Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 16 of 207
Found at i:5068918 original size:13 final size:13
Alignment explanation
Indices: 5068897--5068928 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5068887 GCTTGGATCA
*
5068897 TCATCAAATAAAT
1 TCATAAAATAAAT
5068910 TCATAAAATAAAT
1 TCATAAAATAAAT
5068923 TCATAA
1 TCATAA
5068929 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:5069174 original size:30 final size:30
Alignment explanation
Indices: 5069139--5069196 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
5069129 CCTCGACTCT
*
5069139 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
5069169 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
5069197 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:5071686 original size:50 final size:50
Alignment explanation
Indices: 5071610--5071706 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
5071600 TATGATAAAA
* * *
5071610 GATGATAAAAATTGTTATGAATAGCCATCTCGCTTGAGGAGCCTCCTTGT
1 GATGATAAAAATTGTTATGAAAAGCCACCTCGCTTGAGGAACCTCCTTGT
*
5071660 GATGATAATAATTGTTATGAAAAGCCACCTCGCTTGAGGAACCTCCT
1 GATGATAAAAATTGTTATGAAAAGCCACCTCGCTTGAGGAACCTCCT
5071707 CGTCAGCATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (50 bp):
GATGATAAAAATTGTTATGAAAAGCCACCTCGCTTGAGGAACCTCCTTGT
Found at i:5072274 original size:30 final size:30
Alignment explanation
Indices: 5072228--5072351 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
5072218 TTTTATTATG
* *
5072228 CCAATATCTCGATACCCATATATTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
5072259 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
5072289 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
5072319 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
5072349 CCA
1 CCA
5072352 TAAATATGGA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 80 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:5072313 original size:15 final size:15
Alignment explanation
Indices: 5072238--5072345 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
5072228 CCAATATCTC
5072238 GATACCCATATATTT
1 GATACCCATATATTT
**
5072253 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
5072268 GATACCCATATCTTT
1 GATACCCATATATTT
**
5072283 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
5072298 GATACCCATATCTTT
1 GATACCCATATATTT
** *
5072313 GACTTTCTAT-TATTT
1 GA-TACCCATATATTT
*
5072328 GATACCCATATCTTT
1 GATACCCATATATTT
5072343 GAT
1 GAT
5072346 TTTCCATAAA
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
14 12 0.18
15 44 0.65
16 12 0.18
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:5076961 original size:30 final size:30
Alignment explanation
Indices: 5076915--5077008 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
5076905 TTTTATTATG
*
5076915 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
5076946 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
5076976 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
5077006 CCA
1 CCA
5077009 TAAATATGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 51 0.88
31 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:5076970 original size:15 final size:15
Alignment explanation
Indices: 5076925--5077002 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
5076915 CCAATATCTC
5076925 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
5076940 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
5076955 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
5076970 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
5076985 GATACCCATATCTTT
1 GATACCCATATCTTT
5077000 GAT
1 GAT
5077003 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:5080517 original size:41 final size:41
Alignment explanation
Indices: 5080467--5080607 Score: 117
Period size: 41 Copynumber: 3.4 Consensus size: 41
5080457 CTGGCGGTTT
* *
5080467 CTCACAAACGCCACTAAAAGACCCACCATTAGCGGCGTATA
1 CTCAAAAACGCCGCTAAAAGACCCACCATTAGCGGCGTATA
* * ** ** * *
5080508 CTCAAAAACGCCGGTAAAAGTCATAGAATTTGCGGCTCTATTA
1 CTCAAAAACGCCGCTAAAAGACCCACCATTAGCGGC-GTA-TA
*
5080551 -T-AAAAACGCCGC-AAAAAACCCTACCATTAGCGGCGTATA
1 CTCAAAAACGCCGCTAAAAGACCC-ACCATTAGCGGCGTATA
* *
5080590 CTCAAAAACACCGTTAAA
1 CTCAAAAACGCCGCTAAA
5080608 GGTCTCAGCA
Statistics
Matches: 73, Mismatches: 21, Indels: 11
0.70 0.20 0.10
Matches are distributed among these distances:
39 2 0.03
40 8 0.11
41 55 0.75
42 6 0.08
43 2 0.03
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (41 bp):
CTCAAAAACGCCGCTAAAAGACCCACCATTAGCGGCGTATA
Found at i:5080625 original size:82 final size:82
Alignment explanation
Indices: 5080472--5080648 Score: 214
Period size: 82 Copynumber: 2.2 Consensus size: 82
5080462 GGTTTCTCAC
* * *
5080472 AAACGCCACTAAAAGACCCACCATTAGCGGCGTATACTCAAAAACGCCGGTAAAAGTCATAGAAT
1 AAACGCCACTAAAAAACCCACCATTAGCGGCGTATACTCAAAAACACCGGTAAAAGTCATAGAAC
*
5080537 TTGCGGCTCTATTATAA
66 TAGCGGCTCTATTATAA
* * * *
5080554 AAACGCCGC-AAAAAACCCTACCATTAGCGGCGTATACTCAAAAACACCGTTAAAGGTC-TCAGC
1 AAACGCCACTAAAAAACCC-ACCATTAGCGGCGTATACTCAAAAACACCGGTAAAAGTCAT-AGA
* * **
5080617 ACTAGCGGCGCTAATATTG
64 ACTAGCGGCTCTATTATAA
5080636 AAACGCCACTAAA
1 AAACGCCACTAAA
5080649 GCCCTTCGAA
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
81 9 0.11
82 67 0.85
83 3 0.04
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.19
Consensus pattern (82 bp):
AAACGCCACTAAAAAACCCACCATTAGCGGCGTATACTCAAAAACACCGGTAAAAGTCATAGAAC
TAGCGGCTCTATTATAA
Found at i:5091219 original size:32 final size:32
Alignment explanation
Indices: 5091178--5091238 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
5091168 CCTGATTCCG
5091178 TTCACCGGCATTAAGCCTGCTAGATGTATTAT
1 TTCACCGGCATTAAGCCTGCTAGATGTATTAT
5091210 TTCACCGGCATTAAGCCTGCTAGATGTAT
1 TTCACCGGCATTAAGCCTGCTAGATGTAT
5091239 AATCTGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (32 bp):
TTCACCGGCATTAAGCCTGCTAGATGTATTAT
Found at i:5091262 original size:40 final size:40
Alignment explanation
Indices: 5091207--5091388 Score: 310
Period size: 40 Copynumber: 4.5 Consensus size: 40
5091197 CTAGATGTAT
* *
5091207 TATTTCACCGGCATTAAGCCTGCTAGATGTATAATCTGAA
1 TATTTCACCGGCATTAAGCCTGCTAGACGTATAGTCTGAA
* *
5091247 TATTTCATCAGCATTAAGCCTGCTAGACGTATAGTCTGAA
1 TATTTCACCGGCATTAAGCCTGCTAGACGTATAGTCTGAA
*
5091287 TATTTCACCGGCATTAAGCCTGCTAGACGTATAGTTTGAA
1 TATTTCACCGGCATTAAGCCTGCTAGACGTATAGTCTGAA
5091327 TATTTCACCGGCATTAAGCCTGCTAGACGTATAGTCTGAA
1 TATTTCACCGGCATTAAGCCTGCTAGACGTATAGTCTGAA
*
5091367 TATTTCACCGACATTAAGCCTG
1 TATTTCACCGGCATTAAGCCTG
5091389 TTAGGCACAA
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 133 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (40 bp):
TATTTCACCGGCATTAAGCCTGCTAGACGTATAGTCTGAA
Found at i:5106404 original size:65 final size:65
Alignment explanation
Indices: 5106323--5106453 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
5106313 TGTGCAAGAA
*
5106323 TCAAGTTAAGTAAGGACTGAATTAAAAAGCATTTTATGCTTATATATTGAACGACTTGTTTTAGG
1 TCAAGTTAAGTAAGGACTGAATTAAAAAGCATTTTATGCTTATATATCGAACGACTTGTTTTAGG
* *
5106388 TCAAGTTAAGTAAGGACTGAATTAATAAGCATTTTATGCTTATATATCGAATGACTTGTTTTAGG
1 TCAAGTTAAGTAAGGACTGAATTAAAAAGCATTTTATGCTTATATATCGAACGACTTGTTTTAGG
5106453 T
1 T
5106454 TAAGAAAGTA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (65 bp):
TCAAGTTAAGTAAGGACTGAATTAAAAAGCATTTTATGCTTATATATCGAACGACTTGTTTTAGG
Found at i:5110562 original size:61 final size:61
Alignment explanation
Indices: 5110463--5110586 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
5110453 AAATCAAAGC
*
5110463 AGGATGCTTTATCAGAAGAATTTCTGAAATAGAACCCACGTGGACGCGCTTTTGCTACAGT
1 AGGATGCTTTATCAGAAGAATTTCTGAAATAGAACCCACGTGGACGCACTTTTGCTACAGT
* **
5110524 AGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AGGATGCTTTATCAGAAGAATTTCTGAAATAGAACCCACGTGGACGCACTTTTGCTACAGT
5110585 AG
1 AG
5110587 CATGTTTGGG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (61 bp):
AGGATGCTTTATCAGAAGAATTTCTGAAATAGAACCCACGTGGACGCACTTTTGCTACAGT
Found at i:5110840 original size:14 final size:15
Alignment explanation
Indices: 5110821--5110855 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
5110811 TTTAATTTTC
*
5110821 AAAATTTCAAAAA-A
1 AAAATTTAAAAAATA
5110835 AAAATTTAAAAAATA
1 AAAATTTAAAAAATA
5110850 AAAATT
1 AAAATT
5110856 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTAAAAAATA
Found at i:5110914 original size:30 final size:30
Alignment explanation
Indices: 5110851--5110952 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
5110841 TAAAAAATAA
* *
5110851 AAATTGCATTTTGACCCTTAAACTTT-TCCT
1 AAATTTCATTTTGACCCTTAAACTTTCT-TT
5110881 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
* * * *
5110911 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
5110941 AAATTTCATTTT
1 AAATTTCATTTT
5110953 AATCCTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 62 0.98
31 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCTTAAACTTTCTTT
Found at i:5111330 original size:3 final size:3
Alignment explanation
Indices: 5111324--5111358 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
5111314 TAGGAGGAGG
5111324 AGA AGA AGA AGA AGA AGA AGA AGAA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA A
5111359 AGAAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:5111512 original size:16 final size:15
Alignment explanation
Indices: 5111493--5111562 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
5111483 CAACACAAAA
5111493 AAAAACAAATCAGCCC
1 AAAAA-AAATCAGCCC
***
5111509 AAAAAAAAATCAAAGC
1 -AAAAAAAATCAGCCC
*
5111525 AAAAAAAAGCAGCCC
1 AAAAAAAATCAGCCC
5111540 AAAAAGAAA--AGGCCC
1 AAAAA-AAATCA-GCCC
5111555 AAAAAAAA
1 AAAAAAAA
5111563 AAGAAAAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
14 4 0.09
15 25 0.57
16 10 0.23
17 5 0.11
ACGTcount: A:0.67, C:0.20, G:0.10, T:0.03
Consensus pattern (15 bp):
AAAAAAAATCAGCCC
Found at i:5111513 original size:31 final size:31
Alignment explanation
Indices: 5111488--5111549 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
5111478 AAAAACAACA
*
5111488 CAAA-AAAAAACAAATCAGCCCAAAAAAAAAT
1 CAAAGAAAAAA-AAAGCAGCCCAAAAAAAAAT
*
5111519 CAAAGCAAAAAAAAGCAGCCCAAAAAGAAAA
1 CAAAGAAAAAAAAAGCAGCCCAAAAA-AAAA
5111550 GGCCCAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.69, C:0.19, G:0.08, T:0.03
Consensus pattern (31 bp):
CAAAGAAAAAAAAAGCAGCCCAAAAAAAAAT
Found at i:5111564 original size:15 final size:16
Alignment explanation
Indices: 5111525--5111566 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
5111515 AAATCAAAGC
5111525 AAAAAAAAGCAGCCCAA
1 AAAAAAAAG-AGCCCAA
*
5111542 AAAGAAAAG-GCCCAA
1 AAAAAAAAGAGCCCAA
5111557 AAAAAAAAGA
1 AAAAAAAAGA
5111567 AAAAACAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 14 0.64
17 8 0.36
ACGTcount: A:0.69, C:0.17, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAGCCCAA
Found at i:5111700 original size:15 final size:13
Alignment explanation
Indices: 5111679--5111770 Score: 80
Period size: 13 Copynumber: 6.7 Consensus size: 13
5111669 GCAGGCCAGG
5111679 AAAAAAAGAGAGAA
1 AAAAAAAGA-AGAA
5111693 AGAAAAAAGAA-AA
1 A-AAAAAAGAAGAA
*
5111706 AAAGAAAGAAGAA
1 AAAAAAAGAAGAA
5111719 AAAAAGAA-AAGAGA
1 AAAAA-AAGAAGA-A
*
5111733 AAAAAAAGGAAAAA
1 AAAAAAA-GAAGAA
*
5111747 AGAAGAAAAAAAGAA
1 A-AA-AAAAGAAGAA
5111762 AAAAAAAGA
1 AAAAAAAGA
5111771 GTTTCAATTC
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
12 8 0.12
13 20 0.31
14 14 0.22
15 18 0.28
16 4 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAGAA
Found at i:5111706 original size:8 final size:8
Alignment explanation
Indices: 5111678--5111766 Score: 85
Period size: 8 Copynumber: 11.0 Consensus size: 8
5111668 AGCAGGCCAG
5111678 GAAAAAAA
1 GAAAAAAA
* *
5111686 GAGAGAAA
1 GAAAAAAA
5111694 G-AAAAAA
1 GAAAAAAA
5111701 GAAAAAAA
1 GAAAAAAA
*
5111709 G-AAAGAA
1 GAAAAAAA
5111716 GAAAAAAA
1 GAAAAAAA
5111724 GAAAAGAGAA
1 GAAAA-A-AA
*
5111734 -AAAAAAG
1 GAAAAAAA
5111741 GAAAAAAGAA
1 G-AAAAA-AA
5111751 GAAAAAAA
1 GAAAAAAA
5111759 GAAAAAAA
1 GAAAAAAA
5111767 AAGAGTTTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
7 12 0.18
8 35 0.53
9 15 0.23
10 4 0.06
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:5111708 original size:23 final size:21
Alignment explanation
Indices: 5111678--5111771 Score: 90
Period size: 19 Copynumber: 4.6 Consensus size: 21
