Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 26 of 259
Found at i:7311400 original size:43 final size:43
Alignment explanation
Indices: 7311312--7311400 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 43
7311302 ATTATGTAAG
* * * * * *
7311312 TTATGTAAGTTGCGTAAGTTATTATATGATATATATTTATGTA
1 TTATGTAAGTTACGTAAGCTATGATATCATATATATTAATATA
*
7311355 TTATGTAAGTTACGTAAGCTATGATATCATGTAT-TTAATTATA
1 TTATGTAAGTTACGTAAGCTATGATATCATATATATTAA-TATA
7311398 TTA
1 TTA
7311401 ATTAAATAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 3 0.08
43 35 0.92
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (43 bp):
TTATGTAAGTTACGTAAGCTATGATATCATATATATTAATATA
Found at i:7311610 original size:19 final size:19
Alignment explanation
Indices: 7311586--7311646 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
7311576 TATTTAAATA
7311586 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
* * *
7311605 AATTAAT-TAATATTTAAATA
1 AATTAATCCAA-A-TTATATT
7311625 AATTAATCCAAATTATA-T
1 AATTAATCCAAATTATATT
7311643 AATT
1 AATT
7311647 TTAAAAATTG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.18
19 12 0.36
20 13 0.39
21 2 0.06
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAATCCAAATTATATT
Found at i:7311610 original size:39 final size:39
Alignment explanation
Indices: 7311556--7311646 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
7311546 ACCTGGAAAA
*
7311556 AAATTATTTTAATTAAATAATATTTAAATAAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
*
7311595 AAATTATATTAATTAATTAATATTTAAATAAATTAATCC
1 AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
7311634 AAATTATA-TAATT
1 AAATTATATTAATT
7311647 TTAAAAATTG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 5 0.10
39 45 0.90
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (39 bp):
AAATTATATTAATTAAATAATATTTAAATAAATTAATCC
Found at i:7311631 original size:20 final size:20
Alignment explanation
Indices: 7311566--7311631 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
7311556 AAATTATTTT
*
7311566 AATTAAATAATATTTAAATA
1 AATTAATTAATATTTAAATA
* * *
7311586 AATTAATCCAA-A-TTATATT
1 AATTAAT-TAATATTTAAATA
7311605 AATTAATTAATATTTAAATA
1 AATTAATTAATATTTAAATA
7311625 AATTAAT
1 AATTAAT
7311632 CCAAATTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 2 0.06
19 13 0.36
20 19 0.53
21 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAATTAATATTTAAATA
Found at i:7313216 original size:22 final size:21
Alignment explanation
Indices: 7313186--7313251 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
7313176 TACAAATTAA
7313186 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
7313208 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
7313229 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
7313248 ATCT
1 ATCT
7313252 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:7313238 original size:19 final size:19
Alignment explanation
Indices: 7313203--7313281 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
7313193 AGATTACAAG
7313203 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
7313224 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
7313243 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
7313260 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
7313279 ATC
1 ATC
7313282 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:7313245 original size:14 final size:15
Alignment explanation
Indices: 7313225--7313281 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
7313215 AGATTGCATA
7313225 TCATATCTAAGATTG
1 TCATATCTAAGATTG
7313240 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
7313259 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
7313276 -CATATC
1 TCATATC
7313282 CTTAAAGATT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.16
17 17 0.45
19 15 0.39
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:7313267 original size:36 final size:39
Alignment explanation
Indices: 7313203--7313281 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
7313193 AGATTACAAG
7313203 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCAT
7313243 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
7313279 ATC
1 ATC
7313282 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCAT
Found at i:7315695 original size:75 final size:74
Alignment explanation
Indices: 7315582--7315826 Score: 255
Period size: 74 Copynumber: 3.3 Consensus size: 74
7315572 TACACATCTG
* * * ** * * *
7315582 CGGCATTTTTGTTGAAAACGCCAGTAAAAATAATGATAAAAACGACGACCTTTTGCTCTCTTAAT
1 CGGCACTTTTGTCGAAAATGCCACAAAAAACAAGGATAAAAACGACGACATTTTGCTCTCTTAAT
7315647 ACATATTTTA
66 ACATA-TTTA
* * * * **
7315657 CGGC-GTTTATGTCGAAAATGCCACAAAAAACAAGGATAAAAATGACGTCATTTTCCTCTCACAA
1 CGGCACTTT-TGTCGAAAATGCCACAAAAAACAAGGATAAAAACGACGACATTTTGCTCTCTTAA
*
7315721 TACATATTTG
65 TACATATTTA
* *
7315731 CGGCACTTTTGTCGAAAATGCCACTAAAAACAAGGATAAAAACG-CGGACATTTTGCACTCTTAA
1 CGGCACTTTTGTCGAAAATGCCACAAAAAACAAGGATAAAAACGAC-GACATTTTGCTCTCTTAA
*
7315795 TACA-ACTTA
65 TACATATTTA
*
7315804 GCGGCA-TTTTTTCGAAAATGCCA
1 -CGGCACTTTTGTCGAAAATGCCA
7315827 GTAATGCACA
Statistics
Matches: 141, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
73 20 0.14
74 65 0.46
75 56 0.40
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (74 bp):
CGGCACTTTTGTCGAAAATGCCACAAAAAACAAGGATAAAAACGACGACATTTTGCTCTCTTAAT
ACATATTTA
Found at i:7315929 original size:114 final size:111
Alignment explanation
Indices: 7315750--7316044 Score: 270
Period size: 115 Copynumber: 2.6 Consensus size: 111
7315740 TGTCGAAAAT
* ** *
7315750 GCCACTAAAAACAAGGATAAAAACG-CGGACATTTTGCACTCTTAATACAACTTAGCGGCAT-TT
1 GCCACTAAAAACAAGGATAAAAACGAC-GACATTTTGCACTCTTAATGCATTTTTGCGG--TGTT
* * * * * **
7315813 TTTCGAAAATGCCAGTAATGCACAACCTTTTGCGGCGTTTTTTGTTGAAAC
63 TTTCGAAAAT-CCAGTAAAGAACAACATTTTGCGGC-ATTTCTGAGGAAAC
* * *
7315864 GCCACTAAAAACAAGGATAAAAAACGACAACATTTTGTACTCTTAATGCATTTTTGTGGTGTTTT
1 GCCACTAAAAACAAGGAT-AAAAACGACGACATTTTGCACTCTTAATGCATTTTTGCGGTG--TT
* * * *
7315929 TGTTCTAAACTCCGGTAAAGAACAACATTTTGTGGCATTTCTGAGGAAAC
63 T-TTCGAAAATCCAGTAAAGAACAACATTTTGCGGCATTTCTGAGGAAAC
* * * * * *
7315979 ACCACTAAAAACAAGCATGGAAAACGACGACGTTTTGCACTCTTAATGCATTTTTGGGGCGTTTT
1 GCCACTAAAAACAAGGAT-AAAAACGACGACATTTTGCACTCTTAATGCATTTTTGCGGTGTTTT
7316044 T
65 T
7316045 TGTTGAAAAC
Statistics
Matches: 148, Mismatches: 27, Indels: 14
0.78 0.14 0.07
Matches are distributed among these distances:
112 2 0.01
113 4 0.03
114 18 0.12
115 93 0.63
116 24 0.16
117 7 0.05
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (111 bp):
GCCACTAAAAACAAGGATAAAAACGACGACATTTTGCACTCTTAATGCATTTTTGCGGTGTTTTT
CGAAAATCCAGTAAAGAACAACATTTTGCGGCATTTCTGAGGAAAC
Found at i:7315978 original size:115 final size:116
Alignment explanation
Indices: 7315859--7316070 Score: 309
Period size: 115 Copynumber: 1.8 Consensus size: 116
7315849 GTTTTTTGTT
* * * * *
7315859 GAAACGCCACTAAAAACAAGGATAAAAAACGACAACATTTTGTACTCTTAATGCATTTTTGTGGT
1 GAAACACCACTAAAAACAAGCATAAAAAACGACAACATTTTGCACTCTTAATGCATTTTTGGGGC
* *
7315924 G-TTTTTGTTCTAAACTCCGGTAAAGAACAACATTTTGTGGCATTTCTGAG
66 GTTTTTTGTTCAAAACGCCGGTAAAGAACAACATTTTGTGGCATTTCTGAG
** * *
7315974 GAAACACCACTAAAAACAAGCATGGAAAACGACGACGTTTTGCACTCTTAATGCATTTTTGGGGC
1 GAAACACCACTAAAAACAAGCATAAAAAACGACAACATTTTGCACTCTTAATGCATTTTTGGGGC
*
7316039 GTTTTTTGTTGAAAACGCCGGTAAAGAACAAC
66 GTTTTTTGTTCAAAACGCCGGTAAAGAACAAC
7316071 CTGTTGCACT
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
115 57 0.68
116 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (116 bp):
GAAACACCACTAAAAACAAGCATAAAAAACGACAACATTTTGCACTCTTAATGCATTTTTGGGGC
GTTTTTTGTTCAAAACGCCGGTAAAGAACAACATTTTGTGGCATTTCTGAG
Found at i:7316183 original size:7 final size:7
Alignment explanation
Indices: 7316171--7316232 Score: 54
Period size: 7 Copynumber: 8.9 Consensus size: 7
7316161 CATTGGTAAT
7316171 CCTAAAC
1 CCTAAAC
7316178 CCTAAAC
1 CCTAAAC
* *
7316185 ACTAACC
1 CCTAAAC
7316192 CCT-AAC
1 CCTAAAC
*
7316198 CCTTAAC
1 CCTAAAC
* *
7316205 TCTTAAC
1 CCTAAAC
7316212 CCTTAAAC
1 CC-TAAAC
*
7316220 CCCAAAC
1 CCTAAAC
7316227 CCTAAA
1 CCTAAA
7316233 TCCCGCTAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
6 5 0.11
7 33 0.75
8 6 0.14
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:7316452 original size:7 final size:7
Alignment explanation
Indices: 7316442--7316595 Score: 64
Period size: 7 Copynumber: 21.6 Consensus size: 7
7316432 ACCCTAAATT
7316442 ATAAACC
1 ATAAACC
7316449 ATAAACCC
1 ATAAA-CC
*
7316457 CT-AACC
1 ATAAACC
*
7316463 CTAAACC
1 ATAAACC
*
7316470 TTAAACCC
1 ATAAA-CC
7316478 ATAAA--
1 ATAAACC
*
7316483 TTAAACC
1 ATAAACC
*
7316490 CTAAACC
1 ATAAACC
*
7316497 ATAATTATC
1 ATAA--ACC
7316506 ACTAAACTC
1 A-TAAAC-C
*
7316515 ATAATCC
1 ATAAACC
*
7316522 AAAAACC
1 ATAAACC
*
7316529 CTAAACC
1 ATAAACC
*
7316536 ATATACC
1 ATAAACC
*
7316543 CTAAA-C
1 ATAAACC
7316549 ATTAAACC
1 A-TAAACC
* *
7316557 CTAAATC
1 ATAAACC
*
7316564 ATATACC
1 ATAAACC
*
7316571 CTAAACC
1 ATAAACC
7316578 ATAAACC
1 ATAAACC
* *
7316585 CTAAACT
1 ATAAACC
