Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 185 of 322
Found at i:60851099 original size:40 final size:40
Alignment explanation
Indices: 60851022--60851239 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
60851012 AAACCAAGTA
* *
60851022 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
60851061 CCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
60851101 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
60851141 CCTTTGGGACTTAGCCTGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
60851181 TCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
60851221 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
60851240 TTATCATCCG
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 15 0.09
40 143 0.91
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:60870786 original size:35 final size:35
Alignment explanation
Indices: 60870740--60870938 Score: 156
Period size: 35 Copynumber: 5.7 Consensus size: 35
60870730 TTTCCTCATT
60870740 GAAATACCATACCTACATTTCACAACTC-GATATGG
1 GAAATACCATACCTACATTTCACAACTCAG-TATGG
* ** **
60870775 GAAATGCCATACCT-CTATTTCTTAACTCAAAAT-G
1 GAAATACCATACCTAC-ATTTCACAACTCAGTATGG
* *
60870809 GATAATACCATACCTACGTTTCATAACTCAGTATGG
1 GA-AATACCATACCTACATTTCACAACTCAGTATGG
** * **
60870845 TTAATATCATACCTATGTTTCACAACTCAGTAT-G
1 GAAATACCATACCTACATTTCACAACTCAGTATGG
* * * * *
60870879 GATGACACCATACCTACGTTTCACAACTGAGTAT-C
1 GA-AATACCATACCTACATTTCACAACTCAGTATGG
*
60870914 GATGATACCATACCTACATTTCACA
1 GA-AATACCATACCTACATTTCACA
60870939 TCTTATCATG
Statistics
Matches: 133, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
34 5 0.04
35 126 0.95
36 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (35 bp):
GAAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:60870825 original size:70 final size:70
Alignment explanation
Indices: 60870742--60870938 Score: 200
Period size: 70 Copynumber: 2.8 Consensus size: 70
60870732 TCCTCATTGA
* * * **
60870742 AATACCATACCTACATTTCACAACTC-GATATGGGAAATGCCATACCTCTATTTCTTAACTCAAA
1 AATACCATACCTACGTTTCACAACTCAG-TATGGGAAATACCATACCTATATTTCACAACTCAAA
60870806 ATGGAT
65 ATGGAT
* ** * * **
60870812 AATACCATACCTACGTTTCATAACTCAGTATGGTTAATATCATACCTATGTTTCACAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTATATTTCACAACTCAAAA
60870877 TGGAT
66 TGGAT
* * * * * *
60870882 GACACCATACCTACGTTTCACAACTGAGTAT-CGATGATACCATACCTACATTTCACA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGA-AATACCATACCTATATTTCACA
60870939 TCTTATCATG
Statistics
Matches: 102, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
70 101 0.99
71 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (70 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTATATTTCACAACTCAAAA
TGGAT
Found at i:60882124 original size:7 final size:8
Alignment explanation
Indices: 60882108--60882134 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
60882098 ATATTTACAC
60882108 AATAAAAA
1 AATAAAAA
60882116 AATAAAAA
1 AATAAAAA
60882124 AATAAAAA
1 AATAAAAA
60882132 AAT
1 AAT
60882135 TAAATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
AATAAAAA
Found at i:60893671 original size:14 final size:13
Alignment explanation
Indices: 60893654--60893692 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
60893644 AGTAGTTTTA
60893654 AAAAAGATAAAAAT
1 AAAAA-ATAAAAAT
60893668 AAAAACATAAAAAT
1 AAAAA-ATAAAAAT
*
60893682 AATAAATAAAA
1 AAAAAATAAAA
60893693 GTCTTTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:60908544 original size:7 final size:7
Alignment explanation
Indices: 60908532--60908556 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
60908522 TCATTTTTGC
60908532 ATCATAT
1 ATCATAT
60908539 ATCATAT
1 ATCATAT
60908546 ATCATAT
1 ATCATAT
60908553 ATCA
1 ATCA
60908557 AAATCAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (7 bp):
ATCATAT
Found at i:60923539 original size:15 final size:15
Alignment explanation
Indices: 60923519--60923556 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
60923509 CAAGTATCAA
60923519 CATGCATACTTTCAT
1 CATGCATACTTTCAT
60923534 CATGCATACTTTCAT
1 CATGCATACTTTCAT
60923549 CATGCATA
1 CATGCATA
60923557 ATTCTACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.37
Consensus pattern (15 bp):
CATGCATACTTTCAT
Found at i:60923551 original size:18 final size:16
Alignment explanation
Indices: 60923513--60923556 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 16
60923503 CATTCACAAG
*
60923513 TATCAACATGCATACT
1 TATCATCATGCATACT
60923529 T-TCATCATGCATACT
1 TATCATCATGCATACT
60923544 T-TCATCATGCATA
1 TATCATCATGCATA
60923557 ATTCTACTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (16 bp):
TATCATCATGCATACT
Found at i:60929711 original size:2 final size:2
Alignment explanation
Indices: 60929704--60929736 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
60929694 TTGATTTACC
60929704 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60929737 CCGGCATAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60931785 original size:24 final size:24
Alignment explanation
Indices: 60931750--60931796 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
60931740 ATTTTCCATG
60931750 GATGAATAATCCAAAAATATCTAA
1 GATGAATAATCCAAAAATATCTAA
*
60931774 GATGAATCATCCAAAAATATCTA
1 GATGAATAATCCAAAAATATCTA
60931797 CATACTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.26
Consensus pattern (24 bp):
GATGAATAATCCAAAAATATCTAA
Found at i:60938155 original size:48 final size:48
Alignment explanation
Indices: 60938102--60938237 Score: 184
Period size: 48 Copynumber: 2.8 Consensus size: 48
60938092 CACAGGTGAA
*
60938102 AATAATAGTGTCTGGTTACCCATTTGGGTTAAACCTACACAAATAATG
1 AATAATAGTGTCTGGTTACCCATTAGGGTTAAACCTACACAAATAATG
* * * *
60938150 AATAATATTGCCTGGTTACCAATTAAGGTTAAACCTACACAAATAATG
1 AATAATAGTGTCTGGTTACCCATTAGGGTTAAACCTACACAAATAATG
* * *
60938198 AGTAATAGT-TCCTGGTTACCCGTTAGGGTTGAACCTACAC
1 AATAATAGTGT-CTGGTTACCCATTAGGGTTAAACCTACAC
60938238 GATAAATAGC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (48 bp):
AATAATAGTGTCTGGTTACCCATTAGGGTTAAACCTACACAAATAATG
Found at i:60940740 original size:48 final size:48
Alignment explanation
Indices: 60940688--60940808 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 48
60940678 ATAGTGTCTG
*
60940688 GTTACCCATTTGGGTTAAACCTACACAAATAATGAATAATA-TTGCCTA
1 GTTACCCATTAGGGTTAAACCTACACAAATAATGAATAATAGTT-CCTA
* * * * *
60940736 GTTA-CCAGTCAAGGTTAAACCTATACGAATAATGAGTAATAGTTCCTA
1 GTTACCCA-TTAGGGTTAAACCTACACAAATAATGAATAATAGTTCCTA
* *
60940784 GTTACCCGTTAGGGTTGAACCTACA
1 GTTACCCATTAGGGTTAAACCTACA
60940809 TGATAAATAA
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
47 3 0.05
48 52 0.88
49 4 0.07
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (48 bp):
GTTACCCATTAGGGTTAAACCTACACAAATAATGAATAATAGTTCCTA
Found at i:60944186 original size:27 final size:27
Alignment explanation
Indices: 60944156--60944219 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
60944146 TCCTTTTAGT
* *
60944156 GTAAAATGACCGTAATGCCCCTATAGG
1 GTAAAATGACCATAATACCCCTATAGG
* *
60944183 GTAAAATGACCATAATACCCCTTTATG
1 GTAAAATGACCATAATACCCCTATAGG
*
60944210 GTAGAATGAC
1 GTAAAATGAC
60944220 AATTATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCATAATACCCCTATAGG
Found at i:60946451 original size:21 final size:22
Alignment explanation
Indices: 60946427--60946473 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
60946417 ATTTTATGAA
*
60946427 TGAATATTTATAT-TTATAATG
1 TGAATATTTATATGTTAGAATG
* *
60946448 TGAA-CTTTATATGTTGGAATG
1 TGAATATTTATATGTTAGAATG
60946469 TGAAT
1 TGAAT
60946474 GTGTTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (22 bp):
TGAATATTTATATGTTAGAATG
Found at i:60948355 original size:3 final size:3
Alignment explanation
Indices: 60948347--60949152 Score: 1612
Period size: 3 Copynumber: 268.7 Consensus size: 3
60948337 GAAACGGATA
60948347 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948395 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948443 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948491 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948539 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948587 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948635 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948683 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948731 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948779 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948827 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948875 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948923 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60948971 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60949019 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60949067 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
60949115 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
60949153 AGGTTTTTTT
Statistics
Matches: 803, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 803 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:60955130 original size:18 final size:17
Alignment explanation
Indices: 60955109--60955143 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60955099 TTATTATTAA
*
60955109 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60955127 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60955144 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60956002 original size:16 final size:16
Alignment explanation
Indices: 60955981--60956016 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
60955971 TAAGAAATCA
60955981 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
60955997 CAGCCATGTACTCCTG
1 CAGCCATGTACTCCTG
60956013 CAGC
1 CAGC
60956017 TCCTGAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.39, G:0.19, T:0.22
Consensus pattern (16 bp):
CAGCCATGTACTCCTG
Found at i:60960646 original size:26 final size:26
Alignment explanation
Indices: 60960616--60960697 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
60960606 TGAAATGCCC
60960616 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
60960642 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
60960668 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
60960694 ATCA
1 ATCA
60960698 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:60963899 original size:24 final size:24
Alignment explanation
Indices: 60963849--60963900 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
60963839 TTCGTAAGTC
* **
60963849 AAATAAATTATGCTAATAAATGTT
1 AAATAAATTATACTAATAAATACT
*
