Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 32 of 211
Found at i:9445982 original size:45 final size:45
Alignment explanation
Indices: 9445933--9446148 Score: 342
Period size: 45 Copynumber: 4.8 Consensus size: 45
9445923 TACCATAAAC
* ** *
9445933 GAGTAAGACCATGACTGAAAGACCTTATGGAATCACGATTCTATT
1 GAGTAAGACCATAACTGAAAGATGTTATGGCATCACGATTCTATT
9445978 GAGTAAGACCATAACTGAAAGATGTTATGGCATCACGATTCTATT
1 GAGTAAGACCATAACTGAAAGATGTTATGGCATCACGATTCTATT
*
9446023 GAGTAAGACCATAACTGAAAGATGTTATGGCATCGCGATTCTATT
1 GAGTAAGACCATAACTGAAAGATGTTATGGCATCACGATTCTATT
*
9446068 GAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATT
1 GAGTAAGACCATAACTGAAAGATGTTATGGCATCACGATTCTATT
* ** *
9446113 AAGTAAGACCATAGTTGAAAGACGTTATGGCATCAC
1 GAGTAAGACCATAACTGAAAGATGTTATGGCATCAC
9446149 AAATCAAACG
Statistics
Matches: 159, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 159 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (45 bp):
GAGTAAGACCATAACTGAAAGATGTTATGGCATCACGATTCTATT
Found at i:9445998 original size:90 final size:89
Alignment explanation
Indices: 9445891--9446195 Score: 218
Period size: 90 Copynumber: 3.4 Consensus size: 89
9445881 GGAGAATAAA
** *
9445891 TAAGACCATAGTTGAAAGACACTATGACA-AC-ATACCATAAACGAGTAAGACCATGACTGAAAG
1 TAAGACCATAACTGAAAGACACTATGACACACGAT-CC-T-AACGAGTAAGACCATAACTGAAAG
9445954 ACCTTATGGAATCACGATTCTATTGAG
63 ACCTTATGGAATCACGATTCTATTGAG
*** * * ** *
9445981 TAAGACCATAACTGAAAGATGTTATGGCATCACGATTCTATTGAGTAAGACCATAACTGAAAGAT
1 TAAGACCATAACTGAAAGACACTATGACA-CACGATCCTAACGAGTAAGACCATAACTGAAAGAC
* * *
9446046 GTTATGGCATCGCGATTCTATTGAG
65 CTTATGGAATCACGATTCTATTGAG
* *** * * *** **
9446071 TAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTAAGTAAGACCATAGTTGAAAGAC
1 TAAGACCATAACTGAAAGACACTATGACA-CACGATCCTAACGAGTAAGACCATAACTGAAAGAC
* * * * * ** *
9446136 GTTATGGCATCACAAATCAAACGAA
65 CTTATGGAATCACGATTCTATTGAG
** *
9446161 TAAGACCATAGTTGAAAGACACTATGGAAACACGA
1 TAAGACCATAACTGAAAGACACTAT-GACACACGA
9446196 CGGAAAACGA
Statistics
Matches: 177, Mismatches: 34, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
90 169 0.95
91 3 0.02
92 3 0.02
93 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.24
Consensus pattern (89 bp):
TAAGACCATAACTGAAAGACACTATGACACACGATCCTAACGAGTAAGACCATAACTGAAAGACC
TTATGGAATCACGATTCTATTGAG
Found at i:9446165 original size:45 final size:45
Alignment explanation
Indices: 9445936--9446180 Score: 226
Period size: 45 Copynumber: 5.4 Consensus size: 45
9445926 CATAAACGAG
* * * * *
9445936 TAAGACCAT-GACTGAAAGACCTTATGGAATCACGATTCTATTGAG
1 TAAGACCATAG-CTGAAAGACGTTATGGCATCACGATTCAAATGAA
* * * * *
9445981 TAAGACCATAACTGAAAGATGTTATGGCATCACGATTCTATTGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAAATGAA
* * * * * *
9446026 TAAGACCATAACTGAAAGATGTTATGGCATCGCGATTCTATTGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAAATGAA
* * *
9446071 TAAGACCAT-GACTGAAAGATGTTATGGCATCACGATTC-TATTAA
1 TAAGACCATAG-CTGAAAGACGTTATGGCATCACGATTCAAATGAA
* * * *
9446115 GTAAGACCATAGTTGAAAGACGTTATGGCATCACAAATCAAACGAA
1 -TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAAATGAA
*
9446161 TAAGACCATAGTTGAAAGAC
1 TAAGACCATAGCTGAAAGAC
9446181 ACTATGGAAA
Statistics
Matches: 177, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
44 2 0.01
45 171 0.97
46 4 0.02
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAAATGAA
Found at i:9446165 original size:135 final size:135
Alignment explanation
Indices: 9445933--9446179 Score: 359
Period size: 135 Copynumber: 1.8 Consensus size: 135
9445923 TACCATAAAC
*
9445933 GAGTAAGACCATGACTGAAAGACCTTATGGAATCACGATTCTATTGAGTAAGACCATAACTGAAA
1 GAGTAAGACCATGACTGAAAGACCTTATGGAATCACGATTCTATTAAGTAAGACCATAACTGAAA
* * * * ** *
9445998 GATGTTATGGCATCACGATTCTATTGAGTAAGACCATAACTGAAAGATGTTATGGCATCGCGATT
66 GACGTTATGGCATCACAAATCAAACGAATAAGACCATAACTGAAAGATGTTATGGCATCGCGATT
9446063 CTATT
131 CTATT
** * **
9446068 GAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATTAAGTAAGACCATAGTTGAAA
1 GAGTAAGACCATGACTGAAAGACCTTATGGAATCACGATTCTATTAAGTAAGACCATAACTGAAA
**
9446133 GACGTTATGGCATCACAAATCAAACGAATAAGACCATAGTTGAAAGA
66 GACGTTATGGCATCACAAATCAAACGAATAAGACCATAACTGAAAGA
9446180 CACTATGGAA
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
135 97 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (135 bp):
GAGTAAGACCATGACTGAAAGACCTTATGGAATCACGATTCTATTAAGTAAGACCATAACTGAAA
GACGTTATGGCATCACAAATCAAACGAATAAGACCATAACTGAAAGATGTTATGGCATCGCGATT
CTATT
Found at i:9446187 original size:45 final size:46
Alignment explanation
Indices: 9446116--9446235 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
9446106 TTCTATTAAG
** * **
9446116 TAAGACCATAGTTGAAAGACGTTATGGCATCAC-AAATCAAACGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGAAAGAAAACGAA
* **
9446161 TAAGACCATAGTTGAAAGACACTATGGAAACACGACGGAAAACGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACACGAAAGAAAACGAA
* *
9446207 TAAGACCATGGTTGAAAGACACCATGGCA
1 TAAGACCATAGTTGAAAGACACTATGGCA
9446236 CACTCCGATC
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
45 29 0.46
46 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (46 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACACGAAAGAAAACGAA
Found at i:9452390 original size:51 final size:51
Alignment explanation
Indices: 9452331--9452624 Score: 283
Period size: 51 Copynumber: 5.8 Consensus size: 51
9452321 TATCGATGAA
* *
9452331 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
** * * * * *
9452382 CATATGTGTAGTACTAAGTGAAGGCTACAATGTGAA-CTGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATC-GATAA-ATGTTGGT
* ** *
9452433 CACGTGTGTAGTACTGTGTGAATTCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* * * * *
9452484 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATG--TTGGT
* * ** *
9452535 CACGTGTGTAGTACTATGTGAAGGTTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* * *
9452585 CACGTGTGTAGTACTATGTGAAGGCAACTATGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
9452625 ATGATAAAAG
Statistics
Matches: 193, Mismatches: 41, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
49 1 0.01
50 43 0.22
51 147 0.76
52 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
Found at i:9452507 original size:102 final size:102
Alignment explanation
Indices: 9452331--9452618 Score: 409
Period size: 102 Copynumber: 2.8 Consensus size: 102
9452321 TATCGATGAA
* *
9452331 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCATATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGTCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * *
9452396 TAAGTGAAGGCTACAATGTGAACTGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGAACCGAAAAGCTTTGGT
*
9452433 CACGTGTGTAGTACTGTGTGAATTCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGTCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
9452498 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGAACCGAAAAGCTTTGGT
* * *** * *
9452535 CACGTGTGTAGTACTATGTGAAGGT-TACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAA-GTCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
* *
9452598 CTATGTGAAGGCAACTATGTG
65 CTAAGTGAAGGCTACTATGTG
9452619 TATCGAATGA
Statistics
Matches: 168, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
101 38 0.23
102 129 0.77
103 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGTCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGAACCGAAAAGCTTTGGT
Found at i:9452656 original size:101 final size:102
Alignment explanation
Indices: 9452338--9452657 Score: 268
Period size: 102 Copynumber: 3.1 Consensus size: 102
9452328 GAACACGTGT
* * ** * *
9452338 GTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCATATGTGTAGTACTAAGTGA
1 GTAGTACTGTGTGAAGTCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAGTGA
* * * * * * *** * * *
9452403 AGGCTACAATGTGAACTGAGAAGCTTTGGTCACGTGT
66 AGGCAACTATGTGTACCGAAAAGATAAAGTAACATGG
* * ** *
9452440 GTAGTACTGTGTGAATTCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGA
1 GTAGTACTGTGTGAAGTCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAGTGA
* * *** * * *
9452505 AGGCTACTATGTGTACCGAAAAGCTTTGGTCACGTGT
66 AGGCAACTATGTGTACCGAAAAGATAAAGTAACATGG
* * * *
9452542 GTAGTACTATGTGAAGGT-TACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTACTATGTG
1 GTAGTACTGTGTGAA-GTCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAGTG
* *
9452605 AAGGCAACTATGTGTATCG-AATGATAAAAGTAACATGG
65 AAGGCAACTATGTGTACCGAAAAGAT-AAAGTAACATGG
9452643 GTAGTACTGTGTGAA
1 GTAGTACTGTGTGAA
9452658 AAACCCTAAA
Statistics
Matches: 189, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
100 4 0.02
101 62 0.33
102 122 0.65
103 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (102 bp):
GTAGTACTGTGTGAAGTCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAGTGA
AGGCAACTATGTGTACCGAAAAGATAAAGTAACATGG
Found at i:9458842 original size:15 final size:15
Alignment explanation
Indices: 9458819--9458854 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
9458809 TCTTGAGCTT
9458819 TTATT-TCTTTTATG
1 TTATTATCTTTTATG
*
9458833 TTATTATCTTTTATT
1 TTATTATCTTTTATG
9458848 TTATTAT
1 TTATTAT
9458855 TTTAAAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (15 bp):
TTATTATCTTTTATG
Found at i:9459309 original size:9 final size:8
Alignment explanation
Indices: 9459294--9459322 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9459284 TATATAATAA
9459294 ATTTTTTT
1 ATTTTTTT
9459302 ATTTTTTT
1 ATTTTTTT
9459310 A-TTTTTT
1 ATTTTTTT
9459317 ATTTTT
1 ATTTTT
9459323 AAAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
ATTTTTTT
Found at i:9459363 original size:30 final size:32
