Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 40 of 173
Found at i:10832869 original size:17 final size:18
Alignment explanation
Indices: 10832832--10832869 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
10832822 GATTGAGAGT
* *
10832832 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
10832850 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
10832867 GAA
1 GAA
10832870 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:10832882 original size:13 final size:12
Alignment explanation
Indices: 10832851--10832905 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
10832841 TGTGAAACAG
*
10832851 AAAAGAAATTGA
1 AAAAGAAGTTGA
10832863 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
10832875 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
10832887 AAATG-AGTTAGA
1 AAAAGAAGTT-GA
10832899 AAAAGAA
1 AAAAGAA
10832906 ACAAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 21 0.62
13 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:10838943 original size:23 final size:23
Alignment explanation
Indices: 10838917--10839014 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
10838907 ATAAGTGCCA
10838917 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
10838940 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
10838963 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
10838985 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
10839008 CACTGAT
1 CACTGAT
10839015 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:10838982 original size:45 final size:45
Alignment explanation
Indices: 10838924--10839012 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
10838914 CCACACTGAT
* *
10838924 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
10838969 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
10839013 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:10846307 original size:23 final size:23
Alignment explanation
Indices: 10846281--10846378 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
10846271 ATAAGTGCCA
10846281 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
10846304 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
10846327 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
10846349 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
10846372 CACTGAT
1 CACTGAT
10846379 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:10846346 original size:45 final size:45
Alignment explanation
Indices: 10846288--10846376 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
10846278 CCACACTGAT
* *
10846288 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
10846333 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
10846377 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:10848664 original size:42 final size:42
Alignment explanation
Indices: 10848614--10848719 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
10848604 CTACGGGTCA
** *
10848614 CACCACAACACCACTTACCAATCTTCCTACTCCTATGGACCC
1 CACCACAACACCACCCACCAATCTTCCCACTCCTATGGACCC
* * *
10848656 CATCACAACACCACCCACCAATCTTCCCACTCTTATGGATCC
1 CACCACAACACCACCCACCAATCTTCCCACTCCTATGGACCC
*
10848698 CACCACAACACCATCCACCAAT
1 CACCACAACACCACCCACCAAT
10848720 TTCACATCTC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.31, C:0.46, G:0.04, T:0.19
Consensus pattern (42 bp):
CACCACAACACCACCCACCAATCTTCCCACTCCTATGGACCC
Found at i:10851760 original size:41 final size:41
Alignment explanation
Indices: 10851516--10851754 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
10851506 TTAAATAGAT
** * * *
10851516 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
10851558 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
10851598 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
10851639 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
10851680 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
10851719 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
10851755 TATTACATTC
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 167 0.92
42 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:10859175 original size:41 final size:41
Alignment explanation
Indices: 10859117--10859314 Score: 226
Period size: 41 Copynumber: 4.8 Consensus size: 41
10859107 TTAAACAGAT
** * * *
10859117 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
10859159 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
*
10859199 TCACCGGCATTAAGCCTGCTAGACTTAAAGTTTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
10859240 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
10859279 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
10859315 TATTACATTC
Statistics
Matches: 138, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
39 2 0.01
40 8 0.06
41 124 0.90
42 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:10863502 original size:91 final size:91
Alignment explanation
Indices: 10863396--10863564 Score: 329
Period size: 91 Copynumber: 1.9 Consensus size: 91
10863386 CTTCTCTTGT
*
10863396 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACGCTCCTT
1 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
10863461 GTGACCCTTGAGATCCGTGACCGAGC
66 GTGACCCTTGAGATCCGTGACCGAGC
10863487 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
1 TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
10863552 GTGACCCTTGAGA
66 GTGACCCTTGAGA
10863565 GATGAAATTG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 77 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (91 bp):
TTGTTTCCTAAATATGCAGTTCACAACTATGTGTAGGTCTTTTTCAGGAAGACTATACACTCCTT
GTGACCCTTGAGATCCGTGACCGAGC
Found at i:10875234 original size:14 final size:15
Alignment explanation
Indices: 10875215--10875252 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
10875205 TCTTTCATTG
10875215 AAAATGACTTT-TGA
1 AAAATGACTTTCTGA
*
10875229 AAAATGA-TTTCTGG
1 AAAATGACTTTCTGA
10875243 AAAATGACTT
1 AAAATGACTT
10875253 ACTCTCCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 16 0.76
15 2 0.10
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (15 bp):
AAAATGACTTTCTGA
Found at i:10875938 original size:26 final size:27
Alignment explanation
Indices: 10875909--10875969 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
10875899 TATATGACTA
*
10875909 AATATATAATTAAATAT-ATA-TTTAAT
1 AATATATAA-AAAATATAATATTTTAAT
10875935 AATAT-TAAAAAATATAATATTTTAAT
1 AATATATAAAAAATATAATATTTTAAT
10875961 AAT-TATAAA
1 AATATATAAA
10875970 TATTTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 6 0.19
25 7 0.23
26 18 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AATATATAAAAAATATAATATTTTAAT
Found at i:10881769 original size:19 final size:18
Alignment explanation
Indices: 10881707--10881771 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 18
10881697 ATAATTTAAT
*
10881707 AATTATAAAATAT-TAAAA
1 AATTA-AAAATTTATAAAA
10881725 AATT-AAAATTTA-AATAA
1 AATTAAAAATTTATAA-AA
10881742 AATTATAAAAATTTCATAAAA
1 AA-T-TAAAAATTT-ATAAAA
10881763 AATTAAAAA
1 AATTAAAAA
10881772 GTTAGTATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
16 8 0.21
17 4 0.10
18 5 0.13
19 7 0.18
20 8 0.21
21 5 0.13
22 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTAAAAATTTATAAAA
Found at i:10883341 original size:28 final size:29
Alignment explanation
Indices: 10883296--10883356 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
10883286 CTCCTCGGTT
10883296 CTTTTTTTTTTCTCG-TTTAGTTTTTTCTG
1 CTTTTTTTTTTCTCGTTTTAG-TTTTTCTG
10883325 CTTTTTGTTTTT-T-GTTTTAGTTTTTCTG
1 CTTTTT-TTTTTCTCGTTTTAGTTTTTCTG
10883353 -TTTT
1 CTTTT
10883357 GTATATGGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 4 0.13
28 9 0.30
29 12 0.40
30 5 0.17
ACGTcount: A:0.03, C:0.10, G:0.11, T:0.75
Consensus pattern (29 bp):
CTTTTTTTTTTCTCGTTTTAGTTTTTCTG
Found at i:10885780 original size:12 final size:12
Alignment explanation
Indices: 10885763--10885787 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10885753 TTTGTCAGAC
10885763 TTGCTCGGACCA
1 TTGCTCGGACCA
10885775 TTGCTCGGACCA
1 TTGCTCGGACCA
10885787 T
1 T
10885788 AATGCTATCC
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:0.32, G:0.24, T:0.28
Consensus pattern (12 bp):
TTGCTCGGACCA
Found at i:10886919 original size:13 final size:13
Alignment explanation
Indices: 10886901--10886925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10886891 CAAGTATTCA
10886901 ACCCAACCCAATT
1 ACCCAACCCAATT
10886914 ACCCAACCCAAT
1 ACCCAACCCAAT
10886926 CATAAAAATT
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:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:10887756 original size:37 final size:37
Alignment explanation
Indices: 10887710--10887784 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
10887700 ATTACTTGAA
*
10887710 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTAAATAAGTCT
*
10887747 TTGAATCACTACATAATTAAAAACATTAAATATGTCT
1 TTGAATCACTACATAATTAAAAACATTAAATAAGTCT
10887784 T
1 T
10887785 GAAATTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTAAATAAGTCT
Found at i:10887798 original size:37 final size:37
Alignment explanation
Indices: 10887710--10887801 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
10887700 ATTACTTGAA
* *
10887710 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTAAATAAGTCT
* *
10887747 TTGAATCACTACATAATTAAAAACATTAAATATGTC-
1 TTGAATAACTACATAATTAAAAACATTAAATAAGTCT
10887783 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
10887802 GAAATGTAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 3 0.06
37 44 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTAAATAAGTCT
Found at i:10891918 original size:38 final size:38
Alignment explanation
Indices: 10891876--10891992 Score: 198
Period size: 39 Copynumber: 3.0 Consensus size: 38
10891866 GTTAGAGACT
*
10891876 TAGACTTTAGTTTTAGTTTTATTGGGTTGGTTATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
*
10891914 TAGACTTTAGTTTTAGTTTTATTGGGTTCGGTAATTAGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTT-GGTAATTGGG
10891953 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTG-GTAATTGGG
10891992 T
1 T
10891993 TGGGTTGGAT
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
38 29 0.39
39 45 0.61
ACGTcount: A:0.19, C:0.03, G:0.27, T:0.50
Consensus pattern (38 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGTAATTGGG
Found at i:10895427 original size:36 final size:36
Alignment explanation
Indices: 10895387--10895457 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
10895377 ATCAAAGGCT
**
10895387 ACAATTAAAAGTTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAGCCGTATACAATTAGAACTCTAAGAC
*
10895423 ACAATTAGAAGCCGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAGCCGTATACAATTAGAACTCTAAGA
10895458 TTACATAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAGCCGTATACAATTAGAACTCTAAGAC
Found at i:10901027 original size:21 final size:21
Alignment explanation
Indices: 10900990--10901032 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10900980 AAGTGTATCT
*
10900990 ATATAAAATTGTAAAATGAAA
1 ATATAAAATTGTAAAATAAAA
*
10901011 ATATAAAGTTGGT-AAATAAAA
1 ATATAAAATT-GTAAAATAAAA
