Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 62 of 345
Found at i:19200429 original size:30 final size:28
Alignment explanation
Indices: 19200373--19200430 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
19200363 TTAAATTACC
*
19200373 AACTATATATATATATATATATTTTAAA
1 AACTATATATATATATATATAATTTAAA
19200401 AACT-TATCATATATATATACTCAATTTAAA
1 AACTATAT-ATATATATATA-T-AATTTAAA
19200431 TTTATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 15 0.58
29 1 0.04
30 7 0.27
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (28 bp):
AACTATATATATATATATATAATTTAAA
Found at i:19203237 original size:30 final size:30
Alignment explanation
Indices: 19203201--19203274 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
19203191 CTTAGGAGGA
19203201 CATTTAGGAACTTGAGAAGACCCGATATCT
1 CATTTAGGAACTTGAGAAGACCCGATATCT
* * *
19203231 CATTTA-GAAGCTTGGGAAGTCTCGATATCT
1 CATTTAGGAA-CTTGAGAAGACCCGATATCT
* *
19203261 CATTCAGGATCTTG
1 CATTTAGGAACTTG
19203275 GGATTGAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 3 0.08
30 32 0.86
31 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (30 bp):
CATTTAGGAACTTGAGAAGACCCGATATCT
Found at i:19203390 original size:66 final size:65
Alignment explanation
Indices: 19203212--19203390 Score: 207
Period size: 66 Copynumber: 2.7 Consensus size: 65
19203202 ATTTAGGAAC
* * * * * *
19203212 TTGAGAAGACCCGATATCTCATTTAGAAGCTTGGGAAGTCTCGATATCTCATTCAGGATCTTGGG
1 TTGAGAAGACCTGATATCTCGTTTAGGAGCTTGGGAAG-ATCGATATCGCATTCAGGATCTTAGG
19203277 A
65 A
* * * * *
19203278 TTGAGAAGACCTGATACCTTGTTCAAGAGCTTGGGAAGATTCGATATCGCATTTAGG-TGCTTAG
1 TTGAGAAGACCTGATATCTCGTTTAGGAGCTTGGGAAGA-TCGATATCGCATTCAGGAT-CTTAG
19203342 GA
64 GA
*
19203344 TTGAGAAGACTTGATATCTCGTTTAGGAGCTTGGGAAGATCAGATAT
1 TTGAGAAGACCTGATATCTCGTTTAGGAGCTTGGGAAGATC-GATAT
19203391 TTGATTTTTC
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
65 3 0.03
66 91 0.97
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (65 bp):
TTGAGAAGACCTGATATCTCGTTTAGGAGCTTGGGAAGATCGATATCGCATTCAGGATCTTAGGA
Found at i:19215233 original size:48 final size:46
Alignment explanation
Indices: 19215016--19215375 Score: 249
Period size: 47 Copynumber: 7.7 Consensus size: 46
19215006 ATATATTGCC
* *
19215016 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGTGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCT-C-TGTGCT
* *
19215066 GATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAG-T
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-GCT
* * * *
19215109 CGATACGTGTCCCAGACATGCCTTACACTAG--CT-ATCTCTGTCGAGACT
1 -GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT---G-CT
*
19215157 GATGCATGTCCTAGACATGTCTTACACTGGCACTCATCTCTGTGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCT
* * * *
19215203 GATGACATGTCTCAAACATGGTCTTACACTGGCTA-TCATAGTATG-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCAT-CTCTGTGCT
* * * * * *
19215251 AATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTC-GATACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG-TGCT
* * * *
19215297 GATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATATG-G-T
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTCTGTGCT
*
19215344 CGAAGCATGTCCCAGACATGTCTTACACTGGC
1 -GATGCATGTCCCAGACATGTCTTACACTGGC
19215376 GCACAAATCA
Statistics
Matches: 247, Mismatches: 39, Indels: 52
0.73 0.12 0.15
Matches are distributed among these distances:
43 7 0.03
44 31 0.13
45 2 0.01
46 43 0.17
47 75 0.30
48 55 0.22
49 21 0.09
50 13 0.05
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGCT
Found at i:19215267 original size:94 final size:94
Alignment explanation
Indices: 19215016--19215372 Score: 340
Period size: 94 Copynumber: 3.8 Consensus size: 94
19215006 ATATATTGCC
* * *
19215016 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGTGTGCTGATGCATGTCCCAG
1 GATGACATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCTAATGCATGTCCCAG
*
19215080 ACATGTCTTACACTAGCA--CAACTCT-TAG-T
63 ACATGTCTTACACTAGCACTCATCTCTGT-GCT
* * * * * * *
19215109 CGAT-ACGTGTCCCAGACAT-GCCTTACACTAGCTATC-TCTGTCGA-GACTGATGCATGTCCTA
1 -GATGACATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCTAATGCATGTCCCA
*
19215170 GACATGTCTTACACTGGCACTCATCTCTGTGCT
62 GACATGTCTTACACTAGCACTCATCTCTGTGCT
* *
19215203 GATGACATGTCTCAAACATGGTCTTACACTGGCTATCATAGTATGGCTAATGCATGTCCCAGACA
1 GATGACATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTAATGCATGTCCCAGACA
* * * *
19215268 TGTCTTACACTAGCCCTCGTCTC-GATACC
66 TGTCTTACACTAGCACTCATCTCTG-TGCT
* * * * *
19215297 GATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATATGGTCGAA-GCATGTCCCAGAC
1 GATGACATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGG-CTAATGCATGTCCCAGAC
19215361 ATGTCTTACACT
65 ATGTCTTACACT
19215373 GGCGCACAAA
Statistics
Matches: 218, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
91 33 0.15
92 15 0.07
93 26 0.12
94 122 0.56
95 21 0.10
96 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (94 bp):
GATGACATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTAATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCTGTGCT
Found at i:19218776 original size:46 final size:44
Alignment explanation
Indices: 19218672--19218779 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
19218662 TGTCTTTGAC
** * * *
19218672 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
19218716 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
19218762 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
19218780 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:19222706 original size:19 final size:19
Alignment explanation
Indices: 19222657--19222707 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
19222647 ATCTTTATAC
*
19222657 CTAATTAATCTTAATTAAGCT
1 CTAATTAATC--AATTAAACT
*
19222678 -AAATTCAATCAATTAAACT
1 CTAATT-AATCAATTAAACT
19222697 CTAATTAATCA
1 CTAATTAATCA
19222708 CTCAATTCGC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 13 0.52
20 8 0.32
21 4 0.16
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (19 bp):
CTAATTAATCAATTAAACT
Found at i:19227042 original size:16 final size:17
Alignment explanation
Indices: 19227021--19227056 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
19227011 GAGTCGAGAG
19227021 AAAATTGGAAGGGT-GA
1 AAAATTGGAAGGGTAGA
*
19227037 AAAATTGGAGGGGTAGA
1 AAAATTGGAAGGGTAGA
19227054 AAA
1 AAA
19227057 CTAGAAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.36, T:0.17
Consensus pattern (17 bp):
AAAATTGGAAGGGTAGA
Found at i:19239597 original size:16 final size:16
Alignment explanation
Indices: 19239526--19239595 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
19239516 TTTGGTTCAA
*
19239526 TGTAATGGAATAGGAC
1 TGTAATGGAATAGAAC
19239542 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAAC
**
19239558 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAAC
*
19239574 TGTAATAGAATAGAAC
1 TGTAATGGAATAGAAC
19239590 TGTAAT
1 TGTAAT
19239596 AGCAATTCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAGAAC
Found at i:19239667 original size:44 final size:45
Alignment explanation
Indices: 19239582--19239668 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 45
19239572 GTTGTAATAG
19239582 AATAGAACTGTAATAGCAATTCAATTGTTTGGCTGAATGGAATGT
1 AATAGAACTGTAATAGCAATTCAATTGTTTGGCTGAATGGAATGT
* * *
19239627 AATAGAACTGTAATAG-TATT-ATTGTGTTTGGTTGAATGGAAT
1 AATAGAACTGTAATAGCAATTCAAT-TGTTTGGCTGAATGGAAT
19239669 AGAGTTGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 2 0.05
44 20 0.53
45 16 0.42
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (45 bp):
AATAGAACTGTAATAGCAATTCAATTGTTTGGCTGAATGGAATGT
Found at i:19240077 original size:12 final size:12
Alignment explanation
Indices: 19240047--19240081 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
19240037 TCTATGTTAC
19240047 TTAAAGAATAAT
1 TTAAAGAATAAT
*
19240059 TTAAAAGAGTAAT
1 TT-AAAGAATAAT
19240072 TTAAAGAATA
1 TTAAAGAATA
19240082 TCTTGTCTCA
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:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:19240162 original size:8 final size:8
Alignment explanation
Indices: 19240153--19240194 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
19240143 ATGCCGTATA
*
19240153 TATATATA
1 TATATATT
19240161 TATATATT
1 TATATATT
*
19240169 TATTTATT
1 TATATATT
*
19240177 TATTTATT
1 TATATATT
19240185 TATATATT
1 TATATATT
19240193 TA
1 TA
19240195 ACATATTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATATATT
Found at i:19240166 original size:12 final size:12
Alignment explanation
Indices: 19240149--19240194 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
19240139 TGTTATGCCG
* *
19240149 TATATATATATA
1 TATATATTTATT
19240161 TATATATTTATT
1 TATATATTTATT
*
19240173 TATTTATTTATT
1 TATATATTTATT
19240185 TATATATTTA
1 TATATATTTA
19240195 ACATATTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATATATTTATT
Found at i:19247435 original size:14 final size:14
Alignment explanation
Indices: 19247406--19247446 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
19247396 AAGTCCTGAC
19247406 CCTCAAACCC-AAA
1 CCTCAAACCCTAAA
19247419 CCTCAAACCCTAAA
1 CCTCAAACCCTAAA
* *
19247433 CCTTAAACCTTAAA
1 CCTCAAACCCTAAA
19247447 TCTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (14 bp):
CCTCAAACCCTAAA
Found at i:19247545 original size:27 final size:25
Alignment explanation
Indices: 19247506--19247556 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
19247496 TTATGGTTCA
19247506 AGGTTCAAATTAAGAGTTTAGGGTTTG
1 AGGTTCAAATT-A-AGTTTAGGGTTTG
**
19247533 AGGTTCATGTTAAGTTTAGGGTTT
1 AGGTTCAAATTAAGTTTAGGGTTT
19247557 ATGGTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 1 0.05