5111668 AGCAGGCCAG
5111678 GAAAAAAAGAGAGAAAGAAAAAA
1 GAAAAAAAGAGAG-AA-AAAAAA
* *
5111701 GAAAAAAAGAAAG-AAGAAAA
1 GAAAAAAAGAGAGAAAAAAAA
*
5111721 -AAAGAAA-AGAGAAAAAAAA
1 GAAAAAAAGAGAGAAAAAAAA
*
5111740 GGAAAAAAGA-AG-AAAAAAA
1 GAAAAAAAGAGAGAAAAAAAA
*
5111759 GAAAAAAAAAGAG
1 GAAAAAAAGAGAG
5111772 TTTCAATTCG
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 3 0.05
19 27 0.47
20 14 0.24
21 2 0.03
23 12 0.21
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
GAAAAAAAGAGAGAAAAAAAA
Found at i:5111726 original size:11 final size:11
Alignment explanation
Indices: 5111695--5111770 Score: 84
Period size: 11 Copynumber: 6.7 Consensus size: 11
5111685 AGAGAGAAAG
*
5111695 AAAAAAGAAAA
1 AAAAAAGAAGA
5111706 AAAGAAAGAAGA
1 AAA-AAAGAAGA
5111718 AAAAAAGAAAAGA
1 AAAAAAG--AAGA
*
5111731 GAAAAAA-AAGG
1 -AAAAAAGAAGA
5111742 AAAAAAGAAGA
1 AAAAAAGAAGA
5111753 AAAAAAGAA-A
1 AAAAAAGAAGA
5111763 AAAAAAGA
1 AAAAAAGA
5111771 GTTTCAATTC
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
10 15 0.26
11 22 0.39
12 10 0.18
13 4 0.07
14 6 0.11
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAGA
Found at i:5111749 original size:35 final size:36
Alignment explanation
Indices: 5111678--5111768 Score: 116
Period size: 35 Copynumber: 2.5 Consensus size: 36
5111668 AGCAGGCCAG
5111678 GAAAAAAAGAGAGAAAGAAAAAAGAAAAAAAGAAAGAA
1 GAAAAAAAGA-A-AAAGAAAAAAGAAAAAAAGAAAGAA
**
5111716 GAAAAAAAGAAAAGAGAAAAAA-AAGGAAA-AAAGAA
1 GAAAAAAAGAAAA-AGAAAAAAGAAAAAAAGAAAGAA
5111751 GAAAAAAAGAAAAA-AAAA
1 GAAAAAAAGAAAAAGAAAA
5111769 GAGTTTCAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
33 4 0.08
34 1 0.02
35 19 0.38
36 7 0.14
37 9 0.18
38 10 0.20
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (36 bp):
GAAAAAAAGAAAAAGAAAAAAGAAAAAAAGAAAGAA
Found at i:5111756 original size:28 final size:29
Alignment explanation
Indices: 5111679--5111770 Score: 95
Period size: 28 Copynumber: 3.3 Consensus size: 29
5111669 GCAGGCCAGG
* *
5111679 AAAAAAAG-AGAGAAAGA-AAAAAGA-AA
1 AAAAAAAGAAGAAAAAAAGAAAAAGAGAA
5111705 AAAAGAAAGAAGAAAAAAAG-AAAAGAGAA
1 AAAA-AAAGAAGAAAAAAAGAAAAAGAGAA
* * *
5111734 AAAAAAGGAA-AAAAGAAGAAAAAAAGAA
1 AAAAAAAGAAGAAAAAAAGAAAAAGAGAA
5111762 AAAAAAAGA
1 AAAAAAAGA
5111771 GTTTCAATTC
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
26 4 0.07
27 11 0.20
28 34 0.62
29 6 0.11
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (29 bp):
AAAAAAAGAAGAAAAAAAGAAAAAGAGAA
Found at i:5112351 original size:20 final size:22
Alignment explanation
Indices: 5112310--5112352 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
5112300 AATTTTGTGT
*
5112310 AAAAAAATCCAGTGTTTTCAAA
1 AAAAAAATCCAGTGTTTCCAAA
5112332 AAAAAAATCCA-T-TTTCCAAA
1 AAAAAAATCCAGTGTTTCCAAA
5112352 A
1 A
5112353 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAAATCCAGTGTTTCCAAA
Found at i:5112415 original size:33 final size:34
Alignment explanation
Indices: 5112368--5112457 Score: 128
Period size: 33 Copynumber: 2.6 Consensus size: 34
5112358 AGTGTCTTCT
*
5112368 AAAAATTTTTGTGTTTCAAAAATTTTC-GTTTTC
1 AAAAATTTTCGTGTTTCAAAAATTTTCGGTTTTC
*
5112401 AAAAATTTCCGTGTTTCAAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTCAAAAATTTTCG-GTTTTC
* *
5112436 AAAATTTTTCGTATTTCAAAAA
1 AAAAATTTTCGTGTTTCAAAAA
5112458 ACCTCTTGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
33 25 0.50
35 25 0.50
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (34 bp):
AAAAATTTTCGTGTTTCAAAAATTTTCGGTTTTC
Found at i:5112422 original size:18 final size:17
Alignment explanation
Indices: 5112348--5112457 Score: 132
Period size: 17 Copynumber: 6.4 Consensus size: 17
5112338 ATCCATTTTC
* *
5112348 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
5112366 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
5112384 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
5112400 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
5112417 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
5112435 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
5112452 CAAAAA
1 CAAAAA
5112458 ACCTCTTGTT
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
16 15 0.19
17 35 0.43
18 19 0.23
19 12 0.15
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:5112468 original size:35 final size:35
Alignment explanation
Indices: 5112395--5112469 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
5112385 AAAAATTTTC
* ***
5112395 GTTTTCAAAAATTTCCGTGTTTCAAAAATTTTCGT
1 GTTTTCAAAAATTTCCGTATTTCAAAAAACCTCGT
* * *
5112430 GTTTTCAAAATTTTTCGTATTTCAAAAAACCTCTT
1 GTTTTCAAAAATTTCCGTATTTCAAAAAACCTCGT
5112465 GTTTT
1 GTTTT
5112470 TTGAAATTTC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (35 bp):
GTTTTCAAAAATTTCCGTATTTCAAAAAACCTCGT
Found at i:5112493 original size:17 final size:17
Alignment explanation
Indices: 5112468--5112509 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
5112458 ACCTCTTGTT
5112468 TTTTG-AAA-TTTCAGTG
1 TTTTGAAAATTTTC-GTG
5112484 TTTTGAAAATTTTCGTG
1 TTTTGAAAATTTTCGTG
*
5112501 TTTTCAAAA
1 TTTTGAAAA
5112510 AAAAAATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 14 0.61
18 4 0.17
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (17 bp):
TTTTGAAAATTTTCGTG
Found at i:5120832 original size:68 final size:69
Alignment explanation
Indices: 5120667--5120840 Score: 192
Period size: 70 Copynumber: 2.5 Consensus size: 69
5120657 CTTTCCAAGG
* **
5120667 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTTT
5120732 TTTAA
66 TTT-A
* * ** *
5120737 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGGACGCCGAGGTATTTTT-AGTTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTT-
5120800 TGTTT-
65 T-TTTA
* ** *
5120805 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
5120841 TTTAATTTTT
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
68 35 0.39
69 16 0.18
70 38 0.43
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTTT
TTTA
Found at i:5121139 original size:194 final size:191
Alignment explanation
Indices: 5120667--5121306 Score: 1102
Period size: 194 Copynumber: 3.3 Consensus size: 191
5120657 CTTTCCAAGG
*
5120667 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
* *
5120732 TTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGACGCCGAGGTATTTTTAGT
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTAGT
5120797 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* *
5120858 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATATTTTTAACTG
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG--TATTTTTAAAT-
5120923 TTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTT
63 TTTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTT
*
5120988 TCGTATTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTAATTTTTGTTTT
127 TAGT-TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC-TTTTAATTTTTGTTTT
5121053 TC
190 TC
5121055 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
5121120 TTAAAAAAATCATCTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTAGT
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTAGT
5121185 TTATGTTTTAAATTGAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTGTTTTTC
131 TTATGTTTTAAATTG-ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAA-TTTTTGTTTTTC
** *
5121248 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACG-CGAGGTATTTTTA
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTA
5121307 GTTTGTGTTT
Statistics
Matches: 427, Mismatches: 13, Indels: 16
0.94 0.03 0.04
Matches are distributed among these distances:
191 49 0.11
192 21 0.05
193 84 0.20
194 131 0.31
195 31 0.07
196 43 0.10
197 68 0.16
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (191 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTAGT
TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:5121152 original size:124 final size:124
Alignment explanation
Indices: 5120931--5121160 Score: 304
Period size: 124 Copynumber: 1.9 Consensus size: 124
5120921 TGTTTTTAAA
* * * **
5120931 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCCGAGGTATTTTTCGTATTA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTCAAATTA
* * * *
5120996 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTAATTTTTGTTTTTC
66 TGTTTAAAAATCACTCATATTGCGAGAAGTGAGTTAAGCCTTTTTAATTTTTGTTTTTC
**
5121055 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTT-AAATT-
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTCAAATTA
*
5121118 T-TTTAAAAAAATCATCTCATATTGCGAGAAGTGAGTTGAGCCT
66 TGTTT--AAAAATCA-CTCATATTGCGAGAAGTGAGTTAAGCCT
5121161 CGGGCACGCC
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
121 3 0.03
122 1 0.01
123 8 0.09
124 79 0.87
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.35
Consensus pattern (124 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTCAAATTA
TGTTTAAAAATCACTCATATTGCGAGAAGTGAGTTAAGCCTTTTTAATTTTTGTTTTTC
Found at i:5121252 original size:124 final size:123
Alignment explanation
Indices: 5121124--5121443 Score: 455
Period size: 124 Copynumber: 2.6 Consensus size: 123
5121114 AATTTTTTAA
*
5121124 AAAAATCATCTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTAGTTTAT
5121189 GTTTTAAATTGAACTCATATTGCGAGA-GGTGAGTTAAGCCTTTTAATTTTTTGTTTTTC
66 GTTTTAAATT-AACTCATATTGCGAGATGGTGAGTTAAGCCTTTTAA-TTTTTGTTTTTC
* *
5121248 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACG-CGAGGTATTTTTAGTTTG
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGG-CACGCCGAGGTATTTTTAGTTTA
* * * *
5121312 TGTTTCAAATTCACTCATATTGCGAGATGGTGAGTTTAGCGTTTTAATTTTTGTTTTTC
65 TGTTTTAAATTAACTCATATTGCGAGATGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* * * * * *
5121371 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG-GCAC--GCCGAGGTATTTTTAGTT
5121436 TATGTTTT
63 TATGTTTT
5121444 TTTCAATCTA
Statistics
Matches: 174, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
123 67 0.39
124 83 0.48
125 5 0.03
126 19 0.11
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (123 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTAGTTTAT
GTTTTAAATTAACTCATATTGCGAGATGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:5121260 original size:55 final size:55
Alignment explanation
Indices: 5121200--5121407 Score: 161
Period size: 55 Copynumber: 3.5 Consensus size: 55
5121190 TTTTAAATTG
*
5121200 AACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTGTTTTTCAAAAATC
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTTTTGTTTTTCAAAAATC
** ***
5121255 AACTCATATTGCGAGAAATGAGTTGAGCCTCGGGACACGCGAGGTATTTTTAGTTTGTGTTTC-A
1 AACTCATATTGCGAGAGGTGAGTTGAGCCT---TTTA----A--T-TTTTT-G--T-T-TTTCAA
*
5121319 AATTC
51 AAATC
* *
5121324 -ACTCATATTGCGAGATGGTGAGTTTAGCGTTTTAA-TTTTTGTTTTTCAAAAATC
1 AACTCATATTGCGAGA-GGTGAGTTGAGCCTTTTAATTTTTTGTTTTTCAAAAATC
*
5121378 AACTCATATTGCAAGAGGTGAGTTGAGCCT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCT
5121408 CGGCTCACAT
Statistics
Matches: 117, Mismatches: 18, Indels: 37
0.68 0.10 0.22
Matches are distributed among these distances:
53 4 0.03
54 18 0.15
55 42 0.36
57 1 0.01
58 6 0.05
62 2 0.02
64 1 0.01
65 5 0.04
66 2 0.02
68 16 0.14
69 16 0.14
70 4 0.03
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (55 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTTTTGTTTTTCAAAAATC
Found at i:5121448 original size:16 final size:17
Alignment explanation
Indices: 5121427--5121460 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5121417 TGCTGAGGTA
*
5121427 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
5121443 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
5121460 T
1 T
5121461 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:5121573 original size:176 final size:179
Alignment explanation
Indices: 5121366--5121765 Score: 562
Period size: 180 Copynumber: 2.2 Consensus size: 179
5121356 TAATTTTTGT
* *
5121366 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
* *
5121430 TC-AATT-TATGTTTTTTTCAATCTATGCT-TTTC-AAAAATCAACTTATATTGCGAGAGGTGAG
64 TCAAATTCTAT-TTTTTTTCAATCTAT-CTGTTTCAAAAAATCAACTCATATTGCAAGAGGTGAG
*
5121491 TTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGCTTTACTAA-TTCTAC
127 TTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTAC-AATTTCTAC
*
5121544 TTTTC-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
* * *
