Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 169 of 171
Found at i:50072227 original size:21 final size:20
Alignment explanation
Indices: 50072203--50072241 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50072193 CAAAAATAAA
*
50072203 ATAAAAATTTATAAAAAATTC
1 ATAAAAA-TTAAAAAAAATTC
50072224 ATAAAAATTAAAAAAAAT
1 ATAAAAATTAAAAAAAAT
50072242 AGCATGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAAAAATTAAAAAAAATTC
Found at i:50075327 original size:18 final size:19
Alignment explanation
Indices: 50075304--50075342 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
50075294 TAATTTTATC
* *
50075304 TTTAAATTAACTT-ATAAT
1 TTTAAAATAAATTGATAAT
50075322 TTTAAAATAAATTGATAAT
1 TTTAAAATAAATTGATAAT
50075341 TT
1 TT
50075343 ACTATTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
TTTAAAATAAATTGATAAT
Found at i:50079318 original size:13 final size:13
Alignment explanation
Indices: 50079300--50079324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50079290 AAATTAAATT
50079300 AAAATTTAATTTA
1 AAAATTTAATTTA
50079313 AAAATTTAATTT
1 AAAATTTAATTT
50079325 TTATTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAATTTAATTTA
Found at i:50080205 original size:49 final size:48
Alignment explanation
Indices: 50080152--50080714 Score: 346
Period size: 49 Copynumber: 11.5 Consensus size: 48
50080142 TAAGATTTGC
* * *
50080152 CGTTGCGACTTCAATCTTTCCCGTCATGCTTCTAAGGTACAAGGTTCAT
1 CGTTGCGACTTAAATCTTTCCCTTCATGCTTCT-AGGTACAAGGTTCGT
* * * *
50080201 CGTTGTGACTTAAACCTTTCCCTTCATATCTTCGT-GGTACTAA-ATTCGT
1 CGTTGCGACTTAAATCTTTCCCTTCAT-GCTTC-TAGGTAC-AAGGTTCGT
* * *
50080250 CGTTGCGGCTTAAATCTTTTCCTTCATGTTTCTGAGGTACAAGGTTCGT
1 CGTTGCGACTTAAATCTTTCCCTTCATGCTTCT-AGGTACAAGGTTCGT
* * ** *
50080299 CGTTGTGACTTAAATCTTTCCC-TCTATATCTTCGT-GGTA-TTGGATTCGC
1 CGTTGCGACTTAAATCTTTCCCTTC-AT-GCTTC-TAGGTACAAGG-TTCGT
* * * *
50080348 CATTGCGGCTTAAATCTTTCTCTTCATGCTTCTGAGGTACAAGGTTCGC
1 CGTTGCGACTTAAATCTTTCCCTTCATGCTTCT-AGGTACAAGGTTCGT
* * * * * *
50080397 CGTTGC-AGCTTAAACCTTTCCC-TCTATATCTT-TGTGGTAC-TGGATTTGC
1 CGTTGCGA-CTTAAATCTTTCCCTTC-AT-GCTTCT-AGGTACAAGG-TTCGT
* * *
50080446 CGTTGTGGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGC
1 CGTTG-CGACTTAAATCTTTCCCTTCATGCTTCT-AGGTACAAGGTTCGT
* * * * * * * *
50080496 CATTACGACTTAAACCATTCCCTCCATGTCCTCGT-GGTAC-TGGATT-TT
1 CGTTGCGACTTAAATCTTTCCCTTCATG-CTTC-TAGGTACAAGG-TTCGT
*
50080544 CCGTTGCGACTTAAATCTTTCCCTTCCTGCTTCTGAGGTACAAGGTTCGT
1 -CGTTGCGACTTAAATCTTTCCCTTCATGCTTCT-AGGTACAAGGTTCGT
* * * * **
50080594 CTTTGCGACTTAAACCTTTCCC-TCTATGTCCTCGT-GGTAC-TGGATTCAC
1 CGTTGCGACTTAAATCTTTCCCTTC-ATG-CTTC-TAGGTACAAGG-TTCGT
* * *
50080643 CGTTGTGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGGTTCGT
1 CGTTGCGACTTAAATCTTTCCCTTCATGCTTCT-AGGTACAAGGTTCGT
* *
50080692 CGTTGCAACTTAAACCTTTCCCT
1 CGTTGCGACTTAAATCTTTCCCT
50080715 CTATATCCTT
Statistics
Matches: 391, Mismatches: 84, Indels: 78
0.71 0.15 0.14
Matches are distributed among these distances:
47 4 0.01
48 28 0.07
49 293 0.75
50 58 0.15
51 8 0.02
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (48 bp):
CGTTGCGACTTAAATCTTTCCCTTCATGCTTCTAGGTACAAGGTTCGT
Found at i:50080277 original size:98 final size:98
Alignment explanation
Indices: 50080145--50080730 Score: 764
Period size: 98 Copynumber: 6.0 Consensus size: 98
50080135 TAGGGTATAA
* * * * * * *
50080145 GATTTGCCGTTGCGACTTCAATCTTTCCCGTCATGCTTCTAAGGTACAAGGTTCATCGTTGTGAC
1 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCGTTGCGAC
*
50080210 TTAAACCTTTCCCT-TCATATCTTCGTGGTACTA
66 TTAAACCTTTCCCTCT-ATATCTTCGTGGTACTG
* * * * *
50080243 AATTCGTCGTTGCGGCTTAAATCTTTTCCTTCATGTTTCTGAGGTACAAGGTTCGTCGTTGTGAC
1 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCGTTGCGAC
* *
50080308 TTAAATCTTTCCCTCTATATCTTCGTGGTATTG
66 TTAAACCTTTCCCTCTATATCTTCGTGGTACTG
* * *
50080341 GATTCGCCATTGCGGCTTAAATCTTTCTCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGC-AG
1 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCGTTGCGA-
*
50080405 CTTAAACCTTTCCCTCTATATCTTTGTGGTACTG
65 CTTAAACCTTTCCCTCTATATCTTCGTGGTACTG
* * * * *
50080439 GATTTGCCGTTGTGGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCATTACGA
1 GATTCGCCGTTG-CGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCGTTGCGA
* * * *
50080504 CTTAAACCATTCCCTCCATGTCCTCGTGGTACTG
65 CTTAAACCTTTCCCTCTATATCTTCGTGGTACTG
** * * *
50080538 GATTTTCCGTTGCGACTTAAATCTTTCCCTTCCTGCTTCTGAGGTACAAGGTTCGTCTTTGCGAC
1 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCGTTGCGAC
* *
50080603 TTAAACCTTTCCCTCTATGTCCTCGTGGTACTG
66 TTAAACCTTTCCCTCTATATCTTCGTGGTACTG
* * * *
50080636 GATTCACCGTTGTGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGGTTCGTCGTTGCAAC
1 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCGTTGCGAC
50080701 TTAAACCTTTCCCTCTATATCCTT-GTGGTA
66 TTAAACCTTTCCCTCTATAT-CTTCGTGGTA
50080731 ATGAAAACTG
Statistics
Matches: 429, Mismatches: 54, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
97 1 0.00
98 338 0.79
99 89 0.21
100 1 0.00
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (98 bp):
GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGTCGTTGCGAC
TTAAACCTTTCCCTCTATATCTTCGTGGTACTG
Found at i:50080698 original size:295 final size:294
Alignment explanation
Indices: 50080145--50080730 Score: 832
Period size: 295 Copynumber: 2.0 Consensus size: 294
50080135 TAGGGTATAA
* * * **
50080145 GATTTGCCGTTGCGACTTCAATCTTTCCCGTCATGCTTCTAAGGTACAAGGTTCATCGTTGTGAC
1 GATTTGCCGTTGCGACTTAAATCTTTCCCGTCATGCTTCTAAGGTACAAGGTTCACCATTACGAC
* * * * *
50080210 TTAAACCTTTCCCTTCATATCTTCGTGGTACTAAATTCGTCGTTGCGGCTTAAATCTTTTCCTTC
66 TTAAACCATTCCCTCCATATCCTCGTGGTACTAAATTCGTCGTTGCGACTTAAATCTTTCCCTTC
* * * * *
50080275 ATGTTTCTGAGGTACAAGGTTCGTCGTTGTGACTTAAATCTTTCCCTCTATATCTTCGTGGTATT
131 ATGCTTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTCTATATCCTCGTGGTACT
* * *
50080340 GGATTCGCCATTGCGGCTTAAATCTTTCTCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCAG
196 GGATTCACCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCAA
*
50080405 CTTAAACCTTTCCCTCTATATCTTTGTGGTACTG
261 CTTAAACCTTTCCCTCTATATCCTTGTGGTACTG
* * * * *
50080439 GATTTGCCGTTGTGGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCATTACGA
1 GATTTGCCGTTG-CGACTTAAATCTTTCCCGTCATGCTTCTAAGGTACAAGGTTCACCATTACGA
* ** *
50080504 CTTAAACCATTCCCTCCATGTCCTCGTGGTACTGGATT-TTCCGTTGCGACTTAAATCTTTCCCT
65 CTTAAACCATTCCCTCCATATCCTCGTGGTACTAAATTCGT-CGTTGCGACTTAAATCTTTCCCT
* * *
50080568 TCCTGCTTCTGAGGTACAAGGTTCGTCTTTGCGACTTAAACCTTTCCCTCTATGTCCTCGTGGTA
129 TCATGCTTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTCTATATCCTCGTGGTA
* * * *
50080633 CTGGATTCACCGTTGTGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTACAAGGTTCGTCGTTGC
194 CTGGATTCACCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGC
50080698 AACTTAAACCTTTCCCTCTATATCCTTGTGGTA
259 AACTTAAACCTTTCCCTCTATATCCTTGTGGTA
50080731 ATGAAAACTG
Statistics
Matches: 255, Mismatches: 35, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
294 13 0.05
295 242 0.95
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (294 bp):
GATTTGCCGTTGCGACTTAAATCTTTCCCGTCATGCTTCTAAGGTACAAGGTTCACCATTACGAC
TTAAACCATTCCCTCCATATCCTCGTGGTACTAAATTCGTCGTTGCGACTTAAATCTTTCCCTTC
ATGCTTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTCTATATCCTCGTGGTACT
GGATTCACCATTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCAA
CTTAAACCTTTCCCTCTATATCCTTGTGGTACTG
Found at i:50082561 original size:60 final size:59
Alignment explanation
Indices: 50082441--50082557 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 59
50082431 GTGAAGGAGA
50082441 TTTTTTTAAGATGCCCTTTGCGGGTTTTCATCTTGACTTTTCCTTTTTCTTTTCTTTTCT
1 TTTTTTTAAGATGCCCTTTGCGGGTTTTCATCTTGACTTTTCC-TTTTCTTTTCTTTTCT
*
50082501 TTTTTTTAAGATGCCCTTTGAGGGGTTTTCATCTTGACCTTTT-C-TTTCTTTTCTTTT
1 TTTTTTTAAGATGCCCTTTG-CGGGTTTTCATCTTGA-CTTTTCCTTTTCTTTTCTTTT
50082558 TCTTATATCT
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
59 13 0.24
60 20 0.37
61 16 0.30
62 5 0.09
ACGTcount: A:0.09, C:0.19, G:0.13, T:0.59
Consensus pattern (59 bp):
TTTTTTTAAGATGCCCTTTGCGGGTTTTCATCTTGACTTTTCCTTTTCTTTTCTTTTCT
Found at i:50085672 original size:30 final size:29
Alignment explanation
Indices: 50085638--50085956 Score: 279
Period size: 29 Copynumber: 10.8 Consensus size: 29
50085628 TCCTGAAGTT
**
50085638 CCTAAACTATCCAAAAATTGTATTTTGACC
1 CCTAAACT-TCCAAAAATTACATTTTGACC
*
50085668 CCTAAACTTCTCTAAAATTACATTTTTGACC
1 CCTAAACTTC-CAAAAATTACA-TTTTGACC
* * *
50085699 TCAAAACTTCCAAAAATTACATTTTTA-C
1 CCTAAACTTCCAAAAATTACATTTTGACC
*
50085727 CCTCAAACTTCCAAAAATT-CTAATTTGA-C
1 CCT-AAACTTCCAAAAATTAC-ATTTTGACC
*
50085756 CCTAAAACTTCCAAAAATTCCATTTT-ACC
1 CCT-AAACTTCCAAAAATTACATTTTGACC
** * *
50085785 CCCGAACTTCCAAAAATTCCATTTTTAACC
1 CCTAAACTTCCAAAAATTACA-TTTTGACC
* * *
50085815 TCGAAACTTCCAAAAATTACATTTTCACC
1 CCTAAACTTCCAAAAATTACATTTTGACC
* * *
50085844 CCCAAACTTCCAAAATTTCAAATTTTGACC
1 CCTAAACTTCCAAAAATT-ACATTTTGACC
* * *
50085874 CCGAAACTTCCAAAAATTACGTTTTTACC
1 CCTAAACTTCCAAAAATTACATTTTGACC
* * *
50085903 CCTGAACTGCCAAAAATTCCATTTTAGA-C
1 CCTAAACTTCCAAAAATTACATTTT-GACC
* *
50085932 CCGAAACTTTCAAAAATTACCATTT
1 CCTAAACTTCCAAAAATTA-CATTT
50085957 ACTCTCGAGT
Statistics
Matches: 237, Mismatches: 41, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
28 21 0.09
29 122 0.51
30 78 0.33
31 16 0.07
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (29 bp):
CCTAAACTTCCAAAAATTACATTTTGACC
Found at i:50085773 original size:58 final size:58
Alignment explanation
Indices: 50085641--50085956 Score: 305
Period size: 59 Copynumber: 5.4 Consensus size: 58
50085631 TGAAGTTCCT
** * * * * * *
50085641 AAACTATCCAAAAATTGTATTTTGACCCCTAAACTTCTCTAAAATTACATTTTTGA-CCTCA
1 AAACT-TCCAAAAATTACATTTTTACCCCCAAACTTC-CAAAAATTCCA-ATTTGACCCT-G
* * *
50085702 AAACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATTCTAATTTGACCCTA
1 AAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTCCAATTTGACCCTG
* * * * *
50085760 AAACTTCCAAAAATTCCA-TTTTACCCCCGAACTTCCAAAAATTCCATTTTTAACCTCG
1 AAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTCCAATTTGACCCT-G
* * * *
50085818 AAACTTCCAAAAATTACATTTTCACCCCCAAACTTCCAAAATTTCAAATTTTGACCCCG
1 AAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTCCAA-TTTGACCCTG
* ** * *
50085877 AAACTTCCAAAAATTACGTTTTTACCCCTGAACTGCCAAAAATTCCATTTTAGACCC-G
1 AAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTCCAATTT-GACCCTG
*
50085935 AAACTTTCAAAAATTACCATTT
1 AAACTTCCAAAAATTA-CATTT
50085957 ACTCTCGAGT
Statistics
Matches: 213, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
57 32 0.15
58 59 0.28
59 85 0.40
60 32 0.15
61 5 0.02
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (58 bp):
AAACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTCCAATTTGACCCTG
Found at i:50086120 original size:29 final size:29
Alignment explanation