10901032 A
1 A
10901033 AGATATGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (21 bp):
ATATAAAATTGTAAAATAAAA
Found at i:10916243 original size:15 final size:15
Alignment explanation
Indices: 10916223--10916252 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10916213 TTCCTTTAAT
10916223 GCTACTTCAAGGAGA
1 GCTACTTCAAGGAGA
10916238 GCTACTTCAAGGAGA
1 GCTACTTCAAGGAGA
10916253 AGAAGAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (15 bp):
GCTACTTCAAGGAGA
Found at i:10917123 original size:31 final size:30
Alignment explanation
Indices: 10917088--10917172 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 30
10917078 ATTTAATTCG
10917088 AATATATAAATAAATATATTTTAAATAATAA
1 AATATATAAATAAATA-ATTTTAAATAATAA
* *
10917119 AATATA-ACCAATAAA-AATTTTAAAATATTAT
1 AATATATA--AATAAATAATTTT-AAATAATAA
*
10917150 ATTATATAAA-AAATAAATTTTAA
1 AATATATAAATAAAT-AATTTTAA
10917173 TAAGAAACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
29 3 0.07
30 10 0.22
31 25 0.56
32 7 0.16
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (30 bp):
AATATATAAATAAATAATTTTAAATAATAA
Found at i:10920437 original size:16 final size:16
Alignment explanation
Indices: 10920416--10920459 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
10920406 TTGGTTGAAA
*
10920416 AAATTATTTAATTGAG
1 AAATTAATTAATTGAG
10920432 AAATTAATTAATT--G
1 AAATTAATTAATTGAG
*
10920446 AATTTAATTAATTG
1 AAATTAATTAATTG
10920460 TTTAAGTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 13 0.52
16 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (16 bp):
AAATTAATTAATTGAG
Found at i:10920724 original size:17 final size:17
Alignment explanation
Indices: 10920702--10920739 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
10920692 TGTAAATAAT
10920702 GTAAAATTCGTTTTAAC
1 GTAAAATTCGTTTTAAC
10920719 GTAAAATTCGTTTTAAC
1 GTAAAATTCGTTTTAAC
10920736 GTAA
1 GTAA
10920740 CTAGATGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (17 bp):
GTAAAATTCGTTTTAAC
Found at i:10926464 original size:13 final size:13
Alignment explanation
Indices: 10926446--10926472 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10926436 AAAGTATTTC
10926446 AGAAATTGAATTG
1 AGAAATTGAATTG
10926459 AGAAATTGAATTG
1 AGAAATTGAATTG
10926472 A
1 A
10926473 TTATTATTGT
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:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (13 bp):
AGAAATTGAATTG
Found at i:10929245 original size:22 final size:22
Alignment explanation
Indices: 10929215--10929258 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10929205 AATCCTATCC
10929215 ATTACTTTAAATCCCATTTTTT
1 ATTACTTTAAATCCCATTTTTT
*
10929237 ATTATTTTAAATCCCATTTTTT
1 ATTACTTTAAATCCCATTTTTT
10929259 CTTTAATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTACTTTAAATCCCATTTTTT
Found at i:10929267 original size:27 final size:25
Alignment explanation
Indices: 10929215--10929285 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 25
10929205 AATCCTATCC
10929215 ATTACTTTAAATCCCA---TTTTTT
1 ATTACTTTAAATCCCATTTTTTTTT
*
10929237 ATTATTTTAAATCCCATTTTTTCTTT
1 ATTACTTTAAATCCCATTTTTT-TTT
* *
10929263 AATTACTTTAATTCCTATTTTTT
1 -ATTACTTTAAATCCCATTTTTT
10929286 AATCTGTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 15 0.38
25 3 0.08
26 3 0.08
27 19 0.47
ACGTcount: A:0.25, C:0.15, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTACTTTAAATCCCATTTTTTTTT
Found at i:10929495 original size:17 final size:17
Alignment explanation
Indices: 10929473--10929506 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
10929463 AATTATTAGG
10929473 TTTTTTAATTAAAATAAT
1 TTTTTTAA-TAAAATAAT
10929491 TTTTTTAATAAAATAA
1 TTTTTTAATAAAATAA
10929507 ATTTATTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTTTAATAAAATAAT
Found at i:10929496 original size:18 final size:18
Alignment explanation
Indices: 10929473--10929580 Score: 62
Period size: 18 Copynumber: 5.9 Consensus size: 18
10929463 AATTATTAGG
10929473 TTTTTTAATTAAAATAAT
1 TTTTTTAATTAAAATAAT
10929491 TTTTTTAA-TAAAATAAAT
1 TTTTTTAATTAAAAT-AAT
* *** * *
10929509 TTATTCCTTTAAATTGAT
1 TTTTTTAATTAAAATAAT
* **
10929527 TTATCATTTAATT--ATTAGG
1 TT-T--TTTAATTAAAATAAT
10929546 TTTTTTAATTAAAATAAAT
1 TTTTTTAATTAAAAT-AAT
10929565 TTTTTTAA-TAAAATAA
1 TTTTTTAATTAAAATAA
10929581 ATTTATTCCT
Statistics
Matches: 66, Mismatches: 16, Indels: 17
0.67 0.16 0.17
Matches are distributed among these distances:
16 7 0.11
17 8 0.12
18 28 0.42
19 19 0.29
21 4 0.06
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTTTAATTAAAATAAT
Found at i:10929581 original size:18 final size:19
Alignment explanation
Indices: 10929546--10929584 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
10929536 AATTATTAGG
10929546 TTTTTTAATTAAAATAAAT
1 TTTTTTAATTAAAATAAAT
10929565 TTTTTTAA-TAAAATAAAT
1 TTTTTTAATTAAAATAAAT
10929583 TT
1 TT
10929585 ATTCCTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTTTAATTAAAATAAAT
Found at i:10929594 original size:74 final size:74
Alignment explanation
Indices: 10929358--10929679 Score: 514
Period size: 74 Copynumber: 4.4 Consensus size: 74
10929348 TTTTTAAAGA
***
10929358 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATT-TCATTTTTAATTAAAATCAAA
1 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAAT-AAA
*
10929422 ----TTTCA-
65 TTTTTTTAAT
10929427 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAAT-AAT
1 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAATAAAT
10929491 TTTTTTAAT
66 TTTTTTAAT
*
10929500 AAAATAAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAATAAAT
1 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAATAAAT
10929565 TTTTTTAAT
66 TTTTTTAAT
* * *
10929574 AAAATAAATTTATTCCTTTAAATTGATTCATCATTTAATTATTACGTTTTTTAATTAAAATAAAT
1 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAATAAAT
10929639 TTTTTTAAT
66 TTTTTTAAT
10929648 AAAATCAATTTATTCCTTTAAATTGATTTATC
1 AAAATCAATTTATTCCTTTAAATTGATTTATC
10929680 TTGTAAAACA
Statistics
Matches: 237, Mismatches: 9, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
68 2 0.01
69 43 0.18
70 14 0.06
72 4 0.02
73 60 0.25
74 114 0.48
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (74 bp):
AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAATAAAT
TTTTTTAAT
Found at i:10929635 original size:147 final size:143
Alignment explanation
Indices: 10929358--10929679 Score: 504
Period size: 147 Copynumber: 2.2 Consensus size: 143
10929348 TTTTTAAAGA
*
10929358 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTTCATTTTTAATTAAAATCAAAT
1 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTGCATTTTTAATTAAAATCAAAT
* * * *
10929423 TTCAAAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAAT
66 TTAAAAAATAAATTTATTCCTTTAAATTGATTCATCATTTAATTATTACGTTTTTTAATTAAAAT
10929488 -AATTTTTTTAAT
131 AAATTTTTTTAAT
* **
10929500 AAAATAAATTTATTCCTTTAAATTGATTTATCATTTAATTATTAGGTTTTTTAATTAAAAT-AAA
1 AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATT-GCATTTTTAATTAAAATCAAA
10929564 TTTTTTTAATAAAATAAATTTATTCCTTTAAATTGATTCATCATTTAATTATTACGTTTTTTAAT
65 ----TTTAA-AAAATAAATTTATTCCTTTAAATTGATTCATCATTTAATTATTACGTTTTTTAAT
10929629 TAAAATAAATTTTTTTAAT
125 TAAAATAAATTTTTTTAAT
10929648 AAAATCAATTTATTCCTTTAAATTGATTTATC
1 AAAATCAATTTATTCCTTTAAATTGATTTATC
10929680 TTGTAAAACA
Statistics
Matches: 164, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
142 45 0.27
143 14 0.09
146 4 0.02
147 58 0.35
148 43 0.26
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (143 bp):
AAAATCAATTTATTCCTTTAAATTGATTTATCATTTAATTATTGCATTTTTAATTAAAATCAAAT
TTAAAAAATAAATTTATTCCTTTAAATTGATTCATCATTTAATTATTACGTTTTTTAATTAAAAT
AAATTTTTTTAAT
Found at i:10929644 original size:19 final size:18
Alignment explanation
Indices: 10929620--10929658 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
10929610 AATTATTACG
10929620 TTTTTTAATTAAAATAAAT
1 TTTTTTAA-TAAAATAAAT
*
10929639 TTTTTTAATAAAATCAAT
1 TTTTTTAATAAAATAAAT
10929657 TT
1 TT
10929659 ATTCCTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTTAATAAAATAAAT
Found at i:10940840 original size:27 final size:27
Alignment explanation
Indices: 10940804--10940888 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
10940794 ATACAGTAGA
*
10940804 AAAAGAAAGCTTTTGTGGCGATCTATG
1 AAAAGGAAGCTTTTGTGGCGATCTATG
* * *
10940831 AAAAGGAAGCCTTTGTAGCGACCTATG
1 AAAAGGAAGCTTTTGTGGCGATCTATG
* *
10940858 AAAATGAAG-TCTTTGTGGCGATTTATG
1 AAAAGGAAGCT-TTTGTGGCGATCTATG
10940885 AAAA
1 AAAA
10940889 ATGAAGTCTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (27 bp):
AAAAGGAAGCTTTTGTGGCGATCTATG
Found at i:10940984 original size:27 final size:27
Alignment explanation
Indices: 10940954--10941016 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
10940944 TTCCTTTACA
*
10940954 GCGTATTCT-GTAAGGGAAGCCTTTGTG
1 GCGTATTCTAGTAA-GAAAGCCTTTGTG
10940981 GCGTATT-TAGTAAGAAAGCCTTTGTG
1 GCGTATTCTAGTAAGAAAGCCTTTGTG
*
10941007 GTGTATTCTA
1 GCGTATTCTA
10941017 ATAGATTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 19 0.59
27 13 0.41
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.37
Consensus pattern (27 bp):
GCGTATTCTAGTAAGAAAGCCTTTGTG
Found at i:10943201 original size:16 final size:18
Alignment explanation
Indices: 10943175--10943207 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10943165 TTAAATTAGA
10943175 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
10943192 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
10943208 CCCAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:10947005 original size:14 final size:15
Alignment explanation
Indices: 10946981--10947009 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10946971 TAAAAATAAA
10946981 AAAAATGATTATTAT
1 AAAAATGATTATTAT
10946996 AAAAAT-ATTATTAT
1 AAAAATGATTATTAT
10947010 TAAATTAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AAAAATGATTATTAT
Found at i:10947732 original size:25 final size:24
Alignment explanation
Indices: 10947688--10947735 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
10947678 AAATATATCA
*
10947688 AATTATTTTATATTAGATAAATAT
1 AATTATTTTATATCAGATAAATAT
10947712 AATTATTTTTATATGCA-ATAAATA
1 AATTA-TTTTATAT-CAGATAAATA
10947736 AACATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 15 0.71
26 1 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (24 bp):
AATTATTTTATATCAGATAAATAT
Found at i:10949137 original size:22 final size:21
Alignment explanation
Indices: 10949113--10949191 Score: 122
Period size: 22 Copynumber: 3.7 Consensus size: 21
10949103 ATTTTCACAA
10949113 AAAAATTCTCTCAATTTCTTC
1 AAAAATTCTCTCAATTTCTTC
*
10949134 AAAAATTCTCTCAATTCCCTTC
1 AAAAATTCTCTCAATT-TCTTC
10949156 AAAAATTCTCTCAATTTCCTTC
1 AAAAATTCTCTCAATTT-CTTC
*
10949178 CAAAATTCTCTCAA
1 AAAAATTCTCTCAA
10949192 ACTCTCAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
21 16 0.30
22 37 0.70
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATTCTCTCAATTTCTTC
Found at i:10949197 original size:30 final size:30
Alignment explanation
Indices: 10949163--10949221 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
10949153 TTCAAAAATT
* *
10949163 CTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