5121608 AAATTCTATTTTTTTTTAATTTCTCTGTTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTT
66 AAATTCTATTTTTTTTCAATCTATCTGTTTC--AAAAAATCAACTCATATTGCAAGAGGTGAGTT
* * **
5121673 GAGCCTCAGGGCACGCTGAGGTATTTTCAATTTCTACTTTTCAATTTCTGT
129 GAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
5121724 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
5121766 TTTAATTTCT
Statistics
Matches: 199, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
176 54 0.27
177 23 0.12
178 8 0.04
179 2 0.01
180 77 0.39
182 35 0.18
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (179 bp):
TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AAATTCTATTTTTTTTCAATCTATCTGTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
GCCTCAAGGCACGCTGAGGTATTTTCAATTTCTACTTTACAATTTCTAC
Found at i:5121753 original size:87 final size:88
Alignment explanation
Indices: 5121353--5121765 Score: 462
Period size: 87 Copynumber: 4.6 Consensus size: 88
5121343 GAGTTTAGCG
* * *
5121353 TTTT-AATTTTTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCAC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCGCAC
* **
5121416 ATGCTGAGGTATTTTCAATTTATGTTT
66 --GCTGAGGTATTTTCAA-TT-TCTAC
* * * * *
5121443 TTTTCAATCTATGCTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAG-GCAC
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCGCAC
*
5121507 GCTGAGGTATTTTCAATTTCTGC
66 GCTGAGGTATTTTCAATTTCTAC
* ** *
5121530 TTTACTAA-TTCTACTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCCAC
1 TTTTC-AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CGC
* * *
5121592 ACGCTGAGGTCTTTTCAAATTCTATTTT
64 ACGCTGAGGTATTTTCAATTTCTA---C
* * * *
5121620 TTTTTAATTTCTCTGTTTCAAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-G
1 TTTTCAATTTCTGTTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCG
5121684 CACGCTGAGGTATTTTCAATTTCTAC
63 CACGCTGAGGTATTTTCAATTTCTAC
5121710 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
5121766 TTTAATTTCT
Statistics
Matches: 274, Mismatches: 35, Indels: 31
0.81 0.10 0.09
Matches are distributed among these distances:
85 37 0.14
87 72 0.26
88 4 0.01
89 18 0.07
90 31 0.11
91 50 0.18
92 1 0.00
93 23 0.08
95 38 0.14
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (88 bp):
TTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCGCAC
GCTGAGGTATTTTCAATTTCTAC
Found at i:5121793 original size:54 final size:55
Alignment explanation
Indices: 5121709--5121926 Score: 315
Period size: 54 Copynumber: 4.1 Consensus size: 55
5121699 TCAATTTCTA
*
5121709 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
5121764 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
5121818 C--TT---TTTCTATTTTTCAAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
5121869 CTTTTGCAAGTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
5121924 CTT
1 CTT
5121927 GGCTCACGTG
Statistics
Matches: 148, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
50 12 0.08
51 34 0.23
52 2 0.01
53 2 0.01
54 48 0.32
55 41 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:5122231 original size:30 final size:30
Alignment explanation
Indices: 5122197--5122253 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
5122187 TTAAAAATAA
*
5122197 AAATTACATTTTGACCCCTAAACTTTTCCT
1 AAATTACATTTTGACCCCTAAAATTTTCCT
* *
5122227 AAATTTCATTTTGACCCTTAAAATTTT
1 AAATTACATTTTGACCCCTAAAATTTT
5122254 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTACATTTTGACCCCTAAAATTTTCCT
Found at i:5122273 original size:35 final size:35
Alignment explanation
Indices: 5122181--5122283 Score: 126
Period size: 35 Copynumber: 3.1 Consensus size: 35
5122171 CTTTCAAAAA
*
5122181 AAAATTTTAAAAATAAAAATTACATTTTGACCCCT
1 AAAATTTTAAAAATAAAAATTTCATTTTGACCCCT
* ** *
5122216 AAACTTTT---CCT--AAATTTCATTTTGACCCTT
1 AAAATTTTAAAAATAAAAATTTCATTTTGACCCCT
5122246 AAAATTTTAAAAATAAAAATTTCATTTTGACCCCT
1 AAAATTTTAAAAATAAAAATTTCATTTTGACCCCT
5122281 AAA
1 AAA
5122284 CTTTCTTTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
30 24 0.44
32 1 0.02
33 1 0.02
35 28 0.52
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.38
Consensus pattern (35 bp):
AAAATTTTAAAAATAAAAATTTCATTTTGACCCCT
Found at i:5122999 original size:61 final size:61
Alignment explanation
Indices: 5122900--5123023 Score: 212
Period size: 61 Copynumber: 2.0 Consensus size: 61
5122890 AAATCAAAGC
* *
5122900 AGGATGCTTTATCAGAAGAATTTCTGAAATAGCACCCACGTGGACGCGCTTTTGCTACAGT
1 AGGATGCTTTATAAGAAGAATTTCTGAAATAGCACCCACGTGGACGCACTTTTGCTACAGT
* *
5122961 AGGATGCTTTATAAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AGGATGCTTTATAAGAAGAATTTCTGAAATAGCACCCACGTGGACGCACTTTTGCTACAGT
5123022 AG
1 AG
5123024 CATGTTTGGG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (61 bp):
AGGATGCTTTATAAGAAGAATTTCTGAAATAGCACCCACGTGGACGCACTTTTGCTACAGT
Found at i:5123277 original size:14 final size:15
Alignment explanation
Indices: 5123258--5123292 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
5123248 TTTAATTTTC
*
5123258 AAAATTTCAAAAA-A
1 AAAATTTAAAAAATA
5123272 AAAATTTAAAAAATA
1 AAAATTTAAAAAATA
5123287 AAAATT
1 AAAATT
5123293 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTAAAAAATA
Found at i:5123351 original size:30 final size:30
Alignment explanation
Indices: 5123288--5123389 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
5123278 TAAAAAATAA
* *
5123288 AAATTGCATTTTGACCCTTAAACTTT-TCCT
1 AAATTTCATTTTGACCCTTAAACTTTCT-TT
5123318 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
* * * *
5123348 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCTTAAACTTTCTTT
5123378 AAATTTCATTTT
1 AAATTTCATTTT
5123390 AATCCTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
30 62 0.98
31 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCTTAAACTTTCTTT
Found at i:5123671 original size:10 final size:10
Alignment explanation
Indices: 5123652--5123701 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
5123642 TTTTTCGAAG
*
5123652 GAAAAAAGAA
1 GAAAAGAGAA
5123662 GAAAAGAGAA
1 GAAAAGAGAA
5123672 GAAAAGAGAA
1 GAAAAGAGAA
* *
5123682 -AGAGGAGAA
1 GAAAAGAGAA
5123691 GAAAAGA-AA
1 GAAAAGAGAA
5123700 GA
1 GA
5123702 GTACCGGCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:5123702 original size:17 final size:19
Alignment explanation
Indices: 5123655--5123697 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
5123645 TTCGAAGGAA
5123655 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
5123673 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
5123692 AAAAGA
1 AAAAGA
5123698 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:5123773 original size:3 final size:3
Alignment explanation
Indices: 5123767--5123803 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
5123757 GTGTAGGAGG
* *
5123767 AGA AGA AGA AGA AGA AAA AGA AGA AGA AAA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
5123804 AGAAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:5123787 original size:12 final size:12
Alignment explanation
Indices: 5123767--5123820 Score: 76
Period size: 12 Copynumber: 4.6 Consensus size: 12
5123757 GTGTAGGAGG
*
5123767 AGAAGAAGAAGA
1 AGAAAAAGAAGA
5123779 AGAAAAAGAAGA
1 AGAAAAAGAAGA
5123791 AGAAAAAGAAGAA
1 AGAAAAAGAAG-A
5123804 AGAAAAA-AA-A
1 AGAAAAAGAAGA
5123814 AGAAAAA
1 AGAAAAA
5123821 AAATTTAACA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
10 8 0.20
12 24 0.60
13 8 0.20
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAAGA
Found at i:5123804 original size:9 final size:9
Alignment explanation
Indices: 5123767--5123820 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
5123757 GTGTAGGAGG
*
5123767 AGAAGAAGA
1 AGAAGAAAA
5123776 AGAAGAAAA
1 AGAAGAAAA
5123785 AGAAGAAGAA
1 AGAAGAA-AA
5123795 A-AAGAAGAA
1 AGAAGAA-AA
5123804 AGAA-AAAA
1 AGAAGAAAA
5123812 A-AAGAAAA
1 AGAAGAAAA
5123820 A
1 A
5123821 AAATTTAACA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
7 2 0.05
8 8 0.20
9 26 0.63
10 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
AGAAGAAAA
Found at i:5124000 original size:31 final size:29
Alignment explanation
Indices: 5123917--5124001 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 29
5123907 AAATTAATTA
*
5123917 AAAAAAACAACACAAAAAAAACAAATCAGCCC
1 AAAAAAA-AAC-CAAAAAAAA-AAAGCAGCCC
*
5123949 AACAAAAAACCAAAGCAAAAAAAAGCAGCCC
1 AAAAAAAAACCAAA--AAAAAAAAGCAGCCC
5123980 AAAAAAAAAGGCCAAAAAAAAA
1 AAAAAAAAA--CCAAAAAAAAA
5124002 GAAGAAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
30 4 0.09
31 26 0.57
32 11 0.24
33 5 0.11
ACGTcount: A:0.71, C:0.21, G:0.07, T:0.01
Consensus pattern (29 bp):
AAAAAAAAACCAAAAAAAAAAAGCAGCCC
Found at i:5124022 original size:14 final size:13
Alignment explanation
Indices: 5123964--5124002 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
5123954 AAAACCAAAG
5123964 CAAAAAAAAGCAGCC
1 CAAAAAAAA--AGCC
*
5123979 CAAAAAAAAAGGC
1 CAAAAAAAAAGCC
5123992 CAAAAAAAAAG
1 CAAAAAAAAAG
5124003 AAGAAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.69, C:0.18, G:0.13, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAGCC
Found at i:5124154 original size:16 final size:15
Alignment explanation
Indices: 5124135--5124195 Score: 68
Period size: 15 Copynumber: 3.7 Consensus size: 15
5124125 AGAGAGAAAG
*
5124135 AAAAAAGAAAGGAGA
1 AAAAAAGAAAAGAGA
5124150 AAAAAAGAAAAGAGAA
1 AAAAAAGAAAAGAG-A
5124166 AAAAAAGGAAAAAAGAAGA
1 AAAAAA-G--AAAAG-AGA
5124185 AAAAAAGAAAA
1 AAAAAAGAAAA
5124196 AAAAGAGTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
15 13 0.32
16 11 0.28
17 1 0.03
18 1 0.03
19 12 0.30
20 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAGAGA
Found at i:5124160 original size:20 final size:20
Alignment explanation
Indices: 5124137--5124200 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 20
5124127 AGAGAAAGAA
5124137 AAAAGAAAGGAGAAAAAAAG
1 AAAAGAAAGGAGAAAAAAAG
5124157 AAAAG--A-GA-AAAAAAAG
1 AAAAGAAAGGAGAAAAAAAG
* *
5124173 GAAA-AAAGAAGAAAAAAAG
1 AAAAGAAAGGAGAAAAAAAG
*
5124192 AAAAAAAAG
1 AAAAGAAAG
5124201 AGTTTCAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
16 11 0.31
17 3 0.08
18 2 0.06
19 11 0.31
20 9 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AAAAGAAAGGAGAAAAAAAG
Found at i:5124161 original size:27 final size:27
Alignment explanation
Indices: 5124119--5124200 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 27
5124109 GCAGGCCAGG
5124119 GAAAAAAGAGAGAAAGA-AAAAAGAAAGGA
1 GAAAAAA-AGA-AAAGAGAAAAA-AAAGGA
5124148 GAAAAAAAGAAAAGAGAAAAAAAAGGA
1 GAAAAAAAGAAAAGAGAAAAAAAAGGA
*
5124175 -AAAAAGAAGAAAAAAAGAAAAAAAAG
1 GAAAAA-AAG-AAAAGAGAAAAAAAAG
5124201 AGTTTCAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
26 5 0.10
27 14 0.29
28 23 0.47
29 7 0.14
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (27 bp):
GAAAAAAAGAAAAGAGAAAAAAAAGGA
Found at i:5124162 original size:35 final size:34
Alignment explanation
Indices: 5124122--5124195 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 34
5124112 GGCCAGGGAA
* *
5124122 AAAAGAGAGAAAGAAAA-AAGAAAGGAGAAAAAAAG
1 AAAAGAGA-AAA-AAAAGAAAAAAGAAGAAAAAAAG
5124157 AAAAGAGAAAAAAAAGGAAAAAAGAAGAAAAAAAG
1 AAAAGAGAAAAAAAA-GAAAAAAGAAGAAAAAAAG
5124192 AAAA
1 AAAA
5124196 AAAAGAGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 4 0.11
34 3 0.09
35 28 0.80
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (34 bp):
AAAAGAGAAAAAAAAGAAAAAAGAAGAAAAAAAG
Found at i:5124198 original size:11 final size:11
Alignment explanation
Indices: 5124131--5124199 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 11
5124121 AAAAAGAGAG
*
5124131 AAAGAAAAAAG
1 AAAGAAAAAAA
* *
5124142 AAAGGAGAAAA
1 AAAGAAAAAAA
5124153 AAAGAAAAGAGAA
1 AAAGAAAA-A-AA
*
5124166 AAA-AAAGGAAA
1 AAAGAAA-AAAA
*
5124177 AAAGAAGAAAA
1 AAAGAAAAAAA
5124188 AAAGAAAAAAA
1 AAAGAAAAAAA
5124199 A
1 A
5124200 GAGTTTCAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
11 33 0.73
12 7 0.16
13 5 0.11
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:5124558 original size:20 final size:21
Alignment explanation
Indices: 5124521--5124559 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5124511 AAAAAATATT
*
5124521 AAAAAAAAGTCTCATATTTAC
1 AAAAAAAAATCTCATATTTAC
*
5124542 AAAAAAAAATTTC-TATTT
1 AAAAAAAAATCTCATATTT
5124560 TTCAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAAAAAAATCTCATATTTAC
Found at i:5124784 original size:19 final size:21