Alignment explanation
Indices: 9459311--9459376 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 32
9459301 TATTTTTTTA
* *
9459311 TTTTTTATTTTTAAAATATTTTTAAGATAACTT
1 TTTTTTATTTTT-AAATATTTTTAAAATAAATT
*
9459344 TTTTTTATTTTT-TAT-TTTTTAAAATAAATT
1 TTTTTTATTTTTAAATATTTTTAAAATAAATT
9459374 TTT
1 TTT
9459377 GGTGTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 16 0.53
31 2 0.07
33 12 0.40
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (32 bp):
TTTTTTATTTTTAAATATTTTTAAAATAAATT
Found at i:9469170 original size:31 final size:31
Alignment explanation
Indices: 9469135--9469193 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
9469125 ACCTAAACCT
* *
9469135 TTTTTTG-TCCAATTAGGTACTTGAACTTAGC
1 TTTTTTGTTCAAATTA-GTACCTGAACTTAGC
9469166 TTTTTTGTTCAAATTAGTACCTGAACTT
1 TTTTTTGTTCAAATTAGTACCTGAACTT
9469194 GGCTCCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (31 bp):
TTTTTTGTTCAAATTAGTACCTGAACTTAGC
Found at i:9469353 original size:60 final size:60
Alignment explanation
Indices: 9469263--9469377 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
9469253 TAAAGCCAAG
* * * *
9469263 TTTAGGTACCAATTTGAACCAAGAAACCAAGTTCAGGTGCC-AATTTGGACCAAAATAAGT
1 TTTAGGTACCAAATTCAACCAAGAAACCAAGTTCAAGTACCTAA-TTGGACCAAAATAAGT
* *
9469323 TTTAGGTACCAAATTCAACCTTA-AAGCCAAGTTCAAGTACCTAATTGGACCAAAA
1 TTTAGGTACCAAATTCAACC-AAGAAACCAAGTTCAAGTACCTAATTGGACCAAAA
9469378 AAAACCTTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 44 0.94
61 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (60 bp):
TTTAGGTACCAAATTCAACCAAGAAACCAAGTTCAAGTACCTAATTGGACCAAAATAAGT
Found at i:9472780 original size:41 final size:41
Alignment explanation
Indices: 9472718--9472893 Score: 289
Period size: 41 Copynumber: 4.3 Consensus size: 41
9472708 AATTTAACAT
* *
9472718 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
9472759 ATTCATATCACCGGCATTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
9472800 ATTCAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
9472841 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
9472882 ATTCAAATCACC
1 ATTCAGATCACC
9472894 AATTCCAAAC
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:9478217 original size:23 final size:22
Alignment explanation
Indices: 9478187--9478233 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
9478177 AATATATTAA
9478187 AAGCAAAT-TCGAAAATAATATT
1 AAGCAAATAT-GAAAATAATATT
*
9478209 AAGCTAAATATTAAAATAATATT
1 AAGC-AAATATGAAAATAATATT
9478232 AA
1 AA
9478234 AAACAATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 17 0.77
24 1 0.05
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (22 bp):
AAGCAAATATGAAAATAATATT
Found at i:9478930 original size:25 final size:23
Alignment explanation
Indices: 9478897--9478944 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
9478887 GACTGTGGAC
9478897 ATTTTAAAATTTG-GTTTTATTTTT
1 ATTTTAAAA-TTGAG-TTTATTTTT
9478921 ATTTATAAAATTGAGTTTATTTTT
1 ATTT-TAAAATTGAGTTTATTTTT
9478945 GGTTTACGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.62
Consensus pattern (23 bp):
ATTTTAAAATTGAGTTTATTTTT
Found at i:9479350 original size:41 final size:42
Alignment explanation
Indices: 9479288--9479487 Score: 149
Period size: 44 Copynumber: 4.7 Consensus size: 42
9479278 TTCGGTCTAT
* *
9479288 TCCACTGTAA-TCTCA-AGGAGATAAGA-CCTGATGCGATCTAC
1 TCCACTGTAACT-TCAGA-GAGATAAGATCCTGATTCGATCTGC
* * * ** *
9479329 TCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGC
1 TCCACTGTAACTTCAGAGAGATAAGATC-CTGA-TTCGATCTGC
* * * * *
9479373 TCCACTGTAACCTCGGAGAGATAGGATTACTAGCTTCGATCTGC
1 TCCACTGTAACTTCAGAGAGATAAGA-TCCT-GATTCGATCTGC
* * *
9479417 TCCACTGTAA-TCTCAGGGAGATAAGA-CCTGATACGATCTGT
1 TCCACTGTAACT-TCAGAGAGATAAGATCCTGATTCGATCTGC
*
9479458 TCTACTGTAACTTCAGAGAGATAAGATCCT
1 TCCACTGTAACTTCAGAGAGATAAGATCCT
9479488 TTGTTTTAAT
Statistics
Matches: 120, Mismatches: 29, Indels: 19
0.71 0.17 0.11
Matches are distributed among these distances:
41 52 0.43
42 9 0.08
43 2 0.02
44 56 0.47
45 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (42 bp):
TCCACTGTAACTTCAGAGAGATAAGATCCTGATTCGATCTGC
Found at i:9479479 original size:129 final size:129
Alignment explanation
Indices: 9479288--9479538 Score: 414
Period size: 129 Copynumber: 1.9 Consensus size: 129
9479278 TTCGGTCTAT
*
9479288 TCCACTGTAATCTCAAGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAA
9479353 GATCATTTATTTTAATCCGCTCCACTGTAACCTC-GGAGAGATAGGATTACTAGCTTCGATCTGC
66 GATCATTTATTTTAATCCGCTCCACTGTAACCTCAGG-GAGATAGGATTACTAGCTTCGATCTGC
* **
9479417 TCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCTGTTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAA
* * **
9479482 GATCCTTTGTTTTAATCCGCTCCACTGTATTCTCAGGGAGATAGGATTACTAGCTTC
66 GATCATTTATTTTAATCCGCTCCACTGTAACCTCAGGGAGATAGGATTACTAGCTTC
9479539 AGTCTGTTCT
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
129 111 0.98
130 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (129 bp):
TCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAA
GATCATTTATTTTAATCCGCTCCACTGTAACCTCAGGGAGATAGGATTACTAGCTTCGATCTGC
Found at i:9479523 original size:44 final size:43
Alignment explanation
Indices: 9479288--9479524 Score: 128
Period size: 44 Copynumber: 5.5 Consensus size: 43
9479278 TTCGGTCTAT
* * * * **
9479288 TCCACTGTAATCTCAAGGAGATAAGA-CC-TGATGCGATCTAC
1 TCCACTGTAATCTCAGGGAGATAAGATCCTTGTTTCAATCCGC
* * * * *
9479329 TCTACTGTAA-CTTCAGAGAGATAAGATCATTTATTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATC-CTTGTTTCAATCCGC
* * * * * * *
9479373 TCCACTGTAACCTC-GGAGAGATAGGATTACTAGCTTCGATCTGC
1 TCCACTGTAATCTCAGG-GAGATAAGA-TCCTTGTTTCAATCCGC
* * * * *
9479417 TCCACTGTAATCTCAGGGAGATAAGA-CC-TGATACGATCTGT
1 TCCACTGTAATCTCAGGGAGATAAGATCCTTGTTTCAATCCGC
* * *
9479458 TCTACTGTAA-CTTCAGAGAGATAAGATCCTTTGTTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATCC-TTGTTTCAATCCGC
*
9479502 TCCACTGTATTCTCAGGGAGATA
1 TCCACTGTAATCTCAGGGAGATA
9479525 GGATTACTAG
Statistics
Matches: 143, Mismatches: 40, Indels: 23
0.69 0.19 0.11
Matches are distributed among these distances:
40 2 0.01
41 52 0.36
42 4 0.03
43 1 0.01
44 79 0.55
45 5 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
TCCACTGTAATCTCAGGGAGATAAGATCCTTGTTTCAATCCGC
Found at i:9480941 original size:47 final size:48
Alignment explanation
Indices: 9480876--9481004 Score: 134
Period size: 49 Copynumber: 2.7 Consensus size: 48
9480866 TCAAATCTCC
* * *
9480876 TTTGGTCTCAAGGCGCCCTTTGCGGGTTTTCACCTTAG-CCTCTCCAT
1 TTTGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTAGCCCCCTCCAT
* ** * * ***
9480923 TTTGGACTCAAAGTGCCCTTTGTAGGTTTTCACTTTGGTCCCCCTTTTT
1 TTTGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTAG-CCCCCTCCAT
*
9480972 TTTGGAATCAAAGCGCCCTTTGCGGGTTTTCAC
1 TTTGGACTCAAAGCGCCCTTTGCGGGTTTTCAC
9481005 TTTGGTCCAT
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
47 31 0.48
49 34 0.52
ACGTcount: A:0.13, C:0.27, G:0.21, T:0.39
Consensus pattern (48 bp):
TTTGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTAGCCCCCTCCAT
Found at i:9492171 original size:23 final size:22
Alignment explanation
Indices: 9492141--9492187 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
9492131 AATATATTAA
9492141 AAGCAAAT-TCGAAAATAATATT
1 AAGCAAATAT-GAAAATAATATT
*
9492163 AAGCTAAATATTAAAATAATATT
1 AAGC-AAATATGAAAATAATATT
9492186 AA
1 AA
9492188 AAACAATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 17 0.77
24 1 0.05
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (22 bp):
AAGCAAATATGAAAATAATATT
Found at i:9493652 original size:24 final size:24
Alignment explanation
Indices: 9493615--9493662 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
9493605 GATTGTGGAC
*
9493615 ATTTTAAAATTTGGTTTTATTTTT
1 ATTTTAAAATTTGGGTTTATTTTT
9493639 ATTTATAAAA-TTGGGTTTATTTTT
1 ATTT-TAAAATTTGGGTTTATTTTT
9493663 GGTTTGCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.62
Consensus pattern (24 bp):
ATTTTAAAATTTGGGTTTATTTTT
Found at i:9496603 original size:17 final size:18
Alignment explanation
Indices: 9496578--9496613 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
9496568 CTATCAACTT
*
9496578 AATTGAAAATTA-AAAAC
1 AATTCAAAATTATAAAAC
9496595 AATTCAAAATTATAAAAC
1 AATTCAAAATTATAAAAC
9496613 A
1 A
9496614 GAAGTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.25
Consensus pattern (18 bp):
AATTCAAAATTATAAAAC
Found at i:9498448 original size:66 final size:58
Alignment explanation
Indices: 9498381--9498499 Score: 177
Period size: 59 Copynumber: 2.1 Consensus size: 58
9498371 TAAAATTATC
* * * *
9498381 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACA-TCGATTAGTA
*
9498439 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATCGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATCGATTAGTA
9498497 AAA
1 AAA
9498500 CAAGCTTGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
58 17 0.31
59 37 0.69
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (58 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATCGATTAGTA
Found at i:9498594 original size:24 final size:23
Alignment explanation
Indices: 9498565--9498609 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
9498555 AAATAAACTT
*
9498565 AAAATAAAAAATTATTATATTTTA
1 AAAATAAAAAAATA-TATATTTTA
9498589 AAAATAAAAAAATATATATTT
1 AAAATAAAAAAATATATATTT
9498610 AATATTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATAAAAAAATATATATTTTA
Found at i:9506830 original size:5 final size:6
Alignment explanation
Indices: 9506812--9506840 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9506802 ATTTCCACAT
