Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 18 of 343
Found at i:6276587 original size:23 final size:22
Alignment explanation
Indices: 6276561--6276609 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
6276551 AAATCCATAA
6276561 AATTAAAAAAGAAAAAATGAATC
1 AATTAAAAAAGAAAAAA-GAATC
* *
6276584 AATTAAAAAATAATAAAGAATC
1 AATTAAAAAAGAAAAAAGAATC
6276606 AATT
1 AATT
6276610 CATTCTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.22
Consensus pattern (22 bp):
AATTAAAAAAGAAAAAAGAATC
Found at i:6277593 original size:22 final size:23
Alignment explanation
Indices: 6277567--6277612 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
6277557 CAACCAATCC
6277567 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
6277589 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
6277612 A
1 A
6277613 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:6277618 original size:23 final size:23
Alignment explanation
Indices: 6277574--6277618 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6277564 TCCAATTCAA
*
6277574 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
6277597 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
6277619 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:6286274 original size:27 final size:27
Alignment explanation
Indices: 6286244--6286306 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
6286234 AATTTTCATA
6286244 CAATGAACATTCAAATCATATTCACAT
1 CAATGAACATTCAAATCATATTCACAT
6286271 CAATGAACATTCAAATCATATTCACAT
1 CAATGAACATTCAAATCATATTCACAT
6286298 CAAT-AACAT
1 CAATGAACAT
6286307 ACAATCTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.29
Consensus pattern (27 bp):
CAATGAACATTCAAATCATATTCACAT
Found at i:6290878 original size:18 final size:18
Alignment explanation
Indices: 6290824--6290881 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
6290814 CCTAAAGCTC
*
6290824 TCATGCATTCTTCTCCCT
1 TCATCCATTCTTCTCCCT
* *** *
6290842 TCATCCAGTAAGCTTCCT
1 TCATCCATTCTTCTCCCT
6290860 TCATCCATTCTTCTCCCT
1 TCATCCATTCTTCTCCCT
6290878 TCAT
1 TCAT
6290882 TCCTTCAAAT
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.16, C:0.38, G:0.05, T:0.41
Consensus pattern (18 bp):
TCATCCATTCTTCTCCCT
Found at i:6291604 original size:12 final size:12
Alignment explanation
Indices: 6291587--6291612 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6291577 CGTTTGTGTA
6291587 TTCGATATAATG
1 TTCGATATAATG
6291599 TTCGATATAATG
1 TTCGATATAATG
6291611 TT
1 TT
6291613 TCTGGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (12 bp):
TTCGATATAATG
Found at i:6293008 original size:13 final size:13
Alignment explanation
Indices: 6292990--6293017 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6292980 CTTGTACAAG
6292990 TAAACTTCATAAA
1 TAAACTTCATAAA
6293003 TAAACTTCATAAA
1 TAAACTTCATAAA
6293016 TA
1 TA
6293018 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:6293476 original size:20 final size:20
Alignment explanation
Indices: 6293451--6293490 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6293441 AATATTTTTC
*
6293451 AGTAAATCATTTTACAGAAA
1 AGTAAAGCATTTTACAGAAA
*
6293471 AGTAAAGCATTTTCCAGAAA
1 AGTAAAGCATTTTACAGAAA
6293491 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (20 bp):
AGTAAAGCATTTTACAGAAA
Found at i:6294692 original size:60 final size:60
Alignment explanation
Indices: 6294579--6294692 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
6294569 CTATGATTTT
* * *
6294579 TTTCCTTTTCGGTCACTCAACTATGAAAAGTTACAAAATGGCCATCCAGCTATTAGTAAA
1 TTTCCTTTTCGGTCACCCAACTATGAAAAGTTACAAAATAGCCATCCAACTATTAGTAAA
* *
6294639 TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGTCA-CTCAACTATT
1 TTTCCTTTTCGGTCACCCAACTATGAAAAGTTACAAAATAGCCATC-CAACTATT
6294693 CAATTTTCTC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 1 0.02
60 47 0.98
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (60 bp):
TTTCCTTTTCGGTCACCCAACTATGAAAAGTTACAAAATAGCCATCCAACTATTAGTAAA
Found at i:6294708 original size:60 final size:59
Alignment explanation
Indices: 6294579--6294715 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
6294569 CTATGATTTT
* * * * *
6294579 TTTCCTTTTCGGTCACTCAACTATGAAAAGTTACAAAATGGCCATCCAGCTATTAGTAAA
1 TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGCCATCCAACTATTA-CAAA
* *
6294639 TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGTCA-CTCAACTATT-CAAT
1 TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGCCATC-CAACTATTACAAA
6294697 TTTCTCTTTTTTGGTCACC
1 TTTC-C-TTTTTGGTCACC
6294716 TTACTATTGA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
58 6 0.09
59 2 0.03
60 59 0.88
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (59 bp):
TTTCCTTTTTGGTCACCCAACTATGAAAAGTTACAAAATAGCCATCCAACTATTACAAA
Found at i:6297363 original size:13 final size:13
Alignment explanation
Indices: 6297345--6297369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6297335 TTGTCGTGTT
6297345 ATTTAGTTAATTA
1 ATTTAGTTAATTA
6297358 ATTTAGTTAATT
1 ATTTAGTTAATT
6297370 TTAATTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTAGTTAATTA
Found at i:6299895 original size:71 final size:71
Alignment explanation
Indices: 6299779--6299928 Score: 284
Period size: 71 Copynumber: 2.1 Consensus size: 71
6299769 AAACATGCTG
6299779 AAAGAGGATTGAAGGGGGACACAGAGAATAGAAGGTAGAAAACACTCAAGAATAGCCATCGGGAT
1 AAAGAGGATTGAAGGGGGACACAGAGAATAGAAGGTAGAAAACACTCAAGAATAGCCATCGGGAT
*
6299844 CAGCTC
66 CAACTC
6299850 AAAGAGGATTGAAGGGGGACACAGAGAATAGAAGGTAGAAAACACTCAAGAATAGCCATCGGGAT
1 AAAGAGGATTGAAGGGGGACACAGAGAATAGAAGGTAGAAAACACTCAAGAATAGCCATCGGGAT
6299915 CAACTC
66 CAACTC
6299921 AAA-AGGAT
1 AAAGAGGAT
6299929 GATCTACATC
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 5 0.06
71 73 0.94
ACGTcount: A:0.44, C:0.15, G:0.29, T:0.13
Consensus pattern (71 bp):
AAAGAGGATTGAAGGGGGACACAGAGAATAGAAGGTAGAAAACACTCAAGAATAGCCATCGGGAT
CAACTC
Found at i:6301514 original size:53 final size:52
Alignment explanation
Indices: 6301444--6301597 Score: 154
Period size: 51 Copynumber: 3.0 Consensus size: 52
6301434 CACATAACAT
* *
6301444 ACCGATACCATATCCCAGATATGGTCTTATATGGAATCACATTATCACATCAC
1 ACCGATGCCATAGCCCAGATATGGTCTTATATGGAATCACA-TATCACATCAC
* * * * * ***
6301497 ACCGATGCCATAGCCCAGCTACGGTCTTACA-GGGATCTCGA-ATCACATTGT
1 ACCGATGCCATAGCCCAGATATGGTCTTATATGGAATCAC-ATATCACATCAC
6301548 ACCGATGCCATAGCCCA-ACTATGGTCTTATATGGAAGT-ACATATCACATC
1 ACCGATGCCATAGCCCAGA-TATGGTCTTATATGGAA-TCACATATCACATC
6301598 TTTTCCGTCA
Statistics
Matches: 80, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
51 35 0.44
52 17 0.21
53 28 0.35
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (52 bp):
ACCGATGCCATAGCCCAGATATGGTCTTATATGGAATCACATATCACATCAC
Found at i:6310058 original size:52 final size:52
Alignment explanation
Indices: 6309938--6310103 Score: 185
Period size: 52 Copynumber: 3.2 Consensus size: 52
6309928 TCTTACACGG
* *
6309938 ATCACATAACATACCGAT-CCATATCCCAGATATGGTCTTATACGGAATCACATT
1 ATCACAT--CATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACA-T
* * * *
6309992 ATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATATGGGATCTCGA-
1 ATCACATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-AT
** *
6310044 ATCACATTGTACCGATGCCATAGCCCAGCTATGGTCTTATACGGAAGT-ACAA
1 ATCACATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAA-TCACAT
6310096 ATCACATC
1 ATCACATC
6310104 TTTTTCGTCA
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
51 1 0.01
52 57 0.60
53 29 0.31
54 8 0.08
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (52 bp):
ATCACATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACAT
Found at i:6313839 original size:104 final size:103
Alignment explanation
Indices: 6313659--6313881 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
6313649 TGTATATAAA
** * *
6313659 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
6313724 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCCG
* *
6313763 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
6313827 TTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
6313866 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
6313882 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 42 0.38
104 69 0.62
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:6313902 original size:71 final size:71
Alignment explanation
Indices: 6313801--6313951 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
6313791 TCATTGGTGG
* *
6313801 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
6313865 GAGGGGT
65 GAGGGGT
***
6313872 TGCTAAGTGCGATATCCATTGTATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
6313937 AGGGGT
66 AGGGGT
6313943 TGCTAAGTG
1 TGCTAAGTG
6313952 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 3 0.04
71 71 0.96
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (71 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
AGGGGT
Found at i:6321026 original size:104 final size:104
Alignment explanation
Indices: 6320846--6321069 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
6320836 TGTATATAAA
** * *
6320846 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
6320911 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
6320950 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
6321014 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
6321054 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
6321070 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:6321121 original size:71 final size:72
Alignment explanation
Indices: 6320988--6321139 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
6320978 TCATTGGTGG
* *
6320988 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
6321053 GAGGGGT
66 GAGGGGT
***
6321060 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
6321124 GAGGGGT
66 GAGGGGT
6321131 TGCTAAGTG
1 TGCTAAGTG
6321140 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:6328226 original size:104 final size:103
Alignment explanation
Indices: 6328046--6328268 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
6328036 TGTATATAAA
** * *
6328046 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
6328111 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
6328150 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
6328214 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
6328253 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
6328269 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 21 0.19
104 90 0.80
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:6328320 original size:70 final size:72
Alignment explanation
Indices: 6328188--6328338 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
6328178 TCATTGGTGG
* *
6328188 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
6328252 GAGGGGT
66 GAGGGGT
***
6328259 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
6328323 GAGGGGT
66 GAGGGGT
6328330 TGCTAAGTG
1 TGCTAAGTG
6328339 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:6331310 original size:25 final size:25
Alignment explanation
Indices: 6331282--6331333 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
6331272 TAATAGTTAG
*
6331282 TTCAAGAATGAGTAATTATAAATAT
1 TTCAAGAACGAGTAATTATAAATAT
6331307 TTCAAGAACGAGTAATTATAAATAT
1 TTCAAGAACGAGTAATTATAAATAT
6331332 TT
1 TT
6331334 AAAACCTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (25 bp):
TTCAAGAACGAGTAATTATAAATAT
Found at i:6333101 original size:54 final size:54
Alignment explanation
Indices: 6333019--6333121 Score: 197
Period size: 54 Copynumber: 1.9 Consensus size: 54
6333009 AACGGTGAAT
*
6333019 GAAGAATATAAACCTCGTATCCCATACCTTAACGCGACAAGGAAAGACCATTTA
1 GAAGAATATAAACCCCGTATCCCATACCTTAACGCGACAAGGAAAGACCATTTA
