Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold67
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: 428520
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 4
Found at i:135604 original size:122 final size:124
Alignment explanation
Indices: 135375--135690 Score: 354
Period size: 122 Copynumber: 2.5 Consensus size: 124
135365 TTAGACCCGA
* * *
135375 GAGACTTCTTTATCTTTTGTCTTCTCGTTGGCTTAGACCCAGGAGACTTTCTTTATCTTTTGTCT
1 GAGACTTCTTTATCTTTTTTCTACCCGTTGGCTTAGA--CAGGAGACTTTCTTTATCTTTTGTCT
*
135440 GCCATCAACTCAGACCTAGGAGACTTCTTTATCTTTTATCTACCCATCAGCTCACAACC-GG
64 GCCATCAACTCAGACCTAGGAGACTTCTTTATCTTTTATCTACCCATCAGCTCA-AACCTAG
* * *
135501 GAGACTTCTTTATCTTTTTTCTACCCGTCGGCTTA-A-ATGAGACTTT-TTTATTTTTTGTCTGC
1 GAGACTTCTTTATCTTTTTTCTACCCGTTGGCTTAGACAGGAGACTTTCTTTATCTTTTGTCTG-
* ** * * * **
135563 CCCTCGGCTCAGATCTGGGAGACTTCTTTATCTTTTGTCTACCCATTGGCTCAAACCTAG
65 CCATCAACTCAGACCTAGGAGACTTCTTTATCTTTTATCTACCCATCAGCTCAAACCTAG
* * * * *
135623 GAGACTTCTTTATCTTTTTTTTTACCCGTTGGCTCAGACCCGAGAGACTTT-TTTATCCTTTGTG
1 GAGACTTCTTTATC-TTTTTTCTACCCGTTGGCTTAGA-CAG-GAGACTTTCTTTATCTTTTGTC
135687 TGCC
63 TGCC
135691 CGTCGTTTAG
Statistics
Matches: 160, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
121 18 0.11
122 69 0.43
123 18 0.11
124 1 0.01
125 1 0.01
126 33 0.21
127 20 0.12
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (124 bp):
GAGACTTCTTTATCTTTTTTCTACCCGTTGGCTTAGACAGGAGACTTTCTTTATCTTTTGTCTGC
CATCAACTCAGACCTAGGAGACTTCTTTATCTTTTATCTACCCATCAGCTCAAACCTAG
Found at i:135782 original size:249 final size:249
Alignment explanation
Indices: 135332--135784 Score: 529
Period size: 249 Copynumber: 1.8 Consensus size: 249
135322 TCAGACCCAA
* * * * *
135332 GAGACTTTCTTTTTCTTTTGTCTGCCCATTGACTTAGACCCGAGAGACTTCTTTATCTTTTGTCT
1 GAGACTTTCTTTATCTTTTGTCTACCCATTGACTCAAACCAGAGAGACTTCTTTATCTTTTGTCT
* * *
135397 TCTCGTTGGCTTAGACCCAGGAGACTTTCTTTATCTTTTGTCTGCCATCAACTCAGACCTAGGAG
66 TCCCGTTGGCTCAGACCCAGGAGACTTTCTTTATCCTTTGTCTGCCATCAACTCAGACCTAGGAG
* ** * * **
135462 ACTTCTTTATCTTTTATCTACCCATCAGCTCACAACCGGGAGACTTCTTTATCTTTTTTCTACCC
131 ACTTCTTTATCTTCTATCTACCCATCAGCTCACAACCACGAGACTTCTTCATCCTTCGTCTACCC
135527 GTCGGCTTAAATGAGACTTTTTTATTTTTTGTCTGCCCCTCGGCTCAGATCTGG
196 GTCGGCTTAAATGAGACTTTTTTATTTTTTGTCTGCCCCTCGGCTCAGATCTGG
* * *
135581 GAGAC-TTCTTTATCTTTTGTCTACCCATTGGCTCAAACCTAG-GAGACTTCTTTATCTTTTTTT
1 GAGACTTTCTTTATCTTTTGTCTACCCATTGACTCAAACC-AGAGAGACTTCTTTATCTTTTGTC
* * ** * *
135644 TTACCCGTTGGCTCAGACCC-GAGAGACTTT-TTTATCCTTTGTGTGCCCGTC-GTTTAGACCTG
65 TT-CCCGTTGGCTCAGACCCAG-GAGACTTTCTTTATCCTTTGTCTG-CCATCAACTCAGACCTA
** * * * * *
135706 GGAGACTTTCTTTATCTTCTATCTGTCCATCGGTTCAGACCCACGAGACTTCTTCGTCCTTCGTC
127 GGAGAC-TTCTTTATCTTCTATCTACCCATCAGCTCACAACCACGAGACTTCTTCATCCTTCGTC
* *
135771 TGCCTGTCGGCTTA
191 TACCCGTCGGCTTA
135785 GTCCCAGGTC
Statistics
Matches: 166, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
248 77 0.46
249 89 0.54
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (249 bp):
GAGACTTTCTTTATCTTTTGTCTACCCATTGACTCAAACCAGAGAGACTTCTTTATCTTTTGTCT
TCCCGTTGGCTCAGACCCAGGAGACTTTCTTTATCCTTTGTCTGCCATCAACTCAGACCTAGGAG
ACTTCTTTATCTTCTATCTACCCATCAGCTCACAACCACGAGACTTCTTCATCCTTCGTCTACCC
GTCGGCTTAAATGAGACTTTTTTATTTTTTGTCTGCCCCTCGGCTCAGATCTGG
Found at i:137321 original size:20 final size:20
Alignment explanation
Indices: 137292--137330 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
137282 CTGACCAATA
*
137292 TAGTGTATGTATCGATACAT
1 TAGTGAATGTATCGATACAT
*
137312 TAGTGAATGTATTGATACA
1 TAGTGAATGTATCGATACA
137331 ATCTGTGCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (20 bp):
TAGTGAATGTATCGATACAT
Found at i:140705 original size:23 final size:24
Alignment explanation
Indices: 140664--140714 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
140654 GAATATATTT
*
140664 TTTTATATTTTCTTATTTT-CTTA
1 TTTTATATTTTATTATTTTACTTA
*
140687 TTTTATATTTTA-TATTTTTATTTA
1 TTTTATATTTTATTA-TTTTACTTA
140711 TTTT
1 TTTT
140715 TGTTATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 15 0.62
24 7 0.29
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTATATTTTATTATTTTACTTA
Found at i:140819 original size:20 final size:20
Alignment explanation
Indices: 140794--140831 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
140784 AGGTTCGAAT
140794 GATATAACCTACACTCATAC
1 GATATAACCTACACTCATAC
*
140814 GATATAACTTACACTCAT
1 GATATAACCTACACTCAT
140832 CCGAGCAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.29
Consensus pattern (20 bp):
GATATAACCTACACTCATAC
Found at i:141428 original size:42 final size:42
Alignment explanation
Indices: 141302--141663 Score: 275
Period size: 42 Copynumber: 8.7 Consensus size: 42
141292 GGTGAAAAAA
* * * * *
141302 TCTCCAAGATCAAAGCTGACAAGTAGACTTGAGGGTAAGGAAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTGA-GATAAGGAAG
* * ** * *
141345 TCTCCAAGGTCAAAGCTG--A--TAGACTAAAGGTAAGGAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGATAAGGAAG
* *
141383 TCTCCAAGGTCAAAGCCGACAGGTAGACTTGAGATAAGGCAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGATAAGGAAG
** * *
141425 TCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGTAAGAAAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGATAAGGAAG
* * * * * *
141467 CCTCCAGGGTCAAAGCCAACAAGCAGACTTGAGATGAGGCAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGATAAGGAAG
* * *** * *
141509 TCTCCAAGGTCAAAGCGGATAGGCAGACGAAAGATTAGAAAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGATAAGGAAG
** * * *
141551 TCTTTAAGGTCAAAGCCGATAGGCAGACTTGAGATGAGGCAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGATAAGGAAG
* * * * *
141593 TCTCCAAGGTCAAAGTCAACAGGCAAAC-TGAAGGTAAGAAAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTG-AGATAAGGAAG
*** *
141635 TCTCTGGGGTCAAAGCCAACAGGCAGACT
1 TCTCCAAGGTCAAAGCCGACAGGCAGACT
141664 GAAGGTAATA
Statistics
Matches: 251, Mismatches: 62, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
38 26 0.10
39 7 0.03
40 1 0.00
41 3 0.01
42 197 0.78
43 17 0.07
ACGTcount: A:0.36, C:0.20, G:0.28, T:0.16
Consensus pattern (42 bp):
TCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGATAAGGAAG
Found at i:141478 original size:84 final size:84
Alignment explanation
Indices: 141271--141663 Score: 393
Period size: 84 Copynumber: 4.7 Consensus size: 84
141261 TTCCCGAGTT
* * * * * * *
141271 AAAGTCGATAGGCAGAC-AAAGGGTGAA-AAAATCTCCAAGATCAAAGCTGACAAGTAGACTTGA
1 AAAGCCGACAGGCAGACTAAA-GGT-AAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGA
* *
141334 GGGTAAGGAAGTCTCCAAGGTC
64 -GATAAGGCAGTCTCCAAGGTC
* * * * *
141356 AAAGCTG--A--TAGACTAAAGGTAAGGAGGTCTCCAAGGTCAAAGCCGACAGGTAGACTTGAGA
1 AAAGCCGACAGGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGA
141417 TAAGGCAGTCTCCAAGGTC
66 TAAGGCAGTCTCCAAGGTC
* * * *
141436 AAAGCCGACAGGCAGACTAAAGGTAAGAAAGCCTCCAGGGTCAAAGCCAACAAGCAGACTTGAGA
1 AAAGCCGACAGGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGA
*
141501 TGAGGCAGTCTCCAAGGTC
66 TAAGGCAGTCTCCAAGGTC
* * * * * ** *
141520 AAAGCGGATAGGCAGACGAAAGATTAGAAAGTCTTTAAGGTCAAAGCCGATAGGCAGACTTGAGA
1 AAAGCCGACAGGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGA
*
141585 TGAGGCAGTCTCCAAGGTC
66 TAAGGCAGTCTCCAAGGTC
* * * * *** *
141604 AAAGTCAACAGGCAAACTGAAGGTAAGAAAGTCTCTGGGGTCAAAGCCAACAGGCAGACT
1 AAAGCCGACAGGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACT
141664 GAAGGTAATA
Statistics
Matches: 255, Mismatches: 47, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
80 27 0.11
81 37 0.15
82 4 0.02
83 1 0.00
84 181 0.71
85 5 0.02
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.16
Consensus pattern (84 bp):
AAAGCCGACAGGCAGACTAAAGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTGAGA
TAAGGCAGTCTCCAAGGTC
Found at i:141781 original size:47 final size:47
Alignment explanation
Indices: 141707--142002 Score: 333
Period size: 47 Copynumber: 6.3 Consensus size: 47
141697 CGTAGACTTA
* *
141707 AGAAGAGTTTGACTAGGTCCTAACGCCAATACATTCAAACGAATATG
1 AGAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAATATG
* * * * * *
141754 AGAAAAGTTTGATCAGGTCCAAACGCCAATATAGTCAAACAAATGTG
1 AGAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAATATG
* ** *
141801 AGAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAGGATA
1 AGAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAATATG
* * * * *
141848 AAAAGAGTTTGATCAGGTCCTAATGTCAATACAGTCAAACGAATGTG
1 AGAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAATATG
* * * *
141895 AGAAGAGTTTGACCAAGTCCTAACACCAATACAGTCAAATGAGA-ATA
1 AGAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGA-ATATG
* * * * *
141942 AGAAGAGTTTGACCAAGTCTTTAACGCCAATACAGTCAAATGAATGTT
1 AGAAGAGTTTGACCAGGTC-CTAACGCCAATACAGTCAAACGAATATG
141990 AGAAGAGTTTGAC
1 AGAAGAGTTTGAC
142003 TAGGGAACAA
Statistics
Matches: 206, Mismatches: 40, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
47 170 0.83
48 36 0.17
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (47 bp):
AGAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAATATG
Found at i:141878 original size:94 final size:94
Alignment explanation
Indices: 141707--142002 Score: 389
Period size: 94 Copynumber: 3.1 Consensus size: 94
141697 CGTAGACTTA
* * * *
141707 AGAAGAGTTTGACTAGGTCCTAACGCCAATACATTCAAACGA-ATATGAGAAA-AGTTTGATCAG
1 AGAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAGA-AT-AAAAAGAGTTTGATCAG
* * *
141770 GTCCAAACGCCAATATAGTCAAACAAATGTG
64 GTCCTAACGCCAATACAGTCAAACGAATGTG
*
141801 AGAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAGGATAAAAAGAGTTTGATCAGGT
1 AGAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAGAATAAAAAGAGTTTGATCAGGT
* *
141866 CCTAATGTCAATACAGTCAAACGAATGTG
66 CCTAACGCCAATACAGTCAAACGAATGTG
* * * * *
141895 AGAAGAGTTTGACCAAGTCCTAACACCAATACAGTCAAATGAGAATAAGAAGAGTTTGACCAAGT
1 AGAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAGAATAAAAAGAGTTTGATCAGGT
* * *
141960 CTTTAACGCCAATACAGTCAAATGAATGTT
66 C-CTAACGCCAATACAGTCAAACGAATGTG
141990 AGAAGAGTTTGAC
1 AGAAGAGTTTGAC
142003 TAGGGAACAA
Statistics
Matches: 178, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
93 4 0.02
94 138 0.78
95 36 0.20
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (94 bp):
AGAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAATGAGAATAAAAAGAGTTTGATCAGGT
CCTAACGCCAATACAGTCAAACGAATGTG
Found at i:142264 original size:89 final size:89
Alignment explanation
Indices: 142150--142344 Score: 241
Period size: 89 Copynumber: 2.2 Consensus size: 89
142140 AGACAAATTT
* * * * * * *
142150 TGATGCATTAGTACTATCTAGTGGTT-AGATAAAGGGAATATAATTAAGAATCTGTGGGTTGTAC
1 TGATGCATCAATACCATCTAATGGTTAAG-TAAAAGGAATATAATTAAGAATCTGTGGGCTGCAC
*
142214 CTTGCCTCTAGGAAATCGAA-CTTTG
65 CTTGCCCCTAGGAAATC-AAGCTTTG
* ** * *
142239 TGATGCATCAATACCATCTAATGGTTAAGTAAAAGGAATATGATTGGGAATGTGTGGGCTGCATC
1 TGATGCATCAATACCATCTAATGGTTAAGTAAAAGGAATATAATTAAGAATCTGTGGGCTGCACC
142304 TTGCCCCTAGGAAATCAAGCTTTG
66 TTGCCCCTAGGAAATCAAGCTTTG
142328 TGATGCATCAATACCAT
1 TGATGCATCAATACCAT
142345 ATAGGGGTTG
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
88 2 0.02
89 87 0.96
90 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (89 bp):
TGATGCATCAATACCATCTAATGGTTAAGTAAAAGGAATATAATTAAGAATCTGTGGGCTGCACC
TTGCCCCTAGGAAATCAAGCTTTG
Found at i:142369 original size:89 final size:90
Alignment explanation
Indices: 142179--142383 Score: 238
Period size: 89 Copynumber: 2.3 Consensus size: 90
142169 AGTGGTTAGA
* * * * * * * *
142179 TAAAGGGAATATAATTAAG-AATCTGTGGGTTGTACCTTGCCTCTAGGAAATCGAACTTTGTGAT
1 TAAAAGGAATATGATTAGGAAATGTGTGGGCTGCATCTTGCCCCTAGGAAATCGAACTTTGTGAT
* *
142243 GCATCAATACCATCTAATGGTTAAG
66 GCATCAATACCATATAAGGGTTAAG
*
142268 TAAAAGGAATATGATT-GGGAATGTGTGGGCTGCATCTTGCCCCTAGGAAATC-AAGCTTTGTGA
1 TAAAAGGAATATGATTAGGAAATGTGTGGGCTGCATCTTGCCCCTAGGAAATCGAA-CTTTGTGA
* *
142331 TGCATCAATACCATATAGGGGTTGAG
65 TGCATCAATACCATATAAGGGTTAAG
*
142357 T-GAAGGAGATATGATTAGGAAATGTGT
1 TAAAAGGA-ATATGATTAGGAAATGTGT
142384 TTTCCTTGAA
Statistics
Matches: 98, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
88 8 0.08
89 81 0.83
90 9 0.09
