Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 25 of 145
Found at i:9475331 original size:20 final size:20
Alignment explanation
Indices: 9475303--9475343 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9475293 TTTAATTAAT
9475303 TTAGCTTAATT-AAGTTAAAC
1 TTAGCTTAATTGAA-TTAAAC
*
9475323 TTAGTTTAATTGAATTAAAC
1 TTAGCTTAATTGAATTAAAC
9475343 T
1 T
9475344 AATCATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (20 bp):
TTAGCTTAATTGAATTAAAC
Found at i:9486791 original size:7 final size:8
Alignment explanation
Indices: 9486774--9486802 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9486764 AATTTATTTT
9486774 AAAAATAA
1 AAAAATAA
9486782 AAAAATAA
1 AAAAATAA
9486790 AAAAATAA
1 AAAAATAA
9486798 AAAAA
1 AAAAA
9486803 AAGTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAATAA
Found at i:9487958 original size:27 final size:27
Alignment explanation
Indices: 9487928--9487983 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
9487918 CATAGTGGAC
9487928 TTAAGCGGGTTGAATAGTGGTATTCGA
1 TTAAGCGGGTTGAATAGTGGTATTCGA
*
9487955 TTAAGCGGGTTGAATAGTGGTGTTCGA
1 TTAAGCGGGTTGAATAGTGGTATTCGA
9487982 TT
1 TT
9487984 CCTTACTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.23, C:0.07, G:0.34, T:0.36
Consensus pattern (27 bp):
TTAAGCGGGTTGAATAGTGGTATTCGA
Found at i:9515090 original size:23 final size:23
Alignment explanation
Indices: 9515064--9515117 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
9515054 CAAACTAATC
9515064 CTCTCAAATTTCC-TCTC-AATTT
1 CTCTCAAATTTCCTTC-CAAATTT
9515086 GCTCTCAAA-TTCCTTCCAAATTT
1 -CTCTCAAATTTCCTTCCAAATTT
9515109 CTCTCAAAT
1 CTCTCAAAT
9515118 CCATATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.26, C:0.31, G:0.02, T:0.41
Consensus pattern (23 bp):
CTCTCAAATTTCCTTCCAAATTT
Found at i:9515116 original size:11 final size:12
Alignment explanation
Indices: 9515062--9515117 Score: 66
Period size: 11 Copynumber: 4.9 Consensus size: 12
9515052 CACAAACTAA
9515062 TCCTCTCAAATT
1 TCCTCTCAAATT
9515074 TCCTCTC-AATT
1 TCCTCTCAAATT
*
9515085 TGCTCTCAAA-T
1 TCCTCTCAAATT
9515096 TCCT-TCCAAATT
1 TCCTCT-CAAATT
9515108 T-CTCTCAAAT
1 TCCTCTCAAAT
9515118 CCATATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
10 1 0.03
11 25 0.66
12 12 0.32
ACGTcount: A:0.25, C:0.32, G:0.02, T:0.41
Consensus pattern (12 bp):
TCCTCTCAAATT
Found at i:9515197 original size:10 final size:10
Alignment explanation
Indices: 9515172--9515212 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
9515162 CTTAACTCCC
*
9515172 TTTTTTAAAA
1 TTTTTTTAAA
*
9515182 TATTTTTTAAT
1 T-TTTTTTAAA
9515193 TTTTTTTAAA
1 TTTTTTTAAA
9515203 TTTTTTTAAA
1 TTTTTTTAAA
9515213 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:9515198 original size:11 final size:11
Alignment explanation
Indices: 9515172--9515209 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9515162 CTTAACTCCC
*
9515172 TTTTTTAAAAT
1 TTTTTTTAAAT
*
9515183 ATTTTTT-AAT
1 TTTTTTTAAAT
9515193 TTTTTTTAAAT
1 TTTTTTTAAAT
9515204 TTTTTT
1 TTTTTT
9515210 AAACCGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:9517251 original size:23 final size:22
Alignment explanation
Indices: 9517221--9518369 Score: 843
Period size: 23 Copynumber: 51.8 Consensus size: 22
9517211 GGGTTATTAC
9517221 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
9517244 TTAAAAACCCTAAACCTTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* * ** *
9517266 TTAAAAATCCTGAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
9517289 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
9517312 TTAAAAACCCTAAACCTTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* * ** *
9517334 TTAAAAATCCTGAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
9517357 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
9517380 TTAAAAACCCTAAACCTTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* * ** *
9517402 TTAAAAATCCTGAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
9517425 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
9517448 TTAAAAACCCTAAACCTTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* * ** *
9517470 TTAAAAATCCTGAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
9517493 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
9517516 TTAAAAACCCTAAACCTTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* * ** *
9517538 TTAAAAATCCTGAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
9517561 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
9517584 TTAAAAACCCTAAACCTTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* * ** *
9517606 TTAAAAATCCTGAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
9517629 TTAAAAACCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
9517652 ATAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
9517674 TTTAAAACCCT-AACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* ** *
9517695 TTCAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
9517718 TTAAAAATCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* * * *
9517741 TTTAAAACTCTAACCCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* ** *
9517763 TTAAAAAATCCTAAACTAATTTAA
1 TT-AAAAACCCTAAAC-CCTTAAA
*
9517787 TTAAAAACCCTGAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
9517809 CTTAAAAACCCTAACCCCTTAAC
1 -TTAAAAACCCTAAACCCTTAAA
** *
9517832 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
9517855 TTAAAAATCCTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
9517878 TTAAAAACCCTAACCCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
9517900 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
9517923 TT-AAAACCATAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
*
9517944 CTTAAAAACCCTAAAGCCTTAAA
1 -TTAAAAACCCTAAACCCTTAAA
** *
9517967 CTTAAAAACCCT-AACTAATTTAA
1 -TTAAAAACCCTAAAC-CCTTAAA
*
9517990 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
9518012 TTAAAAACCCT-AACCCTCAAC
1 TTAAAAACCCTAAACCCTTAAA
* *
9518033 TTAAAAA-CCTTAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
9518054 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
9518077 TTAAAAACCTTAAACCCTTAAAA
1 TTAAAAACCCTAAACCCTT-AAA
* *
9518100 TTAAAAACCATAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
** *
9518122 TT-AAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
9518144 TT-AAAACCCTAAACTCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
9518165 CTTAAAAACCCTAACCCCTTAAC
1 -TTAAAAACCCTAAACCCTTAAA
* *
9518188 TCT--AAA--CT-AA--TTTAAT
1 T-TAAAAACCCTAAACCCTTAAA
* *
9518204 TAAAAACCC-TAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
9518225 CTTAAAAACCCTAACCCCTTAAC
1 -TTAAAAACCCTAAACCCTTAAA
* *
9518248 TCT--AAA--CT-AA--TTTAAT
1 T-TAAAAACCCTAAACCCTTAAA
* *
9518264 TAAAAACCC-TAAACCCTTAAA
1 TTAAAAACCCTAAACCCTTAAA
* *
9518285 CTTAAAAACCCTAACCCCTTAAC
1 -TTAAAAACCCTAAACCCTTAAA
** *
9518308 TTAAAAACCCTAAACTAATTTAA
1 TTAAAAACCCTAAAC-CCTTAAA
*
9518331 TTAAAAACCCTAAACCCTTAAC
1 TTAAAAACCCTAAACCCTTAAA
*
9518353 TTAAAAACTCT-AACCCT
1 TTAAAAACCCTAAACCCT
9518370 CANNNNNNNN
Statistics
Matches: 873, Mismatches: 200, Indels: 108
0.74 0.17 0.09
Matches are distributed among these distances:
16 10 0.01
17 4 0.00
18 4 0.00
19 8 0.01
20 3 0.00
21 91 0.10
22 272 0.31
23 476 0.55
24 5 0.01
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.27
Consensus pattern (22 bp):
TTAAAAACCCTAAACCCTTAAA
Found at i:9517851 original size:68 final size:69
Alignment explanation
Indices: 9517219--9518369 Score: 904
Period size: 68 Copynumber: 17.3 Consensus size: 69
9517209 TTGGGTTATT
*
9517219 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAATCCTGAACTAA
1 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAACCCTGAACTAA
*
9517284 TTTA
66 CTTA
*
9517288 A-TTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAATCCTGAACTAA
1 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAACCCTGAACTAA
*
9517352 TTTA
66 CTTA
*
9517356 A-TTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAATCCTGAACTAA
1 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAACCCTGAACTAA
*
9517420 TTTA
66 CTTA
*
9517424 A-TTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAATCCTGAACTAA
1 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAACCCTGAACTAA
*
9517488 TTTA
66 CTTA
*
9517492 A-TTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAATCCTGAACTAA
1 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAACCCTGAACTAA
*
9517556 TTTA
66 CTTA
*
9517560 A-TTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAATCCTGAACTAA
1 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAACCCTGAACTAA
*
9517624 TTTA
66 CTTA
* * * *
9517628 A-TTAAAAACCCTAAACCCTTAAAAATAAAAACCCTAAACCCTTAACTTTAAAACCCT-AAC--C
1 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAACCCTGAACTAA
9517689 CTTA
66 CTTA
* ** * * * * * *
9517693 ACTTCAAAACCCTAAACTAATT-TAATTAAAAATCCTAAACCCTTAAAATTTAAAACTCT-AAC-
1 ACTTAAAAACCCTAAAC-CCTTAAAATTAAAAACCCTAAA-CCTTTAACTTAAAAACCCTGAACT
**
9517755 CCCTTA
64 AACTTA
* ** * * *
9517761 ACTTAAAAAATCCTAAACTAATT-TAATTAAAAACCCTGAACCCTTAAACTTAAAAACCCT-AAC
1 ACTT-AAAAACCCTAAAC-CCTTAAAATTAAAAACCCT-AAACCTTTAACTTAAAAACCCTGAAC
**
9517824 -CCCTTA
63 TAACTTA
** * * * *
9517830 ACTTAAAAACCCTAAACTAATT-TAATTAAAAATCCTAAACCCTTAAAATTAAAAACCCT-AAC-
1 ACTTAAAAACCCTAAAC-CCTTAAAATTAAAAACCCTAAA-CCTTTAACTTAAAAACCCTGAACT
**
9517892 CCCTTA
64 AACTTA
** * * *
9517898 ACTTAAAAACCCTAAACTAATT-TAATT-AAAACCATAAACCCTTAAACTTAAAAACCCT-AA--
1 ACTTAAAAACCCTAAAC-CCTTAAAATTAAAAACCCTAAA-CCTTTAACTTAAAAACCCTGAACT
*
9517958 AGCCTTAA
64 A-ACTT-A
** * *
9517966 ACTTAAAAACCCT-AACTAATT-TAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AAC--
1 ACTTAAAAACCCTAAAC-CCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAACCCTGAACTA
* *
9518026 CCTCA
65 ACTTA
* * * * *
9518031 ACTTAAAAA-CCTTAACCCTT-AACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCTTAAAC-
1 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAAC--CTTTAACTTAAAAACCCTGAACT
*
9518092 -CCTTAA
64 AACTT-A
* * * * *
9518098 AATTAAAAACCATAAACCCTT-AACTT-AAAACCCTAAACTAATTTAA-TT-AAAACCCTAAACT
1 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAAC--CTTTAACTTAAAAACCCTGAACT
9518159 --CTTAA
64 AACTT-A
* * *
9518164 ACTTAAAAACCCTAACCCCTT-AACTCT--AAA--CT-AA--TTTAA-TTAAAAACCCTAAAC--
1 ACTTAAAAACCCTAAACCCTTAAAAT-TAAAAACCCTAAACCTTTAACTTAAAAACCCTGAACTA
*
9518218 CCTTAA
65 ACTT-A
* * *
9518224 ACTTAAAAACCCTAACCCCTT-AACTCT--AAA--CT-AA--TTTAA-TTAAAAACCCTAAAC--
1 ACTTAAAAACCCTAAACCCTTAAAAT-TAAAAACCCTAAACCTTTAACTTAAAAACCCTGAACTA
*
9518278 CCTTAA
65 ACTT-A
* * * *
9518284 ACTTAAAAACCCTAACCCCTT-AACTTAAAAACCCTAAACTAATTTAA-TTAAAAACCCTAAAC-
1 ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAAC--CTTTAACTTAAAAACCCTGAACT
*
9518346 -CCTTA
64 AACTTA
*
9518351 ACTTAAAAACTCT-AACCCT
1 ACTTAAAAACCCTAAACCCT
9518370 CANNNNNNNN
Statistics
Matches: 1000, Mismatches: 52, Indels: 63
0.90 0.05 0.06
Matches are distributed among these distances:
59 8 0.01
60 102 0.10
61 3 0.00
63 4 0.00
64 25 0.03
65 27 0.03
66 87 0.09
67 136 0.14
68 547 0.55
69 59 0.06
70 2 0.00
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.27
Consensus pattern (69 bp):
ACTTAAAAACCCTAAACCCTTAAAATTAAAAACCCTAAACCTTTAACTTAAAAACCCTGAACTAA
CTTA
Found at i:9518194 original size:37 final size:37
Alignment explanation
Indices: 9518152--9518223 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
9518142 AATTAAAACC
* *
9518152 CTAAACT-CTTAAACTTAAAAACCCTAACCCCTTAACT
1 CTAAACTAATTAAA-TTAAAAACCCTAAACCCTTAACT
*
9518189 CTAAACTAATTTAATTAAAAACCCTAAACCCTTAA
1 CTAAACTAATTAAATTAAAAACCCTAAACCCTTAA
9518224 ACTTAAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 27 0.87
38 4 0.13
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (37 bp):
CTAAACTAATTAAATTAAAAACCCTAAACCCTTAACT
Found at i:9518223 original size:60 final size:60
Alignment explanation
Indices: 9518130--9518368 Score: 374
Period size: 60 Copynumber: 3.9 Consensus size: 60
9518120 ACTTAAAACC
*
9518130 CTAAACTAATTTAATT-AAAACCCTAAACTCTTAAACTTAAAAACCCTAACCCCTTAACT
1 CTAAACTAATTTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAACCCCTTAACT
9518189 CTAAACTAATTTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAACCCCTTAACT
1 CTAAACTAATTTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAACCCCTTAACT
9518249 CTAAACTAATTTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAACCCCTTAACTT
1 CTAAACTAATTTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAACCCCTTAAC-T
*
9518310 AAAAACCCTAAACTAATTTAATTAAAAACCCTAAACCCTT-AACTTAAAAACTCTAACCC
1 -------CTAAACTAATTTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAACCC
9518369 TCANNNNNNN
Statistics
Matches: 169, Mismatches: 2, Indels: 10
0.93 0.01 0.06
Matches are distributed among these distances:
59 16 0.09
60 101 0.60
61 1 0.01
67 18 0.11
68 33 0.20
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.27
Consensus pattern (60 bp):
CTAAACTAATTTAATTAAAAACCCTAAACCCTTAAACTTAAAAACCCTAACCCCTTAACT
Found at i:9521779 original size:125 final size:125
Alignment explanation
Indices: 9521553--9521929 Score: 621
Period size: 125 Copynumber: 3.0 Consensus size: 125
9521543 CCCAAACATG
9521553 CTACTGTAGCAAAAGCGCGTCCACGATGGCGCGCTTTCACAAATTCTTCTTAAATATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGATGGCGCGCTTTCACAAATTCTTCTTAAATATCATCCTGC
*
9521618 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
9521678 CTACTGTAGCAAAAGCGCGTCCACGATGGCGCGCTTTCACAAATTCTTCTTAAATATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGATGGCGCGCTTTCACAAATTCTTCTTAAATATCATCCTGC
* *
9521743 TAGAAGCGATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTT-TTTCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * * * *
9521802 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTATCAAACAACATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGATGGCGCGCTTTCACAAATTCTTCTTAAATATCATCCTGC
* * * *
9521867 TAGAAGCGATTTTCTACTATTTGATCAAAAACGTCAACTCGAAATTATTTCTTCTAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
9521927 CTA
1 CTA
9521930 AAAAGCCTGA
Statistics
Matches: 235, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
124 111 0.47
125 124 0.53
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGATGGCGCGCTTTCACAAATTCTTCTTAAATATCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:9530346 original size:68 final size:68
Alignment explanation
Indices: 9530237--9530411 Score: 217
Period size: 68 Copynumber: 2.6 Consensus size: 68
9530227 GAGGTTTAAT
* * ** *
9530237 GTGTAAGACTAAAGCTC-AGCTATGAAAACCAATAGAGTCCGCCAAGACATTAAATATGGGGTTA
1 GTGTAAGACCATAGCTCGA-CTATGGCAACCAATAGAGTCCGCCAAGACATTAAACATGGGGTTA
*
9530301 CGAG
65 CAAG
* * * *
9530305 GTGTAAGACCATAGCTCGACTATGGCAACCCATAGAGTCCGCCAGGACATTAAACATGGTGTTGC
1 GTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAAGACATTAAACATGGGGTTAC
9530370 AAG
66 AAG
* * *
9530373 ATGTAAGACCATATCTCGACTATGGCAACCAATACAGTC
1 GTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTC
9530412 TACTAGGATG
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
68 91 0.99
69 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (68 bp):
GTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAAGACATTAAACATGGGGTTAC
AAG
Found at i:9530446 original size:68 final size:68
Alignment explanation
Indices: 9530237--9530455 Score: 194
Period size: 68 Copynumber: 3.2 Consensus size: 68
9530227 GAGGTTTAAT
* * ** * * * * * *
9530237 GTGTAAGACTAAAGCTC-AGCTATGAAAACCAATAGAGTCCGCCAAGACATTAAATATGGGGTTA
1 GTGTAAGACCATAGCTCGA-CTATGGCAACCAATACAGTCCACCAGGACATTAAACATGGTGTTG
*
9530301 CGAG
65 CAAG
* * *
9530305 GTGTAAGACCATAGCTCGACTATGGCAACCCATAGAGTCCGCCAGGACATTAAACATGGTGTTGC
1 GTGTAAGACCATAGCTCGACTATGGCAACCAATACAGTCCACCAGGACATTAAACATGGTGTTGC
9530370 AAG
66 AAG
* * * * *
9530373 ATGTAAGACCATATCTCGACTATGGCAACCAATACAGTCTACTAGGATGA-TAAACATGG-GTT-
1 GTGTAAGACCATAGCTCGACTATGGCAACCAATACAGTCCACCAGGA-CATTAAACATGGTGTTG
*
9530435 CAGG
65 CAAG
9530439 TTGTGTAAGACCATAGC
1 --GTGTAAGACCATAGC
9530456 GTCAGGTGAA
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
66 3 0.02
67 3 0.02
68 118 0.94
69 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.22
Consensus pattern (68 bp):
GTGTAAGACCATAGCTCGACTATGGCAACCAATACAGTCCACCAGGACATTAAACATGGTGTTGC
AAG
Found at i:9531392 original size:15 final size:14
Alignment explanation
Indices: 9531374--9531403 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9531364 AATTCAATAC
9531374 ATATATA-TTAAAT
1 ATATATATTTAAAT
9531387 ATATATATTTAAAT
1 ATATATATTTAAAT
9531401 ATA
1 ATA
9531404 ATAAGCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATATTTAAAT
Found at i:9540382 original size:69 final size:70
Alignment explanation
Indices: 9540293--9540432 Score: 273
Period size: 69 Copynumber: 2.0 Consensus size: 70
9540283 CGACTAAACC
9540293 ATAGCTCTGATACTAATCAAATGTAACACCCTTACCCATATTTGTCACCGAATTAGGGTTACGAG
1 ATAGCTCTGATACTAATCAAATGTAACACCCTTACCCATATTTGTCACCGAATTAGGGTTACGAG
9540358 GCATT
66 GCATT
9540363 ATAGCTCTGA-ACTAATCAAATGTAACACCCTTACCCATATTTGTCACCGAATTAGGGTTACGAG
1 ATAGCTCTGATACTAATCAAATGTAACACCCTTACCCATATTTGTCACCGAATTAGGGTTACGAG
9540427 GCATT
66 GCATT
9540432 A
1 A
9540433 CTGAACAAAC
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 60 0.86
70 10 0.14
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (70 bp):
ATAGCTCTGATACTAATCAAATGTAACACCCTTACCCATATTTGTCACCGAATTAGGGTTACGAG
GCATT
Found at i:9540483 original size:15 final size:14
Alignment explanation
Indices: 9540465--9540494 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9540455 AATTCAATAC
9540465 ATATATA-TTAAAT
1 ATATATATTTAAAT
9540478 ATATATATTTAAAT
1 ATATATATTTAAAT
9540492 ATA
1 ATA
9540495 ATAAGCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATATTTAAAT
Found at i:9541819 original size:41 final size:41
Alignment explanation
Indices: 9541763--9541865 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
9541753 TGATTCGATA
* * * *
9541763 CACCGGCTTTTAGCCTGCTAGACCTATAGTCCGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
* * * *
9541804 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
9541845 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
9541866 GCACATAGCC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
Found at i:9541879 original size:41 final size:41
Alignment explanation
Indices: 9541803--9541880 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
9541793 CCGAAATGTA
** *
9541803 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATT
1 TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTATT
* *
9541844 TCACCGGCATTAAGCCTGCTAGGCACATAGCCTGAAT
1 TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAAT
9541881 AACTCAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACACAAAGCCTGAATTATT
Found at i:9543494 original size:13 final size:13
Alignment explanation
Indices: 9543476--9543500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9543466 TCAAACTATC
9543476 AAATTTTCACACG
1 AAATTTTCACACG
9543489 AAATTTTCACAC
1 AAATTTTCACAC
9543501 ATATAACTTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:9548648 original size:25 final size:25
Alignment explanation
Indices: 9548613--9548664 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
9548603 CTTCAAAGGC
*
9548613 TAGATACATATAAAAAGCTTATAAA
1 TAGATAAATATAAAAAGCTTATAAA
* * *
9548638 TAGATAAATATACAAGGTTTATAAA
1 TAGATAAATATAAAAAGCTTATAAA
9548663 TA
1 TA
9548665 ATCTAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.31