27 9 0.41
ACGTcount: A:0.25, C:0.04, G:0.29, T:0.41
Consensus pattern (25 bp):
AGGTTCAAATTAAGTTTAGGGTTTG
Found at i:19251517 original size:52 final size:52
Alignment explanation
Indices: 19251432--19251531 Score: 173
Period size: 52 Copynumber: 1.9 Consensus size: 52
19251422 CTCTTGTCAT
* *
19251432 TGTAATAACTCCTTCCATCGTTGCTTCCTCAAATAGAATACTATCATCAGCA
1 TGTAATAACTCCTTCCATCGTTGCTTCCCCAAATAGAATACCATCATCAGCA
*
19251484 TGTATTAACTCCTTCCATCGTTGCTTCCCCAAATAGAATACCATCATC
1 TGTAATAACTCCTTCCATCGTTGCTTCCCCAAATAGAATACCATCATC
19251532 TGCAAAGAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (52 bp):
TGTAATAACTCCTTCCATCGTTGCTTCCCCAAATAGAATACCATCATCAGCA
Found at i:19254739 original size:70 final size:70
Alignment explanation
Indices: 19254647--19254929 Score: 273
Period size: 70 Copynumber: 4.0 Consensus size: 70
19254637 AGATCCTTGG
* * * * * * *
19254647 TGTGGCTAGCACTAGTCAAACGAGTCGAAAAATTATTGTGCCAAGTGCTAGCCGGATAATCGACG
1 TGTGCCTAGCACTAGTCGAACGAATCGAAAAATTATTGTGCCAAGCGCTAGTCGGATAAACAACG
19254712 ATAGT
66 ATAGT
* * *
19254717 TGTGCCTAGCACTAGTCCAACGAA-CTGATAAATTATTGTGCCCAA-CGCTAATCGGATAAACAA
1 TGTGCCTAGCACTAGTCGAACGAATC-GAAAAATTATTGTG-CCAAGCGCTAGTCGGATAAACAA
*
19254780 CGGTAGT
64 CGATAGT
* * * * * ** *
19254787 TGTGCCCATCACTAGTTGAACGAATCGAAAAATTATTATGCCCAGCGCTAGTCAAATAACCAACG
1 TGTGCCTAGCACTAGTCGAACGAATCGAAAAATTATTGTGCCAAGCGCTAGTCGGATAAACAACG
19254852 ATAGT
66 ATAGT
* * * * * * * * * *
19254857 TGTGCCTAACATTAGTCGAACGAATCGACAAATTGTTGCGTCTAGCGCTGGTCGGATAACCTACG
1 TGTGCCTAGCACTAGTCGAACGAATCGAAAAATTATTGTGCCAAGCGCTAGTCGGATAAACAACG
19254922 ATAGT
66 ATAGT
19254927 TGT
1 TGT
19254930 CATCCGCAAT
Statistics
Matches: 173, Mismatches: 36, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
69 4 0.02
70 164 0.95
71 5 0.03
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (70 bp):
TGTGCCTAGCACTAGTCGAACGAATCGAAAAATTATTGTGCCAAGCGCTAGTCGGATAAACAACG
ATAGT
Found at i:19254912 original size:140 final size:140
Alignment explanation
Indices: 19254656--19254929 Score: 307
Period size: 140 Copynumber: 2.0 Consensus size: 140
19254646 GTGTGGCTAG
* * * ** * *
19254656 CACTAGTCAAACGAGTCGAAAAATTATTGTGCCAAGTGCTAGCCGGATAATCGACGATAGTTGTG
1 CACTAGTCAAACGAATCGAAAAATTATTATGCCAAGCGCTAGCCAAATAACCAACGATAGTTGTG
* * * *
19254721 CCTAGCACTAGTCCAACGAACTGATAAATTATTGTGCCCAACGCTAATCGGATAAACAACGGTAG
66 CCTAACACTAGTCCAACGAACTGACAAATTATTGCGCCCAACGCTAATCGGATAAACAACGATAG
19254786 TTGTGCCCAT
131 TTGTGCCCAT
** * *
19254796 CACTAGTTGAACGAATCGAAAAATTATTATGCCCAGCGCTAGTCAAATAACCAACGATAGTTGTG
1 CACTAGTCAAACGAATCGAAAAATTATTATGCCAAGCGCTAGCCAAATAACCAACGATAGTTGTG
* * * * * * ** * *
19254861 CCTAACATTAGTCGAACGAA-TCGACAAATTGTTGCGTCTAGCGCTGGTCGGATAACCTACGATA
66 CCTAACACTAGTCCAACGAACT-GACAAATTATTGCGCCCAACGCTAATCGGATAAACAACGATA
19254925 GTTGT
130 GTTGT
19254930 CATCCGCAAT
Statistics
Matches: 108, Mismatches: 25, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
139 1 0.01
140 107 0.99
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (140 bp):
CACTAGTCAAACGAATCGAAAAATTATTATGCCAAGCGCTAGCCAAATAACCAACGATAGTTGTG
CCTAACACTAGTCCAACGAACTGACAAATTATTGCGCCCAACGCTAATCGGATAAACAACGATAG
TTGTGCCCAT
Found at i:19260437 original size:18 final size:19
Alignment explanation
Indices: 19260411--19260455 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
19260401 AAACGGCGAG
19260411 ATTAAATCATGAAA-CAAA
1 ATTAAATCATGAAATCAAA
* *
19260429 ATTATATCATTAAATCAAA
1 ATTAAATCATGAAATCAAA
*
19260448 ATAAAATC
1 ATTAAATC
19260456 TATTAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (19 bp):
ATTAAATCATGAAATCAAA
Found at i:19260675 original size:78 final size:78
Alignment explanation
Indices: 19260589--19261048 Score: 515
Period size: 78 Copynumber: 5.8 Consensus size: 78
19260579 TTAATTTCTT
* *
19260589 GTTTTTGGAAATAAACCAAATTTGGAATGAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
19260654 TTTTATTTTACTC
66 TTTTATTTTACTC
* * *
19260667 ATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAATGGCTA-GAATCAATCTCGAAACGA
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGC-AGGAATCAATCCCGAAACGA
*
19260731 TTTTTATATTACTC
65 TTTTTATTTTACTC
* * *
19260745 GTTTTTTGAAATAAAACAAATTTGGAATAAAATCATTGAACGGC-GAGAATCGATCCCGAAACGA
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAG-GAATCAATCCCGAAACGA
19260809 --TTT-TTTTACTC
65 TTTTTATTTTACTC
* * * * * *
19260820 GTTTTTGGAAATAGAATAAATTTGGAATAAAATCGCTGAACGGCAGAAATCAATCCTGAAAC-AA
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
19260884 TTTTATTTTACTC
66 TTTTATTTTACTC
* * * * *
19260897 GTTTTTGGAAATAAAACAATTTTAGAATAAAATCGTTGAATGG-TGAGAATCAATCCGGAAACGA
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAG-GAATCAATCCCGAAACGA
19260961 TTTTTATTTTACTTTTAAC
65 TTTTTATTTTAC---T--C
*
19260980 -TTCCCATTTGGAAATAAAATCAAATTAATGGAATAAAATCCGTTGAATGGC-GAGAATCAATCC
1 GTT----TTTGGAAATAAAA-CAAATT--TGGAATAAAAT-CGTTGAACGGCAG-GAATCAATCC
19261043 CGAAAC
57 CGAAAC
19261049 AAATTTTACC
Statistics
Matches: 325, Mismatches: 34, Indels: 34
0.83 0.09 0.09
Matches are distributed among these distances:
74 1 0.00
75 59 0.18
76 8 0.02
77 59 0.18
78 138 0.42
79 1 0.00
81 1 0.00
82 2 0.01
83 1 0.00
86 13 0.04
87 5 0.02
89 10 0.03
90 27 0.08
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (78 bp):
GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
TTTTATTTTACTC
Found at i:19260958 original size:152 final size:152
Alignment explanation
Indices: 19260589--19260965 Score: 508
Period size: 152 Copynumber: 2.4 Consensus size: 152
19260579 TTAATTTCTT
* * *
19260589 GTTTTTGGAAATAAACCAAATTTGGAATGAAATCGTTGAACGGCAGGAATCAATCCCGAAACGAT
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGGA-GAATCAATCCCGAAACGA-
* *
19260654 TTTTATTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAATGGCTAGAATCA
64 -TTT-TTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGCTGAACGGCTAGAATCA
*
19260719 ATCTCGAAACGATTTTTATATTACTC
127 ATCTCGAAACGAATTTTATATTACTC
* * *
19260745 GTTTTTTGAAATAAAACAAATTTGGAATAAAATCATTGAACGGCGAGAATCGATCCCGAAACGAT
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGG-GAGAATCAATCCCGAAACGAT
* * *
19260810 TTTTTTACTCGTTTTTGGAAATAGAATAAATTTGGAATAAAATCGCTGAACGGC-AGAAATCAAT
65 TTTTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGCTGAACGGCTAG-AATCAAT
*
19260874 C-CTGAAAC-AATTTTATTTTACTC
129 CTC-GAAACGAATTTTATATTACTC
* * * *
19260897 GTTTTTGGAAATAAAACAATTTTAGAATAAAATCGTTGAATGGTGAGAATCAATCCGGAAACGAT
1 GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGG-GAGAATCAATCCCGAAACGAT
19260962 TTTT
65 TTTT
19260966 ATTTTACTTT
Statistics
Matches: 197, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
152 77 0.39
153 60 0.30
154 3 0.02
156 56 0.28
157 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (152 bp):
GTTTTTGGAAATAAAACAAATTTGGAATAAAATCGTTGAACGGGAGAATCAATCCCGAAACGATT
TTTTTACTCATTTTTGGAAATAAAACAAATTTGGAATAAAATCGCTGAACGGCTAGAATCAATCT
CGAAACGAATTTTATATTACTC
Found at i:19263059 original size:21 final size:21
Alignment explanation
Indices: 19263034--19263076 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
19263024 CTTTATATAT
*
19263034 TTTTTAGAATTTTTTTTGAAA
1 TTTTTAGAATTTTTTTTAAAA
*
19263055 TTTTTATAATTTTTTTTAAAA
1 TTTTTAGAATTTTTTTTAAAA
19263076 T
1 T
19263077 ATAAATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTTTAGAATTTTTTTTAAAA
Found at i:19263113 original size:20 final size:20
Alignment explanation
Indices: 19263066--19263135 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
19263056 TTTTATAATT
19263066 TTTTTTAAAATATAAATTTTGGAA
1 TTTTTTAAAAT-T--ATTTT-GAA
*
19263090 -TTTTTATAAA-TATTTTTAA
1 TTTTTTA-AAATTATTTTGAA
*
19263109 TTTTTGAAAATTATTTTGAA
1 TTTTTTAAAATTATTTTGAA
19263129 TTATTTT
1 TT-TTTT
19263136 GTAATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
19 5 0.13
20 20 0.53
21 3 0.08
22 1 0.03
23 6 0.16
24 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
TTTTTTAAAATTATTTTGAA
Found at i:19263119 original size:19 final size:20
Alignment explanation
Indices: 19263081--19263130 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
19263071 TAAAATATAA
19263081 ATTTTGGAATTTTTATAAA-T
1 ATTTT-GAATTTTTATAAATT
*
19263101 ATTTTTAATTTTTGA-AAATT
1 ATTTTGAATTTTT-ATAAATT
19263121 ATTTTGAATT
1 ATTTTGAATT
19263131 ATTTTGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:19266236 original size:4 final size:4
Alignment explanation
Indices: 19266227--19266258 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
19266217 AGCTAATACA
*
19266227 AAAG AAAG AAAG AAAG AAAG AAAG AAAA AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
19266259 GTTATTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:19270910 original size:15 final size:16
Alignment explanation
Indices: 19270873--19270916 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
19270863 TGAAATAGAG
19270873 TTGTAATAGAATATAA
1 TTGTAATAGAATATAA
*
19270889 CTGTAATAGAATA-AA
1 TTGTAATAGAATATAA
*
19270904 TTGTAATATAATA
1 TTGTAATAGAATA
19270917 GAGTTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.36
Consensus pattern (16 bp):
TTGTAATAGAATATAA
Found at i:19271171 original size:15 final size:15
Alignment explanation
Indices: 19271151--19271179 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19271141 TTATTATTAA
19271151 ATATAATTTAATAAT
1 ATATAATTTAATAAT
19271166 ATATAATTTAATAA
1 ATATAATTTAATAA
19271180 CATTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAATTTAATAAT
Found at i:19280755 original size:6 final size:6
Alignment explanation
Indices: 19280743--19280792 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
19280733 TAGGTTTTCA
* * * *
19280743 AAAATG GAAATG GAAATG AAAATG AAAATG AATATA AAAATG AGAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG
19280792 A
1 A
19280793 TTCATTTGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
6 31 0.84
7 6 0.16
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.18
Consensus pattern (6 bp):
AAAATG
Found at i:19282516 original size:352 final size:352
Alignment explanation
Indices: 19281872--19282930 Score: 2010
Period size: 352 Copynumber: 3.0 Consensus size: 352
19281862 AATGACTTAG
19281872 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
1 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
*
19281937 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCGAACCATTTGA
66 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
*
19282002 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTAAAATTGGTATAAAATGACTT
131 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
*
19282067 AAATTGTACCAAAAACAGAGTCCATGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
196 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
*
19282132 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACTTTA
261 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
*
19282197 CGACGAGGAAATCCTTATGCCATGACA
326 CGACGAGGAAATCCTTATGCCGTGACA
19282224 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
1 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
19282289 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
66 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
* *
19282354 AATTGATGTTTGATGTATGAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATAACTT
131 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
19282419 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
196 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
*
19282484 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATTAGTATGTCACGTTA
261 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
19282549 CGACGAGGAAATCCTTATGCCGTGACA
326 CGACGAGGAAATCCTTATGCCGTGACA
19282576 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
1 TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
19282641 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
66 AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
19282706 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
131 AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
**
19282771 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTCACTATCAGCTTTGGG
196 AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
*
19282836 CTTCAAGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
261 CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
*
19282901 CGACGAGAAAATCCTTATGCCGTGACA
326 CGACGAGGAAATCCTTATGCCGTGACA
19282928 TTG
1 TTG
19282931 ACCCAAAATT
Statistics
Matches: 692, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
352 692 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.32
Consensus pattern (352 bp):
TTGGTATGCTTGAATAACATTGAAATGGATAAGTATGATTGATGAATTTGAATTGAATATCTTAT
AAGAAAGTTAAGTTGAATGTTTAAGCTTATTTGGTACGGTTTGGATATGTTTTCAAACCATTTGA
AATTGATGTTTGATGTATAAAATGTTAGGTGTGATGGAAGCATTGAAATTGGTATAAAATGACTT
AAATTGTACCAAAAACAGAGTCCACGTCACGACATTGAGCAATGGTCGTTGCTATCAGCTTTGGG
CTTCAGGCCACGGTATGACAAGAAACCCTGTTGCCACAACGAGACCAAATCAGTATGTCACGTTA
CGACGAGGAAATCCTTATGCCGTGACA
Found at i:19285278 original size:40 final size:40
Alignment explanation
Indices: 19285197--19285407 Score: 225
Period size: 40 Copynumber: 5.6 Consensus size: 40
19285187 AAACCAAGTA
** * *
19285197 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
19285236 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
19285276 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC--A--
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
19285312 ------GGACTTAGCCCGGTTATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
19285346 CCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
19285385 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
19285408 CATCTGAATA
Statistics
Matches: 146, Mismatches: 11, Indels: 29
0.78 0.06 0.16
Matches are distributed among these distances:
30 28 0.19
32 1 0.01
38 1 0.01
39 47 0.32
40 68 0.47
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:19285318 original size:30 final size:30
Alignment explanation
Indices: 19285282--19285341 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
19285272 ATTGCCTTCG
19285282 GGACTTAGCCCGGTTATAGTAACTCGCACA
1 GGACTTAGCCCGGTTATAGTAACTCGCACA
*
19285312 GGACTTAGCCCGGTTATAGTAACTTGCACA
1 GGACTTAGCCCGGTTATAGTAACTCGCACA
19285342 AATGCCTTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (30 bp):
GGACTTAGCCCGGTTATAGTAACTCGCACA
Found at i:19288013 original size:15 final size:15
Alignment explanation
Indices: 19287993--19288025 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
19287983 GCTAAATCTT
19287993 AGCCATCGATAACTA
1 AGCCATCGATAACTA
19288008 AGCCATCGATAACTA
1 AGCCATCGATAACTA
19288023 AGC
1 AGC
19288026 TCTTGACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.18
Consensus pattern (15 bp):
AGCCATCGATAACTA
Found at i:19289293 original size:18 final size:19
Alignment explanation
Indices: 19289267--19289305 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
19289257 AGTTAATGCG
* *
19289267 ATAATAGAAGTTTTAATTA
1 ATAATAGAAATTTCAATTA
19289286 ATAA-AGAAATTTCAATTA
1 ATAATAGAAATTTCAATTA
19289304 AT
1 AT
19289306 CAACTTAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (19 bp):
ATAATAGAAATTTCAATTA
Found at i:19308855 original size:61 final size:58
Alignment explanation
Indices: 19308790--19308901 Score: 143
Period size: 61 Copynumber: 1.9 Consensus size: 58
19308780 TGTGATTTTC
* *
19308790 TTAATATTAAATTAAATAAAATATTTATTTTGTAGATAAGTATTCTATTAATTTGATAGAT
1 TTAATATTAAATTAAATAAAATATTT-GTCT-T-GATAAGTATTCTATTAATTTGATAGAT
* ** *
19308851 TTAATATTAAATTTAATCTAATATTTGTCTTGATAAGTATTTTATTAATTT
1 TTAATATTAAATTAAATAAAATATTTGTCTTGATAAGTATTCTATTAATTT
19308902 AATATTAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 19 0.42
59 1 0.02
60 2 0.04
61 23 0.51
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (58 bp):
TTAATATTAAATTAAATAAAATATTTGTCTTGATAAGTATTCTATTAATTTGATAGAT
Found at i:19314619 original size:15 final size:16
Alignment explanation
Indices: 19314590--19314622 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19314580 ACTTGTTCCA
19314590 AACATGAGTTATTCTC
1 AACATGAGTTATTCTC
*
19314606 AACAT-AGTTGTTCTC
1 AACATGAGTTATTCTC
19314621 AA
1 AA
19314623 TGTAGAGGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (16 bp):
AACATGAGTTATTCTC
Found at i:19320352 original size:21 final size:21
Alignment explanation
Indices: 19320327--19320367 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19320317 GGAGTTATCA
19320327 AAAAGAAAAAGAAAAAGAACC
1 AAAAGAAAAAGAAAAAGAACC
** *
19320348 AAAAGAGGAAGAAGAAGAAC
1 AAAAGAAAAAGAAAAAGAAC
19320368 AGATGTTCCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.71, C:0.07, G:0.22, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAGAACC
Found at i:19323164 original size:35 final size:35
Alignment explanation
Indices: 19323125--19323319 Score: 250
Period size: 35 Copynumber: 5.6 Consensus size: 35
19323115 CATGGCAAAG
*
19323125 TGTGAAACGTAGGTGTGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* * *
19323160 TGTGAAACGTAGGTATGGTATTAACCATACCAAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
19323195 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
* *
19323230 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
** ** *
19323265 TAAG-AACGTAGGTATGACAT-TTCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCAT-CCATACCGAGT
* *
19323299 TGTGAAATGTAGATATGGTAT
1 TGTGAAACGTAGGTATGGTAT
19323320 TTCAATAAGG
Statistics
Matches: 137, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
33 1 0.01
34 26 0.19
35 110 0.80
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
Found at i:19327996 original size:42 final size:42
Alignment explanation
Indices: 19327976--19328084 Score: 155
Period size: 42 Copynumber: 2.6 Consensus size: 42
19327966 TCACATCGAA
* * *
19327976 GCCATATCCCAGATATGGTCTTATACGAAATCTCATTTCAAT
1 GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCAAC
* * *
19328018 GCCATGTCCCAAACATGGTCTTACACGAAATCTCATATCAAC
1 GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCAAC
*
19328060 ACCATATCCCAGATATGGTCTTACA
1 GCCATATCCCAGATATGGTCTTACA
19328085 TGATAACATA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCAAC
Found at i:19331952 original size:15 final size:15
Alignment explanation
Indices: 19331932--19331962 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19331922 TACCTGGAAC
19331932 TAGATTAATGCTGAA
1 TAGATTAATGCTGAA
19331947 TAGATTAATGCTGAA
1 TAGATTAATGCTGAA
19331962 T
1 T
19331963 TCCACTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.35
Consensus pattern (15 bp):
TAGATTAATGCTGAA
Found at i:19339225 original size:42 final size:42
Alignment explanation
Indices: 19339179--19339289 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
19339169 TTTCACATCG
* * *
19339179 ATGCCATATCCTAGATATGGTATTATACGAAATCTCATTTCA
1 ATGCCATATCCCAGATATGGTATTACACGAAATCTCATATCA
* * ** *
19339221 ATGCCATGTCCCACACGTGGTCTTACACGAAATCTCATATCA
1 ATGCCATATCCCAGATATGGTATTACACGAAATCTCATATCA
** *
19339263 ACACCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTATTACA
19339290 TGATAACATA
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTATTACACGAAATCTCATATCA
Found at i:19342658 original size:12 final size:12
Alignment explanation
Indices: 19342641--19342670 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
19342631 ATAGTGAGTT
19342641 ACACGGCCTACC
1 ACACGGCCTACC
19342653 ACACGGCCTACC
1 ACACGGCCTACC
