Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 70 of 190
Found at i:20325024 original size:41 final size:41
Alignment explanation
Indices: 20324832--20325062 Score: 204
Period size: 41 Copynumber: 5.7 Consensus size: 41
20324822 ACTTTTTTAG
*
20324832 ATTTTCATAGTACATAACTTACATAATATTGAACTTACTTA
1 ATTTTCATAGTACATAACTTACATAATATTGAACTTACATA
* * * * * *
20324873 ACTTT-A-A-TA-ATAATTTTCACAGTACAT-AACTTACATA
1 ATTTTCATAGTACATAACTTACATAATA-TTGAACTTACATA
* * ***
20324910 ATTTTCATAACCTACATAACTTA-TTCAATACACAACTTACATA
1 ATTTTCAT-A-GTACATAACTTACAT-AATATTGAACTTACATA
* * * *
20324953 ATTGTTTATAATACACAGCTTACATAATATTGAACTTACATA
1 ATT-TTCATAGTACATAACTTACATAATATTGAACTTACATA
20324995 ATTTTCATAGTACATAACTTACATAATATTGAACTTACATA
1 ATTTTCATAGTACATAACTTACATAATATTGAACTTACATA
* * *
20325036 ATTTTTACAGTATATAACTTACATAAT
1 ATTTTCATAGTACATAACTTACATAAT
20325063 TTTCATAACC
Statistics
Matches: 149, Mismatches: 30, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
37 24 0.16
38 4 0.03
39 1 0.01
40 2 0.01
41 62 0.42
42 28 0.19
43 24 0.16
44 4 0.03
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (41 bp):
ATTTTCATAGTACATAACTTACATAATATTGAACTTACATA
Found at i:20325059 original size:151 final size:151
Alignment explanation
Indices: 20324882--20325193 Score: 597
Period size: 151 Copynumber: 2.1 Consensus size: 151
20324872 AACTTTAATA
20324882 ATAATTTTCACAGTACATAACTTACATAATTTTCATAACCTACATAACTTATTCAATACACAACT
1 ATAATTTTCACAGTACATAACTTACATAATTTTCATAACCTACATAACTTATTCAATACACAACT
*
20324947 TACATAATTGTTTATAATACACAGCTTACATAATATTGAACTTACATAATTTTCATAGTACATAA
66 CACATAATTGTTTATAATACACAGCTTACATAATATTGAACTTACATAATTTTCATAGTACATAA
20325012 CTTACATAATATTGAACTTAC
131 CTTACATAATATTGAACTTAC
* *
20325033 ATAATTTTTACAGTATATAACTTACATAATTTTCATAACCTACATAACTTATTCAATACACAACT
1 ATAATTTTCACAGTACATAACTTACATAATTTTCATAACCTACATAACTTATTCAATACACAACT
20325098 CACATAATTGTTTATAATACACAGCTTACATAATATTGAACTTACATAATTTTCATAGTACATAA
66 CACATAATTGTTTATAATACACAGCTTACATAATATTGAACTTACATAATTTTCATAGTACATAA
20325163 CTTACATAATATTGAACTTAC
131 CTTACATAATATTGAACTTAC
20325184 ATAATTTTCA
1 ATAATTTTCA
20325194 TAACCTACAT
Statistics
Matches: 157, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
151 157 1.00
ACGTcount: A:0.41, C:0.17, G:0.04, T:0.38
Consensus pattern (151 bp):
ATAATTTTCACAGTACATAACTTACATAATTTTCATAACCTACATAACTTATTCAATACACAACT
CACATAATTGTTTATAATACACAGCTTACATAATATTGAACTTACATAATTTTCATAGTACATAA
CTTACATAATATTGAACTTAC
Found at i:20325140 original size:126 final size:126
Alignment explanation
Indices: 20325051--20325457 Score: 427
Period size: 126 Copynumber: 3.3 Consensus size: 126
20325041 TACAGTATAT
* * *
20325051 AACTTACATAATTTTCATAACCTACATAACTTATTCAATACACAACTCACATAATTGTTTATAAT
1 AACTTACATAATTTTCATAACCTACATAACTTATACAATACACAACTCACATAAAT-TTCATAAT
*
20325116 ACACAGCTTACATAATATT-GAACTTACATAATTTTCATAGTACATAACTTACATAATATTG
65 ACACAGCTTACATAATATTAGAACTTACATAATATTCATAGTACATAACTTACATAATATTG
* * *
20325177 AACTTACATAATTTTCATAACCTACATAACTTATACAATACACAGCTTACTTAAATTTCATAATA
1 AACTTACATAATTTTCATAACCTACATAACTTATACAATACACAACTCACATAAATTTCATAATA
* * * *
20325242 CATAGCTTACATAATATTAGAACTTACATAATTTTCGTAATACATAACTTACATAATATTG
66 CACAGCTTACATAATATTAGAACTTACATAATATTCATAGTACATAACTTACATAATATTG
* * * *** * * *
20325303 AACTTACATAATATT--GAACTTACATAAC-T-TACAATATTGAACTTAAATAATTTTCATAACC
1 AACTTACATAATTTTCATAACCTACATAACTTATACAATACACAACTCACATAAATTTCATAA--
* * * * * * * * * *
20325364 TACATAACTTATACAATA-CACAGCTTACTTAA-ATTTCATAATACATAGCTTACATAATATTGG
64 TACACAGCTTACATAATATTAGAACTTACATAATA-TTCATAGTACATAACTTACATAATATT-G
*
20325427 AACTTACATAATTTTCGTAA--TACATAACTTA
1 AACTTACATAATTTTCATAACCTACATAACTTA
20325458 CATAATATTG
Statistics
Matches: 241, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
122 23 0.10
123 36 0.15
124 49 0.20
125 26 0.11
126 107 0.44
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.36
Consensus pattern (126 bp):
AACTTACATAATTTTCATAACCTACATAACTTATACAATACACAACTCACATAAATTTCATAATA
CACAGCTTACATAATATTAGAACTTACATAATATTCATAGTACATAACTTACATAATATTG
Found at i:20325242 original size:151 final size:151
Alignment explanation
Indices: 20324936--20325731 Score: 643
Period size: 151 Copynumber: 5.1 Consensus size: 151
20324926 TAACTTATTC
* * * *
20324936 AATACACAACTTACATAATTGTTTATAATACACAGCTTACATAATATTGAACTTACATAATTTTC
1 AATACATAGCTTACATAATTGTTTATAATACACAACTTACATAATATTGAACTTACATAATATTC
* * * *
20325001 ATA-GTACATAACTTACATAATATTGAACTTACATAATTTT--T-ACAGTATATAACTTACATAA
66 A-ACGTACATAACTTACATAATATTGAACTTACATAATTTTCATAAC-CTACATAACTTATACAA
* * * * *
20325062 TTTTCATAACCTACAT-AACTT-ATT
129 --TACACAACTTACTTAAATTTCA-T
* * * * *
20325086 CAATACACAACTCACATAATTGTTTATAATACACAGCTTACATAATATTGAACTTACATAATTTT
1 -AATACATAGCTTACATAATTGTTTATAATACACAACTTACATAATATTGAACTTACATAATATT
20325151 CATA-GTACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTACATAACTTATACAA
65 CA-ACGTACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTACATAACTTATACAA
*
20325215 TACACAGCTTACTTAAATTTCAT
129 TACACAACTTACTTAAATTTCAT
*
20325238 AATACATAGCTTACATAATATTAGAACTTACATAATTTTCGTAATACATAACTTACATAATATTG
1 AATACATAGCTTACAT-A-ATT-G---TT---T-A------TAATACACAACTTACATAATATTG
* * *
20325303 AACTTACATAATATTGAACTTACATAACTTAC--AATATTGAACTTAAATAATTTTCATAACCTA
50 AACTTACATAATATTCAACGTACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTA
*
20325366 CATAACTTATACAATACACAGCTTACTTAAATTTCAT
115 CATAACTTATACAATACACAACTTACTTAAATTTCAT
** * * * * * *
20325403 AATACATAGCTTACATAATAT-TGGA-ACTTACATAATTTTCGTAATACAT-AACTTACATAATA
1 AATACATAGCTTACATAAT-TGTTTATA-ATACACAACTTACATAATA-TTGAACTTACATAATA
* * *
20325465 TTGAACTTACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTATATAACTTATACA
63 TTCAACGTACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTACATAACTTATACA
20325530 ATACACAACTTACTTAAATTTCAT
128 ATACACAACTTACTTAAATTTCAT
* * * * * *
20325554 AATACATAGCTTACATAATT-TTTGA-ACTTACATAATTTTCGTAATACAT-AACTTACATAATA
1 AATACATAGCTTACATAATTGTTT-ATA-ATACACAACTTACATAATA-TTGAACTTACATAATA
* * * * * * ** *
20325616 TTGAACTTATATAATTTTCATAATACAT-AACTTATTTAATTTTCATAATATAAAACTTACATAA
63 TTCAACGTACATAACTTACATAATA-TTGAACTTACATAATTTTC-----AT--AACCTACATAA
* * * *
20325680 CTTATACAGTACACAGCTTACATAATTTTCAT
120 CTTATACAATACACAACTTACTTAAATTTCAT
* *
20325712 AATACATAACTAACATAATT
1 AATACATAGCTTACATAATT
20325732 CTTCATAGTA
Statistics
Matches: 563, Mismatches: 46, Indels: 65
0.84 0.07 0.10
Matches are distributed among these distances:
148 1 0.00
149 47 0.08
150 3 0.01
151 284 0.50
152 7 0.01
153 18 0.03
154 3 0.01
155 1 0.00
156 2 0.00
157 2 0.00
158 55 0.10
159 1 0.00
160 1 0.00
161 1 0.00
163 2 0.00
164 2 0.00
165 83 0.15
166 1 0.00
167 49 0.09
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.37
Consensus pattern (151 bp):
AATACATAGCTTACATAATTGTTTATAATACACAACTTACATAATATTGAACTTACATAATATTC
AACGTACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTACATAACTTATACAATA
CACAACTTACTTAAATTTCAT
Found at i:20325298 original size:16 final size:16
Alignment explanation
Indices: 20325287--20325329 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
20325277 CGTAATACAT
20325287 AACTTACATAATATTG
1 AACTTACATAATATTG
20325303 AACTTACATAATATTG
1 AACTTACATAATATTG
20325319 AACTTACATAA
1 AACTTACATAA
20325330 CTTACAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.35
Consensus pattern (16 bp):
AACTTACATAATATTG
Found at i:20325342 original size:23 final size:24
Alignment explanation
Indices: 20325303--20325352 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
20325293 CATAATATTG
*
20325303 AACTTACATAATATTGAACTTACAT
1 AACTTACA-AATATTGAACTTAAAT
20325328 AACTTAC-AATATTGAACTTAAAT
1 AACTTACAAATATTGAACTTAAAT
20325351 AA
1 AA
20325353 TTTTCATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.71
25 7 0.29
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (24 bp):
AACTTACAAATATTGAACTTAAAT
Found at i:20325461 original size:25 final size:24
Alignment explanation
Indices: 20325427--20325512 Score: 102
Period size: 25 Copynumber: 3.5 Consensus size: 24
20325417 ATAATATTGG
*
20325427 AACTTACATAATTTTCGTAA-TACAT
1 AACTTACATAATATT-G-AACTACAT
20325452 AACTTACATAATATTGAACTTACAT
1 AACTTACATAATATTGAAC-TACAT
20325477 AACTTACATAATATTGAACTTACAT
1 AACTTACATAATATTGAAC-TACAT
* *
20325502 AATTTTCATAA
1 AACTTACATAA
20325513 CCTATATAAC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
23 2 0.04
24 1 0.02
25 53 0.95
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.38
Consensus pattern (24 bp):
AACTTACATAATATTGAACTACAT
Found at i:20325485 original size:316 final size:309
Alignment explanation
Indices: 20325156--20325730 Score: 900
Period size: 316 Copynumber: 1.8 Consensus size: 309
20325146 ATTTTCATAG
20325156 TACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTACATAACTTATACAATACACA
1 TACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTACATAACTTATACAATACACA
*
20325221 GCTTACTTAAATTTCATAATACATAGCTTACATAATATTAGAACTTACATAATTTTCGTAATACA
66 ACTTACTTAAATTTCATAATACATAGCTTACATAATATTAGAACTTACATAATTTTCGTAATACA
* *
20325286 TAACTTACATAATATTGAACTTACATAATATTGA-ACTTACATAACTTACAATATTGAACTTAAA
131 TAACTTACATAATATTGAACTTACATAATATTCATA-ATACATAACTT---AT-TT-AACTTAAA
* * * * *
20325350 TAATTTTCATAACCTACATAACTTATACAATACACAGCTTACTTAAATTTCATAATACATAGCTT
190 TAA-TAT-AAAACCTACATAACTTATACAATACACAGCTTACATAAATTTCATAATACATAACTA
20325415 ACATAATATTGGAACTTACATAATTTTCGTAATACATAACTTACATAATATTGAACT
253 ACATAATATTGGAACTTACATAATTTTCGTAATACATAACTTACATAATATTGAACT
*
20325472 TACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTATATAACTTATACAATACACA
1 TACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTACATAACTTATACAATACACA
* *
20325537 ACTTACTTAAATTTCATAATACATAGCTTACATAATTTTTGAACTTACATAATTTTCGTAATACA
66 ACTTACTTAAATTTCATAATACATAGCTTACATAATATTAGAACTTACATAATTTTCGTAATACA
* * * **
20325602 TAACTTACATAATATTGAACTTATATAATTTTCATAATACATAACTTATTTAATTTTCATAATAT
131 TAACTTACATAATATTGAACTTACATAATATTCATAATACATAACTTATTTAACTTAAATAATAT
* * *
20325667 AAAACTTACATAACTTATACAGTACACAGCTTACATAATTTTCATAATACATAACTAACATAAT
196 AAAACCTACATAACTTATACAATACACAGCTTACATAAATTTCATAATACATAACTAACATAAT
20325731 TCTTCATAGT
Statistics
Matches: 239, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
309 57 0.24
310 2 0.01
311 8 0.03
312 2 0.01
313 2 0.01
316 167 0.70
317 1 0.00
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (309 bp):
TACATAACTTACATAATATTGAACTTACATAATTTTCATAACCTACATAACTTATACAATACACA
ACTTACTTAAATTTCATAATACATAGCTTACATAATATTAGAACTTACATAATTTTCGTAATACA
TAACTTACATAATATTGAACTTACATAATATTCATAATACATAACTTATTTAACTTAAATAATAT
AAAACCTACATAACTTATACAATACACAGCTTACATAAATTTCATAATACATAACTAACATAATA
TTGGAACTTACATAATTTTCGTAATACATAACTTACATAATATTGAACT
Found at i:20325496 original size:16 final size:16
Alignment explanation
Indices: 20325452--20325504 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
20325442 CGTAATACAT
20325452 AACTTACATAATATTG
1 AACTTACATAATATTG
20325468 AACTTAC-----A-T-
1 AACTTACATAATATTG
20325477 AACTTACATAATATTG
1 AACTTACATAATATTG
20325493 AACTTACATAAT
1 AACTTACATAAT
20325505 TTTCATAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 14
0.68 0.00 0.32
Matches are distributed among these distances:
9 7 0.23
10 1 0.03
11 1 0.03
14 1 0.03
15 1 0.03
16 19 0.63
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (16 bp):
AACTTACATAATATTG
Found at i:20325629 original size:25 final size:24
Alignment explanation
Indices: 20325601--20325683 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
20325591 TTCGTAATAC
20325601 ATAACTTACATAATATTGAACTTAT
1 ATAACTTACATAATATT-AACTTAT
* * *
20325626 ATAATTTTCATAATACATAACTTAT
1 ATAACTTACATAATA-TTAACTTAT
* * * * *
20325651 TTAATTTTCATAATATAAAACTTAC
1 ATAACTTACATAATAT-TAACTTAT
20325676 ATAACTTA
1 ATAACTTA
20325684 TACAGTACAC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
25 45 0.98
26 1 0.02
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (24 bp):
ATAACTTACATAATATTAACTTAT
Found at i:20325717 original size:25 final size:25
Alignment explanation
Indices: 20325619--20325757 Score: 113
Period size: 25 Copynumber: 5.5 Consensus size: 25
20325609 CATAATATTG
* *
20325619 AACTTATATAATTTTCATAATACAT
1 AACTTACATAATTTTCATAATACAC
** * *
20325644 AACTTATTTAATTTTCATAATATAA
1 AACTTACATAATTTTCATAATACAC
*
20325669 AACTTACATAA-CTT-ATACAGTACAC
1 AACTTACATAATTTTCATA-A-TACAC
* *
20325694 AGCTTACATAATTTTCATAATACAT
1 AACTTACATAATTTTCATAATACAC
* *
20325719 AACTAACATAATTCTTCATAGTACAGC
1 AACTTACATAATT-TTCATAATACA-C
*
20325746 -AGTTACATAATT
1 AACTTACATAATT
20325758 CTTAAAGAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
23 3 0.03
24 3 0.03
25 59 0.65
26 23 0.25
27 3 0.03
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.38
Consensus pattern (25 bp):
AACTTACATAATTTTCATAATACAC
Found at i:20325753 original size:26 final size:25
Alignment explanation
Indices: 20325687--20325760 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
20325677 TAACTTATAC
