Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 167 of 433
Found at i:52179034 original size:29 final size:29
Alignment explanation
Indices: 52179002--52179104 Score: 100
Period size: 29 Copynumber: 3.4 Consensus size: 29
52178992 TAATCACATT
*
52179002 AATATTATATTAATAAAATTATCTAGATA
1 AATATTAAATTAATAAAATTATCTAGATA
** * *
52179031 AATATTAAATTAAATTTAA-TATCTCATATT
1 AATATTAAATT-AATAAAATTATCT-AGATA
* *
52179061 CATATTACATTAATAAAATATTATCTAGATA
1 AATATTAAATTAAT-AAA-ATTATCTAGATA
52179092 AATATTAAATTAA
1 AATATTAAATTAA
52179105 ATTTAATATT
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
29 18 0.32
30 18 0.32
31 15 0.27
32 5 0.09
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (29 bp):
AATATTAAATTAATAAAATTATCTAGATA
Found at i:52179121 original size:59 final size:59
Alignment explanation
Indices: 52179003--52179122 Score: 190
Period size: 61 Copynumber: 2.0 Consensus size: 59
52178993 AATCACATTA
* *
52179003 ATATTATATTAATAAAATTATCTAGATAAATATTAAATTAAATTTAATATCTCATATTC
1 ATATTACATTAATAAAATTATCTAGATAAATATTAAATTAAATTTAATATCTCAAATTC
52179062 ATATTACATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATAT-T-AAATTC
1 ATATTACATTAAT-AAA-ATTATCTAGATAAATATTAAATTAAATTTAATATCTCAAATTC
52179121 AT
1 AT
52179123 TAAAACAATA
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
59 19 0.33
60 4 0.07
61 34 0.60
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (59 bp):
ATATTACATTAATAAAATTATCTAGATAAATATTAAATTAAATTTAATATCTCAAATTC
Found at i:52197051 original size:27 final size:27
Alignment explanation
Indices: 52197017--52197070 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52197007 TGTCATGTGA
* *
52197017 AATTGAATGCCAAATTATTGTTACATG
1 AATTGAATGCCAAATTACTATTACATG
**
52197044 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGCCAAATTACTATTACATG
52197071 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGCCAAATTACTATTACATG
Found at i:52197447 original size:50 final size:50
Alignment explanation
Indices: 52197315--52197461 Score: 206
Period size: 49 Copynumber: 3.0 Consensus size: 50
52197305 ATCTATTGTG
*
52197315 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * **
52197365 -TGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
52197414 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
52197462 CCTTGTCTAC
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 42 0.52
50 39 0.48
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:52197504 original size:99 final size:98
Alignment explanation
Indices: 52197315--52197505 Score: 226
Period size: 99 Copynumber: 1.9 Consensus size: 98
52197305 ATCTATTGTG
* * * * * *
52197315 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTTGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTGTCACAAGTGTAGA
* *
52197380 ACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 AATAAGTGCAGGCTACTA-GAGTATCAGATGGTT
*
52197414 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACCTTGTCTACAAGTGT-
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-CTTGTC-ACAAGTGTA
*
52197478 GAAAATATGTGCAGGC-ACCT-GAGTATCA
64 G-AAATAAGTGCAGGCTA-CTAGAGTATCA
52197506 ATTATTATTC
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
99 52 0.67
100 7 0.09
101 19 0.24
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (98 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACTTGTCACAAGTGTAGA
AATAAGTGCAGGCTACTAGAGTATCAGATGGTT
Found at i:52200663 original size:48 final size:48
Alignment explanation
Indices: 52200591--52200909 Score: 242
Period size: 48 Copynumber: 6.6 Consensus size: 48
52200581 TATGAGTGCC
*
52200591 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATGTGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATGTGAGAGCT
* * * * * *
52200639 GGTGTAAGACCATGTTTGGAACATGGCATCGGCGATGTTGTGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATGTGAGAGCT
* * * * *
52200687 AGTGTAAGACCATGTCTGGGACATGGCATTGG-CATTGATATGTGCA-CT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGATGTGAG-AGCT
* * * * *
52200735 AGAT-TAAGACCATGTCTAGGACATGGCATCGGCCAC-ATTATGAAAGCC
1 AG-TGTAAGACCATGTTTGGGACATGGCATCGGCCACGA-TGTGAGAGCT
* * * * ** *
52200783 AGTGTAAGACCATGTCTAGGAGATGGCTTTAG-CATTGA-GATGAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGATG-TGAGAGCT
* *
52200831 AGTGTAAGACCATGTCTGGGACATGGCATCGATCTCAAC-ATGT--GAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCG-GC-C-ACGATGTGAGAGCT
**
52200879 AGTGTAAGACCATGTTTGAAACATGGCATCG
1 AGTGTAAGACCATGTTTGGGACATGGCATCG
52200910 ATAGTTCATC
Statistics
Matches: 216, Mismatches: 40, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
47 6 0.03
48 200 0.93
49 5 0.02
50 2 0.01
51 2 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGATGTGAGAGCT
Found at i:52200759 original size:96 final size:96
Alignment explanation
Indices: 52200581--52200907 Score: 338
Period size: 96 Copynumber: 3.4 Consensus size: 96
52200571 ATTTGGGTGA
* * * * *
52200581 TATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATGTGAGAGCTGGTGTA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGG-CATTGATATGAGAGCTAGTGTA
* * **
52200645 AGACCATGT-TTGGAACATGGCATCGGCGATGT
65 AGACCATGTCTAGG-ACATGGCATCGGCCACAT
* *
52200677 TGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGTGCA-CTAGAT-T
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGAG-AGCTAG-TGT
52200740 AAGACCATGTCTAGGACATGGCATCGGCCACAT
64 AAGACCATGTCTAGGACATGGCATCGGCCACAT
* * * * * *
52200773 TATGAAAGCCAGTGTAAGACCATGTCTAGGAGATGGCTTTAGCATTGAGATGAGAGCTAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGAGAGCTAGTGTAA
* ** * *
52200838 GACCATGTCTGGGACATGGCATCGATCTCAA
66 GACCATGTCTAGGACATGGCATCGGCCACAT
* * * * **
52200869 CATGTGAGCTAGTGTAAGACCATGTTTGAAACATGGCAT
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
52200908 CGATAGTTCA
Statistics
Matches: 191, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
95 4 0.02
96 182 0.95
97 5 0.03
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (96 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGAGAGCTAGTGTAA
GACCATGTCTAGGACATGGCATCGGCCACAT
Found at i:52200838 original size:144 final size:144
Alignment explanation
Indices: 52200595--52200859 Score: 358
Period size: 144 Copynumber: 1.8 Consensus size: 144
52200585 AGTGCCAGTG
* * * ** *
52200595 TAAGACCATGTCTGGGACATGGCATCGGCCACGATGTGAGAGCTGGTGTAAGACCATGTTTGGAA
1 TAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAAAGCCAGTGTAAGACCATGTTAGGAA
* *
52200660 CATGGCATCGGCGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGA
66 CATGGCATCAGCGATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGA
52200725 TATGTGCACTAGAT
131 TATGTGCACTAGAT
52200739 TAAGACCATGTCTAGGACATGGCATCGGCCAC-ATTATGAAAGCCAGTGTAAGACCATGTCTAGG
1 TAAGACCATGTCTAGGACATGGCATCGGCCACGA-TATGAAAGCCAGTGTAAGACCATGT-TAGG
* * * *
52200803 -AGATGGCTTTAGC-AT-TGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
64 AACATGGCATCAGCGATGT-AG-TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
52200860 CGATCTCAAC
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
142 1 0.01
143 4 0.04
144 97 0.92
145 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (144 bp):
TAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAAAGCCAGTGTAAGACCATGTTAGGAA
CATGGCATCAGCGATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGA
TATGTGCACTAGAT
Found at i:52200874 original size:144 final size:144
Alignment explanation
Indices: 52200591--52200893 Score: 343
Period size: 144 Copynumber: 2.1 Consensus size: 144
52200581 TATGAGTGCC
* * * ** *
52200591 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATGTGAGAGCTGGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAAAGCCAGTGTAAGACCATGTTA
* * *
52200656 GGAACATGGCATCGGCGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCA
66 GGAACATGGCATCAGCGATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTCGCA
* *
52200721 TTGATATGTGCA-CT
131 TTAACATGTG-AGCT
52200735 AGAT-TAAGACCATGTCTAGGACATGGCATCGGCCAC-ATTATGAAAGCCAGTGTAAGACCATGT
1 AG-TGTAAGACCATGTCTAGGACATGGCATCGGCCACGA-TATGAAAGCCAGTGTAAGACCATGT
* * * *
52200798 CTAGG-AGATGGCTTTAGC-AT-TGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCA-
64 -TAGGAACATGGCATCAGCGATGT-AG-TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
52200859 TCG-ATCTCAACATGTGAGCT
126 TCGCAT-T-AACATGTGAGCT
52200879 AGTGTAAGACCATGT
1 AGTGTAAGACCATGT
52200894 TTGAAACATG
Statistics
Matches: 135, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
142 3 0.02
143 9 0.07
144 119 0.88
145 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (144 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATATGAAAGCCAGTGTAAGACCATGTTA
GGAACATGGCATCAGCGATGTAGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTCGCA
TTAACATGTGAGCT
Found at i:52206003 original size:13 final size:13
Alignment explanation
Indices: 52205985--52206024 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
52205975 TCTAAGTAGG
52205985 GTCACACAACCGT
1 GTCACACAACCGT
52205998 GTCACACAACCGT
1 GTCACACAACCGT
52206011 GT-AC-CAAGCCGT
1 GTCACACAA-CCGT
52206023 GT
1 GT
52206025 AACTCTCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 3 0.12
12 8 0.31
13 15 0.58
ACGTcount: A:0.28, C:0.35, G:0.20, T:0.17
Consensus pattern (13 bp):
GTCACACAACCGT
Found at i:52206066 original size:12 final size:12
Alignment explanation
Indices: 52206049--52206074 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52206039 TCCAACACAC
52206049 CCGTGTGCTAGG
1 CCGTGTGCTAGG
52206061 CCGTGTGCTAGG
1 CCGTGTGCTAGG
52206073 CC
1 CC
52206075 ATGTAACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:52209803 original size:46 final size:46
Alignment explanation
Indices: 52209736--52209911 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
52209726 TGTAACCAGC
* *
52209736 CCATAAGCGAACTCAGACTCAACTCAACGAGCTTGGGCATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* ** *
52209782 CCATAAGTGAACTTGGACTCAACTCAACGAGCTC-GA-ATGC-CTAGTT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* * *
