Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 18 of 311
Found at i:5053210 original size:15 final size:15
Alignment explanation
Indices: 5053190--5053243 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
5053180 TTCTTAGTTT
5053190 TTTTTTTGGGTTAGG
1 TTTTTTTGGGTTAGG
*** **
5053205 TTTTTTTCTCTT-TT
1 TTTTTTTGGGTTAGG
5053219 TTTTTTTGGGTTAGG
1 TTTTTTTGGGTTAGG
5053234 TTTTTTTGGG
1 TTTTTTTGGG
5053244 GGGGGCTTAA
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
14 9 0.32
15 19 0.68
ACGTcount: A:0.04, C:0.04, G:0.24, T:0.69
Consensus pattern (15 bp):
TTTTTTTGGGTTAGG
Found at i:5055941 original size:15 final size:15
Alignment explanation
Indices: 5055903--5055948 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
5055893 AAAAAACTGT
* *
5055903 AAAATTAAATATTGA
1 AAAATTAAGTATTAA
*
5055918 AAAATTAAGTGTTAA
1 AAAATTAAGTATTAA
*
5055933 AAAATTAAGTAGTAA
1 AAAATTAAGTATTAA
5055948 A
1 A
5055949 TTTAAGTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (15 bp):
AAAATTAAGTATTAA
Found at i:5057754 original size:12 final size:12
Alignment explanation
Indices: 5057736--5057778 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
5057726 CTGAGAGTGG
5057736 TAAAGTAAATAA
1 TAAAGTAAATAA
*
5057748 AAAAGTAAATAA
1 TAAAGTAAATAA
*
5057760 TAAA-TAAAGAA
1 TAAAGTAAATAA
5057771 TAAAGTAA
1 TAAAGTAA
5057779 TATATATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 10 0.37
12 17 0.63
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (12 bp):
TAAAGTAAATAA
Found at i:5057765 original size:19 final size:19
Alignment explanation
Indices: 5057741--5057780 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
5057731 AGTGGTAAAG
5057741 TAAATAAAAAAGTAAA-TAA
1 TAAATAAAAAA-TAAAGTAA
*
5057760 TAAATAAAGAATAAAGTAA
1 TAAATAAAAAATAAAGTAA
5057779 TA
1 TA
5057781 TATATATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
TAAATAAAAAATAAAGTAA
Found at i:5057767 original size:23 final size:25
Alignment explanation
Indices: 5057736--5057792 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
5057726 CTGAGAGTGG
*
5057736 TAAAGTAAATAAAAAAGTAA-ATA-A
1 TAAA-TAAAGAAAAAAGTAATATATA
*
5057760 TAAATAAAGAATAAAGTAATATATA
1 TAAATAAAGAAAAAAGTAATATATA
5057785 TATAATAA
1 TA-AATAA
5057793 TAATCAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 13 0.46
24 7 0.25
25 3 0.11
26 5 0.18
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (25 bp):
TAAATAAAGAAAAAAGTAATATATA
Found at i:5068088 original size:30 final size:32
Alignment explanation
Indices: 5068054--5068135 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 32
5068044 CTAAACACAA
5068054 AATTATTT-TTAAAAA-ACTAAACCCTAATTT
1 AATTATTTCTTAAAAACACTAAACCCTAATTT
* *
5068084 AATTAATTTTCTTAAAAACTCTAAACCTTAATTT
1 AATT-A-TTTCTTAAAAACACTAAACCCTAATTT
* *
5068118 AATTTATTTATTTAAAAC
1 AA-TTATTTCTTAAAAAC
5068136 CCCTAAAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
30 4 0.09
31 1 0.02
32 3 0.07
33 17 0.40
34 16 0.37
35 2 0.05
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (32 bp):
AATTATTTCTTAAAAACACTAAACCCTAATTT
Found at i:5068110 original size:34 final size:33
Alignment explanation
Indices: 5068059--5068169 Score: 116
Period size: 34 Copynumber: 3.3 Consensus size: 33
5068049 CACAAAATTA
5068059 TTTTTAAAAA-ACTAAACCCTAATTTAATTAAT
1 TTTTTAAAAACACTAAACCCTAATTTAATTAAT
* * *
5068091 TTTCTTAAAAACTCTAAACCTTAATTTAATTTAT
1 TTT-TTAAAAACACTAAACCCTAATTTAATTAAT
* * ** *
5068125 TTATTTAAAACCCCTAAAAACTAATTAAATTAATT
1 TT-TTTAAAAACACTAAACCCTAATTTAATTAA-T
5068160 TTTTTAAAAA
1 TTTTTAAAAA
5068170 AAAATCTAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
32 3 0.05
33 7 0.11
34 50 0.78
35 4 0.06
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (33 bp):
TTTTTAAAAACACTAAACCCTAATTTAATTAAT
Found at i:5068800 original size:18 final size:18
Alignment explanation
Indices: 5068777--5068824 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
5068767 TATTTATTTG
*
5068777 ATTAAAATTTTACTTTTA
1 ATTAAAATTATACTTTTA
*
5068795 ATTAAAGA-TATAGTTTTA
1 ATTAAA-ATTATACTTTTA
5068813 ATTATAAATTAT
1 ATTA-AAATTAT
5068825 TAAAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (18 bp):
ATTAAAATTATACTTTTA
Found at i:5072394 original size:13 final size:14
Alignment explanation
Indices: 5072368--5072397 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5072358 GTATGCTGAA
5072368 ATATTTTTATAAAT
1 ATATTTTTATAAAT
5072382 ATATTTTTA-AAAT
1 ATATTTTTATAAAT
5072395 ATA
1 ATA
5072398 AGATATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATTTTTATAAAT
Found at i:5078595 original size:68 final size:67
Alignment explanation
Indices: 5078522--5078719 Score: 223
Period size: 68 Copynumber: 3.0 Consensus size: 67
5078512 GTTTTAATAA
* *
5078522 ATTTAATATTAAATTTAATTTAATACTTATATTGATAGTATTTTATTAATTTAATATTAAAATAA
1 ATTTAATATTAAATTTAATTTAATATTTATCTTGATAGTATTTTATTAATTTAATATTAAAATAA
5078587 TT
66 TT
** *
5078589 ATTTTAATATTAAATTTAATTTAATATTTATCTT-ATAGATAAATTATCT-A-TTACT-TT--AA
1 A-TTTAATATTAAATTTAATTTAATATTTATCTTGATAG-TATTTTAT-TAATTTAATATTAAAA
5078648 TAA--
63 TAATT
* * * *
5078651 ATTTAATACTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAATG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTGAT-AGTATTTTATTAATTTAATATTAAAATA
5078716 ATT
65 ATT
5078719 A
1 A
5078720 ATTTCAATCA
Statistics
Matches: 107, Mismatches: 12, Indels: 23
0.75 0.08 0.16
Matches are distributed among these distances:
61 31 0.29
62 9 0.08
63 6 0.06
64 7 0.07
66 6 0.06
67 9 0.08
68 38 0.36
69 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (67 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTGATAGTATTTTATTAATTTAATATTAAAATAA
TT
Found at i:5103448 original size:24 final size:24
Alignment explanation
Indices: 5103407--5103456 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
5103397 CTAAAGAAGG
* * *
5103407 AAATAATAAAGATTTTATGCTAAT
1 AAATAACAAAGATATTATACTAAT
*
5103431 AAATAACAAATATATTATACTAAT
1 AAATAACAAAGATATTATACTAAT
5103455 AA
1 AA
5103457 TTTCTAAATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATAACAAAGATATTATACTAAT
Found at i:5103710 original size:18 final size:18
Alignment explanation
Indices: 5103655--5103717 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
5103645 ACCAAGAGGA
*
5103655 TTTGCCAATATTGGTGTG
1 TTTGCCAATATTGGTGAG
* *
5103673 TTCGCC-AT-TCTGGGGAAG
1 TTTGCCAATAT-TGGTG-AG
5103691 TTTGCCAATATTGGTGAG
1 TTTGCCAATATTGGTGAG
*
5103709 TTTGTCAAT
1 TTTGCCAAT
5103718 CATAGAGAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
16 1 0.03
17 6 0.17
18 21 0.60
19 6 0.17
20 1 0.03
ACGTcount: A:0.19, C:0.14, G:0.27, T:0.40
Consensus pattern (18 bp):
TTTGCCAATATTGGTGAG
Found at i:5105244 original size:16 final size:15
Alignment explanation
Indices: 5105214--5105269 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
5105204 AACATAATAT
*
5105214 ATTATTAATTAATAAA
1 ATTATAAATT-ATAAA
5105230 ATTATAAATCTATAAA
1 ATTATAAAT-TATAAA
5105246 ATTGGATAAATTA-AAA
1 ATT--ATAAATTATAAA
*
5105262 ATAATAAA
1 ATTATAAA
5105270 AATCCAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 5 0.14
16 21 0.60
17 3 0.09
18 6 0.17
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (15 bp):
ATTATAAATTATAAA
Found at i:5119910 original size:8 final size:7
Alignment explanation
Indices: 5119876--5119909 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
5119866 TAAGCCTTCT
5119876 TTTTTTC
1 TTTTTTC
5119883 TTTTTTC
1 TTTTTTC
5119890 TTTTTTC
1 TTTTTTC
5119897 TTTTTTC
1 TTTTTTC
5119904 TTTTTT
1 TTTTTT
5119910 TTTGTCTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:5125990 original size:21 final size:21
Alignment explanation
Indices: 5125964--5126004 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5125954 AGACGAGCAA
* *
5125964 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5125985 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
5126005 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:5134531 original size:18 final size:17
Alignment explanation
Indices: 5134508--5134543 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
5134498 TCATTTAAAA
5134508 ATTAAAAAGATATAAATT
1 ATTAAAAAGATA-AAATT
*
5134526 ATTAAAATGATAAAATT
1 ATTAAAAAGATAAAATT
5134543 A
1 A
5134544 AATTTTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
ATTAAAAAGATAAAATT
Found at i:5137044 original size:15 final size:15
Alignment explanation
Indices: 5137024--5137060 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
5137014 TTTTATATAT
5137024 TAAAATAATTAAAGA