20325687 AGTACACAGCTTACATAATT-TTCAT
1 AGTACACAG-TTACATAATTCTTCAT
* * * *
20325712 AATACATAACTAACATAATTCTTCAT
1 AGTACA-CAGTTACATAATTCTTCAT
20325738 AGTACAGCAGTTACATAATTCTT
1 AGTACA-CAGTTACATAATTCTT
20325761 AAAGAATTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 14 0.37
26 24 0.63
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (25 bp):
AGTACACAGTTACATAATTCTTCAT
Found at i:20331214 original size:21 final size:21
Alignment explanation
Indices: 20331185--20331244 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
20331175 AGTAGAGGCG
*
20331185 GCAGCGAGGGAAGCAGCGACT
1 GCAGCGAGGGAAGCAGAGACT
* * *
20331206 GCAGTGAGGGAAGCGGAGGCT
1 GCAGCGAGGGAAGCAGAGACT
*
20331227 GCAGCGAGAGAAGCAGAG
1 GCAGCGAGGGAAGCAGAG
20331245 CAGAGCAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.18, G:0.47, T:0.05
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGACT
Found at i:20331596 original size:42 final size:42
Alignment explanation
Indices: 20331552--20331899 Score: 486
Period size: 42 Copynumber: 8.3 Consensus size: 42
20331542 CCCTAAAAAA
* * *
20331552 CATGTTCTTTAGCGGCACTTA-AGAAAAAACGCTGCTAAAGAA
1 CATGTTCTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGAC
* * * ** *
20331594 CATGTTCTTCAGAGGCGCTTAG-AAAAAATGCCATTAAAAAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
* *
20331635 CATGTTCTTTAGTGGCGCTTAGACAAAAACGCCGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
*
20331677 CATGTTCTTTAGAGGCGCTTAGAAAAAAACGCCGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
*
20331719 CATGTTCTTTAGCGGCGCCTAGAAAAAAACGCCGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
*
20331761 CATGTTCTTTAGCGGCGCCTAGAAAAAAACGCCGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
* * *
20331803 CATGTTCTTTAGCGGTGCTTA-AGAAAAGACGCCGCTAAAGAA
1 CATGTTCTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGAC
* *
20331845 CATGTTCTTTAGAGACGCTTAGAAAAAAACGCCGCTAAAGAC
1 CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
20331887 CATGTTCTTTAGC
1 CATGTTCTTTAGC
20331900 AACGTTTTTT
Statistics
Matches: 272, Mismatches: 30, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
41 34 0.12
42 237 0.87
43 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (42 bp):
CATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAC
Found at i:20331925 original size:42 final size:42
Alignment explanation
Indices: 20331832--20331983 Score: 166
Period size: 42 Copynumber: 3.6 Consensus size: 42
20331822 TAAGAAAAGA
** ** *
20331832 CGCCGCTAAAGAACATGTTCTTTAG-AGACG-CTTAGAAAAAAA
1 CGCCGCTAAAGAACATGTTCTTTAGCA-ACGTCTT-TTACTAAG
* *
20331874 CGCCGCTAAAGACCATGTTCTTTAGCAACGT-TTTTTCTTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCAACGTCTTTTAC-TAAG
* *
20331916 CGCCTCTAAAGAACATGTTCTTTAGCAGCGTCTTTTACTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCAACGTCTTTTACTAAG
*
20331958 CGCCGCTAAAGAACATGGTCTTTAGC
1 CGCCGCTAAAGAACATGTTCTTTAGC
20331984 GGCGTTTTCA
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 87 0.94
43 6 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGTTCTTTAGCAACGTCTTTTACTAAG
Found at i:20336146 original size:51 final size:50
Alignment explanation
Indices: 20336026--20336211 Score: 207
Period size: 51 Copynumber: 3.7 Consensus size: 50
20336016 TATCATTCGA
* * *
20336026 TACACGTAGTAGCCTTCACATAGTACT--ACACGTGATCAAACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGG
* * *
20336074 TTCACGTAGTAGGCTGTACATAGTACTACACACGTGACCAAAGCCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CCTTCCGG
* * * * * *
20336125 TACACATAGTAGCCTGCACATAGTACTACACATGTAACCATTATCTAT-CGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-AACCT-TCCGG
*
20336176 TACACGTAGTAGCCTGCACTTAGTACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
20336212 TTTATAGGCA
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
48 23 0.20
50 12 0.11
51 77 0.68
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACCTTCCGG
Found at i:20336157 original size:26 final size:26
Alignment explanation
Indices: 20336125--20336207 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
20336115 AGCCTTCCGG
20336125 TACACATAGTAGCCTGCACATAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
* * *
20336151 TACACAT-GTAACCAT-TATCTATCG-A-
1 TACACATAGTAGCC-TGCA-C-ATAGTAC
* *
20336176 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
20336202 TACACA
1 TACACA
20336208 CGTGTTTATA
Statistics
Matches: 41, Mismatches: 9, Indels: 14
0.64 0.14 0.22
Matches are distributed among these distances:
24 2 0.05
25 15 0.37
26 21 0.51
27 3 0.07
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.27
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACATAGTAC
Found at i:20339198 original size:12 final size:12
Alignment explanation
Indices: 20339183--20339213 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
20339173 AATTCAAATT
*
20339183 TTATTGTTAGGA
1 TTATTATTAGGA
20339195 TTATTATTAGGA
1 TTATTATTAGGA
20339207 TTATTAT
1 TTATTAT
20339214 GATATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (12 bp):
TTATTATTAGGA
Found at i:20340615 original size:11 final size:13
Alignment explanation
Indices: 20340599--20340630 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
20340589 AATTTCACAG
20340599 AAAAATTTCG-T-
1 AAAAATTTCGTTC
20340610 AAAAATTTCGTTC
1 AAAAATTTCGTTC
20340623 AAAAATTT
1 AAAAATTT
20340631 TGACGTTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.53
12 1 0.05
13 8 0.42
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:20342060 original size:102 final size:101
Alignment explanation
Indices: 20341698--20342101 Score: 646
Period size: 102 Copynumber: 4.0 Consensus size: 101
20341688 AATATAAAGG
*
20341698 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATTTTA
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTA
****
20341763 AATGTGAAGGGGGTTGCTAAGTGCTGATTCATTAAA
66 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
*
20341799 GGGTTGCTAAGTGTTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTA
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTA
* *
20341864 AATGTGAAGGGGGTTGCTAAGTGTTGACTCCCCCCAA
66 AATGTGAAGGGGGTTGCTAAGTGCTGA-TTCCCCCAA
* *
20341901 GGGGTTGCTAAGTGCTGATTCCCGGAATCATTGGTGGTTGCTAAGTGATGATTCCACCGTATTTT
1 -GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
20341966 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
65 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
* * * *
20342003 GGGTTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGTTGATCCCACCGTATCTT
1 GGG-TTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
*
20342068 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
65 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCC
20342102 GAATCACTGG
Statistics
Matches: 281, Mismatches: 19, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
101 92 0.33
102 101 0.36
103 88 0.31
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (101 bp):
GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTA
AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
Found at i:20348449 original size:5 final size:5
Alignment explanation
Indices: 20348420--20348461 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
20348410 ACATAAAAAA
20348420 TTTA- TTTATT TTTAT TATT-T TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTA-T TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TT
20348462 CCATGTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 6 0.18
5 22 0.65
6 6 0.18
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:20351990 original size:40 final size:40
Alignment explanation
Indices: 20351946--20352184 Score: 180
Period size: 40 Copynumber: 6.0 Consensus size: 40
20351936 TAAATGTGTT
20351946 CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
1 CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
* * *
20351986 CAGGGGTACCGAAGTACAAAGAGGGGCATGTAGGTGCAAA
1 CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
* * * * **
20352026 CAGGGTTACC-AAGTACAATTAAGGGCATGTACATGCAAA
1 CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
** * ** *
20352065 CAGGGGTATTGAAGTA-GAATCAGGCACACGTATGTACAAA
1 CAGGGGTACCGAAGTACAAAT-AGGGGCACGTATGTGCAAA
* * ** * * *
20352105 CAGGGGCA-CGTATGTACAAATAGGGATATCG-AAGTACAAT
1 CAGGGGTACCG-AAGTACAAATAGGGGCA-CGTATGTGCAAA
* ** * *
20352145 CAGGGGTACCAAAGTACAACCAAGGGCATGTATGTGCAAA
1 CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
20352185 TAGATGTATT
Statistics
Matches: 151, Mismatches: 41, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
39 35 0.23
40 110 0.73
41 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (40 bp):
CAGGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAAA
Found at i:20352005 original size:20 final size:20
Alignment explanation
Indices: 20351946--20352011 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
20351936 TAAATGTGTT
20351946 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
20351966 TAGGGGCA-CGTATGTGCAAA
1 CAGGGGTACCG-AAGTACAAA
20351986 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
*
20352006 GAGGGG
1 CAGGGG
20352012 CATGTAGGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.35, C:0.17, G:0.36, T:0.12
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:20352114 original size:20 final size:20
Alignment explanation
Indices: 20352091--20352129 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
20352081 GAATCAGGCA
20352091 CACGTATGTACAAACAGGGG
1 CACGTATGTACAAACAGGGG
*
20352111 CACGTATGTACAAATAGGG
1 CACGTATGTACAAACAGGG
20352130 ATATCGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (20 bp):
CACGTATGTACAAACAGGGG
Found at i:20352193 original size:16 final size:17
Alignment explanation
Indices: 20352172--20352213 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
20352162 AACCAAGGGC
20352172 ATGTAT-GTGCAAATAG
1 ATGTATAGTGCAAATAG
20352188 ATGTATTGAAGTGCAAATAG
1 ATGTA-T--AGTGCAAATAG
20352208 ATGTAT
1 ATGTAT
20352214 TGAAGTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
19 1 0.05
20 15 0.68
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (17 bp):
ATGTATAGTGCAAATAG
Found at i:20352199 original size:60 final size:58
Alignment explanation
Indices: 20352026--20352199 Score: 141
Period size: 60 Copynumber: 2.9 Consensus size: 58
20352016 TAGGTGCAAA
* ** ** * *
20352026 CAGGGTTACCAAGTACAATTAAGGGCATGTACATGCAAACAGGGGTATTGAAGTAGAAT
1 CAGGGATACCAAGTACAAACAAGGGCATGTATGTGCAAATA-GGGTATTGAAGTACAAT
* * * * * * * *
20352085 CAGGCACACGTATGTACAAACAGGGGCACGTATGTACAAATAGGGATATCGAAGTACAAT
1 CAGGGATAC-CAAGTACAAACAAGGGCATGTATGTGCAAATAGGG-TATTGAAGTACAAT
* * *
20352145 CAGGGGTACCAAAGTACAACCAAGGGCATGTATGTGCAAATAGATGTATTGAAGT
1 CAGGGATACC-AAGTACAAACAAGGGCATGTATGTGCAAATAG-GGTATTGAAGT
20352200 GCAAATAGAT
Statistics
Matches: 85, Mismatches: 26, Indels: 7
0.72 0.22 0.06
Matches are distributed among these distances:
59 9 0.11
60 75 0.88
61 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (58 bp):
CAGGGATACCAAGTACAAACAAGGGCATGTATGTGCAAATAGGGTATTGAAGTACAAT
Found at i:20352203 original size:20 final size:20
Alignment explanation
Indices: 20352178--20352224 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
20352168 GGGCATGTAT
20352178 GTGCAAATAGATGTATTGAA
1 GTGCAAATAGATGTATTGAA
20352198 GTGCAAATAGATGTATTGAA
1 GTGCAAATAGATGTATTGAA
*
20352218 GTACAAA
1 GTGCAAA
20352225 CAGGGGCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.28
Consensus pattern (20 bp):
GTGCAAATAGATGTATTGAA
Found at i:20356007 original size:16 final size:17
Alignment explanation
Indices: 20355986--20356018 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
20355976 CACATTAAAG
20355986 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
20356002 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
20356019 CTTCTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:20357140 original size:54 final size:53
Alignment explanation
Indices: 20357065--20357343 Score: 233
Period size: 54 Copynumber: 5.2 Consensus size: 53
20357055 CGGTAAAACA
* * * *
20357065 ATCATTTTATCCTATAG-GGGTATTTTGTTCATTTTACCCTTCGGGGGTATTTTG
1 ATCATTTTACCCT-TCGAGGGTATTTAG-TCATTTTACCCTTCGGGGGTAATTTG
*
20357119 ATAATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGGGGGTAATTTG
1 ATCATTTTACCCTTCGAGGGTATTT-AGTCATTTTACCCTTCGGGGGTAATTTG
* * * * * * * *
20357173 GTTATTTTACCCTTAGATGGTAATTCAGTCATTTTACCCGTCGAGGGTAATTCG
1 ATCATTTTACCCTTCGAGGGT-ATTTAGTCATTTTACCCTTCGGGGGTAATTTG
* * * ** *
20357227 ATCATTTTAACC-TCTGAGGGTATTTCGGTAATTTTACCCTTCAAGGGT-ATTTC
1 ATCATTTTACCCTTC-GAGGGTATTT-AGTCATTTTACCCTTCGGGGGTAATTTG
* * * **
20357280 AGTCATTTTACCCTTC-AGGGGTAATTTGGTCATTTTACCCTTTGGGGATAATTCA
1 A-TCATTTTACCCTTCGA-GGGT-ATTTAGTCATTTTACCCTTCGGGGGTAATTTG
20357335 ATCATTTTA
1 ATCATTTTA
20357344 ACAACATTTC
Statistics
Matches: 182, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
53 11 0.06
54 157 0.86
55 14 0.08
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (53 bp):
