Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 168 of 770
Found at i:49734816 original size:25 final size:26
Alignment explanation
Indices: 49734693--49734816 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
49734683 GAGGAAGTGC
**
49734693 AAAAGGGCTTATGCCGTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
49734719 AAAAGGGCTTGTGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
49734745 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
49734771 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
49734797 AAAAGGG-TTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
49734817 ATTAAGGAGG
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 12 0.13
26 79 0.87
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:49741429 original size:28 final size:27
Alignment explanation
Indices: 49741366--49741435 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
49741356 ATAGTGAGTC
49741366 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
49741393 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
49741421 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49741436 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:49749286 original size:2 final size:2
Alignment explanation
Indices: 49749279--49749318 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
49749269 ATATAGGTTA
49749279 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49749319 TGGCCGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49752738 original size:80 final size:79
Alignment explanation
Indices: 49752601--49752807 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 79
49752591 AATTAAATGA
* * ** * *
49752601 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCAAGG-CATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
49752666 TTATGCTAGT-G-AC
65 TTATGCAAGTCGTAC
* *
49752679 TAAATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCC-AAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
49752744 ATTTGTGCAAGTCGTTC
63 AATTATGCAAGTCGTAC
* * *
49752761 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCC-AAGGCATTCGTGCAAGTAGTTAAATCCGG
49752808 TTGTATTCTG
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
80 101 0.94
81 4 0.04
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
TATCCGGGCTAAGACCCAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAAT
TATGCAAGTCGTAC
Found at i:49752792 original size:40 final size:40
Alignment explanation
Indices: 49752600--49752807 Score: 197
Period size: 40 Copynumber: 5.2 Consensus size: 40
49752590 CAATTAAATG
* ** * *
49752600 ATATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTCGTT
* * * * *
49752640 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGT-GACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TT
* * *
49752680 AAATCCGGGCTAAGACCCAAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
49752720 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
49752760 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
49752800 ATATCCGG
1 ATATCCGG
49752808 TTGTATTCTG
Statistics
Matches: 143, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
39 4 0.03
40 132 0.92
41 7 0.05
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:49756745 original size:51 final size:49
Alignment explanation
Indices: 49756563--49756809 Score: 280
Period size: 51 Copynumber: 4.9 Consensus size: 49
49756553 TAGACAAGGC
* * * *
49756563 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
49756612 TATCCA-ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TAT-CAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * *
49756662 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* *
49756713 TATCAGGTACACATAGTAGCCTACACTTAGTACTACACACGCGACCAAT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
49756762 TATCTCAGGTACGCATAGTAGCCTACACTTAGAACTACACACGTGACC
1 TA--TCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
49756810 TCACAATAGA
Statistics
Matches: 170, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
49 42 0.25
50 48 0.28
51 80 0.47
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:49756747 original size:101 final size:99
Alignment explanation
Indices: 49756574--49756809 Score: 287
Period size: 101 Copynumber: 2.4 Consensus size: 99
49756564 ATCTGGTACG
* * * *
49756574 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAATACACGTAGTAGCCTGCACT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAATACACATAGTAGCCTACACT
*
49756639 TAGTACTACACACGTGACCTAACCATCT-GATACA
66 TAGTACTACACACGCGACC-AACCATCTAGATACA
* * *
49756673 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CAGGTACACATAGTAGCCTAC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCA-ATACACATAGTAGCCTAC
** * *
49756737 ACTTAGTACTACACACGCGACCAATTATCTCAGGTACG
63 ACTTAGTACTACACACGCGACCAACCATCT-AGATACA
* *
49756775 CATAGTAGCCTACACTTAGAACTACACACGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
49756810 TCACAATAGA
Statistics
Matches: 116, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
99 30 0.26
100 11 0.09
101 41 0.35
102 34 0.29
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (99 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAATACACATAGTAGCCTACACT
TAGTACTACACACGCGACCAACCATCTAGATACA
Found at i:49757097 original size:27 final size:27
Alignment explanation
Indices: 49757057--49757110 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
49757047 TCATACAACC
* *
49757057 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
49757084 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
49757111 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:49757448 original size:30 final size:30
Alignment explanation
Indices: 49757408--49757464 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
49757398 AAAATCATAT
49757408 TTTGGCAAAATTGAAATTTTT-CCCCTAAAC
1 TTTGGCAAAATT-AAATTTTTGCCCCTAAAC
* *
49757438 TTTGTCAAAATTACATTTTTGCCCCTA
1 TTTGGCAAAATTAAATTTTTGCCCCTA
49757465 GGCTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (30 bp):
TTTGGCAAAATTAAATTTTTGCCCCTAAAC
Found at i:49759274 original size:94 final size:93
Alignment explanation
Indices: 49759069--49759342 Score: 259
Period size: 94 Copynumber: 2.9 Consensus size: 93
49759059 CATTTGTGTA
* *
49759069 AGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATGT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGAT-AGAGCCAGTGTAAGACCATGT
*
49759134 CTAGGACATGGCATTGGGATTGAGACGAG
65 CTAGGACATGGCATCGGGATTGAGACGAG
* * * *
49759163 TGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT-GTGTCAGTGTAAGACCATGT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATAGAGCCAGTGTAAGACCATGT
* * * * *
49759226 TTGGGACAT-GTATCGGCACGATT-ATATGAG
65 CTAGGACATGGCATCGG---GATTGAGACGAG
* ** * * *
49759256 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTTAAGATGATAGCCGGTGTAAGACCA
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC-ACATGAT-AGAGCCAGTGTAAGACCA
* *
49759321 TGTCTGGGGCATGGCATCGGGA
62 TGTCTAGGACATGGCATCGGGA
49759343 CTTTACCCAT
Statistics
Matches: 145, Mismatches: 24, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
91 5 0.03
92 25 0.17
93 17 0.12
94 55 0.38
95 9 0.06
96 5 0.03
98 23 0.16
99 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (93 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATAGAGCCAGTGTAAGACCATGTC
TAGGACATGGCATCGGGATTGAGACGAG
Found at i:49774750 original size:13 final size:14
Alignment explanation
Indices: 49774732--49774764 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49774722 CCCGGCCTGT
*
49774732 AAATAAATA-AAAA
1 AAATAAAAACAAAA
49774745 AAATAAAAACAAAA
1 AAATAAAAACAAAA
49774759 AAATAA
1 AAATAA
49774765 TAGTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (14 bp):
AAATAAAAACAAAA
Found at i:49776116 original size:20 final size:20
Alignment explanation
Indices: 49776087--49776125 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49776077 TAAATTTTAT
* *
49776087 TATATGTTATATTTTTATTA
1 TATATATTATATTTATATTA
49776107 TATATATTATATTTATATT
1 TATATATTATATTTATATT
49776126 TTATTATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TATATATTATATTTATATTA
Found at i:49776132 original size:43 final size:43
Alignment explanation
Indices: 49776080--49776184 Score: 126
Period size: 43 Copynumber: 2.4 Consensus size: 43
49776070 ATCTTCATAA
49776080 ATTTTATTATATGTTATAT-TTTTATTATA-TATATTATATT-TAT
1 ATTTTATTATATGTTATATATTTT-TT-TACTATA-TATATTATAT
* *
49776123 ATTTTATTATTTGTTATATATTTTTTTACTATATATATTATTT
1 ATTTTATTATATGTTATATATTTTTTTACTATATATATTATAT
* *
49776166 ATTTTACTATATTTTATAT
1 ATTTTATTATATGTTATAT
49776185 GTAAAATTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
42 8 0.15
43 42 0.78
44 4 0.07
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (43 bp):
ATTTTATTATATGTTATATATTTTTTTACTATATATATTATAT
Found at i:49776537 original size:11 final size:12
Alignment explanation
Indices: 49776521--49776554 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
49776511 TCTAAACATC
49776521 TTTATTTT-TAT
1 TTTATTTTATAT
49776532 TTTATTTTAT-T
1 TTTATTTTATAT
49776543 TTTATTTTATAT
1 TTTATTTTATAT
49776555 GATTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.90