Indices: 50086059--50086119 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 29
50086049 AAATTTTCCT
50086059 AAAATTACCATTTTGACCCCCGAGAGTCC
1 AAAATTACCATTTTGACCCCCGAGAGTCC
*
50086088 AAAATTACCA-TTTGACCCTCGAGTA-TCC
1 AAAATTACCATTTTGACCCCCGAG-AGTCC
50086116 AAAA
1 AAAA
50086120 AGTCTCATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (29 bp):
AAAATTACCATTTTGACCCCCGAGAGTCC
Found at i:50101906 original size:39 final size:39
Alignment explanation
Indices: 50101862--50101952 Score: 98
Period size: 39 Copynumber: 2.4 Consensus size: 39
50101852 TGGGACAAGT
* *
50101862 CTCTTCCAAGAGGTAT-GTCCAATATGAAAAAGGTTGTGA
1 CTCTTCCAAAAGGTATCATCCAATATG-AAAAGGTTGTGA
* * *
50101901 CTCTT-CAAAAGGTGTCCATCCAATTTGAAAGGGTTGTGA
1 CTCTTCCAAAAGGTAT-CATCCAATATGAAAAGGTTGTGA
50101940 CTCTT-CAAAAGGT
1 CTCTTCCAAAAGGT
50101953 GTCCATTGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
38 8 0.18
39 29 0.64
40 8 0.18
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (39 bp):
CTCTTCCAAAAGGTATCATCCAATATGAAAAGGTTGTGA
Found at i:50101953 original size:39 final size:40
Alignment explanation
Indices: 50101879--50101958 Score: 135
Period size: 39 Copynumber: 2.0 Consensus size: 40
50101869 AAGAGGTATG
50101879 TCCAATATGAAAAAGGTTGTGACTCTTCAAAAGGTGTCCA
1 TCCAATATGAAAAAGGTTGTGACTCTTCAAAAGGTGTCCA
* *
50101919 TCCAATTTG-AAAGGGTTGTGACTCTTCAAAAGGTGTCCA
1 TCCAATATGAAAAAGGTTGTGACTCTTCAAAAGGTGTCCA
50101958 T
1 T
50101959 TGATTGCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 30 0.79
40 8 0.21
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (40 bp):
TCCAATATGAAAAAGGTTGTGACTCTTCAAAAGGTGTCCA
Found at i:50106783 original size:39 final size:38
Alignment explanation
Indices: 50106739--50106829 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 38
50106729 TGGGACAAGT
* *
50106739 CTCTTCCAAGAGGTAT-GTCCAATATGAAAAGGGTTGTGA
1 CTCTT-CAAAAGGTATCATCCAATATG-AAAGGGTTGTGA
* *
50106778 CTCTTCAAAAGGTGTCCATCCAATTTGAAAGGGTTGTGA
1 CTCTTCAAAAGGTAT-CATCCAATATGAAAGGGTTGTGA
*
50106817 CTCTTTAAAAGGT
1 CTCTTCAAAAGGT
50106830 GTCCATTGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
38 8 0.18
39 29 0.64
40 8 0.18
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (38 bp):
CTCTTCAAAAGGTATCATCCAATATGAAAGGGTTGTGA
Found at i:50106830 original size:39 final size:40
Alignment explanation
Indices: 50106756--50106835 Score: 135
Period size: 39 Copynumber: 2.0 Consensus size: 40
50106746 AAGAGGTATG
50106756 TCCAATATGAAAAGGGTTGTGACTCTTCAAAAGGTGTCCA
1 TCCAATATGAAAAGGGTTGTGACTCTTCAAAAGGTGTCCA
* *
50106796 TCCAATTTG-AAAGGGTTGTGACTCTTTAAAAGGTGTCCA
1 TCCAATATGAAAAGGGTTGTGACTCTTCAAAAGGTGTCCA
50106835 T
1 T
50106836 TGATTGCATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 30 0.79
40 8 0.21
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (40 bp):
TCCAATATGAAAAGGGTTGTGACTCTTCAAAAGGTGTCCA
Found at i:50107345 original size:16 final size:16
Alignment explanation
Indices: 50107324--50107354 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50107314 GAAAGATGTA
50107324 CACATTAGTTTTTATC
1 CACATTAGTTTTTATC
50107340 CACATTAGTTTTTAT
1 CACATTAGTTTTTAT
50107355 ACGTTAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (16 bp):
CACATTAGTTTTTATC
Found at i:50120957 original size:60 final size:60
Alignment explanation
Indices: 50120886--50121069 Score: 201
Period size: 60 Copynumber: 3.1 Consensus size: 60
50120876 TTAATATAAT
* * * *
50120886 ATTTGGTATCTGAACTTGATACTTTTTTCTTAATTTGATACTTAAATTTCTTTT-GATTCA
1 ATTTGGTATCTGAACTTGA-ACTATTTTCCTAATTTGGTACCTAAATTTCTTTTAGATTCA
** * *
50120946 ATTTGGTATCTGAACTTGACAC-ATTTTCCTAATTTGGTACCTAAACATCTTTTGGATCCA
1 ATTTGGTATCTGAACTTGA-ACTATTTTCCTAATTTGGTACCTAAATTTCTTTTAGATTCA
* * * * * * *
50121006 ATTTGGTACCTAAACTTGAAATGTTTTCCTAATTTGGTACCTAAGTTTTTTTTAGATTTA
1 ATTTGGTATCTGAACTTGAACTATTTTCCTAATTTGGTACCTAAATTTCTTTTAGATTCA
50121066 ATTT
1 ATTT
50121070 TGTACCTAAA
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
59 26 0.25
60 77 0.75
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (60 bp):
ATTTGGTATCTGAACTTGAACTATTTTCCTAATTTGGTACCTAAATTTCTTTTAGATTCA
Found at i:50125661 original size:72 final size:72
Alignment explanation
Indices: 50125222--50125662 Score: 666
Period size: 72 Copynumber: 6.1 Consensus size: 72
50125212 GAATTGACGA
* * ** ** *
50125222 TGGAATCGGTCCGCTCAATTGGTTTTCTGACAAGTCTAAAAAAGTGAGTTGCAAGAGGTCTCCCA
1 TGGAATTGGTCCACTCAATTGGTTCCCTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCA
50125287 GTGATCT
66 GTGATCT
* * *
50125294 CGGAATTTGTCCACTCAATTGGTTCCCTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTCTCCCA
1 TGGAATTGGTCCACTCAATTGGTTCCCTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCA
50125359 GTGATCT
66 GTGATCT
* * * * *
50125366 CGGAATTTGTCCACTCAATTGGTTCACTGGCAAGGCTAAATGAGTGAGTTGCAAGAGGTTTCCCA
1 TGGAATTGGTCCACTCAATTGGTTCCCTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCA
50125431 GTGATCT
66 GTGATCT
* * * * *
50125438 CGAAATTTGTCCACTCAATTGGTTCGCTGACAAGTCTAAATGAATGAGTTGCAAGAGGTTTCCCA
1 TGGAATTGGTCCACTCAATTGGTTCCCTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCA
50125503 GTGATCT
66 GTGATCT
** *
50125510 TGGAATTGGTCCACTCAATTGGTTCCCCAAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCA
1 TGGAATTGGTCCACTCAATTGGTTCCCTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCA
50125575 GTGATCT
66 GTGATCT
*
50125582 TGGAATTGGTCCACTCAATTGGTTCGCTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCA
1 TGGAATTGGTCCACTCAATTGGTTCCCTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCA
50125647 GTGATCT
66 GTGATCT
50125654 TGGAATTGG
1 TGGAATTGG
50125663 CCCTGATAAG
Statistics
Matches: 340, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 340 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (72 bp):
TGGAATTGGTCCACTCAATTGGTTCCCTGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCA
GTGATCT
Found at i:50132393 original size:24 final size:24
Alignment explanation
Indices: 50132365--50132423 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
50132355 TAGACTAATA
50132365 AGAGTTTAACTAAAACAAATAAAC
1 AGAGTTTAACTAAAACAAATAAAC
** *
50132389 AGAGTTTATTTGAAACAAATAAAC
1 AGAGTTTAACTAAAACAAATAAAC
50132413 AGAGTTTAACT
1 AGAGTTTAACT
50132424 CGAAGATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTAAAACAAATAAAC
Found at i:50134382 original size:24 final size:24
Alignment explanation
Indices: 50134321--50134383 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
50134311 TAGAGTAATA
* * *
50134321 AGAGTTTGACTCAAATAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
*
50134345 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
50134369 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
50134384 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:50145141 original size:28 final size:24
Alignment explanation
Indices: 50145074--50145134 Score: 97
Period size: 24 Copynumber: 2.5 Consensus size: 24
50145064 AGTTAAACTG
*
50145074 TGTTTAATTGTTTCAATTAATATC
1 TGTTTATTTGTTTCAATTAATATC
50145098 TGTTTATTTGTTTCAATTAA-ATTC
1 TGTTTATTTGTTTCAATTAATA-TC
50145122 TGTTTATTTGTTT
1 TGTTTATTTGTTT
50145135 GAGTCAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 1 0.03
24 34 0.97
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.61
Consensus pattern (24 bp):
TGTTTATTTGTTTCAATTAATATC
Found at i:50146767 original size:107 final size:109
Alignment explanation
Indices: 50146550--50146815 Score: 437
Period size: 109 Copynumber: 2.4 Consensus size: 109
50146540 GATTGAAATT
*
50146550 AAAAATGAGTGTCATCCTCAACTAATATCAAGACTAGAGCATACAAATTATATATATATAGCTCT
1 AAAAATGAGTGTCATCCTCAACTAATATCAAGACTAGAGCATACAAA-TATATATATATAGCTCC
* *
50146615 TAAATGTGTATAAATTAATAGCTTTTAGAGTAACCAACAATTT-A
65 TAAATGTATATAAATTAATAGCTTTTAGAGTAAACAACAATTTAA
*
50146659 AAAAATGAGTGTCATCCTCAACTAATATGAAGACTAGAGCATACAAAT-TATATATATAGCTCCT
1 AAAAATGAGTGTCATCCTCAACTAATATCAAGACTAGAGCATACAAATATATATATATAGCTCCT
*
50146723 AAATGTATATAAATTAATAGCTTTTAGAGTAAACAACACTTTAA
66 AAATGTATATAAATTAATAGCTTTTAGAGTAAACAACAATTTAA
* *
50146767 AAAAATGAGTGTCATCCTCAATTAATATCTAAGATTAGAGCATACAAAT
1 AAAAATGAGTGTCATCCTCAACTAATATC-AAGACTAGAGCATACAAAT
50146816 CAAAACAAGA
Statistics
Matches: 147, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
107 54 0.37
108 29 0.20
109 64 0.44
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (109 bp):
AAAAATGAGTGTCATCCTCAACTAATATCAAGACTAGAGCATACAAATATATATATATAGCTCCT
AAATGTATATAAATTAATAGCTTTTAGAGTAAACAACAATTTAA
Found at i:50153247 original size:24 final size:24
Alignment explanation
Indices: 50153214--50153264 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
50153204 AAGTCAAATC
*
50153214 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTAATTG
* * *
50153238 TTTCAATTAAATTTTGTTTATTTG
1 TTTCAATTAAACTCTGTTTAATTG
50153262 TTT
1 TTT
50153265 GAGTCAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTAATTG
Found at i:50155189 original size:24 final size:24
Alignment explanation
Indices: 50155161--50155223 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
50155151 AGAAATAATC
50155161 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAGTTAAACTCTGTTTAATTG
* * *
50155185 TTTCAATTAAACTATGTTTATTTG
1 TTTCAGTTAAACTCTGTTTAATTG
* *
50155209 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
50155224 TATTAGTCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTAATTG
Found at i:50156654 original size:24 final size:25
Alignment explanation
Indices: 50156603--50156654 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
50156593 TCTCACGAGT
*
50156603 AGAGGTCCAAAAATGTAATTATTTG
1 AGAGGTCCAAAAATGTAATTATTAG
*
50156628 AGAGGT-CAAAAATTTGAATT-TTAG
1 AGAGGTCCAAAAATGT-AATTATTAG
50156652 AGA
1 AGA
50156655 AAAAACGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (25 bp):
AGAGGTCCAAAAATGTAATTATTAG
Found at i:50157872 original size:24 final size:25
Alignment explanation
Indices: 50157826--50157874 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
50157816 TTGATGATGG
50157826 AATTAATATCTGTGTTTAATTGTTTC
1 AATTAATATC-GTGTTTAATTGTTTC
*
50157852 AATTAATATC-TGTTTATTTGTTT
1 AATTAATATCGTGTTTAATTGTTT
50157875 GAGTCAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.55
26 10 0.45
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (25 bp):
AATTAATATCGTGTTTAATTGTTTC
Found at i:50159833 original size:24 final size:24
Alignment explanation
Indices: 50159804--50159854 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
50159794 AGAAATAATC
* *
50159804 TTTCAATTAATCTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTCAATTG
*
50159828 TTTCAATTAAACTCTGTTCATTTG
1 TTTCAATTAAACTCTGTTCAATTG
50159852 TTT
1 TTT
50159855 AAGTCAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTCAATTG
Found at i:50164578 original size:15 final size:14
Alignment explanation
Indices: 50164560--50164589 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