6333073 GAAGAATATAAACCCCGTATCCCATACCTTAACGCGACAAGGAAAGACC
1 GAAGAATATAAACCCCGTATCCCATACCTTAACGCGACAAGGAAAGACC
6333122 GCTTAGATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.41, C:0.26, G:0.16, T:0.17
Consensus pattern (54 bp):
GAAGAATATAAACCCCGTATCCCATACCTTAACGCGACAAGGAAAGACCATTTA
Found at i:6337289 original size:27 final size:27
Alignment explanation
Indices: 6337258--6337311 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
6337248 AAAGTATTGT
6337258 TAGATGAAAAAGACCCTAGAATTGCTA
1 TAGATGAAAAAGACCCTAGAATTGCTA
*
6337285 TAGATGAAAAGGACCCTAGAATTGCTA
1 TAGATGAAAAAGACCCTAGAATTGCTA
6337312 CTTCAGAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (27 bp):
TAGATGAAAAAGACCCTAGAATTGCTA
Found at i:6340465 original size:14 final size:15
Alignment explanation
Indices: 6340446--6340475 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6340436 ATATTTAATT
6340446 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
6340460 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
6340475 T
1 T
6340476 TTTGATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:6356301 original size:14 final size:14
Alignment explanation
Indices: 6356282--6356329 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
6356272 GTCGATTTTT
* *
6356282 TTGAAAGGCAAAAA
1 TTGAAAAGCAGAAA
*
6356296 TTGAAAAACAGAAA
1 TTGAAAAGCAGAAA
6356310 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
6356324 TTGAAA
1 TTGAAA
6356330 TTAACTCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.58, C:0.06, G:0.19, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:6356431 original size:74 final size:73
Alignment explanation
Indices: 6356314--6356534 Score: 273
Period size: 74 Copynumber: 3.0 Consensus size: 73
6356304 CAGAAATTGA
* * * * *
6356314 AAAGCAGAAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTTGCAGTATGAGTTG
1 AAAGCAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
6356379 ATTTTTTG
66 ATTTTTTG
* * * ** * *
6356387 AAAGGCAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATATCTCGCAATATGAATT
1 AAA-GCAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTT
*
6356452 GATTTTTTTT
65 GA-TTTTTTG
*
6356462 ACAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
1 A-AAGCAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTT
6356526 GAATTTTTT
65 G-ATTTTTT
6356535 TTGAAAAATA
Statistics
Matches: 123, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
73 3 0.02
74 110 0.89
75 8 0.07
76 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (73 bp):
AAAGCAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
ATTTTTTG
Found at i:6356670 original size:74 final size:74
Alignment explanation
Indices: 6356560--6356793 Score: 299
Period size: 74 Copynumber: 3.1 Consensus size: 74
6356550 TGAAAAGCAG
* * * * *
6356560 AAATTGAAATTACCTAAACCTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
6356624 TGAAAGATAA
66 TGAAA-ATAA
* **
6356634 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTTATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
6356699 TGACAACAG
66 TGAAAATAA
* * *
6356708 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
*
6356773 TTGAAAAATAT
65 TTG-AAAATAA
6356784 AAATTGAAAA
1 AAATTGAAAA
6356794 GCAGAAATTG
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
74 105 0.77
75 18 0.13
76 13 0.10
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (74 bp):
AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAATAA
Found at i:6356880 original size:73 final size:73
Alignment explanation
Indices: 6356787--6356939 Score: 229
Period size: 73 Copynumber: 2.1 Consensus size: 73
6356777 AAAATATAAA
6356787 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
6356851 AGTTGATTT
65 AGTTGATTT
* * ** *
6356860 TTGACAAA-CAGAAATTGAAATTACCTCAGCTTGTCCTGAGGCTCAACTCATTTCTCGTAATATG
1 TTGA-AAAGCAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
6356924 AGTTGATTT
65 AGTTGATTT
6356933 TTGAAAA
1 TTGAAAA
6356940 ATAGATTGAA
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
72 3 0.04
73 65 0.89
74 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
TTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:6357010 original size:158 final size:157
Alignment explanation
Indices: 6356623--6358341 Score: 1688
Period size: 158 Copynumber: 10.9 Consensus size: 157
6356613 AGTTGATTTT
* * * **
6356623 TTGAAAGATAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTTATTTCTCGCAATATGA
1 TTGAAA-ACAAAAATTG-AAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
6356688 GTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
64 GTTGA-TTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
6356753 GCAATATGAGTTGAATTTTTTTGAAAAATATAAA
128 GCAATATGAGTTG-A--TTTTTG-AAAATATAAA
* * *
6356787 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAAAAATTGAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* **
6356852 GTTGA-TTTTTGACAAACAGAAATTGAAATTACCTCAGCTTGTCCTGAGGCTCAACTCATTTCTC
64 GTTGATTTTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
* *
6356916 GTAATATGAGTTGATTTTTGAAAA-ATAGA
128 GCAATATGAGTTGATTTTTGAAAATATAAA
* ** *
6356945 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAA-ACAAAAATTGA-AATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
6357010 GTTGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
64 GTTGATTTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
6357074 GCAATATGAGTTGATTTTTGAAAAACATAAA
128 GCAATATGAGTTGATTTTTG-AAAATATAAA
* * ** *
6357105 TTG--AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAG
1 TTGAAAACAAAAATTGAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * * * **
6357168 TTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATG-CTTGAGGCTTAACTCATTTCTC
65 TTGA-TTTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
6357232 GCAATATGAGTTGA--TTT-----T-T---
128 GCAATATGAGTTGATTTTTGAAAATATAAA
* *
6357251 TT--AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTGAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
6357314 TTGAATTTTTTTGAAAAATATAAATTGAAAACAGAAATTGAAATTACCTAAACCTG-CCTTGAGG
65 TTG-A-----TT------T-T---TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGG
6357378 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-A-AAA
113 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAAA
* *
6357421 TTG---------A---AAATA-CTCAGCATGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGT
1 TTGAAAACAAAAATTGAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
6357472 TGATTTTTTTTG-AAAC-GAAATTGAAA-TACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCG
66 TGA--TTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
6357533 CAATATGAGTTGATTTTTTGAAAAATATAAA
129 CAATATGAGTTGA-TTTTTG-AAAATATAAA
*
6357564 TTGAAAAC-AAAATTGAAATTACCTCA-CGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTGAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
**
6357627 ATTGA--TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCG
65 -TTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
*
6357690 TAATATGAGTTGATTTTTGAAAAATAGATTGAAAAAA
129 CAATATGAGTTGATTTTTG-AAAAT--A-T----AAA
* * *
6357727 TTGACATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTGAGGCTCAACTCACCT
1 TTG------AAA---ACA---A-AAATTGAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCT
*
6357791 CTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
52 CTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCA
*
6357855 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAA
117 ACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAAA
* *
6357896 TTG--AACAGAAATTGAAATACCTCA-CGTGTC-TGAGGCTCAACTCA-TTCTCGCAATATGAGT
1 TTGAAAACAAAAATTGAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * **
6357956 TGATTTTTTTTTAAAGACAAAAATTGAAAATACCTCAGCATGT-CTGAGGCTCAACTCATTTCTC
66 TGA--TTTTTTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
6358020 GCAATATGAGTTGA--TTT-----T-T---
128 GCAATATGAGTTGATTTTTGAAAATATAAA
* **
6358039 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAAAAATTG-AAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
6358104 -TT--TTTTTT-TAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
64 GTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
6358165 CAATATGAGTTGATTTTTTGAAAATATAAA
129 CAATATGAGTTGA-TTTTTGAAAATATAAA
* * *
6358195 TTTAAAAGC-AAAATTGAAATTACCTCAACGTG-CCTGAGGCTCAACTC-CCTCTCGCAATATGA
1 TTGAAAA-CAAAAATTGAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* ** *
6358257 GTTGATTTTTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCT
64 GTTGA-TTTTTTGAAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
6358322 CGCAATATGAGTTGATTTTT
127 CGCAATATGAGTTGATTTTT
6358342 TTGAAACAGA
Statistics
Matches: 1331, Mismatches: 103, Indels: 248
0.79 0.06 0.15
Matches are distributed among these distances:
139 34 0.03
140 16 0.01
141 14 0.01
142 5 0.00
143 36 0.03
144 35 0.03
145 7 0.01
146 70 0.05
147 15 0.01
148 5 0.00
149 17 0.01
150 14 0.01
151 22 0.02
152 22 0.02
153 31 0.02
154 76 0.06
155 74 0.06
156 55 0.04
157 111 0.08
158 208 0.16
159 103 0.08
160 38 0.03
161 38 0.03
162 8 0.01
163 73 0.05
164 56 0.04
169 9 0.01
170 2 0.00
172 1 0.00
173 1 0.00
174 1 0.00
176 9 0.01
177 121 0.09
178 4 0.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (157 bp):
TTGAAAACAAAAATTGAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTGAAAATATAAA
Found at i:6357169 original size:84 final size:83
Alignment explanation
Indices: 6357024--6357425 Score: 391
Period size: 84 Copynumber: 5.0 Consensus size: 83
6357014 ATTTTTGAAA
*
6357024 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
6357089 TTTTGAAAAACATAAATTG
66 TTTTGAAAAA-ATAAATTG
* * ** *
6357108 AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
6357173 TTTT------TTGAAA--G
66 TTTTGAAAAAAT-AAATTG
* * * **
6357184 -ACAAAAATTGAAAATACCTCAGCATG-CTTGAGGCTTAACTCATTTCTCGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
6357246 TTTT-------T---TTA
66 TTTTGAAAAAATAAATTG
* *
6357254 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A
6357319 TTTTTTTGAAAAATATAAATTG
65 --TTTTTGAAAAA-ATAAATTG
* * * * *
6357341 AAAACAGAAATTGAAATTACCTAAACCTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 --AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
6357406 ATTTTTG-AAAAA-AAATTG
64 ATTTTTGAAAAAATAAATTG
6357424 AA
1 AA
6357426 AATACTCAGC
Statistics
Matches: 269, Mismatches: 27, Indels: 47
0.78 0.08 0.14
Matches are distributed among these distances:
71 23 0.09
72 32 0.12
73 5 0.02
74 34 0.13
75 22 0.08
76 5 0.02
77 1 0.00
78 3 0.01
81 2 0.01
83 6 0.02
84 65 0.24
85 4 0.01
86 6 0.02
87 2 0.01
88 1 0.00
89 58 0.22
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (83 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAAAATAAATTG
Found at i:6357226 original size:74 final size:74
Alignment explanation
Indices: 6357108--6357707 Score: 387
Period size: 71 Copynumber: 7.9 Consensus size: 74
6357098 ACATAAATTG
* * * *
6357108 AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGAT
1 AACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
6357173 TTTTTTGAA
66 TTTTTTGAA
* *
6357182 AGACAAAAATTGAAAATACCTCAGCATG-CTTGAGGCTTAACTCATTTCTCGCAATATGAGTTGA
1 A-ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
6357246 TTTTTTT--A
65 TTTTTTTGAA
* * * **
6357254 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-A
6357319 TTTTTTTGAA
65 TTTTTTTGAA
** *** ** * * * * *
6357329 AA-ATATAAATTG-AAA-A-CAGAAATTGAAATT-A-CCTAAACCTGCCTTGAGGCTCAACTCAC
1 AACA-A-AAATTGAAAATACCTCAGCGTG-TCTTGAGGCTCAA-CT-CATT-----TC-TCGCA-
* * *
6357388 CTCTCGCAATATGAGTTGATTTTTG-A
54 ATAT-G-AGT-TGA-TT--TTTTTGAA
*
