Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 278 of 295
Found at i:94820609 original size:17 final size:17
Alignment explanation
Indices: 94820587--94820626 Score: 71
Period size: 17 Copynumber: 2.3 Consensus size: 17
94820577 TGATGAGAAT
94820587 GATAACAGGAATGAGGA
1 GATAACAGGAATGAGGA
94820604 GATAACAGGAATGAGGA
1 GATAACAGGAATGAGGA
94820621 GTATAA
1 G-ATAA
94820627 ACTCCTCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.47, C:0.05, G:0.33, T:0.15
Consensus pattern (17 bp):
GATAACAGGAATGAGGA
Found at i:94829513 original size:26 final size:26
Alignment explanation
Indices: 94829484--94829548 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
94829474 TCTGACCCAT
*
94829484 AGCTCGTGTGAGCAGGCCCACTTCAC
1 AGCTCGTGTGAGCAGACCCACTTCAC
* *
94829510 AGCTCGTGTGAGCAGATCCATTTCAC
1 AGCTCGTGTGAGCAGACCCACTTCAC
94829536 AGCTCGTGTGAGC
1 AGCTCGTGTGAGC
94829549 GACGATGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.20, C:0.29, G:0.28, T:0.23
Consensus pattern (26 bp):
AGCTCGTGTGAGCAGACCCACTTCAC
Found at i:94833063 original size:86 final size:86
Alignment explanation
Indices: 94832918--94833086 Score: 311
Period size: 86 Copynumber: 2.0 Consensus size: 86
94832908 CTGAGACACA
*
94832918 TGCCCGTGTGGAGATTCCTGGGCATTCTGTTTTAAAAATTTTAAAATGTAGGGGACACACGGCCT
1 TGCCCGTGTGGAGATTCCTGGGCATTCTGTTTTAAAAATTTTAAAATGCAGGGGACACACGGCCT
*
94832983 ATCCACGTGCCCATGTGTCTC
66 ATCCACATGCCCATGTGTCTC
94833004 TGCCCGTGTGGAGATTCCTGGGCATTCTGTTTTAAAAATTTTAAAATGCAGGGGACACACGGCCT
1 TGCCCGTGTGGAGATTCCTGGGCATTCTGTTTTAAAAATTTTAAAATGCAGGGGACACACGGCCT
*
94833069 ATCCACATGCCTATGTGT
66 ATCCACATGCCCATGTGT
94833087 AAGTTGTGTG
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (86 bp):
TGCCCGTGTGGAGATTCCTGGGCATTCTGTTTTAAAAATTTTAAAATGCAGGGGACACACGGCCT
ATCCACATGCCCATGTGTCTC
Found at i:94833909 original size:12 final size:12
Alignment explanation
Indices: 94833892--94833929 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
94833882 CATTTGTACA
94833892 ATTCAATTCAAT
1 ATTCAATTCAAT
94833904 ATTCAATTTCAA-
1 ATTCAA-TTCAAT
94833916 ATTCACATTCAAT
1 ATTCA-ATTCAAT
94833929 A
1 A
94833930 CCATTCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTCAATTCAAT
Found at i:94835754 original size:28 final size:28
Alignment explanation
Indices: 94835718--94835776 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
94835708 ACTTTCTCTT
94835718 TCCTCGCTCTAAC-TCAGAATTTGGTCTA
1 TCCTCGCTCTAACTTC-GAATTTGGTCTA
*
94835746 TCCTTGCTCTAACTTCGAATTTGGTCTA
1 TCCTCGCTCTAACTTCGAATTTGGTCTA
94835774 TCC
1 TCC
94835777 GGACGTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.39
Consensus pattern (28 bp):
TCCTCGCTCTAACTTCGAATTTGGTCTA
Found at i:94847923 original size:27 final size:26
Alignment explanation
Indices: 94847874--94847985 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 26
94847864 AGGAAGCATC
*
94847874 CTGGTGGCTAC-GCTACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
*
94847901 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* * *
94847928 CTGGTGGCTCTACTACGATTATCTTTAT
1 CTGGTGGCTCTGCCAC-ATTATC-TGAT
* * *
94847956 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
94847982 CTGG
1 CTGG
94847986 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
26 9 0.13
27 44 0.64
28 16 0.23
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:94855744 original size:27 final size:26
Alignment explanation
Indices: 94855702--94855812 Score: 107
Period size: 27 Copynumber: 4.1 Consensus size: 26
94855692 AGGAAGCGTC
94855702 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
* *
94855729 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
94855756 CTGGTGGCTTTGCCAAGATTATCTGTAT
1 CTGGTGGCTCTGCC-ACATTATCTG-AT
* * *
94855784 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
94855810 CTG
1 CTG
94855813 ACAGCCATGC
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
26 7 0.10
27 47 0.68
28 15 0.22
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:94855806 original size:54 final size:54
Alignment explanation
Indices: 94855702--94855812 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
94855692 AGGAAGCGTC
*
94855702 CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
** **
94855756 CTGGTGGCTTTGCCA-AGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTACGCCACA-ATTATCTG-ATCTGGTGACTCTACCACATATATCTGTT
94855810 CTG
1 CTG
94855813 ACAGCCATGC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.02
54 32 0.64
55 17 0.34
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTACCACATATATCTGTT
Found at i:94859268 original size:23 final size:23
Alignment explanation
Indices: 94859242--94859302 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
94859232 AGGCACTTTA
94859242 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
94859265 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
*
94859286 TGTTTCGT-TTT-AGGCAC
1 TGTGTCGTATTTCAGGCAC
94859303 TTTATGTGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
21 25 0.71
22 1 0.03
23 9 0.26
ACGTcount: A:0.13, C:0.25, G:0.26, T:0.36
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:94869163 original size:5 final size:5
Alignment explanation
Indices: 94869153--94869180 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
94869143 ATCTGTGTTC
94869153 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
94869181 TCACAAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:94877616 original size:25 final size:25
Alignment explanation
Indices: 94877597--94877644 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
94877587 TAGCTTGTGA
*
94877597 GAGCTTACTGATTCTCAGCTCGTAT
1 GAGCTTACCGATTCTCAGCTCGTAT
94877622 GAGCTTACCGATTCAT-AGCTCGT
1 GAGCTTACCGATTC-TCAGCTCGT
94877645 GAAAGCATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
GAGCTTACCGATTCTCAGCTCGTAT
Found at i:94877679 original size:25 final size:25
Alignment explanation
Indices: 94877613--94877679 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
94877603 ACTGATTCTC
* * *
94877613 AGCTCGTATGAGCTTACCGATTCAT
1 AGCTCGTATAAGCATACCAATTCAT
94877638 AGCTCGTGA-AAGCATACCAATTCAT
1 AGCTCGT-ATAAGCATACCAATTCAT
*
94877663 AGCTCGTATAAGAATAC
1 AGCTCGTATAAGCATAC
94877680 ATGTATATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (25 bp):
AGCTCGTATAAGCATACCAATTCAT
Found at i:94880241 original size:17 final size:18
Alignment explanation
Indices: 94880215--94880253 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
94880205 GAATTTGTGG
94880215 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
94880231 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
94880249 AAAAT
1 AAAAT
94880254 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:94880429 original size:15 final size:15
Alignment explanation
Indices: 94880409--94880439 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
94880399 AAAAAAATAT
94880409 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
94880424 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
94880439 A
1 A
94880440 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:94882652 original size:15 final size:15
Alignment explanation
Indices: 94882642--94882671 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
94882632 TCCCTTCTTG
94882642 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
94882657 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
94882672 TCGATCTCCA
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:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:94883439 original size:17 final size:18
Alignment explanation
Indices: 94883413--94883451 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
94883403 CAAATTGTGG
94883413 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
94883429 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
94883447 AAAAT
1 AAAAT
94883452 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:94883628 original size:15 final size:15
Alignment explanation
Indices: 94883608--94883638 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
94883598 AAAACAATAT
94883608 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
94883623 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
94883638 A
1 A
94883639 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:94883854 original size:21 final size:22
Alignment explanation
Indices: 94883806--94883851 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
94883796 GTACAACTAG
94883806 TTTGAGTTCCTCTACTTAGAAT
1 TTTGAGTTCCTCTACTTAGAAT
94883828 TTTGAGTTCCTCTACTTAGAAT
1 TTTGAGTTCCTCTACTTAGAAT
94883850 TT
1 TT
94883852 GAGCAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (22 bp):
TTTGAGTTCCTCTACTTAGAAT
Found at i:94885231 original size:18 final size:19
Alignment explanation
Indices: 94885208--94885248 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
94885198 GAGGTGATAA
94885208 AAAATGTATAATA-TA-ATT
1 AAAATGTA-AATATTAGATT
94885226 AAAATGTAAATATTAGATT
1 AAAATGTAAATATTAGATT
94885245 AAAA
1 AAAA
94885249 GAAAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (19 bp):
AAAATGTAAATATTAGATT
Found at i:94897498 original size:25 final size:25
Alignment explanation
Indices: 94897469--94897551 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
94897459 CCCCGATTTG
* *
94897469 TAGCTTGTGAGAGCTTACTGATTC-
1 TAGCTCGTGAGAGCTTACCGATTCA
94897493 TCAGCTCGT-ATGAGCTTACCGATTCA
1 T-AGCTCGTGA-GAGCTTACCGATTCA
* *
94897519 TAGCTCGTGAGAGCATACCAATTCA
1 TAGCTCGTGAGAGCTTACCGATTCA
94897544 TAGCTCGT
1 TAGCTCGT
94897552 ATAAGAATAC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
24 2 0.04
25 47 0.92
26 2 0.04
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (25 bp):
TAGCTCGTGAGAGCTTACCGATTCA
Found at i:94897549 original size:50 final size:50
Alignment explanation
Indices: 94897450--94897553 Score: 120
Period size: 50 Copynumber: 2.1 Consensus size: 50
94897440 ACCTCAACTT
* ** * * **
94897450 GTATGAGCTCCCCGATTTGTAGCTTGTGAGAGCTTACTGATTCTCAGCTC
1 GTATGAGCTCACCGATTCATAGCTCGTGAGAGCATACCAATTCTCAGCTC
*
94897500 GTATGAGCTTACCGATTCATAGCTCGTGAGAGCATACCAATTCAT-AGCTC
1 GTATGAGCTCACCGATTCATAGCTCGTGAGAGCATACCAATTC-TCAGCTC
94897550 GTAT
1 GTAT
94897554 AAGAATACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
50 44 0.98
51 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (50 bp):
GTATGAGCTCACCGATTCATAGCTCGTGAGAGCATACCAATTCTCAGCTC
Found at i:94902373 original size:3 final size:3
Alignment explanation
Indices: 94902365--94902402 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
94902355 AAATAGTTAA
*
94902365 AAT AAT AAT AAT AAT AAT -AT AAT AAT AAC AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
94902403 TTTTTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:94902386 original size:14 final size:14
Alignment explanation
Indices: 94902369--94902402 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
94902359 AGTTAAAATA
*
94902369 ATAATAATAATAAT
1 ATAATAATAACAAT
94902383 ATAATAATAACAAT
1 ATAATAATAACAAT
*
94902397 AAAATA
1 ATAATA
94902403 TTTTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAATAATAACAAT
Found at i:94902386 original size:17 final size:17
Alignment explanation
Indices: 94902366--94902398 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
94902356 AATAGTTAAA
*
94902366 ATAATAATAATAATAAT
1 ATAATAATAACAATAAT
94902383 ATAATAATAACAATAA
1 ATAATAATAACAATAA
94902399 AATATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAATAATAACAATAAT
Found at i:94904682 original size:15 final size:16
Alignment explanation
Indices: 94904662--94904694 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
94904652 ATATATATAT
94904662 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
94904677 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
94904694 T
1 T
94904695 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:94904767 original size:21 final size:22
Alignment explanation
Indices: 94904741--94904799 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
94904731 GTTTTAAGAA
*
94904741 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
94904762 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
94904784 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
94904800 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:94904814 original size:26 final size:24
Alignment explanation
Indices: 94904770--94904817 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
94904760 ATTTGTTTTA
