Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 209 of 378
Found at i:61840776 original size:41 final size:41
Alignment explanation
Indices: 61840731--61840848 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
61840721 TGAAAGATAA
61840731 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
61840772 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61840802 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
61840843 ATGTAG
1 ATGTAG
61840849 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:61840787 original size:71 final size:71
Alignment explanation
Indices: 61840699--61840862 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
61840689 GAGATGTATC
61840699 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61840764 AGGACA
66 AGGACA
61840770 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61840835 AGGACA
66 AGGACA
61840841 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
61840863 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:61848381 original size:70 final size:71
Alignment explanation
Indices: 61848231--61848393 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
61848221 GAGATGTATC
61848231 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61848296 AGGACA
66 AGGACA
61848302 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
61848366 AGGACA
66 AGGACA
61848372 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
61848394 AGACAAATCG
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 52 0.57
71 40 0.43
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:61852051 original size:30 final size:30
Alignment explanation
Indices: 61852010--61852066 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
61852000 TTTTCGGGCA
* * *
61852010 TAGGGGTAAAATGGTCAATTTGCCAAAGTC
1 TAGGGGCAAAATAGTCAATTTACCAAAGTC
*
61852040 TAGGGGCAAAATAGTCATTTTACCAAA
1 TAGGGGCAAAATAGTCAATTTACCAAA
61852067 AATGTTAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAATAGTCAATTTACCAAAGTC
Found at i:61852463 original size:46 final size:46
Alignment explanation
Indices: 61852411--61852724 Score: 190
Period size: 46 Copynumber: 6.6 Consensus size: 46
61852401 TGTGTAAGCT
* * *
61852411 AGTGTAAGACATGTCTCGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGTGATGAGAGCC
* *
61852457 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CA-GTGGGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGT--GATGAGAGCC
* * * * *
61852505 AGTGTAGGACATGTCTGGGACATGCATCAGCCTCGGGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGTGATG-AGAGCC
* ** * * * *
61852551 AGTATAAGACATGTCTGGGACATGCATTAGCTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGTGATGAGAGCC
* * * * *
61852595 AGTGTAAGACCATGTATGGGACAGGGCATCGG-TACGGTTATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCAC-GTGA--TGAGAGCC
* * * * * *
61852645 AGTGTAAGACCATGCCTAGGACATGGCATCAGCCTCGAAGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACG-TGATGAGAGCC
*
61852694 AGTGTAAGACTATGTTTGGGACATGGCATCG
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCG
61852725 ACACTTTACC
Statistics
Matches: 203, Mismatches: 46, Indels: 35
0.71 0.16 0.12
Matches are distributed among these distances:
44 10 0.05
45 15 0.07
46 60 0.30
47 31 0.15
48 25 0.12
49 31 0.15
50 29 0.14
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGTGATGAGAGCC
Found at i:61855677 original size:21 final size:19
Alignment explanation
Indices: 61855651--61855691 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
61855641 CAAACCTCTG
61855651 AAACTTTTTACATTCCCCCCA
1 AAAC-TTTTACA-TCCCCCCA
*
61855672 AAACTTTTACATCCTCCCA
1 AAACTTTTACATCCCCCCA
61855691 A
1 A
61855692 CTTTCTCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 7 0.37
21 4 0.21
ACGTcount: A:0.32, C:0.37, G:0.00, T:0.32
Consensus pattern (19 bp):
AAACTTTTACATCCCCCCA
Found at i:61856390 original size:34 final size:34
Alignment explanation
Indices: 61856352--61856421 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
61856342 AGTAACAGTC
*
61856352 CAGTATCAGTTAGGGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTGAGGGCCTTAGCCCATTACAGTAA
* *
61856386 CAGTATCAGTGCGGGCCTTAGCCCATTTCAGTAA
1 CAGTATCAGTGAGGGCCTTAGCCCATTACAGTAA
61856420 CA
1 CA
61856422 ATAACAGGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTGAGGGCCTTAGCCCATTACAGTAA
Found at i:61864616 original size:24 final size:24
Alignment explanation
Indices: 61864584--61864644 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
61864574 AAAATCCAAT
* * *
61864584 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
61864608 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
61864632 GCACTATGTGTGC
1 GCACTATGTGTGC
61864645 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:61866745 original size:30 final size:31
Alignment explanation
Indices: 61866703--61866788 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 31
61866693 AATACGGTCT
*
61866703 AGCCTAAGCCCATTTCAGTAAC-TCAGT-TAG
1 AGCCTTAGCCCATTTCAGTAACATCAGTGT-G
* *
61866733 GGCCTTAGCCCATTACA-TAACAGTATCAGTGTG
1 AGCCTTAGCCCATTTCAGTAAC---ATCAGTGTG
61866766 AGCCTTAGCCCATTTCAGTAACA
1 AGCCTTAGCCCATTTCAGTAACA
61866789 GTAACAGGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
29 4 0.09
30 14 0.31
31 1 0.02
33 21 0.47
34 5 0.11
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (31 bp):
AGCCTTAGCCCATTTCAGTAACATCAGTGTG
Found at i:61879930 original size:42 final size:41
Alignment explanation
Indices: 61879821--61879933 Score: 127
Period size: 43 Copynumber: 2.7 Consensus size: 41
61879811 TACCGTACCA
* ** * *
61879821 ATGCCATATCCCAGATATGGTCTTATATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACA-CAAATCTCCTATCG
* * *
61879863 ATGCTAATAGCCCAGCTATGGTCTTACACAAAGTCTCCTATCG
1 ATGC-CATATCCCAGATATGGTCTTACACAAA-TCTCCTATCG
61879906 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
61879934 GTAATCCCAA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
42 27 0.47
43 31 0.53
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACAAATCTCCTATCG
Found at i:61880947 original size:20 final size:20
Alignment explanation
Indices: 61880918--61880962 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
61880908 AGCACATGTA
* *
61880918 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
61880938 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
61880958 TTCAT
1 TTCAT
61880963 TTTAGCCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:61882088 original size:17 final size:18
Alignment explanation
Indices: 61882045--61882091 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
61882035 TTCAGAGTAA
*
61882045 TGGGCCCACATGCCCGTG
1 TGGGCCCACACGCCCGTG
61882063 TGGGCCCACACGCCCGTG
1 TGGGCCCACACGCCCGTG
*
61882081 T-TGCCCACACG
1 TGGGCCCACACG
61882092 ACCAGATTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.13, C:0.43, G:0.30, T:0.15
Consensus pattern (18 bp):
TGGGCCCACACGCCCGTG
Found at i:61889152 original size:18 final size:18
Alignment explanation
Indices: 61889129--61889167 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
61889119 TTTAGAGTTA
*
61889129 TGGGCCAACATGCCCGTG
1 TGGGCCAACACGCCCGTG
* *
61889147 TGGGCCCACACGCTCGTG
1 TGGGCCAACACGCCCGTG
61889165 TGG
1 TGG
61889168 CCCACACAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.33, G:0.36, T:0.18
Consensus pattern (18 bp):
TGGGCCAACACGCCCGTG
Found at i:61893572 original size:19 final size:18
Alignment explanation
Indices: 61893550--61893611 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 18
61893540 ATTTTTGAAT
61893550 TATTGAATGATTTTAGCTC
1 TATTGAATGATTTT-GCTC
*
61893569 TATTTGCATTTG-TTTTGCTC
1 TA-TTG-A-ATGATTTTGCTC
61893589 TATTGAATGATTTTCGCTC
1 TATTGAATGATTTT-GCTC
61893608 TATT
1 TATT
61893612 TTCCTTCTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 13 0.36
20 9 0.25
21 5 0.14
22 2 0.06
ACGTcount: A:0.19, C:0.13, G:0.15, T:0.53
Consensus pattern (18 bp):
TATTGAATGATTTTGCTC
Found at i:61894548 original size:96 final size:91
Alignment explanation
Indices: 61894301--61894701 Score: 574
Period size: 91 Copynumber: 4.4 Consensus size: 91
61894291 CTTCAATTAA
* *
61894301 TTAATTTATGTTGTTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
* * * *
61894366 TATGGTTTAACAGACTTTTTTTTTGT
66 TGTAGTCTAACATACTTTTTTTTTGT
61894392 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
61894457 TGTAGTCTAACATAC-TTTTTTTTGT
66 TGTAGTCTAACATACTTTTTTTTTGT
* * *
61894482 TTAATTTATCCTGTTGTACTTGTACTATTATATTAATTTGGGCTTCAATTAACTAATTTTAAAGT
1 TTAATTTA---TG--CTA-TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGT
* *
61894547 TTAAACAGTAG-CTTAACAAACTTTTTTTTTTGT
60 TTAAACTGTAGTC-TAACATAC-TTTTTTTTTGT
* *
61894580 TTAATTTATGCTATTGTACTCTTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAA
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
*
61894645 TGTAGTTTAACATAC-TTTTTTTTGT
66 TGTAGTCTAACATACTTTTTTTTTGT
*
61894670 TTAATTTATGCTACTGTACTATTATATTAATT
1 TTAATTTATGCTATTGTACTATTATATTAATT
61894702 AATTTTTAAT
Statistics
Matches: 279, Mismatches: 21, Indels: 21
0.87 0.07 0.07
Matches are distributed among these distances:
90 58 0.21
91 74 0.27
92 59 0.21
93 4 0.01
95 5 0.02
96 61 0.22
98 18 0.06
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.50
Consensus pattern (91 bp):
TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
TGTAGTCTAACATACTTTTTTTTTGT
Found at i:61894630 original size:188 final size:187
Alignment explanation
Indices: 61894314--61894678 Score: 633
Period size: 188 Copynumber: 1.9 Consensus size: 187
61894304 ATTTATGTTG
* * *
61894314 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTATGGTTTAACAG
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTATAGCTTAACAA
61894379 ACTTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACT
66 ACTTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACT
*
61894444 TTAAAGTTTAAACTGTAGTCTAACATACTTTTTTTTGTTTAATTTATCCTGTTGTAC
131 TTAAAGTTTAAAATGTAGTCTAACATACTTTTTTTTGTTTAATTTATCCTGTTGTAC
* *
61894501 TTGTACTATTATATTAATTTGGGCTTCAATTAACTAATTTTAAAGTTTAAAC-AGTAGCTTAACA
1 TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTA-TAGCTTAACA
*
61894565 AACTTTTTTTTTTGTTTAATTTATGCTATTGTACTCTTATATTAATTTAGGCTTCAATTAACTAA
65 AAC-TTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAA
*
61894630 CTTTAAAGTTTAAAATGTAGTTTAACATACTTTTTTTTGTTTAATTTAT
129 CTTTAAAGTTTAAAATGTAGTCTAACATACTTTTTTTTGTTTAATTTAT
61894679 GCTACTGTAC
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
