Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 281 of 316
Found at i:93151099 original size:39 final size:39
Alignment explanation
Indices: 93151045--93151145 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 39
93151035 ATCGTGATCT
* **
93151045 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
* * **
93151084 GAAGCCCAAAGGCTAATTGAAGCATGCAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
*
93151123 GAAGCCCGAAGGTTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
93151146 TCATCAGAGC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.15
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACA
Found at i:93151158 original size:39 final size:39
Alignment explanation
Indices: 93151045--93151160 Score: 121
Period size: 39 Copynumber: 3.0 Consensus size: 39
93151035 ATCGTGATCT
* **
93151045 GAAGCCCGAAGGCTAACTGAAGCACA-CAAGTGTTAAATG
1 GAAGCCCGAAGGCTAACTGAAGC-CATCAAGTGCTAAACA
* *
93151084 GAAGCCCAAAGGCTAATTGAAG-CATGCAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCCAT-CAAGTGCTAAACA
* *
93151123 GAAGCCCGAAGGTTAACTGAAGCTCATC-AGAGCTAAAC
1 GAAGCCCGAAGGCTAACTGAAGC-CATCAAGTGCTAAAC
93151161 TGAAACCCCA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
37 2 0.03
39 58 0.91
40 1 0.02
41 3 0.05
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.16
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCCATCAAGTGCTAAACA
Found at i:93158396 original size:39 final size:39
Alignment explanation
Indices: 93158353--93158488 Score: 209
Period size: 39 Copynumber: 3.5 Consensus size: 39
93158343 TGGTCTGAAA
* * *
93158353 CCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
* * *
93158392 CCCGAAGGCTAATTGAAGCACACAAGTGTTAAACGGAAC
1 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
*
93158431 CCCAAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
93158470 CCCGAAGGCTAACTGAAGC
1 CCCGAAGGCTAACTGAAGC
93158489 TCATCAGAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.38, C:0.25, G:0.24, T:0.13
Consensus pattern (39 bp):
CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
Found at i:93165776 original size:15 final size:15
Alignment explanation
Indices: 93165756--93165784 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93165746 ATGCCACACA
93165756 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
93165771 CACCGTGTTATCAA
1 CACCGTGTTATCAA
93165785 GCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:93168717 original size:15 final size:15
Alignment explanation
Indices: 93168697--93168726 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
93168687 AAAACATAAT
*
93168697 AATAAAACATAAAAA
1 AATAAAAAATAAAAA
93168712 AATAAAAAATAAAAA
1 AATAAAAAATAAAAA
93168727 TCTACTACTA
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:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (15 bp):
AATAAAAAATAAAAA
Found at i:93168818 original size:5 final size:5
Alignment explanation
Indices: 93168808--93168833 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
93168798 ATTAACAACT
93168808 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
93168834 GAAAGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:93172926 original size:11 final size:11
Alignment explanation
Indices: 93172910--93172939 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
93172900 AAAATGGAAG
93172910 AATAAATAAGA
1 AATAAATAAGA
*
93172921 AATAAAAAAGA
1 AATAAATAAGA
93172932 AATAAATA
1 AATAAATA
93172940 GATAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (11 bp):
AATAAATAAGA
Found at i:93179164 original size:40 final size:44
Alignment explanation
Indices: 93179108--93179207 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 44
93179098 CAATGGTATT
** * *
93179108 TGGCACTAAGTGTGCGAT-TTGAATTAGCTTCGGCTACTT-A-A
1 TGGCACTAAGTGTGCGATACCGAAATAGCTTCGGCTAATTGAGA
*
93179149 -GGCACTAAGTGTGCGATACCGAAATAGCTTCGGTTAATTGAGA
1 TGGCACTAAGTGTGCGATACCGAAATAGCTTCGGCTAATTGAGA
93179192 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
93179208 GATGTTAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
40 17 0.34
41 16 0.32
42 1 0.02
43 1 0.02
44 15 0.30
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (44 bp):
TGGCACTAAGTGTGCGATACCGAAATAGCTTCGGCTAATTGAGA
Found at i:93191506 original size:6 final size:6
Alignment explanation
Indices: 93191484--93191576 Score: 82
Period size: 6 Copynumber: 15.3 Consensus size: 6
93191474 AATAAAGTTC
* **
93191484 AAAATA GAAAA-A CAAAATA AAAATA AAAAT- CAAAGG AAAATA AAAATA
1 AAAATA -AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * * *
93191532 AAAATA AAGATAA AAAACA AAAATA AAAATA AACATA AAGATA AA
1 AAAATA AAAAT-A AAAATA AAAATA AAAATA AAAATA AAAATA AA
93191577 TAGACTCAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
5 3 0.04
6 59 0.83
7 9 0.13
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:93191507 original size:31 final size:29
Alignment explanation
Indices: 93191472--93191573 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 29
93191462 CATAATAATT
*
93191472 AAAATAAAGTTCAAAATAGAAAAACAAAATA
1 AAAATAAAGATCAAAA-AGAAAAA-AAAATA
* *
93191503 AAAATAAAAATC-AAAGGAAAATAAAAATA
1 AAAATAAAGATCAAAAAGAAAA-AAAAATA
* *
93191532 AAAATAAAGATAAAAAACAAAAATAAAAATA
1 AAAATAAAGATCAAAAA-GAAAA-AAAAATA
*
93191563 AACATAAAGAT
1 AAAATAAAGAT
93191574 AAATAGACTC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
29 21 0.35
30 7 0.12
31 32 0.53
ACGTcount: A:0.75, C:0.05, G:0.06, T:0.15
Consensus pattern (29 bp):
AAAATAAAGATCAAAAAGAAAAAAAAATA
Found at i:93191527 original size:23 final size:22
Alignment explanation
Indices: 93191497--93191564 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 22
93191487 ATAGAAAAAC
93191497 AAAATAAAAATAAAAATCAAAGG
1 AAAATAAAAATAAAAAT-AAAGG
*
93191520 AAAATAAAAATAAAAATAAAGATAA
1 AAAATAAAAATAAAAATAAAG---G
*
93191545 AAAACAAAAATAAAAATAAA
1 AAAATAAAAATAAAAATAAA
93191565 CATAAAGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.10
23 17 0.43
25 19 0.47
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAATAAAAATAAAAATAAAGG
Found at i:93194861 original size:20 final size:20
Alignment explanation
Indices: 93194836--93194876 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
93194826 TTCAACCATA
93194836 AAGATTCATAGCCATTTCAT
1 AAGATTCATAGCCATTTCAT
93194856 AAGATTCATAGCCATTTCAT
1 AAGATTCATAGCCATTTCAT
93194876 A
1 A
93194877 GAATAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.34
Consensus pattern (20 bp):
AAGATTCATAGCCATTTCAT
Found at i:93195110 original size:42 final size:42
Alignment explanation
Indices: 93195061--93195186 Score: 116
Period size: 43 Copynumber: 3.0 Consensus size: 42
93195051 TCAATCCCTC
* *
93195061 TGTCCCAGACAGGGTCGTACACGAAATCAGATACGATGTC-G
1 TGTCCCAGACACGGTCTTACACGAAATCAGATACGATGTCTG
* * * *
93195102 ATGTCCCAGACATGGTCTTATATGTAAATCTTA-AT-CGATGCCTG
1 -TGTCCCAGACACGGTCTTACACG-AAATC--AGATACGATGTCTG
93195146 TGTCCCAGACACGGTCTTACACGATATATCAGATA-GATGTC
1 TGTCCCAGACACGGTCTTACACGA-A-ATCAGATACGATGTC
93195187 AACATTCCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
42 21 0.31
43 39 0.58
44 6 0.09
45 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTACACGAAATCAGATACGATGTCTG
Found at i:93199381 original size:46 final size:46
Alignment explanation
Indices: 93199327--93199504 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
93199317 GATATTTGGG
93199327 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *** * * * *
93199373 TATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-A
* *
93199420 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** *
93199466 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93199505 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
46 73 0.68
47 35 0.32
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:93199484 original size:93 final size:93
Alignment explanation
Indices: 93199325--93199496 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
93199315 AGGATATTTG
* *
93199325 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATATCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
93199390 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
93199418 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
93199483 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
93199497 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:93202511 original size:30 final size:30
Alignment explanation
Indices: 93202433--93202520 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
93202423 CATAGTATCG
* * * *
93202433 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
93202463 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
93202493 TATCTTGGATTTCTTTATT-TGGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
93202521 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 9 0.18
30 40 0.80
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:93202519 original size:14 final size:15
Alignment explanation
Indices: 93202442--93202521 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
93202432 GTATCTTGGG
*
93202442 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
93202457 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
93202472 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
93202487 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
93202502 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
