
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
37 24 0.24
38 7 0.07
39 46 0.46
40 22 0.22
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.44
Consensus pattern (38 bp):
ATATATATAATATATAGTTTTTAAAAATATTTTGAAAA
Found at i:11514594 original size:25 final size:25
Alignment explanation
Indices: 11514556--11514621 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
11514546 TAGTTTTTAA
11514556 AAATA-TTTTGAAAATATATATAAT
1 AAATAGTTTTGAAAATATATATAAT
11514580 AAATAGTTTTGAAAATATATATAAT
1 AAATAGTTTTGAAAATATATATAAT
*
11514605 ATATAGTTTTGAAAATA
1 AAATAGTTTTGAAAATA
11514622 CTGTTGAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
24 5 0.12
25 35 0.88
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.41
Consensus pattern (25 bp):
AAATAGTTTTGAAAATATATATAAT
Found at i:11514621 original size:37 final size:37
Alignment explanation
Indices: 11514580--11514739 Score: 155
Period size: 37 Copynumber: 4.3 Consensus size: 37
11514570 TATATATAAT
*
11514580 AAATAGTTTTGAAAATATATATAATATATAGTTTTGA
1 AAATATTTTTGAAAATATATATAATATATAGTTTTGA
* * *
11514617 AAATACTGTTGAAAATATATAT--TATATAATTTT-A
1 AAATATTTTTGAAAATATATATAATATATAGTTTTGA
* * *
11514651 AAATAATTTTTGAAAATATATTTATTATATGGTTTTGA
1 AAAT-ATTTTTGAAAATATATATAATATATAGTTTTGA
* * * *
11514689 AAACAATTTTTAAAAACATATATATGATATATAGTTTTAA
1 AAA-TATTTTT-GAAA-ATATATATAATATATAGTTTTGA
11514729 AAATGATTTTT
1 AAAT-ATTTTT
11514740 CATTTTATTA
Statistics
Matches: 99, Mismatches: 16, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
34 5 0.05
35 25 0.25
37 29 0.29
38 10 0.10
39 3 0.03
40 27 0.27
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (37 bp):
AAATATTTTTGAAAATATATATAATATATAGTTTTGA
Found at i:11514797 original size:18 final size:18
Alignment explanation
Indices: 11514769--11514818 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
11514759 TTAATATTAA
11514769 TATTA-TTTATTTTTATT
1 TATTATTTTATTTTTATT
**
11514786 TATTATTTTATTAATATT
1 TATTATTTTATTTTTATT
* *
11514804 TTTTATTTGATTTTT
1 TATTATTTTATTTTT
11514819 GTTTTAGGTC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (18 bp):
TATTATTTTATTTTTATT
Found at i:11514816 original size:12 final size:11
Alignment explanation
Indices: 11514771--11514818 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 11
11514761 AATATTAATA
11514771 TTATTTA-TTT
1 TTATTTATTTT
11514781 TTATTTATTATT
1 TTATTTATT-TT
11514793 TTATTAATATTTT
1 TTATT--TATTTT
11514806 TTATTTGATTTT
1 TTATTT-ATTTT
11514818 T
1 T
11514819 GTTTTAGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 7 0.21
11 2 0.06
12 13 0.39
13 7 0.21
14 4 0.12
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (11 bp):
TTATTTATTTT
Found at i:11516216 original size:17 final size:16
Alignment explanation
Indices: 11516167--11516216 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
11516157 TTTTGTTTTA
11516167 TTTTTATTTTAACA-T
1 TTTTTATTTTAACATT
*
11516182 TTTTTATATATAACATT
1 TTTTTAT-TTTAACATT
*
11516199 TTTTTAATTTTAATATT
1 TTTTT-ATTTTAACATT
11516216 T
1 T
11516217 CCTTCTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 7 0.24
16 6 0.21
17 14 0.48
18 2 0.07
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTATTTTAACATT
Found at i:11517347 original size:15 final size:15
Alignment explanation
Indices: 11517322--11517359 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
11517312 AACTCTTTTC
11517322 TTTCA-TTTTTTCTA
1 TTTCATTTTTTTCTA
*
11517336 TTTCATTTTTTTCTC
1 TTTCATTTTTTTCTA
*
11517351 TTACATTTT
1 TTTCATTTT
11517360 ATTTTTATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTCATTTTTTTCTA
Found at i:11520492 original size:10 final size:10
Alignment explanation
Indices: 11520477--11520501 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11520467 CAGACAATCG
11520477 CAAATTAAAT
1 CAAATTAAAT
11520487 CAAATTAAAT
1 CAAATTAAAT
11520497 CAAAT
1 CAAAT
11520502 GAGGAGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (10 bp):
CAAATTAAAT
Found at i:11521797 original size:85 final size:85
Alignment explanation
Indices: 11521654--11522067 Score: 522
Period size: 85 Copynumber: 4.9 Consensus size: 85
11521644 CATTTAGAGG
* * * *
11521654 AAATTTACAACATAGCTCAAGGCGAGAAGAGCTATCTGTCAACAAAAACCTTCGAGTTCGATTAC
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCC
11521719 ATTCAGCTCAAGGGCATATC
66 ATTCAGCTCAAGGGCATATC
* * * *
11521739 AAATTTACAGCATAACTCAAGGCGAGATGGGATATCTTTCAACAAAAACCTTCGAGTTCGATTAC
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCC
*
11521804 ATTCAGCTCAAGGGCAAATC
66 ATTCAGCTCAAGGGCATATC
* * * * * * *
11521824 AAATTTACAGTATAGCTCAAGGTGAAAAGGGTTATATGTCAAAAAAAAACTTCGAGTTCGATTCC