186 1 0.01
187 60 0.36
188 107 0.64
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (187 bp):
TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACTATAGCTTAACAA
ACTTTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACT
TTAAAGTTTAAAATGTAGTCTAACATACTTTTTTTTGTTTAATTTATCCTGTTGTAC
Found at i:61898223 original size:13 final size:13
Alignment explanation
Indices: 61898205--61898231 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61898195 TGTTAGTAAT
61898205 CGTATTTTCAGTG
1 CGTATTTTCAGTG
61898218 CGTATTTTCAGTG
1 CGTATTTTCAGTG
61898231 C
1 C
61898232 TGGCATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (13 bp):
CGTATTTTCAGTG
Found at i:61904450 original size:93 final size:93
Alignment explanation
Indices: 61904287--61904457 Score: 236
Period size: 93 Copynumber: 1.8 Consensus size: 93
61904277 GCCCCTAAGT
** *
61904287 GAACTCAGACTCAAATCAACGAGCTCGGGCGTTCTCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAAATCAACGAGCTCGAACATTCTCATCCATAAATGAACTCGGACTCAACTCAA
* *
61904352 TGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
61904380 GAACTCGGACTCAACTCAACGAGTTCGAACATT-TGCATCCCTAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAAATCAACGAGCTCGAACATTCT-CATCCATAAATGAACTCGGACTCAACTCA
61904444 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
61904458 TCAACCATCC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
92 1 0.01
93 66 0.99
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAAATCAACGAGCTCGAACATTCTCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61909143 original size:46 final size:47
Alignment explanation
Indices: 61909040--61909162 Score: 135
Period size: 46 Copynumber: 2.6 Consensus size: 47
61909030 CACATTATGG
* * * *
61909040 GAGCCAGTGTAAAATCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCAAGTGTAAGA-CATGTCTTGGACATGGCAACGGCATTGAGACGA
* * *
61909088 GGGCTAGTGTAAGACATGTCTTGGACA-GGCAACGGCCTTGAGACGTA
1 GAGCAAGTGTAAGACATGTCTTGGACATGGCAACGGCATTGAGACG-A
61909135 -AGCAAGTGTAAGACATGT-TTGGGACATG
1 GAGCAAGTGTAAGACATGTCTT-GGACATG
61909163 CATTGACTAC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.03
46 37 0.58
47 14 0.22
48 11 0.17
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (47 bp):
GAGCAAGTGTAAGACATGTCTTGGACATGGCAACGGCATTGAGACGA
Found at i:61909224 original size:47 final size:48
Alignment explanation
Indices: 61909139--61909260 Score: 153
Period size: 47 Copynumber: 2.6 Consensus size: 48
61909129 GACGTAAGCA
*
61909139 AGTGTAAGA-CATGTTTGGGACAT-GCATTGACTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTTTGGGACATGGCATTGACTACGAGAT-ATGAGCC
*
61909185 AGTGTAAGACCATGTTTGGGACATGGCATTGACT-TGAGATATGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATTGACTACGAGATATGAGCC
* * * *
61909232 AGTATAAGACCGTGTCTAGGACATGGCAT
1 AGTGTAAGACCATGTTTGGGACATGGCAT
61909261 CGGCACCAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 11 0.16
47 47 0.70
48 9 0.13
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATTGACTACGAGATATGAGCC
Found at i:61909254 original size:140 final size:141
Alignment explanation
Indices: 61908999--61909264 Score: 297
Period size: 140 Copynumber: 1.9 Consensus size: 141
61908989 TGTGTGAGCT
* * * *
61908999 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGGGAGCCAGTGTAAAATCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAAACCATGTCTGG
* * * * *
61909064 GACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTCTTGGACA-GGCAACGGCCTTG
66 GACATGGCATCGACATTGAGACGAGAGCCAGTATAAGACATGTCTAGGACATGGCAACGGCCTTG
61909128 AGACGTAAGCA
131 AGACGTAAGCA
* * * * * * *
61909139 AGTGTAAGACATGTTTGGGACATGCATTGACTACGA-GATGATAGTCAGTGTAAGACCATGTTTG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATGATGAGAGCCAGTGTAAAACCATGTCTG
* * * *
61909203 GGACATGGCATTGAC-TTGAGA-TATGAGCCAGTATAAGACCGTGTCTAGGACATGGCATCGGC
65 GGACATGGCATCGACATTGAGACGA-GAGCCAGTATAAGA-CATGTCTAGGACATGGCAACGGC
61909265 ACCAGCACCT
Statistics
Matches: 102, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
138 1 0.01
139 17 0.17
140 75 0.74
141 9 0.09
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAAACCATGTCTGG
GACATGGCATCGACATTGAGACGAGAGCCAGTATAAGACATGTCTAGGACATGGCAACGGCCTTG
AGACGTAAGCA
Found at i:61910967 original size:9 final size:9
Alignment explanation
Indices: 61910953--61910978 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
61910943 CTCAAAAACT
61910953 CCACCTCCC
1 CCACCTCCC
61910962 CCACCTCCC
1 CCACCTCCC
61910971 CCACCTCC
1 CCACCTCC
61910979 TCCGATCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.77, G:0.00, T:0.12
Consensus pattern (9 bp):
CCACCTCCC
Found at i:61916737 original size:48 final size:47
Alignment explanation
Indices: 61916660--61916788 Score: 206
Period size: 48 Copynumber: 2.7 Consensus size: 47
61916650 ATTCGTGTGT
* *
61916660 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCACATTTTGA
1 GAGCCAGTGTAAGATCATGTCTGGGACATGCATCAGCCACATTATGA
*
61916706 GAGCCAGTGTAAGATCATGTCCGGGGACATGCATCAGCCACATTATGA
1 GAGCCAGTGTAAGATCATGT-CTGGGACATGCATCAGCCACATTATGA
61916754 GAGCCAGTGTAAGATCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGATCATGTCTGGGACAT-GCATC
61916789 GGCATTGAGA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
46 13 0.17
47 13 0.17
48 50 0.66
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGATCATGTCTGGGACATGCATCAGCCACATTATGA
Found at i:61916962 original size:140 final size:142
Alignment explanation
Indices: 61916707--61916968 Score: 334
Period size: 140 Copynumber: 1.9 Consensus size: 142
61916697 ACATTTTGAG
** *
61916707 AGCCAGTGTAAGATCATGTCCGGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGATCAT
1 AGCCAGTGTAAGATCATGTCCGGGGACATGCATCAGCCACAAGATGAGAGCCAGTGTAAGACCAT
* * * *
61916772 GTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTCTAGGACAGCCAATGA
66 GTCTGGGACATGGCATCGACATTGAGACGAGAGCCAGTATAAGACATGTCTAGGACAGCCAATGA
61916837 CCTTGAAACATA
131 CCTTGAAACATA
* * * * * * *
61916849 AGCCAGTGTAAGA-CATGT-CTGGGACATGTATCGGCTACAAGATGATAGTCAGTGTAGGACCAT
1 AGCCAGTGTAAGATCATGTCCGGGGACATGCATCAGCCACAAGATGAGAGCCAGTGTAAGACCAT
* *
61916912 GTCTGGGACATGGCATCGAC-TTGAGA-TATGAGCCAGTATAAGACTGTGTCTAGGACA
66 GTCTGGGACATGGCATCGACATTGAGACGA-GAGCCAGTATAAGAC-ATGTCTAGGACA
61916969 TGGCATTGGT
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
138 1 0.01
139 18 0.18
140 65 0.64
141 5 0.05
142 13 0.13
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (142 bp):
AGCCAGTGTAAGATCATGTCCGGGGACATGCATCAGCCACAAGATGAGAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGACATTGAGACGAGAGCCAGTATAAGACATGTCTAGGACAGCCAATGA
CCTTGAAACATA
Found at i:61918146 original size:21 final size:21
Alignment explanation
Indices: 61918117--61918156 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
61918107 TTGAATTGGC
*
61918117 CACAAGGGCGTGTGCCCCTTT
1 CACAAGGGCATGTGCCCCTTT
*
61918138 CACATGGGCATGTGCCCCT
1 CACAAGGGCATGTGCCCCT
61918157 ATGTCAAGTG
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:0.15, C:0.35, G:0.28, T:0.23
Consensus pattern (21 bp):
CACAAGGGCATGTGCCCCTTT
Found at i:61921723 original size:29 final size:29
Alignment explanation
Indices: 61921633--61921792 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
61921623 ACTCGATTTC
* * **
61921633 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
61921662 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** * *
61921690 CGCACACCCAGTGCCGTATATTTCCAGGAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
61921720 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
61921749 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
61921778 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
61921793 ATCTCGTCAC
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
28 2 0.02
29 106 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:61929684 original size:29 final size:29
Alignment explanation
Indices: 61929660--61929753 Score: 163
Period size: 29 Copynumber: 3.2 Consensus size: 29
61929650 TCGCACACCC
*
61929660 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
61929689 ATGTGCCATAT-TTTCCAGCATGCACACTT
1 A-GTGCCATATATTTCCAGCATGCACACTT
61929718 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
61929747 AGTGCCA
1 AGTGCCA
61929754 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
28 9 0.15
29 45 0.73
30 8 0.13
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:61929685 original size:58 final size:57
Alignment explanation
Indices: 61929623--61929753 Score: 165
Period size: 58 Copynumber: 2.3 Consensus size: 57
61929613 ATTTAAGCCC
* * *
61929623 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATA-CCTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
** **
61929681 GCACACTTATGTGCCATATTTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTA-GTGCCATACCTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
61929739 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
61929754 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 6 0.09
58 49 0.77
59 9 0.14
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (57 bp):
GCACACTTAGTGCCATACCTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:61933107 original size:29 final size:29
Alignment explanation
Indices: 61933074--61933138 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
61933064 GTGACGAGAT
61933074 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
61933103 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
61933132 CGGCACT
1 TGGCACT
61933139 GGGCGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:61933231 original size:28 final size:28
Alignment explanation
Indices: 61933163--61933262 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 28
61933153 GAAGGGTATG
* * * *
61933163 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
61933192 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61933220 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
61933249 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
61933263 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 37 0.58
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:61935434 original size:14 final size:15
Alignment explanation
Indices: 61935415--61935470 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
61935405 AATCTTCAAT
61935415 GATATG-CAATCTTA
1 GATATGACAATCTTA
61935429 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
61935446 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