93202516 TTTCTT
1 TTTCTT
93202522 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 11 0.20
15 43 0.78
16 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:93204494 original size:46 final size:45
Alignment explanation
Indices: 93204441--93204616 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
93204431 TATTTGGGCA
93204441 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
93204487 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
93204534 TCAGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
93204580 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93204617 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 64 0.60
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:93204596 original size:93 final size:93
Alignment explanation
Indices: 93204437--93204608 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
93204427 AGGATATTTG
* * *
93204437 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
93204502 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
93204530 GGCATCAGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGA
93204594 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
93204609 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCAGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:93214911 original size:13 final size:13
Alignment explanation
Indices: 93214895--93214936 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
93214885 TAATATTCTG
93214895 AAAATATTAA-AAC
1 AAAA-ATTAAGAAC
93214908 AAAAATTAAGAAC
1 AAAAATTAAGAAC
*
93214921 ACATAATTAAGAAC
1 A-AAAATTAAGAAC
93214935 AA
1 AA
93214937 GAATAAGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 5 0.19
13 9 0.35
14 12 0.46
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.19
Consensus pattern (13 bp):
AAAAATTAAGAAC
Found at i:93217785 original size:45 final size:45
Alignment explanation
Indices: 93217721--93217810 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
93217711 CAGTAATGAG
93217721 TTAGAAGATGAGCAAATCTGAGAATGTTGAGATGCCAAGACAGCT
1 TTAGAAGATGAGCAAATCTGAGAATGTTGAGATGCCAAGACAGCT
93217766 TTAGAAGATGAGCAAATCTGAGAATGTTGAGATGCCAAGACAGCT
1 TTAGAAGATGAGCAAATCTGAGAATGTTGAGATGCCAAGACAGCT
93217811 AAAAGAGTTG
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:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (45 bp):
TTAGAAGATGAGCAAATCTGAGAATGTTGAGATGCCAAGACAGCT
Found at i:93220642 original size:12 final size:12
Alignment explanation
Indices: 93220625--93220651 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
93220615 GAAAATAGGG
93220625 TTTTAGCGGCGT
1 TTTTAGCGGCGT
93220637 TTTTAGCGGCGT
1 TTTTAGCGGCGT
93220649 TTT
1 TTT
93220652 ATCAAAAAAC
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:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:93220769 original size:41 final size:41
Alignment explanation
Indices: 93220697--93220833 Score: 206
Period size: 41 Copynumber: 3.4 Consensus size: 41
93220687 GTTTGACCAA
* *
93220697 AAACGCCG-TTAAAAACAGAGCAATAACGGCGTTTTTGGTC
1 AAACGCCGCTAAAAAACAGAGCAATAGCGGCGTTTTTGGTC
*
93220737 AAACGCCGCTAAAAAACAGAGCAATAGTGGCGTTTTTGGTC
1 AAACGCCGCTAAAAAACAGAGCAATAGCGGCGTTTTTGGTC
* *
93220778 AAACGCCGCTAAAAAACTGAGCAATAGCGGCGTTTTTGCTC
1 AAACGCCGCTAAAAAACAGAGCAATAGCGGCGTTTTTGGTC
93220819 AAAACGCCGC-AAAAA
1 -AAACGCCGCTAAAAA
93220834 GTCATATAAC
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
40 8 0.09
41 72 0.81
42 9 0.10
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (41 bp):
AAACGCCGCTAAAAAACAGAGCAATAGCGGCGTTTTTGGTC
Found at i:93220891 original size:46 final size:46
Alignment explanation
Indices: 93220838--93220969 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 46
93220828 CAAAAAGTCA
*
93220838 TATAACCCCTAAAATCCTAAACCCAAAAAAATCATAAACACTAATT
1 TATAACCCCTAAAATCCTAAACCCAAAAAAATCATAAACACTAATC
* *
93220884 TATAACCCCTAAAATCCCTAACCCCCTAAAAAA-CACTAAACACTAATC
1 TATAACCCCTAAAAT-CCTAA-ACCCAAAAAAATCA-TAAACACTAATC
*** *
93220932 TATAACTTTTAAAACCCTAAACCCCAAAAAACATCATA
1 TATAACCCCTAAAATCCTAAA-CCCAAAAAA-ATCATA
93220970 TGGATGTTGA
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
46 15 0.21
47 20 0.28
48 34 0.48
49 2 0.03
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (46 bp):
TATAACCCCTAAAATCCTAAACCCAAAAAAATCATAAACACTAATC
Found at i:93221121 original size:15 final size:15
Alignment explanation
Indices: 93221092--93221135 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
93221082 ATATTTAAGA
*
93221092 TTTAAGG-TCTATGG
1 TTTAAGGTTTTATGG
*
93221106 TTTAGGGTTTTATGG
1 TTTAAGGTTTTATGG
*
93221121 TTTAAGGTTTAATGG
1 TTTAAGGTTTTATGG
93221136 CCATGGGTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (15 bp):
TTTAAGGTTTTATGG
Found at i:93221277 original size:37 final size:36
Alignment explanation
Indices: 93221227--93221357 Score: 208
Period size: 37 Copynumber: 3.6 Consensus size: 36
93221217 TTTTCGTTTG
*
93221227 TCGCCTTCGCCCCGTGCATCGTAACCCATCCCTTCCA
1 TCGCCTTCGCCCCGTGCATCGCAACCCATCCC-TCCA
93221264 TCGCCTTCGCCCCGTGCATCGCAACCCATCCCCTCCA
1 TCGCCTTCGCCCCGTGCATCGCAACCCAT-CCCTCCA
*
93221301 TCGCCTTCGCCCCGTGCGTCGCAACCCATCTCCTCCA
1 TCGCCTTCGCCCCGTGCATCGCAACCCATC-CCTCCA
*
93221338 TCGCCTTCGCCCTGTGCATC
1 TCGCCTTCGCCCCGTGCATC
93221358 TGCTGCATAG
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
36 1 0.01
37 84 0.95
38 3 0.03
ACGTcount: A:0.11, C:0.50, G:0.15, T:0.23
Consensus pattern (36 bp):
TCGCCTTCGCCCCGTGCATCGCAACCCATCCCTCCA
Found at i:93221684 original size:7 final size:7
Alignment explanation
Indices: 93221669--93221741 Score: 65
Period size: 7 Copynumber: 10.0 Consensus size: 7
93221659 AAATCTTCAA
*
93221669 AAAAATT
1 AAAATTT
93221676 AAAATTT
1 AAAATTT
93221683 AAAAATTT
1 -AAAATTT
93221691 AAAATTT
1 AAAATTT
*
93221698 AAAATTA
1 AAAATTT
*
93221705 AAAATTAA
1 AAAATT-T
*
93221713 AAAACTTA
1 AAAA-TTT
93221721 AAAATTT
1 AAAATTT
*
93221728 AATATTT
1 AAAATTT
*
93221735 AATATTT
1 AAAATTT
93221742 TAGTCCATAT
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
7 40 0.68
8 17 0.29
9 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:93221687 original size:8 final size:8
Alignment explanation
Indices: 93221643--93221729 Score: 74
Period size: 8 Copynumber: 10.9 Consensus size: 8
93221633 TTTATACAAT
93221643 AATTTAAA
1 AATTTAAA
*
93221651 AGTTATAAA
1 AATT-TAAA
93221660 AATCTTCAAAA
1 AAT-TT--AAA
*
93221671 AAATT-AA
1 AATTTAAA
93221678 AATTTAAA
1 AATTTAAA
93221686 AATTT-AA
1 AATTTAAA
93221693 AATTT-AA
1 AATTTAAA
93221700 AA-TTAAA
1 AATTTAAA
*
93221707 AATTAAAA
1 AATTTAAA
*
93221715 AACTTAAA
1 AATTTAAA
93221723 AATTTAA
1 AATTTAA
93221730 TATTTAATAT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
6 2 0.03
7 21 0.33
8 26 0.41
9 7 0.11
10 3 0.05
11 5 0.08
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (8 bp):
AATTTAAA
Found at i:93221692 original size:15 final size:15
Alignment explanation
Indices: 93221669--93221729 Score: 81
Period size: 14 Copynumber: 4.1 Consensus size: 15
93221659 AAATCTTCAA
93221669 AAAAATT-AAAATTT
1 AAAAATTAAAAATTT
*
93221683 AAAAATTTAAAATTT
1 AAAAATTAAAAATTT
*
93221698 -AAAATTAAAAATTA
1 AAAAATTAAAAATTT
93221712 AAAAACTTAAAAATTT
1 AAAAA-TTAAAAATTT
93221728 AA
1 AA
93221730 TATTTAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
14 19 0.46
15 11 0.27
16 11 0.27
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATTAAAAATTT
Found at i:93226259 original size:15 final size:15
Alignment explanation
Indices: 93226239--93226267 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93226229 AATTCAATTT
93226239 ATAATTTGTTGCTAC
1 ATAATTTGTTGCTAC
93226254 ATAATTTGTTGCTA
1 ATAATTTGTTGCTA
93226268 ATATTCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (15 bp):
ATAATTTGTTGCTAC
Found at i:93227053 original size:19 final size:19
Alignment explanation
Indices: 93227030--93227077 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
93227020 ATTTAATCTA
93227030 ATTTTTATTATT-TA-TTTT
1 ATTTTTATT-TTATATTTTT
*
93227048 AGTTTTGATTTTATATTTTT
1 A-TTTTTATTTTATATTTTT
93227068 ATTTTTATTT
1 ATTTTTATTT
93227078 AATAATGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 3 0.12
19 17 0.68
20 5 0.20
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (19 bp):
ATTTTTATTTTATATTTTT
Found at i:93227216 original size:15 final size:16
Alignment explanation
Indices: 93227186--93227219 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
93227176 GACTTTATAA
93227186 TATTTTTATAATATTT
1 TATTTTTATAATATTT
*
93227202 TATTTTTTTAA-ATTT
1 TATTTTTATAATATTT
93227217 TAT
1 TAT
93227220 GACCTTTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTTTATAATATTT
Found at i:93227265 original size:43 final size:42
Alignment explanation
Indices: 93227218--93227448 Score: 173
Period size: 43 Copynumber: 5.4 Consensus size: 42
93227208 TTTAAATTTT
* *
93227218 ATGACCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGTC
* * ** *
93227260 AATGACTTTTAG-GGACGTTTGTGGAAAAAGCGTTGCTAAAGGCC
1 -ATGACCTTTAGCGG-CGTTTGTGGGAAAAGCGCCGCTAAA-GTC
** ** * *
93227304 ATGGTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGTTAAATTCC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGT-C
* * * *
93227347 ATGGACTTTTAGTGGCGTTTGT-AGATAAAGCGCTGCTAAAAGTC
1 AT-GACCTTTAGCGGCGTTTGTGGGA-AAAGCGCCGCT-AAAGTC
* *
93227391 ATGGA-CTTTAGCGGCGTTTGT-GGATAAAGCGTCGTTAAAGATC