Alignment explanation
Indices: 5124744--5124785 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
5124734 AATTTTGTGT
*
5124744 AAAAAAATCCAGTGTTTTCAA
1 AAAAAAATCCAGTGTTTCCAA
5124765 AAAAAAATCCA-T-TTTCCAA
1 AAAAAAATCCAGTGTTTCCAA
5124784 AA
1 AA
5124786 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 1 0.05
21 11 0.55
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAAAAATCCAGTGTTTCCAA
Found at i:5124855 original size:18 final size:17
Alignment explanation
Indices: 5124781--5124943 Score: 159
Period size: 17 Copynumber: 9.4 Consensus size: 17
5124771 ATCCATTTTC
* *
5124781 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
5124799 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
5124817 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
5124833 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
5124850 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
5124868 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
5124885 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
5124903 CAAAAA-TTTCGATGTTT
1 CAAAAATTTTCG-TGTTT
**
5124920 TGAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
5124938 CAAAAA
1 CAAAAA
5124944 AAAAATCTTG
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
16 15 0.13
17 50 0.42
18 42 0.35
19 12 0.10
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:5124943 original size:35 final size:34
Alignment explanation
Indices: 5124781--5124943 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 34
5124771 ATCCATTTTC
* * * *
5124781 CAAAATTTTTAGTGTCTTCTAAAAATTTTTGTGTTT
1 CAAAAATTTTCGTGTTTTC-AAAAA-TTTCGTGTTT
5124817 CAAAAATTTTC--GTTTTCAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTT-CGTGTTT
* *
5124850 CAAAAATTTTCGTGTTTTCAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTTTCAAAA-ATTTCGTGTTT
** *
5124885 CAAAAATCCTCTTGTTTTCAAAAATTTCGATGTTT
1 CAAAAATTTTCGTGTTTTCAAAAATTTCG-TGTTT
**
5124920 TGAAAATTTTCGTGTTTTCAAAAA
1 CAAAAATTTTCGTGTTTTCAAAAA
5124944 AAAAATCTTG
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.03
33 22 0.21
34 10 0.09
35 59 0.56
36 12 0.11
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (34 bp):
CAAAAATTTTCGTGTTTTCAAAAATTTCGTGTTT
Found at i:5129567 original size:22 final size:21
Alignment explanation
Indices: 5129519--5129567 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
5129509 TATATATTGT
**
5129519 AGAATATATAAAAATATTTATA
1 AGAA-ATATAAAAATATACATA
*
5129541 TGAAATATAAAATATATACATA
1 AGAAATATAAAA-ATATACATA
5129563 AGAAA
1 AGAAA
5129568 AATATGGATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (21 bp):
AGAAATATAAAAATATACATA
Found at i:5129669 original size:26 final size:26
Alignment explanation
Indices: 5129606--5129686 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 26
5129596 GTATAAATAT
5129606 ATGTGTATATATATA-AGTAAAGTATGAAAA
1 ATGTGTATATATATACA-TAAA-T-T--AAA
*
5129636 TATGTGTATATATGTACATAAATTAAA
1 -ATGTGTATATATATACATAAATTAAA
* *
5129663 ATGTGTATATGTATATATAAATTA
1 ATGTGTATATATATACATAAATTA
5129687 TAAAGTAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
26 21 0.47
27 3 0.07
29 1 0.02
30 1 0.02
31 18 0.40
32 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.14, T:0.40
Consensus pattern (26 bp):
ATGTGTATATATATACATAAATTAAA
Found at i:5129783 original size:3 final size:3
Alignment explanation
Indices: 5129769--5129833 Score: 103
Period size: 3 Copynumber: 21.3 Consensus size: 3
5129759 GATATAAATG
**
5129769 AAT AAGT AAT AAT AAT AGC AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5129815 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
5129834 GTAAAAGAAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
3 54 0.95
4 3 0.05
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5131134 original size:35 final size:35
Alignment explanation
Indices: 5131091--5131177 Score: 174
Period size: 35 Copynumber: 2.5 Consensus size: 35
5131081 GGCTTTTATA
5131091 GTATTAATTGTTAGTAAAATTATTAATTGTTAATT
1 GTATTAATTGTTAGTAAAATTATTAATTGTTAATT
5131126 GTATTAATTGTTAGTAAAATTATTAATTGTTAATT
1 GTATTAATTGTTAGTAAAATTATTAATTGTTAATT
5131161 GTATTAATTGTTAGTAA
1 GTATTAATTGTTAGTAA
5131178 TTTTTTTAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.51
Consensus pattern (35 bp):
GTATTAATTGTTAGTAAAATTATTAATTGTTAATT
Found at i:5131165 original size:16 final size:16
Alignment explanation
Indices: 5131111--5131173 Score: 74
Period size: 16 Copynumber: 3.8 Consensus size: 16
5131101 TTAGTAAAAT
5131111 TATTAATTGTTAATTG
1 TATTAATTGTTAATTG
*
5131127 TATTAATTGTTAGTAAAAT-
1 TATTAATTG-T--T-AATTG
5131146 TATTAATTGTTAATTG
1 TATTAATTGTTAATTG
5131162 TATTAATTGTTA
1 TATTAATTGTTA
5131174 GTAATTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
15 3 0.08
16 22 0.55
17 1 0.03
18 1 0.03
19 10 0.25
20 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (16 bp):
TATTAATTGTTAATTG
Found at i:5131178 original size:19 final size:19
Alignment explanation
Indices: 5131091--5131179 Score: 86
Period size: 19 Copynumber: 5.0 Consensus size: 19
5131081 GGCTTTTATA
*
5131091 GTATTAATTGTTAGTAAAAT
1 GTATTAATTGTTAGT-AATT
5131111 -TATTAATTG-T--TAATT
1 GTATTAATTGTTAGTAATT
*
5131126 GTATTAATTGTTAGTAAAAT
1 GTATTAATTGTTAGT-AATT
5131146 -TATTAATTG-T--TAATT
1 GTATTAATTGTTAGTAATT
5131161 GTATTAATTGTTAGTAATT
1 GTATTAATTGTTAGTAATT
5131180 TTTTTAAATT
Statistics
Matches: 57, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
15 6 0.11
16 20 0.35
17 2 0.04
18 2 0.04
19 24 0.42
20 3 0.05
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (19 bp):
GTATTAATTGTTAGTAATT
Found at i:5131258 original size:22 final size:22
Alignment explanation
Indices: 5131228--5131318 Score: 112
Period size: 22 Copynumber: 4.1 Consensus size: 22
5131218 AGGGTTTTTG
*
5131228 TTAATGTT-AGGGTTTTAAGGTTT
1 TTAA-GTTAAGGG-TTTAGGGTTT
* *
5131251 TTAAGTTAAGGGCTTAGGGTAT
1 TTAAGTTAAGGGTTTAGGGTTT
* *
5131273 TTAAGTTAAGGGCTTGGGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
5131295 TTAAGTTAAGGGTTTAGGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
5131317 TT
1 TT
5131319 GTTAGGGTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
22 52 0.87
23 8 0.13
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (22 bp):
TTAAGTTAAGGGTTTAGGGTTT
Found at i:5131347 original size:7 final size:7
Alignment explanation
Indices: 5131335--5131374 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
5131325 GTTTGTCAAT
5131335 TAAATTA
1 TAAATTA
5131342 TAAATT-
1 TAAATTA
5131348 T-AATTA
1 TAAATTA
5131354 TAAATTA
1 TAAATTA
5131361 TAAATTTA
1 TAAA-TTA
5131369 TAAATT
1 TAAATT
5131375 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:5131347 original size:12 final size:12
Alignment explanation
Indices: 5131332--5131374 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
5131322 AGGGTTTGTC
5131332 AATTAAATTATA
1 AATTAAATTATA
*
5131344 AATTTAATTATA
1 AATTAAATTATA
5131356 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
5131371 AATT
1 AATT
5131375 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:5131420 original size:22 final size:22
Alignment explanation
Indices: 5131390--5131462 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 22
5131380 TAAATTAGGG
*
5131390 TAGGGTTTTTAAGTTGAGGG-T
1 TAGGGTTTTTAAGTTAAGGGCT
5131411 TAGGGTTTTTAAGTTAAGGGCT
1 TAGGGTTTTTAAGTTAAGGGCT
* *
5131433 TAGGGTTTTTAAGTTTAGGGTT
1 TAGGGTTTTTAAGTTAAGGGCT
5131455 TAGGGTTT
1 TAGGGTTT
5131463 AGAGTTTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
21 19 0.40
22 29 0.60
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.45
Consensus pattern (22 bp):
TAGGGTTTTTAAGTTAAGGGCT
Found at i:5131520 original size:155 final size:155
Alignment explanation
Indices: 5131246--5131914 Score: 1074
Period size: 155 Copynumber: 4.4 Consensus size: 155
5131236 AGGGTTTTAA
* *
5131246 GGTTTTTAAGTTAAGGGCTTAGGGTATTTAAGTTAAGGGCTTGGGGTTTTTAAGTTAAGGGTTTA
1 GGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTA
*
5131311 --G----G-GTTTTT--GTTAGGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATT
65 GGGTTTAGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATT
5131367 TATAAATTTTTAATAAATTAGGGTAG
130 TATAAATTTTTAATAAATTAGGGTAG
* *
5131393 GGTTTTTAAGTTGAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTTAGGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAG
*
5131458 GGTTTAGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTCTAAATTATAAATTT
66 GGTTTAGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTT
* *
5131523 ATAATTTTTTAATAAATTAGGGCAG
131 ATAAATTTTTAATAAATTAGGGTAG
5131548 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGCTTAGGG-TTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAG
* *
5131611 GGTTTAGAATTTTTAAGTTAAGGTCTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTT
66 GGTTTAGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTT
5131676 ATAAATTTTTAATAAATTAGGGTAG
131 ATAAATTTTTAATAAATTAGGGTAG
* *
5131701 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTATGGTTTTTAAGTTAAGGGTTTAA
1 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAG
* *
5131766 GGTTTA-AGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATT
66 GGTTTAGA-GTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATT
* *
5131830 TATAATTTTTTAATAAATTAGGTTAG
130 TATAAATTTTTAATAAATTAGGGTAG
* *
5131856 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGG
1 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGG
5131915 TTTGTCAATT
Statistics
Matches: 485, Mismatches: 25, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
146 44 0.09
147 16 0.03
148 1 0.00
152 1 0.00
153 144 0.30
154 18 0.04
155 261 0.54
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.45
Consensus pattern (155 bp):
GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTAAGGGTTTAG
GGTTTAGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTT
ATAAATTTTTAATAAATTAGGGTAG
Found at i:5131560 original size:134 final size:133
Alignment explanation
Indices: 5131408--5132295 Score: 796
Period size: 155 Copynumber: 6.2 Consensus size: 133
5131398 TTAAGTTGAG
*
5131408 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTAGAGTTTTTA
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAGAGTTTTTA
* *
5131473 AGTTAAGGTTTGTCAATTAAATTATAAATTTAATTCTAAATTATAAATTTATAATTTTTTAATAA
65 AGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAA
5131538 ATTA
130 ATTA
** *
5131542 GGGCAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGCTTAGGGTTTTAAGTTAAGGG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGG-TTT-AG---A--G
* *
5131606 TTTAGGGTTTAGAATTTTTAA-GTTAAGGTCTGTCAATTAAATTATAAATTTAATTATAAATTAT
59 -TT----TTT--AA--GTTAAGGTT-T-----GTCAATTAAATTATAAATTTAATTATAAATTAT
5131670 AAATTTATAAATTTTTAATAAATTA
109 AAATTTATAAATTTTTAATAAATTA
* * *
5131695 GGGTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTATGGTTTTTA-AGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA-GG-GTTTAGAGTT---
*
5131759 GGTTTAAGGTTTAAGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTA
61 --TTTAA-G----------TTAAG----G-TTTGTCAATTAAATTATAAATTTAATTATAAATTA
*
5131824 TAAATTTATAATTTTTTAATAAATTA
108 TAAATTTATAAATTTTTAATAAATTA
5131850 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA------AG-GTTTTTAA
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAGAGTTTTTAA
5131908 GTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAA
66 GTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAA
5131973 TTA
131 TTA
* * * *
5131976 GGGTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGATTTTTA-AGTTAAG
1 GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGG--GTTTAGAGTT---
* * *
5132040 GGTTTAGGATTTAGGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTA
61 --TTTA--AGTTAAGG--T------------TTGTCAATTAAATTATAAATTTAATTATAAATTA
5132105 TAAATTTATAAATTTTTAATAAATTA
108 TAAATTTATAAATTTTTAATAAATTA
*
5132131 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTAAGGGTTTAGGGTTTA-AGGTTTTT
1 GGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAGA-GTTTTT
* *
5132195 --GTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATA
64 AAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATA
*
5132258 AATCA
129 AATTA
* *
5132263 GGTTAAGGTTTTTAAGTTAAAGGTTTAGGGTTT
1 GGTTAGGGTTTTTAAGTT-AAGGGTTAGGGTTT
5132296 AGGATTTTTA
Statistics