9506812 CCACCC CCACCC CCACCC CCACCC CCACC
1 CCACCC CCACCC CCACCC CCACCC CCACC
9506841 TCTATCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.83, G:0.00, T:0.00
Consensus pattern (6 bp):
CCACCC
Found at i:9513841 original size:26 final size:26
Alignment explanation
Indices: 9513797--9513870 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
9513787 TATTTTCTAG
*
9513797 AAATTTTACCAAGGATAAAATCACCA
1 AAATTTTACCAAGGATAAAATAACCA
* * * *
9513823 AAATTTTATCAGGGGTAAAATAATCA
1 AAATTTTACCAAGGATAAAATAACCA
*
9513849 AAATTTTACTAAAGG-TAAAATA
1 AAATTTTAC-CAAGGATAAAATA
9513871 GGGATAAGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 36 0.92
27 3 0.08
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (26 bp):
AAATTTTACCAAGGATAAAATAACCA
Found at i:9515302 original size:30 final size:29
Alignment explanation
Indices: 9515268--9515336 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 29
9515258 GAATTGAACA
*
9515268 GTTGTAGCAATTTGTGTGTTTTCTTGAATT
1 GTTGTAGCAATTT-TGTGTTTTCTTGAATG
* *
9515298 GTTGTAGTAAATTTTGTGTTTTGTTGAATG
1 GTTGTAG-CAATTTTGTGTTTTCTTGAATG
9515328 GTTGTAGCA
1 GTTGTAGCA
9515337 GTTAACCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.03
30 28 0.82
31 5 0.15
ACGTcount: A:0.19, C:0.04, G:0.26, T:0.51
Consensus pattern (29 bp):
GTTGTAGCAATTTTGTGTTTTCTTGAATG
Found at i:9516744 original size:22 final size:22
Alignment explanation
Indices: 9516702--9516744 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9516692 AAGTCTGCTA
* *
9516702 GGCACTAAGCCTGATTAACACC
1 GGCACAAAGCCTGACTAACACC
9516724 GGCACAAAGCCTG-CTAGACAC
1 GGCACAAAGCCTGACTA-ACAC
9516745 TAAGCCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.14
Consensus pattern (22 bp):
GGCACAAAGCCTGACTAACACC
Found at i:9516761 original size:38 final size:38
Alignment explanation
Indices: 9516572--9516768 Score: 216
Period size: 38 Copynumber: 5.2 Consensus size: 38
9516562 TAACCATACT
* * *
9516572 GGCACGAAGCCTACTAGGCACTAAGCCTGATTAACACT
1 GGCACAAAGCCTGCTAGGCACTAAGCCTGATTAACACC
* * * * **
9516610 GGCACATAGCCTGCTAGGCACTAAG-GTCGAATAAAAAT
1 GGCACAAAGCCTGCTAGGCACTAAGCCT-GATTAACACC
** *
9516648 GGCATGAAGCTTGCTAGGCACTAAGCCTGATTAACACC
1 GGCACAAAGCCTGCTAGGCACTAAGCCTGATTAACACC
* *
9516686 GGCACGAAGTCTGCTAGGCACTAAGCCTGATTAACACC
1 GGCACAAAGCCTGCTAGGCACTAAGCCTGATTAACACC
* * *
9516724 GGCACAAAGCCTGCTAGACACTAAGCCTAAATAACACC
1 GGCACAAAGCCTGCTAGGCACTAAGCCTGATTAACACC
*
9516762 AGCACAA
1 GGCACAA
9516769 CCAAATATTT
Statistics
Matches: 132, Mismatches: 25, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
37 1 0.01
38 130 0.98
39 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.17
Consensus pattern (38 bp):
GGCACAAAGCCTGCTAGGCACTAAGCCTGATTAACACC
Found at i:9522423 original size:86 final size:87
Alignment explanation
Indices: 9522331--9522490 Score: 234
Period size: 88 Copynumber: 1.8 Consensus size: 87
9522321 AACCTCAAAC
* *
9522331 ATACCA-TTCTAATATTTAATTA-TTTTTTATACTAATTAAGTAAGAAGCATACAAATAAATAAC
1 ATACCATTTC-AATATTTAATTAGTTTTTTATACCAATTAAGTAACAAGCATACAAATAAATAAC
9522394 AATACAAAAAGAAAATCTCACAT
65 AATACAAAAAGAAAATCTCACAT
* * *
9522417 ATACCATTTCAATATTTATTTAGTTTTTTTATACCAATTAAGTGACAAGCATACAAATAAATAAT
1 ATACCATTTCAATATTTAATTAG-TTTTTTATACCAATTAAGTAACAAGCATACAAATAAATAAC
*
9522482 ACTACAAAA
65 AATACAAAA
9522491 CCAATTAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 17 0.26
87 3 0.05
88 45 0.69
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (87 bp):
ATACCATTTCAATATTTAATTAGTTTTTTATACCAATTAAGTAACAAGCATACAAATAAATAACA
ATACAAAAAGAAAATCTCACAT
Found at i:9523078 original size:18 final size:18
Alignment explanation
Indices: 9523055--9523093 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9523045 TAAAATTATT
9523055 AAATA-TTAAAATAAAATA
1 AAATATTTAAAA-AAAATA
*
9523073 AAATATTTTAAAAAAATA
1 AAATATTTAAAAAAAATA
9523091 AAA
1 AAA
9523094 AATAATAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATATTTAAAAAAAATA
Found at i:9526928 original size:41 final size:41
Alignment explanation
Indices: 9526876--9526981 Score: 185
Period size: 41 Copynumber: 2.6 Consensus size: 41
9526866 TTACAGACAA
*
9526876 ACAAACCTTTAATAAAAGTAAAGTCCTAGTACAATGACTTAT
1 ACAAA-CTTTAATAAAAGTAAAGTCCTAGTACAATGACTCAT
*
9526918 ACAAACTTTAATAAAAGTAAAATCCTAGTACAATGACTCAT
1 ACAAACTTTAATAAAAGTAAAGTCCTAGTACAATGACTCAT
9526959 ACAAACTTTAATAAAAGTAAAGT
1 ACAAACTTTAATAAAAGTAAAGT
9526982 ATAATAATTC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
41 56 0.92
42 5 0.08
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.27
Consensus pattern (41 bp):
ACAAACTTTAATAAAAGTAAAGTCCTAGTACAATGACTCAT
Found at i:9529533 original size:47 final size:47
Alignment explanation
Indices: 9529464--9529557 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
9529454 TTCAAGGTGT
9529464 TGGGTTTCTTAATTTGATCTCATGCATTTTGTTTTGTGGTTTCGATG
1 TGGGTTTCTTAATTTGATCTCATGCATTTTGTTTTGTGGTTTCGATG
9529511 TGGGTTTCTTAATTTGATCTCATGCATTTTGTTTTGTGGTTTCGATG
1 TGGGTTTCTTAATTTGATCTCATGCATTTTGTTTTGTGGTTTCGATG
9529558 CTTTCTCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.13, C:0.11, G:0.23, T:0.53
Consensus pattern (47 bp):
TGGGTTTCTTAATTTGATCTCATGCATTTTGTTTTGTGGTTTCGATG
Found at i:9531741 original size:39 final size:36
Alignment explanation
Indices: 9531676--9531767 Score: 96
Period size: 39 Copynumber: 2.5 Consensus size: 36
9531666 TTTAATTAAT
*
9531676 TTTTTAAAATTTAAAAATTCAAAAAATATATAAAAACTA
1 TTTTTAAAAATTAAAAATTCAAAAAAT-TAT-AAAAC-A
* *
9531715 TTTTTAAAAATTAAAAA-TCATTAAAATTATCAAACA
1 TTTTTAAAAATTAAAAATTCA-AAAAATTATAAAACA
* *
9531751 TTTATAAAAAATAAAAA
1 TTTTTAAAAATTAAAAA
9531768 AAACAATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 16 0.34
37 4 0.09
38 6 0.13
39 21 0.45
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (36 bp):
TTTTTAAAAATTAAAAATTCAAAAAATTATAAAACA
Found at i:9532036 original size:14 final size:14
Alignment explanation
Indices: 9532017--9532043 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9532007 TATGTGACAA
9532017 ATATATTTATAAAT
1 ATATATTTATAAAT
9532031 ATATATTTATAAA
1 ATATATTTATAAA
9532044 AATCAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATATTTATAAAT
Found at i:9532911 original size:31 final size:32
Alignment explanation
Indices: 9532867--9532934 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 32
9532857 TTTAAAATTT
*
9532867 TTTTTGCCCAATTTGATA-TCTGAACTTGACAC
1 TTTTTGCCCAATTTGATACT-TAAACTTGACAC
* * *
9532899 TTTTT-CCTAATTTGGTACTTAAACTTGACAT
1 TTTTTGCCCAATTTGATACTTAAACTTGACAC
9532930 TTTTT
1 TTTTT
9532935 TTCCGAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.24, C:0.18, G:0.10, T:0.49
Consensus pattern (32 bp):
TTTTTGCCCAATTTGATACTTAAACTTGACAC
Found at i:9534354 original size:11 final size:12
Alignment explanation
Indices: 9534333--9534368 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 12
9534323 GACACCCTTC
9534333 TTTTACTTTTTT
1 TTTTACTTTTTT
9534345 TTTTACTTTTTT
1 TTTTACTTTTTT
9534357 TTATTAACTTTT
1 TT-TT-ACTTTT
9534369 GCCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 14 0.64
13 2 0.09
14 6 0.27
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTACTTTTTT
Found at i:9534412 original size:22 final size:22
Alignment explanation
Indices: 9534387--9534434 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
9534377 CTTTAAAATT
*
9534387 TTTTCTTTTTTTAAGTTT-TTTA
1 TTTTCTTTATTT-AGTTTATTTA
* *
9534409 TTTTGTTTATTTATTTTATTTA
1 TTTTCTTTATTTAGTTTATTTA
9534431 TTTT
1 TTTT
9534435 TTGTTATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (22 bp):
TTTTCTTTATTTAGTTTATTTA
Found at i:9534423 original size:13 final size:13
Alignment explanation
Indices: 9534401--9534433 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9534391 CTTTTTTTAA
9534401 GTTT-TTTATTTT
1 GTTTATTTATTTT
9534413 GTTTATTTATTTT
1 GTTTATTTATTTT
*
9534426 ATTTATTT
1 GTTTATTT
9534434 TTTGTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (13 bp):
GTTTATTTATTTT
Found at i:9534474 original size:21 final size:21
Alignment explanation
Indices: 9534450--9534511 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
9534440 ATTAATTTTA
*
9534450 GAAAATTTGAAATTTATATTT
1 GAAAATTTTAAATTTATATTT
* *
9534471 GAAATGTTTTATAATATATATTT
1 GAAA-ATTTTA-AATTTATATTT
*
9534494 TAAAATTTTAAATATTAT
1 GAAAATTTTAAAT-TTAT
9534512 TTTTTTAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 7 0.22
22 12 0.38
23 13 0.41
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (21 bp):
GAAAATTTTAAATTTATATTT
Found at i:9534490 original size:23 final size:21
Alignment explanation
Indices: 9534450--9534579 Score: 69
Period size: 22 Copynumber: 6.2 Consensus size: 21
9534440 ATTAATTTTA
* *
9534450 GAAAATTTGAAATTTATATTT
1 GAAAATTTTAAATATATATTT
*
9534471 GAAATGTTTTATAATATATATTT
1 GAAA-ATTTTA-AATATATATTT
*
9534494 TAAAATTTTAAATAT-TATTT
1 GAAAATTTTAAATATATATTT
*
9534514 -----TTTTAAAT-TATGTCTT
1 GAAAATTTTAAATATATAT-TT
*
9534530 -ATAAATTTTAAAAATATATTTTT
1 GA-AAATTTT--AAATATATATTT
*
9534553 GAAAAATTTTAAATATATTTTT
1 G-AAAATTTTAAATATATATTT
*
9534575 AAAAA
1 GAAAA
9534580 AATTATTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 28
0.71 0.07 0.23
Matches are distributed among these distances:
14 1 0.01
15 10 0.11
16 2 0.02
20 5 0.06
21 17 0.20
22 21 0.24
23 19 0.22
24 11 0.13
25 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.51
Consensus pattern (21 bp):
GAAAATTTTAAATATATATTT
Found at i:9534518 original size:37 final size:37
Alignment explanation
Indices: 9534477--9534552 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 37
9534467 ATTTGAAATG
* *
9534477 TTTTATAATATATATTTTA-AAATTTTAAATAT-TATTT