52209828 ACATCTCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCA--TAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
52209875 CCATAAGTGAACTCAGACCCAACTCAATGAGCTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
52209912 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 3 0.03
46 59 0.57
47 28 0.27
48 4 0.04
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:52209851 original size:93 final size:93
Alignment explanation
Indices: 52209743--52209915 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
52209733 AGCCCATAAG
* * ** *
52209743 CGAACTCAGACTCAACTCAACGAGCTTGGGCATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACCCAACTCA
52209808 ACGAGCTCGAATGCCTAGTTACATCTCA
66 ACGAGCTCGAATGCCTAGTTACATCTCA
*
52209836 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACCCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACCCAACTCA
* *
52209901 ATGAGCTCGGATGCC
66 ACGAGCTCGAATGCC
52209916 CAAATATCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACCCAACTCA
ACGAGCTCGAATGCCTAGTTACATCTCA
Found at i:52215877 original size:57 final size:57
Alignment explanation
Indices: 52215813--52215926 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
52215803 ATGGCCTTAT
*
52215813 ACCAAATAAATCAAATATCAATATAAGTCAATTTACATGGCTTCACATTACATCAAA
1 ACCAAATAAATCAAATATCAATATAAGCCAATTTACATGGCTTCACATTACATCAAA
*
52215870 ACCAAATAAATCAAATATCAATATAAGCCAATTTACATGGCTTCACATTTCATCAAA
1 ACCAAATAAATCAAATATCAATATAAGCCAATTTACATGGCTTCACATTACATCAAA
52215927 GCCTTAACCA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.28
Consensus pattern (57 bp):
ACCAAATAAATCAAATATCAATATAAGCCAATTTACATGGCTTCACATTACATCAAA
Found at i:52219104 original size:40 final size:40
Alignment explanation
Indices: 52219049--52219230 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
52219039 TATTCGAATG
* *
52219049 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACT
52219089 ATATCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
52219129 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
52219169 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCAAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
52219209 ATATTC-GGCTAAA-TCCCGAAGG
1 ATATCCGGGC-AAAGTCCCGAAGG
52219231 TACTTGGGTT
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 11 0.09
40 116 0.90
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:52222329 original size:26 final size:26
Alignment explanation
Indices: 52222300--52222403 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
52222290 ATTCCCATCT
*
52222300 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
52222326 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
52222352 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
52222378 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
52222404 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:52229165 original size:47 final size:47
Alignment explanation
Indices: 52229111--52229352 Score: 313
Period size: 47 Copynumber: 5.1 Consensus size: 47
52229101 TTAGGATTTT
** *
52229111 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
* * *
52229158 ATGTGATGAATGTGAACCTGTATATATATGTGTGATAAAGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--TATATA--TGAGATAAGGCCGAATGGCCA
* ** * *
52229209 ATATGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
*
52229256 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
* * *
52229303 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
52229350 ATG
1 ATG
52229353 AGAAATGTGT
Statistics
Matches: 172, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
47 127 0.74
49 9 0.05
51 36 0.21
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCGAATGGCCA
Found at i:52229388 original size:46 final size:46
Alignment explanation
Indices: 52229326--52229461 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
52229316 GAACATGTAT
*
52229326 ATATGTGGTAAGGCCGAATGGCTAATGAGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGAGAAATGTGTATGAGATAG
* * * *
52229372 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGAGAAATGTGTATGAGATAG
* * *
52229418 ATATGTGGTAAAGCCAAATGGCTAATGTA-AGATATGTATGAGAT
1 ATATGTGGTAAAGCCGAATGGCTAATG-AGAAATGTGTATGAGAT
52229462 GAGTATATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.36, C:0.08, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGAGAAATGTGTATGAGATAG
Found at i:52231021 original size:40 final size:40
Alignment explanation
Indices: 52230966--52231152 Score: 311
Period size: 40 Copynumber: 4.7 Consensus size: 40
52230956 AGAGTTATAT
52230966 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
*
52231006 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
*
52231046 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
* * *
52231086 ATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGTTGC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
* *
52231126 ATCCGGGCTAAGTCCTGAAGGGCATTC
1 ATCCGGGCTAAGTCCCGAAGAGCATTC
52231153 ATGCCGGTGA
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTAC
Found at i:52231364 original size:25 final size:25
Alignment explanation
Indices: 52231325--52231379 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
52231315 TGTGTAATAA
52231325 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGGCACTATGTGTG
52231350 CGAATGAAT-TGAGGCACTATGTGTG
1 CGAATGAATAT-AGGCACTATGTGTG
52231375 CGAAT
1 CGAAT
52231380 TCTTTAACCG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (25 bp):
CGAATGAATATAGGCACTATGTGTG
Found at i:52233992 original size:24 final size:24
Alignment explanation
Indices: 52233962--52234276 Score: 558
Period size: 24 Copynumber: 13.1 Consensus size: 24
52233952 GAATGTGACT
* *
52233962 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
52233986 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
52234010 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
52234034 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
52234058 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
52234082 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
52234106 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
52234130 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
52234154 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
52234178 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
52234202 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
52234226 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
52234250 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
52234274 ATA
1 ATA
52234277 TGGTCTTTGC
Statistics
Matches: 281, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 281 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:52236940 original size:2 final size:2
Alignment explanation
Indices: 52236935--52236972 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
52236925 TATATATATA
52236935 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
52236973 ATTGTTCCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:52246952 original size:2 final size:2
Alignment explanation
Indices: 52246945--52246970 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
52246935 CGGCTCTAGC
52246945 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
52246971 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52247779 original size:40 final size:40
Alignment explanation
Indices: 52247680--52247859 Score: 157
Period size: 40 Copynumber: 4.5 Consensus size: 40
52247670 TCGAATGGTG
* * * *
52247680 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAATGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
52247721 TCCGGG-TCAACTCGCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
52247761 ACCGGGTTAAGTCCCGAAGGCATTCGTGAGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
52247801 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
52247842 -CCAGGCTATGTCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
52247860 ATAATCGAGC
Statistics
Matches: 110, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
40 83 0.75
41 27 0.25
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:52255060 original size:2 final size:2
Alignment explanation
Indices: 52255053--52255080 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
52255043 CGGCTCTAGC
52255053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52255081 GTTGCACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52255887 original size:40 final size:40
Alignment explanation
Indices: 52255791--52255969 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
52255781 CGAATGGTGT
* * * *
52255791 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
52255832 CCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
52255872 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
52255912 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
52255952 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
52255970 ACAATCGAGC
Statistics
Matches: 114, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
40 89 0.78
41 25 0.22
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:52255930 original size:80 final size:80
Alignment explanation
Indices: 52255791--52255983 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
52255781 CGAATGGTGT
* * * *
52255791 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* *
52255856 GTGCGAGTTACCAAAA
65 GTGCGAATCACCAAAA
* * * *
52255872 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGG-CTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAATT
* *
52255936 GTGCGAATCACTATAA
65 GTGCGAATCACCAAAA
* * * *
52255952 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
52255984 CGCTATATCC
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 68 0.72
81 25 0.27
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATTG
TGCGAATCACCAAAA
Found at i:52255990 original size:40 final size:40
Alignment explanation
Indices: 52255912--52255995 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
52255902 GTTATTAAAT
* * *
52255912 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