60963873 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
60963897 AAAT
1 AAAT
60963901 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:60967375 original size:40 final size:40
Alignment explanation
Indices: 60967320--60967395 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
60967310 TGGTACCTTG
*
60967320 TGGTGTGTAGGGTTGGATGGGTTGATTATATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCATACT
* * *
60967360 TGGTGTGTAGGGTTGGGTGGGTCGATTCTGTCCCCA
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCA
60967396 CATGATGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.13, C:0.14, G:0.37, T:0.36
Consensus pattern (40 bp):
TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCATACT
Found at i:60970763 original size:21 final size:21
Alignment explanation
Indices: 60970733--60970772 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60970723 AACAGGACCA
*
60970733 CTGATGTGGCAAGTTAACTAG
1 CTGATATGGCAAGTTAACTAG
*
60970754 CTGATATGGCTAGTTAACT
1 CTGATATGGCAAGTTAACT
60970773 TGCCACACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (21 bp):
CTGATATGGCAAGTTAACTAG
Found at i:60971092 original size:143 final size:143
Alignment explanation
Indices: 60970841--60971112 Score: 447
Period size: 143 Copynumber: 1.9 Consensus size: 143
60970831 CCTTAATAAC
* * *
60970841 AGAGACTGTAAAAAAAAAGTCTTCTTTACCTAATTTGACGGGGTCTGATTCTTTGTCTCTTCCTC
1 AGAGACTGTAAAAAAAAAGTCTTCTTTACCTAATTTGACGGGGTCAGATTCTTTGCCTCTTCATC
* * * *
60970906 TGTAACCTTCCGCCTTTGTTGTCCCAGCAATACCGATCCTTCAATTTCTCGGATTTCCCAATGAA
66 TGTAACCTTCAGCCATTGTTGTCCCAGCAAGACCGATCCTTCAATTTCTCAGATTTCCC-ATGAA
60970971 TAATAATAATAAGA
130 TAATAATAATAAGA
* *
60970985 AGAGACTGTAAAAAAAAA-TCTTCTTTGCCTAATTTGGCGGGGTCAGATTCTTTGCCTCTTCATC
1 AGAGACTGTAAAAAAAAAGTCTTCTTTACCTAATTTGACGGGGTCAGATTCTTTGCCTCTTCATC
60971049 TGTAACCTTCAGCCATTGTTGTCCCAGCAAGACCGATCCTTCAATTTCTCAGATTTCCCATGAA
66 TGTAACCTTCAGCCATTGTTGTCCCAGCAAGACCGATCCTTCAATTTCTCAGATTTCCCATGAA
60971113 ATCCATCTCA
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
142 5 0.04
143 96 0.81
144 18 0.15
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (143 bp):
AGAGACTGTAAAAAAAAAGTCTTCTTTACCTAATTTGACGGGGTCAGATTCTTTGCCTCTTCATC
TGTAACCTTCAGCCATTGTTGTCCCAGCAAGACCGATCCTTCAATTTCTCAGATTTCCCATGAAT
AATAATAATAAGA
Found at i:60972410 original size:8 final size:9
Alignment explanation
Indices: 60972392--60972425 Score: 54
Period size: 8 Copynumber: 4.0 Consensus size: 9
60972382 TTCATATTCA
60972392 TCTTCTTTT
1 TCTTCTTTT
60972401 TCTT-TTTT
1 TCTTCTTTT
60972409 TCTTCTTTT
1 TCTTCTTTT
60972418 TC-TCTTTT
1 TCTTCTTTT
60972426 CAAACCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 14 0.58
9 10 0.42
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TCTTCTTTT
Found at i:60972414 original size:17 final size:18
Alignment explanation
Indices: 60972392--60972425 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
60972382 TTCATATTCA
60972392 TCTTCTTTTTCT-TTTTT
1 TCTTCTTTTTCTCTTTTT
60972409 TCTTCTTTTTCTCTTTT
1 TCTTCTTTTTCTCTTTT
60972426 CAAACCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TCTTCTTTTTCTCTTTTT
Found at i:60977464 original size:30 final size:30
Alignment explanation
Indices: 60977428--60977484 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
60977418 GGATGACGAT
**
60977428 GCGGGCCTGTCAACAGCGCCCACACAAGAC
1 GCGGGCCCATCAACAGCGCCCACACAAGAC
60977458 GCGGGCCCATCAACAGCGCCCACACAA
1 GCGGGCCCATCAACAGCGCCCACACAA
60977485 TCACCGGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.42, G:0.25, T:0.05
Consensus pattern (30 bp):
GCGGGCCCATCAACAGCGCCCACACAAGAC
Found at i:60977493 original size:30 final size:30
Alignment explanation
Indices: 60977428--60977494 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
60977418 GGATGACGAT
** *
60977428 GCGGGCCTGTCAACAGCGCCCACACAAGAC
1 GCGGGCCCATCAACAGCGCCCACACAACAC
60977458 GCGGGCCCATCAACAGCGCCCACACAATCAC
1 GCGGGCCCATCAACAGCGCCCACACAA-CAC
60977489 -CGGGCC
1 GCGGGCC
60977495 TAACACTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.43, G:0.25, T:0.06
Consensus pattern (30 bp):
GCGGGCCCATCAACAGCGCCCACACAACAC
Found at i:60977574 original size:18 final size:18
Alignment explanation
Indices: 60977551--60977592 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
60977541 GCCAACTGCA
*
60977551 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
60977569 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
60977587 TTTCCT
1 TATCCT
60977593 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:60977761 original size:22 final size:22
Alignment explanation
Indices: 60977735--60977789 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
60977725 CCACAACCAG
60977735 ATCCCCTGCCGGAGAAACCACA
1 ATCCCCTGCCGGAGAAACCACA
*
60977757 ATCCCC-GCCGGAGCAACCACA
1 ATCCCCTGCCGGAGAAACCACA
60977778 A-CCCCTGCCGGA
1 ATCCCCTGCCGGA
60977790 AGCTGAACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 4 0.13
21 21 0.68
22 6 0.19
ACGTcount: A:0.27, C:0.45, G:0.20, T:0.07
Consensus pattern (22 bp):
ATCCCCTGCCGGAGAAACCACA
Found at i:60977916 original size:17 final size:17
Alignment explanation
Indices: 60977896--60977929 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
60977886 GAATAAGACG
60977896 ATATTATTAATATTTTT
1 ATATTATTAATATTTTT
60977913 ATATTATTAATATTTTT
1 ATATTATTAATATTTTT
60977930 GTACAAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTATTAATATTTTT
Found at i:60983375 original size:11 final size:11
Alignment explanation
Indices: 60983359--60983414 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
60983349 CTTTATATAC
60983359 TAATAAAATAA
1 TAATAAAATAA
60983370 TAATAAAATAA
1 TAATAAAATAA
* **
60983381 TAA-AATATCT
1 TAATAAAATAA
* *
60983391 TATTAAAATAT
1 TAATAAAATAA
60983402 TAATAAAATAA
1 TAATAAAATAA
60983413 TA
1 TA
60983415 TTTATCTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
10 6 0.17
11 30 0.83
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:60983430 original size:43 final size:41
Alignment explanation
Indices: 60983359--60983442 Score: 96
Period size: 43 Copynumber: 2.0 Consensus size: 41
60983349 CTTTATATAC
*
60983359 TAATAAAATAATAATAAAATAATAAAATATCTTATTAAAATAT
1 TAATAAAATAATAATAAAATAATAAAATA-ATTA-TAAAATAT
* * ** *
60983402 TAATAAAATAATATTTATCTAATTAAATAATTATAAAATAT
1 TAATAAAATAATAATAAAATAATAAAATAATTATAAAATAT
60983443 CAAAATATCT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 8 0.23
42 3 0.09
43 24 0.69
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (41 bp):
TAATAAAATAATAATAAAATAATAAAATAATTATAAAATAT
Found at i:60994700 original size:126 final size:126
Alignment explanation
Indices: 60994476--60994786 Score: 516
Period size: 126 Copynumber: 2.5 Consensus size: 126
60994466 CCAGACTGTT
*
60994476 ACACTATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTCAGATACTTCTGTAGAAAAAGAGCG
1 ACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAGCG
* *
60994540 TCCACGTTGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTGG
66 TCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCG
*
60994601 ACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAATACTACTGTAGAAAAAGAGCG
1 ACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAGCG
* * *
60994666 TCCACGTGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGCGTTCTGCTTGAAGCGTTTTCG
66 TCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCG
* * * *
60994727 ACACTATTTCTTTAGAAACGTTTTCTCAAAATTATTTTTTCAGATACTACTATAGAAAAA
1 ACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAA
60994787 AAATAAAAAG
Statistics
Matches: 173, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
125 34 0.20
126 139 0.80
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
ACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACTACTGTAGAAAAAGAGCG
TCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTCG
Found at i:60997253 original size:7 final size:7
Alignment explanation
Indices: 60997243--60997294 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
60997233 AAGAGAGAAT
*
60997243 GATGATG
1 GATGAGG
60997250 GATGAGG
1 GATGAGG
*
60997257 GATAAGG
1 GATGAGG
* *
60997264 GATCAGT
1 GATGAGG
*
60997271 GATGAGT
1 GATGAGG
60997278 GATGAGG
1 GATGAGG
60997285 GATGAGG
1 GATGAGG
60997292 GAT
1 GAT
60997295 CAAATGAGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.31, C:0.02, G:0.46, T:0.21
Consensus pattern (7 bp):
GATGAGG
Found at i:60997273 original size:28 final size:28
Alignment explanation
Indices: 60997242--60997296 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
60997232 GAAGAGAGAA
60997242 TGATGA-TGGATGAGGGATAAGGGATCAG
1 TGATGAGT-GATGAGGGATAAGGGATCAG
*
60997270 TGATGAGTGATGAGGGATGAGGGATCA
1 TGATGAGTGATGAGGGATAAGGGATCA
60997297 AATGAGGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.44, T:0.22
Consensus pattern (28 bp):
TGATGAGTGATGAGGGATAAGGGATCAG
Found at i:60999229 original size:20 final size:20
Alignment explanation
Indices: 60999206--60999255 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
60999196 TATTACTATA
*
60999206 CAAAAGAGAACATTGAACTT
1 CAAAACAGAACATTGAACTT
* *
60999226 CAAAACAGAACCTTTAACTT
1 CAAAACAGAACATTGAACTT
*
60999246 CAAAATAGAA
1 CAAAACAGAA
60999256 TAATAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.18, G:0.10, T:0.20
Consensus pattern (20 bp):
CAAAACAGAACATTGAACTT
Found at i:60999598 original size:22 final size:21
Alignment explanation
Indices: 60999552--60999600 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
60999542 GTTGCATATA
*
60999552 AAAACATACTCCAAACACACTT
1 AAAACATAC-CCAAACACACAT
60999574 AAAACATA-CCAAGACACATCAT
1 AAAACATACCCAA-ACACA-CAT
60999596 AAAAC
1 AAAAC
60999601 CATTTATTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 5 0.21
22 15 0.62
ACGTcount: A:0.55, C:0.29, G:0.02, T:0.14
Consensus pattern (21 bp):
AAAACATACCCAAACACACAT
Found at i:61024360 original size:17 final size:18
Alignment explanation
Indices: 61024319--61024364 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
61024309 TGTGGGCCTA
*
61024319 TATGGGCCGAAATGGGCCG
1 TATGGGCC-CAATGGGCCG
*
61024338 TATGGGCCCAATGGG-CT
1 TATGGGCCCAATGGGCCG
61024355 TATGGGCCCA
1 TATGGGCCCA
61024365 TGCAGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.44
18 6 0.24
19 8 0.32
ACGTcount: A:0.20, C:0.24, G:0.37, T:0.20
Consensus pattern (18 bp):
TATGGGCCCAATGGGCCG
Found at i:61025045 original size:33 final size:33
Alignment explanation
Indices: 61025003--61025076 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
61024993 TTTTGCACTG
61025003 TACTGATACTGAATAGGGCTTTGGCCCAGACTA
1 TACTGATACTGAATAGGGCTTTGGCCCAGACTA