19342665 ACACGG
1 ACACGG
19342671 TCATGTGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.47, G:0.20, T:0.07
Consensus pattern (12 bp):
ACACGGCCTACC
Found at i:19344860 original size:20 final size:21
Alignment explanation
Indices: 19344828--19344881 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
19344818 TTAAAAAATT
19344828 TAAATTAAATGAT-T-ATATAA
1 TAAATT-AATGATGTAATATAA
19344848 -AATATTTAATGATGTAATATAA
1 TAA-A-TTAATGATGTAATATAA
19344870 TAAATTAATGAT
1 TAAATTAATGAT
19344882 ATGAAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 2 0.07
20 7 0.24
21 11 0.38
22 7 0.24
23 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
TAAATTAATGATGTAATATAA
Found at i:19346014 original size:16 final size:18
Alignment explanation
Indices: 19345986--19346021 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
19345976 GTTTATGAAT
19345986 AAAATTTTCATTTA-TTA
1 AAAATTTTCATTTAGTTA
19346003 AAAATTTT-ATTTAGTTA
1 AAAATTTTCATTTAGTTA
19346020 AA
1 AA
19346022 GATTAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
AAAATTTTCATTTAGTTA
Found at i:19353709 original size:10 final size:10
Alignment explanation
Indices: 19353689--19353724 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
19353679 GTTCACTCTT
19353689 TTTTCTTTTTC
1 TTTT-TTTTTC
19353700 TTTTTTTTTCC
1 TTTTTTTTT-C
19353711 TTTTTTTTTC
1 TTTTTTTTTC
19353721 TTTT
1 TTTT
19353725 AATCGATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:19365637 original size:11 final size:11
Alignment explanation
Indices: 19365621--19365650 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
19365611 GAAAATTAGT
19365621 AAATTAGAATA
1 AAATTAGAATA
*
19365632 AAATTAAAATA
1 AAATTAGAATA
19365643 AAATTAGA
1 AAATTAGA
19365651 TTGTAAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (11 bp):
AAATTAGAATA
Found at i:19366556 original size:14 final size:14
Alignment explanation
Indices: 19366537--19366566 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19366527 TTATATCGAG
19366537 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
19366551 ACCAATCCAATTCA
1 ACCAATCCAAATCA
19366565 AC
1 AC
19366567 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:19373393 original size:18 final size:18
Alignment explanation
Indices: 19373370--19373405 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19373360 TTCTCGAGCA
19373370 TACTCAATCGAACAAATT
1 TACTCAATCGAACAAATT
19373388 TACTCAATCGAACAAATT
1 TACTCAATCGAACAAATT
19373406 CTCTTTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (18 bp):
TACTCAATCGAACAAATT
Found at i:19378414 original size:442 final size:442
Alignment explanation
Indices: 19377588--19378906 Score: 2309
Period size: 442 Copynumber: 3.0 Consensus size: 442
19377578 GGCACGGGAT
* * *
19377588 TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGTGTGGGCTGCCCG
1 TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGAGTGGGATGTCCG
* * *
19377653 TGTTAGGAAGTCCAGGCCGTGTTGATTTCGTACTTTGGCCTATTTTCTCCATTTTCGACCCGTTT
66 TGTGAGGAAGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTCTCCGTTTTCGACCCGTTT
19377718 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
131 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
19377783 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCGTTTAACATGGGGTAAAAATATGTA
196 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCGTTTAACATGGGGTAAAAATATGTA
*
19377848 TAAATTACGGTTTATCAAGCTTTCACCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
261 TAAATTACGGTTTATCAAGGTTTCACCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
19377913 GAGAGTGCCTTATTTAATGAACAAGATAGGTATATTA-TAAGTCTTCAATTTTGAGTCTTACAGG
326 GAGAGTGCCTTATTTAATGAACAAGATAGGTATATTACT-AGTCTTCAATTTTGAGTCTTACAGG
19377977 TTGAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGACGGGCG
390 TTGAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGACGGGCG
* * * * *
19378030 TGTGTTCTGCCCATGTAAGTCATGCTTTGATTCTGCCAAATTGACATGGCCGAGTGGGATGTCCG
1 TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGAGTGGGATGTCCG
* * * *
19378095 TGTGAGGAAGTCCAGGCCGTGTTGATTTCGTACTTTGACCCATTTTCTCCGTTTTTGACTCATTT
66 TGTGAGGAAGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTCTCCGTTTTCGACCCGTTT
*
19378160 CTCGTTCCTTTCTCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
131 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
*
19378225 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCATTTAACATGGGGTAAAAATATGTA
196 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCGTTTAACATGGGGTAAAAATATGTA
* *
19378290 TAAATTATGGTTTATCAAGGTTTCATCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
261 TAAATTACGGTTTATCAAGGTTTCACCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
* * *
19378355 GAGAGTGCCTTATTTAATGAGCAAGATAGGTTTATTACTAGTCTTCAATTTTAAGTCTTACAGGT
326 GAGAGTGCCTTATTTAATGAACAAGATAGGTATATTACTAGTCTTCAATTTTGAGTCTTACAGGT
19378420 TGAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGACGGGCG
391 TGAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGACGGGCG
* * * *
19378472 TGTGTTCTTCCCGTGTGAGTCGTGCTTCGATTTTTCAAAATTGACACGGCCGAGTGGGATGTCCG
1 TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGAGTGGGATGTCCG
* * *
19378537 TGTGAGGAAGTCCAGGCCATGTTAATTTCGTACTTTGGCTCATTTTCTCCGTTTTCGACCCGTTT
66 TGTGAGGAAGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTCTCCGTTTTCGACCCGTTT
19378602 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
131 CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
* * *
19378667 TGAATTTACCAATTCTAATGGGAAATCATCCATAAAATGCGTTTAACATGAGGTAAAAATATGTA
196 CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCGTTTAACATGGGGTAAAAATATGTA
19378732 TAAATTACGGTTTATCAAGGTTTCACCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
261 TAAATTACGGTTTATCAAGGTTTCACCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
*
19378797 GAGAGTGCCTTATTTAATGAACAAGATAGGTATA-TACAAGTCTTCAATTTTGAGTCTTACAGGT
326 GAGAGTGCCTTATTTAATGAACAAGATAGGTATATTACTAGTCTTCAATTTTGAGTCTTACAGGT
19378861 TGAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGA
391 TGAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGA
19378907 GCTTCCTCCC
Statistics
Matches: 826, Mismatches: 50, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
441 74 0.09
442 751 0.91
443 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (442 bp):
TGTGTTCTGCCCGTGTGAGTCGTGCTTCGATTCTGCCAAATTGACACGGCCGAGTGGGATGTCCG
TGTGAGGAAGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTCTCCGTTTTCGACCCGTTT
CTCGTTCCTTTCGCTCTCCTATGCTCTCATAAGTATAAAGCATGAAATTAAAGCATTAGGAGCAT
CGAATTCACCAATTCTAATGGGAAATCATCCATAAAATGCGTTTAACATGGGGTAAAAATATGTA
TAAATTACGGTTTATCAAGGTTTCACCCCTCGCTTCTGTTGAGAGTTTTGTACTATTCACGAAGG
GAGAGTGCCTTATTTAATGAACAAGATAGGTATATTACTAGTCTTCAATTTTGAGTCTTACAGGT
TGAGGTACTCTCTGTGAACTGTACACAGCTAGCAGTGAAGATGGGACGGGCG
Found at i:19380362 original size:16 final size:17
Alignment explanation
Indices: 19380341--19380372 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19380331 GAATTTACTT
19380341 ATTATAT-AAGTAAATA
1 ATTATATAAAGTAAATA
19380357 ATTATATAAAGTAAAT
1 ATTATATAAAGTAAAT
19380373 TATATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
ATTATATAAAGTAAATA
Found at i:19380681 original size:27 final size:27
Alignment explanation
Indices: 19380643--19380698 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
19380633 TTTAGGAAGA
19380643 TAGTGAATTTTTAGATGTTGATTAAGT
1 TAGTGAATTTTTAGATGTTGATTAAGT
19380670 TAGTGAATTTTTAGATGTTGATTAAGT
1 TAGTGAATTTTTAGATGTTGATTAAGT
19380697 TA
1 TA
19380699 AATTAATGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (27 bp):
TAGTGAATTTTTAGATGTTGATTAAGT
Found at i:19389524 original size:16 final size:18
Alignment explanation
Indices: 19389490--19389525 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19389480 ATCCTTATTT
19389490 AAATAAAATATAGAAGTA
1 AAATAAAATATAGAAGTA
19389508 AAATAAAATA-A-AAGTA
1 AAATAAAATATAGAAGTA
19389524 AA
1 AA
19389526 TAAGGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.19
Consensus pattern (18 bp):
AAATAAAATATAGAAGTA
Found at i:19389592 original size:5 final size:5
Alignment explanation
Indices: 19389582--19389614 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
19389572 ACGACGGTGA
19389582 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
19389615 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:19392394 original size:21 final size:21
Alignment explanation
Indices: 19392383--19392432 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
19392373 TTTAAGGGTT
19392383 GGGGTTAATGGTTAGGGATTA
1 GGGGTTAATGGTTAGGGATTA
19392404 GGGGTTAA-GTGTTAAGGGGA-TA
1 GGGGTTAATG-GTT-A-GGGATTA
19392426 GGGGTTA
1 GGGGTTA
19392433 GGCGTTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.04
21 11 0.42
22 10 0.38
23 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.46, T:0.30
Consensus pattern (21 bp):
GGGGTTAATGGTTAGGGATTA
Found at i:19392427 original size:22 final size:22
Alignment explanation
Indices: 19392397--19392454 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
19392387 TTAATGGTTA
*
19392397 GGGATTAGGGGTTAAGTGTTAAG
1 GGGA-TAGGGGTTAAGCGTTAAG
*
19392420 GGGATAGGGGTTAGGCGTTAAG
1 GGGATAGGGGTTAAGCGTTAAG
* *
19392442 GGGACATGGGTTA
1 GGGATAGGGGTTA
19392455 GGGGTTTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.24, C:0.03, G:0.47, T:0.26
Consensus pattern (22 bp):
GGGATAGGGGTTAAGCGTTAAG
Found at i:19392455 original size:22 final size:22
Alignment explanation
Indices: 19392403--19392456 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
19392393 GTTAGGGATT
* * *
19392403 AGGGGTTAAGTGTTAAGGGGAT
1 AGGGGTTAGGCGTTAAGGGGAC
19392425 AGGGGTTAGGCGTTAAGGGGAC
1 AGGGGTTAGGCGTTAAGGGGAC
*