1 TAAAATAATTAAAGA
5137039 TAAAATAATTAAAGA
1 TAAAATAATTAAAGA
5137054 TAAAATA
1 TAAAATA
5137061 TGTTATCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (15 bp):
TAAAATAATTAAAGA
Found at i:5137160 original size:21 final size:21
Alignment explanation
Indices: 5137134--5137184 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
5137124 AAAACAAAAA
5137134 CAAATTAAAAGAAAGGGCATG
1 CAAATTAAAAGAAAGGGCATG
5137155 CAAATTAAAAGAAAGGGCATG
1 CAAATTAAAAGAAAGGGCATG
5137176 CAAATTAAA
1 CAAATTAAA
5137185 GTAAAAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.55, C:0.10, G:0.20, T:0.16
Consensus pattern (21 bp):
CAAATTAAAAGAAAGGGCATG
Found at i:5137212 original size:14 final size:15
Alignment explanation
Indices: 5137188--5137216 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5137178 AATTAAAGTA
5137188 AAAAAGAAAAGAAAG
1 AAAAAGAAAAGAAAG
5137203 AAAAAG-AAAGAAAG
1 AAAAAGAAAAGAAAG
5137217 GGAGAAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAGAAAG
Found at i:5149308 original size:23 final size:23
Alignment explanation
Indices: 5149265--5149308 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
5149255 TTAATCTAAA
* *
5149265 TAAATATTTAAATAATGTTAAGG
1 TAAATATTAAAAAAATGTTAAGG
5149288 TAAATATATAAAAAAAT-TTAA
1 TAAATAT-TAAAAAAATGTTAA
5149309 TAAATAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
TAAATATTAAAAAAATGTTAAGG
Found at i:5154347 original size:13 final size:13
Alignment explanation
Indices: 5154331--5154355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5154321 AAATAATAAA
5154331 AAAATTTAAATTC
1 AAAATTTAAATTC
5154344 AAAATTTAAATT
1 AAAATTTAAATT
5154356 ATTTTTTGGT
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTTAAATTC
Found at i:5154452 original size:11 final size:11
Alignment explanation
Indices: 5154414--5154452 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
5154404 AAATAAAATT
5154414 TTTAAATATAAA
1 TTTAAA-ATAAA
*
5154426 TTTAAAATACAT
1 TTTAAAATA-AA
5154438 TTTAAAATAAA
1 TTTAAAATAAA
5154449 TTTA
1 TTTA
5154453 TTGGTATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (11 bp):
TTTAAAATAAA
Found at i:5155863 original size:2 final size:2
Alignment explanation
Indices: 5155856--5155881 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5155846 AGATCTGATA
5155856 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
5155882 GATGAGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5162104 original size:16 final size:16
Alignment explanation
Indices: 5162083--5162113 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5162073 CTGTTTGAAC
5162083 ATGAAAAAATAATTAA
1 ATGAAAAAATAATTAA
*
5162099 ATGAAAATATAATTA
1 ATGAAAAAATAATTA
5162114 CTAAGGTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (16 bp):
ATGAAAAAATAATTAA
Found at i:5162764 original size:31 final size:31
Alignment explanation
Indices: 5162729--5162793 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
5162719 AATGAATGTT
5162729 ATTTTGTATGCACAGCATGTGTTAATGTGAA
1 ATTTTGTATGCACAGCATGTGTTAATGTGAA
5162760 ATTTTGTATGCACAGCATGTGTTAATGTGAA
1 ATTTTGTATGCACAGCATGTGTTAATGTGAA
5162791 ATT
1 ATT
5162794 AACGATTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (31 bp):
ATTTTGTATGCACAGCATGTGTTAATGTGAA
Found at i:5168429 original size:27 final size:27
Alignment explanation
Indices: 5168398--5168575 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
5168388 TAAATTGTAC
5168398 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
5168425 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5168451 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
5168479 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
5168507 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5168534 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
5168561 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5168576 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:5168512 original size:82 final size:81
Alignment explanation
Indices: 5168399--5168554 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
5168389 AAATTGTACA
* *
5168399 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
5168463 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
5168480 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
5168545 TGCGAGTTGA
65 TGCGAATTGA
5168555 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:5168566 original size:82 final size:81
Alignment explanation
Indices: 5168395--5168575 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
5168385 GATTAAATTG
* *
5168395 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
5168460 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
5168476 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
5168540 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
5168558 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
5168576 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:5176425 original size:27 final size:27
Alignment explanation
Indices: 5176394--5176571 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
5176384 TAAATTGTAC
5176394 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
5176421 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5176447 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
5176475 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
5176503 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5176530 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
5176557 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5176572 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:5176508 original size:82 final size:81
Alignment explanation
Indices: 5176395--5176550 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
5176385 AAATTGTACA
* *
5176395 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
5176459 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
5176476 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
5176541 TGCGAGTTGA
65 TGCGAATTGA
5176551 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:5176562 original size:82 final size:81
Alignment explanation
Indices: 5176391--5176571 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
5176381 GATTAAATTG
* *
5176391 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
5176456 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
5176472 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
5176536 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
5176554 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
5176572 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:5179162 original size:3 final size:3
Alignment explanation
Indices: 5179154--5179378 Score: 97
Period size: 3 Copynumber: 73.3 Consensus size: 3
5179144 CTATTTTACC
* * *
5179154 ATT ATT ATT ATT -TGT ATC CTT ATT AAT A-T ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * *
5179198 -TCCT CCT ATT ATT ATT AACCT ATT ATT ATT CTT ATT AGT A-T ATT ATT
1 AT--T ATT ATT ATT ATT -A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
5179245 ATT -TCCT ATT CTT -TAT ATT ATT ATT ATT ATT CATGT ATAT ATT ATT
1 ATT AT--T ATT ATT AT-T ATT ATT ATT ATT ATT -AT-T AT-T ATT ATT
* * * * * * * *
5179291 ATT GTT ATT ATT GTT ATT ATT AAT ATT CTT ATC GTT ACT ATT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
5179339 ATT CCTT -TT ATT AGTT ATT ATC AAT A-T ATT ATT ATT ATT A
1 ATT -ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT A
5179379 CCACCTTATT
Statistics
Matches: 167, Mismatches: 35, Indels: 40
0.69 0.14 0.17
Matches are distributed among these distances:
2 12 0.07
3 134 0.80
4 18 0.11
5 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:5179463 original size:23 final size:24
Alignment explanation
Indices: 5179428--5179474 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
5179418 ACCATTATAT
*
5179428 TTTTTTATTTTATTATTATTACTAA
1 TTTTTTA-TTTATCATTATTACTAA
5179453 TTTTTTA-TTATCATTATTACTA
1 TTTTTTATTTATCATTATTACTA
5179475 TAGTATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.67
25 7 0.33
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTTATTTATCATTATTACTAA
Found at i:5179493 original size:20 final size:20
Alignment explanation
Indices: 5179438--5179496 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
5179428 TTTTTTATTT
* * **
5179438 TATTATTATTACTAATTTTT
1 TATTATTATTACTACTATAG
* *
5179458 TATTATCATTATTACTATAG
1 TATTATTATTACTACTATAG
5179478 TATTATTATTACTACTATA
1 TATTATTATTACTACTATA