61935464 GATATGA
1 GATATGA
61935471 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:61935491 original size:17 final size:19
Alignment explanation
Indices: 61935413--61935481 Score: 117
Period size: 17 Copynumber: 3.8 Consensus size: 19
61935403 ATAATCTTCA
61935413 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
61935432 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
61935449 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
61935467 ATGATATGCAATCTT
1 ATGATATGCAATCTT
61935482 GGAAGATATG
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.34
18 16 0.34
19 15 0.32
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:61935510 original size:22 final size:22
Alignment explanation
Indices: 61935413--61935507 Score: 70
Period size: 17 Copynumber: 4.8 Consensus size: 22
61935403 ATAATCTTCA
61935413 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
61935432 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
61935449 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
61935467 ATGATATGCAATCTTGGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
61935489 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
61935508 GATTTAATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 15 0.23
22 8 0.12
23 11 0.17
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:61935799 original size:18 final size:17
Alignment explanation
Indices: 61935776--61935809 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
61935766 TTTCCATGAT
*
61935776 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
61935794 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
61935810 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:61941268 original size:16 final size:16
Alignment explanation
Indices: 61941249--61941279 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61941239 CTTCTTCACT
61941249 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
61941265 TACTTACTTACTTAA
1 TACTCACTTACTTAA
61941280 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:61941285 original size:20 final size:20
Alignment explanation
Indices: 61941246--61941285 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
61941236 AAACTTCTTC
* *
61941246 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
61941266 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
61941286 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:61941714 original size:54 final size:55
Alignment explanation
Indices: 61941577--61941714 Score: 156
Period size: 54 Copynumber: 2.5 Consensus size: 55
61941567 TATGAACTCA
* * * *
61941577 GCCTTGGCATTGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCAT
1 GCCTTGGCATGGTCTTACATGGTATCC-TTGCCTTATAGAAACTTACCAATGCCAT
* * * * *
61941632 GTCTTAGCATGGTCTTACATGATTTCCTTGCC-T-TAGAAACCTTACCAATTCCAT
1 GCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAAA-CTTACCAATGCCAT
61941686 GCCTTGGCATGGTCTTACATGGTATCCTT
1 GCCTTGGCATGGTCTTACATGGTATCCTT
61941715 AAACCCTAAT
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
53 5 0.07
54 38 0.56
55 23 0.34
56 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (55 bp):
GCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTACCAATGCCAT
Found at i:61948815 original size:16 final size:16
Alignment explanation
Indices: 61948796--61948826 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61948786 CTTCTTCACT
61948796 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
61948812 TACTTACTTACTTAA
1 TACTCACTTACTTAA
61948827 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:61948832 original size:20 final size:20
Alignment explanation
Indices: 61948793--61948832 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
61948783 AAACTTCTTC
* *
61948793 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
61948813 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
61948833 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:61954847 original size:669 final size:669
Alignment explanation
Indices: 61953564--61955581 Score: 3696
Period size: 669 Copynumber: 3.0 Consensus size: 669
61953554 AAAACATCAA
*
61953564 GAAGATAGTGGGGAAAATGACTGAAACCTACAGAGACTGGCATGAGAAGTTACCATTTGCACTCT
1 GAAGAGAGTGGGGAAAATGACTGAAACCTACAGAGACTGGCATGAGAAGTTACCATTTGCACTCT
*
61953629 TAGCTTACTGAACGTCTGTCAGAACTTCTACCGGGGCAACTCTCATTGGTTTATGGAATGGAAGC
66 TAGCTTACCGAACGTCTGTCAGAACTTCTACCGGGGCAACTCTCATTGGTTTATGGAATGGAAGC
61953694 AGTGTTACCCATTGAAGTGGAAATACCGTCTCTTCGAGTCTTGTCAGAGATAAAGTTGAATGAAG
131 AGTGTTACCCATTGAAGTGGAAATACCGTCTCTTCGAGTCTTGTCAGAGATAAAGTTGAATGAAG
*
61953759 CTGAATGGATACAATCGCGATATGATTAGTTGAACTTGATTGAGGAAAAGAGGCTAAAGGCCATT
196 CTGAATGGATACAATCGCGATATGATCAGTTGAACTTGATTGAGGAAAAGAGGCTAAAGGCCATT
61953824 CGTCATGGACAGATGCATCAGAAGCGAATGATGCAAGCTTACGACAAGAAAGTGCAACCAAGAGA
261 CGTCATGGACAGATGCATCAGAAGCGAATGATGCAAGCTTACGACAAGAAAGTGCAACCAAGAGA
61953889 ATTCCATGAGGGGGATCTTGTGCTGAAAAAGATCCTCCCTATTAGAAGGACTTTAGAGGAAAATG
326 ATTCCATGAGGGGGATCTTGTGCTGAAAAAGATCCTCCCTATTAGAAGGACTTTAGAGGAAAATG
61953954 GATGCCAAATTGGGAAGGGCCGTATGTCACGAAGAAGTCCTTTTCTGGGGGTGCATTGATCTTAA
391 GATGCCAAATTGGGAAGGGCCGTATGTCACGAAGAAGTCCTTTTCTGGGGGTGCATTGATCTTAA
61954019 CGGTAGTGGATGGGAAGAGTTTGCCAAATCTAGTGAATTCAGACTCAGTCAAAAAGTACTTTGTC
456 CGGTAGTGGATGGGAAGAGTTTGCCAAATCTAGTGAATTCAGACTCAGTCAAAAAGTACTTTGTC
61954084 TAAAGGAGAGAAGAATTCAGGGTGAAAAACCGCAAAGGGCGACTTGAGTTTTCGAAAAAAAATGG
521 TAAAGGAGAGAAGAATTCAGGGTGAAAAACCGCAAAGGGCGACTTGAGTTTTCGAAAAAAAATGG
61954149 AGAGGCCAAGGTGAAAACCCGCAAAGGGTACCTTGTGACCAAAGGGGTTTTGAGTTGAAAACCCG
586 AGAGGCCAAGGTGAAAACCCGCAAAGGGTACCTTGTGACCAAAGGGGTTTTGAGTTGAAAACCCG
61954214 AAAAGGCAGCTCAAATTTT
651 AAAAGGCAGCTCAAATTTT
61954233 GAAGAGAGTGGGGAAAATGACTGAAACCTACAGAGACTGGCATGAGAAGTTACCATTTGCACTCT
1 GAAGAGAGTGGGGAAAATGACTGAAACCTACAGAGACTGGCATGAGAAGTTACCATTTGCACTCT
*
61954298 TAGCTTACCGAACGTCTGTCAGAACTTCTACCGGGGCAACTCTCGTTGGTTTATGGAATGGAAGC
66 TAGCTTACCGAACGTCTGTCAGAACTTCTACCGGGGCAACTCTCATTGGTTTATGGAATGGAAGC
*
61954363 AGTGTTACCCATTGAAGTGGAAATACCGTCTTTTCGAGTCTTGTCAGAGATAAAGTTGAATGAAG
131 AGTGTTACCCATTGAAGTGGAAATACCGTCTCTTCGAGTCTTGTCAGAGATAAAGTTGAATGAAG
61954428 CTGAATGGATACAATCGCGATATGATCAGTTGAACTTGATTGAGGAAAAGAGGCTAAAGGCCATT
196 CTGAATGGATACAATCGCGATATGATCAGTTGAACTTGATTGAGGAAAAGAGGCTAAAGGCCATT
* *
61954493 CGTCATGGACAGATGCATCAGAAGCGAATGATGCGAGTTTACGACAAGAAAGTGCAACCAAGAGA
261 CGTCATGGACAGATGCATCAGAAGCGAATGATGCAAGCTTACGACAAGAAAGTGCAACCAAGAGA
61954558 ATTCCATGAGGGGGATCTTGTGCTGAAAAAGATCCTCCCTATTAGAAGGACTTTAGAGGAAAATG
326 ATTCCATGAGGGGGATCTTGTGCTGAAAAAGATCCTCCCTATTAGAAGGACTTTAGAGGAAAATG
*
61954623 GATGCTAAATTGGGAAGGGCCGTATGTCACGAAGAAGTCCTTTTCTGGGGGTGCATTGATCTTAA
391 GATGCCAAATTGGGAAGGGCCGTATGTCACGAAGAAGTCCTTTTCTGGGGGTGCATTGATCTTAA
61954688 CGGTAGTGGATGGGAAGAGTTTGCCAAATCTAGTGAATTCAGACTCAGTCAAAAAGTACTTTGTC
456 CGGTAGTGGATGGGAAGAGTTTGCCAAATCTAGTGAATTCAGACTCAGTCAAAAAGTACTTTGTC
61954753 TAAAGGAGAGAAGAATTCAGGGTGAAAAACCGCAAAGGGCGACTTGAGTTTTCGAAAAAAAATGG
521 TAAAGGAGAGAAGAATTCAGGGTGAAAAACCGCAAAGGGCGACTTGAGTTTTCGAAAAAAAATGG
61954818 AGAGGCCAAGGTGAAAACCCGCAAAGGGTACCTTGTGACCAAAGGGGTTTTGAGTTGAAAACCCG
586 AGAGGCCAAGGTGAAAACCCGCAAAGGGTACCTTGTGACCAAAGGGGTTTTGAGTTGAAAACCCG
61954883 AAAAGGCAGCTCAAATTTT
651 AAAAGGCAGCTCAAATTTT
*
61954902 GAAGAGAGTGGGGAACATGACTGAAACCTACAGAGACTGGCATGAGAAGTTACCATTTGCACTCT
1 GAAGAGAGTGGGGAAAATGACTGAAACCTACAGAGACTGGCATGAGAAGTTACCATTTGCACTCT
* *
61954967 TAGCTTACCGAACGTCTGTCAGAACTTCTACCGGGGCAACTCCTTTCTCATTAGTTTATGGGATG
66 TAGCTTACCGAACGTCTGTCAGAACTTCTACCGGGGCAA---C--TCTCATTGGTTTATGGAATG
61955032 GAAGCAGTGTTACCCATTGAAGTGGAAATACCGTCTCTTCGAGTCTTGTCAGAGATAAAGTTGAA
126 GAAGCAGTGTTACCCATTGAAGTGGAAATACCGTCTCTTCGAGTCTTGTCAGAGATAAAGTTGAA
61955097 TGAAGCTGAATGGATACAATCGCGATATGATCAGTTGAACTTGATTGAGGAAAAGAGGCTAAAGG
191 TGAAGCTGAATGGATACAATCGCGATATGATCAGTTGAACTTGATTGAGGAAAAGAGGCTAAAGG
* * *
61955162 CCATTCGTCATGGACAAATGTATCATAAGCGAATGATGCAAGCTTACGACAAGAAAGTGCAACCA
256 CCATTCGTCATGGACAGATGCATCAGAAGCGAATGATGCAAGCTTACGACAAGAAAGTGCAACCA
* * *
61955227 AGAGAATTCCATGAGAGGGATCTTGTACTGAAAAAGATCCTCCCTATTCAGATGGACTTTAGAGG
321 AGAGAATTCCATGAGGGGGATCTTGTGCTGAAAAAGATCCTCCCTATT-AGAAGGACTTTAGAGG
* * * * * * *
61955292 AAAATGGATGCCAACTTGGAAAGGGCCGTATGTTATGAAGAAGGCCTTCTCTAGGGGTGCATTGA
385 AAAATGGATGCCAAATTGGGAAGGGCCGTATGTCACGAAGAAGTCCTTTTCTGGGGGTGCATTGA
* *
61955357 TCTTAACGGTAATGGATGGGAAGAGTTTGCCAAATCTAGTGAATTTAGACTCAGTCAAAAAGTAC
450 TCTTAACGGTAGTGGATGGGAAGAGTTTGCCAAATCTAGTGAATTCAGACTCAGTCAAAAAGTAC
* * *
61955422 TTTGTCTAAAGGAGAGAAGAATTTAGGGTGAAAAACCACAAAGGGCGCCTTGAGTTTTCG-AAAA
515 TTTGTCTAAAGGAGAGAAGAATTCAGGGTGAAAAACCGCAAAGGGCGACTTGAGTTTTCGAAAAA
*
61955486 AAATGGAGAGGCCAAGGTGAAAACCCGCAAAGGGTACCCTGTGACCAAAGGGGTTTTGAGTTGAA
580 AAATGGAGAGGCCAAGGTGAAAACCCGCAAAGGGTACCTTGTGACCAAAGGGGTTTTGAGTTGAA
*
61955551 AACCCGAAAGGGCAGCTCAAATTTT
645 AACCCGAAAAGGCAGCTCAAATTTT
61955576 GAAGAG
1 GAAGAG
61955582 CACACGGTAA
Statistics
Matches: 1307, Mismatches: 36, Indels: 7
0.97 0.03 0.01
Matches are distributed among these distances:
669 764 0.58
672 1 0.00
674 350 0.27
675 192 0.15
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.24
Consensus pattern (669 bp):
GAAGAGAGTGGGGAAAATGACTGAAACCTACAGAGACTGGCATGAGAAGTTACCATTTGCACTCT
TAGCTTACCGAACGTCTGTCAGAACTTCTACCGGGGCAACTCTCATTGGTTTATGGAATGGAAGC
AGTGTTACCCATTGAAGTGGAAATACCGTCTCTTCGAGTCTTGTCAGAGATAAAGTTGAATGAAG
CTGAATGGATACAATCGCGATATGATCAGTTGAACTTGATTGAGGAAAAGAGGCTAAAGGCCATT
CGTCATGGACAGATGCATCAGAAGCGAATGATGCAAGCTTACGACAAGAAAGTGCAACCAAGAGA
ATTCCATGAGGGGGATCTTGTGCTGAAAAAGATCCTCCCTATTAGAAGGACTTTAGAGGAAAATG
GATGCCAAATTGGGAAGGGCCGTATGTCACGAAGAAGTCCTTTTCTGGGGGTGCATTGATCTTAA
CGGTAGTGGATGGGAAGAGTTTGCCAAATCTAGTGAATTCAGACTCAGTCAAAAAGTACTTTGTC
TAAAGGAGAGAAGAATTCAGGGTGAAAAACCGCAAAGGGCGACTTGAGTTTTCGAAAAAAAATGG
AGAGGCCAAGGTGAAAACCCGCAAAGGGTACCTTGTGACCAAAGGGGTTTTGAGTTGAAAACCCG
AAAAGGCAGCTCAAATTTT
Found at i:61956817 original size:78 final size:78
Alignment explanation
Indices: 61956706--61957000 Score: 459
Period size: 78 Copynumber: 3.8 Consensus size: 78
61956696 CGAAGAAATA
** * * *
61956706 GATTTGGCATCTCCATATTCA-ACGGTGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
1 GATTTGGCATCTCTGTATT-AGATGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGA
61956770 AGTAGATCCAAGAT
65 AGTAGATCCAAGAT
* * *
61956784 GATTTGACATCTCTGTATTAGATGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
*
61956849 GTAGATCCAAGAG
66 GTAGATCCAAGAT