52255952 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
52255992 CCGG
1 CCGG
52255996 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:52258530 original size:32 final size:32
Alignment explanation
Indices: 52258493--52258554 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
52258483 TTACAAAGCT
*
52258493 TTTAGATAAAGAGGGATTTTGGATAATTAGCC
1 TTTAGATAAAGAGAGATTTTGGATAATTAGCC
*
52258525 TTTAGATAAGGAGAGATTTTGGATAATTAG
1 TTTAGATAAAGAGAGATTTTGGATAATTAG
52258555 GGAGAGTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (32 bp):
TTTAGATAAAGAGAGATTTTGGATAATTAGCC
Found at i:52261958 original size:37 final size:36
Alignment explanation
Indices: 52261908--52261994 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
52261898 TACGAAGTCT
52261908 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
52261944 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
52261981 TCACCCGGAACATA
1 T-ACCCGG-ACATA
52261995 TTTCCAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:52262141 original size:49 final size:49
Alignment explanation
Indices: 52262077--52262416 Score: 617
Period size: 49 Copynumber: 6.9 Consensus size: 49
52262067 AGATATACGC
*
52262077 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
1 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
*
52262126 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATATACAT
1 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCAC--ATATATATACAT
52262177 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
1 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
52262226 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
1 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
52262275 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
1 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
*
52262324 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
1 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
*
52262373 TTTCACGTTCATCACATCGGCCATTAGGCCTTATATACATATAT
1 TTTCACGTTCATCACATCGGCCATTAGGCCTTAT-CACATATAT
52262417 TATTATGTAC
Statistics
Matches: 284, Mismatches: 4, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
49 228 0.80
50 8 0.03
51 48 0.17
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (49 bp):
TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
Found at i:52266286 original size:20 final size:20
Alignment explanation
Indices: 52266257--52266307 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
52266247 GTATCTATCT
*
52266257 GGTATCGATACT-TTTCTTAA
1 GGTATCGATA-TATTTCATAA
*
52266277 GGTATTGATATATTTCATAA
1 GGTATCGATATATTTCATAA
52266297 GGTATCGATAT
1 GGTATCGATAT
52266308 TCCTGCTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (20 bp):
GGTATCGATATATTTCATAA
Found at i:52271794 original size:46 final size:46
Alignment explanation
Indices: 52271744--52271916 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
52271734 TGGTTGAGCA
52271744 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
52271790 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
52271835 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
52271883 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52271917 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:52271900 original size:93 final size:93
Alignment explanation
Indices: 52271741--52271911 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
52271731 GGATGGTTGA
* *
52271741 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52271806 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
52271834 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52271899 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52271912 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:52278202 original size:524 final size:524
Alignment explanation
Indices: 52277214--52278785 Score: 3117
Period size: 524 Copynumber: 3.0 Consensus size: 524
52277204 TCTTGGACTT
52277214 TCTTTTTAGTATTTTTGAGTAAGACATTAAGTTCTTTGCTTAATCATGACCAAAATTATGGTGTT
1 TCTTTTTAGTATTTTTGAGTAAGACATTAAGTTCTTTGCTTAATCATGACCAAAATTATGGTGTT
52277279 GTGATGTATTCGGTCATGGTATATCCATAAGTATGATTCATGCATGTTGCATGGTAGGTAAGATT
66 GTGATGTATTCGGTCATGGTATATCCATAAGTATGATTCATGCATGTTGCATGGTAGGTAAGATT
52277344 TGAGCTTTGGATATGTGTTTATATTTGGATATAAACAACTTGAGATTCGGCCCTTGCACCTACAT
131 TGAGCTTTGGATATGTGTTTATATTTGGATATAAACAACTTGAGATTCGGCCCTTGCACCTACAT
52277409 GAATATATGTTTGCACATGATGTATTGGTATGACATATATACTATTTTAAGGTGTATATTTGCTT
196 GAATATATGTTTGCACATGATGTATTGGTATGACATATATACTATTTTAAGGTGTATATTTGCTT
52277474 GTGATGTTGTTTCGGTTATGAAGTAAATGAGAGATGTGTATTGAGCTACAATATGTAATGCGTTA
261 GTGATGTTGTTTCGGTTATGAAGTAAATGAGAGATGTGTATTGAGCTACAATATGTAATGCGTTA
52277539 GTTAGTAAAATGTATGCTGTTTTTTTTGTGTAGTATTAAGTGTAAAATTGGCCTCAACATAGACA
326 GTTAGTAAAATGTATGCTGTTTTTTTTGTGTAGTATTAAGTGTAAAATTGGCCTCAACATAGACA
52277604 TGCATATTCGGCCAAATGAAGTAGATTGGTGTGCATGTATTCGGTTAGAGGCAACCATATTGAAG
391 TGCATATTCGGCCAAATGAAGTAGATTGGTGTGCATGTATTCGGTTAGAGGCAACCATATTGAAG
52277669 CCTTATCTTCGCTTAGATTATTGACTAAATGGGTAATAAGTGAGGATGGTTGCCAAATATACAAA
456 CCTTATCTTCGCTTAGATTATTGACTAAATGGGTAATAAGTGAGGATGGTTGCCAAATATACAAA
52277734 CATA
521 CATA
52277738 TCTTTTTAGTATTTTTGAGTAAGACATTAAGTTCTTTGCTTAATCATGACCAAAATTATGGTGTT
1 TCTTTTTAGTATTTTTGAGTAAGACATTAAGTTCTTTGCTTAATCATGACCAAAATTATGGTGTT
52277803 GTGATGTATTCGGTCATGGTATATCCATAAGTATGATTCATGCATGTTGCATGGTAGGTAAGATT
66 GTGATGTATTCGGTCATGGTATATCCATAAGTATGATTCATGCATGTTGCATGGTAGGTAAGATT
52277868 TGAGCTTTGGATATGTGTTTATATTTGGATATAAACAACTTGAGATTCGGCCCTTGCACCTACAT
131 TGAGCTTTGGATATGTGTTTATATTTGGATATAAACAACTTGAGATTCGGCCCTTGCACCTACAT
52277933 GAATATATGTTTGCACATGATGTATTGGTATGACATATATACTATTTTAAGGTGTATATTTGCTT
196 GAATATATGTTTGCACATGATGTATTGGTATGACATATATACTATTTTAAGGTGTATATTTGCTT
*
52277998 GTGATGTTGTTTCAGTTATGAAGTAAATGAGAGATGTGTATTGAGCTACAATATGTAATGCGTTA
261 GTGATGTTGTTTCGGTTATGAAGTAAATGAGAGATGTGTATTGAGCTACAATATGTAATGCGTTA
52278063 GTTAGTAAAATGTATGCTGTTTTTTTTGTGTAGTATTAAGTGTAAAATTGGCCTCAACATAGACA
326 GTTAGTAAAATGTATGCTGTTTTTTTTGTGTAGTATTAAGTGTAAAATTGGCCTCAACATAGACA
52278128 TGCATATTCGGCCAAATGAAGTAGATTGGTGTGCATGTATTCGGTTAGAGGCAACCATATTGAAG
391 TGCATATTCGGCCAAATGAAGTAGATTGGTGTGCATGTATTCGGTTAGAGGCAACCATATTGAAG
52278193 CCTTATCTTCGCTTAGATTATTGACTAAATGGGTAATAAGTGAGGATGGTTGCCAAATATACAAA
456 CCTTATCTTCGCTTAGATTATTGACTAAATGGGTAATAAGTGAGGATGGTTGCCAAATATACAAA
52278258 CATA
521 CATA
52278262 TCTTTTTAGTATTTTTGAGTAAGACATTAAGTTCTTTGCTTAATCATGACCAAAATTATGGTGTT
1 TCTTTTTAGTATTTTTGAGTAAGACATTAAGTTCTTTGCTTAATCATGACCAAAATTATGGTGTT
52278327 GTGATGTATTCGGTCATGGTATATCCATAAGTATGATTCATGCATGTTGCATGGTAGGTAAGATT
66 GTGATGTATTCGGTCATGGTATATCCATAAGTATGATTCATGCATGTTGCATGGTAGGTAAGATT
52278392 TGAGCTTTGGATATGTGTTTATATTTGGATATAAACAACTTGAGATTCGGCCCTTGCACCTACAT
131 TGAGCTTTGGATATGTGTTTATATTTGGATATAAACAACTTGAGATTCGGCCCTTGCACCTACAT
52278457 GAATATATGTTTGCACATGATGTATTGGTATGACATATATACTATTTTAAGGTGTATATTTGCTT
196 GAATATATGTTTGCACATGATGTATTGGTATGACATATATACTATTTTAAGGTGTATATTTGCTT
*
52278522 GTGATGTTGTTTCGGTTATGAAATAAATGAGAGATGTGTATTGAGCTACAATATGTAATGCGTTA
261 GTGATGTTGTTTCGGTTATGAAGTAAATGAGAGATGTGTATTGAGCTACAATATGTAATGCGTTA
52278587 GTTAGTAAAATGTATGCTGTTTTTTTTGTGTAGTATTAAGTGTAAAATTGGCCTCAACATAGACA
326 GTTAGTAAAATGTATGCTGTTTTTTTTGTGTAGTATTAAGTGTAAAATTGGCCTCAACATAGACA
52278652 TGCATATTCGGCCAAATGAAGTAGATTGGTGTGCATGTATTCGGTTAGAGGCAACCATATTGAAG
391 TGCATATTCGGCCAAATGAAGTAGATTGGTGTGCATGTATTCGGTTAGAGGCAACCATATTGAAG
*
52278717 CCTTATCTTCGCTTAGATTATTGACTAAATGGGTAATAAGTGAGGATGGTTGCCGAATATACAAA
456 CCTTATCTTCGCTTAGATTATTGACTAAATGGGTAATAAGTGAGGATGGTTGCCAAATATACAAA
52278782 CATA
521 CATA
52278786 CATATGCATG
Statistics
Matches: 1044, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
524 1044 1.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (524 bp):
TCTTTTTAGTATTTTTGAGTAAGACATTAAGTTCTTTGCTTAATCATGACCAAAATTATGGTGTT
GTGATGTATTCGGTCATGGTATATCCATAAGTATGATTCATGCATGTTGCATGGTAGGTAAGATT
TGAGCTTTGGATATGTGTTTATATTTGGATATAAACAACTTGAGATTCGGCCCTTGCACCTACAT
GAATATATGTTTGCACATGATGTATTGGTATGACATATATACTATTTTAAGGTGTATATTTGCTT
GTGATGTTGTTTCGGTTATGAAGTAAATGAGAGATGTGTATTGAGCTACAATATGTAATGCGTTA
GTTAGTAAAATGTATGCTGTTTTTTTTGTGTAGTATTAAGTGTAAAATTGGCCTCAACATAGACA
TGCATATTCGGCCAAATGAAGTAGATTGGTGTGCATGTATTCGGTTAGAGGCAACCATATTGAAG
CCTTATCTTCGCTTAGATTATTGACTAAATGGGTAATAAGTGAGGATGGTTGCCAAATATACAAA
CATA
Found at i:52279225 original size:27 final size:28
Alignment explanation
Indices: 52279169--52279238 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
52279159 AAACTTGTAC
52279169 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
52279197 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
52279224 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
52279239 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:52279249 original size:27 final size:27
Alignment explanation
Indices: 52279169--52279250 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
52279159 AAACTTGTAC
* *
52279169 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
52279197 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
52279224 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
52279251 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:52283641 original size:46 final size:46
Alignment explanation
Indices: 52283591--52283712 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
52283581 TGAGCATCCA
* *
52283591 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
*
52283637 AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
* *
52283683 AGCTCGTTGAGTTGAATCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
52283713 GGGACGGGTT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
Found at i:52293628 original size:36 final size:36
Alignment explanation
Indices: 52293562--52293630 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
52293552 GACATCATAG
* * *
52293562 ATGCAGGGCACGCTAACGTTGTTAAGAATGATACTT
1 ATGCAGGGCACGCTAACGTTATCAAAAATGATACTT
*
52293598 ATGCAGGGCA-GACTAATGTTATCAAAAATGATA
1 ATGCAGGGCACG-CTAACGTTATCAAAAATGATA