1 TTTTA-AAT-TATATCTTATAAATTTTAAAAATATATTT
*
9534514 TTTTAAATTATGTCTTATAAATTTTAAAAATATATTT
1 TTTTAAATTATATCTTATAAATTTTAAAAATATATTT
9534551 TT
1 TT
9534553 GAAAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 7 0.21
36 15 0.44
37 12 0.35
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (37 bp):
TTTTAAATTATATCTTATAAATTTTAAAAATATATTT
Found at i:9534575 original size:36 final size:34
Alignment explanation
Indices: 9534533--9534644 Score: 102
Period size: 36 Copynumber: 3.2 Consensus size: 34
9534523 ATGTCTTATA
**
9534533 AATTTTAAAAATATATTTTTGAAA-AATTTTAAATAT
1 AATTTTAAAAATATATTTTT-AAATAA-AATAAA-AT
* *
9534569 ATTTTTAAAAAAATTATTTTTAAATAAAATAAAAT
1 AATTTTAAAAATA-TATTTTTAAATAAAATAAAAT
*
9534604 AATTTCAAAAATATATTTTTAAATTTAAAA-AAAAT
1 AATTTTAAAAATATATTTTTAAA--TAAAATAAAAT
*
9534639 ATTTTT
1 AATTTT
9534645 GAAATTATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
34 10 0.16
35 21 0.33
36 23 0.37
37 9 0.14
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.46
Consensus pattern (34 bp):
AATTTTAAAAATATATTTTTAAATAAAATAAAAT
Found at i:9534581 original size:24 final size:23
Alignment explanation
Indices: 9534532--9534580 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
9534522 TATGTCTTAT
*
9534532 AAATTTTAAAAATATATTTTTGAA
1 AAATTTT-AAAATATATTTTTAAA
9534556 AAATTTT-AAATATATTTTTAAA
1 AAATTTTAAAATATATTTTTAAA
9534578 AAA
1 AAA
9534581 ATTATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 17 0.71
24 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AAATTTTAAAATATATTTTTAAA
Found at i:9534588 original size:15 final size:17
Alignment explanation
Indices: 9534563--9534599 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
9534553 GAAAAATTTT
9534563 AAATATATTTTTAAA-A
1 AAATATATTTTTAAATA
9534579 AAAT-TATTTTTAAATA
1 AAATATATTTTTAAATA
9534595 AAATA
1 AAATA
9534600 AAATAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATATATTTTTAAATA
Found at i:9534628 original size:21 final size:22
Alignment explanation
Indices: 9534604--9534650 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
9534594 AAAATAAAAT
* *
9534604 AATTTCAAAAATATATTTTT-A
1 AATTTAAAAAAAATATTTTTGA
9534625 AATTTAAAAAAAATATTTTTGA
1 AATTTAAAAAAAATATTTTTGA
9534647 AATT
1 AATT
9534651 ATTTCTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
AATTTAAAAAAAATATTTTTGA
Found at i:9534663 original size:36 final size:35
Alignment explanation
Indices: 9534619--9534703 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 35
9534609 CAAAAATATA
9534619 TTTT-TAAATTTAAAAAAAATATTTTTGAAATTAT
1 TTTTATAAATTTAAAAAAAATATTTTTGAAATTAT
* *
9534653 TTCTTATAAATTTTAAAAATATATTTTTGAAATTAT
1 TT-TTATAAATTTAAAAAAAATATTTTTGAAATTAT
* *
9534689 TTTTTTAATTTTAAA
1 TTTTATAAATTTAAA
9534704 TATTATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
34 2 0.05
35 12 0.27
36 30 0.68
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (35 bp):
TTTTATAAATTTAAAAAAAATATTTTTGAAATTAT
Found at i:9534712 original size:19 final size:19
Alignment explanation
Indices: 9534686--9534736 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
9534676 TTTTTGAAAT
*
9534686 TATT-TTTTTAATTTTAAA
1 TATTATTTTTAATATTAAA
9534704 TATTATTTTTAAATATTAAA
1 TATTATTTTT-AATATTAAA
9534724 TA-TATTTTTAATA
1 TATTATTTTTAATA
9534737 ATATTTAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 8 0.27
19 12 0.40
20 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTATTTTTAATATTAAA
Found at i:9534712 original size:20 final size:20
Alignment explanation
Indices: 9534684--9534734 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
9534674 TATTTTTGAA
* *
9534684 ATTATTTTTTTAATTTTAAAT
1 ATTA-TTTTTAAATATTAAAT
9534705 ATTATTTTTAAATATTAAAT
1 ATTATTTTTAAATATTAAAT
9534725 A-TATTTTTAA
1 ATTATTTTTAA
9534735 TAATATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 9 0.32
20 15 0.54
21 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTATTTTTAAATATTAAAT
Found at i:9534715 original size:13 final size:13
Alignment explanation
Indices: 9534697--9534721 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9534687 ATTTTTTTAA
9534697 TTTTAAATATTAT
1 TTTTAAATATTAT
9534710 TTTTAAATATTA
1 TTTTAAATATTA
9534722 AATATATTTT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:9534741 original size:21 final size:20
Alignment explanation
Indices: 9534682--9534741 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
9534672 TATATTTTTG
* *
9534682 AAAT-TATTTTTTTAATTTT
1 AAATATATTTTTATAATATT
9534701 AAATATTATTTTTA-AATATT
1 AAATA-TATTTTTATAATATT
9534721 AAATATATTTTTAATAATATT
1 AAATATATTTTT-ATAATATT
9534742 TAAACATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 11 0.31
20 11 0.31
21 13 0.37
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATATATTTTTATAATATT
Found at i:9534949 original size:11 final size:12
Alignment explanation
Indices: 9534927--9534953 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9534917 CCTGCTTCTA
9534927 TTTTTAATTTTT
1 TTTTTAATTTTT
9534939 TTTTTAATTTTT
1 TTTTTAATTTTT
9534951 TTT
1 TTT
9534954 AACTTTTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTAATTTTT
Found at i:9535297 original size:13 final size:14
Alignment explanation
Indices: 9535273--9535301 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9535263 TATTTTTGTC
9535273 TTTATCTTTATTTA
1 TTTATCTTTATTTA
9535287 TTTAT-TTTATTTA
1 TTTATCTTTATTTA
9535300 TT
1 TT
9535302 ATTAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATCTTTATTTA
Found at i:9535373 original size:20 final size:20
Alignment explanation
Indices: 9535348--9535418 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
9535338 GTTTTATAAT
9535348 ATATATTTTTTAAATTTTAA
1 ATATATTTTTTAAATTTTAA
*
9535368 ATATA--TATT---TTTTAA
1 ATATATTTTTTAAATTTTAA
9535383 AT-TATTTTTCTAAATTTTAA
1 ATATATTTTT-TAAATTTTAA
9535403 ATAT-TATTTTTAAATT
1 ATATAT-TTTTTAAATT
9535419 ATTGTTTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
14 2 0.05
15 8 0.20
16 2 0.05
17 1 0.02
18 3 0.07
20 20 0.49
21 5 0.12
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATATTTTTTAAATTTTAA
Found at i:9535373 original size:22 final size:23
Alignment explanation
Indices: 9535339--9535385 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
9535329 ACTTGAAATG
9535339 TTTTATAATATATATTTTTTAAA
1 TTTTATAATATATATTTTTTAAA
9535362 TTTTA-AATATATATTTTTTAAA
1 TTTTATAATATATATTTTTTAAA
9535384 TT
1 TT
9535386 ATTTTTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTATAATATATATTTTTTAAA
Found at i:9535413 original size:33 final size:33
Alignment explanation
Indices: 9535351--9535451 Score: 141
Period size: 33 Copynumber: 3.0 Consensus size: 33
9535341 TTATAATATA
9535351 TATTTTTTAAATTTTAAATATATATTTTTTAAAT
1 TATTTTTTAAATTTTAAATAT-TATTTTTTAAAT
9535385 TATTTTTCTAAATTTTAAATATTA-TTTTTAAAT
1 TATTTTT-TAAATTTTAAATATTATTTTTTAAAT
* * *
9535418 TATTGTTTAAAAATTTAAAAATTATTTTTTAAAT
1 TATT-TTTTAAATTTTAAATATTATTTTTTAAAT
9535452 ATTAAATATA
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
33 26 0.43
34 21 0.34
35 14 0.23
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (33 bp):
TATTTTTTAAATTTTAAATATTATTTTTTAAAT
Found at i:9535433 original size:22 final size:22
Alignment explanation
Indices: 9535414--9535479 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
9535404 TATTATTTTT
9535414 AAATTATTGTTTAAAAATTTAA
1 AAATTATTGTTTAAAAATTTAA
* *
9535436 AAATTATTTTTTAAATA-TTAA
1 AAATTATTGTTTAAAAATTTAA
* *
9535457 ATA-TATT-TTTAAAAATATAA
1 AAATTATTGTTTAAAAATTTAA
9535477 AAA
1 AAA
9535480 ATTTAAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 7 0.19
20 9 0.24
21 6 0.16
22 15 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
AAATTATTGTTTAAAAATTTAA
Found at i:9535472 original size:21 final size:21
Alignment explanation
Indices: 9535412--9535474 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
9535402 AATATTATTT
9535412 TTAAAT-TATTGTTTAAAAAT-
1 TTAAATATATT-TTTAAAAATA
* *
9535432 TTAAAAATTATTTTT-TAAATA
1 TTAAATA-TATTTTTAAAAATA
9535453 TTAAATATATTTTTAAAAATA
1 TTAAATATATTTTTAAAAATA
9535474 T
1 T
9535475 AAAAAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 16 0.46
21 15 0.43
22 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAAATATATTTTTAAAAATA
Found at i:9535583 original size:24 final size:24
Alignment explanation
Indices: 9535533--9535636 Score: 99
Period size: 24 Copynumber: 4.3 Consensus size: 24
9535523 TTTTATAATA
*
9535533 TTTTAAATGTATATTTTAATT-TG-T
1 TTTTAAAT-TAT-TTATAATTATGAT
9535557 TTTTATAATT-TTTATAATTATGAT
1 TTTTA-AATTATTTATAATTATGAT
*
9535581 TTTGAAATTATTT-TAAATTATGAT
1 TTTTAAATTATTTAT-AATTATGAT
* *
9535605 TTTTAAATTATTTAAAATATATTAT
1 TTTTAAATTATTTATAAT-TATGAT
9535630 TTTTAAA
1 TTTTAAA
9535637 GATATGACCT
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
22 7 0.10
23 8 0.12
24 38 0.56
25 15 0.22
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (24 bp):
TTTTAAATTATTTATAATTATGAT
Found at i:9535589 original size:14 final size:13
Alignment explanation
Indices: 9535566--9535615 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
9535556 TTTTTATAAT
9535566 TTTTATAATTATGA
1 TTTTA-AATTATGA
9535580 TTTTGAAA-T-T-A
1 TTTT-AAATTATGA
9535591 TTTTAAATTATGA
1 TTTTAAATTATGA
9535604 TTTTTAAATTAT
1 -TTTTAAATTAT
9535616 TTAAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 3 0.10
11 6 0.19
12 2 0.06
13 2 0.06
14 17 0.55
15 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (13 bp):
TTTTAAATTATGA
Found at i:9535595 original size:34 final size:32
Alignment explanation
Indices: 9535518--9535599 Score: 78
Period size: 34 Copynumber: 2.4 Consensus size: 32