*
94904770 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
94904794 ATATTTGATTTATTATATTTTTAA
1 ATATTTG-TTT-TTATATTTTTAA
94904818 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:94908796 original size:6 final size:6
Alignment explanation
Indices: 94908785--94908845 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
94908775 AATAAAAACC
* ** *
94908785 AACCTA AACCTA AAGCCCAA AAATTA AAACCCA AACCTA AACCTA AACCTA
1 AACCTA AACCTA AA--CCTA AACCTA A-ACCTA AACCTA AACCTA AACCTA
94908836 AACCTA AACC
1 AACCTA AACC
94908846 CAACAGCCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
6 36 0.82
7 3 0.07
8 5 0.11
ACGTcount: A:0.52, C:0.33, G:0.02, T:0.13
Consensus pattern (6 bp):
AACCTA
Found at i:94908804 original size:18 final size:18
Alignment explanation
Indices: 94908783--94908856 Score: 50
Period size: 18 Copynumber: 4.2 Consensus size: 18
94908773 CGAATAAAAA
94908783 CCAACCTAAACCTAAAGC
1 CCAACCTAAACCTAAAGC
* *
94908801 CCAA---AAA-TTAAAAC
1 CCAACCTAAACCTAAAGC
94908815 CCAAACCTAAACCTAAA-C
1 CC-AACCTAAACCTAAAGC
* *
94908833 CTAAACCTAAACCCAACAGC
1 C-CAACCTAAACCTAA-AGC
94908853 CCAA
1 CCAA
94908857 AACATTTTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 15
0.67 0.10 0.24
Matches are distributed among these distances:
14 7 0.17
15 5 0.12
18 21 0.50
19 7 0.17
20 2 0.05
ACGTcount: A:0.50, C:0.36, G:0.03, T:0.11
Consensus pattern (18 bp):
CCAACCTAAACCTAAAGC
Found at i:94909855 original size:3 final size:3
Alignment explanation
Indices: 94909840--94910038 Score: 73
Period size: 3 Copynumber: 64.0 Consensus size: 3
94909830 TTTCAAATTA
* *
94909840 ATT ATT TTT ATT ATT ATT TTCT ATT ATT A-T ATTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT A-TT ATT ATT ATT ATT
* * ** * * * *
94909886 -TT -TT ATT ACT ATT ACT ACA ATT ATC CTT ATT GACAT AGT -TT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -A-TT ATT ATT A-TT
* * * * * *
94909931 ATT TTT ATT ATT TTCT ATT ATT GTC ATT ATT ATT ATTT ACAT GTT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT
* * * * *
94909979 ATTT CTT TTT TTT ATT ATGGT CTT ATT ATT ATT ACT ATT ATT ATT ATT
1 A-TT ATT ATT ATT ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
94910027 ATT ACT ATT ATT
1 ATT ATT ATT ATT
94910039 GTCAAAACCA
Statistics
Matches: 144, Mismatches: 39, Indels: 26
0.69 0.19 0.12
Matches are distributed among these distances:
2 7 0.05
3 117 0.81
4 17 0.12
5 3 0.02
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:94909864 original size:13 final size:13
Alignment explanation
Indices: 94909812--94909898 Score: 79
Period size: 13 Copynumber: 6.5 Consensus size: 13
94909802 GCCCTTTTTC
94909812 ATTATTTTGCTATT
1 ATTATTTT-CTATT
*
94909826 -TTATTTTCAAATT
1 ATTATTTTC-TATT
94909839 AATTATTTT-TATT
1 -ATTATTTTCTATT
94909852 ATTATTTTCTATT
1 ATTATTTTCTATT
*
94909865 ATTATATTTATTATT
1 ATTAT-TTT-CTATT
*
94909880 ATTATTTTTTATT
1 ATTATTTTCTATT
*
94909893 ACTATT
1 ATTATT
94909899 ACTACAATTA
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
12 9 0.14
13 32 0.51
14 6 0.10
15 16 0.25
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.67
Consensus pattern (13 bp):
ATTATTTTCTATT
Found at i:94909874 original size:25 final size:27
Alignment explanation
Indices: 94909822--94909882 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 27
94909812 ATTATTTTGC
*
94909822 TATT-TTATTTTCAAATTAATTATTTT
1 TATTATTATTTTCAAATTAATTATATT
*
94909848 TATTATTATTTTC-TATT-ATTATATT
1 TATTATTATTTTCAAATTAATTATATT
94909873 TATTATTATT
1 TATTATTATT
94909883 ATTTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 17 0.53
26 7 0.22
27 8 0.25
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (27 bp):
TATTATTATTTTCAAATTAATTATATT
Found at i:94910651 original size:125 final size:124
Alignment explanation
Indices: 94910517--94910934 Score: 478
Period size: 129 Copynumber: 3.3 Consensus size: 124
94910507 CCCAAACGGT
* * * *
94910517 AAATCGAAACCCAGCACGATTGGGCACGATTTAC-CAAATTTCCAAATACGAAACATTGCCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGATCT-CTCAAATTTCCAAACACGAAATATTGCCTCGT
* * *
94910581 TTTAATTTGAAAAAACATGGATGAAATTTCAAAAGGATATTTTGTATTTTAGTCGAATGGA
65 TTTAGTTT-AAAAAACATGGATAAAATTTCAAAAGGATATTTCGTATTTTAGTCGAATGGA
* * * *
94910642 AAATCGAAACCCAGAACGATTGGGCACGATCTCTCAAACTTCCAAACGCGAAATACTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAATTTCCAAACACGAAATATTGCCTCGTT
* * * * *
94910707 TTAGTTTAAGAAAACATGAATAAAATTTCAAAAAAAAGGCTATTCCATATTTTAGTCGAATGAA
66 TTAGTTTAA-AAAACATGGATAAAATTTC----AAAAGGATATTTCGTATTTTAGTCGAATGGA
* * * **
94910771 AAATTGAAACCCAGCACGATTGGGCACGATCTCTCAGACTCTCCAAACACGAAATATTTTCTCGT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCA-AATTTCCAAACACGAAATATTGCCTCGT
* * * * *
94910836 TTTAGTTTTAAAAAGCATGGACAAAATTTCCAAAGAATATTTCGTATTTTAGTTGAATGGAAAA
65 TTTAG-TTTAAAAAACATGGATAAAATTTCAAAAGGATATTTCGTATTTTAGTCGAATGG---A
*
94910900 AAATCGAAACCCAGCACGATTGGGCACGATTTCTC
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTC
94910935 GGACCTCTAA
Statistics
Matches: 245, Mismatches: 37, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
124 3 0.01
125 78 0.32
126 23 0.09
129 94 0.38
130 42 0.17
131 5 0.02
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (124 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAATTTCCAAACACGAAATATTGCCTCGTT
TTAGTTTAAAAAACATGGATAAAATTTCAAAAGGATATTTCGTATTTTAGTCGAATGGA
Found at i:94912281 original size:17 final size:17
Alignment explanation
Indices: 94912259--94912297 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
94912249 TTCCTAGGCA
94912259 AGTGGGGTAATGG-GTTT
1 AGTGGGGTAATGGAG-TT
*
94912276 AGTGGGGTGATGGAGTT
1 AGTGGGGTAATGGAGTT
94912293 AGTGG
1 AGTGG
94912298 CAAGTAGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.51, T:0.31
Consensus pattern (17 bp):
AGTGGGGTAATGGAGTT
Found at i:94912811 original size:132 final size:134
Alignment explanation
Indices: 94912646--94914329 Score: 1000
Period size: 134 Copynumber: 12.6 Consensus size: 134
94912636 TCCATTTCTG
* * * * *
94912646 ATCTGGTCCATAGCCAATACATGGAGATAAGATCTATACTTTTCAGTTTGCTTCTTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCTTGCAACTTCA
* * * *
94912711 GGAAGATAAGGCCTG-TATCTTCAACCTGCTCTC-TTGCTATCTT-AGAGAGATAAG-GCTGGTG
66 GGAAGATAAGACCTGCTATCTTCAACCTGCTC-CACTGC-AACTTCAGAGAGATAAGAGCTGGTA
94912772 GCTAAA
129 GCTAAA
* * *
94912778 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTTAGTCTGCTT-TCTGCAACTTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCT-TGCAACTTC
* * ** * * * *
94912842 AGGAAGATAAGACTTGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGCGAGATAAGAGTTGTTAT
65 AGGAAGATAAGACCTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGAGCTGGTAG
* **
94912907 TTTCA
130 CTAAA
* *
94912912 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTACAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGT-AATTTTCAGTCTGCTTCTTGCAACTTC
** ** ** * * * *
94912977 AGGAAGATAAGA-CTAATGGCTAAAATCTGCTCTA-TAGCCGA-TACATG-GAGATAAGA-CTCG
65 AGGAAGATAAGACCTGCTATCTTCAACCTGCTCCACT-G-CAACTTCA-GAGAGATAAGAGCT-G
** ** ***
94913037 CCATTTCTG
126 GTAGCTAAA
* * *
94913046 ATCTGCTCCATAGCCAATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCTTGCAACTTCA
* * ** * * *
94913111 GAAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTGTCAT
66 GGAAGATAAGACCTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGAGCTGGT-AG
* ***
94913175 TTTCC
130 CTAAA
* * * *
94913180 ATCTGTTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTACTTCCTGTAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGT-AATTTTCAGTCTGCTTCTTGCAACTTC
** ** * *
94913245 AGGAAGATAAGA-CTAG-TGGCTAAAATCTGCTCCA-TAGCAGA-TACATG-GAGATAAGA-CTC
65 AGGAAGATAAGACCT-GCTATCTTCAACCTGCTCCACT-GCA-ACTTCA-GAGAGATAAGAGCT-
** ** ***
94913304 GCCATTTCTG
125 GGTAGCTAAA
* * *
94913314 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTACAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCTTGCAACTTCA
* ** * * * *
94913379 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGA-CTTGTTAT
66 GGAAGATAAGACCTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGAGC-TGGTAG
* ***
94913443 TTTCG
130 CTAAA
* * *
94913448 ATCTGCTCCATAGCCAATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTACAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGT-AATTTTCAGTCTGCTTCTTGCAACTTC
** ** * * * *
94913513 AGGAAGATAAGA-CTAG-TGGCTAAAATCTGCTCCA-TAGCTGA-TACATGA-AGATAAGA-CTC
65 AGGAAGATAAGACCT-GCTATCTTCAACCTGCTCCACT-GC-AACTTCA-GAGAGATAAGAGCTG
* ** ***
94913572 ATCATTTCTG
126 GT-AGCTAAA
* * ** *
94913582 ATCTGCTCCATAGCCAATATATAAAGATAAGATCTGTAACTTTT-AGTCTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAA-TTTTCAGTCTGCTTCTTGCAACTTC
* ** * *
94913646 AGGAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTGTCA
65 AGGAAGATAAGACCTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGAGCTGGT-A
** ***
94913710 TTTTCC
129 GCTAAA
* *
94913716 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTTAGTCTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGT-AATTTTCAGTCTGCTTCTTGCAACTTC
** ** * * *
94913781 AGGAAGATAAGA-CTAG-TGGCTAAAATCTACTCCA-TAGCAGA-TACATG-GAGATAAGA-CTC
65 AGGAAGATAAGACCT-GCTATCTTCAACCTGCTCCACT-GCA-ACTTCA-GAGAGATAAGAGCT-
** ** ***
94913840 GCCATTTCTG
125 GGTAGCTAAA
* * *
94913850 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCTTGCAACTTCA
* ** * * * * * *
94913915 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCTATTGCAACTTCAGGGAGATAATA-CTTGTTAT
66 GGAAGATAAGACCTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGAGC-TGGTAG
* ***
94913979 TTTCG
130 CTAAA
* * *
94913984 ATCTGCTCTATAGCCGATACATGGAGATAAGATTTGTAAATTTTCAGTCTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGT-AATTTTCAGTCTGCTTCTTGCAACTTC
** ** * * * *
94914049 AGGAAGATAAGA-CTAGC-GGCTAAAATCTACTCCA-TAGCTGA-TACATGA-AGATAAGA-CTC
65 AGGAAGATAAGACCT-GCTATCTTCAACCTGCTCCACT-GC-AACTTCA-GAGAGATAAGAGCT-
*** ** ***
94914108 ACCATTTTTG
125 GGTAGCTAAA
* ** * * * *
94914118 ATCTGCTCCATAGCCGATATATAAAGATAAGATTTGTAACTTTCAGTCTACTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCTTGCAACTTCA
* * *** * * * *
94914183 GGAAGATAAGACTTGCTATCTTTAGTTTGCTCCATTGCAACTTCAGGGAGATAAGA-CTTGTCAT
66 GGAAGATAAGACCTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGAGCTGGT-AG
* ***
94914247 TTTCG
130 CTAAA
* * *
94914252 ATATGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTTTAGTCTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAA-TTTTCAGTCTGCTTCTTGCAACTTC
94914317 AGGAAGATAAGAC
65 AGGAAGATAAGAC
94914330 TAGTGGCTAA
Statistics
Matches: 1269, Mismatches: 217, Indels: 129
0.79 0.13 0.08
Matches are distributed among these distances:
131 1 0.00
132 73 0.06
133 229 0.18
134 729 0.57
135 237 0.19
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (134 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCTTGCAACTTCA
GGAAGATAAGACCTGCTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGAGCTGGTAGC
TAAA
Found at i:94912896 original size:45 final size:45
Alignment explanation
Indices: 94912832--94913991 Score: 198
Period size: 45 Copynumber: 26.0 Consensus size: 45
94912822 AGTCTGCTTT
* * *
94912832 CTGCAACTTTAGGAAGATAAGACTTGCTGTCTTCAGTCTGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * *
94912877 CTGCAACTTCAGCG-AGATAAGAGTTGTTATTTTCAATCTGCTCCA
1 CTGCAACTTCAG-GAAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * * *
94912922 -TAGCCGA-TACATGG-AGATAAGA-TCTG-TAAATTTTCAGTCTGCTTC-
1 CT-G-CAACTTCA-GGAAGATAAGACT-TGCT--ATCTTCAATCTGCTCCA
* ** ** ** *
94912967 CTACAACTTCAGGAAGATAAGAC-TAATGGCTAAAATCTGCTCTA
1 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * * *
94913011 -TAGCCGA-TACATGG-AGATAAGACTCGCCAT-TTCTGATCTGCTCCA
1 CT-G-CAACTTCA-GGAAGATAAGACTTGCTATCTTC-AATCTGCTCCA
* * * *
94913056 -TAGCCAA-TACATGG-AGATAAGA-TCTG-TAACTTTCAGTCTGCTTC-
1 CT-G-CAACTTCA-GGAAGATAAGACT-TGCTATC-TTCAATCTGCTCCA
* *
94913100 CTGCAACTTCAGAAAGATAAGACTTGCTATCTTCAGTCTGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * *
94913145 CTGCAACTTCAGGGAGATAAGACTTG-TCATTTTCCATCTGTTCCA
1 CTGCAACTTCAGGAAGATAAGACTTGCT-ATCTTCAATCTGCTCCA
* * * * * *
94913190 -TAGCCGA-TACATGG-AGATAAGA-TCTG-TAAATTTTCAGTCTACTTC-
1 CT-G-CAACTTCA-GGAAGATAAGACT-TGCT--ATCTTCAATCTGCTCCA
* * ** **
94913235 CTGTAACTTCAGGAAGATAAGACTAG-TGGCTAAAATCTGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * *
94913279 -TAGCAGA-TACATGG-AGATAAGACTCGCCAT-TTCTGATCTGCTCCA
1 CT-GCA-ACTTCA-GGAAGATAAGACTTGCTATCTTC-AATCTGCTCCA