52293631 TTTTACAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 1 0.04
36 27 0.96
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (36 bp):
ATGCAGGGCACGCTAACGTTATCAAAAATGATACTT
Found at i:52294606 original size:28 final size:28
Alignment explanation
Indices: 52294563--52294617 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
52294553 TAGTAAGGAT
52294563 TAAGGAAATCACTGAATCAACATAATCA
1 TAAGGAAATCACTGAATCAACATAATCA
* *
52294591 TAAGGAAATCATTGAATCTACATAATC
1 TAAGGAAATCACTGAATCAACATAATC
52294618 CTGGACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (28 bp):
TAAGGAAATCACTGAATCAACATAATCA
Found at i:52295981 original size:18 final size:18
Alignment explanation
Indices: 52295958--52295993 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
52295948 CTTTAGGCTT
52295958 TTAGGTGAAAGGGTCCAA
1 TTAGGTGAAAGGGTCCAA
52295976 TTAGGTGAAAGGGTCCAA
1 TTAGGTGAAAGGGTCCAA
52295994 AGAATAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (18 bp):
TTAGGTGAAAGGGTCCAA
Found at i:52296592 original size:15 final size:16
Alignment explanation
Indices: 52296572--52296604 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
52296562 TATATATTTT
52296572 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
52296587 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
52296604 T
1 T
52296605 ATAACGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:52296677 original size:21 final size:22
Alignment explanation
Indices: 52296651--52296709 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
52296641 GTTTTAAGAA
*
52296651 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
52296672 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
52296694 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
52296710 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:52296724 original size:26 final size:24
Alignment explanation
Indices: 52296680--52296729 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
52296670 ATTTGTTTTA
*
52296680 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
52296704 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
52296730 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:52298559 original size:136 final size:137
Alignment explanation
Indices: 52298315--52298600 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
52298305 CATTGGGCCT
** **
52298315 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTAATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
52298380 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
52298444 CATATGC
131 CATATGC
52298451 AAGCCCATTTGGGTAACAGTAATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTAATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
52298516 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
52298581 CATATGC
131 CATATGC
52298588 AAGCCCATTTGGG
1 AAGCCCATTTGGG
52298601 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 122 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTAATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:52300417 original size:26 final size:26
Alignment explanation
Indices: 52300381--52300568 Score: 306
Period size: 26 Copynumber: 7.2 Consensus size: 26
52300371 CATGATATTC
*
52300381 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
52300407 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
52300433 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
52300459 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCTA
*
52300485 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
52300511 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
52300537 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
52300563 TTATCA
1 TTATCA
52300569 ATTTGTATCA
Statistics
Matches: 154, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
25 2 0.01
26 150 0.97
27 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:52301157 original size:12 final size:12
Alignment explanation
Indices: 52301136--52301168 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
52301126 TATTTAAGTA
52301136 TAAA-TTATTTT
1 TAAATTTATTTT
*
52301147 TTAATTTATTTT
1 TAAATTTATTTT
52301159 TAAATTTATT
1 TAAATTTATT
52301169 GAAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 3 0.16
12 16 0.84
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TAAATTTATTTT
Found at i:52301915 original size:33 final size:33
Alignment explanation
Indices: 52301876--52301945 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
52301866 ATCTATTCTA
* *
52301876 AAAAGAAAGGAGAAAAC-CTAATCTAAAAAAATG
1 AAAAGAAAAGA-AAAACGCTAACCTAAAAAAATG
**
52301909 AAAAGAAAAGAAAAACGCTAACCTAAAACTATG
1 AAAAGAAAAGAAAAACGCTAACCTAAAAAAATG
52301942 AAAA
1 AAAA
52301946 CCCAAGAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 5 0.16
33 27 0.84
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.11
Consensus pattern (33 bp):
AAAAGAAAAGAAAAACGCTAACCTAAAAAAATG
Found at i:52304828 original size:19 final size:18
Alignment explanation
Indices: 52304794--52304860 Score: 56
Period size: 18 Copynumber: 3.9 Consensus size: 18
52304784 TCTTTCTAGT
52304794 TTATTTTTATTTATTAAA
1 TTATTTTTATTTATTAAA
*
52304812 TTA-TTTT-TCT-TT-AA
1 TTATTTTTATTTATTAAA
52304826 TTAATTTTTATTT-TTAAA
1 TT-ATTTTTATTTATTAAA
52304844 TTTATTATTT-TTTATTA
1 -TTATT-TTTATTTATTA
52304861 TCCCGGATCG
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
14 4 0.10
15 3 0.08
16 6 0.15
17 8 0.20
18 11 0.28
19 8 0.20
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTTTATTTATTAAA
Found at i:52304851 original size:15 final size:14
Alignment explanation
Indices: 52304796--52304855 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 14
52304786 TTTCTAGTTT
52304796 ATTTTTATTTATTAA
1 ATTTTTATTT-TTAA
52304811 ATTATTT-TTCTTTAATTA
1 ATT-TTTATT-TTT-A--A
52304829 ATTTTTATTTTTAA
1 ATTTTTATTTTTAA
52304843 ATTTATTATTTTT
1 ATTT-TTATTTTT
52304856 TATTATCCCG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
14 5 0.13
15 15 0.39
16 6 0.16
17 6 0.16
18 6 0.16
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTATTTTTAA
Found at i:52305115 original size:16 final size:16
Alignment explanation
Indices: 52305091--52305185 Score: 59
Period size: 16 Copynumber: 5.5 Consensus size: 16
52305081 AATGGATAAA
*
52305091 TTATCTAATTAAA-ATT
1 TTATTTAATTAAATA-T
52305107 TTATTTAATTAAATAT
1 TTATTTAATTAAATAT
52305123 TTATTTAAATTTTAAAAATTAT
1 TTATTT-AA--TT--AAA-TAT
* * *
52305145 GATTATCTAATT-ATTTT
1 --TTATTTAATTAAATAT
52305162 TTATTTAATTAAATAT
1 TTATTTAATTAAATAT
52305178 TTATTTAA
1 TTATTTAA
52305186 ATTTTAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
15 9 0.15
16 30 0.48
17 5 0.08
18 1 0.02
19 2 0.03
21 5 0.08
22 3 0.05
23 2 0.03
24 5 0.08
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (16 bp):
TTATTTAATTAAATAT
Found at i:52305164 original size:55 final size:56
Alignment explanation
Indices: 52305090--52305206 Score: 191
Period size: 55 Copynumber: 2.1 Consensus size: 56
52305080 AAATGGATAA
**
52305090 ATTATCTAATTAAAATTTTATTTAATTAAATATTTATTTAAATTTTAAAAATTATG
1 ATTATCTAATTAAAATTTTATTTAATTAAATATTTATTTAAATTTTAAAAAACATG
**
52305146 ATTATCTAATT-ATTTTTTATTTAATTAAATATTTATTTAAATTTTAAAAAACATG
1 ATTATCTAATTAAAATTTTATTTAATTAAATATTTATTTAAATTTTAAAAAACATG
52305201 ATTATC
1 ATTATC
52305207 ATTATCTATT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 46 0.81
56 11 0.19
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (56 bp):
ATTATCTAATTAAAATTTTATTTAATTAAATATTTATTTAAATTTTAAAAAACATG
Found at i:52306876 original size:26 final size:26
Alignment explanation
Indices: 52306847--52306950 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
52306837 TGGAACAAAT
52306847 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
52306873 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52306899 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52306925 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52306951 AGATGGGAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:52308590 original size:27 final size:27
Alignment explanation
Indices: 52308550--52308690 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
52308540 AGGAAGCGTC
*
52308550 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
52308577 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
52308603 CTTGGTGGCTATGCCACAATTATCTGAT
1 C-TGGTGGCTCTGCCACAATTATCTGAT
*
52308631 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
52308658 CTGGTGGCTCTGCCACAA-TATCTATAT
1 CTGGTGGCTCTGCCACAATTATCT-GAT
52308685 CTGGTG
1 CTGGTG
52308691 ACTTCGTCAC
Statistics
Matches: 101, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
26 11 0.11
27 85 0.84
28 5 0.05
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:52308633 original size:54 final size:54
Alignment explanation
Indices: 52308550--52308690 Score: 232
Period size: 54 Copynumber: 2.6 Consensus size: 54
52308540 AGGAAGCGTC
52308550 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
52308603 CTTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 C-TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
52308658 CTGGTGGCTCTGCCACAA-TATCTATATCTGGTG
1 CTGGTGGCTATGCCACAATTATCT-GATCTGGTG
52308691 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
53 6 0.07
54 75 0.90
55 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:52308702 original size:81 final size:80
Alignment explanation
Indices: 52308550--52308708 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 80
52308540 AGGAAGCGTC
* * *
52308550 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCTTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATATTGGTGACTAT
52308615 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* *
52308631 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTATATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTATAT-TGGTGACT
*
52308694 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
52308709 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 17 0.25
81 52 0.75
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATATTGGTGACTAT
GCCACAATATCTGAT
Found at i:52312956 original size:40 final size:39
Alignment explanation
Indices: 52312882--52313089 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 39
52312872 TGTCCGGGCT
* * *
52312882 AGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGA
1 AGGCATTTGTGC-GAGTTACTAAATCCGGACTAAG-TCCGA
* * *
52312922 AGGCATTTGTGCGAGTAACTAAATCTGAACTAAGATCCGA
1 AGGCATTTGTGCGAGTTACTAAATCCGGACTAAG-TCCGA
* * * *
52312962 AGGCATTTGTGCAAGTTACTAATTCCGGGCTAAGCCCGA
1 AGGCATTTGTGCGAGTTACTAAATCCGGACTAAGTCCGA
* **
52313001 AGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGA
1 AGGCATTTGTGCGAGTTACTAAATCCGGACTAAGT-CCGA
* *
52313041 AGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTTCCGA
1 AGGCATTTGTGCGAGTTACTA-AATCCGGACTAAG-TCCGA
52313081 AGGCATTTG
1 AGGCATTTG
52313090 AACGAGTAGC
Statistics
Matches: 144, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
39 34 0.24
40 100 0.69
41 10 0.07
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (39 bp):
AGGCATTTGTGCGAGTTACTAAATCCGGACTAAGTCCGA
Found at i:52313006 original size:79 final size:80
Alignment explanation
Indices: 52312882--52313107 Score: 244
Period size: 79 Copynumber: 2.8 Consensus size: 80
52312872 TGTCCGGGCT
* *
52312882 AGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTAACTAAAT
1 AGGCATTTGTGC-AAGTTACTATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTAACTAAAT
*
52312946 CTGAACTAAGAT-CCGA
65 CCGAACTAAG-TCCCGA
* * *
52312962 AGGCATTTGTGCAAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAAT
1 AGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTAACTAAAT
***
52313025 CCGGGTTAAGTCCCGA
65 CCGAACTAAGTCCCGA
* * * * ** * *
52313041 AGGCATTTGTGCGAGTTACTATAACCGGGCTATGTTCCGAAGGCATTTGAACGAGTAGCTATATC
1 AGGCATTTGTGCAAGTTACTATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTAACTAAATC
52313106 CG
66 CG
52313108 GTTAAATTCC
Statistics
Matches: 122, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 66 0.54
80 48 0.39
81 7 0.06
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (80 bp):
AGGCATTTGTGCAAGTTACTATATCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTAACTAAATC
CGAACTAAGTCCCGA
Found at i:52315675 original size:33 final size:32
Alignment explanation
Indices: 52315609--52315677 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
52315599 ATCTATTCTA
* * *
52315609 AAAAGAAAGGAGAAACCTAATCTAAAAAAATG
1 AAAAGAAAAGAAAAACCTAACCTAAAAAAATG
**
52315641 AAAAGAAAAGAAAAACGCTAACCTAAAACTATG
1 AAAAGAAAAGAAAAAC-CTAACCTAAAAAAATG
52315674 AAAA
1 AAAA
52315678 CCCAAGAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.64, C:0.12, G:0.13, T:0.12
Consensus pattern (32 bp):
AAAAGAAAAGAAAAACCTAACCTAAAAAAATG
Found at i:52319876 original size:22 final size:22
Alignment explanation
Indices: 52319851--52319905 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
52319841 ATCTTTTAAC
52319851 GCATAAACATTCAATTATATTG
1 GCATAAACATTCAATTATATTG
* *
52319873 GCATAATCAATCAATTATATTG
1 GCATAAACATTCAATTATATTG
52319895 GCATAATACAT
1 GCATAA-ACAT
52319906 CCATCGCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.35
Consensus pattern (22 bp):
GCATAAACATTCAATTATATTG
Found at i:52328985 original size:25 final size:25
Alignment explanation
Indices: 52328956--52329003 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
52328946 TTATAACATG
* *
52328956 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
52328981 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
52329004 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:52329087 original size:11 final size:11
Alignment explanation
Indices: 52329051--52329106 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
52329041 CATGGTATAT
52329051 ATGATATGCAC
1 ATGATATGCAC
* *
52329062 ATGACATG--T
1 ATGATATGCAC
52329071 ATGATATGCAC
1 ATGATATGCAC
*
52329082 ATGATATG--T
1 ATGATATGCAC
52329091 ATGATATGCAC
1 ATGATATGCAC
52329102 ATGAT
1 ATGAT
52329107 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:52329106 original size:20 final size:20
Alignment explanation
Indices: 52329040--52329106 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
52329030 ATTTTGATAA
* *
52329040 ACATGGTATATATGATATGC
1 ACATGATATGTATGATATGC
*
52329060 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
52329080 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
52329100 ACATGAT
1 ACATGAT
52329107 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:52329182 original size:23 final size:24
Alignment explanation
Indices: 52329155--52329319 Score: 212
Period size: 23 Copynumber: 7.0 Consensus size: 24
52329145 GAGGAAGTGA
52329155 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
52329178 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
52329202 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
52329225 AAAAGGGCTTACGCCCCAGTTGT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
52329248 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
52329272 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
52329296 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
52329320 ATGATAAAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
23 64 0.51
24 50 0.40
25 11 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:52329230 original size:47 final size:46
Alignment explanation
Indices: 52329155--52329320 Score: 210
Period size: 47 Copynumber: 3.5 Consensus size: 46
52329145 GAGGAAGTGA
*
52329155 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
* *
52329201 CAAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTACGCCCCAGTTGT
1 -AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT
* *
52329248 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTA-T
*
52329296 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
52329321 TGATAAAGCA
Statistics
Matches: 104, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
46 21 0.20
47 61 0.59
48 11 0.11
49 11 0.11
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:52329268 original size:70 final size:71
Alignment explanation
Indices: 52329155--52329319 Score: 244
Period size: 70 Copynumber: 2.3 Consensus size: 71
52329145 GAGGAAGTGA
* *
52329155 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATG-CCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
52329219 GTTATC
66 GTTATC
* *
52329225 AAAAGGGCTTACGCCCCAGTTGTTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
52329290 GTTATT
66 GTTATC
*
52329296 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
52329320 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
70 56 0.66
71 19 0.22
72 10 0.12
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:52329548 original size:31 final size:31
Alignment explanation
Indices: 52329510--52329573 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
52329500 CGTTTACAGT
*
52329510 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
52329541 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
52329572 AA
1 AA
52329574 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:52337093 original size:25 final size:25
Alignment explanation
Indices: 52337064--52337111 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
52337054 TTATAACATG
* *
52337064 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
52337089 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
52337112 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:52337195 original size:11 final size:11
Alignment explanation
Indices: 52337159--52337214 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
52337149 CATGGTATAT
52337159 ATGATATGCAC
1 ATGATATGCAC
* *
52337170 ATGACATG--T
1 ATGATATGCAC
52337179 ATGATATGCAC
1 ATGATATGCAC
*
52337190 ATGATATG--T
1 ATGATATGCAC
52337199 ATGATATGCAC
1 ATGATATGCAC
52337210 ATGAT
1 ATGAT
52337215 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:52337214 original size:20 final size:20
Alignment explanation
Indices: 52337148--52337214 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
52337138 ATTTTGATAA
* *
52337148 ACATGGTATATATGATATGC
1 ACATGATATGTATGATATGC
*
52337168 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
52337188 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
52337208 ACATGAT
1 ACATGAT
52337215 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:52337320 original size:24 final size:23
Alignment explanation
Indices: 52337264--52337415 Score: 205
Period size: 24 Copynumber: 6.4 Consensus size: 23
52337254 GAGGAAGTGA
52337264 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
52337287 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
52337310 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
52337334 CAAAAGGGCTTACGCCCCAGTTGT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
52337358 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
52337381 AAAAAGGGCTTTTTCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
52337406 AAAAGAGGCT
1 AAAAG-GGCT
52337416 AGGCCTCCTG
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
23 42 0.37
24 68 0.59
25 5 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:52337333 original size:47 final size:47
Alignment explanation
Indices: 52337264--52337415 Score: 207
Period size: 47 Copynumber: 3.2 Consensus size: 47
52337254 GAGGAAGTGA
*
52337264 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
52337310 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTGT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
52337358 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
52337406 AAAAGAGGCT
1 AAAAG-GGCT
52337416 AGGCCTCCTG
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
47 63 0.68
48 25 0.27
49 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:52337380 original size:71 final size:71
Alignment explanation
Indices: 52337264--52337415 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
52337254 GAGGAAGTGA
* *
52337264 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
52337329 GTTATC
66 GTTATC
* * *