12 2 0.10
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTATTTTATAT
Found at i:49776540 original size:16 final size:16
Alignment explanation
Indices: 49776521--49776552 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49776511 TCTAAACATC
49776521 TTTATTTTTATTTTAT
1 TTTATTTTTATTTTAT
49776537 TTTATTTTTATTTTAT
1 TTTATTTTTATTTTAT
49776553 ATGATTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTTTATTTTAT
Found at i:49776723 original size:2 final size:2
Alignment explanation
Indices: 49776716--49776749 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
49776706 AAATATTATC
49776716 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49776750 GCAATTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49783709 original size:33 final size:33
Alignment explanation
Indices: 49783672--49783743 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
49783662 CACACAATGC
*
49783672 TACTGTATAGGGCTAAGGCCCAGACTGTACTGT
1 TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
* **
49783705 TACTGAATAGGGCTTTGGCCCAGACTGTACTGA
1 TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
49783738 TACTGT
1 TACTGT
49783744 GTTGTTTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (33 bp):
TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
Found at i:49786612 original size:46 final size:46
Alignment explanation
Indices: 49786444--49786613 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
49786434 TGTAACCCGC
* * * * * * *
49786444 CCATAAGTGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCAT
* *
49786490 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGA---C-ATTTGCAT
* **
49786540 CTC-T---CGAACTCGGACTCAACTCAACGAATTCAGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCAT
49786583 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
49786614 TTCGGATGCT
Statistics
Matches: 99, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 55 0.56
47 27 0.27
49 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCAT
Found at i:49788015 original size:27 final size:27
Alignment explanation
Indices: 49787977--49788118 Score: 185
Period size: 27 Copynumber: 5.3 Consensus size: 27
49787967 TAAGTTGTAT
49787977 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49788004 AATTACCGAAATACCCCTGTAAGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49788031 AATTATCGAAATACTCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49788058 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
49788085 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
49788112 AATTACC
1 AATTACC
49788119 ATTTTGCCCC
Statistics
Matches: 98, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:49788859 original size:2 final size:2
Alignment explanation
Indices: 49788852--49788885 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
49788842 GCTTCGCCAC
49788852 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49788886 CTTTTCTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49790851 original size:19 final size:20
Alignment explanation
Indices: 49790827--49790864 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
49790817 GGTACCACCA
49790827 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
49790846 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
49790865 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:49791234 original size:46 final size:45
Alignment explanation
Indices: 49791091--49791234 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 45
49791081 CCCGCCCCTA
49791091 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
49791138 CA-CGAACTCGGACTCAACTCAACGAGTTCAGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCT-CAACCATCT
*
49791184 AGTGAACTCTGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
49791230 AGTGA
1 AGTGA
49791235 CATGTCACTT
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
44 8 0.11
45 3 0.04
46 30 0.39
47 29 0.38
48 2 0.03
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:49801960 original size:49 final size:51
Alignment explanation
Indices: 49801895--49802020 Score: 154
Period size: 49 Copynumber: 2.5 Consensus size: 51
49801885 TCAAGTCGAT
49801895 GCCATGTCCCAGACATGGTCTTACACTAA-CTATCGA-A-AT-TGAGGCCAAC
1 GCCATGTCCCAGACATGGTCTTACACTAAGCTATC-ACATATCTG-GGCCAAC
* * * *
49801944 GCCATGTCCCAGACATGGTCTTACAC-AAGCTCTCACATATCTGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAAGCTATCACATATCTGGGCCAAC
*
49801994 GCCAAGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
49802021 GACACATCTC
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
48 3 0.04
49 31 0.46
50 31 0.46
51 2 0.03
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACACTAAGCTATCACATATCTGGGCCAAC
Found at i:49802074 original size:46 final size:44
Alignment explanation
Indices: 49801988--49802116 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 44
49801978 ACATATCTGT
* * *
49801988 GCCGATGCCAAGTCCCAGACATGGTCTTACACTGACACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATCTC-AAG
* *
49802034 GCCGATGCATGTCCGAGACATGTCTCACACTGGCTTACATCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC--ACATCTCAAG
*
49802080 GCCGATGCATGTCCCAGACATGTCTTATACTGGCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACA
49802117 CAAATAACTC
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
44 14 0.19
45 13 0.18
46 45 0.62
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCAAG
Found at i:49813585 original size:22 final size:21
Alignment explanation
Indices: 49813531--49813585 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
49813521 ACAGACTCCA
**
49813531 ACACGGGCGTGTCCTAGGGTC
1 ACACGGGCGTGTCCTAGGACC
* * *
49813552 AGACGGGAGTGTCCCTTGGACC
1 ACACGGGCGTGT-CCTAGGACC
49813574 ACACGGGCGTGT
1 ACACGGGCGTGT
49813586 GATCCCTGTA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.16, C:0.27, G:0.38, T:0.18
Consensus pattern (21 bp):
ACACGGGCGTGTCCTAGGACC
Found at i:49815046 original size:21 final size:21
Alignment explanation
Indices: 49815017--49815056 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49815007 AGTCAGGTCC
*
49815017 AATCTAACTAAACAGAATTGA
1 AATCCAACTAAACAGAATTGA
*
49815038 AATCCAACTAATCAGAATT
1 AATCCAACTAAACAGAATT
49815057 CAACCACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.25
Consensus pattern (21 bp):
AATCCAACTAAACAGAATTGA
Found at i:49817730 original size:19 final size:18
Alignment explanation
Indices: 49817706--49817743 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
49817696 TTTAAAATAT
49817706 TTAAAAACAAAAAAAAAA
1 TTAAAAACAAAAAAAAAA
49817724 TTAAAAACAAAAAAAAAA
1 TTAAAAACAAAAAAAAAA
49817742 TT
1 TT
49817744 CAAGACCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (18 bp):
TTAAAAACAAAAAAAAAA
Found at i:49820539 original size:28 final size:28
Alignment explanation
Indices: 49820470--49820570 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
49820460 GACAAGATTG
* * * *
49820470 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
49820500 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
49820528 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
49820557 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49820571 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:49820564 original size:29 final size:28
Alignment explanation
Indices: 49820499--49820570 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
49820489 AAAATTGTAC
*
49820499 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
49820527 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
49820556 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49820571 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:49826286 original size:28 final size:28
Alignment explanation
Indices: 49826217--49826317 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
49826207 GACAAGATTG
* * * *
49826217 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
49826247 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
49826275 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
49826304 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49826318 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:49826311 original size:29 final size:28
Alignment explanation
Indices: 49826246--49826317 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
49826236 AAAATTGTAC
*
49826246 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
49826274 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
49826303 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49826318 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:49828563 original size:29 final size:29
Alignment explanation
Indices: 49828528--49828592 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
49828518 TGTGAACAGG
49828528 CCGTGTGCCTCACACGGCCTTAGACACGC
1 CCGTGTGCCTCACACGGCCTTAGACACGC
49828557 CCGTGTGCCTCACACGGCCTTAGACACGC
1 CCGTGTGCCTCACACGGCCTTAGACACGC
49828586 CCGTGTG
1 CCGTGTG
49828593 TCTAAGCCGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.15, C:0.40, G:0.26, T:0.18
Consensus pattern (29 bp):
CCGTGTGCCTCACACGGCCTTAGACACGC
Found at i:49831418 original size:29 final size:29
Alignment explanation