1 AT-GACCTTTAGCGGCGTTTGTGGGA-AAAGCGCCGCTAAAG-TC
93227434 ATGACCTTTAGCGGC
1 ATGACCTTTAGCGGC
93227449 ATTTTTTTAA
Statistics
Matches: 150, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
42 8 0.05
43 104 0.69
44 34 0.23
45 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (42 bp):
ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGTC
Found at i:93227384 original size:87 final size:86
Alignment explanation
Indices: 93227223--93227430 Score: 256
Period size: 87 Copynumber: 2.4 Consensus size: 86
93227213 ATTTTATGAC
* * * *
93227223 CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGCAATGACTTTTAGGGACGTTTGTGGAAAA
1 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGTTAAAGGCAATGACTTTTAGGGACGTTTGTAGAAAA
* * *
93227288 AGCGTTGCTAAAGGCCATGGT
66 AGCGCTGCTAAAAGCCATGGA
* ** * *
93227309 CTTTAGCGGCGTTTGTGAAAAAAGCGCCGTTAAATTCCATGGACTTTTAGTGG-CGTTTGTAGAT
1 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGTTAAAGGCAAT-GACTTTTAG-GGACGTTTGTAGAA
*
93227373 AAAGCGCTGCTAAAAGTCATGGA
64 AAAGCGCTGCTAAAAGCCATGGA
* *
93227396 CTTTAGCGGCGTTTGTGGATAAAGCGTCGTTAAAG
1 CTTTAGCGGCGTTTGTGGAAAAAGCGCCGTTAAAG
93227431 ATCATGACCT
Statistics
Matches: 103, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
86 33 0.32
87 68 0.66
88 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (86 bp):
CTTTAGCGGCGTTTGTGGAAAAAGCGCCGTTAAAGGCAATGACTTTTAGGGACGTTTGTAGAAAA
AGCGCTGCTAAAAGCCATGGA
Found at i:93236985 original size:23 final size:21
Alignment explanation
Indices: 93236945--93236986 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
93236935 GTCCTATGGT
*
93236945 CACATGGGGGTGTGCCTTGAC
1 CACATGGGGGTGTACCTTGAC
93236966 CACATGGGCGTGTGTACCTTG
1 CACATGGG-G-GTGTACCTTG
93236987 TATATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.14, C:0.24, G:0.36, T:0.26
Consensus pattern (21 bp):
CACATGGGGGTGTACCTTGAC
Found at i:93247501 original size:21 final size:21
Alignment explanation
Indices: 93247448--93247506 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
93247438 TTAAAATGAG
*
93247448 AATAAT-ATAATATAA-ATAA
1 AATAATAAGAATATAATATAA
93247467 AAT-ATAAGGAAATATAATATAA
1 AATAATAA-G-AATATAATATAA
93247489 AATAATAAGAATATAATA
1 AATAATAAGAATATAATA
93247507 AGTATTTTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 2 0.06
19 4 0.12
21 16 0.47
22 8 0.24
23 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AATAATAAGAATATAATATAA
Found at i:93247506 original size:26 final size:24
Alignment explanation
Indices: 93247451--93247506 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
93247441 AAATGAGAAT
93247451 AATATAATATAAATAAAATATAAGG
1 AATATAATATAAATAAAATATAA-G
*
93247476 AA-AT-ATA-ATATAAAATAATAAG
1 AATATAATATAAATAAAAT-ATAAG
93247498 AATATAATA
1 AATATAATA
93247507 AGTATTTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 11 0.41
23 9 0.33
24 5 0.19
25 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (24 bp):
AATATAATATAAATAAAATATAAG
Found at i:93247508 original size:11 final size:10
Alignment explanation
Indices: 93247449--93247507 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
93247439 TAAAATGAGA
*
93247449 ATAATATAAT
1 ATAATAAAAT
93247459 ATAAATAAAAT
1 AT-AATAAAAT
**
93247470 ATAAGGAAAT
1 ATAATAAAAT
93247480 ATAATATAAA-
1 ATAATA-AAAT
93247490 ATAATAAGAAT
1 ATAATAA-AAT
93247501 ATAATAA
1 ATAATAA
93247508 GTATTTTGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
9 1 0.03
10 20 0.50
11 19 0.47
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (10 bp):
ATAATAAAAT
Found at i:93248387 original size:22 final size:21
Alignment explanation
Indices: 93248361--93248402 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
93248351 ATTAGGGATA
93248361 AATTAGAAATAAATAAAAATGG
1 AATTAGAAAT-AATAAAAATGG
* *
93248383 AATTATAAATATTAAAAATG
1 AATTAGAAATAATAAAAATG
93248403 CAAGAGGACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (21 bp):
AATTAGAAATAATAAAAATGG
Found at i:93250641 original size:41 final size:41
Alignment explanation
Indices: 93250584--93250740 Score: 190
Period size: 41 Copynumber: 3.8 Consensus size: 41
93250574 CGGCGTTGCA
* *
93250584 AAAAACTGAACAATAGCGGCCTTTTTGGCCAAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCAAAACGCCACT
* * *
93250625 AAAAACTGATCAATAGCGGTGTTTTTAGCTAAAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTTGGCCAAAACGCCACT
* * *
93250666 AAAAACTGATGAATAGCGGCGTTTTTATGTC-AAACGCCACT
1 AAAAACTGATCAATAGCGGCGTTTTT-GGCCAAAACGCCACT
* * *
93250707 AAAAACTGAGCAGTAGCGGCGTTTGTGGTCCAAA
1 AAAAACTGATCAATAGCGGCGTTTTTGG-CCAAA
93250741 CACCGCAAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 1 0.01
41 93 0.96
42 3 0.03
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (41 bp):
AAAAACTGATCAATAGCGGCGTTTTTGGCCAAAACGCCACT
Found at i:93252383 original size:26 final size:26
Alignment explanation
Indices: 93252364--93252418 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
93252354 ATTTTTTTTG
*
93252364 TATTATCTATTATATTATTTATATTT
1 TATTATATATTATATTATTTATATTT
* *
93252390 TATTGTATATTATATTATGTATAATTT
1 TATTATATATTATATTATTTAT-ATTT
93252417 TA
1 TA
93252419 AAATTTGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (26 bp):
TATTATATATTATATTATTTATATTT
Found at i:93252410 original size:14 final size:14
Alignment explanation
Indices: 93252371--93252412 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
93252361 TTGTATTATC
*
93252371 TATTATATTATTTA
1 TATTATATTATGTA
*
93252385 TATTTTA-T-TGTA
1 TATTATATTATGTA
93252397 TATTATATTATGTA
1 TATTATATTATGTA
93252411 TA
1 TA
93252413 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 9 0.39
13 2 0.09
14 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (14 bp):
TATTATATTATGTA
Found at i:93252722 original size:16 final size:18
Alignment explanation
Indices: 93252701--93252735 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
93252691 TCATAATTGG
93252701 TTATTTATT-TTT-GTAT
1 TTATTTATTATTTAGTAT
93252717 TTATTTATTATTTAGTAT
1 TTATTTATTATTTAGTAT
93252735 T
1 T
93252736 GTGTTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 3 0.18
18 5 0.29
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (18 bp):
TTATTTATTATTTAGTAT
Found at i:93264506 original size:45 final size:45
Alignment explanation
Indices: 93264457--93264882 Score: 262
Period size: 45 Copynumber: 9.5 Consensus size: 45
93264447 GACGGGGAGT
*
93264457 AGATCGAAGATAACAGATCTGACATTCGTGTGTTTACATCGAAGC
1 AGATCGAAGATAACAGATTTGACATTCGTGTGTTTACATCGAAGC
* ** * ** * *
93264502 AGATCGAAGATGACAGATTTGGTATCTCCGTAT-TAGACA-GGGAGC
1 AGATCGAAGATAACAGATTTGACAT-T-CGTGTGTTTACATCGAAGC
** * *
93264547 AGATCGAAGATAGTAGATCTGACATTCATGTGTTTACATCGAAGC
1 AGATCGAAGATAACAGATTTGACATTCGTGTGTTTACATCGAAGC
* * * * * * *
93264592 AGATCGAAGATGATAGATTTGGCATCTC-TGTATTAGACA-GGGAGC
1 AGATCGAAGATAACAGATTTGACAT-TCGTGTGTT-TACATCGAAGC
*
93264637 AGATCGAAGATAGCAGATTTGACATTCGTGTGTTTACATCGAAGC
1 AGATCGAAGATAACAGATTTGACATTCGTGTGTTTACATCGAAGC
* * * * * ** * * *
93264682 AGATCGAAAATGATAGATTTGGCGTCTC-CAT-ATTAGA-CGGGGAGC
1 AGATCGAAGATAACAGATTTGACAT-TCGTGTGTTTACATC--GAAGC
* * * * *
93264727 AGGTCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAAC
1 AGATCGAAGATAACAGATTTGACATTCGTGTGTTTACATCGAAGC
* * *** * *
93264772 AGATCGAAGATGACAGATTTG--GTGTC-TCCATATTAGA-CGGGGAGC
1 AGATCGAAGATAACAGATTTGACAT-TCGTGTGT-TTACATC--GAAGC
* *
93264817 AGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGC
1 AGATCGAAGATAACAGATTTGACATTCGTGTGTTTACATCGAAGC
*
93264862 AGATCGAAGATAGCAGATTTG
1 AGATCGAAGATAACAGATTTG
93264883 GCATCTCTGT
Statistics
Matches: 274, Mismatches: 85, Indels: 44
0.68 0.21 0.11
Matches are distributed among these distances:
43 8 0.03
44 22 0.08
45 213 0.78
46 22 0.08
47 9 0.03
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (45 bp):
AGATCGAAGATAACAGATTTGACATTCGTGTGTTTACATCGAAGC
Found at i:93264535 original size:90 final size:90
Alignment explanation
Indices: 93264415--93264905 Score: 725
Period size: 90 Copynumber: 5.5 Consensus size: 90
93264405 TAGGGAACAA
* ** * *
93264415 ATCGAAGAAG-CAGATTTGGCATCTTTGTATTAGACGGGGAGTAGATCGAAGATAACAGATCTGA
1 ATCGAAGATGACAGATTTGGCATCTCCGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
93264479 CATTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* * *
93264504 ATCGAAGATGACAGATTTGGTATCTCCGTATTAGACAGGGAGCAGATCGAAGATAGTAGATCTGA
1 ATCGAAGATGACAGATTTGGCATCTCCGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
*
93264569 CATTCATGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* * * *
93264594 ATCGAAGATGATAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATTTGA
1 ATCGAAGATGACAGATTTGGCATCTCCGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
93264659 CATTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* * * * * *
93264684 ATCGAAAATGATAGATTTGGCGTCTCCATATTAGACGGGGAGCAGGTCAAAGATAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCATCTCCGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
*
93264749 CATTCGTGTGTTTACATCGAAACAG
66 CATTCGTGTGTTTACATCGAAGCAG
** *
93264774 ATCGAAGATGACAGATTTGGTGTCTCCATATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCATCTCCGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
93264839 CATTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* * *
93264864 ATCGAAGAT-AGCAGATTTGGCATCTCTGTATTTGACGAGGAG
1 ATCGAAGATGA-CAGATTTGGCATCTCCGTATTAGACGGGGAG
93264906 TAAATCAAAG