50164550 AATTTTTAAA
50164560 TTTATAATTATATTT
1 TTTATAATTA-ATTT
50164575 TTTATAATTAATTT
1 TTTATAATTAATTT
50164589 T
1 T
50164590 ACTTCAGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTATAATTAATTT
Found at i:50166117 original size:29 final size:29
Alignment explanation
Indices: 50166085--50166473 Score: 144
Period size: 29 Copynumber: 13.2 Consensus size: 29
50166075 TTTTTCGATA
50166085 TTCGGGGGT-AAATGGTAATTTTTGAAAGT
1 TTCGGGGGTAAAATGG-AATTTTTGAAAGT
* * *
50166114 TTC-GAGGTCAAAAATGGAGTTTTTG-GA-T
1 TTCGGGGGT--AAAATGGAATTTTTGAAAGT
*
50166142 ATTCAGGGGTAAAATGGTAATTTTTGAAAGT
1 -TTCGGGGGTAAAATGG-AATTTTTGAAAGT
* * *
50166173 TT-TGGGTTAAAAAATGGAATTTTTGGAAG-
1 TTCGGGGGT--AAAATGGAATTTTTGAAAGT
** * *
50166202 TTCGGGGGTAAAATAATAATATTTGGAAGT
1 TTCGGGGGTAAAAT-GGAATTTTTGAAAGT
*** * *
50166232 TTC-AAAGTCAAAAATAGAATTTTTGGAA-T
1 TTCGGGGGT--AAAATGGAATTTTTGAAAGT
** ** *
50166261 TTCAAGGGTAAAAATATAATTTTTGGAAGT
1 TTCGGGGGT-AAAATGGAATTTTTGAAAGT
*
50166291 TTCGGGGATAGAAATGGAATTTTT-AGAAGT
1 TTCGGGGGTA-AAATGGAATTTTTGA-AAGT
* * *
50166321 TT-GGGGGTAAAAATGTATTTTTTGGAAGT
1 TTCGGGGGT-AAAATGGAATTTTTGAAAGT
**
50166350 TT-TAGGGTCAAAAATGGAATTTTTG-AAGT
1 TTCGGGGGT--AAAATGGAATTTTTGAAAGT
* * *
50166379 TT-GTGGGGGAAATTGTAATTTTTGGAAA-T
1 TTCG-GGGGTAAAATGGAATTTTT-GAAAGT
* * * *
50166408 TT-TGAGGTCAAAAATGGAATTTTTGGATG-
1 TTCGGGGGT--AAAATGGAATTTTTGAAAGT
* *
50166437 TTCGGGGGTAAAAATGTAATTTTTGGAAGT
1 TTCGGGGGT-AAAATGGAATTTTTGAAAGT
*
50166467 TTTGGGG
1 TTCGGGG
50166474 TCAAAAATAT
Statistics
Matches: 277, Mismatches: 53, Indels: 59
0.71 0.14 0.15
Matches are distributed among these distances:
28 32 0.12
29 114 0.41
30 112 0.40
31 19 0.07
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (29 bp):
TTCGGGGGTAAAATGGAATTTTTGAAAGT
Found at i:50166186 original size:59 final size:58
Alignment explanation
Indices: 50165948--50166481 Score: 367
Period size: 59 Copynumber: 9.1 Consensus size: 58
50165938 AATCAGAGTT
* ** * * * * * *
50165948 AAAAATGAGACTTTTTGGATACCCGAGGGCAAAATGGTAATTTTGGGAAAATTTGGGGTT
1 AAAAATG-GAATTTTTGGATATTCGGGGGTAAAATGGTAATTTT-TGAAAGTTTTGGGTC
* * * ** ** * *
50166008 AAAAAT-GACA-TTTTAGACATTCGGGGGTAAAATGGTAATTTTAGAAAAATCAGGATT
1 AAAAATGGA-ATTTTTGGATATTCGGGGGTAAAATGGTAATTTTTGAAAGTTTTGGGTC
* * *
50166065 AAAAATAGAATTTTTCGATATTCGGGGGT-AAATGGTAATTTTTGAAAGTTTCGAGGTC
1 AAAAATGGAATTTTTGGATATTCGGGGGTAAAATGGTAATTTTTGAAAGTTTTG-GGTC
* * *
50166123 AAAAATGGAGTTTTTGGATATTCAGGGGTAAAATGGTAATTTTTGAAAGTTTTGGGTTA
1 AAAAATGGAATTTTTGGATATTCGGGGGTAAAATGGTAATTTTTGAAAGTTTTGGG-TC
** * * ***
50166182 AAAAATGGAATTTTTGGA-AGTTCGGGGGTAAAATAATAATATTTGGAAGTTTCAAAGTC
1 AAAAATGGAATTTTTGGATA-TTCGGGGGTAAAATGGTAATTTTTGAAAGTTT-TGGGTC
* ** * * *
50166241 AAAAATAGAATTTTTGGA-ATTTCAAGGGTAAAAAT-ATAATTTTTGGAAGTTTCGGGGAT-
1 AAAAATGGAATTTTTGGATA-TTCGGGGGT-AAAATGGTAATTTTTGAAAGTTT-TGGG-TC
* * * * *
50166300 AGAAATGGAATTTTTAGA-AGTTTGGGGGTAAAAAT-GTATTTTTTGGAAGTTTTAGGGTC
1 AAAAATGGAATTTTTGGATA-TTCGGGGGT-AAAATGGTAATTTTTGAAAGTTTT-GGGTC
* * *
50166359 AAAAATGGAATTTTT-GA-AGTTTGTGGGG-GAAATTGTAATTTTTGGAAA-TTTTGAGGTC
1 AAAAATGGAATTTTTGGATA-TTCG-GGGGTAAAATGGTAATTTTT-GAAAGTTTTG-GGTC
* *
50166417 AAAAATGGAATTTTTGGATGTTCGGGGGTAAAAAT-GTAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGGAATTTTTGGATATTCGGGGGT-AAAATGGTAATTTTTGAAAGTTTT-GGGTC
50166476 AAAAAT
1 AAAAAT
50166482 ATAATTTTAG
Statistics
Matches: 389, Mismatches: 63, Indels: 45
0.78 0.13 0.09
Matches are distributed among these distances:
57 41 0.11
58 123 0.32
59 207 0.53
60 18 0.05
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (58 bp):
AAAAATGGAATTTTTGGATATTCGGGGGTAAAATGGTAATTTTTGAAAGTTTTGGGTC
Found at i:50166196 original size:30 final size:29
Alignment explanation
Indices: 50166094--50166499 Score: 206
Period size: 30 Copynumber: 13.7 Consensus size: 29
50166084 ATTCGGGGGT
* * *
50166094 AAATGGTAATTTTTGAAAGTTTCGAGGTCAA
1 AAATGG-AATTTTTGGAAGTTTTG-GGTAAA
* **
50166125 AAATGGAGTTTTTGGATA-TTCAGGGGT--A
1 AAATGGAATTTTTGGA-AGTT-TTGGGTAAA
*
50166153 AAATGGTAATTTTTGAAAGTTTTGGGTTAAA
1 AAATGG-AATTTTTGGAAGTTTTGGG-TAAA
**
50166184 AAATGGAATTTTTGGAAGTTCGGGGGTAAA
1 AAATGGAATTTTTGGAAGTT-TTGGGTAAA
* *** *
50166214 ATAAT--AATATTTGGAAGTTTCAAAGTCAA
1 A-AATGGAATTTTTGGAAGTTT-TGGGTAAA
* *
50166243 AAATAGAATTTTTGGAA-TTTCAAGGGTAAA
1 AAATGGAATTTTTGGAAGTTT--TGGGTAAA
* * *
50166273 AATAT--AATTTTTGGAAGTTTCGGGGATAG
1 AA-ATGGAATTTTTGGAAGTTTTGGGTA-AA
* *
50166302 AAATGGAATTTTTAGAAGTTTGGGGGT-AA
1 AAATGGAATTTTTGGAAGTTT-TGGGTAAA
* * *
50166331 AAATGTATTTTTTGGAAGTTTTAGGGTCAA
1 AAATGGAATTTTTGGAAGTTTT-GGGTAAA
**
50166361 AAATGGAATTTTT-GAAGTTTGTGGG-GGA
1 AAATGGAATTTTTGGAAGTTT-TGGGTAAA
* * * *
50166389 AATTGTAATTTTTGGAAATTTTGAGGTCAA
1 AAATGGAATTTTTGGAAGTTTTG-GGTAAA
* **
50166419 AAATGGAATTTTTGGATGTTCGGGGGT-AA
1 AAATGGAATTTTTGGAAGTT-TTGGGTAAA
* *
50166448 AAATGTAATTTTTGGAAGTTTTGGGGTCAA
1 AAATGGAATTTTTGGAAGTTTT-GGGTAAA
** *
50166478 AAATATAATTTTAGAGAAGTTT
1 AAATGGAATTTTTG-GAAGTTT
50166500 AAGGGTCAAA
Statistics
Matches: 292, Mismatches: 54, Indels: 58
0.72 0.13 0.14
Matches are distributed among these distances:
28 34 0.12
29 111 0.38
30 113 0.39
31 34 0.12
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (29 bp):
AAATGGAATTTTTGGAAGTTTTGGGTAAA
Found at i:50166468 original size:88 final size:87
Alignment explanation
Indices: 50166182--50166473 Score: 259
Period size: 88 Copynumber: 3.3 Consensus size: 87
50166172 TTTTGGGTTA
* * ** * * *
50166182 AAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATAATAATATTTGGAAGTTTCAAAGTCAAAAAT
1 AAAAATGGAATTTTTGGAAGTTTGGGGG-GAAATTGTAATTTTTGGAAGTTTCGAGGTCAAAAAT
*
50166247 AGAATTTTTGGAAT-TTCAAGGGT
65 GGAATTTTTGG-ATGTTCAAGGGT
** * * * * *
50166270 AAAAATATAATTTTTGGAAGTTTCGGGGATAGAAA-TGGAATTTTTAGAAGTTTGGGGGT-AAAA
1 AAAAATGGAATTTTTGGAAGTTT-GGGG--GGAAATTGTAATTTTTGGAAGTTTCGAGGTCAAAA
* * * **
50166333 ATGTATTTTTTGGAAGTTTTAGGGT
63 ATGGAATTTTTGGATGTTCAAGGGT
* *
50166358 CAAAAATGGAATTTTT-GAAGTTTGTGGGGGAAATTGTAATTTTTGGAAATTTTGAGGTCAAAAA
1 -AAAAATGGAATTTTTGGAAGTTTG-GGGGGAAATTGTAATTTTTGGAAGTTTCGAGGTCAAAAA
**
50166422 TGGAATTTTTGGATGTTCGGGGGT
64 TGGAATTTTTGGATGTTCAAGGGT
* *
50166446 AAAAATGTAATTTTTGGAAGTTTTGGGG
1 AAAAATGGAATTTTTGGAAGTTTGGGGG
50166474 TCAAAAATAT
Statistics
Matches: 159, Mismatches: 36, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
86 4 0.03
87 39 0.25
88 81 0.51
89 32 0.20
90 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.37
Consensus pattern (87 bp):
AAAAATGGAATTTTTGGAAGTTTGGGGGGAAATTGTAATTTTTGGAAGTTTCGAGGTCAAAAATG
GAATTTTTGGATGTTCAAGGGT
Found at i:50166489 original size:59 final size:58
Alignment explanation
Indices: 50166065--50166481 Score: 401
Period size: 59 Copynumber: 7.1 Consensus size: 58
50166055 AATCAGGATT
* * * * * *
50166065 AAAAATAGAATTTTTCGATATTCGGGGGT-AAATGGTAATTTTTGAAAGTTTCGAGGTC
1 AAAAATGGAATTTTTGGATGTTCGGGGGTAAAAT-GTAATTTTTGGAAGTTTTGGGGTC
* * * * * *
50166123 AAAAATGGAGTTTTTGGATATTCAGGGGTAAAATGGTAATTTTTGAAAGTTTTGGGTTA
1 AAAAATGGAATTTTTGGATGTTCGGGGGTAAAAT-GTAATTTTTGGAAGTTTTGGGGTC
* * * ****
50166182 AAAAATGGAATTTTTGGAAGTTCGGGGGTAAAATAATAATATTTGGAAGTTTCAAAGTC
1 AAAAATGGAATTTTTGGATGTTCGGGGGTAAAAT-GTAATTTTTGGAAGTTTTGGGGTC
* ** * *
50166241 AAAAATAGAATTTTTGGAAT-TTCAAGGGTAAAAATATAATTTTTGGAAGTTTCGGGGAT-
1 AAAAATGGAATTTTTGG-ATGTTCGGGGGT-AAAATGTAATTTTTGGAAGTTTTGGGG-TC
* * * * * *
50166300 AGAAATGGAATTTTTAGAAGTTTGGGGGTAAAAATGTATTTTTTGGAAGTTTTAGGGTC
1 AAAAATGGAATTTTTGGATGTTCGGGGGT-AAAATGTAATTTTTGGAAGTTTTGGGGTC
* * * * * *
50166359 AAAAATGGAATTTTT-GAAGTTTGTGGGGGAAATTGTAATTTTTGGAAATTTTGAGGTC
1 AAAAATGGAATTTTTGGATGTTCG-GGGGTAAAATGTAATTTTTGGAAGTTTTGGGGTC
50166417 AAAAATGGAATTTTTGGATGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGGAATTTTTGGATGTTCGGGGGT-AAAATGTAATTTTTGGAAGTTTTGGGGTC
50166476 AAAAAT
1 AAAAAT
50166482 ATAATTTTAG
Statistics
Matches: 296, Mismatches: 54, Indels: 17
0.81 0.15 0.05
Matches are distributed among these distances:
58 78 0.26
59 211 0.71
60 7 0.02
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (58 bp):
AAAAATGGAATTTTTGGATGTTCGGGGGTAAAATGTAATTTTTGGAAGTTTTGGGGTC
Found at i:50166506 original size:31 final size:30
Alignment explanation
Indices: 50166211--50166518 Score: 118
Period size: 29 Copynumber: 10.4 Consensus size: 30
50166201 GTTCGGGGGT
*
50166211 AAAATAATAATATTT-GGAAGTTTCAA-AGTCA
1 AAAAT-ATAAT-TTTAGGAAGTTT-AAGGGTCA
* *
50166242 AAAATAGAATTTTTGGAA-TTTCAAGGGT-A
1 AAAATATAATTTTAGGAAGTTT-AAGGGTCA
* **
50166271 AAAATATAATTTTTGGAAGTTTCGGGGAT-A
1 AAAATATAATTTTAGGAAGTTTAAGGG-TCA
* ** **
50166301 GAAATGGAATTTTTA-GAAGTTTGGGGGT-A
1 AAAATATAA-TTTTAGGAAGTTTAAGGGTCA
* * * *
50166330 AAAATGTATTTTTTGGAAGTTTTAGGGTCA
1 AAAATATAATTTTAGGAAGTTTAAGGGTCA
** * ** **
50166360 AAAATGGAATTTT-TGAAGTTTGTGGG-GG
1 AAAATATAATTTTAGGAAGTTTAAGGGTCA
* * * * *
50166388 AAATTGTAATTTTTGGAAATTT-TGAGGTCA
1 AAAATATAATTTTAGGAAGTTTAAG-GGTCA
** * * ***
50166418 AAAATGGAATTTTTGGATGTTCGGGGGT-A
1 AAAATATAATTTTAGGAAGTTTAAGGGTCA
* * **
50166447 AAAATGTAATTTTTGGAAGTTTTGGGGTCA
1 AAAATATAATTTTAGGAAGTTTAAGGGTCA
50166477 AAAATATAATTTTAGAGAAGTTTAAGGGTC-
1 AAAATATAATTTTAG-GAAGTTTAAGGGTCA
50166507 AAAATATAATTT
1 AAAATATAATTT
50166519 CTAATTAAGG
Statistics
Matches: 221, Mismatches: 43, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
28 17 0.08
29 92 0.42
30 90 0.41
31 22 0.10
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (30 bp):
AAAATATAATTTTAGGAAGTTTAAGGGTCA
Found at i:50167598 original size:3 final size:3
Alignment explanation
Indices: 50167592--50167673 Score: 71
Period size: 3 Copynumber: 28.0 Consensus size: 3
50167582 TTAAAAAAAC
* * *
50167592 ATT ATT ATT AAT A-A ATT ATT ATT ATT ATT A-T AGTT ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * * *
50167636 ATT AAT GTC ATT A-T ATT ATT ATT ATT GTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
50167674 GATGCAATTA
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
2 5 0.08
3 55 0.89
4 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:50168451 original size:6 final size:6
Alignment explanation
Indices: 50168431--50168479 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
50168421 AAATCATTCC
* **
50168431 AAATTT AAA-TC AAATTT AAATTT AAA-AC AAATTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
50168477 AAA
1 AAA
50168480 ATCAAAAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 7 0.20
6 28 0.80
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (6 bp):
AAATTT
Found at i:50168451 original size:17 final size:17
Alignment explanation
Indices: 50168431--50168474 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
50168421 AAATCATTCC
50168431 AAATTTAAATCAAATTT
1 AAATTTAAATCAAATTT
*
50168448 AAATTTAAAACAAATTT
1 AAATTTAAATCAAATTT
50168465 AAATTTAAAT
1 AAATTTAAAT
50168475 TTAAAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTTAAATCAAATTT
Found at i:50182002 original size:72 final size:72