6357414 AA-AAAAATTGAAAATA-CTCAGCATGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
6357476 TTTTTTTG-A
65 TTTTTTTGAA
* **
6357485 AAC-GAAATTG-AAATACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-
*
6357547 TTTTTGAAAAATATAAA
65 TTTTT------T-TGAA
* * * **
6357564 TTGAAAACAAAATTGAAATTACCTCA-CGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGA
1 ---AACA-AAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG-
6357628 TTGA---TTTTGAA
61 TTGATTTTTTTGAA
* * * *
6357639 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAT
1 AACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
6357704 TTTT
66 TTTT
6357708 GAAAAATAGA
Statistics
Matches: 411, Mismatches: 65, Indels: 100
0.71 0.11 0.17
Matches are distributed among these distances:
70 19 0.05
71 93 0.23
72 72 0.18
73 20 0.05
74 50 0.12
75 31 0.08
76 9 0.02
77 4 0.01
78 3 0.01
79 3 0.01
80 3 0.01
81 2 0.00
82 5 0.01
83 10 0.02
84 22 0.05
85 51 0.12
86 14 0.03
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (74 bp):
AACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
TTTTTTGAA
Found at i:6357402 original size:161 final size:157
Alignment explanation
Indices: 6357177--6357486 Score: 433
Period size: 161 Copynumber: 1.9 Consensus size: 157
6357167 GTTGATTTTT
* * * **
6357177 TTGAAAGACAAAAATTGAAAATACCTCAGCATGCTTGAGGCTTAACTCATTTCTCGCAATATGAG
1 TTGAAAGACAAAAATTGAAAATACCTAAACATGCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
6357242 TTGATTTTTTTAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
66 TTGA-TTTTTGAAA-AAAAATTGAAAATA-CTCAGCATGTCCTGAGGCTCAACTCA-CTCTCGCA
6357307 ATATGAGTTGAATTTTTTTGAAAAATATAAA
127 ATATGAGTTGAATTTTTTTGAAAAATATAAA
* * *
6357338 TTGAAA-ACAGAAATTGAAATTACCTAAACCTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTAAACATG-CTTGAGGCTCAACTCACCTCTCGCAATATGA
* *
6357402 GTTGATTTTTGAAAAAAAATTGAAAATACTCAGCATGTCTTGAGGCTCAACTCATTCTCGCAATA
65 GTTGATTTTTGAAAAAAAATTGAAAATACTCAGCATGTCCTGAGGCTCAACTCACTCTCGCAATA
*
6357467 TGAGTTGATTTTTTTTGAAA
130 TGAGTTGAATTTTTTTGAAA
6357487 CGAAATTGAA
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
157 29 0.22
158 24 0.18
159 12 0.09
160 29 0.22
161 39 0.29
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (157 bp):
TTGAAAGACAAAAATTGAAAATACCTAAACATGCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAAAAAATTGAAAATACTCAGCATGTCCTGAGGCTCAACTCACTCTCGCAATAT
GAGTTGAATTTTTTTGAAAAATATAAA
Found at i:6357420 original size:89 final size:89
Alignment explanation
Indices: 6357253--6357421 Score: 252
Period size: 89 Copynumber: 1.9 Consensus size: 89
6357243 TGATTTTTTT
* * *
6357253 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTAAACCTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
***
6357318 ATTTTTTTGAAAAATATAAATTGA
66 ATTTTTAAAAAAAATATAAATTGA
6357342 AAACAGAAATTGAAATTACCTAAACCTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACAGAAATTGAAATTACCTAAACCTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTG
6357406 -ATTTTTGAAAAAAAAT
65 AATTTTT-AAAAAAAAT
6357422 TGAAAATACT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
88 8 0.11
89 64 0.89
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (89 bp):
AAACAGAAATTGAAATTACCTAAACCTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
ATTTTTAAAAAAAATATAAATTGA
Found at i:6357426 original size:230 final size:227
Alignment explanation
Indices: 6356954--6357707 Score: 1078
Period size: 230 Copynumber: 3.3 Consensus size: 227
6356944 ATTGAAACAC
* * * * ** *
6356954 AAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTT
1 AAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
**
6357019 TGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
66 T-TTAAACAGAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
6357084 TTGA-TTTTTGAAAAACATAAATTG--AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTC
129 TTGATTTTTTGAAAAATATAAATTGAAAACAGAAATTGAAATTACCT-AACGTGCCTTGAGGCTC
** *
6357146 AACTCATTTCTCGCAATAGGAGTTGATTTTTTTGAAAGA
193 AACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AA-A
* *
6357185 CAAAAATTGAAAATACCTCAGCATG-CTTGAGGCTTAACTCATTTCTCGCAATATGAGTTGATTT
1 -AAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
6357249 TTTTAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
65 TTTTAAACAGAAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
6357314 TTGAATTTTTTTGAAAAATATAAATTGAAAACAGAAATTGAAATTACCTAAACCTGCCTTGAGGC
129 TTG-A-TTTTTTGAAAAATATAAATTGAAAACAGAAATTGAAATTACCT-AACGTGCCTTGAGGC
6357379 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
191 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
6357416 AAAAATTGAAAATA-CTCAGCATGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTT
1 AAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTT
6357479 TTTTGAAAC-GAAATTGAAATACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAG
65 TTTT-AAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
6357542 TTGATTTTTTGAAAAATATAAATTGAAAACA-AAATTGAAATTACCTCACGTGCCTTGAGGCTCA
129 TTGATTTTTTGAAAAATATAAATTGAAAACAGAAATTGAAATTACCTAACGTGCCTTGAGGCTCA
6357606 ACTCACCTCTCGCAATATGAGATTGA-TTTTGAAA
194 ACTCACCTCTCGCAATATGAG-TTGATTTTTGAAA
* * *
6357640 ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATT
1 A-A-AAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
6357705 TTT
64 TTT
6357708 GAAAAATAGA
Statistics
Matches: 483, Mismatches: 25, Indels: 33
0.89 0.05 0.06
Matches are distributed among these distances:
224 46 0.10
225 20 0.04
226 38 0.08
227 30 0.06
228 52 0.11
229 44 0.09
230 106 0.22
231 41 0.08
232 24 0.05
233 25 0.05
235 57 0.12
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (227 bp):
AAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
TTTAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTGAAAAATATAAATTGAAAACAGAAATTGAAATTACCTAACGTGCCTTGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTGAAA
Found at i:6357723 original size:71 final size:71
Alignment explanation
Indices: 6357564--6357712 Score: 223
Period size: 72 Copynumber: 2.1 Consensus size: 71
6357554 AAAATATAAA
6357564 TTGAAAACA-AAATTGAAATTACCTCACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGA
1 TTGAAAACAGAAATTGAAATTACCTCACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGA
6357628 TTGATT
66 TTGATT
** *
6357634 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCATTTCTCGTAATATGA
1 TTGAAAACAGAAATTGAAATTACCTCA-CGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGA
6357698 G-TTGATTT
64 GATTGA-TT
6357706 TTGAAAA
1 TTGAAAA
6357713 ATAGATTGAA
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
70 9 0.12
71 21 0.29
72 40 0.56
73 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (71 bp):
TTGAAAACAGAAATTGAAATTACCTCACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGA
TTGATT
Found at i:6357730 original size:21 final size:21
Alignment explanation
Indices: 6357706--6357745 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6357696 GAGTTGATTT
*
6357706 TTGAAAAATAGATTGAAAAAA
1 TTGAAAAATAAATTGAAAAAA
* *
6357727 TTGACATATAAATTGAAAA
1 TTGAAAAATAAATTGAAAA
6357746 GCAGAAATTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (21 bp):
TTGAAAAATAAATTGAAAAAA
Found at i:6357874 original size:177 final size:178
Alignment explanation
Indices: 6357557--6357910 Score: 592
Period size: 177 Copynumber: 2.0 Consensus size: 178
6357547 TTTTTGAAAA
6357557 ATATAAATTGAAAACAAAATTGAAATTACCTCACGTGCCTTGAGGCTCAACTCACCTCTCGCAAT
1 ATATAAATTGAAAACAAAATTGAAATTACCTCACGTGCCTTGAGGCTCAACTCACCTCTCGCAAT
* **
6357622 ATGAGATTGATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTC
66 ATGAGATTGATTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
* *
6357687 TCGTAATATGAGTTGATTTTTGAAAA-ATAGATTGAA-A-AAATTGAC
131 TCGCAATATGAGTTGATTTTTGAAAACATAAATTGAACAGAAATTGAC
6357732 ATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCC-TGAGGCTCAACTCACCTCTCGC
1 ATATAAATTGAAAA-CA-AAATTGAAATTACCTC-ACGTGCCTTGAGGCTCAACTCACCTCTCGC
6357796 AATATGAG-TTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
63 AATATGAGATTGA-TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
6357860 CCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTGAACAGAAATTGA
127 CCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTGAACAGAAATTGA
6357911 AATACCTCAC
Statistics
Matches: 167, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
175 14 0.08
176 6 0.04
177 123 0.74
178 16 0.10
179 1 0.01
180 7 0.04
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (178 bp):
ATATAAATTGAAAACAAAATTGAAATTACCTCACGTGCCTTGAGGCTCAACTCACCTCTCGCAAT
ATGAGATTGATTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTGAAAACATAAATTGAACAGAAATTGAC
Found at i:6358038 original size:74 final size:74
Alignment explanation
Indices: 6357743--6358343 Score: 532
Period size: 75 Copynumber: 8.0 Consensus size: 74
6357733 TATAAATTGA
* * *
6357743 AAAG-CAGAAATTGAAATTACCTCAACGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAGACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
6357807 A--TTTTTG
66 ATTTTTTTT
6357814 AAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAAATACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTT
**
6357878 GATTTTTGAAAACAT
65 GATTTTT-----TTT
*
6357893 AAATTGAACAGAAATTG-AAATACCTCA-CGTGTCTGAGGCTCAACTCA-TTCTCGCAATATGAG
1 AAA--G-ACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAG
6357955 TTGATTTTTTTTT
63 TTGA-TTTTTTTT
* * **
6357968 AAAGACAAAAATTGAAAATACCTCAGCATGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
6358033 ATTTTTTTG
66 ATTTTTTTT
* * **
6358042 AAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA--T
1 AAAGACAGAAATTGAAAATACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGTT
6358105 --TTTTTTTT
65 GATTTTTTTT
*
6358113 -AA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAAATACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
6358176 GA-TTTTTTG
65 GATTTTTTTT
* * * * ** * *** ** * * *
6358185 AAA-ATATAAATTTAAAAGCAAAATTGAAATTACCTCAACGTGCCTGAGGCTCAACTCCCTCTCG
1 AAAGACAGAAA-TTGAAA--ATACCTCAGCGTGTCT-GA-G-G-CTCA-ACTC-A---CCTCTCG
*
6358249 CAATATGAGTTGATTTTTTTG
54 CAATATGAGTTGATTTTTTTT
**
6358270 AAA-AGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAGA-CAGAAATTGAAAATACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
6358334 TGATTTTTTT
64 TGATTTTTTT
6358344 GAAACAGAAA
Statistics
Matches: 442, Mismatches: 49, Indels: 74
0.78 0.09 0.13
Matches are distributed among these distances:
69 51 0.12
70 3 0.01
71 34 0.08
72 50 0.11
73 19 0.04
74 66 0.15
75 81 0.18
76 5 0.01
77 1 0.00
78 2 0.00
79 27 0.06
80 26 0.06
81 7 0.02
82 11 0.02
83 18 0.04
84 21 0.05
85 16 0.04
86 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (74 bp):
AAAGACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTT
Found at i:6358148 original size:69 final size:70
Alignment explanation
Indices: 6357750--6358172 Score: 390
Period size: 74 Copynumber: 5.8 Consensus size: 70
6357740 TGAAAAGCAG
* * * * ** * *
6357750 AAATTGAAATTACCTCAACGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
1 AAATTGAAAATACCTCAGCATGTCTGAGGCTCAACTCATTTCTCGCAATATGA-TT-TTTTTTTA
*
6357815 AA-ACAG
64 AAGACAA
* **
6357821 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCATGT-CTGAGGCTCAACTCATTTCTCGCAATATGA-TT--TTTTT-
* *
6357886 AAAACATAAATTGAACAG
61 -----TTAAA--G-ACAA
*
6357904 AAATTG-AAATACCTCA-CGTGTCTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTTTT
1 AAATTGAAAATACCTCAGCATGTCTGAGGCTCAACTCATTTCTCGC-A-AT-A--TGATTTTTTT
6357966 TTAAAGACAA
61 TTAAAGACAA
6357976 AAATTGAAAATACCTCAGCATGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTT
1 AAATTGAAAATACCTCAGCATGTCTGAGGCTCAACTCATTTCTCGCAATATGA-TT--TTTTTTT
6358041 GAAAGACAA
63 -AAAGACAA