ATCATTTTACCCTTCGAGGGTATTTAGTCATTTTACCCTTCGGGGGTAATTTG
Found at i:20357185 original size:81 final size:79
Alignment explanation
Indices: 20357081--20357326 Score: 255
Period size: 81 Copynumber: 3.0 Consensus size: 79
20357071 TTATCCTATA
* * * *
20357081 GGGGTATTTTGTTCATTTTACCCTTCGGGGGTATTT-TGATAATTTTACCCTTCGAGGGTATTTC
1 GGGGTATTTGGTT-ATTTTACCCTTCGAGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTC
20357145 AGTCATTTTACCCTTCG
64 -GTCATTTTACCCTTCG
* * * * *
20357162 GGGGTAATTTGGTTATTTTACCCTTAGATGGTAATTCAGTCATTTTACCCGTCGAGGGTAATTCG
1 GGGGT-ATTTGGTTATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
*
20357227 ATCATTTTAACC-TCTG
65 -TCATTTTACCCTTC-G
* * *
20357243 AGGGTATTTCGGTAATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCCTTC-AGGGGTAATTT
1 GGGGTATTT-GGTTATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGA-GGGT-ATTT
* *
20357307 GGTCATTTTACCCTTTG
63 CGTCATTTTACCCTTCG
20357324 GGG
1 GGG
20357327 ATAATTCAAT
Statistics
Matches: 135, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
80 8 0.06
81 114 0.84
82 13 0.10
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (79 bp):
GGGGTATTTGGTTATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCGT
CATTTTACCCTTCG
Found at i:20357339 original size:27 final size:26
Alignment explanation
Indices: 20357066--20357343 Score: 198
Period size: 27 Copynumber: 10.3 Consensus size: 26
20357056 GGTAAAACAA
* * * * *
20357066 TCATTTTATCCTATAGGGGTATTTTGT
1 TCATTTTACCCT-TCGGGGTAATTCGG
* * *
20357093 TCATTTTACCCTTCGGGGGTATTTTGA
1 TCATTTTACCCTTC-GGGGTAATTCGG
* * *
20357120 TAATTTTACCCTTCGAGGGTATTTCAG
1 TCATTTTACCCTTCG-GGGTAATTCGG
*
20357147 TCATTTTACCCTTCGGGGGTAATTTGG
1 TCATTTTACCCTTC-GGGGTAATTCGG
* * * *
20357174 TTATTTTACCCTTAGATGGTAATTCAG
1 TCATTTTACCCTTCG-GGGTAATTCGG
* *
20357201 TCATTTTACCCGTCGAGGGTAATTCGA
1 TCATTTTACCCTTCG-GGGTAATTCGG
* *
20357228 TCATTTTAACC-TCTGAGGGTATTTCGG
1 TCATTTTACCCTTC-G-GGGTAATTCGG
* * * *
20357255 TAATTTTACCCTTCAAGGGTATTTCAG
1 TCATTTTACCCTTC-GGGGTAATTCGG
*
20357282 TCATTTTACCCTTCAGGGGTAATTTGG
1 TCATTTTACCCTTC-GGGGTAATTCGG
* **
20357309 TCATTTTACCCTTTGGGGATAATTCAA
1 TCATTTTACCCTTCGGGG-TAATTCGG
20357336 TCATTTTA
1 TCATTTTA
20357344 ACAACATTTC
Statistics
Matches: 205, Mismatches: 39, Indels: 14
0.79 0.15 0.05
Matches are distributed among these distances:
26 9 0.04
27 193 0.94
28 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (26 bp):
TCATTTTACCCTTCGGGGTAATTCGG
Found at i:20357342 original size:81 final size:80
Alignment explanation
Indices: 20357066--20357343 Score: 240
Period size: 81 Copynumber: 3.4 Consensus size: 80
20357056 GGTAAAACAA
* * * * * ** * *
20357066 TCATTTTATCCTATAGGGGTATTTTGTTCATTTTACCCTTCGGGGGTATTT-TGATAATTTTACC
1 TCATTTTACCCT-TTGGGGTAATTCGGTCATTTTACCCTTCAAGGGTATTTCAG-TCATTTTACC
*
20357130 CTTCGAGGGT-ATTTCAG
64 CTTCGAGGGTAATTT-GG
* * * * *
20357147 TCATTTTACCCTTCGGGGGTAATTTGGTTATTTTACCCTT-AGATGGTAATTCAGTCATTTTACC
1 TCATTTTACCCTT-TGGGGTAATTCGGTCATTTTACCCTTCA-AGGGTATTTCAGTCATTTTACC
* * *
20357211 CGTCGAGGGTAATTCGA
64 CTTCGAGGGTAATTTGG
* * * *
20357228 TCATTTTAACCTCTGAGGGTATTTCGGTAATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCC
1 TCATTTTACCCTTTG-GGGTAATTCGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCC
20357293 TTC-AGGGGTAATTTGG
65 TTCGA-GGGTAATTTGG
**
20357309 TCATTTTACCCTTTGGGGATAATTCAATCATTTTA
1 TCATTTTACCCTTTGGGG-TAATTCGGTCATTTTA
20357344 ACAACATTTC
Statistics
Matches: 157, Mismatches: 32, Indels: 16
0.77 0.16 0.08
Matches are distributed among these distances:
80 6 0.04
81 146 0.93
82 5 0.03
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (80 bp):
TCATTTTACCCTTTGGGGTAATTCGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCCT
TCGAGGGTAATTTGG
Found at i:20358867 original size:22 final size:22
Alignment explanation
Indices: 20358842--20358894 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
20358832 CCTCTGACCT
20358842 CCTTGCCACACCTATATCGCCA
1 CCTTGCCACACCTATATCGCCA
* *
20358864 CCTTGCCACACCTGTGTCGCCA
1 CCTTGCCACACCTATATCGCCA
20358886 CCTTGCCAC
1 CCTTGCCAC
20358895 TACACCATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.17, C:0.47, G:0.13, T:0.23
Consensus pattern (22 bp):
CCTTGCCACACCTATATCGCCA
Found at i:20362403 original size:13 final size:13
Alignment explanation
Indices: 20362385--20362416 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
20362375 ATATGGACTG
20362385 TTATTTTATTTAT
1 TTATTTTATTTAT
20362398 TTATTTTATTTAT
1 TTATTTTATTTAT
20362411 TT-TTTT
1 TTATTTT
20362417 CTAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTATTTTATTTAT
Found at i:20362866 original size:87 final size:87
Alignment explanation
Indices: 20362753--20363282 Score: 801
Period size: 87 Copynumber: 6.1 Consensus size: 87
20362743 ACTTGTAATC
* * * * *
20362753 TTCGATCTACTGCATTGTCGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCAC-AGCA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTA-CA
*
20362817 ACCGATAGAGGCAAGGCTTTGTT
65 ACCGATGGAGGCAAGGCTTTGTT
* * * *
20362840 TTCGATCTACTTCACTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
20362905 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
** * * *
20362927 TTCGATCTGCTTTGCTGTTAACGCAGGAAAGCAAGATTTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
20362992 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * ** *
20363014 TTCGATCTGCTTCGCTGTTAACATAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTACAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
20363079 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * *
20363101 TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTACAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
20363166 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * *
20363188 TTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATTTTCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
20363253 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
20363275 TTCGATCT
1 TTCGATCT
20363283 TCACTGATCT
Statistics
Matches: 410, Mismatches: 32, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
87 410 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:20362918 original size:44 final size:44
Alignment explanation
Indices: 20362782--20362918 Score: 106
Period size: 44 Copynumber: 3.1 Consensus size: 44
20362772 GACGCAGGAG
* * *
20362782 GGCAAGATCTGCTATCTTTAACCAGCTCCACAGCAACCGATAGA
1 GGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGGA
* * * * * *
20362826 GGCAAGGCTTTG-T-T-TTCGATCTA-CTTCACTGTTAA-CGCA-GGAA
1 GGCAA-GATCTGCTATCTT-TAACTAGCTCCACTG-CAACCG-ATGG-A
20362869 GGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGGA
1 GGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGGA
20362913 GGCAAG
1 GGCAAG
20362919 GCTTTGTTTT
Statistics
Matches: 67, Mismatches: 15, Indels: 22
0.64 0.14 0.21
Matches are distributed among these distances:
42 15 0.22
43 14 0.21
44 21 0.31
45 17 0.25
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (44 bp):
GGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGGA
Found at i:20363135 original size:43 final size:43
Alignment explanation
Indices: 20363086--20363222 Score: 113
Period size: 43 Copynumber: 3.2 Consensus size: 43
20363076 CAACCGATGG
*
20363086 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGA
* * * * * * *
20363129 AGGCAA-GATCTGCTATCTT-TAACTAGCTCCACT-ACAA-CCGATGG-
1 AGGCAAGGCTTTG-T-T-TTCGATCT-GCTTCACTGTCAATGC-A-GGA
20363173 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGA
20363216 AGGCAAG
1 AGGCAAG
20363223 ATTTTCTATC
Statistics
Matches: 68, Mismatches: 15, Indels: 22
0.65 0.14 0.21
Matches are distributed among these distances:
42 15 0.22
43 23 0.34
44 16 0.24
45 14 0.21
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCACTGTCAATGCAGGA
Found at i:20367945 original size:20 final size:21
Alignment explanation
Indices: 20367903--20367946 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
20367893 TCCTTTTGTA
20367903 TTTGCTCCAGTTTCTCTAATC
1 TTTGCTCCAGTTTCTCTAATC
* * *
20367924 TTTGGTCCA-TTTCTTTAGTC
1 TTTGCTCCAGTTTCTCTAATC
20367944 TTT
1 TTT
20367947 CGACGAGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.11, C:0.23, G:0.11, T:0.55
Consensus pattern (21 bp):
TTTGCTCCAGTTTCTCTAATC
Found at i:20371205 original size:13 final size:13
Alignment explanation
Indices: 20371183--20371234 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
20371173 GTATTCATGA
*
20371183 AGAAACAAAAAAG
1 AGAAAGAAAAAAG
*
20371196 AGAAAGAAAACAG
1 AGAAAGAAAAAAG
*
20371209 TG-AAGAAAAAACG
1 AGAAAGAAAAAA-G
20371222 A-AAAGAAAAAAG
1 AGAAAGAAAAAAG
20371234 A
1 A
20371235 TGAATATACC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 10 0.31
13 22 0.69
ACGTcount: A:0.73, C:0.06, G:0.19, T:0.02
Consensus pattern (13 bp):
AGAAAGAAAAAAG
Found at i:20371238 original size:26 final size:25
Alignment explanation
Indices: 20371189--20371238 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
20371179 ATGAAGAAAC
*
20371189 AAAAAAGAGAAAGAAAACAGTGAAG
1 AAAAAAGAGAAAGAAAAAAGTGAAG
20371214 AAAAAACGA-AAAGAAAAAAGATGAA
1 AAAAAA-GAGAAAGAAAAAAG-TGAA
20371239 TATACCTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (25 bp):
AAAAAAGAGAAAGAAAAAAGTGAAG
Found at i:20372260 original size:25 final size:25
Alignment explanation
Indices: 20372226--20372279 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
20372216 ATCACACGGT
*
20372226 CGTGTCACACGCCCGTGTGCCAGGC
1 CGTGTCACACACCCGTGTGCCAGGC
* * *
20372251 CGTGTTACACACTCGTGTGCCTGGC
1 CGTGTCACACACCCGTGTGCCAGGC
20372276 CGTG
1 CGTG
20372280 AAACTCTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.11, C:0.35, G:0.31, T:0.22
Consensus pattern (25 bp):
CGTGTCACACACCCGTGTGCCAGGC
Found at i:20373115 original size:40 final size:40
Alignment explanation
Indices: 20373066--20373343 Score: 312
Period size: 40 Copynumber: 7.0 Consensus size: 40
20373056 TGCATTCAAA
* *
20373066 GGTACCGAAGTACAAATAGGGGCACGTTTGTGCAAACAAG
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACAAG
* * * * *
20373106 GGTA-TCGAAGTACAATTAAGGGCACGTAGGTGCAAATAGG
1 GGTACT-GAAGTACAAATAGGGGCACGTATGTGCAAACAAG
*
20373146 GGTTCTGAAGTAC-AATCAGGGGCACGTATGTGCAAACAAG
1 GGTACTGAAGTACAAAT-AGGGGCACGTATGTGCAAACAAG
* * * *
20373186 GGTACCGAAGTACAAATAGAGGCACATATGTGCAAA-ACGG
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACA-AG
* *
20373226 GGTACTGAAGTACAAATAGGGGCACGTGTGTGCAAACATG
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACAAG
* * *
20373266 GGTACTGAAGTAC-AATCAAGGGCACGTATGTGCAACCATG
1 GGTACTGAAGTACAAAT-AGGGGCACGTATGTGCAAACAAG
* * *
20373306 GGTACTGAAGTACAAATAGGGGCATGCATGTGTAAACA
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACA
20373344 TTCAATAATT
Statistics
Matches: 199, Mismatches: 31, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
39 6 0.03
40 185 0.93
41 8 0.04
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (40 bp):
GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACAAG
Found at i:20373171 original size:80 final size:78
Alignment explanation
Indices: 20373066--20373343 Score: 344
Period size: 80 Copynumber: 3.5 Consensus size: 78
20373056 TGCATTCAAA
* *
20373066 GGTACCGAAGTACAAATAGGGGCACGTTTGTGCAAACAAGGGTATCGAAGTACAATTAAGGGCAC
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTA-CGAAGTACAATTAAGGGCAC
*
20373131 GTAGGTGCAAATAGG
65 GTATGTGCAAA-AGG
* *
20373146 GGTTCTGAAGTAC-AATCAGGGGCACGTATGTGCAAACAAGGGTACCGAAGTACAAAT-AGAGGC
1 GGTACTGAAGTACAAAT-AGGGGCACGTATGTGCAAACAAGGGTA-CGAAGTACAATTAAG-GGC
*
20373209 ACATATGTGCAAAACGG
63 ACGTATGTGCAAAA-GG
* * *
20373226 GGTACTGAAGTACAAATAGGGGCACGTGTGTGCAAACATGGGTACTGAAGTACAATCAAGGGCAC
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTAC-GAAGTACAATTAAGGGCAC
* *
20373291 GTATGTGCAACCATG
65 GTATGTGCAA-AAGG
* * *
20373306 GGTACTGAAGTACAAATAGGGGCATGCATGTGTAAACA
1 GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACA
20373344 TTCAATAATT
Statistics
Matches: 172, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
79 7 0.04
80 159 0.92
81 6 0.03
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (78 bp):
GGTACTGAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTACGAAGTACAATTAAGGGCACG
TATGTGCAAAAGG
Found at i:20373247 original size:20 final size:20
Alignment explanation
Indices: 20373138--20373280 Score: 62
Period size: 20 Copynumber: 7.2 Consensus size: 20
20373128 CACGTAGGTG
*
20373138 CAAATAGGGGTTCTGAAGTA
1 CAAATAGGGGTACTGAAGTA
* * *
20373158 C-AATCAGGGGCAC-GTATGTG
1 CAAAT-AGGGGTACTG-AAGTA
* * *
20373178 CAAACAAGGGTACCGAAGTA
1 CAAATAGGGGTACTGAAGTA
* * * *
20373198 CAAATAGAGGCACAT-ATGTG
1 CAAATAGGGGTAC-TGAAGTA
20373218 CAAA-ACGGGGTACTGAAGTA
1 CAAATA-GGGGTACTGAAGTA
* * *
20373238 CAAATAGGGGCACGTG-TGTG
1 CAAATAGGGGTAC-TGAAGTA
* *
20373258 CAAACATGGGTACTGAAGTA
1 CAAATAGGGGTACTGAAGTA
20373278 CAA
1 CAA
20373281 TCAAGGGCAC
Statistics
Matches: 85, Mismatches: 28, Indels: 20
0.64 0.21 0.15
Matches are distributed among these distances:
19 8 0.09