7316592 ATAA
1 ATAA
7316596 TGATAATTAA
Statistics
Matches: 107, Mismatches: 29, Indels: 22
0.68 0.18 0.14
Matches are distributed among these distances:
5 4 0.04
6 5 0.05
7 75 0.70
8 15 0.14
9 5 0.05
10 3 0.03
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (7 bp):
ATAAACC
Found at i:7316476 original size:14 final size:14
Alignment explanation
Indices: 7316428--7316496 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
7316418 CCTCTATCTT
*
7316428 TTAAACCCTAAA-T
1 TTAAACCCTAAACC
*
7316441 TATAAACCATAAACCC
1 T-TAAACCCTAAA-CC
*
7316457 CT-AACCCTAAACC
1 TTAAACCCTAAACC
7316470 TTAAACCCATAAA--
1 TTAAACCC-TAAACC
7316483 TTAAACCCTAAACC
1 TTAAACCCTAAACC
7316497 ATAATTATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
12 4 0.09
13 12 0.27
14 23 0.52
15 5 0.11
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (14 bp):
TTAAACCCTAAACC
Found at i:7316545 original size:14 final size:14
Alignment explanation
Indices: 7316443--7316595 Score: 98
Period size: 14 Copynumber: 10.7 Consensus size: 14
7316433 CCCTAAATTA
7316443 TAAACCATAAACCCC
1 TAAACCATAAA-CCC
* *
7316458 T-AACCCTAAACCT
1 TAAACCATAAACCC
*
7316471 TAAACCCATAAA--T
1 TAAA-CCATAAACCC
* *
7316484 TAAACCCTAAACCA
1 TAAACCATAAACCC
* *
7316498 TAATTATCACTAAACTCA
1 TAA--ACCA-TAAAC-CC
* *
7316516 TAATCCAAAAACCC
1 TAAACCATAAACCC
*
7316530 TAAACCATATACCC
1 TAAACCATAAACCC
7316544 TAAA-CATTAAACCC
1 TAAACCA-TAAACCC
* *
7316558 TAAATCATATACCC
1 TAAACCATAAACCC
7316572 TAAACCATAAACCC
1 TAAACCATAAACCC
*
7316586 TAAACTATAA
1 TAAACCATAA
7316596 TGATAATTAA
Statistics
Matches: 109, Mismatches: 19, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
12 6 0.06
13 10 0.09
14 66 0.61
15 13 0.12
16 4 0.04
17 5 0.05
18 5 0.05
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:7316566 original size:28 final size:28
Alignment explanation
Indices: 7316524--7316590 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
7316514 CATAATCCAA
7316524 AAACCCTAAACCATATACCCTAAA-CATT
1 AAACCCTAAACCATATACCCTAAACCA-T
*
7316552 AAACCCTAAATCATATACCCTAAACCAT
1 AAACCCTAAACCATATACCCTAAACCAT
7316580 AAACCCTAAAC
1 AAACCCTAAAC
7316591 TATAATGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (28 bp):
AAACCCTAAACCATATACCCTAAACCAT
Found at i:7317228 original size:194 final size:194
Alignment explanation
Indices: 7316885--7317234 Score: 521
Period size: 194 Copynumber: 1.8 Consensus size: 194
7316875 TTTAAAAAGT
* * *
7316885 GCCGCTAATGCTCGATCTATAGCGGCGTTTTCCAAAAAGCGTCGTTAATGCAACTAAAGCTCAAC
1 GCCGCTAATGCTCGATCTATAGCAGCGTTTTCCAAAAAGCGCCGCTAATGCAACTAAAGCTCAAC
* * * *
7316950 ATAAAACGATGGCGTTGTGCTTAATTTTTTGCAGCATTTTTTGAAAAAGCGCCGCTAGTGGGTAG
66 ATAAAACAACGGCGTTGTGCTTAATTTTTTGCAGCAGTTTTTGAAAAAGCGCCGCTAATGGGTAG
7317015 ACCTATAGCGGCATTTTTAAAAAGCGCCGCCAATGCTCAGTAATAGCGGTGTTTTTCTACAAAC
131 ACCTATAGCGGCATTTTTAAAAAGCGCCGCCAATGCTCAGTAATAGCGGTGTTTTTCTACAAAC
7317079 GCCGCTAATGCTCGATCTATAGCAGCGTTTTCCAAAAAGCGCCGCTAATGTC-ACTAAAGCTCAA
1 GCCGCTAATGCTCGATCTATAGCAGCGTTTTCCAAAAAGCGCCGCTAATG-CAACTAAAGCTCAA
* * *
7317143 CATAAAACAACGGCGTTGTGC-TAACTTTTTTTGCGGC-GTTTTTGAACAAGTGCCGCTAAT-GG
65 CATAAAACAACGGCGTTGTGCTTAA--TTTTTTGCAGCAGTTTTTGAAAAAGCGCCGCTAATGGG
*
7317205 TCGACCTAT-GCGGCATTTTTTTAAAAAGCG
128 TAGACCTATAGCGGCA--TTTTTAAAAAGCG
7317235 TCGCTAAATG
Statistics
Matches: 140, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
192 6 0.04
193 13 0.09
194 110 0.79
195 11 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (194 bp):
GCCGCTAATGCTCGATCTATAGCAGCGTTTTCCAAAAAGCGCCGCTAATGCAACTAAAGCTCAAC
ATAAAACAACGGCGTTGTGCTTAATTTTTTGCAGCAGTTTTTGAAAAAGCGCCGCTAATGGGTAG
ACCTATAGCGGCATTTTTAAAAAGCGCCGCCAATGCTCAGTAATAGCGGTGTTTTTCTACAAAC
Found at i:7318289 original size:33 final size:34
Alignment explanation
Indices: 7318194--7318290 Score: 85
Period size: 33 Copynumber: 2.9 Consensus size: 34
7318184 TTAATATTTT
* *
7318194 AATATATGAAATATAAATTTTAAATATTT-GTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATAAGC
* * *
7318229 AATAAATATTAATTAT-TTATAAA-ATTTAATTAG-
1 AAT--ATATAAATTATATTTTAAATATTTAATAAGC
7318262 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
7318291 ATATAACCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.26
34 9 0.18
35 5 0.10
36 3 0.06
37 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (34 bp):
AATATATAAATTATATTTTAAATATTTAATAAGC
Found at i:7321997 original size:21 final size:22
Alignment explanation
Indices: 7321954--7321999 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7321944 TTCATATGAT
7321954 TGAATAAATAAATATTTTAATA
1 TGAATAAATAAATATTTTAATA
* * *
7321976 TGAATAATTTAAT-TTTTTATA
1 TGAATAAATAAATATTTTAATA
7321997 TGA
1 TGA
7322000 TTGTCTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
TGAATAAATAAATATTTTAATA
Found at i:7322620 original size:4 final size:4
Alignment explanation
Indices: 7322613--7322670 Score: 71
Period size: 4 Copynumber: 13.8 Consensus size: 4
7322603 TTTAAGGTAA
* *
7322613 AATT AATT AGTTT AATT AACTT AATTT AATT AATT AACT AATT AATT AATT
1 AATT AATT A-ATT AATT AA-TT AA-TT AATT AATT AATT AATT AATT AATT
7322664 AATT AAT
1 AATT AAT
7322671 ATTTTTGGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
4 36 0.77
5 11 0.23
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:7323063 original size:14 final size:15
Alignment explanation
Indices: 7323014--7323063 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
7323004 TGGAAAAATA
*
7323014 AATTTTAATTTACTTAT
1 AATTTT-ATTT-CATAT
7323031 AATTTTATTTCAT-T
1 AATTTTATTTCATAT
*
7323045 TATTTT-TTTCATAT
1 AATTTTATTTCATAT
7323059 AATTT
1 AATTT
7323064 GTAACGCCCC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 6 0.21
14 11 0.38
15 2 0.07
16 4 0.14
17 6 0.21
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
AATTTTATTTCATAT
Found at i:7323480 original size:23 final size:23
Alignment explanation
Indices: 7323454--7323498 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
7323444 TTCCTTCCTT
* *
7323454 TTTTCGTTCTTTTTTCTTTTTTC
1 TTTTCCTTCCTTTTTCTTTTTTC
7323477 TTTTCCTTCCTTTTTCTTTTTT
1 TTTTCCTTCCTTTTTCTTTTTT
7323499 TTCTTTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTCCTTCCTTTTTCTTTTTTC
Found at i:7323506 original size:7 final size:7
Alignment explanation
Indices: 7323460--7323498 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
7323450 CCTTTTTTCG
7323460 TTCTTTT
1 TTCTTTT
7323467 TTCTTTT
1 TTCTTTT
7323474 TTCTTTT
1 TTCTTTT
*
7323481 CCTTCCTTT
1 --TTCTTTT
7323490 TTCTTTT
1 TTCTTTT
7323497 TT
1 TT
7323499 TTCTTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 22 0.79
9 6 0.21
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TTCTTTT
Found at i:7324185 original size:63 final size:62
Alignment explanation
Indices: 7324057--7324253 Score: 186
Period size: 63 Copynumber: 3.1 Consensus size: 62
7324047 TGTGTTAGAT
* * *
7324057 CGTGTGACAGGCCATGTGACTCATTGTTTATCATTAAGGACCACACGGACCAGAGACACAGG
1 CGTGTGTCAGGCCATGTGACTCACTGTTTATCATTAAAGACCACACGGACCAGAGACACAGG
* *
7324119 CGTGTGTCTAGGCCATGTGACTCACTGTTTGTCATTAAAGACCACACAGG-CCAGAGACA-TGAG
1 CGTGTGTC-AGGCCATGTGACTCACTGTTTATCATTAAAGACCACAC-GGACCAGAGACACAG-G
* * * * * * * * *
7324182 CGTGTGTCCAGGTCGTGTGACCCACTATTTA-CGATTTAGGACTACACGGA-CATATGACACGGG
1 CGTGTGT-CAGGCCATGTGACTCACTGTTTATC-ATTAAAGACCACACGGACCAGA-GACACAGG
7324245 CGTGTGTCA
1 CGTGTGTCA
7324254 AGCCGTGTAA
Statistics
Matches: 112, Mismatches: 15, Indels: 16
0.78 0.10 0.11
Matches are distributed among these distances:
62 16 0.14
63 92 0.82
64 4 0.04
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (62 bp):
CGTGTGTCAGGCCATGTGACTCACTGTTTATCATTAAAGACCACACGGACCAGAGACACAGG
Found at i:7347492 original size:18 final size:18
Alignment explanation
Indices: 7347467--7347522 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
7347457 CTTGGCCCAT
7347467 TACAGTAACAGTAAACAG
1 TACAGTAACAGTAAACAG
* *
7347485 TGCAGTAATAGTAAACAG
1 TACAGTAACAGTAAACAG
* *
7347503 TATAGTAACAGTAAGCAG
1 TACAGTAACAGTAAACAG
7347521 TA
1 TA
7347523 TGCAAGTCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.21
Consensus pattern (18 bp):
TACAGTAACAGTAAACAG
Found at i:7347968 original size:27 final size:27
Alignment explanation
Indices: 7347859--7347978 Score: 93
Period size: 26 Copynumber: 4.5 Consensus size: 27
7347849 AGGGTCAAAA
* *
7347859 CAGTCAATTTACCATGTAGGGGCATTT
1 CAGTCATTTTACCATGTAGGGGCATAT
** *
7347886 CAGTCATTTTACCAACTA-GGGCAAAAT
1 CAGTCATTTTACCATGTAGGGGC-ATAT
* ** * *
7347913 -AGTCATTTTGCCACATAAGGGCA-AA
1 CAGTCATTTTACCATGTAGGGGCATAT
* *
7347938 CAGTCAATTTACCATGTAGGGGCATTT
1 CAGTCATTTTACCATGTAGGGGCATAT
*
7347965 CAGTTATTTTACCA
1 CAGTCATTTTACCA
7347979 ATGGAACGGT
Statistics
Matches: 71, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
25 1 0.01
26 37 0.52
27 33 0.46
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (27 bp):
CAGTCATTTTACCATGTAGGGGCATAT
Found at i:7370416 original size:18 final size:19
Alignment explanation
Indices: 7370383--7370418 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7370373 AATGAATTAT
*