6358050 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGATTTTTTTTT-A
1 AAATTGAAAATACCTCAGCATGTC-TGAGGCTCAACTCATTTCTCGCAATATGATTTTTTTTTAA
*
6358114 A-ACAG
65 AGACAA
* * **
6358119 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAATTGAAAATACCTCAGCATGT-CTGAGGCTCAACTCATTTCTCGCAATATGA
6358173 GTTGATTTTT
Statistics
Matches: 310, Mismatches: 16, Indels: 54
0.82 0.04 0.14
Matches are distributed among these distances:
69 51 0.16
70 6 0.02
71 22 0.07
72 50 0.16
73 24 0.08
74 54 0.17
75 40 0.13
79 9 0.03
80 16 0.05
81 12 0.04
82 11 0.04
83 12 0.04
84 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (70 bp):
AAATTGAAAATACCTCAGCATGTCTGAGGCTCAACTCATTTCTCGCAATATGATTTTTTTTTAAA
GACAA
Found at i:6358334 original size:303 final size:299
Alignment explanation
Indices: 6356798--6358347 Score: 1147
Period size: 303 Copynumber: 5.0 Consensus size: 299
6356788 TGAAAAGCAG
* *
6356798 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACATGCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTT-ATTTTTG
* * ** *
6356863 ACAAACAGAAATTGAAATTACCTCAGCTTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTT
64 A-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
6356928 GATTTTTGAAAA-ATAGATTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAAC
128 GATTTTTGAAAACATAAATTG-AA-A-AGAAATTGA-AATACCTCA-CGTG-CCTGAGGCTCAAC
* * * *
6356992 TCACCTCTTGCAATATGAGTTGA--TTTTTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGTCC
187 TCA-CTCTCGCAATATGAGTTGATTTTTTTGAAAAGACAAAAATTGAAAATACCTCAACATGT-C
* *
6357054 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAT-AAATTGAACAG
250 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-------TTGAAA--G-ACAA
* * * ** *
6357113 AAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-A--TTTT
* * * * **
6357178 TGAAAGACAAAAATTGAAAATACCTCAGCATG-CTTGAGGCTTAACTCATTTCTCGCAATATGAG
62 TGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
** *
6357242 TTGATTTTTTTAAACAGAAATT-----GAAA-T----TACCTCAGCGTGTCCTGAGGCTCAACTC
126 TTGATTTTTGAAAACATAAATTGAAAAGAAATTGAAATACCTCA-CGTG-CCTGAGGCTCAACTC
* *
6357297 ACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAACAGAAATTGAAATTACC
189 A-CTCTCGCAATATGAGTTG-ATTTTTTTG------A-AAA--G---ACAAAAATTGAAAATACC
* * *
6357362 TAAACCTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AA-A-AA
240 TCAACATGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAA
* * *
6357418 AAATTGAAAATA-CTCAGCATGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-A---TTT
6357481 TTG-AAAC-GAAATTG-AAATACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAG
61 TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
6357542 TTGATTTTTTGAAAAATATAAATTGAAAACAAAATTGAAATTACCTCACGTGCCTTGAGGCTCAA
126 TTGA-TTTTTG-AAAACATAAATTGAAAA-GAAATTGAAA-TACCTCACGTGCC-TGAGGCTCAA
* * * *
6357607 CTCACCTCTCGCAATATGAGATTGA---TTTTG-AAA-ACAGAAATTGAAATTACCTCAGCGTGT
186 CTCA-CTCTCGCAATATGAG-TTGATTTTTTTGAAAAGACAAAAATTGAAAATACCTCAACATGT
** * *** *
6357667 CCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAAATAGATTGAAA
249 -CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTGAA-AGA---CAA
* ** * ** ** * * *
6357724 AAATTGACATATAAATTGAAAAGCA-GAAATTGAAATTACCTCAACGTGCCTGAGGCTCAACTCA
1 AAATTGA-AAAT-ACCT--CAA-CATG--CCTG--A--GGCTCAAC-T--C--A-CCTC-TCGCA
* * * * **** *
6357788 CCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCT
48 -ATAT-G-AGT-T-A-TT-TTTGAAAACA---GAAATTGAAAATACCTCAGCGTGTCCTGAGGCT
*
6357853 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTGAACAGAAATTGAAATACCT
103 CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACATAAATTGAAAAGAAATTGAAATACCT
* * **
6357918 CACGTGTCTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTTTTTAAAGACAAAAATTGA
168 CACGTGCCTGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTTTGAAAAGACAAAAATTGA
* **
6357983 AAATACCTCAGCATGTCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGAC
233 AAATACCTCAACATGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGAC
6358048 AA
298 AA
* * ** **
6358050 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA-TT-TTTTTTT
1 AAATTGAAAATACCTCAACATG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTATTTTTGA
*
6358113 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
65 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * *
6358178 TTTTTTGAAAATATAAATTTAAAAGCAAAATTGAAATTACCTCAACGTGCCTGAGGCTCAACTCC
130 -TTTTTGAAAACATAAATTGAAAAG--AAATTGAAA-TACCTC-ACGTGCCTGAGGCTCAACTCA
* **
6358243 CTCTCGCAATATGAGTTGATTTTTTTGAAAAG-CAGAAATTGAAAATACCTCAATGTGTCTTGAG
190 CTCTCGCAATATGAGTTGATTTTTTTGAAAAGACAAAAATTGAAAATACCTCAACATGTC-TGAG
6358307 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
254 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
6358348 CAGAAATAAA
Statistics
Matches: 1021, Mismatches: 119, Indels: 202
0.76 0.09 0.15
Matches are distributed among these distances:
296 54 0.05
297 1 0.00
298 62 0.06
299 21 0.02
300 46 0.05
301 27 0.03
302 46 0.05
303 156 0.15
304 33 0.03
305 13 0.01
306 17 0.02
307 4 0.00
308 6 0.01
309 7 0.01
310 11 0.01
311 4 0.00
312 9 0.01
313 38 0.04
314 12 0.01
315 52 0.05
316 51 0.05
317 45 0.04
318 1 0.00
319 58 0.06
321 6 0.01
322 2 0.00
323 2 0.00
324 5 0.00
325 5 0.00
326 12 0.01
327 8 0.01
328 18 0.02
329 17 0.02
330 18 0.02
331 51 0.05
332 46 0.05
333 22 0.02
334 35 0.03
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (299 bp):
AAATTGAAAATACCTCAACATGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTATTTTTGAA
AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAACATAAATTGAAAAGAAATTGAAATACCTCACGTGCCTGAGGCTCAACTCACTCTCG
CAATATGAGTTGATTTTTTTGAAAAGACAAAAATTGAAAATACCTCAACATGTCTGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAA
Found at i:6376590 original size:8 final size:8
Alignment explanation
Indices: 6376577--6376607 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
6376567 TTGTTTTAAT
6376577 TATAATAA
1 TATAATAA
6376585 TATAATAA
1 TATAATAA
6376593 TATAATAA
1 TATAATAA
6376601 TA-AATAA
1 TATAATAA
6376608 ATGTATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.22
8 18 0.78
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TATAATAA
Found at i:6376735 original size:15 final size:15
Alignment explanation
Indices: 6376715--6376745 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6376705 CACTTTTCTC
6376715 TAATCTATAATTCAA
1 TAATCTATAATTCAA
6376730 TAATCTATAATTCAA
1 TAATCTATAATTCAA
6376745 T
1 T
6376746 TTTTACTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATCTATAATTCAA
Found at i:6384929 original size:35 final size:35
Alignment explanation
Indices: 6384873--6385035 Score: 211
Period size: 35 Copynumber: 4.7 Consensus size: 35
6384863 TTTCCTCATT
* *
6384873 GAATTGCCATACCTACATTTCACAACTCAGTATGG
1 GAATTGCCATACCTACGTTTCACAACTCGGTATGG
* * *
6384908 GAAATACCATACCTACGTTTCACAACTCGGTATAG
1 GAATTGCCATACCTACGTTTCACAACTCGGTATGG
* *
6384943 GAATTGCCACACCTA-GCTTCACAACTCGGTATGG
1 GAATTGCCATACCTACGTTTCACAACTCGGTATGG
* * * **
6384977 GGATTGCCACACTTGTGTTTCACAACTCGGTATGG
1 GAATTGCCATACCTACGTTTCACAACTCGGTATGG
6385012 GAATTGCCATACCTACGTTTCACA
1 GAATTGCCATACCTACGTTTCACA
6385036 CTTTTCCATG
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
34 29 0.27
35 79 0.73
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (35 bp):
GAATTGCCATACCTACGTTTCACAACTCGGTATGG
Found at i:6385962 original size:21 final size:21
Alignment explanation
Indices: 6385938--6385979 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6385928 CTTCAAATAC
6385938 ATGTTAAT-TCAACATAAAAAA
1 ATGTT-ATCTCAACATAAAAAA
*
6385959 ATGTTATCTCATCATAAAAAA
1 ATGTTATCTCAACATAAAAAA
6385980 CCAACACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (21 bp):
ATGTTATCTCAACATAAAAAA
Found at i:6387770 original size:433 final size:433
Alignment explanation
Indices: 6386957--6387821 Score: 1234
Period size: 433 Copynumber: 2.0 Consensus size: 433
6386947 GATAATCGGA
* * *
6386957 ACGAATTAGATAATAGTGTCTGGTTACCCGTTAGGGTTGAACCTACATAACAAATAGCCTGGCCA
1 ACGAATCAGATAATAGTGTCTGGTTACCCGTTAGGGTTGAACCTACACAACAAATAGCCTGGCAA
* * * * * * * *
6387022 GGGCTTAATAAACCTATATTGTCGAGTCTACAACATATGTTGGAGCTCGAAACATGTGGGCAATA
66 AGGCTTAATAAACCTATATTCTCAAGTCCACAACACATGCTGAAGCTCGAAACATGCGGGCAATA
* * *
6387087 ATCTGTAACCTCGTATACAAGACTTTTACTAATTTCGTCAGGATTTATCACACATTATAACATAA
131 ACCCGTAACCTCGTATACAAGACTTTTACTAATTTCATCAGGATTTATCACACATTATAACATAA
6387152 TTCCAATCACCAACAATCACCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATT
196 TTCCAATCACCAACAATCACCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATT
* ** * *
6387217 ATATTGTATGAGTTTATATGAAAAAACTGTAGCCGTTTAGCTAATAAGGAATAGTCGACAATTTT
261 ATACTGTATGAACTTATATGAAAAAACTATAGCCGTTTAACTAATAAGGAATAGTCGACAATTTT
* * * ** *
6387282 TCCTTTTCCTCGTACATCATTTTATTGTTGAAATTCTTAATCTAAATCATAATTTGTCTCAATTA
326 TCCTTTTCCTCGAACATCATCTGATAATTAAAATTCTTAATCTAAATCATAATTTGTCTCAATTA
6387347 ACTAATCCAATTATCATTTAACAACATATAGAAATCATACTAC
391 ACTAATCCAATTATCATTTAACAACATATAGAAATCATACTAC
* *
6387390 ACGAATCAGATAATAGTGTCTGGTTATCCGTTAGGGTTGAACCTACACAACAAATAGCTTGGCAA
1 ACGAATCAGATAATAGTGTCTGGTTACCCGTTAGGGTTGAACCTACACAACAAATAGCCTGGCAA
* * * *
6387455 AGGCTTAATAAACCTGTATTC-CTAAGTCCACAACACATGCTGAAGCTTGGAACTTGCGGGCAAT
66 AGGCTTAATAAACCTATATTCTC-AAGTCCACAACACATGCTGAAGCTCGAAACATGCGGGCAAT
* * * *
6387519 AGCCCGTAACCTTGTATACAAGACTTTTACTAATTTCATCGGGATTTATCTCACATTATAACATA
130 AACCCGTAACCTCGTATACAAGACTTTTACTAATTTCATCAGGATTTATCACACATTATAACATA
* *
6387584 ATTCTAATCACCAACAATCATCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAAT
195 ATTCCAATCACCAACAATCACCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAAT
* * * * *
6387649 TATACTGTATGAACTTACT-TGACAAAA-TCATAGCGGTTTAACTAAT-AGTAACTAGTTGGCAA
260 TATACTGTATGAACTTA-TATGAAAAAACT-ATAGCCGTTTAACTAATAAGGAA-TAGTCGACAA
* * * * *
6387711 TTTTTCCTTTTCCTCGAACGTCCTCTGGTAATTAAAATTCTTGATCTAAGTCATAATTTGTCTCA
322 TTTTTCCTTTTCCTCGAACATCATCTGATAATTAAAATTCTTAATCTAAATCATAATTTGTCTCA
*
6387776 ATTAACTAATCCAATTATCATTTAACAACTTATAGAAATCATACTA
387 ATTAACTAATCCAATTATCATTTAACAACATATAGAAATCATACTA
6387822 TATCTCAATT
Statistics
Matches: 380, Mismatches: 48, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
432 6 0.02
433 373 0.98
434 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (433 bp):
ACGAATCAGATAATAGTGTCTGGTTACCCGTTAGGGTTGAACCTACACAACAAATAGCCTGGCAA
AGGCTTAATAAACCTATATTCTCAAGTCCACAACACATGCTGAAGCTCGAAACATGCGGGCAATA
ACCCGTAACCTCGTATACAAGACTTTTACTAATTTCATCAGGATTTATCACACATTATAACATAA
TTCCAATCACCAACAATCACCATTACCAAATCAAATATAATACATCAACATAAGTAATTTAAATT
ATACTGTATGAACTTATATGAAAAAACTATAGCCGTTTAACTAATAAGGAATAGTCGACAATTTT
TCCTTTTCCTCGAACATCATCTGATAATTAAAATTCTTAATCTAAATCATAATTTGTCTCAATTA
ACTAATCCAATTATCATTTAACAACATATAGAAATCATACTAC
Found at i:6402451 original size:12 final size:12
Alignment explanation
Indices: 6402434--6402460 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6402424 ACCCCCTAAC
6402434 CAAGCCTCACTA
1 CAAGCCTCACTA
6402446 CAAGCCTCACTA
1 CAAGCCTCACTA
6402458 CAA
1 CAA
6402461 CTCTCTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.41, G:0.07, T:0.15
Consensus pattern (12 bp):
CAAGCCTCACTA
Found at i:6403061 original size:20 final size:20
Alignment explanation
Indices: 6403012--6403061 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
6403002 AGAAGAGCGA
6403012 AAAGAACGAG-AAACGGGCC
1 AAAGAACGAGAAAACGGGCC
*
6403031 AAA-AACAGAGAAAATGGGCC
1 AAAGAAC-GAGAAAACGGGCC
*
6403051 AAAGTACGAGA
1 AAAGAACGAGA
6403062 TCAACACGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 3 0.12
19 6 0.23
20 15 0.58
21 2 0.08
ACGTcount: A:0.52, C:0.16, G:0.28, T:0.04
Consensus pattern (20 bp):
AAAGAACGAGAAAACGGGCC
Found at i:6417122 original size:8 final size:8
Alignment explanation