5179497 TTTTCATCTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTATTATTACTACTATAG
Found at i:5179750 original size:14 final size:14
Alignment explanation
Indices: 5179704--5179755 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
5179694 TAATTTCAAA
5179704 TATTT-TTTTAGCT
1 TATTTATTTTAGCT
*
5179717 TATTTATTATT-TCT
1 TATTTATT-TTAGCT
*
5179731 TTTTTATTTTAGCT
1 TATTTATTTTAGCT
5179745 TATTTATTTTA
1 TATTTATTTTA
5179756 CCCATTTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 7 0.22
14 23 0.72
15 2 0.06
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (14 bp):
TATTTATTTTAGCT
Found at i:5189296 original size:27 final size:26
Alignment explanation
Indices: 5189257--5189307 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 26
5189247 TTTTTTTTTT
*
5189257 ACTTTTTTGAATTTAAACTTTTAAAATA
1 ACTTTATTGAATTT-AA-TTTTAAAATA
5189285 ACTTTATT-AATTTAATTTTAAAA
1 ACTTTATTGAATTTAATTTTAAAA
5189308 ATTAATGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 2 0.09
27 5 0.23
28 7 0.32
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (26 bp):
ACTTTATTGAATTTAATTTTAAAATA
Found at i:5189462 original size:13 final size:12
Alignment explanation
Indices: 5189440--5189486 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
5189430 ATATTGATTA
5189440 AAATATTTAAAT
1 AAATATTTAAAT
5189452 AAATATATTAAAT
1 AAATAT-TTAAAT
5189465 -AAT-TTTAAAAT
1 AAATATTT-AAAT
5189476 ATAATATTTAA
1 A-AATATTTAA
5189487 TTATGAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
10 2 0.07
11 5 0.17
12 9 0.30
13 11 0.37
14 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AAATATTTAAAT
Found at i:5190261 original size:28 final size:30
Alignment explanation
Indices: 5190190--5190263 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 30
5190180 TAGAAATAGA
* *
5190190 AAAATCATATATATATTAAAAATAAATAATT
1 AAAATTATATTTATATT-AAAATAAATAATT
* *
5190221 TAAAGTA-ATTTTATATT-AAAT-AATAATT
1 AAAATTATA-TTTATATTAAAATAAATAATT
5190249 AAAATTATATTTATA
1 AAAATTATATTTATA
5190264 ATAATAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
28 18 0.51
29 5 0.14
30 1 0.03
31 11 0.31
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (30 bp):
AAAATTATATTTATATTAAAATAAATAATT
Found at i:5190266 original size:21 final size:21
Alignment explanation
Indices: 5190230--5190288 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
5190220 TTAAAGTAAT
*
5190230 TTTATATTAAATAATAATTAAAA
1 TTTATATT-TATAATAA-TAAAA
5190253 -TTATATTTATAATAATAAAA
1 TTTATATTTATAATAATAAAA
5190273 TTTATATATT-TAATAA
1 TTTATAT-TTATAATAA
5190289 ATTATTGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.15
21 19 0.58
22 9 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTATATTTATAATAATAAAA
Found at i:5190288 original size:24 final size:24
Alignment explanation
Indices: 5190227--5190288 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 24
5190217 AATTTAAAGT
*
5190227 AATTTTATATTAAATAATAATTAA
1 AATTTTATATTTAATAATAATTAA
5190251 AA--TTATATTT-ATAATAA-TAA
1 AATTTTATATTTAATAATAATTAA
5190271 AATTTATATATTTAATAA
1 AATTT-TATATTTAATAA
5190289 ATTATTGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 5 0.15
21 7 0.21
22 8 0.24
23 7 0.21
24 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AATTTTATATTTAATAATAATTAA
Found at i:5190904 original size:19 final size:19
Alignment explanation
Indices: 5190862--5190900 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5190852 ATAAGCTAAG
*
5190862 TTAATTAAAATTTAATTAA
1 TTAATTAAGATTTAATTAA
5190881 TTAATTAAGATTT-ATTAA
1 TTAATTAAGATTTAATTAA
5190899 TT
1 TT
5190901 TAATCTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTAATTAAGATTTAATTAA
Found at i:5192386 original size:15 final size:16
Alignment explanation
Indices: 5192366--5192395 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5192356 AATCATTTAA
5192366 AAATTG-TTGCATATT
1 AAATTGTTTGCATATT
5192381 AAATTGTTTGCATAT
1 AAATTGTTTGCATAT
5192396 GGTAAGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (16 bp):
AAATTGTTTGCATATT
Found at i:5192838 original size:19 final size:18
Alignment explanation
Indices: 5192807--5192860 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
5192797 ACAAGGATGA
5192807 GAAATGGATATGAAATGG
1 GAAATGGATATGAAATGG
*
5192825 GAAATGGAATATGAAATGAT
1 GAAATGG-ATATGAAATG-G
5192845 GAAATGAGATAT-AAAT
1 GAAATG-GATATGAAAT
5192861 ATTGAAATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 7 0.22
19 14 0.44
20 10 0.31
21 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (18 bp):
GAAATGGATATGAAATGG
Found at i:5204439 original size:11 final size:11
Alignment explanation
Indices: 5204423--5204477 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 11
5204413 TTCAAAAAAT
5204423 AAATAAAA-GA
1 AAATAAAATGA
5204433 AAGATAAAATGA
1 AA-ATAAAATGA
*
5204445 AAATAAAGATAA
1 AAATAAA-ATGA
*
5204457 AAATAAAAATAA
1 AAAT-AAAATGA
5204469 AAATAAAAT
1 AAATAAAAT
5204478 AGATGGACTC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
10 2 0.05
11 16 0.40
12 19 0.47
13 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.16
Consensus pattern (11 bp):
AAATAAAATGA
Found at i:5204452 original size:17 final size:16
Alignment explanation
Indices: 5204423--5204478 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 16
5204413 TTCAAAAAAT
*
5204423 AAATAAAAGAAAGATA
1 AAATAAAATAAAGATA
5204439 AAATGAAAATAAAGATAA
1 AAAT-AAAATAAAGAT-A
*
5204457 AAATAAAAATAAAAATA
1 AAAT-AAAATAAAGATA
5204474 AAATA
1 AAATA
5204479 GATGGACTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.14
17 15 0.43
18 15 0.43
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGATA
Found at i:5204456 original size:6 final size:6
Alignment explanation
Indices: 5204438--5204476 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
5204428 AAAGAAAGAT
* *
5204438 AAAATG AAAATA AAGATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
5204477 TAGATGGACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:5204459 original size:12 final size:11
Alignment explanation
Indices: 5204423--5204478 Score: 67
Period size: 11 Copynumber: 4.9 Consensus size: 11
5204413 TTCAAAAAAT
*
5204423 AAATAAAAGAA
1 AAATAAAATAA
* *
5204434 AGATAAAATGA
1 AAATAAAATAA
5204445 AAATAAAGATAA
1 AAATAAA-ATAA
5204457 AAATAAAAATAA
1 AAAT-AAAATAA
5204469 AAATAAAATA
1 AAATAAAATA
5204479 GATGGACTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
11 20 0.53
12 15 0.39
13 3 0.08
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:5216479 original size:14 final size:14
Alignment explanation
Indices: 5216460--5216500 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
5216450 CATAACTTAT
5216460 ATTATATACATATA
1 ATTATATACATATA
* *
5216474 ATTATATACATTTT
1 ATTATATACATATA
5216488 ATTATA-ACATATA
1 ATTATATACATATA
5216501 TATATATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:5216499 original size:19 final size:19
Alignment explanation
Indices: 5216477--5216518 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
5216467 ACATATAATT
*
5216477 ATATACAT-TTTATTATAAC
1 ATATACATATATATTAT-AC
*
5216496 ATATATATATATATTATAC
1 ATATACATATATATTATAC
5216515 ATAT
1 ATAT
5216519 TAAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
ATATACATATATATTATAC
Found at i:5217538 original size:78 final size:77
Alignment explanation
Indices: 5217369--5217600 Score: 338
Period size: 78 Copynumber: 3.0 Consensus size: 77
5217359 AGATGCTTTT
* * * *
5217369 GAGTAGTGTGATATATGTTTAAATGTTATGAGATTCTATGATATGGTGATATATGCTTGAATGTT
1 GAGTATTGTGATATATGCTTAAATGTTATGAGATTATATGATATTGTGATATATGCTTGAATGTT
5217434 ATGTGATTATAC
66 ATGTGATTATAC
* * * *
5217446 AAGTGTTGTGATATATGCTTAAATGTTATGAGATTAAATGTATATTGTGACATATGCTTGAATGT
1 GAGTATTGTGATATATGCTTAAATGTTATGAGATTATATG-ATATTGTGATATATGCTTGAATGT
5217511 TATGTGATTATAC
65 TATGTGATTATAC
* * *
5217524 GAGTATTGTCATATATGCTTAAATGTTATGTGATTATATGAGTATTGTGATACATGCTTGAATGT
1 GAGTATTGTGATATATGCTTAAATGTTATGAGATTATATGA-TATTGTGATATATGCTTGAATGT
*
5217589 TAGGTGATTATA
65 TATGTGATTATA
5217601 TGTGTAATAG
Statistics
Matches: 137, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
77 35 0.26
78 102 0.74
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.43
Consensus pattern (77 bp):
GAGTATTGTGATATATGCTTAAATGTTATGAGATTATATGATATTGTGATATATGCTTGAATGTT
ATGTGATTATAC
Found at i:5217601 original size:39 final size:39
Alignment explanation
Indices: 5217368--5217602 Score: 285
Period size: 39 Copynumber: 6.1 Consensus size: 39
5217358 AAGATGCTTT
* * * *