19392447 ATGGGTTAGG
1 AGGGGTTAGG
19392457 GGTTTATGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.04, G:0.48, T:0.24
Consensus pattern (22 bp):
AGGGGTTAGGCGTTAAGGGGAC
Found at i:19392505 original size:14 final size:14
Alignment explanation
Indices: 19392486--19392536 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
19392476 AATATTTTAA
*
19392486 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
19392500 GGTTTAGGGATTAT
1 GGTTTAGGGATTAT
* * *
19392514 -GTGTTGGGGTTTAA
1 GGT-TTAGGGATTAT
19392528 GGTTTAGGG
1 GGTTTAGGG
19392537 GTTAAGTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 2 0.07
14 26 0.87
15 2 0.07
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:19393097 original size:18 final size:19
Alignment explanation
Indices: 19393051--19393097 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
19393041 AACCCTAAAA
*
19393051 TAGATTT-CCCTAATTCTC
1 TAGATTTCCCCTAATTCCC
*
19393069 TACATTTCCCCTAA-TCCC
1 TAGATTTCCCCTAATTCCC
19393087 TAGATTTCCCC
1 TAGATTTCCCC
19393098 CAAAATCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.21, C:0.36, G:0.04, T:0.38
Consensus pattern (19 bp):
TAGATTTCCCCTAATTCCC
Found at i:19395941 original size:27 final size:27
Alignment explanation
Indices: 19395911--19395963 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
19395901 GTATCAAATA
*
19395911 TTTGATTTTGT-TTTGTCGAAAAAAAAG
1 TTTGATTTTGTATTGGT-GAAAAAAAAG
19395938 TTTGATTTTGTATTGGTGAAAAAAAA
1 TTTGATTTTGTATTGGTGAAAAAAAA
19395964 ATTAAGCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (27 bp):
TTTGATTTTGTATTGGTGAAAAAAAAG
Found at i:19399454 original size:43 final size:43
Alignment explanation
Indices: 19399365--19399462 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
19399355 TTTTATGACT
* * *
19399365 TTTAGCGACGTTTTTGGAAAAAGCGCAGCTAAAGGTTATGATC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCAGCTAAAGGTCATGATC
* *
19399408 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCAGCTAAAGGTCATGATC
*
19399451 TTTAGTGGCGTT
1 TTTAGCGGCGTT
19399463 ATCTATAGCG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCAGCTAAAGGTCATGATC
Found at i:19401930 original size:31 final size:31
Alignment explanation
Indices: 19401895--19401957 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
19401885 CTATCAACAT
*
19401895 GTCATCAACATAAAAAAGTAGATACATAAAA
1 GTCATCAACATAAAAAAGTAGATACACAAAA
*
19401926 GTCATCAACATAAAGAAGTAGATACACAAAA
1 GTCATCAACATAAAAAAGTAGATACACAAAA
19401957 G
1 G
19401958 AACCATCACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.13, T:0.17
Consensus pattern (31 bp):
GTCATCAACATAAAAAAGTAGATACACAAAA
Found at i:19407836 original size:7 final size:7
Alignment explanation
Indices: 19407824--19407858 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
19407814 AATCTGTCTC
19407824 AATATAT
1 AATATAT
19407831 AATATAT
1 AATATAT
19407838 AATATAT
1 AATATAT
*
19407845 AACATAT
1 AATATAT
19407852 AATATAT
1 AATATAT
19407859 GATTCGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (7 bp):
AATATAT
Found at i:19420691 original size:13 final size:13
Alignment explanation
Indices: 19420673--19420699 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19420663 TGAATTGATA
19420673 TGTGTGAAAATTT
1 TGTGTGAAAATTT
19420686 TGTGTGAAAATTT
1 TGTGTGAAAATTT
19420699 T
1 T
19420700 ATTGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:19421802 original size:43 final size:44
Alignment explanation
Indices: 19421754--19421837 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
19421744 GAATTTTATA
*
19421754 TGTGATTT-CGTGTAAGACCACG-CATGGGACATTGGCATCGATT
1 TGTGATTTACGTGGAAGACCACGTC-TGGGACATTGGCATCGATT
* * *
19421797 TGTGATTTATGTGGAATACCATGTCTGGGACATTGGCATCG
1 TGTGATTTACGTGGAAGACCACGTCTGGGACATTGGCATCG
19421838 TATATGAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 8 0.23
44 26 0.74
45 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.32
Consensus pattern (44 bp):
TGTGATTTACGTGGAAGACCACGTCTGGGACATTGGCATCGATT
Found at i:19423331 original size:64 final size:64
Alignment explanation
Indices: 19423257--19423384 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
19423247 CATATGGGCA
19423257 TGGTTTTGTGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATG
1 TGGTTTTGTGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATG
*
19423321 TGGTTTTGTGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTGTATG
1 TGGTTTTGTGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATG
19423385 AAAATGTATG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.30, C:0.02, G:0.27, T:0.41
Consensus pattern (64 bp):
TGGTTTTGTGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATG
Found at i:19423397 original size:64 final size:64
Alignment explanation
Indices: 19423265--19423398 Score: 205
Period size: 64 Copynumber: 2.1 Consensus size: 64
19423255 CATGGTTTTG
**** * *
19423265 TGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATGTGGTTTTG
1 TGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATGAAAATGTA
*
19423329 TGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTGTATGAAAATGTA
1 TGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATGAAAATGTA
19423393 TGACTA
1 TGACTA
19423399 TCGCCATGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.38
Consensus pattern (64 bp):
TGACTAAGAAGAGGTATGTTTAGTTTTAAATGATGAGTGTTTAAATGAAGTATATGAAAATGTA
Found at i:19424175 original size:23 final size:23
Alignment explanation
Indices: 19424123--19424185 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
19424113 TTTTATGCCC
*
19424123 GCAAGTGATAGTGGCAGTACAAT
1 GCAAGTGATAGTGGCACTACAAT
* * **
19424146 ACGAGTGATAGTGGCACTTTAAT
1 GCAAGTGATAGTGGCACTACAAT
* *
19424169 GCAAGTGACAGTAGCAC
1 GCAAGTGATAGTGGCAC
19424186 ACCCGTACAA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (23 bp):
GCAAGTGATAGTGGCACTACAAT
Found at i:19429676 original size:43 final size:43
Alignment explanation
Indices: 19429609--19429732 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
19429599 TCTGAACTCA
* * *
19429609 TTCACTGGCATT-TCGCCTGCTAGGCTCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
19429651 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* * ** *
19429694 CTCATCGGCATTATAGTTTGCTAGGCCCGAAGCTCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
19429733 ATATTATTCA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 11 0.15
43 61 0.85
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:19440037 original size:30 final size:31
Alignment explanation
Indices: 19440001--19440069 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 31
19439991 CACGGCTGAG
*
19440001 ACACATGGCCGTATCTTTGCCCGTGTGGCT-
1 ACACATGGCCGTATCTTTGCCCGTGCGGCTA
*
19440031 ACACATGGCCGTATCTTTTCCCGTGCGGCTA
1 ACACATGGCCGTATCTTTGCCCGTGCGGCTA
19440062 ACACATGG
1 ACACATGG
19440070 GCTATTTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 28 0.78
31 8 0.22
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.28
Consensus pattern (31 bp):
ACACATGGCCGTATCTTTGCCCGTGCGGCTA
Found at i:19449399 original size:10 final size:9
Alignment explanation
Indices: 19449381--19449405 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19449371 GAACATCTCG
19449381 AAGAAAAAA
1 AAGAAAAAA
19449390 AAGAAAAAA
1 AAGAAAAAA
19449399 AAGAAAA
1 AAGAAAA
19449406 GCAAAGTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:19449576 original size:32 final size:32
Alignment explanation
Indices: 19449535--19449600 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
19449525 AGAAAGGTGT
*
19449535 AAGAAGTGGATATAATGTGGAGATGTTATTTA
1 AAGAAGTGGATATAACGTGGAGATGTTATTTA
19449567 AAGAAGTGGATATAACGTGGAGATGTTATTTA
1 AAGAAGTGGATATAACGTGGAGATGTTATTTA
19449599 AA
1 AA
19449601 ATTGAGGGAG
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:0.02, G:0.27, T:0.32
Consensus pattern (32 bp):
AAGAAGTGGATATAACGTGGAGATGTTATTTA
Found at i:19450041 original size:12 final size:12
Alignment explanation
Indices: 19450024--19450059 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
19450014 TTGATTTTAG
19450024 TTTGTTTTGTTT
1 TTTGTTTTGTTT
*
19450036 TTTGTTTTTTTT
1 TTTGTTTTGTTT
*
19450048 TTTGTTTAGTTT
1 TTTGTTTTGTTT
19450060 GCTTGAATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.03, C:0.00, G:0.14, T:0.83
Consensus pattern (12 bp):
TTTGTTTTGTTT
Found at i:19456660 original size:14 final size:14
Alignment explanation
Indices: 19456638--19456673 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
19456628 GTTTTGTTTC
19456638 ATTACTTTTATATAT
1 ATTA-TTTTATATAT
*
19456653 ATTATTTTATTTAT
1 ATTATTTTATATAT
19456667 ATTATTT
1 ATTATTT
19456674 GTAACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATTTTATATAT
Found at i:19456709 original size:21 final size:17
Alignment explanation
Indices: 19456693--19456738 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
19456683 TGTATATAAA
19456693 TTTTATTATATGTTATAT
1 TTTTATTATATG-TATAT
*
19456711 TTTTATTATAT-TATTT
1 TTTTATTATATGTATAT
19456727 ATTTTATTATAT
1 -TTTTATTATAT
19456739 TTTTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 11 0.42
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTTATTATATGTATAT
Found at i:19456714 original size:18 final size:18
Alignment explanation
Indices: 19456644--19456746 Score: 75
Period size: 18 Copynumber: 5.5 Consensus size: 18
19456634 TTTCATTACT
* *
19456644 TTTATATATATTATTTTA
1 TTTATATATTTTATTATA
*
19456662 TTTATATTATTTGTAACATTATG
1 TTTATA-TATTT-T---ATTATA
* *
19456685 TATATAAATTTTATTATA
1 TTTATATATTTTATTATA
19456703 TGTTATAT-TTTTATTATA
1 T-TTATATATTTTATTATA
*
19456721 -TTATTTATTTTATTATA
1 TTTATATATTTTATTATA
*
19456738 TTTTTATAT
1 TTTATATAT