Indices: 6417109--6417136 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
6417099 ATAGTCACCA
6417109 TTTATTAT
1 TTTATTAT
6417117 TTTATTAT
1 TTTATTAT
6417125 TTTATTAT
1 TTTATTAT
6417133 TTTA
1 TTTA
6417137 GTCATTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTATTAT
Found at i:6417507 original size:17 final size:18
Alignment explanation
Indices: 6417475--6417509 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6417465 TTAAAAAAAA
6417475 AAACCACAAATCAAACTT
1 AAACCACAAATCAAACTT
*
6417493 AAACCA-AATTCAAACTT
1 AAACCACAAATCAAACTT
6417510 TTCCTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (18 bp):
AAACCACAAATCAAACTT
Found at i:6417997 original size:20 final size:21
Alignment explanation
Indices: 6417974--6418015 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
6417964 ATATTCATTT
6417974 ATTTATAAGT-TTTTTAT-AAA
1 ATTT-TAAGTATTTTTATCAAA
*
6417994 ATTTTATGTATTTTTATCAAA
1 ATTTTAAGTATTTTTATCAAA
6418015 A
1 A
6418016 AAATGAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTTAAGTATTTTTATCAAA
Found at i:6425086 original size:21 final size:23
Alignment explanation
Indices: 6425045--6425096 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 23
6425035 GAAAAGGAAG
6425045 TATAAAAATTAATCTAGAATATA
1 TATAAAAATTAATCTAGAATATA
6425068 TATACAAAA-TAAT-TA-AATATA
1 TATA-AAAATTAATCTAGAATATA
6425089 TAATAAAA
1 T-ATAAAA
6425097 CATATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 10 0.37
22 5 0.19
23 8 0.30
24 4 0.15
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (23 bp):
TATAAAAATTAATCTAGAATATA
Found at i:6425432 original size:19 final size:17
Alignment explanation
Indices: 6425391--6425436 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
6425381 TTTTAATAAA
*
6425391 TTATATATTTTTATATT
1 TTATATATTTTTAAATT
*
6425408 TAATATATTTTCTAAATTT
1 TTATATATTTT-TAAA-TT
6425427 TTATATATTT
1 TTATATATTT
6425437 AATTATTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.42
18 3 0.12
19 11 0.46
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATATTTTTAAATT
Found at i:6427678 original size:12 final size:12
Alignment explanation
Indices: 6427661--6427690 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
6427651 TTGTTATATT
6427661 TTTAACATTATA
1 TTTAACATTATA
6427673 TTTAACATTATA
1 TTTAACATTATA
6427685 TGTTAA
1 T-TTAA
6427691 ATATTTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (12 bp):
TTTAACATTATA
Found at i:6434409 original size:24 final size:24
Alignment explanation
Indices: 6434347--6434416 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
6434337 TGTAAACAGA
* * *
6434347 AAGCTCATGTGAGCTATGTAACCGG
1 AAGCTCATATGAGCCA-ATAACCGG
* * *
6434372 AAGCTCCAGA-GAGCCACTAACGGG
1 AAGCT-CATATGAGCCAATAACCGG
6434396 AAGCTCATATGAGCCAATAAC
1 AAGCTCATATGAGCCAATAAC
6434417 AAGAATGTTC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
23 3 0.08
24 21 0.58
25 10 0.28
26 2 0.06
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (24 bp):
AAGCTCATATGAGCCAATAACCGG
Found at i:6435490 original size:33 final size:33
Alignment explanation
Indices: 6435448--6435514 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
6435438 CCCTACTGAG
* *
6435448 TACATGTTAAGCGTGCCT-ACTGCTAGTGTTGAA
1 TACATGTTAAGCATG-CTGACTGCTAATGTTGAA
*
6435481 TACATGTTAAGCATGTTGACTGCTAATGTTGAA
1 TACATGTTAAGCATGCTGACTGCTAATGTTGAA
6435514 T
1 T
6435515 TGTTCTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (33 bp):
TACATGTTAAGCATGCTGACTGCTAATGTTGAA
Found at i:6438213 original size:11 final size:11
Alignment explanation
Indices: 6438197--6438221 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6438187 TTCAGCTGAT
6438197 GAAAATGAAGA
1 GAAAATGAAGA
6438208 GAAAATGAAGA
1 GAAAATGAAGA
6438219 GAA
1 GAA
6438222 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:6440222 original size:15 final size:17
Alignment explanation
Indices: 6440198--6440231 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6440188 ATTATTTACG
6440198 TAGATAAATTTTA-AAA
1 TAGATAAATTTTATAAA
6440214 TAGAT-AATTTTATAAA
1 TAGATAAATTTTATAAA
6440230 TA
1 TA
6440232 ATTAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
TAGATAAATTTTATAAA
Found at i:6441527 original size:15 final size:16
Alignment explanation
Indices: 6441490--6441537 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
6441480 AGTATGGTAT
6441490 AAAAATAAGAAATTATA
1 AAAAATAA-AAATTATA
*
6441507 ACAAAATAAATATT-TA
1 A-AAAATAAAAATTATA
6441523 AAAAATAAAACATTA
1 AAAAATAAAA-ATTA
6441538 GAAATATGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 8 0.31
16 6 0.23
17 5 0.19
18 7 0.27
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAAATAAAAATTATA
Found at i:6450872 original size:26 final size:27
Alignment explanation
Indices: 6450843--6450903 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
6450833 ATCCTCTCTC
6450843 GAGCCATATAAT-AAGAAGCTCACAAA
1 GAGCCATATAATCAAGAAGCTCACAAA
** *
6450869 GAGCCAT-TAATCGGGAAGCTCACAGA
1 GAGCCATATAATCAAGAAGCTCACAAA
*
6450895 GAACCATAT
1 GAGCCATAT
6450904 CGGGAAGCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.14
26 24 0.83
27 1 0.03
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (27 bp):
GAGCCATATAATCAAGAAGCTCACAAA
Found at i:6450905 original size:24 final size:26
Alignment explanation
Indices: 6450857--6450912 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
6450847 CATATAATAA
*
6450857 GAAGCTCACAAAGAGCCATTAATCGG
1 GAAGCTCACAAAGAACCATTAATCGG
*
6450883 GAAGCTCACAGAGAACCA-T-ATCGG
1 GAAGCTCACAAAGAACCATTAATCGG
6450907 GAAGCT
1 GAAGCT
6450913 TATTCGGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 11 0.39
25 1 0.04
26 16 0.57
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (26 bp):
GAAGCTCACAAAGAACCATTAATCGG
Found at i:6450999 original size:24 final size:23
Alignment explanation
Indices: 6450971--6451033 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 23
6450961 TCACAAAGAA
*
6450971 CCATATCGGGAAGCTCATAGATAG
1 CCATATCGGGAAGCTC-CAGATAG
*
6450995 CCATATAACGGGAAGCTCCGGATAG
1 CCATAT--CGGGAAGCTCCAGATAG
6451020 CCAATATCGGGAAG
1 CC-ATATCGGGAAG
6451034 TTTAAACAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 13 0.38
25 7 0.21
26 14 0.41
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.17
Consensus pattern (23 bp):
CCATATCGGGAAGCTCCAGATAG
Found at i:6451008 original size:26 final size:24
Alignment explanation
Indices: 6450977--6451033 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
6450967 AGAACCATAT
*
6450977 CGGGAAGCTCATAGATAGCCATATAA
1 CGGGAAGCTC-CAGATAGCCA-ATAA
* *
6451003 CGGGAAGCTCCGGATAGCCAATAT
1 CGGGAAGCTCCAGATAGCCAATAA
6451027 CGGGAAG
1 CGGGAAG
6451034 TTTAAACAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 10 0.36
25 8 0.29
26 10 0.36
ACGTcount: A:0.33, C:0.21, G:0.30, T:0.16
Consensus pattern (24 bp):
CGGGAAGCTCCAGATAGCCAATAA
Found at i:6451035 original size:74 final size:73
Alignment explanation
Indices: 6450843--6451035 Score: 174
Period size: 74 Copynumber: 2.6 Consensus size: 73
6450833 ATCCTCTCTC
*** * * *
6450843 GAGCCATATAATAAGAAGCTCACAAAGAGCCATTAATCGGGAAGCTCACAGAGAACCATATCGGG
1 GAGCCATATAACGGGAAGCTCAGAAA-AGCCA-TAATCGGGAAGTTCACAAAGAACCATATCGGG
* *
6450908 AAGCTTATTC
64 AAGCTCATTA
* * * * **
6450918 GGGCTATATAACGGGAAGCTCATAAAAGCCATAATTGATAAGTTCACAAAGAACCATATCGGGAA
1 GAGCCATATAACGGGAAGCTCAGAAAAGCCATAATCGGGAAGTTCACAAAGAACCATATCGGGAA
6450983 GCTCA-TA
66 GCTCATTA
* * *
6450990 GATAGCCATATAACGGGAAGCTCCGGATAGCCA-ATATCGGGAAGTT
1 G--AGCCATATAACGGGAAGCTCAGAAAAGCCATA-ATCGGGAAGTT
6451036 TAAACAAGCA
Statistics
Matches: 93, Mismatches: 22, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
72 2 0.02
73 34 0.37
74 37 0.40
75 20 0.22
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (73 bp):
GAGCCATATAACGGGAAGCTCAGAAAAGCCATAATCGGGAAGTTCACAAAGAACCATATCGGGAA
GCTCATTA
Found at i:6454629 original size:20 final size:19
Alignment explanation
Indices: 6454606--6454664 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
6454596 AAATTACAAA
*
6454606 AAAAAATCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
6454625 CAAAAATTCAAAATATTTAT
1 -AAAAATTCAAAATATTTAT
6454645 AAAAATTCAAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
6454663 AA
1 AA
6454665 TAGTTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 8 0.22
19 16 0.43
20 13 0.35
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:6454653 original size:27 final size:27
Alignment explanation
Indices: 6454623--6454676 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
6454613 CAAAATAATT
6454623 TTCAAAAATTCAAAATA-TTTATAAAAA
1 TTCAAAAATTCAAAATAGTTT-TAAAAA
* *
6454650 TTCAAAAATTTATAATAGTTTTAAAAA
1 TTCAAAAATTCAAAATAGTTTTAAAAA
6454677 AAATTCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (27 bp):
TTCAAAAATTCAAAATAGTTTTAAAAA
Found at i:6468365 original size:11 final size:11
Alignment explanation
Indices: 6468349--6468373 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6468339 GTAAATCTCT
6468349 AAAAAAATTCA
1 AAAAAAATTCA
6468360 AAAAAAATTCA
1 AAAAAAATTCA
6468371 AAA
1 AAA
6468374 GCAAATCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:6469104 original size:24 final size:25
Alignment explanation
Indices: 6469072--6469144 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
6469062 AGAAAAATGA
*
6469072 AAAATTAAAGGTTAAAAGGTTAAAG
1 AAAATAAAAGGTTAAAAGGTTAAAG
*
6469097 AAAATAAAAGG-TGAAAGGTT-AAG
1 AAAATAAAAGGTTAAAAGGTTAAAG
* * *
6469120 AGAGATGAAAGGTTTAAAGGTTAAA
1 A-AAATAAAAGGTTAAAAGGTTAAA
6469145 CATCCACTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.10
24 16 0.40
25 18 0.45
26 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (25 bp):
AAAATAAAAGGTTAAAAGGTTAAAG
Found at i:6469359 original size:22 final size:21
Alignment explanation
Indices: 6469330--6469372 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
6469320 ATTGTTAAAA
*
6469330 TAAAAAATTAA-AATACAAATT
1 TAAAAAATGAAGAA-ACAAATT
6469351 TAAAGAAATGAAGAAACAAATT
1 TAAA-AAATGAAGAAACAAATT
6469373 AGAGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 13 0.68
23 2 0.11
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (21 bp):
TAAAAAATGAAGAAACAAATT
Found at i:6474862 original size:18 final size:19
Alignment explanation
Indices: 6474818--6474865 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
6474808 TATCATATGC
* *
6474818 AATAAAATTTTTAAATATT
1 AATAAAATTATTAAATATA
*
6474837 AAT-TAATTATTAAATA-A
1 AATAAAATTATTAAATATA
6474854 AATAAAATTATT
1 AATAAAATTATT
6474866 CTTAGATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATAAAATTATTAAATATA
Found at i:6488265 original size:181 final size:181
Alignment explanation
Indices: 6487961--6488329 Score: 738
Period size: 181 Copynumber: 2.0 Consensus size: 181
6487951 AATGTAATTA
6487961 TCTATTTTATCTCTATAAATAGAGATTTCTGTTAATAAATTAAGTGGAACCATTTCATAAGCCTT
1 TCTATTTTATCTCTATAAATAGAGATTTCTGTTAATAAATTAAGTGGAACCATTTCATAAGCCTT
6488026 CATTTACTTCAATAGAAGCAAGTGATTACAAAAGAAGGATGTGAATTCCTATAAAGAACCAACCA
66 CATTTACTTCAATAGAAGCAAGTGATTACAAAAGAAGGATGTGAATTCCTATAAAGAACCAACCA
6488091 CATGGTTATCACATAGTTCGAATACCGTCTTAAGTAATCATTGTGTCCAAC
131 CATGGTTATCACATAGTTCGAATACCGTCTTAAGTAATCATTGTGTCCAAC
6488142 TCTATTTTATCTCTATAAATAGAGATTTCTGTTAATAAATTAAGTGGAACCATTTCATAAGCCTT
1 TCTATTTTATCTCTATAAATAGAGATTTCTGTTAATAAATTAAGTGGAACCATTTCATAAGCCTT
6488207 CATTTACTTCAATAGAAGCAAGTGATTACAAAAGAAGGATGTGAATTCCTATAAAGAACCAACCA
66 CATTTACTTCAATAGAAGCAAGTGATTACAAAAGAAGGATGTGAATTCCTATAAAGAACCAACCA
6488272 CATGGTTATCACATAGTTCGAATACCGTCTTAAGTAATCATTGTGTCCAAC
131 CATGGTTATCACATAGTTCGAATACCGTCTTAAGTAATCATTGTGTCCAAC
6488323 TCTATTT
1 TCTATTT
6488330 ATGCAAAAAT
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