Consensus pattern (25 bp):
TAGATAAATATAAAAAGCTTATAAA
Found at i:9549431 original size:19 final size:20
Alignment explanation
Indices: 9549376--9549431 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
9549366 AATTAATAAA
*
9549376 ATAAAATATTTAATTATTGAT
1 ATAAAATATTTTA-TATTGAT
*
9549397 ATAAGATATTTT-TATT-AT
1 ATAAAATATTTTATATTGAT
*
9549415 TTAAAATATTTTATATT
1 ATAAAATATTTTATATT
9549432 CTTAGAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 12 0.40
19 8 0.27
21 10 0.33
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
ATAAAATATTTTATATTGAT
Found at i:9557176 original size:14 final size:15
Alignment explanation
Indices: 9557157--9557187 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
9557147 ATTAAAGATT
9557157 AAGTTAATTAA-TTA
1 AAGTTAATTAAGTTA
9557171 AAGTTAATTAAGTTA
1 AAGTTAATTAAGTTA
9557186 AA
1 AA
9557188 CCATGGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (15 bp):
AAGTTAATTAAGTTA
Found at i:9565972 original size:10 final size:10
Alignment explanation
Indices: 9565927--9565973 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
9565917 AATCTCAATT
*
9565927 TATTTATTTT
1 TATTTATTTA
9565937 TATTTATTTA
1 TATTTATTTA
* *
9565947 T-TTGATTAA
1 TATTTATTTA
*
9565956 AATTTATTTA
1 TATTTATTTA
9565966 TATTTATT
1 TATTTATT
9565974 AAGAATTTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
9 6 0.21
10 23 0.79
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
TATTTATTTA
Found at i:9565980 original size:21 final size:19
Alignment explanation
Indices: 9565938--9565984 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
9565928 ATTTATTTTT
9565938 ATTTATTTATTTGATTAAA
1 ATTTATTTATTTGATTAAA
*
9565957 ATTTATTTATATTTATTAAGA
1 ATTTATTTAT-TTGATTAA-A
9565978 ATTTATT
1 ATTTATT
9565985 GTGTGTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 10 0.40
20 7 0.28
21 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTTATTTATTTGATTAAA
Found at i:9567359 original size:21 final size:21
Alignment explanation
Indices: 9567327--9567373 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9567317 ACTATTTGAA
9567327 ATATACTAAGTACTGATACCT
1 ATATACTAAGTACTGATACCT
*
9567348 ATAT-CTAGAGTATTGATACCT
1 ATATACTA-AGTACTGATACCT
9567369 A-ATAC
1 ATATAC
9567374 CAAATATGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (21 bp):
ATATACTAAGTACTGATACCT
Found at i:9572521 original size:2 final size:2
Alignment explanation
Indices: 9572514--9572541 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9572504 TGCTTAACAA
9572514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9572542 TCCCTAGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9585840 original size:68 final size:68
Alignment explanation
Indices: 9585706--9585844 Score: 235
Period size: 68 Copynumber: 2.0 Consensus size: 68
9585696 TGAAGGCAAA
9585706 AGGCATGATTTATAAGTGAAATATCAATTGTTTTTTAAGGAAGGAAATGCTTAATTGGACATATC
1 AGGCATGATTTATAAGTGAAATATCAATTGTTTTTT-A--AAGGAAATGCTTAATTGGACATATC
9585771 ATTAAT
63 ATTAAT
9585777 AGGCATGATTTATAAGGTGAAATATCAATTGTTTTTT-AAGGAAATGCTTAATTGGACATATCAT
1 AGGCATGATTTATAA-GTGAAATATCAATTGTTTTTTAAAGGAAATGCTTAATTGGACATATCAT
9585841 TAAT
65 TAAT
9585845 TTAGAATCTG
Statistics
Matches: 67, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
68 31 0.46
71 15 0.22
72 21 0.31
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.37
Consensus pattern (68 bp):
AGGCATGATTTATAAGTGAAATATCAATTGTTTTTTAAAGGAAATGCTTAATTGGACATATCATT
AAT
Found at i:9589063 original size:21 final size:21
Alignment explanation
Indices: 9589038--9589077 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9589028 ATCAAATAAA
*
9589038 TTTA-TTCGATTCGACTCGAAT
1 TTTATTTC-ATTCAACTCGAAT
9589059 TTTATTTCATTCAACTCGA
1 TTTATTTCATTCAACTCGA
9589078 TTCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (21 bp):
TTTATTTCATTCAACTCGAAT
Found at i:9589197 original size:4 final size:4
Alignment explanation
Indices: 9589188--9590134 Score: 1894
Period size: 4 Copynumber: 236.8 Consensus size: 4
9589178 AATATAATAA
9589188 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589236 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589284 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589332 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589380 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589428 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589476 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589524 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589572 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589620 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589668 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589716 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589764 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589812 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589860 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589908 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9589956 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9590004 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9590052 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
9590100 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
9590135 AAAACAGAAG
Statistics
Matches: 943, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 943 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:9590587 original size:14 final size:14
Alignment explanation
Indices: 9590551--9590588 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
9590541 TCAGAACCCC
9590551 AAACCTTGAA-CTT
1 AAACCTTGAACCTT
*
9590564 AAACCCTGAACCTT
1 AAACCTTGAACCTT
*
9590578 AAATCTTGAAC
1 AAACCTTGAAC
9590589 TCCAAATCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.26
Consensus pattern (14 bp):
AAACCTTGAACCTT
Found at i:9598553 original size:204 final size:207
Alignment explanation
Indices: 9598179--9598819 Score: 921
Period size: 218 Copynumber: 3.0 Consensus size: 207
9598169 ATAACTTATG
* * *
9598179 TTTATTTTATTTATTTTTACTATATTAGTGACATTTTTATTTATGTAAAATC-ATATTTTAATTT
1 TTTATTTTATTTATTTTTATTATATTAGTAACATTTTTATTTATCTAAAATCAAT-TTTTAATTT
* *
9598243 AACTATATTTAGTAATTATTTTACATGTTTTTATTGTGAAAAAATAAGTATCGTATGCATTTTCA
65 AA-TATATTTAGTAATTATTTTACATGTTTTTATTGTG-AAAAATAAGTATCATATGCATTTTGA
* * *
9598308 TATTTTCATTTTCGTTTAACAAACATGATTTTTTCAATTTTTAAAATTAAAGATTCAAAATTATT
128 TATTTTCATTTTCATTTAACAAACATGATTTTTTTAATTTTTAAAATTAAAGAATCAAAATTATT
9598373 TTTTAAAAAT-AAAA
193 TTTTAAAAATAAAAA
*
9598387 TTTATTTTATTTATTTTTATTGTATTAGTAACATTTTTATTTATCTAAAATCAATTTTTAATTT-
1 TTTATTTTATTTATTTTTATTATATTAGTAACATTTTTATTTATCTAAAATCAATTTTTAATTTA
* ** *
9598451 A-ATATTTAGTAGTTAACTTACATGTTTTTATTGTGAAAAATACGTATCATATGCATTTTGATAT
66 ATATATTTAGTAATTATTTTACATGTTTTTATTGTGAAAAATAAGTATCATATGCATTTTGATAT
*
9598515 TTTCATTTTCATTTAACAAACATGATTTTTTTAATTTTTGAAATTAAAGAATCAAAATTATTTTT
131 TTTCATTTTCATTTAACAAACATGATTTTTTTAATTTTTAAAATTAAAGAATCAAAATTA-TTTT
9598580 TTAAAAACAAAATTAAATAA
195 TT----A-AAAA-TAAA-AA
*
9598600 TTTTATTTTATTTATTTTTATTATATTAGTAACATTTTCATTTATCTAAAATCATATTTTTAATT
1 -TTTATTTTATTTATTTTTATTATATTAGTAACATTTTTATTTATCTAAAATCA-ATTTTTAATT
* *
9598665 TGATTATATTTAGTAATTATTTTATATGTTTTTATTGTGAAAAATAAGTATCATATGCATTTTGA
64 T-AATATATTTAGTAATTATTTTACATGTTTTTATTGTGAAAAATAAGTATCATATGCATTTTGA
* * * *
9598730 TAATTTCATTTTCATTTAACAAACATAATTTTTTCTAATTTTTAAAATTAAAGAATAAAAAATAT
128 TATTTTCATTTTCATTTAACAAACATGATTTTTT-TAATTTTTAAAATTAAAGAATCAAAATTAT
9598795 TTTTTAAAAATAAAAA
192 TTTTTAAAAATAAAAA
9598811 TATTATTTT
1 T-TTATTTT
9598820 TGAAAGACAA
Statistics
Matches: 389, Mismatches: 27, Indels: 31
0.87 0.06 0.07
Matches are distributed among these distances:
204 82 0.21
205 37 0.10
207 1 0.00
208 57 0.15
209 3 0.01
210 5 0.01
211 10 0.03
212 6 0.02
213 6 0.02
214 52 0.13
215 11 0.03
218 93 0.24
219 26 0.07
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (207 bp):
TTTATTTTATTTATTTTTATTATATTAGTAACATTTTTATTTATCTAAAATCAATTTTTAATTTA
ATATATTTAGTAATTATTTTACATGTTTTTATTGTGAAAAATAAGTATCATATGCATTTTGATAT
TTTCATTTTCATTTAACAAACATGATTTTTTTAATTTTTAAAATTAAAGAATCAAAATTATTTTT
TAAAAATAAAAA
Found at i:9598810 original size:21 final size:22
Alignment explanation
Indices: 9598777--9598826 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
9598767 ATTTTTAAAA
9598777 TTAAAGAATAAAA-AATATTTT
1 TTAAAGAATAAAATAATATTTT
*
9598798 TTAAA-AATAAAAATATTATTTT
1 TTAAAGAAT-AAAATAATATTTT
*
9598820 TGAAAGA
1 TTAAAGA
9598827 CAAATAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.12
21 9 0.38
22 11 0.46
23 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (22 bp):
TTAAAGAATAAAATAATATTTT
Found at i:9598811 original size:19 final size:22
Alignment explanation
Indices: 9598777--9598819 Score: 65
Period size: 19 Copynumber: 2.1 Consensus size: 22
9598767 ATTTTTAAAA
9598777 TTAAAGAATAAAAAATATT-TT
1 TTAAAGAATAAAAAATATTATT
9598798 TTAAA-AAT-AAAAATATTATT
1 TTAAAGAATAAAAAATATTATT
9598818 TT
1 TT
9598820 TGAAAGACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 7 0.33
21 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAGAATAAAAAATATTATT
Found at i:9605449 original size:46 final size:44
Alignment explanation
Indices: 9605395--9605496 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 44
9605385 AAAAACTTTA
* *
9605395 AAAATTAATAAAATTATATAATATTTAAATAATGGTACATGAAATAT
1 AAAATTAATAAAATTA-ATAATATATAAATAAT--TACATAAAATAT
*
9605442 -AAATTAATTGTAAAATTAATGATATATAAATAATTACATAAAATAT
1 AAAATTAA---TAAAATTAATAATATATAAATAATTACATAAAATAT
9605488 AAAATTAAT
1 AAAATTAAT
9605497 CGACATATCT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
44 1 0.02
46 18 0.38
47 7 0.15
48 14 0.29
49 8 0.17
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (44 bp):