*
61956862 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCAAAGACATAGCAGATCT-GACCTTCATTGA
*
61956926 AGCAGATCCAAGAT
65 AGTAGATCCAAGAT
61956940 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCAT
61957001 GTGTTTACAT
Statistics
Matches: 200, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
77 2 0.01
78 197 0.99
79 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATTGAA
GTAGATCCAAGAT
Found at i:61957136 original size:44 final size:45
Alignment explanation
Indices: 61957014--61957213 Score: 249
Period size: 45 Copynumber: 4.5 Consensus size: 45
61957004 TTTACATCGA
* * * *
61957014 AGCAGATCCAAGATGATAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTATATTAGACGGGG
* * *
61957059 AGCAAATCGGAGATAACAGATTTGACATCTCTATATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTATATTAGACGGGG
* **
61957104 AGCAGATTGAAGA-AGTAGATTTGGCATCTCTATATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTATATTAGACGGGG
* * * *
61957148 AGCAGATCAAAGATAACAGATTTGGCGTCTCTGTATTAGACGAGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTATATTAGACGGGG
* *
61957193 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
61957214 ATCACCTTCC
Statistics
Matches: 133, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
44 39 0.29
45 94 0.71
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.24
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTATATTAGACGGGG
Found at i:61957145 original size:89 final size:89
Alignment explanation
Indices: 61957030--61957199 Score: 268
Period size: 89 Copynumber: 1.9 Consensus size: 89
61957020 TCCAAGATGA
* **
61957030 TAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACAGATTTGACATCTCTATAT
1 TAGATTTGGCATCTCTATATTAGACGGGGAGCAAATCAAAGATAACAGATTTGACATCTCTATAT
*
61957095 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGAGGAGCAGATTGAAGAAG
* * * *
61957119 TAGATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAT
1 TAGATTTGGCATCTCTATATTAGACGGGGAGCAAATCAAAGATAACAGATTTGACATCTCTATAT
61957184 TAGACGAGGAGCAGAT
66 TAGACGAGGAGCAGAT
61957200 CAAAGATAGC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (89 bp):
TAGATTTGGCATCTCTATATTAGACGGGGAGCAAATCAAAGATAACAGATTTGACATCTCTATAT
TAGACGAGGAGCAGATTGAAGAAG
Found at i:61957660 original size:17 final size:19
Alignment explanation
Indices: 61957563--61957653 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
61957553 ATAATCTTCA
61957563 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
61957582 ATGATATGCAGTCTTAGAT
1 ATGATATGCAATCTTAGAT
61957601 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
61957618 ATGAT-TGCAAACTTAGAT
1 ATGATATGCAATCTTAGAT
61957636 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
61957654 AGATATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 15 0.23
18 15 0.23
19 35 0.54
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:61957679 original size:22 final size:22
Alignment explanation
Indices: 61957563--61957676 Score: 78
Period size: 19 Copynumber: 5.8 Consensus size: 22
61957553 ATAATCTTCA
61957563 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
61957582 ATGATATGCAGTCTT--A-GAT
1 ATGATATGCAATCTTAGAAGAT
61957601 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
61957618 ATGAT-TGCAAACTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
61957636 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
61957658 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
61957677 GATTTAATTT
Statistics
Matches: 80, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
17 14 0.17
18 15 0.19
19 31 0.39
22 8 0.10
23 12 0.15
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:61963261 original size:2 final size:2
Alignment explanation
Indices: 61963254--61963279 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
61963244 CGGCTCTAGC
61963254 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
61963280 GTTTGCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61964208 original size:40 final size:40
Alignment explanation
Indices: 61964153--61964356 Score: 257
Period size: 40 Copynumber: 5.1 Consensus size: 40
61964143 TGAATGATAC
* *
61964153 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
61964193 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
61964233 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
61964273 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
61964313 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
61964353 CCGG
1 CCGG
61964357 TTAAATTCCG
Statistics
Matches: 143, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 140 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:61971720 original size:45 final size:46
Alignment explanation
Indices: 61971671--61971760 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 46
61971661 TGGTCATTCA
*
61971671 GCCTTATCACATAT-TCACTTACACATAT-ATCACATTGGCCATTTG
1 GCCTTATCACATATAACACTTACACAT-TCATCACATTGGCCATTTG
*
61971716 GCCTTATCACATATACACACTTTCACATTCATCACATTGGCCATT
1 GCCTTATCACATATA-ACACTTACACATTCATCACATTGGCCATT
61971761 CGATCTTAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 14 0.35
46 1 0.03
47 25 0.62
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (46 bp):
GCCTTATCACATATAACACTTACACATTCATCACATTGGCCATTTG
Found at i:61974123 original size:4 final size:4
Alignment explanation
Indices: 61974114--61974138 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
61974104 TTTTTCCTTT
61974114 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
61974139 GTCATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:61974366 original size:22 final size:20
Alignment explanation
Indices: 61974326--61974366 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
61974316 AGTCCTATTA
*
61974326 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
61974346 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
61974367 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:61975751 original size:30 final size:30
Alignment explanation
Indices: 61975696--61975757 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
61975686 CACTAATCAA
61975696 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
61975725 GTTTCAATATAACATGTAAT-AT-CATTTCCAT
1 GTTTC-ATAT-ACATGT-ATCATCCATTTCCAT
61975756 GT
1 GT
61975758 ATGTTATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 9 0.31
31 13 0.45
32 2 0.07
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.44
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:61975967 original size:25 final size:25
Alignment explanation
Indices: 61975908--61975992 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
61975898 GTACATGTAT
* *
61975908 GCTCATACGAGCTATGAA-TCAGTAT
1 GCTCATACGAGCTAT-AATTCGGTAA
*
61975933 GCT-TTCACGAGCTATAATTCGGTAA
1 GCTCAT-ACGAGCTATAATTCGGTAA
* *
61975958 GCTCATACGAGTTGAGAATT-GGTAA
1 GCTCATACGAGCT-ATAATTCGGTAA
*
61975983 GCTTATACGA
1 GCTCATACGA
61975993 TTTGTGTTGT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
24 3 0.06
25 40 0.82
26 6 0.12
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (25 bp):
GCTCATACGAGCTATAATTCGGTAA
Found at i:61980872 original size:17 final size:19
Alignment explanation
Indices: 61980840--61980882 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
61980830 TTTAATTAGG
*
61980840 TATTTTTTTCATTTGACTT
1 TATTTTTTTCATTTGAATT
61980859 TATTTTTTT-A-TTGAATT
1 TATTTTTTTCATTTGAATT
61980876 TATTTTT
1 TATTTTT
61980883 CTTGTGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.57
18 1 0.04
19 9 0.39
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.72
Consensus pattern (19 bp):
TATTTTTTTCATTTGAATT
Found at i:61981713 original size:77 final size:77
Alignment explanation
Indices: 61981586--61981735 Score: 291
Period size: 77 Copynumber: 1.9 Consensus size: 77
61981576 AGATATGTGG
61981586 GTGTGGAGCTAGCTAATTTTCTGTTTCAGATTGAAAAAGGGGTGAATCTTACTCCAGCAGTCTTA
1 GTGTGGAGCTAGCTAATTTTCTGTTTCAGATTGAAAAAGGGGTGAATCTTACTCCAGCAGTCTTA
*
61981651 GCTGAAACGTGA
66 GCTAAAACGTGA
61981663 GTGTGGAGCTAGCTAATTTTCTGTTTCAGATTGAAAAAGGGGTGAATCTTACTCCAGCAGTCTTA
1 GTGTGGAGCTAGCTAATTTTCTGTTTCAGATTGAAAAAGGGGTGAATCTTACTCCAGCAGTCTTA
61981728 GCTAAAAC
66 GCTAAAAC
61981736 CATCATTTCA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (77 bp):
GTGTGGAGCTAGCTAATTTTCTGTTTCAGATTGAAAAAGGGGTGAATCTTACTCCAGCAGTCTTA
GCTAAAACGTGA
Found at i:61988389 original size:27 final size:27
Alignment explanation
Indices: 61988349--61988459 Score: 163
Period size: 27 Copynumber: 4.1 Consensus size: 27
61988339 AGGAAGCGTC
* *
61988349 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
61988376 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGTT
61988403 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* *
61988430 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
61988456 CTGG
1 CTGG
61988460 CAGTCATGCT
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
26 17 0.22
27 58 0.74
28 3 0.04
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:61992484 original size:46 final size:46
Alignment explanation
Indices: 61992428--61992556 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
61992418 TATTTGGGCA
* *
61992428 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
61992474 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
61992520 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61992557 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:61996368 original size:24 final size:24
Alignment explanation
Indices: 61996338--61996484 Score: 240
Period size: 24 Copynumber: 6.1 Consensus size: 24
61996328 GAATGTGACT
* *
61996338 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
61996362 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
**
61996386 ATAGTGTATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
61996410 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
61996434 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
61996458 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
61996482 ATA
1 ATA
61996485 TGGTCTTTGC
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 116 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:62004343 original size:23 final size:23
Alignment explanation
Indices: 62004241--62004419 Score: 283
Period size: 23 Copynumber: 7.8 Consensus size: 23
62004231 GACTATAGCA
* *
62004241 AATCGCACACATAGTGGCTATAGC
1 AATCGCACACATAGT-GCCATAGT
62004265 AATCGCACACATAGTGCCATAGT