7370383 TATAATTATTATATATTGG
1 TATAATTATCATATATTGG
7370402 TATAATT-TCATATATTG
1 TATAATTATCATATATTG
7370419 TCCCTTGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (19 bp):
TATAATTATCATATATTGG
Found at i:7371530 original size:10 final size:9
Alignment explanation
Indices: 7371510--7371617 Score: 51
Period size: 9 Copynumber: 11.3 Consensus size: 9
7371500 ATTCAAATGT
7371510 TAAAAATTA
1 TAAAAATTA
7371519 TAAAAATATA
1 TAAAAAT-TA
*
7371529 TATAAATCGTA
1 TAAAAAT--TA
7371540 -AATAAATATA
1 TAA-AAAT-TA
*
7371550 AAAAAATTA
1 TAAAAATTA
*
7371559 TAAAATTTTA
1 TAAAA-ATTA
**
7371569 TAAAAATCG
1 TAAAAATTA
*
7371578 TACAAATT-
1 TAAAAATTA
7371586 TATAAAATGTA
1 TA-AAAAT-TA
*
7371597 TAGAAA-TA
1 TAAAAATTA
7371605 TGAAAAATTA
1 T-AAAAATTA
7371615 TAA
1 TAA
7371618 GATTTTATAA
Statistics
Matches: 75, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
8 5 0.07
9 30 0.40
10 30 0.40
11 10 0.13
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:7371575 original size:19 final size:19
Alignment explanation
Indices: 7371510--7371592 Score: 51
Period size: 19 Copynumber: 4.3 Consensus size: 19
7371500 ATTCAAATGT
* *
7371510 TAAAAATTATAAAAATATA
1 TAAAAATTATACAAATTTA
* * * *
7371529 TATAAATCGTAAATAAATATA
1 TAAAAAT--TATACAAATTTA
*
7371550 AAAAAATTATA-AAATTTTA
1 TAAAAATTATACAAA-TTTA
**
7371569 TAAAAATCGTACAAATTTA
1 TAAAAATTATACAAATTTA
7371588 TAAAA
1 TAAAA
7371593 TGTATAGAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
18 3 0.06
19 29 0.58
20 3 0.06
21 15 0.30
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (19 bp):
TAAAAATTATACAAATTTA
Found at i:7371645 original size:56 final size:57
Alignment explanation
Indices: 7371510--7371690 Score: 154
Period size: 56 Copynumber: 3.1 Consensus size: 57
7371500 ATTCAAATGT
* * * *
7371510 TAAAAATTATAAAAA-TATATATAAATCGTAAATAAATATAAAAAAATTATAAAATTTTA
1 TAAAAATCATAAAAAGT-TATAAAAAT-GTAAAGAAATAT-GAAAAATTATAAAATTTTA
* * * * *
7371569 TAAAAATCGTACAAATTTAT-AAAATGTATAGAAATATGAAAAATTATAAGATTTTA
1 TAAAAATCATAAAAAGTTATAAAAATGTAAAGAAATATGAAAAATTATAAAATTTTA
* ** *
7371625 T-AAAGTCATAAAAAAGTTATACAAAATGTAAAGAAATAT-AAATTTTATAAAAAAATTTA
1 TAAAAATCAT-AAAAAGTTATA-AAAATGTAAAGAAATATGAAAAATTAT--AAAATTTTA
7371684 TAAAAAT
1 TAAAAAT
7371691 TATCGTACCG
Statistics
Matches: 97, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
55 6 0.06
56 26 0.27
57 17 0.18
58 20 0.21
59 23 0.24
60 5 0.05
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.33
Consensus pattern (57 bp):
TAAAAATCATAAAAAGTTATAAAAATGTAAAGAAATATGAAAAATTATAAAATTTTA
Found at i:7371854 original size:18 final size:19
Alignment explanation
Indices: 7371833--7371882 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
7371823 TTTTACGATT
7371833 TTTATATTTTTAT-TAAAA
1 TTTATATTTTTATCTAAAA
* *
7371851 TTTA-ATAATTTATCTAAAT
1 TTTATAT-TTTTATCTAAAA
*
7371870 TTTATTTTTTTAT
1 TTTATATTTTTAT
7371883 AATTTTTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 2 0.08
18 9 0.36
19 13 0.52
20 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTATATTTTTATCTAAAA
Found at i:7371861 original size:28 final size:25
Alignment explanation
Indices: 7371801--7371861 Score: 59
Period size: 29 Copynumber: 2.2 Consensus size: 25
7371791 TAAGGGTTAT
*
7371801 TAATTTTTTATTTTAATAAAATTTT
1 TAATTTTTTATTTTAATAAAATTTA
*
7371826 TACGATTTTTATATTTTTATTAAAATTTAA
1 TA--ATTTTT-TA-TTTTAATAAAATTT-A
7371856 TAATTT
1 TAATTT
7371862 ATCTAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
25 2 0.07
27 6 0.21
28 6 0.21
29 13 0.45
30 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (25 bp):
TAATTTTTTATTTTAATAAAATTTA
Found at i:7373330 original size:12 final size:12
Alignment explanation
Indices: 7373315--7373368 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
7373305 ACATTGTTAT
7373315 ATGTTCATGAAC
1 ATGTTCATGAAC
* *
7373327 ATGTTCAAT-TAT
1 ATGTTC-ATGAAC
7373339 ATGTTCATGAAC
1 ATGTTCATGAAC
*
7373351 ATGTTCGTGAAC
1 ATGTTCATGAAC
7373363 ATGTTC
1 ATGTTC
7373369 GATTAAGTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 2 0.06
12 31 0.89
13 2 0.06
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.39
Consensus pattern (12 bp):
ATGTTCATGAAC
Found at i:7373338 original size:24 final size:24
Alignment explanation
Indices: 7373311--7373356 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
7373301 ATTAACATTG
7373311 TTATATGTTCATGAACATGTTCAA
1 TTATATGTTCATGAACATGTTCAA
7373335 TTATATGTTCATGAACATGTTC
1 TTATATGTTCATGAACATGTTC
7373357 GTGAACATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (24 bp):
TTATATGTTCATGAACATGTTCAA
Found at i:7373355 original size:36 final size:35
Alignment explanation
Indices: 7373315--7373391 Score: 102
Period size: 36 Copynumber: 2.2 Consensus size: 35
7373305 ACATTGTTAT
*
7373315 ATGTTCATGAACATGTTCAATTATATGTT-CATGAAC
1 ATGTTCATGAACATGTTCAATTA-A-GTTAAATGAAC
* *
7373351 ATGTTCGTGAACATGTTCGATTAAGTTAAATGAAC
1 ATGTTCATGAACATGTTCAATTAAGTTAAATGAAC
7373386 ATGTTC
1 ATGTTC
7373392 TTGATCATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 3 0.08
35 13 0.35
36 21 0.57
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (35 bp):
ATGTTCATGAACATGTTCAATTAAGTTAAATGAAC
Found at i:7373843 original size:9 final size:9
Alignment explanation
Indices: 7373831--7373879 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
7373821 ACATATAAAA
7373831 AATTAACCG
1 AATTAACCG
*
7373840 AATTAACCA
1 AATTAACCG
*
7373849 AATTAACTG
1 AATTAACCG
*
7373858 AATTAATCG
1 AATTAACCG
*
7373867 AATCAACCG
1 AATTAACCG
7373876 AATT
1 AATT
7373880 TAATATATGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:7374186 original size:10 final size:11
Alignment explanation
Indices: 7374164--7374189 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7374154 GAAAAATAGT
7374164 AAAATATTAAA
1 AAAATATTAAA
7374175 AAAATATTAAA
1 AAAATATTAAA
7374186 AAAA
1 AAAA
7374190 AGTATAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATATTAAA
Found at i:7380313 original size:18 final size:19
Alignment explanation
Indices: 7380282--7380320 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
7380272 AGGTTAAATT
7380282 ATAAAAAAATATTGAAAAA
1 ATAAAAAAATATTGAAAAA
* *
7380301 ATAAAAGAA-ATTGAGAAA
1 ATAAAAAAATATTGAAAAA
7380319 AT
1 AT
7380321 GTGTGTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (19 bp):
ATAAAAAAATATTGAAAAA
Found at i:7381008 original size:13 final size:13
Alignment explanation
Indices: 7380990--7381014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7380980 TAAAAGGGTT
7380990 ATTAATTAAAAAG
1 ATTAATTAAAAAG
7381003 ATTAATTAAAAA
1 ATTAATTAAAAA
7381015 AAAAACTTGA
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:7388690 original size:24 final size:24
Alignment explanation
Indices: 7388658--7388715 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
7388648 GTGTTTTACA
7388658 ATTGAAATTGATTG-ATTTAGTATGTG
1 ATTG-AATTGATTGAATTTA-TAT-TG
*
7388684 A-TGAATTTATTGAATTTATATTG
1 ATTGAATTGATTGAATTTATATTG
7388707 ATTGAATTG
1 ATTGAATTG
7388716 GTATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 3 0.11
24 17 0.61
25 7 0.25
26 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (24 bp):
ATTGAATTGATTGAATTTATATTG
Found at i:7388979 original size:40 final size:40
Alignment explanation
Indices: 7388913--7389010 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
7388903 GGATTAATTT
* * *
7388913 GATGAGGCACTAGGTGCC-AA-T-TTACTTCGATTTAACC
1 GATGAGACACTGGGTGCCAAATTATTACTTCGAATTAACC
* *
7388950 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
1 GATGAGACACTGGGTGCCAAATTATTACTTCGAATTAACC
*
7388990 GATGAGGCACTGGGTGCCAAA
1 GATGAGACACTGGGTGCCAAA
7389011 CTGGTGAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 15 0.29
38 2 0.04
39 1 0.02
40 33 0.65
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (40 bp):
GATGAGACACTGGGTGCCAAATTATTACTTCGAATTAACC
Found at i:7391686 original size:32 final size:32
Alignment explanation
Indices: 7391649--7391714 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
7391639 ATATGCGATG
7391649 GTCGCTGAACCATGTAAAATATAGCATACATA
1 GTCGCTGAACCATGTAAAATATAGCATACATA
*
7391681 GTCGCTGAACCATGTAAAATATATCATACATA
1 GTCGCTGAACCATGTAAAATATAGCATACATA
7391713 GT
1 GT
7391715 GTAAAACCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (32 bp):
GTCGCTGAACCATGTAAAATATAGCATACATA
Found at i:7392985 original size:21 final size:22
Alignment explanation
Indices: 7392947--7392991 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
7392937 TTGAGTTTTG
*
7392947 ATTTCATATTATTATATTAATT
1 ATTTAATATTATTATATTAATT
*
7392969 ATTTAATATTA-TATATTCATT
1 ATTTAATATTATTATATTAATT
7392990 AT
1 AT
7392992 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTAATATTATTATATTAATT
Found at i:7393133 original size:22 final size:22
Alignment explanation
Indices: 7393103--7393144 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7393093 TTTTACATAC
7393103 TATATTATTATGTT-ATTTTAG
1 TATATTATTATGTTAATTTTAG
*
7393124 TATAGTTATTATTTTAATTTT
1 TATA-TTATTATGTTAATTTT
7393145 CACTTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TATATTATTATGTTAATTTTAG