5217368 TGAGTAGTGTGATATATGTTTAAATGTTATGAGATTCTA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
5217407 TGA-TATGGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
** * * *
5217445 CAAGTGTTGTGATATATGCTTAAATGTTATGAGATTAAA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
5217484 TGTA-TATTGTGACATATGCTTGAATGTTATGTGATTATA
1 TG-AGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
5217523 CGAGTATTGTCATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
5217562 TGAGTATTGTGATACATGCTTGAATGTTAGGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
5217601 TG
1 TG
5217603 TGTAATAGGA
Statistics
Matches: 164, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
38 31 0.19
39 132 0.80
40 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:5234838 original size:37 final size:37
Alignment explanation
Indices: 5234773--5234918 Score: 132
Period size: 37 Copynumber: 3.9 Consensus size: 37
5234763 ACCCCAATCG
* * ** * *
5234773 CTCATAAGAGCTAAACCATCTGAGAACACG-CTAATCA
1 CTCATAAGAGCTAATCCAACCAATAACACGCCAAAT-A
* *
5234810 CTCATAAGAGCTAGTCCAACCAATAACACGCCAAATG
1 CTCATAAGAGCTAATCCAACCAATAACACGCCAAATA
* * * *
5234847 CTTATAAGAGCTAATCCAACCGATAACACACCAAATG
1 CTCATAAGAGCTAATCCAACCAATAACACGCCAAATA
* * * *
5234884 CTCATAAAAGTTAATCCACCCGATAACACGCCAAA
1 CTCATAAGAGCTAATCCAACCAATAACACGCCAAA
5234919 ATAGGTAGTA
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
37 87 0.96
38 4 0.04
ACGTcount: A:0.42, C:0.29, G:0.12, T:0.18
Consensus pattern (37 bp):
CTCATAAGAGCTAATCCAACCAATAACACGCCAAATA
Found at i:5241042 original size:27 final size:27
Alignment explanation
Indices: 5240986--5241042 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
5240976 ATTATATATG
*
5240986 AATTTATAAATAAAATAAAAAAATATA
1 AATTTATAAATAAAATAAAAAAATAAA
* * *
5241013 AATTTATGAAA-AATATATAAATATAAA
1 AATTTAT-AAATAAAATAAAAAAATAAA
5241040 AAT
1 AAT
5241043 AACTAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (27 bp):
AATTTATAAATAAAATAAAAAAATAAA
Found at i:5243336 original size:15 final size:15
Alignment explanation
Indices: 5243295--5243338 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
5243285 GCAATTAGGG
5243295 TTAGGGTTTTGAGAATT
1 TTAGGGTTTT-A-AATT
* *
5243312 TTAAGTTTTTAAATT
1 TTAGGGTTTTAAATT
5243327 TTAGGGTTTTAA
1 TTAGGGTTTTAA
5243339 GGAAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 14 0.61
16 1 0.04
17 8 0.35
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.52
Consensus pattern (15 bp):
TTAGGGTTTTAAATT
Found at i:5243450 original size:96 final size:98
Alignment explanation
Indices: 5243326--5243530 Score: 267
Period size: 96 Copynumber: 2.1 Consensus size: 98
5243316 GTTTTTAAAT
* * ** *
5243326 TTTAGGG-TTTTAAGGAAAAAAATTAAATAAATTAAGGTTTAGTGTTTGTTAATTAAATTAATTA
1 TTTAGGGTTTTTAAGGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTA
*
5243390 CT-AATTT-AAAAAAATTAGATTATGG-TTTAGTG
66 -TAAATTTAAAAAAAATTAGATTA-GGATTTAGGG
* * *
5243422 TTTATGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
1 TTTAGGGTTTTTAAGGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTA
5243486 TAAATTTAAAAAAAATTAGATTAGGATTTTAGGG
66 TAAATTTAAAAAAAATTAGATTAGGA-TTTAGGG
5243520 TTTAGGGTTTT
1 TTTAGGGTTTT
5243531 AGGGTATTTA
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
95 1 0.01
96 54 0.57
97 23 0.24
98 16 0.17
ACGTcount: A:0.40, C:0.01, G:0.18, T:0.41
Consensus pattern (98 bp):
TTTAGGGTTTTTAAGGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTA
TAAATTTAAAAAAAATTAGATTAGGATTTAGGG
Found at i:5243530 original size:15 final size:15
Alignment explanation
Indices: 5243506--5243535 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5243496 AAAAATTAGA
5243506 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
5243521 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
5243536 ATTTAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:5243835 original size:126 final size:126
Alignment explanation
Indices: 5243618--5244155 Score: 837
Period size: 126 Copynumber: 4.3 Consensus size: 126
5243608 AAAAGCTTCT
* *
5243618 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTG-AAAAATAAATTTGAGATGACGTGTCTGCACAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
*
5243682 ATAGTGTCAAAAACGCTTCAAGCAGGATGTATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * **
5243743 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGCCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* *
5243808 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
5243869 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTAAAAAAATAATTTTGAGAAGCCGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * * *
5243934 ATAGTGGT-AAAAACGCTTCAAACAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
5243995 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
5244060 AAAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAAAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
5244121 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
5244156 TAACTTGGGC
Statistics
Matches: 378, Mismatches: 32, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
125 33 0.09
126 343 0.91
127 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:5247731 original size:117 final size:116
Alignment explanation
Indices: 5247124--5247737 Score: 1115
Period size: 116 Copynumber: 5.3 Consensus size: 116
5247114 TTTATATTTT
* * **
5247124 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTAATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
5247189 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
5247240 A-TACATGAAATAATATAAAAATATTCAAAATGTTG-CTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
5247303 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
5247354 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
5247419 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
5247470 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
5247535 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACATTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
5247586 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATT-
5247651 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
65 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
5247703 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
5247738 TGTACAAATA
Statistics
Matches: 483, Mismatches: 12, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
114 74 0.15
115 67 0.14
116 258 0.53
117 84 0.17
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:5248154 original size:18 final size:18
Alignment explanation
Indices: 5248122--5248164 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
5248112 GACTAGAAAA
* *
5248122 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
*
5248140 GGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
5248158 AGGATAC
1 AGGATAC
5248165 GTACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.30, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:5248259 original size:30 final size:30
Alignment explanation
Indices: 5248218--5248285 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
5248208 GTTGAACTGT
* * *
5248218 TGGGCCCGGTGACTGTGTAGGTC-CTGTTGC
1 TGGGCCTGGTGACTGTGT-GGGCACTGTTGA
*
5248248 TGGGCCTGGTGATTGTGTGGGCACTGTTGA
1 TGGGCCTGGTGACTGTGTGGGCACTGTTGA
5248278 TGGGCCTG
1 TGGGCCTG
5248286 CGTCGTCGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.07, C:0.19, G:0.43, T:0.31
Consensus pattern (30 bp):
TGGGCCTGGTGACTGTGTGGGCACTGTTGA
Found at i:5249974 original size:22 final size:22
Alignment explanation
Indices: 5249962--5250011 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 22
5249952 TAACGAGAGT
5249962 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
* *
5249984 TTTGAGA-G-ATTTGAGAGGAA
1 TTTGAGAGGAATTTAAGAGAAA
5250004 TTTGAGAG
1 TTTGAGAG
5250012 AATATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.68
21 1 0.04
22 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:5250019 original size:11 final size:10
Alignment explanation
Indices: 5249962--5250019 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 10
5249952 TAACGAGAGT
5249962 TTTGAGAGGAA
1 TTTGAGA-GAA
*
5249973 TTTAAGAGAAA
1 TTTGAGAG-AA
5249984 TTTGAGAG-A
1 TTTGAGAGAA
5249993 TTTGAGAGGAA
1 TTTGAGA-GAA
5250004 TTTGAGAGAA
1 TTTGAGAGAA
5250014 TATTGA
1 T-TTGA
5250020 AAGATTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 8 0.20
10 6 0.15
11 27 0.66
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:5250025 original size:31 final size:31