20 71 0.84
21 6 0.07
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.18
Consensus pattern (20 bp):
CAAATAGGGGTACTGAAGTA
Found at i:20373337 original size:120 final size:120
Alignment explanation
Indices: 20373066--20373343 Score: 364
Period size: 120 Copynumber: 2.3 Consensus size: 120
20373056 TGCATTCAAA
* *
20373066 GGTACCGAAGTACAAATAGGGGCACGTTTGTGCAAACAAGGGTATCGAAGTACAATTAAGGGCAC
1 GGTACCGAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTATCGAAGTACAAATAAGGGCAC
* * *
20373131 GTAGGTGCAAATAGGGGTTCTGAAGTACAATCAGGGGCACGTATGTGCAAACAAG
66 GTAGGTGCAAACAGGGGTACTGAAGTACAATCAAGGGCACGTATGTGCAAACAAG
* * * *
20373186 GGTACCGAAGTACAAATAGAGGCACATATGTGCAAA-ACGGGGTA-CTGAAGTACAAATAGGGGC
1 GGTACCGAAGTACAAATAGGGGCACGTATGTGCAAACA-AGGGTATC-GAAGTACAAATAAGGGC
* * *
20373249 ACGT-GTGTGCAAACATGGGTACTGAAGTACAATCAAGGGCACGTATGTGCAACCATG
64 ACGTAG-GTGCAAACAGGGGTACTGAAGTACAATCAAGGGCACGTATGTGCAAACAAG
* * * *
20373306 GGTACTGAAGTACAAATAGGGGCATGCATGTGTAAACA
1 GGTACCGAAGTACAAATAGGGGCACGTATGTGCAAACA
20373344 TTCAATAATT
Statistics
Matches: 136, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
119 3 0.02
120 132 0.97
121 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (120 bp):
GGTACCGAAGTACAAATAGGGGCACGTATGTGCAAACAAGGGTATCGAAGTACAAATAAGGGCAC
GTAGGTGCAAACAGGGGTACTGAAGTACAATCAAGGGCACGTATGTGCAAACAAG
Found at i:20377090 original size:18 final size:19
Alignment explanation
Indices: 20377060--20377096 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
20377050 TTGGCACAAA
*
20377060 CATCACAATCACATAATAT
1 CATCACAATCACACAATAT
20377079 CATCAC-ATCACACAATAT
1 CATCACAATCACACAATAT
20377097 ACATTTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (19 bp):
CATCACAATCACACAATAT
Found at i:20380328 original size:18 final size:18
Alignment explanation
Indices: 20380305--20380339 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20380295 TAAGTTTAGA
20380305 AAGCATCAAAATAGTTTC
1 AAGCATCAAAATAGTTTC
* *
20380323 AAGCATGAAAGTAGTTT
1 AAGCATCAAAATAGTTT
20380340 GGCACATCGT
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:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:20388432 original size:24 final size:26
Alignment explanation
Indices: 20388398--20388463 Score: 93
Period size: 25 Copynumber: 2.6 Consensus size: 26
20388388 TTGCAATTAT
20388398 TTATTTATTTATTTTAAAATT-TTTTA
1 TTATTT-TTTATTTTAAAATTGTTTTA
20388424 -TATTTTTTATTTT-AAATTGTTTTA
1 TTATTTTTTATTTTAAAATTGTTTTA
*
20388448 TTATTATTTATTTTAA
1 TTATTTTTTATTTTAA
20388464 TTTTTTCACA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 5 0.14
24 13 0.36
25 17 0.47
26 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (26 bp):
TTATTTTTTATTTTAAAATTGTTTTA
Found at i:20388465 original size:24 final size:23
Alignment explanation
Indices: 20388392--20388469 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 23
20388382 TTATTTTTGC
*
20388392 AATTATTTAT-TTATTTATTTTAA
1 AATTTTTTATATTATTTATTTT-A
*
20388415 AATTTTTTATATTTTTTATTTTA
1 AATTTTTTATATTATTTATTTTA
20388438 AATTGTTTTATTATTATTTATTTT-
1 AATT-TTTTA-TATTATTTATTTTA
20388462 AATTTTTT
1 AATTTTTT
20388470 CACATATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
23 18 0.37
24 19 0.39
25 12 0.24
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (23 bp):
AATTTTTTATATTATTTATTTTA
Found at i:20388477 original size:25 final size:24
Alignment explanation
Indices: 20388402--20388489 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 24
20388392 AATTATTTAT
20388402 TTATTTATTTTAAAATTTTTT-ATA
1 TTATTTATTTT-AAATTTTTTAATA
* *
20388426 TTTTTTATTTTAAATTGTTTTATTA
1 TTATTTATTTTAAATT-TTTTAATA
20388451 TTATTTATTTT-AATTTTTTCACATA
1 TTATTTATTTTAAATTTTTT-A-ATA
**
20388476 TTATGCATTTTAAA
1 TTATTTATTTTAAA
20388490 CTATATTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.17
24 19 0.36
25 23 0.43
26 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (24 bp):
TTATTTATTTTAAATTTTTTAATA
Found at i:20388726 original size:22 final size:22
Alignment explanation
Indices: 20388701--20388746 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
20388691 TAAAATTGTC
20388701 TTCTTGGTTAT-TTATTTTAATT
1 TTCTTGG-TATGTTATTTTAATT
* *
20388723 TTCTTTGTATGTTATTTTTATT
1 TTCTTGGTATGTTATTTTAATT
20388745 TT
1 TT
20388747 GCGTTGCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.15, C:0.04, G:0.09, T:0.72
Consensus pattern (22 bp):
TTCTTGGTATGTTATTTTAATT
Found at i:20388760 original size:23 final size:22
Alignment explanation
Indices: 20388712--20388762 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
20388702 TCTTGGTTAT
* * *
20388712 TTATTTTAATTTTCTTTGTATG
1 TTATTTTAATTTTCGTTGCATA
*
20388734 TTATTTTTATTTTGCGTTGCATA
1 TTATTTTAATTTT-CGTTGCATA
20388757 TTATTT
1 TTATTT
20388763 ACTTTGAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.18, C:0.06, G:0.10, T:0.67
Consensus pattern (22 bp):
TTATTTTAATTTTCGTTGCATA
Found at i:20392213 original size:31 final size:31
Alignment explanation
Indices: 20392178--20392239 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
20392168 ATTCCTTTTC
*
20392178 ATTTCATTCATAACTAAAATATTCTTTTATT
1 ATTTCATTCATAACGAAAATATTCTTTTATT
20392209 ATTTCATTCATAACGAAAATATTCTTTTATT
1 ATTTCATTCATAACGAAAATATTCTTTTATT
20392240 TCATTCTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (31 bp):
ATTTCATTCATAACGAAAATATTCTTTTATT
Found at i:20392848 original size:1 final size:1
Alignment explanation
Indices: 20392842--20392944 Score: 53
Period size: 1 Copynumber: 103.0 Consensus size: 1
20392832 GATAGTAGAG
* * * * * * * * * *
20392842 AAAAAAAACAAAAACAAAAAGACAAAAAAAAACAAAAAAACAAAAACAAAAAGACAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * *
20392907 AAAGAACAAGAAAAACAAAGAACAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20392945 CCTCTACCGA
Statistics
Matches: 68, Mismatches: 34, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.01
Consensus pattern (1 bp):
A
Found at i:20392856 original size:6 final size:6
Alignment explanation
Indices: 20392845--20392945 Score: 68
Period size: 6 Copynumber: 17.0 Consensus size: 6
20392835 AGTAGAGAAA
* *
20392845 AAAAAC AAAAAC AAAAAGAC AAAAA- AAAACAA AAAAAC AAAAAC AAAAAG
1 AAAAAC AAAAAC -AAAA-AC AAAAAC AAAA-AC AAAAAC AAAAAC AAAAAC
* * * * *
20392895 ACAAA- ATAAA- AAAAAG AACAAG AAAAAC AAAGAAC -AAAA- AAAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAA-AAC AAAAAC AAAAAC
20392940 AAAAAC
1 AAAAAC
20392946 CTCTACCGAG
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
5 18 0.23
6 44 0.56
7 15 0.19
8 2 0.03
ACGTcount: A:0.82, C:0.12, G:0.05, T:0.01
Consensus pattern (6 bp):
AAAAAC
Found at i:20392866 original size:8 final size:7
Alignment explanation
Indices: 20392844--20392935 Score: 59
Period size: 7 Copynumber: 12.9 Consensus size: 7
20392834 TAGTAGAGAA
20392844 AAAAAAC
1 AAAAAAC
20392851 -AAAAAC
1 AAAAAAC
20392857 AAAAAGAC
1 AAAAA-AC
20392865 -AAAAA-
1 AAAAAAC
*
20392870 AAAACA-
1 AAAAAAC
20392876 AAAAAAC
1 AAAAAAC
20392883 -AAAAAC
1 AAAAAAC
20392889 AAAAAGAC
1 AAAAA-AC
*
20392897 AAAATAAAA
1 -AAA-AAAC
20392906 AAAAGAAC
1 AAAA-AAC
20392914 AAGAAAAAC
1 -A-AAAAAC
*
20392923 AAAGAAC
1 AAAAAAC
20392930 AAAAAA
1 AAAAAA
20392936 AAACAAAAAC
Statistics
Matches: 68, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
6 22 0.32
7 23 0.34
8 10 0.15
9 8 0.12
10 5 0.07
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.01
Consensus pattern (7 bp):
AAAAAAC
Found at i:20392866 original size:14 final size:14
Alignment explanation
Indices: 20392843--20392936 Score: 77
Period size: 14 Copynumber: 6.5 Consensus size: 14
20392833 ATAGTAGAGA
20392843 AAAAAAACAAAAAC
1 AAAAAAACAAAAAC
*
20392857 AAAAAGACAAAAAAAAAC
1 --AAA-A-AAACAAAAAC
20392875 AAAAAAACAAAAAC
1 AAAAAAACAAAAAC
*
20392889 AAAAAGAC-AAAA-
1 AAAAAAACAAAAAC
* *
20392901 TAAAAAA-AAGAAC
1 AAAAAAACAAAAAC
20392914 AAGAAAAACAAAGAAC
1 AA-AAAAACAAA-AAC
20392930 AAAAAAA
1 AAAAAAA
20392937 AACAAAAACC
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
12 8 0.13
13 5 0.08
14 21 0.33
15 8 0.13
16 11 0.17
17 1 0.02
18 9 0.14
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.01
Consensus pattern (14 bp):
AAAAAAACAAAAAC
Found at i:20392884 original size:32 final size:32
Alignment explanation
Indices: 20392843--20392944 Score: 145
Period size: 32 Copynumber: 3.2 Consensus size: 32
20392833 ATAGTAGAGA
20392843 AAAAAAACAAAAACAAAAAGACAAAAAAAAAC
1 AAAAAAACAAAAACAAAAAGACAAAAAAAAAC
*
20392875 AAAAAAACAAAAACAAAAAGACAAAATAAAA-
1 AAAAAAACAAAAACAAAAAGACAAAAAAAAAC
*
20392906 AAAAGAACAAGAAA-AACAAAGAACAAAAAAAAAC
1 AAAAAAACAA-AAACAA-AAAG-ACAAAAAAAAAC
20392940 AAAAA
1 AAAAA
20392945 CCTCTACCGA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
31 11 0.18
32 37 0.60
33 10 0.16
34 4 0.06
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.01
Consensus pattern (32 bp):
AAAAAAACAAAAACAAAAAGACAAAAAAAAAC
Found at i:20392940 original size:26 final size:24
Alignment explanation
Indices: 20392842--20392944 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 24
20392832 GATAGTAGAG
*
20392842 AAAAAAAACAAAAAC--AAAAAGAC
1 AAAAAAAA-AAAAACAAAAAAAAAC
*
20392865 AAAAAAAAACAAAA-AAACAAAAAC
1 AAAAAAAAA-AAAACAAAAAAAAAC
* *
20392889 AAAAAGACAAAATAA-AAAAAAGAAC
1 AAAAA-A-AAAAAAACAAAAAAAAAC
*
20392914 AAGAAAAACAAAGAACAAAAAAAAAC
1 AA-AAAAA-AAAAAACAAAAAAAAAC
20392940 AAAAA
1 AAAAA
20392945 CCTCTACCGA
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
22 1 0.02
23 12 0.18
24 12 0.18
25 23 0.35
26 17 0.26
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.01
Consensus pattern (24 bp):
AAAAAAAAAAAAACAAAAAAAAAC
Found at i:20393465 original size:53 final size:54
Alignment explanation
Indices: 20393385--20393488 Score: 165
Period size: 53 Copynumber: 1.9 Consensus size: 54
20393375 GTCTCAAAAA
* *
20393385 AAAAATAAAAAAGGAGAGGCCAAGGTGAAAACCTACAAAGGACGCTTTGAGTCT
1 AAAAATAAAAAAGGAGAGGCCAAGGTGAAAACCCACAAAGGACGCCTTGAGTCT
* *
20393439 AAAAA-AAAAAGGGAGAGGCCAAGGTGAAAACCCGCAAAGGACGCCTTGAG
1 AAAAATAAAAAAGGAGAGGCCAAGGTGAAAACCCACAAAGGACGCCTTGAG
20393489 ACCAAAGGAG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 41 0.89
54 5 0.11
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (54 bp):
AAAAATAAAAAAGGAGAGGCCAAGGTGAAAACCCACAAAGGACGCCTTGAGTCT
Found at i:20394581 original size:142 final size:143
Alignment explanation
Indices: 20394298--20394658 Score: 535
Period size: 142 Copynumber: 2.5 Consensus size: 143
20394288 ATTACGGAAA
* * * * *
20394298 ATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATCAGCCTTTTCTCCCTGAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* *
20394363 AGCGGAGCAGACTAAAGACAATAAATCTTATTTCCTTGGCATTGCAATGGAACAGATTAAAGCTA
66 AGTGGAGCAGACTAAAGACAACAAATCTTATTTCCTTGGCATTGCAATGGAACAGATTAAAGCTA
20394428 CAAATTATGGCGG
131 CAAATTATGGCGG
* *
20394441 ATCTTATCTTCTTGAAGTTG-TGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* * * * * *
20394505 AGTGGAGCAGGCTGAAGACAACGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGTTTAAAGCTA
66 AGTGGAGCAGACTAAAGACAACAAATCTTATTTCCTTGGCATTGCAATGGAACAGATTAAAGCTA
*
20394570 CAAATTTTGGCGG
131 CAAATTATGGCGG
* * *
20394583 ATCTTATTTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTAAAGTTGC
1 ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
*
20394648 AGTGGAACAGA
66 AGTGGAGCAGA
20394659 TTGAAGTTAC
Statistics
Matches: 194, Mismatches: 23, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
142 124 0.64
143 70 0.36
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (143 bp):
ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
AGTGGAGCAGACTAAAGACAACAAATCTTATTTCCTTGGCATTGCAATGGAACAGATTAAAGCTA
CAAATTATGGCGG
Found at i:20394711 original size:143 final size:142
Alignment explanation
Indices: 20394298--20394717 Score: 441
Period size: 142 Copynumber: 2.9 Consensus size: 142
20394288 ATTACGGAAA
* * * * * *
20394298 ATCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATCAGCCTTTTCTCCCTGAAGTTGC
1 ATCTTATCTTCCTAAAGTTG-AGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* * * ** * * * * *
20394363 AGCGGAGCAGACTAAAGACAATAAATCTTATTTCCTTGGCA-TTGCAATGGAACAGATTAAAGCT
65 AGTGGAACAGACTGAAGACAACCAATCTTATCTCCTT-GAAGTTGCAGTCGAACAGATCAAAGCT
20394427 ACAAATTATGGCGG
129 ACAAATTATGGCGG
* * *
20394441 ATCTTATCTTCTTGAAGTTGTGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCA
1 ATCTTATCTTCCTAAAGTTGAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCA
* * * * ** * * *
20394506 GTGGAGCAGGCTGAAGACAACGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGTTTAAAGCTAC
66 GTGGAACAGACTGAAGACAACCAATCTTATCTCCTTGAAGTTGCAGTCGAACAGATCAAAGCTAC
*
20394571 AAATTTTGGCGG
131 AAATTATGGCGG
* *
20394583 ATCTTATTTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACTAGCCTTATCTCCCTAAAGTTGC
1 ATCTTATCTTCCTAAAGTTG-AGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* ** * * *
20394648 AGTGGAACAGATTGAAG-TTACCAATTCTTATCTCCTTGAAGTTTCAG-CGAAGTAGATCGAAGC
65 AGTGGAACAGACTGAAGACAACCAA-TCTTATCTCCTTGAAGTTGCAGTCGAA-CAGATCAAAGC