Alignment explanation
Indices: 50181885--50182063 Score: 277
Period size: 72 Copynumber: 2.5 Consensus size: 72
50181875 GTGAGTGAGA
*
50181885 TGCAAGAGGTTCCCCAATGATCTTGGAATTAGTCCACTCAATTGGTTCACCGACAAGTATAAATA
1 TGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCCACTCAATTGGTTCACCGACAAGTATAAATA
50181950 AGCGAGT
66 AGCGAGT
* * * *
50181957 TGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCCACTCAATTGGTTCGCTGACAAGTCTAAATG
1 TGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCCACTCAATTGGTTCACCGACAAGTATAAATA
*
50182022 AGTGAGT
66 AGCGAGT
* * *
50182029 TGCAATAGGTTTCCCAGTGATCTTGGAATTGGTCC
1 TGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCC
50182064 TGATAAGTTG
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 98 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (72 bp):
TGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCCACTCAATTGGTTCACCGACAAGTATAAATA
AGCGAGT
Found at i:50183979 original size:25 final size:25
Alignment explanation
Indices: 50183931--50184006 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
50183921 ATTTCTATAT
*
50183931 ATAATTTTATAAAATTATACAAAAA
1 ATAATTATATAAAATTATACAAAAA
* * * *
50183956 ATAATTATATATAATTGTATAAAAT
1 ATAATTATATAAAATTATACAAAAA
*
50183981 ATAAATA-ATTCAAAATATATACAAAA
1 ATAATTATA-T-AAAAT-TATACAAAA
50184007 TTTTAAAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 1 0.03
25 27 0.69
26 4 0.10
27 7 0.18
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (25 bp):
ATAATTATATAAAATTATACAAAAA
Found at i:50184637 original size:12 final size:14
Alignment explanation
Indices: 50184608--50184644 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
50184598 ATTTTAAAAA
50184608 TTAAAAAATTATTC
1 TTAAAAAATTATTC
*
50184622 TTAAAATATT-TT-
1 TTAAAAAATTATTC
50184634 TTAAAAAATTA
1 TTAAAAAATTA
50184645 ATTAATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
12 9 0.45
13 2 0.10
14 9 0.45
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAAAAAATTATTC
Found at i:50190843 original size:23 final size:23
Alignment explanation
Indices: 50190817--50190862 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
50190807 CTGACATGGC
50190817 ATCCAATCAGCAACTTCTAGAAG
1 ATCCAATCAGCAACTTCTAGAAG
* *
50190840 ATCCAATCAGTAGCTTCTAGAAG
1 ATCCAATCAGCAACTTCTAGAAG
50190863 GTCTAGTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (23 bp):
ATCCAATCAGCAACTTCTAGAAG
Found at i:50191710 original size:17 final size:17
Alignment explanation
Indices: 50191688--50191721 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50191678 AGGCTGATAC
50191688 TTAAATTGAGTTTCTTT
1 TTAAATTGAGTTTCTTT
* *
50191705 TTAAATTTATTTTCTTT
1 TTAAATTGAGTTTCTTT
50191722 AAATTCTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (17 bp):
TTAAATTGAGTTTCTTT
Found at i:50206050 original size:9 final size:9
Alignment explanation
Indices: 50206038--50206065 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
50206028 TACTTTTTTA
50206038 TTTTAATTT
1 TTTTAATTT
50206047 TTTTAATTT
1 TTTTAATTT
50206056 TTTTAATTT
1 TTTTAATTT
50206065 T
1 T
50206066 AAAAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTAATTT
Found at i:50218204 original size:29 final size:30
Alignment explanation
Indices: 50218128--50218459 Score: 105
Period size: 29 Copynumber: 11.4 Consensus size: 30
50218118 TAAAACATAA
*
50218128 TTTTGGAAAGTTTTAGGA-GTAAAAATGTCAT
1 TTTTGGAAAG-TTT-GGAGGTAAAAATGTGAT
* *
50218159 TTTAGGAAAATTT-GAGGTAAAAACT-TGAT
1 TTTTGGAAAGTTTGGAGGTAAAAA-TGTGAT
*
50218188 TTTTGG-AAGTTTGGAGGCAAAAATGTGAT
1 TTTTGGAAAGTTTGGAGGTAAAAATGTGAT
* * ** * * *
50218217 TTTT-GTACG-TTCAAGGGCAAAAATATAAT
1 TTTTGGAAAGTTTGGA-GGTAAAAATGTGAT
* * * *
50218246 TTTTGG-AAGTTT-AAGGGCAAAAGTGTAAT
1 TTTTGGAAAGTTTGGA-GGTAAAAATGTGAT
* *
50218275 TTTT-GAGAAGTTTGGGGGT-CAAATGTGAT
1 TTTTGGA-AAGTTTGGAGGTAAAAATGTGAT
* *
50218304 TTTTGGAAAG-TT--AGGTAAAAGTGT-AA
1 TTTTGGAAAGTTTGGAGGTAAAAATGTGAT
* * * *
50218330 TTTTGTG-AAGTTTGGGGGTCAAAATG-CAA
1 TTTTG-GAAAGTTTGGAGGTAAAAATGTGAT
* * *
50218359 TTATGGAAAGTTT-AACGGTAAAAATGT-AA
1 TTTTGGAAAGTTTGGA-GGTAAAAATGTGAT
* * * *
50218388 TTTTGTG-AAGATT-AAGGATTAAAATGTAAT
1 TTTTG-GAAAGTTTGGAGG-TAAAAATGTGAT
* * *
50218418 TTTAGG-AAGTTT-GAGGGTCAAAATATGAT
1 TTTTGGAAAGTTTGGA-GGTAAAAATGTGAT
*
50218447 TTTTGGATAGTTT
1 TTTTGGAAAGTTT
50218460 AGGGACCTTC
Statistics
Matches: 232, Mismatches: 43, Indels: 53
0.71 0.13 0.16
Matches are distributed among these distances:
26 12 0.05
27 8 0.03
28 18 0.08
29 156 0.67
30 30 0.13
31 8 0.03
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (30 bp):
TTTTGGAAAGTTTGGAGGTAAAAATGTGAT
Found at i:50218344 original size:55 final size:58
Alignment explanation
Indices: 50218252--50218397 Score: 183
Period size: 55 Copynumber: 2.6 Consensus size: 58
50218242 TAATTTTTGG
* * * * * *
50218252 AAGTTTAAGGGCAAAAGTGTAATTTTTGAGAAGTTTGGGGGTC-AAATGTGATTTTTGGA
1 AAGTTTAACGGTAAAAGTGTAA-TTTTGTGAAGTTTGGGGGTCAAAATG-CAATTATGGA
50218311 AAG-TT-A-GGTAAAAGTGTAATTTTGTGAAGTTTGGGGGTCAAAATGCAATTATGGA
1 AAGTTTAACGGTAAAAGTGTAATTTTGTGAAGTTTGGGGGTCAAAATGCAATTATGGA
*
50218366 AAGTTTAACGGTAAAAATGTAATTTTGTGAAG
1 AAGTTTAACGGTAAAAGTGTAATTTTGTGAAG
50218398 ATTAAGGATT
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
55 29 0.38
56 19 0.25
57 2 0.03
58 24 0.31
59 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.34
Consensus pattern (58 bp):
AAGTTTAACGGTAAAAGTGTAATTTTGTGAAGTTTGGGGGTCAAAATGCAATTATGGA
Found at i:50218354 original size:143 final size:142
Alignment explanation
Indices: 50218188--50218458 Score: 307
Period size: 143 Copynumber: 1.9 Consensus size: 142
50218178 AAAACTTGAT
** * * * * *
50218188 TTTTGGAAGTTTGGAGGCAAAAATGTGATTTTTGTACGTTCAAGGGCAAAAATATAATTTT-TGG
1 TTTTGGAAGTTTGGAGGCAAAAATGCAATTATGGAAAGTTCAACGGCAAAAATATAATTTTGT-G
* * * *
50218252 AAGTTTAAGG-GCAAAAGTGTAATTTTTGAGAAGTTTGGGGGTC-AAATGTGATTTTTGGAAAGT
65 AAGATTAAGGAGCAAAA-TGTAATTTTAG-GAAGTTTGAGGGTCAAAATATGATTTTTGGAAAGT
50218315 TAGGTAAAAGTGTAA
128 TAGGTAAAAGTGTAA
* * * *
50218330 TTTTGTGAAGTTTGGGGGTC-AAAATGCAATTATGGAAAGTTTAACGGTAAAAATGTAATTTTGT
1 TTTTG-GAAGTTTGGAGG-CAAAAATGCAATTATGGAAAGTTCAACGGCAAAAATATAATTTTGT
** *
50218394 GAAGATTAAGGATTAAAATGTAATTTTAGGAAGTTTGAGGGTCAAAATATGATTTTTGGATAGTT
64 GAAGATTAAGGAGCAAAATGTAATTTTAGGAAGTTTGAGGGTCAAAATATGATTTTTGGAAAGTT
50218459 TAGGGACCTT
Statistics
Matches: 106, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
142 18 0.17
143 82 0.77
144 6 0.06
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (142 bp):
TTTTGGAAGTTTGGAGGCAAAAATGCAATTATGGAAAGTTCAACGGCAAAAATATAATTTTGTGA
AGATTAAGGAGCAAAATGTAATTTTAGGAAGTTTGAGGGTCAAAATATGATTTTTGGAAAGTTAG
GTAAAAGTGTAA
Found at i:50218441 original size:58 final size:59
Alignment explanation
Indices: 50218236--50218440 Score: 176
Period size: 58 Copynumber: 3.6 Consensus size: 59
50218226 TTCAAGGGCA
* * * *
50218236 AAAATATAATTTTTGG-AAGTTTAAGGG-CAAAAGTGTAATTTTTGAGAAGTTTGGGGGT
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTCAAAAGTGTAA-TTTTGTGAAGTTAGGGGTT
* * * *
50218294 CAAATGTGATTTTTGGAAAG-TT-A-GGT-AAAAGTGTAATTTTGTGAAGTTTGGGGGTC
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTCAAAAGTGTAATTTTGTGAAG-TTAGGGGTT
* * * * * *
50218350 AAAATGCAA-TTATGGAAAGTTTAACGGT-AAAAATGTAATTTTGTGAAGATTAAGGATT
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTCAAAAGTGTAATTTTGTGAAG-TTAGGGGTT
* *
50218408 AAAATGTAATTTTAGG-AAGTTTGAGGGTCAAAA
1 AAAATGTAATTTTTGGAAAGTTTAAGGGTCAAAA
50218441 TATGATTTTT
Statistics
Matches: 117, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
55 18 0.15
56 26 0.22
57 2 0.02
58 60 0.51
59 11 0.09
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.35
Consensus pattern (59 bp):
AAAATGTAATTTTTGGAAAGTTTAAGGGTCAAAAGTGTAATTTTGTGAAGTTAGGGGTT
Found at i:50220417 original size:6 final size:6
Alignment explanation
Indices: 50220393--50220498 Score: 67
Period size: 6 Copynumber: 18.3 Consensus size: 6
50220383 TTCCCTAATT
* * * *
50220393 AATTTT AATTTA AA-ATA AATTTA AATTTA AATTTA AA-GTA AATTCA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * * * * * * *
50220439 AACTTA AA-ATA AGTTTA AATTTA AA-ATA AATTCA AACTTA AAATAA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
50220485 AATTAA AATTTA AA
1 AATTTA AATTTA AA
50220499 ATATGGGCTC
Statistics
Matches: 75, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
5 15 0.20
6 60 0.80
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (6 bp):
AATTTA
Found at i:50220419 original size:17 final size:17
Alignment explanation
Indices: 50220414--50220501 Score: 104
Period size: 17 Copynumber: 5.1 Consensus size: 17
50220404 AAAATAAATT
* *
50220414 TAAATTTAAATTTAAAG
1 TAAATTCAAATTTAAAA
*
50220431 TAAATTCAAACTTAAAA
1 TAAATTCAAATTTAAAA
* *
50220448 TAAGTTTAAATTTAAAA
1 TAAATTCAAATTTAAAA
*
50220465 TAAATTCAAACTTAAAA
1 TAAATTCAAATTTAAAA
*
50220482 TAAAATTAAAATTTAAAA
1 T-AAATTCAAATTTAAAA
50220500 TA
1 TA
50220502 TGGGCTCAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
17 44 0.75
18 15 0.25
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAATTCAAATTTAAAA
Found at i:50220419 original size:23 final size:23
Alignment explanation
Indices: 50220393--50220446 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
50220383 TTCCCTAATT
*
50220393 AATTTTAATTTAAAATAAATTTA
1 AATTTAAATTTAAAATAAATTTA
* *
50220416 AATTTAAATTTAAAGTAAATTCA
1 AATTTAAATTTAAAATAAATTTA
*
50220439 AACTTAAA
1 AATTTAAA
50220447 ATAAGTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
AATTTAAATTTAAAATAAATTTA
Found at i:50220461 original size:34 final size:35
Alignment explanation
Indices: 50220415--50220501 Score: 140
Period size: 34 Copynumber: 2.5 Consensus size: 35
50220405 AAATAAATTT
*
50220415 AAATTTAAATTTAAAGTAAATTCAAACTTAAAAT-
1 AAATTTAAATTTAAAATAAATTCAAACTTAAAATA
*
50220449 AAGTTTAAATTTAAAATAAATTCAAACTTAAAATA
1 AAATTTAAATTTAAAATAAATTCAAACTTAAAATA
*
50220484 AAATTAAAATTTAAAATA
1 AAATTTAAATTTAAAATA
50220502 TGGGCTCAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
34 32 0.67
35 16 0.33
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (35 bp):
AAATTTAAATTTAAAATAAATTCAAACTTAAAATA
Found at i:50221399 original size:72 final size:72
Alignment explanation
Indices: 50221307--50221459 Score: 227
Period size: 72 Copynumber: 2.1 Consensus size: 72
50221297 TTGACAATGA
* *
50221307 AATTTGTCCACTCTATTGGTTCCATGACAAGTCTAAATGAGTGAGTTGCAAGAGGCATCCCAATG
1 AATTGGTCCACTCTATTGGTTCCATGACAAGTCTAAATCAGTGAGTTGCAAGAGGCATCCCAATG
50221372 ATCTTGG
66 ATCTTGG
* * ** *
50221379 AATTGGTCCACT-TAATTGGTTCCATGACAAGTTTAAATCTGTGAGTTGCAAGAGGTTTCCCAGT
1 AATTGGTCCACTCT-ATTGGTTCCATGACAAGTCTAAATCAGTGAGTTGCAAGAGGCATCCCAAT
50221443 GATCTTGG
65 GATCTTGG
50221451 AATTGGTCC
1 AATTGGTCC
50221460 TGATAAGTTG
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
71 1 0.01
72 72 0.99
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (72 bp):