Found at i:7395533 original size:35 final size:35
Alignment explanation
Indices: 7395494--7395561 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
7395484 AAAGTTTGGT
7395494 GAAAATGCATGATCGACTTGGGAAGAAGAGTCTAC
1 GAAAATGCATGATCGACTTGGGAAGAAGAGTCTAC
* *
7395529 GAAAATGCGTGATTGACTTGGGAAGAAGAGTCT
1 GAAAATGCATGATCGACTTGGGAAGAAGAGTCT
7395562 TTCATGTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (35 bp):
GAAAATGCATGATCGACTTGGGAAGAAGAGTCTAC
Found at i:7395768 original size:19 final size:20
Alignment explanation
Indices: 7395746--7395784 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
7395736 TTTATACTAC
*
7395746 TATATATTTT-TTAAATTTT
1 TATAAATTTTATTAAATTTT
*
7395765 TATAAATTTTATTTAATTTT
1 TATAAATTTTATTAAATTTT
7395785 CAGAGGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATAAATTTTATTAAATTTT
Found at i:7395945 original size:24 final size:26
Alignment explanation
Indices: 7395908--7395974 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 26
7395898 GCGTAACCAT
*
7395908 TTTTTATATTAAAATATTATT-TTTTA
1 TTTTTA-AATAAAATATTATTATTTTA
7395934 -TTTTAAATAAAATATTATTATTTTA
1 TTTTTAAATAAAATATTATTATTTTA
7395959 TTTTTAAA-AAAATATT
1 TTTTTAAATAAAATATT
7395975 TAAATACATA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
24 13 0.34
25 18 0.47
26 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTTAAATAAAATATTATTATTTTA
Found at i:7396558 original size:60 final size:60
Alignment explanation
Indices: 7396465--7396583 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
7396455 TTGTTTTTTA
* * *
7396465 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTCTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTATGTTTG
7396525 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTATGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTATGTTT
7396584 AGTTTAGTAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.34, C:0.01, G:0.11, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTATTATGTTTG
Found at i:7396898 original size:103 final size:102
Alignment explanation
Indices: 7396780--7397275 Score: 643
Period size: 103 Copynumber: 4.8 Consensus size: 102
7396770 TATAGTTATA
*
7396780 TATTTTGTTAGTAATTTATGGGATTATG-T-TATAAATTGTTAGTGTTTAGTATAGAGTTTTGTG
1 TATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGT-TAGAGTTTTGTG
*
7396843 ATTTTTTAGTAATGTAATTTTAAAAAAATAATTTTATAGT
63 ATTTTTTAGTAATATAATTTTAAAAAAATAATTTTATAGT
* * * * *
7396883 TATTTTGTTACTAATTTATGGGATTAGG-T-TACAAATTGTTAGTGTTTAATATAGGGTGTTGTG
1 TATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGT-TAGAGTTTTGTG
* **
7396946 ATTTTTTAGTAATCTAATTTTTTTTAAAAATAATTTTATAGT
63 ATTTTTTAGTAATATAA--TTTTAAAAAAATAATTTTATAGT
*
7396988 TATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTGTGAT
1 TATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTA-GAGTTTTGTGAT
* *
7397053 TTTTTAGTAATATATTTTTTAAAAAATAATTTTATAGT
65 TTTTTAGTAATATAATTTTAAAAAAATAATTTTATAGT
7397091 TATTTTGTTAGTAATTTATGATTA-GTTATATAAATTGTTAGTGTTTAGTTATGAG-TTT-TGAT
1 TATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTA-GAGTTTTGTGA-
* *
7397153 TTTTTTTGTAATGT-ATTTCTAAAAAATAATAATTTTATAGT
64 TTTTTTAGTAATATAATTT-T-AAAAA-AATAATTTTATAGT
*
7397194 TATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
1 TATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAG-TTAGAGTTTTGTGAT
7397259 TTTTT--TAATATAATTTT
65 TTTTTAGTAATATAATTTT
7397276 TATATAATGT
Statistics
Matches: 355, Mismatches: 24, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
100 6 0.02
101 16 0.05
102 34 0.10
103 170 0.48
104 33 0.09
105 93 0.26
106 3 0.01
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (102 bp):
TATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTAGAGTTTTGTGATT
TTTTAGTAATATAATTTTAAAAAAATAATTTTATAGT
Found at i:7402344 original size:5 final size:6
Alignment explanation
Indices: 7402321--7402351 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
7402311 TTAAATCTAC
7402321 TAAAAA TTAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA -TAAAAA TAAAAA TAAAAA TAAAAA
7402352 GTAGTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:7404281 original size:13 final size:13
Alignment explanation
Indices: 7404263--7404288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7404253 AAGTAATGAA
7404263 TTAAAAATAAATT
1 TTAAAAATAAATT
7404276 TTAAAAATAAATT
1 TTAAAAATAAATT
7404289 GTTTGAGCTG
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAAATAAATT
Found at i:7409516 original size:276 final size:274
Alignment explanation
Indices: 7408925--7409711 Score: 1186
Period size: 277 Copynumber: 2.8 Consensus size: 274
7408915 AACAAGATTT
* *
7408925 AGTCCAAATAAACAACAAAAACAATACAACAAGATTATAATAAAAAGAACATAAGTAAAAGTCTA
1 AGTCCAAATAAACTACAAAAA-AATACAACAAGATTATAATAAAAA-AACATAAGTAAAAGTCCA
* *
7408990 AGTAAACAACATGAGTCGAAA-TAAACAACAACACTATAATAAAAAAAATATAAGCAAAAGTCCA
64 AGTAAACAACATGAGTC-AAAGTAAACAACAACATTATAA-AAAAAAAACATAAGCAAAAGTCCA
* * *
7409054 AAATATAATAGAAACCTACACCAG-TCAAAAAAAAAAAAGAACACAACAAAAGTCCAATTAACCA
127 AAATACAATAGAAATCTACACCAGACCAAAAAAAAAAAAGAACACAACAAAAGTCCAATTAACCA
*
7409118 ACAACAATAACAAACCAAACCAAACTAATAACAATAACACATTAGTTCAAAAACCATTATAGAAT
192 ACAACAATAACAAACCAAACCAAACTAATAACAATAACACATCAGTTCAAAAACCATTATAGAAT
7409183 AGTTCAAGTTTCTTCATG
257 AGTTCAAGTTTCTTCATG
* *
7409201 AGTCTAAATAAACATTA-AAAACAATACAACAAGATTATAATAAAAAAACATAAGTAAAAGTCCA
1 AGTCCAAATAAAC--TACAAAAAAATACAACAAGATTATAATAAAAAAACATAAGTAAAAGTCCA
*
7409265 AGTAAACAACATGAGTCAAAGTAAACAACAATATTATATAACAAAAAAACATAAGCAAAAGTCCA
64 AGTAAACAACATGAGTCAAAGTAAACAACAACATTATA-AA-AAAAAAACATAAGCAAAAGTCCA
* *
7409330 AAATACAATAGAAATCTACACCAGACCAAAAAGAAAAAAGAACACAACAAAAATCCAATTAACCA
127 AAATACAATAGAAATCTACACCAGACCAAAAAAAAAAAAGAACACAACAAAAGTCCAATTAACCA
*
7409395 ACAACAATAACAAACCAAACCAAACTAATAACAATAACAGATCAGTTCAAAAACCATTATAGAAT
192 ACAACAATAACAAACCAAACCAAACTAATAACAATAACACATCAGTTCAAAAACCATTATAGAAT
*
7409460 AGTTTAAGTTTCTTCATG
257 AGTTCAAGTTTCTTCATG
* *
7409478 AGTCCAAATAAACTACAAAAAAATACAATAATATTATAATAAAAAAACATAAGTAAAAGTCCAAG
1 AGTCCAAATAAACTACAAAAAAATACAACAAGATTATAATAAAAAAACATAAGTAAAAGTCCAAG
* * * * * *
7409543 TAAATAGCATGACTCGAAGTAAATAACAACATTAAAATAAAAAAAACATAAGCAAAAGTCCAAAA
66 TAAACAACATGAGTCAAAGTAAACAACAACATTATAA-AAAAAAAACATAAGCAAAAGTCCAAAA
* * **
7409608 TGCAATAGAAATCTACACCA-ATCCAAACAAACAAAAAAAAACACAACAAAAGTTTAATTAACCA
130 TACAATAGAAATCTACACCAGA-CCAAA-AAA-AAAAAAGAACACAACAAAAGTCCAATTAACCA
*
7409672 ACAACAACAACAAACCAAACCAAACTAATAACAATAACAC
192 ACAACAATAACAAACCAAACCAAACTAATAACAATAACAC
7409712 CATTATAGAA
Statistics
Matches: 466, Mismatches: 34, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
274 4 0.01
275 103 0.22
276 159 0.34
277 199 0.43
278 1 0.00
ACGTcount: A:0.58, C:0.18, G:0.07, T:0.17
Consensus pattern (274 bp):
AGTCCAAATAAACTACAAAAAAATACAACAAGATTATAATAAAAAAACATAAGTAAAAGTCCAAG
TAAACAACATGAGTCAAAGTAAACAACAACATTATAAAAAAAAAACATAAGCAAAAGTCCAAAAT
ACAATAGAAATCTACACCAGACCAAAAAAAAAAAAGAACACAACAAAAGTCCAATTAACCAACAA
CAATAACAAACCAAACCAAACTAATAACAATAACACATCAGTTCAAAAACCATTATAGAATAGTT
CAAGTTTCTTCATG
Found at i:7410001 original size:19 final size:20
Alignment explanation
Indices: 7409977--7410021 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
7409967 TAAAGTTAAA
*
7409977 TTATTTAATCATTTTTA-TT
1 TTATTTAATCATTTTAATTT
* *
7409996 TTATTTTATTATTTTAATTT
1 TTATTTAATCATTTTAATTT
7410016 TTATTT
1 TTATTT
7410022 CTTTCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATTTAATCATTTTAATTT
Found at i:7410009 original size:13 final size:12
Alignment explanation
Indices: 7409987--7410021 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
7409977 TTATTTAATC
7409987 ATTTTTATTTTA
1 ATTTTTATTTTA
*
7409999 TTTTATTATTTTA
1 ATTT-TTATTTTA
7410012 ATTTTTATTT
1 ATTTTTATTT
7410022 CTTTCTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:7412651 original size:123 final size:123
Alignment explanation
Indices: 7412430--7412670 Score: 437
Period size: 123 Copynumber: 2.0 Consensus size: 123
7412420 GGTAGTGAAA
* * *
7412430 GAGGTATTAGAGGAAGTGTTCGAAGTTAGGATAAGGGAGGCTAGTGAAACTCTGTAAGATAGGTG
1 GAGGTATTAGAGGAAGTGTTCGAAGCTAGGATAAGGGAGACTAGTGAAACTCTATAAGATAGGTG
7412495 CGTGGATTGTGGGAAGAAAAGAGATCGCAGTCCTCTGAGGTTGGAGCCTCATTGAGGG
66 CGTGGATTGTGGGAAGAAAAGAGATCGCAGTCCTCTGAGGTTGGAGCCTCATTGAGGG
7412553 GAGGTATTAGAGGAAGTGTTCGAAGCTAGGATAAGGGAGACTAGTGAAACTCTATAAGATAGGTG
1 GAGGTATTAGAGGAAGTGTTCGAAGCTAGGATAAGGGAGACTAGTGAAACTCTATAAGATAGGTG
* *
7412618 CGTGGATTGTGGGAAGAAAAGAGATTGCGGTCCTCTGAGGTTGGAGCCTCATT
66 CGTGGATTGTGGGAAGAAAAGAGATCGCAGTCCTCTGAGGTTGGAGCCTCATT
7412671 CTTCGAAGCG
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.29, C:0.11, G:0.36, T:0.24
Consensus pattern (123 bp):
GAGGTATTAGAGGAAGTGTTCGAAGCTAGGATAAGGGAGACTAGTGAAACTCTATAAGATAGGTG
CGTGGATTGTGGGAAGAAAAGAGATCGCAGTCCTCTGAGGTTGGAGCCTCATTGAGGG
Found at i:7414105 original size:19 final size:21
Alignment explanation
Indices: 7414065--7414105 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7414055 CGGGCATGTA
*