Alignment explanation
Indices: 5249962--5250025 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
5249952 TAACGAGAGT
*
5249962 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
*
5249993 TTTGAGAGGAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGGAATTTAAGAGAAAT-TTGAAAGA
5250024 TT
1 TT
5250026 GAAGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTGAGAGGAATTTAAGAGAAATTTGAAAGA
Found at i:5251937 original size:18 final size:18
Alignment explanation
Indices: 5251914--5251949 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
5251904 GAAAATATTT
5251914 ATCCTATTTGGTACTTAG
1 ATCCTATTTGGTACTTAG
5251932 ATCCTATTTGGTACTTAG
1 ATCCTATTTGGTACTTAG
5251950 GGGTGAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (18 bp):
ATCCTATTTGGTACTTAG
Found at i:5256393 original size:43 final size:43
Alignment explanation
Indices: 5256332--5256417 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
5256322 TATCCGGCCT
5256332 AAACGTTAAGACTAAGTCTGGAGGTTACATAAAAACGTTTAAG
1 AAACGTTAAGACTAAGTCTGGAGGTTACATAAAAACGTTTAAG
5256375 AAACGTTAAGACTAAGTCTGGAGGTTACATAAAAACGTTTAAG
1 AAACGTTAAGACTAAGTCTGGAGGTTACATAAAAACGTTTAAG
5256418 GGAAAAACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.26
Consensus pattern (43 bp):
AAACGTTAAGACTAAGTCTGGAGGTTACATAAAAACGTTTAAG
Found at i:5258257 original size:32 final size:33
Alignment explanation
Indices: 5258200--5258261 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
5258190 AAAAAATAGT
** *
5258200 AAAAAGAAATAGGGAAAGAATGAAAGAAAACAC
1 AAAAAGAAATAGAAAAAGAAAGAAAGAAAACAC
5258233 AAAAAGAAA-AGAAAAAGAAAGAAAGAAAA
1 AAAAAGAAATAGAAAAAGAAAGAAAGAAAA
5258262 AAAATTAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 17 0.65
33 9 0.35
ACGTcount: A:0.74, C:0.03, G:0.19, T:0.03
Consensus pattern (33 bp):
AAAAAGAAATAGAAAAAGAAAGAAAGAAAACAC
Found at i:5258780 original size:18 final size:18
Alignment explanation
Indices: 5258757--5258791 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
5258747 CCACAAGCCT
5258757 AGCTTGATAAGTCAGATC
1 AGCTTGATAAGTCAGATC
5258775 AGCTTGATAAGTCAGAT
1 AGCTTGATAAGTCAGAT
5258792 TAGTCCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (18 bp):
AGCTTGATAAGTCAGATC
Found at i:5259445 original size:19 final size:18
Alignment explanation
Indices: 5259405--5259453 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
5259395 AACACAATTA
* * *
5259405 AACAAATTAAATGGCTGT
1 AACAAATTAATTAGCTGG
5259423 AACAAATTAATTAAGCTGG
1 AACAAATTAATT-AGCTGG
*
5259442 AACATATTAATT
1 AACAAATTAATT
5259454 GCCGAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (18 bp):
AACAAATTAATTAGCTGG
Found at i:5261879 original size:87 final size:87
Alignment explanation
Indices: 5261766--5261937 Score: 344
Period size: 87 Copynumber: 2.0 Consensus size: 87
5261756 AAAACTGTCG
5261766 TTTTTTTTTTACTTTTTCTCAAATATAATATTAAATGAAAGATTAGAAACGATAAGATTTGAATT
1 TTTTTTTTTTACTTTTTCTCAAATATAATATTAAATGAAAGATTAGAAACGATAAGATTTGAATT
5261831 CATATCATTTAGATATCTTACT
66 CATATCATTTAGATATCTTACT
5261853 TTTTTTTTTTACTTTTTCTCAAATATAATATTAAATGAAAGATTAGAAACGATAAGATTTGAATT
1 TTTTTTTTTTACTTTTTCTCAAATATAATATTAAATGAAAGATTAGAAACGATAAGATTTGAATT
5261918 CATATCATTTAGATATCTTA
66 CATATCATTTAGATATCTTA
5261938 ACGTGTTTTA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (87 bp):
TTTTTTTTTTACTTTTTCTCAAATATAATATTAAATGAAAGATTAGAAACGATAAGATTTGAATT
CATATCATTTAGATATCTTACT
Found at i:5264103 original size:21 final size:23
Alignment explanation
Indices: 5264077--5264124 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 23
5264067 ATTTCACGTC
5264077 AAAAAATAATT-TAAAA-TTAT-
1 AAAAAATAATTCTAAAATTTATG
5264097 AAAAAA-AATTCTAAAATTTATG
1 AAAAAATAATTCTAAAATTTATG
5264119 AAAAAA
1 AAAAAA
5264125 ATTCTTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 4 0.16
22 6 0.24
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAAAATAATTCTAAAATTTATG
Found at i:5264125 original size:21 final size:20
Alignment explanation
Indices: 5264077--5264129 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
5264067 ATTTCACGTC
5264077 AAAAAATAATT-TAAAATTAT
1 AAAAAA-AATTCTAAAATTAT
5264097 AAAAAAAATTCTAAAATTTAT
1 AAAAAAAATTCTAAAA-TTAT
*
5264118 GAAAAAAATTCT
1 AAAAAAAATTCT
5264130 TGAAAAACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 4 0.13
20 11 0.37
21 15 0.50
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAAAAATTCTAAAATTAT
Found at i:5265215 original size:11 final size:11
Alignment explanation
Indices: 5265199--5265223 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5265189 GCCATTACCC
5265199 TATAAATATTT
1 TATAAATATTT
5265210 TATAAATATTT
1 TATAAATATTT
5265221 TAT
1 TAT
5265224 TTCTTCTGCA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATAAATATTT
Found at i:5270724 original size:21 final size:22
Alignment explanation
Indices: 5270695--5270741 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
5270685 CAGAAGGAGT
*
5270695 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
5270717 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
5270738 GAGT
1 GAGT
5270742 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:5276588 original size:26 final size:26
Alignment explanation
Indices: 5276558--5276618 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
5276548 ATACAAATAC
* * *
5276558 AATTACATTCTTTAACAAGAATAATT
1 AATTACATTATTTAACAAAAATAATG
*
5276584 CATTACATTATTTAACAAAAATAATG
1 AATTACATTATTTAACAAAAATAATG
5276610 AATTACATT
1 AATTACATT
5276619 GAATGTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (26 bp):
AATTACATTATTTAACAAAAATAATG
Found at i:5285773 original size:17 final size:17
Alignment explanation
Indices: 5285753--5285804 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
5285743 TTATATTTTA
5285753 TATTTTTATATAATTAT
1 TATTTTTATATAATTAT
*
5285770 TATTCTTATA-AATATAT
1 TATTTTTATATAAT-TAT
5285787 T-TTTTTATTATATATTAT
1 TATTTTTA-TATA-ATTAT
5285805 ATCACATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 8 0.28
17 15 0.52
18 4 0.14
19 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTTTATATAATTAT
Found at i:5292217 original size:13 final size:13
Alignment explanation
Indices: 5292199--5292226 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5292189 GGAGCGGTGC
5292199 CCTCCTCATTGTA
1 CCTCCTCATTGTA
5292212 CCTCCTCATTGTA
1 CCTCCTCATTGTA
5292225 CC
1 CC
5292227 AAAAATTGAA
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:0.14, C:0.43, G:0.07, T:0.36
Consensus pattern (13 bp):
CCTCCTCATTGTA
Found at i:5298020 original size:205 final size:205
Alignment explanation
Indices: 5297440--5298023 Score: 945
Period size: 205 Copynumber: 2.8 Consensus size: 205
5297430 TAGGCCGCAG
** *
5297440 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCTAGATCCAAGATGATTTGGCATCCTTGT
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAG-AAGATCCAAGATGATTTGGCATCCTTGT
* * *
5297505 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACAATGAAGCAAATC
65 GCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
* * * *
5297570 TAAGATGATGTGGCATCTCTGTATTGTCAGAGAACAAATCAAAATCTGGCATCTCCACTTCGACG
130 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAACG
5297635 GGGAACAGATA
195 GGGAACAGATA
* * *
5297646 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGGAGATCTAAGATGATTTGGCATTCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
*
5297711 CTTGCAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* *
5297776 AAGATAATTTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAACGG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAACGG
*
5297841 GGAGCAGATA
196 GGAACAGATA
* *
5297851 CATAGCAGATCTCACCTTTAGATGTTTATACTGAAGAAGATCCAAGATAATTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
* * *
5297916 CTTACAAGGAGCGAATCAAAGACATTGCTG-TATTGGCTTTCACGTGTTTACGCTGAAGCAAATC
66 CTTACAAGGAGCGAATCGAAGACATAGCTGAT-TTGGCTTTCACGTGTTTACGATGAAGCAAATC
5297980 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
130 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
5298024 AAGCAGATTT
Statistics
Matches: 350, Mismatches: 27, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
204 1 0.00
205 315 0.90
206 34 0.10
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAACGG
GGAACAGATA
Found at i:5299760 original size:7 final size:7
Alignment explanation
Indices: 5299737--5299811 Score: 73
Period size: 7 Copynumber: 10.6 Consensus size: 7
5299727 CACATAATGT
5299737 TTATATA
1 TTATATA
*
5299744 TCTTTATA
1 T-TATATA
5299752 TTATATA