9535508 CAAATTTATT
9535518 ATTAGTTTTATAATATTTTAAATGTATATTTTAA
1 ATTA-TTTTATAAT-TTTTAAATGTATATTTTAA
* *
9535552 TTTGTTTTTATAATTTTTATAAT-TATGATTTTGAA
1 ATT-ATTTTATAATTTTTA-AATGTAT-ATTTT-AA
9535587 ATTATTTTA-AATT
1 ATTATTTTATAATT
9535600 ATGATTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
33 12 0.30
34 24 0.60
35 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (32 bp):
ATTATTTTATAATTTTTAAATGTATATTTTAA
Found at i:9535689 original size:13 final size:13
Alignment explanation
Indices: 9535671--9535705 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9535661 TTGTTTTATA
9535671 ATATTTTAAATAT
1 ATATTTTAAATAT
9535684 ATATTTTAAATAT
1 ATATTTTAAATAT
9535697 -T-TTTTAAAT
1 ATATTTTAAAT
9535706 TTTAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
12 1 0.05
13 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:9535735 original size:29 final size:31
Alignment explanation
Indices: 9535665--9535758 Score: 83
Period size: 31 Copynumber: 3.1 Consensus size: 31
9535655 TATTATTTGT
9535665 TTTA-TAATATTTTAAATAT-ATATTTTAAATA
1 TTTATTAA-ATTTTAAATATAAT-TTTTAAATA
*
9535696 TTTTTTAAATTTTAAATATAATTTTTATAA-A
1 TTTATTAAATTTTAAATATAATTTTTA-AATA
*
9535727 -TTATT-AATTTTAAA-ATTAATTTTAAAGATA
1 TTTATTAAATTTTAAATA-TAATTTTTAA-ATA
9535757 TT
1 TT
9535759 CAAATGTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
28 2 0.04
29 18 0.34
30 5 0.09
31 21 0.40
32 7 0.13
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (31 bp):
TTTATTAAATTTTAAATATAATTTTTAAATA
Found at i:9542909 original size:50 final size:50
Alignment explanation
Indices: 9542866--9543051 Score: 282
Period size: 50 Copynumber: 3.7 Consensus size: 50
9542856 GTGCCCATGG
* ***
9542866 CATGTCTCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGC
* *
9542916 CATGTCCCAAACATGGTCTTACATGGGACCTCTCATTTCGGTGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGC
* *
9542966 CATGTCCCGGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGC
* *
9543016 CATGTTCCAGACATGGTCTTATATGGGACCTCTCAT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
9543052 AATCTTAATG
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 123 1.00
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGC
Found at i:9542940 original size:100 final size:100
Alignment explanation
Indices: 9542828--9543036 Score: 256
Period size: 100 Copynumber: 2.1 Consensus size: 100
9542818 TATCCCAGAT
** * * * * **
9542828 ATGGTCTTACATGAAAGTTCTAATATAGGTGCCCATGGCATGTCTCAGACATGGTCTTATGGGGG
1 ATGGTCTTACATGAAACCTCTAATATAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGG
9542893 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAAAC
66 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAAAC
** * * * * *
9542928 ATGGTCTTACATGGGACCTCTCATTTCGGTGCCAACGCCATGTCCCGGACATGGTCTTACATGGG
1 ATGGTCTTACATGAAACCTCTAATATAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGG
* * *
9542993 ACCTCTCATCTCGGTGCCAATGCCATGTTCCAGAC
66 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAAAC
9543028 ATGGTCTTA
1 ATGGTCTTA
9543037 TATGGGACCT
Statistics
Matches: 91, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (100 bp):
ATGGTCTTACATGAAACCTCTAATATAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGG
ACCTCTCATCTCGGTGCCAACGCCATGTCCCAAAC
Found at i:9544850 original size:123 final size:123
Alignment explanation
Indices: 9544618--9544965 Score: 563
Period size: 123 Copynumber: 2.8 Consensus size: 123
9544608 TTATTTCGAG
* * *
9544618 TTGACATTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAGAAAAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
** * *
9544683 AAATCGCACCCTT-GTGGACACGATTTTGCTATAGTAGGTCATGTAAGAAATAATTTTT
66 AAATCG-TGCCTTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
*
9544741 TTGATGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
9544806 AAATCGTGCCTTCGTGGACGCGATTTTGCTACAGTTGGTTATGTAAGAAATAATTTTT
66 AAATCGTGCCTTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
* *
9544864 TTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
9544929 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 AAATCGTGCCTTCGTGGACGCGATTTTGCTACAGTAG
9544966 CAAGTTTGGG
Statistics
Matches: 209, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
122 4 0.02
123 205 0.98
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGTGCCTTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTT
Found at i:9548090 original size:10 final size:10
Alignment explanation
Indices: 9548075--9548099 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9548065 CAAATCTAAC
9548075 ATTATGTAAA
1 ATTATGTAAA
9548085 ATTATGTAAA
1 ATTATGTAAA
9548095 ATTAT
1 ATTAT
9548100 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:9548144 original size:55 final size:55
Alignment explanation
Indices: 9548083--9548208 Score: 234
Period size: 55 Copynumber: 2.3 Consensus size: 55
9548073 ACATTATGTA
*
9548083 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCAAAAAATTGTGTTAATGGTTAGTAAAATTATC
9548138 AAATTATGTAAAATTATTAAGTCAAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCAAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
9548193 AAATTTTGTAAAATTA
1 AAATTATGTAAAATTA
9548209 GGTTAGGGTT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 69 1.00
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCAAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:9548237 original size:29 final size:29
Alignment explanation
Indices: 9548203--9548477 Score: 442
Period size: 29 Copynumber: 9.3 Consensus size: 29
9548193 AAATTTTGTA
9548203 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
9548232 AAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATT
1 -AA--A--TTA-GGTTAGGGTTAGGGTTTTTAATT
9548267 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
9548296 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
9548325 AAATTTGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
9548354 AAATTAGGTTAGAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
**
9548383 ATGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
9548412 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
9548441 AAATTAAGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
9548470 AAATTAGG
1 AAATTAGG
9548478 GTTTTTATCA
Statistics
Matches: 228, Mismatches: 12, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
29 193 0.85
30 5 0.02
32 2 0.01
34 5 0.02
35 23 0.10
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:9548490 original size:17 final size:18
Alignment explanation
Indices: 9548455--9548490 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9548445 TAAGTTAGGG
*
9548455 TTAGGGTTTTTAATTAAA
1 TTAGGGTTTTTAATCAAA
9548473 TTAGGGTTTTT-ATCAAA
1 TTAGGGTTTTTAATCAAA
9548490 T
1 T
9548491 CAAATAGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.50
Consensus pattern (18 bp):
TTAGGGTTTTTAATCAAA
Found at i:9548581 original size:71 final size:71
Alignment explanation
Indices: 9548489--9548640 Score: 250
Period size: 71 Copynumber: 2.1 Consensus size: 71
9548479 TTTTTATCAA
**
9548489 ATCAAATAGAACTTCTATTTTATTATGTCAAATAATATCAAAATAACTCGAAAAAATTTCTATGC
1 ATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTCTATGC
*
9548554 CTATTAT
65 CTATTAC
* *
9548561 ATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTTGAAAAAATTTCTATGCG
1 ATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTCTATGCC
9548626 TATTAC
66 TATTAC
9548632 ATCAAATAA
1 ATCAAATAA
9548641 TAAATTTAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 67 0.89
72 8 0.11
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (71 bp):
ATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTCTATGCC
TATTAC
Found at i:9549737 original size:7 final size:7
Alignment explanation
Indices: 9549727--9549751 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9549717 TTATATACAT
9549727 AATACTA
1 AATACTA
9549734 AATACTA
1 AATACTA
9549741 AATACTA
1 AATACTA
9549748 AATA
1 AATA
9549752 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:9550891 original size:30 final size:31
Alignment explanation
Indices: 9550832--9550897 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
9550822 GCCATTGATG
*
9550832 AAAATATAAAAAAATTTAAAATTATTTTTAA
1 AAAATATAAAAAAATATAAAATTATTTTTAA
9550863 AAAATATAAAAAAA-ATATAAATTA-TTTTAA
1 AAAATATAAAAAAATATA-AAATTATTTTTAA
9550893 AAAAT
1 AAAAT
9550898 GAAATTGAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 13 0.39
31 20 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (31 bp):
AAAATATAAAAAAATATAAAATTATTTTTAA
Found at i:9550958 original size:12 final size:12
Alignment explanation
Indices: 9550941--9550966 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9550931 TTGAGAGAAT
9550941 TTTGGAAGGAAA
1 TTTGGAAGGAAA
9550953 TTTGGAAGGAAA
1 TTTGGAAGGAAA
9550965 TT
1 TT
9550967 GAGAGGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (12 bp):
TTTGGAAGGAAA
Found at i:9552484 original size:71 final size:71
Alignment explanation
Indices: 9552394--9552534 Score: 237
Period size: 71 Copynumber: 2.0 Consensus size: 71
9552384 TATATTTTTT
* * * * *
9552394 AAAAATATATTGAATATATTATAATTTTAATATTGGTTATACTTAACATTTTTTAATATATTTAA
1 AAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATATATTTAA
9552459 TTTCTA
66 TTTCTA
9552465 AAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATATATTTAA
1 AAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATATATTTAA
9552530 TTTCT
66 TTTCT
9552535 TTAAGTTTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (71 bp):
AAAAATATATTAAATATATTAAAATTTTAAAATTGGCTATACATAACATTTTTTAATATATTTAA
TTTCTA