* * * * *
94913324 -TAGCCGA-TACATGG-AGATAAGA-TCTG-TAACTTTCAGTCTGCTTC-
1 CT-G-CAACTTCA-GGAAGATAAGACT-TGCTATC-TTCAATCTGCTCCA
* *
94913368 CTACAACTTCAGGAAGATAAGACTTGCTATCTTCAGTCTGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * * *
94913413 TTGCAACTTCAGGGAGATAAGACTTGTTATTTTCGATCTGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * *
94913458 -TAGCCAA-TACATGG-AGATAAGA-TCTG-TAAATTTTCAGTCTGCTTC-
1 CT-G-CAACTTCA-GGAAGATAAGACT-TGCT--ATCTTCAATCTGCTCCA
* * ** **
94913503 CTACAACTTCAGGAAGATAAGACTAG-TGGCTAAAATCTGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * *
94913547 -TAGCTGA-TACATGAAGATAAGAC-T-C-ATCATTTCTGATCTGCTCCA
1 CT-GC-AACTTCAGGAAGATAAGACTTGCTATC--TTC-AATCTGCTCCA
** * * * *
94913592 -TAGCCAA-TAT-ATAAAGATAAGA-TCTG-TAACTTTTAGTCTGCTTC-
1 CT-G-CAACT-TCAGGAAGATAAGACT-TGCTATC-TTCAATCTGCTCCA
*
94913636 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAGTCTGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * *
94913681 CTGCAACTTCAGGGAGATAAGACTTG-TCATTTTCCATCTGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTTGCT-ATCTTCAATCTGCTCCA
* * * * * *
94913726 -TAGCCGA-TACATGG-AGATAAGA-TCTG-TAAATTTTTAGTCTGCTTC-
1 CT-G-CAACTTCA-GGAAGATAAGACT-TGCT--ATCTTCAATCTGCTCCA
* ** ** *
94913771 CTGCAACTTCAGGAAGATAAGACTAG-TGGCTAAAATCTACTCCA
1 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * *
94913815 -TAGCAGA-TACATGG-AGATAAGACTCGCCAT-TTCTGATCTGCTCCA
1 CT-GCA-ACTTCA-GGAAGATAAGACTTGCTATCTTC-AATCTGCTCCA
* * * *
94913860 -TAGCCGA-TACATGG-AGATAAGA--T-CTATAACTTTCAGTCTGCTTC-
1 CT-G-CAACTTCA-GGAAGATAAGACTTGCTAT--C-TTCAATCTGCTCCA
* *
94913904 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAGTCTGCTCTA
1 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCTGCTCCA
* * * * * *
94913949 TTGCAACTTCAGGGAGATAATACTTGTTATTTTCGATCTGCTC
1 CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCTGCTC
94913992 TATAGCCGAT
Statistics
Matches: 820, Mismatches: 185, Indels: 220
0.67 0.15 0.18
Matches are distributed among these distances:
42 4 0.00
43 53 0.06
44 196 0.24
45 470 0.57
46 91 0.11
47 6 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (45 bp):
CTGCAACTTCAGGAAGATAAGACTTGCTATCTTCAATCTGCTCCA
Found at i:94913106 original size:268 final size:268
Alignment explanation
Indices: 94912778--94914372 Score: 2632
Period size: 268 Copynumber: 6.0 Consensus size: 268
94912768 GGTGGCTAAA
* * * *
94912778 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTTAGTCTGCTTTCTGCAACTTTA
1 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
* * * *
94912843 GGAAGATAAGACTTGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGCGAGATAAGAGTTGTTATT
66 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
* *
94912908 TTCAATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTACAA
131 TTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAA
* * *
94912973 CTTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCTATAGCCGATACATGGAGATAAGACTCGC
196 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCGC
94913038 CATTTCTG
261 CATTTCTG
* *
94913046 ATCTGCTCCATAGCCAATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
*
94913111 GAAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
66 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
* * * *
94913176 TTCCATCTGTTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTACTTCCTGTAA
131 TTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAA
94913241 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCGC
196 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCGC
94913306 CATTTCTG
261 CATTTCTG
* *
94913314 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTACAACTTCA
1 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
* *
94913379 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTTATT
66 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
* *
94913444 TTCGATCTGCTCCATAGCCAATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTACAA
131 TTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAA
* * **
94913509 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCTGATACATGAAGATAAGACTCAT
196 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCGC
94913574 CATTTCTG
261 CATTTCTG
* * * *
94913582 ATCTGCTCCATAGCCAATATATAAAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
94913647 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
66 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
* *
94913712 TTCCATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTTAGTCTGCTTCCTGCAA
131 TTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAA
*
94913777 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTACTCCATAGCAGATACATGGAGATAAGACTCGC
196 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCGC
94913842 CATTTCTG
261 CATTTCTG
* *
94913850 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
* * * *
94913915 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCTATTGCAACTTCAGGGAGATAATACTTGTTATT
66 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
* *
94913980 TTCGATCTGCTCTATAGCCGATACATGGAGATAAGATTTGTAAATTTTCAGTCTGCTTCCTGCAA
131 TTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAA
* * * * *
94914045 CTTCAGGAAGATAAGACTAGCGGCTAAAATCTACTCCATAGCTGATACATGAAGATAAGACTCAC
196 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCGC
*
94914110 CATTTTTG
261 CATTTCTG
* * * *
94914118 ATCTGCTCCATAGCCGATATATAAAGATAAGATTTGTAACTTTCAGTCTACTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
* * *
94914183 GGAAGATAAGACTTGCTATCTTTAGTTTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTCATT
66 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
* * *
94914248 TTCGATATGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTTTAGTCTGCTTCCTGCAA
131 TTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAA
*
94914313 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
196 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGA
94914373 TCTATAATTT
Statistics
Matches: 1237, Mismatches: 90, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
268 1237 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (268 bp):
ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
TTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAA
CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCGC
CATTTCTG
Found at i:94913992 original size:45 final size:45
Alignment explanation
Indices: 94913371--94914062 Score: 155
Period size: 45 Copynumber: 15.5 Consensus size: 45
94913361 CTGCTTCCTA
*
94913371 CAACTTCAGGAAGATAAGACTTGCTATCTTCAGTCTGCTCCATTG
1 CAACTTCAGGAAGATAAGACTTGCTATCTTCAGTCTGCTCTATTG
* * * * *
94913416 CAACTTCAGGGAGATAAGACTTGTTATTTTC-GATCTGCTCCATAG
1 CAACTTCAGGAAGATAAGACTTGCTATCTTCAG-TCTGCTCTATTG
* * ** *
94913461 CCAA-TACATGG-AGATAAGA-TCTG-TAAATTTTCAGTCTGCT-TCCTA
1 -CAACTTCA-GGAAGATAAGACT-TGCT--ATCTTCAGTCTGCTCTATTG
* ** ** * * *
94913506 CAACTTCAGGAAGATAAGACTAG-TGGCTAAAATCTGCTCCATAG
1 CAACTTCAGGAAGATAAGACTTGCTATCTTCAGTCTGCTCTATTG
* * * * * *
94913550 CTGA-TACATGAAGATAAGAC-T-C-ATCATTTCTGATCTGCTCCATAG
1 C-AACTTCAGGAAGATAAGACTTGCTATC--TTCAG-TCTGCTCTATTG
** * * **
94913595 CCAA-TAT-ATAAAGATAAGA-TCTG-TAACTTTTAGTCTGCT-TCCTG
1 -CAACT-TCAGGAAGATAAGACT-TGCTATC-TTCAGTCTGCTCTATTG
* *
94913639 CAACTTCAGGAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTG
1 CAACTTCAGGAAGATAAGACTTGCTATCTTCAGTCTGCTCTATTG
* * * *
94913684 CAACTTCAGGGAGATAAGACTTG-TCATTTTCCA-TCTGCTCCATAG
1 CAACTTCAGGAAGATAAGACTTGCT-ATCTT-CAGTCTGCTCTATTG
* * * * **
94913729 CCGA-TACATGG-AGATAAGA-TCTG-TAAATTTTTAGTCTGCT-TCCTG
1 -CAACTTCA-GGAAGATAAGACT-TGCT--ATCTTCAGTCTGCTCTATTG
* ** ** * * * *
94913774 CAACTTCAGGAAGATAAGACTAG-TGGCTAAAATCTACTCCATAG
1 CAACTTCAGGAAGATAAGACTTGCTATCTTCAGTCTGCTCTATTG
* * * * * *
94913818 CAGA-TACATGG-AGATAAGACTCGCCAT-TTCTGATCTGCTCCATAG
1 CA-ACTTCA-GGAAGATAAGACTTGCTATCTTCAG-TCTGCTCTATTG
* * **
94913863 CCGA-TACATGG-AGATAAGA--T-CTATAACTTTCAGTCTGCT-TCCTG
1 -CAACTTCA-GGAAGATAAGACTTGCTAT--C-TTCAGTCTGCTCTATTG
94913907 CAACTTCAGGAAGATAAGACTTGCTATCTTCAGTCTGCTCTATTG
1 CAACTTCAGGAAGATAAGACTTGCTATCTTCAGTCTGCTCTATTG
* * * * *
94913952 CAACTTCAGGGAGATAATACTTGTTATTTTC-GATCTGCTCTATAG
1 CAACTTCAGGAAGATAAGACTTGCTATCTTCAG-TCTGCTCTATTG
* * * * **
94913997 CCGA-TACATGG-AGATAAGATTTG-TAAATTTTCAGTCTGCT-TCCTG
1 -CAACTTCA-GGAAGATAAGACTTGCT--ATCTTCAGTCTGCTCTATTG
94914042 CAACTTCAGGAAGATAAGACT
1 CAACTTCAGGAAGATAAGACT
94914063 AGCGGCTAAA
Statistics
Matches: 474, Mismatches: 112, Indels: 122
0.67 0.16 0.17
Matches are distributed among these distances:
42 4 0.01
43 23 0.05
44 101 0.21
45 274 0.58
46 64 0.14
47 8 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (45 bp):
CAACTTCAGGAAGATAAGACTTGCTATCTTCAGTCTGCTCTATTG
Found at i:94914193 original size:44 final size:43
Alignment explanation
Indices: 94914141--94914243 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 43
94914131 CCGATATATA
*
94914141 AAGATAAGATTTGTAACTTTCAGTCTACTTCC-TGCAACTTCAGG
1 AAGATAAGACTTGTAACTTT-AGTCTAC-TCCATGCAACTTCAGG
* * *
94914185 AAGATAAGACTTGCTATCTTTAGTTTGCTCCATTGCAACTTCAGG
1 AAGATAAGACTTG-TAACTTTAGTCTACTCCA-TGCAACTTCAGG
*
94914230 GAGATAAGACTTGT
1 AAGATAAGACTTGT
94914244 CATTTTCGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.06
44 18 0.35
45 30 0.59
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (43 bp):
AAGATAAGACTTGTAACTTTAGTCTACTCCATGCAACTTCAGG
Found at i:94914415 original size:268 final size:267
Alignment explanation
Indices: 94912778--94914598 Score: 2496
Period size: 268 Copynumber: 6.8 Consensus size: 267
94912768 GGTGGCTAAA
* * * * *
94912778 ATCTGCTCCATAGCCGATACATAG-AGATAAGATCTGTAATTTTTAGTCTGCTTTCTGCAACTTT
1 ATCTGCTCCATAGAC-ATACA-AGAAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTC
* * * * *
94912842 AGGAAGATAAGACTTGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGCGAGATAAGAGTTGTTAT
64 AGGAAGATAAGACTTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTCAT
* *
94912907 TTTCAATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTACA
129 TTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCA
* * * *
94912972 ACTTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCTATAGCCGATACATGGAGATAAGACTCG
194 ACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCA
94913037 CCATTTCTG
259 CCATTTCTG
* * *
94913046 ATCTGCTCCATAGCCAATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGAC-ATACAAGAAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
* *
94913111 GAAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
65 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTCATT
* * * *
94913176 TTCCATCTGTTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTACTTCCTGTAA
130 TTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAA
*
94913241 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCGC
195 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCAC
94913306 CATTTCTG
260 CATTTCTG
* * * *
94913314 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTACAACTTCA
1 ATCTGCTCCATAGAC-ATACAAGAAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
*
94913379 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTTATT
65 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTCATT
* *
94913444 TTCGATCTGCTCCATAGCCAATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTACAA
130 TTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAA
* * *
94913509 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCTGATACATGAAGATAAGACTCAT
195 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCAC
94913574 CATTTCTG
260 CATTTCTG
* * *
94913582 ATCTGCTCCATAGCCAATATATA-AAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGAC-ATACA-AGAAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTC
*
94913646 AGGAAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCAT
64 AGGAAGATAAGACTTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTCAT
* *
94913711 TTTCCATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTTAGTCTGCTTCCTGCA
129 TTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCA
* *
94913776 ACTTCAGGAAGATAAGACTAGTGGCTAAAATCTACTCCATAGCAGATACATGGAGATAAGACTCG
194 ACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCA
94913841 CCATTTCTG
259 CCATTTCTG
* * * *
94913850 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGAC-ATACAAGAAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCA
* * *
94913915 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCTATTGCAACTTCAGGGAGATAATACTTGTTATT