1 AATCGCACACATAGTGCCATAGT
62004288 AAATCGCACACATAGTGCCATAGT
1 -AATCGCACACATAGTGCCATAGT
62004312 AAATCGCACACATAGTGCCATAGT
1 -AATCGCACACATAGTGCCATAGT
62004336 AATCGCACACATAGTGCCATAGT
1 AATCGCACACATAGTGCCATAGT
62004359 AATCGCACACATAGTGCCATAGT
1 AATCGCACACATAGTGCCATAGT
62004382 AATCGCACACATAGTGCCATAG-
1 AATCGCACACATAGTGCCATAGT
*
62004404 --TCGCACACATTGTGCC
1 AATCGCACACATAGTGCC
62004420 TTATGTCAAT
Statistics
Matches: 151, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
20 15 0.10
23 74 0.49
24 62 0.41
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (23 bp):
AATCGCACACATAGTGCCATAGT
Found at i:62006090 original size:40 final size:39
Alignment explanation
Indices: 62006019--62006152 Score: 189
Period size: 40 Copynumber: 3.4 Consensus size: 39
62006009 TCTGCGAAAC
* * *
62006019 TTTAAGCCCGGATATA-ATACTAGCACTAAGCCTACGGGA
1 TTTAA-CCCGGATATACATACCAGCACGAAGCCTGCGGGA
62006058 TTTAACCCGGATATACATTACCAGCACGAAGCCTGCGGGA
1 TTTAACCCGGATATACA-TACCAGCACGAAGCCTGCGGGA
*
62006098 TTTGACCCGGATATACACTACCAGCACGAAGCCTGCGGGA
1 TTTAACCCGGATATACA-TACCAGCACGAAGCCTGCGGGA
*
62006138 TTTGACCCGGATATA
1 TTTAACCCGGATATA
62006153 TATAATATAT
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
38 10 0.11
39 6 0.07
40 72 0.82
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (39 bp):
TTTAACCCGGATATACATACCAGCACGAAGCCTGCGGGA
Found at i:62007957 original size:46 final size:46
Alignment explanation
Indices: 62007904--62008079 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62007894 TATTTGGGCA
62007904 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
62007950 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
62007997 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
62008043 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62008080 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:62008059 original size:93 final size:93
Alignment explanation
Indices: 62007900--62008071 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62007890 GGGATATTTG
* *
62007900 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62007965 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
62007993 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62008058 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62008072 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:62011048 original size:15 final size:15
Alignment explanation
Indices: 62011028--62011096 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
62011018 GTATCTTGGG
62011028 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
62011043 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
62011058 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
62011073 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
62011088 TTTCTTTAT
1 TTTCTTTAT
62011097 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:62011097 original size:30 final size:30
Alignment explanation
Indices: 62011019--62011106 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
62011009 CATAGTATCG
* * * *
62011019 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
62011049 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
62011079 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
62011107 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:62013545 original size:46 final size:46
Alignment explanation
Indices: 62013492--62013620 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
62013482 TATTTGGGCA
*
62013492 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
62013538 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
62013584 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62013621 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:62016558 original size:15 final size:15
Alignment explanation
Indices: 62016538--62016606 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
62016528 GTATCTTGGG
62016538 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
62016553 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
62016568 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
62016583 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
62016598 TTTCTTTAT
1 TTTCTTTAT
62016607 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:62016607 original size:30 final size:30
Alignment explanation
Indices: 62016529--62016616 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
62016519 CATAGTATCG
* * * *
62016529 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
62016559 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
62016589 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
62016617 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:62019058 original size:46 final size:46
Alignment explanation
Indices: 62019002--62019130 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
62018992 TATTTGGGCA
* *
62019002 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
62019048 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
62019094 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62019131 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:62023124 original size:39 final size:39
Alignment explanation
Indices: 62023028--62023194 Score: 208
Period size: 39 Copynumber: 4.3 Consensus size: 39
62023018 GGTCTTTAAC
** * * *
62023028 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGAACCTCATGT
* * * * * *
62023067 CCGAATATATTTCTAGCATATAGCTTGCGAATCTCCTGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGAACCTCATGT
* *
62023106 CCGGATATTTTTCCAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGAACCTCATGT
*
62023145 TCGGATATTTTTCCAGCATATAGCCTGCGAACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGAACCTCATGT
62023184 CCGGATATTTT
1 CCGGATATTTT
62023195 CAATCTCATA
Statistics
Matches: 107, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGAACCTCATGT
Found at i:62031143 original size:39 final size:39
Alignment explanation
Indices: 62031008--62031171 Score: 226
Period size: 39 Copynumber: 4.3 Consensus size: 39
62030998 GGGTCTTTAA
** *
62031008 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCT-AAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
62031046 CC-GATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
62031084 CC-GATATTTTTCCAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
**
62031122 CCGGATATTTTTCCAATATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
62031161 CCGGATATTTT
1 CCGGATATTTT
62031172 CAATCTCATA
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
37 26 0.23
38 43 0.38
39 44 0.39
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:62039066 original size:26 final size:26
Alignment explanation
Indices: 62039030--62039081 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
62039020 TCTTTTGTTC
*
62039030 TCCCTGTCACTTAGAGAAAATTATAT
1 TCCCCGTCACTTAGAGAAAATTATAT
62039056 TCCCCGTCACTTAGAGAAAATTATAT
1 TCCCCGTCACTTAGAGAAAATTATAT
62039082 CCCTTGCTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (26 bp):
TCCCCGTCACTTAGAGAAAATTATAT
Found at i:62040273 original size:42 final size:42
Alignment explanation
Indices: 62040227--62040404 Score: 216
Period size: 42 Copynumber: 4.3 Consensus size: 42
62040217 GGAAACATTG
* *
62040227 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTTTTC
** * *
62040269 ATTGCATTTAGAGGTTCAAGTGTGGAGGTCCATTTACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTTTTC
*
62040311 ATTGCATTTAGA--CCCAGGTGTGGAGGTCCATTCACTTCTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTTTTC
* * * * *
62040351 ATTACATCTAGAGACCCAGGTGTAGAGGTCTATTCACTTTTC
1 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTTTTC
* *
62040393 ATTCCATCTAGA
1 ATTGCATTTAGA
62040405 TGTAACACCC
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 33 0.28
42 86 0.72
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (42 bp):
ATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTCACTTTTC
Found at i:62040379 original size:82 final size:83
Alignment explanation
Indices: 62040227--62040404 Score: 214
Period size: 82 Copynumber: 2.1 Consensus size: 83
62040217 GGAAACATTG
* * * * * ***
62040227 ATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTACTTTTCATTGCATTTAGAGGTTCAAGTGT
1 ATTGCATTTAGA-GCCCAGGTGTGGAGGTCCATTCACTTCTCATTACATCTAGAGACCCAAGTGT
* *
62040292 GGAGGTCCATTTACTTTTC
65 AGAGGTCCATTCACTTTTC
*
62040311 ATTGCATTTAGA-CCCAGGTGTGGAGGTCCATTCACTTCTCATTACATCTAGAGACCCAGGTGTA
1 ATTGCATTTAGAGCCCAGGTGTGGAGGTCCATTCACTTCTCATTACATCTAGAGACCCAAGTGTA
*
62040375 GAGGTCTATTCACTTTTC
66 GAGGTCCATTCACTTTTC
* *
62040393 ATTCCATCTAGA
1 ATTGCATTTAGA
62040405 TGTAACACCC
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
82 68 0.85
84 12 0.15
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (83 bp):
ATTGCATTTAGAGCCCAGGTGTGGAGGTCCATTCACTTCTCATTACATCTAGAGACCCAAGTGTA
GAGGTCCATTCACTTTTC
Found at i:62045560 original size:48 final size:48
Alignment explanation
Indices: 62045489--62045715 Score: 307
Period size: 48 Copynumber: 4.7 Consensus size: 48
62045479 CATATTAATC
* *
62045489 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATA
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATA
* * *
62045537 TGTGCCTGTGTAAGACCATGTCTGGGACATGCCATCGATGATAATATA
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATA
* *
62045585 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATC-AGTGATGATATG
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGA-CGATGATATA
*
62045633 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATG
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATA
** *
62045681 TG-GATTCATGTAAGACCATGT-TGGGGACATGGCAT
1 TGTGCCT-GTGTAAGACCATGTCT-GGGACATGGCAT
62045716 TGGTACTTTA
Statistics
Matches: 163, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
47 4 0.02
48 158 0.97
49 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.28
Consensus pattern (48 bp):
TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATA
Found at i:62052973 original size:51 final size:51
Alignment explanation
Indices: 62052896--62053093 Score: 335
Period size: 51 Copynumber: 3.9 Consensus size: 51
62052886 CGGATACACG
*
62052896 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
62052947 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
62052998 GTGGCCTTCACTTAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
62053049 GTGGCCTTTACATAGTACCACACTTGTGTCCAAAGTTATTTTATT