Matches: 642, Mismatches: 36, Indels: 154
0.77 0.04 0.19
Matches are distributed among these distances:
126 104 0.16
127 1 0.00
131 5 0.01
132 91 0.14
133 24 0.04
134 27 0.04
137 1 0.00
139 5 0.01
140 2 0.00
141 7 0.01
142 5 0.01
143 1 0.00
144 4 0.01
146 10 0.02
147 9 0.01
148 12 0.02
150 4 0.01
153 96 0.15
154 12 0.02
155 194 0.30
156 25 0.04
160 1 0.00
161 2 0.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (133 bp):
GGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTAGAGTTTTTAA
GTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTTAATAAA
TTA
Found at i:5131574 original size:20 final size:21
Alignment explanation
Indices: 5131546--5131615 Score: 115
Period size: 21 Copynumber: 3.3 Consensus size: 21
5131536 AAATTAGGGC
5131546 AGGGTTTTTAAGTTAAGGGTT
1 AGGGTTTTTAAGTTAAGGGTT
*
5131567 AGGGTTTTTAAGTTAAGGCTT
1 AGGGTTTTTAAGTTAAGGGTT
5131588 AGGG-TTTTAAGTTAAGGGTTT
1 AGGGTTTTTAAGTTAAGGG-TT
5131609 AGGGTTT
1 AGGGTTT
5131616 AGAATTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 13 0.29
21 30 0.67
22 2 0.04
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.43
Consensus pattern (21 bp):
AGGGTTTTTAAGTTAAGGGTT
Found at i:5131655 original size:7 final size:7
Alignment explanation
Indices: 5131643--5131682 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
5131633 GTCTGTCAAT
5131643 TAAATTA
1 TAAATTA
5131650 TAAATT-
1 TAAATTA
5131656 T-AATTA
1 TAAATTA
5131662 TAAATTA
1 TAAATTA
5131669 TAAATTTA
1 TAAA-TTA
5131677 TAAATT
1 TAAATT
5131683 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:5131662 original size:308 final size:300
Alignment explanation
Indices: 5131246--5132295 Score: 1425
Period size: 308 Copynumber: 3.6 Consensus size: 300
5131236 AGGGTTTTAA
* *
5131246 GGTTTTTAAGTTAAGGGCTTAGGGTATTTAAGTTAAGGGCTTGGGGTTTTTAAGTTAAGGGTTTA
1 GGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGCTTAGGG-TTTTAAGTTAAGGGTTTA
* *
5131311 GGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTT
64 GGGTTTTTGTTAAGGTCTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTT
*
5131376 TTAATAAATTAGGGTAGGGTTTTTAAGTTGAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTT
129 TTAATAAATTAGGGTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTT
* * *
5131441 TTAAGTTTAGGGTTTAGGGTTT-AGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTA
194 TTAAGTTAAGGGTTTAAGGTTTAAG-GTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTA
*
5131505 ATTCTAAATTATAAATTTATAATTTTTTAATAAATTAGGGCAG
258 ATTATAAATTATAAATTTATAATTTTTTAATAAATTAGGGCAG
5131548 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGCTTAGGGTTTTAAGTTAAGGGTTTAGG
1 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTAAGTTAAGGGTTTA-G
5131612 GTTTAGAATTTTTAAGTTAAGGTCTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTA
65 G----G--TTTTT--GTTAAGGTCTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTA
5131677 TAAATTTTTAATAAATTAGGGTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTT
122 TAAATTTTTAATAAATTAGGGTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTT
*
5131742 ATGGTTTTTAAGTTAAGGGTTTAAGGTTTAAGGTTTTTAAGTTAAGATTTGTCAATTAAATTATA
187 AGGGTTTTTAAGTTAAGGGTTTAAGGTTTAAGGTTTTTAAGTTAAGATTTGTCAATTAAATTATA
* **
5131807 AATTTAATTATAATTTATAAATTTATAATTTTTTAATAAATTAGGTTAG
252 AATTTAATTATAAATTATAAATTTATAATTTTTTAATAAATTAGGGCAG
5131856 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTT-A------AGGG---T---TTAA-GG-TT---
1 GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTAAGTTAAGGGTTTAGG
** *
5131903 -TTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTT
66 GTTTTTGTTAAGGTCTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTT
* *
5131967 AATAAATTAGGGTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGATTTTT
131 AATAAATTAGGGTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTT
*
5132032 AAGTTAAGGGTTT-AGGATTTAGGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAAT
196 AAGTTAAGGGTTTAAGG-TTTAAGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAAT
* * **
5132096 TATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAG
260 TATAAATTATAAATTTATAATTTTTTAATAAATTAGGGCAG
* *
5132137 GGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATT-A------AGGG---T---TT-AGGGTTTAA
1 GGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTAAGTTAAGGGTTTAG
* * *
5132188 GGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAAATTTT
65 GGTTTTTGTTAAGGTCTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTT
* * * *
5132253 TAATAAATCAGGTTAAGGTTTTTAAGTTAAAGGTTTAGGGTTT
130 TAATAAATTAGGGTAGGGTTTTTAAGTT-AAGGGTTAGGGTTT
5132296 AGGATTTTTA
Statistics
Matches: 698, Mismatches: 31, Indels: 52
0.89 0.04 0.07
Matches are distributed among these distances:
280 3 0.00
281 237 0.34
282 25 0.04
283 5 0.01
287 83 0.12
288 13 0.02
294 2 0.00
295 2 0.00
296 4 0.01
299 19 0.03
300 10 0.01
301 17 0.02
302 21 0.03
304 1 0.00
306 5 0.01
307 1 0.00
308 248 0.36
309 2 0.00
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (300 bp):
GGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTAAGTTAAGGGTTTAGG
GTTTTTGTTAAGGTCTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTTT
AATAAATTAGGGTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTT
AAGTTAAGGGTTTAAGGTTTAAGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATT
ATAAATTATAAATTTATAATTTTTTAATAAATTAGGGCAG
Found at i:5131728 original size:22 final size:21
Alignment explanation
Indices: 5131694--5131762 Score: 113
Period size: 21 Copynumber: 3.3 Consensus size: 21
5131684 TTAATAAATT
5131694 AGGG-TAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
5131714 AGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
*
5131735 AGGGCTTATGGTTTTTAAGTTA
1 AGGG-TTAGGGTTTTTAAGTTA
5131757 AGGGTT
1 AGGGTT
5131763 TAAGGTTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
20 4 0.09
21 22 0.48
22 20 0.43
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.42
Consensus pattern (21 bp):
AGGGTTAGGGTTTTTAAGTTA
Found at i:5131769 original size:22 final size:21
Alignment explanation
Indices: 5131701--5131770 Score: 104
Period size: 22 Copynumber: 3.2 Consensus size: 21
5131691 ATTAGGGTAG
*
5131701 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAA
*
5131722 GGTTTTTAAGTTAAGGGCTTAT
1 GGTTTTTAAGTTAAGGG-TTAA
5131744 GGTTTTTAAGTTAAGGGTTTAA
1 GGTTTTTAAGTTAAGGG-TTAA
5131766 GGTTT
1 GGTTT
5131771 AAGGTTTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
21 17 0.38
22 28 0.62
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGGTTAA
Found at i:5131864 original size:22 final size:21
Alignment explanation
Indices: 5131836--5131909 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
5131826 AATTTATAAT
5131836 TTTTTAA-TAAATTAGGTTAGGG
1 TTTTTAAGTAAA--AGGTTAGGG
* *
5131858 TTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTAAAAGGTTAGGG
* * *
5131879 TTTTTAAGTTAAGGGTTTAAGG
1 TTTTTAAGTAAAAGG-TTAGGG
5131901 TTTTTAAGT
1 TTTTTAAGT
5131910 TAAGGTTTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
21 23 0.49
22 21 0.45
23 3 0.06
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (21 bp):
TTTTTAAGTAAAAGGTTAGGG
Found at i:5131874 original size:21 final size:21
Alignment explanation
Indices: 5131850--5131914 Score: 112
Period size: 21 Copynumber: 3.0 Consensus size: 21
5131840 TAATAAATTA
5131850 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
5131871 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
5131892 GGTTTAAGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
5131914 G
1 G
5131915 TTTGTCAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 23 0.55
22 19 0.45
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:5131936 original size:7 final size:7
Alignment explanation
Indices: 5131924--5131963 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
5131914 GTTTGTCAAT
5131924 TAAATTA
1 TAAATTA
5131931 TAAATT-
1 TAAATTA
5131937 T-AATTA
1 TAAATTA
5131943 TAAATTA
1 TAAATTA
5131950 TAAATTTA
1 TAAA-TTA
5131958 TAAATT
1 TAAATT
5131964 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:5132007 original size:21 final size:21
Alignment explanation
Indices: 5131975--5132043 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
5131965 TTAATAAATT
*
5131975 AGGG-TAGAGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
5131995 AGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAAGTTA
*
5132016 AGGGCTTAGGATTTTTAAGTTA
1 AGGG-TTAGGGTTTTTAAGTTA
5132038 AGGGTT
1 AGGGTT
5132044 TAGGATTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 4 0.09
21 21 0.47
22 20 0.44
ACGTcount: A:0.26, C:0.01, G:0.32, T:0.41
Consensus pattern (21 bp):
AGGGTTAGGGTTTTTAAGTTA
Found at i:5132046 original size:22 final size:21
Alignment explanation
Indices: 5131984--5132051 Score: 109
Period size: 22 Copynumber: 3.1 Consensus size: 21
5131974 TAGGGTAGAG
*
5131984 TTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTTAAGGGTTAGGA
5132005 TTTTTAAGTTAAGGGCTTAGGA
1 TTTTTAAGTTAAGGG-TTAGGA
5132027 TTTTTAAGTTAAGGGTTTAGGA
1 TTTTTAAGTTAAGGG-TTAGGA
5132049 TTT
1 TTT
5132052 AGGGTTTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
21 15 0.34
22 29 0.66
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (21 bp):
TTTTTAAGTTAAGGGTTAGGA
Found at i:5132095 original size:155 final size:147
Alignment explanation
Indices: 5131247--5132177 Score: 1034
Period size: 155 Copynumber: 6.3 Consensus size: 147
5131237 GGGTTTTAAG
* * * *
5131247 GTTTTTAAGTTAAGGGCTTAGGGTATTTAAGTTAAGGGCTTGGGGTTTTTAAGTTAAGGGTTTAG
1 GTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG-TTAGGATTTTTAAGTTAAGGGTTTAA
* *
5131312 GGTTTTT--GTTAGGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATT
64 GGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATT
*
5131375 TTTAATAAATTAGGGTAGG
129 TTTAATAAATTAGGGTAGA
* * *
5131394 GTTTTTAAGTTGAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAGTTTAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGATTTTTAAGTTAAGGGTTTA--
* *
5131459 GTTTAGAGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTCTAAATTATAAATTTA
63 ----AG-GTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTA
* * *
5131524 TAATTTTTTAATAAATTAGGGCAGG
123 TAAATTTTTAATAAATTAGGGTAGA
* *
5131549 GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGCTTAGG-GTTTTAAGTTAAGGGTTTAGGG
1 GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGATTTTTAAGTTAAGGGTTTA---
* * *
5131613 TTTAGAATTTTTAAGTTAAGGTCTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTAT
63 ---AG-GTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTAT
*
5131678 AAATTTTTAATAAATTAGGGTAGG
124 AAATTTTTAATAAATTAGGGTAGA
5131702 GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTATGG-TTTTTAAGTTAAGGGTTTAA
1 GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTA-GGATTTTTAAGTTAA--G-----
*
5131766 GGTTTAAGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTT
57 GGTTTAAGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTT
* * *
5131831 ATAATTTTTTAATAAATTAGGTTAGG
122 ATAAATTTTTAATAAATTAGGGTAGA
5131857 GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGG-TTTTTAAGTTAA-GGTTT--
1 GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TT-AGGATTTTTAAGTTAAGGGTTTAA
* * * * *
5131918 -G---TCAA-TTAA-A-TTATAAATTTAATTATAAA-TT-A-TA-AATTTATAAA-TT-T-----
64 GGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATT
5131965 -TTAATAAATTAGGGTAGA
129 TTTAATAAATTAGGGTAGA
5131983 GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGCTTAGGATTTTTAAGTTAAGGGTTTAGG
1 GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGATTTTTAAGTTAAGGGTTT---
*
5132048 ATTTAGGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTA
62 A---A-GGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTA
* *
5132113 TAAATTTTTAATAAATTAGGTTAGG
123 TAAATTTTTAATAAATTAGGGTAGA
*
5132138 GTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTAAGGGTT
1 GTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTT
5132178 TAGGGTTTAA
Statistics
Matches: 693, Mismatches: 41, Indels: 92
0.84 0.05 0.11
Matches are distributed among these distances:
125 3 0.00
126 67 0.10
127 5 0.01
132 1 0.00
133 2 0.00
134 10 0.01
135 2 0.00
136 1 0.00
137 3 0.00
138 16 0.02
139 1 0.00
140 7 0.01
141 7 0.01
142 1 0.00
143 16 0.02
144 3 0.00
145 1 0.00
146 46 0.07
147 30 0.04
148 2 0.00
149 1 0.00