65 GGAAGATAAGACTTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTCATT
* *
94913980 TTCGATCTGCTCTATAGCCGATACATGGAGATAAGATTTGTAAATTTTCAGTCTGCTTCCTGCAA
130 TTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAA
* * * *
94914045 CTTCAGGAAGATAAGACTAGCGGCTAAAATCTACTCCATAGCTGATACATGAAGATAAGACTCAC
195 CTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCAC
*
94914110 CATTTTTG
260 CATTTCTG
* * * *
94914118 ATCTGCTCCATAGCCGATATATA-AAGATAAGATTTGTAACTTTCAGTCTACTTCCTGCAACTTC
1 ATCTGCTCCATAGAC-ATACA-AGAAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTC
* *
94914182 AGGAAGATAAGACTTGCTATCTTTAGTTTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTCAT
64 AGGAAGATAAGACTTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTCAT
* * *
94914247 TTTCGATATGCTCCATAGCCGATACATGGAGATAAGATCTGTAAGTTTTTAGTCTGCTTCCTGCA
129 TTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCA
*
94914312 ACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA-TCT
194 ACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTC-
** * *
94914376 ATAATTTGTT
258 ACCATTTCTG
** * * * ** * *
94914386 AGTAAGCTTCCTGTA-AC-TTCAAGAAGATAAGA-CTTGTATC-TTCAACCTGCTCTCTTGCTAC
1 A-TCTGC-TCC-ATAGACATACAAGAAGATAAGATC-TGTAACTTTCAGTCTGCT-TCCTGC-AA
* * ** ** * * ** * * *
94914447 CTT-A-GAGAGATAAGGC-TGGTGGCTAAAATCTGCTCTATAACCGA-TACATGGAGATAAGACT
60 CTTCAGGA-AGATAAGACTTGCTATCTTCAGTCTGCTCCAT-TGCAACTTCAGGGAGATAAGACT
* * * *
94914508 CGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTTAGTCTGCTC
123 TGTCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTT
*
94914573 CACTGCAACTTCAGGGAGATAAGACT
188 C-CTGCAACTTCAGGAAGATAAGACT
94914599 TTTCACTTCA
Statistics
Matches: 1411, Mismatches: 127, Indels: 30
0.90 0.08 0.02
Matches are distributed among these distances:
267 104 0.07
268 1294 0.92
269 7 0.00
270 4 0.00
271 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (267 bp):
ATCTGCTCCATAGACATACAAGAAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCAACTTCAG
GAAGATAAGACTTGCTATCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTCATTT
TCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTCAGTCTGCTTCCTGCAAC
TTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCAGATACATGGAGATAAGACTCACC
ATTTCTG
Found at i:94914436 original size:89 final size:89
Alignment explanation
Indices: 94914218--94914437 Score: 280
Period size: 89 Copynumber: 2.5 Consensus size: 89
94914208 TTTGCTCCAT
* * * *
94914218 TGCAACTTCAGGGAGATAAGACTTGTCATTTTCGATATGCTCCATAGCCGATACATGGAGATAAG
1 TGCAACTTCAGGAAGATAAGACTTGT-ATCTTCAATCTGCTCCATAGCCGATACATGGAGATAAG
* **
94914283 ATCTGTAAGTTTTTAGTCTGCTTCC
65 ATCTATAAGTTTTTAGTAAGCTTCC
* ** **
94914308 TGCAACTTCAGGAAGATAAGACTAGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
1 TGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTGCTCCATAGCCGATACATGGAGATAAGA
94914373 TCTATAA-TTTGTTAGTAAGCTTCC
66 TCTATAAGTTT-TTAGTAAGCTTCC
* * *
94914397 TGTAACTTCAAGAAGATAAGACTTGTATCTTCAACCTGCTC
1 TGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTGCTC
94914438 TCTTGCTACC
Statistics
Matches: 109, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
88 3 0.03
89 82 0.75
90 24 0.22
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (89 bp):
TGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTGCTCCATAGCCGATACATGGAGATAAGA
TCTATAAGTTTTTAGTAAGCTTCC
Found at i:94914855 original size:64 final size:64
Alignment explanation
Indices: 94914753--94914880 Score: 193
Period size: 64 Copynumber: 2.0 Consensus size: 64
94914743 TCATGTATCT
* * *
94914753 ATGCTTATGCCAAATAATTAGGATACTATGATCGAAATGAACCAAATGCTCCTAACTAAATGTG
1 ATGCTTATACCAAATAATTAGGATACTATGATCAAAATGAACCAAATACTCCTAACTAAATGTG
* * * *
94914817 ATGCTTATATCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTAACTAGATGTG
1 ATGCTTATACCAAATAATTAGGATACTATGATCAAAATGAACCAAATACTCCTAACTAAATGTG
94914881 TTATGAATGA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.30
Consensus pattern (64 bp):
ATGCTTATACCAAATAATTAGGATACTATGATCAAAATGAACCAAATACTCCTAACTAAATGTG
Found at i:94921033 original size:128 final size:125
Alignment explanation
Indices: 94920749--94921184 Score: 482
Period size: 125 Copynumber: 3.4 Consensus size: 125
94920739 CCCAAACGGT
* * * * *
94920749 AAATCGAAACCCAGCACGATTGGGCACGATTTAC-CGAATTTCCAAATATGAAACATTGCCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGATCT-CTCAAACTTCCAAACACGAAACATTGCCTCAT
* * * * *
94920813 TTTAATTTGAGAAAACATGGATGAAATTTCAAAAGGATATTCTGTATTTTAGTCGAATAGA
65 TTTAGTTTAAGAAAACATGGATAAAATTTCAAAAGGATATTCCGAATTTTAGTCGAATAGA
* *
94920874 AAATCGAAACCCAGCACGATTGGGCACGATCTCTTAAACTTCCAAACACGAAACATTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAACATTGCCTCATT
* *
94920939 TTAGTTTAAGAAAACATGAATAAAATTTCAAAAAAAGGCTATTCCGAATTTTAGTCGAAT-GAA
66 TTAGTTTAAGAAAACATGGATAAAATTTC---AAAAGGATATTCCGAATTTTAGTCGAATAG-A
* * * *
94921002 AAATTGAAACCCAGCACGATTGGGCATGATCTCTCAGACTCTCCAAACACGAAATATTGCCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACT-TCCAAACACGAAACATTGCCTCAT
* * * ** * * *
94921067 TTTAGTTTTAA-AAAGCATGGACAAAATTTCCAAAGGATATTTTGTATTTTAGTTGAACAGAAAA
65 TTTAG-TTTAAGAAAACATGGATAAAATTTCAAAAGGATATTCCGAATTTTAGTCGAATAG----
94921131 A
125 A
* * * *
94921132 AAATCGAAACCCAGCACGATTGGACACGATTTCTCAGACCTCCAAACACGAAA
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAA
94921185 TAATCCTTTA
Statistics
Matches: 265, Mismatches: 35, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
124 1 0.00
125 81 0.31
126 21 0.08
127 2 0.01
128 62 0.23
129 56 0.21
130 42 0.16
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (125 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAACATTGCCTCATT
TTAGTTTAAGAAAACATGGATAAAATTTCAAAAGGATATTCCGAATTTTAGTCGAATAGA
Found at i:94921965 original size:23 final size:21
Alignment explanation
Indices: 94921935--94921977 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
94921925 ATAGCTTAAT
94921935 ATAAATAATATATATAAAAATA
1 ATAAATAATATATA-AAAAATA
*
94921957 ATAATATAATATTTAAAAAAT
1 ATAA-ATAATATATAAAAAAT
94921978 GTTCATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAATAATATATAAAAAATA
Found at i:94922518 original size:13 final size:13
Alignment explanation
Indices: 94922500--94922525 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94922490 GGTAATGGGG
94922500 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
94922513 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
94922526 GGAGTTAGTG
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:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:94922535 original size:17 final size:16
Alignment explanation
Indices: 94922485--94922536 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
94922475 TTCCTAGGCA
*
94922485 AGTGGGGTAATGGGGTT
1 AGTGGGGTGAT-GGGTT
94922502 AGTGGGGTGAT---TT
1 AGTGGGGTGATGGGTT
94922515 AGTGGGGTGATGGAGTT
1 AGTGGGGTGATGG-GTT
94922532 AGTGG
1 AGTGG
94922537 CAAGTAGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 13 0.43
17 17 0.57
ACGTcount: A:0.17, C:0.00, G:0.52, T:0.31
Consensus pattern (16 bp):
AGTGGGGTGATGGGTT
Found at i:94922680 original size:3 final size:3
Alignment explanation
Indices: 94922657--94922712 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
94922647 TTTAACATAC
* * * * * *
94922657 TAT TAT TAC TAT TTT TGT TAT TAT TAT TAT TAC TAT T-G TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
94922704 TAT TAT TAT
1 TAT TAT TAT
94922713 ATTTTCATCT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 1 0.02
3 40 0.98
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:94922715 original size:14 final size:15
Alignment explanation
Indices: 94922675--94922712 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
94922665 CTATTTTTGT
94922675 TATTATTATTATTAC
1 TATTATTATTATTAC
*
94922690 TATT-GTATTATTAC
1 TATTATTATTATTAC
94922704 TATTATTAT
1 TATTATTAT
94922713 ATTTTCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:94922756 original size:15 final size:14
Alignment explanation
Indices: 94922738--94922772 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
94922728 TATTTTCTTA
94922738 TTATTTATCTAATTT
1 TTATTTATCT-ATTT
94922753 TTATTTATCTATTT
1 TTATTTATCTATTT
*
94922767 ATATTT
1 TTATTT
94922773 CTGTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTATCTATTT
Found at i:94922771 original size:14 final size:15
Alignment explanation
Indices: 94922739--94922772 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
94922729 ATTTTCTTAT
*
94922739 TATTTATCTAATTTT
1 TATTTATCTAATTTA
94922754 TATTTATCT-ATTTA
1 TATTTATCTAATTTA
94922768 TATTT
1 TATTT
94922773 CTGTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:94922871 original size:18 final size:18
Alignment explanation
Indices: 94922844--94922878 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94922834 TTACAATTGC
*
94922844 TATTTTTTATTAGTATTA
1 TATTTATTATTAGTATTA
*
94922862 TATTTATTATTATTATT
1 TATTTATTATTAGTATT
94922879 TTTTCTATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTTATTATTAGTATTA
Found at i:94922902 original size:34 final size:36
Alignment explanation
Indices: 94922857--94922923 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 36
94922847 TTTTTATTAG
*
94922857 TATTATATTTATTATTAT-TATTTTTT-CTATTGTT
1 TATTATATTTATTACTATCTATTTTTTACTATTGTT
* *
94922891 TATTATCTTTATTACTATCTTTTTTTTACTATT
1 TATTATATTTATTACTATCTATTTTTTACTATT
94922924 ATTATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 16 0.57
35 7 0.25
36 5 0.18
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.69
Consensus pattern (36 bp):
TATTATATTTATTACTATCTATTTTTTACTATTGTT
Found at i:94941428 original size:52 final size:52
Alignment explanation
Indices: 94941366--94941501 Score: 168
Period size: 52 Copynumber: 2.6 Consensus size: 52
94941356 TGTGCCTCCA
94941366 TATAAGACCATAGCTGGGATATGGCATCGGTGCAATATGAT-TCGAG-TTCCTG
1 TATAAGACCATAGCTGGGATATGGCATCGGTGCAATATGATAT-GAGATTCC-G
* * ** * *
94941418 TATAAGACCATAGTTGGGCTATGGCATCGGTGTGATGTGATAATGTGATTCCG
1 TATAAGACCATAGCTGGGATATGGCATCGGTGCAATATGAT-ATGAGATTCCG
*
94941471 TATAAGACCATATCTGGGATATGGCATCGGT
1 TATAAGACCATAGCTGGGATATGGCATCGGT
94941502 ATGTTATGTG
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
52 36 0.50
53 31 0.43
54 5 0.07
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (52 bp):
TATAAGACCATAGCTGGGATATGGCATCGGTGCAATATGATATGAGATTCCG
Found at i:94941540 original size:46 final size:47
Alignment explanation
Indices: 94941366--94941557 Score: 145
Period size: 46 Copynumber: 3.9 Consensus size: 47
94941356 TGTGCCTCCA
* * * *
94941366 TATAAGACCATAGCTGGGATATGGCATCGGTGCAATATGAT-TCGAGTTCCTG
1 TATAAGACCATAGCAGGGCTATGGCATCGGT---ATGTTATGT-GA-TTCC-G
**
94941418 TATAAGACCATAGTTGGGCTATGGCATCGGTGTGATGTGATAATGTGATTCCG
1 TATAAGACCATAGCAGGGCTATGGCATC-G-GT-ATGT--T-ATGTGATTCCG
* * *
94941471 TATAAGACCATATCTGGGATATGGCATCGGTATGTTATGTGATT-CG
1 TATAAGACCATAGCAGGGCTATGGCATCGGTATGTTATGTGATTCCG
* * * *
94941517 TGTAAGACCATGGCAGGGCTATGGCTTCGGTATGTGATGTG
1 TATAAGACCATAGCAGGGCTATGGCATCGGTATGTTATGTG
94941558 TGACAATGTG
Statistics
Matches: 119, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
46 36 0.30
47 8 0.07
48 1 0.01
50 4 0.03
51 2 0.02
52 30 0.25
53 27 0.23
54 6 0.05
55 4 0.03
56 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (47 bp):
TATAAGACCATAGCAGGGCTATGGCATCGGTATGTTATGTGATTCCG
Found at i:94952948 original size:55 final size:53
Alignment explanation
Indices: 94952848--94953094 Score: 197
Period size: 55 Copynumber: 4.7 Consensus size: 53
94952838 TTAAAGGTAC
* * *
94952848 CATGTAAGACCATGCCAATG-CATGGCAATTAGTATGGTTTC-TAAGGCAAGGAAAT
1 CATGTAAGACCATGTCAA-GACATGGC-ATTGGTA-AG-TTCATAAGGCAAGGAAAT
* ***
94952903 CATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC-AAGGAAAT
* * * * * *
94952959 -ATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAGGAAAT
*
94953011 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---AAGGATAA-
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGCAAGGA-AAT
* * *
94953060 CATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 CATGTAAGACCATGTCAAGACATGGCATTGGTAAG
94953095 GTACCCGTTT
Statistics
Matches: 160, Mismatches: 24, Indels: 22
0.78 0.12 0.11
Matches are distributed among these distances:
49 38 0.24
50 1 0.01
51 1 0.01
52 8 0.05
53 40 0.25
54 7 0.04
55 60 0.38
56 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAGGAAAT
Found at i:94953031 original size:108 final size:109