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCC
*
11521889 ATTTAGCTCAAGGGCATATC
66 ATTCAGCTCAAGGGCATATC
* * * * * *
11521909 AAATTTATAACGTAGCTCAAGGTGAGAAGGGATATTTGTCAACAAAAACCTTCGAGTTCAATTCC
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCC
*
11521974 ATTCAACTCAAGGGCATATC
66 ATTCAGCTCAAGGGCATATC
* * * **** * * *
11521994 AAATTTACAGCATATCTTAAGTCGAGAAAATCTATCTGTCAACAAAAACTTTCTAGTCCGATTCC
1 AAATTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCC
11522059 ATTCAGCTC
66 ATTCAGCTC
11522068 GATGACAGTG
Statistics
Matches: 280, Mismatches: 49, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 280 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (85 bp):
AAATTTACAGCATAGCTCAAGGCGAGAAGGGATATCTGTCAACAAAAACCTTCGAGTTCGATTCC
ATTCAGCTCAAGGGCATATC
Found at i:11522725 original size:2 final size:2
Alignment explanation
Indices: 11522720--11522753 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
11522710 CGGTTTTCAA
11522720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11522754 GTTTTGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11522820 original size:36 final size:36
Alignment explanation
Indices: 11522738--11523234 Score: 362
Period size: 38 Copynumber: 13.4 Consensus size: 36
11522728 ATATATATAT
* **
11522738 ATATATATATTATATAGTTTTGAAAACGATATTAAAAA
1 ATATATATATTATATAGTTTTGAAAA-TAT-TTTGAAA
* * * *
11522776 ATACATATATTATATTGTTTGGAAAACATTTTGAAA
1 ATATATATATTATATAGTTTTGAAAATATTTTGAAA
*
11522812 ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
1 ATATATATATTATATAGTTTTGAAAATA-TTTTGAAA
11522849 ATATATATATTATATAGTTTTGAAAATATTTTGAAAA
1 ATATATATATTATATAGTTTTGAAAATATTTTG-AAA
*
11522886 CATATATATATAATATATAGTTTTTGAAAATATTTTAAAATA
1 -ATATATATAT--TATATAG-TTTTGAAAATATTTT-GAA-A
*
11522928 TATATATATATAATATATAGTTTTTAAAAATATTTTGAAAA
1 -ATATATATAT--TATATAG-TTTTGAAAATATTTTG-AAA
* * *
11522969 CATATATTTAATATATAGTTTTCGAAAAACATTTT-AAA
1 -ATATATATATTATATAGTTTT-G-AAAATATTTTGAAA
** * *
11523007 A-ATATATAACATATAGTTTTTTAAAAAATATTTTAAAAA
1 ATATATATATTATATAG--TTTT-GAAAATATTTT-GAAA
* *
11523046 CATATATATAATATATAGTTTTTGAAGATATTTT--AA
1 -ATATATATATTATATAG-TTTTGAAAATATTTTGAAA
* *
11523082 ATATATATATAATATAGTTTTTAAAAATATTTTTGAAA
1 ATATATATATTATATAG-TTTTGAAAATA-TTTTGAAA
* **
11523120 ATATATATAATATGCAGTTTTG-AAA-A---TG---
1 ATATATATATTATATAGTTTTGAAAATATTTTGAAA
11523148 -TATATA-A-TATATAGTTTTGAAAATATTGTTG-AA
1 ATATATATATTATATAGTTTTGAAAATATT-TTGAAA
* * *
11523181 A-ATATATATTATATAGTTTTAAAAACAATTTTTGAAT
1 ATATATATATTATATAGTTTTGAAAA-TA-TTTTGAAA
11523218 ATATATATATATATATA
1 ATATATATAT-TATATA
11523235 TTATATGGTT
Statistics
Matches: 380, Mismatches: 43, Indels: 71
0.77 0.09 0.14
Matches are distributed among these distances:
25 10 0.03
26 4 0.01
27 7 0.02
31 4 0.01
33 5 0.01
34 1 0.00
35 41 0.11
36 59 0.16
37 58 0.15
38 67 0.18
39 25 0.07
40 22 0.06
41 40 0.11
42 37 0.10
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (36 bp):
ATATATATATTATATAGTTTTGAAAATATTTTGAAA
Found at i:11522854 original size:37 final size:37
Alignment explanation
Indices: 11522738--11523298 Score: 360
Period size: 36 Copynumber: 14.9 Consensus size: 37
11522728 ATATATATAT
* * * **
11522738 ATATATATATTATATAGTTTTGAAAACGATATTAAAAA
1 ATATATATAATATATAGTTTTGAAAA-TATTTTTGAAA
* * * * *
11522776 ATACATATATTATATTGTTTGGAAAACA-TTTTGAAA
1 ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
11522812 ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
1 ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
*
11522849 ATATATATATTATATAGTTTTGAAAATA-TTTTGAAAACA
1 ATATATATAATATATAGTTTTGAAAATATTTTTG--AA-A
**
11522888 TATATATATAATATATAGTTTTTGAAAATATTTTAAAATATA
1 -ATATATATAATATATAG-TTTTGAAAATATTTT-TGA-A-A
*
11522930 TATATATATAATATATAGTTTTTAAAA-ATATTTTGAAAA
1 -ATATATATAATATATAGTTTTGAAAATAT-TTTTG-AAA
* *
11522969 CATATATTTAATATATAGTTTTCGAAAA-ACATTTT-AAA
1 -ATATATATAATATATAGTTTT-GAAAATA-TTTTTGAAA
* * **
11523007 A-ATATATAACATATAGTTTTTTAAAAAATATTTTAAAAA
1 ATATATATAATATATAG--TTTT-GAAAATATTTTTGAAA
*
11523046 CATATATATAATATATAGTTTTTGAAGATA-TTTT--AA
1 -ATATATATAATATATAG-TTTTGAAAATATTTTTGAAA
*
11523082 ATATATAT-ATAATATAGTTTTTAAAAATATTTTTGAAA
1 ATATATATAAT-ATATAG-TTTTGAAAATATTTTTGAAA
**
11523120 ATATATATAATATGCAGTTTTG-AAA-A----TG---
1 ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
*
11523148 ---TATATAATATATAGTTTTGAAAATATTGTTGAAA
1 ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
* *
11523182 ATATATAT--TATATAGTTTTAAAAACAATTTTTGAATATA
1 ATATATATAATATATAGTTTTGAAAA-TATTTTTG-A-A-A
*
11523221 TATATATATATATATTATATGGTTTTGAAAATAATTTTTAAAAA