10949193 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
10949222 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.34
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:10949198 original size:52 final size:51
Alignment explanation
Indices: 10949141--10949243 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 51
10949131 TTCAAAAATT
* * *
10949141 CTCTC-AATTCCCTTCAAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATT-CCTTCAAAAATCCTCTCAATTTCCTTCAAAAAATCTC-CAAA
*
10949193 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTCAAATTCCTTCAAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
10949244 TCCATATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
51 4 0.09
52 38 0.83
53 4 0.09
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (51 bp):
CTCTCAAATTCCTTCAAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
Found at i:10949232 original size:21 final size:22
Alignment explanation
Indices: 10949193--10949234 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10949183 TTCTCTCAAA
10949193 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
10949215 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
10949235 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:10949320 original size:29 final size:28
Alignment explanation
Indices: 10949276--10949331 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
10949266 ATTAAATTTC
* *
10949276 ATTTTTTAAGAAAATTATACAATTTTTT
1 ATTTTTTAAAAAAATTATAAAATTTTTT
*
10949304 ATTTTTTAAAAATAATTTTAAAATTTTT
1 ATTTTTTAAAAA-AATTATAAAATTTTT
10949332 AAAATTTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (28 bp):
ATTTTTTAAAAAAATTATAAAATTTTTT
Found at i:10949459 original size:14 final size:15
Alignment explanation
Indices: 10949430--10949463 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10949420 AAATTTTAAA
10949430 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
10949445 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
10949459 TTTTA
1 TTTTA
10949464 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:10951666 original size:18 final size:20
Alignment explanation
Indices: 10951620--10951662 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 20
10951610 CCCTAACCTA
10951620 ACCTAATTGAATTAAAAACCC
1 ACCTAATTGAATTAAAAA-CC
10951641 TAACCTAATTGAATTAAAAACC
1 --ACCTAATTGAATTAAAAACC
10951663 CTAACCTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (20 bp):
ACCTAATTGAATTAAAAACC
Found at i:10951858 original size:143 final size:141
Alignment explanation
Indices: 10951597--10952300 Score: 819
Period size: 143 Copynumber: 5.0 Consensus size: 141
10951587 GTTTGACATT
* * * *
10951597 ATTTGATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAA-C---CTAATTGAATTAA
1 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCTAACTAATTTAATTAA
* *
10951658 AAACCCTAACCTAACTTAATTTAATTAAAAACCCTAAAACCCTAACTTAATTTAATTAAAAACCC
66 AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAAAA-CCTAACTTAATTGAATTAAAAACCC
10951723 TAACCTAACTTA
130 TAACCTAACTTA
10951735 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCTAACTTAATTTAATTA
1 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCTAAC-TAATTTAATTA
*
10951800 AAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAAAACCCTAACTTAATTGAATTAAAAACC
65 AAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAAAA-CCTAACTTAATTGAATTAAAAACC
* *
10951865 TTAACCTAACCTA
129 CTAACCTAACTTA
* * *
10951878 ACTTAATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAACCTAATTTAATTA
1 ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCTAA-CTAATTTAATTA
****
10951943 AAAACCCTAACCTAACCTAATTTAATTAAAAACCCT--AA-C---C-TAATTGAACCCTAAACCC
65 AAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAAAACCTAACTTAATTGAATTAAAAACCC
10952001 TAAAACCCTAACTTA
130 T--AA-CCTAACTTA
10952016 ATTTAATTAAAAACCCTAAAACCCTAACTTAATTTAATTAAAAACCCTAACCTAACTTAATTTAA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTAATTTAATTAAAAACCCTAACCTAAC-TAATTTAA
* * *
10952081 TTAAAAACCCTAAGACCCTAACCTAACTTAATTAAAAACCCT--AACCTAACCTAATTTAATTAA
62 TTAAAAACCCT-A-A-CCTAACCTAATTTAATTAAAAACCCTAAAACCTAACTTAATTGAATTAA
10952144 AAACCCTAAAACCCTAACTTA
124 AAACCCT--AA-CCTAACTTA
* * *
10952165 ATTGAATTAAAAACCCTAACCTAACCTAACTTAATTTACTTAAAAACCCTAA-C---CTAATTGA
1 ATTTAATTAAAAA--C---CCTAACCTAACTTAATTTAATTAAAAACCCTAACCTAACTAATTTA
*
10952226 ATTAAAAACCCTAACCTAACCTAATTTAATT-AAAA--TTAAAAACCTAACTTAA-T---TT-AA
61 ATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCT-AAAACCTAACTTAATTGAATTAAA
10952283 AACCCTAACCTAACTTA
125 AACCCTAACCTAACTTA
10952300 A
1 A
10952301 CCCTAAACCC
Statistics
Matches: 505, Mismatches: 32, Indels: 61
0.84 0.05 0.10
Matches are distributed among these distances:
135 24 0.05
136 3 0.01
137 2 0.00
138 76 0.15
139 4 0.01
140 4 0.01
141 52 0.10
142 7 0.01
143 208 0.41
144 29 0.06
145 2 0.00
146 18 0.04
147 1 0.00
148 1 0.00
149 40 0.08
150 1 0.00
151 28 0.06
152 2 0.00
154 3 0.01
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (141 bp):
ATTTAATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCTAACTAATTTAATTAA
AAACCCTAACCTAACCTAATTTAATTAAAAACCCTAAAACCTAACTTAATTGAATTAAAAACCCT
AACCTAACTTA
Found at i:10952251 original size:23 final size:23
Alignment explanation
Indices: 10952189--10952363 Score: 112
Period size: 23 Copynumber: 7.5 Consensus size: 23
10952179 CCTAACCTAA
* * *
10952189 CCTAACTTAATTTACTTAAAAAC
1 CCTAACCTAACTTAATTAAAAAC
10952212 CCTAACCTAA-TTGAATTAAAAAC
1 CCTAACCTAACTT-AATTAAAAAC
*
10952235 CCTAACCTAACCTAATTTAATTAAA-
1 CCTAACCTAACTTAA-TTAA--AAAC
** *
10952260 ATTAAAAACCTAACTTAATTTAAAAC
1 CCT---AACCTAACTTAATTAAAAAC
****
10952286 CCTAACCTAACTTAACCCTAAAC
1 CCTAACCTAACTTAATTAAAAAC
10952309 CCTAACCTAACTTAATGT-AAAAC
1 CCTAACCTAACTTAAT-TAAAAAC
10952332 CCTAACCCTAAGC-TAA-T--AAAC
1 CCTAA-CCTAA-CTTAATTAAAAAC
10952353 CCTAACCTAAC
1 CCTAACCTAAC
10952364 ATACAACAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 28
0.74 0.10 0.17
Matches are distributed among these distances:
19 1 0.01
20 5 0.04
21 9 0.07
22 3 0.02
23 70 0.56
24 13 0.10
25 5 0.04
26 4 0.03
27 3 0.02
28 11 0.09
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.27
Consensus pattern (23 bp):
CCTAACCTAACTTAATTAAAAAC
Found at i:10952300 original size:18 final size:18
Alignment explanation
Indices: 10952261--10952323 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 18
10952251 TTAATTAAAA
* * *
10952261 TTAAAAACCTAACTTAAT
1 TTAAAACCCTAACCTAAC
10952279 TTAAAACCCTAACCTAAC
1 TTAAAACCCTAACCTAAC
10952297 TTAACCCTAAACCCTAACCTAAC
1 TT-A----AAACCCTAACCTAAC
10952320 TTAA
1 TTAA
10952324 TGTAAAACCC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
18 18 0.49
19 1 0.03
22 1 0.03
23 17 0.46
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (18 bp):
TTAAAACCCTAACCTAAC
Found at i:10952301 original size:28 final size:28
Alignment explanation
Indices: 10951597--10952300 Score: 802
Period size: 28 Copynumber: 25.0 Consensus size: 28
10951587 GTTTGACATT
* *
10951597 ATTTGATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
10951625 ATTGAATTAAAAACCCTAA-C---C-TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
10951648 ATTGAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
10951676 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
10951707 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
10951735 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
10951763 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
10951791 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
10951819 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
* * *
10951850 ATTGAATTAAAAACCTTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10951878 ACTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10951906 ATTGAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
10951934 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
10951962 ATTTAATTAAAAACCCTAACCTAA-TTGA
1 ATTTAATTAAAAACCCTAACCTAACTT-A
***
10951990 A---CCCT--AAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
10952016 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
10952047 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
10952075 ATTTAATTAAAAACCCTAAGACCCTAACCTA
1 ATTTAATTAAAAACCCT-A-A-CCTAACTTA
* *
10952106 ACTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
10952134 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACTTA
*
10952165 ATTGAATTAAAAACCCTAACCTAACCTAACTTA
1 ATTTAATTAAAAA--C---CCTAACCTAACTTA
*
10952198 ATTTACTTAAAAACCCTAA-C---C-TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10952221 ATTGAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* * *
10952249 ATTTAATT-AAAA--TTAA--AAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10952272 ACTTAATTTAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
10952300 A
1 A
10952301 CCCTAAACCC
Statistics
Matches: 599, Mismatches: 35, Indels: 84
0.83 0.05 0.12
Matches are distributed among these distances:
23 60 0.10
24 8 0.01
25 6 0.01
26 10 0.02
27 11 0.02
28 328 0.55
29 9 0.02
30 8 0.01
31 133 0.22
33 21 0.04
34 2 0.00
36 3 0.01
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACTTA
Found at i:10952316 original size:46 final size:44
Alignment explanation
Indices: 10952266--10952363 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 44
10952256 TAAAATTAAA
*
10952266 AACCTAACTTAATTTAAAACCCTAA-CCTAA-CTTAACCCTAAACCCT
1 AACCTAACTTAATGTAAAACCCTAACCCTAAGC-TAA---TAAACCCT
10952312 AACCTAACTTAATGTAAAACCCTAACCCTAAGCTAATAAACCCT
1 AACCTAACTTAATGTAAAACCCTAACCCTAAGCTAATAAACCCT
10952356 AACCTAAC
1 AACCTAAC
10952364 ATACAACAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
44 16 0.33
46 24 0.49
47 8 0.16
48 1 0.02
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (44 bp):
AACCTAACTTAATGTAAAACCCTAACCCTAAGCTAATAAACCCT
Found at i:10952546 original size:27 final size:27
Alignment explanation
Indices: 10952516--10952575 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
10952506 TTATCAATTA
10952516 ATAATTGAATAAAAGGTAGCTTTTTCT
1 ATAATTGAATAAAAGGTAGCTTTTTCT
10952543 ATAATTGAATAAAAGGTAGCTTTTTCT
1 ATAATTGAATAAAAGGTAGCTTTTTCT
10952570 ATAATT
1 ATAATT
10952576 ACATTCAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (27 bp):
ATAATTGAATAAAAGGTAGCTTTTTCT
Found at i:10955817 original size:125 final size:125
Alignment explanation
Indices: 10955595--10955861 Score: 367
Period size: 125 Copynumber: 2.1 Consensus size: 125
10955585 CCACGAGGGC
10955595 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGCG
* * *
10955660 AAATCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
66 AAATCGCATCCACGAGGCCACGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
* * **
10955720 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAATTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGC
* * ** * **
10955784 GAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTTAA-ATAGCATCCTAGTAGAA
65 GAAATCGCATCCACGAGGCCACGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
**
10955844 GCGATTTCCCACTATTTG
1 GCGATTTGACACTATTTG
10955862 ACCGGATACG