Indices: 49831384--49831515 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
49831374 TACTCGATTT
** * *
49831384 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
49831413 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
49831442 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
49831471 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49831500 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49831516 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:49839148 original size:29 final size:29
Alignment explanation
Indices: 49839114--49839245 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
49839104 TACTCGATTT
** * *
49839114 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
49839143 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
49839172 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
49839201 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
49839230 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49839246 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:49842043 original size:108 final size:108
Alignment explanation
Indices: 49841854--49842068 Score: 430
Period size: 108 Copynumber: 2.0 Consensus size: 108
49841844 CTTTTGCAAA
49841854 ATACACATTCATCTTTCATATTCCTCCATAATACATCAAAATAAAAGCAACTCATGCATGGGTAA
1 ATACACATTCATCTTTCATATTCCTCCATAATACATCAAAATAAAAGCAACTCATGCATGGGTAA
49841919 ATTTTTAAACATGAACCCTAGCATGAAATATAGGTAGAAATGG
66 ATTTTTAAACATGAACCCTAGCATGAAATATAGGTAGAAATGG
49841962 ATACACATTCATCTTTCATATTCCTCCATAATACATCAAAATAAAAGCAACTCATGCATGGGTAA
1 ATACACATTCATCTTTCATATTCCTCCATAATACATCAAAATAAAAGCAACTCATGCATGGGTAA
49842027 ATTTTTAAACATGAACCCTAGCATGAAATATAGGTAGAAATG
66 ATTTTTAAACATGAACCCTAGCATGAAATATAGGTAGAAATG
49842069 TAGAGAGCAT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (108 bp):
ATACACATTCATCTTTCATATTCCTCCATAATACATCAAAATAAAAGCAACTCATGCATGGGTAA
ATTTTTAAACATGAACCCTAGCATGAAATATAGGTAGAAATGG
Found at i:49843960 original size:30 final size:30
Alignment explanation
Indices: 49843926--49843985 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
49843916 ATTTAATACG
49843926 AACTTTGGAAGAATTACA-TTTTTGCCCCTA
1 AACTTTGGAAGAATTACACTTTTT-CCCCTA
* * *
49843956 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAGAATTACACTTTTTCCCCTA
49843986 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (30 bp):
AACTTTGGAAGAATTACACTTTTTCCCCTA
Found at i:49849873 original size:40 final size:39
Alignment explanation
Indices: 49849708--49849891 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
49849698 AAATTGAATG
* * *
49849708 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
49849748 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
49849788 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
49849828 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
49849867 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
49849892 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:49849916 original size:80 final size:81
Alignment explanation
Indices: 49849748--49849936 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
49849738 GCTGGAAATT
* * * *
49849748 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
49849813 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
49849829 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
49849892 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
49849908 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
49849937 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:49854705 original size:40 final size:39
Alignment explanation
Indices: 49854540--49854723 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
49854530 AAATTGAATG
* * *
49854540 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
49854580 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
49854620 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
49854660 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
49854699 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
49854724 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:49854748 original size:80 final size:81
Alignment explanation
Indices: 49854580--49854768 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
49854570 GCTGGAAATT
* * * *
49854580 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
49854645 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
49854661 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
49854724 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
49854740 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
49854769 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:49864150 original size:29 final size:29
Alignment explanation
Indices: 49864117--49864276 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
49864107 GTGACGAGAT
49864117 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49864146 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49864175 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
49864204 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
49864233 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
49864262 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
49864277 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:49869568 original size:46 final size:46
Alignment explanation
Indices: 49869515--49869783 Score: 237
Period size: 46 Copynumber: 5.8 Consensus size: 46
49869505 TATTTGGGCA
49869515 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * * *
49869561 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-AAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAATG
* *
49869606 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** *
49869654 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCG-AATG
* * *
49869702 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
49869747 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCCCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49869784 GCGGGTTACA
Statistics
Matches: 179, Mismatches: 30, Indels: 28
0.76 0.13 0.12
Matches are distributed among these distances:
43 3 0.02
44 2 0.01
45 6 0.03
46 96 0.54
47 64 0.36
48 4 0.02
49 1 0.01
50 3 0.02
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49869630 original size:47 final size:47
Alignment explanation
Indices: 49869511--49869729 Score: 207
Period size: 47 Copynumber: 4.7 Consensus size: 47
49869501 AGGATATTTG
*** * *
49869511 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-AA
*
49869559 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACAA
* *** * *
49869604 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCAAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-AA
* * *
49869652 TG--TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACAA
* *
49869697 GGCAACCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
49869730 ACTTGTGGAT
Statistics
Matches: 137, Mismatches: 26, Indels: 17
0.76 0.14 0.09
Matches are distributed among these distances:
45 5 0.04
46 63 0.46
47 65 0.47
48 4 0.03
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACAA
Found at i:49869670 original size:93 final size:93
Alignment explanation
Indices: 49869511--49869775 Score: 433
Period size: 93 Copynumber: 2.8 Consensus size: 93
49869501 AGGATATTTG
*
49869511 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
49869576 TTGAGTCCGAGTTCGAGAGATGTAACAA
66 TTGAGTCCGAGTTCGAGAGATGTAACAA
* *
49869604 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
49869669 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACAA
* * * *
49869697 GGCAACCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGA
*
49869761 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
49869776 CCTTATGGGC
Statistics
Matches: 160, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
92 1 0.01
93 159 0.99
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACAA
Found at i:49872294 original size:24 final size:23
Alignment explanation
Indices: 49872267--49872312 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
49872257 AGTGATCCTA
49872267 TCCGGACAACCTCTACACTCCATC
1 TCCGGACAACC-CTACACTCCATC
** *
49872291 TCCGTCCAACCCTGCACTCCAT
1 TCCGGACAACCCTACACTCCAT
49872313 GTGGGGATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.22, C:0.48, G:0.09, T:0.22
Consensus pattern (23 bp):
TCCGGACAACCCTACACTCCATC
Found at i:49876904 original size:68 final size:68
Alignment explanation
Indices: 49876754--49876911 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
49876744 CTAGCCAATT
* * *
49876754 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
49876819 TTTA
65 CATA
* * *
49876823 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
49876885 CTACATA
63 C-ACATA
*
49876892 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
49876912 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:49882878 original size:40 final size:40
Alignment explanation
Indices: 49882712--49882879 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
49882702 CATTTGAATG
* * *
49882712 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * *
49882752 ATGTTCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
49882792 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
49882832 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
49882872 GTATCCGG
1 ATATCCGG
49882880 TTAAATCCGG
Statistics
Matches: 100, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
39 3 0.03
40 93 0.93
41 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:49896082 original size:27 final size:28
Alignment explanation
Indices: 49896052--49896121 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
49896042 ATAATAAGTC
*
49896052 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
49896079 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
49896107 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49896122 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49908230 original size:31 final size:30
Alignment explanation
Indices: 49908195--49908256 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
49908185 TCTTTAATAC
*
49908195 AAACTTTGGCAAAATTACATTTTTTACCCCT
1 AAACTTTGGCAAAATTACACTTTTT-CCCCT
* *
49908226 AAACTTTTGCATAATTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACACTTTTTCCCCT
49908256 A
1 A
49908257 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTTCCCCT
Found at i:49911912 original size:40 final size:40
Alignment explanation
Indices: 49911857--49911940 Score: 143
Period size: 40 Copynumber: 2.1 Consensus size: 40
49911847 TCTGAAACAA
49911857 AATCCATAATCACTCTA-TCCTATTTCCACTCGAGGATCAT
1 AATCCATAATCACTCTATTCC-ATTTCCACTCGAGGATCAT
*
49911897 AATCCATAATCACTCTATTCCATTTCCACTCGGGGATCAT
1 AATCCATAATCACTCTATTCCATTTCCACTCGAGGATCAT
49911937 AATC
1 AATC
49911941 GACTGCAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
40 39 0.93
41 3 0.07
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (40 bp):
AATCCATAATCACTCTATTCCATTTCCACTCGAGGATCAT
Found at i:49917781 original size:28 final size:29
Alignment explanation
Indices: 49917740--49917795 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
49917730 ATTTCATGAA
*
49917740 TTAACCCCTCAATTTACACTTTTT-TCAAT
1 TTAACCCCTCAATTGACA-TTTTTGTCAAT
*
49917769 TTAATCCCT-AATTGACATTTTTGTCAA
1 TTAACCCCTCAATTGACATTTTTGTCAA
49917796 AAATCACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.21
28 11 0.46
29 8 0.33
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.45
Consensus pattern (29 bp):
TTAACCCCTCAATTGACATTTTTGTCAAT
Found at i:49924416 original size:53 final size:50
Alignment explanation
Indices: 49924356--49924474 Score: 195
Period size: 49 Copynumber: 2.3 Consensus size: 50
49924346 GATTTTATGC
49924356 GATGAATGTGAAAGTGTATATATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--T-TATATATATGTGATAAGGCCTAATGGCCGATGT
*
49924409 GATGAATGTGAAAGTG-TATATATATGTGATAAGGCCTAATGGTCGATGT
1 GATGAATGTGAAAGTGTTATATATATGTGATAAGGCCTAATGGCCGATGT
49924458 GATGAATGTGAAAGTGT
1 GATGAATGTGAAAGTGT
49924475 GTAACACCCC
Statistics
Matches: 64, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
49 48 0.75
53 16 0.25
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.32
Consensus pattern (50 bp):
GATGAATGTGAAAGTGTTATATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:49925981 original size:39 final size:39
Alignment explanation
Indices: 49925900--49926090 Score: 301
Period size: 39 Copynumber: 4.9 Consensus size: 39
49925890 TATGGTAACC
* * * *
49925900 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
49925940 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
49925979 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
* * *
49926018 CGCACAATTGCCTTCAGACTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
49926057 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
49926091 CTCGAACATT
Statistics
Matches: 139, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 122 0.88
40 17 0.12
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:49927807 original size:49 final size:49
Alignment explanation
Indices: 49927698--49928202 Score: 846
Period size: 49 Copynumber: 10.5 Consensus size: 49
49927688 GGGCTGTCAC
*
49927698 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
49927747 AAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
49927794 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
49927843 AAAGTGTGTATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
49927892 AAAGTGTGTATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
49927941 AAAGTGTGTATATAAGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
49927990 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
49928039 AAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
49928086 AAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * *
49928133 AAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGTGATGGATGTG
1 AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
49928182 AAA--GTGTATAAATGTGATAAG
1 AAAGTGTGTATATATGTGATAAG
49928203 TCCCGAAGGG
Statistics
Matches: 439, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
47 156 0.36
49 283 0.64
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
AAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:49933142 original size:40 final size:39
Alignment explanation
Indices: 49932977--49933160 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
49932967 AAATTGAATG
* * *
49932977 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
49933017 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
49933057 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
49933097 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
49933136 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
49933161 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:49933185 original size:80 final size:81
Alignment explanation
Indices: 49933017--49933205 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
49933007 GCTGGAAATT
* * * *
49933017 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
49933082 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
49933098 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
49933161 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
49933177 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
49933206 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:49941705 original size:46 final size:46
Alignment explanation
Indices: 49941652--49941827 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
49941642 TGGTTGAGCA
49941652 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
49941698 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
49941743 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
49941791 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49941828 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:49941808 original size:93 final size:93
Alignment explanation
Indices: 49941649--49941818 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
49941639 AGATGGTTGA
* *
49941649 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
49941714 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
49941742 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49941807 TGAGTCCGAGTT
66 TGAGTCCGAGTT
49941819 TGCTTATGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:49949184 original size:46 final size:45
Alignment explanation
Indices: 49949025--49949198 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
49949015 GGTTGAGCAT
* *
49949025 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGC
* * * *
49949070 CCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAC---GC
49949115 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACGC
* *
49949163 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49949199 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
42 6 0.06
44 2 0.02
45 28 0.26
46 34 0.31
47 27 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGC
Found at i:49950439 original size:24 final size:25
Alignment explanation
Indices: 49950405--49950454 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
49950395 TGTAATGTAG
49950405 AAACAAATAATCCAAAGTTCTAAAA
1 AAACAAATAATCCAAAGTTCTAAAA
49950430 AAAC-AATAATCCAAAGTTCTAAAA
1 AAACAAATAATCCAAAGTTCTAAAA
49950454 A
1 A
49950455 TGTTAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.60, C:0.16, G:0.04, T:0.20
Consensus pattern (25 bp):
AAACAAATAATCCAAAGTTCTAAAA
Found at i:49955143 original size:20 final size:21
Alignment explanation
Indices: 49955105--49955145 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
49955095 AAATTTTATC
*
49955105 TTATAATCATTTTTGTAAAAA
1 TTATAATCATTTTTCTAAAAA
*
49955126 TTATAATGA-TTTTCTAAAAA
1 TTATAATCATTTTTCTAAAAA
49955146 CAGAATAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (21 bp):
TTATAATCATTTTTCTAAAAA
Found at i:49955973 original size:28 final size:28
Alignment explanation
Indices: 49955940--49956012 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
49955930 TTTGAATCAT
*
49955940 TCGATATTTTGCACACTAAGTGTCATTC
1 TCGATATTTCGCACACTAAGTGTCATTC
* * *
49955968 TCGATATCTCGGACACTAAGTGTCGTTC
1 TCGATATTTCGCACACTAAGTGTCATTC
* *
49955996 TCAATATTTCGTACACT
1 TCGATATTTCGCACACT