1 TTATATA
5299759 TTATATAA
1 TTATAT-A
5299767 TTAT-TA
1 TTATATA
*
5299773 TTACACTA
1 TTATA-TA
*
5299781 TTTTATA
1 TTATATA
5299788 TTAT-TA
1 TTATATA
*
5299794 TTATTTA
1 TTATATA
5299801 TTATATA
1 TTATATA
5299808 TTAT
1 TTAT
5299812 TTTTTACAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
6 10 0.18
7 30 0.54
8 16 0.29
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (7 bp):
TTATATA
Found at i:5299825 original size:44 final size:44
Alignment explanation
Indices: 5299695--5299865 Score: 129
Period size: 42 Copynumber: 3.7 Consensus size: 44
5299685 AACATATATC
*
5299695 ATTACTTATTATTTATTATA-ATATATTTTTATCACATAA-TGTTTATAT
1 ATTA-TTATTATTTATTATATAT-TATTTTT-T-ACA-AACTATTT-TAT
* * *
5299743 ATCTTTATATTATATATTATATAATTA-TTATTAC--ACTATTTTAT
1 AT-TAT-TATTATTTATTATAT-ATTATTTTTTACAAACTATTTTAT
5299787 ATTATTATTATTTATTATATATTATTTTTTACAAACTATTATTAT
1 ATTATTATTATTTATTATATATTATTTTTTACAAACTATT-TTAT
* *
5299832 TTTACATTATTATTTA-TATTTATTATATTTTTAC
1 ATT--ATTATTATTTATTATATATTAT-TTTTTAC
5299866 TTGTATTACG
Statistics
Matches: 102, Mismatches: 9, Indels: 25
0.75 0.07 0.18
Matches are distributed among these distances:
41 4 0.04
42 20 0.20
43 2 0.02
44 12 0.12
45 10 0.10
46 9 0.09
47 20 0.20
48 4 0.04
49 17 0.17
50 2 0.02
51 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.59
Consensus pattern (44 bp):
ATTATTATTATTTATTATATATTATTTTTTACAAACTATTTTAT
Found at i:5306608 original size:50 final size:50
Alignment explanation
Indices: 5306533--5306634 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
5306523 TTCCTGGCCA
* * * *
5306533 TGTGACCCTAAATCCAAAACAGTGAGTTACACGGCTTGGACATACGCTCG
1 TGTGACCCTAAATCCAAAACAGTGAGTTACACAGCCTAGACATACGCCCG
*
5306583 TGTGACCTTAAATCCAAAACAGTGAGTTACACAGCCTAGACATACGCCCG
1 TGTGACCCTAAATCCAAAACAGTGAGTTACACAGCCTAGACATACGCCCG
5306633 TG
1 TG
5306635 CCTTTAGCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (50 bp):
TGTGACCCTAAATCCAAAACAGTGAGTTACACAGCCTAGACATACGCCCG
Found at i:5307229 original size:24 final size:22
Alignment explanation
Indices: 5307188--5307244 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
5307178 ACACACAAGG
5307188 GAAGAAAAAGAAAGAAGAAAAA
1 GAAGAAAAAGAAAGAAGAAAAA
*
5307210 GAAGAATAAGAGAAATAAG-AAAA
1 GAAGAA-AA-AGAAAGAAGAAAAA
5307233 -AAG-AAAAGAAAG
1 GAAGAAAAAGAAAG
5307245 GAGGAAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 5 0.16
20 2 0.06
21 1 0.03
22 9 0.29
23 6 0.19
24 8 0.26
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.04
Consensus pattern (22 bp):
GAAGAAAAAGAAAGAAGAAAAA
Found at i:5310026 original size:21 final size:22
Alignment explanation
Indices: 5309976--5310018 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
5309966 TTTATGAATA
*
5309976 ATAAAATAAAACATAATTTATG
1 ATAAAATAAAACATAATATATG
5309998 ATAAAATAAAA-ATAATATATG
1 ATAAAATAAAACATAATATATG
5310019 GAATAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (22 bp):
ATAAAATAAAACATAATATATG
Found at i:5310052 original size:12 final size:12
Alignment explanation
Indices: 5310037--5310061 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5310027 TATAAAAATG
5310037 TATAATATATAA
1 TATAATATATAA
5310049 TATAATATATAA
1 TATAATATATAA
5310061 T
1 T
5310062 GGTATATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATAATATATAA
Found at i:5310082 original size:12 final size:11
Alignment explanation
Indices: 5310007--5310090 Score: 58
Period size: 10 Copynumber: 8.3 Consensus size: 11
5309997 GATAAAATAA
5310007 AAATAATATAT
1 AAATAATATAT
*
5310018 GGAATAATATAT
1 -AAATAATATAT
*
5310030 AAA-AATGTAT
1 AAATAATATAT
5310040 -AAT-ATATA-
1 AAATAATATAT
*
5310048 ATATAATATAT
1 AAATAATATAT
**
5310059 -AATGGTATAT
1 AAATAATATAT
5310069 -AAT-A-ATAT
1 AAATAATATAT
5310077 AAATAATATAT
1 AAATAATATAT
5310088 AAA
1 AAA
5310091 GAAAAATAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
8 4 0.07
9 11 0.20
10 22 0.39
11 9 0.16
12 10 0.18
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (11 bp):
AAATAATATAT
Found at i:5310099 original size:29 final size:28
Alignment explanation
Indices: 5310005--5310105 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 28
5309995 ATGATAAAAT
*
5310005 AAAAATAATATATGGAATAATATATAAA-
1 AAAAATAATATAT-AAATAATATATAAAG
** *
5310033 AATGTATAATATATAATATAATATATAATG
1 AA-AAATAATATATAA-ATAATATATAAAG
** *
5310063 GTATATAATAATATAAATAATATATAAAG
1 AAAAATAAT-ATATAAATAATATATAAAG
5310092 AAAAATAATATATA
1 AAAAATAATATATA
5310106 CTATTTTACA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
28 8 0.14
29 44 0.76
30 6 0.10
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (28 bp):
AAAAATAATATATAAATAATATATAAAG
Found at i:5311710 original size:44 final size:44
Alignment explanation
Indices: 5311660--5312103 Score: 584
Period size: 44 Copynumber: 10.1 Consensus size: 44
5311650 CAAATGTCAG
* * *
5311660 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * *
5311704 ATCTGCTATCTTCTAGCTGCTCTCTGACAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * *
5311748 ATCTGTCATTTTTGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
5311792 ATCTATCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * * * *
5311836 ATCTGTCATCTTCGATTTGCTCTCAG-TAATGCAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
5311879 ATCTGTTATGTTCGATCTGCTCTCTGTCAATATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* *
5311923 ACCTATTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * * *
5311967 ACCTGTTATCTTCGATCTGCTCTCTGACAATATAGAGTCACCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
* * *
5312011 ACCTGTTATCTTCGATCTGCTCTTTAACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
*
5312055 ACCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
5312099 ATCTG
1 ATCTG
5312104 CTTTCGGTGA
Statistics
Matches: 354, Mismatches: 45, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
43 36 0.10
44 318 0.90
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
Found at i:5312049 original size:219 final size:220
Alignment explanation
Indices: 5311660--5312105 Score: 606
Period size: 219 Copynumber: 2.0 Consensus size: 220
5311650 CAAATGTCAG
* * * *
5311660 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAAATCTGCTATCTTCTAGCTGCT
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAACCTACTATCTTCGAGCTGCT
* * * * * *
5311725 CTCTGACAATACAGAGATGCCAAATCTGTCATTTTTGATCTGCTCTCTGTCAATACAGAGACGCC
66 CTCTGACAATACAGAGACGCCAAACCTGTCATCTTCGATCTGCTCTCTGACAATACAGAGACACC
* ** * *
5311790 AAATCTATCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCTTCGATTTG
131 AAACCTATCATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAACCTGTCATCTTCGATCTG
* * *
5311855 CTCTCAG-TAATGCAGAGATGCCAA
196 CTCTCAGACAATACAGAGACGCCAA
* * * * *
5311879 ATCTGTTATGTTCGATCTGCTCTCTGTCAATATAGAGACGCCAAACCTATTATCTTCGATCTGCT
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAACCTACTATCTTCGAGCTGCT
* * *
5311944 CTCTGACAATACAGAGACGCCAAACCTGTTATCTTCGATCTGCTCTCTGACAATATAGAGTCACC
66 CTCTGACAATACAGAGACGCCAAACCTGTCATCTTCGATCTGCTCTCTGACAATACAGAGACACC
* * * *
5312009 AAACCTGTTATCTTCGATCTGCTCTTTAACAATACAGAGACGCCAAACCTGTTATCTTCGATCTG
131 AAACCTATCATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAACCTGTCATCTTCGATCTG
*
5312074 CTCTCTGACAATACAGAGACGCCAA
196 CTCTCAGACAATACAGAGACGCCAA
5312099 ATCTGCT
1 ATCTGCT
5312106 TTCGGTGATC
Statistics
Matches: 194, Mismatches: 32, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
219 174 0.90
220 20 0.10
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (220 bp):
ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAACCTACTATCTTCGAGCTGCT
CTCTGACAATACAGAGACGCCAAACCTGTCATCTTCGATCTGCTCTCTGACAATACAGAGACACC
AAACCTATCATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAACCTGTCATCTTCGATCTG
CTCTCAGACAATACAGAGACGCCAA
Found at i:5314854 original size:19 final size:19
Alignment explanation
Indices: 5314830--5314927 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
5314820 AATCTTTAAG
5314830 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5314849 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5314868 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5314885 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
5314904 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
5314925 GAT
1 GAT
5314928 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:5314860 original size:36 final size:35
Alignment explanation
Indices: 5314820--5314927 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
5314810 ATGGAAATAT