* *
61025036 TACTGATACTGAATAGGGCTTTGGCCCAGCCTG
1 TACTGATACTGAATAGGGCTTTGGCCCAGACTA
61025069 TACTGATA
1 TACTGATA
61025077 TTGTGTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (33 bp):
TACTGATACTGAATAGGGCTTTGGCCCAGACTA
Found at i:61027801 original size:43 final size:44
Alignment explanation
Indices: 61027754--61027863 Score: 156
Period size: 43 Copynumber: 2.6 Consensus size: 44
61027744 CATCGACTTG
61027754 TGATTTACATGTAAGACCATGTCTAGGACA-TCGGCATC-ATATT
1 TGATTTACATGTAAGACCATGTCTAGGACAGT-GGCATCGATATT
* *
61027797 TGATTT-CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATT
1 TGATTTACATGTAAGACCATGTCTAGGACAGTGGCATCGATATT
*
61027840 TGA-TTACATGTAAGACCACGTCTA
1 TGATTTACATGTAAGACCATGTCTA
61027864 AGACCTTAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (44 bp):
TGATTTACATGTAAGACCATGTCTAGGACAGTGGCATCGATATT
Found at i:61028006 original size:47 final size:47
Alignment explanation
Indices: 61027905--61027999 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
61027895 ATCCACGTAT
* *
61027905 CCTTATGATTCTGAATGGTTCAACTGGCATTCTGAGGAAATGAATGA
1 CCTTATGATTCCGAATAGTTCAACTGGCATTCTGAGGAAATGAATGA
61027952 CCTTATGATTCCGAATAGTTCAACTGGCATTCTGAGGAAATGAATGA
1 CCTTATGATTCCGAATAGTTCAACTGGCATTCTGAGGAAATGAATGA
61027999 C
1 C
61028000 TATATGAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (47 bp):
CCTTATGATTCCGAATAGTTCAACTGGCATTCTGAGGAAATGAATGA
Found at i:61041020 original size:18 final size:18
Alignment explanation
Indices: 61040993--61041032 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
61040983 GGTCACAATT
61040993 AATAGCGTCACTAT-CATC
1 AATAGCGTCACT-TGCATC
*
61041011 AATAGTGTCACTTGCATC
1 AATAGCGTCACTTGCATC
61041029 AATA
1 AATA
61041033 TCTCAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (18 bp):
AATAGCGTCACTTGCATC
Found at i:61044473 original size:42 final size:43
Alignment explanation
Indices: 61044369--61044529 Score: 177
Period size: 43 Copynumber: 3.8 Consensus size: 43
61044359 CAATATGTGT
* *
61044369 TTTCGTGTAAGACCACGTC-GGGACGTTGGCATCGACT-TATGA
1 TTTCGTGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGA
*
61044411 TTTACGTGTAAGACCATGTCTGGGACATTGGCATC-ATATTTGA
1 TTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGA
* * * *
61044454 TTTTGTGTAAGACC-CTGTCTAGGATAGTGGCATCGATATTTGA
1 TTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGA
* * *
61044497 TTACATGTAAGACCACGTTTGGGACATTGGCAT
1 TTTCGTGTAAGACCACGTCTGGGACATTGGCAT
61044530 TGTACAAGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 29 0.30
43 55 0.56
44 14 0.14
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGA
Found at i:61046879 original size:57 final size:57
Alignment explanation
Indices: 61046781--61046929 Score: 160
Period size: 57 Copynumber: 2.6 Consensus size: 57
61046771 TATTGTATTA
* *
61046781 CAGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATGCTC-AGAAGAGCTTA-AT
1 CAGGATTACCAGTCCAGGCTAAATCCTTTATAT-ACATATGCTCGAGAAGA-ATTATAT
* * *
61046838 TAGGATTACCAGTCCAGGCTAAATCCTAATTGTAT-CATATGCTCGAGAGGAATTATAT
1 CAGGATTACCAGTCCAGGCTAAATCCT--TTATATACATATGCTCGAGAAGAATTATAT
* * * *
61046896 CAGGATTACCCGTCCAGACTAAATCTTTTCTATA
1 CAGGATTACCAGTCCAGGCTAAATCCTTTATATA
61046930 ACGAGGTCAT
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
56 5 0.06
57 37 0.48
58 30 0.39
59 5 0.06
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (57 bp):
CAGGATTACCAGTCCAGGCTAAATCCTTTATATACATATGCTCGAGAAGAATTATAT
Found at i:61052354 original size:43 final size:43
Alignment explanation
Indices: 61052258--61052424 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
61052248 CCGAGATGTG
* *
61052258 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTATA
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATAATA
* * *
61052301 ATTACGTGTAAGACCATGTTTGGGACATTGGCATCGT-TAATCG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATAAT-A
* * * * ** * *
61052344 TTTACCTGTAAGACCTTGTCTGAGACGGTGGCATCG-ATATGTG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATA-ATA
* * * *
61052387 ATAACATGTAAGACCATATCTGGGATA-TGGCATTGTAT
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
61052425 GAGCTATATG
Statistics
Matches: 98, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 10 0.10
43 87 0.89
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATAATA
Found at i:61053964 original size:18 final size:20
Alignment explanation
Indices: 61053928--61053974 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
61053918 AGTTGTAAGT
61053928 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
61053948 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
61053967 ATGATATA
1 AT-ATATA
61053975 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:61054411 original size:50 final size:50
Alignment explanation
Indices: 61054322--61054705 Score: 351
Period size: 50 Copynumber: 7.6 Consensus size: 50
61054312 TCCGTTGTGA
* *
61054322 GTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * * *
61054372 GTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTACC-CATTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* ** * * * * * *
61054423 ATCATGTGTGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** * * *
61054473 GTCATGTGTGAAGTACTAAGTGTAGGCTACTATGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* ** * * *
61054523 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * *
61054574 ATCACGTGTGTAGTAC-ACAGTGCAGGCTACTACGTGTATCAAATGGTTAA
1 GTCACATGTGTAGTACTA-AGTGCAGGCTACTACGTGTACCAGATTGATAG
61054624 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** *
61054674 GTTGCATGTGTAGTACTAAGTGCAAGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
61054706 TGCGTAACAG
Statistics
Matches: 261, Mismatches: 65, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
49 7 0.03
50 184 0.70
51 67 0.26
52 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:61054502 original size:101 final size:100
Alignment explanation
Indices: 61054327--61054512 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 100
61054317 TGTGAGTCAC
* * *
61054327 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATATGTAGTACTAAG
1 GTGTGTAGTACTAAATGCAAGCTACTACGTGTACCAGATGGATAAGTC-CATATGTAGTACTAAG
61054392 TGCAGGCTACTATGCGTACCCATTAACTTCGATCAT
65 TGCAGGCTACTATGCGTACCCATTAACTTCGATCAT
* * * * *
61054428 GTGTGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGTTAAGT-CATGTGTGAAGTACTAA
1 GTGTGTAGTACTAAATGCAAGCTACTACGTGTACCAGATGGATAAGTCCATATGT--AGTACTAA
* *
61054492 GTGTAGGCTACTATGTGTACC
64 GTGCAGGCTACTATGCGTACC
61054513 AGATTGATAG
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
99 6 0.08
101 67 0.92
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (100 bp):
GTGTGTAGTACTAAATGCAAGCTACTACGTGTACCAGATGGATAAGTCCATATGTAGTACTAAGT
GCAGGCTACTATGCGTACCCATTAACTTCGATCAT
Found at i:61054601 original size:151 final size:151
Alignment explanation
Indices: 61054321--61054708 Score: 607
Period size: 151 Copynumber: 2.6 Consensus size: 151
61054311 ATCCGTTGTG
* *
61054321 AGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATATGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * *
61054386 ACTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCATGTGTGTAGTACTAAATGTAGGCT
66 ACTAAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACGTGTGTAGTACTAAATGCAGGCT
*
61054451 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAAATGGTTA
* * * * *
61054472 AGTCATGTGTGAAGTACTAAGTGTAGGCTACTATGTGTACCAGATTGATAGGTCACATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * *
61054537 ACTAAGTGCAGGCTACTATGCATACCCGTTAACTTTGATCACGTGTGTAGTAC-ACAGTGCAGGC
66 ACTAAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACGTGTGTAGTACTA-AATGCAGGC
61054601 TACTACGTGTATCAAATGGTTA
130 TACTACGTGTATCAAATGGTTA
* *
61054623 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
*
61054688 ACTAAGTGCAAGCTACTATGC
66 ACTAAGTGCAGGCTACTATGC
61054709 GTAACAGAGA
Statistics
Matches: 214, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
150 1 0.00
151 213 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCATACCCATTAACTTCGATCACGTGTGTAGTACTAAATGCAGGCT
ACTACGTGTATCAAATGGTTA
Found at i:61054937 original size:16 final size:16
Alignment explanation
Indices: 61054916--61054947 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61054906 AGAATGGAGT
61054916 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
61054932 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
61054948 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:61059962 original size:20 final size:19
Alignment explanation
Indices: 61059937--61059992 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
61059927 ATTGGGCCTT
*
61059937 GCCCATATTGACACAGTTGG
1 GCCCATATTAACACAGTT-G
* *
61059957 GCCCATTTTAATACAGTTG
1 GCCCATATTAACACAGTTG
* *
61059976 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
61059993 CTCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (19 bp):
GCCCATATTAACACAGTTG
Found at i:61063058 original size:18 final size:19
Alignment explanation
Indices: 61063035--61063078 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
61063025 ATTGAGGAAG
61063035 AAAAAGAAGAAATGAA-AA-
1 AAAAAGAAGAAA-GAAGAAC
61063053 AAAAAG-AGAAAGAAGAAC
1 AAAAAGAAGAAAGAAGAAC
61063071 AAAAAGAA
1 AAAAAGAA
61063079 ATAATGTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 7 0.30
18 12 0.52
19 1 0.04
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.02
Consensus pattern (19 bp):
AAAAAGAAGAAAGAAGAAC
Found at i:61068060 original size:6 final size:6
Alignment explanation
Indices: 61068049--61068091 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
61068039 ACAGCATGCT
* * * *
61068049 CTTGAG CTTGAG CTTGAG CCTGCG CTTGAG CCTGAG CCTGAG C
1 CTTGAG CTTGAG CTTGAG CTTGAG CTTGAG CTTGAG CTTGAG C
61068092 CGTGTCGTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.14, C:0.28, G:0.33, T:0.26
Consensus pattern (6 bp):
CTTGAG
Found at i:61068066 original size:12 final size:12
Alignment explanation
Indices: 61068049--61068092 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
61068039 ACAGCATGCT
*
61068049 CTTGAGCTTGAG
1 CTTGAGCCTGAG
*
61068061 CTTGAGCCTGCG
1 CTTGAGCCTGAG
61068073 CTTGAGCCTGAG
1 CTTGAGCCTGAG
*
61068085 CCTGAGCC
1 CTTGAGCC
61068093 GTGTCGTCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.14, C:0.30, G:0.32, T:0.25
Consensus pattern (12 bp):
CTTGAGCCTGAG
Found at i:61068077 original size:18 final size:18
Alignment explanation
Indices: 61068054--61068088 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
61068044 ATGCTCTTGA
*
61068054 GCTTGAGCTTGAGCCTGC