Statistics
Matches: 364, Mismatches: 36, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
89 10 0.03
90 354 0.97
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (90 bp):
ATCGAAGATGACAGATTTGGCATCTCCGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
CATTCGTGTGTTTACATCGAAGCAG
Found at i:93266447 original size:25 final size:26
Alignment explanation
Indices: 93266406--93266455 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
93266396 TTATATATAC
93266406 ATATTTTTATAATTTATTTATTTTAA
1 ATATTTTTATAATTTATTTATTTTAA
93266432 ATATTTTGTAT-A-TTATTTATTTTA
1 ATATTTT-TATAATTTATTTATTTTA
93266456 CTTTAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 12 0.52
26 8 0.35
27 3 0.13
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (26 bp):
ATATTTTTATAATTTATTTATTTTAA
Found at i:93266545 original size:14 final size:14
Alignment explanation
Indices: 93266506--93266547 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
93266496 TTGTATTATC
*
93266506 TATTATATTATTTA
1 TATTATATTATGTA
*
93266520 TATTTTA-T-TGTA
1 TATTATATTATGTA
93266532 TATTATATTATGTA
1 TATTATATTATGTA
93266546 TA
1 TA
93266548 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 9 0.39
13 2 0.09
14 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (14 bp):
TATTATATTATGTA
Found at i:93266966 original size:41 final size:42
Alignment explanation
Indices: 93266921--93267000 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
93266911 ATTTGTTATT
* *
93266921 TTTATGTTAT-TTATTGTTTTCA-TATATTTGCATGAAAATTG
1 TTTAT-TTATGTTATTATTTTAAGTATATTTGCATGAAAATTG
*
93266962 TTTATTTATGTTGTTATTTTAAGTTATATTTGCATGAAA
1 TTTATTTATGTTATTATTTTAAG-TATATTTGCATGAAA
93267001 TATTATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 4 0.12
41 14 0.42
43 15 0.45
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.56
Consensus pattern (42 bp):
TTTATTTATGTTATTATTTTAAGTATATTTGCATGAAAATTG
Found at i:93267972 original size:21 final size:21
Alignment explanation
Indices: 93267948--93267996 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
93267938 CCCTTAAATA
93267948 CTAAACATTAAATAC-TAAACC
1 CTAAACATTAAA-ACATAAACC
**
93267969 CTAAATTTTAAAACATAAACC
1 CTAAACATTAAAACATAAACC
93267990 CTAAACA
1 CTAAACA
93267997 CTAATCTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.24
Consensus pattern (21 bp):
CTAAACATTAAAACATAAACC
Found at i:93267973 original size:14 final size:14
Alignment explanation
Indices: 93267933--93267974 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
93267923 ATGGCTTTCT
93267933 CTAAACCCTTAAATA
1 CTAAACCC-TAAATA
**
93267948 CTAAACATTAAATA
1 CTAAACCCTAAATA
93267962 CTAAACCCTAAAT
1 CTAAACCCTAAAT
93267975 TTTAAAACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (14 bp):
CTAAACCCTAAATA
Found at i:93268246 original size:36 final size:36
Alignment explanation
Indices: 93268168--93268247 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 36
93268158 GTTTAAGGCC
*
93268168 TATGGTTTAGGGTTCAATGGTAGAATATATTTTAAGTT
1 TATGGTTTAGGGTTCAATGGT--AATATATGTTAAGTT
93268206 TATGGTTTAGGGTTCAATGGT-ATAGTATGTTAAGTT
1 TATGGTTTAGGGTTCAATGGTAATA-TATGTTAAGTT
93268242 TATGGT
1 TATGGT
93268248 ATGGGCTGGG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 3 0.08
36 16 0.40
38 21 0.52
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (36 bp):
TATGGTTTAGGGTTCAATGGTAATATATGTTAAGTT
Found at i:93269337 original size:39 final size:40
Alignment explanation
Indices: 93269294--93269396 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
93269284 CTCTAGAGGC
* *
93269294 ATTAGCGGCGTTTTTCTAAAAACG-C-CATAAAGATCGAGA
1 ATTAGCGGCGCTTTTGTAAAAACGCCGCA-AAAGATCGAGA
* *
93269333 ATTAGGGGCGCTTTTGTAAAAACGCCGCAAAAGATTGAGA
1 ATTAGCGGCGCTTTTGTAAAAACGCCGCAAAAGATCGAGA
* *
93269373 TTTAGTGGCGCTTTTGTAAAAACG
1 ATTAGCGGCGCTTTTGTAAAAACG
93269397 TTGCTAAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 21 0.38
40 33 0.59
41 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTGTAAAAACGCCGCAAAAGATCGAGA
Found at i:93271884 original size:14 final size:15
Alignment explanation
Indices: 93271865--93271902 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
93271855 AATCTTCAAT
93271865 GATATG-CAATCTTA
1 GATATGACAATCTTA
93271879 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
93271896 GATATGA
1 GATATGA
93271903 TTTTGTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:93271891 original size:17 final size:17
Alignment explanation
Indices: 93271871--93271903 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
93271861 CAATGATATG
93271871 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
93271888 CAATCTTAGATATGAT
1 CAATCTTAGATATGAT
93271904 TTTGTAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:93277063 original size:14 final size:14
Alignment explanation
Indices: 93277044--93277114 Score: 81
Period size: 14 Copynumber: 4.9 Consensus size: 14
93277034 TTCTATTTCA
*
93277044 AAAAAAAGAAAAGG
1 AAAAAAAGAAAAAG
93277058 AAAAAAAG-AAAAG
1 AAAAAAAGAAAAAG
* *
93277071 AAAAAGAGAAAAAA
1 AAAAAAAGAAAAAG
93277085 AATAAAAAGAAAAAAG
1 AA-AAAAAG-AAAAAG
93277101 AGAAAAAAGAAAAA
1 A-AAAAAAGAAAAA
93277115 AAATGGAGAG
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
13 11 0.23
14 14 0.29
15 10 0.21
16 12 0.25
17 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:93277064 original size:9 final size:8
Alignment explanation
Indices: 93277044--93277116 Score: 69
Period size: 8 Copynumber: 8.9 Consensus size: 8
93277034 TTCTATTTCA
93277044 AAAAAAAG
1 AAAAAAAG
*
93277052 AAAAGGAAAA
1 AAAA--AAAG
93277062 AAAGAAAAG
1 AAA-AAAAG
*
93277071 AAAAAGAG
1 AAAAAAAG
93277079 AAAAAAA-
1 AAAAAAAG
*
93277086 ATAAAAAG
1 AAAAAAAG
93277094 -AAAAAAG
1 AAAAAAAG
93277101 AGAAAAAAG
1 A-AAAAAAG
93277110 AAAAAAA
1 AAAAAAA
93277117 ATGGAGAGGC
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
7 12 0.23
8 20 0.38
9 14 0.26
10 6 0.11
11 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (8 bp):
AAAAAAAG
Found at i:93277083 original size:22 final size:21
Alignment explanation
Indices: 93277052--93277117 Score: 80
Period size: 22 Copynumber: 3.1 Consensus size: 21
93277042 CAAAAAAAAG
*
93277052 AAAAGGAAAAAAAGAAAAGAA
1 AAAAGAAAAAAAAGAAAAGAA
*
93277073 AAAGAGAAAAAAAATAAAAAGAA
1 AAA-AGAAAAAAAA-GAAAAGAA
*
93277096 AAAAGAGAAAAAAGAAAA-AA
1 AAAAGAAAAAAAAGAAAAGAA
93277116 AA
1 AA
93277118 TGGAGAGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
20 4 0.10
21 7 0.18
22 18 0.46
23 10 0.26
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAGAAAAAAAAGAAAAGAA
Found at i:93277114 original size:6 final size:6
Alignment explanation
Indices: 93277046--93277098 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
93277036 CTATTTCAAA
* * * *
93277046 AAAAAG AAAAGG AAAAAA AGAAAAG AAAAAG AGAAA- AAAAAT AAAAAG
1 AAAAAG AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG AAAAAG AAAAAG
93277094 AAAAA
1 AAAAA
93277099 AGAGAAAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
5 4 0.11
6 29 0.76
7 5 0.13
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:93277117 original size:9 final size:9
Alignment explanation
Indices: 93277043--93277117 Score: 59
Period size: 9 Copynumber: 8.6 Consensus size: 9
93277033 CTTCTATTTC
93277043 AAAAA-AAA
1 AAAAAGAAA
* *
93277051 GAAAAGGAA
1 AAAAAGAAA
93277060 AAAAAGAAAA
1 AAAAAG-AAA
*
93277070 GAAAAAGAGA
1 -AAAAAGAAA
*
93277080 AAAAA-AAT
1 AAAAAGAAA
93277088 AAAAAG--A
1 AAAAAGAAA
*
93277095 AAAAAGAGA
1 AAAAAGAAA
93277104 AAAAAGAAA
1 AAAAAGAAA
93277113 AAAAA
1 AAAAA
93277118 TGGAGAGGCC
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
7 6 0.12
8 10 0.19
9 26 0.50
10 4 0.08
11 6 0.12
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:93280661 original size:13 final size:14
Alignment explanation
Indices: 93280645--93280676 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
93280635 TTATTATAAA
93280645 TAATTATAAT-GTT
1 TAATTATAATGGTT
93280658 TAATTATAATGGTT
1 TAATTATAATGGTT
93280672 TAATT
1 TAATT
93280677 TGTCGTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
TAATTATAATGGTT
Found at i:93281413 original size:31 final size:31
Alignment explanation
Indices: 93281371--93281436 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
93281361 TGTATTTTTT
*
93281371 ATGTTACATTTGCTATTTTTGGTTGGATTTC
1 ATGTTACATTTGCTATTTTTGGTTGGATTTA
* *
93281402 ATGTTATATTTGCTGTTTTTGGTTGGATTTA
1 ATGTTACATTTGCTATTTTTGGTTGGATTTA
93281433 ATGT
1 ATGT
93281437 AGGAAGGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.17, C:0.06, G:0.21, T:0.56
Consensus pattern (31 bp):
ATGTTACATTTGCTATTTTTGGTTGGATTTA
Found at i:93284414 original size:8 final size:8
Alignment explanation
Indices: 93284401--93284429 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
93284391 TTTTCCCTTT
93284401 CCCACGCA
1 CCCACGCA
93284409 CCCACGCA
1 CCCACGCA
93284417 CCCACGCA
1 CCCACGCA
93284425 CCCAC
1 CCCAC
93284430 ACGCACAAGC
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:0.24, C:0.66, G:0.10, T:0.00
Consensus pattern (8 bp):
CCCACGCA
Found at i:93284614 original size:22 final size:24
Alignment explanation
Indices: 93284571--93284629 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
93284561 GTTGGTTTAG
* *
93284571 TATTTT-TTTAATTTCATTA-TTT
1 TATTTTATTTTATTTCATAATTTT
93284593 TATTTTATTTTATTTCA-AATTTT
1 TATTTTATTTTATTTCATAATTTT
*