49956013 GAGTACCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (28 bp):
TCGATATTTCGCACACTAAGTGTCATTC
Found at i:49960838 original size:40 final size:40
Alignment explanation
Indices: 49960772--49960938 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
49960762 AAATTGAATG
* * *
49960772 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49960811 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
49960851 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49960891 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49960931 ATATCCGG
1 ATATCCGG
49960939 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49968742 original size:40 final size:40
Alignment explanation
Indices: 49968683--49968824 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
49968673 AAATTGAATG
* *
49968683 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGACAATTATGCTAGAAACT
* * * ***
49968723 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
49968763 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
49968803 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
49968825 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.03
40 82 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:49968825 original size:40 final size:39
Alignment explanation
Indices: 49968722--49968850 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
49968712 TGCTGGAAAT
* * *
49968722 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
49968762 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
49968802 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
49968842 TATATCCGG
1 TATATCCGG
49968851 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:49972073 original size:57 final size:57
Alignment explanation
Indices: 49971985--49972219 Score: 355
Period size: 57 Copynumber: 4.1 Consensus size: 57
49971975 TCACATACTT
* *** *
49971985 AGTGCCCCAACAACCGATCTTGTACACACAGTGCTTGGTTAC-GAAACTCGCACACAC
1 AGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACAG-AACTCGCACACAC
* *
49972042 AGTGCCTCAACAACCGATCTCTCACACACAGTGCTCAGTTACAGAACTCGCACACAC
1 AGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACAGAACTCGCACACAC
*
49972099 AGTGCCTCAACAACCGATCTCACACATACAGTGCTCGGTTACAGAACTCGCACACAC
1 AGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACAGAACTCGCACACAC
* * *
49972156 AGTGCCTCAACAACCGATCTCACACACATAGTGCTCGGTTACGGAACTCACACACAC
1 AGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACAGAACTCGCACACAC
49972213 AGTGCCT
1 AGTGCCT
49972220 ATGTTCACTT
Statistics
Matches: 164, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
57 163 0.99
58 1 0.01
ACGTcount: A:0.31, C:0.35, G:0.16, T:0.18
Consensus pattern (57 bp):
AGTGCCTCAACAACCGATCTCACACACACAGTGCTCGGTTACAGAACTCGCACACAC
Found at i:49972096 original size:28 final size:28
Alignment explanation
Indices: 49972008--49972217 Score: 152
Period size: 28 Copynumber: 7.4 Consensus size: 28
49971998 CCGATCTTGT
** *
49972008 ACACACAGTGCTTGGTTA-CGAAACTCGC
1 ACACACAGTGCTCAGTTACCG-AACTCAC
*** * *
49972036 ACACACAGTGCCTCAACAACCGATCTCTC
1 ACACACAGTG-CTCAGTTACCGAACTCAC
* *
49972065 ACACACAGTGCTCAGTTACAGAACTCGC
1 ACACACAGTGCTCAGTTACCGAACTCAC
*** *
49972093 ACACACAGTGCCTCAACAACCGATCTCAC
1 ACACACAGTG-CTCAGTTACCGAACTCAC
* * * *
49972122 ACATACAGTGCTCGGTTACAGAACTCGC
1 ACACACAGTGCTCAGTTACCGAACTCAC
*** *
49972150 ACACACAGTGCCTCAACAACCGATCTCAC
1 ACACACAGTG-CTCAGTTACCGAACTCAC
* * *
49972179 ACACATAGTGCTCGGTTACGGAACTCAC
1 ACACACAGTGCTCAGTTACCGAACTCAC
49972207 ACACACAGTGC
1 ACACACAGTGC
49972218 CTATGTTCAC
Statistics
Matches: 135, Mismatches: 43, Indels: 8
0.73 0.23 0.04
Matches are distributed among these distances:
28 74 0.55
29 59 0.44
30 2 0.01
ACGTcount: A:0.31, C:0.35, G:0.16, T:0.18
Consensus pattern (28 bp):
ACACACAGTGCTCAGTTACCGAACTCAC
Found at i:49972129 original size:29 final size:29
Alignment explanation
Indices: 49972035--49972189 Score: 152
Period size: 29 Copynumber: 5.4 Consensus size: 29
49972025 ACGAAACTCG
*
49972035 CACACACAGTGCCTCAACAACCGATCTCT
1 CACACACAGTGCCTCAACAACCGATCTCA
*** * * *
49972064 CACACACAGTG-CTCAGTTACAGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCA
49972092 CACACACAGTGCCTCAACAACCGATCTCA
1 CACACACAGTGCCTCAACAACCGATCTCA
* **** * * *
49972121 CACATACAGTG-CTCGGTTACAGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCA
49972149 CACACACAGTGCCTCAACAACCGATCTCA
1 CACACACAGTGCCTCAACAACCGATCTCA
*
49972178 CACACATAGTGC
1 CACACACAGTGC
49972190 TCGGTTACGG
Statistics
Matches: 95, Mismatches: 29, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
28 42 0.44
29 53 0.56
ACGTcount: A:0.32, C:0.37, G:0.14, T:0.17
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCA
Found at i:49974222 original size:27 final size:28
Alignment explanation
Indices: 49974192--49974260 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
49974182 GATATTTTGC
**
49974192 ACACTAAGTGTCATTCTC-ATATCTCGG
1 ACACTAAGTACCATTCTCAATATCTCGG
* *
49974219 ACACTAAGTACCATTCTCAATATTTCGT
1 ACACTAAGTACCATTCTCAATATCTCGG
*
49974247 ACACTGAGTACCAT
1 ACACTAAGTACCAT
49974261 ATTTGATTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 16 0.44
28 20 0.56
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
ACACTAAGTACCATTCTCAATATCTCGG
Found at i:49974251 original size:28 final size:27
Alignment explanation
Indices: 49974183--49974260 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
49974173 GAATCATTCG
* **
49974183 ATATTTTGCACACTAAGTGTCATTCTC
1 ATATTTCGCACACTAAGTACCATTCTC
* *
49974210 ATATCTCGGACACTAAGTACCATTCTC
1 ATATTTCGCACACTAAGTACCATTCTC
* *
49974237 AATATTTCGTACACTGAGTACCAT
1 -ATATTTCGCACACTAAGTACCAT
49974261 ATTTGATTGC
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 22 0.52
28 20 0.48
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (27 bp):
ATATTTCGCACACTAAGTACCATTCTC
Found at i:49976904 original size:35 final size:35
Alignment explanation
Indices: 49976830--49977009 Score: 175
Period size: 35 Copynumber: 5.1 Consensus size: 35
49976820 TACTTACTTG
* *
49976830 TATGGCTAAATACT-CAAGGTTCATTATATCATCACA
1 TATGGCCAAATA-TACAA-GTTCAATATATCATCACA
* *
49976866 TATGGCCAAATATACAAGTACAATATATCATCATA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* ** * *
49976901 TATGACTGAATATACAAGCTCAATGA-AACATCACA
1 TATGGCCAAATATACAAGTTCAAT-ATATCATCACA
* * * * * *
49976936 TGTAGTCAAATATTCAAGTTTAATATAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
*
49976971 TGTGGCCAAATATACAAGTTCAATATATCATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
49977006 TATG
1 TATG
49977010 TACATACCTA
Statistics
Matches: 115, Mismatches: 26, Indels: 7
0.78 0.18 0.05
Matches are distributed among these distances:
34 1 0.01
35 99 0.86
36 15 0.13
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.30
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATATCATCACA
Found at i:49982018 original size:40 final size:40
Alignment explanation
Indices: 49981959--49982122 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 40
49981949 TGAATAATAC
*
49981959 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * *
49981999 CCGGGCTAAGACCCAAAGGCATTCATGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
49982039 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
49982079 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
49982119 CCGG
1 CCGG
49982123 TTAAATTCCG
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 98 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:49982116 original size:80 final size:80
Alignment explanation
Indices: 49981959--49982122 Score: 195
Period size: 80 Copynumber: 2.0 Consensus size: 80
49981949 TGAATAATAC
* * ** *
49981959 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCAAAGGCATTCA
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCAAAGGCATTCA
*
49982024 TGCGAGTTGTTATAT
66 TGCGAGTGGTTATAT
* * * *
49982039 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-
1 CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCAAAGGC-ATTC
* **
49982103 GTGCTTGTGGTTATAT
65 ATGCGAGTGGTTATAT
49982119 CCGG
1 CCGG
49982123 TTAAATTCCG
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
80 67 0.96
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCAAAGGCATTCA
TGCGAGTGGTTATAT
Found at i:49984465 original size:16 final size:16
Alignment explanation
Indices: 49984441--49984487 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
49984431 GTAGATCAGT
*
49984441 AAATCCCGAAAAGCCA
1 AAATGCCGAAAAGCCA
* *
49984457 AAATGCCGAAACGCTA
1 AAATGCCGAAAAGCCA
*
49984473 AAATGCTGAAAAGCC
1 AAATGCCGAAAAGCC
49984488 GAAAGTTTGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.47, C:0.26, G:0.17, T:0.11
Consensus pattern (16 bp):
AAATGCCGAAAAGCCA
Found at i:49990211 original size:35 final size:35
Alignment explanation
Indices: 49990164--49990325 Score: 171
Period size: 35 Copynumber: 4.6 Consensus size: 35
49990154 AATACTCAAG
* *
49990164 GTTCATTATATCATCACATATGGCCAAATATACAA
1 GTTCAATATATCATCACATATGACCAAATATACAA
* * * *
49990199 GTACAATATATCATCATATATGACCGAGTATACAA
1 GTTCAATATATCATCACATATGACCAAATATACAA
* * * * * * *
49990234 GCTCAATAAAACATCACATGTAATCAAATATTCAA
1 GTTCAATATATCATCACATATGACCAAATATACAA