Alignment explanation
Indices: 94952840--94953047 Score: 289
Period size: 108 Copynumber: 1.9 Consensus size: 109
94952830 ATTAGGGTTT
* * *
94952840 AAAGGTACCATGTAAGACCATGCCAATGCATGGCAATTAGTATGGTTTCTAAGGCAAGGAAATCA
1 AAAGGTACCATGTAAGACCATGCCAAGGCATGACAATTAGTA-GGTTTCTAAGGCAAGGAAACCA
*
94952905 TGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
65 TGTAAGACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGC
* *
94952950 AAAGGT-CCTATGTAAGACCATGCCAAGGCATGAC-ATTGGT-GAG-TTCATAAGGCAAGGATAC
1 AAAGGTACC-ATGTAAGACCATGCCAAGGCATGACAATTAGTAG-GTTTC-TAAGGCAAGGAAAC
*
94953011 CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
63 CATGTAAGACCATGTCAAGACATGGCAATGATAAGTT
94953048 TCAAAAGGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
107 4 0.05
108 48 0.55
109 7 0.08
110 29 0.33
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (109 bp):
AAAGGTACCATGTAAGACCATGCCAAGGCATGACAATTAGTAGGTTTCTAAGGCAAGGAAACCAT
GTAAGACCATGTCAAGACATGGCAATGATAAGTTACTATAAGGC
Found at i:94956940 original size:21 final size:21
Alignment explanation
Indices: 94956901--94956940 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
94956891 AAGCCTAAAT
* * *
94956901 AAGATTGAAGAGTTGAAGGGA
1 AAGATAGAAGAGCTCAAGGGA
94956922 AAGATAGAAGAGCTCAAGG
1 AAGATAGAAGAGCTCAAGG
94956941 CCACATCGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.35, T:0.15
Consensus pattern (21 bp):
AAGATAGAAGAGCTCAAGGGA
Found at i:94957346 original size:19 final size:21
Alignment explanation
Indices: 94957304--94957353 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
94957294 TGCCTATTTT
94957304 TGCATT-CATTTCATACATCA
1 TGCATTACATTTCATACATCA
94957324 -GCATTACATTTCAT-CAT-A
1 TGCATTACATTTCATACATCA
*
94957342 TGCATTAAATTT
1 TGCATTACATTT
94957354 TATAAAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 1 0.04
19 18 0.67
20 8 0.30
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (21 bp):
TGCATTACATTTCATACATCA
Found at i:94963849 original size:14 final size:15
Alignment explanation
Indices: 94963827--94963856 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
94963817 TTTGAAAATC
94963827 AGTTCTTAAAAACCA
1 AGTTCTTAAAAACCA
94963842 AGTT-TTAAAAACCA
1 AGTTCTTAAAAACCA
94963856 A
1 A
94963857 AATCCACAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.27
Consensus pattern (15 bp):
AGTTCTTAAAAACCA
Found at i:94967839 original size:13 final size:13
Alignment explanation
Indices: 94967786--94967839 Score: 72
Period size: 13 Copynumber: 4.2 Consensus size: 13
94967776 GCTCGGCAGG
*
94967786 GACACGCTCGTGG
1 GACACGCTCGTGT
*
94967799 GACACGCCCGTGT
1 GACACGCTCGTGT
* *
94967812 GACATGCTCGAGT
1 GACACGCTCGTGT
94967825 GACACGCTCGTGT
1 GACACGCTCGTGT
94967838 GA
1 GA
94967840 GTCGTGCTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.19, C:0.30, G:0.33, T:0.19
Consensus pattern (13 bp):
GACACGCTCGTGT
Found at i:94971109 original size:55 final size:55
Alignment explanation
Indices: 94971022--94971164 Score: 155
Period size: 55 Copynumber: 2.6 Consensus size: 55
94971012 ATGTAGGCCC
* * **
94971022 ACGCCCGTGTT-AGTTTAACAGGTTCGACCACGGGTGCTTGGTACGGGCGTGTCGA
1 ACGCCCGTGTTGA-TTTGACAGGTTCGACCACGGGTGCTAGACACGGGCGTGTCGA
* * *
94971077 ACGCCCGTGTTGATTTGACAGGTTC-AGTCACGGGTTCTAGACACGGGCGTGTCGC
1 ACGCCCGTGTTGATTTGACAGGTTCGA-CCACGGGTGCTAGACACGGGCGTGTCGA
* * * *
94971132 ACGCCCGTGTTGTTTTGGCATGTTCGCCCACGG
1 ACGCCCGTGTTGATTTGACAGGTTCGACCACGG
94971165 CCATGTCGCA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
54 1 0.01
55 71 0.97
56 1 0.01
ACGTcount: A:0.15, C:0.26, G:0.33, T:0.27
Consensus pattern (55 bp):
ACGCCCGTGTTGATTTGACAGGTTCGACCACGGGTGCTAGACACGGGCGTGTCGA
Found at i:94975575 original size:46 final size:46
Alignment explanation
Indices: 94975515--94975634 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
94975505 ATAATTTCAC
* *
94975515 CCATATTGAACTCGGAACGCAACTCAACGAACTTGGGTG-TTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAACTTGGATGCTT-ACAT
* ** *
94975561 CCATAATGAACTCGGAACACAACTCAACGAGTTTGGATGCTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAACTTGGATGCTTACAT
* *
94975607 CCATAAGTGAATTTGGAACGCAACTCAA
1 CCATAA-TGAACTCGGAACGCAACTCAA
94975635 TGAGTTCAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 43 0.68
47 20 0.32
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAACTTGGATGCTTACAT
Found at i:94986579 original size:5 final size:5
Alignment explanation
Indices: 94986569--94986597 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
94986559 AATAAAAAGT
94986569 AATTA AATTA AATTA AATTA AATTA AATT
1 AATTA AATTA AATTA AATTA AATTA AATT
94986598 GCAAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATTA
Found at i:94988570 original size:96 final size:96
Alignment explanation
Indices: 94988397--94988586 Score: 281
Period size: 96 Copynumber: 2.0 Consensus size: 96
94988387 TTCTTTTTGC
* * * * *
94988397 TCCTCTTTGCCCTCTTGGTTTTGGCTTTTCTCTTGGTCGAACCAAGCTTCTTGGACTCCTCGTCT
1 TCCTCTTTGCCCTATTAGCTTTGGCTTTTATCTTGCTCGAACCAAGCTTCTTGGACTCCTCGTCT
* *
94988462 TCTCCATTGTTCCCTTCCATGACAGACTTGT
66 GCTCCATCGTTCCCTTCCATGACAGACTTGT
* * *
94988493 TCCTTTTTGCCCTATTAGCTTTGGCTTTTATCTTGCTCGAACCAAGCTTCTTGGGCTCCTTGTCT
1 TCCTCTTTGCCCTATTAGCTTTGGCTTTTATCTTGCTCGAACCAAGCTTCTTGGACTCCTCGTCT
*
94988558 GCTCCATCGTTCCCTTCGATGACAGACTT
66 GCTCCATCGTTCCCTTCCATGACAGACTT
94988587 CCTCGGACAC
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.12, C:0.31, G:0.17, T:0.41
Consensus pattern (96 bp):
TCCTCTTTGCCCTATTAGCTTTGGCTTTTATCTTGCTCGAACCAAGCTTCTTGGACTCCTCGTCT
GCTCCATCGTTCCCTTCCATGACAGACTTGT
Found at i:94989171 original size:17 final size:17
Alignment explanation
Indices: 94989149--94989184 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
94989139 TTGTTTATTA
*
94989149 AATTAATTAACTAAACT
1 AATTAACTAACTAAACT
*
94989166 AATTAACTAATTAAACT
1 AATTAACTAACTAAACT
94989183 AA
1 AA
94989185 AGCAAAGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTAACTAACTAAACT
Found at i:94996085 original size:42 final size:42
Alignment explanation
Indices: 94996026--94996109 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
94996016 TATTTTGAGA
94996026 TCTAAAGTTATTGTTACCCATATAGTTGACTTGTTCCTCTTC
1 TCTAAAGTTATTGTTACCCATATAGTTGACTTGTTCCTCTTC
94996068 TCTAAAGTTATTGTTACCCATATAGTTGACTTGTTCCTCTTC
1 TCTAAAGTTATTGTTACCCATATAGTTGACTTGTTCCTCTTC
94996110 GGTTGTAGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.45
Consensus pattern (42 bp):
TCTAAAGTTATTGTTACCCATATAGTTGACTTGTTCCTCTTC
Found at i:94996350 original size:13 final size:13
Alignment explanation
Indices: 94996332--94996356 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94996322 TCAATGACAT
94996332 CTCCTCTATAAAA
1 CTCCTCTATAAAA
94996345 CTCCTCTATAAA
1 CTCCTCTATAAA
94996357 TTCATAGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (13 bp):
CTCCTCTATAAAA
Found at i:94998447 original size:46 final size:47
Alignment explanation
Indices: 94998353--94998481 Score: 122
Period size: 46 Copynumber: 2.8 Consensus size: 47
94998343 GTAACTCGCC
** * * *
94998353 CATAAGTGAACTTAGACTCAACTCAACGAGCTTGG-GCATTCGTATA
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCACTAGTATA
94998399 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGT-TA
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-GCACTAGTATA
* * * *
94998445 CATCTCA-CGAACTCGGACTCAACTCAACAAGTTCGGA
1 CA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
94998482 ACTCAAATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
46 36 0.51
47 30 0.43
48 4 0.06
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (47 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCACTAGTATA
Found at i:95000518 original size:24 final size:24
Alignment explanation
Indices: 95000491--95000538 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
95000481 TAATAACGTC
*
95000491 TAACCCTGAGTTGAATTAATTGAA
1 TAACCCTCAGTTGAATTAATTGAA
95000515 TAACCCTCAGTTGAATTAATTGAA
1 TAACCCTCAGTTGAATTAATTGAA
95000539 ATTTTTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (24 bp):
TAACCCTCAGTTGAATTAATTGAA
Found at i:95005055 original size:15 final size:15
Alignment explanation
Indices: 95005035--95005063 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
95005025 TGTTCAGGTA
95005035 ATTTTTTTAAAAATG
1 ATTTTTTTAAAAATG
95005050 ATTTTTTTAAAAAT
1 ATTTTTTTAAAAAT
95005064 AAAATGAAAT
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:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTTTTTTAAAAATG
Found at i:95007218 original size:38 final size:38
Alignment explanation
Indices: 95007175--95007251 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
95007165 GATGTAAAGC
95007175 GTGACGATGTGGAAGTTCTCATTAAAGAAATGATGGAA
1 GTGACGATGTGGAAGTTCTCATTAAAGAAATGATGGAA
*
95007213 GTGACGATGTGGAAGTTCTCATTAAAGAGATGATGGAA
1 GTGACGATGTGGAAGTTCTCATTAAAGAAATGATGGAA
95007251 G
1 G
95007252 GAGATAAGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.26
Consensus pattern (38 bp):
GTGACGATGTGGAAGTTCTCATTAAAGAAATGATGGAA
Found at i:95011428 original size:14 final size:14
Alignment explanation
Indices: 95011396--95011455 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
95011386 AGAGAAAAAA
95011396 TAAAATAAATGAA--
1 TAAAATAAAT-AAGC
95011409 TAAAATAAATAAGC
1 TAAAATAAATAAGC
*
95011423 TAAAATAAA-AAGG
1 TAAAATAAATAAGC
*
95011436 AAATAATAAATAAGC
1 TAA-AATAAATAAGC
95011451 TAAAA
1 TAAAA
95011456 ATATTCGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 2 0.05
13 15 0.38
14 17 0.44
15 5 0.13
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.20
Consensus pattern (14 bp):
TAAAATAAATAAGC
Found at i:95011570 original size:18 final size:18
Alignment explanation
Indices: 95011525--95011562 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
95011515 AAAATGATAG
95011525 TAATAGTAATGATAATAA
1 TAATAGTAATGATAATAA
* *
95011543 TAATATTAATGGTAATAA
1 TAATAGTAATGATAATAA
95011561 TA
1 TA
95011563 CAAGTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (18 bp):
TAATAGTAATGATAATAA
Found at i:95011700 original size:3 final size:3
Alignment explanation
Indices: 95011694--95011733 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
95011684 TAGTATGATG
95011694 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
95011734 CACAACAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:95011856 original size:21 final size:20
Alignment explanation
Indices: 95011822--95011866 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
95011812 GTTAATAAGG
*
95011822 ATAATAATAATTAATGATTA
1 ATAATAATAATTAATGAATA
* *
95011842 ATAATACTAAATTAATTAATA
1 ATAATAAT-AATTAATGAATA
95011863 ATAA
1 ATAA
95011867 AGTAATAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAATAATAATTAATGAATA
Found at i:95011945 original size:3 final size:3
Alignment explanation
Indices: 95011937--95012104 Score: 108
Period size: 3 Copynumber: 54.7 Consensus size: 3
95011927 TAATACTAAG
* * *
95011937 ATA ATA ATA ATA GTA A-A TATA ATA ATA ATA AT- ATA TTG ATA ATAA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * * * * *
95011982 ATA ATA AAA ATA ATA AAA ATA ATA GTA ACA ATA AGA ATG TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
95012030 ACA ATA ATC ATA ATA TATA CATGA ATA ATA ACA GTA ACA ATA ATA AGTA
1 ATA ATA ATA ATA ATA -ATA -AT-A ATA ATA ATA ATA ATA ATA ATA A-TA
*
95012079 ATA ATA AT- ATA AGTA GTA ATA ATA AT
1 ATA ATA ATA ATA A-TA ATA ATA ATA AT
95012105 GGTATTAGAA
Statistics
Matches: 123, Mismatches: 33, Indels: 18
0.71 0.19 0.10
Matches are distributed among these distances:
2 5 0.04
3 101 0.82
4 16 0.13
5 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:95012742 original size:12 final size:13
Alignment explanation
Indices: 95012725--95012761 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
95012715 CAAAAAATGA
95012725 TATTTTTTATAT-
1 TATTTTTTATATG
95012737 TATTTTTTATATG
1 TATTTTTTATATG
*
95012750 TATTTTTAATAT
1 TATTTTTTATAT
95012762 ATATGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (13 bp):
TATTTTTTATATG
Found at i:95013838 original size:99 final size:99
Alignment explanation
Indices: 95013716--95013927 Score: 318
Period size: 99 Copynumber: 2.2 Consensus size: 99
95013706 CATTTCCAAG
* * *
95013716 TGGTACACACAAAGTATGCCTTTCCTTTTCATATGGTATACACAAAGTATACATTTCCTTTTCAT
1 TGGTACACACAAAGTATACCTTTCCTTTTCATATAGTATACACAAAGTATACATTCCCTTTTCAT
95013781 ATGGTATACACAAAATATACCTTCCCTTTTCATA
66 ATGGTATACACAAAATATACCTTCCCTTTTCATA
* *