93284616 TAGTTTA-TTTATTT
1 TATTTTATTTTATTT
93284630 TCTCTTCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 14 0.44
23 18 0.56
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (24 bp):
TATTTTATTTTATTTCATAATTTT
Found at i:93286344 original size:6 final size:6
Alignment explanation
Indices: 93286319--93286406 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
93286309 ATTGAGTCTA
* *
93286319 TTTATC TTTATGT TTT-TT TTTATTTT TTTATC TTTATT TTTATT TTTA-T
1 TTTATT TTTAT-T TTTATT TTTA--TT TTTATT TTTATT TTTATT TTTATT
**
93286368 TTTCCT TTTATT TTTATT TTTATT TTGT-TT TTCTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT-TATT TT-TATT TT
93286407 GAACTTTATT
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
5 8 0.12
6 46 0.68
7 8 0.12
8 6 0.09
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:93286355 original size:26 final size:26
Alignment explanation
Indices: 93286319--93286393 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 26
93286309 ATTGAGTCTA
93286319 TTTATCTTTATGTTTT-TTTTTATTTT
1 TTTATCTTTAT-TTTTATTTTTATTTT
93286345 TTTATCTTTATTTTTATTTTTATTTTCCT
1 TTTATCTTTATTTTTATTTTTA-TTT--T
*
93286374 TTTATTTTTATTTTTATTTT
1 TTTATCTTTATTTTTATTTT
93286394 GTTTTTCTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 4 0.09
26 17 0.39
27 3 0.07
29 20 0.45
ACGTcount: A:0.13, C:0.05, G:0.01, T:0.80
Consensus pattern (26 bp):
TTTATCTTTATTTTTATTTTTATTTT
Found at i:93286370 original size:23 final size:23
Alignment explanation
Indices: 93286319--93286393 Score: 82
Period size: 23 Copynumber: 3.1 Consensus size: 23
93286309 ATTGAGTCTA
93286319 TTTATCTTTATGTTTT-TTTTTATTTT
1 TTTATCTTTAT-TTTTATTTTTA---T
93286345 TTTATCTTTATTTTTATTTTTAT
1 TTTATCTTTATTTTTATTTTTAT
*
93286368 TTT-CCTTTTATTTTTATTTTTAT
1 TTTATC-TTTATTTTTATTTTTAT
93286391 TTT
1 TTT
93286394 GTTTTTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
22 1 0.02
23 24 0.52
25 4 0.09
26 17 0.37
ACGTcount: A:0.13, C:0.05, G:0.01, T:0.80
Consensus pattern (23 bp):
TTTATCTTTATTTTTATTTTTAT
Found at i:93286399 original size:23 final size:23
Alignment explanation
Indices: 93286331--93286399 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
93286321 TATCTTTATG
*
93286331 TTTT-TTTTTATTTTT-TTATC-
1 TTTTATTTTTATTTTTATTTTCT
*
93286351 -TTTATTTTTATTTTTATTTTCC
1 TTTTATTTTTATTTTTATTTTCT
*
93286373 TTTTATTTTTATTTTTATTTTGT
1 TTTTATTTTTATTTTTATTTTCT
93286396 TTTT
1 TTTT
93286400 CTATTTTGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.07
20 11 0.26
21 4 0.10
23 24 0.57
ACGTcount: A:0.12, C:0.04, G:0.01, T:0.83
Consensus pattern (23 bp):
TTTTATTTTTATTTTTATTTTCT
Found at i:93300560 original size:46 final size:45
Alignment explanation
Indices: 93300507--93300682 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
93300497 TATTTGGATA
93300507 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
93300553 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
93300600 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
93300646 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93300683 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:93300665 original size:93 final size:93
Alignment explanation
Indices: 93300506--93300674 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 93
93300496 ATATTTGGAT
* *
93300506 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
*
93300571 AGTCCGAGTTCGAGAGATGTAACTAGGC
66 AGTCCAAGTTCGAGAGATGTAACTAGGC
* *
93300599 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
93300664 AGTCCAAGTTC
66 AGTCCAAGTTC
93300675 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
AGTCCAAGTTCGAGAGATGTAACTAGGC
Found at i:93303942 original size:46 final size:46
Alignment explanation
Indices: 93303892--93304064 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
93303882 TGGTTGAGCA
93303892 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * * *
93303938 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ATG
*
93303985 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
93304031 CCCGACCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
93304065 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 66 0.63
47 36 0.35
48 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:93304050 original size:93 final size:93
Alignment explanation
Indices: 93303891--93304059 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
93303881 ATGGTTGAGC
* *
93303891 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
93303956 AGTCCGAGTTCGTGAAATGTAACTAGGT
66 AGTCCGAGTTCGTGAAATGTAACTAGGT
* *
93303984 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGACCTTGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
93304049 AGTCCGAGTTC
66 AGTCCGAGTTC
93304060 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAAATGTAACTAGGT
Found at i:93312508 original size:13 final size:13
Alignment explanation
Indices: 93312487--93312536 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
93312477 CTGTTTTCAT
* *
93312487 ACGGTCGTGTTGC
1 ACGGCCGTGTCGC
93312500 ACGGCCGTGTCGC
1 ACGGCCGTGTCGC
93312513 ACGGCCGTGTCGC
1 ACGGCCGTGTCGC
*
93312526 ACGACCGTGTC
1 ACGGCCGTGTC
93312537 TCCTCCCGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.10, C:0.34, G:0.36, T:0.20
Consensus pattern (13 bp):
ACGGCCGTGTCGC
Found at i:93315727 original size:13 final size:13
Alignment explanation
Indices: 93315709--93315734 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93315699 TTTTGTTTAT
93315709 CTAAACTAATTAA
1 CTAAACTAATTAA
93315722 CTAAACTAATTAA
1 CTAAACTAATTAA
93315735 GGGTGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CTAAACTAATTAA
Found at i:93318830 original size:15 final size:15
Alignment explanation
Indices: 93318810--93318838 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93318800 GTATTGTTGC
93318810 TTGATAACACGGTGA
1 TTGATAACACGGTGA
93318825 TTGATAACACGGTG
1 TTGATAACACGGTG
93318839 TGTATGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:93324060 original size:6 final size:6
Alignment explanation
Indices: 93324049--93324104 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
93324039 TCTGTTTGTA
* * * * *
93324049 TTTATT TTTATT TTTATT TGTAGT TGTACT TTTATT TTTAGT TTTAGTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT
93324098 TTT-TT TT
1 TTTATT TT
93324105 GTTAAACTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
5 4 0.10
6 34 0.81
7 4 0.10
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:93324099 original size:18 final size:18
Alignment explanation
Indices: 93324049--93324104 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
93324039 TCTGTTTGTA
* *
93324049 TTTATTTTTATTTTTATT
1 TTTAGTTTTACTTTTATT
* *
93324067 TGTAGTTGTACTTTTATT
1 TTTAGTTTTACTTTTATT
*
93324085 TTTAGTTTTAGTTTT-TT
1 TTTAGTTTTACTTTTATT
93324102 TTT
1 TTT
93324105 GTTAAACTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 5 0.16
18 26 0.84
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.75
Consensus pattern (18 bp):
TTTAGTTTTACTTTTATT
Found at i:93326083 original size:33 final size:33
Alignment explanation
Indices: 93326046--93326113 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
93326036 TGATACAATA
93326046 CTTAATCAGTGCATGTTTAATCTTCTAAGGTAG
1 CTTAATCAGTGCATGTTTAATCTTCTAAGGTAG
93326079 CTTAATCAGTGCATGTTTAATCTTCTAAGGTAG
1 CTTAATCAGTGCATGTTTAATCTTCTAAGGTAG
93326112 CT
1 CT
93326114 GAGGGTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (33 bp):
CTTAATCAGTGCATGTTTAATCTTCTAAGGTAG
Found at i:93330197 original size:30 final size:30
Alignment explanation
Indices: 93330150--93330227 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
93330140 CCTCAAGGGT
* *
93330150 TGGCCACATGCCCGTGTGAGCTACATGGGC
1 TGGCCACATGTCCGTGTGAGCCACATGGGC
**
93330180 TGGCTTCATGTCCGTGTGAGCCACATGGGC
1 TGGCCACATGTCCGTGTGAGCCACATGGGC
*
93330210 TGGCCACATGTCCATGTG
1 TGGCCACATGTCCGTGTG
93330228 CTAGCCCATG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.15, C:0.28, G:0.32, T:0.24
Consensus pattern (30 bp):
TGGCCACATGTCCGTGTGAGCCACATGGGC
Found at i:93331326 original size:21 final size:21
Alignment explanation
Indices: 93331302--93331342 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
93331292 TAATTTAGCC
93331302 TTTTATTTTTA-TTGAATTTTA
1 TTTT-TTTTTAGTTGAATTTTA
*
93331323 TTTTTTTTTAGTTTAATTTT
1 TTTTTTTTTAGTTGAATTTT
93331343 TACATTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTTTTTTTAGTTGAATTTTA
Found at i:93332978 original size:45 final size:45
Alignment explanation
Indices: 93332832--93333048 Score: 149
Period size: 45 Copynumber: 4.7 Consensus size: 45
93332822 TTCGTGCGCC
* * * *
93332832 AGTGTAAGACATGTCTAGGACTTACATCAGCCAC-ATTATGAGAGCT
1 AGTGTAAGACATGTCT-GGACATGCATCAGCCTCGA-GATGAGAGCT
* ** * **
93332878 AGTGTAAGATCATGTCTAGGACATGGCATCGGGATTGAGACAAGAGCT
1 AGTGTAAGA-CATGTCT-GGACAT-GCATCAGCCTCGAGATGAGAGCT
* *
93332926 AGT-TAAGACATGTCTGGCACATGCATCGGCCTCGTGATGA-AGCT
1 AGTGTAAGACATGTCTGG-ACATGCATCAGCCTCGAGATGAGAGCT
* * *
93332970 AGTGTAAGACATGTCTGGGACAAGCGTCAG-CTACGAGATGAG-TC-
1 AGTGTAAGACATGTCT-GGACATGCATCAGCCT-CGAGATGAGAGCT
*
93333014 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCT
1 AGTGTAAGA-CATGTCT-GGACAT-GCATCAGCCT
93333049 TGATTTTGAT
Statistics
Matches: 138, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
44 18 0.13
45 55 0.40
46 29 0.21
47 20 0.14
48 15 0.11