Found at i:9553518 original size:21 final size:23
Alignment explanation
Indices: 9553467--9553527 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 23
9553457 CAAATAAATT
9553467 TTAAAAATAATT-TAAAAACCATAA
1 TTAAAAAT-ATTAT-AAAACCATAA
*
9553491 TTTAAAATATTATAAAA-CA-AA
1 TTAAAAATATTATAAAACCATAA
9553512 TTAAAAATATTA-AAAA
1 TTAAAAATATTATAAAA
9553528 TATTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 4 0.12
21 13 0.38
22 2 0.06
23 7 0.21
24 8 0.24
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (23 bp):
TTAAAAATATTATAAAACCATAA
Found at i:9553535 original size:8 final size:9
Alignment explanation
Indices: 9553511--9553536 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9553501 TATAAAACAA
9553511 ATTAAAAAT
1 ATTAAAAAT
9553520 ATTAAAAAT
1 ATTAAAAAT
9553529 ATTAAAAA
1 ATTAAAAA
9553537 AAACTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:9553622 original size:22 final size:22
Alignment explanation
Indices: 9553572--9553641 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 22
9553562 ATATCTTTAA
*
9553572 AATATTTAAATATTATT-AAGAAT
1 AATATTT-AATATT-TTAAAAAAT
9553595 ATATATTTAATATTTTAAAAAAT
1 A-ATATTTAATATTTTAAAAAAT
* *
9553618 AATATTCAA-AATTTAAAAAAT
1 AATATTTAATATTTTAAAAAAT
9553639 AAT
1 AAT
9553642 TTAAAAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 14 0.33
22 9 0.21
23 13 0.31
24 6 0.14
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (22 bp):
AATATTTAATATTTTAAAAAAT
Found at i:9553634 original size:21 final size:20
Alignment explanation
Indices: 9553608--9553649 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
9553598 TATTTAATAT
*
9553608 TTTAAAAAATAATATTCAAAA
1 TTTAAAAAATAAT-TTAAAAA
9553629 TTTAAAAAATAATTTAAAAA
1 TTTAAAAAATAATTTAAAAA
9553649 T
1 T
9553650 AATATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TTTAAAAAATAATTTAAAAA
Found at i:9553653 original size:32 final size:34
Alignment explanation
Indices: 9553603--9553672 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 34
9553593 ATATATATTT
*
9553603 AATATTTTAAAAAATAATATTCAAAA-TTTAAAA
1 AATAATTTAAAAAATAATATTCAAAATTTTAAAA
*
9553636 AATAATTT-AAAAATAATATTTAAAATTTTAAAA
1 AATAATTTAAAAAATAATATTCAAAATTTTAAAA
9553669 AATA
1 AATA
9553673 TATATTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 16 0.47
33 18 0.53
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (34 bp):
AATAATTTAAAAAATAATATTCAAAATTTTAAAA
Found at i:9553743 original size:13 final size:14
Alignment explanation
Indices: 9553714--9553747 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
9553704 AAAATTTTTA
*
9553714 AAATTAATAACAAT
1 AAATAAATAACAAT
9553728 AAATAAATAA-AAT
1 AAATAAATAACAAT
9553741 AAATAAA
1 AAATAAA
9553748 AAATGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAAATAACAAT
Found at i:9553758 original size:19 final size:18
Alignment explanation
Indices: 9553736--9553813 Score: 50
Period size: 19 Copynumber: 4.0 Consensus size: 18
9553726 ATAAATAAAT
9553736 AAAATAAATAAAAAATGAAAA
1 AAAATAAATAAAAAA-G--AA
*
9553757 AAAATTAAA-GAAAAAGACA
1 AAAA-TAAATAAAAAAGA-A
* *
9553776 AAAGTTAATAAAAAAGTAA
1 AAAATAAATAAAAAAG-AA
*
9553795 AAAATAAAAAATAAAAGAA
1 AAAATAAATAA-AAAAGAA
9553814 GAGTGTCAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
18 4 0.09
19 21 0.47
20 7 0.16
21 9 0.20
22 4 0.09
ACGTcount: A:0.77, C:0.01, G:0.08, T:0.14
Consensus pattern (18 bp):
AAAATAAATAAAAAAGAA
Found at i:9554244 original size:23 final size:22
Alignment explanation
Indices: 9554206--9554258 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
9554196 TTTTTAGGAC
9554206 TTTGTTA-TGGGATGTTTTATT
1 TTTGTTATTGGGATGTTTTATT
*
9554227 TTTGTTATTGGGATTGTTTTCTT
1 TTTGTTATTGGGA-TGTTTTATT
9554250 TTTGTTATT
1 TTTGTTATT
9554259 TCTGCGAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 7 0.24
22 5 0.17
23 17 0.59
ACGTcount: A:0.11, C:0.02, G:0.21, T:0.66
Consensus pattern (22 bp):
TTTGTTATTGGGATGTTTTATT
Found at i:9562112 original size:16 final size:18
Alignment explanation
Indices: 9562086--9562118 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9562076 ATAAACATCA
9562086 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
9562103 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
9562119 CATGATTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:9564460 original size:23 final size:21
Alignment explanation
Indices: 9564409--9564460 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
9564399 TGGGGAGTAC
9564409 TTGTTA-TGGGATGTTTTATT
1 TTGTTATTGGGATGTTTTATT
*
9564429 TATGCTATTGGGATTGTTTTAATT
1 T-TGTTATTGGGA-TGTTTT-ATT
9564453 TTGTTATT
1 TTGTTATT
9564461 TCTGTTAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 4 0.15
22 5 0.19
23 12 0.46
24 4 0.15
ACGTcount: A:0.17, C:0.02, G:0.21, T:0.60
Consensus pattern (21 bp):
TTGTTATTGGGATGTTTTATT
Found at i:9572490 original size:28 final size:28
Alignment explanation
Indices: 9572450--9572545 Score: 156
Period size: 28 Copynumber: 3.4 Consensus size: 28
9572440 TGACTTTCGA
*
9572450 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
9572478 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * *
9572506 TACTAAGTGTGCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
9572534 CACTAAGTGTGC
1 CACTAAGTGTGC
9572546 CAACTTATTA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:9573170 original size:23 final size:23
Alignment explanation
Indices: 9573143--9573343 Score: 149
Period size: 23 Copynumber: 8.6 Consensus size: 23
9573133 TTATGCTAAA
*
9573143 ATGCTGTCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
9573166 ATGCTG-CCAAATTCTTGCATAT
1 ATGCTGTCCAATTTGTTGTATAT
*
9573188 ATGCTGTCCAATATT-TATGCT-TAA
1 ATGCTGTCCAAT-TTGT-TG-TATAT
* *
9573212 ATGCTGCCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
9573235 GTGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
* * * *
9573258 ATGTTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAA-TTTGTTGTATAT
*
9573282 ATGCTG-CTCAATTTGGTATATATAT
1 ATGCTGTC-CAATTT-GT-TGTATAT
* * *
9573307 AGGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
9573330 ATGCTGTCCAATTT
1 ATGCTGTCCAATTT
9573344 TTGGTGTGAA
Statistics
Matches: 136, Mismatches: 31, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
22 19 0.14
23 65 0.48
24 37 0.27
25 14 0.10
26 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (23 bp):
ATGCTGTCCAATTTGTTGTATAT
Found at i:9573214 original size:69 final size:68
Alignment explanation
Indices: 9573131--9573344 Score: 270
Period size: 69 Copynumber: 3.1 Consensus size: 68
9573121 TTCATGTAAT
* *
9573131 TTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTG-CCAAATTCTTGCATATATGCTGT
1 TTTTATGCTAAAATGCTG-CCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGCTGT
9573195 CCAA
65 CCAA
* * *
9573199 TATTTATGCTTAAATGCTGCCCAATTTGTTGTATTTGTGCTGCCCAAATTGTTGTATATATGTTG
1 T-TTTATGCTAAAATGCTG-CCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGCTG
9573264 TCCAA
64 TCCAA
* * *
9573269 TTTTGATG-TAAAAATGCTGCTCAATTTGGTATATATATAGGCTGCCCAAATTGTTGTATATATG
1 TTTT-ATGCT-AAAATGCTGC-CAATTT-GT-TGTATTTATGCTGCCCAAATTGTTGTATATATG
9573333 CTGTCCAA
61 CTGTCCAA
9573341 TTTT
1 TTTT
9573345 TGGTGTGAAA
Statistics
Matches: 127, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
68 1 0.01
69 42 0.33
70 42 0.33
71 2 0.02
72 40 0.31
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (68 bp):
TTTTATGCTAAAATGCTGCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGCTGTC
CAA
Found at i:9573285 original size:70 final size:69
Alignment explanation
Indices: 9573128--9573360 Score: 265
Period size: 70 Copynumber: 3.3 Consensus size: 69
9573118 ATGTTCATGT
* * * * *
9573128 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTG-CCAAATTCTTGCATATATGC
1 AATTTTGATG-TAAAATGCTGCCCAATTTGTTGTATTTGTGCTGCCCAAATTGTTGTATATATGC
9573192 TGTCC
65 TGTCC
*
9573197 AATATTT-ATGCTTAAATGCTGCCCAATTTGTTGTATTTGTGCTGCCCAAATTGTTGTATATATG
1 AAT-TTTGATG-TAAAATGCTGCCCAATTTGTTGTATTTGTGCTGCCCAAATTGTTGTATATATG
*
9573261 TTGTCC
64 CTGTCC
* * *
9573267 AATTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATAG-GCTGCCCAAATTGTTGTATATA
1 AATTTTGATGT-AAAATGCTGCCCAATTT-GT-TGTAT-TTGTGCTGCCCAAATTGTTGTATATA
9573331 TGCTGTCC
62 TGCTGTCC
*
9573339 AATTTTTGGTGTGAAAATGCTG
1 AA-TTTTGATGT-AAAATGCTG
9573361 TCTAGTTTGG
Statistics
Matches: 143, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
69 41 0.29
70 46 0.32
71 2 0.01
72 35 0.24
73 19 0.13
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (69 bp):
AATTTTGATGTAAAATGCTGCCCAATTTGTTGTATTTGTGCTGCCCAAATTGTTGTATATATGCT
GTCC
Found at i:9581026 original size:32 final size:34
Alignment explanation
Indices: 9580990--9581056 Score: 98
Period size: 36 Copynumber: 1.9 Consensus size: 34
9580980 GGAGCACCTT
*
9580990 AGTCAGAATAGATCCGAAAGGCTGCTGAACTAAGTC
1 AGTCAGAATAGATCCAAAAGGCTGCTGAACTAA--C
*
9581026 AGTCAGAATAGATCCAAAAGGTTGCTGAACT
1 AGTCAGAATAGATCCAAAAGGCTGCTGAACT
9581057 GAATAGAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (34 bp):
AGTCAGAATAGATCCAAAAGGCTGCTGAACTAAC
Found at i:9585679 original size:16 final size:16
Alignment explanation
Indices: 9585658--9585688 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9585648 TTTTTTAAAT
9585658 ATAAAATTATAAATTA
1 ATAAAATTATAAATTA
9585674 ATAAAATTATAAATT
1 ATAAAATTATAAATT
9585689 TACATTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATAAAATTATAAATTA
Found at i:9592848 original size:94 final size:94
Alignment explanation
Indices: 9592685--9592879 Score: 277
Period size: 94 Copynumber: 2.1 Consensus size: 94
9592675 TTAACAATAA
* ** *
9592685 AAATTTATCAGTACTAACAATTGGATCTGAATTTTAAAATCATAAAAGTAGAGAGACTAAATTAC