19456747 GTAAAATATT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
16 5 0.08
17 10 0.15
18 28 0.42
19 8 0.12
20 1 0.02
21 1 0.02
22 4 0.06
23 9 0.14
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTATATATTTTATTATA
Found at i:19462012 original size:18 final size:18
Alignment explanation
Indices: 19461973--19462015 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19461963 ATATTTTTTC
*
19461973 ATTCTTTTACCTATAAAT
1 ATTCTTTTACCTATAAAG
*
19461991 ATTCTTTTGACCT-TTAAG
1 ATTCTTTT-ACCTATAAAG
19462009 ATTCTTT
1 ATTCTTT
19462016 CTAAATTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (18 bp):
ATTCTTTTACCTATAAAG
Found at i:19465124 original size:176 final size:175
Alignment explanation
Indices: 19464887--19465273 Score: 542
Period size: 176 Copynumber: 2.2 Consensus size: 175
19464877 ACCTTTGACG
* * * *
19464887 AGAAGCAAATCGAAGACATAGCAGATCTGAATTTCAGATGTTTTCACATCAAAGCAGATCCAAGA
1 AGAA-CAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGA
* * * * *
19464952 TAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAATCTTCAGATG-T
65 TAACAGATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGAT
* *
19465016 TTATACTGAAGCAGATCCAAGATGATTTGGACATTCTTGTGTTTACAA
130 TT-TACTGAAGCAGATCCAAGATGATTTGG-CATCCTTGTGTTCACAA
* * *
19465064 GGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGTAGATCCAAGAT
1 AGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGAT
* *
19465129 AACAGATCTGGCATCTCCATTTCGATAGAGAGCAGATACATAGCAGATCTAACCTTTAGATGATT
66 AACAGATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATT
*
19465194 TTACTGAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTCACAA
131 TTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAA
* * * * *
19465239 AGAGCAAATCAAAGACACAGCATATTTGGCTTTCA
1 AGAACAAATCGAAGACATAGCAGATTTGACTTTCA
19465274 CGTGTTTACG
Statistics
Matches: 185, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
175 43 0.23
176 136 0.74
177 6 0.03
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (175 bp):
AGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGAT
AACAGATCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATT
TTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAA
Found at i:19467376 original size:18 final size:17
Alignment explanation
Indices: 19467353--19467415 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
19467343 TATTTGTAAC
19467353 ATTATATATATAAATTTT
1 ATTATAT-TATAAATTTT
*
19467371 ATTATATGTTATATATTTTT
1 ATTATA--TTATA-AATTTT
**
19467391 ATTATATTATTTATTTT
1 ATTATATTATAAATTTT
19467408 ATTATATT
1 ATTATATT
19467416 TTTATATGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 12 0.32
18 10 0.26
19 4 0.11
20 12 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTATATTATAAATTTT
Found at i:19467383 original size:23 final size:20
Alignment explanation
Indices: 19467367--19467414 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
19467357 TATATATAAA
19467367 TTTTATTATATGTTATATAT
1 TTTTATTATATGTTATATAT
*
19467387 TTTTATTATA--TTATTTA-
1 TTTTATTATATGTTATATAT
19467404 TTTTATTATAT
1 TTTTATTATAT
19467415 TTTTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
20 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTATATGTTATATAT
Found at i:19467392 original size:20 final size:18
Alignment explanation
Indices: 19467353--19467422 Score: 79
Period size: 18 Copynumber: 3.8 Consensus size: 18
19467343 TATTTGTAAC
* *
19467353 ATTATATATATAAATTTT
1 ATTATATTTATATATTTT
19467371 ATTATATGTTATATATTTTT
1 ATTATAT-TTATATA-TTTT
*
19467391 ATTATA-TTATTTATTTT
1 ATTATATTTATATATTTT
*
19467408 ATTATATTTTTATAT
1 ATTATATTTATATAT
19467423 GTAAAATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 10 0.23
18 19 0.43
19 5 0.11
20 10 0.23
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (18 bp):
ATTATATTTATATATTTT
Found at i:19467421 original size:25 final size:28
Alignment explanation
Indices: 19467369--19467481 Score: 69
Period size: 26 Copynumber: 4.1 Consensus size: 28
19467359 TATATAAATT
*
19467369 TTATTATATGTTATATATTTTTATTATA
1 TTATTATATGTTATATATATTTATTATA
*
19467397 TTATT-TATTTTAT-TATATTT-TTATA
1 TTATTATATGTTATATATATTTATTATA
** *
19467422 TGTAAAATAT-TTAT-TACA-TTATTATTA
1 T-TATTATATGTTATATATATTTATTA-TA
*
19467449 TTATACATAT-TTCATATTATATTTCATTATA
1 TTAT-TATATGTT-ATA-TATATTT-ATTATA
19467480 TT
1 TT
19467482 TATTTAAGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
25 8 0.12
26 20 0.30
27 19 0.28
28 7 0.10
30 3 0.04
31 6 0.09
32 4 0.06
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (28 bp):
TTATTATATGTTATATATATTTATTATA
Found at i:19467432 original size:27 final size:28
Alignment explanation
Indices: 19467374--19467472 Score: 73
Period size: 27 Copynumber: 3.6 Consensus size: 28
19467364 AAATTTTATT
* *
19467374 ATATGTTA-TATATTTTTATTA-TATTAT
1 ATATTTTATTATATTTTTATTATTA-TAA
*
19467401 TTATTTTATTATATTTTTA-TATGTA-AA
1 ATATTTTATTATATTTTTATTAT-TATAA
* * *
19467428 ATA-TTTATTACATTATTATTATTATAC
1 ATATTTTATTATATTTTTATTATTATAA
19467455 ATATTTCATATTATATTT
1 ATATTT--TATTATATTT
19467473 CATTATATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
26 15 0.27
27 18 0.33
28 12 0.22
29 2 0.04
30 8 0.15
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (28 bp):
ATATTTTATTATATTTTTATTATTATAA
Found at i:19469546 original size:14 final size:14
Alignment explanation
Indices: 19469529--19469573 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
19469519 TAAGAAGTGG
19469529 AGAAGAAGAAGAAA
1 AGAAGAAGAAGAAA
19469543 AGAAGAAGATGAGAATA
1 AGAAGAAGA--AGAA-A
19469560 AGAAGAAG-AGAAA
1 AGAAGAAGAAGAAA
19469573 A
1 A
19469574 TGGAAGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.07
14 13 0.46
16 4 0.14
17 9 0.32
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (14 bp):
AGAAGAAGAAGAAA
Found at i:19469549 original size:17 final size:17
Alignment explanation
Indices: 19469529--19469568 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
19469519 TAAGAAGTGG
19469529 AGAAGAAGAAGAA-AAGA
1 AGAAGAAG-AGAATAAGA
*
19469546 AGAAGATGAGAATAAGA
1 AGAAGAAGAGAATAAGA
19469563 AGAAGA
1 AGAAGA
19469569 GAAAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (17 bp):
AGAAGAAGAGAATAAGA
Found at i:19471675 original size:20 final size:20
Alignment explanation
Indices: 19471652--19471694 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
19471642 AGGCACAGTT
*
19471652 GTGCAAACAAGAACACCGAA
1 GTGCAAACAAGAACACCAAA
* *
19471672 GTGCAATCAAGGACACCAAA
1 GTGCAAACAAGAACACCAAA
19471692 GTG
1 GTG
19471695 TATACAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.09
Consensus pattern (20 bp):
GTGCAAACAAGAACACCAAA
Found at i:19487554 original size:29 final size:28
Alignment explanation
Indices: 19487521--19487575 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
19487511 TACAAGGTTT
* *
19487521 TCACATGGCCAAGAACACGCCTGTGTCCC
1 TCACACGGCCAA-AACACGCCCGTGTCCC
*
19487550 TCACACGGCCTAAACACGCCCGTGTC
1 TCACACGGCCAAAACACGCCCGTGTC
19487576 ATCGCCCATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.24, C:0.40, G:0.20, T:0.16
Consensus pattern (28 bp):
TCACACGGCCAAAACACGCCCGTGTCCC
Found at i:19493117 original size:206 final size:206
Alignment explanation
Indices: 19492756--19493163 Score: 563
Period size: 206 Copynumber: 2.0 Consensus size: 206
19492746 AAATTGCTTC
* * *
19492756 TAGAATCCAAGTTTTTCAATTTATTCAATTTAGTCCCAAATTTCCAATTGGACACCTTATACTTA
1 TAGAACCCAAGTTTTTCAATTTATTCAATTTAGTCCCAAATTTCCAATTGGACACCTTACACATA
* * *
19492821 GAATTTCTTCATGGAACTTTAACACATGCATATACTCATATTCTAAGCCTCATAATAATCATAAA
66 GAATTTCTTCATGAAAATTTAACACATGCATATACTAATATTCTAAGCCTCATAATAATCATAAA
* * *
19492886 ATAAATATTTTAATGTCATATTTGTGGTCCCAAAACCACTATT-TCGACTAGGCCCTATTTTGGG
131 ATAAATATTTTAACGTCAGATTTGTGGTCCCAAAACCACTATTCT-GACTAGGCCCTATTTCGGG
19492950 ATGTTACACTTT
195 ATGTTACACTTT
**
19492962 TAGAACCCAAGTTTTGT-AATTTATTCAATTTAGTCCTTAATTTCCAATTGGACACCTTACACAT
1 TAGAACCCAAGTTTT-TCAATTTATTCAATTTAGTCCCAAATTTCCAATTGGACACCTTACACAT
* * ** * *
19493026 AGAATTTCTTCATGAAAATTTAACATATGGATATTTTAATA-TCTTATA-CCTTATAATGATCAT
65 AGAATTTCTTCATGAAAATTTAACACATGCATATACTAATATTC-TA-AGCCTCATAATAATCAT
* * * *
19493089 GAAATAATTATTTTAACGTCAGATTTGTGGTCTCGAAACCACTATTCTGACTAGGCCCTATTTCG
128 AAAATAAATATTTTAACGTCAGATTTGTGGTCCCAAAACCACTATTCTGACTAGGCCCTATTTCG
19493154 GGATGTTACA
193 GGATGTTACA
19493164 ACAAACCTTT
Statistics
Matches: 177, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
205 2 0.01
206 172 0.97
207 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (206 bp):
TAGAACCCAAGTTTTTCAATTTATTCAATTTAGTCCCAAATTTCCAATTGGACACCTTACACATA
GAATTTCTTCATGAAAATTTAACACATGCATATACTAATATTCTAAGCCTCATAATAATCATAAA
ATAAATATTTTAACGTCAGATTTGTGGTCCCAAAACCACTATTCTGACTAGGCCCTATTTCGGGA
TGTTACACTTT
Found at i:19493952 original size:20 final size:20
Alignment explanation
Indices: 19493893--19493952 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
19493883 TGCATGCCCT
*
19493893 TGTTTGTGCTTCGGTACCCC
1 TGTTTGTACTTCGGTACCCC
** * *
19493913 TGAATGTACATAC-GTGCCCC
1 TGTTTGTAC-TTCGGTACCCC
19493933 TGTTTGTACTTCGGTACCCC
1 TGTTTGTACTTCGGTACCCC
19493953 CTGAATGCAT
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.13, C:0.30, G:0.22, T:0.35
Consensus pattern (20 bp):
TGTTTGTACTTCGGTACCCC
Found at i:19498906 original size:41 final size:40
Alignment explanation
Indices: 19498849--19498935 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 40
19498839 GAAGAAAAAG
19498849 TTAGAATTATTTGAGATAACTTGAAAGCTGCATCCGATCA
1 TTAGAATTATTTGAGATAACTTGAAAGCTGCATCCGATCA
19498889 TTTAGAATTATTTGAGATAACTTGAAAGCTGCATCCGATCA
1 -TTAGAATTATTTGAGATAACTTGAAAGCTGCATCCGATCA
19498930 TTAGAA
1 TTAGAA
19498936 ATCTTACGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 6 0.13