1 GCTTGAGCCTGAGCCTGC
61068072 GCTTGAGCCTGAGCCTG
1 GCTTGAGCCTGAGCCTG
61068089 AGCCGTGTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.29, G:0.34, T:0.26
Consensus pattern (18 bp):
GCTTGAGCCTGAGCCTGC
Found at i:61069581 original size:5 final size:5
Alignment explanation
Indices: 61069565--61069595 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
61069555 ACTAGGCCTA
61069565 GGCCC GGGCCC GGCCC GGCCC GGCCC GGCCC
1 GGCCC -GGCCC GGCCC GGCCC GGCCC GGCCC
61069596 AAAATATGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.00, C:0.58, G:0.42, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:61069754 original size:24 final size:25
Alignment explanation
Indices: 61069709--61069757 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
61069699 AAATAAAAAA
* *
61069709 ATTTAAAAATATAATAATCAAATAT
1 ATTTAAAAACATAATAAACAAATAT
61069734 ATTTAAAAACATAA-AAACAAATAT
1 ATTTAAAAACATAATAAACAAATAT
61069758 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (25 bp):
ATTTAAAAACATAATAAACAAATAT
Found at i:61069757 original size:22 final size:24
Alignment explanation
Indices: 61069709--61069772 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
61069699 AAATAAAAAA
* *
61069709 ATTTAAAAATATAATAATCAAATAT
1 ATTTAAAAAAATAA-AAACAAATAT
*
61069734 ATTTAAAAACATAAAAAC-AA-AT
1 ATTTAAAAAAATAAAAACAAATAT
61069756 A-TTAAAACAAATAAAAA
1 ATTTAAAA-AAATAAAAA
61069773 TAATACTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 6 0.17
22 11 0.31
23 2 0.06
24 3 0.09
25 13 0.37
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (24 bp):
ATTTAAAAAAATAAAAACAAATAT
Found at i:61069771 original size:21 final size:20
Alignment explanation
Indices: 61069739--61069786 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
61069729 AATATATTTA
* *
61069739 AAAACATAAAAACA-AATATT
1 AAAACA-AAAAAAATAATACT
61069759 AAAACAAATAAAAATAATACT
1 AAAACAAA-AAAAATAATACT
61069780 AAAACAA
1 AAAACAA
61069787 TTCTTAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.42
21 12 0.50
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAACAAAAAAAATAATACT
Found at i:61076453 original size:20 final size:20
Alignment explanation
Indices: 61076430--61076498 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
61076420 TACAAATAAA
*
61076430 CTGCCAGTAATGCAGACAAG
1 CTGCCAGTAATGTAGACAAG
* *
61076450 CTGCCAATAATGTGGACAAG
1 CTGCCAGTAATGTAGACAAG
* * * * *
61076470 TTACTAGTAATGTAGATAAA
1 CTGCCAGTAATGTAGACAAG
61076490 CTGCCAGTA
1 CTGCCAGTA
61076499 TTTCCTCCTT
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (20 bp):
CTGCCAGTAATGTAGACAAG
Found at i:61078824 original size:30 final size:30
Alignment explanation
Indices: 61078789--61078860 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
61078779 GCTAAGAAAA
61078789 GTAATGTATGAAGGATGAA-CATAAGAGCAT
1 GTAATGTATGAAGGAT-AAGCATAAGAGCAT
*
61078819 TTAATGTATGAAGGATAAGCATAAGAGCAT
1 GTAATGTATGAAGGATAAGCATAAGAGCAT
*
61078849 GTAATGCATGAA
1 GTAATGTATGAA
61078861 ACCTGCTGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 2 0.05
30 36 0.95
ACGTcount: A:0.43, C:0.07, G:0.25, T:0.25
Consensus pattern (30 bp):
GTAATGTATGAAGGATAAGCATAAGAGCAT
Found at i:61079581 original size:62 final size:61
Alignment explanation
Indices: 61079459--61079587 Score: 150
Period size: 62 Copynumber: 2.1 Consensus size: 61
61079449 GTGGTGAACT
* * *
61079459 TCTGGACAAAAAAGCTTTTGTGGCGAGTACTGGATGTAAAAGAAAACCCTTATGGTAAAAC
1 TCTGGACAAAAAAGCTTTTGTAGCGAGTACTGAATGTAAAAGAAAACCCTTATGGCAAAAC
* * * *** * *
61079520 TCTGGACAGAAAAGCCTTTTGTAGTGAGTACTGAATGTTAAAGATTGCCTTTGTGGCAAAAC
1 TCTGGACAAAAAAG-CTTTTGTAGCGAGTACTGAATGTAAAAGAAAACCCTTATGGCAAAAC
61079582 TCTGGA
1 TCTGGA
61079588 AAGGTAAATC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
61 13 0.23
62 43 0.77
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (61 bp):
TCTGGACAAAAAAGCTTTTGTAGCGAGTACTGAATGTAAAAGAAAACCCTTATGGCAAAAC
Found at i:61079725 original size:28 final size:29
Alignment explanation
Indices: 61079674--61079743 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
61079664 TACTGAATGA
*
61079674 AAAGGAATGCCTTTATGGTAGA-TCTATG
1 AAAGGAATGCCTTCATGGTAGACTCTATG
*
61079702 AAAGGAAATGCCTTCATGGT-GATCTCTATT
1 AAAGG-AATGCCTTCATGGTAGA-CTCTATG
61079732 AAAGGAATGCCT
1 AAAGGAATGCCT
61079744 CTAAAGTAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 7 0.19
29 20 0.54
30 10 0.27
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (29 bp):
AAAGGAATGCCTTCATGGTAGACTCTATG
Found at i:61080533 original size:244 final size:243
Alignment explanation
Indices: 61080104--61080584 Score: 845
Period size: 244 Copynumber: 2.0 Consensus size: 243
61080094 CAGGAAACTC
* * *
61080104 TTATATCCATAGAACTCTGAAAGAAAGACTCTATATGTAAACGAAATGGCGAACTTGTCTAGTAA
1 TTATATCCAGAGAACTCTGAAAGAAACACTCTATATGTAAACAAAATGGCGAACTTGTCTAGTAA
* * * *
61080169 TGAGAGATAAACAGTGAAACTAGAAGACGCCAAAACATGTGGCGAATTTGGCATGTAAGTTAAGG
66 TGAGAAATAAACAGTGAAACTAGAAGACGCCAAAACATCTGGCAAATTCGGCATGTAAGTTAAGG
* *
61080234 GAAGGTACAAATAGTAATCTAAAGTAAGGAAGATCCTTATGAACTCTGAGTTAAGTAATGGGCAT
131 GAAGGTAAAAATAGTAATCTAAAGTAAGGAAGATCCTTATGAACTCTGAGTTAAGTAATAGGCAT
61080299 AGTCTACCTTGCCCAAAGGTAGTGGTAAGATCAAAAAGTATGAGAATTT
196 AGTCTACC-TGCCCAAAGGTAGTGGTAAGATCAAAAAGTATGAGAATTT
*
61080348 TTATATCCAGCGAACTCTGAAAGAAACACTCTATATGTAAACAAAATGGCGAACTTGTCTAGTAA
1 TTATATCCAGAGAACTCTGAAAGAAACACTCTATATGTAAACAAAATGGCGAACTTGTCTAGTAA
* *
61080413 TGAGAAATGAACAGTGAAACTAGAAGACGCCAAAACATCTGGCAAATTCGGGATGTAAGTTAAGG
66 TGAGAAATAAACAGTGAAACTAGAAGACGCCAAAACATCTGGCAAATTCGGCATGTAAGTTAAGG
61080478 GAAGGTAAAAATAGTAATCTAAAGTAAGGAAGATCCTTATGAACTCTGAGTTAAGTAATAGGCAT
131 GAAGGTAAAAATAGTAATCTAAAGTAAGGAAGATCCTTATGAACTCTGAGTTAAGTAATAGGCAT
61080543 AGTCTACCTGCCCAAAGGTAGTGGTAAGATCAAAAAGTATGA
196 AGTCTACCTGCCCAAAGGTAGTGGTAAGATCAAAAAGTATGA
61080585 AATCAGATTT
Statistics
Matches: 225, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
243 34 0.15
244 191 0.85
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (243 bp):
TTATATCCAGAGAACTCTGAAAGAAACACTCTATATGTAAACAAAATGGCGAACTTGTCTAGTAA
TGAGAAATAAACAGTGAAACTAGAAGACGCCAAAACATCTGGCAAATTCGGCATGTAAGTTAAGG
GAAGGTAAAAATAGTAATCTAAAGTAAGGAAGATCCTTATGAACTCTGAGTTAAGTAATAGGCAT
AGTCTACCTGCCCAAAGGTAGTGGTAAGATCAAAAAGTATGAGAATTT
Found at i:61083946 original size:46 final size:46
Alignment explanation
Indices: 61083896--61084257 Score: 379
Period size: 46 Copynumber: 7.8 Consensus size: 46
61083886 TGGTTGAGCA
61083896 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61083942 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
61083987 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61084035 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
61084080 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61084128 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
61084173 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
61084221 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61084258 GCGGGTTACA
Statistics
Matches: 266, Mismatches: 23, Indels: 54
0.78 0.07 0.16
Matches are distributed among these distances:
42 6 0.02
43 15 0.06
45 9 0.03
46 120 0.45
47 87 0.33
48 9 0.03
50 14 0.05
51 6 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61084052 original size:93 final size:93
Alignment explanation
Indices: 61083893--61084250 Score: 680
Period size: 93 Copynumber: 3.8 Consensus size: 93
61083883 GGATGGTTGA
61083893 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
61083958 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
61083986 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
61084051 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
61084079 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
61084144 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
61084172 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
61084237 TGAGTCCAAGTTCG
66 TGAGTCCGAGTTCG
61084251 CTTATGGGCG
Statistics
Matches: 261, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 261 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:61088552 original size:38 final size:38
Alignment explanation
Indices: 61088509--61088804 Score: 447
Period size: 38 Copynumber: 7.8 Consensus size: 38
61088499 GGCCTAAAGA
* *
61088509 CCCGCAGGCTAT-ATGCTGG-AATTATATCCGAGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGTAA-TATATCCGGGTTAAAT
* **
61088547 CCCGCAGGCTTCATGCTGGTAATATATTTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
61088585 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
61088623 CCCGCAGGCTTCGTGCT-GTAATATATCCAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
61088660 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
61088698 CCCGCAGGCTTCGTGCT-GTAATATATCCAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
61088735 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* * * *
61088773 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGG
61088805 CCTTCGTGCC
Statistics
Matches: 240, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
37 73 0.30
38 165 0.69
39 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
Found at i:61088661 original size:113 final size:111
Alignment explanation
Indices: 61088509--61088804 Score: 434
Period size: 113 Copynumber: 2.6 Consensus size: 111
61088499 GGCCTAAAGA
* *
61088509 CCCGCAGGCTAT-ATGCTGGAATTATATCCGAGTTAAATCCCGCAGGCTTCATGCTGGTAATATA
1 CCCGCAGGCT-TCGTGCTGTAA-TATATCCG-GTTAAATCCCGCAGGCTTCATGCTGGTAATATA
* *
61088573 TTTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
63 TTCGGGTTAAATCCCGCAGGCTTCGTGCT-GTAATATATCCAGGTTAAAT
* *
61088623 CCCGCAGGCTTCGTGCTGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATC
1 CCCGCAGGCTTCGTGCTGTAATATATCC-GGTTAAATCCCGCAGGCTTCATGCTGGTAATATATT
61088688 CGGGTTAAATCCCGCAGGCTTCGTGCTGTAATATATCCAGGTTAAAT
65 CGGGTTAAATCCCGCAGGCTTCGTGCTGTAATATATCCAGGTTAAAT
* *
61088735 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCCT-AGTGCTGGTATTATA
1 CCCGCAGGCTTCGTGCT-GTAATATATCC-GGTTAAATCCCGCAGGCTTCA-TGCTGGTAATATA
61088799 TTCGGG
63 TTCGGG
61088805 CCTTCGTGCC
Statistics
Matches: 167, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
112 36 0.22
113 113 0.68
114 18 0.11
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (111 bp):
CCCGCAGGCTTCGTGCTGTAATATATCCGGTTAAATCCCGCAGGCTTCATGCTGGTAATATATTC
GGGTTAAATCCCGCAGGCTTCGTGCTGTAATATATCCAGGTTAAAT
Found at i:61088679 original size:75 final size:76
Alignment explanation
Indices: 61088509--61088799 Score: 455
Period size: 75 Copynumber: 3.9 Consensus size: 76
61088499 GGCCTAAAGA
* * *
61088509 CCCGCAGGCTAT-ATGCTGG-AATTATATCCGAGTTAAATCCCGCAGGCTTCATGCTGGTAATAT