AATTGGTCCACTCTATTGGTTCCATGACAAGTCTAAATCAGTGAGTTGCAAGAGGCATCCCAATG
ATCTTGG
Found at i:50237407 original size:13 final size:13
Alignment explanation
Indices: 50237389--50237413 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50237379 TGCAAAAATC
50237389 TTAACAAAATCCA
1 TTAACAAAATCCA
50237402 TTAACAAAATCC
1 TTAACAAAATCC
50237414 GTTAGGTAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (13 bp):
TTAACAAAATCCA
Found at i:50239775 original size:21 final size:21
Alignment explanation
Indices: 50239749--50239790 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
50239739 TAGTCTTGAA
50239749 ACATTGCAGATTTTTTCAATT
1 ACATTGCAGATTTTTTCAATT
*
50239770 ACATTGCAGCTTTTTTCAATT
1 ACATTGCAGATTTTTTCAATT
50239791 TGATACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.48
Consensus pattern (21 bp):
ACATTGCAGATTTTTTCAATT
Found at i:50246072 original size:6 final size:6
Alignment explanation
Indices: 50246054--50246161 Score: 82
Period size: 6 Copynumber: 18.0 Consensus size: 6
50246044 TTAAATTGAT
* *
50246054 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA
* ** *
50246101 TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A
50246150 -TTATAA TTTAAA
1 TTTA-AA TTTAAA
50246162 AGTCCAAATA
Statistics
Matches: 83, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 53 0.64
7 14 0.17
8 4 0.05
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:50246084 original size:17 final size:15
Alignment explanation
Indices: 50246058--50246122 Score: 78
Period size: 17 Copynumber: 4.1 Consensus size: 15
50246048 ATTGATTTTA
50246058 AATTTATTTAAATTT
1 AATTTATTTAAATTT
50246073 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
*
50246090 AA-ATATTTAAATTT
1 AATTTATTTAAATTT
50246104 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
50246121 AA
1 AA
50246123 ATAAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.26
15 4 0.09
16 6 0.14
17 22 0.51
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:50246100 original size:31 final size:31
Alignment explanation
Indices: 50246062--50246125 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
50246052 ATTTTAAATT
*
50246062 TATTTAAATTTAGATTT-ATTTTAAATTTAAA
1 TATTTAAATTTA-ATTTGAATTTAAATTTAAA
50246093 TATTTAAATTTAATTTGAATTTAAATTTAAA
1 TATTTAAATTTAATTTGAATTTAAATTTAAA
50246124 TA
1 TA
50246126 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TATTTAAATTTAATTTGAATTTAAATTTAAA
Found at i:50246121 original size:42 final size:41
Alignment explanation
Indices: 50246054--50246161 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 41
50246044 TTAAATTGAT
* ** * *
50246054 TTTAAATTT-ATTTAAATTTAGATTTATTTTAAATTTAAATA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAA-A
*
50246095 TTTAAATTTAATTTGAATTTAAATTTAAATAAAAATTAAAA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
*
50246136 TATTAAATTTAACATTATAATTTAAA
1 T-TTAAATTTAA-TTTA-AATTTAAA
50246162 AGTCCAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 11 0.20
42 34 0.62
43 2 0.04
44 8 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (41 bp):
TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
Found at i:50246347 original size:15 final size:14
Alignment explanation
Indices: 50246327--50246382 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
50246317 GCCTATGCTG
50246327 CTGCCACCACCAGC
1 CTGCCACCACCAGC
50246341 TCTGCCACCACCAG-
1 -CTGCCACCACCAGC
50246355 CT-CCATCCACCATGCC
1 CTGCCA-CCACCA-G-C
50246371 CTGCCACCACCA
1 CTGCCACCACCA
50246383 TTGAACCTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 8 0.22
14 1 0.03
15 13 0.36
16 8 0.22
17 3 0.08
ACGTcount: A:0.21, C:0.55, G:0.11, T:0.12
Consensus pattern (14 bp):
CTGCCACCACCAGC
Found at i:50246926 original size:238 final size:238
Alignment explanation
Indices: 50246502--50246968 Score: 925
Period size: 238 Copynumber: 2.0 Consensus size: 238
50246492 CCTTTTTTTA
50246502 AAAAAAAAAATCAGTAGACAGACAACCCCTGATTTGAAAAATCAATATACATCCTTCAAATTCTG
1 AAAAAAAAAATCAGTAGACAGACAACCCCTGATTTGAAAAATCAATATACATCCTTCAAATTCTG
50246567 TATATAAGCAAGCAAGCAACCAACATTGGCATAGGAAAGGATTGGTCAATTGACAGCAAATAGAA
66 TATATAAGCAAGCAAGCAACCAACATTGGCATAGGAAAGGATTGGTCAATTGACAGCAAATAGAA
50246632 GCATTAAACATTGCCAGAACAAAACAGTAAATGCTTGAAAGGTATTAAATTCATGCATTAAATGT
131 GCATTAAACATTGCCAGAACAAAACAGTAAATGCTTGAAAGGTATTAAATTCATGCATTAAATGT
50246697 TGTTATATATTTATTTATTATTCGAATTCCCAAAAAAAAAAAT
196 TGTTATATATTTATTTATTATTCGAATTCCCAAAAAAAAAAAT
*
50246740 AAAAATAAAATCAGTAGACAGACAACCCCTGATTTGAAAAATCAATATACATCCTTCAAATTCTG
1 AAAAAAAAAATCAGTAGACAGACAACCCCTGATTTGAAAAATCAATATACATCCTTCAAATTCTG
50246805 TATATAAGCAAGCAAGCAACCAACATTGGCATAGGAAAGGATTGGTCAATTGACAGCAAATAGAA
66 TATATAAGCAAGCAAGCAACCAACATTGGCATAGGAAAGGATTGGTCAATTGACAGCAAATAGAA
50246870 GCATTAAACATTGCCAGAACAAAACAGTAAATGCTTGAAAGGTATTAAATTCATGCATTAAATGT
131 GCATTAAACATTGCCAGAACAAAACAGTAAATGCTTGAAAGGTATTAAATTCATGCATTAAATGT
50246935 TGTTATATATTTATTTATTATTCGAATTCCCAAA
196 TGTTATATATTTATTTATTATTCGAATTCCCAAA
50246969 CTCTCCCTCA
Statistics
Matches: 228, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
238 228 1.00
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (238 bp):
AAAAAAAAAATCAGTAGACAGACAACCCCTGATTTGAAAAATCAATATACATCCTTCAAATTCTG
TATATAAGCAAGCAAGCAACCAACATTGGCATAGGAAAGGATTGGTCAATTGACAGCAAATAGAA
GCATTAAACATTGCCAGAACAAAACAGTAAATGCTTGAAAGGTATTAAATTCATGCATTAAATGT
TGTTATATATTTATTTATTATTCGAATTCCCAAAAAAAAAAAT
Found at i:50248342 original size:30 final size:30
Alignment explanation
Indices: 50248298--50248496 Score: 272
Period size: 30 Copynumber: 6.6 Consensus size: 30
50248288 AAATTATCCA
*
50248298 AAAATTACATTTTGACCCCAAAACTTTCCC
1 AAAATTACATTTTGACCCCAAAACTTTACC
* *
50248328 AATATTATATTTTGACCCCAAAACTTTACC
1 AAAATTACATTTTGACCCCAAAACTTTACC
* * *
50248358 AAAATTACACTTTAACCCCGAAACTTTACC
1 AAAATTACATTTTGACCCCAAAACTTTACC
*
50248388 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTACC
* * *
50248418 AAAGTTACATTTTAACCCCGAAACTTTACC
1 AAAATTACATTTTGACCCCAAAACTTTACC
* * *
50248448 AAAATTACGTTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTACC
*
50248478 AAAATTACATTTTAACCCC
1 AAAATTACATTTTGACCCC
50248497 GATTTCACTG
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 144 1.00
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTACC
Found at i:50248400 original size:60 final size:60
Alignment explanation
Indices: 50248298--50248670 Score: 314
Period size: 60 Copynumber: 6.3 Consensus size: 60
50248288 AAATTATCCA
* * * * * *
50248298 AAAATTACATTTTGACCCCAAAACTTTCCCAATATTATATTTTGACCCCAAAACTTTACC
1 AAAATTACATTTTAACCCCGAAACTTTACCAAAATTACATTTTGACCCCAAAACTTTTCC
*
50248358 AAAATTACACTTTAACCCCGAAACTTTACCAAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTAACCCCGAAACTTTACCAAAATTACATTTTGACCCCAAAACTTTTCC
* * *
50248418 AAAGTTACATTTTAACCCCGAAACTTTACCAAAATTACGTTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCCGAAACTTTACCAAAATTACATTTTGACCCCAAAACTTTTCC
* * *
50248478 AAAATTACATTTTAACCCCG--A-TTTCACTGAAAATTACCATTTT-ACCCCCGAATCTTTT-C
1 AAAATTACATTTTAACCCCGAAACTTT-AC-CAAAATTA-CATTTTGA-CCCCAAAACTTTTCC
* * * *
50248537 -AAATTCCGTTTTTAACCCCG--A-TTTCACCGAAAATTACCATTTT-ACCCCCGAATCTTTT--
1 AAAATTAC-ATTTTAACCCCGAAACTTT-ACC-AAAATTA-CATTTTGA-CCCCAAAACTTTTCC
* *
50248595 AAAATTCCATTTTAACCCCG--A-TTTCACCAAAAATTACCATTTT-ACCCCCAAATCTTTT--
1 AAAATTACATTTTAACCCCGAAACTTT-ACC-AAAATTA-CATTTTGA-CCCCAAAACTTTTCC
*
50248653 AAAATTCCATTTTTAACC
1 AAAATTACA-TTTTAACC
50248671 TCGATTTCAC
Statistics
Matches: 282, Mismatches: 23, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
57 3 0.01
58 65 0.23
59 71 0.25
60 143 0.51
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.34
Consensus pattern (60 bp):
AAAATTACATTTTAACCCCGAAACTTTACCAAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:50248556 original size:59 final size:59
Alignment explanation
Indices: 50248478--50248819 Score: 494
Period size: 58 Copynumber: 5.9 Consensus size: 59
50248468 AAACTTTTCC
* *
50248478 AAAATTACA-TTTTAACCCCGATTTCACTGAAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* *
50248536 CAAATTCCGTTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* *
50248595 AAAATTCCA-TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * * *
50248653 AAAATTCCATTTTTAACCTCGATTTCACCGAAAATTACCATTTTA-CCCTGAAGCTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * * *
50248711 AAAATTTCGTTTTTAACCCCGATTTCACCAAAAATTGCCATTTTACCCCCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
* * * *
50248770 AAAATTCTATTTTTAATCCCGATTACACC-AAAATTACCATTTTGCCCCCG
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCG
50248820 GGTATCCATA
Statistics
Matches: 252, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
58 130 0.52
59 122 0.48
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
Found at i:50248628 original size:117 final size:117
Alignment explanation
Indices: 50248478--50248819 Score: 508
Period size: 117 Copynumber: 2.9 Consensus size: 117
50248468 AAACTTTTCC
* ** *
50248478 AAAATTACATTTTAACCCCGATTTCACTGAAAATTACCATTTTACCCCCGAATCTTTTCAAATTC
1 AAAATTCCATTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTC
* * *
50248543 CGTTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAATCTTTT
66 CATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAAGCTTCT
*
50248595 AAAATTCCATTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAATCTTTTAAAATTC
1 AAAATTCCATTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTC
* *
50248660 CATTTTTAACCTCGATTTCACCGAAAATTACCATTTTA-CCCTGAAGCTTCT
66 CATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAAGCTTCT
** *
50248711 AAAATTTCGTTTTTAACCCCGATTTCACCAAAAATTGCCATTTTACCCCCGAATCTTTTAAAATT
1 AAAA-TTCCATTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATT
* * * *
50248776 CTATTTTTAATCCCGATTACACC-AAAATTACCATTTTGCCCCCG
65 CCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCG
50248820 GGTATCCATA
Statistics
Matches: 203, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
116 28 0.14
117 175 0.86
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (117 bp):
AAAATTCCATTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTC
CATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAAGCTTCT
Found at i:50260859 original size:68 final size:68
Alignment explanation
Indices: 50260747--50261268 Score: 841
Period size: 68 Copynumber: 7.6 Consensus size: 68
50260737 CTGCAGGTCT
* *
50260747 CAACGTCA-TCCTCTTGAAATTGAAGTAGAGTGGATAACAGGTCTTCATCTCTAAAATTGAAGTA
1 CAACGTCATTCC-CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA
50260811 AGAG
65 AGAG
50260815 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
50260880 GAG
66 GAG
** * *
50260883 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACATATCTTTACCTCTGAAATTGAAGTAA
1 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
50260948 GAG
66 GAG
50260951 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