AAAATTAATAAAATTAATAATATATAAATAATTACATAAAATAT
Found at i:9605475 original size:48 final size:48
Alignment explanation
Indices: 9605403--9605496 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
9605393 TAAAAATTAA
* *
9605403 TAAAATTATATAATATTTAAATAATGGTACATGAAATAT-AAATTAATTG
1 TAAAATTATATAATATATAAATAAT--TACATAAAATATAAAATTAATTG
*
9605452 TAAAATTA-ATGATATATAAATAATTACATAAAATATAAAATTAAT
1 TAAAATTATATAATATATAAATAATTACATAAAATATAAAATTAAT
9605497 CGACATATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
46 11 0.27
47 8 0.20
48 14 0.34
49 8 0.20
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.37
Consensus pattern (48 bp):
TAAAATTATATAATATATAAATAATTACATAAAATATAAAATTAATTG
Found at i:9617579 original size:5 final size:5
Alignment explanation
Indices: 9617569--9617606 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
9617559 TAAAAGCATA
9617569 GGATG GGATG GGATG GGATG GGATG GGATG GGATG GGA
1 GGATG GGATG GGATG GGATG GGATG GGATG GGATG GGA
9617607 GAAAATGGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.21, C:0.00, G:0.61, T:0.18
Consensus pattern (5 bp):
GGATG
Found at i:9619552 original size:2 final size:2
Alignment explanation
Indices: 9619545--9619580 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9619535 AACACATGCG
9619545 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
9619581 TATATATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:9620969 original size:27 final size:27
Alignment explanation
Indices: 9620917--9620969 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
9620907 CAAGAAAAAT
* * *
9620917 CGCAATCCTAATTTTCTAGGGGTTAAC
1 CGCAACCCTAATTTTCTAGAGATTAAC
9620944 CGCAACCCTAATTTTCTAGAGATTAA
1 CGCAACCCTAATTTTCTAGAGATTAA
9620970 TCAATAATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (27 bp):
CGCAACCCTAATTTTCTAGAGATTAAC
Found at i:9627156 original size:98 final size:98
Alignment explanation
Indices: 9627040--9627236 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
9627030 AAAAAAATCA
* *
9627040 TAAAGGAAATTTTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
9627105 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * *
9627138 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGGTTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
9627203 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
9627236 T
1 T
9627237 TTTATTGTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:9629856 original size:27 final size:27
Alignment explanation
Indices: 9629792--9629847 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
9629782 GTTCGTTTGT
*
9629792 AAATGTAATCTTTATTTGATTGTTTTC
1 AAATGTATTCTTTATTTGATTGTTTTC
*
9629819 AAATGTATTCTTTATTTGGTTGTTTTC
1 AAATGTATTCTTTATTTGATTGTTTTC
9629846 AA
1 AA
9629848 GTTAATTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.55
Consensus pattern (27 bp):
AAATGTATTCTTTATTTGATTGTTTTC
Found at i:9630189 original size:29 final size:29
Alignment explanation
Indices: 9630147--9630207 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
9630137 TCAATAAAAC
9630147 AATTATGCTAAAAATAATACTTTATTTTG
1 AATTATGCTAAAAATAATACTTTATTTTG
9630176 AATTATGCTAAAAATAATACTTTATTTTG
1 AATTATGCTAAAAATAATACTTTATTTTG
9630205 AAT
1 AAT
9630208 AAAGTACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (29 bp):
AATTATGCTAAAAATAATACTTTATTTTG
Found at i:9631996 original size:18 final size:18
Alignment explanation
Indices: 9631973--9632010 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
9631963 AGGTTGTGAC
9631973 ATGTATAT-AGTTGTCTTG
1 ATGTATATAAG-TGTCTTG
9631991 ATGTATATAAGTGTCTTG
1 ATGTATATAAGTGTCTTG
9632009 AT
1 AT
9632011 ACATATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (18 bp):
ATGTATATAAGTGTCTTG
Found at i:9658169 original size:41 final size:40
Alignment explanation
Indices: 9658071--9658188 Score: 96
Period size: 41 Copynumber: 2.9 Consensus size: 40
9658061 NNNNCTTTAC
* * * *
9658071 AAACAAACGCCACTAAAAACCTTAACTATAGCGGCACATTAT
1 AAACAAACGCCACT-AAAACCCTAAAT-TAGCGGCGCATTAG
* * *
9658113 CAA-AAACACCGCTAAAAGCCCTAAAGTTAGCGGCGC-TTAG
1 AAACAAACGCCACTAAAA-CCCTAAA-TTAGCGGCGCATTAG
*
9658153 AAACAAACGCCACTAAAAACCATAACATTAGCGGCG
1 AAACAAACGCCACT-AAAACCCTAA-ATTAGCGGCG
9658189 TTTGTTTAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
40 9 0.15
41 43 0.72
42 8 0.13
ACGTcount: A:0.43, C:0.27, G:0.14, T:0.15
Consensus pattern (40 bp):
AAACAAACGCCACTAAAACCCTAAATTAGCGGCGCATTAG
Found at i:9658333 original size:40 final size:40
Alignment explanation
Indices: 9658251--9658334 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
9658241 GGGTTTGGAG
* * * * * *
9658251 TTTTTGTGGCGTTTTATCATAAGCGCCGCTAAAGGCCTAT
1 TTTTTGTGGCGCTTTATAACAAACGCCGCTAAAGCCCGAT
**
9658291 TTTTTGTGGCGCTTTATAACAAACGCCGCTAATTCCCGAT
1 TTTTTGTGGCGCTTTATAACAAACGCCGCTAAAGCCCGAT
9658331 TTTT
1 TTTT
9658335 ACTGGCGTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (40 bp):
TTTTTGTGGCGCTTTATAACAAACGCCGCTAAAGCCCGAT
Found at i:9662246 original size:14 final size:14
Alignment explanation
Indices: 9662219--9662262 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
9662209 CATATTAGGG
*
9662219 AATA-AAATATATA
1 AATATAAATAAATA
9662232 AATATAAATAAATA
1 AATATAAATAAATA
9662246 AATATATAA-AAATA
1 AATATA-AATAAATA
9662260 AAT
1 AAT
9662263 TGAATAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 4 0.14
14 22 0.79
15 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATATAAATAAATA
Found at i:9663690 original size:11 final size:11
Alignment explanation
Indices: 9663676--9663713 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9663666 TCAAATTTAT
9663676 TCTCAATTTCC
1 TCTCAATTTCC
*
9663687 TCTCAATTTGC
1 TCTCAATTTCC
*
9663698 TCTCAAATTCC
1 TCTCAATTTCC
9663709 T-TCAA
1 TCTCAA
9663714 AATTTCTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.24, C:0.32, G:0.03, T:0.42
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:9663727 original size:11 final size:12
Alignment explanation
Indices: 9663663--9663727 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 12
9663653 AGCTAATCCT
9663663 CTCTCAAATTTA
1 CTCTCAAATTTA
* *
9663675 TTCTC-AATTTC
1 CTCTCAAATTTA
*
9663686 CTCTC-AATTTG
1 CTCTCAAATTTA
*
9663697 CTCTCAAA-TTC
1 CTCTCAAATTTA
9663708 CT-TCAAAATTT-
1 CTCTC-AAATTTA
9663719 CTCTCAAAT
1 CTCTCAAAT
9663728 CCATATTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
10 2 0.05
11 32 0.73
12 10 0.23
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTA
Found at i:9663829 original size:17 final size:18
Alignment explanation
Indices: 9663795--9663829 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9663785 TTTTAAATGA
*
9663795 TTTTAAAAAAATTATTAT
1 TTTTAAAAAAAATATTAT
9663813 TTTTAAAAAAAAT-TTAT
1 TTTTAAAAAAAATATTAT
9663830 ACCGTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTAAAAAAAATATTAT
Found at i:9666060 original size:5 final size:5
Alignment explanation
Indices: 9666050--9666077 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9666040 TAATTGCATT
9666050 CATAA CATAA CATAA CATAA CATAA CAT
1 CATAA CATAA CATAA CATAA CATAA CAT
9666078 TTTCATGCTA
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:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (5 bp):
CATAA
Found at i:9674776 original size:25 final size:25
Alignment explanation
Indices: 9674728--9674792 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 25
9674718 ATAAAAAATA
*
9674728 ACCAAAATGTTATAATTTTTTTTATTT
1 ACCAAAAT-ATAT-ATTTTTTTTATTT
*
9674755 ATCAAAATATATATTTTTTTTATTT
1 ACCAAAATATATATTTTTTTTATTT
9674780 ACCAAAATATATA
1 ACCAAAATATATA
9674793 AAAGAAACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 25 0.71
26 3 0.09
27 7 0.20
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (25 bp):
ACCAAAATATATATTTTTTTTATTT
Found at i:9674954 original size:4 final size:4
Alignment explanation
Indices: 9674945--9675039 Score: 70
Period size: 4 Copynumber: 23.0 Consensus size: 4
9674935 GAAGGAGAGG
* * *
9674945 GAAA GAAA GAAA GAAA GAAA GGAAG GAGAG GAAA GAAA G-AA -AAA GAAG
1 GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA GAAA
* *
9674993 GAAA GAAAA GGAAA GGAGAA GAAA -AAG GAAA GAAA GAAG GAAA GAAA
1 GAAA G-AAA -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
9675040 AGGAAAGGAG
Statistics
Matches: 75, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
3 6 0.08
4 48 0.64
5 18 0.24
6 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:9674970 original size:31 final size:30
Alignment explanation
Indices: 9674935--9675033 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 30
9674925 CAGAAGGACT
9674935 GAAGGAGAGGGAAAGAAAGAAAGAAAGAAAG
1 GAAGGAGA-GGAAAGAAAGAAAGAAAGAAAG
*
9674966 GAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAG
1 GAAGGAGAGGAAAGAAAG--AAAGAAAGAAAG
* * *
9674998 AAAAGGAAAGGAGAAGAAA-AAGGAAAGAAA-
1 -GAAGGAGAGGA-AAGAAAGAAAGAAAGAAAG
9675028 GAAGGA
1 GAAGGA
9675034 AAGAAAAGGA
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
29 5 0.09
30 10 0.17
31 17 0.29
32 11 0.19
33 9 0.16
34 6 0.10
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (30 bp):
GAAGGAGAGGAAAGAAAGAAAGAAAGAAAG
Found at i:9675007 original size:5 final size:5
Alignment explanation
Indices: 9674944--9675048 Score: 68
Period size: 5 Copynumber: 22.6 Consensus size: 5
9674934 TGAAGGAGAG
* *
9674944 GGAAA -GAAA -GAAA -GAAA -GAAA GG-AA GGAGA GGAAA -GAAA GAAAA
1 GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA
* * *
9674988 AG-AA GGAAA GAAAA GGAAA GGAGAA GAAAAA GGAAA -GAAA -G-AA GGAAA
1 GGAAA GGAAA GGAAA GGAAA GGA-AA G-GAAA GGAAA GGAAA GGAAA GGAAA
*
9675036 GAAAA GGAAA GGA
1 GGAAA GGAAA GGA
9675049 GAAGAGAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
3 2 0.03