52337335 AAAAGGGCTTACGCCCCAGTTGTTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTTCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
52337400 GTTATT
66 GTTATC
52337406 AAAAGAGGCT
1 AAAAG-GGCT
52337416 AGGCCTCCTG
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 70 0.95
72 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:52337684 original size:25 final size:25
Alignment explanation
Indices: 52337655--52337702 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
52337645 TTATAACATG
* * *
52337655 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
52337680 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
52337703 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:52337786 original size:11 final size:11
Alignment explanation
Indices: 52337750--52337805 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
52337740 CATGGTATAT
52337750 ATGATATGCAC
1 ATGATATGCAC
* *
52337761 ATGACATG--T
1 ATGATATGCAC
52337770 ATGATATGCAC
1 ATGATATGCAC
*
52337781 ATGATATG--T
1 ATGATATGCAC
52337790 ATGATATGCAC
1 ATGATATGCAC
52337801 ATGAT
1 ATGAT
52337806 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:52337805 original size:20 final size:20
Alignment explanation
Indices: 52337739--52337805 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
52337729 ATTTTGATAA
* *
52337739 ACATGGTATATATGATATGC
1 ACATGATATGTATGATATGC
*
52337759 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
52337779 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
52337799 ACATGAT
1 ACATGAT
52337806 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:52337911 original size:24 final size:23
Alignment explanation
Indices: 52337855--52338021 Score: 210
Period size: 24 Copynumber: 7.0 Consensus size: 23
52337845 GAGGAAGTGA
*
52337855 AAAAGGGCTTATGCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
52337878 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
52337901 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
52337925 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
52337949 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
52337972 AAAAAGGGCTTTTGCCCCAATTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
52337997 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
52338021 A
1 A
52338022 TGATAAAGCA
Statistics
Matches: 127, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
23 42 0.33
24 75 0.59
25 10 0.08
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:52337924 original size:47 final size:47
Alignment explanation
Indices: 52337855--52338021 Score: 212
Period size: 47 Copynumber: 3.5 Consensus size: 47
52337845 GAGGAAGTGA
* *
52337855 AAAAGGGCTTATGCTCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
52337901 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
52337949 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
52337997 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
52338022 TGATAAAGCA
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
47 63 0.59
48 31 0.29
49 12 0.11
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:52337971 original size:71 final size:71
Alignment explanation
Indices: 52337855--52338020 Score: 244
Period size: 71 Copynumber: 2.3 Consensus size: 71
52337845 GAGGAAGTGA
* * *
52337855 AAAAGGGCTTATGCTCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
52337920 GTTATC
66 ATTATC
*
52337926 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
52337991 ATTATT
66 ATTATC
*
52337997 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
52338021 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
71 75 0.87
72 11 0.13
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
ATTATC
Found at i:52338039 original size:591 final size:590
Alignment explanation
Indices: 52336919--52338099 Score: 2263
Period size: 591 Copynumber: 2.0 Consensus size: 590
52336909 GCTAAGTAGG
52336919 GCCCATTAGGGGTTTTAGGCCCAATAACTAGATTTCGCTAAAAATGGGCCAAAATCACTGTTTGC
1 GCCCATTAGGGGTTTTAGGCCCAATAACTAGATTTCGCTAAAAATGGGCCAAAATCACTGTTTGC
52336984 ACCTATGAATTGTTAGTAACTGTTAATGAACATGGAAACCCTAATTTTTGGTAAAATTACAAGAT
66 ACCTATGAATTGTTAGTAACTGTTAATGAACATGGAAACCCTAATTTTTGGTAAAATTACAAGAT
52337049 TACCCTTATAACATGAAAATGACCATTTTGCCCCTAGGTAAAAATGACCATTATACCCCTAGGGT
131 TACCCTTATAACATGAAAATGACCATTTTGCCCCTAGGTAAAAATGACCATTATACCCCTAGGGT
52337114 TTATGTATGATTTTAATACATGGGATTTTGATAAACATGGTATATATGATATGCACATGACATGT
196 TTATGTATGATTTTAATACATGGGATTTTGATAAACATGGTATATATGATATGCACATGACATGT
52337179 ATGATATGCACATGATATGTATGATATGCACATGATGTATTCATAAATGCATTGGGTTGGGTTTT
261 ATGATATGCACATGATATGTATGATATGCACATGATGTATTCATAAATGCATTGGGTTGGGTTTT
52337244 TATATGAATGGAGGAAGTGAAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTA
326 TATATGAATGGAGGAAGTGAAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTA
*
52337309 TCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTGTTAAAGGGCTTATGCCC
391 TCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCC
* * *
52337374 CAGTTATAAAAAGGGCTTTTTCCCCAGTTATTAAAAGAGGCTAGGCCTCCTGTTATATGATAAAG
456 CAGTTATAAAAAGGGCTTTTGCCCCAATTATTAAAAGAGGCTAGGCCTCCAGTTATATGATAAAG
*
52337439 CAGCTAAGCTGCCAGTGGAGAGTTATGGCGGGGTGGGTCGAGTTAATCCCCACATGGTGTGTTGG
521 CAGCTAAGCTGCCAGTGGAGAGTTATGGCGGGGTAGGTCGAGTTAATCCCCACATGGTGTGTTGG
52337504 TTGGT
586 TTGGT
* *
52337509 GCCCATTAGGGGTTTTAGGCCCAATAACTCGATTTCGCTAAAAATGGGCCAGAATCACTGTTTGC
1 GCCCATTAGGGGTTTTAGGCCCAATAACTAGATTTCGCTAAAAATGGGCCAAAATCACTGTTTGC
*
52337574 ACCTATGAATTGTTAGTAACTGTTAATGAACATGGAAACCCTAATTTTTTTGTAAAATTACAAGA
66 ACCTATGAATTGTTAGTAACTGTTAATGAACATGGAAACCCTAA-TTTTTGGTAAAATTACAAGA
*
52337639 TTACCCTTATAACATGAAAATGACCGTTTTGCCCCTAGGTAAAAATGACCATTATACCCCTAGGG
130 TTACCCTTATAACATGAAAATGACCATTTTGCCCCTAGGTAAAAATGACCATTATACCCCTAGGG
52337704 TTTATGTATGATTTTAATACATGGGATTTTGATAAACATGGTATATATGATATGCACATGACATG
195 TTTATGTATGATTTTAATACATGGGATTTTGATAAACATGGTATATATGATATGCACATGACATG
52337769 TATGATATGCACATGATATGTATGATATGCACATGATGTATTCATAAATGCATTGGGTTGGGTTT
260 TATGATATGCACATGATATGTATGATATGCACATGATGTATTCATAAATGCATTGGGTTGGGTTT
*
52337834 TTATATGAATGGAGGAAGTGAAAAAGGGCTTATGCTCCAGTTATTAAAGGGCTTATGCCCCAGTT
325 TTATATGAATGGAGGAAGTGAAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTT
52337899 ATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCC
390 ATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCC
52337964 CCAGTTATAAAAAGGGCTTTTGCCCCAATTATTAAAAGAGGCTAGGCCTCCAGTTATATGATAAA
455 CCAGTTATAAAAAGGGCTTTTGCCCCAATTATTAAAAGAGGCTAGGCCTCCAGTTATATGATAAA
52338029 GCAGCTAAGCTGCCAGTGGAGAGTTATGGCGGGGTAGGTCGAGTTAATCCCCACATGGTGTGTTG
520 GCAGCTAAGCTGCCAGTGGAGAGTTATGGCGGGGTAGGTCGAGTTAATCCCCACATGGTGTGTTG
52338094 GTTGGT
585 GTTGGT
52338100 ACGGGTGGAG
Statistics
Matches: 580, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
590 107 0.18
591 473 0.82
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (590 bp):
GCCCATTAGGGGTTTTAGGCCCAATAACTAGATTTCGCTAAAAATGGGCCAAAATCACTGTTTGC
ACCTATGAATTGTTAGTAACTGTTAATGAACATGGAAACCCTAATTTTTGGTAAAATTACAAGAT
TACCCTTATAACATGAAAATGACCATTTTGCCCCTAGGTAAAAATGACCATTATACCCCTAGGGT
TTATGTATGATTTTAATACATGGGATTTTGATAAACATGGTATATATGATATGCACATGACATGT
ATGATATGCACATGATATGTATGATATGCACATGATGTATTCATAAATGCATTGGGTTGGGTTTT
TATATGAATGGAGGAAGTGAAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTA
TCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCC
CAGTTATAAAAAGGGCTTTTGCCCCAATTATTAAAAGAGGCTAGGCCTCCAGTTATATGATAAAG
CAGCTAAGCTGCCAGTGGAGAGTTATGGCGGGGTAGGTCGAGTTAATCCCCACATGGTGTGTTGG
TTGGT
Found at i:52338249 original size:31 final size:31
Alignment explanation
Indices: 52338214--52338277 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
52338204 CGTTTACAGT
*
52338214 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
52338245 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
52338276 AA
1 AA
52338278 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:52340278 original size:14 final size:14
Alignment explanation
Indices: 52340259--52340304 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
52340249 CCTTTTAAAA
52340259 GAAATTTTGTCCTT
1 GAAATTTTGTCCTT
52340273 GAAA-TTT-TCC-T
1 GAAATTTTGTCCTT
*
52340284 -AAATTTCGTCCTT
1 GAAATTTTGTCCTT
52340297 GAAATTTT
1 GAAATTTT
52340305 CCTAAATCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
10 3 0.12
11 3 0.12
12 6 0.23
13 4 0.15
14 10 0.38
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (14 bp):
GAAATTTTGTCCTT
Found at i:52340287 original size:24 final size:24
Alignment explanation
Indices: 52340260--52340311 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
52340250 CTTTTAAAAG
*
52340260 AAATTTTGTCCTTGAAATTTTCCT
1 AAATTTCGTCCTTGAAATTTTCCT
52340284 AAATTTCGTCCTTGAAATTTTCCT
1 AAATTTCGTCCTTGAAATTTTCCT
52340308 AAAT
1 AAAT
52340312 CGAAGACCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (24 bp):
AAATTTCGTCCTTGAAATTTTCCT
Found at i:52348868 original size:16 final size:16
Alignment explanation
Indices: 52348822--52348868 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 16
52348812 ACAAAATTGG
52348822 AAAGATGAAAA-AT--
1 AAAGATGAAAATATAA
52348835 AAAGATGATAAATAATAA
1 AAAGATGA-AAAT-ATAA
52348853 AAAGATGAAAATATAA
1 AAAGATGAAAATATAA
52348869 TCATTTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 8 0.28
14 3 0.10
16 6 0.21
17 4 0.14
18 8 0.28
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (16 bp):
AAAGATGAAAATATAA
Found at i:52359408 original size:59 final size:58
Alignment explanation
Indices: 52359331--52359442 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 58
52359321 AAATCAGAAA
*
52359331 ATTTGAAGGCTTATGTTGGCTTAGTTGATGAATTATG-ATCAACATAATTCAAACCAACCC
1 ATTTGAAGGCTTATGTTGGCTTAGTTGATGAATCATGTATC-ACAT-ATT-AAACCAACCC
52359391 ATTT-AAGGCTTATGTTGGCTTAGTTGATGAATCATGTATCACATATTAAACC
1 ATTTGAAGGCTTATGTTGGCTTAGTTGATGAATCATGTATCACATATTAAACC
52359443 CATAATTCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
57 5 0.10
58 3 0.06
59 35 0.70
60 7 0.14
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (58 bp):
ATTTGAAGGCTTATGTTGGCTTAGTTGATGAATCATGTATCACATATTAAACCAACCC