1 -ATATATATA-ATA-TATA--GTTTTGAAAAT-ATTTTT-GAAA
* * * *
11523265 AGATATATGATATGTAGTTTTAAAAATGATTTTT
1 ATATATATAATATATAGTTTTGAAAAT-ATTTTT
11523299 ATTTTTATTA
Statistics
Matches: 422, Mismatches: 52, Indels: 97
0.74 0.09 0.17
Matches are distributed among these distances:
25 17 0.04
26 3 0.01
27 1 0.00
31 4 0.01
34 2 0.00
35 40 0.09
36 61 0.14
37 47 0.11
38 57 0.14
39 50 0.12
40 42 0.10
41 41 0.10
42 26 0.06
43 9 0.02
44 5 0.01
45 1 0.00
46 16 0.04
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.45
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
Found at i:11522974 original size:77 final size:75
Alignment explanation
Indices: 11522742--11523146 Score: 336
Period size: 77 Copynumber: 5.3 Consensus size: 75
11522732 ATATATATAT
* * * * * ** *
11522742 ATATATTATATAG-TTTTGAAAACGATATTAAAAAATACATATAT-TATATTG-TTTGGAAAACA
1 ATATAATATATAGTTTTTGAAAA-TATTTTAAAAAATATATATATATATATAGTTTTTAAAAATA
*
11522804 TTTTGAAAATA
65 TTTTGAAAACA
** *
11522815 TATATAATATATAG-TTTTGAAAATATTTTTGAAAATATATATAT-TATATAG-TTTTGAAAATA
1 -ATATAATATATAGTTTTTGAAAATATTTTAAAAAATATATATATATATATAGTTTTTAAAAATA
11522877 TTTTGAAAACATATA
65 TTTTGAAAAC----A
11522892 TATATAATATATAGTTTTTGAAAATATTTTAAAATATATATATATATAATATATAGTTTTTAAAA
1 -ATATAATATATAGTTTTTGAAAATATTTTAAAA-A-ATATATATAT-ATATATAGTTTTTAAAA
11522957 ATATTTTGAAAACA
62 ATATTTTGAAAACA
* * *
11522971 TATATTTAATATATAGTTTTCGAAAAACATTTT--AAAA-ATATATA-ACATATAGTTTTTTAAA
1 -ATA--TAATATATAGTTTTTG-AAAATATTTTAAAAAATATATATATATATATAG-TTTTT-AA
*
11523032 AAATATTTTAAAAACATA
60 AAATATTTTGAAAAC--A
*
11523050 TATATAATATATAGTTTTTGAAGATATTTT---AAATATATATATA-ATATAGTTTTTAAAAATA
1 -ATATAATATATAGTTTTTGAAAATATTTTAAAAAATATATATATATATATAGTTTTTAAAAATA
*
11523111 TTTTTGAAAATA
65 -TTTTGAAAACA
**
11523123 TATATAATATGCAG-TTTTGAAAAT
1 -ATATAATATATAGTTTTTGAAAAT
11523147 GTATATAATA
Statistics
Matches: 286, Mismatches: 25, Indels: 42
0.81 0.07 0.12
Matches are distributed among these distances:
72 9 0.03
73 53 0.19
74 28 0.10
75 23 0.08
76 26 0.09
77 54 0.19
78 18 0.06
79 12 0.04
80 12 0.04
81 15 0.05
82 16 0.06
83 20 0.07
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (75 bp):
ATATAATATATAGTTTTTGAAAATATTTTAAAAAATATATATATATATATAGTTTTTAAAAATAT
TTTGAAAACA
Found at i:11523142 original size:25 final size:25
Alignment explanation
Indices: 11523112--11523173 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
11523102 TTAAAAATAT
*
11523112 TTTTGAAAATATATATAATATGCAG
1 TTTTGAAAATATATATAATATACAG
* *
11523137 TTTTGAAAATGTATATAATATATAG
1 TTTTGAAAATATATATAATATACAG
11523162 TTTTGAAAATAT
1 TTTTGAAAATAT
11523174 TGTTGAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (25 bp):
TTTTGAAAATATATATAATATACAG
Found at i:11523194 original size:35 final size:36
Alignment explanation
Indices: 11523139--11523232 Score: 109
Period size: 35 Copynumber: 2.6 Consensus size: 36
11523129 ATATGCAGTT
* * *
11523139 TTGAAAATGTATATAATATATAGTTTTGAAAA-TATTG
1 TTGAAAA--TATATATTATATAGTTTTAAAAACAATTG
*
11523176 TTGAAAATATATATTATATAGTTTTAAAAACAATTT
1 TTGAAAATATATATTATATAGTTTTAAAAACAATTG
*
11523212 TTGAATATATATATATATATA
1 TTGAAAATATATAT-TATATA
11523233 TATTATATGG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
35 21 0.42
36 16 0.32
37 13 0.26
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.45
Consensus pattern (36 bp):
TTGAAAATATATATTATATAGTTTTAAAAACAATTG
Found at i:11523197 original size:98 final size:99
Alignment explanation
Indices: 11523050--11523231 Score: 273
Period size: 98 Copynumber: 1.8 Consensus size: 99
11523040 TAAAAACATA
* *
11523050 TATATAATATATAGTTTTTGAAGATATTTTAAATATATATATAATATAGTTTTTAAAAA-TATTT
1 TATATAATATATAGTTTTTGAAAATATTTTAAATATATATATAATATAG-TTTTAAAAACAATTT
11523114 TTGAAAATATATATA-ATATGCAGTTTTGAAAATG
65 TTGAAAATATATATATATATGCAGTTTTGAAAATG
*
11523148 TATATAATATATAG-TTTTGAAAATATTGTTGAAA-ATATATATTATATAGTTTTAAAAACAATT
1 TATATAATATATAGTTTTTGAAAATATT-TT-AAATATATATATAATATAGTTTTAAAAACAATT
*
11523211 TTTGAATATATATATATATAT
64 TTTGAAAATATATATATATAT
11523232 ATATTATATG
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
97 21 0.28
98 48 0.63
99 7 0.09
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.46
Consensus pattern (99 bp):
TATATAATATATAGTTTTTGAAAATATTTTAAATATATATATAATATAGTTTTAAAAACAATTTT
TGAAAATATATATATATATGCAGTTTTGAAAATG
Found at i:11523222 original size:62 final size:62
Alignment explanation
Indices: 11523080--11523205 Score: 157
Period size: 62 Copynumber: 2.0 Consensus size: 62
11523070 AAGATATTTT
* *
11523080 AAATATATATATAATATAGTTTTTAAAAATATTTTTGAAAATATATATAATATGCAGTTTTGAAA