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
124 29 0.23
125 65 0.52
126 30 0.24
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (125 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGCG
AAATCGCATCCACGAGGCCACGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
Found at i:10956208 original size:28 final size:29
Alignment explanation
Indices: 10956158--10956212 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
10956148 CGCGGAAAAT
10956158 GGCCCATTCCGGTAAATAATTAAAAAACC
1 GGCCCATTCCGGTAAATAATTAAAAAACC
* * *
10956187 GGCCCATTTCTGT-AATTATTAAAAAA
1 GGCCCATTCCGGTAAATAATTAAAAAA
10956213 AGGGGCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (29 bp):
GGCCCATTCCGGTAAATAATTAAAAAACC
Found at i:10956302 original size:8 final size:8
Alignment explanation
Indices: 10956289--10956316 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
10956279 AATTTAAGTT
10956289 AAATTTAA
1 AAATTTAA
10956297 AAATTTAA
1 AAATTTAA
10956305 AAATTTAA
1 AAATTTAA
10956313 AAAT
1 AAAT
10956317 ATGAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAATTTAA
Found at i:10958325 original size:506 final size:506
Alignment explanation
Indices: 10956824--10958343 Score: 2988
Period size: 506 Copynumber: 3.0 Consensus size: 506
10956814 ATCTTAAAAT
*
10956824 AATACGTACAATCAACCCATTCTATAATAACCTCGTTTGACAAAATTTCAGATGCTATTGAGTGG
1 AATACGTACAATCAACCCATTCTATAATAACCTCGTTTGACAAAATTTCAGATGTTATTGAGTGG
*
10956889 TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTTAAAATTTCA
66 TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTCAAAATTTCA
10956954 AATTAAAAAATTAAAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
131 AATTAAAAAATTAAAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
10957019 TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
196 TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
*
10957084 GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGACAGTAAAAATATAAATTTTAA
261 GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGATAGTAAAAATATAAATTTTAA
10957149 AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
326 AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
10957214 TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
391 TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
10957279 AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
456 AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
*
10957330 AGTACGTACAATCAACCCATTCTATAATAACCTCGTTTGACAAAATTTCAGATGTTATTGAGTGG
1 AATACGTACAATCAACCCATTCTATAATAACCTCGTTTGACAAAATTTCAGATGTTATTGAGTGG
10957395 TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTCAAAATTTCA
66 TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTCAAAATTTCA
10957460 AATTAAAAAATT-AAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
131 AATTAAAAAATTAAAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
10957524 TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
196 TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
10957589 GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGATAGTAAAAATATAAATTTTAA
261 GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGATAGTAAAAATATAAATTTTAA
10957654 AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
326 AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
10957719 TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
391 TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
10957784 AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
456 AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
*
10957835 AATACGTACAATCAACCCATTCTATAATAACCTCCTTTGACAAAATTTCAGATGTTATTGAGTGG
1 AATACGTACAATCAACCCATTCTATAATAACCTCGTTTGACAAAATTTCAGATGTTATTGAGTGG
10957900 TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTCAAAATTTCA
66 TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTCAAAATTTCA
10957965 AATTAAAAAATTAAAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
131 AATTAAAAAATTAAAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
10958030 TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
196 TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
10958095 GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGATAGTAAAAATATAAATTTTAA
261 GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGATAGTAAAAATATAAATTTTAA
10958160 AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
326 AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
10958225 TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
391 TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
10958290 AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
456 AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
10958341 AAT
1 AAT
10958344 GTAATTTTAG
Statistics
Matches: 1007, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
505 502 0.50
506 505 0.50
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (506 bp):
AATACGTACAATCAACCCATTCTATAATAACCTCGTTTGACAAAATTTCAGATGTTATTGAGTGG
TGACTGTTATACACCTATAATAACATTTGAAATTTAAATCACATTTGAAATTTTTCAAAATTTCA
AATTAAAAAATTAAAAAAAATTATAATACTAATTAGTGAAATTTTATCATATCTTTAGTAAAATT
TATAAATGTAATTCCATTTATTAAAGATTTATTTTATACAATACCTACTTCTACCCAAAGGCAAA
GAATTTTTTCTTAGGGGGCTGAAGTTAAATTGTAATTTTTACGATAGTAAAAATATAAATTTTAA
AGATTAAATCAAAATTTTCTCATTTTTAAGGGAGCTAAAATTTTAAAAATTTTAAAGGGCCAAAC
TCCTACCAGCCCCCTAAATTCGCCCCTACTTCTACTTATACCCTCATACCTTTAAATCAGAGAAA
AAATACGATCAATTGCATTTAAACTCTTGTCCTCATTGTTGTAATAGCAAC
Found at i:10959823 original size:23 final size:25
Alignment explanation
Indices: 10959770--10959825 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
10959760 CCCTCCATCA
10959770 TCTTCAATCACATGCTCTTTCCCAT
1 TCTTCAATCACATGCTCTTTCCCAT
* *
10959795 TTTTCACTCACATGC-C-TTCCC-T
1 TCTTCAATCACATGCTCTTTCCCAT
10959817 CTCTTCAAT
1 -TCTTCAAT
10959826 TTGTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.04
23 11 0.42
24 1 0.04
25 13 0.50
ACGTcount: A:0.18, C:0.38, G:0.04, T:0.41
Consensus pattern (25 bp):
TCTTCAATCACATGCTCTTTCCCAT
Found at i:10965973 original size:94 final size:95
Alignment explanation
Indices: 10965788--10965976 Score: 317
Period size: 95 Copynumber: 2.0 Consensus size: 95
10965778 TCCAACACAA
* * *
10965788 GTGGTCTTCAATTTTTCCATGTCACTGAAAGATCATATCTGGATGAGCATGGACAAAAGTTTCCA
1 GTGGTATTCAATTTTCCCATGTCACTGAAAGATCATATCTGGATGAGCATGGACAAAAGGTTCCA
* *
10965853 GACATTTATTCTTCAAGAAAGATGAAGAGT
66 GACATTGATTCTTCAAGAAAAATGAAGAGT
*
10965883 GTGGTATTCAATTTTCCCATGTCACTGAAAGGTCATATCTGGATGAGCATGGAC-AAAGGTTCCA
1 GTGGTATTCAATTTTCCCATGTCACTGAAAGATCATATCTGGATGAGCATGGACAAAAGGTTCCA
10965947 GACATTGATTCTTCAAGAAAAATGAAGAGT
66 GACATTGATTCTTCAAGAAAAATGAAGAGT
10965977 CGGGCCTTTT
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 37 0.42
95 51 0.58
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (95 bp):
GTGGTATTCAATTTTCCCATGTCACTGAAAGATCATATCTGGATGAGCATGGACAAAAGGTTCCA
GACATTGATTCTTCAAGAAAAATGAAGAGT
Found at i:10972321 original size:27 final size:27
Alignment explanation
Indices: 10972262--10972355 Score: 129
Period size: 25 Copynumber: 3.5 Consensus size: 27
10972252 AAAAATAAAA
*
10972262 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAA-ATTTTTTT
10972290 ATTTACCAAAATATTACAAATTTTTTT
1 ATTTACCAAAATATTACAAATTTTTTT
* *
10972317 ATTTATCAAAATA-TA-TAATTTTTTT
1 ATTTACCAAAATATTACAAATTTTTTT
*
10972342 ATTTATCAAAATAT
1 ATTTACCAAAATAT
10972356 ATAAAAAAAC
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
25 22 0.35
26 2 0.03
27 19 0.31
28 19 0.31
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTACCAAAATATTACAAATTTTTTT
Found at i:10972379 original size:18 final size:18
Alignment explanation
Indices: 10972348--10972382 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10972338 TTTTATTTAT
* *
10972348 CAAAATATATAAAAAAAC
1 CAAAAAATAAAAAAAAAC
10972366 CAAAAAATAAAAAAAAA
1 CAAAAAATAAAAAAAAA
10972383 AACCTGACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (18 bp):
CAAAAAATAAAAAAAAAC
Found at i:10972425 original size:27 final size:27
Alignment explanation
Indices: 10972395--10972469 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
10972385 CCTGACACCA
*
10972395 GCCAATTAAATTGGCGGCACCAAAGGT
1 GCCAAATAAATTGGCGGCACCAAAGGT
* **
10972422 GCCAAATAAATTGGTGGCACCATTGGT
1 GCCAAATAAATTGGCGGCACCAAAGGT
*
10972449 GCCAAAGT-CATTGGCGGCACC
1 GCCAAA-TAAATTGGCGGCACC
10972470 TTGGTGCCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (27 bp):
GCCAAATAAATTGGCGGCACCAAAGGT
Found at i:10972482 original size:27 final size:27
Alignment explanation
Indices: 10972404--10972480 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
10972394 AGCCAATTAA
** *
10972404 ATTGGCGGCACCAAAGGTGCCAAA-TAA
1 ATTGGCGGCACCATTGGTGCCAAAGT-C
*
10972431 ATTGGTGGCACCATTGGTGCCAAAGTC
1 ATTGGCGGCACCATTGGTGCCAAAGTC
10972458 ATTGGCGGCACC-TTGGTGCCAAA
1 ATTGGCGGCACCATTGGTGCCAAA
10972481 AGAAAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
26 11 0.25
27 32 0.73
28 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (27 bp):
ATTGGCGGCACCATTGGTGCCAAAGTC
Found at i:10972563 original size:19 final size:19
Alignment explanation
Indices: 10972548--10972617 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
10972538 TTCAACTTAT
*
10972548 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
10972567 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* * *
10972585 TTCTCATTTAATAACTCCA
1 TTTTAATTTAATAACTCTA
10972604 TTTTAATTTAATAA
1 TTTTAATTTAATAA
10972618 ACTATTAAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 15 0.36
19 27 0.64
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:10972595 original size:37 final size:37
Alignment explanation
Indices: 10972553--10972623 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
10972543 CTTATTTTTT
*
10972553 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCCATTTTAATTTAATAAACTATTCTC
10972590 ATTTAATAACTCCATTTTAATTTAATAAACTATT
1 ATTTAATAACTCCATTTTAATTTAATAAACTATT
10972624 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (37 bp):
ATTTAATAACTCCATTTTAATTTAATAAACTATTCTC
Found at i:10972972 original size:20 final size:19
Alignment explanation
Indices: 10972933--10972973 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10972923 ACTTAATAGT
* *
10972933 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
10972952 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
10972972 TT
1 TT
10972974 GAAAGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:10973210 original size:19 final size:19
Alignment explanation
Indices: 10973186--10973243 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
10973176 ATTTAATAGT
10973186 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
10973205 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
10973223 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
10973242 TT
1 TT
10973244 CATAAATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.47
19 17 0.53
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:10973228 original size:18 final size:18
Alignment explanation
Indices: 10973180--10973239 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
10973170 AGTATTATTT
*