Found at i:52359777 original size:11 final size:11
Alignment explanation
Indices: 52359763--52359803 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
52359753 TATTTTCTCC
52359763 CTATTTTGCTA
1 CTATTTTGCTA
*
52359774 CTATTTTACTA
1 CTATTTTGCTA
* *
52359785 TTATGTTGCTA
1 CTATTTTGCTA
52359796 CTATTTTG
1 CTATTTTG
52359804 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:52359887 original size:30 final size:29
Alignment explanation
Indices: 52359844--52359903 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
52359834 ATTTTATTGT
52359844 TAATTTTTTATTATTTTAAAGACATTTGC
1 TAATTTTTTATTATTTTAAAGACATTTGC
* *
52359873 TAATTTTATTATTATTTTATAGGCATTTGC
1 TAATTTT-TTATTATTTTAAAGACATTTGC
52359903 T
1 T
52359904 TGTTAAGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.28, C:0.07, G:0.08, T:0.57
Consensus pattern (29 bp):
TAATTTTTTATTATTTTAAAGACATTTGC
Found at i:52360046 original size:12 final size:12
Alignment explanation
Indices: 52360025--52360058 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
52360015 TATATATATT
*
52360025 AAAATTATATAA
1 AAAATAATATAA
52360037 AAAATAATATAA
1 AAAATAATATAA
*
52360049 AAATTAATAT
1 AAAATAATAT
52360059 GGGCGGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:52360702 original size:43 final size:43
Alignment explanation
Indices: 52360637--52360803 Score: 164
Period size: 43 Copynumber: 3.9 Consensus size: 43
52360627 AGCTCGTACA
* * *
52360637 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * *
52360679 ATGCCACTGTCCCAGAC-TGGGTCTTACACT-AAATTGA-TTAACG
1 ATGCCAATGTCCCAGACAT-GGTCTTACA-TGTAA-TCACATATCG
* *
52360722 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAC-ATATCG
*
52360765 ATGTCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
52360804 CTCAATAACC
Statistics
Matches: 99, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 9 0.09
43 84 0.85
44 6 0.06
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:52363261 original size:46 final size:46
Alignment explanation
Indices: 52363198--52363515 Score: 374
Period size: 46 Copynumber: 6.9 Consensus size: 46
52363188 TTCGACATGA
* * * * * *
52363198 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
* ** ** *
52363244 TGCCATGGTATCATTCAACCATGGTCTTATTC-TTTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTT--CTATCAGGT
* * *
52363291 TGCCATGGTATCTTTCAACCATGGTCTTAAACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
* *
52363337 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
*
52363383 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
*
52363429 TGCCATGGTATCTTTCAACCACGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
* *
52363475 TGCCATGGTAACTTTCAACCATGGTCTTACACGTTTTCTAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTAT
52363516 TAGAGATCAC
Statistics
Matches: 241, Mismatches: 23, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
45 8 0.03
46 187 0.78
47 46 0.19
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
Found at i:52363493 original size:138 final size:139
Alignment explanation
Indices: 52363209--52363511 Score: 419
Period size: 138 Copynumber: 2.2 Consensus size: 139
52363199 GCCATAGTGT
* * * * * *
52363209 CTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCATTCAACCATGGTCTTAT
1 CTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCATTCAACCATGGTCTTAC
* * * * * *
52363274 TCTTTTCCCCGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTAAACATTTCATGTCACGTTG
66 ACGTTTCCACATCACGTTGCCATGGTATCTTTCAACCACGGTCTTAAACATTTCATATCACGTTG
**
52363339 CCATGGTGT
131 CCATGGTAA
*
52363348 CTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 CTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCATTCAACCATGGTCTTAC
* * * *
52363413 ACGTTT-CATATCAGGTTGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGTTG
66 ACGTTTCCACATCACGTTGCCATGGTATCTTTCAACCACGGTCTTAAACATTTCATATCACGTTG
52363477 CCATGGTAA
131 CCATGGTAA
*
52363486 CTTTCAACCATGGTCTTACACGTTTT
1 CTTTCAACCATGGTCTTACACATTTT
52363512 CTATTAGAGA
Statistics
Matches: 144, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
138 82 0.57
139 62 0.43
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.39
Consensus pattern (139 bp):
CTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGTATCATTCAACCATGGTCTTAC
ACGTTTCCACATCACGTTGCCATGGTATCTTTCAACCACGGTCTTAAACATTTCATATCACGTTG
CCATGGTAA
Found at i:52365624 original size:11 final size:11
Alignment explanation
Indices: 52365608--52365659 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
52365598 TATACTAAAT
52365608 AAATAATAATA
1 AAATAATAATA
*
52365619 AAATAAT-ATT
1 AAATAATAATA
* *
52365629 AAATATCTCATA
1 AAATA-ATAATA
*
52365641 AAATATTAATA
1 AAATAATAATA
52365652 AAATAATA
1 AAATAATA
52365660 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:52368997 original size:20 final size:20
Alignment explanation
Indices: 52368974--52369046 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
52368964 CAAATGTTCT
52368974 TTTAAATCGATTCATTATTA
1 TTTAAATCGATTCATTATTA
* **
52368994 TTTAAACCGATTGTTTATTA
1 TTTAAATCGATTCATTATTA
* **
52369014 TTTAAATCGATTCATTGTGG
1 TTTAAATCGATTCATTATTA
52369034 TTTAAATCGATTC
1 TTTAAATCGATTC
52369047 TTTTTTGGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (20 bp):
TTTAAATCGATTCATTATTA
Found at i:52374419 original size:43 final size:43
Alignment explanation
Indices: 52374372--52374454 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
52374362 TACGATGATG
* * * **
52374372 TCTGGGACATTGGCATCGTTATTTGATTTCATGTAAGACCCTA
1 TCTGGGACAGTGGCATCGATATGTGATAACATGTAAGACCCTA
52374415 TCTGGGACAGTGGCATCGATATGTGATAACATGTAAGACC
1 TCTGGGACAGTGGCATCGATATGTGATAACATGTAAGACC
52374455 ACATATGGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TCTGGGACAGTGGCATCGATATGTGATAACATGTAAGACCCTA
Found at i:52374464 original size:43 final size:42
Alignment explanation
Indices: 52374374--52374472 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 42
52374364 CGATGATGTC
* * ** *
52374374 TGGGACATTGGCATCGTTATTTGATTTCATGTAAGACCCTATC
1 TGGGACA-TGGCATCGATATGTGATAACATGTAAGACCCTATA
52374417 TGGGACAGTGGCATCGATATGTGATAACATGTAAGACCAC-ATA
1 TGGGACA-TGGCATCGATATGTGATAACATGTAAGACC-CTATA
*
52374460 TGGGATATGGCAT
1 TGGGACATGGCAT
52374473 TGTACGAGCT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 6 0.12
43 41 0.85
44 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TGGGACATGGCATCGATATGTGATAACATGTAAGACCCTATA
Found at i:52374998 original size:26 final size:26
Alignment explanation
Indices: 52374969--52375076 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
52374959 TGGTACAAAT
52374969 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
52374995 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52375021 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52375047 TGATAATGGGTTACGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52375073 TGAT
1 TGAT
52375077 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:52376767 original size:27 final size:27
Alignment explanation
Indices: 52376670--52376774 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
52376660 AGGAAGCATC
* *
52376670 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
52376697 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
52376724 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
52376751 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
52376775 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 10 0.14
27 60 0.86
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:52380077 original size:46 final size:46
Alignment explanation
Indices: 52380020--52380140 Score: 181
Period size: 46 Copynumber: 2.6 Consensus size: 46
52380010 ATGAAATGTG
*
52380020 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAA
*
52380066 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* * *
52380112 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
52380141 TCACGTCAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
45 5 0.07
46 64 0.93
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:52384712 original size:26 final size:26
Alignment explanation
Indices: 52384683--52384789 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
52384673 TGGTACAAAT
52384683 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
52384709 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52384735 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52384761 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52384786 TGAT
1 TGAT
52384790 GGAATTTCAT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 22 0.29
26 55 0.71
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:52386442 original size:27 final size:26
Alignment explanation
Indices: 52386402--52386541 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 26
52386392 AGGAAGCGTC
*
52386402 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
52386429 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
52386456 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
52386483 CTGGTGG-TCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
52386509 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
52386536 CTGGTG
1 CTGGTG
52386542 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
25 2 0.02
26 29 0.29
27 67 0.67
28 2 0.02
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:52386517 original size:53 final size:53
Alignment explanation
Indices: 52386402--52386541 Score: 228
Period size: 53 Copynumber: 2.6 Consensus size: 53
52386392 AGGAAGCGTC
52386402 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
52386456 CTGGTGGCTATGCCACGATTATCTGATCTGGTGG-TCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
52386509 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
52386542 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
52 7 0.09
53 42 0.51
54 33 0.40
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:52386552 original size:27 final size:26
Alignment explanation
Indices: 52386402--52386559 Score: 149