7414065 TGGCCTTCACATAGGCGTGTG
1 TGGCCTCCACATAGGCGTGTG
*
7414086 TGGCCTCCACATAGGTGTGT
1 TGGCCTCCACATAGGCGTGT
7414106 AGACCACTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (21 bp):
TGGCCTCCACATAGGCGTGTG
Found at i:7417789 original size:21 final size:20
Alignment explanation
Indices: 7417772--7417808 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7417762 GAGCAAAAGG
7417772 ACAGAG-AAACGAGCCAAAA
1 ACAGAGAAAACGAGCCAAAA
*
7417791 ACAGAGAAAACGGGCCAA
1 ACAGAGAAAACGAGCCAA
7417809 CGTGGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.54, C:0.22, G:0.24, T:0.00
Consensus pattern (20 bp):
ACAGAGAAAACGAGCCAAAA
Found at i:7420315 original size:19 final size:19
Alignment explanation
Indices: 7420291--7420348 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 19
7420281 AAGGAAAATG
7420291 GAGCGAAAATCATTCAATA
1 GAGCGAAAATCATTCAATA
*
7420310 GAGCGAAACAT-ATGCAAATA
1 GAGCGAAA-ATCATTC-AATA
7420330 GAGCGAAAATCATTCAATA
1 GAGCGAAAATCATTCAATA
7420349 ATTCAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (19 bp):
GAGCGAAAATCATTCAATA
Found at i:7420500 original size:3 final size:3
Alignment explanation
Indices: 7420494--7420538 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
7420484 ACTAATAATT
*
7420494 AAG AAG AAG AAT AAG AAG AAG AAG AAG AAG AAG AAG AAGG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG AA
7420539 TGGTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:7420838 original size:9 final size:9
Alignment explanation
Indices: 7420826--7420862 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
7420816 ATATAGTTTA
*
7420826 TATTCGATT
1 TATTCGAAT
7420835 TATTCGAAT
1 TATTCGAAT
*
7420844 TATTCGAGT
1 TATTCGAAT
7420853 TATTCGAAT
1 TATTCGAAT
7420862 T
1 T
7420863 CGAAAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7420849 original size:18 final size:18
Alignment explanation
Indices: 7420826--7420862 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
7420816 ATATAGTTTA
*
7420826 TATTCGATTTATTCGAAT
1 TATTCGAGTTATTCGAAT
7420844 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
7420862 T
1 T
7420863 CGAAAATTCA
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:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:7424828 original size:14 final size:14
Alignment explanation
Indices: 7424809--7424837 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7424799 CATACACAGC
7424809 TCTTGAACTCCATG
1 TCTTGAACTCCATG
7424823 TCTTGAACTCCATG
1 TCTTGAACTCCATG
7424837 T
1 T
7424838 TCTTCACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.38
Consensus pattern (14 bp):
TCTTGAACTCCATG
Found at i:7425449 original size:103 final size:103
Alignment explanation
Indices: 7425270--7425476 Score: 405
Period size: 103 Copynumber: 2.0 Consensus size: 103
7425260 GAATAGAAAA
*
7425270 AAAGTTACATAAAGTTTTTAATGTAATTTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
1 AAAGTTACATAAAGTTTTTAATGTAAATTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
7425335 AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
66 AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
7425373 AAAGTTACATAAAGTTTTTAATGTAAATTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
1 AAAGTTACATAAAGTTTTTAATGTAAATTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
7425438 AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
66 AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
7425476 A
1 A
7425477 CATTCTATTT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (103 bp):
AAAGTTACATAAAGTTTTTAATGTAAATTTTTTCATTCAGGAGTTAACAAAATTAATAACCTAAC
AAAATAACTTTCAAATAATAAAATTACTAACAAACTCT
Found at i:7426260 original size:27 final size:27
Alignment explanation
Indices: 7426221--7426352 Score: 90
Period size: 27 Copynumber: 4.9 Consensus size: 27
7426211 AAAATTAAGC
*
7426221 ACCAGTGGTGCCTATCAGATAGGCGT-A
1 ACCAGTGGCGCCTATCAGATAGGC-TCA
* * *
7426248 ACCAGTGGCGCCTGTTAGATAGGCTCC
1 ACCAGTGGCGCCTATCAGATAGGCTCA
* * *
7426275 ACCAGTCGCGCCTA-CTAGATAGACTCC
1 ACCAGTGGCGCCTATC-AGATAGGCTCA
* * * *
7426302 ACCAGTCGCACCTA-CTAGATAGACTCC
1 ACCAGTGGCGCCTATC-AGATAGGCTCA
* * *
7426329 ACTAGTTGCGCCTACCAGATAGGC
1 ACCAGTGGCGCCTATCAGATAGGC
7426353 ACTACCTACC
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 87 0.98
28 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.20
Consensus pattern (27 bp):
ACCAGTGGCGCCTATCAGATAGGCTCA
Found at i:7426756 original size:22 final size:25
Alignment explanation
Indices: 7426731--7426775 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
7426721 TTAATTCATT
7426731 AAATA-ATATATTT-TG-TAATTTC
1 AAATATATATATTTGTGCTAATTTC
7426753 AAATATATATATTTGTGCTAATT
1 AAATATATATATTTGTGCTAATT
7426776 AAATGATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 8 0.40
24 2 0.10
25 5 0.25
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (25 bp):
AAATATATATATTTGTGCTAATTTC
Found at i:7426779 original size:23 final size:20
Alignment explanation
Indices: 7426728--7426779 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 20
7426718 TTTTTAATTC
7426728 ATTAAATAATATATTTTGTA
1 ATTAAATAATATATTTTGTA
7426748 ATTTCAAATATATATATTTGTGCTA
1 A-TT-AAATA-ATATATTT-TG-TA
7426773 ATTAAAT
1 ATTAAAT
7426780 GATGATTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 1 0.04
21 2 0.07
22 5 0.19
23 12 0.44
24 4 0.15
25 3 0.11
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (20 bp):
ATTAAATAATATATTTTGTA
Found at i:7429293 original size:27 final size:28
Alignment explanation
Indices: 7429255--7429394 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
7429245 AGCATGGCTG
* *
7429255 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
7429281 CCAGATATAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
7429309 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
7429336 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
7429363 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
7429390 CCAGA
1 CCAGA
7429395 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:7431050 original size:26 final size:26
Alignment explanation
Indices: 7431014--7431123 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
7431004 CATGAAATTC
7431014 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
7431040 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
7431066 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
7431092 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
7431118 TTATCA
1 TTATCA
7431124 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:7435190 original size:18 final size:18
Alignment explanation
Indices: 7435167--7435208 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
7435157 AAGTTGTGAT
7435167 AATTATAATTTAAATTAC
1 AATTATAATTTAAATTAC
7435185 AATTATAATTTAAATTAC
1 AATTATAATTTAAATTAC
7435203 AATTAT
1 AATTAT
7435209 TAGTGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTATAATTTAAATTAC
Found at i:7443324 original size:16 final size:16
Alignment explanation
Indices: 7443303--7443349 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7443293 AAAATTTATA
7443303 TATTTTAATAAAATTG
1 TATTTTAATAAAATTG
*
7443319 TATTTTAA-AACATATG
1 TATTTTAATAAAAT-TG
*
7443335 T-TGTTAATAAAATTG
1 TATTTTAATAAAATTG
7443350 AATGCTTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.47
Consensus pattern (16 bp):
TATTTTAATAAAATTG
Found at i:7445906 original size:23 final size:22
Alignment explanation
Indices: 7445855--7445906 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
7445845 CCTCGTCTTT
*
7445855 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
7445877 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
7445900 TTCTTTT
1 TTCTTTT
7445907 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:7450398 original size:14 final size:16
Alignment explanation
Indices: 7450369--7450404 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
7450359 GAGTAATTGA
7450369 TTTAAAAAATTATATT
1 TTTAAAAAATTATATT
*
7450385 TTTAAAAAATTATTTT
1 TTTAAAAAATTATATT
7450401 TTTA
1 TTTA
7450405 TTTTAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAAAAAATTATATT
Found at i:7451896 original size:21 final size:22
Alignment explanation
Indices: 7451870--7451914 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
7451860 ATTAGTCAGC
* *
7451870 AAGAAATGAATAA-AAATGAGG
1 AAGAAATGAAGAAGAAAAGAGG
7451891 AAGAAATGAAGAAGAAAAGAGG
1 AAGAAATGAAGAAGAAAAGAGG
7451913 AA
1 AA
7451915 ATTTCAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (22 bp):
AAGAAATGAAGAAGAAAAGAGG
Found at i:7451899 original size:11 final size:11
Alignment explanation
Indices: 7451870--7451907 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7451860 ATTAGTCAGC
*
7451870 AAGAAATGAAT
1 AAGAAATGAAG
*
7451881 AA-AAATGAGG
1 AAGAAATGAAG
7451891 AAGAAATGAAG
1 AAGAAATGAAG
7451902 AAGAAA
1 AAGAAA
7451908 AGAGGAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.11
Consensus pattern (11 bp):
AAGAAATGAAG
Found at i:7452028 original size:3 final size:3
Alignment explanation