1 AAATATATA-AT-ATATAGTTTTTAAAAATATTGTTGAAAATATATATAATAT-CAGTTTTAAAA
** * *
11523145 ATGTATATAATATATAG-TTTTGAAAATATTGTTGAAAATATATATTATAT-AGTTTTAAAA
1 AAATATATAATATATAGTTTTTAAAAATATTGTTGAAAATATATATAATATCAGTTTTAAAA
11523205 A
1 A
11523206 CAATTTTTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
60 10 0.18
62 30 0.55
63 6 0.11
64 2 0.04
65 7 0.13
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.44
Consensus pattern (62 bp):
AAATATATAATATATAGTTTTTAAAAATATTGTTGAAAATATATATAATATCAGTTTTAAAA
Found at i:11523319 original size:18 final size:18
Alignment explanation
Indices: 11523298--11523351 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
11523288 AAATGATTTT
11523298 TATTTTTATTAAATATTA
1 TATTTTTATTAAATATTA
* *
11523316 TA---TTAAT-ATTATT-
1 TATTTTTATTAAATATTA
11523329 TATTTTTATTAAATATTA
1 TATTTTTATTAAATATTA
11523347 TATTT
1 TATTT
11523352 ATTTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
13 2 0.07
14 5 0.19
15 4 0.15
16 4 0.15
17 5 0.19
18 7 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTTTATTAAATATTA
Found at i:11523332 original size:31 final size:31
Alignment explanation
Indices: 11523296--11523376 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 31
11523286 AAAAATGATT
11523296 TTTATTTTTATTAAATATTATATTAATATTA
1 TTTATTTTTATTAAATATTATATTAATATTA
* *
11523327 TTTATTTTTATTAAATATTATATTTATTTTA
1 TTTATTTTTATTAAATATTATATTAATATTA
11523358 -TTATTATTTTATT-AATATT
1 TTTA-T-TTTTATTAAATATT
11523377 TTTTCTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
30 3 0.07
31 36 0.78
32 7 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTATTTTTATTAAATATTATATTAATATTA
Found at i:11523376 original size:22 final size:22
Alignment explanation
Indices: 11523301--11523378 Score: 58
Period size: 21 Copynumber: 3.7 Consensus size: 22
11523291 TGATTTTTAT
*
11523301 TTTTATTAA-ATATTA-TATTAA
1 TTTTATTAATATTTTATTATT-A
* * *
11523322 TATTATTTAT-TTTTATTAAATA
1 TTTTATTAATATTTTATT-ATTA
*
11523344 TTATATT--TATTTTATTATTA
1 TTTTATTAATATTTTATTATTA
11523364 TTTTATTAATATTTT
1 TTTTATTAATATTTT
11523379 TTCTTTTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
20 10 0.23
21 18 0.42
22 13 0.30
23 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTATTAATATTTTATTATTA
Found at i:11523377 original size:11 final size:11
Alignment explanation
Indices: 11523301--11523378 Score: 67
Period size: 11 Copynumber: 7.4 Consensus size: 11
11523291 TGATTTTTAT
11523301 TTTTATTAAATA
1 TTTTATT-AATA
*
11523313 TTATATTAATA
1 TTTTATTAATA
*
11523324 --TTATTTAT-
1 TTTTATTAATA
11523332 TTTTATTAAATA
1 TTTTATT-AATA
*
11523344 TTATATT--TA
1 TTTTATTAATA
*
11523353 TTTTATTATTA
1 TTTTATTAATA
11523364 TTTTATTAATA
1 TTTTATTAATA
11523375 TTTT
1 TTTT
11523379 TTCTTTTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
9 14 0.26
10 5 0.09
11 22 0.42
12 12 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTATTAATA
Found at i:11524350 original size:24 final size:23
Alignment explanation
Indices: 11524323--11524377 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
11524313 TTTCGATCAC
*
11524323 TTTTTTTATTT-CATTTTGTTTTA
1 TTTTTTTTTTTAC-TTTTGTTTTA
* *
11524346 TTTTTCTCTTTTACTTTTTTTTTA
1 TTTTT-TTTTTTACTTTTGTTTTA
11524370 TTTTTTTT
1 TTTTTTTT
11524378 CTGAAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 7 0.27
24 18 0.69
25 1 0.04
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTTTTTTTTACTTTTGTTTTA
Found at i:11524469 original size:4 final size:4
Alignment explanation
Indices: 11524460--11524519 Score: 88
Period size: 4 Copynumber: 15.5 Consensus size: 4
11524450 GAATATTTCC
*
11524460 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA- TTAT TTAG
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
*
11524507 TTAA TT-T TTAT TT
1 TTAT TTAT TTAT TT
11524520 GATATTTCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
3 5 0.10
4 46 0.90
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:11525201 original size:44 final size:45
Alignment explanation
Indices: 11525120--11525213 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
11525110 ATAAACTTAT
*
11525120 AAAATTATAGGTAAAAAAACATATTATTAATAAAAAAACATATAA
1 AAAATTATAGGCAAAAAAACATATTATTAATAAAAAAACATATAA
11525165 AAAATTATAGGCAAAAAAACATATTATTAAT-AAAAAACATATAA
1 AAAATTATAGGCAAAAAAACATATTATTAATAAAAAAACATATAA
11525209 AAAAT
1 AAAAT
11525214 CTAAAATATA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 18 0.38
45 30 0.62
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.26
Consensus pattern (45 bp):
AAAATTATAGGCAAAAAAACATATTATTAATAAAAAAACATATAA
Found at i:11531811 original size:26 final size:24