95013815 TGGTATACACAAAGTATACCTTTCCTTTTCATATAGTATACACAAAGTATACCTTCCCTTTTCAT
1 TGGTACACACAAAGTATACCTTTCCTTTTCATATAGTATACACAAAGTATACATTCCCTTTTCAT
* ** * *
95013880 ATGGTATACACAAAGTATACCTAACCTTTCCAAA
66 ATGGTATACACAAAATATACCTTCCCTTTTCATA
*
95013914 T-CTACACACAAAGT
1 TGGTACACACAAAGT
95013928 GTTCATAGCC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
98 11 0.11
99 90 0.89
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.35
Consensus pattern (99 bp):
TGGTACACACAAAGTATACCTTTCCTTTTCATATAGTATACACAAAGTATACATTCCCTTTTCAT
ATGGTATACACAAAATATACCTTCCCTTTTCATA
Found at i:95013908 original size:33 final size:33
Alignment explanation
Indices: 95013716--95013901 Score: 309
Period size: 33 Copynumber: 5.6 Consensus size: 33
95013706 CATTTCCAAG
* *
95013716 TGGTACACACAAAGTATGCCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
*
95013749 TGGTATACACAAAGTATACATTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
* *
95013782 TGGTATACACAAAATATACCTTCCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
95013815 TGGTATACACAAAGTATACCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
* *
95013848 TAGTATACACAAAGTATACCTTCCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
95013881 TGGTATACACAAAGTATACCT
1 TGGTATACACAAAGTATACCT
95013902 AACCTTTCCA
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 142 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTTTCCTTTTCATA
Found at i:95022950 original size:11 final size:11
Alignment explanation
Indices: 95022931--95022968 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
95022921 TTAGGCCCAA
*
95022931 TTTGTCCGTTT
1 TTTGCCCGTTT
95022942 TTTGCCCGTTT
1 TTTGCCCGTTT
95022953 TTTGCCCGTTT
1 TTTGCCCGTTT
*
95022964 CTTGC
1 TTTGC
95022969 TCTTTTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.00, C:0.26, G:0.18, T:0.55
Consensus pattern (11 bp):
TTTGCCCGTTT
Found at i:95029145 original size:10 final size:10
Alignment explanation
Indices: 95029118--95029155 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
95029108 TTAAATTCTA
*
95029118 AAAGATAAAT
1 AAAGATAATT
95029128 ACAA-ATAATT
1 A-AAGATAATT
95029138 AAAGATAATT
1 AAAGATAATT
95029148 AAAGATAA
1 AAAGATAA
95029156 AAGCTAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAATT
Found at i:95032135 original size:19 final size:19
Alignment explanation
Indices: 95032111--95032150 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
95032101 TGGATTAGGC
95032111 TTCAATCATTTTGAATTAT
1 TTCAATCATTTTGAATTAT
*
95032130 TTCAATCCTTTTGAATTAT
1 TTCAATCATTTTGAATTAT
95032149 TT
1 TT
95032151 TTTTTATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (19 bp):
TTCAATCATTTTGAATTAT
Found at i:95040873 original size:20 final size:20
Alignment explanation
Indices: 95040848--95040887 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
95040838 TTTTAACAAG
95040848 TAAATGTTATATATTTTGAT
1 TAAATGTTATATATTTTGAT
95040868 TAAATGTTATATATTTTGAT
1 TAAATGTTATATATTTTGAT
95040888 ATGAACATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (20 bp):
TAAATGTTATATATTTTGAT
Found at i:95043463 original size:17 final size:17
Alignment explanation
Indices: 95043441--95043519 Score: 80
Period size: 17 Copynumber: 4.8 Consensus size: 17
95043431 CTACAAGATA
95043441 AATATTAAATTAATTTT
1 AATATTAAATTAATTTT
95043458 AATATT-AA--AA---T
1 AATATTAAATTAATTTT
95043469 AATATTAAATTAATTTT
1 AATATTAAATTAATTTT
*
95043486 AATATTAAAATAATCACTTT
1 AATATTAAATTAAT---TTT
95043506 AATATTAAATTAAT
1 AATATTAAATTAAT
95043520 AAAATACTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
11 7 0.14
12 2 0.04
14 4 0.08
16 2 0.04
17 20 0.39
20 16 0.31
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AATATTAAATTAATTTT
Found at i:95043472 original size:28 final size:28
Alignment explanation
Indices: 95043441--95043499 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
95043431 CTACAAGATA
95043441 AATATTAAATTAATTTTAATATTAAAAT
1 AATATTAAATTAATTTTAATATTAAAAT
95043469 AATATTAAATTAATTTTAATATTAAAAT
1 AATATTAAATTAATTTTAATATTAAAAT
95043497 AAT
1 AAT
95043500 CACTTTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
AATATTAAATTAATTTTAATATTAAAAT
Found at i:95043518 original size:11 final size:11
Alignment explanation
Indices: 95043456--95043520 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 11
95043446 TAAATTAATT
95043456 TTAATATTAAA
1 TTAATATTAAA
*
95043467 ATAATATTAAA
1 TTAATATTAAA
*
95043478 TTAATTTTAATA
1 TTAATATTAA-A
*
95043490 TTAA-AATAATCA
1 TTAATATTAA--A
95043502 CTTTAATATTAAA
1 --TTAATATTAAA
95043515 TTAATA
1 TTAATA
95043521 AAATACTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 27 0.64
12 6 0.14
13 1 0.02
14 4 0.10
15 4 0.10
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:95043933 original size:11 final size:11
Alignment explanation
Indices: 95043919--95043959 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
95043909 TATTTTCTTC
95043919 CTATTTTGCTA
1 CTATTTTGCTA
*
95043930 CTATTTTACTA
1 CTATTTTGCTA
* *
95043941 TTATGTTGCTA
1 CTATTTTGCTA
95043952 CTATTTTG
1 CTATTTTG
95043960 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:95044034 original size:30 final size:30
Alignment explanation
Indices: 95043999--95044058 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
95043989 TATTTTATTA
*
95043999 TTAATTTTGTTGTAATTTTAAAGACATTTG
1 TTAATTTTGTTATAATTTTAAAGACATTTG
* **
95044029 TTAATTTTGTTATTATTTTAGCGACATTTG
1 TTAATTTTGTTATAATTTTAAAGACATTTG
95044059 CTTGTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (30 bp):
TTAATTTTGTTATAATTTTAAAGACATTTG
Found at i:95044211 original size:12 final size:12
Alignment explanation
Indices: 95044181--95044213 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
95044171 TATATATTTT
95044181 AAAATT-ATATA
1 AAAATTAATATA
95044192 AAAA-TAATATA
1 AAAATTAATATA
95044203 AAAATTAATAT
1 AAAATTAATAT
95044214 GGGCAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:95048137 original size:20 final size:21
Alignment explanation
Indices: 95048096--95048137 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
95048086 CTTTAATGAG
*
95048096 TGATGATAGATTATGAATGTT
1 TGATGATAGATTATGAAAGTT
95048117 TGATGATAG-TTAT-ACAAGTT
1 TGATGATAGATTATGA-AAGTT
95048137 T
1 T
95048138 TGTTAAGCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 1 0.05
20 9 0.47
21 9 0.47
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.43
Consensus pattern (21 bp):
TGATGATAGATTATGAAAGTT
Found at i:95050737 original size:16 final size:17
Alignment explanation
Indices: 95050706--95050738 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
95050696 TTCATAAGTA
95050706 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
95050723 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
95050739 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:95051084 original size:46 final size:46
Alignment explanation
Indices: 95051019--95051243 Score: 351
Period size: 46 Copynumber: 4.9 Consensus size: 46
95051009 TTATCTTTGA
* * * * * *
95051019 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
*
95051065 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
*
95051111 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
* * *
95051157 CCTATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
95051203 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
95051244 CATTTCAGAA
Statistics
Matches: 166, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 166 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
Found at i:95063889 original size:22 final size:22
Alignment explanation
Indices: 95063863--95063906 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
95063853 TGTTGGAGCT
95063863 TGGACCATGGCACATACAAAAC
1 TGGACCATGGCACATACAAAAC
95063885 TGGACCATGGCACATACAAAAC
1 TGGACCATGGCACATACAAAAC
95063907 AAGCCAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.27, G:0.18, T:0.14
Consensus pattern (22 bp):
TGGACCATGGCACATACAAAAC
Found at i:95072820 original size:15 final size:14
Alignment explanation
Indices: 95072784--95072812 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
95072774 ACTTCACTTT
95072784 AAAA-AAAGAAAAA
1 AAAAGAAAGAAAAA
95072797 AAAAGAAAGAAAAA
1 AAAAGAAAGAAAAA
95072811 AA
1 AA
95072813 TAGGAAAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAGAAAGAAAAA
Found at i:95073721 original size:44 final size:44
Alignment explanation
Indices: 95073673--95074547 Score: 593
Period size: 44 Copynumber: 19.3 Consensus size: 44
95073663 CTTATATTTG
* * *
95073673 TGAAGTTACAGTGG-GACAGATTGAAGATGCAAATCTTATTTCCC
1 TGAAGTTGCAGTGGAG-CAGATTGAAGATACAAATCTTATCTCCC
* * *
95073717 TGAAGTTGCAGTAGAGCA-AGTTGAAGTTACAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGA-TTGAAGATACAAATCTTATCTCCC
* * **
95073761 TGAAGTGGCAGTGGAGCAAATTGAAGATAGCAAATCTTATCTATC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCC
* * * * * * * * *
95073806 TGAAGTTTCAATAGAGTAGATTAAAGCTATAAACCTTATCTCCT
1 TGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCC
* * * * * * *
95073850 TAAAGTTGTAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTTCT
1 TGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCC
* *
95073894 TGAAGTTGTAGTGGAGCAGATTGAAGATATCAAATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCC
* * *
95073939 TGAAGTTGCAGTAGAGCAGATT-AAAATTATAAA-CTTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGA-TACAAATC-TTATCTCCC
* * * * *
95073983 TAAAGTTGCAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCC
* * * * * *
95074027 TGATGTTACAATGGAGCAGAATGAAGATAGCGAATCTTATTTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCC
* * * *
95074072 TGAAGTTACAGTGGAACAAATTGAAGTTA-AAGATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATACAA-ATCTTATCTCCC
* *
95074116 TAAAGTTGCAGTGGAGTAGATTGAAGATAGCAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCC
* ** * *
95074161 TGAAGTTGTAGTGGAGCAGATTGAAGCCACTAATCTTATCTCCT
1 TGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCC
* * * * *
95074205 TGAAGTTACAGTGGAGTAGATTGAAG-TGACAAGTCCTATAC-CTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGAT-ACAAATCTTAT-CTCCC
* * ** **
95074249 TAAAGTTGCAGTAGGTTAGATTAGATCT-ACCATAGCAAGCCTTATCTCCC
1 TGAAGTTGCAGT-GG--AG--CAGAT-TGAAGATA-CAAATCTTATCTCCC
** * * *
95074299 TGAAGTTGCAGTGGAATAGACTAAAGCCTAAAGCCGCAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAG---ATA----CAAATCTTATCTCCC
* * *
95074350 TGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATT---G----AAGATACAAATCTTATCTCCC
* * *
95074401 TGAAGTTGCAGTGGAGCAAATTGAAGATACGAATCTTATTTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCC
* * * * * * *
95074445 TAAAGTTGCACTGGAACATATTAAAGCTACTAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCC
* * *
95074489 TGAAGTTACAGTGGAACAGATTGAAG-TGAC-AATTTCTATAC-CCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGAT-ACAAATCT-TAT-CTCCC
95074533 TGAAGTTGCAGTGGA
1 TGAAGTTGCAGTGGA
95074548 TTAGAACGAG
Statistics
Matches: 649, Mismatches: 141, Indels: 82
0.74 0.16 0.09
Matches are distributed among these distances:
43 8 0.01
44 378 0.58
45 151 0.23
46 2 0.00
47 3 0.00
48 3 0.00
49 10 0.02
50 23 0.04
51 67 0.10
55 1 0.00
58 3 0.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCC
Found at i:95073844 original size:89 final size:89
Alignment explanation
Indices: 95073673--95074514 Score: 532
Period size: 89 Copynumber: 9.3 Consensus size: 89
95073663 CTTATATTTG
* * * *
95073673 TGAAGTTACAGTGG-GACAGATTGAAGAT-GCAAATCTTATTTCCCTGAAGTTGCAGTAGAGCA-
1 TGAAGTTGCAGTGGAG-CAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTTCAGTGGAGCAG
* *
95073735 AGTTGAAGTTACAAGTCTTATCTCCC
65 A-TTGAAGTTATAAATCTTATCTCCC
* * ** * * *
95073761 TGAAGTGGCAGTGGAGCAAATTGAAGATAGCAAATCTTATCTATCTGAAGTTTCAATAGAGTAGA
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTTCAGTGGAGCAGA
* * * *
95073826 TTAAAGCTATAAACCTTATCTCCT
66 TTGAAGTTATAAATCTTATCTCCC
* * * * * * *
95073850 TAAAGTTGTAGTGGAGCAGGTTGAAGTTA-CAAGTCTTATCTTCTTGAAGTTGT-AGTGGAGCAG
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTT-TCAGTGGAGCAG
* *
95073913 ATTGAAGATATCAAATCTTATCTCTC
65 ATTGAAGTTAT-AAATCTTATCTCCC
* * * * * *
95073939 TGAAGTTGCAGTAGAGCAGATT-AAAATTA-TAAA-CTTTATCTCCCTAAAGTTGCAGTGGAGTA
1 TGAAGTTGCAGTGGAGCAGATTGAAGA-TAGCAAATC-TTATCTCCCTGAAGTTTCAGTGGAGCA
* * *
95074001 GGTTGAAGTTACAAGTCTTATCTCCC
64 GATTGAAGTTATAAATCTTATCTCCC
* * * * * * * * *
95074027 TGATGTTACAATGGAGCAGAATGAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGGAACAAA
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTTCAGTGGAGCAGA
95074092 TTGAAGTTA-AAGATCTTATCTCCC
66 TTGAAGTTATAA-ATCTTATCTCCC
* *
95074116 TAAAGTTGCAGTGGAGTAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGT-AGTGGAGCAG
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTT-TCAGTGGAGCAG
** *
95074180 ATTGAAGCCACT-AATCTTATCTCCT
65 ATTGAAGTTA-TAAATCTTATCTCCC
* * * * * * * **
95074205 TGAAGTTACAGTGGAGTAGATTGAAG-T-GACAAGTCCTATAC-CTCTAAAGTTGCAGTAGG-TT
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAG-CAAATCTTAT-CTCCCTGAAGTTTCAGT-GGAGC
** * *
95074266 AGATTAGATCTACCATAGCAAGCCTTATCTCCC
63 AGATT-GAAGT--TATA--AA-TCTTATCTCCC
** * * *
95074299 TGAAGTTGCAGTGGAATAGACTAAAGCCTAAAGCCGCAAATCTTATCTCCCTGAAGTTGT-AGTG
1 TGAAGTTGCAGTGGAGCAGATTGAAG---ATA---GCAAATCTTATCTCCCTGAAGTT-TCAGTG
* *
95074363 GAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCC
59 GAGCAGATT---G----AAGTTATAAATCTTATCTCCC
* * * * * * * *
95074401 TGAAGTTGCAGTGGAGCAAATTGAAGATA-CGAATCTTATTTCCCTAAAGTTGCACTGGAACATA
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTTCAGTGGAGCAGA
* *
95074465 TTAAAGCTACT-AATCTTATCTCCC
66 TTGAAGTTA-TAAATCTTATCTCCC
* *
95074489 TGAAGTTACAGTGGAACAGATTGAAG
1 TGAAGTTGCAGTGGAGCAGATTGAAG
95074515 TGACAATTTC
Statistics
Matches: 579, Mismatches: 130, Indels: 90
0.72 0.16 0.11
Matches are distributed among these distances:
87 1 0.00
88 159 0.27
89 281 0.49
90 4 0.01
91 2 0.00
93 2 0.00
94 31 0.05
95 30 0.05
99 2 0.00
100 3 0.01
101 24 0.04
102 32 0.06
103 4 0.01
105 2 0.00
107 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (89 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTTCAGTGGAGCAGA
TTGAAGTTATAAATCTTATCTCCC
Found at i:95074252 original size:133 final size:133
Alignment explanation
Indices: 95073673--95074552 Score: 593
Period size: 133 Copynumber: 6.5 Consensus size: 133
95073663 CTTATATTTG
* * * * * * * * *
95073673 TGAAGTTACAGTGGGACAGATTGAAGATGCAAATCTTAT-TTCCCTGAAGTTGCAGTAGAGCA-A
1 TGAAGTTACAGTGGAACAGATTAAAG-TACAAGTCCTATACTCCCTAAAGTTGCAGTGGAGTAGA
* * *
95073736 GTTGAAGTTACAAGTCTTATCTCCCTGAAGTGGCAGTGGAGCAAATTGAAGATAGCAAATCTTAT
65 -TTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTAT
**
95073801 CTATC
129 CTCCC
* * * ** * * * * *
95073806 TGAAGTTTCAATAGAGTAGATTAAAGCTATAA-ACCT-TATCTCCTTAAAGTTGTAGTGGAGCAG
1 TGAAGTTACAGTGGAACAGATTAAAG-TACAAGTCCTATA-CTCCCTAAAGTTGCAGTGGAGTAG
* * * * * *
95073869 GTTGAAGTTACAAGTCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGATATCAAATCTTAT
64 ATTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTAT
*
95073934 CTCTC
129 CTCCC
* * * * * * *
95073939 TGAAGTTGCAGTAGAGCAGATTAAAATTATAA--ACTTTATCTCCCTAAAGTTGCAGTGGAGTAG
1 TGAAGTTACAGTGGAACAGATT-AAAGTACAAGTCCTATA-CTCCCTAAAGTTGCAGTGGAGTAG
* * * * * * *
95074002 GTTGAAGTTACAAGTCTTATCTCCCTGATGTTACAATGGAGCAGAATGAAGATAGCGAATCTTAT
64 ATTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTAT
*
95074067 TTCCC
129 CTCCC
* * *
95074072 TGAAGTTACAGTGGAACAAATTGAAGTTA-AAGATCTTAT-CTCCCTAAAGTTGCAGTGGAGTAG
1 TGAAGTTACAGTGGAACAGATTAAAG-TACAAG-TCCTATACTCCCTAAAGTTGCAGTGGAGTAG
* * ** *
95074135 ATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCA-CTAATCTTA
64 ATTGAAGATA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTA
*
95074199 TCTCCT
128 TCTCCC
** * *
95074205 TGAAGTTACAGTGGAGTAGATTGAAGTGACAAGTCCTATAC-CTCTAAAGTTGCAGTAGGTTAGA
1 TGAAGTTACAGTGGAACAGATTAAAGT-ACAAGTCCTATACTCCCTAAAGTTGCAGT-GG--AG-
** * ** * * *
95074269 TTAGATCT-ACCATAGCAAGCCTTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGCCTAAAGC
61 -TAGAT-TGAAGATA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---ATA--
95074333 CGCAAATCTTATCTCCC
118 -GCAAATCTTATCTCCC
** *
95074350 TGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCT-TATCTCCCTGAAGTTGCAGTG
1 TGAAGTTACAGTGGAACAGATTAAAG-TACAAG-T-C----CTATA-CTCCCTAAAGTTGCAGTG
* * * * * * * * * *
95074414 GAGCAAATTGAAGATACGAA-TCTTATTTCCCTAAAGTTGCACTGGAACATATTAAAGCTA-CTA
58 GAGTAGATTGAAGATAC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAA
95074477 ATCTTATCTCCC
122 ATCTTATCTCCC
* * * * *
95074489 TGAAGTTACAGTGGAACAGATTGAAGTGACAATTTCTATAC-CCCTGAAGTTGCAGTGGATTAGA
1 TGAAGTTACAGTGGAACAGATTAAAGT-ACAAGTCCTATACTCCCTAAAGTTGCAGTGGAGTAGA
95074553 ACGAGGCTAC
Statistics
Matches: 595, Mismatches: 113, Indels: 79
0.76 0.14 0.10
Matches are distributed among these distances:
131 1 0.00
132 29 0.05
133 319 0.54
134 47 0.08
135 2 0.00
136 2 0.00
138 46 0.08
139 42 0.07
141 1 0.00
143 1 0.00
145 39 0.07
146 34 0.06
147 10 0.02
149 2 0.00
150 2 0.00
151 5 0.01
152 13 0.02
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (133 bp):
TGAAGTTACAGTGGAACAGATTAAAGTACAAGTCCTATACTCCCTAAAGTTGCAGTGGAGTAGAT
TGAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCT
CCC
Found at i:95074349 original size:51 final size:51
Alignment explanation
Indices: 95074289--95074415 Score: 184
Period size: 51 Copynumber: 2.5 Consensus size: 51
95074279 CATAGCAAGC
* *
95074289 CTTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGCCTA-AAGCCGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAG-CTACAAGCCACAAAT
* * **
95074340 CTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGCTACAAGCCACAAAT
95074391 CTTATCTCCCTGAAGTTGCAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
95074416 GCAAATTGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 3 0.04
51 65 0.96
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (51 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGCTACAAGCCACAAAT
Found at i:95076824 original size:12 final size:12
Alignment explanation
Indices: 95076802--95076837 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
95076792 ATTTTGTCAC
95076802 TATTA-TTATTT
1 TATTATTTATTT
95076813 TATTATTTATTT
1 TATTATTTATTT
95076825 TATTATTTATTT
1 TATTATTTATTT
95076837 T
1 T
95076838 TTCCTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.21
12 19 0.79
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTATTTATTT
Found at i:95085193 original size:46 final size:46
Alignment explanation
Indices: 95085133--95085803 Score: 913
Period size: 46 Copynumber: 14.8 Consensus size: 46
95085123 TTTGACATAA
* * * * *
95085133 TGCCATAGTGTCTTTCAACTATGGTCTTACTCAATTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC-ATTTCATATCATGT
*** *
95085179 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* *
95085225 TGCCATGG-----TT---GCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
95085263 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* ** * *
95085309 TGCTATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
95085354 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* *
95085400 TTCCATGGTATCTTTCAACCATGGTCTTACACATTTCA-ATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
** * *
95085445 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
95085490 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
*
95085536 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAAACATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-ATCATGT
*
95085582 TGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* * *
95085628 TGCCATAGTATCTTTCAACCATGGTCTTGCACATTTCATATCGTGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* ** * * *
95085674 TGCCATGGTATCTTTCAACCATGGTTTTATTC-TTTTATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
95085719 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-ATCATGT
95085765 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
95085804 TTCAGATAGC
Statistics
Matches: 553, Mismatches: 55, Indels: 33
0.86 0.09 0.05
Matches are distributed among these distances:
38 31 0.06
41 2 0.00
43 2 0.00
44 5 0.01
45 155 0.28
46 356 0.64
47 2 0.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
Found at i:95085324 original size:25 final size:25
Alignment explanation
Indices: 95085296--95085370 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
95085286 GTCTTACACA
95085296 TTTCATATCATGTTGCTATGGTATC
1 TTTCATATCATGTTGCTATGGTATC
* * *
95085321 TTTCA-ACCATGGT-CT-T-AT-TC
1 TTTCATATCATGTTGCTATGGTATC
* * *
95085341 TTTCATGTCACGTTGCCATGGTATC
1 TTTCATATCATGTTGCTATGGTATC
95085366 TTTCA
1 TTTCA
95085371 ACCATGGTCT
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
20 7 0.19
21 5 0.14
22 2 0.06
23 3 0.08
24 7 0.19
25 12 0.33
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (25 bp):
TTTCATATCATGTTGCTATGGTATC
Found at i:95085408 original size:91 final size:92
Alignment explanation
Indices: 95085236--95085803 Score: 869
Period size: 91 Copynumber: 6.2 Consensus size: 92
95085226 GCCATGGTTG
*
95085236 CATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
1 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
*
95085301 TATCATGTTGCTATGGTATCTTTCAAC
66 TATCATGTTGCCATGGTATCTTTCAAC
** *
95085328 CATGGTCTTATTC-TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
1 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
*
95085392 TATCATGTTTCCATGGTATCTTTCAAC
66 TATCATGTTGCCATGGTATCTTTCAAC
* **
95085419 CATGGTCTTACACATTTCA-ATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCA
1 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
* *
95085482 TGTCACGTTGCCATGGTATCTTTCAAC
66 TATCATGTTGCCATGGTATCTTTCAAC
*
95085509 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-
1 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
*
95085573 TAAACATGTTGCCATGGTATCTTTCAAC
66 T-ATCATGTTGCCATGGTATCTTTCAAC
* * * *
95085601 CATGGTCTTGCACATTTCATATCATGTTGCCATAGTATCTTTCAACCATGGTCTTGCACATTTCA
1 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
*
95085666 TATCGTGTTGCCATGGTATCTTTCAAC
66 TATCATGTTGCCATGGTATCTTTCAAC
* ** * *
95085693 CATGGTTTTATTC-TTTTATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-
1 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
95085756 TAATCATGTTGCCATGGTATCTTTCAAC
66 T-ATCATGTTGCCATGGTATCTTTCAAC
95085784 CATGGTCTTACACATTTCAT
1 CATGGTCTTACACATTTCAT
95085804 TTCAGATAGC
Statistics
Matches: 429, Mismatches: 40, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
90 49 0.11
91 237 0.55
92 142 0.33
93 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (92 bp):
CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
TATCATGTTGCCATGGTATCTTTCAAC
Found at i:95085618 original size:21 final size:21
Alignment explanation
Indices: 95085594--95085665 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
95085584 CCATGGTATC
95085594 TTTCAACCATGGTCTTGCACA
1 TTTCAACCATGGTCTTGCACA
* * * *
95085615 TTTCATATCATGTTGCCATAGTATC-
1 TTTCA-ACCATG--GTC-TTGCA-CA
95085640 TTTCAACCATGGTCTTGCACA
1 TTTCAACCATGGTCTTGCACA
95085661 TTTCA
1 TTTCA
95085666 TATCGTGTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 13 0.35
22 7 0.19
24 7 0.19
25 8 0.22
26 1 0.03
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (21 bp):
TTTCAACCATGGTCTTGCACA
Found at i:95085695 original size:365 final size:357
Alignment explanation
Indices: 95085133--95085802 Score: 1040
Period size: 365 Copynumber: 1.9 Consensus size: 357
95085123 TTTGACATAA
* * * *
95085133 TGCCATAGTGTCTTTCAACTATGGTCTTACTCAATTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACAATTTCTATCATGTTGCCATGGTATCTTTCAAC
*** * *
95085198 CATGGTCTTGTTCATTTCATATCACGTTGCCATGGTTGCATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATAACACGTTGCCATGGTTCCATGGTCTTACACATTTCATATCAGGT
* *
95085263 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCTATGGTATCTTTCAAC
131 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
95085328 CATGGTCTTATTCTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-A
196 CATGGTCTTATTCTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTA
*
95085392 TATCATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCAATCAGGTTGCCATGGTATC
261 -ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAATCAGGTTGCCATGGTATC
95085457 TTTCAACCATGGTCTTATTCTTTCATGTCACGT
325 TTTCAACCATGGTCTTATTCTTTCATGTCACGT
*
95085490 TGCCATGGTATCTTTCAACCATGGTCTTACAC-ATTTCATATCATGTTGCCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACAATTTC-TATCATGTTGCCATGGTATCTTTCAA
* *
95085554 CCATGGTCTTACACATTTC-TAAACATGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTT
65 CCATGGTCTTACACATTTCAT-AACACGTTGCCATGG-----TT---CCATGGTCTTACACATTT
* * *
95085618 CATATCATGTTGCCATAGTATCTTTCAACCATGGTCTTGCACATTTCATATCGTGTTGCCATGGT
121 CATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGT
* *
95085683 ATCTTTCAACCATGGTTTTATTCTTTTATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