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (90 bp):
TAAAAGGAATATGATTAGGAAATGTGTGGGCTGCATCTTGCCCCTAGGAAATCGAACTTTGTGAT
GCATCAATACCATATAAGGGTTAAG
Found at i:144166 original size:5 final size:6
Alignment explanation
Indices: 144132--144170 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
144122 CATTTCATAT
* *
144132 TTTTTC TCTTTA TTTGTTC TTTTTC TTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTT-TTC TTTTTC TTTTTC TTTTTC TT
144171 ATTTAGAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:149244 original size:20 final size:19
Alignment explanation
Indices: 149182--149252 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
149172 GTAACTCAAG
* *
149182 GTATCGATACATTTAAGGAT
1 GTATCGATACATTTCATG-T
*
149202 GTATCGATACA-TTCTATATT
1 GTATCGATACATTTC-AT-GT
149222 GTATCGATACAATTTCATGT
1 GTATCGATAC-ATTTCATGT
*
149242 GTATTGATACA
1 GTATCGATACA
149253 AATGAGGGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 3 0.07
20 33 0.79
21 3 0.07
22 3 0.07
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.39
Consensus pattern (19 bp):
GTATCGATACATTTCATGT
Found at i:149418 original size:21 final size:21
Alignment explanation
Indices: 149389--149443 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
149379 ACCATTTGTT
*
149389 TCAATACATTCATAAGAAATA
1 TCAATACATTCAAAAGAAATA
* **
149410 TCGATACATTCAAAAGATGTA
1 TCAATACATTCAAAAGAAATA
149431 TCAATACATTCAA
1 TCAATACATTCAA
149444 TCCTTAACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.29
Consensus pattern (21 bp):
TCAATACATTCAAAAGAAATA
Found at i:150045 original size:20 final size:20
Alignment explanation
Indices: 150005--150052 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
149995 AAAATGTATC
150005 GATACATTCATGAATGCATT
1 GATACATTCATGAATGCATT
* ** *
150025 GGTACATTCATTTATGTATT
1 GATACATTCATGAATGCATT
150045 GATACATT
1 GATACATT
150053 TGGGTCTAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (20 bp):
GATACATTCATGAATGCATT
Found at i:152699 original size:65 final size:65
Alignment explanation
Indices: 152611--152764 Score: 192
Period size: 65 Copynumber: 2.4 Consensus size: 65
152601 ACCTTACAAC
* *
152611 ACTATCTTTCAAGGCTAAGATAGAAACCACCCTATCTTTT-C-ACGAGCTAAGGTAGAACCTCT-
1 ACTATCTTTCAAGGCTAAGATAGAAACCACCCTATCTTTTACAAAG-GCTAAGATAGAACCTCTA
152673 T
65 T
* * *
152674 CCCTATCTTTTGC-AGGCTAAGATAG-AACCTCCTTATCTTTTACAAAGGCTAAGATAGAACCTC
1 -ACTATC-TTT-CAAGGCTAAGATAGAAACCACCCTATCTTTTACAAAGGCTAAGATAGAACCTC
152737 TAT
63 TAT
152740 ACTATCTTTCAAGGCTAAGATAGAA
1 ACTATCTTTCAAGGCTAAGATAGAA
152765 CCTCTCAATC
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
63 1 0.01
64 34 0.44
65 38 0.49
66 4 0.05
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (65 bp):
ACTATCTTTCAAGGCTAAGATAGAAACCACCCTATCTTTTACAAAGGCTAAGATAGAACCTCTAT
Found at i:152712 original size:64 final size:64
Alignment explanation
Indices: 152611--152768 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 64
152601 ACCTTACAAC
* * *
152611 ACTATCTTTCAAGGCTAAGATAGAAACCACCCTATCTTTT-C-ACGAGCTAAGGTAGAACCTCT-
1 ACTATCTTTCAAGGCTAAGATAG-AACCTCCCTATCTTTTACAAAG-GCTAAGATAGAACCTCTA
152673 T
64 T
* *
152674 CCCTATCTTTTGC-AGGCTAAGATAGAACCTCCTTATCTTTTACAAAGGCTAAGATAGAACCTCT
1 -ACTATC-TTT-CAAGGCTAAGATAGAACCTCCCTATCTTTTACAAAGGCTAAGATAGAACCTCT
152738 AT
63 AT
152740 ACTATCTTTCAAGGCTAAGATAGAACCTC
1 ACTATCTTTCAAGGCTAAGATAGAACCTC
152769 TCAATCACTT
Statistics
Matches: 82, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
63 1 0.01
64 40 0.49
65 37 0.45
66 4 0.05
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (64 bp):
ACTATCTTTCAAGGCTAAGATAGAACCTCCCTATCTTTTACAAAGGCTAAGATAGAACCTCTAT
Found at i:152727 original size:32 final size:30
Alignment explanation
Indices: 152612--152768 Score: 149
Period size: 32 Copynumber: 5.0 Consensus size: 30
152602 CCTTACAACA
*
152612 CTATC-TTTCAAGGCTAAGATAGAAACCACC
1 CTATCTTTTCAAGGCTAAGATAG-AACCTCC
* *
152642 CTATCTTTTCACGAGCTAAGGTAGAACCTCTTCC
1 CTATCTTTTCAAG-GCTAAGATAGAA-C-C-TCC
152676 CTATCTTTTGC-AGGCTAAGATAGAACCTCC
1 CTATCTTTT-CAAGGCTAAGATAGAACCTCC
* *
152706 TTATCTTTTACAAAGGCTAAGATAGAACCTCTATA
1 CTATCTTTT-C-AAGGCTAAGATAGAACCTC---C
152741 CTATC-TTTCAAGGCTAAGATAGAACCTC
1 CTATCTTTTCAAGGCTAAGATAGAACCTC
152769 TCAATCACTT
Statistics
Matches: 107, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
30 17 0.16
31 9 0.08
32 48 0.45
33 13 0.12
34 15 0.14
35 5 0.05
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (30 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTCC
Found at i:153225 original size:20 final size:20
Alignment explanation
Indices: 153200--153254 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
153190 TTTGGGCTCA
153200 ATGTATCGATACAATTCACC
1 ATGTATCGATACAATTCACC
* *
153220 ATGTATCGATACAATTTATC
1 ATGTATCGATACAATTCACC
*
153240 ATATATCGATACAAT
1 ATGTATCGATACAAT
153255 GAGAGTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:153337 original size:13 final size:13
Alignment explanation
Indices: 153319--153343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
153309 TACCAAGAAC
153319 ATGTATCGATACA
1 ATGTATCGATACA
153332 ATGTATCGATAC
1 ATGTATCGATAC
153344 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:153341 original size:32 final size:33
Alignment explanation
Indices: 153300--153364 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
153290 ATAATTCCAT
153300 ATGTATCGATACCAAG-AACATGTATCGATACA
1 ATGTATCGATACCAAGCAACATGTATCGATACA
* * *
153332 ATGTATCGATACTAAGCAATATGTTTCGATACA
1 ATGTATCGATACCAAGCAACATGTATCGATACA
153365 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACCAAGCAACATGTATCGATACA
Found at i:154360 original size:87 final size:87
Alignment explanation
Indices: 154209--154367 Score: 246
Period size: 87 Copynumber: 1.8 Consensus size: 87
154199 GAATTTTATG
* * * *
154209 CAAACTCTCCCCCTCATTACGTTCTCACCCTTAAACCAATAAATAATAGTCTCTCCCATTTTGTG
1 CAAACTCTCCCCCTCAATACGTTCTCACCCTTAAACCAATAAACAATAGTCTCACCCACTTTGTG
154274 TTATAAACTAAGTTCATAAAAC
66 TTATAAACTAAGTTCATAAAAC
* * * *
154296 CAAATTCTCCCCCTTAATACGTTCTCACCCTTAAACTAATAAACAATAGTCTCACCCCCTTTGTG
1 CAAACTCTCCCCCTCAATACGTTCTCACCCTTAAACCAATAAACAATAGTCTCACCCACTTTGTG
154361 TTATAAA
66 TTATAAA
154368 ACCAAATTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 64 1.00
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.32
Consensus pattern (87 bp):
CAAACTCTCCCCCTCAATACGTTCTCACCCTTAAACCAATAAACAATAGTCTCACCCACTTTGTG
TTATAAACTAAGTTCATAAAAC
Found at i:157255 original size:79 final size:79
Alignment explanation
Indices: 157117--157345 Score: 243
Period size: 79 Copynumber: 2.9 Consensus size: 79
157107 TGGGGATAAC
* * * *
157117 AACGGGGCTGGAGTATCCCCAATTAT-ACAAAATCG-GTG-TTTTGAAAATAAAATCA-GGGTTG
1 AACGGGGCCGGAGTATCCCCCATTGTGA-AAAAT-GAGTGCTTTAG-AAATAAAA-CAGGGGTTG
*
157178 GAGTATCCCCTCGAAAAT
62 GAGTATCCCCGCGAAAAT
** * * ** *
157196 AACGGGGTTGGAGTATCCTCGATTGTGAAAAATCGA-TGCTTTAGAAATAAGGCCGGGGTTGGAG
1 AACGGGGCCGGAGTATCCCCCATTGTGAAAAAT-GAGTGCTTTAGAAATAAAACAGGGGTTGGAG
157260 TATCCCCGCGAAAAT
65 TATCCCCGCGAAAAT
* * *
157275 AACGGGGCCGGAGTATCCCCCATTGTGAAAAATTAGTGTTTTAGAAATAAAATAGGGGTTGGAGT
1 AACGGGGCCGGAGTATCCCCCATTGTGAAAAATGAGTGCTTTAGAAATAAAACAGGGGTTGGAGT
157340 ATCCCC
66 ATCCCC
157346 AATTATGAGA
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
78 2 0.02
79 119 0.94
80 5 0.04
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (79 bp):
AACGGGGCCGGAGTATCCCCCATTGTGAAAAATGAGTGCTTTAGAAATAAAACAGGGGTTGGAGT
ATCCCCGCGAAAAT
Found at i:157344 original size:51 final size:51
Alignment explanation
Indices: 157284--157396 Score: 145
Period size: 51 Copynumber: 2.2 Consensus size: 51
157274 TAACGGGGCC
* * * * * *
157284 GGAGTATCCCCCATTGTGAAAAATTAGTGTTTTAGAAATAAAATAGGGGTT
1 GGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAATAGGGCTT
* * *
157335 GGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGTCGGGCTT
1 GGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAATAGGGCTT
157386 GGAGTATCCCC
1 GGAGTATCCCC
157397 TCGGAAATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
GGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAATAGGGCTT
Found at i:157495 original size:131 final size:129
Alignment explanation
Indices: 157199--157605 Score: 544
Period size: 130 Copynumber: 3.1 Consensus size: 129
157189 CGAAAATAAC
* * * * ** *
157199 GGGGTTGGAGTATCCTCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAG-CGGGGTTGGAGTATC
* **** * * *
157264 CCCGCGAAAATAACGGGGCCGGAGTATCCCCCATTGTGAAAAATTAGTGTTTTAGAAATAAAATA
65 CCCTCGAAAATAACGGGATTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATT
* *
157329 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGTCGGGCTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAG-CGGGGTTGGAGTATC
* * * *
157394 CCCTCGGAAATAACGGGATTTGAGTATCCTCGATTGTGAAAAGATTGGTGTTTTAAAAATAAAAT
65 CCCTCGAAAATAACGGGATTAGAGTATCCCCGATTGTGAAAA-ATTGGTGTTTTAGAAATAAAAT
157459 T
129 T
157460 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCTGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGC-GGGGTTGGAGTATC
* * * * *
157525 CCCTCGAAAATAAGGGGATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACT
65 CCCTCGAAAATAACGGGATTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATT
157590 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
157606 TGAGATGAAA
Statistics
Matches: 243, Mismatches: 32, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
130 125 0.51
131 118 0.49
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (129 bp):
GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGCGGGGTTGGAGTATCC
CCTCGAAAATAACGGGATTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATT
Found at i:160718 original size:21 final size:21
Alignment explanation
Indices: 160694--160734 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
160684 TTTTATTAGT
160694 TAACTCA-TCATTTTCATTTTG
1 TAACTCACTCATTTTC-TTTTG
*
160715 TAACTCACTTATTTTCTTTT
1 TAACTCACTCATTTTCTTTT
160735 CCAACTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.02, T:0.56
Consensus pattern (21 bp):
TAACTCACTCATTTTCTTTTG
Found at i:160740 original size:21 final size:21
Alignment explanation
Indices: 160716--160756 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
160706 TTCATTTTGT
*
160716 AACTCACTTATTTTCTTTTCC
1 AACTCACTTACTTTCTTTTCC
* *
160737 AACTTATTTACTTTCTTTTC
1 AACTCACTTACTTTCTTTTC
160757 AAGAGTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (21 bp):
AACTCACTTACTTTCTTTTCC
Found at i:162353 original size:32 final size:30
Alignment explanation
Indices: 162302--162422 Score: 136
Period size: 32 Copynumber: 3.8 Consensus size: 30
162292 CCTTACAACA
*
162302 CTATCTTTCA-AGGCTAAGATAGAAACCTCC
1 CTATCTTTTACAGGCTAAGATAG-AACCTCC
*
162332 CTATCTTTTCACGGGCTAAGATAGAACCTCTTC
1 CTATCTTTT-ACAGGCTAAGATAGAACCTC--C
* *
162365 CTTATTTTTTGCAGGCTAAGATAGAACCTCC
1 C-TATCTTTTACAGGCTAAGATAGAACCTCC
162396 CTATCTTTTACAAAGGCTAAGATAGAA
1 CTATCTTTTAC--AGGCTAAGATAGAA
162423 TCTCTACATT
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
30 16 0.21
31 9 0.12
32 25 0.32
33 20 0.26
34 7 0.09
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (30 bp):
CTATCTTTTACAGGCTAAGATAGAACCTCC
Found at i:162387 original size:33 final size:29
Alignment explanation
Indices: 162302--162458 Score: 129
Period size: 32 Copynumber: 5.0 Consensus size: 29
162292 CCTTACAACA
162302 CTATC-TTTCAAGGCTAAGATAGAAACCTCC
1 CTATCTTTTC-AGGCTAAGATAG-AACCTCC
162332 CTATCTTTTCACGGGCTAAGATAGAACCTCTTC
1 CTATCTTTTCA--GGCTAAGATAGAACCTC--C
*
162365 CTTATTTTTTGCAGGCTAAGATAGAACCTCC
1 C-TATCTTTT-CAGGCTAAGATAGAACCTCC
* *
162396 CTATCTTTTACAAAGGCTAAGATAGAATCTCTA
1 CTATCTTTT-C--AGGCTAAGATAGAACCTC-C
*
162429 C-ATTGCCTTTCAAGGCTAAGATAGAACCTC
1 CTA-T-CTTTTC-AGGCTAAGATAGAACCTC
162459 TCAATCATTT
Statistics
Matches: 108, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
30 14 0.13
31 12 0.11
32 47 0.44
33 22 0.20
34 11 0.10
35 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (29 bp):
CTATCTTTTCAGGCTAAGATAGAACCTCC
Found at i:162445 original size:64 final size:64
Alignment explanation
Indices: 162306--162458 Score: 193