Alignment explanation
Indices: 11531740--11531811 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
11531730 TTATATTTGT
11531740 ATTTACTTTATTTTGTTAAATTATA
1 ATTTACTTTATTTTGTTAAATT-TA
*
11531765 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
11531787 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
11531812 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:11535261 original size:14 final size:12
Alignment explanation
Indices: 11535225--11535252 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11535215 AATAAGTATA
11535225 ATAAAAAAATTT
1 ATAAAAAAATTT
11535237 ATAAAAAAATTT
1 ATAAAAAAATTT
11535249 ATAA
1 ATAA
11535253 CGAAAAATTG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAAAAAAATTT
Found at i:11535556 original size:41 final size:40
Alignment explanation
Indices: 11535498--11535577 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 40
11535488 TCATACCCAG
*
11535498 GTATAGCGCTGAGCA-GGGGCAGCGCTATACCCCTACGTGGC
1 GTATAGCGCGGAGCAGGGGGC-GCGCTATACCCC-ACGTGGC
*
11535539 GTATAGCGCGGATCAGGGGGCGCGCTATACCCCACGTGG
1 GTATAGCGCGGAGCAGGGGGCGCGCTATACCCCACGTGG
11535578 AACCAAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 6 0.17
41 25 0.69
42 5 0.14
ACGTcount: A:0.19, C:0.29, G:0.36, T:0.16
Consensus pattern (40 bp):
GTATAGCGCGGAGCAGGGGGCGCGCTATACCCCACGTGGC
Found at i:11535689 original size:30 final size:29
Alignment explanation
Indices: 11535627--11535691 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
11535617 TACTGCAACG
*
11535627 GGTGTTAGATCGAGAAATATAATCTGACC
1 GGTGTTAGATCGAGAAATATAATCTCACC
11535656 GGTGTTAGATC-AGTAAATAT-ATCGATCACC
1 GGTGTTAGATCGAG-AAATATAATC--TCACC
11535686 GGTGTT
1 GGTGTT
11535692 TTTTTTTGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 5 0.16
29 17 0.53
30 10 0.31
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (29 bp):
GGTGTTAGATCGAGAAATATAATCTCACC
Found at i:11535859 original size:32 final size:31
Alignment explanation
Indices: 11535817--11535885 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
11535807 TTATAATACA
11535817 GTCCCCCAACATTTTAGTCCATTTGCAATATG
1 GTCCCCCAACA-TTTAGTCCATTTGCAATATG
* ***
11535849 GTCCCTCAACATTTAGTTTGTTTGCAATATG
1 GTCCCCCAACATTTAGTCCATTTGCAATATG
11535880 GTCCCC
1 GTCCCC
11535886 GACATAACTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 22 0.69
32 10 0.31
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (31 bp):
GTCCCCCAACATTTAGTCCATTTGCAATATG
Found at i:11536876 original size:65 final size:65
Alignment explanation
Indices: 11536807--11536949 Score: 259
Period size: 65 Copynumber: 2.2 Consensus size: 65
11536797 TTTTTGCTGT
* *
11536807 AAACGTCGCTAATAGTTATGTATATTCACTAATTATGCACTCCATTAGTGGTTTTTTTCATCCTA
1 AAACGTCGCTAATAGTTATGTATATACACTAATTATGCACTCCATTAGTGGTGTTTTTCATCCTA
11536872 AAACGTCGCTAATAGTTATGTATATACACTAATTATGCACTCCATTAGTGGTGTTTTTCATCCTA
1 AAACGTCGCTAATAGTTATGTATATACACTAATTATGCACTCCATTAGTGGTGTTTTTCATCCTA
*
11536937 CAACGTCGCTAAT
1 AAACGTCGCTAAT
11536950 CAATATTGAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 75 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (65 bp):
AAACGTCGCTAATAGTTATGTATATACACTAATTATGCACTCCATTAGTGGTGTTTTTCATCCTA
Found at i:11537729 original size:31 final size:31
Alignment explanation
Indices: 11537658--11537735 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
11537648 CTTTTAAAAC
** *
11537658 TTGCAATATAATCCCTCAACATTTAGTCCGT
1 TTGCAATATGGTCCCTCAACATTTAGTCCAT
11537689 TTGCAATATGGTCCCTCAACATTTAGTCCAT
1 TTGCAATATGGTCCCTCAACATTTAGTCCAT
11537720 TTGCAATATGGTCCCT
1 TTGCAATATGGTCCCT
11537736 GACGTAACTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (31 bp):
TTGCAATATGGTCCCTCAACATTTAGTCCAT
Found at i:11539020 original size:18 final size:18
Alignment explanation
Indices: 11538979--11539020 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11538969 ATTTTATTTG
*
11538979 TATTTATAAATTTAAACT
1 TATTTATAAATTTAAACA
*
11538997 TATTTATAATTTTAATACA
1 TATTTATAAATTTAA-ACA
11539016 T-TTTA
1 TATTTA
11539021 AAAAATGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTATAAATTTAAACA
Found at i:11545602 original size:20 final size:20
Alignment explanation
Indices: 11545574--11545615 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
11545564 TTTTGGTAGC
* *
11545574 TTACGATTTTTTGTCGTTGT
1 TTACAATTTTTTGCCGTTGT
11545594 TTACAATTTTTTGCCGTTGT
1 TTACAATTTTTTGCCGTTGT
11545614 TT
1 TT
11545616 TTGTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.60
Consensus pattern (20 bp):
TTACAATTTTTTGCCGTTGT
Found at i:11547297 original size:29 final size:29
Alignment explanation