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATT
62053094 ACTAAGGTTC
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
50 1 0.01
51 138 0.99
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:62053174 original size:52 final size:52
Alignment explanation
Indices: 62053118--62053240 Score: 194
Period size: 52 Copynumber: 2.4 Consensus size: 52
62053108 GGGAAATTTC
*
62053118 TCACTTAGCACCATGCCATGGACTTATTTCACTTAGATGTCATAGACTTATT
1 TCACTTAGCACCATGCCATGGACTTATTTCACTTAGATGCCATAGACTTATT
* *
62053170 TCACTTAGCA-CATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACCA-TGCCATGGACTTATTTCACTTAGATGCCATAGACTTATT
*
62053222 TCACTTAGCACAATGCCAT
1 TCACTTAGCACCATGCCAT
62053241 ATCCTGGATA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
51 2 0.03
52 62 0.95
53 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (52 bp):
TCACTTAGCACCATGCCATGGACTTATTTCACTTAGATGCCATAGACTTATT
Found at i:62053202 original size:28 final size:27
Alignment explanation
Indices: 62053118--62053240 Score: 150
Period size: 24 Copynumber: 4.7 Consensus size: 27
62053108 GGGAAATTTC
62053118 TCACTTAGCACCATGCCATGGACTTATT
1 TCACTTAGCA-CATGCCATGGACTTATT
* *
62053146 TCACTTAG---ATGTCATAGACTTATT
1 TCACTTAGCACATGCCATGGACTTATT
62053170 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
*
62053198 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
62053222 TCACTTAGCACAATGCCAT
1 TCACTTAGCAC-ATGCCAT
62053241 ATCCTGGATA
Statistics
Matches: 82, Mismatches: 5, Indels: 16
0.80 0.05 0.16
Matches are distributed among these distances:
24 44 0.54
25 1 0.01
27 1 0.01
28 36 0.44
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:62062983 original size:3 final size:3
Alignment explanation
Indices: 62062969--62063099 Score: 201
Period size: 3 Copynumber: 44.0 Consensus size: 3
62062959 GAATAAGGTG
*
62062969 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62063016 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
62063064 TAT TAT TAT TAT TGT TGT TGT TGT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62063100 CATCATGTTA
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
2 2 0.02
3 119 0.98
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:62063847 original size:15 final size:14
Alignment explanation
Indices: 62063811--62063851 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
62063801 GAATTCTAAA
62063811 ATAGAATTAATTTT
1 ATAGAATTAATTTT
*
62063825 A-GGAATTAATTTT
1 ATAGAATTAATTTT
62063838 ACTAGAATT-ATTTT
1 A-TAGAATTAATTTT
62063852 GGTATCCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 12 0.52
14 6 0.26
15 5 0.22
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (14 bp):
ATAGAATTAATTTT
Found at i:62066661 original size:29 final size:29
Alignment explanation
Indices: 62066582--62066693 Score: 84
Period size: 29 Copynumber: 3.9 Consensus size: 29
62066572 ACCCCTACAT
* * *
62066582 ACATGCATATAGCCCATTAGGCCCAA-TC
1 ACATTCATATGGCCCACTAGGCCCAATTC
** * * * *
62066610 TTATTCAAATGGCCTA-TATGGCCCAGTTT
1 ACATTCATATGGCCCACTA-GGCCCAATTC
* *
62066639 ATATTCTTATGGCCCACTAGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATTC
* *
62066668 ACCTTCATATGGCCCATTAGGCCCAA
1 ACATTCATATGGCCCACTAGGCCCAA
62066694 ATCATATTAT
Statistics
Matches: 63, Mismatches: 18, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
27 2 0.03
28 16 0.25
29 43 0.68
30 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAATTC
Found at i:62066971 original size:24 final size:24
Alignment explanation
Indices: 62066916--62066974 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
62066906 AGAGCCCAAC
* * *
62066916 TTTCAGCTTTTCGACATTTTGACT
1 TTTCGGCTTTTCGACATTTCGACA
* * *
62066940 TTTTGGCTTTTCGGCATTTCGGCA
1 TTTCGGCTTTTCGACATTTCGACA
62066964 TTTCGGCTTTT
1 TTTCGGCTTTT
62066975 GCTGATTCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.10, C:0.20, G:0.19, T:0.51
Consensus pattern (24 bp):
TTTCGGCTTTTCGACATTTCGACA
Found at i:62076106 original size:18 final size:17
Alignment explanation
Indices: 62076076--62076109 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
62076066 ATAAGGTATC
*
62076076 TAAAAAATTAAATAAAT
1 TAAAAAATAAAATAAAT
62076093 TAAAAAATGAAAATAAA
1 TAAAAAAT-AAAATAAA
62076110 AAATTAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
TAAAAAATAAAATAAAT
Found at i:62076121 original size:21 final size:23
Alignment explanation
Indices: 62076079--62076121 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
62076069 AGGTATCTAA
62076079 AAAATTAAATAAATTAAAAAATG
1 AAAATTAAATAAATTAAAAAATG
*
62076102 AAAA-TAAA-AAATTAACAAAT
1 AAAATTAAATAAATTAAAAAAT
62076122 TATCTAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 4 0.21
23 4 0.21
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAATTAAATAAATTAAAAAATG
Found at i:62077070 original size:20 final size:21
Alignment explanation
Indices: 62077037--62077079 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
62077027 TACATTAGCG
62077037 AACAAATATATATA-AAAATA
1 AACAAATATATATATAAAATA
* *
62077057 AACAACTATTTATATAAAATA
1 AACAAATATATATATAAAATA
62077078 AA
1 AA
62077080 ATAAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (21 bp):
AACAAATATATATATAAAATA
Found at i:62077545 original size:20 final size:20
Alignment explanation
Indices: 62077520--62077568 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
62077510 AGTAGTAATT
62077520 AAATCAATTTGATTAAAATC
1 AAATCAATTTGATTAAAATC
* **
62077540 AAATCAAATTGATTGGAATC
1 AAATCAATTTGATTAAAATC
*
62077560 AAATAAATT
1 AAATCAATT
62077569 AGGATATATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (20 bp):
AAATCAATTTGATTAAAATC
Found at i:62089091 original size:93 final size:95
Alignment explanation
Indices: 62088925--62089143 Score: 228
Period size: 93 Copynumber: 2.3 Consensus size: 95
62088915 TACGATGCCG
* * * * *
62088925 ATGCCATGTTCCAAAAATGGTCTTACACTAGCTCACATATCTAAGTCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACA-GGTCTTACACT-GCACACATATCTAAGCCGATGCCATGTCCCAGACA
* * *
62088990 GGTCTTACACTGGCTCCCATCTATCG-GTGTCA
64 GGTCTTACACTAGCTCCCATATATCGAG-GCCA
* * * *
62089022 ATGCCATGTCTCAGACAGGTCTTACACTG-ACACATGTC-AAGCCGATGCCATGTCCTAGATAGG
1 ATGCCATGTCCCAGACAGGTCTTACACTGCACACATATCTAAGCCGATGCCATGTCCCAGACAGG
* ** * *
62089085 TTTTACACTAGCTTGCATATCTCGAGGCCG
66 TCTTACACTAGCTCCCATATATCGAGGCCA
*
62089115 ATGCCATGTCCCAGATAGGTCTTACACTG
1 ATGCCATGTCCCAGACAGGTCTTACACTG
62089144 GCTTGCATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
93 69 0.68
94 8 0.08
95 1 0.01
96 11 0.11
97 13 0.13
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (95 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGCACACATATCTAAGCCGATGCCATGTCCCAGACAGG
TCTTACACTAGCTCCCATATATCGAGGCCA
Found at i:62089119 original size:49 final size:49
Alignment explanation
Indices: 62088921--62089190 Score: 207
Period size: 49 Copynumber: 5.7 Consensus size: 49
62088911 AGGGTACGAT
* * * ** *
62088921 GCCGATGCCATGTTCCAAAAATGGTCTTACACTAGCTCACATATCT--AA
1 GCCGATGCCATGTCCCAGATA-GGTCTTACACTAGCTTGCATATCTCGAG
* * * ** * *
62088969 GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCCCATCTATCG-G
1 GCCGATGCCATGTCCCAGATAGGTCTTACACTAGCTTGCATATCTCGAG
* * * * * * * *
62089017 TGTCAATGCCATGTCTCAGACAGGTCTTACACT-G---ACACATGTC-AA
1 -GCCGATGCCATGTCCCAGATAGGTCTTACACTAGCTTGCATATCTCGAG
* *
62089062 GCCGATGCCATGTCCTAGATAGGTTTTACACTAGCTTGCATATCTCGAG
1 GCCGATGCCATGTCCCAGATAGGTCTTACACTAGCTTGCATATCTCGAG
*
62089111 GCCGATGCCATGTCCCAGATAGGTCTTACACTGGCTTGCATATCTCGAG
1 GCCGATGCCATGTCCCAGATAGGTCTTACACTAGCTTGCATATCTCGAG
** * *
62089160 GTAGATG-CATGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGATAGGTCTTACACT
62089191 GGCTCTCGTC
Statistics
Matches: 180, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
44 26 0.14
45 6 0.03
47 20 0.11
48 46 0.26
49 82 0.46
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGATAGGTCTTACACTAGCTTGCATATCTCGAG
Found at i:62089190 original size:48 final size:47
Alignment explanation
Indices: 62088971--62089282 Score: 219
Period size: 49 Copynumber: 6.6 Consensus size: 47
62088961 ATATCTAAGT
* * * * *
62088971 CGATGCCATGTCCCAGACAGGTCTTACACTGGCTCCCATCTATCG-GTGT
1 CGATG-CATGTCCCAGACATGTCTTACACTGGCT-TCATATCTCGAG-GC
* * * * * * *
62089020 CAATGCCATGTCTCAGACAGGTCTTACACT-G--ACACATGTC-AAGC
1 CGATG-CATGTCCCAGACATGTCTTACACTGGCTTCATATCTCGAGGC
* * * * *
62089064 CGATGCCATGTCCTAGATAGGTTTTACACTAGCTTGCATATCTCGAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTGGCTT-CATATCTCGAGGC
* * *
62089113 CGATGCCATGTCCCAGATAGGTCTTACACTGGCTTGCATATCTCGAGGT
1 CGATG-CATGTCCCAGACATGTCTTACACTGGCTT-CATATCTCGAGGC
* * * *
62089162 AGATGCATGTCCCAGACATGTCTTACACTGGC-TC-TCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTCAT-ATCTCGAGGC
* * *
62089208 CGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATA-AT-GTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TCATATCTCGAGGC
*
62089254 CGGTGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
62089283 AGCATACATA
Statistics
Matches: 216, Mismatches: 37, Indels: 23
0.78 0.13 0.08
Matches are distributed among these distances:
44 26 0.12
45 7 0.03
46 66 0.31
47 2 0.01
48 34 0.16
49 81 0.38
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTCATATCTCGAGGC
Found at i:62089225 original size:46 final size:45
Alignment explanation
Indices: 62089110--62089282 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 45
62089100 CATATCTCGA
* * * *
62089110 GGCCGATGCCATGTCCCAGATAGGTCTTACACTGGCT-TGCATATCTCGA
1 GGCCGATG-CATGTCCCAGACATGTCTTACACTGGCTCT-CATA---AGT
** *
62089159 GGTAGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAA-T
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTC--AT-AAGT
*
62089206 -GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAA-GT
*
62089251 GGCCGGTGCATGTCCCAGACATGTCTTACACT
1 GGCCGATGCATGTCCCAGACATGTCTTACACT
62089283 AGCATACATA
Statistics
Matches: 104, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 1 0.01
46 64 0.62
48 27 0.26
49 7 0.07
50 1 0.01
51 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAAGT
Found at i:62091464 original size:28 final size:28
Alignment explanation
Indices: 62091394--62091466 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
62091384 GTCCTCACGA
**
62091394 ACTTTCCACATTAACCTATACATGGCAG
1 ACTTTCCACATTAAGATATACATGGCAG
*
62091422 ACTTTCCACATTAAGATATTCATGGCAG
1 ACTTTCCACATTAAGATATACATGGCAG
62091450 ACTTTCCACATTAAGAT
1 ACTTTCCACATTAAGAT