10973180 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATGAA
* *
10973198 AATAGAGTTATTAAATGAG
1 AATAG-TTTATTAAATGAA
*
10973217 AATAGTTTATTAAATTAA
1 AATAGTTTATTAAATGAA
10973235 AATAG
1 AATAG
10973240 AGTTCATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 20 0.57
19 15 0.43
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (18 bp):
AATAGTTTATTAAATGAA
Found at i:10973405 original size:27 final size:26
Alignment explanation
Indices: 10973328--10973413 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
10973318 ATTTTTTTCC
*
10973328 TTTGGCACCATGGTGCCGCCAA-TGA
1 TTTGGCACCATGGTGCCGCCAATTTA
*
10973353 CTTTGGCACCAATGGTGCCACCAATTTA
1 -TTTGGCACC-ATGGTGCCGCCAATTTA
*
10973381 TTTGGCACCTTTGGTGCCGCCAATTTA
1 TTTGGCACC-ATGGTGCCGCCAATTTA
*
10973408 ATTGGC
1 TTTGGC
10973414 TGGTGTCAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 9 0.17
27 41 0.79
28 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (26 bp):
TTTGGCACCATGGTGCCGCCAATTTA
Found at i:10973482 original size:28 final size:28
Alignment explanation
Indices: 10973453--10973547 Score: 135
Period size: 26 Copynumber: 3.5 Consensus size: 28
10973443 TTTTTTTAAT
10973453 ATATTTTAGTAAATAAAAAAAAGTT-TA
1 ATATTTTAGTAAATAAAAAAAAGTTGTA
*
10973480 TATATTTTGGTAAAT--AAAAAAGTTGTA
1 -ATATTTTAGTAAATAAAAAAAAGTTGTA
*
10973507 ATATTTTGGTAAATAAAAAAAA-TTGTA
1 ATATTTTAGTAAATAAAAAAAAGTTGTA
10973534 ATATTTTAGTAAAT
1 ATATTTTAGTAAAT
10973548 TTTTATTTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
26 23 0.37
27 20 0.32
28 19 0.31
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (28 bp):
ATATTTTAGTAAATAAAAAAAAGTTGTA
Found at i:10973525 original size:27 final size:27
Alignment explanation
Indices: 10973453--10973547 Score: 131
Period size: 27 Copynumber: 3.5 Consensus size: 27
10973443 TTTTTTTAAT
10973453 ATATTTTAGTAAATAAAAAAAAGTT-TA
1 ATATTTTAGTAAAT-AAAAAAAGTTGTA
*
10973480 TATATTTTGGTAAAT-AAAAAAGTTGTA
1 -ATATTTTAGTAAATAAAAAAAGTTGTA
* *
10973507 ATATTTTGGTAAATAAAAAAAATTGTA
1 ATATTTTAGTAAATAAAAAAAGTTGTA
10973534 ATATTTTAGTAAAT
1 ATATTTTAGTAAAT
10973548 TTTTATTTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.37
27 26 0.42
28 13 0.21
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (27 bp):
ATATTTTAGTAAATAAAAAAAGTTGTA
Found at i:10979093 original size:18 final size:18
Alignment explanation
Indices: 10979072--10979200 Score: 59
Period size: 18 Copynumber: 6.6 Consensus size: 18
10979062 AAGAAGTTTA
10979072 TTAAATTATATATTTTTG
1 TTAAATTATATATTTTTG
*
10979090 TTAAATTATATTTAATAATAATTATT
1 TTAAATTATA--T-AT--T--TT-TG
10979116 TTAAATTATAT-TTTATAGTG
1 TTAAATTATATATTT-T--TG
* *
10979136 TTATATATTAT-GATTTTAG
1 TTA-A-ATTATATATTTTTG
*
10979155 -TAAATTCATATA-TTTTA
1 TTAAATT-ATATATTTTTG
*
10979172 TTAAATTATATATTTTTA
1 TTAAATTATATATTTTTG
10979190 TTAAATTATAT
1 TTAAATTATAT
10979201 TTAATAATAA
Statistics
Matches: 86, Mismatches: 8, Indels: 34
0.67 0.06 0.27
Matches are distributed among these distances:
16 3 0.03
17 11 0.13
18 36 0.42
19 2 0.02
20 6 0.07
21 4 0.05
22 9 0.10
23 1 0.01
24 1 0.01
25 2 0.02
26 11 0.13
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.57
Consensus pattern (18 bp):
TTAAATTATATATTTTTG
Found at i:10979420 original size:49 final size:51
Alignment explanation
Indices: 10979360--10979457 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 51
10979350 TTACACATCT
* *
10979360 ATTCCATTCAACCAAACACAAGAA-TA-CTATTACGCCTCTATTCCATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTCC
10979409 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATT
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATT
10979458 ACGCATCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 23 0.51
50 2 0.04
51 20 0.44
ACGTcount: A:0.37, C:0.31, G:0.03, T:0.30
Consensus pattern (51 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCCATTCC
Found at i:10979466 original size:16 final size:16
Alignment explanation
Indices: 10979439--10979508 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
10979429 AGAATTACCT
*
10979439 ATTACACCTCTATTCC
1 ATTACACATCTATTCC
*
10979455 ATTACGCATCTATTCC
1 ATTACACATCTATTCC
* *
10979471 ATTACACTTTTATTCC
1 ATTACACATCTATTCC
*
10979487 ATTACACCTCTATTCC
1 ATTACACATCTATTCC
10979503 ATTACA
1 ATTACA
10979509 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.27, C:0.31, G:0.01, T:0.40
Consensus pattern (16 bp):
ATTACACATCTATTCC
Found at i:10979883 original size:17 final size:15
Alignment explanation
Indices: 10979852--10979920 Score: 54
Period size: 17 Copynumber: 4.4 Consensus size: 15
10979842 ACATGTGAAA
10979852 AAAAAT-AAAA-A-T
1 AAAAATAAAAATATT
10979864 AAAAATAAAAATCAATT
1 AAAAATAAAAAT--ATT
*
10979881 AAAGTTATAAAAATTATT
1 AAA--AATAAAAA-TATT
10979899 AAAATATAAAAATATT
1 AAAA-ATAAAAATATT
10979915 AAAAAT
1 AAAAAT
10979921 TAGAAAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
12 6 0.13
13 4 0.09
15 2 0.04
16 9 0.20
17 11 0.24
18 6 0.13
19 7 0.15
20 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (15 bp):
AAAAATAAAAATATT
Found at i:10979890 original size:19 final size:17
Alignment explanation
Indices: 10979863--10979918 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
10979853 AAAATAAAAA
10979863 TAAAA-ATAAAAATCAAT
1 TAAAATATAAAAAT-AAT
* *
10979880 TAAAGTTATAAAAATTAT
1 TAAA-ATATAAAAATAAT
10979898 TAAAATATAAAAAT-AT
1 TAAAATATAAAAATAAT
10979914 TAAAA
1 TAAAA
10979919 ATTAGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 7 0.21
17 13 0.38
18 6 0.18
19 8 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAAATATAAAAATAAT
Found at i:10979954 original size:19 final size:19
Alignment explanation
Indices: 10979889--10979987 Score: 87
Period size: 19 Copynumber: 5.2 Consensus size: 19
10979879 TTAAAGTTAT
* *
10979889 AAAAATTATTAAAA-TAT-
1 AAAAATTATAAAAATTGTA
*
10979906 AAAAA-TATTAAAAATTAGAA
1 AAAAATTA-TAAAAATT-GTA
10979926 AAAAATTTATAAAAATTGTA
1 AAAAA-TTATAAAAATTGTA
*
10979946 AAAAATTATAAAACTTGTA
1 AAAAATTATAAAAATTGTA
** *
10979965 AAATTTTATAAAAATAGTA
1 AAAAATTATAAAAATTGTA
10979984 AAAA
1 AAAA
10979988 TATAGAAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
16 2 0.03
17 10 0.15
18 1 0.02
19 31 0.47
20 12 0.18
21 8 0.12
22 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAATTATAAAAATTGTA
Found at i:10980008 original size:10 final size:10
Alignment explanation
Indices: 10979885--10979958 Score: 52
Period size: 10 Copynumber: 7.8 Consensus size: 10
10979875 TCAATTAAAG
10979885 TTAT-AAAAA
1 TTATAAAAAA
*
10979894 TTAT-TAAAA
1 TTATAAAAAA
10979903 -TAT-AAAAA
1 TTATAAAAAA
*
10979911 -TATTAAAAA
1 TTATAAAAAA
*
10979920 TTAGAAAAAAA
1 TTA-TAAAAAA
10979931 TT-TATAAAAA
1 TTATA-AAAAA
*
10979941 TTGTAAAAAA
1 TTATAAAAAA
10979951 TTATAAAA
1 TTATAAAA
10979959 CTTGTAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
8 10 0.19
9 14 0.26
10 21 0.39
11 9 0.17
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:10980043 original size:68 final size:65
Alignment explanation
Indices: 10979889--10980078 Score: 155
Period size: 68 Copynumber: 2.8 Consensus size: 65
10979879 TTAAAGTTAT
** * *
10979889 AAAAATTATTAAAATATAAAAATATTAAAAATTAGAAAAAAATTTATAAAAATTGTAAAAAATTA
1 AAAAATTAAAAAAATATAAAAATA-TAAAAATTAGAAAAAAAATTAT-AAAATTGTAAAAAATCA
10979954 TA
64 TA
** *** * * *
10979956 AAACTTGTAAAATTTTATAAAAATAGTAAAAATATAGAAAAAAAATTATAAAATTTTATAAAGTC
1 AAAAAT-TAAAAAAATATAAAAATA-TAAAAAT-TAGAAAAAAAATTATAAAATTGTAAAAAATC
*
10980021 GTA
63 ATA
* * * *
10980024 AGAAAATTAAAAAAATATAAAGATATATAAAATTCGTAAAAAAGTTATTAAAATT
1 A-AAAATTAAAAAAATATAAAAATATA-AAAATTAGAAAAAAAATTA-TAAAATT
10980079 ATCGTACCAA
Statistics
Matches: 95, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
67 17 0.18
68 61 0.64
69 17 0.18
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (65 bp):
AAAAATTAAAAAAATATAAAAATATAAAAATTAGAAAAAAAATTATAAAATTGTAAAAAATCATA
Found at i:10980061 original size:38 final size:37
Alignment explanation
Indices: 10979943--10980080 Score: 91
Period size: 38 Copynumber: 3.6 Consensus size: 37
10979933 TATAAAAATT
* * * * * *
10979943 GTAAAAAATTATAAAACTTGTAAAATTTTATAAAAATA
1 GTAAAAAATTAAAAAAATTATAAAATTATAT-AAAGTC
* *
10979981 GTAAAAATATAGAAAAAAAATTATAAAATTTTATAAAGTC
1 GTAAAAA-AT--TAAAAAAATTATAAAATTATATAAAGTC
*
10980021 GTAAGAAAATTAAAAAAA-TATAAAGA-TATATAAAATTC
1 GTAA-AAAATTAAAAAAATTATAAA-ATTATAT-AAAGTC
**
10980059 GTAAAAAAGTTATTAAAATTAT
1 GTAAAAAA-TTAAAAAAATTAT
10980081 CGTACCAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
37 14 0.17
38 31 0.38
39 5 0.06
40 10 0.12
41 21 0.26
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (37 bp):
GTAAAAAATTAAAAAAATTATAAAATTATATAAAGTC
Found at i:10980134 original size:16 final size:17
Alignment explanation
Indices: 10980104--10980136 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10980094 GCAATTTATA
10980104 ATTTTTCTATAATTTTT
1 ATTTTTCTATAATTTTT
*
10980121 ATTTTT-TATCATTTTT
1 ATTTTTCTATAATTTTT
10980137 CGCCATAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTTCTATAATTTTT
Found at i:10980319 original size:10 final size:9
Alignment explanation
Indices: 10980237--10980353 Score: 76
Period size: 9 Copynumber: 12.4 Consensus size: 9
10980227 TTTTGATGCA
10980237 TTTTATAAT
1 TTTTATAAT
*
10980246 TTTTATAAAA
1 TTTTAT-AAT
*
10980256 TTATATATAT
1 TTTTATA-AT
*
10980266 TTTTACAAT
1 TTTTATAAT
10980275 TTTTATAATTT
1 TTTTATAA--T
*
10980286 TTTTCTAAT
1 TTTTATAAT
* *
10980295 TTCTAATAAAA
1 TT-TTAT-AAT
*
10980306 TTTAATAAT
1 TTTTATAAT
*
10980315 TTTTATAAA
1 TTTTATAAT
*
10980324 TTTTATTGAT
1 TTTTA-TAAT
10980334 TTTTAT--T
1 TTTTATAAT
10980341 TTTTATAAT
1 TTTTATAAT
10980350 TTTT
1 TTTT
10980354 TGCCACATGT
Statistics
Matches: 84, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
7 7 0.08
9 39 0.46
10 26 0.31
11 12 0.14
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:10986066 original size:22 final size:19
Alignment explanation
Indices: 10986029--10986072 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
10986019 TACCATAAAA
10986029 ACATTAAATTTAACACATT
1 ACATTAAATTTAACACATT
10986048 ACATATAAACTTTAAACACATT
1 ACAT-TAAA-TTT-AACACATT
10986070 ACA
1 ACA
10986073 ATTCCAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.18
20 4 0.18
21 3 0.14
22 11 0.50
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (19 bp):
ACATTAAATTTAACACATT
Found at i:10986644 original size:20 final size:20
Alignment explanation
Indices: 10986619--10986656 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10986609 CAGAGACACT
*
10986619 GAAGTGTAAACAAAGGCACC
1 GAAGTGCAAACAAAGGCACC
10986639 GAAGTGCAAACAAAGGCA
1 GAAGTGCAAACAAAGGCA
10986657 AGATTGTGTA
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:0.47, C:0.18, G:0.26, T:0.08
Consensus pattern (20 bp):
GAAGTGCAAACAAAGGCACC
Found at i:10986696 original size:60 final size:60
Alignment explanation
Indices: 10986588--10986707 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
10986578 ATAATGCTAT
* * * *
10986588 ACAAAGGCACGATTATGCAATCAGAGACACTGAAGTGTAAACAAAGGCACCGAAGTGCAA
1 ACAAAGGCAAGATTATGCAATCAGAGACACCGAAGTGTAAACAAAGGCACCAAAATGCAA
* * * ** *
10986648 ACAAAGGCAAGATTGTGTAATTAGAGACACCGAAGTGTAAGTAGAGGCACCAAAATGCAA