Period size: 64 Copynumber: 2.4 Consensus size: 64
162296 ACAACACTAT
** * * **
162306 CTTTCAAGGCTAAGATAGAAACCTCCCTATCTTTTCACGGGCTAAGATAGAACCTCTTCCTTATT
1 CTTTCAAGGCTAAGATAG-AACCTCCCTATCTTTTCAAAGGCTAAGATAGAACCTCTACATTAGC
* *
162371 TTTTGC-AGGCTAAGATAGAACCTCCCTATCTTTTACAAAGGCTAAGATAGAATCTCTACATT-G
1 CTTT-CAAGGCTAAGATAGAACCTCCCTATCTTTT-CAAAGGCTAAGATAGAACCTCTACATTAG
162434 C
64 C
162435 CTTTCAAGGCTAAGATAGAACCTC
1 CTTTCAAGGCTAAGATAGAACCTC
162459 TCAATCATTT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
63 1 0.01
64 37 0.49
65 37 0.49
66 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (64 bp):
CTTTCAAGGCTAAGATAGAACCTCCCTATCTTTTCAAAGGCTAAGATAGAACCTCTACATTAGC
Found at i:162851 original size:19 final size:19
Alignment explanation
Indices: 162827--162863 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
162817 ACACGCTCCT
*
162827 ATGTATCGATACTTGCATA
1 ATGTATCGATACATGCATA
162846 ATGTATCGATACATGCAT
1 ATGTATCGATACATGCAT
162864 TTGAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGTATCGATACATGCATA
Found at i:162921 original size:20 final size:20
Alignment explanation
Indices: 162896--162943 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
162886 TCAATGTATT
162896 GATACAATTCACCATATATC
1 GATACAATTCACCATATATC
* *
162916 GATACAATTCATCATGTATC
1 GATACAATTCACCATATATC
162936 GATACAAT
1 GATACAAT
162944 GTATCGATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (20 bp):
GATACAATTCACCATATATC
Found at i:162947 original size:13 final size:13
Alignment explanation
Indices: 162929--162955 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
162919 ACAATTCATC
162929 ATGTATCGATACA
1 ATGTATCGATACA
162942 ATGTATCGATACA
1 ATGTATCGATACA
162955 A
1 A
162956 AGTGAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:166923 original size:20 final size:20
Alignment explanation
Indices: 166898--166991 Score: 118
Period size: 20 Copynumber: 4.7 Consensus size: 20
166888 TTTTAACTAG
166898 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
*
166918 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAATA
* *
166938 ATATATCGATACATT-CATA
1 ATGTATCGATACATTGAATA
* * *
166957 CATGTATCTATATATTGAAAA
1 -ATGTATCGATACATTGAATA
166978 ATGTATCGATACAT
1 ATGTATCGATACAT
166992 CTGGGTAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
19 2 0.03
20 57 0.93
21 2 0.03
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:167660 original size:28 final size:28
Alignment explanation
Indices: 167602--168984 Score: 1706
Period size: 28 Copynumber: 48.6 Consensus size: 28
167592 AACCGACTCA
* **
167602 TGTGAGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
167631 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
167659 TGTTGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
167688 TGTGGGCTTTGACAA-AAGTACCATTGACT
1 TGTGGGCTTTGA-AAGGA-TGCCACTGACT
*
167717 TGTGGGCTTTGAAAGGGTGCCACTGACCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
* **
167746 GCGTGGGCTTTGAAAGGACACCACTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
**
167775 TGTGGGCTTTGAAAAAAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
167804 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
167833 TGTGGGCTTTGAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
**
167861 TGTGGGCTTTGAAAATAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * * *
167890 TGTGGGCTTTGAAAGGGTGTCACTAACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
167918 TATGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
167946 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
167974 TGTGGGCTTTGTAAA-GAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGA-TGCCACTGACT
*
168003 TGCGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
168031 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
168059 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
168087 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
168116 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
168144 TGCGTGGGCTTTGAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
* *
168174 TGTGGGCTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
168202 TGTGGGCTTTGAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
168230 TACGTGGGCTTTGAAAGGGTG-CATTGACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
*
168259 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
**
168287 TGTGGGCTTTGAAAATAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * * *
168316 TGTGGGCTTTGAAAGGGTGTCACTAACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
168344 TATGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
168372 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
168400 TGTGGGCTTTGTAAA-GAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGA-TGCCACTGACT
*
168429 TGCGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
168457 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
168485 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
168513 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
168542 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
168570 TGCGTGGGCTTTGAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
*
168600 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
168628 TGTGGGCTTTGAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
168656 TACGTGGGCTTTGAAAGGGTG-CATTGACT
1 T--GTGGGCTTTGAAAGGATGCCACTGACT
*
168685 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
**
168713 TGTGGGCTTTGAAAATAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
168742 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
168770 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
168798 TGTTGGCTTTGAAAGGAGTTCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
** * *
168827 TGTGGGCTTTGAAAAAAGTACCATTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* **
168856 TGTGGGCTTTGAAAGGGTAACACT-AGCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
*
168884 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
168913 TGTGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
168941 TGTGGGCTTTGAAA-TAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
168969 TGTGGGCTTTGAAAGG
1 TGTGGGCTTTGAAAGG
168985 GATGAACATT
Statistics
Matches: 1190, Mismatches: 132, Indels: 64
0.86 0.10 0.05
Matches are distributed among these distances:
27 35 0.03
28 669 0.56
29 371 0.31
30 115 0.10
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:167679 original size:57 final size:57
Alignment explanation
Indices: 167602--168984 Score: 1763
Period size: 57 Copynumber: 24.3 Consensus size: 57
167592 AACCGACTCA
* ** *
167602 TGTGAGCTTTGAAAAAAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
167659 TGTTGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGACAA-AAGTACCATTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGA-AAGGA-TGCCACTGACT
* **
167717 TGTGGGCTTTGAAAGG-GTGCCACTGACCTGCGTGGGCTTTGAAAGGACACCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGA-CT-TGTGGGCTTTGAAAGGATGCCACTGACT
** * *
167775 TGTGGGCTTTGAAAAAAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACT
* **
167833 TGTGGGCTTTGAAAGG-GTGTCACTGACTTGTGGGCTTTGAAAATAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACT
* * * * *
167890 TGTGGGCTTTGAAAGG-GTGTCACTAACCTATGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
167946 TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGTAAA-GAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG-AAAGGA-TGCCACTGACT
* *
168003 TGCGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * *
168059 TATGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACT
*
168116 TGTGGGCTTTGAAAGG-GTGCCACTGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTT--GTGGGCTTTGAAAGGATGCCACTGACT
* * * *
168174 TGTGGGCTTTAAAAGGA-TGCCACTAACTTGTGGGCTTTGAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* *
168230 TACGTGGGCTTTGAAAGG-GTG-CATTGACTTGTGGGCTTTGAAAGGATGCCACTAACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
** * * * *
168287 TGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTAACC
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* *
168344 TATGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
*
168400 TGTGGGCTTTGTAAA-GAGTGCCACTGACTTGCGGGCTTTGAAA-GAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
168457 TGTGGGCTTTGAAAGGA-TGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * *
168513 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
*
168570 TGCGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACT
1 T--GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * *
168628 TGTGGGCTTTG-AAGGGGTGCCACTGACTTACGTGGGCTTTGAAAGGGTG-CATTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTT--GTGGGCTTTGAAAGGATGCCACTGACT
* **
168685 TGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAATAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACT
*
168742 TGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * ** * *
168798 TGTTGGCTTTGAAAGGAGTTCCACTGACTTGTGGGCTTTGAAAAAAGTACCATTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACT
** *
168856 TGTGGGCTTTGAAAGG-GTAACACT-AGCTTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGA-CTTGTGGGCTTTGAAAGGA-TGCCACTGACT
* *
168913 TGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAA-TAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACT
168969 TGTGGGCTTTGAAAGG
1 TGTGGGCTTTGAAAGG
168985 GATGAACATT
Statistics
Matches: 1171, Mismatches: 111, Indels: 88
0.85 0.08 0.06
Matches are distributed among these distances:
55 30 0.03
56 308 0.26
57 572 0.49
58 211 0.18
59 50 0.04
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (57 bp):
TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:168415 original size:426 final size:427
Alignment explanation
Indices: 167602--168985 Score: 2219
Period size: 426 Copynumber: 3.2 Consensus size: 427
167592 AACCGACTCA
* * * * * *
167602 TGTGAGCTTTGAAAAAAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTTGGCT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
* * ** * *
167667 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGACAAAAGTACCATTGACTT--GTGGGCTTTGAA
66 TTGAAAAGAGTGCCACTAACTTGTGGGCTTTGA-AAGGGTGCCACTGACTTGCGTGGGCTTTGAA
* ** * ***
167730 AGGGTGCCACTGACCTGCGTGGGCTTTGAAAGGACACCACTGACTTGTGGGCTTTGAAAAAAGTG
130 AGGGTGCCACTGA-CT-TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG-AAGGGGTG
* * * * * *
167795 CCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGTCACTG
192 CCACTGACTTACGTGGGCTTTG-AAAGGGTG-CATTGACTTGTGGGCTTTGAAAGGATGCCACTA
167858 ACTTGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTAACCTATGG
255 ACTTGTGGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTAACCTATGG
167923 GCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGTAA
320 GCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGTAA
167988 AGAGTGCCACTGACTTGCGGGCTTTGAAAGAGTGCCACTGACT
385 AGAGTGCCACTGACTTGCGGGCTTTGAAAGAGTGCCACTGACT
*
168031 TGTGGGCTTTGAAAGGA-TGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
168095 TTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAA
66 TTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAA
*
168160 GGGTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTTGAAGGGGTGCCAC
131 GGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAGGGGTGCCAC
168225 TGACTTACGTGGGCTTTGAAAGGGTGCATTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGT
196 TGACTTACGTGGGCTTTGAAAGGGTGCATTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGT
168290 GGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTAACCTATGGGCTTTG
261 GGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTAACCTATGGGCTTTG
168355 AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGTAAAGAGTG
326 AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGTAAAGAGTG
168420 CCACTGACTTGCGGGCTTTGAAAGAGTGCCACTGACT
391 CCACTGACTTGCGGGCTTTGAAAGAGTGCCACTGACT
*
168457 TGTGGGCTTTGAAAGGA-TGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
168521 TTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAA
66 TTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAA
168586 GGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAGGGGTGCCAC
131 GGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAGGGGTGCCAC
168651 TGACTTACGTGGGCTTTGAAAGGGTGCATTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGT
196 TGACTTACGTGGGCTTTGAAAGGGTGCATTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGT
* * * *
168716 GGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
261 GGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTAACCTATGGGCTTTG
* * * *
168781 AAAGGATGCCACTAACTTGTTGGCTTTGAAAGGAGTTCCACTGACTTGTGGGCTTTGAAAAAAGT
326 AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGTAAAGAGT
* * * * **
168846 ACCATTGACTTGTGGGCTTTGAAAGGGTAACACT-AGCT
390 GCCACTGACTTGCGGGCTTTGAAAGAGTGCCACTGA-CT
* *
168884 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGC
*
168948 TTTG-AAATAGTGCCACTAACTTGTGGGCTTTGAAAGGG
65 TTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGG
168986 ATGAACATTC
Statistics
Matches: 901, Mismatches: 46, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
426 569 0.63
427 162 0.18
428 131 0.15
429 39 0.04
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (427 bp):
TGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
TTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAA
GGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAGGGGTGCCAC
TGACTTACGTGGGCTTTGAAAGGGTGCATTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGT
GGGCTTTGAAAATAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTAACCTATGGGCTTTG
AAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGTAAAGAGTG
CCACTGACTTGCGGGCTTTGAAAGAGTGCCACTGACT
Found at i:170231 original size:11 final size:9
Alignment explanation
Indices: 170205--170277 Score: 62
Period size: 9 Copynumber: 8.0 Consensus size: 9
170195 CCCCTTTATT
170205 TTTTTTTTG
1 TTTTTTTTG
* *
170214 CTATTTTTTC
1 -TTTTTTTTG
170224 TTGGTTTTTTG
1 TT--TTTTTTG
170235 -TTTTTTT-
1 TTTTTTTTG
*
170242 TTTGTTTTG
1 TTTTTTTTG
170251 TTTTTTGTT-
1 TTTTTT-TTG
170260 TTTTTTTTG
1 TTTTTTTTG
170269 TTTTTTTTG
1 TTTTTTTTG
170278 GGGTGTAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
8 14 0.27
9 21 0.41
10 10 0.20
11 6 0.12
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.84
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:170232 original size:1 final size:1
Alignment explanation
Indices: 170228--170276 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
170218 TTTTTCTTGG
* * * * *
170228 TTTTTTGTTTTTTTTTTGTTTTGTTTTTTGTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
170277 GGGGTGTAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:170233 original size:13 final size:12
Alignment explanation
Indices: 170203--170276 Score: 63
Period size: 11 Copynumber: 6.7 Consensus size: 12
170193 GACCCCTTTA
170203 TTTTTTTTTTGC
1 TTTTTTTTTTGC
*
170215 --TATTTTTT-C
1 TTTTTTTTTTGC
**
170224 TTGGTTTTTTG-
1 TTTTTTTTTTGC
170235 TTTTTTTTTTG-
1 TTTTTTTTTTGC
170246 TTTTGTTTTTTG-
1 TTTT-TTTTTTGC
170258 TTTTTTTTTTG-
1 TTTTTTTTTTGC
170269 TTTTTTTT
1 TTTTTTTT
170277 GGGGTGTAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
9 1 0.02
10 7 0.13
11 34 0.64
12 11 0.21
ACGTcount: A:0.01, C:0.03, G:0.11, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTGC
Found at i:170272 original size:23 final size:23
Alignment explanation
Indices: 170227--170276 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
170217 TTTTTTCTTG
170227 GTTTTTTGTTTTTTTTTTGTTTT
1 GTTTTTTGTTTTTTTTTTGTTTT
170250 GTTTTTTGTTTTTTTTTTGTTTT
1 GTTTTTTGTTTTTTTTTTGTTTT
170273 -TTTT
1 GTTTT
170277 GGGGTGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (23 bp):
GTTTTTTGTTTTTTTTTTGTTTT
Found at i:172569 original size:13 final size:13
Alignment explanation
Indices: 172551--172578 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
172541 ATTACTCAAA
172551 TGTATCGATACAT
1 TGTATCGATACAT
172564 TGTATCGATACAT
1 TGTATCGATACAT
172577 TG
1 TG
172579 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:172628 original size:52 final size:50
Alignment explanation
Indices: 172564--172708 Score: 200
Period size: 52 Copynumber: 2.8 Consensus size: 50
172554 ATCGATACAT
* *
172564 TGTATCGATACATTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATT-AT-TATGTATCGATACATGCAGGCAAATTTACCCAGA
*
172616 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTACCCAGA
1 TGTATCGATACATTAT--TATGTATCGATACATGCAGGCAAATTTACCCAGA
*
172668 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAA
1 TGTATCGATACATTATT--ATGTATCGATACATGCAGGCAA
172709 CTTTTCATAT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (50 bp):
TGTATCGATACATTATTATGTATCGATACATGCAGGCAAATTTACCCAGA
Found at i:179258 original size:13 final size:13
Alignment explanation
Indices: 179240--179266 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
179230 GGACGAATTC
179240 ATAACTTTTTGTT
1 ATAACTTTTTGTT
179253 ATAACTTTTTGTT
1 ATAACTTTTTGTT
179266 A
1 A
179267 AGCCCAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (13 bp):
ATAACTTTTTGTT
Found at i:182549 original size:13 final size:12
Alignment explanation
Indices: 182531--182581 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 12
182521 TAATCTTCAC
182531 AAAAAAAGAAACA
1 AAAAAAAGAAA-A
*
182544 AAAAAAACAAAA
1 AAAAAAAGAAAA
182556 AAAAAGAAGAAAA
1 AAAAA-AAGAAAA
* *
182569 AGAAAAGGAAAA
1 AAAAAAAGAAAA
182581 A
1 A
182582 CCCCATTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
12 13 0.39
13 20 0.61
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:183607 original size:36 final size:34
Alignment explanation
Indices: 183524--183718 Score: 131
Period size: 31 Copynumber: 5.9 Consensus size: 34
183514 TCTTCAAATA
* * *
183524 CCTTCTTAAAGTCCATAATTCCCTGGCACC---TT
1 CCTT-TTAAAGTCCACAACTCCGTGGCACCTTTTT
*
183556 -CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTT-AAAGTCCACAACTCCGTGGCAC-CTTTTT
*
183591 CCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTT
1 -CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTT
* * *
183626 CCTTTT-AAGTCCACGACTCTGTCGCACC---TT
1 CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
183656 -CTTTTCAAAGCCCACAACTCCATGGCATTCTTTCT
1 CCTTTT-AAAGTCCACAACTCCGTGGCA-CCTTTTT
** *
183691 CC-TTCGAAGTCCACAACTCTGTGGCACC
1 CCTTTTAAAGTCCACAACTCCGTGGCACC
183719 CTTCTAAGTC
Statistics
Matches: 127, Mismatches: 22, Indels: 27
0.72 0.12 0.15
Matches are distributed among these distances:
29 5 0.04
30 4 0.03
31 36 0.28
32 2 0.02
33 20 0.16
34 23 0.18
35 10 0.08
36 22 0.17
37 5 0.04
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (34 bp):
CCTTTTAAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:183710 original size:65 final size:64
Alignment explanation
Indices: 183593--183723 Score: 158
Period size: 65 Copynumber: 2.0 Consensus size: 64
183583 CTCTTTTTCC
* * ** *
183593 CTTTTAAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACGACTCTGTCGCA-CCTT
1 CTTTTAAAGCCCACAACTCCATGGCACCTTGTTCCTTCGAAGTCCACAACTCTGTCGCACCCTT
* *
183656 CTTTTCAAAGCCCACAACTCCATGGCATTCTT-TCTCCTTCGAAGTCCACAACTCTGTGGCACCC
1 CTTTT-AAAGCCCACAACTCCATGGCA-CCTTGT-TCCTTCGAAGTCCACAACTCTGTCGCACCC
183720 TT
63 TT
183722 CT
1 CT
183724 AAGTCCACAA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
63 5 0.09
64 20 0.35
65 26 0.46
66 6 0.11
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (64 bp):
CTTTTAAAGCCCACAACTCCATGGCACCTTGTTCCTTCGAAGTCCACAACTCTGTCGCACCCTT
Found at i:183716 original size:34 final size:33
Alignment explanation
Indices: 183559--183716 Score: 115
Period size: 33 Copynumber: 4.7 Consensus size: 33
183549 GCACCTTCTT
* *
183559 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTCAAAGTCCACAACTCCGTGGCA-TCTTTCT-CC
* *
183594 TTTTAAAGTCCACAACTCCGTGGCACCTTGT-TCC
1 -TTCAAAGTCCACAACTCCGTGGCATCTT-TCTCC
** * * * * *
183628 TTTTAAGTCCACGACTCTGTCGCA-CCTTCT-T
1 TTCAAAGTCCACAACTCCGTGGCATCTTTCTCC
* *
183659 TTCAAAGCCCACAACTCCATGGCATTCTTTCTCC
1 TTCAAAGTCCACAACTCCGTGGCA-TCTTTCTCC
* *
183693 TTCGAAGTCCACAACTCTGTGGCA
1 TTCAAAGTCCACAACTCCGTGGCA
183717 CCCTTCTAAG
Statistics
Matches: 95, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
31 18 0.19
32 3 0.03
33 25 0.26
34 22 0.23
35 4 0.04
36 23 0.24
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (33 bp):
TTCAAAGTCCACAACTCCGTGGCATCTTTCTCC
Found at i:183721 original size:27 final size:27
Alignment explanation
Indices: 183691--183797 Score: 169
Period size: 27 Copynumber: 4.0 Consensus size: 27
183681 CATTCTTTCT
*
183691 CCTTCGAAGTCCACAACTCTGTGGCAC
1 CCTTCTAAGTCCACAACTCTGTGGCAC
183718 CCTTCTAAGTCCACAACTCTGTGGCAC
1 CCTTCTAAGTCCACAACTCTGTGGCAC
183745 CCTTCTAAGTCCACAACTCTGTGGCAC
1 CCTTCTAAGTCCACAACTCTGTGGCAC
* * * *
183772 CCTTTTACGTCCACAGCTCCGTGGCA
1 CCTTCTAAGTCCACAACTCTGTGGCA
183798 TCTTTCTCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.21, C:0.37, G:0.17, T:0.25
Consensus pattern (27 bp):
CCTTCTAAGTCCACAACTCTGTGGCAC
Found at i:183916 original size:33 final size:32
Alignment explanation
Indices: 183805--183947 Score: 168
Period size: 33 Copynumber: 4.5 Consensus size: 32
183795 GCATCTTTCT
*
183805 CCTTTTCAAAAG-CC-CACAAGTCGGTGGCGAA
1 CCTTTTCTAAAGCCCACACAAGTCGGTGGC-AA
*
183836 CTTTTTCTCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTTTCT-AAAGCCCACACAAGTCGGTGGCAA
* * * *
183869 CCCTCTCTAAAGCCCACACTAGTTGGTGGCAA
1 CCTTTTCTAAAGCCCACACAAGTCGGTGGCAA
183901 CCATTTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTTTCTAAAGCCCACACAAGTCGGTGGCAA
*
183934 CC-CTTCT-AAGCCCA
1 CCTTTTCTAAAGCCCA
183948 ATATTGCTGG
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
30 7 0.07
31 10 0.10
32 28 0.29
33 37 0.39
34 14 0.15
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (32 bp):
CCTTTTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:183921 original size:65 final size:63
Alignment explanation
Indices: 183813--183947 Score: 195
Period size: 65 Copynumber: 2.1 Consensus size: 63
183803 CTCCTTTTCA
*
183813 AAAGCCCACAAGTCGGTGGCGAACTTTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCT
1 AAAGCCCACAAGTCGGTGGCGAACATTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCT-TCT
*
183877 AAAGCCCACACTAGTTGGTGGC-AACCATTTTCT-AAAGCCCACACAAGTCGGTGGCAACCCTTC
1 AAAGCCCACA--AGTCGGTGGCGAA-CATTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTC
183940 T
63 T
183941 -AAGCCCA
1 AAAGCCCA
183948 ATATTGCTGG
Statistics
Matches: 66, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
63 7 0.11
64 13 0.20
65 30 0.45
66 16 0.24
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (63 bp):
AAAGCCCACAAGTCGGTGGCGAACATTTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCT
Found at i:184088 original size:92 final size:92
Alignment explanation
Indices: 183935--184782 Score: 1156
Period size: 92 Copynumber: 9.0 Consensus size: 92
183925 CGGTGGCAAC
* *
183935 CCTTCTAAGCCCAATATTGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATG
184000 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
* * * * * *
184028 CCTTTAAGCCCAATATTGCTGGCCTTGAATCATCATATTGACATCTTCTTCTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATGT
* *
184093 AGCTGGCCTTGAATAAGCACATTGTCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
184120 CCTTTAAGCCCAATATTGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATGT
184185 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
184212 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCACCTTCATCTTTAAGTCCAACGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATGT
*
184277 AGCTGGCCTTGAATCAGCACATTGTCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
184304 CCTTTAAGCCCAATATTGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATGT
184369 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
184396 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCACCTTCATCTTTAAGTCCAACGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATGT
*
184461 AGCTGGCCTTGAATCAGCACATTAGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
184488 ACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGCCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATGT
*
184553 TGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
184580 CCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATT-G-GCATCT-TCTTCTTTAAGTCCAA
* * *
184645 TATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCA
63 TGTAGCTGGCCTTGAATCAGCACATT---G-----G-CA
* * * * *
184684 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATT-G-GCATCT-TCTTCTTTAAGTCCAA
* * *
184749 TGTCGCTGGCCTTGAATTAGTACATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
184779 CCTT
1 CCTT
184783 CATCTTTTAA
Statistics
Matches: 687, Mismatches: 56, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
92 546 0.79
93 5 0.01
94 3 0.00
95 42 0.06
96 1 0.00
98 1 0.00
101 1 0.00
103 1 0.00
104 87 0.13
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCGTATTGGCATCTTCTTCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:184777 original size:52 final size:52
Alignment explanation
Indices: 184581--184765 Score: 343
Period size: 52 Copynumber: 3.6 Consensus size: 52
184571 ACATTGGCAC
*
184581 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
*
184633 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
184685 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
*
184737 CTTTAAGTCCAATGTCGCTGGCCTTGAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAAT
184766 TAGTACATTG
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 129 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
Found at i:185441 original size:13 final size:13
Alignment explanation
Indices: 185423--185449 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
185413 GGACGAATTC
185423 ATAACTTTTTGTT
1 ATAACTTTTTGTT
185436 ATAACTTTTTGTT
1 ATAACTTTTTGTT
185449 A
1 A
185450 AGCTCGAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (13 bp):
ATAACTTTTTGTT
Found at i:185643 original size:13 final size:13
Alignment explanation
Indices: 185625--185649 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
185615 CATAAAGTGT
185625 TGTATCGATACAA
1 TGTATCGATACAA
185638 TGTATCGATACA
1 TGTATCGATACA
185650 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:185665 original size:32 final size:33
Alignment explanation
Indices: 185605--185670 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
185595 TTCAACGATT
185605 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
185638 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
185670 T
1 T
185671 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:185730 original size:13 final size:13
Alignment explanation
Indices: 185712--185736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
185702 ATTACTCAAA
185712 TGTATCGATACAT
1 TGTATCGATACAT
185725 TGTATCGATACA
1 TGTATCGATACA
185737 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:189357 original size:15 final size:15
Alignment explanation
Indices: 189339--189398 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
189329 AAAAGTGATG
*
189339 AAAAA-AAAAACAAA
1 AAAAACAAAAAAAAA
*
189353 AAAAACAAAAAAACA
1 AAAAACAAAAAAAAA
189368 AAAAACAAAAAAAAA
1 AAAAACAAAAAAAAA
*
189383 ACAAACCAAAAAAAAA
1 A-AAAACAAAAAAAAA
189399 CACACACAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 5 0.12
15 22 0.55
16 13 0.32
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACAAAAAAAAA
Found at i:189362 original size:18 final size:18
Alignment explanation
Indices: 189339--189387 Score: 82
Period size: 17 Copynumber: 2.8 Consensus size: 18
189329 AAAAGTGATG
189339 AAAAAAAAAACAAAAAA-
1 AAAAAAAAAACAAAAAAC
*
189356 AACAAAAAAACAAAAAAC
1 AAAAAAAAAACAAAAAAC
189374 AAAAAAAAAACAAA
1 AAAAAAAAAACAAA
189388 CCAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 16 0.55
18 13 0.45
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAACAAAAAAC
Found at i:189396 original size:26 final size:24
Alignment explanation
Indices: 189339--189400 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
189329 AAAAGTGATG
189339 AAAAAAAAAACAAAAAAAACAAAA
1 AAAAAAAAAACAAAAAAAACAAAA
*
189363 AAACAAAAAACAAAAAAAA-AACAA
1 AAAAAAAAAACAAAAAAAACAA-AA
189387 ACCAAAAAAAAACA
1 A--AAAAAAAAACA
189401 CACACAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 2 0.06
24 21 0.64
26 10 0.30
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAACAAAAAAAACAAAA
Found at i:189400 original size:15 final size:15
Alignment explanation
Indices: 189343--189398 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 15
189333 GTGATGAAAA
*
189343 AAAAAACAAAAAAAAC
1 AAAAAA-AAAAAAACC
189359 AAAAAAACAAAAAA-C
1 AAAAAAA-AAAAAACC
189374 AAAAAAAAAACAAACC
1 AAAAAAAAAA-AAACC
189390 AAAAAAAAA
1 AAAAAAAAA
189399 CACACACAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.08
15 12 0.32
16 22 0.59
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAACC
Found at i:189413 original size:1 final size:1
Alignment explanation
Indices: 189339--189398 Score: 57
Period size: 1 Copynumber: 60.0 Consensus size: 1
189329 AAAAGTGATG
* * * * * **
189339 AAAAAAAAAACAAAAAAAACAAAAAAACAAAAAACAAAAAAAAAACAAACCAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
189399 CACACACAGA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:189682 original size:10 final size:10
Alignment explanation
Indices: 189669--189698 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
189659 GAAACAAAAC
189669 AAAAAAGAAAA
1 AAAAAAG-AAA
189680 AAAAAAGAAA
1 AAAAAAGAAA
189690 AAAAAAGAA
1 AAAAAAGAA
189699 GAAGGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:189683 original size:11 final size:11
Alignment explanation
Indices: 189664--189695 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
189654 AAAAGGAAAC
189664 AAAACAAAAAAG
1 AAAA-AAAAAAG
189676 AAAAAAAAAAG
1 AAAAAAAAAAG
189687 AAAAAAAAA
1 AAAAAAAAA
189696 GAAGAAGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:189684 original size:17 final size:17
Alignment explanation
Indices: 189651--189684 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
189641 TGTTCTTTTC
* *
189651 CAAAAAAGGAAACAAAA
1 CAAAAAAGAAAAAAAAA
189668 CAAAAAAGAAAAAAAAA
1 CAAAAAAGAAAAAAAAA
189685 AGAAAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (17 bp):
CAAAAAAGAAAAAAAAA
Found at i:190672 original size:31 final size:31
Alignment explanation
Indices: 190637--190911 Score: 192
Period size: 31 Copynumber: 9.1 Consensus size: 31
190627 TTCAAATACC
*
190637 TTCTTAAAGTCCATGACTCAGTGGCATCCTT
1 TTCTTAAAGTCCACGACTCAGTGGCATCCTT
*
190668 TTCTTTAAAGTCCACGACTTAGTGGCAT--TT
1 TTC-TTAAAGTCCACGACTCAGTGGCATCCTT
*
190698 TGTCTCAAAGTCCACGACTCAGTGGCAT--TT
1 T-TCTTAAAGTCCACGACTCAGTGGCATCCTT
*
190728 TCTTTTCAAAGTCCACGACTCAGTGGCA-----
1 T-TCTT-AAAGTCCACGACTCAGTGGCATCCTT
* *
190756 -TC--AAAGTCCACAACTCCGTGGCA-CTCTT
1 TTCTTAAAGTCCACGACTCAGTGGCATC-CTT
190784 CTTCCTTTTAAAGTCCACGACTCAGTGGCATCCTT
1 -TT-C--TTAAAGTCCACGACTCAGTGGCATCCTT
* * * *
190819 TTCTCAAAGCCCATGACTAAGTGGCAT--TT
1 TTCTTAAAGTCCACGACTCAGTGGCATCCTT
*
190848 TGT-TTCAAAGTCCACGACTCTGTGGCA-CCTT
1 T-TCTT-AAAGTCCACGACTCAGTGGCATCCTT
*
190879 CTTTTTAAAGTCCACGACTTC-GTGGCA-CCTT
1 -TTCTTAAAGTCCACGAC-TCAGTGGCATCCTT
190910 TT
1 TT
190912 TCTTTTCAAA
Statistics
Matches: 200, Mismatches: 21, Indels: 47
0.75 0.08 0.18
Matches are distributed among these distances:
23 19 0.09
26 1 0.00
29 4 0.02
30 51 0.25
31 72 0.36
32 27 0.14
33 1 0.00
34 2 0.01
35 22 0.11
36 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.33
Consensus pattern (31 bp):
TTCTTAAAGTCCACGACTCAGTGGCATCCTT
Found at i:190763 original size:23 final size:23
Alignment explanation
Indices: 190733--190778 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
190723 CATTTTCTTT
*
190733 TCAAAGTCCACGACTCAGTGGCA
1 TCAAAGTCCACAACTCAGTGGCA
*
190756 TCAAAGTCCACAACTCCGTGGCA
1 TCAAAGTCCACAACTCAGTGGCA
190779 CTCTTCTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (23 bp):
TCAAAGTCCACAACTCAGTGGCA
Found at i:190809 original size:58 final size:54
Alignment explanation
Indices: 190702--190815 Score: 158
Period size: 58 Copynumber: 2.0 Consensus size: 54
190692 GCATTTTGTC
*
190702 TCAAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGCA
1 TCAAAGTCCACAACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGCA
*
190756 TCAAAGTCCACAACTCCGTGGCACTCTTCTTCCTTTT-AAAGTCCACGACTCAGTGGCA
1 TCAAAGTCCACAACTCAGTGGCA---TT-TT-CTTTTCAAAGTCCACGACTCAGTGGCA
190814 TC
1 TC
190816 CTTTTCTCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
54 21 0.40
57 2 0.04
58 25 0.47
59 5 0.09
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (54 bp):
TCAAAGTCCACAACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGCA
Found at i:190814 original size:89 final size:86
Alignment explanation
Indices: 190704--190939 Score: 235
Period size: 89 Copynumber: 2.6 Consensus size: 86
190694 ATTTTGTCTC
*
190704 AAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGTCCACGACTCAGTGGCA-TCAAAGTCCACA
1 AAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGCCCACGACTCAGTGGCATTCAAAGTCCACA
190768 ACTCCGTGGCACTCTTCTTCCTTTT
66 ACTCCGTGGCAC-CTTC-T--TTTT
* * * *
190793 AAAGTCCACGACTCAGTGGCATCCTT-TTCTCAAAGCCCATGACTAAGTGGCATTTTGTTTCAAA
1 AAAGTCCACGACTCAGTGGCAT-TTTCTTTTCAAAGCCCACGACTCAGTGGCA------TTCAAA
* *
190857 GTCCACGACTCTGTGGCACCTTCTTTTT
59 GTCCACAACTCCGTGGCACCTTCTTTTT
* *
190885 AAAGTCCACGACTTC-GTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGAC-TCAGTGGCA---TTTTCTTTTCAAAGCCCACGACTCAGTGGCA
190940 CTCTTTTTCC
Statistics
Matches: 121, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
89 44 0.36
90 2 0.02
92 22 0.18
93 2 0.02
94 3 0.02
95 26 0.21
96 22 0.18
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.31
Consensus pattern (86 bp):
AAAGTCCACGACTCAGTGGCATTTTCTTTTCAAAGCCCACGACTCAGTGGCATTCAAAGTCCACA
ACTCCGTGGCACCTTCTTTTT
Found at i:191035 original size:37 final size:34
Alignment explanation
Indices: 190758--191385 Score: 520
Period size: 31 Copynumber: 18.7 Consensus size: 34
190748 CAGTGGCATC
*
190758 AAAGTCCACAACTCCGTGGCACTCTTCTTCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTTCCTTTT
* * *
190793 AAAGTCCACGACTCAGTGGCATCC-TTTT-C--TC
1 AAAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
* ** ** * *
190824 AAAGCCCATGACTAAGTGGCA---TTTT-GTTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
190854 AAAGTCCACGACTCTGTGGCACC---TTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
190885 AAAGTCCACGACTTCGTGGCACCTTTTT-CTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
*
190918 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGTCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
*
190955 AAAGTCCACAAC-CCTGTGGCACCTTGTT-CTTTT
1 AAAGTCCACAACTCC-GTGGCACCTTTTTCCTTTT
* *
190988 TAAGTCCACAACTCCATGGCACTCTTTTTCCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
*
191024 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGTCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* * *
191061 AAAGTCCATAACCCCGTGGCACCTTGTTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
191095 -AAGTCCACGACTCCGTGGCACC---TTCCTTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
191125 AAAGTCCGCGACTCCGTGGCA-C--ATT-CTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
191155 CAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTT
1 -AAAGTCCACAACTCCGTGGCAC-CTTTTTCCTTTT
* *
191191 AAAGCCCACAAC-CCTGTGGCACCTTGTTCCTTTT
1 AAAGTCCACAACTCC-GTGGCACCTTTTTCCTTTT
191225 -AAGTCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
*
191260 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGTCCACAACTCCGTGGCAC-CTTTTT-CCTTTT
* *
191297 AAAGTCCACAACCCCGTGGCACCTTGTT-CTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * * *
191330 TAAGTCCACGACTCTGTGGCACC---TTCCTTTC
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
*
191361 AAAGTCCACGACTCCGTGGCACCTT
1 AAAGTCCACAACTCCGTGGCACCTT
191386 CCTTTCAAAG
Statistics
Matches: 499, Mismatches: 58, Indels: 74
0.79 0.09 0.12
Matches are distributed among these distances:
28 4 0.01
30 35 0.07
31 107 0.21
33 88 0.18
34 56 0.11
35 69 0.14
36 68 0.14
37 72 0.14
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (34 bp):
AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:191039 original size:106 final size:103
Alignment explanation
Indices: 190850--191385 Score: 485
Period size: 106 Copynumber: 5.3 Consensus size: 103
190840 TGGCATTTTG
* * * *
190850 TTTCAAAGTCCACGACTCTGTGGCACC--TTCTTTTTAAAGTCCACGACTTCGTGGCACCTTTTT
1 TTTCAAAGTCCACAAC-CCGTGGCACCTTTTCTTTTT-AAGTCCACAACTCCGTGGCACCTTTTT
190913 -CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
64 CCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
*
190952 TTT-AAAGTCCACAACCCTGTGGCACCTTGTTCTTTTTAAGTCCACAACTCCATGGCACTCTTTT
1 TTTCAAAGTCCACAACCC-GTGGCACCTT-TTCTTTTTAAGTCCACAACTCCGTGGCAC-CTTTT
191016 TCCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
63 T-CCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
* * *
191058 TTT-AAAGTCCATAACCCCGTGGCACCTTGTTCCTTTTAAGTCCACGACTCCGTGGCACC---TT
1 TTTCAAAGTCCACAA-CCCGTGGCACCTT-TTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
191119 CC-TTTCAAAGTCCGCGACTCCGTGGCA--C--ATT--CT
64 CCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
* * *
191152 TTTCAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAAGCCCACAAC-CCTGTGGCACCTT
1 TTTCAAAGTCCACAAC-CCGTGGCAC-CTTTT--CTTTTTAAGTCCACAACTCC-GTGGCACCTT
* *
191216 GTTCCTTTT--AAGTCCACAACTCCGTGGCACTCTTTTTCCCT
61 TTTCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
* * *
191257 TTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTT
1 TTTCAAAGTCCACAAC-CCGTGGCAC-C-TTTT--CTTTTTAAGTCCACAACTCCGTGGCACCTT
* * * * *
191322 GTT-CTTTT-TAAGTCCACGACTCTGTGGCAC-C---TT-CC-
61 TTTCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
*
191357 TTTCAAAGTCCACGACTCCGTGGCACCTT
1 TTTCAAAGTCCACAAC-CCGTGGCACCTT
191386 CCTTTCAAAG
Statistics
Matches: 380, Mismatches: 27, Indels: 58
0.82 0.06 0.12
Matches are distributed among these distances:
94 6 0.02
95 20 0.05
96 7 0.02
97 21 0.06
98 3 0.01
99 19 0.05
100 51 0.13
101 27 0.07
102 7 0.02
103 20 0.05
104 14 0.04
105 37 0.10
106 143 0.38
107 5 0.01
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.33
Consensus pattern (103 bp):
TTTCAAAGTCCACAACCCGTGGCACCTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCC
TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
Found at i:191219 original size:236 final size:237
Alignment explanation
Indices: 190855--191401 Score: 943
Period size: 236 Copynumber: 2.3 Consensus size: 237
190845 TTTTGTTTCA
* * * *
190855 AAGTCCACGACTCTGTGGCACCTTCTTTTTAAAGTCCACGACTTCGTGGCACCTTTTTCTTTTCA
1 AAGTCCACGACTCTGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCA-C--ATTCTTTTCA
* *
190920 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCTGTGGCACCTTGTTCT
63 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACCCTGTGGCACCTTGTTCC
190985 TTTTAAGTCCACAACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTCT
128 TTTTAAGTCCACAACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTCT
*
191050 TTTTCCCTTTTAAAGTCCATAACCCCGTGGCACCTTGTTCCTTTT
193 TTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTTT
* *
191095 AAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCGCGACTCCGTGGCACATTCTTTTCAAAG
1 AAGTCCACGACTCTGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCACATTCTTTTCAAAG
191160 CCCACAACTCCGTGGCACTC-TTTTCCCTTTTAAAGCCCACAACCCTGTGGCACCTTGTTCCTTT
66 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACCCTGTGGCACCTTGTTCCTTT
*
191224 TAAGTCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
131 TAAGTCCACAACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
*
191289 TCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCTTTTT
196 TCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTTT
* *
191331 AAGTCCACGACTCTGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCACCTTCCTTTCAAAG
1 AAGTCCACGACTCTGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCACATTCTTTTCAAAG
191396 CCCACA
66 CCCACA
191402 CAAGTTGGTG
Statistics
Matches: 292, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
236 213 0.73
237 32 0.11
239 1 0.00
240 46 0.16
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.32
Consensus pattern (237 bp):
AAGTCCACGACTCTGTGGCACCTTCCTTTCAAAGTCCACGACTCCGTGGCACATTCTTTTCAAAG
CCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACCCTGTGGCACCTTGTTCCTTT
TAAGTCCACAACTCCATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
TCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTTT
Found at i:191428 original size:32 final size:32
Alignment explanation
Indices: 191386--191550 Score: 235
Period size: 32 Copynumber: 5.1 Consensus size: 32
191376 GTGGCACCTT
191386 CCTTT-CAAAGCCCACACAAGTTGGTGGCAAC
1 CCTTTCCAAAGCCCACACAAGTTGGTGGCAAC
* *
191417 CCTTTCCAAAGCCCACATAAGTCGGTGGCAAC
1 CCTTTCCAAAGCCCACACAAGTTGGTGGCAAC
* *
191449 CC-TTCTCAAAGCCCACATAAGTCGGTGGCAAC
1 CCTTTC-CAAAGCCCACACAAGTTGGTGGCAAC
191481 CCTTTTCCAAAGCCCACACAAGTTGGTGGCAAC
1 CC-TTTCCAAAGCCCACACAAGTTGGTGGCAAC
* *
191514 CATTCTCTAAAGCCCACACAAGTTGGTGGCAAC
1 CCTT-TCCAAAGCCCACACAAGTTGGTGGCAAC
191547 CCTT
1 CCTT
191551 CTAAGCCCAA
Statistics
Matches: 122, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
31 8 0.07
32 56 0.46
33 55 0.45
34 3 0.02
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (32 bp):
CCTTTCCAAAGCCCACACAAGTTGGTGGCAAC
Found at i:191497 original size:33 final size:33
Alignment explanation
Indices: 191391--191552 Score: 247
Period size: 33 Copynumber: 5.0 Consensus size: 33
191381 ACCTTCCTTT
191391 CAAAGCCCACACAAGTTGGTGGCAACCCTT-TC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* *
191423 CAAAGCCCACATAAGTCGGTGGCAACCCTTCT-
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* * *
191455 CAAAGCCCACATAAGTCGGTGGCAACCCTTTTC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
*
191488 CAAAGCCCACACAAGTTGGTGGCAACCATTCTC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
*
191521 TAAAGCCCACACAAGTTGGTGGCAACCCTTCT
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCT
191553 AAGCCCAATA
Statistics
Matches: 119, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
32 59 0.50
33 60 0.50
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (33 bp):
CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
Found at i:191509 original size:65 final size:65
Alignment explanation
Indices: 191386--191550 Score: 262
Period size: 65 Copynumber: 2.6 Consensus size: 65
191376 GTGGCACCTT
*
191386 CCTT-TCAAAGCCCACACAAGTTGGTGGCAACCC-TTTCCAAAGCCCACATAAGTCGGTGGCAAC
1 CCTTCTCAAAGCCCACACAAGTTGGTGGCAACCCTTTTCCAAAGCCCACACAAGTCGGTGGCAAC
* * *
191449 CCTTCTCAAAGCCCACATAAGTCGGTGGCAACCCTTTTCCAAAGCCCACACAAGTTGGTGGCAAC
1 CCTTCTCAAAGCCCACACAAGTTGGTGGCAACCCTTTTCCAAAGCCCACACAAGTCGGTGGCAAC
*
191514 CATTCTCTAAAGCCCACACAAGTTGGTGGCAACCCTT
1 CCTTCTC-AAAGCCCACACAAGTTGGTGGCAACCCTT
191551 CTAAGCCCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
63 4 0.04
64 27 0.29
65 34 0.37
66 27 0.29
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (65 bp):
CCTTCTCAAAGCCCACACAAGTTGGTGGCAACCCTTTTCCAAAGCCCACACAAGTCGGTGGCAAC
Found at i:191616 original size:49 final size:48
Alignment explanation
Indices: 191552--191823 Score: 312
Period size: 43 Copynumber: 5.8 Consensus size: 48
191542 GCAACCCTTC
* * *
191552 TAAGCCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC-TCTT
*
191601 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCTCTT
* *
191644 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTC-TCTT
* *
191693 TAAGTCCAATGTAGCTGGCCTGGAATCAGCACATTGGCA----C-CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCTCTT
* *
191736 TAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-C-TCTT
* *
191788 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
191824 ACATCCTTTT
Statistics
Matches: 189, Mismatches: 19, Indels: 27
0.80 0.08 0.11
Matches are distributed among these distances:
43 77 0.41
45 2 0.01
47 1 0.01
49 73 0.39
50 1 0.01
52 35 0.19
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (48 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCTCTT
Found at i:191719 original size:92 final size:92
Alignment explanation
Indices: 191547--191832 Score: 455
Period size: 92 Copynumber: 3.1 Consensus size: 92
191537 TGGTGGCAAC
* *
191547 CCTTCTAAGCCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATG
191612 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
191640 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
*
191705 AGCTGGCCTGGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
191732 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CTTCTTTAAGTCCAA
*
191797 TGTAGCTGGCCTTGAATCAGCACATTGACA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
191827 TCCTTT
1 -CCTTT
191833 TTCTCATCTT
Statistics
Matches: 179, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
92 127 0.71
93 4 0.02
94 2 0.01
95 41 0.23
96 5 0.03
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:191811 original size:52 final size:53
Alignment explanation
Indices: 191733--191886 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
191723 ACATTGGCAC
191733 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCTCAT
* * * * *
191785 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCA-CC-TTTTCTCAT
* * * * * *
191840 CTTTAAGCCCAATATCGTTGGTCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTT
191887 ATCACTTTTC
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
52 37 0.45
53 5 0.06
54 6 0.07
55 35 0.42
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCTCAT
Found at i:191868 original size:55 final size:55
Alignment explanation
Indices: 191803--192097 Score: 208
Period size: 55 Copynumber: 5.2 Consensus size: 55
191793 TCAATGTAGC
* *
191803 TGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGT
1 TGGCCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGT
* * * * *
191858 TGGTCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCATCTTTAAATCAAATATC
1 TGGCCGTGAATCAGCACATT-G-A-C---ATC-C-TTT-T--TC-TCATCTTTAAACCCAATATC
*
191923 GC
54 GT
* * * * *
191925 TGGCCTTGAATCAGCATATTGGCA-CC---TTCATCATCTTTAAAACCCAATGTTGT
1 TGGCCGTGAATCAGCACATTGACATCCTTTTTC-TCATCTTT-AAACCCAATATCGT
* * * ** * * *
191978 TGGCCTTGAATCAGCACATTGGCA---TTTTTCTCATCTTCAAGTCTAATGTCGC
1 TGGCCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGT
* *
192030 TGACCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTGAACCCAATATCGT
1 TGGCCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGT
192085 TGGCCGTGAATCA
1 TGGCCGTGAATCA
192098 ACGTATTACT
Statistics
Matches: 185, Mismatches: 36, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
52 40 0.22
53 39 0.21
54 4 0.02
55 49 0.26
56 1 0.01
57 1 0.01
58 1 0.01
59 1 0.01
60 1 0.01
61 4 0.02
62 1 0.01
63 3 0.02
64 2 0.01
66 3 0.02
67 35 0.19
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (55 bp):
TGGCCGTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGT
Found at i:191944 original size:67 final size:68
Alignment explanation
Indices: 191836--191962 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 68
191826 ATCCTTTTTC
* * * * * *
191836 TCATCTTTAAGCCCAATATCGTTGGTCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAACCAAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
191900 TCT
66 TCT
* * *
191903 TCATCTTTAAATCAAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAACCAAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
191963 AAAACCCAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
67 46 0.92
68 4 0.08
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAACCAAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:192012 original size:53 final size:52
Alignment explanation
Indices: 191903--192097 Score: 167
Period size: 53 Copynumber: 3.7 Consensus size: 52
191893 TTTCTCATCT
* * * * * * **
191903 TCATCTTTAAATCAAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTC
1 TCATCTTTAAACCCAATGTCGTTGGCCGTGAATCAGCACATTGGCATTTTTC
* *
191954 ATCATCTTTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATTTTTC
1 -TCATCTTT-AAACCCAATGTCGTTGGCCGTGAATCAGCACATTGGCATTTTTC
* ** * * * *
192008 TCATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACATCCTTTTTC
1 TCATCTTTAAACCCAATGTCGTTGGCCGTGAATCAGCACATTGGCA---TTTTTC
* *
192063 TCATCTTTGAACCCAATATCGTTGGCCGTGAATCA
1 TCATCTTTAAACCCAATGTCGTTGGCCGTGAATCA
192098 ACGTATTACT
Statistics
Matches: 113, Mismatches: 25, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
52 38 0.34
53 39 0.35
54 3 0.03
55 33 0.29
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (52 bp):
TCATCTTTAAACCCAATGTCGTTGGCCGTGAATCAGCACATTGGCATTTTTC
Found at i:192548 original size:13 final size:13
Alignment explanation
Indices: 192530--192556 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
192520 GGACGAATTC
192530 ATAACTTTTTGTT
1 ATAACTTTTTGTT
192543 ATAACTTTTTGTT
1 ATAACTTTTTGTT
192556 A
1 A
192557 AGCCCGAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (13 bp):
ATAACTTTTTGTT
Found at i:192749 original size:13 final size:13
Alignment explanation
Indices: 192731--192755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
192721 CATAAAGTGT
192731 TGTATCGATACAA
1 TGTATCGATACAA
192744 TGTATCGATACA
1 TGTATCGATACA
192756 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:192771 original size:32 final size:33
Alignment explanation
Indices: 192711--192776 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
192701 TTCAACGATT
192711 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
192744 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
192776 T
1 T
192777 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:192817 original size:21 final size:21
Alignment explanation
Indices: 192792--192850 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
192782 CTACTGCCAA
192792 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
192813 AAATGTATCGATACATTACTC
1 AAATGTATCGATACATTACTC
192834 AAATGTATCGATACATT
1 AAATGTATCGATACATT
192851 GTATCGATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AAATGTATCGATACATTACTC
Found at i:192855 original size:13 final size:13
Alignment explanation
Indices: 192837--192861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
192827 ATTACTCAAA
192837 TGTATCGATACAT
1 TGTATCGATACAT
192850 TGTATCGATACA
1 TGTATCGATACA
192862 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:192924 original size:106 final size:106
Alignment explanation
Indices: 192731--192934 Score: 265
Period size: 106 Copynumber: 1.9 Consensus size: 106
192721 CATAAAGTGT
*
192731 TGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAATTTAAGCTACTGCCAAAAAT
1 TGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAATGTAAGCTACTGCCAAAAAT
*
192796 GTATCGATACATTACTCAAATGTATCGATACATTACTCAAA
66 GTATCGATACATTACTAAAATGTATCGATACATTACTCAAA
* * *
192837 TGTATCGATACATTGTATCGATACACTAA-TCTTTGTATCGATAC-ATGT-AGGTAAATTTGCC-
1 TGTATCGATACAATGTATCGATACA-TAAGT-TTTGTATCGATACAATGTAAGCT--A-CTGCCA
* *
192898 CAGATGTATCGATACATTA-TAAAATGTATCGATACAT
61 AAAATGTATCGATACATTACTAAAATGTATCGATACAT
192935 GCAGGCAAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
105 3 0.03
106 45 0.52
107 34 0.40
108 4 0.05
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (106 bp):
TGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAATGTAAGCTACTGCCAAAAAT
GTATCGATACATTACTAAAATGTATCGATACATTACTCAAA
Found at i:192926 original size:52 final size:52
Alignment explanation
Indices: 192870--192994 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
192860 CACTAATCTT
* * *
192870 TGTATCGATACATGTAGGTAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
192922 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACGCTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
192974 TGTATCGATACATGCAGGCAA
1 TGTATCGATACATGCAGGCAA
192995 CTTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:208163 original size:20 final size:20
Alignment explanation
Indices: 208116--208190 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
208106 AAAAAGACAT
*
208116 AATGTATCGATACATTGA-A
1 AATGTATCGATACATTCATA
*
208135 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
208156 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
*
208176 AATGTATCAATACAT
1 AATGTATCGATACAT
208191 CTAGGTAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 43 0.98
21 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:208173 original size:40 final size:39
Alignment explanation
Indices: 208113--208190 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
208103 GGTAAAAAGA
* *
208113 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCAATACATT
* *
208152 CATACATGTATCGATATATTGAAAAATGTATCAATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCAATACAT
208191 CTAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCAATACATT
Found at i:210659 original size:20 final size:19
Alignment explanation
Indices: 210616--210689 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
210606 AAAAAAAAGA
* *
210616 ATGTATCGATACATTTTTC
1 ATGTATCGATACATTATAC
210635 AATGTATCGATACATTCATAC
1 -ATGTATCGATACATT-ATAC
* * *
210656 ATGTATTGATACATTGAAAA
1 ATGTATCGATACATT-ATAC
210676 ATGTATCGATACAT
1 ATGTATCGATACAT
210690 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATTATAC
Found at i:214107 original size:17 final size:17
Alignment explanation
Indices: 214085--214118 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
214075 TTGGAAAAAA
214085 AAAAGTAAAAAGTTTCT
1 AAAAGTAAAAAGTTTCT
214102 AAAAGTAAAAAGTTTCT
1 AAAAGTAAAAAGTTTCT
214119 TTTCCTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
AAAAGTAAAAAGTTTCT
Found at i:218164 original size:19 final size:19
Alignment explanation
Indices: 218137--218174 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
218127 TTCAATAGTA
* *
218137 ATTATATATTTTTATATAT
1 ATTACATATTTTTAAATAT
218156 ATTACATATTTTTAAATAT
1 ATTACATATTTTTAAATAT
218175 GTATTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTACATATTTTTAAATAT
Found at i:219972 original size:51 final size:51
Alignment explanation
Indices: 219909--220024 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
219899 GAAAATGACA
* *
219909 GGGTTGGAGTATCCCCAAAGGTGGAAAATCGATATTTT-GAAAATAAAACCG
1 GGGTTGGAGTATCCCCAAAGATGAAAAATCGATATTTTAG-AAATAAAACCG
* ** * * *
219960 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCG
1 GGGTTGGAGTATCCCCAAAGATGAAAAATCGATATTTTAGAAATAAAACCG
220011 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
220025 TCTAAGAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.27
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCAAAGATGAAAAATCGATATTTTAGAAATAAAACCG
Found at i:220042 original size:79 final size:78
Alignment explanation
Indices: 219958--220402 Score: 419
Period size: 79 Copynumber: 5.6 Consensus size: 78
219948 AAAATAAAAC
* * *
219958 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
220023 CCTCTAAGAAATAA
66 CCCCT-AGAAATAA
* * * * ** *
220037 TGGGGTTAGAGTATCCCCGATTATGAAAAATCGGTGTTTTAGAAATAAAAATTGGGGTTAGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAAT-AAAACCGGGGTTGGAGTA
220102 TCCCCTCAGAAATAA
65 TCCCCT-AGAAATAA
** * * * *
220117 CAAGGTTGGAGTAT-CCCGATTGTGAAAAATTGGTATTTT-GAAAATAAAATCGGAGTTGAAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAG-AAATAAAACCGGGGTTGGAGTA
* *
220180 TCCCTTTGGAAATAA
65 TCCC-CTAGAAATAA
* * * ** * * *
220195 CGGGGTTAGAGTATTCCCGGTTGTGAAAAATCAGTATTTTAGATATAAAAACTGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAAT-AAAACCGGGGTTGGAGTA
*
220260 TCCCCTTGAAAATAA
65 TCCCCTAG-AAATAA
* * * *
220275 CGGGATAGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACAGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
220340 CTCCTCGAAAATAA
66 CCCCTAG-AAATAA
** * * * * * *
220354 CAAGGTTGGAGTATCCCCAATGGTGGAAAATT-ATATTTTGGAAATAAAA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAA
220403 ACAACGATAA
Statistics
Matches: 301, Mismatches: 58, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
78 51 0.17
79 152 0.50
80 98 0.33
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTAGAAATAA
Found at i:220180 original size:158 final size:158
Alignment explanation
Indices: 219961--220404 Score: 468
Period size: 158 Copynumber: 2.8 Consensus size: 158
219951 ATAAAACCGG
* * * * *
219961 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT-CC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGAGTTGAAGTATCCC
* * * *
220025 TCTAAGAAATAATGGGGTTAGAGTATCCCCGATTATGAAAAATCGGTGTTTTAGAAATAAAAATT
66 T-TAAGAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCAGTATTTTAGAAATAAAAACT
220090 GGGGTTAGAGTATCCCCTCAG-AAATAACAA
130 GGGGTTAGAGTATCCCCT-AGAAAATAAC-A
* *
220120 GGTTGGAGTAT-CCCGATTGTGAAAAATTGGTATTTT-GAAAATAAAATCGGAGTTGAAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAG-AAATAAAACCGGAGTTGAAGTATCC
** * * * *
220183 CTTTGGAAATAACGGGGTTAGAGTATTCCCGGTTGTGAAAAATCAGTATTTTAGATATAAAAACT
65 CTTAAGAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCAGTATTTTAGAAATAAAAACT
* * *
220248 GGGGTTGGAGTATCCCCTTGAAAATAACG
130 GGGGTTAGAGTATCCCCTAGAAAATAACA
* * * * *
220277 GGATAGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACAGGGGTTGGAGTATCT
1 GG-TTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGAGTTGAAGTATC-
** ** * * ** * * *
220342 CCTCGA-AAATAACAAGGTTGGAGTATCCCCAATGGTGGAAAATTA-TATTTTGGAAATAAAAAC
64 CCTTAAGAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCAGTATTTTAGAAATAAAAAC
220405 AACGATAAAA
Statistics
Matches: 237, Mismatches: 41, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
157 4 0.02
158 142 0.60
159 87 0.37
160 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (158 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAACCGGAGTTGAAGTATCCC
TTAAGAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCAGTATTTTAGAAATAAAAACTG
GGGTTAGAGTATCCCCTAGAAAATAACA
Found at i:221943 original size:10 final size:10
Alignment explanation
Indices: 221924--221982 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
221914 AATCTCATTT
*
221924 TCACTGTTCA
1 TCACTATTCA
221934 TCACTATTCA
1 TCACTATTCA
221944 TCACTATTCA
1 TCACTATTCA
* * *
221954 TGTATCGATACA
1 T-CA-CTATTCA
*
221966 TCACTGTTCA
1 TCACTATTCA
221976 TCACTAT
1 TCACTAT
221983 ACATTGAGCC
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
10 30 0.79
11 2 0.05
12 6 0.16
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (10 bp):
TCACTATTCA
Found at i:224240 original size:84 final size:84
Alignment explanation
Indices: 224067--224227 Score: 193
Period size: 84 Copynumber: 1.9 Consensus size: 84
224057 ACTCAAAGAA
* * * * *
224067 GAAAATAAATCAATAAGTGTAGAGAATGATATTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATGATATTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
*
224132 TATGAAAGAGTTACAAAAT
66 TAAGAAAGAGTTACAAAAT
* * *
224151 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAAATAGAGGAG
1 GAAAATAAATCAATAAGTGTAGAAAATGATATTC--TTAAAAAGAAAATAAATGAAATAGAGAAG
224214 AA-AAGAAATGAGTT
64 AATAAGAAA-GAGTT
224228 GCAAGTGGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
82 4 0.06
83 6 0.09
84 55 0.85
ACGTcount: A:0.54, C:0.03, G:0.18, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATGATATTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
TAAGAAAGAGTTACAAAAT
Found at i:227487 original size:22 final size:22
Alignment explanation
Indices: 227459--227500 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
227449 TTCATCACAG
227459 TATCGATACATCACTGTTCATA
1 TATCGATACATCACTGTTCATA
227481 TATCGATACATCACTGTTCA
1 TATCGATACATCACTGTTCA
227501 CACTATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.36
Consensus pattern (22 bp):
TATCGATACATCACTGTTCATA
Found at i:227984 original size:34 final size:35
Alignment explanation
Indices: 227921--227987 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 35
227911 CTAAGTGATT
227921 GAGAGGTTCTATCTCAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTCAGCCTTTG-AAAAGATAGAGA
*
227957 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTCAGCCTTTGAAAAGATAG
227988 TGTTGTAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 8 0.28
36 9 0.31
37 12 0.41
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (35 bp):
GAGAGGTTCTATCTCAGCCTTTGAAAAGATAGAGA