20394711 TACAAAT
128 TACAAAT
20394718 CTCTTCTCCC
Statistics
Matches: 236, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
141 1 0.00
142 128 0.54
143 107 0.45
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (142 bp):
ATCTTATCTTCCTAAAGTTGAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCA
GTGGAACAGACTGAAGACAACCAATCTTATCTCCTTGAAGTTGCAGTCGAACAGATCAAAGCTAC
AAATTATGGCGG
Found at i:20394820 original size:44 final size:44
Alignment explanation
Indices: 20394692--20394826 Score: 135
Period size: 44 Copynumber: 3.1 Consensus size: 44
20394682 CTTGAAGTTT
20394692 CAGCGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTA
1 CAGCGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTA
** * * * * * * * * *** * *
20394736 CATTGGAGCATATTGAAACCACAAGTGTAACCTTCTTAAAATTA
1 CAGCGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTA
20394780 CAGCGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTA
1 CAGCGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTA
20394824 CAG
1 CAG
20394827 TGGGTTAGAA
Statistics
Matches: 61, Mismatches: 30, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (44 bp):
CAGCGAAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTA
Found at i:20396165 original size:25 final size:23
Alignment explanation
Indices: 20396133--20396292 Score: 117
Period size: 25 Copynumber: 6.5 Consensus size: 23
20396123 TTTGATTTCA
20396133 ATTTATTTTTGAAATTTATTTAT-TT
1 ATTTA-TTTT-AAATTT-TTTATATT
20396158 ATTTATTTTAAAATTTTTTATATT
1 ATTTATTTT-AAATTTTTTATATT
20396182 ATTTATTTTAAATTGTTTTATTATT
1 ATTTATTTTAAATT-TTTTA-TATT
* *
20396207 ATTTATTTTAAGTTTTTCACATATT
1 ATTTATTTTAAATTTTT--TATATT
** **
20396232 ATGCATTTTAAACTATATTAAACTATT
1 ATTTATTTTAAA-T-T-TTTTA-TATT
* **
20396259 ATCTATTTTAAA-TTTACATATT
1 ATTTATTTTAAATTTTTTATATT
20396281 ATTTATTTTAAA
1 ATTTATTTTAAA
20396293 CCATATATAT
Statistics
Matches: 114, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
22 15 0.13
23 14 0.12
24 30 0.26
25 35 0.31
26 3 0.03
27 15 0.13
28 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (23 bp):
ATTTATTTTAAATTTTTTATATT
Found at i:20396171 original size:24 final size:24
Alignment explanation
Indices: 20396133--20396217 Score: 111
Period size: 24 Copynumber: 3.5 Consensus size: 24
20396123 TTTGATTTCA
*
20396133 ATTTATTTTTGAAATTTATTTAT-TT
1 ATTTA-TTTTAAAATTT-TTTATATT
20396158 ATTTATTTTAAAATTTTTTATATT
1 ATTTATTTTAAAATTTTTTATATT
20396182 ATTTATTTT-AAATTGTTTTATTATT
1 ATTTATTTTAAAATT-TTTTA-TATT
20396207 ATTTATTTTAA
1 ATTTATTTTAA
20396218 GTTTTTCACA
Statistics
Matches: 55, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
23 10 0.18
24 26 0.47
25 18 0.33
26 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
ATTTATTTTAAAATTTTTTATATT
Found at i:20396518 original size:21 final size:20
Alignment explanation
Indices: 20396489--20396541 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
20396479 CTTTGTATGT
* *
20396489 TATTTTTTATTTTGCATTGC
1 TATTATTTATTTTGAATTGC
*
20396509 ATATTATTTACTTTGAATTGC
1 -TATTATTTATTTTGAATTGC
20396530 T-TTATATTATTT
1 TATTAT-TTATTT
20396542 ACCTCAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 6 0.22
21 17 0.63
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (20 bp):
TATTATTTATTTTGAATTGC
Found at i:20396551 original size:24 final size:25
Alignment explanation
Indices: 20396509--20396567 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
20396499 TTTGCATTGC
* ** *
20396509 ATATTATTTACTTTGAATTG-CTTT
1 ATATTATTTACCTCAAATTGTCTAT
20396533 ATATTATTTACCTCAAATTGTTCTAT
1 ATATTATTTACCTCAAATTG-TCTAT
20396559 ATATTATTT
1 ATATTATTT
20396568 CGTTTTCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 17 0.59
26 12 0.41
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (25 bp):
ATATTATTTACCTCAAATTGTCTAT
Found at i:20418729 original size:3 final size:3
Alignment explanation
Indices: 20418721--20418973 Score: 205
Period size: 3 Copynumber: 85.0 Consensus size: 3
20418711 ACATAGAAAT
* * * *
20418721 ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA A-A TTA ATG GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
20418768 ATA ATA ATA GA-A ATA ATA TTA ATA ATA ATA GA-A ATA ATA TTA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * *
20418813 ATA A-A ATA ATA ATA GTA ATA ACA ATTA ATA ATA ATT CTA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * * * *
20418858 ATG TTA ATA GTA ATA A-A ATA AAA ATA A-A ACTA ATG ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * * *
20418902 CTA ATA ATA ATA GTA AGA ATA ATA ATA ATA TTA ATA TTA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
20418949 ATCA ATA ATA CTA ATA ATA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA
20418974 GTGTAATATT
Statistics
Matches: 194, Mismatches: 44, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
2 11 0.06
3 175 0.90
4 8 0.04
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20420610 original size:44 final size:44
Alignment explanation
Indices: 20420562--20421115 Score: 224
Period size: 44 Copynumber: 12.5 Consensus size: 44
20420552 TTTAATCCAT
*
20420562 TCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATCTGC
*
20420606 TCCACTGCAA--T-A---AGATTGG--T-AT--CTTCAA-CTTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATC-TGC
* * * * *
20420639 TCCACTGCAACTTCAAGGAGATAATG-TTGGGTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGAT-AGGATT-GATAGCTTCAATCTGC
* * * * * * * *
20420684 TCTACTACAACTTTAGGGAGATAAGACTTGTTGTGGTAGATTTAATCCGAC
1 TCCACTGCAACTTCAGGGAGAT-AG----GAT-TGATAGCTTCAATCTG-C
* * * * * * *
20420735 -CTACTGCAACTTCAGAGATG-TAGGATTCATCGTTTTAATCCGC
1 TCCACTGCAACTTCAGGGA-GATAGGATTGATAGCTTCAATCTGC
* *
20420778 TCCACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTAC
1 TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATCTGC
* * * * * *
20420822 TCCACTGTAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATCTGC
* * * * * * * *
20420866 TCCGCTACAACTTCAGAGAGATAAGG-TTGGGTATCTTCAGTTTGT
1 TCCACTGCAACTTCAGGGAGAT-AGGATT-GATAGCTTCAATCTGC
* * * * ** * * *
20420911 TCCATTGCCACTTCAGTGAGATAAGACTTGTTATGGTAAATTTAATCCGA
1 TCCACTGCAACTTCAGGGAGATAGGA-TTG--A---TAGCTTCAATCTGC
* * * * * * *
20420961 TCTACTGCAACTTCAGAGG-TATAGGATTCATCGTTTTAATCCGC
1 TCCACTGCAACTTCAG-GGAGATAGGATTGATAGCTTCAATCTGC
* *
20421005 TCCACTGCAACTTCAGGAAGATAGGATTAATAGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATCTGC
* ** * * *
20421049 TCTACTGCAACTTCAGGGAGATAATATTGGTATCTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATCTGC
* * *
20421093 TCTACTGCAACTTTAGAGAGATA
1 TCCACTGCAACTTCAGGGAGATA
20421116 AGGTTGGTTA
Statistics
Matches: 383, Mismatches: 92, Indels: 70
0.70 0.17 0.13
Matches are distributed among these distances:
32 1 0.00
33 19 0.05
35 3 0.01
36 2 0.01
38 6 0.02
39 4 0.01
40 1 0.00
41 2 0.01
42 1 0.00
43 4 0.01
44 213 0.56
45 62 0.16
46 3 0.01
47 1 0.00
49 5 0.01
50 52 0.14
51 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAGGATTGATAGCTTCAATCTGC
Found at i:20421010 original size:227 final size:227
Alignment explanation
Indices: 20420454--20421135 Score: 920
Period size: 227 Copynumber: 3.1 Consensus size: 227
20420444 TAAGATACGC
* * * * *
20420454 TATCTACAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCTGAC
1 TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAAATTTAATCCGAC
* * * ** *
20420519 CTACTTCAACTTCAGAGGTATAGGATTCATTGTTTTAATCCATTCCACTGCAACTTCAGGGAGAT
66 CTACTGCAACTTCAGAGATATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGAAGAT
* *
20420584 AGGATTAATAGCTTCAATCTGCTCCACTG------C----A-ATAAGATTGGTATCTTCAACTTG
131 AGGATTAATAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTG
*
20420638 CTCCACTGCAACTTCA-AGGAGATAATGTTGGG
196 CTCCACTGCAACTTCAGA-GAGATAAGGTTGGG
* * * *
20420670 TATCTTCAGTCTGCTCTACTACAACTTTAGGGAGATAAGACTTGTTGTGGTAGATTTAATCCGAC
1 TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAAATTTAATCCGAC
* *
20420735 CTACTGCAACTTCAGAGATGTAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
66 CTACTGCAACTTCAGAGATATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGAAGAT
*
20420800 AGGATTAATAGCTTCAATCTACTCCACTGTAACTTCAAGGAGATAAGATTGGTATCTTCAACCTG
131 AGGATTAATAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTG
* *
20420865 CTCCGCTACAACTTCAGAGAGATAAGGTTGGG
196 CTCCACTGCAACTTCAGAGAGATAAGGTTGGG
* * * * * * *
20420897 TATCTTCAGTTTGTTCCATTGCCACTTCAGTGAGATAAGACTTGTTATGGTAAATTTAATCCGAT
1 TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAAATTTAATCCGAC
*
20420962 CTACTGCAACTTCAGAGGTATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGAAGAT
66 CTACTGCAACTTCAGAGATATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGAAGAT
* * * *
20421027 AGGATTAATAGCTTCAATCTGCTCTACTGCAACTTCAGGGAGATAATATTGGTATCTTCAACCTG
131 AGGATTAATAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTG
* * *
20421092 CTCTACTGCAACTTTAGAGAGATAAGGTTGGT
196 CTCCACTGCAACTTCAGAGAGATAAGGTTGGG
*
20421124 TATCTTCCGTCT
1 TATCTTCAGTCT
20421136 TGATCTGCTC
Statistics
Matches: 412, Mismatches: 42, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
216 147 0.36
222 1 0.00
226 1 0.00
227 262 0.64
228 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (227 bp):
TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAAATTTAATCCGAC
CTACTGCAACTTCAGAGATATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGAAGAT
AGGATTAATAGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTG
CTCCACTGCAACTTCAGAGAGATAAGGTTGGG
Found at i:20421617 original size:24 final size:24
Alignment explanation
Indices: 20421585--20421642 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
20421575 CAGATTGCCC
20421585 CCACTGTAATCTTCAAGGCTCAAT
1 CCACTGTAATCTTCAAGGCTCAAT
*
20421609 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGCTCAAT
20421633 CCACTGTAAT
1 CCACTGTAAT
20421643 TTTGGGACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGCTCAAT
Found at i:20422558 original size:13 final size:12
Alignment explanation
Indices: 20422532--20422576 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 12
20422522 GGCCTCATCA
20422532 TTTTTCTTTTTTC
1 TTTTT-TTTTTTC
20422545 TTTTTTTTTCTTC
1 TTTTTTTTT-TTC
20422558 TTTTTTTCTTTTC
1 TTTTTTT-TTTTC
20422571 TTTTTT
1 TTTTTT
20422577 CATCATTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.13
13 24 0.80
14 2 0.07
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:20427838 original size:17 final size:17
Alignment explanation
Indices: 20427816--20427848 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20427806 AATTGAGTAA
20427816 ATAAAA-AATAATATATG
1 ATAAAACAA-AATATATG
20427833 ATAAAACAAAATATAT
1 ATAAAACAAAATATAT
20427849 TTAAACTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
ATAAAACAAAATATATG
Found at i:20427889 original size:3 final size:3
Alignment explanation
Indices: 20427881--20428113 Score: 161
Period size: 3 Copynumber: 78.0 Consensus size: 3
20427871 ACATAGAAAT
* * * *
20427881 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA A-A TTA ATG GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
20427928 ATT ATA ATA ATA ATA GA-A ATA ACA TTA ATA ATA AAA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
20427973 GTA ATA ACA ATTA ATA ATA ATT CTA ATA ATG ATG TTA ATA GTG ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
20428019 A-A ATA AGA ATA A-A ACTA ATG ATA ATA ATG CTA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
20428063 AGA ATA ATA ATA ATA TTA ATA ATA AT- ATCA ACA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
20428108 ATA ATA
1 ATA ATA
20428114 GTGTAATATT
Statistics
Matches: 171, Mismatches: 50, Indels: 18
0.72 0.21 0.08
Matches are distributed among these distances:
2 8 0.05
3 157 0.92
4 6 0.04
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20428811 original size:17 final size:18
Alignment explanation
Indices: 20428785--20428821 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
20428775 TTAGTATTTC
*
20428785 AAAATAATAAAAATATAA
1 AAAATAATAAAAAAATAA
20428803 AAAAT-ATAAAAAAATAA
1 AAAATAATAAAAAAATAA
20428820 AA
1 AA
20428822 CGAAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAATAATAAAAAAATAA
Found at i:20429448 original size:33 final size:33
Alignment explanation
Indices: 20429366--20429455 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
20429356 AGAGTACATT
* * *
20429366 GTCAGTCCAACCAAACACACCAGATGGTCACACGA
1 GTCAATCCAACC-AACACACCA-ATGCTCACAAGA
** *
20429401 GTCAATCCCTCCAACACACCAATGCTCATAAGA
1 GTCAATCCAACCAACACACCAATGCTCACAAGA
20429434 G-CTAATCCAACCAACACACCAA
1 GTC-AATCCAACCAACACACCAA
20429456 ACAGGGTGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
32 1 0.02
33 27 0.59
34 9 0.20
35 9 0.20
ACGTcount: A:0.39, C:0.37, G:0.11, T:0.13
Consensus pattern (33 bp):
GTCAATCCAACCAACACACCAATGCTCACAAGA
Found at i:20437359 original size:122 final size:121
Alignment explanation
Indices: 20437149--20437484 Score: 334
Period size: 122 Copynumber: 2.8 Consensus size: 121
20437139 CTTTGTGGCA