50261016 GAG
66 GAG
50261019 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
50261084 GAG
66 GAG
50261087 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
50261152 GAAG
66 G-AG
* * * ** * * *
50261156 CAGCGTCATCCCCTCGAAATTGAAGTAGAGTGGATAACATATCTTTACCTCTGAAATTGAAATAA
1 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
50261221 GAG
66 GAG
* * *
50261224 CAATGTCA-TCCTCTTGAAATTGAAGAAGAGTTGGATAACAAGTCT
1 CAACGTCATTCC-CTTGAAATTGAAGTAGAG-TGGATAACACGTCT
50261269 CCGAAATTGA
Statistics
Matches: 425, Mismatches: 25, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
67 2 0.00
68 348 0.82
69 75 0.18
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (68 bp):
CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
GAG
Found at i:50261665 original size:6 final size:6
Alignment explanation
Indices: 50261640--50261736 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
50261630 TTAAATTTAC
* * *
50261640 TTAAAT TTAGAT TT-ATT TTAAAT TTAAATAT TTAAAT TT-AAT TTGAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TT-AA-AT TTAAAT TTAAAT TTAAAT
** *
50261688 TTAAAT TTAAAT AAAAAT TAAAAT ATTAAAT TTAACA- TTATAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT -TTAAAT TTAA-AT TTA-AAT TTAAA
50261737 AGTCCAAATA
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 8 0.11
6 48 0.65
7 14 0.19
8 4 0.05
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:50261678 original size:31 final size:31
Alignment explanation
Indices: 50261640--50261700 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
50261630 TTAAATTTAC
*
50261640 TTAAATTTAGATTT-ATTTTAAATTTAAATAT
1 TTAAATTTA-ATTTGAATTTAAATTTAAATAT
50261671 TTAAATTTAATTTGAATTTAAATTTAAATA
1 TTAAATTTAATTTGAATTTAAATTTAAATA
50261701 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (31 bp):
TTAAATTTAATTTGAATTTAAATTTAAATAT
Found at i:50261691 original size:11 final size:11
Alignment explanation
Indices: 50261619--50261736 Score: 57
Period size: 11 Copynumber: 10.5 Consensus size: 11
50261609 GACTTTTGAG
* *
50261619 TTAAATTGATT
1 TTAAATTTAAT
*
50261630 TTAAATTT-AC
1 TTAAATTTAAT
50261640 TTAAATTTAGAT
1 TTAAATTTA-AT
*
50261652 TT-ATTTTAAAT
1 TTAAATTT-AAT
50261663 TTAAA--T-AT
1 TTAAATTTAAT
50261671 TTAAATTTAAT
1 TTAAATTTAAT
*
50261682 TTGAATTTAAAT
1 TTAAATTT-AAT
**
50261694 TTAAATAAAAAT
1 TTAAAT-TTAAT
*
50261706 TAAAATATTAAAT
1 TTAAAT-TT-AAT
50261719 TTAACATTATAAT
1 TTAA-ATT-TAAT
50261732 TTAAA
1 TTAAA
50261737 AGTCCAAATA
Statistics
Matches: 81, Mismatches: 14, Indels: 23
0.69 0.12 0.19
Matches are distributed among these distances:
8 7 0.09
10 10 0.12
11 24 0.30
12 23 0.28
13 14 0.17
14 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:50261696 original size:42 final size:41
Alignment explanation
Indices: 50261629--50261736 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 41
50261619 TTAAATTGAT
* ** * *
50261629 TTTAAATTT-ACTTAAATTTAGATTTATTTTAAATTTAAATA
1 TTTAAATTTAACTTAAATTTAAATTTAAATAAAAATTAAA-A
* *
50261670 TTTAAATTTAATTTGAATTTAAATTTAAATAAAAATTAAAA
1 TTTAAATTTAACTTAAATTTAAATTTAAATAAAAATTAAAA
50261711 TATTAAATTTAACATTATAATTTAAA
1 T-TTAAATTTAAC-TTA-AATTTAAA
50261737 AGTCCAAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
41 11 0.20
42 33 0.61
43 2 0.04
44 8 0.15
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (41 bp):
TTTAAATTTAACTTAAATTTAAATTTAAATAAAAATTAAAA
Found at i:50261697 original size:17 final size:16
Alignment explanation
Indices: 50261640--50261697 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
50261630 TTAAATTTAC
*
50261640 TTAAATTTAGATTTATT
1 TTAAATTTA-ATTTAAT
*
50261657 TTAAATTTAA-AT-AT
1 TTAAATTTAATTTAAT
50261671 TTAAATTTAATTTGAAT
1 TTAAATTTAATTT-AAT
50261688 TTAAATTTAA
1 TTAAATTTAA
50261698 ATAAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 11 0.31
15 2 0.06
16 1 0.03
17 21 0.60
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAATTTAATTTAAT
Found at i:50261922 original size:15 final size:14
Alignment explanation
Indices: 50261902--50261957 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
50261892 GCCTATGCTG
50261902 CTGCCACCACCAGC
1 CTGCCACCACCAGC
50261916 TCTGCCACCACCAG-
1 -CTGCCACCACCAGC
50261930 CT-CCATCCACCATGCC
1 CTGCCA-CCACCA-G-C
50261946 CTGCCACCACCA
1 CTGCCACCACCA
50261958 TTGAACCTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 8 0.22
14 1 0.03
15 13 0.36
16 8 0.22
17 3 0.08
ACGTcount: A:0.21, C:0.55, G:0.11, T:0.12
Consensus pattern (14 bp):
CTGCCACCACCAGC
Found at i:50262488 original size:235 final size:235
Alignment explanation
Indices: 50262077--50262540 Score: 928
Period size: 235 Copynumber: 2.0 Consensus size: 235
50262067 CCTTTTTTTT
50262077 AAAAAAAAAATCAGTAGACAGACAACCCCTGATTTGAAAAATCAATATACATCCTTCAAATTCTG
1 AAAAAAAAAATCAGTAGACAGACAACCCCTGATTTGAAAAATCAATATACATCCTTCAAATTCTG
50262142 TATATAAGCAAGCAAGCAACCAACATTGGCATAGGAAAGGATTGGTCAATTGACAGCAAATAGAA
66 TATATAAGCAAGCAAGCAACCAACATTGGCATAGGAAAGGATTGGTCAATTGACAGCAAATAGAA
50262207 GCATTAAACATTGCCAGAACAAAACAGTAAATGCTTGAAAGGTATTAAATTCATGCATTAAATGT
131 GCATTAAACATTGCCAGAACAAAACAGTAAATGCTTGAAAGGTATTAAATTCATGCATTAAATGT
50262272 TGTTATATATTTATTTATTATTCGAATTCCCAAAAAAAAA
196 TGTTATATATTTATTTATTATTCGAATTCCCAAAAAAAAA
50262312 AAAAAAAAAATCAGTAGACAGACAACCCCTGATTTGAAAAATCAATATACATCCTTCAAATTCTG
1 AAAAAAAAAATCAGTAGACAGACAACCCCTGATTTGAAAAATCAATATACATCCTTCAAATTCTG
50262377 TATATAAGCAAGCAAGCAACCAACATTGGCATAGGAAAGGATTGGTCAATTGACAGCAAATAGAA
66 TATATAAGCAAGCAAGCAACCAACATTGGCATAGGAAAGGATTGGTCAATTGACAGCAAATAGAA
50262442 GCATTAAACATTGCCAGAACAAAACAGTAAATGCTTGAAAGGTATTAAATTCATGCATTAAATGT
131 GCATTAAACATTGCCAGAACAAAACAGTAAATGCTTGAAAGGTATTAAATTCATGCATTAAATGT
50262507 TGTTATATATTTATTTATTATTCGAATTCCCAAA
196 TGTTATATATTTATTTATTATTCGAATTCCCAAA
50262541 CTCTCCCTCA
Statistics
Matches: 229, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
235 229 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.27
Consensus pattern (235 bp):
AAAAAAAAAATCAGTAGACAGACAACCCCTGATTTGAAAAATCAATATACATCCTTCAAATTCTG
TATATAAGCAAGCAAGCAACCAACATTGGCATAGGAAAGGATTGGTCAATTGACAGCAAATAGAA
GCATTAAACATTGCCAGAACAAAACAGTAAATGCTTGAAAGGTATTAAATTCATGCATTAAATGT
TGTTATATATTTATTTATTATTCGAATTCCCAAAAAAAAA
Found at i:50263919 original size:30 final size:30
Alignment explanation
Indices: 50263876--50264097 Score: 318
Period size: 30 Copynumber: 7.4 Consensus size: 30
50263866 AATTATCCAG
* *
50263876 AAATTACATTTTGACCCTAAAACTTTCCCA
1 AAATTACATTTTGACCCCAAAACTTTACCA
* * *
50263906 ATATTATATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTACCA
50263936 AAATTACATTTTGACCCCAAAACTTTACCA
1 AAATTACATTTTGACCCCAAAACTTTACCA
* * **
50263966 AAATTACACTTTAACCCTGAAACTTTACCA
1 AAATTACATTTTGACCCCAAAACTTTACCA
*
50263996 AAATTACATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTACCA
* *
50264026 AAGTTACATTTTAACCCCAAAACTTTACCA
1 AAATTACATTTTGACCCCAAAACTTTACCA
* *
50264056 AAATTACGTTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTACCA
50264086 AAATTACATTTT
1 AAATTACATTTT
50264098 TAACCCCGAT
Statistics
Matches: 168, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 168 1.00
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTACCA
Found at i:50264157 original size:59 final size:58
Alignment explanation
Indices: 50264085--50264427 Score: 490
Period size: 59 Copynumber: 5.8 Consensus size: 58
50264075 AAACTTTTCC
* *
50264085 AAAATTACATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCC-CGAATCTTTT
* *
50264144 AAAATTCCGTTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCTAAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCC-GAATCTTTT
* * *
50264203 AAAATTCCATTTTTAACCCTGATTTCATCGAAAATTACCATTTTACCCCTAAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCC-GAATCTTTT
* *
50264262 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTA-CCCCGAATCTTTT
* * *
50264321 AAAATTTCGTTTTTAACTCCGATTTCACCGAAAATTACCATTTTACCCTCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCC-CGAATCTTTT
* * * *
50264380 AAAATTCCATTTTTAATCTCGATTACACC-AAAATTACCATTTTGCCCC
1 AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCC
50264428 CGGGTATCCA
Statistics
Matches: 257, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
57 1 0.00
58 21 0.08
59 231 0.90
60 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.37
Consensus pattern (58 bp):
AAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCCGAATCTTTT
Found at i:50264285 original size:177 final size:176
Alignment explanation
Indices: 50264052--50264427 Score: 544
Period size: 177 Copynumber: 2.1 Consensus size: 176
50264042 CCAAAACTTT
*
50264052 ACCAAAATTA-CGTTTTGACCCCAAAACTTTTCCAAAATTACATTTTTAACCCCGATTTCACCAA
1 ACCAAAATTACCATTTT-ACCCCAAAACTTTT-CAAAATTACATTTTTAACCCCGATTTCACCAA
* * *
50264116 AAATTACCATTTTACCCTCGAATCTTTTAAAATTCCGTTTTTAACCCCGATTTCACCGAAAATTA
64 AAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCGATTTCACCGAAAATTA
*
50264181 CCATTTTACCC-CTAAATCTTTTAAAATTCCATTTTTAACC-CTGATTTC
129 CCATTTTACCCTC-AAATCTTTTAAAATTCCATTTTTAACCTC-GATTAC
* * * *
50264229 ATCGAAAATTACCATTTTACCCCTAAATCTTTT-AAAATTCCATTTTTAACCCCGATTTCACCGA
1 A-CCAAAATTACCATTTTACCCC-AAAACTTTTCAAAATTACATTTTTAACCCCGATTTCACCAA
* *
50264293 AAATTACCATTTTACCCCCGAAGCTTCTAAAATTTCGTTTTTAACTCCGATTTCACCGAAAATTA
64 AAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCGATTTCACCGAAAATTA
* *
50264358 CCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAATCTCGATTAC
129 CCATTTTACCCTCAAATCTTTTAAAATTCCATTTTTAACCTCGATTAC
*
50264406 ACCAAAATTACCATTTTGCCCC
1 ACCAAAATTACCATTTTACCCC
50264428 CGGGTATCCA
Statistics
Matches: 179, Mismatches: 15, Indels: 11
0.87 0.07 0.05
Matches are distributed among these distances:
176 19 0.11
177 132 0.74
178 15 0.08
179 13 0.07
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (176 bp):
ACCAAAATTACCATTTTACCCCAAAACTTTTCAAAATTACATTTTTAACCCCGATTTCACCAAAA
ATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCGATTTCACCGAAAATTACC
ATTTTACCCTCAAATCTTTTAAAATTCCATTTTTAACCTCGATTAC
Found at i:50268989 original size:29 final size:29
Alignment explanation
Indices: 50268904--50268992 Score: 90
Period size: 31 Copynumber: 3.0 Consensus size: 29
50268894 GATTAAATCA
* *
50268904 AAATTAAAGTTTTAAGTATACATTTGCACC
1 AAATTAAAGTTTT-AGTATACAATTACACC
* * *
50268934 ACAATTAGAGTTTTACGTGTATAATTACACC
1 A-AATTAAAGTTTTA-GTATACAATTACACC
50268965 AAATTAAAGTTCTTA-TATACAATTACAC
1 AAATTAAAGTT-TTAGTATACAATTACAC
50268993 ATTAAATCAA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
29 11 0.23
30 11 0.23
31 26 0.54
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (29 bp):
AAATTAAAGTTTTAGTATACAATTACACC
Found at i:50271664 original size:21 final size:21
Alignment explanation
Indices: 50271615--50271657 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
50271605 AAAAAAATTT
* *
50271615 ATGTTTTGTTGTTGTTTTTTC
1 ATGTTTTGTTGTTGCTTTCTC
*
50271636 ATGATTTGTTGTTGCTTTCTC
1 ATGTTTTGTTGTTGCTTTCTC