* * * *
49990269 GTTTAATATAACATCACATGTGGCCAAATATACAA
1 GTTCAATATATCATCACATATGACCAAATATACAA
49990304 GTTCAATATATCATCACATATG
1 GTTCAATATATCATCACATATG
49990326 TACATACCTA
Statistics
Matches: 100, Mismatches: 27, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 100 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (35 bp):
GTTCAATATATCATCACATATGACCAAATATACAA
Found at i:49991972 original size:26 final size:27
Alignment explanation
Indices: 49991806--49991975 Score: 198
Period size: 27 Copynumber: 6.3 Consensus size: 27
49991796 GGCATAATCA
* *** * *
49991806 TCATTTTACCATACAAAAGTATTAAGA
1 TCATTTTACCCTACAGGGGTATTACGG
* *
49991833 TCATTTTACCTTACAGGGGTATTATGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
49991860 TCATTTTACCCTACAAGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
49991887 TCATTTTACACTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
49991914 TCATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * *
49991941 TCATTTTATCCTATA-GGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACGG
*
49991967 TAATTTTAC
1 TCATTTTAC
49991976 TAACCGAGGG
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 17 0.14
27 107 0.86
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACGG
Found at i:50018177 original size:40 final size:40
Alignment explanation
Indices: 50018110--50018286 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
50018100 ACCCAAGCAT
* *
50018110 CTTCGGGAT-TTAG-CCGAATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
50018149 CTTCAGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * **
50018189 CTTCGGGTCTTAGCCCTGATATAATC-ACTAGCATGAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
50018229 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
50018269 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
50018287 TTGTCATCCG
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 100 0.87
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:50023807 original size:20 final size:18
Alignment explanation
Indices: 50023750--50023798 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
50023740 CTTAGCCCAT
* *
50023750 TGCAGTAACAGTAAAAAAA
1 TGCAGTAACAGT-AAACAG
*
50023769 AGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
50023787 TGCAGTAACAGT
1 TGCAGTAACAGT
50023799 TTAAACAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.16
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:50024221 original size:27 final size:27
Alignment explanation
Indices: 50024148--50024281 Score: 124
Period size: 27 Copynumber: 5.0 Consensus size: 27
50024138 ATAAATACCA
* *
50024148 CACATAAGGTCAAAACAGTCAATTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
** * ****
50024175 CATGTAGGGGCATTTTAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
50024202 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
50024229 CTCATAATGGTAAAACAGTCACTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
50024256 CTCATAGGGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
50024282 TCAAATTGGG
Statistics
Matches: 82, Mismatches: 25, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:50029399 original size:24 final size:24
Alignment explanation
Indices: 50029372--50029437 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 24
50029362 CCCACTTTTT
*
50029372 CCTCCCCTAATCTCTCCTAAAAAC
1 CCTCCACTAATCTCTCCTAAAAAC
* * * * *
50029396 CCTCCTCAAATCTATCCTCAAATC
1 CCTCCACTAATCTCTCCTAAAAAC
* *
50029420 CCTCAACTAATCACTCCT
1 CCTCCACTAATCTCTCCT
50029438 CCCTCAACTA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (24 bp):
CCTCCACTAATCTCTCCTAAAAAC
Found at i:50033637 original size:48 final size:48
Alignment explanation
Indices: 50033585--50033714 Score: 127
Period size: 48 Copynumber: 2.7 Consensus size: 48
50033575 AGTGCTTGCC
** * * *
50033585 TGAACTTCCCAATATTGGCTATCTG-GAGCTTCCCAATATGGTTCTTTG
1 TGAACTTCCCAA-AAAGGCTATCTGTGAACTTCCCAACAAGGTTCTTTG
* * *
50033633 TGAACTTCCCAAAAAGGTTCTTTGTGAACTTCCCAACAAGGTTCTTTG
1 TGAACTTCCCAAAAAGGCTATCTGTGAACTTCCCAACAAGGTTCTTTG
* * * * *
50033681 TGAACTTCCCGACAAGGTTCTTTGTGAACTTCCC
1 TGAACTTCCCAAAAAGGCTATCTGTGAACTTCCC
50033715 GATTATGGTT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 7 0.10
48 64 0.90
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (48 bp):
TGAACTTCCCAAAAAGGCTATCTGTGAACTTCCCAACAAGGTTCTTTG
Found at i:50033716 original size:24 final size:24
Alignment explanation
Indices: 50033613--50033714 Score: 168
Period size: 24 Copynumber: 4.2 Consensus size: 24
50033603 CTATCTGGAG
* *
50033613 CTTCCCAATATGGTTCTTTGTGAA
1 CTTCCCAACAAGGTTCTTTGTGAA
*
50033637 CTTCCCAAAAAGGTTCTTTGTGAA
1 CTTCCCAACAAGGTTCTTTGTGAA
50033661 CTTCCCAACAAGGTTCTTTGTGAA
1 CTTCCCAACAAGGTTCTTTGTGAA
*
50033685 CTTCCCGACAAGGTTCTTTGTGAA
1 CTTCCCAACAAGGTTCTTTGTGAA
50033709 CTTCCC
1 CTTCCC
50033715 GATTATGGTT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (24 bp):
CTTCCCAACAAGGTTCTTTGTGAA
Found at i:50033782 original size:23 final size:24
Alignment explanation
Indices: 50033756--50033809 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
50033746 AGCCCAGATA
* *
50033756 AGCTTCTCGATAT-GCTCTTTATG
1 AGCTTCTCGAAATGGCTCTATATG
* *
50033779 AGCTTCCCGAAATGGCTCTATGTG
1 AGCTTCTCGAAATGGCTCTATATG
50033803 AGCTTCT
1 AGCTTCT
50033810 GGTTACAAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (24 bp):
AGCTTCTCGAAATGGCTCTATATG
Found at i:50036766 original size:25 final size:26
Alignment explanation
Indices: 50036738--50036788 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
50036728 GAGCATCTCG
*
50036738 ATTAAA-GGTTCTTTGTGAACTTCCC
1 ATTAAATGGCTCTTTGTGAACTTCCC
*
50036763 ATTAAATTGGCTCTTTGTGAGCTTCC
1 ATTAAA-TGGCTCTTTGTGAACTTCC
50036789 TGATAGTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
27 16 0.73
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.41
Consensus pattern (26 bp):
ATTAAATGGCTCTTTGTGAACTTCCC
Found at i:50038883 original size:17 final size:16
Alignment explanation
Indices: 50038856--50038894 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
50038846 AGTCCGTATT
*
50038856 TTTAGAGAAACCATTG
1 TTTAGAGAAACCATAG
*
50038872 TTTAGTAGAAACTATAG
1 TTTAG-AGAAACCATAG
50038889 TTTAGA
1 TTTAGA
50038895 TATTAGGCGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (16 bp):
TTTAGAGAAACCATAG
Found at i:50039019 original size:15 final size:15
Alignment explanation
Indices: 50038999--50039029 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50038989 GATATTCTTT
50038999 AAATTAAAACCATAA
1 AAATTAAAACCATAA
50039014 AAATTAAAACCATAA
1 AAATTAAAACCATAA
50039029 A
1 A
50039030 TGTAACCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATTAAAACCATAA
Found at i:50040250 original size:16 final size:17
Alignment explanation
Indices: 50040219--50040251 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50040209 AATTAACTCG
50040219 AATACCAAAAAGAAAAA
1 AATACCAAAAAGAAAAA
50040236 AATACCAAAAA-AAAAA
1 AATACCAAAAAGAAAAA
50040252 CTCTAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.79, C:0.12, G:0.03, T:0.06
Consensus pattern (17 bp):
AATACCAAAAAGAAAAA
Found at i:50045681 original size:40 final size:40
Alignment explanation
Indices: 50045632--50045799 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
50045622 TCTTCGGAAT
* * *
50045632 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
50045671 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
50045711 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
50045751 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
50045791 TTAGCCCGG
1 TTAGCCCGG
50045800 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:50053728 original size:40 final size:40
Alignment explanation
Indices: 50053679--50053890 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
50053669 TCTTCGGAAT
* * * *
50053679 TTAG-CCGGATATAACCACAAGTACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
50053718 TTAACCCGGATTTGGTGACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
50053758 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
50053798 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
50053838 TTAGCCCGGATATCATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
50053878 TTAGCCCGGATAT
1 TTAGCCCGGATAT
50053891 CATTCAAATG
Statistics
Matches: 148, Mismatches: 22, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
39 3 0.02
40 144 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:50056059 original size:24 final size:24
Alignment explanation
Indices: 50056027--50056113 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
50056017 AATCTCAAAT
50056027 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
50056051 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
50056075 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
50056099 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
50056114 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:50056079 original size:48 final size:48
Alignment explanation
Indices: 50056027--50056135 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
50056017 AATCTCAAAT
** *
50056027 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