1 ACAAAGGCAAGATTATGCAATCAGAGACACCGAAGTGTAAACAAAGGCACCAAAATGCAA
10986708 CCTCGTACAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.15
Consensus pattern (60 bp):
ACAAAGGCAAGATTATGCAATCAGAGACACCGAAGTGTAAACAAAGGCACCAAAATGCAA
Found at i:10987677 original size:64 final size:64
Alignment explanation
Indices: 10987576--10987703 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
10987566 ATAACGATCT
10987576 CAAAAATATAAAAACAAGAAACGAGTTTGAAAAACACACCATGCATGAACATTAAAGCTTGGCC
1 CAAAAATATAAAAACAAGAAACGAGTTTGAAAAACACACCATGCATGAACATTAAAGCTTGGCC
10987640 CAAAAATATAAAAACAAGAAACGAGTTTGAAAAACACACCATGCATGAACATTAAAGCTTGGCC
1 CAAAAATATAAAAACAAGAAACGAGTTTGAAAAACACACCATGCATGAACATTAAAGCTTGGCC
10987704 AATTCTCTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.50, C:0.19, G:0.14, T:0.17
Consensus pattern (64 bp):
CAAAAATATAAAAACAAGAAACGAGTTTGAAAAACACACCATGCATGAACATTAAAGCTTGGCC
Found at i:10995835 original size:32 final size:32
Alignment explanation
Indices: 10995794--10995868 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
10995784 AAAATAAATT
10995794 ATGAAGAGTTAGAAATGTAAAGAAACTTGAAG
1 ATGAAGAGTTAGAAATGTAAAGAAACTTGAAG
* *
10995826 ATGAAGAGTTAGAAATGTGAAGAGACTTGAAG
1 ATGAAGAGTTAGAAATGTAAAGAAACTTGAAG
10995858 ATGAAGAGTTA
1 ATGAAGAGTTA
10995869 CACACATGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.47, C:0.03, G:0.28, T:0.23
Consensus pattern (32 bp):
ATGAAGAGTTAGAAATGTAAAGAAACTTGAAG
Found at i:10995932 original size:39 final size:39
Alignment explanation
Indices: 10995878--10995966 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
10995868 ACACACATGC
10995878 ATGAATAGTCACAACTCCTATAGCAATTAAGTGATGTAG
1 ATGAATAGTCACAACTCCTATAGCAATTAAGTGATGTAG
*
10995917 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAG
1 ATGAATAGTCACAACTCCTATAGCAATTAAGTGATGTAG
10995956 ATGAATAGTCA
1 ATGAATAGTCA
10995967 TTTACAACTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (39 bp):
ATGAATAGTCACAACTCCTATAGCAATTAAGTGATGTAG
Found at i:11000717 original size:21 final size:21
Alignment explanation
Indices: 11000691--11000731 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11000681 ATCTGCTCAA
* *
11000691 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
11000712 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
11000732 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:11005100 original size:13 final size:13
Alignment explanation
Indices: 11005082--11005106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11005072 AATATTAATT
11005082 AAAAAAAAGTTGA
1 AAAAAAAAGTTGA
11005095 AAAAAAAAGTTG
1 AAAAAAAAGTTG
11005107 CTACTTTCTC
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAAAAAAGTTGA
Found at i:11009578 original size:511 final size:506
Alignment explanation
Indices: 11007942--11010663 Score: 3331
Period size: 511 Copynumber: 5.4 Consensus size: 506
11007932 CTCTATTTTC
* **
11007942 AAATTAAAACAGAATTTGAAGAGATAAACTCAGCTGAGGAAAAATAAAAAAATGTATTGGGCTAA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* * *
11008007 AATATCCGTAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATAATAGGATCGAA
66 AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGAA
* * * *
11008072 CCAGAAAAATATAG-ATATATATATAAAATCTAAAAAA-ATAAATTGGAAATAAAAACTAGATCG
131 CCAGAACAATATAGAATATATATATAAAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATCG
* * * * * *
11008135 AAATTGTATACTCGTAGGT-AGGCAAAAATTCGATTGGTAGTTGAGGCTTGTTTTCACAATTTCT
196 AAATTGTATACTCGTAGGTAAGG-AAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTCC
** * * * *
11008199 TTAAGGTAGATTCGGCTGCTCCTTTGGTGCAGGAGAAATGTTGGTCGAATATCTCCCAAGATGCA
260 TTAAGACAGATTCGGCTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCC-AGATACA
* * * * *
11008264 ATAACGATATGAGCACACCAGTAGCACGGCTGCAGTGATCAACGAATTGTAGCCTAGCTTTCTTC
324 ACAACGAGATGAGCACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTC
* * * * *
11008329 TATCACTGAAAACATGTTCAAAATATGAAAGGGAAGATATCTCGAAACTTTTGCAGGAAAAATGG
389 TATCACTGAAAA-TTGTTCAAAATATG-AAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATAG
* *
11008394 GGAAAATTTAAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
452 GGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
* * * * *
11008449 AAATTAAAACTGAATTTGAAGAGATAAAACGCTGCTAATGAAAATTAAAATTATGTATTGGGCTA
1 AAATTAAAACAGAATTTGAAGAGAT-AAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTA
* * *
11008514 AAATATCCGCAGGTCTAGGAAAAATTAATAGTAATATAAAATATTAATTTAAATAATAGGATCAA
65 AAATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGA
* * *
11008579 ACCAG----A-AT--AATATATATAT--AATCTAAAAAATAGAAATTGGAAATAAAAACTTGATA
130 ACCAGAACAATATAGAATATATATATAAAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATC
* * * *
11008635 GAAATTGTATACTCGTAGGTAGGGAAAAATTCGACTAGTAGTTGAGGCCTGTTTTCACAG-TTCC
195 GAAATTGTATACTCGTAGGTAAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTCC
* * * *
11008699 TTAAGACAGATTCGACTGCTACTTTGGTGTTGGAGAAATATTGGTCGACTGTCTCCCAGGATACA
260 TTAAGACAGATTCGGCTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCA-GATACA
* * * * *
11008764 ACAACGAGATGAGCACAGTAGTAACACGACTGCAATGATCAACGAACTGTAGCTTAGCTTTCTTC
324 ACAACGAGATGAGCACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTC
* * * *
11008829 TATCACTGAAAACTGGTTCAAAATATGAAGGGAAAAGTTCTCGAAATTTTTGTAGG-AAAATCGG
389 TATCACTGAAAA-TTGTTCAAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATAGG
*
11008893 G-AAAATGCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
453 GAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
* * *
11008946 AAATTAAAATAGAATTTGAAGCGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTAGGCTAA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* * *
11009011 AATATCTGCAGGTCTAGGAAAATTTAATAGTAATGTAATATA-TAGATTTAAATCATAGGATCGA
66 AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTA-ATTTAAATCATAGGATCGA
11009075 ACCAGAACAATATAGATATATATATATAAAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGAT
130 ACCAGAACAATATAGA-ATATATATATAAAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGAT
** *
11009140 CGAAATTGTATACTCAAAGGTAAAGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTC
194 CGAAATTGTATACTCGTAGGTAAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTC
* * * * * *
11009205 TTTAAGACAGATCCGGCTACTTCTTTGGTGCTGAAGAAATGTTGGTTGACTGTCTCCCAGCATAC
259 CTTAAGACAGATTCGGCTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAG-ATAC
* * *
11009270 AACAACAAGATGAGCACAGCAGTATCATGGCTGCAGTGATCAACGAATTGTAGCCTAGCTTTCTT
323 AACAACGAGATGAGCACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTT
*
11009335 CTATCA-TAGAAAATTGGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATA
388 CTATCACT-GAAAATT-GTTCAAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATA
*
11009399 TGGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTTTCCTTTTAATTCCAA
451 GGGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTC--TTTTTCCTTTTAATTCCAA
* *
11009457 AAATTAAAACAGAATTTGAAGAGGTAAACTCTGCTGAGGAAAAATAAAATTATGTATTGAGCTAA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* *
11009522 AATATCCGCTGGTTTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGAA
66 AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGAA
* * * * *
11009587 CTAGAACAATATAGATATATATATATATAATCTGAAAAATAGAAATTAGAAAGAAAAACTGGACC
131 CCAGAACAATATAGA-ATATATATATAAAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATC
* * * * *
11009652 GAAATTGCATACTTGTACGTAGGGAAAAATCCAACTGGTAGTTGAGGCCTGTTTTCATAGTTTCC
195 GAAATTGTATACTCGTAGGTAAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTCC
* * * * * *
11009717 TTAAGACAGATTTGACCGCTCCTTTGCTGCTGGAGAAATGTTGATCGACTGTCTCACAGGATACA
260 TTAAGACAGATTCGGCTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCA-GATACA
* * * * * *
11009782 ACAACAAAATGATCACAGCAGTATCAGGGTTGCAGTGATCAACGAAATGTAGCCTAGCTTTCTTC
324 ACAACGAGATGAGCACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTC
* * * *
11009847 TGTCAC-----A--G----AAA-A--CA--G----G-T-TCG--A--TTTGAAGGAAAAATCGGG
389 TATCACTGAAAATTGTTCAAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATAGGG
11009886 AAAAATTCAGTTTTCTTTTTCCTAAAGATTATTAC-TTTTCCTTTTAATTCCAA
454 AAAAATTCAGTTTTCTTTTTCCTAAAGATTATT-CTTTTTCCTTTTAATTCCAA
* *
11009939 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTGTGTATTGGGTTAA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
* * * *
11010004 AATATCCGCAGGTCTAGGAAAAATTAATAGTAGTGTAAAAAATTGATTTAAATCATAGGACCGAA
66 AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGAA
*
11010069 CCAGAACAATATAG-ATATATATATAAAATCTAAAAAATAGAATTTGGAAAGAAAAACTGGATCG
131 CCAGAACAATATAGAATATATATATAAAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATCG
* * *
11010133 AAATTGTATACTCGTAGGT-AGGCAAAAATCCGACTGGTAGTTGAGGTCTGTTGTGATAGTTTCC
196 AAATTGTATACTCGTAGGTAAGG-AAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTCC
* * * *
11010197 TTAAGACAGATTC-GATCGCTCATTTGTTGTTGGAGAAATGTTGGTCGACTGTCTCCCAAGATAC
260 TTAAGACAGATTCGGCT-GCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCC-AGATAC
* * * * *
11010261 AACAACGAGATAAACATAGCAATATCACGGCTGCAGTGATTAACGAACTGTAGCCTAGCTTTCTT
323 AACAACGAGATGAGCACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTT
** * *
11010326 CTATCACTGAAAACTTGTTTGAAATATGAAGGGAAAAGATCTTGAAATTTTTGCTGGAAAAATAT
388 CTATCACTGAAAA-TTGTTCAAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATA-
11010391 GAAAAAATTTAGTTTTCAAAATATGAAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTT
451 G----------G------------G-AAAAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTT
11010456 CCTTTTAATTCCAA
493 CCTTTTAATTCCAA
*
11010470 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTTA-GAAAAATTAAAATTATGTATTGGGCTA
1 AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAA-TAAAATTATGTATTGGGCTA
* * * * *
11010534 AAATAGCCGCAGGCCTAGGAAATATTAATTGTAATGTAAAATATTGATTTAAATCATAGGATCGA
65 AAATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGA
* * *
11010599 ACCAGAAC-A-AT---ATATATATATAAAATTTGAAAAAA-A-AAATTAGAAATAAAAACTGGAT
130 ACCAGAACAATATAGAATATATATATAAAATCT-AAAAAATAGAAATTGGAAAGAAAAACTGGAT
11010657 CGAAATT
194 CGAAATT
11010664 AAAACAGCTG
Statistics
Matches: 1923, Mismatches: 207, Indels: 151
0.84 0.09 0.07
Matches are distributed among these distances:
479 2 0.00
480 211 0.11
481 1 0.00
482 151 0.08
484 48 0.02
485 2 0.00
486 1 0.00
488 4 0.00
489 1 0.00
490 1 0.00
492 3 0.00
493 1 0.00
494 1 0.00
495 3 0.00
496 96 0.05
497 72 0.04
498 9 0.00
499 28 0.01
500 149 0.08
501 77 0.04
502 13 0.01
503 6 0.00
504 11 0.01
505 1 0.00
506 91 0.05
507 199 0.10
508 106 0.06
509 32 0.02
511 368 0.19
512 3 0.00
518 1 0.00
526 26 0.01
527 17 0.01
528 6 0.00
529 2 0.00
530 9 0.00
531 171 0.09
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (506 bp):
AAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTATGTATTGGGCTAA
AATATCCGCAGGTCTAGGAAAAATTAATAGTAATGTAAAATATTAATTTAAATCATAGGATCGAA
CCAGAACAATATAGAATATATATATAAAATCTAAAAAATAGAAATTGGAAAGAAAAACTGGATCG
AAATTGTATACTCGTAGGTAAGGAAAAATCCGACTGGTAGTTGAGGCCTGTTTTCATAGTTTCCT
TAAGACAGATTCGGCTGCTCCTTTGGTGCTGGAGAAATGTTGGTCGACTGTCTCCCAGATACAAC
AACGAGATGAGCACAGCAGTATCACGGCTGCAGTGATCAACGAACTGTAGCCTAGCTTTCTTCTA
TCACTGAAAATTGTTCAAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAGGAAAAATAGGGAA
AAATTCAGTTTTCTTTTTCCTAAAGATTATTCTTTTTCCTTTTAATTCCAA
Found at i:11010416 original size:24 final size:24
Alignment explanation
Indices: 11010384--11010431 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
11010374 TTTTGCTGGA
*
11010384 AAAATATGAAAAAATTTAGTTTTC
1 AAAATATGAAAAAATTCAGTTTTC
11010408 AAAATATGAAAAAATTCAGTTTTC
1 AAAATATGAAAAAATTCAGTTTTC
11010432 TTTTTCCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.35
Consensus pattern (24 bp):
AAAATATGAAAAAATTCAGTTTTC
Found at i:11011222 original size:889 final size:862
Alignment explanation
Indices: 11009868--11011484 Score: 2179
Period size: 889 Copynumber: 1.8 Consensus size: 862
11009858 ACAGGTTCGA
*
11009868 TTTGAAGGAAAAATCGGGAAAAATTCAGTTTTCTTTTTCCTAAAGATTATTACTTTTCCTTTTAA
1 TTTGAAGGAAAAATCGGGAAAAATCCAGTTTTCTTTTTCCTAAAGATTATTACTTTTCCTTTTAA
* * * * *
11009933 TTCCAAAAATTAAAACAGAATTTGAAGAGATAAACTCTGCTGAGGAAAAATAAAATTGTGTATTG
66 TTCCAAAAATTAAAAAAGAATTTGAAGAAATAAACTCTGCGGAGGAAAAATAAAATTATGTAGTG
* * *
11009998 GGTTAAAATATCCGCAGGTCTAGGAAAAATTAATAGTAGTGTAAAAAATTGATTTAAATCATAGG
131 GGCTAAAATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAAAATTGATTTAAATCATAGG
* *
11010063 ACCGAACCAGAACAATATAGATATATATATAAAATCTAAAAAATAGAATTTGGAAAGAAAAACTG
196 ACCGAACCAGAACAATATAGATATATATATAAAATCTAAAAAACAGAATTTGGAAAGAAAAACTA
** * * *
11010128 GATCGAAATTGTATACTCGTAGGTAGGCAAAAATCCGACTGGTAGTTGAGGTCTGTTGTGATAGT
261 GATCGAAATTGTATACAAGTAGGTAGGCAAAAATCCGACTGGTAGTTGAGGTCTATTGTCACAGT
* * * * * ** *
11010193 TTCCTTAAGACAGATTCGATCGCTCATTTGTTGTTGGAGAAATGTTGGTCGACTGTCTCCCAAGA
326 TTCATTAAGACAAATTCGATCGCTCATTTGGTGCTGGAGAAATATTGCCCAACTGTCTCCCAAGA
* * * * *
11010258 TACAACAACGAGATAAACATAGCAATATCACGGCTGCAGTGATTAACGAACTGTAGCCTAGCTTT
391 TACAACAACGAGATAAACACAGCAATAGCACGGCTGCACTGATCAACGAACTATAGCCTAGCTTT
* * *
11010323 CTTCTATCACTGAAAACTTGTTTGAAATATGAAGGGAAAAGATCTTGAAATTTTTGCTGGAAAAA
456 CTTCTATCACTGAAAACATGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGC--------
*
11010388 TATGAAAAAATTTAGTTTTCAAAATATGAAAAAATTCAGTTTTCTTTTTCCTA-AAGATTATTCT
513 ----AAAAAA---A----TC------GGAAAAAATTCAGTTTTCTTTTTCCTACAA-ATTATTCT
* **
11010452 TTTTCCTTTTAATTCCAAAAATTAAAACAGAATTTGAAGAGATAAACTCTGCTTA-GAAAAATTA
560 TTTTCCTTTTAATTCCAAAAATTAAAACAGAATTTAAAGAGATAAACTCTGCCAAGGAAAAA-TA
*** * * * *
11010516 AAATTATGTATTGGGCTAAAATAGCCGCAG-GCCTAGGAAATATTAATTGTAAT-GTAAAATATT
624 AAATTATGTATTAACCTAAAATAGCCACAGAGCCTA-AAAAAATTAATAGTAATAG-AAAATATT
* * *
11010579 GATTTAAATCATAGGATCGAACCAGAACAATATATATATATAAAATTTGAAAAAAAAAATTAGAA
687 GATTTAAATCATAGGATAGAACCAAAACAATATAGATATATAAAATTTGAAAAAAAAAATTAGAA
11010644 ATAAAAACTGGATCGAAATTAAAACAGCTGTAGTGATCAATGAACTGTTGTCTGGCTTTCTTCTA
752 ATAAAAACTGGATCGAAATTAAAACAGCTGTAGTGATCAATGAACTGTTGTCTGGCTTTCTTCTA
11010709 TAACTGAAATAAATTTTGAAATATGTACGGAAAAGATCTCGAAATT
817 TAACTGAAATAAATTTTGAAATATGTACGGAAAAGATCTCGAAATT
* * * * *
11010755 TTTGCAGGAAAAATTGGGAAAAATCCTGTTTTCTTTTTCCTACAGGTTATT-CTTTTCCTTTTAA
1 TTTGAAGGAAAAATCGGGAAAAATCCAGTTTTCTTTTTCCTAAAGATTATTACTTTTCCTTTTAA
*
11010819 TTCCAAGAATTAAAAAAGAATTTGAAGAAATAAACTCTGCGGAGGAAAAATAAAATTATGTAGTG
66 TTCCAAAAATTAAAAAAGAATTTGAAGAAATAAACTCTGCGGAGGAAAAATAAAATTATGTAGTG
* * * *
11010884 GGCTAAAATATCCATATGTTTAGGAAAAATTAATAGTAATGTAAAATATTGATTTAAATCATAGG
131 GGCTAAAATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAAAATTGATTTAAATCATAGG
* * *
11010949 ATCGAACCAGAACAATATAGATATCTATATATAAAAATCTAAAAAACAGAAATTT-GAAATAAGA
196 ACCGAACCAGAACAATATAGATA--TATATAT-AAAATCTAAAAAACAG-AATTTGGAAAGAAAA
* *
11011013 ACTAGATCGAAATTGTATACAAGTAGGTAGGTAAAAATCCGACTGGTAGTTGAGG-CTTATTTTC
257 ACTAGATCGAAATTGTATACAAGTAGGTAGGCAAAAATCCGACTGGTAGTTGAGGTC-TATTGTC
*
11011077 ACAGTTTCATTAAGACAAATTCGAAT-GCTCCTTTGGTGCTGGAGAAATATTGCCCAACTGTCTC
321 ACAGTTTCATTAAGACAAATTCG-ATCGCTCATTTGGTGCTGGAGAAATATTGCCCAACTGTCTC
* * * ** *
11011141 TCAGGATACAACAACGAGATGAGTACAGCAATAGCACGGCTGCACTGATCAACGAGCTATAGCCT
385 CCAAGATACAACAACGAGATAAACACAGCAATAGCACGGCTGCACTGATCAACGAACTATAGCCT
*
11011206 AGCTTTCTTCTATCACTGAAAACATGTTCGAAATATGCAGGGAAAAGATCTCGAAATTTTTGCAA
450 AGCTTTCTTCTATCACTGAAAACATGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAA
* *
11011271 AAAAATCGGGAAAAATTCAGTTTTCTTTTTCCTACAAATTATTCTTTTTCCTTTTAATTTCAAAA
515 AAAAATCGGAAAAAATTCAGTTTTCTTTTTCCTACAAATTATTCTTTTTCCTTTTAATTCCAAAA
11011336 ATTAAAACAGAATTTAAAGAGATAAACTCTGCCAAGGAAAAATAAAATTATGTATTAACCTAAAA
580 ATTAAAACAGAATTTAAAGAGATAAACTCTGCCAAGGAAAAATAAAATTATGTATTAACCTAAAA
* * * * *
11011401 TATCTACAGATCTTAAAAAAATTAATAGTAATAGAAAATATTTATTTAAATCATAGGATAGAACC
645 TAGCCACAGAGCCTAAAAAAATTAATAGTAATAGAAAATATTGATTTAAATCATAGGATAGAACC
11011466 AAAACAATATAGATATATA
710 AAAACAATATAGATATATA
11011485 TATAAAATCT
Statistics
Matches: 644, Mismatches: 76, Indels: 43
0.84 0.10 0.06
Matches are distributed among these distances:
864 170 0.26
865 12 0.02
870 2 0.00
874 1 0.00
877 6 0.01
886 152 0.24
887 45 0.07
888 8 0.01
889 241 0.37
890 7 0.01
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (862 bp):
TTTGAAGGAAAAATCGGGAAAAATCCAGTTTTCTTTTTCCTAAAGATTATTACTTTTCCTTTTAA
TTCCAAAAATTAAAAAAGAATTTGAAGAAATAAACTCTGCGGAGGAAAAATAAAATTATGTAGTG
GGCTAAAATATCCACAGGTCTAGGAAAAATTAATAGTAATGTAAAAAATTGATTTAAATCATAGG
ACCGAACCAGAACAATATAGATATATATATAAAATCTAAAAAACAGAATTTGGAAAGAAAAACTA
GATCGAAATTGTATACAAGTAGGTAGGCAAAAATCCGACTGGTAGTTGAGGTCTATTGTCACAGT
TTCATTAAGACAAATTCGATCGCTCATTTGGTGCTGGAGAAATATTGCCCAACTGTCTCCCAAGA
TACAACAACGAGATAAACACAGCAATAGCACGGCTGCACTGATCAACGAACTATAGCCTAGCTTT
CTTCTATCACTGAAAACATGTTCGAAATATGAAGGGAAAAGATCTCGAAATTTTTGCAAAAAAAT
CGGAAAAAATTCAGTTTTCTTTTTCCTACAAATTATTCTTTTTCCTTTTAATTCCAAAAATTAAA
ACAGAATTTAAAGAGATAAACTCTGCCAAGGAAAAATAAAATTATGTATTAACCTAAAATAGCCA
CAGAGCCTAAAAAAATTAATAGTAATAGAAAATATTGATTTAAATCATAGGATAGAACCAAAACA
ATATAGATATATAAAATTTGAAAAAAAAAATTAGAAATAAAAACTGGATCGAAATTAAAACAGCT
GTAGTGATCAATGAACTGTTGTCTGGCTTTCTTCTATAACTGAAATAAATTTTGAAATATGTACG
GAAAAGATCTCGAAATT
Found at i:11011862 original size:27 final size:27
Alignment explanation
Indices: 11011824--11011888 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
11011814 TCTGTCAAGT
*
11011824 AGGCACCAATGAATGTGCCCCATAGAG
1 AGGCGCCAATGAATGTGCCCCATAGAG
* *
11011851 AGGCGCCAATGAATGTGCCTCATAGGG
1 AGGCGCCAATGAATGTGCCCCATAGAG
11011878 AGGCGCCAATG
1 AGGCGCCAATG
11011889 GTGGCCTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.31, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAATGTGCCCCATAGAG
Found at i:11012221 original size:19 final size:19
Alignment explanation
Indices: 11012175--11012344 Score: 132
Period size: 19 Copynumber: 8.4 Consensus size: 19
11012165 TTGGATTAGT
*
11012175 ATTTTGTATGAATATTCTA
1 ATTTTGTATGAATATTGTA
11012194 ATTTTTTGTATGAATATTGTA
1 A--TTTTGTATGAATATTGTA
11012215 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
*
11012234 ATTATTTTAT-AATTAATTTTGT-
1 ATT-TTGTATGAA-T-A--TTGTA
* * *
11012256 ATTTATAGTTTTGGAT-TAGT-
1 ATTT-T-G-TATGAATATTGTA
11012276 ATTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTA
*
11012295 ATTTTTGTATGAATATTGCA
1 A-TTTTGTATGAATATTGTA
11012315 ATTTTTTTGTATGAATATTGTA
1 A---TTTTGTATGAATATTGTA
11012337 ATTTTGTA
1 ATTTTGTA
11012345 ATTTTGTATG
Statistics
Matches: 124, Mismatches: 11, Indels: 32
0.74 0.07 0.19
Matches are distributed among these distances:
17 5 0.04
18 4 0.03
19 33 0.27
20 31 0.25
21 20 0.16
22 23 0.19
23 4 0.03
24 3 0.02
25 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.56
Consensus pattern (19 bp):
ATTTTGTATGAATATTGTA
Found at i:11012281 original size:101 final size:100
Alignment explanation
Indices: 11012157--11012339 Score: 305
Period size: 101 Copynumber: 1.8 Consensus size: 100
11012147 ATTTATAGTG
*
11012157 TTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAATTTTTTGTATGAATATTGTAA-TTTTG
1 TTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAA-TTTTTGTATGAATATTGCAATTTTTG
11012221 TATGAATATTGTAATTATTTTATAATTAATTTTGTA
65 TATGAATATTGTAATTATTTTATAATTAATTTTGTA
*
11012257 TTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAATTTTTGTATGAATATTGCAATTTTTT
1 TTTATAG-TTTGGATTAGTATTTTGTATGAATATTCTAATTTTTGTATGAATATTGCAA--TTTT
11012322 TGTATGAATATTGTAATT
63 TGTATGAATATTGTAATT
11012340 TTGTAATTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
100 26 0.34
101 30 0.39
103 21 0.27
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.56
Consensus pattern (100 bp):
TTTATAGTTTGGATTAGTATTTTGTATGAATATTCTAATTTTTGTATGAATATTGCAATTTTTGT
ATGAATATTGTAATTATTTTATAATTAATTTTGTA
Found at i:11012304 original size:27 final size:27
Alignment explanation
Indices: 11012290--11012395 Score: 123
Period size: 27 Copynumber: 4.0 Consensus size: 27
11012280 TGTATGAATA
*
11012290 TTGTAATTTTTGTATGAATATTGCAA--
1 TTGTAA-TTTTGTATGAATATTGTAATT
11012316 TT-T--TTTTGTATGAATATTGTAATT
1 TTGTAATTTTGTATGAATATTGTAATT
* *
11012340 TTGTAATTTTGTATGAATATTTTAATA
1 TTGTAATTTTGTATGAATATTGTAATT
11012367 TTGTAATTTTTTGTATGAATATTGTAATT
1 TTGTAA--TTTTGTATGAATATTGTAATT
11012396 ATTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
22 18 0.26
24 2 0.03
25 2 0.03
26 2 0.03
27 25 0.37
29 19 0.28
ACGTcount: A:0.29, C:0.01, G:0.13, T:0.57
Consensus pattern (27 bp):
TTGTAATTTTGTATGAATATTGTAATT
Found at i:11012324 original size:22 final size:22
Alignment explanation
Indices: 11012277--11012341 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
11012267 TGGATTAGTA
11012277 TTTTGTATGAATATTGTAA--T
1 TTTTGTATGAATATTGTAATTT
*
11012297 TTTTGTATGAATATTGCAATTT
1 TTTTGTATGAATATTGTAATTT
11012319 TTTTGTATGAATATTGTAATTT
1 TTTTGTATGAATATTGTAATTT
11012341 T
1 T
11012342 GTAATTTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 18 0.44
22 23 0.56
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.57
Consensus pattern (22 bp):
TTTTGTATGAATATTGTAATTT
Found at i:11012341 original size:61 final size:63
Alignment explanation
Indices: 11012276--11012395 Score: 125
Period size: 56 Copynumber: 2.0 Consensus size: 63
11012266 TTGGATTAGT
11012276 ATTTTGTATGAATATTGTAA-T-TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTAATTATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
* * * *
11012337 ATTTTG--T-AATTTTGT-ATGAATATT-T-T-AATATTGTAA-TTTTTTGTATGAATATTGTA
1 ATTTTGTATGAATATTGTAAT-TATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
11012393 ATT
1 ATT
11012396 ATTTTATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
56 23 0.44
57 10 0.19
58 8 0.15
59 2 0.04
60 3 0.06
61 6 0.12
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (63 bp):
ATTTTGTATGAATATTGTAATTATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
Found at i:11012387 original size:29 final size:29
Alignment explanation
Indices: 11012306--11012394 Score: 128
Period size: 27 Copynumber: 3.1 Consensus size: 29
11012296 TTTTTGTATG
*
11012306 AATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAA-TTTTTTGTATGAATATTGT
* *
11012336 AATTTTGTAA--TTTTGTATGAATATTTT
1 AATATTGTAATTTTTTGTATGAATATTGT
11012363 AATATTGTAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTTTGTATGAATATTGT
11012392 AAT
1 AAT
11012395 TATTTTATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 25 0.48