* * * * * *
20437149 AGTACTAAATGTAAATGACACCCTTTGTGGGAAAAATTTGGA-TAGAAAAACCTTTTTGGTGAGT
1 AGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAAG-AAAACCTTTATGGTGAGT
* * * * * * * *
20437213 ACTAGATATAAAGGATAGCCTTTGTGGCACAACTCTAGACATGAAAGCCTTTATGGTG
65 ACGA-ATGTAAAGGAAAACTTTTGTGGCAAAACTCTAGACAAGAAAGCCTTTATGATG
* * * *
20437271 TGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAAGAAAGCCTTTATAGCGAGTA
1 AGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAAGAAAACCTTTATGGTGAGTA
* * * * *
20437336 CCGAATGTAAAGGACAACTTTTGTGGCAAAACTTTGGAGAAGAAAGCCTTTGTGATG
66 -CGAATGTAAAGGAAAACTTTTGTGGCAAAACTCTAGACAAGAAAGCCTTTATGATG
* * * * * * * *
20437393 AGTACTAGATAT-AATGATAGCTTTTGTGGCAAAACTCTAGACAGGAAAACCTTTGTGGTGAGTA
1 AGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAAGAAAACCTTTATGGTGAGTA
*
20437457 TTGAATGTAAAGGAAAACTTTTGTGGCA
66 -CGAATGTAAAGGAAAACTTTTGTGGCA
20437485 GCTTCTGTTT
Statistics
Matches: 175, Mismatches: 37, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
121 68 0.39
122 103 0.59
123 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (121 bp):
AGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAAGAAAACCTTTATGGTGAGTA
CGAATGTAAAGGAAAACTTTTGTGGCAAAACTCTAGACAAGAAAGCCTTTATGATG
Found at i:20437446 original size:60 final size:61
Alignment explanation
Indices: 20437199--20437484 Score: 254
Period size: 61 Copynumber: 4.7 Consensus size: 61
20437189 GATAGAAAAA
* * * * *
20437199 CCTTTTTGGTGAGTACTAGATATAAAGGATAGCCTTTGTGGCACAACTCTAGACATGAAAG
1 CCTTTATGGTGAGTACTAGATATAAAGGACAACCTTTGTGGCAAAACTCTAGACAAGAAAG
* * * * *
20437260 CCTTTATGGTGTGTACTAAATGTAAATGACAACCTTTGTGGCAAAACTCTGGACAAGAAAG
1 CCTTTATGGTGAGTACTAGATATAAAGGACAACCTTTGTGGCAAAACTCTAGACAAGAAAG
* * * * * * * *
20437321 CCTTTATAGCGAGTAC-CGAATGTAAAGGACAACTTTTGTGGCAAAACTTTGGAGAAGAAAG
1 CCTTTATGGTGAGTACTAG-ATATAAAGGACAACCTTTGTGGCAAAACTCTAGACAAGAAAG
* * * * * * * *
20437382 CCTTTGTGATGAGTACTAGATAT-AATGATAGCTTTTGTGGCAAAACTCTAGACAGGAAAA
1 CCTTTATGGTGAGTACTAGATATAAAGGACAACCTTTGTGGCAAAACTCTAGACAAGAAAG
* * * * *
20437442 CCTTTGTGGTGAGTA-TTGAATGTAAAGGAAAACTTTTGTGGCA
1 CCTTTATGGTGAGTACTAG-ATATAAAGGACAACCTTTGTGGCA
20437485 GCTTCTGTTT
Statistics
Matches: 182, Mismatches: 39, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
59 2 0.01
60 46 0.25
61 133 0.73
62 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (61 bp):
CCTTTATGGTGAGTACTAGATATAAAGGACAACCTTTGTGGCAAAACTCTAGACAAGAAAG
Found at i:20437859 original size:19 final size:19
Alignment explanation
Indices: 20437830--20437921 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
20437820 AATCTTCAAG
* *
20437830 GATATGGAATCTTAGATAC
1 GATATGCAATCTTAGATAT
* *
20437849 AATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20437868 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
20437887 GATGTGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
20437906 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20437922 AGATATGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 64 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:20437879 original size:38 final size:38
Alignment explanation
Indices: 20437830--20437921 Score: 148
Period size: 38 Copynumber: 2.4 Consensus size: 38
20437820 AATCTTCAAG
*
20437830 GATATGGAATCTTAGATACAATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATACAATATGTAATCTTAGATAT
** *
20437868 GATATGCAATCTTAGATATGATGTGTAATCTTAGATAT
1 GATATGCAATCTTAGATACAATATGTAATCTTAGATAT
20437906 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
20437922 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATACAATATGTAATCTTAGATAT
Found at i:20438173 original size:23 final size:23
Alignment explanation
Indices: 20438129--20438173 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20438119 TCTTATTTTG
* *
20438129 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
20438152 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
20438174 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:20441821 original size:51 final size:51
Alignment explanation
Indices: 20441735--20442123 Score: 402
Period size: 51 Copynumber: 7.7 Consensus size: 51
20441725 TATCGATGAA
* * *
20441735 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATTGT
* * * * * * * *
20441786 CACATGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT--TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATAATT-GT
* * * * *
20441837 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATTGT
* * * * * *
20441888 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAAGT-TTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA-TAATT-GT
20441939 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-AACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA-TTG-T
* *
20441990 CACGTGTGTAGTACTATATGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATTG-T
*
20442040 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATTG-T
*
20442090 CACGTGTGTAGTACTATGTGGAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
20442124 TATTGAATGA
Statistics
Matches: 289, Mismatches: 39, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
50 95 0.33
51 192 0.66
52 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATTGT
Found at i:20441911 original size:102 final size:100
Alignment explanation
Indices: 20441735--20442125 Score: 459
Period size: 102 Copynumber: 3.9 Consensus size: 100
20441725 TATCGATGAA
* * * *
20441735 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTG-TCACATGTCTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAATAA-TGATCACATGTGTAGTA
*
20441799 CTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
64 CTAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGGT
* * * * *
20441837 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAATAATGATCACATGTGTAGTAC
* *
20441902 TAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGT
65 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
*
20441939 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAA-AACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAATAA--TGATCACATGTGTAGTA
* * * *
20442003 CTATA-TGAAGGCTACTACGTGAACCGTAAAAC-TTGAT
64 CTA-AGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* *
20442040 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAA-ACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAATA-ATGATCACATGTGTAGTAC
* * *
20442104 TATGTGGAGGCTACTACGTGTA
65 TAAGTGAAGGCTACTATGTGTA
20442126 TTGAATGATA
Statistics
Matches: 258, Mismatches: 24, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
100 37 0.14
101 54 0.21
102 165 0.64
103 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAATAATGATCACATGTGTAGTACT
AAGTGAAGGCTACTATGTGTACCGAAAGCTTTGGT
Found at i:20441994 original size:153 final size:151
Alignment explanation
Indices: 20441730--20442123 Score: 452
Period size: 153 Copynumber: 2.6 Consensus size: 151
20441720 TAAGGTATCG
* * * * *
20441730 ATGAACACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATT-GTCACATGTC
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-AAAT-ATTGGTCACGTGTG
* * * * * * * * * *
20441794 TAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACGTGTGTAGTATTGTGTGAA
64 TAGTACTATGTGAAGGCTACTACGTGAACCGAAAAACTTTGATCACGTGTGTAGTACTATATGAA
* **
20441859 GGCTACTACGTGAATCGATAAATG
129 GGCTACTACGTGAACCG-TAAAAC
* * * *
20441883 ATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAAAAGTTTTGGTCACGTGTGT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAA-TATTGGTCACGTGTGT
20441948 AGTACTATGTGAAGGCTACTACGTGAACCGTAAAAAC-TTGATCACGTGTGTAGTACTATATGAA
65 AGTACTATGTGAAGGCTACTACGTGAACCG-AAAAACTTTGATCACGTGTGTAGTACTATATGAA
20442012 GGCTACTACGTGAACCGTAAAAC
129 GGCTACTACGTGAACCGTAAAAC
* * * * * *
20442035 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-CTTGATCACGTGTGT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-AAAATATTGGTCACGTGTGT
*
20442099 AGTACTATGTGGAGGCTACTACGTG
65 AGTACTATGTGAAGGCTACTACGTG
20442124 TATTGAATGA
Statistics
Matches: 205, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
151 37 0.18
152 46 0.22
153 118 0.58
154 4 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (151 bp):
ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAATATTGGTCACGTGTGTA
GTACTATGTGAAGGCTACTACGTGAACCGAAAAACTTTGATCACGTGTGTAGTACTATATGAAGG
CTACTACGTGAACCGTAAAAC
Found at i:20442152 original size:101 final size:99
Alignment explanation
Indices: 20441946--20442162 Score: 278
Period size: 101 Copynumber: 2.2 Consensus size: 99
20441936 GGTCACGTGT
20441946 GTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATATGA
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATATGA
* * * *
20442011 AGGCTACTACGTGAACCGTAAAACTTGATCACGTGT
66 AGGCTACTACGTGAAACGTAAAA--TGATAACATGG
* *
20442047 GTAGTACTATGTGAAGGCTACTACGTGAACCGT-AAAACTTGATCACGTGTGTAGTACTATGTGG
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATATGA
*
20442111 AGGCTACTACGTGTATTGAATGATAAAA-G-TAACATGG
66 AGGCTACTACGTG-A---AACG-TAAAATGATAACATGG
*
20442148 GTAGTACTGTGTGAA
1 GTAGTACTATGTGAA
20442163 AAACCCCAAA
Statistics
Matches: 103, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
100 42 0.41
101 53 0.51
102 1 0.01
104 2 0.02
105 5 0.05
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (99 bp):
GTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATATGA
AGGCTACTACGTGAAACGTAAAATGATAACATGG
Found at i:20444536 original size:47 final size:49
Alignment explanation
Indices: 20444483--20444608 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 49
20444473 TTATGAAATC
*
20444483 TCCGTGTAAGACCATATCTGGAATATGGCATC-AT-TGTGATATGTGAT
1 TCCGTGTAAGACCATATCTGGACTATGGCATCGATATGTGATATGTGAT
* * *
20444530 TCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTATGTGATATGTGAT
1 TCCGTGTAAGACCATATCTGGACTATGGCATCGATATGTGATATGTGAT
* *
20444579 TACATGTAAGACCATAGT-TGGACTATGGCA
1 TCCGTGTAAGACCATA-TCTGGACTATGGCA
20444609 ATGTGAAAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 29 0.43
48 1 0.01
49 38 0.56
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (49 bp):
TCCGTGTAAGACCATATCTGGACTATGGCATCGATATGTGATATGTGAT
Found at i:20445110 original size:50 final size:50
Alignment explanation
Indices: 20445051--20445152 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
20445041 AAGTAAGGCC
*
20445051 ATGAATGGTATATGGGGTAACTCATGTTGGTAATACAAATTGTGAATTAT
1 ATGAATGGTATATGGGGTAACTCATGTTGGTAATACAAATGGTGAATTAT
20445101 ATGAATGGTATATGGGGTAACTCATGTTGGTAATACAAATGGTGAATTAT
1 ATGAATGGTATATGGGGTAACTCATGTTGGTAATACAAATGGTGAATTAT
20445151 AT
1 AT
20445153 TTGATATGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (50 bp):
ATGAATGGTATATGGGGTAACTCATGTTGGTAATACAAATGGTGAATTAT
Found at i:20450437 original size:88 final size:88
Alignment explanation
Indices: 20450288--20450943 Score: 997
Period size: 88 Copynumber: 7.4 Consensus size: 88
20450278 GTGAAGATAA
* * *
20450288 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
20450353 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
20450376 CAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACTAGCCTAGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
20450441 GCAGCGGAGCAAGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
20450464 CAGATCTTGCCTTCCTGCACCGACAGCGAAGAAGATCGAAGACACCAGTCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
20450529 GCAGCGGAGCAGGTTAAAAATTG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * *
20450552 CAGATCTTGCCTTCCTGCACCAACAACGAGGCAGATTGAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
20450617 GTAGTGGAGCAAGGTTAAAAATAG
66 GCAGCGGAGC-AGGTTAAAAATAG
* * *
20450641 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAATATACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
**
20450706 ATAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * *
20450729 CAGATCTTGTCTTCTTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCTCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
20450794 GCGGCGGAACAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
20450817 CAGATCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
20450882 GCAGCGAAGTAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
*
20450905 CAGATCTTGCCTACCTGCACCGACAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
20450944 TGACCCCAAC
Statistics
Matches: 511, Mismatches: 56, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
88 432 0.85
89 79 0.15
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:20450934 original size:45 final size:44
Alignment explanation
Indices: 20450355--20450938 Score: 170
Period size: 44 Copynumber: 13.2 Consensus size: 44
20450345 CCTGGGTTGT
* *
20450355 AGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCC-TCCTGCACCGAC
* ** * * * * ****
20450400 AGCGAAGCAGATCGAAGACA-CTAG-CCTAGCCTCCCTGGGTTG-C
1 AGCGAAGCAGGTTAAAAATAGC-AGATCTTGCCT-CCTGCACCGAC
* *
20450443 AGCGGAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCC-TCCTGCACCGAC
* * ** * * * ****