Period size: 27 Copynumber: 5.9 Consensus size: 26
52386392 AGGAAGCGTC
* * *
52386402 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
*
52386429 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
* * * *
52386456 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGACTCTGCCAC-AATATCTGTT
*
52386483 CTGGTG-GTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
52386509 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
52386536 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
52386560 GCAGCCTCGC
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
25 1 0.01
26 29 0.26
27 81 0.72
28 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:52392314 original size:34 final size:34
Alignment explanation
Indices: 52392276--52392346 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
52392266 ATTTAATCTC
*
52392276 AAAACACTTTAAATGAGATCATTTGACATTCATT
1 AAAACACTTCAAATGAGATCATTTGACATTCATT
52392310 AAAACACTTCAAATGAGATCATTTGACATTCATT
1 AAAACACTTCAAATGAGATCATTTGACATTCATT
52392344 AAA
1 AAA
52392347 CGTGTTTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACACTTCAAATGAGATCATTTGACATTCATT
Found at i:52393233 original size:22 final size:22
Alignment explanation
Indices: 52393208--52393251 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
52393198 TAGCACAAAC
52393208 TAAAATCAAACTATTCCTCCAT
1 TAAAATCAAACTATTCCTCCAT
*
52393230 TAAAATCCAACTATTCCTCCAT
1 TAAAATCAAACTATTCCTCCAT
52393252 CACCTTAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAATCAAACTATTCCTCCAT
Found at i:52396250 original size:46 final size:46
Alignment explanation
Indices: 52396197--52396368 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
52396187 TGGGCATCCA
52396197 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
52396243 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * *
52396290 AACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
52396336 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52396369 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.55
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:52396348 original size:93 final size:93
Alignment explanation
Indices: 52396189--52396361 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
52396179 AGGATATTTG
* * *
52396189 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
52396254 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
52396282 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
52396347 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
52396362 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:52398024 original size:14 final size:14
Alignment explanation
Indices: 52398005--52398032 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52397995 AAATCATGTT
52398005 TAGAGATATTCTTA
1 TAGAGATATTCTTA
52398019 TAGAGATATTCTTA
1 TAGAGATATTCTTA
52398033 GGGGGTTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TAGAGATATTCTTA
Found at i:52401160 original size:4 final size:4
Alignment explanation
Indices: 52401151--52401257 Score: 110
Period size: 4 Copynumber: 26.5 Consensus size: 4
52401141 ATACAGATGC
52401151 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * ** * *
52401199 ATGC ATGC ATGT CT-T A-GAT ATCAAA AAGT ATGT ATGT ATGT CTGT ATGT
1 ATGT ATGT ATGT ATGT ATG-T AT--GT ATGT ATGT ATGT ATGT ATGT ATGT
52401248 ATGT ATGT AT
1 ATGT ATGT AT
52401258 ATTTTATTCA
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
3 1 0.01
4 84 0.98
6 1 0.01
ACGTcount: A:0.28, C:0.05, G:0.22, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:52404275 original size:26 final size:26
Alignment explanation
Indices: 52404252--52404305 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
52404242 TTTAATATGG
* *
52404252 TTAAACCATTACATGATTATATATAA
1 TTAAAACATTACATAATTATATATAA
*
52404278 TTAAAATATTACATAATTATATATAA
1 TTAAAACATTACATAATTATATATAA
52404304 TT
1 TT
52404306 TAAATACCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (26 bp):
TTAAAACATTACATAATTATATATAA
Found at i:52404310 original size:26 final size:26
Alignment explanation
Indices: 52404259--52404311 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
52404249 TGGTTAAACC
*
52404259 ATTACATGATTATATATAATTAAAAT
1 ATTACATAATTATATATAATTAAAAT
*
52404285 ATTACATAATTATATATAATTTAAAT
1 ATTACATAATTATATATAATTAAAAT
52404311 A
1 A
52404312 CCCTAAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTACATAATTATATATAATTAAAAT
Found at i:52406331 original size:39 final size:39
Alignment explanation
Indices: 52406273--52406389 Score: 135
Period size: 39 Copynumber: 3.0 Consensus size: 39
52406263 GAGTCACCTG
* * *
52406273 CTTCAACTTCACTGCTTAACAGTGCTAAACCGGACTCTA
1 CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
* * *
52406312 CTTCAAATTCACTGGTTAACACTGCTAATCCAGACTCTA
1 CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
* * * * *
52406351 CTTCTACTTCATTGGTTATCAATGCTAAGCCAGAATCTA
1 CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
52406390 AAGCTAGTCT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 66 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (39 bp):
CTTCAACTTCACTGGTTAACAATGCTAAACCAGACTCTA
Found at i:52409305 original size:22 final size:22
Alignment explanation
Indices: 52409280--52409324 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
52409270 TTTAATAAAA
52409280 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
52409302 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
52409324 A
1 A
52409325 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:52413889 original size:22 final size:22
Alignment explanation
Indices: 52413861--52413905 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
52413851 TTAATAAAAA
52413861 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
52413883 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
52413905 A
1 A
52413906 CAGATGCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:52418337 original size:3 final size:3
Alignment explanation
Indices: 52418329--52418370 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
52418319 CTTGCACTGC
*
52418329 AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
52418371 TGTTTATTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:52420763 original size:64 final size:65
Alignment explanation
Indices: 52420684--52420804 Score: 181
Period size: 65 Copynumber: 1.9 Consensus size: 65
52420674 CAAACCATTT
* ** * *
52420684 TACTTGCCCC-AAAAAATTTACTTCCTTTCAAACCCTCAAAACTTTTTTCCTTTTATTTTCCTTG
1 TACTTACCCCAAAAAAATTTACTTCCCCTCAAACCCCCAAAACCTTTTTCCTTTTATTTTCCTTG
*
52420748 TACTTACCCTAAAAAAATTTACTTCCCCTCAAACCCCCAAAACCTTTTTCCTTTTAT
1 TACTTACCCCAAAAAAATTTACTTCCCCTCAAACCCCCAAAACCTTTTTCCTTTTAT
52420805 CCCCCCCCCC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
64 8 0.16
65 42 0.84
ACGTcount: A:0.28, C:0.31, G:0.02, T:0.40
Consensus pattern (65 bp):
TACTTACCCCAAAAAAATTTACTTCCCCTCAAACCCCCAAAACCTTTTTCCTTTTATTTTCCTTG
Found at i:52427955 original size:95 final size:95
Alignment explanation
Indices: 52427830--52428108 Score: 411
Period size: 95 Copynumber: 2.9 Consensus size: 95
52427820 GGATCCATAA
*
52427830 ATTTCTAGAAATGGATACCAAAATAGGCTACTGACTTGCAAACAATTTGCCAAGTATCGATA-AG
1 ATTTCTAGAAATCGATACCAAAATAGGCTACTGACTTGCAAACAATTTGCCAAGTATCGATACA-
*
52427894 GTATCAATACCTTTTTGTTAGGTATTGATGG
65 GTATCAATACCTTTTTGTTAGGTATCGATGG
* * **
52427925 ATTTCTAGAAATCGATACCAAAATAAGCTACTGACATGCAAACAATTTTTCAAGTATCGATACAG
1 ATTTCTAGAAATCGATACCAAAATAGGCTACTGACTTGCAAACAATTTGCCAAGTATCGATACAG
*
52427990 TATTGAA-ACCTTTTTGTTAGGTATCGATGG
66 TA-TCAATACCTTTTTGTTAGGTATCGATGG
* * *
52428020 A-TTCTAGAAATTGAAACCAAAATAGGCTACTGGCTTGCAAACAATTTGCCAAGTATCGATACAG
1 ATTTCTAGAAATCGATACCAAAATAGGCTACTGACTTGCAAACAATTTGCCAAGTATCGATACAG
* *
52428084 TACCGATACCTTTTTGTTAGGTATC
66 TATCAATACCTTTTTGTTAGGTATC
52428109 AATAAGTCTT
Statistics
Matches: 164, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
93 1 0.01
94 76 0.46
95 83 0.51
96 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (95 bp):
ATTTCTAGAAATCGATACCAAAATAGGCTACTGACTTGCAAACAATTTGCCAAGTATCGATACAG
TATCAATACCTTTTTGTTAGGTATCGATGG
Found at i:52432441 original size:20 final size:20
Alignment explanation
Indices: 52432416--52432453 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
52432406 TGAGGGCACA
52432416 GGCGTGTCCCAAGTCACACG
1 GGCGTGTCCCAAGTCACACG
52432436 GGCGTGTCCCAAGTCACA
1 GGCGTGTCCCAAGTCACA
52432454 TGAGCGTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.34, G:0.29, T:0.16
Consensus pattern (20 bp):
GGCGTGTCCCAAGTCACACG
Found at i:52432460 original size:20 final size:20
Alignment explanation
Indices: 52432417--52432462 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
52432407 GAGGGCACAG
*
52432417 GCGTGTCCCAAGTCACACGG
1 GCGTGTCCCAAGTCACACGA
*
52432437 GCGTGTCCCAAGTCACATGA
1 GCGTGTCCCAAGTCACACGA
52432457 GCGTGT
1 GCGTGT
52432463 GTGACTACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (20 bp):
GCGTGTCCCAAGTCACACGA
Found at i:52433394 original size:22 final size:22
Alignment explanation
Indices: 52433341--52433395 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 22
52433331 CACATTCACT
*
52433341 TTTAAGCATATATCACATTACA
1 TTTAAGCATATATCACATAACA
*
52433363 --CAA--ATA-ATCACATAACA
1 TTTAAGCATATATCACATAACA
52433380 TTTAAGCATATATCAC
1 TTTAAGCATATATCAC
52433396 CAATAAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 10
0.66 0.08 0.26
Matches are distributed among these distances:
17 10 0.40
18 3 0.12
19 2 0.08
20 2 0.08
21 3 0.12
22 5 0.20
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (22 bp):
TTTAAGCATATATCACATAACA
Found at i:52439364 original size:28 final size:28
Alignment explanation
Indices: 52439332--52439388 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
52439322 ATTTGGAAAG
52439332 TATGTG-ACATTATGCTTAATTATATGAT
1 TATGTGCA-ATTATGCTTAATTATATGAT
52439360 TATGTGCAATTATGCTTAATTATATGAT
1 TATGTGCAATTATGCTTAATTATATGAT
52439388 T
1 T
52439389 TTCATGCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (28 bp):
TATGTGCAATTATGCTTAATTATATGAT
Done.