Indices: 7452022--7452051 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7452012 AGTGGTGGTT
7452022 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
7452052 AATATTGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:7463760 original size:23 final size:24
Alignment explanation
Indices: 7463730--7463784 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
7463720 TCCAACTTAA
7463730 ATTTAAAT-TAAAAATAAAAAATT
1 ATTTAAATCTAAAAATAAAAAATT
** *
7463753 ATTTAAATCTAATTATAAAATATT
1 ATTTAAATCTAAAAATAAAAAATT
7463777 ATTATAAA
1 ATT-TAAA
7463785 AATATTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 8 0.30
24 15 0.56
25 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTAAATCTAAAAATAAAAAATT
Found at i:7470560 original size:21 final size:20
Alignment explanation
Indices: 7470524--7470562 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7470514 TGTCGATGAC
7470524 CAAAAGTTCATGCAAACAGA
1 CAAAAGTTCATGCAAACAGA
7470544 CAAAATGTTC-TGACAAACA
1 CAAAA-GTTCATG-CAAACA
7470563 AACGTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.21, G:0.13, T:0.18
Consensus pattern (20 bp):
CAAAAGTTCATGCAAACAGA
Found at i:7484441 original size:25 final size:26
Alignment explanation
Indices: 7484411--7484467 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
7484401 TTAACTACAG
*
7484411 TTTTCAGTA-TATACTAACTAGAGTA
1 TTTTCAGCAGTATACTAACTAGAGTA
* *
7484436 TTTTCA-CAGTATACTACCTATAGTA
1 TTTTCAGCAGTATACTAACTAGAGTA
*
7484461 GTTTCAG
1 TTTTCAG
7484468 AATAGCATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (26 bp):
TTTTCAGCAGTATACTAACTAGAGTA
Found at i:7485842 original size:17 final size:17
Alignment explanation
Indices: 7485822--7485856 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7485812 TTGGCCTTGG
7485822 CCGTCACATGGCCATGT
1 CCGTCACATGGCCATGT
7485839 CCGTCACATGGCCATGT
1 CCGTCACATGGCCATGT
7485856 C
1 C
7485857 TTGCGCGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.37, G:0.23, T:0.23
Consensus pattern (17 bp):
CCGTCACATGGCCATGT
Found at i:7488532 original size:41 final size:40
Alignment explanation
Indices: 7488473--7488557 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 40
7488463 CATTTCCAGC
*
7488473 TGGAAGCTCTTTTACCACATTAACTGAAAAAGCTTCCACT
1 TGGAAGCTCTTTTACCACATCAACTGAAAAAGCTTCCACT
* ** * *
7488513 TGGAAGCTCTTTCTGCCACATCAGTTGAAAAAGCTTTCAGT
1 TGGAAGCTCTTT-TACCACATCAACTGAAAAAGCTTCCACT
7488554 TGGA
1 TGGA
7488558 GGCATTTTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
40 12 0.32
41 26 0.68
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (40 bp):
TGGAAGCTCTTTTACCACATCAACTGAAAAAGCTTCCACT
Found at i:7490679 original size:30 final size:30
Alignment explanation
Indices: 7490624--7490681 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7490614 AGAAGAGCAT
* *
7490624 CAAGGCATTGGAAGCACGCAGAAGAAGAAA
1 CAAGGCATTGGAAGCACACAAAAGAAGAAA
* *
7490654 CAAGGCATTGGGAGCGCACAAAAGAAGA
1 CAAGGCATTGGAAGCACACAAAAGAAGA
7490682 GGCACTGCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.45, C:0.17, G:0.31, T:0.07
Consensus pattern (30 bp):
CAAGGCATTGGAAGCACACAAAAGAAGAAA
Found at i:7492796 original size:44 final size:44
Alignment explanation
Indices: 7492701--7492800 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
7492691 AGAAATGAGC
* * *
7492701 CATGTAAGTCCATATTAGAAATATGGCTTTGGAGAAAGGATTTAG
1 CATGTAAGTCCATATTA-AAATATGGCATTGGAGAAAGGAATAAG
* * *
7492746 CTATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATAATT
1 C-ATGTAAGTCCATATTAAAATATGGCATTGGAGAAAGGAATAA-G
7492791 CATGTAAGTC
1 CATGTAAGTC
7492801 TATGTCAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
44 30 0.64
45 2 0.04
46 15 0.32
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (44 bp):
CATGTAAGTCCATATTAAAATATGGCATTGGAGAAAGGAATAAG
Found at i:7502819 original size:11 final size:11
Alignment explanation
Indices: 7502803--7502827 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7502793 ATATCTAGAA
7502803 TTCTCTTCATT
1 TTCTCTTCATT
7502814 TTCTCTTCATT
1 TTCTCTTCATT
7502825 TTC
1 TTC
7502828 ATCAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:7508442 original size:22 final size:22
Alignment explanation
Indices: 7508395--7508442 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7508385 TAAGGTAATA
* *
7508395 AAAATAGTGAGAAAACAATAAG
1 AAAATAGTGAGAAAACAACAAC
7508417 AAAATAGT-AGCAAAACAACAAC
1 AAAATAGTGAG-AAAACAACAAC
7508439 AAAA
1 AAAA
7508443 AAGCAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.67, C:0.10, G:0.12, T:0.10
Consensus pattern (22 bp):
AAAATAGTGAGAAAACAACAAC
Found at i:7511279 original size:16 final size:16
Alignment explanation
Indices: 7511258--7511297 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
7511248 GTAGATTATC
7511258 GGAAGCTTGATCGATT
1 GGAAGCTTGATCGATT
7511274 GGAAGCTTGATCGATT
1 GGAAGCTTGATCGATT
7511290 GGAAGCTT
1 GGAAGCTT
7511298 TTTGGAGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.33, T:0.30
Consensus pattern (16 bp):
GGAAGCTTGATCGATT
Found at i:7513471 original size:16 final size:16
Alignment explanation
Indices: 7513433--7513474 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
7513423 AGTGTATTAT
7513433 TATT-ATTATTAATTTA
1 TATTAATTA-TAATTTA
*
7513449 T-TAAATTATAATTTA
1 TATTAATTATAATTTA
7513464 TATTAATTATA
1 TATTAATTATA
7513475 TTATGAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTAATTATAATTTA
Found at i:7513621 original size:15 final size:15
Alignment explanation
Indices: 7513603--7513634 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7513593 TTAAGTAAAG
7513603 ATAT-TTATA-TATT
1 ATATATTATATTATT
7513616 ATATATTATATTATT
1 ATATATTATATTATT
7513631 ATAT
1 ATAT
7513635 TAATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 5 0.29
15 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATATTATATTATT
Found at i:7517141 original size:78 final size:78
Alignment explanation
Indices: 7517007--7517173 Score: 253
Period size: 78 Copynumber: 2.1 Consensus size: 78
7516997 ATTATATCCT
* *
7517007 TGATTGCACTTACATGCCCTTATTTTACTTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGT
1 TGATAGCACTTACATGCCCTTATTGTACTTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGT
*
7517072 ACTTCGGTACCCC
66 ACTTCAGTACCCC
* * * *
7517085 TGATCGCACTTACATGCCGTTGTTGTATTTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGT
1 TGATAGCACTTACATGCCCTTATTGTACTTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGT
**
7517150 ACTTCAGTATTCC
66 ACTTCAGTACCCC
7517163 TGATAGCACTT
1 TGATAGCACTT
7517174 TTAAGTCGTG
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (78 bp):
TGATAGCACTTACATGCCCTTATTGTACTTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGT
ACTTCAGTACCCC
Found at i:7517173 original size:39 final size:39
Alignment explanation
Indices: 7517004--7517154 Score: 230
Period size: 39 Copynumber: 3.9 Consensus size: 39
7516994 ATAATTATAT
* * * *
7517004 CCTTGATTGCACTTACATGCCCTTATTTTACTTCGGTAC
1 CCTTGATCGCACTTACATGCCCCTGTTGTACTTCGGTAC
7517043 CCTTGATCGCACTTACATGCCCCTGTTGTACTTCGGTAC
1 CCTTGATCGCACTTACATGCCCCTGTTGTACTTCGGTAC
* ** *
7517082 CCCTGATCGCACTTACATGCCGTTGTTGTATTTCGGTAC
1 CCTTGATCGCACTTACATGCCCCTGTTGTACTTCGGTAC
7517121 CCTTGATCGCACTTACATGCCCCTGTTGTACTTC
1 CCTTGATCGCACTTACATGCCCCTGTTGTACTTC
7517155 AGTATTCCTG
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 100 1.00
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.36
Consensus pattern (39 bp):
CCTTGATCGCACTTACATGCCCCTGTTGTACTTCGGTAC
Found at i:7517193 original size:78 final size:78
Alignment explanation
Indices: 7517035--7517193 Score: 219
Period size: 78 Copynumber: 2.0 Consensus size: 78
7517025 CTTATTTTAC
* * *
7517035 TTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGTACTTCGGTACCCCTGATCGCACTTACAT
1 TTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGTACTTCAGTACCCCTGATAGCACTTACAA
* **
7517100 GCCGTTGTTGTAT
66 GCCGTGGTTACAT
** **
7517113 TTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGTACTTCAGTATTCCTGATAGCACTTTTAA
1 TTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGTACTTCAGTACCCCTGATAGCACTTACAA
*
7517178 GTCGTGGTTACAT
66 GCCGTGGTTACAT
7517191 TTC
1 TTC
7517194 AGTAGCATTA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.36
Consensus pattern (78 bp):
TTCGGTACCCTTGATCGCACTTACATGCCCCTGTTGTACTTCAGTACCCCTGATAGCACTTACAA
GCCGTGGTTACAT
Found at i:7524550 original size:39 final size:39
Alignment explanation
Indices: 7524527--7524659 Score: 178
Period size: 39 Copynumber: 3.4 Consensus size: 39
7524517 TATATGCCTT
*
7524527 TATTGTACTTCGGTACCCTTGATCGCATTTACGTGCCCC
1 TATTGTACTTCGGTACCCTTGATCGCACTTACGTGCCCC
* *
7524566 TGTTGTAC-TCTGGTACCCCTGATCGCACTTACGTGCCCC
1 TATTGTACTTC-GGTACCCTTGATCGCACTTACGTGCCCC
* * * * *
7524605 TGTTTTACTTCGGTATCCTTGATTGCACTTACGTGCCCT
1 TATTGTACTTCGGTACCCTTGATCGCACTTACGTGCCCC
7524644 TATTGTACTTCGGTAC
1 TATTGTACTTCGGTAC
7524660 TTCTGATAGC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
38 2 0.02
39 77 0.95
40 2 0.02
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (39 bp):
TATTGTACTTCGGTACCCTTGATCGCACTTACGTGCCCC