Found at i:229028 original size:13 final size:13
Alignment explanation
Indices: 229010--229035 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
229000 CATTTTTTGG
229010 TGTATCGATACAT
1 TGTATCGATACAT
229023 TGTATCGATACAT
1 TGTATCGATACAT
229036 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:229050 original size:32 final size:33
Alignment explanation
Indices: 228990--229053 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
228980 TGCAAGCCAA
**
228990 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATACTTTGGTGTATCGATACAT
229023 TGTATCGATACATACTTT-GTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
229054 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:231544 original size:13 final size:13
Alignment explanation
Indices: 231526--231564 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
231516 ATAATCCCCC
*
231526 TGTATCGATACAG
1 TGTATCGATACAA
231539 TGTATCGATACAA
1 TGTATCGATACAA
231552 TGTATCGATACAA
1 TGTATCGATACAA
231565 AGAAAGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:237719 original size:13 final size:13
Alignment explanation
Indices: 237701--237726 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
237691 TGCAAGCCAA
237701 TGTATCGATACAT
1 TGTATCGATACAT
237714 TGTATCGATACAT
1 TGTATCGATACAT
237727 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:241118 original size:15 final size:16
Alignment explanation
Indices: 241092--241129 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
241082 TTGCAGTGAA
241092 ATTTTTATAAATAATT
1 ATTTTTATAAATAATT
*
241108 ATTTTTA-AAATATTT
1 ATTTTTATAAATAATT
241123 AGTTTTT
1 A-TTTTT
241130 CTATATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
ATTTTTATAAATAATT
Found at i:241836 original size:15 final size:15
Alignment explanation
Indices: 241808--241846 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
241798 TAAATATACA
241808 AAAAAACATAAAAATT
1 AAAAAA-ATAAAAATT
*
241824 AAAAAAATTAAAATT
1 AAAAAAATAAAAATT
241839 AAAAAAAT
1 AAAAAAAT
241847 GCCCAAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAAAATAAAAATT
Found at i:242056 original size:11 final size:11
Alignment explanation
Indices: 242016--242076 Score: 56
Period size: 11 Copynumber: 5.6 Consensus size: 11
242006 AATAAAATAT
242016 TTATATATTTTA
1 TTATAT-TTTTA
242028 TTAT-TTTTATA
1 TTATATTTT-TA
*
242039 TT-GATTTTTA
1 TTATATTTTTA
*
242049 TTATATTTTAA
1 TTATATTTTTA
242060 TTAT-TTTTTA
1 TTATATTTTTA
*
242070 TAATATT
1 TTATATT
242077 CGTGTCTATC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
10 15 0.38
11 21 0.52
12 4 0.10
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TTATATTTTTA
Found at i:242068 original size:21 final size:22
Alignment explanation
Indices: 242023--242076 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
242013 TATTTATATA
242023 TTTTATTAT-TTTTATATTGAT
1 TTTTATTATATTTTATATTGAT
242044 TTTTATTATATTTTA-ATT-ATT
1 TTTTATTATATTTTATATTGA-T
*
242065 TTTTATAATATT
1 TTTTATTATATT
242077 CGTGTCTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 24 0.80
22 5 0.17
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTATTATATTTTATATTGAT
Found at i:242261 original size:2 final size:2
Alignment explanation
Indices: 242254--242303 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
242244 TAAAAGAATA
242254 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
242296 AT AT AT AT
1 AT AT AT AT
242304 TAATGGACCG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:242934 original size:3 final size:3
Alignment explanation
Indices: 242926--242967 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
242916 ACTAAAAGAA
242926 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
242968 CTAGGAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:243732 original size:18 final size:18
Alignment explanation
Indices: 243697--243732 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
243687 ATTTTATAAC
*
243697 TTAAAAATGATAAAAAAA
1 TTAAAAATGAAAAAAAAA
*
243715 TTAAAATTGAAAAAAAAA
1 TTAAAAATGAAAAAAAAA
243733 ATTATATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (18 bp):
TTAAAAATGAAAAAAAAA
Found at i:247630 original size:20 final size:21
Alignment explanation
Indices: 247591--247631 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
247581 ACAACCCATG
247591 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTTGAGCTATGT
*
247612 TTCATGCATTTTTAG-TATGT
1 TTCATGCATTTTGAGCTATGT
247632 CCAATATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (21 bp):
TTCATGCATTTTGAGCTATGT
Found at i:261992 original size:32 final size:32
Alignment explanation
Indices: 261939--262131 Score: 203
Period size: 32 Copynumber: 6.0 Consensus size: 32
261929 CGAGTAGAGA
* * *
261939 AACCCTCTCCAAAACCTACACAAGTTGGTGGC
1 AACCTTCTCCAAAGCCCACACAAGTTGGTGGC
*
261971 AACCTTCTCCAAAGCCCACACAAGCTGGTGGC
1 AACCTTCTCCAAAGCCCACACAAGTTGGTGGC
* **
262003 AACCTTTTTTGAAA-CCCACACAAGTTGGTGGC
1 AACC-TTCTCCAAAGCCCACACAAGTTGGTGGC
* * *
262035 AACCCTT-TCTAAAGCCCACACAAGTTAGTGGT
1 AA-CCTTCTCCAAAGCCCACACAAGTTGGTGGC
* * * *
262067 AACCTTTTTCAAAGCCCACATAAGCTGGTGGC
1 AACCTTCTCCAAAGCCCACACAAGTTGGTGGC
*
262099 AACCCTTCT-TAAAGCCCACACAAGTTGGTGGC
1 AA-CCTTCTCCAAAGCCCACACAAGTTGGTGGC
262131 A
1 A
262132 TCTCCTTCTA
Statistics
Matches: 134, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
31 8 0.06
32 113 0.84
33 13 0.10
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (32 bp):
AACCTTCTCCAAAGCCCACACAAGTTGGTGGC
Found at i:262051 original size:64 final size:63
Alignment explanation
Indices: 261950--262131 Score: 242
Period size: 64 Copynumber: 2.9 Consensus size: 63
261940 ACCCTCTCCA
* * * *
261950 AAACCTACACAAGTTGGTGGCAA-CCTTCTCCAAAGCCCACACAAGCTGGTGGCAACCTTTTTTG
1 AAACCCACACAAGTTGGTGGCAACCCTT-TCTAAAGCCCACACAAGTTGGTGGCAACC-TTTTTC
* *
262014 AAACCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCACACAAGTTAGTGGTAACCTTTTTC
1 AAACCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCTTTTTC
* *
262077 AAAGCCCACATAAGCTGGTGGCAACCC-TTCTTAAAGCCCACACAAGTTGGTGGCA
1 AAA-CCCACACAAGTTGGTGGCAACCCTTTC-TAAAGCCCACACAAGTTGGTGGCA
262132 TCTCCTTCTA
Statistics
Matches: 105, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
63 11 0.10
64 90 0.86
65 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (63 bp):
AAACCCACACAAGTTGGTGGCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCTTTTTC
Found at i:262117 original size:96 final size:95
Alignment explanation
Indices: 261956--262147 Score: 271
Period size: 96 Copynumber: 2.0 Consensus size: 95
261946 TCCAAAACCT
* * *
261956 ACACAAGTTGGTGGCAACCTTCTCCAAAGCCCACACAAGCTGGTGGCAACCTTTTTTGAAACCCA
1 ACACAAGTTAGTGGCAACCTTCTCCAAAGCCCACACAAGCTGGTGGCAACCCTTCTTGAAACCCA
262021 CACAAGTTGGTGGCAAC-CCTTTCTAAAGCCC
66 CACAAGTTGGTGGCAACTCC-TTCT-AAGCCC
* * * *
262052 ACACAAGTTAGTGGTAACCTTTTTCAAAGCCCACATAAGCTGGTGGCAACCCTTCTT-AAAGCCC
1 ACACAAGTTAGTGGCAACCTTCTCCAAAGCCCACACAAGCTGGTGGCAACCCTTCTTGAAA-CCC
*
262116 ACACAAGTTGGTGGCATCTCCTTCTAAGCCC
65 ACACAAGTTGGTGGCAACTCCTTCTAAGCCC
262147 A
1 A
262148 ATGTCGTTGG
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
95 10 0.12
96 74 0.86
97 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (95 bp):
ACACAAGTTAGTGGCAACCTTCTCCAAAGCCCACACAAGCTGGTGGCAACCCTTCTTGAAACCCA
CACAAGTTGGTGGCAACTCCTTCTAAGCCC
Found at i:262202 original size:43 final size:43
Alignment explanation
Indices: 262135--262305 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
262125 GGTGGCATCT
* * *
262135 CCTTCTAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
262179 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGC
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGC-A
* * * *
262223 CTTTGTCATTTTTAAGTCCAATGTCGCTAGCCTTGAATCAACACATTGGCG
1 C-----C---TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
262274 CCTTCAAGTCCAATATAGCTGGCCTTGAATCA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCA
262306 ATATATTAGC
Statistics
Matches: 104, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
43 60 0.58
44 5 0.05
46 1 0.01
49 1 0.01
51 1 0.01
52 36 0.35
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (43 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:262259 original size:52 final size:51
Alignment explanation
Indices: 262180--262633 Score: 293
Period size: 52 Copynumber: 9.0 Consensus size: 51
262170 ACATTGGCAC
* * *
262180 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCAT
* * * * *
262232 TTTTAAGTCCAATGTCGCTAGCCTTGAATCAACACATTGGCGCC---T--T
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
* * ** * * * *
262278 C---AAGTCCAATATAGCTGGCCTTGAATCAATATATTAGCGCCTTTACCAC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCAT
* * * * *
262327 CTTTCAGTCCAATGTCGTTGGCCTTAAATCAGCACATTGGCACCTTTACCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCAT
* * *
262379 ATTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACC-T-TCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
* * * * * * * *
262428 CTCTAAGTCCGATATTGCTGGCCTTGAATCAACATATTGACATCTTAACAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
* * * * *
262479 -TCCTAAGCCCAATGTCGTTGGCCTTGAATCAGCATATTGGCATTCTTCTCAT
1 CT-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTTATCAT
* * * * * * * **
262531 CTTCAAGT-TAATGTCGCTGGCCGTGAATCAACACATTGACATTCTTCGCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CCTTATCAT
* * * * * *
262582 CTTTAAGCCCAATATTGCTAGCCCTGAATCAGTATATTGGCACCTTTATCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCAT
262634 TTTTCTCATC
Statistics
Matches: 311, Mismatches: 75, Indels: 32
0.74 0.18 0.08
Matches are distributed among these distances:
43 34 0.11
46 1 0.00
48 1 0.00
49 38 0.12
50 3 0.01
51 79 0.25
52 154 0.50
53 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (51 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTATCAT
Found at i:262306 original size:43 final size:43
Alignment explanation
Indices: 262236--262320 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
262226 TGTCATTTTT
* * *
262236 AAGTCCAATGTCGCTAGCCTTGAATCAACACATTGGCGCCTTC
1 AAGTCCAATATAGCTAGCCTTGAATCAACACATTAGCGCCTTC
* * *
262279 AAGTCCAATATAGCTGGCCTTGAATCAATATATTAGCGCCTT
1 AAGTCCAATATAGCTAGCCTTGAATCAACACATTAGCGCCTT
262321 TACCACCTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
AAGTCCAATATAGCTAGCCTTGAATCAACACATTAGCGCCTTC
Found at i:262312 original size:95 final size:95
Alignment explanation
Indices: 262135--262372 Score: 323
Period size: 95 Copynumber: 2.5 Consensus size: 95
262125 GGTGGCATCT
* * *
262135 CCTTCTAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTG
1 CCTT-TAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCAAGTCCAATATAGCTG
* * **
262200 GCCTTGAATCAGCATATTGGCGCCTTTGTCA
65 GCCTTGAATCAACATATTAGCGCCTTTACCA
** * * * *
262231 TTTTTAAGTCCAATGTCGCTAGCCTTGAATCAACACATTGGCGCCTTCAAGTCCAATATAGCTGG
1 CCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCAAGTCCAATATAGCTGG
*
262296 CCTTGAATCAATATATTAGCGCCTTTACCA
66 CCTTGAATCAACATATTAGCGCCTTTACCA
* *
262326 CCTTTCAGTCCAATGTCGTTGGCCTTAAATCAGCACATTGGCACCTT
1 CCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTT
262373 TACCATATTT
Statistics
Matches: 120, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
95 118 0.98
96 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (95 bp):
CCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCAAGTCCAATATAGCTGG
CCTTGAATCAACATATTAGCGCCTTTACCA
Found at i:262674 original size:61 final size:61
Alignment explanation
Indices: 262570--262706 Score: 202
Period size: 61 Copynumber: 2.2 Consensus size: 61
262560 AACACATTGA
* * * *
262570 CATTCTTCGCATCTTTAAGCCCAATATTGCTAGCCCTGAATCAGTATATTGGCACCTTTAT
1 CATTCTTCTCATCTTTAAGCCCAATATCGCTAGCCCTGAATCAGCATATTAGCACCTTTAT
* * *
262631 CATTTTTCTCATCTTTAAGCCCAATATCGCTGGCCCTGAATCAGCATATTAGCATCTTTAT
1 CATTCTTCTCATCTTTAAGCCCAATATCGCTAGCCCTGAATCAGCATATTAGCACCTTTAT
*
262692 CACTCTTCTCATCTT
1 CATTCTTCTCATCTT
262707 CAACATCTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (61 bp):
CATTCTTCTCATCTTTAAGCCCAATATCGCTAGCCCTGAATCAGCATATTAGCACCTTTAT
Done.