1 AAATTTAACAGTACTAACAATTAAATCTGAATTTTAAAATCATAAAAGTAAAGAGACTAAATTAC
*
9592750 TAAAAATAAAAGTCAAAAGAATAAATTCT
66 TAAAAATAAAAATCAAAAGAATAAATTCT
* *
9592779 AAATTTAACAGTGCTAACAATTAAATCTGAATTTTAAAATC-TAAAAAGTAAAGAGATTAAATT-
1 AAATTTAACAGTACTAACAATTAAATCTGAATTTTAAAATCAT-AAAAGTAAAGAGACTAAATTA
* *
9592842 CTTAAAAATAAAAATCAAGAGACTAAATTCT
65 C-TAAAAATAAAAATCAAAAGAATAAATTCT
9592873 AAATTTA
1 AAATTTA
9592880 CAAAGAATAC
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
93 2 0.02
94 88 0.98
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (94 bp):
AAATTTAACAGTACTAACAATTAAATCTGAATTTTAAAATCATAAAAGTAAAGAGACTAAATTAC
TAAAAATAAAAATCAAAAGAATAAATTCT
Found at i:9596248 original size:23 final size:23
Alignment explanation
Indices: 9596205--9596249 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9596195 CTTGTAATCT
*
9596205 ATATTGTAGAAAACGCATAACCC
1 ATATTGTAGAAAACGAATAACCC
*
9596228 ATATTGTA-AAAATGAACTAACC
1 ATATTGTAGAAAACGAA-TAACC
9596250 TTTGCGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.24
Consensus pattern (23 bp):
ATATTGTAGAAAACGAATAACCC
Found at i:9612396 original size:32 final size:32
Alignment explanation
Indices: 9612373--9612492 Score: 161
Period size: 32 Copynumber: 3.8 Consensus size: 32
9612363 TAGCAAATGT
9612373 CCCATTTTGGTAATTAATATTGTAGCAAACAA
1 CCCATTTTGGTAATTAATATTGTAGCAAACAA
* * **
9612405 CCCATTTCGGTAGTTAATATCATAGCAAACAA
1 CCCATTTTGGTAATTAATATTGTAGCAAACAA
*
9612437 CCCATTTTGATAATTAATATTGTAGCAAACAA
1 CCCATTTTGGTAATTAATATTGTAGCAAACAA
* * *
9612469 CCCATTTCGGTGACTAAT-TTGTAG
1 CCCATTTTGGTAATTAATATTGTAG
9612493 GGTGACCTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
31 6 0.08
32 69 0.92
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
CCCATTTTGGTAATTAATATTGTAGCAAACAA
Found at i:9618676 original size:163 final size:161
Alignment explanation
Indices: 9618369--9618697 Score: 568
Period size: 163 Copynumber: 2.0 Consensus size: 161
9618359 GATGACCATT
* * * * *
9618369 TAAGGAACATGCAAGACCATGGATATATAGTGGTTCCTTGTCCTACAGGTAGCATATGAAATAAG
1 TAAGGAACATGCAAGACCATAGATATATACTGGTTCATTGTCCTACAAGTAGCATATGAAAGAAG
*
9618434 CATTTATCTTTATGTGATTCCATCATCTGAAAACATGATAAGCCATTCAACTTAACACTAGGATG
66 CATTTATCTTTATGTGATCCCATCATCTGAAAACATGATAAGCCATTCAACTTAACACTAGGATG
9618499 TTAAGATTAGGTGCTAATTGATAATTGAGTG
131 TTAAGATTAGGTGCTAATTGATAATTGAGTG
9618530 TAAGGAACATGCAAGACCATAGATATATACTGGTTCATTGTCCTACAAGTAGCATATGAAAGAAG
1 TAAGGAACATGCAAGACCATAGATATATACTGGTTCATTGTCCTACAAGTAGCATATGAAAGAAG
* *
9618595 CATTTATCTTTATATGTGATCCCATCATCTGAAAACATGATCAGCCATTCAGCTTAACACTAGGA
66 CATTTATC-TT-TATGTGATCCCATCATCTGAAAACATGATAAGCCATTCAACTTAACACTAGGA
9618660 TGTTAAGATTAGGTGCTAATTGATAATTGAGTG
129 TGTTAAGATTAGGTGCTAATTGATAATTGAGTG
9618693 TAAGG
1 TAAGG
9618698 TGATAATCCT
Statistics
Matches: 158, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
161 68 0.43
162 2 0.01
163 88 0.56
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (161 bp):
TAAGGAACATGCAAGACCATAGATATATACTGGTTCATTGTCCTACAAGTAGCATATGAAAGAAG
CATTTATCTTTATGTGATCCCATCATCTGAAAACATGATAAGCCATTCAACTTAACACTAGGATG
TTAAGATTAGGTGCTAATTGATAATTGAGTG
Found at i:9622971 original size:27 final size:27
Alignment explanation
Indices: 9622936--9623015 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
9622926 TACATAGTAT
*
9622936 TGGTGCCTATTTGGGAGGCGCCAATGG
1 TGGTGCCTATCTGGGAGGCGCCAATGG
* *
9622963 TGGTGCCTATCTAGGAGGCGTCAATGG
1 TGGTGCCTATCTGGGAGGCGCCAATGG
*
9622990 TGGTGCCTATCTGGGAGGCACCAATG
1 TGGTGCCTATCTGGGAGGCGCCAATG
9623016 CTCTGATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.17, C:0.20, G:0.38, T:0.25
Consensus pattern (27 bp):
TGGTGCCTATCTGGGAGGCGCCAATGG
Found at i:9623321 original size:19 final size:19
Alignment explanation
Indices: 9623294--9623330 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9623284 TTATTTAAAA
9623294 TTTAAGATTATGTTATAAG
1 TTTAAGATTATGTTATAAG
*
9623313 TTTAGGATTATGTTATAA
1 TTTAAGATTATGTTATAA
9623331 ATTTTTGTGT
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:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (19 bp):
TTTAAGATTATGTTATAAG
Found at i:9623502 original size:260 final size:262
Alignment explanation
Indices: 9623039--9623527 Score: 901
Period size: 260 Copynumber: 1.9 Consensus size: 262
9623029 CGGTTTAGGG
9623039 TTATGTTATAAATTTAAGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
1 TTATGTTATAAATTTAAGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
*
9623104 TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAATTTA
66 TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
*
9623169 CTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATATATCC
131 CTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAAAATATCC
*
9623234 CGACATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAATTATTTAAAATTTAA
196 CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATACAAATTATTTAAAATTTAA
9623299 GA
261 GA
* * *
9623301 TTATGTTATAAGTTTAGGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTTAATTTA
1 TTATGTTATAAATTTAAGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
9623366 TTAGTAATAAATTACAAAATTACTAATAAG-T-TACTAATAAATTTATAACATAATCCTAAATTA
66 TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
*
9623429 CTAACAAATTAATTATAAAATAATTTCAATATTCATACAAAAAATTACAATATTACAAAATATCC
131 CTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAAAATATCC
9623494 CGACATTACAATATTCACACAAAATTACAATATT
196 CGACATTACAATATTCACACAAAATTACAATATT
9623528 CATATAAAAT
Statistics
Matches: 220, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
260 127 0.58
261 1 0.00
262 92 0.42
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (262 bp):
TTATGTTATAAATTTAAGATTATGTTATAAATTTTTGTGTTTGTAATTATTTAAAATTCAATTTA
TTAGTAATAAATTACAAAATTACTAATAAGTTATACTAATAAATTTATAACATAATCCTAAATTA
CTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAAAATATCC
CGACATTACAATATTCACACAAAATTACAATATTACAATATTCATACAAATTATTTAAAATTTAA
GA
Found at i:9623522 original size:19 final size:19
Alignment explanation
Indices: 9623498--9623546 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
9623488 ATATCCCGAC
9623498 ATTACAATATTCACACAAA
1 ATTACAATATTCACACAAA
* *
9623517 ATTACAATATTCATATAAA
1 ATTACAATATTCACACAAA
*
9623536 ATTGCAATATT
1 ATTACAATATT
9623547 TTTTTGTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (19 bp):
ATTACAATATTCACACAAA
Found at i:9623672 original size:48 final size:49
Alignment explanation
Indices: 9623582--9623680 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
9623572 GATTATCTAT
*
9623582 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
* *
9623631 ATTTTGTATGAATATTGCAATTTTTTT-TATGAATATTGTAATATTGTA
1 ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
9623679 AT
1 AT
9623681 ATTATAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 22 0.47
49 25 0.53
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (49 bp):
ATTTAGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
Found at i:9623675 original size:8 final size:8
Alignment explanation
Indices: 9623662--9623733 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
9623652 TTTTTTTATG
9623662 AATATTGT
1 AATATTGT
9623670 AATATTGT
1 AATATTGT
*
9623678 AATATTAT
1 AATATTGT
*
9623686 AATTTTGTAT
1 AATATTG--T
9623696 GAATATTGT
1 -AATATTGT
* * *
9623705 AATGTCGGG
1 AATAT-TGT
9623714 ATATATTGT
1 A-ATATTGT
9623723 AATATTGT
1 AATATTGT
9623731 AAT
1 AAT
9623734 TTTTTGTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
8 34 0.69
9 5 0.10
10 4 0.08
11 6 0.12
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.47
Consensus pattern (8 bp):
AATATTGT
Found at i:9623707 original size:27 final size:25
Alignment explanation
Indices: 9623581--9623675 Score: 105
Period size: 22 Copynumber: 4.0 Consensus size: 25
9623571 AGATTATCTA
*
9623581 TATTTAGTATGAATATTGT-A-ATT
1 TATTTTGTATGAATATTGTAATATT
9623604 T-TTTTGTATGAATATTGTAATATT
1 TATTTTGTATGAATATTGTAATATT
*
9623628 ATAATTTTGTATGAATATTG-CA-ATT
1 -T-ATTTTGTATGAATATTGTAATATT
9623653 T-TTTT-TATGAATATTGTAATATT
1 TATTTTGTATGAATATTGTAATATT
9623676 GTAATATTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
21 11 0.18
22 21 0.34
23 5 0.08
24 4 0.06
25 4 0.06
26 1 0.02
27 16 0.26
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.55
Consensus pattern (25 bp):
TATTTTGTATGAATATTGTAATATT
Found at i:9623965 original size:27 final size:27
Alignment explanation
Indices: 9623888--9623954 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
9623878 TAACATAAAT
9623888 TTCATTGGCGCCTCTCTATAAGGCACC
1 TTCATTGGCGCCTCTCTATAAGGCACC
*
9623915 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATAAGGCACC
9623942 TTCATTGGCGCCT
1 TTCATTGGCGCCT
9623955 ACCTGATAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATAAGGCACC
Found at i:9626813 original size:18 final size:17
Alignment explanation
Indices: 9626787--9626825 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
9626777 ATTTTCCATC
9626787 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
9626804 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
9626822 CACA
1 CACA
9626826 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:9641653 original size:22 final size:22
Alignment explanation
Indices: 9641613--9641680 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
9641603 TTTGTTGTTG
* **
9641613 TTGTTGTTTTGCTGCCATTTTA
1 TTGTTGTTTTGTTATCATTTTA
9641635 TTGTTGTTTTGTTATCATTTTA
1 TTGTTGTTTTGTTATCATTTTA
* * * *
9641657 TTATTATATTGTTATTATTTTA
1 TTGTTGTTTTGTTATCATTTTA
9641679 TT
1 TT
9641681 ATTTTTATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.16, C:0.06, G:0.12, T:0.66