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGACATGCATCAGCCTCGAGATGAGAGCT
Found at i:93333136 original size:47 final size:48
Alignment explanation
Indices: 93333006--93333140 Score: 166
Period size: 49 Copynumber: 2.8 Consensus size: 48
93332996 TCAGCTACGA
* * *
93333006 GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTTGATTTT
1 GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA-TTG
* *
93333056 GAT-AGTCAATGTAAGACCATGTCTAGGACATGGCATCGACTTGA-TG
1 GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATTG
* * *
93333102 GATGAGCCAGTGTAAGACCATGTTTGGGAAATGGCATCG
1 GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
93333141 GCATTACGCC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
46 4 0.05
47 30 0.41
48 6 0.08
49 31 0.42
50 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
GATGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATTG
Found at i:93333914 original size:12 final size:13
Alignment explanation
Indices: 93333883--93333916 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
93333873 GTAGACACAC
93333883 GGGCGTGTGTCTA
1 GGGCGTGTGTCTA
93333896 GGGCGTGTGTCTA
1 GGGCGTGTGTCTA
93333909 -GGCGTGTG
1 GGGCGTGTG
93333917 ACACAAGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.06, C:0.15, G:0.50, T:0.29
Consensus pattern (13 bp):
GGGCGTGTGTCTA
Found at i:93337160 original size:8 final size:8
Alignment explanation
Indices: 93337139--93337170 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
93337129 TTTTATAAGA
93337139 TATTTTA-
1 TATTTTAT
93337146 T-TTTTAT
1 TATTTTAT
93337153 TATTTTAT
1 TATTTTAT
93337161 TATTTTAT
1 TATTTTAT
93337169 TA
1 TA
93337171 GTATATAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
6 5 0.22
7 2 0.09
8 16 0.70
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTTTAT
Found at i:93338491 original size:21 final size:21
Alignment explanation
Indices: 93338465--93338508 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
93338455 GTTCTTCTCT
93338465 GCCTCCCTCGCTGCTGCCTCC
1 GCCTCCCTCGCTGCTGCCTCC
93338486 GCCTCCCTCGCTGCTGCCTCC
1 GCCTCCCTCGCTGCTGCCTCC
93338507 GC
1 GC
93338509 TCTAAGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.57, G:0.20, T:0.23
Consensus pattern (21 bp):
GCCTCCCTCGCTGCTGCCTCC
Found at i:93344068 original size:9 final size:9
Alignment explanation
Indices: 93344054--93344220 Score: 154
Period size: 9 Copynumber: 17.6 Consensus size: 9
93344044 ATGTATTAGT
93344054 TAAGTTATG
1 TAAGTTATG
93344063 TAAGTTGTTATG
1 TAA---GTTATG
*
93344075 TACGTTATG
1 TAAGTTATG
*
93344084 TGAGTTATG
1 TAAGTTATG
*
93344093 TAAATTATG
1 TAAGTTATG
93344102 TAAGTTATG
1 TAAGTTATG
*
93344111 TGAGTTATG
1 TAAGTTATG
93344120 TAAGTTGTTATG
1 TAA---GTTATG
*
93344132 TAAATTATG
1 TAAGTTATG
93344141 TAAGTTATG
1 TAAGTTATG
*
93344150 TGAGTTATG
1 TAAGTTATG
93344159 TAAGTTGTTATG
1 TAA---GTTATG
*
93344171 TAAATTATG
1 TAAGTTATG
*
93344180 TAAGTTATA
1 TAAGTTATG
*
93344189 TGAGTTATG
1 TAAGTTATG
93344198 TAAGTTATG
1 TAAGTTATG
* *
93344207 TAATTTATT
1 TAAGTTATG
93344216 TAAGT
1 TAAGT
93344221 AATGATCAAT
Statistics
Matches: 128, Mismatches: 21, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
9 102 0.80
12 26 0.20
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:93344101 original size:39 final size:40
Alignment explanation
Indices: 93344058--93344220 Score: 168
Period size: 39 Copynumber: 4.2 Consensus size: 40
93344048 ATTAGTTAAG
93344058 TTATGTAAGTTGTTATGT-ACGTTATGT-G-AGTTATGTAAA
1 TTATGTAAG-TGTTATGTGA-GTTATGTAGTAGTTATGTAAA
*
93344097 TTATGTAA--GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
*
93344136 TTATGTAA--GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
* *
93344175 TTATGTAA--GTTATATGAGTTATGTA--AGTTATGTAAT
1 TTATGTAAGTGTTATGTGAGTTATGTAGTAGTTATGTAAA
*
93344211 TTATTTAAGT
1 TTATGTAAGT
93344221 AATGATCAAT
Statistics
Matches: 113, Mismatches: 5, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
36 30 0.27
37 1 0.01
38 2 0.02
39 80 0.71
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (40 bp):
TTATGTAAGTGTTATGTGAGTTATGTAGTAGTTATGTAAA
Found at i:93344130 original size:48 final size:44
Alignment explanation
Indices: 93344069--93344208 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 44
93344059 TATGTAAGTT
*
93344069 GTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTATGT-AGTTATGTAAATTATGTAAGTTATGTGA
93344114 GTTATGTAAG---T-T-GTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
*
93344153 GTTATGTAAG---T-T-GTTATGTAAATTATGTAAGTTATATGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
93344192 GTTATGTAAGTTATGTA
1 GTTATGTAAGTTATGTA
93344209 ATTTATTTAA
Statistics
Matches: 88, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
39 75 0.85
41 1 0.01
42 2 0.02
43 1 0.01
45 9 0.10
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.46
Consensus pattern (44 bp):
GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
Found at i:93344147 original size:57 final size:57
Alignment explanation
Indices: 93344054--93344220 Score: 196
Period size: 57 Copynumber: 2.9 Consensus size: 57
93344044 ATGTATTAGT
* *
93344054 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTTATG
* * * *
93344111 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAA---GTTATG
* * * *
93344171 TAAATTATGTAAGTT-ATATG--AGTTATGTAAGTTATGTAATTTATTTAAGT
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGT
93344221 AATGATCAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
54 2 0.02
57 69 0.73
59 4 0.04
60 19 0.20
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTTATG
Found at i:93344209 original size:48 final size:48
Alignment explanation
Indices: 93344054--93344209 Score: 188
Period size: 48 Copynumber: 3.2 Consensus size: 48
93344044 ATGTATTAGT
* * *
93344054 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * * *
93344102 TAAGTTATGTGAGTTATGTAAGT-TGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGT-TATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * *
93344150 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
93344198 TAAGTTATGTAA
1 TAAGTTATGTAA
93344210 TTTATTTAAG
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 4 0.04
48 81 0.91
49 4 0.04
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
Found at i:93344824 original size:240 final size:241
Alignment explanation
Indices: 93344401--93345127 Score: 1330
Period size: 241 Copynumber: 3.0 Consensus size: 241
93344391 TTAAGGTTAT
* * *
93344401 ATAAATATTCAATAGTAAATGAGATCGATATAACTTTTTCAAAGTTTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
93344466 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
93344531 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAG-GAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
93344595 GGTCAGCTATTGGTGTAATTTTAATGAACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGAACAAGCAAGCTACATGGTA
93344641 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
93344706 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
* *
93344771 ACTCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTAGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
* *
93344836 GGTCAGCTACTGTTGAAATTTTAATGAACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGAACAAGCAAGCTACATGGTA
* *
93344882 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
93344947 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
* *
93345012 ACCCGTCAGGTTTCCAGCTTATATACTTTGAATCTTTAAAATATTTAAAATAATGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
93345077 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGAACAAGCAAGCTACATGGTA
93345123 ATAAA
1 ATAAA
93345128 ATTAATTCAT
Statistics
Matches: 469, Mismatches: 17, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
240 186 0.40
241 283 0.60
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTGTAATTTTAATGAACAAGCAAGCTACATGGTA
Found at i:93349254 original size:50 final size:49
Alignment explanation
Indices: 93349087--93349311 Score: 288
Period size: 49 Copynumber: 4.5 Consensus size: 49
93349077 CTGGTACGCA
* *** *
93349087 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACTCG
1 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACACG
*
93349136 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACACG
** * *
93349185 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACATGACC-AATTATCCGGTACACG
* * * * *
93349235 TAGTAGCCTGCACTTAGTACTACACACATGATCACAGTTTTCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACATGA-C-CAATTATCCGGTACACG
93349286 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
93349312 TGCGACCTCA
Statistics
Matches: 156, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 77 0.49
50 43 0.28
51 35 0.22
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACACG
Found at i:93349304 original size:101 final size:98
Alignment explanation
Indices: 93349074--93349311 Score: 305
Period size: 99 Copynumber: 2.4 Consensus size: 98
93349064 TAGCCAAAGC
* * ** ** * *
93349074 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACTCGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACACGACCAACCATCCGATACACGTAG
*
93349139 TAGCCTGCACTTAGTACTACACACGTGACCAAT
66 TAGCCTGCACTTAGTACTACACACATGACCAAT
* * * * *
93349172 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTA
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACACGACC-AACCATCCGATACACGTA