1 CCCGCAGGCT-TCGTGCTGGTAA-TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATAT
***
61088572 ATTTGGGTTAAAT
64 ATCCAGGTTAAAT
61088585 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCT-GTAATATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
61088649 CCAGGTTAAAT
66 CCAGGTTAAAT
61088660 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCT-GTAATATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
61088724 CCAGGTTAAAT
66 CCAGGTTAAAT
* * *
61088735 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
61088800 TCGGGCCTTC
Statistics
Matches: 203, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
75 146 0.72
76 55 0.27
77 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (76 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
CCAGGTTAAAT
Found at i:61092915 original size:43 final size:44
Alignment explanation
Indices: 61092806--61092980 Score: 148
Period size: 43 Copynumber: 4.1 Consensus size: 44
61092796 ATATGGTACA
* * *
61092806 ATGCCAACGTCCCTAACGTGGTCTTACAT-GTAATCTCATA-ACG
1 ATGCCAACGTCCCAAACGTGGTCTTACATCGTAAACACATATA-G
* *
61092849 ATGCC-ACTATCCCAAATAG-GGTCTTA-ATCGTAAACACATATAG
1 ATGCCAAC-GTCCCAAA-CGTGGTCTTACATCGTAAACACATATAG
* * * *
61092892 ATGCCAATGTCCCAAACGTGGTCTTACA-CATAACCACATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACATCGTAAACACATATAG
* * * * *
61092935 ATGCCAACGTCCCAGACATGGTCTTACAT-ATAATCACATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACATCGTAAACACATATAG
61092978 ATG
1 ATG
61092981 TCTATATACA
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
42 5 0.05
43 100 0.92
44 4 0.04
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAAACGTGGTCTTACATCGTAAACACATATAG
Found at i:61092973 original size:86 final size:86
Alignment explanation
Indices: 61092806--61092980 Score: 192
Period size: 86 Copynumber: 2.0 Consensus size: 86
61092796 ATATGGTACA
* ** * * *
61092806 ATGCCAACGTCCCTAACGTGGTCTTACATGTAATCTCATAACGATGCCACTATCCCAAATAGGGT
1 ATGCCAACGTCCCAAACGTGGTCTTACACATAACCACATAACGATGCCACTATCCCAAACAGGGT
*
61092871 CTTAATCGTAAACACATATAG
66 CTTAATCATAAACACATATAG
* * * * *
61092892 ATGCCAATGTCCCAAACGTGGTCTTACACATAACCACATATCGATGCCAAC-GTCCCAGACATGG
1 ATGCCAACGTCCCAAACGTGGTCTTACACATAACCACATAACGATGCC-ACTATCCCAAACAGGG
* *
61092956 TCTTACAT-ATAATCACATATCG
65 TCTTA-ATCATAAACACATATAG
61092978 ATG
1 ATG
61092981 TCTATATACA
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
86 69 0.95
87 4 0.05
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (86 bp):
ATGCCAACGTCCCAAACGTGGTCTTACACATAACCACATAACGATGCCACTATCCCAAACAGGGT
CTTAATCATAAACACATATAG
Found at i:61094320 original size:376 final size:376
Alignment explanation
Indices: 61093626--61094537 Score: 1797
Period size: 376 Copynumber: 2.4 Consensus size: 376
61093616 TTCCTTAAGT
61093626 CCCTAACATCCCATTAATTTCATTTATTTCACATTTTGACCCCTAAATTTGCAAATTTCACAATT
1 CCCTAACATCCCATTAATTTCATTTATTTCACATTTTGACCCCTAAATTTGCAAATTTCACAA-T
* *
61093691 TAATCCTTAATAAGCATTTTTATCAAAAATCACTTAATTAAACATAATAATCTATCAACAAATAT
65 TAATCCTTAATAAGGATTTTTATCAAAAATCACTTAATTAAACATAATAATCTATCAAAAAATAT
61093756 TTATTTTTCATCATCAAACAACAAAAACATGAAGCTATCATCAATGAAAAATTACAAATTCATCA
130 TTATTTTTCATCATCAAACAACAAAAACATGAAGCTATCATCAATGAAAAATTACAAATTCATCA
61093821 TAAATTCTAAAAATTAGGGCATGGGCTAGCTAGAATACGAAGCAATGATCTCAAAAACATAAAAA
195 TAAATTCTAAAAATTAGGGCATGGGCTAGCTAGAATACGAAGCAATGATCTCAAAAACATAAAAA
61093886 TTATCAAAAGTCGAGCAAAGAACATACCTAAATCAAGATTTAAAGGTGTCAAAATTCACCAAGCT
260 TTATCAAAAGTCGAGCAAAGAACATACCTAAATCAAGATTTAAAGGTGTCAAAATTCACCAAGCT
61093951 TCGAACCTTATTTCTTTTCAAGCTTATTTCAAACCTTATTTTAAGCTTCAAA
325 TCGAACCTTATTTCTTTTCAAGCTTATTTCAAACCTTATTTTAAGCTTCAAA
61094003 CCCTAACATCCCATTAATTTCATTTATTTCACATTTTGACCCCTAAATTTGCAAATTTCACAATT
1 CCCTAACATCCCATTAATTTCATTTATTTCACATTTTGACCCCTAAATTTGCAAATTTCACAATT
61094068 AATCCTTAATAAGGATTTTTATCAAAAATCACTTAATTAAACATAATAATCTATCAAAAAATATT
66 AATCCTTAATAAGGATTTTTATCAAAAATCACTTAATTAAACATAATAATCTATCAAAAAATATT
61094133 TATTTTTCATCATCAAACAACAAAAACATGAAGCTATCATCAATGAAAAATTACAAATTCATCAT
131 TATTTTTCATCATCAAACAACAAAAACATGAAGCTATCATCAATGAAAAATTACAAATTCATCAT
61094198 AAATTCTAAAAATTAGGGCATGGGCTAGCTAGAATACGAAGCAATGATCTCAAAAACATAAAAAT
196 AAATTCTAAAAATTAGGGCATGGGCTAGCTAGAATACGAAGCAATGATCTCAAAAACATAAAAAT
61094263 TATCAAAAGTCGAGCAAAGAACATACCTAAATCAAGATTTAAAGGTGTCAAAATTCACCAAGCTT
261 TATCAAAAGTCGAGCAAAGAACATACCTAAATCAAGATTTAAAGGTGTCAAAATTCACCAAGCTT
61094328 CGAACCTTATTTCTTTTCAAGCTTATTTCAAACCTTATTTTAAGCTTCAAA
326 CGAACCTTATTTCTTTTCAAGCTTATTTCAAACCTTATTTTAAGCTTCAAA
61094379 CCCTAACATCCCATTAATTTCATTTATTTCACATTTTGACCCCTAAATTTGCAAATTTCACAATT
1 CCCTAACATCCCATTAATTTCATTTATTTCACATTTTGACCCCTAAATTTGCAAATTTCACAATT
61094444 AATCCTTAATAAGGATTTTTATCAAAAATCACTTAATTAAACATAATAATCTATCAAAAAATATT
66 AATCCTTAATAAGGATTTTTATCAAAAATCACTTAATTAAACATAATAATCTATCAAAAAATATT
61094509 TATTTTTCATCATCAAACAACAAAAACAT
131 TATTTTTCATCATCAAACAACAAAAACAT
61094538 NNNNNNNNNN
Statistics
Matches: 533, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
376 470 0.88
377 63 0.12
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (376 bp):
CCCTAACATCCCATTAATTTCATTTATTTCACATTTTGACCCCTAAATTTGCAAATTTCACAATT
AATCCTTAATAAGGATTTTTATCAAAAATCACTTAATTAAACATAATAATCTATCAAAAAATATT
TATTTTTCATCATCAAACAACAAAAACATGAAGCTATCATCAATGAAAAATTACAAATTCATCAT
AAATTCTAAAAATTAGGGCATGGGCTAGCTAGAATACGAAGCAATGATCTCAAAAACATAAAAAT
TATCAAAAGTCGAGCAAAGAACATACCTAAATCAAGATTTAAAGGTGTCAAAATTCACCAAGCTT
CGAACCTTATTTCTTTTCAAGCTTATTTCAAACCTTATTTTAAGCTTCAAA
Found at i:61100604 original size:53 final size:52
Alignment explanation
Indices: 61100490--61100602 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 52
61100480 AAATGAAAAC
61100490 AAAAAAAATGAGTGGTTGTTTCCCCCCCCCCATTGCCGTGAGCTAAAGAAAGG
1 AAAAAAAATGAGTGGTTGTTT-CCCCCCCCCATTGCCGTGAGCTAAAGAAAGG
61100543 AAAAAAAATGAGTGGTTGTTT-CCCCCCCCATTGCCGTGAGCTAAAGAAAGG
1 AAAAAAAATGAGTGGTTGTTTCCCCCCCCCATTGCCGTGAGCTAAAGAAAGG
61100594 AAAAGAAAA
1 AAAA-AAAA
61100603 ATTTTGTTCA
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
51 34 0.58
52 4 0.07
53 21 0.36
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (52 bp):
AAAAAAAATGAGTGGTTGTTTCCCCCCCCCATTGCCGTGAGCTAAAGAAAGG
Found at i:61101783 original size:29 final size:28
Alignment explanation
Indices: 61101747--61101824 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
61101737 TCATGAGATT
61101747 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
61101777 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
61101804 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
61101825 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:61102083 original size:171 final size:173
Alignment explanation
Indices: 61101777--61102101 Score: 537
Period size: 171 Copynumber: 1.9 Consensus size: 173
61101767 AAATTGTACA
* *
61101777 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGT-CGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
61101842 TGTGCGAACCCAATAGATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
65 TGTGCGAACCCAATAGATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
61101907 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
61101951 GCACTAAGTGT-GAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATGT
1 GCACTAAGTGTCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGT
* *
61102015 GTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
66 GTGCGAACCCAATAGATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
*
61102079 TTTGGACAGTGGAAAAGGTAAGT
131 TTTGGACAGCGGAAAAGGTAAGT
61102102 ACCTTGAGTT
Statistics
Matches: 141, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
171 78 0.55
172 52 0.37
174 11 0.08
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (173 bp):
GCACTAAGTGTCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATGT
GTGCGAACCCAATAGATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:61121060 original size:19 final size:20
Alignment explanation
Indices: 61121016--61121058 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
61121006 TTTACAACAC
61121016 AAAATAATTTTCAAAAATTA
1 AAAATAATTTTCAAAAATTA
**
61121036 AAAATAATTTTTTAAAATTA
1 AAAATAATTTTCAAAAATTA
61121056 AAA
1 AAA
61121059 TATTTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATAATTTTCAAAAATTA
Found at i:61121070 original size:18 final size:20
Alignment explanation
Indices: 61121016--61121072 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
61121006 TTTACAACAC
61121016 AAAATAATTT-TCAAAAATTA
1 AAAATAATTTAT-AAAAATTA
* *
61121036 AAAATAATTTTTTAAAATT-
1 AAAATAATTTATAAAAATTA
61121055 AAAAT-ATTTATAAAAATT
1 AAAATAATTTATAAAAATT
61121073 TTATATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 11 0.33
19 5 0.15
20 16 0.48
21 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATAATTTATAAAAATTA
Found at i:61122932 original size:31 final size:30
Alignment explanation
Indices: 61122867--61122932 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 30
61122857 AATTAATTAA
*
61122867 TTTTTAAAATTAAAATTATTTAAAATATAT
1 TTTTTAAAATTAAAATTATTTAAAATATAC
* * *
61122897 TTTTTATAATTTATAATTTTTTAAAA-ATAAC
1 TTTTTA-AAATTAAAATTATTTAAAATAT-AC
61122928 TTTTT
1 TTTTT
61122933 GGATTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTTTAAAATTAAAATTATTTAAAATATAC
Found at i:61127589 original size:82 final size:82
Alignment explanation
Indices: 61127496--61127688 Score: 268
Period size: 82 Copynumber: 2.4 Consensus size: 82
61127486 AGTATACATT
* * *
61127496 TTTCAACAAATCATTTCAAATAACAAACAAAATATGTTATTCAAACAAAATGATCCTATAGCAAT
1 TTTCAACAAATCATTTAAAAAAACAAACAAAATATGTTATGCAAACAAAATGATCCTATAGCAAT
61127561 AAAATGTTAACCAACCA
66 AAAATGTTAACCAACCA
* * *
61127578 TTTCAATAAATCATTTAAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTATAGCAGT
1 TTTCAACAAATCATTTAAAAAAACAAACAAAATATGTTATGCAAACAAAATGATCCTATAGCAAT
61127643 AAAATGTT----AACCA
66 AAAATGTTAACCAACCA
* *
61127656 TTTCAACAAATAATTTTAAAAAAAAAAAACAAA
1 TTTCAACAAATCA-TTT-AAAAAAACAAACAAA
61127689 CAAAATATGT
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
78 16 0.16
79 3 0.03
80 14 0.14
82 67 0.67
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (82 bp):
TTTCAACAAATCATTTAAAAAAACAAACAAAATATGTTATGCAAACAAAATGATCCTATAGCAAT
AAAATGTTAACCAACCA
Found at i:61134753 original size:54 final size:54
Alignment explanation
Indices: 61134665--61134773 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
61134655 CAACTTCCCT
* * * *
61134665 AACCCCCTCCTCACCACTTCTATCACTCTTACCACCTTCATTGACAGCAACATC
1 AACCCCCTCCTCACCACTTCTATCAATCTCACCACCTTCACTGAAAGCAACATC
* * *