Indices: 11547256--11547313 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
11547246 ATTTTTATTG
*
11547256 TTATAATTGTATTATT-ATAATATATAATA
1 TTATAATTGTATT-TTAAAAATATATAATA
* *
11547285 TTATACTTTTATTTTAAAAATATATAATA
1 TTATAATTGTATTTTAAAAATATATAATA
11547314 AAATATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (29 bp):
TTATAATTGTATTTTAAAAATATATAATA
Found at i:11547380 original size:5 final size:5
Alignment explanation
Indices: 11547370--11547436 Score: 102
Period size: 5 Copynumber: 13.8 Consensus size: 5
11547360 ATTATTTAAA
11547370 ATATG ATATG ATATG ATATG ATATG --ATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
* *
11547418 ATATG ATATA ATATA ATAT
1 ATATG ATATG ATATG ATAT
11547437 CATTATTTTT
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
3 3 0.05
5 56 0.95
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:11547401 original size:23 final size:23
Alignment explanation
Indices: 11547372--11547419 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
11547362 TATTTAAAAT
11547372 ATGATATGATATGATATGATATG
1 ATGATATGATATGATATGATATG
11547395 ATGATATGATATGATATGATATG
1 ATGATATGATATGATATGATATG
11547418 AT
1 AT
11547420 ATGATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.40
Consensus pattern (23 bp):
ATGATATGATATGATATGATATG
Found at i:11547402 original size:28 final size:28
Alignment explanation
Indices: 11547370--11547424 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
11547360 ATTATTTAAA
11547370 ATATGATATGATATGATATGATATGATG
1 ATATGATATGATATGATATGATATGATG
11547398 ATATGATATGATATGATATGATATGAT
1 ATATGATATGATATGATATGATATGAT
11547425 ATAATATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (28 bp):
ATATGATATGATATGATATGATATGATG
Found at i:11547509 original size:20 final size:19
Alignment explanation
Indices: 11547484--11547554 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 19
11547474 TATTATTATT
11547484 TTAATAAGCAATTAATATAA
1 TTAATAA-CAATTAATATAA
* * *
11547504 TTAATAATATATTATTAT-T
1 TTAATAACA-ATTAATATAA
*
11547523 TTAATAAACAAATAATATAA
1 TTAAT-AACAATTAATATAA
* *
11547543 TTCATAATAATT
1 TTAATAACAATT
11547555 TTGTTTTAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 7
0.69 0.18 0.13
Matches are distributed among these distances:
19 17 0.45
20 21 0.55
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (19 bp):
TTAATAACAATTAATATAA
Found at i:11547551 original size:42 final size:39
Alignment explanation
Indices: 11547473--11547584 Score: 142
Period size: 39 Copynumber: 2.9 Consensus size: 39
11547463 TATTTTATTA
* *
11547473 ATATTATTATTTTAATAAGCAATTAATATAATTAATAAT
1 ATATTATTATTTTAATAAACAAATAATATAATTAATAAT
*
11547512 ATATTATTATTTTAATAAACAAATAATATAATTCATAAT
1 ATATTATTATTTTAATAAACAAATAATATAATTAATAAT
* *
11547551 A-ATT-TTGTTTTAATAAA-ATATAAT-TATATTAATA
1 ATATTATTATTTTAATAAACAAATAATATA-ATTAATA
11547585 TTTTATTTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
35 2 0.03
36 12 0.18
37 12 0.18
38 3 0.05
39 37 0.56
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (39 bp):
ATATTATTATTTTAATAAACAAATAATATAATTAATAAT
Found at i:11547574 original size:31 final size:30
Alignment explanation
Indices: 11547536--11547612 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 30
11547526 ATAAACAAAT
11547536 AATATAATTCATAATAAT-TTTGT-TTTAATAA
1 AATATAATT-ATAATAATATTT-TATTT-ATAA
*
11547567 AATATAATTATATTAATATTTTATTTATAA
1 AATATAATTATAATAATATTTTATTTATAA
11547597 AATTATAGA-TATAATA
1 AA-TATA-ATTATAATA
11547613 TTTTTAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
30 14 0.35
31 25 0.62
32 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (30 bp):
AATATAATTATAATAATATTTTATTTATAA
Found at i:11547599 original size:30 final size:31
Alignment explanation
Indices: 11547536--11547599 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
11547526 ATAAACAAAT
11547536 AATATAATTCATAATAATTTTGTTTTAATAA
1 AATATAATTCATAATAATTTTGTTTTAATAA
*
11547567 AATATAATT-ATATTAATATTT-TATTT-ATAA
1 AATATAATTCATAATAAT-TTTGT-TTTAATAA
11547597 AAT
1 AAT
11547600 TATAGATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (31 bp):
AATATAATTCATAATAATTTTGTTTTAATAA
Found at i:11547627 original size:15 final size:16
Alignment explanation
Indices: 11547607--11547645 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
11547597 AATTATAGAT
11547607 ATAATATTTTT-AAAA
1 ATAATATTTTTCAAAA
*
11547622 ATAATATTTTTCATAA
1 ATAATATTTTTCAAAA
11547638 ATAATATT
1 ATAATATT
11547646 AAATAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
ATAATATTTTTCAAAA
Found at i:11547663 original size:20 final size:22