62091467 CGTCCTAACG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (28 bp):
ACTTTCCACATTAAGATATACATGGCAG
Found at i:62091491 original size:28 final size:28
Alignment explanation
Indices: 62091453--62091546 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 28
62091443 ATGGCAGACT
62091453 TTCCACA-TTAAGATCGTCCTAACGAAC
1 TTCCACATTTAAGATCGTCCTAACGAAC
* * * * * *
62091480 TTCTACATTTAAAATGGTAC-ATACAAAA
1 TTCCACATTTAAGATCGTCCTA-ACGAAC
* * *
62091508 TTCCACATTTAAGATTGTCCTAAGGGAC
1 TTCCACATTTAAGATCGTCCTAACGAAC
62091536 TTCCACATTTA
1 TTCCACATTTA
62091547 TGATAATGCC
Statistics
Matches: 50, Mismatches: 14, Indels: 5
0.72 0.20 0.07
Matches are distributed among these distances:
27 7 0.14
28 42 0.84
29 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (28 bp):
TTCCACATTTAAGATCGTCCTAACGAAC
Found at i:62091596 original size:22 final size:22
Alignment explanation
Indices: 62091571--62091642 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
62091561 CCATGGACTT
62091571 TCATTCGTCCCATAAAGGGCTC
1 TCATTCGTCCCATAAAGGGCTC
* *
62091593 TCATACGTCCCACACAAGGGACTC
1 TCATTCGTCCCATA-AAGGG-CTC
* * * *
62091617 TCAATCATCCCATAAAAGGCTT
1 TCATTCGTCCCATAAAGGGCTC
62091639 TCAT
1 TCAT
62091643 ATATGAGTGC
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 17 0.44
23 9 0.23
24 13 0.33
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (22 bp):
TCATTCGTCCCATAAAGGGCTC
Found at i:62091635 original size:24 final size:23
Alignment explanation
Indices: 62091578--62091643 Score: 57
Period size: 24 Copynumber: 2.9 Consensus size: 23
62091568 CTTTCATTCG
*
62091578 TCCCAT-AAAGGGCTCTCATACG
1 TCCCATAAAAGGGCTCTCATACA
* *
62091600 TCCCACACAAGGGACTCTCA-ATCA
1 TCCCATAAAAGGG-CTCTCATA-CA
*
62091624 TCCCATAAAA-GGCTTTCATA
1 TCCCATAAAAGGGCTCTCATA
62091644 TATGAGTGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
22 10 0.29
23 9 0.26
24 15 0.44
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.23
Consensus pattern (23 bp):
TCCCATAAAAGGGCTCTCATACA
Found at i:62091789 original size:57 final size:57
Alignment explanation
Indices: 62091700--62091850 Score: 221
Period size: 57 Copynumber: 2.6 Consensus size: 57
62091690 CTTAGTCCAA
62091700 CTGAACCTCCTTCAAAGCCACATAAATATAATGCATATGCAATCCCGTGTATGACCAT
1 CTGAACCTCC-TCAAAGCCACATAAATATAATGCATATGCAATCCCGTGTATGACCAT
* **
62091758 CTGAACCTCCTCAAAGCCACATAAATATAATGAATATGCAATCCTTTGTATGACCAT
1 CTGAACCTCCTCAAAGCCACATAAATATAATGCATATGCAATCCCGTGTATGACCAT
* * * * *
62091815 CCGAACCTCCTCAAATCCATATACATATCATGCATA
1 CTGAACCTCCTCAAAGCCACATAAATATAATGCATA
62091851 CATATGCAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
57 74 0.88
58 10 0.12
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (57 bp):
CTGAACCTCCTCAAAGCCACATAAATATAATGCATATGCAATCCCGTGTATGACCAT
Found at i:62095195 original size:40 final size:40
Alignment explanation
Indices: 62095140--62095389 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
62095130 AACATTGGAA
62095140 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62095180 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62095220 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62095260 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
62095300 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
62095339 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
62095380 CTATATCCGG
1 ATATATCCGG
62095390 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:62103370 original size:40 final size:40
Alignment explanation
Indices: 62103315--62103564 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
62103305 AACATTGGAA
62103315 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62103355 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62103395 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62103435 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
62103475 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
62103514 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
62103555 CTATATCCGG
1 ATATATCCGG
62103565 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:62113347 original size:35 final size:36
Alignment explanation
Indices: 62113298--62113366 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
62113288 AAATAGATAA
62113298 CTTGTAGGCAGATTCTTAATAATGAATCCCTTACTC
1 CTTGTAGGCAGATTCTTAATAATGAATCCCTTACTC
*
62113334 CTTGT-GGCGGATTCTTAATAATGAATCCCTTAC
1 CTTGTAGGCAGATTCTTAATAATGAATCCCTTAC
62113367 CAAAATCATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 27 0.84
36 5 0.16
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (36 bp):
CTTGTAGGCAGATTCTTAATAATGAATCCCTTACTC
Found at i:62113865 original size:28 final size:29
Alignment explanation
Indices: 62113792--62113915 Score: 103
Period size: 28 Copynumber: 4.4 Consensus size: 29
62113782 CTTCCACAAG
* *
62113792 AGATAGTCTTGATGAACTTTCCACA-TTA
1 AGATCGTCTTGACGAACTTTCCACATTTA
* * * * *
62113820 AGATAGCCCTGGCAAACTTTCCACA-TTA
1 AGATCGTCTTGACGAACTTTCCACATTTA
*
62113848 AGATCGTCTTGACGAAC-TTCCACATTTC
1 AGATCGTCTTGACGAACTTTCCACATTTA
* * * *
62113876 AGATCGTCCTAACGTA-TTTTCACATTTA
1 AGATCGTCTTGACGAACTTTCCACATTTA
*
62113904 AGATCATCTTGA
1 AGATCGTCTTGA
62113916 TAGGCTTCCA
Statistics
Matches: 75, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
27 7 0.09
28 68 0.91
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (29 bp):
AGATCGTCTTGACGAACTTTCCACATTTA
Found at i:62113930 original size:28 final size:28
Alignment explanation
Indices: 62113899--62113959 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
62113889 GTATTTTCAC
*
62113899 ATTTAAGATCATCTTGATAGG-CTTCCAG
1 ATTTAAGATCATCCTGAT-GGACTTCCAG
* * *
62113927 ATTTATGATCGTCCTGATGGACTTCCAT
1 ATTTAAGATCATCCTGATGGACTTCCAG
62113955 ATTTA
1 ATTTA
62113960 CGATAATGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (28 bp):
ATTTAAGATCATCCTGATGGACTTCCAG
Found at i:62117703 original size:50 final size:50
Alignment explanation
Indices: 62117583--62117979 Score: 384
Period size: 50 Copynumber: 7.9 Consensus size: 50
62117573 ATTGTGAGAA
* * * *** *
62117583 CACATGTGTAGTACTATGTGCAAGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* *
62117635 CACATGTGTAGTATTAAGTGTAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * * *
62117685 CACATGTGTAATACTAAGTGCATGGCTACTATGCGTACCCGACGACCTCA-AT
1 CACATGTGTAGTACTAAGTGCA-GGCTACTACGTGTACCAGA-TA-GTTAGGT
* * * * *
62117737 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTCTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * *
62117787 CACATGTGTAGTACTAACTGTAGGCTACTACGTGTACCAGACAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
** * *
62117837 TGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * ** *
62117887 CACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACTGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * *
62117936 CGCATGTATAATACTAAGTGCAGGCTACTATGGGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
62117980 CTTCGGTTAC
Statistics
Matches: 280, Mismatches: 61, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
49 41 0.15
50 151 0.54
51 30 0.11
52 56 0.20
53 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:62118008 original size:150 final size:150
Alignment explanation
Indices: 62117591--62118011 Score: 344
Period size: 152 Copynumber: 2.8 Consensus size: 150
62117581 AACACATGTG
* * * * * * * * * * *
62117591 TAGTACTATGTGCAAGCTACTATGTGTTTAAGATGGTTTTAGGTCACATGTGTAGTATTAAGTGT
1 TAGTACTAAGTGCAGGCTACTACGTCTATCAGATGG--TTAGGTCACATGTATAATACTAACTGC
* * * * * * * * *
62117656 AGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAATACTAAGTGCATGGCTACTATGCGT
64 AGGCTACTACGGGTACCAGACAGTTAGGTTACAAGGGTAGTAATAAGTGCA-GGCTACTACGTGT
* * * * * * *
62117721 ACCCGACGACCTCA-ATCACGTGTG
128 ATCAGATG--GTTAGGTCACGTGTA
* * * *
62117745 TAGTACTAAGTGTAGGCTACTACGTCTATCAGATGGTTAGGTCACATGTGTAGTACTAACTGTAG
1 TAGTACTAAGTGCAGGCTACTACGTCTATCAGATGGTTAGGTCACATGTATAATACTAACTGCAG
* * * * *
62117810 GCTACTACGTGTACCAGACAGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATC
66 GCTACTACGGGTACCAGACAGTTAGGTTACAAGGGTAGTAATAAGTGCAGGCTACTACGTGTATC
62117875 AGATGGTTAGGTCACGTGTA
131 AGATGGTTAGGTCACGTGTA
* * * * *
62117895 TAGTACTAAGTGCAGGCTACTACGTGTA-CTGGATTGTT-GGTCGCATGTATAATACTAAGTGCA
1 TAGTACTAAGTGCAGGCTACTACGTCTATC-AGATGGTTAGGTCACATGTATAATACTAACTGCA
* * * * *
62117958 GGCTACTATGGGTACCAGATAGCTTCGGTTACAAGGGTGGTAATATGTGCAGGC
65 GGCTACTACGGGTACCAGACAG-TTAGGTTACAAGGGTAGTAATAAGTGCAGGC
62118012 AACCGTGTAT
Statistics
Matches: 223, Mismatches: 41, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
149 42 0.19
150 64 0.29
151 16 0.07
152 72 0.32
154 29 0.13
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (150 bp):
TAGTACTAAGTGCAGGCTACTACGTCTATCAGATGGTTAGGTCACATGTATAATACTAACTGCAG
GCTACTACGGGTACCAGACAGTTAGGTTACAAGGGTAGTAATAAGTGCAGGCTACTACGTGTATC
AGATGGTTAGGTCACGTGTA
Found at i:62121020 original size:21 final size:21
Alignment explanation
Indices: 62120994--62121036 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
62120984 GAAAAAAAAG
62120994 TAAAATTATTAACTTAGTCCT
1 TAAAATTATTAACTTAGTCCT
62121015 TAAAATTATTAACTTAGTCCT
1 TAAAATTATTAACTTAGTCCT
62121036 T
1 T
62121037 CTGTAATGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (21 bp):
TAAAATTATTAACTTAGTCCT
Found at i:62126495 original size:16 final size:17
Alignment explanation
Indices: 62126474--62126517 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
62126464 TATATATTTG
62126474 AAAATAAATAAAAAT-A
1 AAAATAAATAAAAATAA
*
62126490 AAAAT-AGTAAAAATAA
1 AAAATAAATAAAAATAA
62126506 AAAATAAA-AAAA
1 AAAATAAATAAAA
62126518 TTATGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 8 0.33
16 15 0.62
17 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (17 bp):
AAAATAAATAAAAATAA
Found at i:62126526 original size:24 final size:25
Alignment explanation
Indices: 62126455--62126545 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 25
62126445 AAAAATTATA
* *
62126455 AAAAAATAATATATATT-TGAAAAT
1 AAAAAATAATAAAAATTATGAAAAT
*
62126479 AAATAAA-AATAAAAA-TAGTAAAAAT
1 AAA-AAATAATAAAAATTA-TGAAAAT
62126504 AAAAAATAA-AAAAATTATGAAAATT
1 AAAAAATAATAAAAATTATGAAAA-T
* *
62126529 GTAATAATAATAAAAAT
1 -AAAAAATAATAAAAAT
62126546 ATTCTTAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
23 1 0.02
24 22 0.42
25 17 0.32
26 7 0.13
27 6 0.11
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.26
Consensus pattern (25 bp):
AAAAAATAATAAAAATTATGAAAAT