61134719 AACCTCCTCCTCACCA-TATTTATCAATCTCACCACCTTCACTGAAAGTAACATC
1 AACCCCCTCCTCACCACT-TCTATCAATCTCACCACCTTCACTGAAAGCAACATC
61134773 A
1 A
61134774 TCACCCTTCC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.02
54 46 0.98
ACGTcount: A:0.29, C:0.40, G:0.04, T:0.27
Consensus pattern (54 bp):
AACCCCCTCCTCACCACTTCTATCAATCTCACCACCTTCACTGAAAGCAACATC
Found at i:61140964 original size:28 final size:28
Alignment explanation
Indices: 61140910--61140964 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
61140900 ATTTTTTAAT
* *
61140910 AATTTTAATTAATTTTTTTTTAAATTTG
1 AATTTTAATTAATATTTTTATAAATTTG
* *
61140938 AATTTTATTTAATATTTTTATATATTT
1 AATTTTAATTAATATTTTTATAAATTT
61140965 TTAAAATGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (28 bp):
AATTTTAATTAATATTTTTATAAATTTG
Found at i:61142434 original size:14 final size:14
Alignment explanation
Indices: 61142415--61142442 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61142405 TAATACAAAG
61142415 ACCTCTATGGTACT
1 ACCTCTATGGTACT
61142429 ACCTCTATGGTACT
1 ACCTCTATGGTACT
61142443 TTTACCCAAA
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:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (14 bp):
ACCTCTATGGTACT
Found at i:61143226 original size:13 final size:13
Alignment explanation
Indices: 61143208--61143270 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
61143198 TTGGCAATAT
61143208 TTTTAAAAAGTAC
1 TTTTAAAAAGTAC
* *
61143221 TTTTAAAGAGTGC
1 TTTTAAAAAGTAC
* *
61143234 TATGAAAAAGTAC
1 TTTTAAAAAGTAC
* * **
61143247 TTTTGAGAAGTGT
1 TTTTAAAAAGTAC
61143260 TTTTAAAAAGT
1 TTTTAAAAAGT
61143271 TTGATTTAAA
Statistics
Matches: 36, Mismatches: 14, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (13 bp):
TTTTAAAAAGTAC
Found at i:61143267 original size:26 final size:26
Alignment explanation
Indices: 61143207--61143270 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
61143197 TTTGGCAATA
61143207 TTTTTAAAAAGTACTTTTAAAGAGTG
1 TTTTTAAAAAGTACTTTTAAAGAGTG
* * * *
61143233 CTATGAAAAAGTACTTTT-GAGAAGTG
1 TTTTTAAAAAGTACTTTTAAAG-AGTG
61143259 TTTTTAAAAAGT
1 TTTTTAAAAAGT
61143271 TTGATTTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.39, C:0.05, G:0.17, T:0.39
Consensus pattern (26 bp):
TTTTTAAAAAGTACTTTTAAAGAGTG
Found at i:61150803 original size:39 final size:41
Alignment explanation
Indices: 61150727--61150812 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 41
61150717 TTGTATGCAT
* **
61150727 ACTGTATCTGAGATGGGCTAAGGCCCTAATTTATATCTGAA
1 ACTGTATCTGAGATAGGCTAAGGCCCTAAACTATATCTGAA
*
61150768 ACTGTATCTG-GATAGGCTAAGG-CCTAAACTGTATCTGAA
1 ACTGTATCTGAGATAGGCTAAGGCCCTAAACTATATCTGAA
*
61150807 TCTGTA
1 ACTGTA
61150813 ATGGGCTTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 19 0.47
40 11 0.28
41 10 0.25
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (41 bp):
ACTGTATCTGAGATAGGCTAAGGCCCTAAACTATATCTGAA
Found at i:61154335 original size:3 final size:3
Alignment explanation
Indices: 61154329--61154387 Score: 82
Period size: 3 Copynumber: 19.3 Consensus size: 3
61154319 ATCATCGTTG
* * *
61154329 TTA TTA TTA CTA TTA TTA TTA TTA TTA TGA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
61154377 TTA TTTA TTA T
1 TTA -TTA TTA T
61154388 CATCATCATC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:61154392 original size:3 final size:3
Alignment explanation
Indices: 61154386--61154555 Score: 340
Period size: 3 Copynumber: 56.7 Consensus size: 3
61154376 ATTATTTATT
61154386 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
61154434 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
61154482 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
61154530 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
61154556 TATTATTATT
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 167 1.00
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:61154560 original size:3 final size:3
Alignment explanation
Indices: 61154554--61154717 Score: 158
Period size: 3 Copynumber: 55.7 Consensus size: 3
61154544 CATCATCATC
* *
61154554 ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
61154602 ATT ATTT ACT ATT ATA ATTT ATT ATC ATT ATT ATC ATT ATT ATT ACT
1 ATT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
61154649 ATT GTT -TT ATT -TT ATT -TT TTT ACT ATT GTT GTT ATT -TT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
61154692 ATT ACT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
61154718 CATTTCTTAT
Statistics
Matches: 133, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
2 10 0.08
3 118 0.89
4 5 0.04
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:61154738 original size:23 final size:22
Alignment explanation
Indices: 61154653--61154770 Score: 71
Period size: 22 Copynumber: 5.2 Consensus size: 22
61154643 ATTACTATTG
* * *
61154653 TTTTATTTTATTTTTTTACTATT
1 TTTTATTTTGTTTTATTAATA-T
*
61154676 GTTGTTATTTT-TTATTATTACTAT
1 -TT-TTATTTTGTT-TTATTAATAT
* * *
61154700 TATTATTAT-TATTATT-ATCAT
1 TTTTATTTTGTTTTATTAAT-AT
61154721 TTCTTATTTTGTTTTATTTAATAT
1 TT-TTATTTTGTTTTA-TTAATAT
**
61154745 TTTTATTTTGTTTTATTTTTAT
1 TTTTATTTTGTTTTATTAATAT
61154767 TTTT
1 TTTT
61154771 TATATATTTG
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
20 1 0.01
21 8 0.10
22 22 0.29
23 18 0.23
24 11 0.14
25 17 0.22
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (22 bp):
TTTTATTTTGTTTTATTAATAT
Found at i:61154771 original size:23 final size:22
Alignment explanation
Indices: 61154719--61154773 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
61154709 TATTATTATC
*
61154719 ATTTCTTATTTTGTTTTATTTA
1 ATTTTTTATTTTGTTTTATTTA
*
61154741 ATATTTTTATTTTGTTTTATTTTT
1 AT-TTTTTATTTTGTTTTA-TTTA
61154765 ATTTTTTAT
1 ATTTTTTAT
61154774 ATATTTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 22 0.76
24 5 0.17
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (22 bp):
ATTTTTTATTTTGTTTTATTTA
Found at i:61156851 original size:20 final size:20
Alignment explanation
Indices: 61156826--61156865 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
61156816 GCTTGGCTTA
61156826 TTAAGTATCAGGGCAAGGCC
1 TTAAGTATCAGGGCAAGGCC
61156846 TTAAGTATCAGGGCAAGGCC
1 TTAAGTATCAGGGCAAGGCC
61156866 ATATATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (20 bp):
TTAAGTATCAGGGCAAGGCC
Found at i:61157991 original size:67 final size:67
Alignment explanation
Indices: 61157880--61158014 Score: 234
Period size: 67 Copynumber: 2.0 Consensus size: 67
61157870 TACGGATGTG
* * * *
61157880 TATAGACTATAGGGATTTGAACAAGGCCAACTTGAAAGATAATTTTTCATTGCCCCATATCGACA
1 TATAGACTATAGGGATTTGAACAAAGCCAACCTGAAAGACAATTTTCCATTGCCCCATATCGACA
61157945 CC
66 CC
61157947 TATAGACTATAGGGATTTGAACAAAGCCAACCTGAAAGACAATTTTCCATTGCCCCATATCGACA
1 TATAGACTATAGGGATTTGAACAAAGCCAACCTGAAAGACAATTTTCCATTGCCCCATATCGACA
61158012 CC
66 CC
61158014 T
1 T
61158015 TAGTAGACAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (67 bp):
TATAGACTATAGGGATTTGAACAAAGCCAACCTGAAAGACAATTTTCCATTGCCCCATATCGACA
CC
Found at i:61162059 original size:44 final size:44
Alignment explanation
Indices: 61161984--61162100 Score: 171
Period size: 44 Copynumber: 2.7 Consensus size: 44
61161974 CATGGCGAAT
* * *
61161984 CTTATCTCCCCGAAGTTACAGTGGAGCAGATTAAAGCCATTAAC
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATTAAC
* * *
61162028 GTTATCTCCCTAAAGTTGCAGTAGAGTAGATTAAAGCCATTAAC
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATTAAC
*
61162072 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAG
61162101 GTAGAAGATA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATTAAC
Found at i:61162319 original size:44 final size:44
Alignment explanation
Indices: 61162256--61162720 Score: 416
Period size: 44 Copynumber: 10.6 Consensus size: 44
61162246 GTCAAAAATA
*
61162256 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGTT
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * ** **
61162300 ACAAATCTCATAC-CTCTGAAGTTGTAGAGGAGTGGATT--A-CC
1 ACAAATCTTAT-CTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * *
61162341 ACAAATCTTATCTTTCTAAAGATGCAGTGGAGTAGATTGAAGTT
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * *
61162385 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATT
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * * ** * *
61162429 ACGAATCTCAACTCCCTGAAGTTATAGTGGAGTAGATTGAAGAT
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* *
61162473 AGCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCATATTGAAGTT
1 A-CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* ** * * * * * *
61162518 ATAGGTCTTATCTCCCTGAAGGTACAGTGGAACAGATTAAAGATA
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAG-TT
* *
61162563 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCT
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * * * * *
61162607 ATAAACCTTATCTCCCTAAAGATGCAGTAGAGCAGAATGAAGTT
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTT
* * * * * *
61162651 ACTATTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTTAAGCT
1 ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTT
*
61162695 ACAAGTCTTATCTCTCTGAAGTTGCA
1 ACAAATCTTATCTCTCTGAAGTTGCA
61162721 ATAGAGTGGA
Statistics
Matches: 328, Mismatches: 86, Indels: 14
0.77 0.20 0.03
Matches are distributed among these distances:
40 1 0.00
41 29 0.09
42 1 0.00
43 1 0.00
44 225 0.69
45 71 0.22
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTT
Found at i:61162538 original size:133 final size:130
Alignment explanation
Indices: 61162259--61162718 Score: 458
Period size: 133 Copynumber: 3.5 Consensus size: 130
61162249 AAAAATAACA
* * *
61162259 AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCTCATAC-CTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAATCTCA-ACTCTCTGAAGTT
* * * * * *
61162323 GTAGAGGAGTGGATT-A-CCACAAATCTTATCTTTCTAAAGATGCAGTGGAGTAGATTGAAGTTA
65 GTAGTGGAGTAGATTAAGCTACAAACCTTATCTCTCTAAAGATGCAGTGGAGCAGATTGAAGTTA
*
61162386 CA
130 -T
* * * * *
61162388 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACGAATCTCAACTCCCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAATCTCAACTCTCTGAAGTTG
* * * *
61162453 TAGTGGAGTAGATTGAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCATATTGAAGTT
66 TAGTGGAGTAGATT-AAGCTA-CAAACCTTATCTCTCTAAAGATGCAGTGGAGCAGATTGAAGTT
61162518 AT
129 AT
* * * * * * * *
61162520 AGGTCTTATCTCCCTGAAGGTACAGTGGAACAGATTAAAGATAACAAATCTTATCTCTCTGAAGT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTACAAATCTCAACTCTCTGAAGT
* * * * * *
61162585 TGCAGTGGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGATGCAGTAGAGCAGAATGAAGT