181 188 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (181 bp):
TCTATTTTATCTCTATAAATAGAGATTTCTGTTAATAAATTAAGTGGAACCATTTCATAAGCCTT
CATTTACTTCAATAGAAGCAAGTGATTACAAAAGAAGGATGTGAATTCCTATAAAGAACCAACCA
CATGGTTATCACATAGTTCGAATACCGTCTTAAGTAATCATTGTGTCCAAC
Found at i:6490313 original size:6 final size:6
Alignment explanation
Indices: 6490302--6490331 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
6490292 GCTTTTTTGT
6490302 TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC
1 TTCCCC TTCCCC TTCCCC TTCCCC TTCCCC
6490332 CATCCTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
TTCCCC
Found at i:6495061 original size:25 final size:25
Alignment explanation
Indices: 6495033--6495084 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
6495023 TTCACAATTT
6495033 TTTTTAATCATAAATATAATTAATG
1 TTTTTAATCATAAATATAATTAATG
*
6495058 TTTTTAATCATAAATATAATTACTG
1 TTTTTAATCATAAATATAATTAATG
6495083 TT
1 TT
6495085 ACAAACACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTTTAATCATAAATATAATTAATG
Found at i:6495525 original size:16 final size:16
Alignment explanation
Indices: 6495489--6495524 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
6495479 ATTATTTTTT
6495489 ATTTTATGATTTTGGA
1 ATTTTATGATTTTGGA
*
6495505 ATTTTATGGTTTTGG-
1 ATTTTATGATTTTGGA
6495520 ATTTT
1 ATTTT
6495525 TGTATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (16 bp):
ATTTTATGATTTTGGA
Found at i:6495958 original size:14 final size:14
Alignment explanation
Indices: 6495939--6495965 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6495929 CAAAAAAAGT
6495939 AAATTATTTTCCAG
1 AAATTATTTTCCAG
6495953 AAATTATTTTCCA
1 AAATTATTTTCCA
6495966 AAAAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:6496315 original size:31 final size:31
Alignment explanation
Indices: 6496280--6496344 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
6496270 ATATAAAATG
** *
6496280 ATTTAAACTTAATTATAATATTGAT-TATACA
1 ATTTAAACAAAATCATAA-ATTGATATATACA
*
6496311 ATTTATACAAAATCATAAATTGATATATACA
1 ATTTAAACAAAATCATAAATTGATATATACA
6496342 ATT
1 ATT
6496345 GAATTTGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.42
Consensus pattern (31 bp):
ATTTAAACAAAATCATAAATTGATATATACA
Found at i:6497177 original size:31 final size:31
Alignment explanation
Indices: 6497112--6497169 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
6497102 GTTTTAAGAT
*
6497112 AATTTTAATTATACTCTTTAAAATTTTTGAA
1 AATTCTAATTATACTCTTTAAAATTTTTGAA
* *
6497143 AATTCTAATTATAC-CTTTTAATTTTTT
1 AATTCTAATTATACTCTTTAAAATTTTT
6497170 TTAAAATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (31 bp):
AATTCTAATTATACTCTTTAAAATTTTTGAA
Found at i:6499274 original size:23 final size:23
Alignment explanation
Indices: 6499193--6499278 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 23
6499183 CTGATCAGAG
*
6499193 TACGACACATAAAGTGCCT-AAA
1 TACGACACACAAAGTGCCTGAAA
* *
6499215 -ACGACACACGAGGTGCCTG--A
1 TACGACACACAAAGTGCCTGAAA
* *
6499235 TACGACACACGAGGTGCCTGAAA
1 TACGACACACAAAGTGCCTGAAA
*
6499258 TACGACACATAAAGTGCCTGA
1 TACGACACACAAAGTGCCTGA
6499279 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
23 19 0.35
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (23 bp):
TACGACACACAAAGTGCCTGAAA
Found at i:6499674 original size:15 final size:15
Alignment explanation
Indices: 6499649--6499706 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
6499639 TCATATATAT
6499649 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
6499665 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
6499680 AATAATTTCAATCAA
1 TATAAATTCAATCAA
6499695 TATAAATTCAAT
1 TATAAATTCAAT
6499707 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:6501030 original size:8 final size:8
Alignment explanation
Indices: 6501017--6501045 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
6501007 TATCTTTATT
6501017 ATATAATA
1 ATATAATA
6501025 ATATAATA
1 ATATAATA
6501033 ATATAATA
1 ATATAATA
6501041 ATATA
1 ATATA
6501046 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:6510229 original size:142 final size:142
Alignment explanation
Indices: 6509967--6510518 Score: 870
Period size: 142 Copynumber: 3.9 Consensus size: 142
6509957 CAATTCGTTC
* * * * *
6509967 CCCTACGTAAGCATTGGTTTCAAGTTCATTTCATTTAGAACCGACCACATAGTTTGAGGACTGTC
1 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
*
6510032 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGACCTAGATTTCAATT
66 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTCAATT
6510097 CACTGATTCCTT
131 CACTGATTCCTT
* * * * *
6510109 CCCTACGTAAGCATCGGTTTCAGGTTCATTTCATTTAGAAGCGACCACATAGTTCGAGGACTGTC
1 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
* * * *
6510174 TTAAGTAACGGCTACAATAAAACCTTGTTGGCAAGTTATGTCCAAGTGTGGCCTAGATTTCAATT
66 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTCAATT
6510239 CACTGATTCCTT
131 CACTGATTCCTT
* * *
6510251 CCCTACCTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACTGACAATATAGTTCGAGGACCGTC
1 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
* * * *
6510316 TTAAGTAACAGTTACAATAAGCCCTTCTTTGCAAGTTATGTCCAAGTGTGGCCTAGATTTCAATT
66 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTCAATT
6510381 CACTGATTCCTT
131 CACTGATTCCTT
*
6510393 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAATATAGTTCGAGGACCGTC
1 CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
* * *
6510458 TTAAGTAACGGTTACAATAAGCCCTTGTTTGCAAGTAATGCCCAAATGTGGCCTAGATTTC
66 TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTC
6510519 CTCACTTAAT
Statistics
Matches: 380, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 380 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (142 bp):
CCCTACGTAAGCATCGGTTTCAAGTTCATTTCACTTAGAACCGACAACATAGTTCGAGGACCGTC
TTAAGTAACGGTTACAATAAACCCTTGTTTGCAAGTTATGTCCAAATGTGGCCTAGATTTCAATT
CACTGATTCCTT
Found at i:6511676 original size:3 final size:3
Alignment explanation
Indices: 6511668--6511701 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6511658 AAACTATGGC
6511668 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
6511702 TTGAAGGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6535171 original size:34 final size:34
Alignment explanation
Indices: 6535132--6535238 Score: 94
Period size: 34 Copynumber: 3.1 Consensus size: 34
6535122 TGTAGGCTCT
6535132 AAAACAGTTAGTGAGAGCAAAGCTCCCAACTGTA
1 AAAACAGTTAGTGAGAGCAAAGCTCCCAACTGTA
** * * * *
6535166 AAAACAATGTTCCT-AGGTGAAAAGC-CGCAACCTCT-
1 AAAAC-A-GTTAGTGA-GAGCAAAGCTCCCAA-CTGTA
*
6535201 AAAATAGTTAGTGAGAGCAAAGCTCCCAACTGTA
1 AAAACAGTTAGTGAGAGCAAAGCTCCCAACTGTA
6535235 AAAA
1 AAAA
6535239 TAAAGTTCGC
Statistics
Matches: 53, Mismatches: 13, Indels: 14
0.66 0.16 0.17
Matches are distributed among these distances:
33 14 0.26
34 15 0.28
35 10 0.19
36 14 0.26
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (34 bp):
AAAACAGTTAGTGAGAGCAAAGCTCCCAACTGTA
Found at i:6535237 original size:33 final size:33
Alignment explanation
Indices: 6535131--6535238 Score: 85
Period size: 33 Copynumber: 3.2 Consensus size: 33
6535121 TTGTAGGCTC
*
6535131 TAAAACAGTTAGTGAGAGCAAAGCTCCCAACTG
1 TAAAAAAGTTAGTGAGAGCAAAGCTCCCAACTG
** * * * *
6535164 TAAAAACAATGTTCCT-AGGTGAAAAGC-CGCAACCTC
1 T-AAAA-AA-GTTAGTGA-GAGCAAAGCTCCCAA-CTG
*
6535200 TAAAATAGTTAGTGAGAGCAAAGCTCCCAACTG
1 TAAAAAAGTTAGTGAGAGCAAAGCTCCCAACTG
6535233 TAAAAA
1 TAAAAA
6535239 TAAAGTTCGC
Statistics
Matches: 53, Mismatches: 15, Indels: 14
0.65 0.18 0.17
Matches are distributed among these distances:
33 19 0.36
34 10 0.19
35 10 0.19
36 14 0.26
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (33 bp):
TAAAAAAGTTAGTGAGAGCAAAGCTCCCAACTG
Found at i:6535248 original size:138 final size:138
Alignment explanation
Indices: 6534810--6535310 Score: 429
Period size: 138 Copynumber: 3.6 Consensus size: 138
6534800 CCACAACCTC
* * * *** * * *
6534810 GCTCTCAACTGTAAAAATAA-GTT-GTAAGCAAAGAGCCATAGCCTTTAAAACAATTAGCAAGAG
1 GCTCCCAACTGTAAAAACAAGGTTCGCAAGCAAAGAGCTGCAGCCTCTAAAACAGTTAGCGAGAG
** * * * * * * *
6534873 CAAAGCTCTTAATTGTGAAAATAAGGTTCACAGGCGAAGAA-TCGTAGCCTCTAAAACAGTTAGA
66 CAAAGCTCCCAACTGTAAAAACAAGGTTCACAAGCGAA-AAGCCGCAACCTCTAAAACAGTTAGA
6534937 GAGAGCAAA
130 GAGAGCAAA
* *
6534946 GCTCCCAACGGTAAAAACAAGGTTCGTAAGCAAAGAGCTGCAGCCTCTAAAACAGTTAGCGAGAG
1 GCTCCCAACTGTAAAAACAAGGTTCGCAAGCAAAGAGCTGCAGCCTCTAAAACAGTTAGCGAGAG
** * ** * *
6535011 CAAAGCTCCCAGGTGTGAAAACAAGGTTCACAAGCGAAAAGCCTTAGCCTCTAAAACAGTTAGCG
66 CAAAGCTCCCAACTGTAAAAACAAGGTTCACAAGCGAAAAGCCGCAACCTCTAAAACAGTTAGAG
* *
6535076 AAAGCTAA
131 AGAGCAAA
* * * * ** * * * *
6535084 GATCCTAGCTGTAAAAACAAGGTTCGCAGGTGAAGAGTTGTAGGCTCTAAAACAGTTAGTGAGAG
1 GCTCCCAACTGTAAAAACAAGGTTCGCAAGCAAAGAGCTGCAGCCTCTAAAACAGTTAGCGAGAG
* * * * *
6535149 CAAAGCTCCCAACTGTAAAAACAATGTTC-CTAGGTGAAAAGCCGCAACCTCTAAAATAGTTAGT
66 CAAAGCTCCCAACTGTAAAAACAAGGTTCAC-AAGCGAAAAGCCGCAACCTCTAAAACAGTTAGA
6535213 GAGAGCAAA
130 GAGAGCAAA
* * * * * * * * *
6535222 GCTCCCAACTGTAAAAATAAAGTTCGCATA-CGAAA-ACCCGCAGCTTCTAAAATAATTAACGAA
1 GCTCCCAACTGTAAAAACAAGGTTCGCA-AGC-AAAGAGCTGCAGCCTCTAAAACAGTTAGCGAG
* *
6535285 AGTAAAGCTCCCAATTGTAAAAACAA
64 AGCAAAGCTCCCAACTGTAAAAACAA
6535311 AGCTCACTGG
Statistics
Matches: 293, Mismatches: 66, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
136 17 0.06
137 6 0.02
138 268 0.91
139 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (138 bp):
GCTCCCAACTGTAAAAACAAGGTTCGCAAGCAAAGAGCTGCAGCCTCTAAAACAGTTAGCGAGAG
CAAAGCTCCCAACTGTAAAAACAAGGTTCACAAGCGAAAAGCCGCAACCTCTAAAACAGTTAGAG
AGAGCAAA
Found at i:6535257 original size:69 final size:69
Alignment explanation
Indices: 6534849--6535310 Score: 360
Period size: 69 Copynumber: 6.7 Consensus size: 69
6534839 AAAGAGCCAT
* * * ** * * * * **
6534849 AGCCTTTAAAACAATTAGCAAGAGCAAAGCTCTTAATTGTGAAAATAAGGTTCACAGGCGAAGAA
1 AGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCGCATACGAA-AA
* *
6534914 -TCGT
65 GCCGC
* * *
6534918 AGCCTCTAAAACAGTTAGAGAGAGCAAAGCTCCCAACGGTAAAAACAAGGTTCG--TAAGCAAAG
1 AGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCGCATACG-AAA-
*
6534981 AGCTGC
64 AGCCGC
** * *
6534987 AGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGGTGTGAAAACAAGGTTCACA-AGCGAAAA
1 AGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCGCATA-CGAAAA
**
6535051 GCCTT
65 GCCGC
* * * * * *** *
6535056 AGCCTCTAAAACAGTTAGCGAAAGCTAAGATCCTAGCTGTAAAAACAAGGTTCGCAGGTGAAGAG
1 AGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCGCATACGAAAAG
** *
6535121 TTGT
66 CCGC
* * * *
6535125 AGGCTCTAAAACAGTTAGTGAGAGCAAAGCTCCCAACTGTAAAAACAATGTTC-C-TAGGTGAAA
1 AGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCGCATA--CGAAA
6535188 AGCCGC
64 AGCCGC
* * * * * *
6535194 AACCTCTAAAATAGTTAGTGAGAGCAAAGCTCCCAACTGTAAAAATAAAGTTCGCATACGAAAAC
1 AGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCGCATACGAAAAG
6535259 CCGC
66 CCGC
* * * * * * *
6535263 AGCTTCTAAAATAATTAACGAAAGTAAAGCTCCCAATTGTAAAAACAA
1 AGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAA
6535311 AGCTCACTGG
Statistics
Matches: 312, Mismatches: 70, Indels: 22
0.77 0.17 0.05
Matches are distributed among these distances:
67 2 0.01
68 4 0.01
69 298 0.96
70 5 0.02
71 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.19
Consensus pattern (69 bp):
AGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTAAAAACAAGGTTCGCATACGAAAAG
CCGC
Found at i:6535273 original size:207 final size:207
Alignment explanation
Indices: 6534890--6535328 Score: 506
Period size: 207 Copynumber: 2.1 Consensus size: 207
6534880 CTTAATTGTG
*
6534890 AAAATAAGGTTCACAGGCGAAGAATCGTAGCCTCTAAAACAGTTAGAGAGAGCAAAGCTCCCAAC
1 AAAACAAGGTTCACAGGCGAAGAATCGTAGCCTCTAAAACAGTTAGAGAGAGCAAAGCTCCCAAC
* * *