Alignment explanation
Indices: 11547638--11547680 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11547628 TTTTTCATAA
11547638 ATAATA-TTAAATAA-ATTATT
1 ATAATATTTAAATAATATTATT
11547658 ATAATATTTTAAATAATATTATT
1 ATAATA-TTTAAATAATATTATT
11547681 TATTGTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAATATTTAAATAATATTATT
Found at i:11549067 original size:2 final size:2
Alignment explanation
Indices: 11549060--11549091 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11549050 TAGAAGAATC
11549060 AT 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 AT
11549092 GTCTCGTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11549940 original size:12 final size:12
Alignment explanation
Indices: 11549919--11549952 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
11549909 TAAAACCCCT
11549919 TAAATATTTTT-A
1 TAAAT-TTTTTCA
11549931 TAAATTTTTTCA
1 TAAATTTTTTCA
11549943 TAAATTTTTT
1 TAAATTTTTT
11549953 GACACCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (12 bp):
TAAATTTTTTCA
Found at i:11551465 original size:15 final size:14
Alignment explanation
Indices: 11551447--11551564 Score: 73
Period size: 14 Copynumber: 8.1 Consensus size: 14
11551437 AAAAATGAAT
11551447 AAAATAAAGAAAATA
1 AAAATAAA-AAAATA
*
11551462 AAAACAAACAAAATA
1 AAAATAAA-AAAATA
* * *
11551477 AAGCA-AAAGAAACA
1 AA-AATAAAAAAATA
11551491 AAGAAT-AAAAAAT-
1 AA-AATAAAAAAATA
11551504 AAAATAAAAAAATA
1 AAAATAAAAAAATA
11551518 AAAA-ATAAAAAATA
1 AAAATA-AAAAAATA
***
11551532 AAAAGGGTAAAAATA
1 AAAA-TAAAAAAATA
11551547 AATAATAAAGAAAATA
1 AA-AATAAA-AAAATA
11551563 AA
1 AA
11551565 GACAATAATG
Statistics
Matches: 81, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
12 3 0.04
13 10 0.12
14 29 0.36
15 28 0.35
16 11 0.14
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (14 bp):
AAAATAAAAAAATA
Found at i:11551529 original size:22 final size:22
Alignment explanation
Indices: 11551494--11551564 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
11551484 AGAAACAAAG
11551494 AATAAAAAAT--AAAATAAAAA
1 AATAAAAAATAAAAAATAAAAA
11551514 AATAAAAAATAAAAAATAAAAA
1 AATAAAAAATAAAAAATAAAAA
** *
11551536 GGGT-AAAAATAAATAATAAAGAA
1 -AATAAAAAATAAAAAATAAA-AA
11551559 AATAAA
1 AATAAA
11551565 GACAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
20 10 0.24
22 26 0.63
23 5 0.12
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (22 bp):
AATAAAAAATAAAAAATAAAAA
Found at i:11551535 original size:14 final size:13
Alignment explanation
Indices: 11551444--11551535 Score: 76
Period size: 14 Copynumber: 6.6 Consensus size: 13
11551434 AGTAAAAATG
*
11551444 AATAAAATAAAGAA
1 AATAAAA-AAAAAA
11551458 AATAAAAACAAACAA
1 AATAAAAA-AAA-AA
* *
11551473 AATAAAGCAAAAGA
1 AATAAA-AAAAAAA
* *
11551487 AACAAAGAATAAAA
1 AATAAA-AAAAAAA
*
11551501 AATAAAATAAAAA
1 AATAAAAAAAAAA
11551514 AATAAAAAATAAAA
1 AATAAAAAA-AAAA
11551528 AATAAAAA
1 AATAAAAA
11551536 GGGTAAAAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
13 14 0.22
14 37 0.59
15 11 0.17
16 1 0.02
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.11
Consensus pattern (13 bp):
AATAAAAAAAAAA
Found at i:11551652 original size:28 final size:28
Alignment explanation
Indices: 11551494--11551639 Score: 86
Period size: 27 Copynumber: 5.1 Consensus size: 28
11551484 AGAAACAAAG
*
11551494 AATAAA-AAATAAAATAA-AAAAATAAAA
1 AATAAATAAATAAAA-AATAAAAATAAAT
*
11551521 AATAAA-AAATAAAAAGGGTAAAAATAAAT
1 AATAAATAAATAAAAA--ATAAAAATAAAT
* ** **
11551550 AATAAAGAAAATAAAGACAATAATGATGACTT
1 AATAAA-TAAATAAA-A-AATAAAAAT-AAAT
** *
11551582 ATATATAAT-AATGCAAGATAAAAATAAAT
1 A-ATA-AATAAATAAAAAATAAAAATAAAT
11551611 AATAAATAAATAAAAAATAAAAA-AAAT
1 AATAAATAAATAAAAAATAAAAATAAAT
11551638 AA
1 AA
11551640 GTAAGTGAAT
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
26 1 0.01
27 23 0.26
28 15 0.17
29 18 0.20
30 6 0.07
31 13 0.14
32 8 0.09
33 4 0.04
34 2 0.02
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (28 bp):
AATAAATAAATAAAAAATAAAAATAAAT
Found at i:11551714 original size:3 final size:3
Alignment explanation
Indices: 11551701--11551768 Score: 95
Period size: 3 Copynumber: 22.7 Consensus size: 3
11551691 AAGTATATAG
11551701 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT -AT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
11551745 ATAT AAT AAT TAT AAT AAT AAT AA
1 A-AT AAT AAT AAT AAT AAT AAT AA
11551769 AGAAGAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
2 4 0.07
3 49 0.83
4 6 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:11553964 original size:29 final size:28
Alignment explanation