152 1 0.00
153 146 0.21
154 8 0.01
155 283 0.41
156 23 0.03
157 1 0.00
162 6 0.01
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (147 bp):
GTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGATTTTTAAGTTAAGGGTTTAAGG
TTTTTAAGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTTATAAATTTT
TAATAAATTAGGGTAGA
Found at i:5132158 original size:22 final size:22
Alignment explanation
Indices: 5132133--5132185 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
5132123 ATAAATTAGG
*
5132133 TTAGGGTTTTTAAGTTAAGGGC
1 TTAGGGTTTTTAAATTAAGGGC
*
5132155 TTAGGGTTTTTAAATTAAGGGT
1 TTAGGGTTTTTAAATTAAGGGC
5132177 TTAGGGTTT
1 TTAGGGTTT
5132186 AAGGTTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTTTAAATTAAGGGC
Found at i:5132275 original size:110 final size:110
Alignment explanation
Indices: 5132155--5133018 Score: 849
Period size: 110 Copynumber: 7.3 Consensus size: 110
5132145 AGTTAAGGGC
* *
5132155 TTAGGGTTTTTAAATTAAGGGTTTAGGGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATA
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATA
*
5132220 AATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATCAGG
66 AATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
* * * *
5132265 TTAAGGTTTTTAAGTTAAAGGTTTAGGGTTT-AGGATTTTTAAGTTAAGGTTTGTCAATTAAATT
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGG-TTTTT--GTTAGGGTTTGTCAATTAAATT
* ** *
5132329 ATAAATTTAATTATATTTTATAAATTTATAATTTTTTAATAAATTAGG
63 ATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
* * *
5132377 TTAGGGTTTTTAAGTTAAGGGCTTAAGGTTTTTAA-GTTAAGGGTTTACGATTTACGGTTT-TTA
1 TTAGGGTTTTTAAGTTAAGGGCTT-AGG-GTTTAAGGTT-----TTT--G--TTAGGGTTTGTCA
5132440 AGTTAAGATTTGTCAATTAAATTATAAATTTAATTATAATT-TATAAATTTATAAATTTTTAATA
55 A-TTAA-A--T-T--A-TAAATT-T--ATTT-A-TA-AATTATA-AA-TTTATAAATTTTTAATA
5132504 AATTAGG
104 AATTAGG
* *
5132511 TTAGGATTTTTAAGTTAAGGGCTTAGGATTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATA
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATA
5132576 AATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
66 AATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
5132621 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTAAGGGTTTAGGGTTTTTGTTAGGGTTT
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGG----T---TTAA-GG--T-----TTTTGTTAGGGTTT
5132686 GTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
51 GTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
*
5132746 TTAGAGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAAGGGTTAGGGTTTTTAAG
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGG----T---TTAA-GGTTT-----TT---G--T-T-AG
* **
5132810 TTAAGGTTTGTCAATTAAATTATAAATTTAATTATATTTTATAAATTTATAAATTTTTAATAAAT
46 ----GGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAAT
5132875 TAGG
107 TAGG
* *
5132879 TTAGGGTTTTTAAGTTAAGGGCTTAAGATTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATA
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATA
5132944 AATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
66 AATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
* *
5132989 TTAGGGTTTTTAAGCTAAAGG-TTAGGGTTT
1 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTT
5133019 TTAAGTTAAG
Statistics
Matches: 649, Mismatches: 41, Indels: 129
0.79 0.05 0.16
Matches are distributed among these distances:
109 10 0.02
110 164 0.25
111 6 0.01
112 89 0.14
113 6 0.01
114 11 0.02
115 2 0.00
116 2 0.00
117 12 0.02
118 9 0.01
119 3 0.00
120 14 0.02
121 4 0.01
122 3 0.00
123 2 0.00
124 33 0.05
125 98 0.15
126 7 0.01
127 11 0.02
128 5 0.01
129 2 0.00
130 4 0.01
131 1 0.00
132 9 0.01
133 92 0.14
134 50 0.08
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (110 bp):
TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATA
AATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
Found at i:5132290 original size:244 final size:242
Alignment explanation
Indices: 5132027--5133267 Score: 1343
Period size: 244 Copynumber: 5.1 Consensus size: 242
5132017 GGGCTTAGGA
* * *
5132027 TTTTTAAGTTAAGGGTTTAGGATTTAGGGTTTTTAAGTTAAGATTTGTCAATTAAATTATAAATT
1 TTTTTAAGTTAAAGGTTTAGGATTTAGGGTTTTTAAGTTAGGGTTTGTCAATTAAATTATAAATT
5132092 TAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTT
66 TAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTT
5132157 AGGGTTTTTAAATTAAGGGTTTAGGGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAA
131 AGGGTTTTTAAATTAAGGGTTTA-GGTTT-AGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAA
*
5132222 TTTATTTATAAATTATAAATTTATAAATTTTTAATAAATCAGGTTAAGG
194 TTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAAGG
* * *
5132271 TTTTTAAGTTAAAGGTTTAGGGTTTAGGATTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATT
1 TTTTTAAGTTAAAGGTTTAGGATTTAGGGTTTTTAAGTTAGGGTTTGTCAATTAAATTATAAATT
* *
5132336 TAATTATATTTTATAAATTTATAATTTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTT
66 TAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTT
* * * * *
5132401 AAGGTTTTTAAGTTAAGGGTTTACGATTTACGGTTTTTAAGTTAAGATTTGTCAATTAAATTATA
131 AGGGTTTTTAAATTAAGGGTTTA-GGTTTA-GGTTTTT--GTTAGGGTTTGTCAATTAAATTATA
* *
5132466 AATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTT-AGG
192 AATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAAGG
* * *
5132516 ATTTTTAAGTTAAGGGCTTAGGATTTAAGGTTTTT--GTTAGGGTTTGTCAATTAAATTATAAAT
1 -TTTTTAAGTTAAAGGTTTAGGATTTAGGGTTTTTAAGTTAGGGTTTGTCAATTAAATTATAAAT
* *
5132579 TTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCT
65 TTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCT
5132644 TAGGGTTTTTAAATTAAGGGTTTA-G----GGTTTTTGTTAGGGTTTGTCAATTAAATTATAAAT
130 TAGGGTTTTTAAATTAAGGGTTTAGGTTTAGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAAT
5132704 TTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTT-AGAG
195 TTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAAG-G
* * *
5132752 TTTTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGGTTAGGGTTTTTAAGTTAAGG
1 TTTTTAAGTTAAAGGTTTA-GG------A-TTTAGGGTTT-----TTA-AG---TT-AG----GG
*
5132816 TTTGTCAATTAAATTATAAATTTAATTATATTTTATAAATTTATAAATTTTTAATAAATTAGGTT
44 TTTGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTT
* * ** * *
5132881 AGGGTTTTTAAGTTAAGGGCTTA-AG------ATTTAA-GGTTTTTG-TTAGG-GTTTGTCA---
109 AGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTAAGGGTTTAGGTTTAGGTTTTTGTTAGGG
* * * *
5132933 -AT-TAAATTATAAATT-T--ATTTA--TAAAT--TATAAATTTATAAATTTTTAATAAATTAGG
174 TTTGTCAA-T-TAAATTATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGG
*
5132989 TTAGGG
237 TTAAGG
* * *
5132995 TTTTTAAGCTAAAGG-TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGATTTTTGTTCGGGTT
1 TTTTTAAGTTAAAGGTTTA-GG------A-TTTAGGG-TT----TTT-A-A-----GTTAGGGTT
*
5133059 TGTCAATTAAATTATAAATTTATTTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAG
46 TGTCAATTAAATTATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAG
*
5133124 GGTTTTTAAGTTAAGGGCTTAGGTTTTTTAAATTAAGGGTTTA-G----GGTTTTTGTTAGGGTT
111 GGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTAAGGGTTTAGGTTTAGGTTTTTGTTAGGGTT
* * *
5133184 TGTCAATTAAATTATAAATATATTTATAAACTATAAATTTATAAATTTTTAATAAATTAGGTTAG
176 TGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAA
5133249 GG
241 GG
*
5133251 TTTTTAAGTTAAGGGTT
1 TTTTTAAGTTAAAGGTT
5133268 AGGGTTTTTA
Statistics
Matches: 860, Mismatches: 67, Indels: 127
0.82 0.06 0.12
Matches are distributed among these distances:
234 6 0.01
235 82 0.10
236 1 0.00
237 7 0.01
241 89 0.10
242 8 0.01
243 66 0.08
244 275 0.32
245 9 0.01
246 104 0.12
247 7 0.01
248 10 0.01
249 15 0.02
250 15 0.02
251 9 0.01
252 4 0.00
253 8 0.01
254 7 0.01
256 49 0.06
257 2 0.00
258 87 0.10
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (242 bp):
TTTTTAAGTTAAAGGTTTAGGATTTAGGGTTTTTAAGTTAGGGTTTGTCAATTAAATTATAAATT
TAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTT
AGGGTTTTTAAATTAAGGGTTTAGGTTTAGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATT
TATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAAGG
Found at i:5132303 original size:28 final size:28
Alignment explanation
Indices: 5132263--5132316 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
5132253 TAATAAATCA
5132263 GGTTAAGG-TTTTTAAGTTAAAGGTTTAG
1 GGTTAAGGATTTTTAAGTT-AAGGTTTAG
*
5132291 GGTTTAGGATTTTTAAGTTAAGGTTT
1 GGTTAAGGATTTTTAAGTTAAGGTTT
5132317 GTCAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (28 bp):
GGTTAAGGATTTTTAAGTTAAGGTTTAG
Found at i:5132370 original size:19 final size:19
Alignment explanation
Indices: 5132327--5132373 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
5132317 GTCAATTAAA
*
5132327 TTATAAATTTAATTATATT
1 TTATAAATTTAATAATATT
*
5132346 TTATAAATTT-ATAATTTT
1 TTATAAATTTAATAATATT
5132364 TTAATAAATT
1 TT-ATAAATT
5132374 AGGTTAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATAAATTTAATAATATT
Found at i:5132410 original size:134 final size:134
Alignment explanation
Indices: 5132265--5133290 Score: 876
Period size: 125 Copynumber: 8.2 Consensus size: 134
5132255 ATAAATCAGG
* * *
5132265 TTAAGGTTTTTAAGTTAAAGGTTTAGGGTTTA-GGATTTTTAAGTTAAGGTTTGTCAATTAAATT
1 TTAAGGTTTTTAAGTTAAAGGTTTACGATTTACGG-TTTTTAAGTTAAGATTTGTCAATTAAATT
* * *
5132329 ATAAATTTAATTATATTTTATAAATTTATAATTTTTTAATAAATTAGGTTAGGGTTTTTAAGTTA
65 ATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGATTTTTAAGTTA
5132394 AGGGC
130 AGGGC
*
5132399 TTAAGGTTTTTAAGTTAAGGGTTTACGATTTACGGTTTTTAAGTTAAGATTTGTCAATTAAATTA
1 TTAAGGTTTTTAAGTTAAAGGTTTACGATTTACGGTTTTTAAGTTAAGATTTGTCAATTAAATTA
5132464 TAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGATTTTTAAGTTAA
66 TAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGATTTTTAAGTTAA
5132529 GGGC
131 GGGC
* * * * * * *
5132533 TT-AGG-ATTTAAGGTT-----TTT--G--TTAGGGTTTGTCAA-TTAA-A-TTATAAATTTATT
1 TTAAGGTTTTTAA-GTTAAAGGTTTACGATTTACGGTTT-TTAAGTTAAGATTTGTCAATTAAAT
*
5132584 TAT-AA----------A-TTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTT
64 TATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGATTTTTAAGTT
5132637 AAGGGC
129 AAGGGC
* * * * *
5132643 TTAGGGTTTTTAAATT-AAGG-----G-TTTAGGGTTTTT--GTTAGGGTTTGTCAATTAAATTA
1 TTAAGGTTTTTAAGTTAAAGGTTTACGATTTACGGTTTTTAAGTTAAGATTTGTCAATTAAATTA
* *
5132699 TAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTA-GAGTTTTTAAGTTA
66 TAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGA-TTTTTAAGTTA
5132763 AGGG-
130 AGGGC
* * * ** * *
5132767 TTAGGGTTTTTAAGTTAAGGGTTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATTA
1 TTAAGGTTTTTAAGTTAAAGGTTTACGATTTACGGTTTTTAAGTTAAGATTTGTCAATTAAATTA
* *
5132832 TAAATTTAATTATATTTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
66 TAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGATTTTTAAGTTAA
5132897 GGGC
131 GGGC
* * * * * *
5132901 TTAA-G-ATTTAAGGTT-----TTT--G--TTAGGGTTTGTCAA-TTAA-A-TTATAAATTT---
1 TTAAGGTTTTTAA-GTTAAAGGTTTACGATTTACGGTTT-TTAAGTTAAGATTTGTCAATTAAAT
* *
5132949 -----ATTT-A-TA-AA-TTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGCT
64 TATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGATTTTTAAGTT
*
5133005 AAAGG-
129 AAGGGC
* * * * * * * ** *
5133010 TTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGATTTTT--GTTCGGGTTTGTCAATTAAATTA
1 TTAAGGTTTTTAAGTTAAAGGTTTACGATTTACGGTTTTTAAGTTAAGATTTGTCAATTAAATTA
* *
5133073 TAAATTTATTTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
66 TAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGATTTTTAAGTTAA
5133138 GGGC
131 GGGC
* * * *
5133142 TT-AGGTTTTTTAAATT-AAGG-----G-TTTAGGGTTTTT--GTTAGGGTTTGTCAATTAAATT
1 TTAAGG-TTTTTAAGTTAAAGGTTTACGATTTACGGTTTTTAAGTTAAGATTTGTCAATTAAATT
* * ** *
5133197 ATAAATATATTTATAAACTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTA
65 ATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGATTTTTAAGTTA
5133262 AGGG-
130 AGGGC
* *
5133266 TTAGGGTTTTTAAGTTAAGGGTTTA
1 TTAAGGTTTTTAAGTTAAAGGTTTA
5133291 GGGATTTTAA
Statistics
Matches: 748, Mismatches: 71, Indels: 151
0.77 0.07 0.16
Matches are distributed among these distances:
109 3 0.00
110 108 0.14
111 14 0.02
112 9 0.01
113 22 0.03
114 6 0.01
115 2 0.00
117 3 0.00
118 1 0.00
119 14 0.02
121 2 0.00
122 19 0.03
123 1 0.00
124 53 0.07
125 160 0.21
126 3 0.00
127 4 0.01
128 6 0.01
129 2 0.00
130 3 0.00
131 66 0.09
132 21 0.03
133 94 0.13