Consensus pattern (22 bp):
TTGTTGTTTTGTTATCATTTTA
Found at i:9641655 original size:11 final size:11
Alignment explanation
Indices: 9641629--9641683 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
9641619 TTTTGCTGCC
*
9641629 ATTTTATTGTT
1 ATTTTATTATT
* * *
9641640 GTTTTGTTATC
1 ATTTTATTATT
9641651 ATTTTATTATT
1 ATTTTATTATT
* *
9641662 ATATTGTTATT
1 ATTTTATTATT
9641673 ATTTTATTATT
1 ATTTTATTATT
9641684 TTTATTTTAA
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:9641681 original size:22 final size:22
Alignment explanation
Indices: 9641628--9641683 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
9641618 GTTTTGCTGC
* * *
9641628 CATTTTATTGTTGTTTTGTTAT
1 CATTTTATTATTATATTGTTAT
9641650 CATTTTATTATTATATTGTTAT
1 CATTTTATTATTATATTGTTAT
*
9641672 TATTTTATTATT
1 CATTTTATTATT
9641684 TTTATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.68
Consensus pattern (22 bp):
CATTTTATTATTATATTGTTAT
Found at i:9641688 original size:14 final size:14
Alignment explanation
Indices: 9641654--9641697 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
9641644 TGTTATCATT
* *
9641654 TTATTATTATATTG
1 TTATTATTTTATTA
9641668 TTATTATTTTATTA
1 TTATTATTTTATTA
* *
9641682 TTTTTATTTTAATA
1 TTATTATTTTATTA
9641696 TT
1 TT
9641698 GTATAATTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (14 bp):
TTATTATTTTATTA
Found at i:9641697 original size:22 final size:22
Alignment explanation
Indices: 9641629--9641697 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
9641619 TTTTGCTGCC
* * *
9641629 ATTTTATTGTTGTTTTGTT-AT
1 ATTTTATTATTATATTGTTAAT
*
9641650 CATTTTATTATTATATTGTTATT
1 -ATTTTATTATTATATTGTTAAT
*
9641673 ATTTTATTATTTTTATT-TTAAT
1 ATTTTATTA-TTATATTGTTAAT
9641695 ATT
1 ATT
9641698 GTATAATTCG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
22 32 0.82
23 7 0.18
ACGTcount: A:0.23, C:0.01, G:0.06, T:0.70
Consensus pattern (22 bp):
ATTTTATTATTATATTGTTAAT
Found at i:9645407 original size:26 final size:26
Alignment explanation
Indices: 9645344--9645407 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 26
9645334 AACATTTTAT
* * *
9645344 TTTTCAAAAATACTTCTCAATAGCAC
1 TTTTCAAAAGTACTTCTCAAAAGCAA
* * * *
9645370 TTTTCCATAGTACTTTTTAAAAGCAA
1 TTTTCAAAAGTACTTCTCAAAAGCAA
9645396 TTTTCAAAAGTA
1 TTTTCAAAAGTA
9645408 TTGCTAAACT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (26 bp):
TTTTCAAAAGTACTTCTCAAAAGCAA
Found at i:9648592 original size:18 final size:18
Alignment explanation
Indices: 9648569--9648608 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9648559 CATCCGAATA
* * *
9648569 TAATTTACATTTATTATT
1 TAATTTAAATATAATATT
9648587 TAATTTAAATATAATATT
1 TAATTTAAATATAATATT
9648605 TAAT
1 TAAT
9648609 AATTTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATTTAAATATAATATT
Found at i:9649216 original size:20 final size:20
Alignment explanation
Indices: 9649193--9649246 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
9649183 ATTTAATTGT
*
9649193 AATTATTTTTATTTTTATTA
1 AATTATTTTTATTTTCATTA
* *
9649213 AATTATTAATT-TTTTCATTC
1 AATTATT-TTTATTTTCATTA
*
9649233 AATTTTTTTTATTT
1 AATTATTTTTATTT
9649247 ATAGATTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (20 bp):
AATTATTTTTATTTTCATTA
Found at i:9654903 original size:28 final size:29
Alignment explanation
Indices: 9654837--9654902 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
9654827 AAAACTAGAA
* *
9654837 AAAGTTTTCTACTTTTGGGGTTGAAAACG
1 AAAGTTCTCTCCTTTTGGGGTTGAAAACG
9654866 AAAGTTCTCTCCTTTT-GGG-TGAAAACG
1 AAAGTTCTCTCCTTTTGGGGTTGAAAACG
9654893 AAA-TTCTCTC
1 AAAGTTCTCTC
9654903 TTCTTAATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 7 0.20
27 11 0.31
28 3 0.09
29 14 0.40
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (29 bp):
AAAGTTCTCTCCTTTTGGGGTTGAAAACG
Found at i:9656719 original size:12 final size:12
Alignment explanation
Indices: 9656702--9656726 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9656692 TGCAAATGGA
9656702 TCATTTCCATTT
1 TCATTTCCATTT
9656714 TCATTTCCATTT
1 TCATTTCCATTT
9656726 T
1 T
9656727 TAGAAACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:9661359 original size:16 final size:16
Alignment explanation
Indices: 9661320--9661351 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
9661310 ATGATGATGG
9661320 AAAAAAAG-AAAAGAA
1 AAAAAAAGAAAAAGAA
9661335 AAAAAAAGAAAAAGAA
1 AAAAAAAGAAAAAGAA
9661351 A
1 A
9661352 GAAGAAGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAGAA
Found at i:9662757 original size:44 final size:44
Alignment explanation
Indices: 9662693--9662868 Score: 255
Period size: 44 Copynumber: 4.0 Consensus size: 44
9662683 GACCCCAGTT
*
9662693 CTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAAATTGT-AAGTC
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTGAA-TC
* * * *
9662737 TTATCTACCTGGTCAGCAGTGGAATAGTTTGAAAATTGTAAATC
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTGAATC
*
9662781 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATC
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTGAATC
* * *
9662825 CTATCTCCCTGGTTAGCAATGGAATAGGTTGAAGATTGTGAATC
1 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTGAATC
9662869 TTACTTCCTT
Statistics
Matches: 120, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 118 0.98
45 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (44 bp):
CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTGAATC
Found at i:9663135 original size:167 final size:167
Alignment explanation
Indices: 9662916--9663254 Score: 421
Period size: 167 Copynumber: 2.0 Consensus size: 167
9662906 GAGGGCAGTA
*
9662916 AATCTTATCTCCTTAGCGTTAAGACTTGAAATAGCTAAAGCGGAGCGGATTAAAGCTATGGGAAG
1 AATCTTATCTCCCTAGCGTTAAGACTTGAAATAGCTAAAGCGGAGCGGATTAAAGCTATGGGAAG
* * * ***
9662981 CGAATCCTATCTCTTTGGCATTACATTGAAATAGATTGAAGCCAAAACGGCGAATCTTACTTTTC
66 CGAATCCTATCTCTTTGGCATTACAGTGAAACAGATTAAAGCCAAAACGGCGAATCTTACTCCCC
* **
9663046 TGACTTTGTAGTGGAACAGATTGAAG-TCACGACGACG
131 CGACGGTGTAGTGGAACAGATTGAAGCT-ACGACGACG
* * * * * * *
9663083 AATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAA-TGGAGTGGATTAAAGCTATGGGCA
1 AATCTTATCTCCCTAGCGTTAAGACTTGAAATAGCT-AAAGCGGAGCGGATTAAAGCTATGGGAA
* * * ** *
9663147 GCGAATCCTATCTCTTTGGGATTACAGTGGAGCAGATTAAAGCCTCAACGGTGAATCTTACTCCC
65 GCGAATCCTATCTCTTTGGCATTACAGTGAAACAGATTAAAGCCAAAACGGCGAATCTTACTCCC
* *
9663212 CCGACGGTGTAGTGGAATAGATTGAAGCTACGACGTCG
130 CCGACGGTGTAGTGGAACAGATTGAAGCTACGACGACG
9663250 AATCT
1 AATCT
9663255 AGTTTCCCCA
Statistics
Matches: 145, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
167 141 0.97
168 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (167 bp):
AATCTTATCTCCCTAGCGTTAAGACTTGAAATAGCTAAAGCGGAGCGGATTAAAGCTATGGGAAG
CGAATCCTATCTCTTTGGCATTACAGTGAAACAGATTAAAGCCAAAACGGCGAATCTTACTCCCC
CGACGGTGTAGTGGAACAGATTGAAGCTACGACGACG
Found at i:9663403 original size:51 final size:51
Alignment explanation
Indices: 9663343--9663504 Score: 148
Period size: 51 Copynumber: 3.2 Consensus size: 51
9663333 TTAAAGCTAC
9663343 AACGGTGAATCTCGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGTA
1 AACGGTGAATCTCGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGTA
* *** *** ** * * ** *
9663394 AACGGTGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAG-C-TA
1 AACGGTGAATCTCGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGTA
* *
9663443 CAACGGCGAATCTCGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCA
1 -AACGGTGAATCTCGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGTA
*
9663495 AACGATGAAT
1 AACGGTGAAT
9663505 TTTACTTCCC
Statistics
Matches: 76, Mismatches: 32, Indels: 6
0.67 0.28 0.05
Matches are distributed among these distances:
49 2 0.03
50 32 0.42
51 41 0.54
52 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (51 bp):
AACGGTGAATCTCGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGTA
Found at i:9663442 original size:101 final size:100
Alignment explanation
Indices: 9663180--9663590 Score: 563
Period size: 101 Copynumber: 4.1 Consensus size: 100
9663170 ACAGTGGAGC
* * * * * * * *
9663180 AGATTAAAGCCTCAACGGTGAATCTTACTCCCCCGACGGTGTAGTGGAATAGATTGAAGCTACGA
1 AGATTGAAGCCTAAACGGTGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
* * *
9663245 CGTCGAATCTAGTTTCCCCAACGTTGCAATTAAAA
66 CGGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
* ** * *
9663280 AGATTGAAGTC-ACAACGGCAAATTTTACTTCCCTGGCAGTGTAGTGGAACAGATTAAAGCTACA
1 AGATTGAAGCCTA-AACGGTGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACA
*
9663344 ACGGTGAATCTCGTTTCCCCAACATTGCAATTAAAA
65 ACGGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
9663380 AGATTGAAGCCGTAAACGGTGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCC-TAAACGGTGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACA
9663445 ACGGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
65 ACGGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
* * * *
9663481 AGATTGAAGCCGCAAACGATGAATTTTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCC-TAAACGGTGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACA
* * *
9663546 ATGGCGAATCTTGTTTCCCCAACATTGCAATTTAAA
65 ACGGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
*
9663582 AGACTGAAG
1 AGATTGAAG
9663591 ATGGCAAGTC
Statistics
Matches: 277, Mismatches: 31, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
100 92 0.33
101 184 0.66
102 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCCTAAACGGTGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAA
CGGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
Done.