5314820 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
5314856 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
5314892 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
5314928 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:5320484 original size:23 final size:25
Alignment explanation
Indices: 5320432--5320485 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 25
5320422 TTAAAAGGAA
* *
5320432 CAACAAAGAGAGGAAAAAAAAGAGT
1 CAACAAAAAGAGGAAAAAAAAGACT
*
5320457 -GACAAAAAG-GGAAAAAAAA-ACT
1 CAACAAAAAGAGGAAAAAAAAGACT
5320479 CAACAAA
1 CAACAAA
5320486 TAGTTAGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 2 0.08
23 15 0.62
24 7 0.29
ACGTcount: A:0.67, C:0.11, G:0.19, T:0.04
Consensus pattern (25 bp):
CAACAAAAAGAGGAAAAAAAAGACT
Found at i:5322377 original size:39 final size:39
Alignment explanation
Indices: 5322302--5322627 Score: 438
Period size: 39 Copynumber: 8.3 Consensus size: 39
5322292 ATGGAATATC
* * * * *
5322302 GATTATACTGAATGATTTGTTCAAACGAACAATATCCACT
1 GATTATGCTGAATG-CTTGCTCAAACGAGCATTATCCACT
** * * *
5322342 GATTATATTGAATGTTTGCTCAAATGAGCATTATCCGCT
1 GATTATGCTGAATGCTTGCTCAAACGAGCATTATCCACT
*
5322381 GATTATACTGAATGCTTGCTCAAACGAG-ATTATCCACT
1 GATTATGCTGAATGCTTGCTCAAACGAGCATTATCCACT
* *
5322419 AATTATGTTGAATGCTTGCTCAAAACGAGCATTATCCACT
1 GATTATGCTGAATGCTTGCTC-AAACGAGCATTATCCACT
*
5322459 GATTATGCTGAATGCTTGCTCAAACGAGCAATATCCACT
1 GATTATGCTGAATGCTTGCTCAAACGAGCATTATCCACT
* *
5322498 GATTATGCTGAATGCTTGCTCAAATGAGCAATATCCACT
1 GATTATGCTGAATGCTTGCTCAAACGAGCATTATCCACT
* *
5322537 GATTATGCTGAATGCTTGCTCAAACAAGCACTATCCACT
1 GATTATGCTGAATGCTTGCTCAAACGAGCATTATCCACT
* *
5322576 AATCATGCTGAATGCTTGCTCAAACGAGCATTATCCACT
1 GATTATGCTGAATGCTTGCTCAAACGAGCATTATCCACT
*
5322615 GATTATACTGAAT
1 GATTATGCTGAAT
5322628 AAGATTTTTT
Statistics
Matches: 257, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
38 27 0.11
39 188 0.73
40 42 0.16
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (39 bp):
GATTATGCTGAATGCTTGCTCAAACGAGCATTATCCACT
Found at i:5326851 original size:47 final size:48
Alignment explanation
Indices: 5326718--5326856 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
5326708 TACCACTGTT
* * *
5326718 ATACGTGTAACGTGTTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* *
5326766 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* ** * *
5326814 TTTTAT-TAACGTGGTGCTAAGTGGATATACCATGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
5326857 GTAACGTGGT
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 33 0.42
48 46 0.58
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
Found at i:5326871 original size:38 final size:38
Alignment explanation
Indices: 5326820--5326896 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
5326810 ATTGTTTTAT
*
5326820 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
5326858 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
5326896 T
1 T
5326897 TAATTTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:5329325 original size:50 final size:50
Alignment explanation
Indices: 5329268--5329379 Score: 215
Period size: 50 Copynumber: 2.2 Consensus size: 50
5329258 TTATTTTATT
5329268 TTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGA
1 TTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGA
5329318 TTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGA
1 TTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGA
*
5329368 TTAGGATAAGGT
1 TTAGAATAAGGT
5329380 GTTTCAATCC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (50 bp):
TTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGA
Found at i:5329551 original size:5 final size:5
Alignment explanation
Indices: 5329533--5329562 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
5329523 TGTGTGTTCT
5329533 TTTTA TTATTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTT
5329563 TTTCACAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:5345161 original size:6 final size:6
Alignment explanation
Indices: 5345136--5345188 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
5345126 TTAGAACATA
* * ** * *
5345136 AAAAAT AGAAAT AGAAAT AAAAAT AAAAGG AAAAAT AAAAAC AAAAAG
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
5345184 AAAAA
1 AAAAA
5345189 CAACTAAAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (6 bp):
AAAAAT
Found at i:5345171 original size:18 final size:18
Alignment explanation
Indices: 5345150--5345188 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
5345140 ATAGAAATAG
* *
5345150 AAATAAAAATAAAAGGAA
1 AAATAAAAACAAAAAGAA
5345168 AAATAAAAACAAAAAGAA
1 AAATAAAAACAAAAAGAA
5345186 AAA
1 AAA
5345189 CAACTAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (18 bp):
AAATAAAAACAAAAAGAA
Found at i:5348121 original size:17 final size:17
Alignment explanation
Indices: 5348101--5348134 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5348091 GTGGGTATGT
5348101 TTAGGTAGGTTCGCGGA
1 TTAGGTAGGTTCGCGGA
5348118 TTAGGTAGGTTCGCGGA
1 TTAGGTAGGTTCGCGGA
5348135 GCCATAGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.41, T:0.29
Consensus pattern (17 bp):
TTAGGTAGGTTCGCGGA
Found at i:5351295 original size:31 final size:31
Alignment explanation
Indices: 5351260--5351326 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
5351250 ACTCAGCGTA
*
5351260 TACTGGGCCGAAGCCTTTTCATATTTCATAT
1 TACTGGGCCGAAGCCTTTACATATTTCATAT
5351291 TACTGGGCCGAAGCCTTTACATATTTCATAT
1 TACTGGGCCGAAGCCTTTACATATTTCATAT
5351322 TACTG
1 TACTG
5351327 TAAATGGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (31 bp):
TACTGGGCCGAAGCCTTTACATATTTCATAT
Found at i:5351588 original size:25 final size:25
Alignment explanation
Indices: 5351531--5351640 Score: 125
Period size: 25 Copynumber: 4.4 Consensus size: 25
5351521 CTGGAGGCCT
*
5351531 AGCCTCTTTTAATAAA-TGGGG-AAA
1 AGCCT-TTTTGATAAACTGGGGCAAA
*
5351555 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCTTTTTGATAAACTGGGGCAAA
*
5351580 AGCCTTTTTAATAAACTGGGGCAAA
1 AGCCTTTTTGATAAACTGGGGCAAA
* * *
5351605 AGCCCTTTTCGGTAAACTGGGGCATA
1 AG-CCTTTTTGATAAACTGGGGCAAA
*
5351631 TGCCTTTTTG
1 AGCCTTTTTG
5351641 CACTTCCTCC
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
23 9 0.12
24 9 0.12
25 35 0.48
26 20 0.27
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (25 bp):
AGCCTTTTTGATAAACTGGGGCAAA
Found at i:5351620 original size:26 final size:25
Alignment explanation
Indices: 5351531--5351628 Score: 128
Period size: 25 Copynumber: 3.9 Consensus size: 25
5351521 CTGGAGGCCT
*
5351531 AGCCTCTTTTAATAAA-TGGGG-AAA
1 AGCC-CTTTTGATAAACTGGGGCAAA
5351555 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
5351580 AGCCTTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
5351605 AGCCCTTTTCGGTAAACTGGGGCA
1 AGCCCTTTT-GATAAACTGGGGCA
5351629 TATGCCTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
23 10 0.15
24 9 0.14
25 34 0.52
26 12 0.18
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:5351732 original size:20 final size:20
Alignment explanation
Indices: 5351689--5351732 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
5351679 TGAATACATC
*
5351689 ATGTGCATATCATACATATC
1 ATGTGCATATCATACATATA
5351709 ATGTGCATATCATATCA-ATA
1 ATGTGCATATCATA-CATATA
5351729 ATGT
1 ATGT
5351733 ATATCAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTGCATATCATACATATA
Found at i:5359415 original size:38 final size:38
Alignment explanation
Indices: 5359373--5359479 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
5359363 CTCAGCGTAT
5359373 ACTGGGCTGAAGCCTTTTCATATTTCATATTTCATAAC
1 ACTGGGCTGAAGCCTTTTCATATTTCATATTTCATAAC
5359411 ACTGGG-TCGAAGCCTTTTCATATTTCATATTTCATAAC
1 ACTGGGCT-GAAGCCTTTTCATATTTCATATTTCATAAC
*
5359449 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCTGAAGCCTTTTCATATTTCATATT
5359480 ACTAGGCCGA
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
37 1 0.02
38 65 0.98
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.39
Consensus pattern (38 bp):
ACTGGGCTGAAGCCTTTTCATATTTCATATTTCATAAC
Found at i:5359433 original size:31 final size:31
Alignment explanation
Indices: 5359395--5359508 Score: 120
Period size: 31 Copynumber: 3.5 Consensus size: 31
5359385 CCTTTTCATA
*
5359395 TTTCATATTTCATAACACTGGGTCGAAGCCTTTTCAT
1 TTTCATATTTCATAACACTGGGCCGAAG-C----C-T
5359432 ATTTCATATTTCATAACACTGGGCCGAAGCCT
1 -TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
5359464 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
*
5359495 TTACATATTTCATA