Found at i:62126527 original size:33 final size:33
Alignment explanation
Indices: 62126474--62126543 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
62126464 TATATATTTG
62126474 AAAATAAATAAAAATAAAAATAGTAAAAATAA-
1 AAAATAAATAAAAATAAAAATAGTAAAAATAAT
* * *
62126506 AAAATAAA-AAAATTATGAAAATTGTAATAATAAT
1 AAAATAAATAAAA--ATAAAAATAGTAAAAATAAT
62126540 AAAA
1 AAAA
62126544 ATATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 4 0.12
32 8 0.25
33 16 0.50
34 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (33 bp):
AAAATAAATAAAAATAAAAATAGTAAAAATAAT
Found at i:62126750 original size:27 final size:27
Alignment explanation
Indices: 62126720--62126795 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
62126710 AATTTTTTTA
*
62126720 TTTTTTGTAATTTTTTAAATTTAAAAT
1 TTTTTTGTAATTTTTAAAATTTAAAAT
* * ** *
62126747 TTTTTT-TGAATTTTTCATATTTCCATT
1 TTTTTTGT-AATTTTTAAAATTTAAAAT
*
62126774 TTTTTTGTAATTTCTAAAATTT
1 TTTTTTGTAATTTTTAAAATTT
62126796 TAACTTTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 1 0.03
27 37 0.95
28 1 0.03
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTTTGTAATTTTTAAAATTTAAAAT
Found at i:62126852 original size:26 final size:26
Alignment explanation
Indices: 62126823--62126886 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
62126813 TTGCAAAGTA
62126823 TTTTTGAATTATTGAA-T-TATTATATT
1 TTTTTGAATTATT-AACTGT-TTATATT
*
62126849 TTTTTGAAATT-TTAACTGTTTTTATT
1 TTTTTG-AATTATTAACTGTTTATATT
62126875 TTTTTGAATTAT
1 TTTTTGAATTAT
62126887 ATATATTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 6 0.18
26 22 0.67
27 5 0.15
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.64
Consensus pattern (26 bp):
TTTTTGAATTATTAACTGTTTATATT
Found at i:62130404 original size:5 final size:5
Alignment explanation
Indices: 62130394--62130422 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
62130384 TATAAATTCA
62130394 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
62130423 CAAGTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:62130822 original size:35 final size:33
Alignment explanation
Indices: 62130783--62130847 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
62130773 AGTGTTATTT
*
62130783 AAATAATTT-TTTTAATATATTTTCAATTTATTAGA
1 AAAT-ATTTATTTTAATAT-TTTT-AATGTATTAGA
62130818 AAATATTTATTTTAATATTTTTAATGTATT
1 AAATATTTATTTTAATATTTTTAATGTATT
62130848 TGATGTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 8 0.29
35 13 0.46
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (33 bp):
AAATATTTATTTTAATATTTTTAATGTATTAGA
Found at i:62130872 original size:25 final size:25
Alignment explanation
Indices: 62130832--62130881 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
62130822 ATTTATTTTA
* *
62130832 ATATTTTTAATGTATTTGATGTATT
1 ATATTTTAAATGTATTTGATATATT
*
62130857 ATATTTTAAATTTATTTGATATATT
1 ATATTTTAAATGTATTTGATATATT
62130882 TGTTGGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (25 bp):
ATATTTTAAATGTATTTGATATATT
Found at i:62134487 original size:21 final size:21
Alignment explanation
Indices: 62134461--62134501 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62134451 AGACAAGCGA
* *
62134461 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
62134482 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
62134502 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:62141166 original size:12 final size:12
Alignment explanation
Indices: 62141149--62141176 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
62141139 AACATGAAGC
62141149 AACGATAAAAGA
1 AACGATAAAAGA
62141161 AACGATAAAAGA
1 AACGATAAAAGA
62141173 AACG
1 AACG
62141177 TAGAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.64, C:0.11, G:0.18, T:0.07
Consensus pattern (12 bp):
AACGATAAAAGA
Found at i:62150354 original size:31 final size:30
Alignment explanation
Indices: 62150287--62150358 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
62150277 CATCTGCATG
*
62150287 AACCCCTAGGTGTGTGAACACTGATGTGCC
1 AACCCCTAGGTGTGTGAACACTAATGTGCC
* * *
62150317 AA-CCCTAGGTGTGTGCACCCTAATGTGCG
1 AACCCCTAGGTGTGTGAACACTAATGTGCC
62150346 AACCCCCTAGGTG
1 AA-CCCCTAGGTG
62150359 CGATCCCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 25 0.69
30 2 0.06
31 9 0.25
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.22
Consensus pattern (30 bp):
AACCCCTAGGTGTGTGAACACTAATGTGCC
Found at i:62150490 original size:15 final size:15
Alignment explanation
Indices: 62150463--62150532 Score: 56
Period size: 15 Copynumber: 4.7 Consensus size: 15
62150453 CCAACCGTGT
62150463 GAACCCTTAGGTGTGC
1 GAACCC-TAGGTGTGC
* *
62150479 GAACCCTAGGTGAGT
1 GAACCCTAGGTGTGC
*
62150494 GAACCCTA-ATGTGC
1 GAACCCTAGGTGTGC
*
62150508 G-ACCCTTA-ATGTGC
1 GAACCC-TAGGTGTGC
62150522 GAATCCCTAGG
1 GAA-CCCTAGG
62150533 CGTGAACTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
13 4 0.09
14 13 0.30
15 18 0.41
16 9 0.20
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (15 bp):
GAACCCTAGGTGTGC
Found at i:62152731 original size:17 final size:19
Alignment explanation
Indices: 62152709--62152751 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
62152699 TGTGGGCAGG
62152709 CCGTGT-GATCA-ACACGC
1 CCGTGTGGATCAGACACGC
*
62152726 CCGTGTGGCTCAGGACACGC
1 CCGTGTGGATCA-GACACGC
62152746 CCGTGT
1 CCGTGT
62152752 CCTCCACCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 4 0.18
20 12 0.55
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.19
Consensus pattern (19 bp):
CCGTGTGGATCAGACACGC
Found at i:62153444 original size:42 final size:42
Alignment explanation
Indices: 62153393--62153480 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
62153383 AGCTGGATAG
62153393 TGTG-ATAGAATCTCCAACGATCTCCAACTCGAGCTAGCTTT
1 TGTGAATAGAATCTCCAACGATCTCCAACTCGAGCTAGCTTT
*
62153434 TGTGAATAGAATCTCCGACGATCTCCAACTCGAGCTAGCTTT
1 TGTGAATAGAATCTCCAACGATCTCCAACTCGAGCTAGCTTT
62153476 TGTGA
1 TGTGA
62153481 CACTATGAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 4 0.09
42 41 0.91
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (42 bp):
TGTGAATAGAATCTCCAACGATCTCCAACTCGAGCTAGCTTT
Found at i:62154694 original size:48 final size:48
Alignment explanation
Indices: 62154521--62154713 Score: 181
Period size: 48 Copynumber: 4.0 Consensus size: 48
62154511 AAAAGGGTAA
* ** * *
62154521 AATGTCGATGCCATGTCCCGGACATGGTATTACACTGGCTCTCATACATC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT--ATC
* * * * * * *
62154571 GATGCTGATGCCATGCCCCAAACATGGTCTTACACTGACACATATAAC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC
** * *
62154619 AATG-CGATGCCATGTTACAAACATGGTCTTACACTGGCTCGCATATT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC
* * * *
62154666 AAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC
62154714 GACCAAATGT
Statistics
Matches: 111, Mismatches: 31, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
47 36 0.32
48 41 0.37
50 34 0.31
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATC
Found at i:62159561 original size:39 final size:39
Alignment explanation
Indices: 62159498--62159659 Score: 234
Period size: 39 Copynumber: 4.1 Consensus size: 39
62159488 GTGAATGAAA
*
62159498 GTGCGAATTGTGATATCCGGGCTAAGCCTGAAGGCAATT
1 GTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATT
* *
62159537 GTGTGAATTGTGATATCCGAGCTAAGCCCGAAGGCAATT
1 GTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATT
** *
62159576 GTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAATT
1 GTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATT
* * *
62159615 GTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTT
1 GTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAATT
62159655 GTGCG
1 GTGCG
62159660 GGTTACCATA
Statistics
Matches: 110, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 93 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (39 bp):
GTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATT
Found at i:62159675 original size:40 final size:39
Alignment explanation
Indices: 62159498--62159689 Score: 222
Period size: 39 Copynumber: 4.9 Consensus size: 39
62159488 GTGAATGAAA
* * *
62159498 GTGCGAATTGTGATATCCGGGCTAAGCCTGAAGGCAATT
1 GTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATT
* * * *
62159537 GTGTGAATTGTGATATCCGAGCTAAGCCCGAAGGCAATT
1 GTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATT
*
62159576 GTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAATT
1 GTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATT
* * *
62159615 GTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTT
1 GTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAATT
* ** * *
62159655 GTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 GTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
62159690 TGTTTTGAAC
Statistics
Matches: 133, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 93 0.70
40 40 0.30
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATT
Found at i:62169769 original size:79 final size:81
Alignment explanation
Indices: 62169634--62169817 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
62169624 TCGAATGATG
* *
62169634 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAGATCCGAAGGCATTC
*
62169698 GTGTGAGTTAATA-AA
66 GTGCGAGTTAATATAA
* **
62169713 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTA-AGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAGA-T-CCGAAGGCAT
*
62169775 TCGTGCGAGTTACTATAA
64 TCGTGCGAGTTAATATAA
**
62169793 -CCGGGCTTTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62169818 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 25 0.27
79 49 0.54
80 16 0.18
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAGATCCGAAGGCATTC
GTGCGAGTTAATATAA
Found at i:62169774 original size:40 final size:40
Alignment explanation
Indices: 62169634--62169817 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
62169624 TCGAATGATG
* *
62169634 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
* * ** *
62169674 TCCGGACT-AGAT-CCGAAGGCATTCGTGTGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
62169713 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* * * *
62169752 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
**
62169793 -CCGGGCTTTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62169818 AGCGAGTCGT
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 56 0.47
40 60 0.51
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Done.