20450488 AGCGAAGAAGATCGAAGACACCAG-TCTTGCCTCCCTGGGTTG-C
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCT-CCTGCACCGAC
* * *
20450531 AGCGGAGCAGGTTAAAAATTGCAGATCTTGCCTTCCTGCACCAAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCC-TCCTGCACCGAC
* * * * * * * * **** *
20450576 AACGAGGCAGATTGAAGACACCA-ACCTTGCCTCCCTGGGTTG-T
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCT-CCTGCACCGAC
* *
20450619 AGTGGAGCAAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
1 AGCGAAGC-AGGTTAAAAATAGCAGATCTTGCC-TCCTGCACCGAC
* ** * * * **** *
20450665 AGCGAAGCAGATCGAATATACCA-ACCTTGCCTCCCTG-GGTTAT
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCT-CCTGCACCGAC
* * *
20450708 AGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCTTGCACCGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTG-CCTCCTGCACCGAC
* * ** * * * * ****
20450753 AGTGAAGCAGATCGAAGACACCAG-CCTTGCCTCTCTGGGTTG-C
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTC-CTGCACCGAC
* *
20450796 GGCGGAA-CAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAT
1 AGC-GAAGCAGGTTAAAAATAGCAGATCTTGCC-TCCTGCACCGAC
* ** * * * * ****
20450841 AGCGAAGCAGATCGAAGACACCAG-CCTTGCCTCCTTGGGTTG-C
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTCC-TGCACCGAC
*
20450884 AGCGAAGTAGGTTAAAAATAGCAGATCTTGCCTACCTGCACCGAC
1 AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCT-CCTGCACCGAC
20450929 AGCGAAGCAG
1 AGCGAAGCAG
20450939 ATCGATGACC
Statistics
Matches: 344, Mismatches: 166, Indels: 58
0.61 0.29 0.10
Matches are distributed among these distances:
43 94 0.27
44 126 0.37
45 117 0.34
46 7 0.02
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (44 bp):
AGCGAAGCAGGTTAAAAATAGCAGATCTTGCCTCCTGCACCGAC
Found at i:20450965 original size:353 final size:353
Alignment explanation
Indices: 20450288--20450966 Score: 1070
Period size: 353 Copynumber: 1.9 Consensus size: 353
20450278 GTGAAGATAA
20450288 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
*
20450353 GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGA
66 ATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGA
* *
20450418 CACTAGCCTAGCCTCCCTGGGTTGCAGCGGAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGCA
131 CACCAGCCTAGCCTCCCTGGGTTGCAGCGGAACAAGTTAAAAATAGCAGATCTTGCCTTCCTGCA
* *
20450483 CCGACAGCGAAGAAGATCGAAGACACCAGTCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAA
196 CCGACAGCGAAGAAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAA
* * * * * *
20450548 ATTGCAGATCTTGCCTTCCTGCACCAACAACGAGGCAGATTGAAGACACCAACCTTGCCTCCCTG
261 ATAGCAGATCTTGCCTACCTGCACCAACAACGAAGCAGATCGAAGACACCAACCCTACCTCCCTG
20450613 GGTTGTAGTGGAGCAAGGTTAAAAATAG
326 GGTTGTAGTGGAGCAAGGTTAAAAATAG
* * * *
20450641 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAATATACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
* * * *
20450706 ATAGCGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCTTGCACCGACAGTGAAGCAGATCGAAGA
66 ATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGA
* * * *
20450771 CACCAGCCTTGCCTCTCTGGGTTGCGGCGGAACAGGTTAAAAATAGCAGATCTTGCCTTCCTGCA
131 CACCAGCCTAGCCTCCCTGGGTTGCAGCGGAACAAGTTAAAAATAGCAGATCTTGCCTTCCTGCA
* * * *
20450836 CCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTTGCAGCGAAGTAGGTTAAAA
196 CCGACAGCGAAGAAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAA
* * * * *
20450901 ATAGCAGATCTTGCCTACCTGCACCGACAGCGAAGCAGATCGATGACCCCAACCCTATCTCCCTG
261 ATAGCAGATCTTGCCTACCTGCACCAACAACGAAGCAGATCGAAGACACCAACCCTACCTCCCTG
20450966 G
326 G
20450967 ACAGTAGTGG
Statistics
Matches: 294, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
353 294 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (353 bp):
CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAACCTTGCCTCCCTGGGTT
ATAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGA
CACCAGCCTAGCCTCCCTGGGTTGCAGCGGAACAAGTTAAAAATAGCAGATCTTGCCTTCCTGCA
CCGACAGCGAAGAAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAA
ATAGCAGATCTTGCCTACCTGCACCAACAACGAAGCAGATCGAAGACACCAACCCTACCTCCCTG
GGTTGTAGTGGAGCAAGGTTAAAAATAG
Found at i:20451004 original size:44 final size:44
Alignment explanation
Indices: 20450954--20451075 Score: 158
Period size: 44 Copynumber: 2.8 Consensus size: 44
20450944 TGACCCCAAC
20450954 CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTAT-AAGT
1 CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTATGAA-T
* * * *
20450998 CCTATCTCTCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTATGAAT
* *
20451042 CCTATCTCCCT-GAGCAATAGTGGAGTAGGTTGAA
1 CCTATCTCCCTGGA-CAGTAGTGGAATAGGTTGAA
20451076 ACTAGTAGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.01
44 64 0.96
45 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTATGAAT
Found at i:20451492 original size:44 final size:43
Alignment explanation
Indices: 20451437--20451943 Score: 184
Period size: 44 Copynumber: 11.7 Consensus size: 43
20451427 GAAGATGGCG
20451437 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * * *
20451481 AATCCTATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * * * * * *
20451525 GATTTTATCTCTCTGAAGTTGCAG-AGAGCGGA-T--CGCATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * * * *
20451565 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * * *
20451608 AAGCCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGC--G
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A--GCAAT
* *
20451654 AATCTTATCTCCCTGAAGTTGCACTGGAGCAGATTTAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * * ** *
20451698 CATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * * * *
20451742 GATCTTATCT-TCTGAAGTTGTAG-AGAGCAGA-T--CGC-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
** * * *** *
20451779 CGGGTTTTATCTCCTTGAAGTTGCAGTGGAGCAGACCCAAGAAAGT
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * * * *
20451825 GAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTCAAGAAATT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * * * * * ** *
20451870 AAGTCTTATCCCCCTAAAATTTCAGTGGGGCAGACTAAATAAACA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* *
20451915 AATCTTATCTCCCTAAAGTTGTAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
20451944 TGGATTAGAA
Statistics
Matches: 347, Mismatches: 83, Indels: 66
0.70 0.17 0.13
Matches are distributed among these distances:
36 1 0.00
38 1 0.00
39 10 0.03
40 29 0.08
41 15 0.04
42 8 0.02
43 26 0.07
44 143 0.41
45 105 0.30
46 7 0.02
47 1 0.00
49 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
Found at i:20451686 original size:45 final size:44
Alignment explanation
Indices: 20451565--20451943 Score: 201
Period size: 45 Copynumber: 8.7 Consensus size: 44
20451555 GATCGCATCT
20451565 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
* *
20451609 AGCCTTATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAG-ATGGCGA
1 AGTCTTATCTC-CCTGAAGTTGTAGTGGA-GCAGACT-AAGTA-AGC-A
* * * * *
20451655 A-TCTTATCTCCCTGAAGTTGCACTGGAGCAGATTTAAGCCAATC-
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CTAAG-TAAGCA
* ** * *
20451699 A-TCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAA--AATCA
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
* * * * * *
20451740 CAGATCTTATCT-TCTGAAGTTGTAG-AGAGCAGA-T-CG-CATCG
1 -AG-TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
* * * * * * **
20451781 GGTTTTATCTCCTTGAAGTTGCAGTGGAGCAGACCCAAGAAAGTG
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-CTAAGTAAGCA
** * **
20451826 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTCAAGAAATTA
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAGTAAGCA
* * * * * *
20451871 AGTCTTATCCCCCTAAAATT-TCAGTGGGGCAGACTAAATAAACA
1 AGTCTTATCTCCCTGAAGTTGT-AGTGGAGCAGACTAAGTAAGCA
* *
20451915 AATCTTATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAG
20451944 TGGATTAGAA
Statistics
Matches: 259, Mismatches: 52, Indels: 48
0.72 0.14 0.13
Matches are distributed among these distances:
39 7 0.03
40 15 0.06
41 11 0.04
42 6 0.02
43 19 0.07
44 94 0.36
45 99 0.38
46 7 0.03
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCA
Found at i:20451843 original size:217 final size:217
Alignment explanation
Indices: 20451422--20451845 Score: 645
Period size: 217 Copynumber: 2.0 Consensus size: 217
20451412 GCAATTTAAA
*
20451422 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCACTGGAGCAGATTAAAGCCAATAATCCT
*
20451487 ATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATTTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
* * * * *
20451552 GCGGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGCCTTAT
131 GCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCAAGAAAGCAAGCCTTAT
20451617 CCTCCTGAAGTTGTAGTGAGGC
196 CCTCCTGAAGTTGTAGTGAGGC
* *
20451639 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCACTGGAGCAGATTTAAGCCAATCATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCACTGGAGCAGATTAAAGCCAATAATCCT
* * * *
20451704 ATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAATCACAGATCTTATCT-TCTGAAGTTGTAGAGA
66 ATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
* * * ** *
20451768 GCAGATCGCATCGGGTTTTATCTCCTTGAAGTTGCAGTGGAGCAGACCCAAGAAAGTGAGTCTTA
131 GCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CCAAGAAAGCAAGCCTTA
20451833 T-CTCCCTGAAGTT
195 TCCT-CCTGAAGTT
20451846 ACAGTGGAGC
Statistics
Matches: 186, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
216 57 0.31
217 129 0.69
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (217 bp):
AGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCACTGGAGCAGATTAAAGCCAATAATCCT
ATCTCCCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
GCAGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCAAGAAAGCAAGCCTTAT
CCTCCTGAAGTTGTAGTGAGGC
Found at i:20451879 original size:217 final size:216
Alignment explanation
Indices: 20451435--20451950 Score: 603
Period size: 217 Copynumber: 2.4 Consensus size: 216
20451425 CTGAAGATGG
*
20451435 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCCAAT-ATCCTATCTCCCTGAAGT
* * * * * *
20451500 CGCAGTGGAGCGGATTAAAATCACAGATTTTATCTCTCTGAAGTTGCAGAGAGCGGATCGCATCT
65 TGTAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCG
* * * *
20451565 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGCCTTATCCTCCTGAAGTTG
130 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCAAGAAAGCAAGCCTTATCCTCCTGAAGTTA
* * **
20451630 TAGTGAGGCAGACTGAAGATGG
195 CAGTGAGGCAGACTCAAGATAA
*
20451652 CGAATCTTATCTCCCTGAAGTTGCACTGGAGCAGATTTAAGCCAATCATCCTATCTCCCTGAAGT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCCAAT-ATCCTATCTCCCTGAAGT
*
20451717 TGTAGTGGAGTGGATTAAAATCACAGATCTTATCT-TCTGAAGTTGTAGAGAGCAGATCGCATCG
65 TGTAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCG
* * * ** *
20451781 GGTTTTATCTCCTTGAAGTTGCAGTGGAGCAGACCCAAGAAAGTGAGTCTTAT-CTCCCTGAAGT
130 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CCAAGAAAGCAAGCCTTATCCT-CCTGAAGT
20451845 TACAGTG-GAGCAGACTCAAGA-AA
193 TACAGTGAG-GCAGACTCAAGATAA
** * * * * * * * * *
20451868 TTAAGTCTTATCCCCCTAAAATTTCAGTGGGGCAGACTAAATAA-ACAA-ATCTTATCTCCCTAA
1 CGAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T--TTAAGCCAATATCCTATCTCCCTGA
20451931 AGTTGTAGTGGAGTGGATTA
62 AGTTGTAGTGGAGTGGATTA
20451951 GAATATCTCT
Statistics
Matches: 256, Mismatches: 36, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
216 60 0.23
217 189 0.74
218 1 0.00
219 3 0.01
220 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (216 bp):
CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCCAATATCCTATCTCCCTGAAGTT
GTAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCGA
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCAAGAAAGCAAGCCTTATCCTCCTGAAGTTAC
AGTGAGGCAGACTCAAGATAA
Found at i:20452484 original size:19 final size:19
Alignment explanation
Indices: 20452457--20452546 Score: 153
Period size: 19 Copynumber: 4.7 Consensus size: 19
20452447 TCTTCAAGGG
20452457 TATGCAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
20452476 TATGTAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
*
20452495 TATGCAATCTTAGAGATGA
1 TATGCAATCTTAGATATGA
*
20452514 TATGTAATCTTAGATATGA
1 TATGCAATCTTAGATATGA
20452533 TATGCAATCTTAGA
1 TATGCAATCTTAGA
20452547 AGATATGATC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.38
Consensus pattern (19 bp):
TATGCAATCTTAGATATGA
Found at i:20452501 original size:38 final size:38
Alignment explanation
Indices: 20452457--20452569 Score: 172
Period size: 38 Copynumber: 2.9 Consensus size: 38
20452447 TCTTCAAGGG
20452457 TATGCAATCTTAGATATGATATGTAATCTTAGATATGA
1 TATGCAATCTTAGATATGATATGTAATCTTAGATATGA
*
20452495 TATGCAATCTTAGAGATGATATGTAATCTTAGATATGA
1 TATGCAATCTTAGATATGATATGTAATCTTAGATATGA
*
20452533 TATGCAATCTTAGAAGATATGATCTTGTAATCTTAGA
1 TATGCAATCTT---AGATATGAT-ATGTAATCTTAGA
20452570 GATTTAATTT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 48 0.71
41 8 0.12
42 12 0.18
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (38 bp):