4 33 0.41
5 38 0.47
6 6 0.08
7 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (5 bp):
GGAAA
Found at i:9675032 original size:39 final size:39
Alignment explanation
Indices: 9674944--9675058 Score: 157
Period size: 39 Copynumber: 3.0 Consensus size: 39
9674934 TGAAGGAGAG
* *
9674944 GGAAAGAAAGAAAGAAAG-AAAGG-AAGGAGAGGAAAGAA
1 GGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAA-AA
*
9674982 AG-AA-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAA
1 GGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAA
9675019 GGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA
1 GGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGA-AAAA
9675059 AAAAAGAAGA
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
36 11 0.16
37 10 0.15
38 14 0.21
39 29 0.43
40 4 0.06
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (39 bp):
GGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAA
Found at i:9675045 original size:18 final size:18
Alignment explanation
Indices: 9674949--9675046 Score: 76
Period size: 18 Copynumber: 5.3 Consensus size: 18
9674939 GAGAGGGAAA
*
9674949 GAAAGAAAGAAAG-AAAG
1 GAAAGAAGGAAAGAAAAG
*
9674966 GAAGGAGAGGAAAG-AAAG
1 GAAAGA-AGGAAAGAAAAG
*
9674984 AAAAAGAAGGAAAGAAAAG
1 -GAAAGAAGGAAAGAAAAG
* *
9675003 GAAAGGAGAAGAAA-AAGGAAA
1 GAAA-GA-AGGAAAGAA--AAG
9675024 GAAAGAAGGAAAGAAAAG
1 GAAAGAAGGAAAGAAAAG
9675042 GAAAG
1 GAAAG
9675047 GAGAAGAGAA
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
17 5 0.08
18 27 0.42
19 17 0.27
20 9 0.14
21 6 0.09
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (18 bp):
GAAAGAAGGAAAGAAAAG
Found at i:9675056 original size:18 final size:18
Alignment explanation
Indices: 9674986--9675072 Score: 79
Period size: 18 Copynumber: 4.7 Consensus size: 18
9674976 AAAGAAAGAA
9674986 AAAGAAGGAA-AGAAAAGG
1 AAAGAA-GAAGAGAAAAGG
*
9675004 AAAGGAGAAGA-AAAAGG
1 AAAGAAGAAGAGAAAAGG
9675021 AAAGAAAGAAGGAAAGAAAAGG
1 AAAG-AAGAA-G--AGAAAAGG
* **
9675043 AAAGGAGAAGAGAAAAAA
1 AAAGAAGAAGAGAAAAGG
9675061 AAAGAAGAAGAG
1 AAAGAAGAAGAG
9675073 GGAAGGAAGG
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
17 13 0.23
18 27 0.47
19 1 0.02
20 1 0.02
21 5 0.09
22 10 0.18
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
AAAGAAGAAGAGAAAAGG
Found at i:9675079 original size:31 final size:28
Alignment explanation
Indices: 9675034--9675101 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 28
9675024 GAAAGAAGGA
9675034 AAGAAAAGGAAAGGAGAAGAGAAAAAAAAAG
1 AAGAAAAGGAAA-G-GAAG-GAAAAAAAAAG
* *
9675065 AAGAAGAGGGAAGGAAGGAAAAAAAAAG
1 AAGAAAAGGAAAGGAAGGAAAAAAAAAG
*
9675093 AAAAAAAGG
1 AAGAAAAGG
9675102 TAATTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 18 0.55
29 4 0.12
30 1 0.03
31 10 0.30
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (28 bp):
AAGAAAAGGAAAGGAAGGAAAAAAAAAG
Found at i:9675079 original size:75 final size:71
Alignment explanation
Indices: 9674944--9675100 Score: 174
Period size: 75 Copynumber: 2.1 Consensus size: 71
9674934 TGAAGGAGAG
*
9674944 GGAAAGAAAGAAAGAAAGAAAGGAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
1 GGAAAGAAAGAAAGAAAGAAAGGAAGGAGA-GAAAGAAAAAAAAAGAAGGAAAGAAAAGG-AAGG
9675009 AGAAGAAAAA
64 A-AA-AAAAA
* * **
9675019 GGAAAGAAAGAAGGAAAGAAAAGGAAAGGAGA-AGAGAAAAAAAAAGAA-GAAGAGGGAAGGAAG
1 GGAAAGAAAGAAAGAAAG-AAAGG-AAGGAGAGAAAGAAAAAAAAAGAAGGAA-AGAAAAGGAAG
9675082 GAAAAAAAA
63 GAAAAAAAA
* *
9675091 AGAAAAAAAG
1 GGAAAGAAAG
9675101 GTAATTTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
72 13 0.18
73 2 0.03
74 8 0.11
75 37 0.51
76 5 0.07
77 7 0.10
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (71 bp):
GGAAAGAAAGAAAGAAAGAAAGGAAGGAGAGAAAGAAAAAAAAAGAAGGAAAGAAAAGGAAGGAA
AAAAAA
Found at i:9676052 original size:16 final size:15
Alignment explanation
Indices: 9676027--9676056 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9676017 GTACTGAAAT
9676027 AATATAAAATAATAA
1 AATATAAAATAATAA
9676042 AATATTAAAATAATA
1 AATA-TAAAATAATA
9676057 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:9678024 original size:9 final size:9
Alignment explanation
Indices: 9678010--9678055 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
9678000 TTTGGTTAAA
9678010 AATTACCCG
1 AATTACCCG
9678019 AATTACCCG
1 AATTACCCG
*
9678028 -ATTAACCG
1 AATTACCCG
*
9678036 AATTAACCG
1 AATTACCCG
9678045 AATTACCCG
1 AATTACCCG
9678054 AA
1 AA
9678056 AATTACCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
8 7 0.21
9 27 0.79
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:9678036 original size:17 final size:18
Alignment explanation
Indices: 9678010--9678055 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
9678000 TTTGGTTAAA
*
9678010 AATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
*
9678028 -ATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
9678045 AATTACCCGAA
1 AATTACCCGAA
9678056 AATTACCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:9678787 original size:3 final size:3
Alignment explanation
Indices: 9678779--9678804 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9678769 TCTTAATACT
9678779 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
9678805 NNNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:9679153 original size:14 final size:14
Alignment explanation
Indices: 9679134--9679167 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
9679124 TCGGTGCAGA
9679134 TTTTTTTGCAGGTT
1 TTTTTTTGCAGGTT
*
9679148 TTTTTTTGTAGGTT
1 TTTTTTTGCAGGTT
9679162 TTTTTT
1 TTTTTT
9679168 ATATATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.03, G:0.18, T:0.74
Consensus pattern (14 bp):
TTTTTTTGCAGGTT
Found at i:9679478 original size:14 final size:14
Alignment explanation
Indices: 9679459--9679494 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
9679449 ACGAGGCAAC
9679459 AAAGCGCGTCCACG
1 AAAGCGCGTCCACG
9679473 AAAGCGCGTCCACG
1 AAAGCGCGTCCACG
9679487 AAAGCGCG
1 AAAGCGCG
9679495 ATTTGTGCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.33, G:0.31, T:0.06
Consensus pattern (14 bp):
AAAGCGCGTCCACG
Found at i:9679704 original size:11 final size:11
Alignment explanation
Indices: 9679688--9679739 Score: 77
Period size: 11 Copynumber: 4.7 Consensus size: 11
9679678 TCCTCTATCA
9679688 AATTTCCTCTC
1 AATTTCCTCTC
*
9679699 AATTTCCTCTA
1 AATTTCCTCTC
9679710 AATTTCCTCTC
1 AATTTCCTCTC
*
9679721 AATTTGCTCTC
1 AATTTCCTCTC
*
9679732 AAATTCCT
1 AATTTCCT
9679740 TCCAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (11 bp):
AATTTCCTCTC
Found at i:9679739 original size:22 final size:23
Alignment explanation
Indices: 9679685--9679736 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
9679675 TAATCCTCTA
9679685 TCAAATTTCCTCTCAATTTCCTC
1 TCAAATTTCCTCTCAATTTCCTC
*
9679708 T-AAATTTCCTCTCAATTTGCTC
1 TCAAATTTCCTCTCAATTTCCTC
9679730 TCAAATT
1 TCAAATT
9679737 CCTTCCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.44
Consensus pattern (23 bp):
TCAAATTTCCTCTCAATTTCCTC
Found at i:9679775 original size:51 final size:51
Alignment explanation
Indices: 9679717--9679816 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
9679707 CTAAATTTCC
9679717 TCTCAATTTGCTCTCAAATTCCT-TCCAAATTTCT-TTGAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTT-AAATCCATATTTAA
* * *
9679768 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTTAAATCCATATTT
9679817 TTAAATTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 41 0.93
52 3 0.07
ACGTcount: A:0.26, C:0.25, G:0.03, T:0.46
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTTAAATCCATATTTAA
Found at i:9680965 original size:7 final size:7
Alignment explanation
Indices: 9680953--9680978 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9680943 TAGTCGGTTG
9680953 GTATTTA
1 GTATTTA
9680960 GTATTTA
1 GTATTTA
9680967 GTATTTA
1 GTATTTA
9680974 GTATT
1 GTATT
9680979 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:9681949 original size:21 final size:21
Alignment explanation
Indices: 9681925--9681972 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9681915 GATGCCCAAT
*
9681925 CGGAAGAACCAGAATCC-CCGC
1 CGGAAGAACCACAA-CCGCCGC
*
9681946 CGGAGGAACCACAACCGCCGC
1 CGGAAGAACCACAACCGCCGC
9681967 CGGAAG
1 CGGAAG
9681973 CTGGACAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.31, C:0.38, G:0.29, T:0.02
Consensus pattern (21 bp):
CGGAAGAACCACAACCGCCGC
Found at i:9682286 original size:28 final size:25
Alignment explanation
Indices: 9682237--9682325 Score: 84
Period size: 22 Copynumber: 3.7 Consensus size: 25
9682227 TTGCCTGTAT
*
9682237 CTTAACTTAAAAAACCCT-AACCCTAA
1 CTTAACTT-TAAAACCCTAAACCCT-A
9682263 CCCTTAACTTTAAAACCCTAAA-CC-A
1 --CTTAACTTTAAAACCCTAAACCCTA
9682288 -TTAACTTTAAAACCCTAAA-CC--
1 CTTAACTTTAAAACCCTAAACCCTA
9682309 CTTAACTTTAAAACCCT
1 CTTAACTTTAAAACCCT
9682326 TAACTTTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
22 37 0.64
25 1 0.02
27 10 0.17
28 10 0.17
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (25 bp):
CTTAACTTTAAAACCCTAAACCCTA
Found at i:9682291 original size:22 final size:21
Alignment explanation
Indices: 9682255--9682407 Score: 192
Period size: 22 Copynumber: 7.4 Consensus size: 21
9682245 AAAAAACCCT
9682255 AACCCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTTAA
*
9682276 AACCCTAAACCATTAACTTTAA
1 AACCCT-AACCCTTAACTTTAA
9682298 AACCCTAAACCCTTAACTTT--
1 AACCCT-AACCCTTAACTTTAA
9682318 AA----AACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTTAA
*
9682335 AACCCTAGACCCTTAACTTAAA
1 AACCCTA-ACCCTTAACTTTAA
*
9682357 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTTAA
*
9682378 AACCCCTAACCCTTAACTTTTA
1 AA-CCCTAACCCTTAACTTTAA
9682400 AACCCTAA
1 AACCCTAA
9682408 AGTAGCAAAA
Statistics
Matches: 118, Mismatches: 5, Indels: 18