6534955 GGTAAAAACAAGGTTCGTAAGCAAAGAGCTGCAGCCTCTAAAACAGTTAGCGAGAGCAAAGCTCC
66 GGTAAAAACAAGGTTCCTAAGCAAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCC
** * * * **
6535020 CAGGTGTGAAAACAAGGTTCACAAGCGAAAAGCCTTAGCCTCTAAAACAGTTAGCGAAAGCTAAG
131 CAACTGTAAAAACAAAGTTCACAAGCGAAAACCCGCAGCCTCTAAAACAGTTAGCGAAAGCTAAG
6535085 ATCCTAGCTGTA
196 ATCCTAGCTGTA
* * * * * *
6535097 AAAACAAGGTTCGCAGGTGAAGAGTTGTAGGCTCTAAAACAGTTAGTGAGAGCAAAGCTCCCAAC
1 AAAACAAGGTTCACAGGCGAAGAATCGTAGCCTCTAAAACAGTTAGAGAGAGCAAAGCTCCCAAC
* * * * * *
6535162 TGTAAAAACAATGTTCCTAGGTGAAA-AGCCGCAACCTCTAAAATAGTTAGTGAGAGCAAAGCTC
66 GGTAAAAACAAGGTTCCTAAG-CAAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTC
* * * * * *
6535226 CCAACTGTAAAAATAAAGTTCGCATA-CGAAAACCCGCAGCTTCTAAAATAATTAACGAAAG-TA
130 CCAACTGTAAAAACAAAGTTCACA-AGCGAAAACCCGCAGCCTCTAAAACAGTTAGCGAAAGCT-
* * **
6535289 AAGCTCCCAATTGTA
193 AAGATCCTAGCTGTA
* * *
6535304 AAAACAAAGCTCACTGGCGAAGAAT
1 AAAACAAGGTTCACAGGCGAAGAAT
6535329 TTTATAACCT
Statistics
Matches: 190, Mismatches: 39, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
206 1 0.01
207 185 0.97
208 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (207 bp):
AAAACAAGGTTCACAGGCGAAGAATCGTAGCCTCTAAAACAGTTAGAGAGAGCAAAGCTCCCAAC
GGTAAAAACAAGGTTCCTAAGCAAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCC
CAACTGTAAAAACAAAGTTCACAAGCGAAAACCCGCAGCCTCTAAAACAGTTAGCGAAAGCTAAG
ATCCTAGCTGTA
Found at i:6555716 original size:30 final size:30
Alignment explanation
Indices: 6555682--6555741 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
6555672 ACTTAACAAG
* *
6555682 CAAATATCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
6555712 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
6555742 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:6558470 original size:19 final size:21
Alignment explanation
Indices: 6558436--6558474 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
6558426 CCATTAAAAT
6558436 AAAAATAGAAATTAAAAAACC
1 AAAAATAGAAATTAAAAAACC
6558457 AAAAATA-AAA-TAAAAAAC
1 AAAAATAGAAATTAAAAAAC
6558475 ACACAAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.13
Consensus pattern (21 bp):
AAAAATAGAAATTAAAAAACC
Found at i:6561540 original size:17 final size:17
Alignment explanation
Indices: 6561520--6561566 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
6561510 TATTGAAATT
*
6561520 AAAATAAAATAATGAGG
1 AAAATAAAATAAGGAGG
*
6561537 AAAAGTAAAA-AAGGATG
1 AAAA-TAAAATAAGGAGG
6561554 AAAATCAAAATAA
1 AAAAT-AAAATAA
6561567 AAAAAGGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 17 0.68
18 7 0.28
ACGTcount: A:0.68, C:0.02, G:0.15, T:0.15
Consensus pattern (17 bp):
AAAATAAAATAAGGAGG
Found at i:6562607 original size:16 final size:16
Alignment explanation
Indices: 6562586--6562634 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
6562576 TTTTTTTATG
*
6562586 TTGGGCTAGTTGAGTA-
1 TTGGGCTAGGTG-GTAT
6562602 TTGGGCT-GGTGGTAT
1 TTGGGCTAGGTGGTAT
6562617 TTGGGCTAGG-GG-AT
1 TTGGGCTAGGTGGTAT
6562631 TTGG
1 TTGG
6562635 TTTGTTGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 9 0.30
15 12 0.40
16 9 0.30
ACGTcount: A:0.12, C:0.06, G:0.45, T:0.37
Consensus pattern (16 bp):
TTGGGCTAGGTGGTAT
Found at i:6563370 original size:87 final size:82
Alignment explanation
Indices: 6563254--6563459 Score: 211
Period size: 87 Copynumber: 2.4 Consensus size: 82
6563244 GTGAGCAAAT
* * * *
6563254 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAATAGAATTTGCCAAACAA-ATT-TTG
1 GCTCAACTCACCTCTC-TAATATGAGTTGATTTTTGAAAA-A-AA-TTG--AAAAAATATTATTA
*
6563317 AAAATACCTCGGCATGTGACCCGAG
60 AAAATAACTCGGC--GTGACCCGAG
6563342 GCTCAACTCACCTCTCTAATATGAGTTGATTTTTTTGAAAAAAATTGAAAAAATATTAATTAAAA
1 GCTCAACTCACCTCTCTAATATGAGTTGA--TTTTTGAAAAAAATTGAAAAAATATT-ATTAAAA
* *
6563407 ATAACTCGGCGTGTCTCGAG
63 ATAACTCGGCGTGACCCGAG
6563427 GCTCAACTCACCTCT-TGCAATATGAGTTGATTT
1 GCTCAACTCACCTCTCT--AATATGAGTTGATTT
6563460 GACGAACAGA
Statistics
Matches: 104, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
84 9 0.09
85 26 0.25
86 15 0.14
87 28 0.27
88 16 0.15
89 10 0.10
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (82 bp):
GCTCAACTCACCTCTCTAATATGAGTTGATTTTTGAAAAAAATTGAAAAAATATTATTAAAAATA
ACTCGGCGTGACCCGAG
Found at i:6563574 original size:73 final size:73
Alignment explanation
Indices: 6563415--6563607 Score: 259
Period size: 73 Copynumber: 2.6 Consensus size: 73
6563405 AAATAACTCG
* *
6563415 GCGTGT-CTCGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--TTTGACGAACAGAAATTGAA
1 GCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAA
*
6563477 AAGACCTTA
65 AAGACCTCA
* *
6563486 GCATGTGAGCC-GAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAGAAATTG
1 GC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTG
**
6563550 AAATTACCTCA
63 AAAAGACCTCA
6563561 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6563608 TTTGAAGAGT
Statistics
Matches: 106, Mismatches: 9, Indels: 12
0.83 0.07 0.09
Matches are distributed among these distances:
71 2 0.02
72 2 0.02
73 74 0.70
75 28 0.26
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (73 bp):
GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
AGACCTCA
Found at i:6563731 original size:240 final size:239
Alignment explanation
Indices: 6563425--6564065 Score: 954
Period size: 240 Copynumber: 2.7 Consensus size: 239
6563415 GCGTGTCTCG
* *
6563425 AGGCTCAACTCACCTCTTGCAATATGAGTTGA--TTTGACGAACAGAAATTGAAAAGACCTTAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACGAACAGAAATTGAAAAGACCTCAGC
6563488 ATGTGAGCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAGAAATTGAAA
66 ATGTGAGCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAGAAATTGAAA
6563553 TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAGAG
131 TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAGAG
* *
6563617 TAGAAATTGGAAAGCAGAAATCGAAAATACCTCAGCATGCCCTC
196 CAGAAATTGGAAAGCAGAAATCGAAAATACATCAGCATGCCCTC
6563661 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACGAACAGAAATTGAAAAGACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACGAACAGAAATTGAAAAGACCTCA
*
6563726 GCATGTGAGCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTCGACAAACAGAAATTGA
64 GCATGTGAGCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAGAAATTGA
* *
6563791 AATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAG
129 AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAG
* * * *
6563856 AGCAGACATTGGAAAGCAGAAATCGAAAATACATTAGCGTGCCCTG
194 AGCAGAAATTGGAAAGCAGAAATCGAAAATACATCAGCATGCCCTC
* * * * * *
6563902 GGGCTCAACTCACCTCTGGCAGTATGAGTTGATTTTTGACAAACA-ACGATTGAAAATACCTCA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACGAACAGA-AATTGAAAAGACCTCAG
** ** * *
6563965 C-TGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGA-AAAAAGAATTTG
65 CATGTGAGCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGA--TTTTTGACAAACAGAAATTG
* * *
6564028 AAAATACCTCAGCATGTTCTGAGGCTCAACTCACCTCT
128 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
6564066 TGCCCTATAA
Statistics
Matches: 369, Mismatches: 28, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
236 31 0.08
237 37 0.10
238 46 0.12
239 32 0.09
240 143 0.39
241 80 0.22
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (239 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACGAACAGAAATTGAAAAGACCTCAGC
ATGTGAGCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAGAAATTGAAA
TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAGAG
CAGAAATTGGAAAGCAGAAATCGAAAATACATCAGCATGCCCTC
Found at i:6563836 original size:73 final size:73
Alignment explanation
Indices: 6563631--6563846 Score: 281
Period size: 75 Copynumber: 2.9 Consensus size: 73
6563621 AATTGGAAAG
* * *
6563631 CAGAAATCGAAAATACCTCAGCATGCCCTCAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
* *
6563696 TTTTGACGAA
64 TTTCGACAAA
* * *
6563706 CAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCGATATGAGTTGA
1 CAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
6563770 TTTTCGACAAA
63 TTTTCGACAAA
* * *
6563781 CAGAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
6563846 T
66 T
6563847 TTTTTTAAGA
Statistics
Matches: 124, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
72 2 0.02
73 39 0.31
75 48 0.39
77 33 0.27
78 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (73 bp):
CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TCGACAAA
Found at i:6564001 original size:73 final size:75
Alignment explanation
Indices: 6563894--6564065 Score: 205
Period size: 73 Copynumber: 2.3 Consensus size: 75
6563884 ATACATTAGC
* * *
6563894 GTGCCCTGGGGCTCAACTCACCTCTGGCAGTATGAGTTGA-TTTTTGACAAACAACG-A-TTGAA
1 GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAA-AA-GAATTTGAA
6563956 AATACCTCA-C-T
63 AATACCTCAGCAT
* *
6563967 GTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAAAGAATTTGAAAA
1 GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAAAGAATTTGAAAA
6564032 TACCTCAGCAT
65 TACCTCAGCAT
*
6564043 GT--TCTGAGGCTCAACTCACCTCT
1 GTGCCCTGAGGCTCAACTCACCTCT
6564066 TGCCCTATAA
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
72 1 0.01
73 38 0.44
74 36 0.42
75 8 0.09
76 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (75 bp):
GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAGAATTTGAAAAT
ACCTCAGCAT
Found at i:6564081 original size:74 final size:73
Alignment explanation
Indices: 6563903--6564065 Score: 192
Period size: 74 Copynumber: 2.2 Consensus size: 73
6563893 CGTGCCCTGG
* *
6563903 GGCTCAACTCACCTCTGGCAGTATGAGTTGA-TTTTTGACAAACAACGATTGAAAATACCTCACT
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAACGATTGAAAATACCTCACT
6563967 GTGCCCCGA
66 GT-CCCCGA
*
6563976 GGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGA-AAA-AA-GAATTTGAAAATACCTC
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAAACAACG-A-TTGAAAATACCTC
* *
6564038 AGCATGT-TCTGA
63 A-C-TGTCCCCGA
6564050 GGCTCAACTCACCTCT
1 GGCTCAACTCACCTCT
6564066 TGCCCTATAA
Statistics
Matches: 79, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
72 1 0.01
73 31 0.39
74 36 0.46
75 8 0.10
76 3 0.04
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (73 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAACGATTGAAAATACCTCACT
GTCCCCGA
Found at i:6577987 original size:16 final size:16
Alignment explanation
Indices: 6577966--6578014 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
6577956 TTCTTTTATG
*
6577966 TTGGGCTAGTTGAGTA-
1 TTGGGCTAGGTG-GTAT
6577982 TTGGGCT-GGTGGTAT
1 TTGGGCTAGGTGGTAT
6577997 TTGGGCTAGG-GG-AT
1 TTGGGCTAGGTGGTAT
6578011 TTGG
1 TTGG
6578015 TTTGTTGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 9 0.30
15 12 0.40
16 9 0.30
ACGTcount: A:0.12, C:0.06, G:0.45, T:0.37
Consensus pattern (16 bp):
TTGGGCTAGGTGGTAT
Found at i:6582356 original size:53 final size:54
Alignment explanation
Indices: 6582271--6582372 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 54
6582261 CCCCTAGTTA
*
6582271 AATGCATTGAACGTGTGAAAGTATTCTAATAAATCATAATAT-TGCAATAGCTG
1 AATGCATTGAACGTGTAAAAGTATTCTAATAAATCATAATATATGCAATAGCTG
* *
6582324 AATGTATTGAACGTGTAAAAGTATTCTAATAAATGATAATATATGCAAT
1 AATGCATTGAACGTGTAAAAGTATTCTAATAAATCATAATATATGCAAT
6582373 GGACCTTGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 39 0.87
54 6 0.13
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (54 bp):
AATGCATTGAACGTGTAAAAGTATTCTAATAAATCATAATATATGCAATAGCTG
Found at i:6589741 original size:22 final size:23
Alignment explanation
Indices: 6589713--6589756 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
6589703 TTGTTTGTGT
*
6589713 GTTTTTTTTATTT-TATTTTTTG
1 GTTTTTTTAATTTCTATTTTTTG
6589735 GTTTTTTTAATTTCTATTTTTT
1 GTTTTTTTAATTTCTATTTTTT