186 ATCTTTCAACCATGGTCTTATTCTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
95085748 CACATTTCTAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
251 CACATTTCTAATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
95085803 TTTCAGATAG
Statistics
Matches: 282, Mismatches: 20, Indels: 14
0.89 0.06 0.04
Matches are distributed among these distances:
356 6 0.02
357 82 0.29
362 2 0.01
365 191 0.68
366 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (357 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACAATTTCTATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATAACACGTTGCCATGGTTCCATGGTCTTACACATTTCATATCAGGT
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTA
ATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAATCAGGTTGCCATGGTATCT
TTCAACCATGGTCTTATTCTTTCATGTCACGT
Found at i:95087530 original size:10 final size:11
Alignment explanation
Indices: 95087504--95087536 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
95087494 TTCTACACCG
95087504 TTTCTCTTCAC
1 TTTCTCTTCAC
*
95087515 TTTCTCTT-AT
1 TTTCTCTTCAC
95087525 TTTCTCTTCAC
1 TTTCTCTTCAC
95087536 T
1 T
95087537 AACATATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTCTCTTCAC
Found at i:95087988 original size:20 final size:21
Alignment explanation
Indices: 95087951--95088010 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
95087941 GAAATAATAA
*
95087951 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
95087972 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
95087992 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
95088011 ATCAACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.31
21 11 0.34
22 5 0.16
23 6 0.19
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:95089611 original size:18 final size:18
Alignment explanation
Indices: 95089588--95089624 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
95089578 TTTGAGAATG
*
95089588 TTAATATGCTTGTAACAT
1 TTAATATGCTTCTAACAT
95089606 TTAATATGCTTCTAACAT
1 TTAATATGCTTCTAACAT
95089624 T
1 T
95089625 CTAAATCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (18 bp):
TTAATATGCTTCTAACAT
Found at i:95089635 original size:18 final size:18
Alignment explanation
Indices: 95089588--95089635 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
95089578 TTTGAGAATG
* *
95089588 TTAATATGCTTGTAACAT
1 TTAATATCCTTCTAACAT
*
95089606 TTAATATGCTTCTAACAT
1 TTAATATCCTTCTAACAT
95089624 TCTAA-ATCCTTC
1 T-TAATATCCTTC
95089636 AATGATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (18 bp):
TTAATATCCTTCTAACAT
Found at i:95093021 original size:17 final size:17
Alignment explanation
Indices: 95092999--95093032 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
95092989 AGCATATTTA
*
95092999 ATAAAAATAATTTAATC
1 ATAAAAAAAATTTAATC
95093016 ATAAAAAAAATTTAATC
1 ATAAAAAAAATTTAATC
95093033 TTCCAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAAAATTTAATC
Found at i:95096444 original size:220 final size:220
Alignment explanation
Indices: 95096078--95096645 Score: 911
Period size: 220 Copynumber: 2.6 Consensus size: 220
95096068 TGACCTCCAG
* *
95096078 GTGTTTACGCTGAAGCGGATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCGAAG
1 GTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCGAAG
* * * *
95096143 AAATAGATTTGGCATATCCATATTCGAAGGAGAGCAGATCGAAGACATGGCAGATCTAACCTTCG
66 AAACAGATTTGGCATATCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTAACCTTCG
* * *
95096208 GATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGAAGATTG
131 GATGTCTTCACATCGAAGTAGATCCAAGATGATTAGGCATCCTTGCGTTGACAAGGAGAAGATCG
95096273 AAGACATAACAGATTTGGCTTTCAC
196 AAGACATAACAGATTTGGCTTTCAC
* *
95096298 GTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTATTGACAGAAAACAAATCGAAG
1 GTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCGAAG
* * *
95096363 AAACAGATTTGGCATTTCCATATTTGACGGAGAGTAGATCGAAGACATAGCAAATCTAACCTTCG
66 AAACAGATTTGGCATATCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTAACCTTCG
*
95096428 GATGTCTTCACATCGAAGTAGATCCAAGATGATTAGGCATCCTTGCGTTGACAAGGAGCAGATCG
131 GATGTCTTCACATCGAAGTAGATCCAAGATGATTAGGCATCCTTGCGTTGACAAGGAGAAGATCG
* *
95096493 AAGACATAGCAGATTTTGCTTTCAC
196 AAGACATAACAGATTTGGCTTTCAC
* ** *
95096518 GTGTTTATGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAG
1 GTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCGAAG
* * * *
95096583 AAACAGATTTGACATCTCCATATTCGACGGAGAGTAGATCGAAGACATAACAGATCTGACCTT
66 AAACAGATTTGGCATATCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTAACCTT
95096646 TATTGAAGCA
Statistics
Matches: 319, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
220 319 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (220 bp):
GTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCGAAG
AAACAGATTTGGCATATCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTAACCTTCG
GATGTCTTCACATCGAAGTAGATCCAAGATGATTAGGCATCCTTGCGTTGACAAGGAGAAGATCG
AAGACATAACAGATTTGGCTTTCAC
Found at i:95096718 original size:78 final size:78
Alignment explanation
Indices: 95096588--95096882 Score: 421
Period size: 78 Copynumber: 3.8 Consensus size: 78
95096578 CGAAGAAACA
* ** * * * *
95096588 GATTTGACATCTCCATATTCGACGGAGAGTAGATCGAAGACATAACAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
*
95096653 GCAGACCCAAGAT
66 GCAGATCCAAGAT
* * * *
95096666 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACACAGCATATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
95096731 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
95096744 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAATAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
95096808 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
95096822 GATTTGGCATCTCTGTATTATACGGGGAGCAGATTGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
95096883 GTGTTTACAT
Statistics
Matches: 192, Mismatches: 23, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
77 1 0.01
78 190 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:95096960 original size:45 final size:45
Alignment explanation
Indices: 95096899--95097095 Score: 261
Period size: 45 Copynumber: 4.4 Consensus size: 45
95096889 ACATCGAAGT
* * *
95096899 AGATCCAAGATGACAGATTTGGCATCTCTATATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* *
95096944 AAATCGAAGATAACAGATTTGGCATCTCTGTATTAAACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* * * * *
95096989 AGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGATGAGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* *
95097033 AGATCGAAGATAACAAATTTGGCGTCTCTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* *
95097078 AGATCAAAGATAGCAGAT
1 AGATCGAAGATAACAGAT
95097096 ATCACCTTCC
Statistics
Matches: 131, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
44 38 0.29
45 93 0.71
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (45 bp):
AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
Found at i:95097022 original size:89 final size:90
Alignment explanation
Indices: 95096899--95097095 Score: 272
Period size: 89 Copynumber: 2.2 Consensus size: 90
95096889 ACATCGAAGT
* * *
95096899 AGATCCAAGAT-GACAGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAGATT
1 AGATCAAAGATAG-CAGATTTGGCATCTCTATATTAGACGAGGAGCAAATCGAAGATAACAAATT
95096963 TGGCATCTCTGTATTAAACGGGGAGC
65 TGGCATCTCTGTATTAAACGGGGAGC
** * * * *
95096989 AGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGATGAGGAGCAGATCGAAGATAACAAATTT
1 AGATCAAAGATAGCAGATTTGGCATCTCTATATTAGACGAGGAGCAAATCGAAGATAACAAATTT
* *
95097053 GGCGTCTCTGTATTAGACGGGGAGC
66 GGCATCTCTGTATTAAACGGGGAGC
95097078 AGATCAAAGATAGCAGAT
1 AGATCAAAGATAGCAGAT
95097096 ATCACCTTCC
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
89 77 0.83
90 16 0.17
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (90 bp):
AGATCAAAGATAGCAGATTTGGCATCTCTATATTAGACGAGGAGCAAATCGAAGATAACAAATTT
GGCATCTCTGTATTAAACGGGGAGC
Found at i:95097072 original size:134 final size:136
Alignment explanation
Indices: 95096822--95097095 Score: 342
Period size: 134 Copynumber: 2.0 Consensus size: 136
95096812 GATCCAAGAT
* *
95096822 GATTTGGCATCTCTGTATTATACGGGGAGCAGATTGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAAACGGGGAGCAGATTGAAGA-ATAGCAGATCTGACCTTCATGTGA
* * * *
95096887 TTACATCGAAGTAGATCCAAGATGACAGATTTGGCATCTCTATATTAGACGGGGAGCAAATCGAA
65 TTACATCGAAGCAGATCCAAGATAACAAATTTGGCATCTCTATATTAGACGGGGAGCAAATCAAA
95096952 GATAACA
130 GATAACA
* * *
95096959 GATTTGGCATCTCTGTATTAAACGGGGAGCAGATTGAAG-A-AGCAGATTTGGCGTCTC-TGT-A
1 GATTTGGCATCTCTGTATTAAACGGGGAGCAGATTGAAGAATAGCAGATCTGACCT-TCATGTGA
* * * * *
95097020 TTAGAT-GAGGAGCAGATCGAAGATAACAAATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCA
65 TTACATCGA--AGCAGATCCAAGATAACAAATTTGGCATCTCTATATTAGACGGGGAGCAAATCA
*
95097084 AAGATAGCA
128 AAGATAACA
95097093 GAT
1 GAT
95097096 ATCACCTTCC
Statistics
Matches: 119, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
132 2 0.02
133 5 0.04
134 71 0.60
135 3 0.03
137 38 0.32
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (136 bp):
GATTTGGCATCTCTGTATTAAACGGGGAGCAGATTGAAGAATAGCAGATCTGACCTTCATGTGAT
TACATCGAAGCAGATCCAAGATAACAAATTTGGCATCTCTATATTAGACGGGGAGCAAATCAAAG
ATAACA
Found at i:95097542 original size:17 final size:19
Alignment explanation
Indices: 95097448--95097535 Score: 137
Period size: 19 Copynumber: 4.8 Consensus size: 19
95097438 ATCTTCAATA
*
95097448 ATATACAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
95097467 ATATGCAATTTTAGATATG
1 ATATGCAATCTTAGATATG
95097486 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
95097503 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
95097521 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
95097536 AGATATGATT
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.24
18 16 0.25
19 32 0.51
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:95097561 original size:22 final size:22
Alignment explanation
Indices: 95097460--95097558 Score: 78
Period size: 19 Copynumber: 5.0 Consensus size: 22
95097450 ATACAATCTT
*
95097460 AGATATGATATGCAAT-TT--T
1 AGATATGATATGCAATCTTAGA
95097479 AGATATGATA--CAATCTT---
1 AGATATGATATGCAATCTTAGA
95097496 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
95097514 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
95097536 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
95097559 GATTTAATTT
Statistics
Matches: 70, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
17 13 0.19
18 18 0.26
19 19 0.27
22 8 0.11
23 12 0.17
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:95098853 original size:3 final size:3
Alignment explanation
Indices: 95098845--95098877 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
95098835 AAACTCGTGC
95098845 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
95098878 AAAAATGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:95109063 original size:23 final size:24
Alignment explanation
Indices: 95109018--95109065 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
95109008 CAATCATTTC
*
95109018 AAATAAGAATGATTAGAGAAGAGA
1 AAATAAGAATGATAAGAGAAGAGA
*
95109042 AAATAAGAATGA-AAGAGGAGAGA
1 AAATAAGAATGATAAGAGAAGAGA
95109065 A
1 A
95109066 GAGAAGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.12
Consensus pattern (24 bp):
AAATAAGAATGATAAGAGAAGAGA
Found at i:95109072 original size:23 final size:24
Alignment explanation
Indices: 95109022--95109072 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
95109012 CATTTCAAAT
* *
95109022 AAGAATGATTAGAGAAGAGAAAAT
1 AAGAATGATAAGAGAAGAGAAAAG
* *
95109046 AAGAATGA-AAGAGGAGAGAAGAG
1 AAGAATGATAAGAGAAGAGAAAAG
95109069 AAGA
1 AAGA
95109073 GAAAATGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.31, T:0.10
Consensus pattern (24 bp):
AAGAATGATAAGAGAAGAGAAAAG
Found at i:95109090 original size:28 final size:29
Alignment explanation
Indices: 95109018--95109092 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 29
95109008 CAATCATTTC
* ** *
95109018 AAATAAGAATGATTAGAGAAGAGAAAATA
1 AAATGAGAATGAGGAGAGAAGAGAAAAGA
*
95109047 AGAATGA-AA-GAGGAGAGAAGAGAAGAGA
1 A-AATGAGAATGAGGAGAGAAGAGAAAAGA
95109075 AAATGAGAATGA-GAGAGA
1 AAATGAGAATGAGGAGAGA
95109093 TGTATATTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 5 0.13
28 24 0.63
29 5 0.13
30 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.31, T:0.11
Consensus pattern (29 bp):
AAATGAGAATGAGGAGAGAAGAGAAAAGA
Done.