0.84 0.04 0.13
Matches are distributed among these distances:
15 13 0.11
17 2 0.02
20 2 0.02
21 29 0.25
22 72 0.61
ACGTcount: A:0.41, C:0.32, G:0.01, T:0.27
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTTAA
Found at i:9682324 original size:15 final size:15
Alignment explanation
Indices: 9682304--9682340 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
9682294 TTAAAACCCT
9682304 AAACCCTTAACTTTA
1 AAACCCTTAACTTTA
9682319 AAACCCTTAACTTTA
1 AAACCCTTAACTTTA
9682334 AAACCCT
1 AAACCCT
9682341 AGACCCTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (15 bp):
AAACCCTTAACTTTA
Found at i:9682337 original size:59 final size:58
Alignment explanation
Indices: 9682261--9682387 Score: 200
Period size: 59 Copynumber: 2.2 Consensus size: 58
9682251 CCCTAACCCT
* *
9682261 AACCCTTAACTTTAAAACCCTAAACCATTAACTTTAAAACCCTAAACCCTTAACTTTAA
1 AACCCTTAACTTTAAAACCCTAAACCATTAACTTAAAAACCCT-AACCCTTAACTTAAA
* *
9682320 AACCCTTAACTTTAAAACCCTAGACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTTAACTTTAAAACCCTAAACCATTAACTTAAAAACCCTAACCCTTAACTTAAA
*
9682378 AACCCCTAAC
1 AACCCTTAAC
9682388 CCTTAACTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
58 23 0.37
59 40 0.63
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.26
Consensus pattern (58 bp):
AACCCTTAACTTTAAAACCCTAAACCATTAACTTAAAAACCCTAACCCTTAACTTAAA
Found at i:9682361 original size:37 final size:37
Alignment explanation
Indices: 9682282--9682362 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
9682272 TTAAAACCCT
* *
9682282 AAACCATTAACTTTAAAACCCTAAACCCTTAACTTTA
1 AAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
*
9682319 AAACCCTTAACTTTAAAACCCTAGACCCTTAACTTAA
1 AAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
9682356 AAACCCT
1 AAACCCT
9682363 AACCCTTAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.42, C:0.30, G:0.01, T:0.27
Consensus pattern (37 bp):
AAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
Found at i:9682369 original size:43 final size:42
Alignment explanation
Indices: 9682255--9682407 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 42
9682245 AAAAAACCCT
*
9682255 AACCCTAACCCTTAACTTTAAAACCCTAAACCATTAACTTTAA
1 AACCCTAACCCTTAACTTTAAAACCCT-AACCCTTAACTTTAA
9682298 AACCCTAAACCCTTAACTTT--AA----AACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTTAAAACCCTAACCCTTAACTTTAA
* *
9682335 AACCCTAGACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTA-ACCCTTAACTTTAAAACCCTAACCCTTAACTTTAA
*
9682378 AACCCCTAACCCTTAACTTTTAAACCCTAA
1 AA-CCCTAACCCTTAACTTTAAAACCCTAA
9682408 AGTAGCAAAA
Statistics
Matches: 96, Mismatches: 5, Indels: 18
0.81 0.04 0.15
Matches are distributed among these distances:
36 1 0.01
37 31 0.32
39 2 0.02
42 2 0.02
43 42 0.44
44 18 0.19
ACGTcount: A:0.41, C:0.32, G:0.01, T:0.27
Consensus pattern (42 bp):
AACCCTAACCCTTAACTTTAAAACCCTAACCCTTAACTTTAA
Found at i:9682404 original size:37 final size:36
Alignment explanation
Indices: 9682282--9682405 Score: 131
Period size: 37 Copynumber: 3.2 Consensus size: 36
9682272 TTAAAACCCT
*
9682282 AAACCATTAACTTTAAAACCCTAAACCCTTAACTTTA
1 AAACCCTTAACTTTAAAACCCT-AACCCTTAACTTTA
*
9682319 AAACCCTTAACTTTAAAACCCTAGACCCTTAACTTAAAA
1 AAACCCTTAACTTTAAAACCCTA-ACCCTTAACTT--TA
* *
9682358 ACCCTAACCCTTAACTTAAAAACCCCTAACCCTTAACTTTT
1 A----AACCCTTAACTTTAAAA-CCCTAACCCTTAACTTTA
9682399 AAACCCT
1 AAACCCT
9682406 AAAGTAGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
36 1 0.01
37 38 0.51
39 2 0.03
41 1 0.01
43 27 0.36
44 5 0.07
ACGTcount: A:0.40, C:0.31, G:0.01, T:0.27
Consensus pattern (36 bp):
AAACCCTTAACTTTAAAACCCTAACCCTTAACTTTA
Found at i:9682647 original size:126 final size:126
Alignment explanation
Indices: 9682421--9682821 Score: 568
Period size: 126 Copynumber: 3.1 Consensus size: 126
9682411 AGCAAAAGTG
9682421 CGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAACGTTTTTTTAAAACTATTTGCTCAG
1 CGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAACGTTTTTTT-AAACTATTTGCTCAG
9682486 AAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGCA
65 AAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGCA
* *
9682548 CGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCTCAGA
1 CGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAACGTTTTTTTAAACTATTTGCTCAGA
9682613 AACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGCA
66 AACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGCA
******** *
9682674 CGATTTCACAAATTCTTCTCAAATAGCATCCTGCTNNNNNNNNNNNNNNNNNTTTTTTATACTAT
1 CGATTTCACAAATTCTTCTCAAATAGCATCCTGCT---------AGAAACGTTTTTTTAAACTAT
* *
9682739 TTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTACACGT
57 TTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGA
*
9682804 GGGCG
122 GGGCA
* *
9682809 CGACTTCAGAAAT
1 CGATTTCACAAAT
9682822 CCTTTTGATA
Statistics
Matches: 249, Mismatches: 16, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
126 112 0.45
127 47 0.19
135 90 0.36
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.29
Consensus pattern (126 bp):
CGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAACGTTTTTTTAAACTATTTGCTCAGA
AACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGCA
Found at i:9683005 original size:22 final size:22
Alignment explanation
Indices: 9682961--9683006 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
9682951 TTTTTCTCTA
** *
9682961 AAACCCTAAAATATTAAACCCT
1 AAACCCTAAAATACAAAAACCT
*
9682983 AAACCCTAAAATCCAAAAACCT
1 AAACCCTAAAATACAAAAACCT
9683005 AA
1 AA
9683007 CATGGGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.17
Consensus pattern (22 bp):
AAACCCTAAAATACAAAAACCT
Found at i:9689667 original size:16 final size:17
Alignment explanation
Indices: 9689634--9689668 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9689624 AGTAAAAATT
9689634 AAAGCATGAAACAACAA
1 AAAGCATGAAACAACAA
9689651 AAAGCATGAAA-AACAA
1 AAAGCATGAAACAACAA
9689667 AA
1 AA
9689669 GAGAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.69, C:0.14, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAGCATGAAACAACAA
Found at i:9693705 original size:78 final size:78
Alignment explanation
Indices: 9693461--9693786 Score: 384
Period size: 78 Copynumber: 4.2 Consensus size: 78
9693451 CAGAATTGAG
* * * * * **
9693461 GAAATCGAACAAATCCTGTTGAACGACAGGAATAAAAATCCTAAAATAGGAGTGTTCAATAGAGA
1 GAAATCAAACAAATCCTGTTAAACAACAGGAAT-AAAATCCTAAAACAGGAGTGTTCAATTGATT
*
9693526 TTCTATTTGAAACA
65 TTCTGTTTGAAACA
* * * * *
9693540 AAAATCAAACAAATCTTGTTAAACAACAGGAAAAAAAATCCTAAAATAGGAGTGTTCAATTAATT
1 GAAATCAAACAAATCCTGTTAAACAACAGG-AATAAAATCCTAAAACAGGAGTGTTCAATTGATT
9693605 CTT-TGTTTGAAACA
65 -TTCTGTTTGAAACA
* **** *
9693619 GAAGTCAAACAAATCCTGTTAAACAACAGGAATGGCGTCCTGAAACAGGAGTGTTCAATTGATTT
1 GAAATCAAACAAATCCTGTTAAACAACAGGAATAAAATCCTAAAACAGGAGTGTTCAATTGATTT
*
9693684 TCTGTTTGAAATA
66 TCTGTTTGAAACA
* * * * * *
9693697 GAAATCAAACAAATCCTGTTAAACGACAGGAGTAAAATCTTGAAACAGGAATGTTTAATTGATTT
1 GAAATCAAACAAATCCTGTTAAACAACAGGAATAAAATCCTAAAACAGGAGTGTTCAATTGATTT
9693762 TCTGTTTGAAACA
66 TCTGTTTGAAACA
9693775 GAAATCAAACAA
1 GAAATCAAACAA
9693787 TCTCTCGTTG
Statistics
Matches: 210, Mismatches: 34, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
77 2 0.01
78 115 0.55
79 89 0.42
80 4 0.02
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (78 bp):
GAAATCAAACAAATCCTGTTAAACAACAGGAATAAAATCCTAAAACAGGAGTGTTCAATTGATTT
TCTGTTTGAAACA
Found at i:9695133 original size:25 final size:25
Alignment explanation
Indices: 9695105--9695223 Score: 193
Period size: 25 Copynumber: 4.8 Consensus size: 25
9695095 TTCTCTCATC
*
9695105 GCTGGTTCTTTGTTCCTCTGCTGGT
1 GCTGGTTCTTTGTTCCTCTACTGGT
* * *
9695130 GCTGGTTATTTGTTCCTCTGCTAGT
1 GCTGGTTCTTTGTTCCTCTACTGGT
*
9695155 GCTGGTTATTTGTTCCTCTACTGGT
1 GCTGGTTCTTTGTTCCTCTACTGGT
9695180 GCTGGTTCTTTGTTCCTCTACTGGT
1 GCTGGTTCTTTGTTCCTCTACTGGT
9695205 GCTGGTTCTTTGTTCCTCT
1 GCTGGTTCTTTGTTCCTCT
9695224 TCTCCATTGA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 89 1.00
ACGTcount: A:0.04, C:0.23, G:0.24, T:0.49
Consensus pattern (25 bp):
GCTGGTTCTTTGTTCCTCTACTGGT
Found at i:9696832 original size:17 final size:17
Alignment explanation
Indices: 9696810--9696845 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9696800 GGTGGAAGAT
9696810 ATTTAACCAGATTCCAC
1 ATTTAACCAGATTCCAC
* *
9696827 ATTTAACCATATTTCAC
1 ATTTAACCAGATTCCAC
9696844 AT
1 AT
9696846 GGATCAATCT
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:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (17 bp):
ATTTAACCAGATTCCAC
Found at i:9697704 original size:18 final size:18
Alignment explanation
Indices: 9697681--9697728 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
9697671 AAAATATGAG
*
9697681 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
9697699 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
9697717 AAATGATGTTCA
1 AAATGATGTTCA
9697729 AATTGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:9712723 original size:19 final size:19
Alignment explanation
Indices: 9712695--9712733 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9712685 TAATATTTAG
*
9712695 TTTAAATATTAAATGTGTC
1 TTTAAATATTAAATATGTC
* *
9712714 TTTAATTATTTAATATGTC
1 TTTAAATATTAAATATGTC
9712733 T
1 T
9712734 AAGTATTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTAAATATTAAATATGTC
Found at i:9713322 original size:21 final size:21
Alignment explanation
Indices: 9713298--9713341 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
9713288 AAGGTCTTGT
9713298 AGTTT-TTAATTAGCTCAATTA
1 AGTTTATTAA-TAGCTCAATTA
9713319 AGTTTATTAATAGCTCAATTA
1 AGTTTATTAATAGCTCAATTA
9713340 AG
1 AG
9713342 CTGAGTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (21 bp):
AGTTTATTAATAGCTCAATTA