TATGCAATCTTAGATATGATATGTAATCTTAGATATGA
Found at i:20452568 original size:23 final size:22
Alignment explanation
Indices: 20452457--20452569 Score: 97
Period size: 19 Copynumber: 5.6 Consensus size: 22
20452447 TCTTCAAGGG
20452457 TATGCAATCTT---AGATATGA
1 TATGCAATCTTAGAAGATATGA
*
20452476 TATGTAATCTT---AGATATGA
1 TATGCAATCTTAGAAGATATGA
20452495 TATGCAATCTTAG-AG--ATGA
1 TATGCAATCTTAGAAGATATGA
*
20452514 TATGTAATCTT---AGATATGA
1 TATGCAATCTTAGAAGATATGA
20452533 TATGCAATCTTAGAAGATATGA
1 TATGCAATCTTAGAAGATATGA
* *
20452555 TCTTGTAATCTTAGA
1 T-ATGCAATCTTAGA
20452570 GATTTAATTT
Statistics
Matches: 80, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
17 2 0.03
19 56 0.70
21 2 0.03
22 9 0.11
23 11 0.14
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
TATGCAATCTTAGAAGATATGA
Found at i:20452795 original size:23 final size:23
Alignment explanation
Indices: 20452751--20452795 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
20452741 TCTTATTTTG
* *
20452751 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
20452774 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
20452796 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:20463698 original size:2 final size:2
Alignment explanation
Indices: 20463691--20463751 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
20463681 CTTGCTTTAC
20463691 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20463733 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
20463752 TTTATTTTAN
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20466680 original size:13 final size:13
Alignment explanation
Indices: 20466662--20466687 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20466652 GGCTTCCCCT
20466662 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
20466675 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
20466688 AGTTTAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:20466732 original size:13 final size:13
Alignment explanation
Indices: 20466714--20466739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20466704 AACTTAGTCG
20466714 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
20466727 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
20466740 AGTTTAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:20470366 original size:92 final size:90
Alignment explanation
Indices: 20470209--20470417 Score: 271
Period size: 92 Copynumber: 2.3 Consensus size: 90
20470199 TTGATTTTAG
* *
20470209 TAAATTCATATAAAAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAAAA-A-TTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
20470274 ATTTAAT-ATTAATTATTTTAAATTGTA
64 ATGTAATAATT-ATTATTTTAAATTATA
*
20470301 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAA-AAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
20470365 TATGTAATAATTATTATTTTAAATTATA
63 TATGTAATAATTATTATTTTAAATTATA
*
20470393 CAAATTCATA-AAATATAATTTATTA
1 TAAATTCATATAAA-A-AATTTATTA
20470418 GTTATAATTA
Statistics
Matches: 105, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
90 2 0.02
91 31 0.30
92 66 0.63
93 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAAATTCATATAAAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATAT
GTAATAATTATTATTTTAAATTATA
Found at i:20470380 original size:24 final size:25
Alignment explanation
Indices: 20470345--20470392 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
20470335 TTATGAAATT
20470345 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
20470369 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
20470393 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:20470755 original size:155 final size:157
Alignment explanation
Indices: 20470541--20470855 Score: 553
Period size: 155 Copynumber: 2.0 Consensus size: 157
20470531 TATAAGATAT
**
20470541 TAATTATTAAGAATTTTATTAAATTATATATTTTAATGATGATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATGAAAATATATTTAATAATAATTATGTTT
* * *
20470606 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
20470671 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
20470698 TAATTA-TAAGAATTTTATTAAATTATAT-TTTTAATGAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATGAAAATATATTTAATAATAATTATGTTT
20470761 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
20470826 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
20470853 TAA
1 TAA
20470856 GGGTATTCTA
Statistics
Matches: 151, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
155 123 0.81
156 22 0.15
157 6 0.04
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATGAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:20470999 original size:16 final size:16
Alignment explanation
Indices: 20470978--20471013 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
20470968 GATTTGCTAT
20470978 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20470994 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
20471010 TACA
1 TACA
20471014 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:20474498 original size:4 final size:4
Alignment explanation
Indices: 20474489--20474536 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
20474479 CAAACCAACT
20474489 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
20474537 TAATGAGCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:20478933 original size:3 final size:3
Alignment explanation
Indices: 20478925--20478968 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
20478915 NNNNNNNNNN
20478925 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20478969 ATATATATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:20479023 original size:21 final size:23
Alignment explanation
Indices: 20478999--20479048 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
20478989 TACATATACC
20478999 TATATAAAAAC-TATGAAG-T-AT
1 TATATAAAAACTTA-GAAGTTAAT
*
20479020 TATAAAAAAACTTAGAAGTTAAT
1 TATATAAAAACTTAGAAGTTAAT
20479043 TATATA
1 TATATA
20479049 TATATATACG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 14 0.58
22 3 0.12
23 7 0.29
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (23 bp):
TATATAAAAACTTAGAAGTTAAT
Found at i:20480546 original size:17 final size:18
Alignment explanation
Indices: 20480526--20480600 Score: 55
Period size: 20 Copynumber: 3.8 Consensus size: 18
20480516 AAAGTTTTTT
20480526 AAAATTTTAAATATATTAAA
1 AAAATTTTAAATATATT--A
*
20480546 AAAATTTTAAGTATAATTAATTTT
1 AAAATTTTAA--AT-A-T-A-TTA
20480570 AAAATTTTAAATATATT-
1 AAAATTTTAAATATATTA
20480587 AAAATTTT-AATATA
1 AAAATTTTAAATATA
20480601 CTTATATATA
Statistics
Matches: 48, Mismatches: 1, Indels: 16
0.74 0.02 0.25
Matches are distributed among these distances:
16 6 0.12
17 8 0.17
18 2 0.04
19 1 0.02
20 11 0.23
21 1 0.02
22 4 0.08
23 1 0.02
24 11 0.23
25 1 0.02
26 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (18 bp):
AAAATTTTAAATATATTA
Found at i:20480600 original size:16 final size:17
Alignment explanation
Indices: 20480568--20480600 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20480558 ATAATTAATT
20480568 TTAAAATTTTAAATATA
1 TTAAAATTTTAAATATA
20480585 TTAAAATTTT-AATATA
1 TTAAAATTTTAAATATA
20480601 CTTATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAATTTTAAATATA
Found at i:20480933 original size:12 final size:10
Alignment explanation
Indices: 20480907--20480939 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
20480897 AAATATACTT
20480907 AATATATTAA
1 AATATATTAA
20480917 AATATATTAA
1 AATATATTAA
20480927 AATATATTAA
1 AATATATTAA
20480937 AAT
1 AAT
20480940 TTTGAACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AATATATTAA
Found at i:20490722 original size:56 final size:57
Alignment explanation
Indices: 20490655--20490768 Score: 176
Period size: 56 Copynumber: 2.0 Consensus size: 57
20490645 GAAGAATTCC
* * *
20490655 TATAATCAAGGATTGACTCAATCCTAAAGAAAGAAAGA-AATAAAATCTGATCAAAT
1 TATAACCAAGGATTGACTCAATCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
**
20490711 TATAACCAAGGATTGACTCCGTCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
1 TATAACCAAGGATTGACTCAATCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
20490768 T
1 T
20490769 TGTCTCAATC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
56 34 0.65
57 18 0.35
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (57 bp):
TATAACCAAGGATTGACTCAATCCTAAAGAAAGAAAAATAATAAAATCTCATCAAAT
Found at i:20491169 original size:27 final size:27
Alignment explanation
Indices: 20491135--20491198 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
20491125 ACCATTTTAC
20491135 TGAATTTATAACTCACCAACAATAGGG
1 TGAATTTATAACTCACCAACAATAGGG
20491162 TGAATTTATAACTCACCAACAATAGGG
1 TGAATTTATAACTCACCAACAATAGGG
20491189 TGAATTTATA
1 TGAATTTATA
20491199 TAATCACGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (27 bp):
TGAATTTATAACTCACCAACAATAGGG
Found at i:20492388 original size:29 final size:29
Alignment explanation
Indices: 20492355--20492412 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
20492345 CATCCATCCA
* *
20492355 ATCACACCAATACGTGGCGGTGTGCCACT
1 ATCACACCAATACGTGGCAGTGTGACACT
20492384 ATCACACCAATACGTGGCAGTGTGACACT
1 ATCACACCAATACGTGGCAGTGTGACACT
20492413 CACATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (29 bp):
ATCACACCAATACGTGGCAGTGTGACACT
Found at i:20499691 original size:216 final size:216
Alignment explanation
Indices: 20499285--20499715 Score: 621
Period size: 216 Copynumber: 2.0 Consensus size: 216
20499275 GAAAAGTCCC
* * * * *
20499285 AAAATGTCCAAAGTAACAGTTAAAAAGTCTATAGTGTTTAAACCATAACAAAATATGAAACCTAA
1 AAAATGTCCAAAATAACAGTTAAAAACTCCATAGTGTTTAAACCAGAACAAAATATGAAACCCAA
* * * * * * *
20499350 GCTCTAGTGTTGCCTTCCAATCCTAATTTGGAGGATTACCTGAAACCAAACAAACAAAGACGTGA
66 GATCCAGTATCGCCGTCCAAACCTAATTTGGAGGATTACCTGAAACCAAACAAACAAAGACGTAA
** **
20499415 GCTTAAAGCCTAGTGTGAGTTGTCGCCCAAATTCTCAGTGTGTATTAAAAAAACATATAACGGAA
131 GCTTAAAGCCTAGTGTGAGTTGTCGCCCAAATTCTCAGTGCATATTAAAAAAACATATAACAAAA
* *
20499480 TATCACATAGGTTATCTTTTT
196 TATCACATAGCTTACCTTTTT
* *
20499501 AAAATGTCCAAAATAACAGTTAAAACCTCCATAGTGTTTAAACCAGAACAAAATATGAAACCCGA
1 AAAATGTCCAAAATAACAGTTAAAAACTCCATAGTGTTTAAACCAGAACAAAATATGAAACCCAA
*
20499566 GATCCAGTATCGCCGTCCAAACCTAATTTGGAGGATTACCTGAATCCAAA-AAACAAAGACGTAA
66 GATCCAGTATCGCCGTCCAAACCTAATTTGGAGGATTACCTGAAACCAAACAAACAAAGACGTAA
* * * *
20499630 GCTTAAAGCCTAGTGTGTGTTGTGGCCCACATTCTCAGTGCATATTAGAAAAAAGATATAACAAA
131 GCTTAAAGCCTAGTGTGAGTTGTCGCCCAAATTCTCAGTGCATATTA-AAAAAACATATAACAAA
20499695 ATATCACATAGCTTACCTTTT
195 ATATCACATAGCTTACCTTTT
20499716 CAAATATTTC
Statistics
Matches: 189, Mismatches: 25, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
215 55 0.29
216 134 0.71
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (216 bp):
AAAATGTCCAAAATAACAGTTAAAAACTCCATAGTGTTTAAACCAGAACAAAATATGAAACCCAA
GATCCAGTATCGCCGTCCAAACCTAATTTGGAGGATTACCTGAAACCAAACAAACAAAGACGTAA
GCTTAAAGCCTAGTGTGAGTTGTCGCCCAAATTCTCAGTGCATATTAAAAAAACATATAACAAAA
TATCACATAGCTTACCTTTTT
Found at i:20505993 original size:17 final size:16
Alignment explanation
Indices: 20505964--20506042 Score: 76
Period size: 17 Copynumber: 4.9 Consensus size: 16
20505954 GCAACCTAAT
20505964 TTTTATT-TTTATTTA
1 TTTTATTATTTATTTA
20505979 TTGTTATTATTTATTT-
1 TT-TTATTATTTATTTA
*
20505995 TTTCT-TTCTTTACTTTA
1 TTT-TATTATTTA-TTTA
20506012 -TTTATTACTTTATTTTA
1 TTTTATTA-TTTA-TTTA
20506029 TTTTATTATTTATT
1 TTTTATTATTTATT
20506043 ACTTATTTGG
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
15 10 0.19
16 17 0.32
17 19 0.36
18 7 0.13
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (16 bp):
TTTTATTATTTATTTA
Found at i:20506021 original size:12 final size:12
Alignment explanation
Indices: 20506004--20506050 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
20505994 TTTTCTTTCT
20506004 TTACTTTATTTA
1 TTACTTTATTTA
20506016 TTACTTTATTTTA
1 TTACTTTA-TTTA
*
20506029 TT-TTATTATTTA
1 TTACT-TTATTTA
20506041 TTAC-TTATTT
1 TTACTTTATTT
20506051 GGATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 9 0.30
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:20507077 original size:10 final size:10
Alignment explanation
Indices: 20507051--20507080 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
20507041 GGGAGAGTTA
*
20507051 AGAGAGGTTG
1 AGAGAGTTTG
20507061 AGAGAGTTTG
1 AGAGAGTTTG
20507071 AGAGAGTTTG
1 AGAGAGTTTG
20507081 GCAGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.43, T:0.27
Consensus pattern (10 bp):
AGAGAGTTTG
Found at i:20507647 original size:3 final size:3
Alignment explanation
Indices: 20507641--20507705 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
20507631 TTTTTTTCTC
* * *
20507641 ATT ATT A-T ATT A-T ATT AAT GTT GTT TATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
20507685 ATT -TGT ATT ATT ATT ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT
20507706 GTTGTTGTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
2 5 0.09
3 45 0.85
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (3 bp):
ATT
Done.