134 130 0.17
135 2 0.00
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (134 bp):
TTAAGGTTTTTAAGTTAAAGGTTTACGATTTACGGTTTTTAAGTTAAGATTTGTCAATTAAATTA
TAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGATTTTTAAGTTAA
GGGC
Found at i:5132598 original size:26 final size:26
Alignment explanation
Indices: 5132567--5132618 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
5132557 GTTTGTCAAT
*
5132567 TAAA-TTATAAATTTATTTATAAATTA
1 TAAATTTATAAATTT-TTAATAAATTA
5132593 TAAATTTATAAATTTTTAATAAATTA
1 TAAATTTATAAATTTTTAATAAATTA
5132619 GGTTAGGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TAAATTTATAAATTTTTAATAAATTA
Found at i:5132646 original size:22 final size:22
Alignment explanation
Indices: 5132621--5132675 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
5132611 ATAAATTAGG
*
5132621 TTAGGGTTTTTAAGTTAAGGGC
1 TTAGGGTTTTTAAATTAAGGGC
*
5132643 TTAGGGTTTTTAAATTAAGGGT
1 TTAGGGTTTTTAAATTAAGGGC
5132665 TTAGGGTTTTT
1 TTAGGGTTTTT
5132676 GTTAGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (22 bp):
TTAGGGTTTTTAAATTAAGGGC
Found at i:5132693 original size:125 final size:124
Alignment explanation
Indices: 5132539--5133298 Score: 1089
Period size: 125 Copynumber: 6.1 Consensus size: 124
5132529 GGGCTTAGGA
*
5132539 TTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAA
1 TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAA
*
5132604 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTAAGGG
66 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGG
5132664 TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAA
1 TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAA
*
5132729 ATTTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
66 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
* * **
5132788 TTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAATTATAAATTTAATTATATTTTATA
1 --T-----TTAGGGTTTTT--GTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATA
*
5132853 AATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTT-A-----AGGG--CTTAAG---A
57 AATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA
5132907 ---
122 GGG
*
5132907 TTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAA
1 TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAA
* *
5132972 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGCTAAAGGTTAGGGTTTTTAAGTTAAGGG
66 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
* * *
5133031 CTTAGGGTTTAAGATTTTTGTTCGGGTTTGTCAATTAAATTATAAATTTATTTATAATTTATAAA
1 TTTA-GG-----G-TTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAA
* *
5133096 TTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTTAGGTTTTTTAAATTAAG
59 TTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAG
5133161 GG
123 GG
* *
5133163 TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTTATAAACTATAAATTTATAA
1 TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAA
5133228 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
66 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
*
5133287 TTTAGGGATTTT
1 TTTAGGGTTTTT
5133299 AAGTTAAGGG
Statistics
Matches: 572, Mismatches: 32, Indels: 63
0.86 0.05 0.09
Matches are distributed among these distances:
110 81 0.14
111 1 0.00
112 10 0.02
116 4 0.01
117 1 0.00
118 5 0.01
121 1 0.00
122 1 0.00
124 53 0.09
125 199 0.35
126 2 0.00
127 4 0.01
130 1 0.00
131 105 0.18
132 23 0.04
133 81 0.14
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (124 bp):
TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAA
ATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
Found at i:5132723 original size:26 final size:26
Alignment explanation
Indices: 5132692--5132743 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
5132682 GTTTGTCAAT
*
5132692 TAAA-TTATAAATTTATTTATAAATTA
1 TAAATTTATAAATTT-TTAATAAATTA
5132718 TAAATTTATAAATTTTTAATAAATTA
1 TAAATTTATAAATTTTTAATAAATTA
5132744 GGTTAGAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TAAATTTATAAATTTTTAATAAATTA
Found at i:5132768 original size:21 final size:21
Alignment explanation
Indices: 5132744--5132789 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
5132734 TAATAAATTA
5132744 GGTTAGAGTTTTTAAGTTAAG
1 GGTTAGAGTTTTTAAGTTAAG
*
5132765 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGAGTTTTTAAGTTAAG
5132786 GGTT
1 GGTT
5132790 TAAGGGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (21 bp):
GGTTAGAGTTTTTAAGTTAAG
Found at i:5132789 original size:15 final size:15
Alignment explanation
Indices: 5132769--5132815 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
5132759 GTTAAGGGTT
5132769 AGGGTTTTTAAGTTA
1 AGGGTTTTTAAGTTA
5132784 AGGG--TTTAAGGGTT-
1 AGGGTTTTTAA--GTTA
5132798 AGGGTTTTTAAGTTA
1 AGGGTTTTTAAGTTA
5132813 AGG
1 AGG
5132816 TTTGTCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
13 5 0.19
14 7 0.26
15 10 0.37
16 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (15 bp):
AGGGTTTTTAAGTTA
Found at i:5132793 original size:29 final size:29
Alignment explanation
Indices: 5132760--5132815 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
5132750 AGTTTTTAAG
5132760 TTAAGGGTTAGGGTTTTTAAGTTAAGGGT
1 TTAAGGGTTAGGGTTTTTAAGTTAAGGGT
5132789 TTAAGGGTTAGGGTTTTTAAGTTAAGG
1 TTAAGGGTTAGGGTTTTTAAGTTAAGG
5132816 TTTGTCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (29 bp):
TTAAGGGTTAGGGTTTTTAAGTTAAGGGT
Found at i:5132812 original size:14 final size:14
Alignment explanation
Indices: 5132766--5132818 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
5132756 TAAGTTAAGG
5132766 GTTAGGGTTTTTAA
1 GTTAGGGTTTTTAA
5132780 GTTAAGGG--TTTAA
1 GTT-AGGGTTTTTAA
5132793 GGGTTAGGGTTTTTAA
1 --GTTAGGGTTTTTAA
*
5132809 GTTAAGGTTT
1 GTTAGGGTTT
5132819 GTCAATTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
13 5 0.15
14 16 0.48
15 7 0.21
16 5 0.15
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (14 bp):
GTTAGGGTTTTTAA
Found at i:5132966 original size:26 final size:26
Alignment explanation
Indices: 5132935--5132986 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
5132925 GTTTGTCAAT
*
5132935 TAAA-TTATAAATTTATTTATAAATTA
1 TAAATTTATAAATTT-TTAATAAATTA
5132961 TAAATTTATAAATTTTTAATAAATTA
1 TAAATTTATAAATTTTTAATAAATTA
5132987 GGTTAGGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TAAATTTATAAATTTTTAATAAATTA
Found at i:5133022 original size:131 final size:129
Alignment explanation
Indices: 5132876--5133291 Score: 644
Period size: 131 Copynumber: 3.2 Consensus size: 129
5132866 TTAATAAATT
5132876 AGGTTAGGGTTTTTAAGTTAAGGGCTTAAGATTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATT
1 AGGTTAGGGTTTTTAAGTTAAGGGCTT-AG-TTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATT
*
5132941 ATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGCTA
64 ATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTA
5133006 A
129 A
* *
5133007 AGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTAAGATTTTTGTTCGGGTTTGTCAATTAAATT
1 AGGTTAGGGTTTTTAAGTTAAGGGCTTA--GTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATT
*
5133072 ATAAATTTATTTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTA
64 ATAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTA
5133137 A
129 A
* * * *
5133138 GGGCTTAGGTTTTTTAAATTAA-GG----GTTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTA
1 AGG-TTAGGGTTTTTAAGTTAAGGGCTTAGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTA
* *
5133198 TAAATATATTTATAAACTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
65 TAAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
* *
5133263 GGGTTAGGGTTTTTAAGTTAAGGGTTTAG
1 AGGTTAGGGTTTTTAAGTTAAGGGCTTAG
5133292 GGATTTTAAG
Statistics
Matches: 262, Mismatches: 15, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
124 16 0.06
125 100 0.38
129 1 0.00
130 1 0.00
131 127 0.48
132 17 0.06
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.46
Consensus pattern (129 bp):
AGGTTAGGGTTTTTAAGTTAAGGGCTTAGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTAT
AAATTTATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAA
Found at i:5133035 original size:22 final size:21
Alignment explanation
Indices: 5132986--5133040 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
5132976 TTAATAAATT
5132986 AGGTTAGGGTTTTTAAGCTAA
1 AGGTTAGGGTTTTTAAGCTAA
*
5133007 AGGTTAGGGTTTTTAAGTTAA
1 AGGTTAGGGTTTTTAAGCTAA
*
5133028 GGGCTTAGGGTTT
1 AGG-TTAGGGTTT
5133041 AAGATTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 22 0.71
22 9 0.29
ACGTcount: A:0.24, C:0.04, G:0.33, T:0.40
Consensus pattern (21 bp):
AGGTTAGGGTTTTTAAGCTAA
Found at i:5133134 original size:499 final size:495
Alignment explanation
Indices: 5132263--5133434 Score: 1596
Period size: 499 Copynumber: 2.3 Consensus size: 495
5132253 TAATAAATCA
* * *
5132263 GGTTAAGGTTTTTAAGTTAAAGGTTT-AGGGTTTAGGATTTTTAAGTTAAGGTTTGTCAATTAAA
1 GGTTAGGGTTTTTAAGTTAAGGGTTTAAGGG-TTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAA
*
5132327 TTATAAATTTAATTATATTTTATAAATTTATAATTTTTTAATAAATTAGGTTAGGGTTTTTAAGT
65 TTATAAATTTAATTATATTTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGT
* * * *
5132392 TAAGGGCTTAAGGTTTTTAAGTTAAGGGTTTACGATTTACGGTTTTTAAGTTAAGATTTGTCAAT
130 TAAGGGCTTAAGGTATTTAAGTT----GTTTA-GA-TTACGGTTTTCAAGTTAAGATTTATAAAT
5132457 TAAATTATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGATTTTT
189 TAAATTATAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAA-TAGGTTAGGATTTTT
*
5132522 AAGTTAAGGGCTTAGGATTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTAT
253 AAGTTAAGGGCTTAGGATTTAAGATTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTAT
5132587 AAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTT
318 AAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTT
* *
5132652 TTAAATTAAGGGTTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATT
383 TTAAATTAAGGGTTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTTATAAACT
5132717 ATAAATTTATAAATTTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAG
448 ATAAATTTATAAATTTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAG
5132765 GGTTAGGGTTTTTAAGTTAAGGGTTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAAT
1 GGTTAGGGTTTTTAAGTTAAGGGTTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAAT
5132830 TATAAATTTAATTATATTTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTT
66 TATAAATTTAATTATATTTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTT
* * *
5132895 AAGGGCTTAA-G-ATTTAAGGTT-TTT-G-TTAGGGTTTGTCAA-TTAA-A-TTATAAATTTATT
131 AAGGGCTTAAGGTATTTAA-GTTGTTTAGATTACGGTTT-TCAAGTTAAGATTTATAAATTAAAT
**
5132952 TATAAATTATAAATTTATAAATTTTTAATAAA-TTAGGTTAGGGTTTTTAAGCT-AA-AGGTTAG
194 TATAAATT-T-AA-TTAT-AA--TTT-ATAAATTTA---TA-AATTTTTAA--TAAATAGGTTAG
* * *
5133014 GGTTTTTAAGTTAAGGGCTTAGGGTTTAAGATTTTTGTTCGGGTTTGTCAATTAAATTATAAATT
246 GATTTTTAAGTTAAGGGCTTAGGATTTAAGATTTTTGTTAGGGTTTGTCAATTAAATTATAAATT
*
5133079 TATTTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTT
311 TATTTATAAATTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTT
*
5133144 AGGTTTTTTAAATTAAGGGTTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTT
376 AGGGTTTTTAAATTAAGGGTTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTT
*
5133209 ATAAACTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAG
441 ATAAACTATAAATTTATAAATTTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAG
*
5133264 GGTTAGGGTTTTTAAGTTAAGGGTTTAGGGATTTTAAGTTAAGGGTTTAGGGTTTAAGGTTTTTG
1 GGTTAGGGTTTTTAAGTTAAGGGTTTAAGG-------GTT-AGGG-TT----TTTAA-------G
* * *
5133329 TTAGGGTTTGTCAATTAAATTATAAATTTATTTATAATTTATAAATTTATAAATTTTTAATAAAT
46 TTAAGGTTTGTCAATTAAATTATAAATTTAATTATATTTTATAAATTTATAAATTTTTAATAAAT
** * *
5133394 TAGGTTAGAATTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTT
111 TAGGTTAGGGTTTTTAAGTTAAGGGCTTAAGGTATTTAAGTT
5133435 AATGGCTTAG
Statistics
Matches: 602, Mismatches: 30, Indels: 59
0.87 0.04 0.09
Matches are distributed among these distances:
490 17 0.03
491 2 0.00
492 14 0.02
493 7 0.01
494 3 0.00
496 9 0.01
497 5 0.01
499 279 0.46
500 12 0.02
501 6 0.01
502 132 0.22
503 4 0.01
506 3 0.00
507 4 0.01
508 2 0.00
512 5 0.01
518 3 0.00
519 90 0.15
520 5 0.01
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (495 bp):
GGTTAGGGTTTTTAAGTTAAGGGTTTAAGGGTTAGGGTTTTTAAGTTAAGGTTTGTCAATTAAAT
TATAAATTTAATTATATTTTATAAATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTT
AAGGGCTTAAGGTATTTAAGTTGTTTAGATTACGGTTTTCAAGTTAAGATTTATAAATTAAATTA
TAAATTTAATTATAATTTATAAATTTATAAATTTTTAATAAATAGGTTAGGATTTTTAAGTTAAG
GGCTTAGGATTTAAGATTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATA
AATTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTTAAATTA
AGGGTTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTTATAAACTATAAATTT
ATAAATTTTTAATAAATTAGGTTAGAGTTTTTAAGTTAAG
Found at i:5133145 original size:22 final size:22
Alignment explanation
Indices: 5133120--5133174 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
5133110 ATAAATTAGG
*
5133120 TTAGGGTTTTTAAGTTAAGGGC
1 TTAGGGTTTTTAAATTAAGGGC
* *
5133142 TTAGGTTTTTTAAATTAAGGGT
1 TTAGGGTTTTTAAATTAAGGGC
5133164 TTAGGGTTTTT
1 TTAGGGTTTTT
5133175 GTTAGGGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.49
Consensus pattern (22 bp):
TTAGGGTTTTTAAATTAAGGGC
Found at i:5133197 original size:256 final size:261
Alignment explanation
Indices: 5132907--5133450 Score: 776
Period size: 278 Copynumber: 2.0 Consensus size: 261
5132897 GGGCTTAAGA
* * *
5132907 TTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAAATTATAAATTTATAA
1 TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTTATAAACTATAAATTTATAA
5132972 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGCTAA-A-G-GTT-AGGG-T-TTTTAAGTTAAGGG
66 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGCTAAGAGGTGTTAAGGGTTGTTTTAAGTTAAGGG
*
5133031 CTTAGGGTTTAAGATTTTTGTTCGGGTTTGTCAATTAAATTATAAATTTATTTATAATTTATAAA
131 CTTAGGGTTTAAGATTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAATTTATAAA
** *
5133096 TTTATAAATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGCTTAGGTTTTTTAAATTAAG
196 TTTATAAATTTTTAATAAATTAGGTTAGAATTTTTAAGTTAAGGG-TTAGGGTTTTTAAATTAAG
5133161 GG
260 GG
5133163 TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTTATAAACTATAAATTTATAA
1 TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTTATAAACTATAAATTTATAA
*
5133228 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGG
66 ATTTTTAATAAATTAGGTTAGGGTTTTTAAGCTAA--G--A-GG----T--GTTAAGGG-TT---
* *
5133293 GATTTTAAGTTAAGGGTTTAGGGTTTAAGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTT
116 G-TTTTAAGTTAAGGGCTTAGGGTTTAAGATTTTTGTTAGGGTTTGTCAATTAAATTATAAATTT
5133358 ATTTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGAATTTTTAAGTTAAGGGTTAG
180 ATTTATAATTTATAAATTTATAAATTTTTAATAAATTAGGTTAGAATTTTTAAGTTAAGGGTTAG
* *
5133423 GGTTTTTAAGTTAATGG
245 GGTTTTTAAATTAAGGG
*
5133440 CTTAGGGTTTT
1 TTTAGGGTTTT
5133451 AGGGTAGTAA
Statistics
Matches: 253, Mismatches: 13, Indels: 23
0.88 0.04 0.08
Matches are distributed among these distances:
256 96 0.38
261 1 0.00
263 1 0.00
270 3 0.01
271 4 0.02
273 1 0.00
277 28 0.11
278 119 0.47
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (261 bp):
TTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATATATTTATAAACTATAAATTTATAA
ATTTTTAATAAATTAGGTTAGGGTTTTTAAGCTAAGAGGTGTTAAGGGTTGTTTTAAGTTAAGGG
CTTAGGGTTTAAGATTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTATTTATAATTTATAAA
TTTATAAATTTTTAATAAATTAGGTTAGAATTTTTAAGTTAAGGGTTAGGGTTTTTAAATTAAGG
G
Found at i:5133257 original size:22 final size:21
Alignment explanation
Indices: 5133229--5133318 Score: 74
Period size: 22 Copynumber: 4.1 Consensus size: 21
5133219 AATTTATAAA
5133229 TTTTTAA-TAAATTAGGTTAGGG
1 TTTTTAAGTAAA--AGGTTAGGG
* *
5133251 TTTTTAAGTTAAGGGTTAGGG
1 TTTTTAAGTAAAAGGTTAGGG
* *
5133272 TTTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTAAAAGG-TTAGGG
* * *
5133294 ATTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTAAAAGG-TTAGGG
5133316 TTT
1 TTT
5133319 AAGGTTTTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
21 23 0.37
22 36 0.58
23 3 0.05
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.46
Consensus pattern (21 bp):
TTTTTAAGTAAAAGGTTAGGG
Found at i:5133267 original size:21 final size:22
Alignment explanation
Indices: 5133255--5133318 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
5133245 TTAGGGTTTT
5133255 TAAGTTAAGGG-TTAGGGTTTT
1 TAAGTTAAGGGTTTAGGGTTTT
*
5133276 TAAGTTAAGGGTTTAGGGATTT
1 TAAGTTAAGGGTTTAGGGTTTT
5133298 TAAGTTAAGGGTTTAGGGTTT
1 TAAGTTAAGGGTTTAGGGTTT
5133319 AAGGTTTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 11 0.28
22 29 0.73
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (22 bp):
TAAGTTAAGGGTTTAGGGTTTT
Found at i:5133278 original size:43 final size:44
Alignment explanation
Indices: 5133229--5133318 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 44
5133219 AATTTATAAA
*
5133229 TTTTTAA-TAAATTAGG-TTAGGGTTTTTAAGTTAAGGG-TTAGGG
1 TTTTTAAGTAAA--AGGTTTAGGGATTTTAAGTTAAGGGTTTAGGG
* *
5133272 TTTTTAAGTTAAGGGTTTAGGGATTTTAAGTTAAGGGTTTAGGG
1 TTTTTAAGTAAAAGGTTTAGGGATTTTAAGTTAAGGGTTTAGGG
5133316 TTT
1 TTT
5133319 AAGGTTTTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
42 2 0.05
43 27 0.66
44 12 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.46
Consensus pattern (44 bp):
TTTTTAAGTAAAAGGTTTAGGGATTTTAAGTTAAGGGTTTAGGG
Found at i:5133389 original size:153 final size:148
Alignment explanation
Indices: 5133118--5133451 Score: 519
Period size: 153 Copynumber: 2.2 Consensus size: 148
5133108 TAATAAATTA
*
5133118 GGTTAGGGTTTTTAAGTTAAGGGCTTA-GGTTTT-TTAAATTAAGGGTTTAGGGTTTTTGTTAGG
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTATTAAATTAAGGGTTTAAGGTTTTTGTTAGG
5133181 GTTTGTCAATTAAATTATAAATATATTTATAAACTATAAATTTATAAATTTTTAATAAATTAGGT
66 GTTTGTCAATTAAATTATAAATATATTTATAAACTATAAATTTATAAATTTTTAATAAATTAGGT
**
5133246 TAGGGTTTTTAAGTTAAG
131 TAGAATTTTTAAGTTAAG
* * *
5133264 GGTTAGGGTTTTTAAGTTAAGGGTTTAGGGATTTTAAGTTAAGGGTTTAGGGTTTAAGGTTTTTG
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGG-TTTT-A-TTAA--ATTAAGGGTTTAAGGTTTTTG
* **
5133329 TTAGGGTTTGTCAATTAAATTATAAATTTATTTATAATTTATAAATTTATAAATTTTTAATAAAT
61 TTAGGGTTTGTCAATTAAATTATAAATATATTTATAAACTATAAATTTATAAATTTTTAATAAAT
5133394 TAGGTTAGAATTTTTAAGTTAAG
126 TAGGTTAGAATTTTTAAGTTAAG
*
5133417 GGTTAGGGTTTTTAAGTTAATGGCTTAGGGTTTTA
1 GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTA
5133452 GGGTAGTAAC
Statistics
Matches: 170, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
146 26 0.15
147 2 0.01
148 4 0.02
151 5 0.03
152 4 0.02
153 129 0.76
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.46
Consensus pattern (148 bp):
GGTTAGGGTTTTTAAGTTAAGGGCTTAGGGTTTTATTAAATTAAGGGTTTAAGGTTTTTGTTAGG
GTTTGTCAATTAAATTATAAATATATTTATAAACTATAAATTTATAAATTTTTAATAAATTAGGT
TAGAATTTTTAAGTTAAG
Found at i:5133420 original size:21 final size:21
Alignment explanation
Indices: 5133396--5133436 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5133386 TAATAAATTA
5133396 GGTTAGAATTTTTAAGTTAAG
1 GGTTAGAATTTTTAAGTTAAG
**
5133417 GGTTAGGGTTTTTAAGTTAA
1 GGTTAGAATTTTTAAGTTAA
5133437 TGGCTTAGGG
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:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (21 bp):
GGTTAGAATTTTTAAGTTAAG
Found at i:5133429 original size:22 final size:22
Alignment explanation
Indices: 5133404--5133450 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
5133394 TAGGTTAGAA
*
5133404 TTTTTAAGTTAA-GGGTTAGGG
1 TTTTTAAGTTAATGGCTTAGGG
5133425 TTTTTAAGTTAATGGCTTAGGG
1 TTTTTAAGTTAATGGCTTAGGG
5133447 TTTT
1 TTTT
5133451 AGGGTAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (22 bp):
TTTTTAAGTTAATGGCTTAGGG
Found at i:5135241 original size:7 final size:7
Alignment explanation
Indices: 5135231--5135255 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5135221 TTATATACAT
5135231 AATACTA
1 AATACTA
5135238 AATACTA
1 AATACTA
5135245 AATACTA
1 AATACTA
5135252 AATA
1 AATA
5135256 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:5136494 original size:11 final size:11
Alignment explanation
Indices: 5136478--5136508 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
5136468 ATTTGGAAGG
5136478 AAATTGAGAGC
1 AAATTGAGAGC
*
5136489 AAATTGAGAGG
1 AAATTGAGAGC
5136500 AAATTGAGA
1 AAATTGAGA
5136509 AAATAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.48, C:0.03, G:0.29, T:0.19
Consensus pattern (11 bp):
AAATTGAGAGC
Found at i:5136504 original size:50 final size:50
Alignment explanation
Indices: 5136405--5136505 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
5136395 TTAAAAATAG
**
5136405 GGATTTAAGAGAAATTTAAGAGGAAATTGAGAGAAAATTAAAATTAAATT
1 GGATTTAAGAGAAATTTAAGAGGAAATTGAGAGAAAATTAAAAGGAAATT
* * * * *
5136455 GGATTTAAGATAAATTT-GGAAGGAAATTGAGAGCAAATTGAGAGGAAATT
1 GGATTTAAGAGAAATTTAAG-AGGAAATTGAGAGAAAATTAAAAGGAAATT
5136505 G
1 G
5136506 AGAAAATAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.02
50 42 0.98
ACGTcount: A:0.48, C:0.01, G:0.25, T:0.27
Consensus pattern (50 bp):
GGATTTAAGAGAAATTTAAGAGGAAATTGAGAGAAAATTAAAAGGAAATT
Found at i:5150135 original size:18 final size:18
Alignment explanation
Indices: 5150112--5150152 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
5150102 ACACAAATCA
*
5150112 CAAAGATGCGAGTTCACC
1 CAAAGATGAGAGTTCACC
*
5150130 CAAAGATGAGAGTTCATC
1 CAAAGATGAGAGTTCACC
5150148 CAAAG
1 CAAAG
5150153 CTACGAGCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (18 bp):
CAAAGATGAGAGTTCACC
Found at i:5151045 original size:12 final size:13
Alignment explanation
Indices: 5151014--5151046 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
5151004 TAATACATCA
*
5151014 AAAATATTAAAAT
1 AAAATGTTAAAAT
5151027 AAAATGTTAAAAT
1 AAAATGTTAAAAT
5151040 -AAATGTT
1 AAAATGTT
5151047 TTCCAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
AAAATGTTAAAAT
Found at i:5151207 original size:22 final size:22
Alignment explanation
Indices: 5151157--5151210 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
5151147 TCCAAATAAT
* * * *
5151157 AACAACAAAATAGTAGCAATAT
1 AACAGCAAAATAGTAACAAAAC
*
5151179 AATAGCAAAATAGTAACAAAAC
1 AACAGCAAAATAGTAACAAAAC
5151201 AACAGCAAAA
1 AACAGCAAAA
5151211 CAACTTAATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.63, C:0.15, G:0.09, T:0.13
Consensus pattern (22 bp):
AACAGCAAAATAGTAACAAAAC
Found at i:5159364 original size:63 final size:64
Alignment explanation
Indices: 5159232--5159364 Score: 155
Period size: 63 Copynumber: 2.1 Consensus size: 64
5159222 ACCGTGTGGT
* * * * * * *
5159232 AGGCCATGTAACTCACTGTTTTCCATTAAGGGCCACACAGGCCAGCGACATGGGTGTATGTCGC
1 AGGCCGTGTAACTCACTATTTGCCATTAAGGACCACACAGGCCAGCAACACGGGCGTATGTCGC
* *
5159296 A-GCCGTGTGACTCACTATTTGCCATTAAGGACCACAC-GAGCCAGCAACACGGGCGTGTGTC-C
1 AGGCCGTGTAACTCACTATTTGCCATTAAGGACCACACAG-GCCAGCAACACGGGCGTATGTCGC
5159358 AGGCCGT
1 AGGCCGT
5159365 ATGTAACGCC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
62 3 0.05
63 54 0.93
64 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.27, T:0.21
Consensus pattern (64 bp):
AGGCCGTGTAACTCACTATTTGCCATTAAGGACCACACAGGCCAGCAACACGGGCGTATGTCGC
Found at i:5162449 original size:3 final size:3
Alignment explanation
Indices: 5162443--5162479 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
5162433 ATGGAAAAAG
5162443 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
5162480 GGAAAAGGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:5169407 original size:21 final size:21
Alignment explanation
Indices: 5169381--5169423 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
5169371 GGTTCGCTGT
*
5169381 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
5169402 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
5169423 A
1 A
5169424 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:5169423 original size:16 final size:16
Alignment explanation
Indices: 5169404--5169436 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5169394 TGTATTGGAT
*
5169404 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
5169420 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
5169436 T
1 T
5169437 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:5169481 original size:45 final size:44
Alignment explanation
Indices: 5169415--5169509 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
5169405 GGATTAGAGG
* *
5169415 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
5169460 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
5169504 TGTAAT
1 TGTAAT
5169510 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Done.