Found at i:9716020 original size:75 final size:76
Alignment explanation
Indices: 9715929--9716079 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 76
9715919 ACTTAAAGCA
9715929 GATTTAAAATTTTCTCCTTTTTTTTTTAGTTTATTTTATAAATAATAAATTTTATTATACATCTG
1 GATTTAAAATTTTCTCCTTTTTTTTTTAGTTTATTTTATAAATAATAAATTTTATTATACATCTG
9715994 ACATTGCTCCT
66 ACATTGCTCCT
9716005 GATTTAAAA-TTTCTCCTTTTTTTTTTAGTTTATTTTATAAATAATAAATTTTATTATACATCTG
1 GATTTAAAATTTTCTCCTTTTTTTTTTAGTTTATTTTATAAATAATAAATTTTATTATACATCTG
9716069 ACATTGCTCCT
66 ACATTGCTCCT
9716080 TAGTCCTCGT
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 66 0.88
76 9 0.12
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.54
Consensus pattern (76 bp):
GATTTAAAATTTTCTCCTTTTTTTTTTAGTTTATTTTATAAATAATAAATTTTATTATACATCTG
ACATTGCTCCT
Found at i:9716511 original size:19 final size:20
Alignment explanation
Indices: 9716473--9716516 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
9716463 CCTTAATTTG
9716473 TTTTATTTATAAGATTATTA
1 TTTTATTTATAAGATTATTA
*
9716493 TTTTATTTATAA-TTTATTA
1 TTTTATTTATAAGATTATTA
9716512 TTTTA
1 TTTTA
9716517 ATAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTATTTATAAGATTATTA
Found at i:9718513 original size:41 final size:41
Alignment explanation
Indices: 9718449--9718526 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
9718439 TTAAAATTTT
*
9718449 ATACATACATATATTTTTCATATTTCTATAATTCTATGTAG
1 ATACATACATATATTCTTCATATTTCTATAATTCTATGTAG
* * *
9718490 ATACATATATATATCTCTT-ATATTTTTATAGTTCTAT
1 ATACATACATATAT-TCTTCATATTTCTATAATTCTAT
9718527 TCATTTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 29 0.91
42 3 0.09
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (41 bp):
ATACATACATATATTCTTCATATTTCTATAATTCTATGTAG
Found at i:9733322 original size:41 final size:41
Alignment explanation
Indices: 9733258--9733335 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
9733248 TTAAAATTTT
*
9733258 ATACATACATATATTTTTCATATTTCTATAATTCTATGTAG
1 ATACATACATATATTCTTCATATTTCTATAATTCTATGTAG
* * *
9733299 ATACATATATATATCTCTT-ATATTTTTATAGTTCTAT
1 ATACATACATATAT-TCTTCATATTTCTATAATTCTAT
9733336 TCATTTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 29 0.91
42 3 0.09
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (41 bp):
ATACATACATATATTCTTCATATTTCTATAATTCTATGTAG
Found at i:9733724 original size:110 final size:110
Alignment explanation
Indices: 9733531--9733977 Score: 876
Period size: 110 Copynumber: 4.1 Consensus size: 110
9733521 TACGCATACT
* *
9733531 AATTTCGAAATAAGGCAATGTTTTGCGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
1 AATTTCAAAATAAGGCAATGTTTTACGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
9733596 TTCGATTTTTCTTGTTCAACCAAATAGCCAAATATCCTTTTAAAA
66 TTCGATTTTTCTTGTTCAACCAAATAGCCAAATATCCTTTTAAAA
9733641 AATTTCAAAATAAGGCAATGTTTTACGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
1 AATTTCAAAATAAGGCAATGTTTTACGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
9733706 TTCGATTTTTCTTGTTCAACCAAATAGCCAAATATCCTTTTAAAA
66 TTCGATTTTTCTTGTTCAACCAAATAGCCAAATATCCTTTTAAAA
9733751 AATTTCAAAATAAGGCAATGTTTTACGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
1 AATTTCAAAATAAGGCAATGTTTTACGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
9733816 TTCGATTTTTCTTGTTCAACCAAATAGCCAAATATCCTTTTAAAA
66 TTCGATTTTTCTTGTTCAACCAAATAGCCAAATATCCTTTTAAAA
9733861 AATTTCAAAATAAGGCAATGTTTTACGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
1 AATTTCAAAATAAGGCAATGTTTTACGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
9733926 TTCGATTTTTCTTGTTCAACCAAATAGCCAAATATCCTTTTAAAA
66 TTCGATTTTTCTTGTTCAACCAAATAGCCAAATATCCTTTTAAAA
9733971 AATTTCA
1 AATTTCA
9733978 GAGGGTGCTA
Statistics
Matches: 335, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 335 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (110 bp):
AATTTCAAAATAAGGCAATGTTTTACGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
TTCGATTTTTCTTGTTCAACCAAATAGCCAAATATCCTTTTAAAA
Found at i:9734086 original size:22 final size:22
Alignment explanation
Indices: 9734043--9734087 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9734033 TCGTGGACCA
* *
9734043 AAATTGTTGTTTTAATAAAATC
1 AAATTGTTGTATTAAAAAAATC
9734065 AAATTGTT-TATTAAAAATAATC
1 AAATTGTTGTATTAAAAA-AATC
9734087 A
1 A
9734088 CTTTTCGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (22 bp):
AAATTGTTGTATTAAAAAAATC
Found at i:9742715 original size:14 final size:15
Alignment explanation
Indices: 9742691--9742720 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9742681 CACCGCCACA
9742691 TCAACAAAATAAAAT
1 TCAACAAAATAAAAT
9742706 TCAA-AAAATAAAAT
1 TCAACAAAATAAAAT
9742720 T
1 T
9742721 TATTAATTTT
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:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
TCAACAAAATAAAAT
Found at i:9742871 original size:17 final size:16
Alignment explanation
Indices: 9742846--9742890 Score: 72
Period size: 17 Copynumber: 2.8 Consensus size: 16
9742836 TTTTAAAATT
9742846 ATAAAAAAAATTAGAA
1 ATAAAAAAAATTAGAA
*
9742862 ATATAAAAAAATGAGAA
1 ATA-AAAAAAATTAGAA
9742879 ATAAAAAAAATT
1 ATAAAAAAAATT
9742891 CAAAAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (16 bp):
ATAAAAAAAATTAGAA
Found at i:9747132 original size:16 final size:16
Alignment explanation
Indices: 9747111--9747143 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9747101 CATTTGGAGT
*
9747111 AGTTAGTTTGTTTAGA
1 AGTTAGTCTGTTTAGA
9747127 AGTTAGTCTGTTTAGA
1 AGTTAGTCTGTTTAGA
9747143 A
1 A
9747144 TTTGTTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.45
Consensus pattern (16 bp):
AGTTAGTCTGTTTAGA
Found at i:9750055 original size:19 final size:20
Alignment explanation
Indices: 9750005--9750056 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
9749995 AAAATGATAA
9750005 AATCAAGTT-AAAATGGTTTC
1 AATCAAGTTAAAAAT-GTTTC
** *
9750025 AATTGAGGTAAAAAT-TTTC
1 AATCAAGTTAAAAATGTTTC
9750044 AATCAAGTTAAAA
1 AATCAAGTTAAAA
9750057 CTATTTTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
19 14 0.56
20 6 0.24
21 5 0.20
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (20 bp):
AATCAAGTTAAAAATGTTTC
Found at i:9750150 original size:21 final size:20
Alignment explanation
Indices: 9750100--9750155 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
9750090 AAAAAGTATC
*
9750100 AAGTATCGATA-GTTTTCAA
1 AAGTATCGATACCTTTTCAA
*
9750119 AA-TATCAATACCTTTTCAAA
1 AAGTATCGATACCTTTTC-AA
9750139 AAGTATCGATACCTTTT
1 AAGTATCGATACCTTTT
9750156 ACCAAGTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 7 0.23
19 7 0.23
20 4 0.13
21 13 0.42
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (20 bp):
AAGTATCGATACCTTTTCAA
Found at i:9750164 original size:20 final size:20
Alignment explanation
Indices: 9750100--9750169 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
9750090 AAAAAGTATC
*
9750100 AAGTATCGATA-GTTTT-CA
1 AAGTATCGATACCTTTTACA
* * *
9750118 AAATATCAATACCTTTTCAAA
1 AAGTATCGATACCTTTT-ACA
*
9750139 AAGTATCGATACCTTTTACC
1 AAGTATCGATACCTTTTACA
*
9750159 AAGTATTGATA
1 AAGTATCGATA
9750170 AATTGTCTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 9 0.22
19 4 0.10
20 11 0.28
21 16 0.40
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (20 bp):
AAGTATCGATACCTTTTACA
Found at i:9757431 original size:14 final size:14
Alignment explanation
Indices: 9757412--9757438 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9757402 GAGTATTTAT
9757412 TTTATGGAAAATAA
1 TTTATGGAAAATAA
9757426 TTTATGGAAAATA
1 TTTATGGAAAATA
9757439 TTCTTTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (14 bp):
TTTATGGAAAATAA
Found at i:9762601 original size:21 final size:21
Alignment explanation
Indices: 9762575--9762614 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9762565 AAAAGATATA
*
9762575 TTTGATTTGATGAGTGCAGTC
1 TTTGATTTGATGAATGCAGTC
*
9762596 TTTGATTTTATGAATGCAG
1 TTTGATTTGATGAATGCAG
9762615 CTAATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (21 bp):
TTTGATTTGATGAATGCAGTC
Found at i:9765694 original size:5 final size:5
Alignment explanation
Indices: 9765686--9765711 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9765676 GAGATGGAAT
9765686 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
9765712 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:9765711 original size:26 final size:26
Alignment explanation
Indices: 9765660--9765711 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
9765650 TGAAGTTTTC
* * *
9765660 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
9765686 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
9765712 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:9766603 original size:9 final size:9
Alignment explanation
Indices: 9766586--9766616 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9766576 TCGAGTTGAT
9766586 TCGAATAAC
1 TCGAATAAC
*
9766595 TCGATTAAC
1 TCGAATAAC
9766604 TCGAATAAC
1 TCGAATAAC
9766613 TCGA
1 TCGA
9766617 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:9767413 original size:25 final size:25
Alignment explanation
Indices: 9767385--9767442 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
9767375 AATTGCATAG
* *
9767385 TTTGTTTTACATCTCAAATGTATAC
1 TTTGTTTTACATCCCAAATGTACAC
9767410 TTTGTTTTACATCCCAAATGTACAC
1 TTTGTTTTACATCCCAAATGTACAC
*
9767435 TTTTTTTT
1 TTTGTTTT
9767443 TTTCAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.52
Consensus pattern (25 bp):
TTTGTTTTACATCCCAAATGTACAC
Found at i:9772576 original size:40 final size:39
Alignment explanation
Indices: 9772521--9772596 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 39
9772511 TAGCAAAGTG
* *
9772521 AAAACGCGTCCTACAGGGCGCATTTTTATTCTCTCTCTTA
1 AAAACACGTCCTACAGGGCACATTTTTA-TCTCTCTCTTA