50271657 A
1 A
50271658 CTTTTTGCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.09, G:0.19, T:0.63
Consensus pattern (21 bp):
ATGTTTTGTTGTTGCTTTCTC
Found at i:50271739 original size:19 final size:19
Alignment explanation
Indices: 50271712--50271751 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
50271702 AATGTTTGAA
50271712 TATTATATAACACTTATTT
1 TATTATATAACACTTATTT
* *
50271731 TATTGTATAACATTTATTT
1 TATTATATAACACTTATTT
50271750 TA
1 TA
50271752 ATATTTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (19 bp):
TATTATATAACACTTATTT
Found at i:50273288 original size:81 final size:81
Alignment explanation
Indices: 50273152--50273309 Score: 280
Period size: 81 Copynumber: 2.0 Consensus size: 81
50273142 AATAAAACTA
* * * *
50273152 TTAAAGTATGACCGTAACTAATGTTAGGAACTAAGATTTCATTGGTTTAATTGCACTCACTAAAC
1 TTAAAGTATGACCATAACTAATGTTAGGAACTAAGATATCATTGGTTCAAATGCACTCACTAAAC
50273217 TACCAATTAGGTAGTT
66 TACCAATTAGGTAGTT
50273233 TTAAAGTATGACCATAACTAATGTTAGGAACTAAGATATCATTGGTTCAAATGCACTCACTAAAC
1 TTAAAGTATGACCATAACTAATGTTAGGAACTAAGATATCATTGGTTCAAATGCACTCACTAAAC
50273298 TACCAATTAGGT
66 TACCAATTAGGT
50273310 TCAAGTTATA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (81 bp):
TTAAAGTATGACCATAACTAATGTTAGGAACTAAGATATCATTGGTTCAAATGCACTCACTAAAC
TACCAATTAGGTAGTT
Found at i:50274035 original size:80 final size:79
Alignment explanation
Indices: 50273888--50274040 Score: 211
Period size: 80 Copynumber: 1.9 Consensus size: 79
50273878 GACCAATTCC
* * *
50273888 GTCAATTCATGACACCCAGTACCTAGCAGATAACCGCGATAAGTGAACCCAGCTCTAGTTGAATT
1 GTCAATTCATGACACCCAGTACCTAGCAAATAACCACAATAAGTGAACCCAGCTCTAGTTGAATT
50273953 AACCAACGAAATCT
66 AACCAACGAAATCT
* * *
50273967 GTCAATTCATGGCACCCAGTGCCTAGCAAATAAACTACAATAAGTGAGA-CCAGCTCTAGTT-AG
1 GTCAATTCATGACACCCAGTACCTAGCAAAT-AACCACAATAAGTGA-ACCCAGCTCTAGTTGA-
50274030 ATTAACCAACG
63 ATTAACCAACG
50274041 GTTTTGCGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
79 29 0.45
80 35 0.54
81 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (79 bp):
GTCAATTCATGACACCCAGTACCTAGCAAATAACCACAATAAGTGAACCCAGCTCTAGTTGAATT
AACCAACGAAATCT
Found at i:50278948 original size:49 final size:49
Alignment explanation
Indices: 50278876--50278974 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
50278866 GGTCCATCTA
50278876 TAATCACATTAATTTGGTATTCCATTTATATTAGCAAATAGTTAAGTTT
1 TAATCACATTAATTTGGTATTCCATTTATATTAGCAAATAGTTAAGTTT
50278925 TAATCACATTAATTTGGTATTCCATTTATATTAGCAAATAGTTAAGTTT
1 TAATCACATTAATTTGGTATTCCATTTATATTAGCAAATAGTTAAGTTT
50278974 T
1 T
50278975 GTCGTATTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (49 bp):
TAATCACATTAATTTGGTATTCCATTTATATTAGCAAATAGTTAAGTTT
Found at i:50280604 original size:9 final size:9
Alignment explanation
Indices: 50280587--50280654 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 9
50280577 TTTATTAATT
50280587 TTATT-AAA
1 TTATTAAAA
*
50280595 TTTTTAAAA
1 TTATTAAAA
* *
50280604 TCAATAAAA
1 TTATTAAAA
50280613 TTATTAAAA
1 TTATTAAAA
50280622 TTATTACAAA
1 TTATTA-AAA
* *
50280632 ATA-TAAAT
1 TTATTAAAA
*
50280640 TTATAAAAA
1 TTATTAAAA
50280649 TATATT
1 T-TATT
50280655 TTTTTTTTAA
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
8 8 0.18
9 28 0.64
10 8 0.18
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (9 bp):
TTATTAAAA
Found at i:50283465 original size:20 final size:19
Alignment explanation
Indices: 50283442--50283482 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
50283432 TTTAAAAATT
50283442 AAAA-ACTAAATTTAATTAAA
1 AAAAGACTAAA-TTAA-TAAA
50283462 AAAAGACTAAATTAATAAA
1 AAAAGACTAAATTAATAAA
50283481 AA
1 AA
50283483 TATAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 8 0.40
21 6 0.30
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAGACTAAATTAATAAA
Found at i:50284233 original size:24 final size:24
Alignment explanation
Indices: 50284174--50284234 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
50284164 GACTAATACA
* * *
50284174 AGTTTGACTCAAATAAATAAACAG
1 AGTTTAACTGAAACAAATAAACAG
* *
50284198 AGTTTAATTGAAACAAATAAATAG
1 AGTTTAACTGAAACAAATAAACAG
50284222 AGTTTAACTGAAA
1 AGTTTAACTGAAA
50284235 AATTATTTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (24 bp):
AGTTTAACTGAAACAAATAAACAG
Found at i:50286613 original size:18 final size:18
Alignment explanation
Indices: 50286571--50286614 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
50286561 CGGTTGCAAC
*
50286571 GGCGGTGGAGGTGGAGGT
1 GGCGGTGGAGGCGGAGGT
*
50286589 GGAGGTGGAGGCGGCA-GT
1 GGCGGTGGAGGCGG-AGGT
50286607 GGCGGTGG
1 GGCGGTGG
50286615 CGGTGGTGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.11, C:0.09, G:0.66, T:0.14
Consensus pattern (18 bp):
GGCGGTGGAGGCGGAGGT
Found at i:50286619 original size:6 final size:6
Alignment explanation
Indices: 50286574--50286599 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
50286564 TTGCAACGGC
50286574 GGTGGA GGTGGA GGTGGA GGTGGA GG
1 GGTGGA GGTGGA GGTGGA GGTGGA GG
50286600 CGGCAGTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.69, T:0.15
Consensus pattern (6 bp):
GGTGGA
Found at i:50287952 original size:15 final size:16
Alignment explanation
Indices: 50287928--50287981 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
50287918 TTTTCTATTT
50287928 TTTAATTTTTAATAAA
1 TTTAATTTTTAATAAA
*
50287944 TTTAA-TTTTCATAAA
1 TTTAATTTTTAATAAA
50287959 TTTGAAATTTTTAA-AAA
1 TTT--AATTTTTAATAAA
50287976 -TTAATT
1 TTTAATT
50287982 ATATTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 4 0.12
15 12 0.36
16 7 0.21
17 5 0.15
18 5 0.15
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTTAATTTTTAATAAA
Found at i:50289973 original size:2 final size:2
Alignment explanation
Indices: 50289966--50290003 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
50289956 TTATTCTTTT
50289966 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
50290004 ATTTTGTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:50295378 original size:2 final size:2
Alignment explanation
Indices: 50295371--50295402 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50295361 GCAAACAAAC
50295371 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
50295403 TTAATATACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50299540 original size:50 final size:50
Alignment explanation
Indices: 50299479--50299578 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
50299469 AAGGTATCGA
50299479 TACCTTCTGACTTAGTTTCATACTTTGCTTAGCTTAAGGAGCTGCAACTC
1 TACCTTCTGACTTAGTTTCATACTTTGCTTAGCTTAAGGAGCTGCAACTC
*
50299529 TACCTTTTGACTTAGTTTCATACTTTGCTTAGCTTAAGGAGCTGCAACTC
1 TACCTTCTGACTTAGTTTCATACTTTGCTTAGCTTAAGGAGCTGCAACTC
50299579 GAGTTTTTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (50 bp):
TACCTTCTGACTTAGTTTCATACTTTGCTTAGCTTAAGGAGCTGCAACTC
Found at i:50302394 original size:19 final size:19
Alignment explanation
Indices: 50302352--50302394 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
50302342 GTGACAATTT
50302352 ATTTTTAGAATAAATTATA
1 ATTTTTAGAATAAATTATA
* *
50302371 GTTTTTGGAA-AAATTCATA
1 ATTTTTAGAATAAATT-ATA
50302390 ATTTT
1 ATTTT
50302395 CGTTCTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (19 bp):
ATTTTTAGAATAAATTATA
Found at i:50305654 original size:24 final size:24
Alignment explanation
Indices: 50305596--50305670 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
50305586 GAAAGTGGAT
*
50305596 GAGTTGAAAGAAGAAGATGAAGAA
1 GAGTCGAAAGAAGAAGATGAAGAA
* *
50305620 GAG-CAGGAAG-AGAAAGCTGAAGAA
1 GAGTC-GAAAGAAG-AAGATGAAGAA
* *
50305644 GAGTCGAAAGAAGAAGAAGATGAA
1 GAGTCGAAAGAAGAAGATGAAGAA
50305668 GAG
1 GAG
50305671 GAGCATGAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
23 2 0.05
24 35 0.88
25 3 0.08
ACGTcount: A:0.52, C:0.04, G:0.36, T:0.08
Consensus pattern (24 bp):
GAGTCGAAAGAAGAAGATGAAGAA
Found at i:50305680 original size:24 final size:23
Alignment explanation
Indices: 50305607--50305685 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 23
50305597 AGTTGAAAGA
*
50305607 AGAAGATGAAGAAGAGCAGGAAG
1 AGAAGATGAAGAAGAGCAAGAAG
*
50305630 AGAAAGCTGAAGAAGAGTCGAAAGAAG
1 AG-AAGATGAAGAAGAG-C--AAGAAG
* *
50305657 AAGAAGATGAAGAGGAGCATGAAG
1 -AGAAGATGAAGAAGAGCAAGAAG
50305681 AGAAG
1 AGAAG
50305686 GACGGAGATG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
23 7 0.15
24 18 0.39
25 1 0.02
26 1 0.02
27 17 0.37
28 2 0.04
ACGTcount: A:0.52, C:0.05, G:0.37, T:0.06
Consensus pattern (23 bp):
AGAAGATGAAGAAGAGCAAGAAG
Found at i:50306033 original size:32 final size:31
Alignment explanation
Indices: 50305969--50306026 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
50305959 TGGTTATATA
*
50305969 TTTTTTGACAAGTTTGATGTTTATATCTATT
1 TTTTTTGACAAGTTTAATGTTTATATCTATT
*
50306000 TTTTTTGACAAG-TTAATGTTTAGATCT
1 TTTTTTGACAAGTTTAATGTTTATATCT
50306027 CTATTTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (31 bp):
TTTTTTGACAAGTTTAATGTTTATATCTATT
Found at i:50308229 original size:3 final size:3
Alignment explanation
Indices: 50308221--50308288 Score: 52
Period size: 3 Copynumber: 22.7 Consensus size: 3
50308211 GGATGAGTCT
* *
50308221 GAA GAA GAA GAA GAG GAG GAA GAA GAA GAA -AA GGAA GAA GAA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA
* *
50308265 GGAA GAG GAA -CA GAA TGAA GAA GA
1 -GAA GAA GAA GAA GAA -GAA GAA GA
50308289 GAAAAATGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
2 5 0.09
3 41 0.77
4 7 0.13
ACGTcount: A:0.60, C:0.01, G:0.37, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:50308244 original size:15 final size:15
Alignment explanation
Indices: 50308224--50308267 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
50308214 TGAGTCTGAA
50308224 GAAGAAGAAGAGGAG
1 GAAGAAGAAGAGGAG
**
50308239 GAAGAAGAAGAAAAG
1 GAAGAAGAAGAGGAG
*
50308254 GAAGAAGAAAAGGA
1 GAAGAAGAAGAGGA
50308268 AGAGGAACAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (15 bp):
GAAGAAGAAGAGGAG
Found at i:50308244 original size:18 final size:18
Alignment explanation
Indices: 50308221--50308289 Score: 79
Period size: 18 Copynumber: 3.8 Consensus size: 18
50308211 GGATGAGTCT
*
50308221 GAAGAAGAAGAAGAGGAG
1 GAAGAAGAAGAAGAGGAA
*
50308239 GAAGAAGAAGAAAAGGAA
1 GAAGAAGAAGAAGAGGAA
50308257 GAAGAA-AAGGAAGAGGAA
1 GAAGAAGAA-GAAGAGGAA
*
50308275 -CAGAATGAAGAAGAG
1 GAAGAA-GAAGAAGAG
50308290 AAAAATGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.14
18 36 0.82
19 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.38, T:0.01
Consensus pattern (18 bp):
GAAGAAGAAGAAGAGGAA
Found at i:50308257 original size:12 final size:12
Alignment explanation
Indices: 50308242--50308270 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
50308232 AGAGGAGGAA
50308242 GAAGAAGAAAAG
1 GAAGAAGAAAAG
50308254 GAAGAAGAAAAG
1 GAAGAAGAAAAG
50308266 GAAGA
1 GAAGA
50308271 GGAACAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAG
Found at i:50308257 original size:27 final size:27