Found at i:7524606 original size:20 final size:20
Alignment explanation
Indices: 7524546--7524606 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
7524536 TCGGTACCCT
*
7524546 TGATCGCATTTACGTGCCCC
1 TGATCGCACTTACGTGCCCC
* * * *
7524566 TG-TTGTACTCT-GGTACCCC
1 TGATCGCACT-TACGTGCCCC
7524585 TGATCGCACTTACGTGCCCC
1 TGATCGCACTTACGTGCCCC
7524605 TG
1 TG
7524607 TTTTACTTCG
Statistics
Matches: 29, Mismatches: 9, Indels: 6
0.66 0.20 0.14
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.13, C:0.34, G:0.21, T:0.31
Consensus pattern (20 bp):
TGATCGCACTTACGTGCCCC
Found at i:7531277 original size:36 final size:36
Alignment explanation
Indices: 7531237--7531308 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
7531227 GGTGCCCCAA
*
7531237 ACCCAATCGAGACAGCCCGATCTGAGTTTCAAACGT
1 ACCCAATCGAGACAGCCCGATCTAAGTTTCAAACGT
* *
7531273 ACCCAGTCGGGACAGCCCGATCTAAGTTTCAAACGT
1 ACCCAATCGAGACAGCCCGATCTAAGTTTCAAACGT
7531309 CTCATTAGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (36 bp):
ACCCAATCGAGACAGCCCGATCTAAGTTTCAAACGT
Found at i:7533166 original size:17 final size:17
Alignment explanation
Indices: 7533119--7533296 Score: 124
Period size: 17 Copynumber: 10.4 Consensus size: 17
7533109 ATATGATAAT
*
7533119 AGGGTTCGCATATATAG
1 AGGGTTCGCACATATAG
**
7533136 TAGGGGTTTACACATATAG
1 -A-GGGTTCGCACATATAG
* *
7533155 AGGGTTCGCACAAATGG
1 AGGGTTCGCACATATAG
* * *
7533172 AAGGTTTGCACATACAG
1 AGGGTTCGCACATATAG
* *
7533189 AGGGTTTGCATATATA-
1 AGGGTTCGCACATATAG
* * *
7533205 ACGAGTTCACACATATGG
1 A-GGGTTCGCACATATAG
* * *
7533223 AGGGTTCACACAAATGG
1 AGGGTTCGCACATATAG
* *
7533240 TGGGTTCGCACATATGG
1 AGGGTTCGCACATATAG
*
7533257 AGGGTTCACACATATAG
1 AGGGTTCGCACATATAG
* * *
7533274 AGGGTTTGCACAAATAA
1 AGGGTTCGCACATATAG
7533291 AGGGTT
1 AGGGTT
7533297 TGTACAAATG
Statistics
Matches: 125, Mismatches: 32, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
16 1 0.01
17 108 0.86
18 3 0.02
19 13 0.10
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (17 bp):
AGGGTTCGCACATATAG
Found at i:7533272 original size:68 final size:68
Alignment explanation
Indices: 7533145--7533272 Score: 166
Period size: 68 Copynumber: 1.9 Consensus size: 68
7533135 GTAGGGGTTT
* * ** *
7533145 ACACATATAGAGGGTTCGCACAAATGGAAGGTTTGCACATACAGAGGGTTTGCATATATAACGAG
1 ACACATATAGAGGGTTCACACAAATGGAAGGTTCGCACATACAGAGGGTTCACACATATAACGAG
7533210 TTC
66 TTC
* ** **
7533213 ACACATATGGAGGGTTCACACAAATGGTGGGTTCGCACATATGGAGGGTTCACACATATA
1 ACACATATAGAGGGTTCACACAAATGGAAGGTTCGCACATACAGAGGGTTCACACATATA
7533273 GAGGGTTTGC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 50 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (68 bp):
ACACATATAGAGGGTTCACACAAATGGAAGGTTCGCACATACAGAGGGTTCACACATATAACGAG
TTC
Found at i:7533296 original size:51 final size:51
Alignment explanation
Indices: 7533139--7533323 Score: 160
Period size: 51 Copynumber: 3.6 Consensus size: 51
7533129 TATATAGTAG
* * * * * *
7533139 GGGTTTACACATATAGA-GGGTTCGCACAAATGGAAGGTTTGCACATACAGA
1 GGGTTTGCACATAT-GACGGGTTCACACATATGGAGGGTTTGCACAAATAGA
* * * ** * *
7533190 GGGTTTGCATATATAACGAGTTCACACATATGGAGGGTTCACACAAATGGT
1 GGGTTTGCACATATGACGGGTTCACACATATGGAGGGTTTGCACAAATAGA
* * *
7533241 GGGTTCGCACATATGGA-GGGTTCACACATATAGAGGGTTTGCACAAATAAA
1 GGGTTTGCACATAT-GACGGGTTCACACATATGGAGGGTTTGCACAAATAGA
* * *
7533292 GGGTTTGTACAAATGATGGGTTCACACA-ATGG
1 GGGTTTGCACATATGACGGGTTCACACATATGG
7533324 CTTGGCTCGC
Statistics
Matches: 104, Mismatches: 27, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
50 6 0.06
51 97 0.93
52 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (51 bp):
GGGTTTGCACATATGACGGGTTCACACATATGGAGGGTTTGCACAAATAGA
Found at i:7533320 original size:17 final size:17
Alignment explanation
Indices: 7533209--7533320 Score: 91
Period size: 17 Copynumber: 6.6 Consensus size: 17
7533199 TATATAACGA
*
7533209 GTTCACACATATGGAGG
1 GTTCACACAAATGGAGG
*
7533226 GTTCACACAAATGGTGG
1 GTTCACACAAATGGAGG
* *
7533243 GTTCGCACATATGGAGG
1 GTTCACACAAATGGAGG
* *
7533260 GTTCACACATATAGAGG
1 GTTCACACAAATGGAGG
** **
7533277 GTTTGCACAAATAAAGG
1 GTTCACACAAATGGAGG
***
7533294 GTTTGTACAAAT-GATGG
1 GTTCACACAAATGGA-GG
7533311 GTTCACACAA
1 GTTCACACAA
7533321 TGGCTTGGCT
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
16 1 0.01
17 77 0.99
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (17 bp):
GTTCACACAAATGGAGG
Found at i:7533351 original size:17 final size:17
Alignment explanation
Indices: 7533326--7533359 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7533316 CACAATGGCT
*
7533326 TGGCTCGCATAAAGGTA
1 TGGCCCGCATAAAGGTA
*
7533343 TGGCCCGCATAATGGTA
1 TGGCCCGCATAAAGGTA
7533360 AGGTTCGCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (17 bp):
TGGCCCGCATAAAGGTA
Found at i:7533368 original size:17 final size:17
Alignment explanation
Indices: 7533348--7533443 Score: 52
Period size: 17 Copynumber: 5.6 Consensus size: 17
7533338 AGGTATGGCC
7533348 CGCATAATGGTAAGGTT
1 CGCATAATGGTAAGGTT
* * *
7533365 CGCACT-ATTGTATGGCT
1 CGCA-TAATGGTAAGGTT
* * *
7533382 CACACAATGGT-ATGTCT
1 CGCATAATGGTAAGGT-T
* * **
7533399 CGCATAAAGGTATGGCA
1 CGCATAATGGTAAGGTT
* *
7533416 CTCACAATGGTAAGGTT
1 CGCATAATGGTAAGGTT
7533433 CGCATAATGGT
1 CGCATAATGGT
7533444 TTGGTTTGCA
Statistics
Matches: 51, Mismatches: 24, Indels: 8
0.61 0.29 0.10
Matches are distributed among these distances:
16 1 0.02
17 48 0.94
18 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (17 bp):
CGCATAATGGTAAGGTT
Found at i:7533368 original size:34 final size:34
Alignment explanation
Indices: 7533330--7533439 Score: 116
Period size: 34 Copynumber: 3.2 Consensus size: 34
7533320 ATGGCTTGGC
* * *
7533330 TCGCATAAAGGTATGGCCCGCATAATGGTAAGGT
1 TCGCATAAAGGTATGGCACACACAATGGTAAGGT
** * *
7533364 TCGCACT-ATTGTATGGCTCACACAATGGT-ATGT
1 TCGCA-TAAAGGTATGGCACACACAATGGTAAGGT
*
7533397 CTCGCATAAAGGTATGGCACTCACAATGGTAAGGT
1 -TCGCATAAAGGTATGGCACACACAATGGTAAGGT
7533432 TCGCATAA
1 TCGCATAA
7533440 TGGTTTGGTT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
33 4 0.07
34 53 0.87
35 4 0.07
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (34 bp):
TCGCATAAAGGTATGGCACACACAATGGTAAGGT
Found at i:7533469 original size:68 final size:68
Alignment explanation
Indices: 7533327--7533470 Score: 164
Period size: 68 Copynumber: 2.1 Consensus size: 68
7533317 ACAATGGCTT
* * * *
7533327 GGCTCGCATAAAGGTATGGCCCGCATAATGGTAAGGTTCGCACTATTGTATGGCTCACACAATGG
1 GGCTCGCATAAAGGTATGGCACGCACAATGGTAAGGTTCGCACTATGGTATGGCTCACACAAAGG
*
7533392 TAT
66 TAA
* * * * **
7533395 GTCTCGCATAAAGGTATGGCACTCACAATGGTAAGGTTCGCA-TAATGGTTTGGTTTGCACAAAG
1 GGCTCGCATAAAGGTATGGCACGCACAATGGTAAGGTTCGCACT-ATGGTATGGCTCACACAAAG
*
7533459 TTAA
65 GTAA
7533463 GGCTCGCA
1 GGCTCGCA
7533471 CTATCACATA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
67 1 0.02
68 61 0.98
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (68 bp):
GGCTCGCATAAAGGTATGGCACGCACAATGGTAAGGTTCGCACTATGGTATGGCTCACACAAAGG
TAA
Found at i:7536282 original size:40 final size:40
Alignment explanation
Indices: 7536238--7536447 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
7536228 GGACTAAGAT
* * * *
7536238 CCGAAGGCCTTTGTGCGAGATACTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
7536278 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
7536318 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * *
7536358 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * ** * *
7536398 CCGAAGGCATT-GTGTGAGTTACTAAAATCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
7536437 CCGAAGGCATT
1 CCGAAGGCATT
7536448 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 32 0.21
40 124 0.79
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
Found at i:7536467 original size:79 final size:80
Alignment explanation
Indices: 7536238--7536482 Score: 235
Period size: 80 Copynumber: 3.1 Consensus size: 80
7536228 GGACTAAGAT
* * * * * ** * *
7536238 CCGAAGGCCTTTGTGCGAGATACTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
*
7536302 AAAGCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
7536318 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
7536383 AATCCGGGTTACGTC
66 AATCCGGGTTAAGTC
* * * *
7536398 CCGAAGGCATT-GTGTGAGTTACTAAAATCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
7536462 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
7536476 CCGAAGG
1 CCGAAGG
7536483 TACGTGATTT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
78 14 0.10
79 46 0.32
80 82 0.58
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:7544237 original size:40 final size:40
Alignment explanation
Indices: 7544193--7544400 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
7544183 GGACTAAGAT
* * * *
7544193 CCGAAGGCCTTTGTGCGAGATACTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
7544233 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
7544273 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * *
7544313 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * * * *
7544353 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