*
93349237 GTAGCCTGCACTTAGTACTACACACATGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACATGA-C-CAAT
*
93349273 TTTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACA
93349312 TGCGACCTCA
Statistics
Matches: 119, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
98 39 0.33
99 41 0.34
100 1 0.01
101 38 0.32
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (98 bp):
TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACACGACCAACCATCCGATACACGTAG
TAGCCTGCACTTAGTACTACACACATGACCAAT
Found at i:93349319 original size:101 final size:99
Alignment explanation
Indices: 93349074--93349319 Score: 323
Period size: 101 Copynumber: 2.5 Consensus size: 99
93349064 TAGCCAAAGC
* * ** * *
93349074 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACTCGTA
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
*
93349138 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
66 GTAGCCTGCACTTAGTACTACACACATGACCAAT
* * * *** *
93349172 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTA
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
*
93349237 GTAGCCTGCACTTAGTACTACACACATGATCACAGT
66 GTAGCCTGCACTTAGTACTACACACATGA-C-CAAT
*
93349273 TTTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
93349320 CACAATAGAT
Statistics
Matches: 124, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 39 0.31
99 41 0.33
100 1 0.01
101 43 0.35
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (99 bp):
TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
GTAGCCTGCACTTAGTACTACACACATGACCAAT
Found at i:93351495 original size:30 final size:30
Alignment explanation
Indices: 93351451--93351519 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
93351441 TAAAGATAAC
*
93351451 AAGAAAACC-GAATAAAGAAATCCAAGA-TA
1 AAGAAACCCAGAATAAAGAAA-CCAAGAGTA
* *
93351480 GAGAAACCCAGAATAAAGAAACCCAGAGTA
1 AAGAAACCCAGAATAAAGAAACCAAGAGTA
93351510 AAGAAACCCA
1 AAGAAACCCA
93351520 AGATACGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.35
30 22 0.65
ACGTcount: A:0.58, C:0.19, G:0.16, T:0.07
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAACCAAGAGTA
Found at i:93351499 original size:15 final size:15
Alignment explanation
Indices: 93351451--93351519 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
93351441 TAAAGATAAC
*
93351451 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
93351465 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
93351480 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
*
93351495 AAGAAACCCAGAGTA
1 AAGAAACCCAGAATA
93351510 AAGAAACCCA
1 AAGAAACCCA
93351520 AGATACGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.19
15 37 0.79
16 1 0.02
ACGTcount: A:0.58, C:0.19, G:0.16, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:93354688 original size:50 final size:49
Alignment explanation
Indices: 93354516--93354696 Score: 179
Period size: 48 Copynumber: 3.7 Consensus size: 49
93354506 CAAAGCTATT
* * *** *
93354516 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATAATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCC
* * *
93354565 --TAGCACGTAGTAGCTTGCACTTAGTACTACACACGTGACCAATTATCC
1 GGTA-CACATAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCC
* * **
93354613 GGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCACAGTT-TTG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACATGA-C-CAATTATCC
* *
93354663 GGTACGCATAGTAGCCTGCAGTTAGTACTACACA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACA
93354697 TGTGACCTCA
Statistics
Matches: 112, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.02
48 38 0.34
49 33 0.29
50 35 0.31
51 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCC
Found at i:93360933 original size:40 final size:40
Alignment explanation
Indices: 93360779--93360962 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
93360769 TTCGAATGTG
* * * *
93360779 TCCGGGCTAAGTCCTGAAGGC-TTTGTGGCTAAGTGA-TATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGT-GC-GAGTTACTAAA
* * *
93360819 TCCGGACTAGGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
93360859 TCCGAGCTAAG-CCCGAAGGCA-TGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
93360897 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
93360938 -CCGGGCTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
93360963 AATGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 24 0.20
39 23 0.19
40 66 0.55
41 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:93373613 original size:48 final size:48
Alignment explanation
Indices: 93373558--93373655 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
93373548 TCACACAATC
93373558 ATGCAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCT
1 ATGCAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCT
93373606 ATGCAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCT
1 ATGCAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCT
93373654 AT
1 AT
93373656 CTCAGATTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (48 bp):
ATGCAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCT
Found at i:93377768 original size:46 final size:46
Alignment explanation
Indices: 93377716--93377926 Score: 275
Period size: 46 Copynumber: 4.6 Consensus size: 46
93377706 GCTCTCTGAA
** *
93377716 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
* * *
93377762 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACGTG--
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
* * *
93377806 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
* *
93377852 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGACAGCATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
* *
93377898 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
93377927 CACTATGGCA
Statistics
Matches: 151, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
44 42 0.28
45 1 0.01
46 108 0.72
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
Found at i:93377787 original size:21 final size:21
Alignment explanation
Indices: 93377717--93377788 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
93377707 CTCTCTGAAA
*
93377717 TGAAATGTGTAAGACCATGGT
1 TGAAATGTATAAGACCATGGT
*
93377738 TGAAA-G-ATACCATGACAACATGAT
1 TGAAATGTATA--A-GAC--CATGGT
93377762 ATGAAATGTATAAGACCATGGT
1 -TGAAATGTATAAGACCATGGT
93377784 TGAAA
1 TGAAA
93377789 GATACCATGG
Statistics
Matches: 40, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 11 0.28
22 8 0.20
24 8 0.20
25 6 0.15
26 1 0.03
27 3 0.08
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (21 bp):
TGAAATGTATAAGACCATGGT
Found at i:93377869 original size:90 final size:92
Alignment explanation
Indices: 93377726--93377941 Score: 292
Period size: 90 Copynumber: 2.4 Consensus size: 92
93377716 ATGAAATGTG
* * * *
93377726 TAAGACCATGGTTGAAAGATACCATGACAACATGATATGAAATGTATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
* * *
93377791 TACCATGGCAACGTGA-TGAAAA-GAA
66 TACCATGACAACATGACAGAAAATGAA
*
93377816 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
* *
93377881 TACCATGACAGCATGACAGAAAATGAG
66 TACCATGACAACATGACAGAAAATGAA
* * * *
93377908 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
93377942 TCAAAGATAA
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
90 73 0.67
91 5 0.05
92 31 0.28
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.20
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
TACCATGACAACATGACAGAAAATGAA
Found at i:93378752 original size:18 final size:18
Alignment explanation
Indices: 93378729--93378764 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
93378719 CCAATGAGAT
93378729 TGTGCATAGACTACTGAC
1 TGTGCATAGACTACTGAC
93378747 TGTGCATAGACTACTGAC
1 TGTGCATAGACTACTGAC
93378765 AGCTCAACAA
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:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (18 bp):
TGTGCATAGACTACTGAC
Found at i:93384123 original size:46 final size:47
Alignment explanation
Indices: 93383940--93384301 Score: 191
Period size: 46 Copynumber: 7.7 Consensus size: 47
93383930 TCATTCGTGC
* * *
93383940 GCCAGTGTAAGACATGCCTGGGACAT-GCATCGG-TCAC-ATTACG-AGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCT-ACGA-GATGTA-A
* * * * * *
93383986 GCTAGTGTAAGACCATGTCTGGGATAGGGCATTGGC-ATTGAGACG-ATA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCTA-CGAGATGTA-A
* * * * * *
93384034 GCTAGTGTAAGACATGTTTGGAACAT-ACATCAGCCT-CGTGATGTAA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATC-GGCTACGAGATGTAA
*
93384080 GCCAGTGTAAGACATGTCTGGGACAT-GCGTCGGCTACGAGATGT--
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCTACGAGATGTAA
93384124 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAGATGTGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCTAC-GAGATGT-A-A
* * * **
93384174 GCCAGTTTAAGAACATGTCTAGGACATGGCGTCGGCCT-CGATTTCG-ATA
1 GCCAGTGTAAG-ACATGTCTGGGACATGGCATCGG-CTACGAGAT-GTA-A
** * * *
93384223 GTTAGTGTAAGACCATGTTTGGGACATGGCATCGACT-TGATGGATG--A
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCTACGA--GATGTAA
*
93384270 GCAAGTGTAAGACCATGTCTGGGACATGGCAT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCAT
93384302 TGGCATTACA
Statistics
Matches: 248, Mismatches: 45, Indels: 45
0.73 0.13 0.13
Matches are distributed among these distances:
44 12 0.05
45 19 0.08
46 66 0.27
47 55 0.22
48 28 0.11
49 30 0.12