Alignment explanation
Indices: 50308227--50308291 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
50308217 GTCTGAAGAA
* *
50308227 GAAGAAGAGGAGGAAGAAGAAGAAAAG
1 GAAGAAGAGAAGGAAGAAGAACAAAAG
* * * *
50308254 GAAGAAGAAAAGGAAGAGGAACAGAAT
1 GAAGAAGAGAAGGAAGAAGAACAAAAG
50308281 GAAGAAGAGAA
1 GAAGAAGAGAA
50308292 AAATGAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.60, C:0.02, G:0.37, T:0.02
Consensus pattern (27 bp):
GAAGAAGAGAAGGAAGAAGAACAAAAG
Found at i:50311316 original size:22 final size:21
Alignment explanation
Indices: 50311264--50311320 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
50311254 AACCGTTTTA
*
50311264 TTATAATAATTATTAAGATAT
1 TTATAACAATTATTAAGATAT
*
50311285 TTA-AACAATTAATTTAATATAT
1 TTATAACAATT-A-TTAAGATAT
50311307 TTATAA-AATT-TTAA
1 TTATAACAATTATTAA
50311321 TATCAATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 4 0.13
20 6 0.19
21 4 0.13
22 15 0.48
23 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
TTATAACAATTATTAAGATAT
Found at i:50318733 original size:15 final size:15
Alignment explanation
Indices: 50318709--50318741 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
50318699 TTGGCTTGCC
50318709 TTTTCTTTTTTT-TT
1 TTTTCTTTTTTTCTT
*
50318723 TTTTCCTTTTTTCTT
1 TTTTCTTTTTTTCTT
50318738 TTTT
1 TTTT
50318742 GGTTTTAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTCTTTTTTTCTT
Found at i:50326633 original size:3 final size:3
Alignment explanation
Indices: 50326625--50326653 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50326615 ATTATACCAA
50326625 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50326654 CATTCCTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:50326732 original size:17 final size:17
Alignment explanation
Indices: 50326710--50326764 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
50326700 TCTTTGAAAT
50326710 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
50326727 ATTTTAATAATTTA-AT-A
1 ATTTT-AT-ATTTATATAA
*
50326744 A-TTTATATTAAT-TAA
1 ATTTTATATTTATATAA
50326759 ATTTTA
1 ATTTTA
50326765 AAATACTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
14 5 0.16
15 4 0.12
16 7 0.22
17 7 0.22
18 4 0.12
19 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:50330264 original size:32 final size:33
Alignment explanation
Indices: 50330213--50330279 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
50330203 TTTAAAATTC
* * *
50330213 AAAAAGTACAAGGAGTAAAATTGA-CCAATTAA
1 AAAAAGTACAAGAACTAAAATTGATCAAATTAA
*
50330245 AAAAAGTATAAGAACTAAAATTGATCAAATTAA
1 AAAAAGTACAAGAACTAAAATTGATCAAATTAA
50330278 AA
1 AA
50330280 TTGATCAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 21 0.70
33 9 0.30
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (33 bp):
AAAAAGTACAAGAACTAAAATTGATCAAATTAA
Found at i:50330999 original size:4 final size:4
Alignment explanation
Indices: 50330965--50331018 Score: 56
Period size: 4 Copynumber: 13.5 Consensus size: 4
50330955 GCATACATGC
* * * *
50330965 ATAT ACAT ATA- AGTAT ATGT ATGT ATGT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT A-TAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
50331013 ATAT AT
1 ATAT AT
50331019 GATAATGACT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 1 0.02
4 42 0.95
5 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (4 bp):
ATAT
Found at i:50331001 original size:6 final size:6
Alignment explanation
Indices: 50330965--50331018 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
50330955 GCATACATGC
* * * *
50330965 ATATAC ATATA- AGTATAT GTATGT ATGTAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT A-TATAT ATATAT ATATAT ATATAT ATATAT ATATAT
50331013 ATATAT
1 ATATAT
50331019 GATAATGACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 1 0.03
6 39 0.98
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (6 bp):
ATATAT
Found at i:50332536 original size:22 final size:22
Alignment explanation
Indices: 50332508--50332549 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50332498 AATCTTATAA
50332508 TTTTATTTTTAAAATTTTAATT
1 TTTTATTTTTAAAATTTTAATT
* *
50332530 TTTTATTTTTCAGATTTTAA
1 TTTTATTTTTAAAATTTTAA
50332550 AATTAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTAAAATTTTAATT
Found at i:50335835 original size:30 final size:30
Alignment explanation
Indices: 50335801--50335881 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
50335791 TGAGGAGTGG
*
50335801 ATTCCTCCACCACCTCCTGATACTGAACAA
1 ATTCCTCCACCACCTCCTGATAATGAACAA
* *
50335831 ATTCCACCACCTCCTCCTGATAATGAACAA
1 ATTCCTCCACCACCTCCTGATAATGAACAA
* *
50335861 GTTCCTGCC-CCACCACCTGAT
1 ATTCCT-CCACCACCTCCTGAT
50335882 GAGCCTCCTG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 41 0.95
31 2 0.05
ACGTcount: A:0.27, C:0.41, G:0.09, T:0.23
Consensus pattern (30 bp):
ATTCCTCCACCACCTCCTGATAATGAACAA
Found at i:50336439 original size:9 final size:9
Alignment explanation
Indices: 50336425--50336450 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
50336415 TTCTGCTGCC
50336425 GCCGCCGCT
1 GCCGCCGCT
50336434 GCCGCCGCT
1 GCCGCCGCT
50336443 GCCGCCGC
1 GCCGCCGC
50336451 AGCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.58, G:0.35, T:0.08
Consensus pattern (9 bp):
GCCGCCGCT
Found at i:50345025 original size:16 final size:16
Alignment explanation
Indices: 50344983--50345025 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
50344973 GTTACCAAAG
50344983 CCTAAAATGATCTAAA
1 CCTAAAATGATCTAAA
* *
50344999 CCCAAAGTGAT-TAGAA
1 CCTAAAATGATCTA-AA
50345015 CCTAAAATGAT
1 CCTAAAATGAT
50345026 GACATGACCC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.23
Consensus pattern (16 bp):
CCTAAAATGATCTAAA
Found at i:50347985 original size:15 final size:15
Alignment explanation
Indices: 50347965--50347994 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50347955 GGATTTAAAT
50347965 TGAAGAAAACAAGCA
1 TGAAGAAAACAAGCA
50347980 TGAAGAAAACAAGCA
1 TGAAGAAAACAAGCA
50347995 ATTTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.20, T:0.07
Consensus pattern (15 bp):
TGAAGAAAACAAGCA
Found at i:50355142 original size:2 final size:2
Alignment explanation
Indices: 50355135--50355185 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
50355125 AAAATGTCTT
50355135 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50355177 TA TA TA TA T
1 TA TA TA TA T
50355186 TATGTAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50360976 original size:17 final size:17
Alignment explanation
Indices: 50360918--50360980 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 17
50360908 CAAGATAAAC
50360918 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
*
50360935 ATTAAGA-TAATCACTTTAGT
1 ATTAA-ATTAA--A-TTTAAT
*
50360955 ATTAAATTAAATATAAT
1 ATTAAATTAAATTTAAT
50360972 ATTAAATTA
1 ATTAAATTA
50360981 TTAAAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
17 21 0.55
18 2 0.05
19 2 0.05
20 13 0.34
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (17 bp):
ATTAAATTAAATTTAAT
Found at i:50362817 original size:38 final size:38
Alignment explanation
Indices: 50362756--50362895 Score: 154
Period size: 38 Copynumber: 3.7 Consensus size: 38
50362746 TAGCCTACAA
*
50362756 GATAAACACCGGCACGAAACCTGCTAGGCACTAAGCCC
1 GATAAACACCGGCACGAAGCCTGCTAGGCACTAAGCCC
* * * *
50362794 GATATACACCGGCACGAAGCCTGCTAGACACTAGGCCT
1 GATAAACACCGGCACGAAGCCTGCTAGGCACTAAGCCC
* * * **
50362832 GATAAACACCAGCATGAAGCCTGCTAAGCGTTAAGCCC
1 GATAAACACCGGCACGAAGCCTGCTAGGCACTAAGCCC
* * **
50362870 AATATACAGTGGCACGAAGCCTGCTA
1 GATAAACACCGGCACGAAGCCTGCTA
50362896 TTCAGGTACA
Statistics
Matches: 82, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 82 1.00
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.15
Consensus pattern (38 bp):
GATAAACACCGGCACGAAGCCTGCTAGGCACTAAGCCC
Found at i:50363381 original size:16 final size:16
Alignment explanation
Indices: 50363360--50363392 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50363350 AATCCTTATA
50363360 ATTTTA-TCACTTTAAC
1 ATTTTAGTC-CTTTAAC
50363376 ATTTTAGTCCTTTAAC
1 ATTTTAGTCCTTTAAC
50363392 A
1 A
50363393 CCAAAATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTTTAGTCCTTTAAC
Found at i:50379864 original size:5 final size:5
Alignment explanation
Indices: 50379854--50379879 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
50379844 AACTTTTTTC
50379854 TTCTT TTCTT TTCTT TTCTT TTCTT T
1 TTCTT TTCTT TTCTT TTCTT TTCTT T
50379880 AAACAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:50381963 original size:29 final size:29
Alignment explanation
Indices: 50381908--50381969 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
50381898 ATCTTAAAAT
*
50381908 TATATATAAAATTTAATTTAATATAATTG
1 TATATATAAAATTTAATTTAATATAATTA
* * *
50381937 TATATATAAATTTTAATTTAGTGTAATTA
1 TATATATAAAATTTAATTTAATATAATTA
50381966 TATA
1 TATA
50381970 CGTCAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (29 bp):
TATATATAAAATTTAATTTAATATAATTA
Found at i:50391567 original size:7 final size:7
Alignment explanation
Indices: 50391555--50391581 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
50391545 AATGCTCTTG
50391555 ATTTAAT
1 ATTTAAT
50391562 ATTTAAT
1 ATTTAAT
50391569 ATTTAAT
1 ATTTAAT
50391576 ATTTAA
1 ATTTAA
50391582 AACTCCTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTTAAT
Found at i:50396249 original size:19 final size:21
Alignment explanation
Indices: 50396206--50396257 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
50396196 TAATGTTGAA
50396206 TTTTAGAATTTT-TGTTTATAT
1 TTTTA-AATTTTATGTTTATAT
50396227 TTTTAAATTTTAT-TTTAT-T
1 TTTTAAATTTTATGTTTATAT
*
50396246 TTTTGAATTTTA
1 TTTTAAATTTTA
50396258 AAGAGTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 12 0.41
20 11 0.38
21 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAAATTTTATGTTTATAT
Found at i:50407794 original size:29 final size:30
Alignment explanation
Indices: 50407748--50407806 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
50407738 GAATTGGATC
50407748 AAATCAAAATTTAATGTATAAAATTGCACA
1 AAATCAAAATTTAATGTATAAAATTGCACA
* *
50407778 AAATCAAAGTTT-ATGTATACAATTGCACA
1 AAATCAAAATTTAATGTATAAAATTGCACA
50407807 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTAATGTATAAAATTGCACA
Found at i:50408255 original size:31 final size:28
Alignment explanation
Indices: 50408179--50408257 Score: 81
Period size: 31 Copynumber: 2.7 Consensus size: 28
50408169 GAATTGGATC
*
50408179 AAATCAAAATTTCATGTA-AAATTGCACA
1 AAATC-AAAGTTCATGTATAAATTGCACA
*
50408207 AAATCAAAGCTCATGTATACAATTGCACA
1 AAATCAAAGTTCATGTATA-AATTGCACA
50408236 TTAAA-CTAAAGTTCATGTATAA
1 --AAATC-AAAGTTCATGTATAA
50408258 TTTTGATATT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
27 10 0.23
28 6 0.14
29 9 0.21
30 2 0.05
31 16 0.37
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (28 bp):
AAATCAAAGTTCATGTATAAATTGCACA
Done.