41 40 0.87
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (40 bp):
TTAGAATTATTTGAGATAACTTGAAAGCTGCATCCGATCA
Found at i:19501982 original size:22 final size:24
Alignment explanation
Indices: 19501947--19501990 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
19501937 TACTTTAGTC
19501947 TTTTTAATTATTATTTT-TTTATG
1 TTTTTAATTATTATTTTCTTTATG
*
19501970 TTTTT-ATTGTTATTTTCTTTA
1 TTTTTAATTATTATTTTCTTTA
19501991 GATTTCATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (24 bp):
TTTTTAATTATTATTTTCTTTATG
Found at i:19504427 original size:17 final size:18
Alignment explanation
Indices: 19504405--19504445 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
19504395 TAATAAATGA
19504405 AAATATATAAAATT-ATT
1 AAATATATAAAATTAATT
*
19504422 AAATAT-TAAATTTAATT
1 AAATATATAAAATTAATT
*
19504439 TAATATA
1 AAATATA
19504446 AATATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATATAAAATTAATT
Found at i:19513885 original size:30 final size:30
Alignment explanation
Indices: 19513849--19513909 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
19513839 AATTACTTTT
19513849 TACATAGAAAAAATATCTTATATATTAAAA
1 TACATAGAAAAAATATCTTATATATTAAAA
19513879 TACATAGAAAAAATATCTTATATATTAAAA
1 TACATAGAAAAAATATCTTATATATTAAAA
19513909 T
1 T
19513910 TTTATAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (30 bp):
TACATAGAAAAAATATCTTATATATTAAAA
Found at i:19520965 original size:69 final size:69
Alignment explanation
Indices: 19520849--19520985 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
19520839 GGTCGCTACA
*
19520849 GCTTACCATCCAAAGACAAATGGGCAAGCTGAACTGGCAAACAAAGAGATAAAAGGCATACTTGA
1 GCTTACCATCCAAAGACAAATGGGCAAGCTGAACTGGCAAACAAAGAGATAAAAGACATACTTGA
19520914 GAAG
66 GAAG
* * *
19520918 GCTTACCATCCACAGACAAATGGGCAAGCTGAACTGGCGAAA-TAAGAGATAAAAGATATACTTG
1 GCTTACCATCCAAAGACAAATGGGCAAGCTGAACTGGC-AAACAAAGAGATAAAAGACATACTTG
19520982 AGAA
65 AGAA
19520986 AGTAGTTTGC
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 60 0.95
70 3 0.05
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (69 bp):
GCTTACCATCCAAAGACAAATGGGCAAGCTGAACTGGCAAACAAAGAGATAAAAGACATACTTGA
GAAG
Found at i:19534242 original size:46 final size:48
Alignment explanation
Indices: 19534186--19534275 Score: 148
Period size: 46 Copynumber: 1.9 Consensus size: 48
19534176 TTTAGGTCAC
* *
19534186 TTATGTGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA
1 TTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACA
19534232 TTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 TTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
19534276 TAAGACCATG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
46 19 0.47
47 13 0.32
48 8 0.20
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
TTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACA
Found at i:19534289 original size:29 final size:29
Alignment explanation
Indices: 19534247--19534333 Score: 174
Period size: 29 Copynumber: 3.0 Consensus size: 29
19534237 AGAGCTAGTG
19534247 TAAGACCATGTCTAGGACATGGCATCGGC
1 TAAGACCATGTCTAGGACATGGCATCGGC
19534276 TAAGACCATGTCTAGGACATGGCATCGGC
1 TAAGACCATGTCTAGGACATGGCATCGGC
19534305 TAAGACCATGTCTAGGACATGGCATCGGC
1 TAAGACCATGTCTAGGACATGGCATCGGC
19534334 ATTGAGACGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (29 bp):
TAAGACCATGTCTAGGACATGGCATCGGC
Found at i:19541532 original size:30 final size:30
Alignment explanation
Indices: 19541475--19541532 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
19541465 TTTTCGAACA
* * **
19541475 TAGGGGTAAAATGGTCATTTTGTCAAAGCC
1 TAGGGGCAAAATGATCATTTTACCAAAGCC
*
19541505 TAGGGGCAAAATGATTATTTTACCAAAG
1 TAGGGGCAAAATGATCATTTTACCAAAG
19541533 ATGTAAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGATCATTTTACCAAAGCC
Found at i:19541924 original size:46 final size:45
Alignment explanation
Indices: 19541871--19541996 Score: 141
Period size: 47 Copynumber: 2.7 Consensus size: 45
19541861 TCACTTATTT
19541871 GAGCCAGTGTAAGACATGTCTGGGACATGCATTAGCCACATT-ATGA-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATT--CCACATTGA-GAC
**
19541917 GAGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCGGCATTGAGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTCCACATTGAGAC
*
19541963 GAGTGCTAGTGTAAGACATGTCTGGGACATGCAT
1 GA--GCCAGTGTAAGACATGTCTGGGACATGCAT
19541997 CGGCCTCGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 13
0.81 0.03 0.15
Matches are distributed among these distances:
45 7 0.10
46 20 0.29
47 29 0.41
48 14 0.20
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATTCCACATTGAGAC
Found at i:19542020 original size:46 final size:46
Alignment explanation
Indices: 19541876--19542046 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
19541866 TATTTGAGCC
** * * * *
19541876 AGTGTAAGACATGTCTGGGACATGCATTAGCCACAT--TATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACAT-A-AGCA
* * * *
19541922 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGT--GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGTGAC-A-TAAGCA
19541970 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACATAAGCA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACATAAGCA
*
19542016 AGTGTAAGACATGTCTGGGAAATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
19542047 TAAGAGTTGT
Statistics
Matches: 103, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 54 0.52
47 28 0.27
48 17 0.17
51 1 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACATAAGCA
Found at i:19542089 original size:46 final size:43
Alignment explanation
Indices: 19541922--19542089 Score: 147
Period size: 46 Copynumber: 3.7 Consensus size: 43
19541912 TATGAGAGCC
*
19541922 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--TGAGA-GTGTGCT
* * ** *
19541970 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGACATAAGCA
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CT-GAGA-GTGTGCT
* * *
19542016 AGTGTAAGACATGTCTGGGAAATGCATCGGCTAAGAGTTGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTGAGAG-TGTGCT
*
19542060 AGTGTAAGACCAAGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
19542090 ACACGGATAG
Statistics
Matches: 99, Mismatches: 16, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
44 13 0.13
45 15 0.15
46 47 0.47
47 15 0.15
48 9 0.09
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTGAGAGTGTGCT
Found at i:19545637 original size:42 final size:41
Alignment explanation
Indices: 19545578--19545691 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 41
19545568 ATGTTTGATA
*
19545578 CGTGTAAGACCATGTCTGGAACATGGCATCGATATGAGATTT
1 CGTGTAAGACCATGTCTGG-ACATGGCATCGATATGAGACTT
**
19545620 CGTGTAAGACCATGTCTGGGACATGTAATCGATATGAGACTT
1 CGTGTAAGACCATGTCT-GGACATGGCATCGATATGAGACTT
19545662 CGTGTAAGACCATAGT-TGGACTATGGCATC
1 CGTGTAAGACCAT-GTCTGGAC-ATGGCATC
19545692 AAGTAAACGA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
41 4 0.06
42 56 0.88
43 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (41 bp):
CGTGTAAGACCATGTCTGGACATGGCATCGATATGAGACTT
Found at i:19558097 original size:43 final size:42
Alignment explanation
Indices: 19557993--19558110 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
19557983 GATTTGAGAT
* *
19557993 TTACATGTAAGACCATGTTTGGGACA-TCGGCATCGTATATGA
1 TTACATGTAAGACCATGTCTGGGACAGT-GGCATCATATATGA
* * * *
19558035 TTTCGTG-AGAGACCCTGTCTGGGACAGTGGCATCAATATTTGA
1 TTACATGTA-AGACCATGTCTGGGACAGTGGCATC-ATATATGA
*
19558078 TTACATGTAAGACCATGTCTAGGAC-GTTGGCAT
1 TTACATGTAAGACCATGTCTGGGACAG-TGGCAT
19558111 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 32 0.52
44 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAGTGGCATCATATATGA
Found at i:19559871 original size:14 final size:14
Alignment explanation
Indices: 19559848--19559891 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
19559838 CCTAGATCCC
*
19559848 TAAACACTAAATCT
1 TAAACTCTAAATCT
*
19559862 TAAACTCTAAATAT
1 TAAACTCTAAATCT
*
19559876 TAAATTCTAAATCT
1 TAAACTCTAAATCT
19559890 TA
1 TA
19559892 TTCATCCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAACTCTAAATCT
Found at i:19562290 original size:44 final size:44
Alignment explanation
Indices: 19562240--19562323 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
19562230 GTCAGATACT
*
19562240 CACCAAGTCCAAGCAATACTCAAACTTTGAAATTGAAAGATTCA
1 CACCAAGTCCAAGCAATACTCAAACTTTGAAACTGAAAGATTCA
* *
19562284 CACCAAGTCCAAGCAATGCTCGAACTTTGAAACTGAAAGA
1 CACCAAGTCCAAGCAATACTCAAACTTTGAAACTGAAAGA
19562324 CTCTTTGTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (44 bp):
CACCAAGTCCAAGCAATACTCAAACTTTGAAACTGAAAGATTCA
Found at i:19569070 original size:12 final size:12
Alignment explanation
Indices: 19569053--19569077 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19569043 AAATTAAACT
19569053 TATTCAATCAAA
1 TATTCAATCAAA
19569065 TATTCAATCAAA
1 TATTCAATCAAA
19569077 T
1 T
19569078 TCATCCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TATTCAATCAAA
Found at i:19569877 original size:14 final size:15
Alignment explanation
Indices: 19569860--19569888 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19569850 TCACGAAAAT
19569860 TTCACACAT-ATAAA
1 TTCACACATAATAAA
19569874 TTCACACATAATAAA
1 TTCACACATAATAAA
19569889 CAAAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:19574062 original size:18 final size:18
Alignment explanation
Indices: 19574036--19574070 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19574026 GACTTATGCA
*
19574036 CATATAAATATATATACT
1 CATACAAATATATATACT
19574054 CATACAAATATATATAC
1 CATACAAATATATATAC
19574071 ATATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
CATACAAATATATATACT
Found at i:19574073 original size:16 final size:16