7544392 CCGAAGGCA
1 CCGAAGGCA
7544401 CTTGAACGAG
Statistics
Matches: 155, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 31 0.20
40 124 0.80
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
Found at i:7544422 original size:79 final size:80
Alignment explanation
Indices: 7544193--7544437 Score: 237
Period size: 80 Copynumber: 3.1 Consensus size: 80
7544183 GGACTAAGAT
* * * * * ** * *
7544193 CCGAAGGCCTTTGTGCGAGATACTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
*
7544257 AAAGCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
7544273 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
7544338 AATCCGGGTTACGTC
66 AATCCGGGTTAAGTC
* *
7544353 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCACTT-GAACGAGGAGCT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA-TTCGAACGAGGAGCT
* *
7544416 ATATCC-GGTTAAATC
65 AAATCCGGGTTAAGTC
7544431 CCGAAGG
1 CCGAAGG
7544438 TACGTGATTT
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
78 14 0.10
79 45 0.31
80 84 0.59
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:7545901 original size:34 final size:34
Alignment explanation
Indices: 7545838--7545933 Score: 142
Period size: 34 Copynumber: 2.9 Consensus size: 34
7545828 TGCATTTTGT
* *
7545838 ACTGATATTATTACTGAATT-GGCTAAGGCCCAC
1 ACTGATACTGTTACTGAATTGGGCTAAGGCCCAC
* *
7545871 ACTGATACTGTTTCTGAATTGGGCTAAGGCCTAC
1 ACTGATACTGTTACTGAATTGGGCTAAGGCCCAC
7545905 ACTGATACTGTTACTGAA-TGGGCTAAGGC
1 ACTGATACTGTTACTGAATTGGGCTAAGGC
7545934 GCTAACTGAG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 28 0.49
34 29 0.51
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGATACTGTTACTGAATTGGGCTAAGGCCCAC
Found at i:7568329 original size:8 final size:8
Alignment explanation
Indices: 7568316--7568361 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
7568306 GTTTCTCCAT
7568316 TTTTTTAC
1 TTTTTTAC
7568324 TTTTTTAC
1 TTTTTTAC
7568332 TTTTTTGAC
1 TTTTTT-AC
*
7568341 TTTTGTAC
1 TTTTTTAC
7568349 TTTTTTAAC
1 TTTTTT-AC
7568358 TTTT
1 TTTT
7568362 ATTTATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
8 21 0.62
9 13 0.38
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.72
Consensus pattern (8 bp):
TTTTTTAC
Found at i:7568329 original size:9 final size:9
Alignment explanation
Indices: 7568315--7568397 Score: 59
Period size: 9 Copynumber: 9.6 Consensus size: 9
7568305 AGTTTCTCCA
7568315 TTTTTTTAC
1 TTTTTTTAC
7568324 -TTTTTTAC
1 TTTTTTTAC
*
7568332 TTTTTTGAC
1 TTTTTTTAC
*
7568341 -TTTTGTAC
1 TTTTTTTAC
*
7568349 TTTTTTAAC
1 TTTTTTTAC
7568358 TTTTATTTA-
1 TTTT-TTTAC
*
7568367 TTTATTTA-
1 TTTTTTTAC
7568375 TTTATTTTA-
1 TTT-TTTTAC
* *
7568384 TTTATTTAA
1 TTTTTTTAC
7568393 TTTTT
1 TTTTT
7568398 ATTTATTTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
8 25 0.42
9 31 0.53
10 3 0.05
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:7568337 original size:17 final size:17
Alignment explanation
Indices: 7568315--7568361 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
7568305 AGTTTCTCCA
* *
7568315 TTTTTTTACTTTTTTAC
1 TTTTTTAACTTTTGTAC
*
7568332 TTTTTTGACTTTTGTAC
1 TTTTTTAACTTTTGTAC
7568349 TTTTTTAACTTTT
1 TTTTTTAACTTTT
7568362 ATTTATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.72
Consensus pattern (17 bp):
TTTTTTAACTTTTGTAC
Found at i:7568368 original size:4 final size:4
Alignment explanation
Indices: 7568359--7568408 Score: 75
Period size: 4 Copynumber: 12.5 Consensus size: 4
7568349 TTTTTTAACT
*
7568359 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA TTTA ATT- TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA
7568407 TT
1 TT
7568409 ATTATTAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 2 0.05
4 36 0.86
5 4 0.10
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:7568429 original size:32 final size:28
Alignment explanation
Indices: 7568367--7568422 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 28
7568357 CTTTTATTTA
*
7568367 TTTATTTATTTATTTTATTTATTTAATT
1 TTTATTTATTTATTTTATTAATTTAATT
7568395 TTTATTTATTTATTATTATTAACTTTAA
1 TTTATTTATTTATT-TTATTAA-TTTAA
7568423 AATTTTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 14 0.56
29 6 0.24
30 5 0.20
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (28 bp):
TTTATTTATTTATTTTATTAATTTAATT
Found at i:7568451 original size:46 final size:45
Alignment explanation
Indices: 7568401--7568492 Score: 100
Period size: 46 Copynumber: 2.0 Consensus size: 45
7568391 AATTTTTATT
7568401 TATTTATT-AT-TATTAACTTTAAAATTTTTGAAATATATA-TTTAAAA
1 TATTTATTAATATATT--CTTTAAAA-TTTT-AAATATATACTTTAAAA
* * *
7568447 TATTTTTTAATATATTTTTTAAAATTTTAAATATATACTTTGAAA
1 TATTTATTAATATATTCTTTAAAATTTTAAATATATACTTTAAAA
7568492 T
1 T
7568493 TACTTTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
44 9 0.22
45 11 0.28
46 14 0.35
47 2 0.05
48 4 0.10
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (45 bp):
TATTTATTAATATATTCTTTAAAATTTTAAATATATACTTTAAAA
Found at i:7568461 original size:12 final size:12
Alignment explanation
Indices: 7568425--7568471 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
7568415 AACTTTAAAA
*
7568425 TTTTTGAAATAT
1 TTTTTAAAATAT
*
7568437 ATATTTAAAATAT
1 -TTTTTAAAATAT
*
7568450 TTTTTAATATAT
1 TTTTTAAAATAT
7568462 TTTTTAAAAT
1 TTTTTAAAAT
7568472 TTTAAATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (12 bp):
TTTTTAAAATAT
Found at i:7568474 original size:21 final size:21
Alignment explanation
Indices: 7568418--7568493 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 21
7568408 TATTATTAAC
7568418 TTTAAAATTTTTGAAATATATAT
1 TTTAAAATTTTT--AATATATAT
* *
7568441 TTAAAATATTTTTTAATATATTT
1 TTTAAA-A-TTTTTAATATATAT
* *
7568464 TTTAAAATTTTAAATATATAC
1 TTTAAAATTTTTAATATATAT
*
7568485 TTTGAAATT
1 TTTAAAATT
7568494 ACTTTTTTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 19 0.43
22 1 0.02
23 18 0.41
24 1 0.02
25 5 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTAAAATTTTTAATATATAT
Found at i:7568510 original size:7 final size:7
Alignment explanation
Indices: 7568500--7568543 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
7568490 AATTACTTTT
*
7568500 TTAAATT
1 TTAAATA
7568507 TTAAATA
1 TTAAATA
** *
7568514 TTATTTT
1 TTAAATA
7568521 TTAAATA
1 TTAAATA
7568528 TTAAATA
1 TTAAATA
7568535 TTAAATA
1 TTAAATA
7568542 TT
1 TT
7568544 TTTTTAATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TTAAATA
Found at i:7568522 original size:21 final size:22
Alignment explanation
Indices: 7568491--7568537 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
7568481 ATACTTTGAA
*
7568491 ATTACTTTTTTAAATTTTAAAT
1 ATTACTTTTTTAAATATTAAAT
7568513 ATTA-TTTTTTAAATATTAAAT
1 ATTACTTTTTTAAATATTAAAT
7568534 ATTA
1 ATTA
7568538 AATATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTACTTTTTTAAATATTAAAT
Found at i:7568524 original size:14 final size:14
Alignment explanation
Indices: 7568505--7568556 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
7568495 CTTTTTTAAA
7568505 TTTTAAATATTATT
1 TTTTAAATATTATT
**
7568519 TTTTAAATATTAAA
1 TTTTAAATATTATT
*
7568533 TATTAAATA-T-TT
1 TTTTAAATATTATT
7568545 TTTT-AATATTAT
1 TTTTAAATATTAT
7568557 AAAATATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
11 4 0.13
12 4 0.13
13 2 0.07
14 20 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAAATATTATT
Found at i:7568540 original size:28 final size:29
Alignment explanation
Indices: 7568500--7568574 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 29
7568490 AATTACTTTT
*
7568500 TTAAATTTTAAATATTATTTTTTAA-A-TA
1 TTAAATATTAAATATT-TTTTTTAATATTA
7568528 TTAAATATTAAATA-TTTTTTTAATATTA
1 TTAAATATTAAATATTTTTTTTAATATTA
*
7568556 TAAAATATTTAAATATTTT
1 TTAAATA-TTAAATATTTT
7568575 AAACTTTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 8 0.20
27 2 0.05
28 21 0.51
29 7 0.17
30 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATATTAAATATTTTTTTTAATATTA
Found at i:7568563 original size:21 final size:21
Alignment explanation
Indices: 7568496--7568565 Score: 61
Period size: 25 Copynumber: 3.1 Consensus size: 21
7568486 TTGAAATTAC
*
7568496 TTTTTTAA-ATTTTAAATATTAT
1 TTTTTTAATATTATAAA-A-TAT
*
7568518 TTTTTAAATATTAAATATTAAATAT
1 TTTTTTAATATT--ATA--AAATAT
7568543 TTTTTTAATATTATAAAATAT
1 TTTTTTAATATTATAAAATAT
7568564 TT
1 TT
7568566 AAATATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
21 8 0.20
22 7 0.17
23 6 0.15
25 16 0.40
26 1 0.03
27 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTTTAATATTATAAAATAT
Found at i:7568570 original size:18 final size:18
Alignment explanation
Indices: 7568523--7568577 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
7568513 ATTATTTTTT
7568523 AAATA-TTAAATATTA-A
1 AAATATTTAAATATTATA
* * *
7568539 ATATTTTTTTAATATTATA
1 A-AATATTTAAATATTATA
*
7568558 AAATATTTAAATATTTTA
1 AAATATTTAAATATTATA
7568576 AA
1 AA
7568578 CTTTCAAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 1 0.03
17 2 0.07
18 24 0.83
19 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATATTTAAATATTATA
Done.