64 TGTAGTGGAGTAGATT-AAGCTACAAACCTTATCTCTCTAAAGATGCAGTGGAGCAGATTGAAGT
61162650 TACT
128 TA-T
* * * ** * * *
61162654 ATTCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTTAAGCTACAAGTCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAATCTCAACTCTCTGAAGTTG
61162719 CAATAGAGTG
Statistics
Matches: 270, Mismatches: 53, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
128 2 0.01
129 66 0.24
131 1 0.00
132 25 0.09
133 136 0.50
134 40 0.15
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (130 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAATCTCAACTCTCTGAAGTTG
TAGTGGAGTAGATTAAGCTACAAACCTTATCTCTCTAAAGATGCAGTGGAGCAGATTGAAGTTAT
Found at i:61162617 original size:89 final size:89
Alignment explanation
Indices: 61162216--61162715 Score: 377
Period size: 89 Copynumber: 5.7 Consensus size: 89
61162206 TTATGGCAAG
* * * * ** * * *
61162216 CCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTCAAAAATAACAAATCTTATCTCTCTGAAGTTGC
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACAAATCTTATCTCCCTGAAGATAC
* *
61162281 AGTGGAGTAGATTGAAG-TTACAAA
65 AGTGGAGCAGATTGAAGATAACAAA
* * * * * ** * ** * *
61162305 TCTCATAC-CTCTGAAGTTGTAGAGGAGTGGATT--A-CCACAAATCTTATCTTTCTAAAGATGC
1 CCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGATAC
* *
61162366 AGTGGAGTAGATTGAAG-TTACAAA
65 AGTGGAGCAGATTGAAGATAACAAA
* * * * * * *
61162390 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAA-TTACGAATCTCAACTCCCTGAAGTTAT
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTACAAATCTTATCTCCCTGAAGATAC
* *
61162454 AGTGGAGTAGATTGAAGATAGCAAA
65 AGTGGAGCAGATTGAAGATAACAAA
* * * * * ** *
61162479 CCTTATCTCTCTGAAGTTGCAGTGGAGCATATTGAAGTTATAGGTCTTATCTCCCTGAAGGTACA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGATACA
* *
61162544 GTGGAACAGATTAAAGATAACAAA
66 GTGGAGCAGATTGAAGATAACAAA
* * * * * *
61162568 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACCTTATCTCCCTAAAGATGCA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGATACA
* * * * *
61162633 GTAGAGCAGAATGAAG-TTACTAT
66 GTGGAGCAGATTGAAGATAACAAA
* * * * *
61162656 TCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTTAAGCTACAAGTCTTATCTCTCTGAAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAG
61162716 TTGCAATAGA
Statistics
Matches: 328, Mismatches: 76, Indels: 15
0.78 0.18 0.04
Matches are distributed among these distances:
84 1 0.00
85 69 0.21
87 1 0.00
88 92 0.28
89 164 0.50
90 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (89 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGATACA
GTGGAGCAGATTGAAGATAACAAA
Found at i:61163365 original size:18 final size:18
Alignment explanation
Indices: 61163344--61163378 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
61163334 TATTATTATT
61163344 TTTTCTTTTTCTTTTTTC
1 TTTTCTTTTTCTTTTTTC
61163362 TTTTCTTTTTCTTTTTT
1 TTTTCTTTTTCTTTTTT
61163379 GAATCTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTTTC
Found at i:61163378 original size:7 final size:6
Alignment explanation
Indices: 61163343--61163377 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
61163333 TTATTATTAT
61163343 TTTTTC TTTTTC TTTTT- TCTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTT
61163378 TGAATCTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 25 0.93
7 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:61164063 original size:3 final size:3
Alignment explanation
Indices: 61164035--61164420 Score: 313
Period size: 3 Copynumber: 128.7 Consensus size: 3
61164025 TTAATTAATT
* * * * * *
61164035 TTA TCA TTA TTT TTA CTA TTA TTTA TTA TCA TCA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
61164081 CTA TTA TTA TTA TTA TTA TTT TTA CTA TTA TTA -TA TTTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
**
61164126 TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CAA TTAA
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* * * * *
61164173 TTA TTA TCA TTA TTA TTA CTG TTA TTG TTA TTA TT- TT- TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
61164219 TTA TTTA TTA TCA TTA TTA TTG TTA GTA TTA TTA TTA TTA TTT TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
61164265 CTA TTA TTTA TTA TCA TTA TTA TTA TTA CTA TTA TTA TTA TTT TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
61164311 CTA TTA TTTA TTA TCA TTA TTA TCA TTA TCA TTA CTA TTA TT- TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
61164356 TT- TTA TT- TT- TTA CTC TTG TTA TTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* *
61164399 TCA TTTC TTA TT- TTA TT- TTA TT
1 TTA -TTA TTA TTA TTA TTA TTA TT
61164421 TAATATTTTT
Statistics
Matches: 302, Mismatches: 65, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
2 18 0.06
3 260 0.86
4 24 0.08
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:61164363 original size:10 final size:10
Alignment explanation
Indices: 61164348--61164471 Score: 56
Period size: 10 Copynumber: 11.3 Consensus size: 10
61164338 ATCATTACTA
61164348 TTATTTTATT
1 TTATTTTATT
61164358 TTATTTT-TT
1 TTATTTTATT
* *
61164367 ACTCTTGTTATTAT
1 -TTATT-TTA-T-T
61164381 TTATTATTATT
1 TTATT-TTATT
*
61164392 ATTATTATCATTT
1 -TTATT-TTA-TT
61164405 CTTATTTTATT
1 -TTATTTTATT
61164416 TTATTTAATATTT
1 TTATTT--TA-TT
*
61164429 TTATTTTGTT
1 TTATTTTATT
61164439 TTATTTTTATT
1 TTA-TTTTATT
*
61164450 TT-TTATATAT
1 TTATTTTAT-T
61164460 TTA-TTTATT
1 TTATTTTATT
61164469 TTA
1 TTA
61164472 CAATTAGCTT
Statistics
Matches: 89, Mismatches: 12, Indels: 27
0.70 0.09 0.21
Matches are distributed among these distances:
9 11 0.12
10 28 0.31
11 14 0.16
12 13 0.15
13 22 0.25
14 1 0.01
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.73
Consensus pattern (10 bp):
TTATTTTATT
Found at i:61164430 original size:18 final size:16
Alignment explanation
Indices: 61164409--61164471 Score: 67
Period size: 15 Copynumber: 3.9 Consensus size: 16
61164399 TCATTTCTTA
61164409 TTTTATTTTATTTAATAT
1 TTTTATTTTATTT--TAT
*
61164427 TTTTATTTTGTTTTAT
1 TTTTATTTTATTTTAT
*
61164443 TTTTATTTT-TTATAT
1 TTTTATTTTATTTTAT
*
61164458 ATTTA-TTTATTTTA
1 TTTTATTTTATTTTA
61164472 CAATTAGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
14 3 0.08
15 13 0.32
16 12 0.30
18 12 0.30
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:61164435 original size:6 final size:6
Alignment explanation
Indices: 61164351--61164452 Score: 52
Period size: 6 Copynumber: 16.7 Consensus size: 6
61164341 ATTACTATTA
* * * *
61164351 TTTTA- TTTTATT TTTTACT CTTGTTAT TATTTAT TATTAT TATTAT TATCAT
1 TTTTAT TTTTA-T TTTTA-T -TT-TTAT T-TTTAT TTTTAT TTTTAT TTTTAT
* *
61164403 TTCTTA- TTTTA- TTTTAT TTAATAT TTTTA- TTTT-G TTTTAT TTTTAT
1 TT-TTAT TTTTAT TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTTTAT
61164449 TTTT
1 TTTT
61164453 TATATATTTA
Statistics
Matches: 79, Mismatches: 8, Indels: 19
0.75 0.08 0.18
Matches are distributed among these distances:
5 21 0.27
6 32 0.41
7 19 0.24
8 4 0.05
9 3 0.04
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:61169465 original size:24 final size:22
Alignment explanation
Indices: 61169431--61169477 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
61169421 TATATAAGTT
*
61169431 TTTAAATTAAAGCTATATATTA
1 TTTAAATTAAAGCTAAATATTA
*
61169453 TTTAAACTGTAAATCTAAATATTA
1 TTTAAA-T-TAAAGCTAAATATTA
61169477 T
1 T
61169478 AAAGTCGATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 1 0.05
24 14 0.67
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (22 bp):
TTTAAATTAAAGCTAAATATTA
Found at i:61173113 original size:44 final size:45
Alignment explanation
Indices: 61173060--61173177 Score: 132
Period size: 46 Copynumber: 2.6 Consensus size: 45
61173050 AAGGAAAAAA
* *
61173060 ACCATAGTTGAAATACACTATGGCATTAAACCG-AAACGGGT-AAG
1 ACCATAGTTGAAATATACTATGGCATTAAACCGAAAAC-GATCAAG
* * * * *
61173104 ACCCTAGTTGAAAGATACTACGGCATTATATCGAAAAACGATCAAG
1 ACCATAGTTGAAATATACTATGGCATTAAACCG-AAAACGATCAAG
*
61173150 ATCATAGTTGAAATATACTATGGCATTA
1 ACCATAGTTGAAATATACTATGGCATTA
61173178 TTTCGGGAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
44 27 0.45
45 2 0.03
46 31 0.52
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.25
Consensus pattern (45 bp):
ACCATAGTTGAAATATACTATGGCATTAAACCGAAAACGATCAAG
Found at i:61174803 original size:60 final size:59
Alignment explanation
Indices: 61174677--61174814 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 59
61174667 TCATAGCTAT
* *
61174677 TTGGGCCTTAGCCCATAACAATATTAATCTAGGCCATAGCCCCTTACAGTATCAGAGTATA
1 TTGGGCC-TAGCCCATATCAATATTAATCTAGGCCATAGCCCATTACAG-ATCAGAGTATA
* * *
61174738 CTGGGCCTAGCCCATATCAGTATTAATCTAGGCCGTAGCCCTATTACA-AGTC-GAGATATA
1 TTGGGCCTAGCCCATATCAATATTAATCTAGGCCATAGCCC-ATTACAGA-TCAGAG-TATA
*
61174798 TTGGGCCTTGCCCATAT
1 TTGGGCCTAGCCCATAT
61174815 TAACACAGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 52 0.78
61 11 0.16
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (59 bp):
TTGGGCCTAGCCCATATCAATATTAATCTAGGCCATAGCCCATTACAGATCAGAGTATA
Found at i:61174832 original size:20 final size:19
Alignment explanation
Indices: 61174807--61174850 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
61174797 ATTGGGCCTT
61174807 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTT-G
*
61174827 GCCCATTTCAATACAGTTG
1 GCCCATTTCAACACAGTTG
61174846 GCCCA
1 GCCCA
61174851 CAACAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (19 bp):
GCCCATTTCAACACAGTTG
Found at i:61177976 original size:40 final size:40
Alignment explanation
Indices: 61177927--61178091 Score: 242
Period size: 40 Copynumber: 4.1 Consensus size: 40
61177917 TGGAATTTAA
* *
61177927 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* ** *
61177967 CCGGTTATAGTAACGGGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61178007 CCGGATTTGGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
61178047 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
61178087 CCGGA
1 CCGGA
61178092 ANNNNNNNNN
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 109 0.99
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:61188627 original size:40 final size:40
Alignment explanation
Indices: 61188581--61188809 Score: 304
Period size: 40 Copynumber: 5.7 Consensus size: 40
61188571 GCTACTCACT
* * *
61188581 CAAATGCCTTCGGGACATAGCCCGGTTATAGAAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
61188621 CCAATGCCTTTGGGACTTAGCCCGGATT-TGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
61188661 CAAATGCCTTCGAGACTTAGCCCGG-AATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
61188701 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
61188741 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