Alignment explanation
Indices: 19574035--19574073 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
19574025 TGACTTATGC
*
19574035 ACATATAAATATATAT
1 ACATACAAATATATAT
19574051 ACTCATACAAATATATAT
1 A--CATACAAATATATAT
19574069 ACATA
1 ACATA
19574074 TAATAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.25
18 15 0.75
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (16 bp):
ACATACAAATATATAT
Found at i:19576085 original size:24 final size:24
Alignment explanation
Indices: 19576031--19576192 Score: 155
Period size: 24 Copynumber: 6.7 Consensus size: 24
19576021 GAAATGACAT
* *
19576031 TGGCACTAAGTGTGCAGATTTTGAA
1 TGGCACTATGTGTGCGGA-TTTGAA
*
19576056 TGGCACTATGTGTGCGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
19576080 TAGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
19576104 TGTCAATAGAGTGTGTGGATTTCTAA
1 TGGCACTA-TGTGTGCGGATTT-GAA
* * *
19576130 -GGCACTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
*
19576153 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
19576177 TTGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
19576193 AAATCGATTG
Statistics
Matches: 107, Mismatches: 27, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
23 1 0.01
24 73 0.68
25 31 0.29
26 2 0.02
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:19576118 original size:49 final size:48
Alignment explanation
Indices: 19576033--19576191 Score: 158
Period size: 49 Copynumber: 3.3 Consensus size: 48
19576023 AATGACATTG
* * *
19576033 GCACTAAGTGTGCAGATTTTGAATGGCACTATGTGTGCGGAATTGAATA
1 GCACTATGTGTGCAGA-TTTGAATGGCACTAAGTGTGCGGATTTGAATA
* * * * * *
19576082 GCACTATGTGTGCTGATTTGAATGTCAATAGAGTGTGTGGATTTCTAA-G
1 GCACTATGTGTGCAGATTTGAATGGCACTA-AGTGTGCGGATTT-GAATA
* * * * *
19576131 GCACTATGTGTGCGGGTTAGCATGGCACTAAGTGTGCGGATTTGAATT
1 GCACTATGTGTGCAGATTTGAATGGCACTAAGTGTGCGGATTTGAATA
19576179 GCACTATGTGTGC
1 GCACTATGTGTGC
19576192 GAAATCGATT
Statistics
Matches: 89, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
47 2 0.02
48 37 0.42
49 48 0.54
50 2 0.02
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (48 bp):
GCACTATGTGTGCAGATTTGAATGGCACTAAGTGTGCGGATTTGAATA
Found at i:19583503 original size:49 final size:48
Alignment explanation
Indices: 19583418--19583576 Score: 158
Period size: 49 Copynumber: 3.3 Consensus size: 48
19583408 AATGACATTG
* * *
19583418 GCACTAAGTGTGCAGATTTTGAATGGCACTATGTGTGTGGAATTGAATA
1 GCACTATGTGTGCAGA-TTTGAATGGCACTAAGTGTGTGGATTTGAATA
* * * * *
19583467 GCACTATGTGTGCTGATTTGAATGTCAATAGAGTGTGTGGATTTCTAA-G
1 GCACTATGTGTGCAGATTTGAATGGCACTA-AGTGTGTGGATTT-GAATA
* * * * * *
19583516 GCACTATGTGTGCGGGTTAGCATGGCACTAAATGTGCGGATTTGAATA
1 GCACTATGTGTGCAGATTTGAATGGCACTAAGTGTGTGGATTTGAATA
19583564 GCACTATGTGTGC
1 GCACTATGTGTGC
19583577 GAAATCGATT
Statistics
Matches: 89, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
47 2 0.02
48 36 0.40
49 49 0.55
50 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.33
Consensus pattern (48 bp):
GCACTATGTGTGCAGATTTGAATGGCACTAAGTGTGTGGATTTGAATA
Found at i:19583577 original size:24 final size:24
Alignment explanation
Indices: 19583416--19583577 Score: 137
Period size: 24 Copynumber: 6.7 Consensus size: 24
19583406 GAAATGACAT
* *
19583416 TGGCACTAAGTGTGCAGATTTTGAA
1 TGGCACTATGTGTGCGGA-TTTGAA
* *
19583441 TGGCACTATGTGTGTGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
19583465 TAGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
19583489 TGTCAATAGAGTGTGTGGATTTCTAA
1 TGGCACTA-TGTGTGCGGATTT-GAA
* * *
19583515 -GGCACTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
**
19583538 TGGCACTAAATGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
19583562 TAGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
19583578 AAATCGATTG
Statistics
Matches: 103, Mismatches: 31, Indels: 7
0.73 0.22 0.05
Matches are distributed among these distances:
23 1 0.01
24 70 0.68
25 30 0.29
26 2 0.02
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:19584969 original size:27 final size:27
Alignment explanation
Indices: 19584939--19585079 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
19584929 GTGACGAAGT
*
19584939 CACCAGATACAGATATTATGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
19584966 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * *
19584993 CACCAAAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
19585020 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
19585047 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
19585074 CACCAG
1 CACCAG
19585080 GACGCTTCCT
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 10 0.10
27 85 0.86
28 4 0.04
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:19585021 original size:54 final size:54
Alignment explanation
Indices: 19584957--19585079 Score: 219
Period size: 54 Copynumber: 2.3 Consensus size: 54
19584947 ACAGATATTA
*
19584957 TGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCG
1 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCG
* *
19585011 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTG
1 TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCG
19585065 TGGCATAGCCACCAG
1 TGGCATAGCCACCAG
19585080 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.16
Consensus pattern (54 bp):
TGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATAATCG
Found at i:19585233 original size:28 final size:25
Alignment explanation
Indices: 19585171--19585245 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 25
19585161 CAAAATTAAC
*
19585171 CATAGGGGTATAAGGTAATTTTACA
1 CATAGGGGTATAAAGTAATTTTACA
* *
19585196 CCTAGGGGTATAACAGTAATTTTCCATA
1 CATAGGGGTATAA-AGTAATTTT--ACA
*
19585224 CATAGGGGTATTATAGTAATTT
1 CATAGGGGTA-TAAAGTAATTT
19585246 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.29
26 8 0.20
28 19 0.46
29 2 0.05
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (25 bp):
CATAGGGGTATAAAGTAATTTTACA
Found at i:19585504 original size:8 final size:8
Alignment explanation
Indices: 19585483--19585519 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
19585473 AAAATACAGA
19585483 CTTTTCGG
1 CTTTTCGG
* *
19585491 CATTTCAG
1 CTTTTCGG
19585499 CTTTTCGG
1 CTTTTCGG
19585507 CTTTTCGG
1 CTTTTCGG
19585515 CTTTT
1 CTTTT
19585520 GCCAATCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.05, C:0.24, G:0.19, T:0.51
Consensus pattern (8 bp):
CTTTTCGG
Found at i:19586733 original size:26 final size:26
Alignment explanation
Indices: 19586697--19586804 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
19586687 TGAAATGCTC
*
19586697 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
19586723 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
19586749 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
19586775 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19586801 ATCA
1 ATCA
19586805 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19592089 original size:27 final size:27
Alignment explanation
Indices: 19592051--19592209 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
19592041 GCGAGGCTGC
* *
19592051 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
19592078 CAGATATTGTGACAGAGTCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
19592104 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
19592131 CAGATAATCGTGGCATAGCCACCAG-TA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
19592158 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
19592185 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
19592210 GACGCTTCTT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.86
28 6 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:19592128 original size:54 final size:54
Alignment explanation
Indices: 19592069--19592209 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 54
19592059 GTGACGAAGT
* *
19592069 CACCAGATACAGAT-ATTGTGACAGAGTCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGC
* * * *
19592123 CACCAGATCAGATAATCGTGGCATAGCCACCAGTACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGC
* *
19592177 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGACAGAGCCACCAG
19592210 GACGCTTCTT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:19593864 original size:26 final size:26
Alignment explanation
Indices: 19593833--19593940 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
19593823 TGAAATGCCC
* *
19593833 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
19593859 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
19593885 ATCTTGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
19593911 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19593937 ATCA
1 ATCA
19593941 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19593894 original size:52 final size:52
Alignment explanation
Indices: 19593837--19593939 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
19593827 ATGCCCATCA
19593837 TGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCT
1 TGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCT
*
19593889 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATC
1 TGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATC
19593940 AATTTGTACC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (52 bp):
TGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCT
Found at i:19596813 original size:13 final size:13
Alignment explanation
Indices: 19596795--19596824 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19596785 GAAATGGGAA
19596795 AAAAACTAAAGAC
1 AAAAACTAAAGAC
*
19596808 AAAAACTAAAGAG
1 AAAAACTAAAGAC
19596821 AAAA
1 AAAA
19596825 TTATACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (13 bp):
AAAAACTAAAGAC
Done.