1 TTTCATATTTCATA
5359509 TTACTGTAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
31 41 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 27 0.38
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:5359747 original size:25 final size:26
Alignment explanation
Indices: 5359719--5359777 Score: 97
Period size: 25 Copynumber: 2.4 Consensus size: 26
5359709 CTGGAGGCCT
5359719 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCCTCTTTTAATAAACTGGGGCAAA
5359744 AGCCT-TTTTAATAAACTGGGGCAAA
1 AGCCTCTTTTAATAAACTGGGGCAAA
5359769 AGCC-CTTTT
1 AGCCTCTTTT
5359778 CGGTAAACTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 7 0.22
25 25 0.78
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (26 bp):
AGCCTCTTTTAATAAACTGGGGCAAA
Found at i:5359784 original size:26 final size:26
Alignment explanation
Indices: 5359719--5359802 Score: 86
Period size: 25 Copynumber: 3.3 Consensus size: 26
5359709 CTGGAGGCCT
5359719 AGCCTCTTTT-AAT-AACTGGGGCAAA
1 AGCC-CTTTTCAATAAACTGGGGCAAA
*
5359744 AG-CCTTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTCAATAAACTGGGGCAAA
** * *
5359769 AGCCCTTTTCGGTAAACTGAGGC-AT
1 AGCCCTTTTCAATAAACTGGGGCAAA
5359794 AGCCCTTTT
1 AGCCCTTTT
5359803 TGCACTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
23 5 0.10
24 4 0.08
25 26 0.51
26 16 0.31
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCAAA
Found at i:5359873 original size:20 final size:20
Alignment explanation
Indices: 5359850--5359896 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
5359840 TTATGAATAC
5359850 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
5359869 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
5359890 ATCATGT
1 ATCATGT
5359897 ATATCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:5359960 original size:25 final size:25
Alignment explanation
Indices: 5359932--5359979 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
5359922 ATAATTAAAC
* * *
5359932 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
5359957 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
5359980 CATAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:5371452 original size:45 final size:45
Alignment explanation
Indices: 5371402--5371491 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
5371392 TTTTGAGATT
5371402 TGATGAGCATAATTTCAAGTGAAATTAAGTATGTTTTATCCTTTC
1 TGATGAGCATAATTTCAAGTGAAATTAAGTATGTTTTATCCTTTC
5371447 TGATGAGCATAATTTCAAGTGAAATTAAGTATGTTTTATCCTTTC
1 TGATGAGCATAATTTCAAGTGAAATTAAGTATGTTTTATCCTTTC
5371492 CTTGTTAGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (45 bp):
TGATGAGCATAATTTCAAGTGAAATTAAGTATGTTTTATCCTTTC
Found at i:5371992 original size:17 final size:19
Alignment explanation
Indices: 5371970--5372012 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
5371960 ATGGAAATAT
5371970 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
5371987 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
5372006 AATCTTA
1 AATCTTA
5372013 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:5372002 original size:19 final size:19
Alignment explanation
Indices: 5371978--5372014 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
5371968 ATAATCTTCA
5371978 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
5371997 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
5372015 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:5372040 original size:22 final size:22
Alignment explanation
Indices: 5371978--5372037 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
5371968 ATAATCTTCA
5371978 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
5371997 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
5372019 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
5372038 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:5372328 original size:17 final size:17
Alignment explanation
Indices: 5372304--5372338 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5372294 TGTTTCCCTG
*
5372304 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
5372322 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
5372339 GTATCACATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:5383755 original size:19 final size:19
Alignment explanation
Indices: 5383713--5383755 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
5383703 TATATAATAT
* *
5383713 AAAA-AATTTTATAAAAGA
1 AAAATAATTATATAAAACA
*
5383731 ATAATAATTATATAAAACA
1 AAAATAATTATATAAAACA
5383750 AAAATA
1 AAAATA
5383756 TAATGATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAATAATTATATAAAACA
Found at i:5384109 original size:48 final size:51
Alignment explanation
Indices: 5384058--5384171 Score: 114
Period size: 50 Copynumber: 2.3 Consensus size: 51
5384048 AAATGACATA
* * * *
5384058 ATAATTTAAAATAAT-TAT-AAT-ATATAATATGAA-AGTATATATGTAAA-A
1 ATAATATAAAATAATATATAAATAATACAATAT-AATAATAT-TATATAAATA
*
5384106 ATAATATATAAT-ATATATAAATAATACAATATAATAATATTATATAAATA
1 ATAATATAAAATAATATATAAATAATACAATATAATAATATTATATAAATA
*
5384156 ATAATGTAAAATAATA
1 ATAATATAAAATAATA
5384172 CTAATTTGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
47 2 0.04
48 13 0.25
49 12 0.23
50 23 0.43
51 3 0.06
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.37
Consensus pattern (51 bp):
ATAATATAAAATAATATATAAATAATACAATATAATAATATTATATAAATA
Found at i:5384127 original size:20 final size:20
Alignment explanation
Indices: 5384066--5384235 Score: 66
Period size: 20 Copynumber: 8.9 Consensus size: 20
5384056 TAATAATTTA
5384066 AAATAAT-TATAATATATA-
1 AAATAATATATAATATATAT
* * *
5384084 ATATGAA-AGTAT-ATATGTAA
1 AAAT-AATA-TATAATATATAT
5384104 AAATAATATATAATATATAT
1 AAATAATATATAATATATAT
*
5384124 AAAT-A-ATACAATATA-AT
1 AAATAATATATAATATATAT
*
5384141 -AATATTATATAA-ATA-AT
1 AAATAATATATAATATATAT
*
5384158 AATGTAA-A-ATAATACTA-AT
1 AA-ATAATATATAATA-TATAT
*** *
5384177 TTGTGAA-AAATAATATATAGT
1 AAAT-AATATATAATATATA-T
*
5384198 AAATAATA-ATAATATAAAT
1 AAATAATATATAATATATAT
5384217 AATATAAT-TATAATATATA
1 AA-ATAATATATAATATATA
5384236 ATACAAAGAT
Statistics
Matches: 116, Mismatches: 17, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
16 3 0.03
17 11 0.09
18 22 0.19
19 28 0.24
20 49 0.42
21 3 0.03
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (20 bp):
AAATAATATATAATATATAT
Found at i:5384139 original size:14 final size:14
Alignment explanation
Indices: 5384120--5384158 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
5384110 TATATAATAT
5384120 ATATAAATAATACA
1 ATATAAATAATACA
**
5384134 ATAT-AATAATATT
1 ATATAAATAATACA
5384147 ATATAAATAATA
1 ATATAAATAATA
5384159 ATGTAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
ATATAAATAATACA
Found at i:5384155 original size:27 final size:25
Alignment explanation
Indices: 5384108--5384158 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 25
5384098 ATGTAAAAAT
5384108 AATATATAATATATATAAATAATAC
1 AATATATAATATATATAAATAATAC
5384133 AATATAATAATATTATATAAATAATA
1 AATAT-ATAATA-TATATAAATAATA
5384159 ATGTAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 5 0.21
26 6 0.25
27 13 0.54
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
AATATATAATATATATAAATAATAC
Found at i:5384157 original size:40 final size:44
Alignment explanation
Indices: 5384113--5384238 Score: 118
Period size: 47 Copynumber: 2.8 Consensus size: 44
5384103 AAAATAATAT
5384113 ATAATATATATAAATAATACAA-TATAATAAT-AT-TATA-TAA
1 ATAATATATATAAATAATACAATTATAATAATAATATATAGTAA
* * *
5384153 ATAATA-ATGTAAAATAATACTAATTTGTGAAAAATAATATATAGTAA
1 ATAATATATAT-AAATAATAC-AA-TTAT-AATAATAATATATAGTAA
*
5384200 ATAATAATAATATAAATAATATAATTATAATATATAATA
1 ATAAT-AT-ATATAAATAATACAATTATAATA-ATAATA
5384239 CAAAGATATA
Statistics
Matches: 67, Mismatches: 7, Indels: 17
0.74 0.08 0.19
Matches are distributed among these distances:
39 3 0.04
40 15 0.22
41 2 0.03
43 2 0.03
44 5 0.07
45 2 0.03
46 7 0.10
47 17 0.25
48 3 0.04
49 8 0.12
50 3 0.04
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.37
Consensus pattern (44 bp):
ATAATATATATAAATAATACAATTATAATAATAATATATAGTAA
Found at i:5384168 original size:27 final size:26
Alignment explanation
Indices: 5384113--5384171 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
5384103 AAAATAATAT
*
5384113 ATAATATATATAAATAATACAATATA
1 ATAATATATATAAATAATACAATAAA
*
5384139 ATAATATTATATAAATAATA-ATGTAAA
1 ATAATA-TATATAAATAATACA-ATAAA
5384166 ATAATA
1 ATAATA
5384172 CTAATTTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
ATAATATATATAAATAATACAATAAA
Done.