50 34 0.14
51 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCTACGAGATGTAA
Found at i:93384191 original size:50 final size:47
Alignment explanation
Indices: 93384073--93384299 Score: 180
Period size: 50 Copynumber: 4.8 Consensus size: 47
93384063 TCAGCCTCGT
93384073 GATGTAAGCCAGTGTAAG-ACATGTCTGGGACAT-GCGTCGGCTACGA
1 GATGT-AGCCAGTGTAAGAACATGTCTGGGACATGGCGTCGGCTACGA
* *
93384119 GATGT-GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGA
1 GATGTAGCCAGTGTAAGAACATGTCTGGGACATGGCGTCGGCTAC-GA
* *
93384165 GATGTGAGAGCCAGTTTAAGAACATGTCTAGGACATGGCGTCGGCCT-CGA
1 GATGT---AGCCAGTGTAAGAACATGTCTGGGACATGGCGTCGG-CTACGA
** ** * * * * *
93384215 TTTCGATAGTTAGTGTAAGACCATGTTTGGGACATGGCATCGACT-TGA
1 GAT-G-TAGCCAGTGTAAGAACATGTCTGGGACATGGCGTCGGCTACGA
* *
93384263 TGGATG-AGCAAGTGTAAGACCATGTCTGGGACATGGC
1 --GATGTAGCCAGTGTAAGAACATGTCTGGGACATGGC
93384300 ATTGGCATTA
Statistics
Matches: 146, Mismatches: 22, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 19 0.13
47 28 0.19
48 4 0.03
49 29 0.20
50 35 0.24
51 3 0.02
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.24
Consensus pattern (47 bp):
GATGTAGCCAGTGTAAGAACATGTCTGGGACATGGCGTCGGCTACGA
Found at i:93389951 original size:6 final size:6
Alignment explanation
Indices: 93389941--93390028 Score: 160
Period size: 6 Copynumber: 14.8 Consensus size: 6
93389931 TTTTATTTGT
*
93389941 TTTATT TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG
93389989 TTTATG TTTATG TTTATG -TTATG TTTATG TTTATG TTTAT
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTAT
93390029 TGTTGTTTTT
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
5 5 0.06
6 75 0.94
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.68
Consensus pattern (6 bp):
TTTATG
Found at i:93393534 original size:46 final size:45
Alignment explanation
Indices: 93393481--93393656 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
93393471 TATTTGGGCA
93393481 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
93393527 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
93393574 TCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
93393620 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93393657 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:93393636 original size:93 final size:93
Alignment explanation
Indices: 93393477--93393648 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
93393467 AGGATATTTG
* *
93393477 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
93393542 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
93393570 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGA
93393634 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
93393649 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:93406958 original size:28 final size:29
Alignment explanation
Indices: 93406923--93407043 Score: 115
Period size: 28 Copynumber: 4.3 Consensus size: 29
93406913 ATAATGTGAT
*
93406923 TTGGGCCTGATGGGCCATGTGAATGAG-A
1 TTGGGCCTGATGGGCCATATGAATGAGAA
* *
93406951 TTGGGCCT-AGTGGGTCATATGAATGTGAA
1 TTGGGCCTGA-TGGGCCATATGAATGAGAA
* * *
93406980 TT-GGCCTTATAGGCCATATGAATGTGAA
1 TTGGGCCTGATGGGCCATATGAATGAGAA
** * *
93407008 TTTAGCCGGATGGGCCATATAAATGAG-A
1 TTGGGCCTGATGGGCCATATGAATGAGAA
93407036 TTGGGCCT
1 TTGGGCCT
93407044 AGTGGTCCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
27 1 0.01
28 52 0.69
29 22 0.29
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATGAATGAGAA
Found at i:93415784 original size:28 final size:29
Alignment explanation
Indices: 93415752--93415877 Score: 127
Period size: 29 Copynumber: 4.4 Consensus size: 29
93415742 TTTGGGCCGA
*
93415752 ATGGGCCATGTGAATGAGATTGGGTCTAG
1 ATGGGCCATATGAATGAGATTGGGTCTAG
*
93415781 -TGGGCCATATGAATGTGAATTGGGTCT-G
1 ATGGGCCATATGAATGAG-ATTGGGTCTAG
**
93415809 ATGGGCCATATGAACATGA-ATTGGG-CCGG
1 ATGGGCCATATG-A-ATGAGATTGGGTCTAG
* **
93415838 ATGGGCCATATAAATGAGATTGGACCTAG
1 ATGGGCCATATGAATGAGATTGGGTCTAG
93415867 -TGGGCCATATG
1 ATGGGCCATATG
93415878 CATGTATGTA
Statistics
Matches: 81, Mismatches: 9, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
27 4 0.05
28 33 0.41
29 40 0.49
30 1 0.01
31 3 0.04
ACGTcount: A:0.26, C:0.13, G:0.34, T:0.26
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTGGGTCTAG
Found at i:93415813 original size:29 final size:29
Alignment explanation
Indices: 93415731--93415853 Score: 119
Period size: 29 Copynumber: 4.3 Consensus size: 29
93415721 GTGAGCATGA
* *
93415731 ATAT-AATGTGATTTGGG-CCGAATGGGCC
1 ATATGAATGTGAATTGGGTCTG-ATGGGCC
* *
93415759 ATGTGAATGAG-ATTGGGTCT-AGTGGGCC
1 ATATGAATGTGAATTGGGTCTGA-TGGGCC
93415787 ATATGAATGTGAATTGGGTCTGATGGGCC
1 ATATGAATGTGAATTGGGTCTGATGGGCC
** * *
93415816 ATATGAACATGAATTGGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGTCTGATGGGCC
*
93415845 ATATAAATG
1 ATATGAATG
93415854 AGATTGGACC
Statistics
Matches: 77, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
27 1 0.01
28 23 0.30
29 52 0.68
30 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGTCTGATGGGCC
Found at i:93417619 original size:46 final size:48
Alignment explanation
Indices: 93417547--93417649 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
93417537 GACAGGACAG
* * * *
93417547 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
93417593 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
93417641 GACAAGAAT
1 GACAGGAAT
93417650 AATTCATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 27 0.55
47 1 0.02
48 21 0.43
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:93418552 original size:16 final size:16
Alignment explanation
Indices: 93418515--93418553 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
93418505 AATTTGTGTG
93418515 TTATTTTATTTTTTCT
1 TTATTTTATTTTTTCT
*
93418531 TGATTTTATTTTATT-T
1 TTATTTTATTTT-TTCT
93418547 TTATTTT
1 TTATTTT
93418554 TTTCACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (16 bp):
TTATTTTATTTTTTCT
Found at i:93422996 original size:16 final size:17
Alignment explanation
Indices: 93422961--93423000 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
93422951 AATTTGTGTG
93422961 TTATTTTAATTTTTTCT
1 TTATTTTAATTTTTTCT
93422978 TTATTTT-ATTTTATT-T
1 TTATTTTAATTTT-TTCT
93422994 TTATTTT
1 TTATTTT
93423001 TTTGACAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (17 bp):
TTATTTTAATTTTTTCT
Found at i:93435238 original size:24 final size:26
Alignment explanation
Indices: 93435199--93435253 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
93435189 TTTCTAGAAG
*
93435199 ATTTAGCTTTTTATTAGTAT-AATAT
1 ATTTAGCTATTTATTAGTATAAATAT
93435224 ATTTAGC-ATTTATTAGTATAAATAT
1 ATTTAGCTATTTATTAGTATAAATAT
93435249 ATTTA
1 ATTTA
93435254 TTATTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (26 bp):
ATTTAGCTATTTATTAGTATAAATAT
Found at i:93437385 original size:13 final size:12
Alignment explanation
Indices: 93437359--93437391 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
93437349 TTAGTGTTTA
93437359 ATTA-TATTAGG
1 ATTATTATTAGG
93437370 ATTATTATTAAGG
1 ATTATTATT-AGG
93437383 ATTATTATT
1 ATTATTATT
93437392 TAGATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.20
12 4 0.20
13 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (12 bp):
ATTATTATTAGG
Found at i:93437433 original size:10 final size:10
Alignment explanation
Indices: 93437418--93437457 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
93437408 ATTTATTACC
93437418 ATTTATCTTT
1 ATTTATCTTT
*
93437428 AATTATCTTT
1 ATTTATCTTT
93437438 ATTTAT-TTGT
1 ATTTATCTT-T
93437448 ATTTATCTTT
1 ATTTATCTTT
93437458 TAGAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:93444202 original size:25 final size:25
Alignment explanation
Indices: 93444174--93444224 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
93444164 TAGAAACGTA
93444174 TATATAATTCTTGAGTAGACTATGT
1 TATATAATTCTTGAGTAGACTATGT
93444199 TATATAATTCTTGAGTAGACTATGT
1 TATATAATTCTTGAGTAGACTATGT
93444224 T
1 T
93444225 TCTAACTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (25 bp):
TATATAATTCTTGAGTAGACTATGT
Found at i:93445146 original size:19 final size:19
Alignment explanation
Indices: 93445120--93445176 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
93445110 TTAACTTTAA
93445120 TTTA-TTTTAATTTATTAT
1 TTTACTTTTAATTTATTAT
* ** *
93445138 TTTTCTTTTTCTTTTTTAT
1 TTTACTTTTAATTTATTAT
*
93445157 TTTAC-TTTATTTTATTAT
1 TTTACTTTTAATTTATTAT
93445175 TT
1 TT
93445177 ACTATTCTTC
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTACTTTTAATTTATTAT
Found at i:93446703 original size:13 final size:12
Alignment explanation
Indices: 93446677--93446709 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
93446667 TTAATGTTTA
93446677 ATTA-TATTAGG
1 ATTATTATTAGG
93446688 ATTATTATTAAGG
1 ATTATTATT-AGG
93446701 ATTATTATT
1 ATTATTATT
93446710 TAGATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.20
12 4 0.20
13 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (12 bp):
ATTATTATTAGG
Found at i:93446751 original size:10 final size:10
Alignment explanation
Indices: 93446737--93446775 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
93446727 TTTATTATCG
93446737 TTTATCTTTA
1 TTTATCTTTA
*
93446747 ATTATCTTTA
1 TTTATCTTTA
93446757 TTTAT-TTGTA
1 TTTATCTT-TA
93446767 TTTATCTTT
1 TTTATCTTT
93446776 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Done.