6589757 ATTCTAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.11, C:0.02, G:0.07, T:0.80
Consensus pattern (23 bp):
GTTTTTTTAATTTCTATTTTTTG
Found at i:6591589 original size:17 final size:16
Alignment explanation
Indices: 6591538--6591590 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
6591528 TTATTATTAT
* *
6591538 TTTTATTTCTACTTTA
1 TTTTATTTATATTTTA
* *
6591554 TTTTACTTATTTATTTA
1 TTTTATTTATAT-TTTA
6591571 TTTTATTTATATTTGTA
1 TTTTATTTATATTT-TA
6591588 TTT
1 TTT
6591591 GCTTTTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTTATTTATATTTTA
Found at i:6591654 original size:3 final size:3
Alignment explanation
Indices: 6591646--6591675 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
6591636 TTTTCAATAT
6591646 TTA TTA TTA TTA TTA TTA TTA TTA TCTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
6591676 GTATTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6591764 original size:34 final size:33
Alignment explanation
Indices: 6591686--6591765 Score: 83
Period size: 34 Copynumber: 2.5 Consensus size: 33
6591676 GTATTTTATT
*
6591686 CTCCCTTAA-TTT-TATTTATATTTTAAATTCG
1 CTCCCTTAATTTTATATTTATATATTAAATTCG
** * * *
6591717 CTCTTTTATTTTTAATATTTTTATATTAAATTTG
1 CTCCCTTAATTTT-ATATTTATATATTAAATTCG
6591751 CTCCCTTAATTTTAT
1 CTCCCTTAATTTTAT
6591766 TTACATTTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
31 6 0.16
32 3 0.08
33 2 0.05
34 26 0.70
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.59
Consensus pattern (33 bp):
CTCCCTTAATTTTATATTTATATATTAAATTCG
Found at i:6591791 original size:12 final size:12
Alignment explanation
Indices: 6591758--6591803 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
6591748 TTGCTCCCTT
*
6591758 AATTTTATTTAC
1 AATTTTATTTTC
6591770 -ATTTTAATTTTC
1 AATTTT-ATTTTC
6591782 AATTTTATTTTC
1 AATTTTATTTTC
6591794 AATATTTATT
1 AAT-TTTATT
6591804 ATTATTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 5 0.17
12 14 0.47
13 11 0.37
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (12 bp):
AATTTTATTTTC
Found at i:6591807 original size:3 final size:3
Alignment explanation
Indices: 6591799--6591828 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
6591789 TTTTCAATAT
6591799 TTA TTA TTA TTA TTA TTA TTA TTA TCTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
6591829 GTGTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6591929 original size:98 final size:98
Alignment explanation
Indices: 6591748--6591936 Score: 213
Period size: 98 Copynumber: 1.9 Consensus size: 98
6591738 TATATTAAAT
* * * ** * *
6591748 TTGCTCCCTTAATTTTATTTACATTTTAATTTTCAATTTTATTTTCAATATTTATTATTATTATT
1 TTGCTCCATTAATTTTATTTACATTTTAATTTACAATTCTATTTTCAATATTTATTAAAACTACT
* *
6591813 ATTATTATTATCTATTGTGTATTTATCTAATAA
66 ATTATTAATATCTATTGTGGATTTATCTAATAA
* **
6591846 TTGCTCCATTAATTTTATTTATATTTTAATTTACTCTTCTATTTTCAATA-TT-TTACAAACTAC
1 TTGCTCCATTAATTTTATTTACATTTTAATTTACAATTCTATTTTCAATATTTATTA-AAACTAC
*
6591909 T-TTATTCAATATCTGCTTGTGGATTTAT
65 TATTATT-AATATCT-ATTGTGGATTTAT
6591937 TTATTTATTC
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
96 8 0.11
97 12 0.16
98 55 0.73
ACGTcount: A:0.28, C:0.12, G:0.04, T:0.57
Consensus pattern (98 bp):
TTGCTCCATTAATTTTATTTACATTTTAATTTACAATTCTATTTTCAATATTTATTAAAACTACT
ATTATTAATATCTATTGTGGATTTATCTAATAA
Found at i:6594027 original size:47 final size:46
Alignment explanation
Indices: 6593939--6594053 Score: 106
Period size: 47 Copynumber: 2.4 Consensus size: 46
6593929 TTAGTAAGGC
* ** *
6593939 AAGGATTCCGTGTAAGACCATGTCAAGACATGGCATCGGCATT-GATT
1 AAGGA-TCCATGTAAGACCACATCAAGACATGACATCGGCATTAGA-T
* ** *
6593986 CAGGACTCCATGTAAGACCACATCAAGATGTGACATTGGCATTAAGAT
1 AAGGA-TCCATGTAAGACCACATCAAGACATGACATCGGCATT-AGAT
6594034 AAGGATACCATGTAAGACCA
1 AAGGAT-CCATGTAAGACCA
6594054 TGTTTGGAAC
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
47 35 0.64
48 18 0.33
49 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (46 bp):
AAGGATCCATGTAAGACCACATCAAGACATGACATCGGCATTAGAT
Found at i:6594210 original size:55 final size:54
Alignment explanation
Indices: 6594081--6594277 Score: 238
Period size: 55 Copynumber: 3.6 Consensus size: 54
6594071 TTGGTAACAT
* *
6594081 AAGGATATCATGTAAGACCATGCCAATG-CATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCATTGATGAGTTCTATAAGGC
* * * * *
6594135 AAGGAAATCATGTAAGACCATGTCAAGACATGGTATTGATGAGTTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
6594190 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
6594243 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
6594278 ATGGTAAGTT
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
52 4 0.03
53 33 0.27
54 40 0.33
55 41 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:6601675 original size:21 final size:21
Alignment explanation
Indices: 6601650--6601691 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6601640 GCTTTCAAGC
6601650 AATCTCTGATGATTTTTACTT
1 AATCTCTGATGATTTTTACTT
6601671 AATCTCTGATGATTTTTACTT
1 AATCTCTGATGATTTTTACTT
6601692 TCTCTTCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (21 bp):
AATCTCTGATGATTTTTACTT
Found at i:6607350 original size:28 final size:27
Alignment explanation
Indices: 6607319--6607377 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 27
6607309 AATCGAAAGG
*
6607319 TAAGAATATTGACACTCAAGAGAGAAA
1 TAAGAATATTGACACTCAAAAGAGAAA
6607346 CTAAGAATATTGACACTCAAAAGAGAAA
1 -TAAGAATATTGACACTCAAAAGAGAAA
6607374 TAAG
1 TAAG
6607378 TTTTTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.53, C:0.12, G:0.17, T:0.19
Consensus pattern (27 bp):
TAAGAATATTGACACTCAAAAGAGAAA
Found at i:6608795 original size:47 final size:46
Alignment explanation
Indices: 6608722--6608836 Score: 115
Period size: 47 Copynumber: 2.4 Consensus size: 46
6608712 TTAGTAAGGC
* ** *
6608722 AAGGATTCCGTGTAAGACCATGTCAAGACATGGCATCGGCATT-GATT
1 AAGGA-TCCATGTAAGACCACATCAAGACATGACATCGGCATTAGA-T
** *
6608769 AAGGACTCCATGTAAGACCACATCAAGATGTGACATTGGCATTAAGAT
1 AAGGA-TCCATGTAAGACCACATCAAGACATGACATCGGCATT-AGAT
6608817 AAGGATACCATGTAAGACCA
1 AAGGAT-CCATGTAAGACCA
6608837 TGTTTGGAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
47 36 0.63
48 19 0.33
49 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (46 bp):
AAGGATCCATGTAAGACCACATCAAGACATGACATCGGCATTAGAT
Found at i:6608993 original size:55 final size:54
Alignment explanation
Indices: 6608864--6609071 Score: 224
Period size: 53 Copynumber: 3.9 Consensus size: 54
6608854 TTGGTAACAT
*
6608864 AAGGATATCATGTAAGACCATGCCAATG-CATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGCATTGATAAGTTCTATAAGGC
* * * * * *
6608918 AAGGAAATCATGTAAGACCATGTCAAGACATGGTATTAATAAGTTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * *
6608973 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
6609026 AAGGATACCACGTAAGACCGTGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
6609072 AAAAAGGAAA
Statistics
Matches: 128, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
52 4 0.03
53 41 0.32
54 40 0.31
55 39 0.30
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:6610819 original size:20 final size:22
Alignment explanation
Indices: 6610801--6610873 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 22
6610791 TATACATAAC
*
6610801 ATATATAA-AAAAATAATAAGTA
1 ATATAGAATAAAAATAATAAG-A
6610823 ATATAGAATAAAAATAATAA-A
1 ATATAGAATAAAAATAATAAGA
* **
6610844 CGTTATAGAATAAAACATAATTTGA
1 --ATATAGAATAAAA-ATAATAAGA
6610869 ATATA
1 ATATA
6610874 TAAGAAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 1 0.02
22 7 0.17
23 27 0.66
24 5 0.12
25 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (22 bp):
ATATAGAATAAAAATAATAAGA
Found at i:6610839 original size:23 final size:24
Alignment explanation
Indices: 6610801--6610864 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
6610791 TATACATAAC
*
6610801 ATATATAA-AAAAATAAT-AA-GT
1 ATATAGAATAAAAATAATAAACGT
6610822 AATATAGAATAAAAATAATAAACGT
1 -ATATAGAATAAAAATAATAAACGT
6610847 -TATAGAATAAAACATAAT
1 ATATAGAATAAAA-ATAAT
6610865 TTGAATATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 7 0.19
23 21 0.57
24 7 0.19
25 2 0.05
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (24 bp):
ATATAGAATAAAAATAATAAACGT
Found at i:6611018 original size:31 final size:33
Alignment explanation
Indices: 6610981--6611068 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 33
6610971 TAAAATATAT
6610981 TAATAATGTAT-AAAAATAATGATA-AT-AATAA
1 TAATAATGTATGAAAAATAAT-ATACATAAATAA
* *
6611012 TAATAATTTGTGAAAAATAATATACGATAAATAA
1 TAATAATGTATGAAAAATAATATAC-ATAAATAA
6611046 TAATAATGTATGATAAAAATAAT
1 TAATAATGTATG--AAAAATAAT
6611069 CTTATAGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
31 12 0.26
32 9 0.19
33 2 0.04
34 15 0.32
36 9 0.19
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (33 bp):
TAATAATGTATGAAAAATAATATACATAAATAA
Found at i:6611050 original size:20 final size:19
Alignment explanation
Indices: 6611027--6611068 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
6611017 ATTTGTGAAA
6611027 AATAATATACGATAAATAAT
1 AATAATATACGATAAA-AAT
* *
6611047 AATAATGTATGATAAAAAT
1 AATAATATACGATAAAAAT
6611066 AAT
1 AAT
6611069 CTTATAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (19 bp):
AATAATATACGATAAAAAT
Found at i:6613418 original size:30 final size:29
Alignment explanation
Indices: 6613383--6613471 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 29
6613373 CACGGCCATG
*
6613383 ACACACGGGCGTGTGATCTACCCGTGTGTC
1 ACACACGGGCGTGTGATC-ACCCGTGTGGC
* *
6613413 ACACACGGGCATGTGGATCACCCATGTGGC
1 ACACACGGGCGTGT-GATCACCCGTGTGGC
*
6613443 ACACGCGGGCGTGTTGATCACCCGTGTGG
1 ACACACGGGCGTG-TGATCACCCGTGTGG
6613472 AAGTACCTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
30 46 0.90
31 5 0.10
ACGTcount: A:0.18, C:0.29, G:0.33, T:0.20
Consensus pattern (29 bp):
ACACACGGGCGTGTGATCACCCGTGTGGC
Found at i:6617562 original size:21 final size:21
Alignment explanation
Indices: 6617536--6617578 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6617526 TTATTTTGTT
6617536 CCTCCCTCCCTCTCCCCCTCC
1 CCTCCCTCCCTCTCCCCCTCC
*
6617557 CCTCCCTCCCTCTCCCTCTCC
1 CCTCCCTCCCTCTCCCCCTCC
6617578 C
1 C
6617579 TCTTCTCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (21 bp):
CCTCCCTCCCTCTCCCCCTCC
Found at i:6617589 original size:2 final size:2
Alignment explanation
Indices: 6617566--6617661 Score: 167
Period size: 2 Copynumber: 48.5 Consensus size: 2
6617556 CCCTCCCTCC
* *
6617566 CT CT CC CT CT CC CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6617607 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6617649 CT CT CT CT CT CT C
1 CT CT CT CT CT CT C
6617662 ACTCACTCAC
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
1 1 0.01
2 88 0.99
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:6618427 original size:17 final size:17
Alignment explanation
Indices: 6618407--6618452 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
6618397 ATTTTTTTCA
6618407 AAAAAAAAATATTTTAT
1 AAAAAAAAATATTTTAT
* *
6618424 AAAACAAATTATTTTAT
1 AAAAAAAAATATTTTAT
6618441 ATAAAAATAAAT
1 A-AAAAA-AAAT
6618453 GAATTTCTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 16 0.70
18 4 0.17
19 3 0.13
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAAAAAATATTTTAT
Found at i:6620993 original size:27 final size:27
Alignment explanation
Indices: 6620955--6621011 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
6620945 GCAGCTAGAG
6620955 TCAGATTCAATAATGATCAACCCCTTA
1 TCAGATTCAATAATGATCAACCCCTTA
6620982 TCAGATTCAATAATGATCAACCCCTTA
1 TCAGATTCAATAATGATCAACCCCTTA
6621009 TCA
1 TCA
6621012 CATCTTCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (27 bp):
TCAGATTCAATAATGATCAACCCCTTA
Done.