61188781 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
61188810 CATCCGAATA
Statistics
Matches: 168, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.01
40 164 0.98
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:61188707 original size:80 final size:80
Alignment explanation
Indices: 61188581--61188805 Score: 337
Period size: 80 Copynumber: 2.8 Consensus size: 80
61188571 GCTACTCACT
* * * *
61188581 CAAATGCCTTCGGGACATAGCCCGG-TTATAGAAACT-AGCACCAATGCCTTTGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCA-CACAAATGCCTTCGGGACTTAGCCC
* *
61188644 GGATTTGGTAACTCGCA
64 GGAATTAGTAACTCGCA
* *
61188661 CAAATGCCTTCGAGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
61188726 AATTAGTAACTCGCA
66 AATTAGTAACTCGCA
*
61188741 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
61188806 TTATCATCCG
Statistics
Matches: 132, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
80 130 0.98
81 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:61188787 original size:120 final size:120
Alignment explanation
Indices: 61188574--61188805 Score: 367
Period size: 120 Copynumber: 1.9 Consensus size: 120
61188564 GGATATAGCT
* * * *
61188574 ACTCACTCAAATGCCTTCGGGACATAGCCCGGTTATAGAAACTAGCACCAATGCCTTTGGGACTT
1 ACTCACACAAATGCCTTCGGGACATAGCCCGGATATAGAAACTAGCACAAATGCCTTCGGGACTT
*
61188639 AGCCCGGATTTGGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAGTA
66 AGCCCGGATTTAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAGTA
* * *
61188694 ACTCACACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCACACAAATGCCTTCGGGACATAGCCCGGATA-TAGAAACTAGCACAAATGCCTTCGGGACT
*
61188758 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
65 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGG
61188806 TTATCATCCG
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
119 1 0.01
120 101 0.99
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (120 bp):
ACTCACACAAATGCCTTCGGGACATAGCCCGGATATAGAAACTAGCACAAATGCCTTCGGGACTT
AGCCCGGATTTAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAATTAGTA
Found at i:61191402 original size:61 final size:61
Alignment explanation
Indices: 61191337--61191472 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 61
61191327 CAGAGCTATT
* *
61191337 TGGGCCTTAGCCCATAACAATATTAATCTAGGCCATAGCCC-CTTACAGTATC-AGAGTATAC
1 TGGGCCTTAGCCCATAACAATATTAATCTAGGCCATAGCCCTATTACAAT-TCGAGA-TATAC
* * * *
61191398 TGGGCC-TAGCCCATATCAGTATTAATCTAGGCCGTAGCCCTATTACAATTCGAGATATAT
1 TGGGCCTTAGCCCATAACAATATTAATCTAGGCCATAGCCCTATTACAATTCGAGATATAC
61191458 TGGGCCTT-GCCCATA
1 TGGGCCTTAGCCCATA
61191473 TTAACACAGT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
60 50 0.76
61 16 0.24
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (61 bp):
TGGGCCTTAGCCCATAACAATATTAATCTAGGCCATAGCCCTATTACAATTCGAGATATAC
Found at i:61191491 original size:20 final size:19
Alignment explanation
Indices: 61191466--61191509 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
61191456 ATTGGGCCTT
61191466 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTT-G
*
61191486 GCCCATTTCAATACAGTTG
1 GCCCATTTCAACACAGTTG
61191505 GCCCA
1 GCCCA
61191510 CAACAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (19 bp):
GCCCATTTCAACACAGTTG
Found at i:61193440 original size:15 final size:15
Alignment explanation
Indices: 61193403--61193431 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
61193393 ATTTCCTATC
61193403 TAATAATAATAATTA
1 TAATAATAATAATTA
61193418 TAATAATAATAATT
1 TAATAATAATAATT
61193432 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:61195570 original size:5 final size:5
Alignment explanation
Indices: 61195560--61195688 Score: 249
Period size: 5 Copynumber: 25.8 Consensus size: 5
61195550 AACTAGAATA
61195560 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
61195610 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
*
61195660 TATAC TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATA
61195689 CATGTCCATT
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 122 1.00
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:61199126 original size:5 final size:5
Alignment explanation
Indices: 61199116--61199141 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
61199106 TAAGGCCCTT
61199116 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
61199142 CCTTCTTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:61200861 original size:2 final size:2
Alignment explanation
Indices: 61200854--61200884 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
61200844 AAAAATTAAA
61200854 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61200885 AAACACTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61206124 original size:16 final size:16
Alignment explanation
Indices: 61206103--61206204 Score: 150
Period size: 16 Copynumber: 6.4 Consensus size: 16
61206093 TTTGGTTTGT
*
61206103 TGTAATGGAATAGAGC
1 TGTAATAGAATAGAGC
*
61206119 TGTAATAGAATAGAGT
1 TGTAATAGAATAGAGC
*
61206135 TGTAATAGAATATAGC
1 TGTAATAGAATAGAGC
*
61206151 TGTAATAGAATAGAGT
1 TGTAATAGAATAGAGC
61206167 TGTAATAGAATAGAGC
1 TGTAATAGAATAGAGC
*
61206183 TGTAATGGAATAGAGC
1 TGTAATAGAATAGAGC
*
61206199 TATAAT
1 TGTAAT
61206205 CAGTAATTCA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 77 1.00
ACGTcount: A:0.42, C:0.04, G:0.25, T:0.29
Consensus pattern (16 bp):
TGTAATAGAATAGAGC
Found at i:61206146 original size:32 final size:32
Alignment explanation
Indices: 61206101--61206197 Score: 167
Period size: 32 Copynumber: 3.0 Consensus size: 32
61206091 TGTTTGGTTT
*
61206101 GTTGTAATGGAATAGAGCTGTAATAGAATAGA
1 GTTGTAATAGAATAGAGCTGTAATAGAATAGA
*
61206133 GTTGTAATAGAATATAGCTGTAATAGAATAGA
1 GTTGTAATAGAATAGAGCTGTAATAGAATAGA
*
61206165 GTTGTAATAGAATAGAGCTGTAATGGAATAGA
1 GTTGTAATAGAATAGAGCTGTAATAGAATAGA
61206197 G
1 G
61206198 CTATAATCAG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.41, C:0.03, G:0.27, T:0.29
Consensus pattern (32 bp):
GTTGTAATAGAATAGAGCTGTAATAGAATAGA
Found at i:61206236 original size:46 final size:44
Alignment explanation
Indices: 61206183--61206279 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
61206173 AGAATAGAGC
*
61206183 TGTAATGGAATAGAGCTATAATCAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAACTATAATCA-T-ATTC-ATGTGTTTGGTTGAA
* *
61206229 TGTAATGGAATAGAACTATAATGATATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAACTATAATCATATTCATGTGTTTGGTTGAA
*
61206273 TGGAATG
1 TGTAATG
61206280 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 1 0.02
46 22 0.48
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (44 bp):
TGTAATGGAATAGAACTATAATCATATTCATGTGTTTGGTTGAA
Found at i:61212251 original size:26 final size:27
Alignment explanation
Indices: 61212213--61212734 Score: 320
Period size: 26 Copynumber: 20.0 Consensus size: 27
61212203 TATGCTAACT
61212213 GTTATTACCATGCATGTGTGCGAGCTA
1 GTTATTACCATGCATGTGTGCGAGCTA
*
61212240 G-TATTACCATGCATGTATGCGAGCT-
1 GTTATTACCATGCATGTGTGCGAGCTA
* * ** *
61212265 GTTATTAACATGCATGTTTGC-ATTTT
1 GTTATTACCATGCATGTGTGCGAGCTA
* *
61212291 GTTATTACTATGCATGTGTGCAAGCTA
1 GTTATTACCATGCATGTGTGCGAGCTA
* * *
61212318 -TTATTACC-T-CACTTGTATGTGAG-TT
1 GTTATTACCATGCA--TGTGTGCGAGCTA
* * *
61212343 GTTATTATCATGCATGTGTTCGAG-TT
1 GTTATTACCATGCATGTGTGCGAGCTA
** * *
61212369 GTTATTACCTTACACATGTGTTCGAGTTA
1 GTTATTACC--ATGCATGTGTGCGAGCTA
* ** * *
61212398 -TTATTACCTTGCATGAATG-TATGTTA
1 GTTATTACCATGCATGTGTGCGA-GCTA
**
61212424 -TTATTATTATGCATGTCGT--GAGCTA
1 GTTATTACCATGCATGT-GTGCGAGCTA
* * *
61212449 -TTATTACCTTGCATGTATGCGAG-TT
1 GTTATTACCATGCATGTGTGCGAGCTA
* ** *
61212474 GTTATTACCTTGCATGAATGCAAGCTA
1 GTTATTACCATGCATGTGTGCGAGCTA
61212501 -TTATT-CCTATGCATGTGTGCGAGCT-
1 GTTATTACC-ATGCATGTGTGCGAGCTA
* *
61212526 GTTATTACCTTGCATGTGTACGAGCTA
1 GTTATTACCATGCATGTGTGCGAGCTA
* *
61212553 -TTATTACCATACATGTGTGTGAGCTA
1 GTTATTACCATGCATGTGTGCGAGCTA
* ** *
61212579 -TTATTACGATGCATGTGTGC-AAATT
1 GTTATTACCATGCATGTGTGCGAGCTA
* * * ** *
61212604 TTTATTACCTTGCATGTATATGAGAT-
1 GTTATTACCATGCATGTGTGCGAGCTA
61212630 GTTATTACCATGCATGTGTGCGAGCT-
1 GTTATTACCATGCATGTGTGCGAGCTA
* * *
61212656 GTTATTACCTTGCATGTATGTGAGCT-
1 GTTATTACCATGCATGTGTGCGAGCTA
* * * *
61212682 GTTATTACCTTGCATGTATGTGAG-TT
1 GTTATTACCATGCATGTGTGCGAGCTA
*
61212708 GTTATTACAATGCATGTGTGCGAGCTA
1 GTTATTACCATGCATGTGTGCGAGCTA
61212735 TTAATTAAAA
Statistics
Matches: 388, Mismatches: 82, Indels: 50
0.75 0.16 0.10
Matches are distributed among these distances:
24 3 0.01
25 28 0.07
26 321 0.83
27 12 0.03
28 23 0.06
29 1 0.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (27 bp):
GTTATTACCATGCATGTGTGCGAGCTA
Found at i:61212687 original size:78 final size:78
Alignment explanation
Indices: 61212211--61212737 Score: 354
Period size: 78 Copynumber: 6.7 Consensus size: 78
61212201 GGTATGCTAA
* * * * * * * *
61212211 CTGTTATTACCATGCATGTGTGCGAGCTAG-TATTACCATGCATGTATGCGAGCTGTTATTAACA
1 CTGTTATTACCTTGCATGTATACGAG-TTGTTATTACCATGCATGTGTGCGAGCTATTATTACCT
* *
61212275 TGCATGTTTGC-ATT
65 TGCATGTGTGCGA-G
* * * * * * * * * * *
61212289 TTGTTATTA-CTATGCATGTGTGCAAGCTATTATTACC-T-CACTTGTATGTGAGTTGTTATTAT
1 CTGTTATTACCT-TGCATGTATACGAGTTGTTATTACCATGCA--TGTGTGCGAGCTATTATTAC
* *
61212351 CATGCATGTGTTCGAG
63 CTTGCATGTGTGCGAG
* * * * * * ** * *
61212367 TTGTTATTACCTTACACATGTGTTCGAGTTATTATTACCTTGCATGAATG-TATGTTATTATTA-
1 CTGTTATTACCTT--GCATGTATACGAGTTGTTATTACCATGCATGTGTGCGA-GCTATTATTAC
*
61212430 TTATGCATGTCGT--GAG
63 CT-TGCATGT-GTGCGAG
* * * ** *
61212446 CTATTATTACCTTGCATGTATGCGAGTTGTTATTACCTTGCATGAATGCAAGCTATTATT-CCTA
1 CTGTTATTACCTTGCATGTATACGAGTTGTTATTACCATGCATGTGTGCGAGCTATTATTACCT-
61212510 TGCATGTGTGCGAG
65 TGCATGTGTGCGAG
* * * * * **
61212524 CTGTTATTACCTTGCATGTGTACGAGCTATTATTACCATACATGTGTGTGAGCTATTATTACGAT
1 CTGTTATTACCTTGCATGTATACGAGTTGTTATTACCATGCATGTGTGCGAGCTATTATTACCTT
* *
61212589 GCATGTGTGCAAA
66 GCATGTGTGCGAG
* * * * *
61212602 TTTTTATTACCTTGCATGTATATGAGATGTTATTACCATGCATGTGTGCGAGCTGTTATTACCTT
1 CTGTTATTACCTTGCATGTATACGAGTTGTTATTACCATGCATGTGTGCGAGCTATTATTACCTT
* *
61212667 GCATGTATGTGAG
66 GCATGTGTGCGAG
** *
61212680 CTGTTATTACCTTGCATGTATGTGAGTTGTTATTACAATGCATGTGTGCGAGCTATTA
1 CTGTTATTACCTTGCATGTATACGAGTTGTTATTACCATGCATGTGTGCGAGCTATTA
61212738 ATTAAAAGTA
Statistics
Matches: 365, Mismatches: 66, Indels: 36
0.78 0.14 0.08
Matches are distributed among these distances:
76 4 0.01
77 50 0.14
78 246 0.67
79 19 0.05
80 41 0.11
81 3 0.01
82 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (78 bp):
CTGTTATTACCTTGCATGTATACGAGTTGTTATTACCATGCATGTGTGCGAGCTATTATTACCTT
GCATGTGTGCGAG
Done.