50056075 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
50056123 GCACTATGTGTGC
1 GCACTATGTGTGC
50056136 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:50056126 original size:24 final size:24
Alignment explanation
Indices: 50056027--50056135 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
50056017 AATCTCAAAT
*
50056027 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
50056051 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
50056075 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
50056099 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
50056123 GCACTATGTGTGC
1 GCACTATGTGTGC
50056136 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:50060750 original size:28 final size:28
Alignment explanation
Indices: 50060719--50060805 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
50060709 CTGACTGATT
* *
50060719 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCAATTAAAGAAC
* *
50060747 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCAATTA-AAGAAC
*
50060776 TCGCACACATAGTGCTCAATTGAAGAAC
1 TCGCACACATAGTGCTCAATTAAAGAAC
50060804 TC
1 TC
50060806 ACACTCTCAG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
27 1 0.02
28 24 0.49
29 23 0.47
30 1 0.02
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCAATTAAAGAAC
Found at i:50061064 original size:40 final size:40
Alignment explanation
Indices: 50061020--50061242 Score: 266
Period size: 40 Copynumber: 5.6 Consensus size: 40
50061010 GAATACACAT
* * * *
50061020 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGTTATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
50061060 CACCAGCACGAATGCTGTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * * * * *
50061100 CTCTAGCACAAATGCTCTTTGAGACTTAACCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
50061140 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
50061180 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
50061220 CACTAGCACGAATGCTCTTCGGG
1 CACCAGCACGAATGCTCTTCGGG
50061243 TGTAACACCC
Statistics
Matches: 154, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 154 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:50061234 original size:120 final size:120
Alignment explanation
Indices: 50061016--50061238 Score: 329
Period size: 120 Copynumber: 1.9 Consensus size: 120
50061006 GCCCGAATAC
* * * * *
50061016 ACATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGTTATAACACCAGCACGAATGCTGTTCG
1 ACATCACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
* * *
50061081 GGACTTAACCCTGATATAACTCTAGCACAAATGCTCTTTGAGACTTAACCCGGAT
66 GGACTTAACCCGGATACAACACTAGCACAAATGCTCTTTGAGACTTAACCCGGAT
* *
50061136 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
1 ACATCACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
* * *
50061201 GGACTTAGCCCGGATACATCACTAGCACGAATGCTCTT
66 GGACTTAACCCGGATACAACACTAGCACAAATGCTCTT
50061239 CGGGTGTAAC
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 90 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (120 bp):
ACATCACCAGCACGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
GGACTTAACCCGGATACAACACTAGCACAAATGCTCTTTGAGACTTAACCCGGAT
Found at i:50062645 original size:39 final size:37
Alignment explanation
Indices: 50062616--50062745 Score: 113
Period size: 39 Copynumber: 3.4 Consensus size: 37
50062606 GCTACTCGTT
*
50062616 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCG
1 CAAATGCCTTCGGACATAACCCGGTTATAGTAACTCG
*
50062653 CAAGATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCG
1 CAA-ATGCCTTC-GGACATAACCCGG-TTATAGTAACTCG
* **
50062692 CACAAATGCCTTC-GATCTTAGTCCGGATT-TAGTAACTCG
1 --CAAATGCCTTCGGA-CATAACCCGG-TTATAGTAACTCG
50062731 CACAAATGCCTTCGG
1 --CAAATGCCTTCGG
50062746 TTCTTAGTCT
Statistics
Matches: 82, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
37 3 0.04
38 10 0.12
39 55 0.67
40 11 0.13
41 3 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (37 bp):
CAAATGCCTTCGGACATAACCCGGTTATAGTAACTCG
Found at i:50062762 original size:40 final size:40
Alignment explanation
Indices: 50062616--50062838 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
50062606 GCTACTCGTT
* *
50062616 CAAATGCCTTCGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATT-TAGTAACTCGCA
* **
50062655 -AGATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
50062694 CAAATGCCTTC-GATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* *
50062733 CAAATGCCTTCGGTTCTTAGTCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * * * *
50062773 CGAATGCCTTCAGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
50062814 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
50062839 CATCATTCGA
Statistics
Matches: 159, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
38 11 0.07
39 57 0.36
40 82 0.52
41 9 0.06
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:50062832 original size:80 final size:79
Alignment explanation
Indices: 50062616--50062838 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 79
50062606 GCTACTCGTT
* * * * * *
50062616 CAAATGCCTTCGGA-CATAGCCCGGTTATAGTAACTCGCA-AGATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GATCTTAGTCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
50062679 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* * ** * *
50062694 CAAATGCCTTCGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGTTCTTAGTCTGGA
1 CAAATGCCTTCGATCTTAGTCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
50062759 TTTAGTAACTCGCA
66 TTTAGTAACTCGCA
* *
50062773 CGAATGCCTTCAGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTC-GATCTTAGTCCGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCG
50062837 GA
64 GA
50062839 CATCATTCGA
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
77 2 0.02
78 32 0.26
79 43 0.35
80 38 0.31
81 8 0.07
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (79 bp):
CAAATGCCTTCGATCTTAGTCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:50064832 original size:40 final size:40
Alignment explanation
Indices: 50064492--50064830 Score: 507
Period size: 40 Copynumber: 8.5 Consensus size: 40
50064482 GGCTGTCACA
* * * *
50064492 TCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
50064532 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
* *
50064572 TCAGGACTTAGCCCAGATACATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
* * * * *
50064612 TCAGGACTTAGCCCGGATATAACACCAGCACAAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
50064652 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
*
50064692 TTGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
* *
50064732 TCGGGACTTAGCCTGGATACATCACTAGCATGAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
* * * * *
50064772 TCGGGACTTAGCCCGAATATAACACCAGCACAAATGCTCT
1 TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
50064812 TCGGGACTTAGCCCGGATA
1 TCGGGACTTAGCCCGGATA
50064831 TATATAACTC
Statistics
Matches: 271, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 271 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCT
Found at i:50066148 original size:37 final size:37
Alignment explanation
Indices: 50066089--50066234 Score: 231
Period size: 37 Copynumber: 3.9 Consensus size: 37
50066079 AGCTCAGATG
* *
50066089 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
50066126 AAATCTCCACATGTAGTCATCGGGTCTTACCCGGA-A
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
50066162 ATAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 A-AATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
50066200 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
50066235 ATATATTTCC
Statistics
Matches: 100, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
36 2 0.02
37 97 0.97
38 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:50066435 original size:48 final size:48
Alignment explanation
Indices: 50066380--50066772 Score: 669
Period size: 48 Copynumber: 8.1 Consensus size: 48
50066370 ACACATCGCC
*
50066380 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
50066428 TACATATTTCACTTTAGCCATTCGTCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
50066478 TATATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
50066526 TACATACTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
50066574 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
50066622 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
50066672 TATATATTTCACATTAGCCATTCGGCTTTACCAGATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
50066720 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
50066768 TACAT
1 TACAT
50066773 CAATTTCCGC
Statistics
Matches: 324, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
48 234 0.72
50 90 0.28
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:50066537 original size:98 final size:98
Alignment explanation
Indices: 50066383--50066769 Score: 688
Period size: 98 Copynumber: 4.0 Consensus size: 98
50066373 CATCGCCTAC
* *
50066383 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACTTTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
50066448 TTCGTCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