29 19 0.37
30 8 0.15
ACGTcount: A:0.31, C:0.01, G:0.12, T:0.55
Consensus pattern (29 bp):
AATATTGTAATTTTTTGTATGAATATTGT
Found at i:11012457 original size:60 final size:60
Alignment explanation
Indices: 11012388--11012506 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
11012378 TGTATGAATA
* * * * *
11012388 TTGTAATTATTTTATAA-TTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
11012448 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
1 TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTG
11012507 CTTAGTTTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 6 0.11
60 47 0.89
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (60 bp):
TTGTAATTATTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:11014296 original size:6 final size:6
Alignment explanation
Indices: 11014285--11014318 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
11014275 GCATCATGCA
*
11014285 CCAGAG CCAGAG CTAGAG CCAGAG CCAGAG CCAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAG
11014319 TGCTAGCGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.32, T:0.03
Consensus pattern (6 bp):
CCAGAG
Found at i:11014304 original size:12 final size:12
Alignment explanation
Indices: 11014287--11014324 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
11014277 ATCATGCACC
11014287 AGAGCCAGAGCT
1 AGAGCCAGAGCT
*
11014299 AGAGCCAGAGCC
1 AGAGCCAGAGCT
*
11014311 AGAGCCAGTGCT
1 AGAGCCAGAGCT
11014323 AG
1 AG
11014325 CGACGGAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.32, C:0.26, G:0.34, T:0.08
Consensus pattern (12 bp):
AGAGCCAGAGCT
Found at i:11016084 original size:21 final size:23
Alignment explanation
Indices: 11016060--11016113 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
11016050 CTTATCCTTC
11016060 TTCTTCTTTTCCTTTCTT-TT-T
1 TTCTTCTTTTCCTTTCTTCTTAT
*
11016081 TTCTTC--TACCTTTCTTCTTAT
1 TTCTTCTTTTCCTTTCTTCTTAT
11016102 TTCTTCTGTTTC
1 TTCTTCT-TTTC
11016114 TCTGGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
19 9 0.35
20 2 0.08
21 13 0.50
24 2 0.08
ACGTcount: A:0.04, C:0.26, G:0.02, T:0.69
Consensus pattern (23 bp):
TTCTTCTTTTCCTTTCTTCTTAT
Found at i:11016202 original size:27 final size:27
Alignment explanation
Indices: 11016130--11016204 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
11016120 AAAAATCAGT
*
11016130 CCATTGGCGCCTCTCA-ACATGGCACCA
1 CCATTGGCGCCTCTCAGATA-GGCACCA
* *
11016157 CTAATGGCGCCTCTCAGATAGGCACCA
1 CCATTGGCGCCTCTCAGATAGGCACCA
*
11016184 CCATTGGCGCCTCTGAGATAG
1 CCATTGGCGCCTCTCAGATAG
11016205 ACGCCACTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 39 0.95
28 2 0.05
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.20
Consensus pattern (27 bp):
CCATTGGCGCCTCTCAGATAGGCACCA
Found at i:11021070 original size:3 final size:3
Alignment explanation
Indices: 11021062--11021099 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
11021052 TACCGTCCAC
11021062 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CTAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
11021100 GGTCTATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11022193 original size:22 final size:23
Alignment explanation
Indices: 11022168--11022210 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11022158 CTTTCAATTT
11022168 TATAAACTT-GAAGAAAACTATA
1 TATAAACTTAGAAGAAAACTATA
*
11022190 TATAAAGTTAGAAGAAAACTA
1 TATAAACTTAGAAGAAAACTA
11022211 ACCAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.26
Consensus pattern (23 bp):
TATAAACTTAGAAGAAAACTATA
Found at i:11025654 original size:32 final size:32
Alignment explanation
Indices: 11025613--11025673 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
11025603 TTTTTTGAAA
11025613 AATAATTATAAATATTTAAAT-AAT-ATTATTTG
1 AATAATTAT-AATA-TTAAATGAATAATTATTTG
*
11025645 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
11025674 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 7 0.27
32 13 0.50
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:11025666 original size:20 final size:20
Alignment explanation
Indices: 11025632--11025673 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11025622 AAATATTTAA
** *
11025632 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
11025652 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
11025672 AT
1 AT
11025674 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:11027742 original size:15 final size:16
Alignment explanation
Indices: 11027717--11027750 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11027707 AATATGAAGC
11027717 GTTTGATAAATTTAAA
1 GTTTGATAAATTTAAA
*
11027733 GTTT-ATAAATTTGAA
1 GTTTGATAAATTTAAA
11027748 GTT
1 GTT
11027751 GAAATTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (16 bp):
GTTTGATAAATTTAAA
Found at i:11033668 original size:21 final size:21
Alignment explanation
Indices: 11033644--11033699 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
11033634 CGGAACAATT
*
11033644 AAGAAAAAGA-GAAATACAAAA
1 AAGAAAAAGATCAAATA-AAAA
*
11033665 AAG-AATAGATCAAATAAAAA
1 AAGAAAAAGATCAAATAAAAA
*
11033685 AAGAAATAGAATCAA
1 AAGAAAAAG-ATCAA
11033700 CAATTTGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 12 0.40
21 13 0.43
22 5 0.17
ACGTcount: A:0.71, C:0.05, G:0.12, T:0.11
Consensus pattern (21 bp):
AAGAAAAAGATCAAATAAAAA
Found at i:11036553 original size:34 final size:34
Alignment explanation
Indices: 11036510--11036596 Score: 129
Period size: 34 Copynumber: 2.5 Consensus size: 34
11036500 AAATGATACC
11036510 AGAAATGATGAGTGAACAGGAGAGATTCCCTGCA
1 AGAAATGATGAGTGAACAGGAGAGATTCCCTGCA
*
11036544 AGAAATGATGTGTGAACAGGAGAGATTCCCTGCA
1 AGAAATGATGAGTGAACAGGAGAGATTCCCTGCA
* * *
11036578 ACAAAATAATGCGTGAACA
1 A-GAAATGATGAGTGAACA
11036597 TGAAATATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
34 34 0.71
35 14 0.29
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.18
Consensus pattern (34 bp):
AGAAATGATGAGTGAACAGGAGAGATTCCCTGCA
Found at i:11037614 original size:20 final size:20
Alignment explanation
Indices: 11037580--11037621 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11037570 AACTATTTAA
** *
11037580 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
11037600 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
11037620 AT
1 AT
11037622 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:11039242 original size:32 final size:33
Alignment explanation
Indices: 11039173--11039245 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 33
11039163 TAGTCCATCA
*
11039173 TTAATCACTATAACCATGTGTCTAAACCCAAAG
1 TTAATCATTATAACCATGTGTCTAAACCCAAAG
*
11039206 -TAATCATTATAACCATGTGTCTAAACCC-TAG
1 TTAATCATTATAACCATGTGTCTAAACCCAAAG
11039237 TTAATCATT
1 TTAATCATT
11039246 GCAAGGTGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 2 0.05
32 35 0.95
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (33 bp):
TTAATCATTATAACCATGTGTCTAAACCCAAAG
Found at i:11053700 original size:41 final size:40
Alignment explanation
Indices: 11053659--11053751 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
11053649 ATAAAGCAGA
11053659 AAAACGCTTCCTTAAAAAAGCGCTTTGTCCACGTGGACAG
1 AAAACGCTTCCTTAAAAAAGCGCTTTGTCCACGTGGACAG
* * * **
11053699 AAAATGCTCCCTCAAGGAAGCGCTTTGTCCACGTGGACAG
1 AAAACGCTTCCTTAAAAAAGCGCTTTGTCCACGTGGACAG
11053739 AAAACGCTTCCTT
1 AAAACGCTTCCTT
11053752 GAGGGAGCGC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
AAAACGCTTCCTTAAAAAAGCGCTTTGTCCACGTGGACAG
Found at i:11053722 original size:40 final size:40
Alignment explanation
Indices: 11053676--11053777 Score: 141
Period size: 40 Copynumber: 2.5 Consensus size: 40
11053666 TTCCTTAAAA
*
11053676 AAGCGCTTTGTCCACGTGGACAGAAAATGCTCCCTCAAGG
1 AAGCGCTTTGTCCACGTGGACAGAAAACGCTCCCTCAAGG
* **
11053716 AAGCGCTTTGTCCACGTGGACAGAAAACGCTTCCTTGAGG
1 AAGCGCTTTGTCCACGTGGACAGAAAACGCTCCCTCAAGG
*
11053756 GAGCGCTTTGTGTCCACGTGGA
1 AAGCGC-TT-TGTCCACGTGGA
11053778 TAGGATTTAG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 41 0.75
41 2 0.04
42 12 0.22
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
AAGCGCTTTGTCCACGTGGACAGAAAACGCTCCCTCAAGG
Found at i:11054622 original size:96 final size:97
Alignment explanation
Indices: 11054520--11054837 Score: 482
Period size: 96 Copynumber: 3.3 Consensus size: 97
11054510 AACAACTAGT
* * *
11054520 TTTATTTGATTTTTT-CTTAAAAACCCTAAATACTAAACCCCAATCTAATTTTTTTAAAATTTAT
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
*
11054584 AATTAATTTACTCAAGTAACCCTAAGCCCTAA
66 AATTAATTTACTCAAGTAACCCTAAACCCTAA
* * *
11054616 TTTATTTGATTTTTT-CTTTAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAATTTAT
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
*
11054680 AATTAATATACTCAAGTAACCCTAAACCCTAA
66 AATTAATTTACTCAAGTAACCCTAAACCCTAA
* *
11054712 TTTATTTAATTTTTTCCTTAAAAACCATAAACACTAAACTCTAATCTAA-TTTTTTAAAATTTAT
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
* * * *
11054776 AATTAATTTAATTAAGAAACCCTAAACCCTTA
66 AATTAATTTACTCAAGTAACCCTAAACCCTAA
11054808 TTTATTTAATTTTTTCCTT-AAAACCCTAAA
1 TTTATTTAATTTTTTCCTTAAAAACCCTAAA
11054838 ATCTAAAAAT
Statistics
Matches: 204, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
95 10 0.05
96 164 0.80
97 30 0.15
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.42
Consensus pattern (97 bp):
TTTATTTAATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTAT
AATTAATTTACTCAAGTAACCCTAAACCCTAA
Found at i:11066603 original size:26 final size:26
Alignment explanation
Indices: 11066556--11066605 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
11066546 GTCATAACTA
11066556 TAATCATAAGTAATATACTAATAAAT
1 TAATCATAAGTAATATACTAATAAAT
11066582 TAATCATTAAAGTAA-ATA-TAATAA
1 TAATCA-T-AAGTAATATACTAATAA
11066606 TTATAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 12 0.55
27 4 0.18
28 6 0.27
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (26 bp):
TAATCATAAGTAATATACTAATAAAT
Found at i:11068261 original size:17 final size:17
Alignment explanation
Indices: 11068240--11068282 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
11068230 ATTGATGAAA
11068240 TTTTAAAATTTACAATTC
1 TTTTAAAATTTA-AATTC
* *
11068258 -TTTAAATTTTAATTTC
1 TTTTAAAATTTAAATTC
11068274 TTTTAAAAT
1 TTTTAAAAT
11068283 ATAGTTGTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAAAATTTAAATTC
Found at i:11070164 original size:30 final size:31
Alignment explanation
Indices: 11070106--11070164 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
11070096 TTGTCTTTAC
*
11070106 TTTTCTTTCATCTTTTTAGCTTTCTAGTTAG
1 TTTTCTTTCATCTTTTTAGCGTTCTAGTTAG
*
11070137 TTTTC-TTCATCTTTTCTAGGGTT-TAGTT
1 TTTTCTTTCATCTTTT-TAGCGTTCTAGTT
11070165 TAGAACTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.61
Consensus pattern (31 bp):
TTTTCTTTCATCTTTTTAGCGTTCTAGTTAG
Found at i:11070532 original size:16 final size:16
Alignment explanation
Indices: 11070511--11070541 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11070501 TTCACTATTA
*
11070511 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
11070527 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
11070542 ACATGTATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Done.