9772561 AAAACACGTCCTACAGGGCACATTTTTATCTCTCTC
1 AAAACACGTCCTACAGGGCACATTTTTATCTCTCTC
9772597 CAAAACCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 8 0.24
40 26 0.76
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (39 bp):
AAAACACGTCCTACAGGGCACATTTTTATCTCTCTCTTA
Found at i:9773461 original size:17 final size:17
Alignment explanation
Indices: 9773427--9773464 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
9773417 CTTATTTAGC
**
9773427 AATATTTTTATCTTAAA
1 AATATTTTTATCCCAAA
9773444 AATATTTTTATCCCAAA
1 AATATTTTTATCCCAAA
9773461 AATA
1 AATA
9773465 CTTCTTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATTTTTATCCCAAA
Found at i:9777453 original size:13 final size:13
Alignment explanation
Indices: 9777399--9777454 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
9777389 AATTTAGAAT
*
9777399 TATTTAGTGATAA
1 TATTTAGTAATAA
* *
9777412 CATTTAGTGATAA
1 TATTTAGTAATAA
*
9777425 TATTTA--AA-AT
1 TATTTAGTAATAA
9777435 TATTTAGTAATAA
1 TATTTAGTAATAA
9777448 TATTTAG
1 TATTTAG
9777455 GAAAAATCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 7 0.20
11 1 0.03
12 2 0.06
13 25 0.71
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (13 bp):
TATTTAGTAATAA
Found at i:9785502 original size:13 final size:13
Alignment explanation
Indices: 9785484--9785539 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
9785474 AATTTAGAAT
9785484 TATTTAGTGATAA
1 TATTTAGTGATAA
9785497 TATTTAGTGATAA
1 TATTTAGTGATAA
*
9785510 TATTTA--GA-AT
1 TATTTAGTGATAA
*
9785520 TATTCAGTGATAA
1 TATTTAGTGATAA
9785533 TATTTAG
1 TATTTAG
9785540 GAAAAATCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
12 2 0.06
13 26 0.72
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:9789500 original size:15 final size:14
Alignment explanation
Indices: 9789482--9789513 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
9789472 TAGGACATTG
9789482 TATGGTATGATCTGA
1 TATGGTATGATCT-A
9789497 TATGGTATGATCTA
1 TATGGTATGATCTA
9789511 TAT
1 TAT
9789514 TATACTCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (14 bp):
TATGGTATGATCTA
Found at i:9794504 original size:13 final size:12
Alignment explanation
Indices: 9794488--9794517 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
9794478 TTTCGATAAG
9794488 TTTTTTAGATTTA
1 TTTTTTAGA-TTA
9794501 TTTTTTAGATTA
1 TTTTTTAGATTA
9794513 TTTTT
1 TTTTT
9794518 CTATTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTTTAGATTA
Found at i:9795528 original size:21 final size:21
Alignment explanation
Indices: 9795503--9795542 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9795493 AAAAAGAAAG
*
9795503 CCATTTTGAACTTTAAGCTAA
1 CCATTTTCAACTTTAAGCTAA
*
9795524 CCATTTTCAACTTTGAGCT
1 CCATTTTCAACTTTAAGCT
9795543 TAGAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (21 bp):
CCATTTTCAACTTTAAGCTAA
Found at i:9798071 original size:25 final size:25
Alignment explanation
Indices: 9798043--9798240 Score: 131
Period size: 25 Copynumber: 8.0 Consensus size: 25
9798033 GCGTTATTTA
* *
9798043 GCTCTTATGAGCATCCCGTTACATG
1 GCTCTCATGAGCTTCCCGTTACATG
* * *
9798068 GCTCTCACGAGCTTCCCGATA-TTG
1 GCTCTCATGAGCTTCCCGTTACATG
* **
9798092 GCTCACATGAGCTTCCTAATTAC--G
1 GCTCTCATGAGCTTCC-CGTTACATG
* *
9798116 GCTCTTATGAGCTTCCCGTT-TATG
1 GCTCTCATGAGCTTCCCGTTACATG
* *
9798140 GCTCGT-ATGAGCTTCCTGATA-ATTG
1 GCTC-TCATGAGCTTCCCGTTACA-TG
* *
9798165 GCT-TGCAAGAGCTTCCCGTTATATG
1 GCTCT-CATGAGCTTCCCGTTACATG
* *
9798190 GCTCACATGAGCTTCTCGTTACATG
1 GCTCTCATGAGCTTCCCGTTACATG
** *
9798215 GCTCGAAAGAGCTTCCCGATTACATG
1 GCTCTCATGAGCTTCCCG-TTACATG
9798241 CTCGTATGGG
Statistics
Matches: 133, Mismatches: 28, Indels: 23
0.72 0.15 0.12
Matches are distributed among these distances:
23 3 0.02
24 49 0.37
25 73 0.55
26 8 0.06
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGTTACATG
Found at i:9798103 original size:24 final size:24
Alignment explanation
Indices: 9798066--9798204 Score: 95
Period size: 24 Copynumber: 5.7 Consensus size: 24
9798056 TCCCGTTACA
* *
9798066 TGGCTCTCACGAGCTTCCCGATAT
1 TGGCTCACATGAGCTTCCCGATAT
*
9798090 TGGCTCACATGAGCTT-CCTA-AT
1 TGGCTCACATGAGCTTCCCGATAT
** *
9798112 TACGGCTCTTATGAGCTTCCCG-TTT
1 T--GGCTCACATGAGCTTCCCGATAT
** *
9798137 ATGGCTCGTATGAGCTTCCTGATAAT
1 -TGGCTCACATGAGCTTCCCGAT-AT
** * *
9798163 TGGCTTGCAAGAGCTTCCCGTTAT
1 TGGCTCACATGAGCTTCCCGATAT
9798187 ATGGCTCACATGAGCTTC
1 -TGGCTCACATGAGCTTC
9798205 TCGTTACATG
Statistics
Matches: 89, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
22 3 0.03
23 3 0.03
24 46 0.52
25 35 0.39
26 2 0.02
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCGATAT
Found at i:9798128 original size:48 final size:49
Alignment explanation
Indices: 9798067--9798204 Score: 147
Period size: 48 Copynumber: 2.8 Consensus size: 49
9798057 CCCGTTACAT
* *
9798067 GGCTCTCACGAGCTTCCCG-ATATTGGCTCACATGAGCTTCCTAATTA-C
1 GGCTCTCAAGAGCTTCCCGTATA-TGGCTCACATGAGCTTCCTAATAATC
* * * ** * *
9798115 GGCTCTTATGAGCTTCCCGTTTATGGCTCGTATGAGCTTCCTGATAATT
1 GGCTCTCAAGAGCTTCCCGTATATGGCTCACATGAGCTTCCTAATAATC
9798164 GGCT-TGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTTC
1 GGCTCT-CAAGAGCTTCCCG-TATATGGCTCACATGAGCTTC
9798205 TCGTTACATG
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
48 38 0.52
49 17 0.23
50 18 0.25
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (49 bp):
GGCTCTCAAGAGCTTCCCGTATATGGCTCACATGAGCTTCCTAATAATC
Found at i:9798177 original size:73 final size:73
Alignment explanation
Indices: 9798043--9798234 Score: 183
Period size: 73 Copynumber: 2.6 Consensus size: 73
9798033 GCGTTATTTA
*
9798043 GCTCTTATGAGCATCCCGTTACATGGCTCTCACGAGCTTCCCGATATTGGCTCACATGAGCTTCC
1 GCTCTTATGAGCATCCCGTTACATGGCTCTCACGAGCTTCCCGATATTGGCTCACAAGAGCTTCC
9798108 TAATTACG
66 TAATTACG
* * * * **
9798116 GCTCTTATGAGCTTCCCGTT-TATGGCTCGT-ATGAGCTTCCTGATAATTGGCTTGCAAGAGCTT
1 GCTCTTATGAGCATCCCGTTACATGGCTC-TCACGAGCTTCCCGAT-ATTGGCTCACAAGAGCTT
* *
9798179 CCCGTTA-TATG
64 -CC-TAATTACG
** * * ** *
9798190 GCTCACATGAGCTTCTCGTTACATGGCTCGAAAGAGCTTCCCGAT
1 GCTCTTATGAGCATCCCGTTACATGGCTCTCACGAGCTTCCCGAT
9798235 TACATGCTCG
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
72 19 0.20
73 35 0.36
74 22 0.23
75 21 0.22
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (73 bp):
GCTCTTATGAGCATCCCGTTACATGGCTCTCACGAGCTTCCCGATATTGGCTCACAAGAGCTTCC
TAATTACG
Found at i:9798217 original size:50 final size:51
Alignment explanation
Indices: 9798018--9798232 Score: 164
Period size: 50 Copynumber: 4.4 Consensus size: 51
9798008 ACACACCACA
* * * * ** * *
9798018 GCTC-GCAAGAGCGTCGCGTTATTTAGCTCTTATGAGCATCCCGTTACATG
1 GCTCTGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTTCTCGTTACATG
* * **
9798068 GCTCT-CACGAGCTTCCCGATAT-TGGCTCACATGAGCTTCCTAATTAC--G
1 GCTCTGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTT-CTCGTTACATG
* * ** *
9798116 GCTCT-TATGAGCTTCCCGTT-TATGGCTCGTATGAGCTTC-CTGATA-ATTG
1 GCTCTGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTTCTC-GTTACA-TG
9798165 GCT-TGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTTCTCGTTACATG
1 GCTCTGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTTCTCGTTACATG
*
9798215 GCTC-GAAAGAGCTTCCCG
1 GCTCTGCAAGAGCTTCCCG
9798233 ATTACATGCT
Statistics
Matches: 128, Mismatches: 25, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
47 4 0.03
48 33 0.26
49 29 0.23
50 60 0.47
51 2 0.02
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (51 bp):
GCTCTGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTTCTCGTTACATG
Found at i:9800629 original size:20 final size:21
Alignment explanation
Indices: 9800587--9800633 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
9800577 TTTTTTAATT
* **
9800587 ATTAAAGTTTAATTAAATTAA
1 ATTAAAGTTTAATAAAAGAAA
9800608 ATTAAAG-TTAATAAAAGAAA
1 ATTAAAGTTTAATAAAAGAAA
9800628 ATTAAA
1 ATTAAA
9800634 AAGGTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (21 bp):
ATTAAAGTTTAATAAAAGAAA
Found at i:9801811 original size:24 final size:24
Alignment explanation
Indices: 9801783--9801847 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
9801773 CAAGTACACT
9801783 TGAATGATTTTGATTAAATATACA
1 TGAATGATTTTGATTAAATATACA
* **
9801807 TGAATGATCTTGATTGGATATACA
1 TGAATGATTTTGATTAAATATACA
**
9801831 CAAATGATCTTT-ATTAA
1 TGAATGAT-TTTGATTAA
9801848 TTCTTGATGA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 30 0.94
25 2 0.06
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (24 bp):
TGAATGATTTTGATTAAATATACA
Found at i:9804338 original size:43 final size:42
Alignment explanation
Indices: 9804181--9804339 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
9804171 AATGTGACAT
*
9804181 CGTGTAAGACCACGTCTGGGACGTTGGCCTCG-ATTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTT-A-A-TTA
* * ** * * * * *
9804225 TGTGTAAGACAATTTTTGGGACATTGGCGTCGTATATGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTAATTA
*
9804267 CGTGTAAGACC-CTATCTGGGACAG-TGGCATCGTTATTTAATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTAATTA
*
9804310 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
9804340 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 20, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
42 27 0.30
43 33 0.37
44 26 0.29
45 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTAATTA
Found at i:9804532 original size:2 final size:2
Alignment explanation
Indices: 9804518--9804563 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
9804508 ACAAATCACT
9804518 TA TA TA TGA -A TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9804559 TA TA T
1 TA TA T
9804564 GTATGTGTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 2 0.05
2 38 0.93
3 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Done.