Indices: 11553923--11553994 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
11553913 TATTTTTTTC
11553923 CAAAAAAAA-CAAAAACAA-AAAAAAAAG
1 CAAAAAAAAGCAAAAA-AACAAAAAAAAG
*
11553950 GAAAAAAAAGGCAAAAAAACAAAAAAAAG
1 CAAAAAAAA-GCAAAAAAACAAAAAAAAG
* *
11553979 CCAAAAAAAGCCAAAA
1 CAAAAAAAAGCAAAAA
11553995 TTTCAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 8 0.21
28 8 0.21
29 22 0.58
ACGTcount: A:0.79, C:0.12, G:0.08, T:0.00
Consensus pattern (28 bp):
CAAAAAAAAGCAAAAAAACAAAAAAAAG
Found at i:11553965 original size:19 final size:19
Alignment explanation
Indices: 11553925--11553987 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
11553915 TTTTTTTCCA
11553925 AAAAAAACAAAAACAAA---
1 AAAAAAACAAAAA-AAAGCC
* *
11553942 AAAAAAAGGAAAAAAAAGGC
1 AAAAAAA-CAAAAAAAAGCC
11553962 AAAAAAACAAAAAAAAGCC
1 AAAAAAACAAAAAAAAGCC
11553981 AAAAAAA
1 AAAAAAA
11553988 GCCAAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
17 10 0.26
18 5 0.13
19 17 0.44
20 7 0.18
ACGTcount: A:0.83, C:0.10, G:0.08, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAGCC
Found at i:11553988 original size:10 final size:10
Alignment explanation
Indices: 11553942--11553994 Score: 63
Period size: 10 Copynumber: 5.4 Consensus size: 10
11553932 CAAAAACAAA
**
11553942 AAAAAAAGGA
1 AAAAAAAGCC
*
11553952 AAAAAAAGGC
1 AAAAAAAGCC
*
11553962 AAAAAAA-CA
1 AAAAAAAGCC
11553971 AAAAAAAGCC
1 AAAAAAAGCC
11553981 AAAAAAAGCC
1 AAAAAAAGCC
11553991 AAAA
1 AAAA
11553995 TTTCAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
9 7 0.18
10 31 0.82
ACGTcount: A:0.77, C:0.11, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGCC
Found at i:11584098 original size:16 final size:16
Alignment explanation
Indices: 11584077--11584110 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11584067 TTAAATGATG
*
11584077 AAATGTTACCTTCCAT
1 AAATGTGACCTTCCAT
*
11584093 AAATGTGACCTTTCAT
1 AAATGTGACCTTCCAT
11584109 AA
1 AA
11584111 TTAGTTGCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (16 bp):
AAATGTGACCTTCCAT
Found at i:11596285 original size:3 final size:3
Alignment explanation
Indices: 11596277--11596354 Score: 102
Period size: 3 Copynumber: 25.7 Consensus size: 3
11596267 TTATTTATTA
* *
11596277 AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT TAT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* **
11596323 AAT ACT AAT AAT AAT TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11596355 ATTTAAATGA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
3 61 0.95
4 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:11596611 original size:76 final size:76
Alignment explanation
Indices: 11596480--11597655 Score: 2253
Period size: 76 Copynumber: 15.5 Consensus size: 76
11596470 GATGGAAATG
*
11596480 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11596545 CCCGAAGGCTT
66 CCCGAAGGCTT
*
11596556 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
11596621 CCCGAATGCTT
66 CCCGAAGGCTT
*
11596632 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11596697 CCCGAAGGCTT
66 CCCGAAGGCTT
11596708 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11596773 CCCGAAGGCTT
66 CCCGAAGGCTT
11596784 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11596849 CCCGAAGGCTT
66 CCCGAAGGCTT
*
11596860 TTTGGAAACATCATGCACTGAAGGACTTACATATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11596925 CCCGAAGGCTT
66 CCCGAAGGCTT
11596936 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11597001 CCCGAAGGCTT
66 CCCGAAGGCTT
*
11597012 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11597077 CCCGAAGGCTT
66 CCCGAAGGCTT
*
11597088 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11597153 CCCGAAGGCTT
66 CCCGAAGGCTT
11597164 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11597229 CCCGAAGGCTT
66 CCCGAAGGCTT
*
11597240 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11597305 CCCGAAGGCTTT
66 CCCGAAGGC-TT
11597317 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11597382 CCCGAAGGCTT
66 CCCGAAGGCTT
11597393 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
11597458 CCCGAATGCTT
66 CCCGAAGGCTT
11597469 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11597534 CCCGAAGGCTT
66 CCCGAAGGCTT
*
11597545 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
11597610 CCCGAAGGCTT
66 CCCGAAGGCTT
11597621 TTTGGAAACATCATGCACTGAAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATG
11597656 TGAGAAATAG
Statistics
Matches: 1081, Mismatches: 18, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
76 1006 0.93
77 75 0.07
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Done.