50066481 ATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCATACATACTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
50066546 TTCGGCTTTACCACATATACATATCTC--ATAC
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
50066577 ATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
50066642 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
*
50066675 ATATTTCACATTAGCCATTCGGCTTTACCAGATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
50066740 TTCGGCTTTACCACATATACATATCTCATA
66 TTCGGCTTTACCACATATACATATCTCATA
50066770 CATCAATTTC
Statistics
Matches: 275, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
96 92 0.33
98 183 0.67
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (98 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:50066599 original size:194 final size:194
Alignment explanation
Indices: 50066380--50066772 Score: 723
Period size: 194 Copynumber: 2.0 Consensus size: 194
50066370 ACACATCGCC
*
50066380 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACTTTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
50066445 CCATTCGTCTTTACCACATATACATATCTCATATATATATTTCACATTAACCATTCGGCTTTACC
66 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAACCATTCGGCTTTACC
50066510 ACATATACATATCTCATACATACTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
131 ACATATACATATCTCATACATACTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
50066574 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
50066639 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACC
66 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAACCATTCGGCTTTACC
* *
50066704 AGATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
131 ACATATACATATCTCATACATACTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
50066768 TACAT
1 TACAT
50066773 CAATTTCCGC
Statistics
Matches: 192, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
194 192 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (194 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAACCATTCGGCTTTACC
ACATATACATATCTCATACATACTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:50073689 original size:23 final size:24
Alignment explanation
Indices: 50073663--50073707 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
50073653 CAAAAGATAA
50073663 TTGTTAGTTTAA-TTAGATATGCT
1 TTGTTAGTTTAACTTAGATATGCT
*
50073686 TTGTTAGTTTAACTTATATATG
1 TTGTTAGTTTAACTTAGATATG
50073708 TATATGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (24 bp):
TTGTTAGTTTAACTTAGATATGCT
Found at i:50084313 original size:34 final size:35
Alignment explanation
Indices: 50084262--50084333 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
50084252 ATTCTGTAGT
*
50084262 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
* *
50084296 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGACAG
50084331 TAG
1 TAG
50084334 CTAGGATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 6 0.18
34 15 0.45
35 12 0.36
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
Found at i:50092037 original size:40 final size:40
Alignment explanation
Indices: 50091982--50092163 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
50091972 TATTCGGATG
50091982 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
50092022 ATAACCGGGCTAAGTCCCGAAGGCATTTGTTCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
50092062 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
50092102 ATAACTGGGCTAAATCCTGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* * *
50092142 ATATCC-AGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
50092164 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 15 0.12
40 113 0.88
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:50093965 original size:34 final size:34
Alignment explanation
Indices: 50093924--50093992 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
50093914 TCGTACTAAG
*
50093924 AATTATTTTTAATTAGAGTGCACAGCAGAAGCAT
1 AATTATTTTTAATTAGAGTGCACAACAGAAGCAT
*
50093958 AATTATTTTTAATTAGAGTGCGCAACAGAAGCAT
1 AATTATTTTTAATTAGAGTGCACAACAGAAGCAT
50093992 A
1 A
50093993 GTGGTTTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (34 bp):
AATTATTTTTAATTAGAGTGCACAACAGAAGCAT
Found at i:50101058 original size:40 final size:40
Alignment explanation
Indices: 50100995--50101215 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
50100985 ATTCGGATTG
50100995 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
50101034 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
50101074 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
50101114 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
50101154 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
50101194 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
50101216 TACTTGGTTT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 29 0.17
40 141 0.83
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:50109111 original size:39 final size:40
Alignment explanation
Indices: 50109053--50109231 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
50109043 ATTCGGATTG
50109053 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
50109092 ATATCCGGGC-AAGTCCCGAAGGCA-TTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
50109130 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
50109170 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
50109210 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
50109232 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 7, Indels: 8
0.90 0.05 0.06
Matches are distributed among these distances:
38 26 0.20
39 49 0.38
40 54 0.42
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:50111145 original size:68 final size:69
Alignment explanation
Indices: 50111073--50111270 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 69
50111063 ACACCCTGTA
* * * * *
50111073 GTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGA-AGCTACGTGAAAC
50111135 ATAAAT
64 ATAAAT
*
50111141 GTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGGACACCATGTAGACAAGAAGCTACGTGAAAC
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA--GACACCATGTAGACAAGAAGCTACGTGAAAC
50111206 ATAAAT
64 ATAAAT
* * *
50111212 GTACCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGA-AGCTACG
50111271 AGACAAATCG
Statistics
Matches: 116, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
68 24 0.21
69 3 0.03
70 19 0.16
71 56 0.48
72 14 0.12
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (69 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAAGCTACGTGAAACAT
AAAT
Found at i:50111210 original size:71 final size:71
Alignment explanation
Indices: 50111107--50111270 Score: 285
Period size: 71 Copynumber: 2.3 Consensus size: 71
50111097 GAGATGTATC
* *
50111107 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAACATAAATGTACCTAGGTCACATGCGTGATTCCAAGTGA
50111172 AGGGACA
66 A-GGACA
*
50111179 CCATGTAGACAAGA-AGCTACGTGAAACATAAATGTACCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAACATAAATGTACCTAGGTCACATGCGTGATTCCAAGTGA
50111243 AGGACA
66 AGGACA
50111249 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
50111271 AGACAAATCG
Statistics
Matches: 88, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
70 19 0.22
71 55 0.62
72 14 0.16
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAACATAAATGTACCTAGGTCACATGCGTGATTCCAAGTGA
AGGACA
Found at i:50112874 original size:55 final size:56
Alignment explanation
Indices: 50112809--50112922 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 56
50112799 AGCATGGCTG
* * * *
50112809 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTATGGCA-TAGCCA
* * *
50112865 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTATGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTATGGCATAGCCA
50112920 CCA
1 CCA
50112923 AGACGCTTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 27 0.55
56 21 0.43
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTATGGCATAGCCA
Found at i:50112891 original size:27 final size:28
Alignment explanation
Indices: 50112834--50112903 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
50112824 GTGACAGAGT
** *
50112834 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTACGTGGCAGGGC
50112863 CACCAGAACAGATA-TACGTGGCAGGGC
1 CACCAGAACAGATATTACGTGGCAGGGC
50112890 CACCAGAACAGATA
1 CACCAGAACAGATA
50112904 ATTTATGGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 24 0.63
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (28 bp):
CACCAGAACAGATATTACGTGGCAGGGC
Found at i:50112921 original size:28 final size:27
Alignment explanation
Indices: 50112834--50112922 Score: 90
Period size: 27 Copynumber: 3.2 Consensus size: 27
50112824 GTGACAGAGT
*
50112834 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
50112863 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
50112890 CACCAGAACAGATAATTTATGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
50112918 CACCA
1 CACCA
50112923 AGACGCTTCC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
27 23 0.46
28 20 0.40
29 7 0.14
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:50113075 original size:28 final size:28
Alignment explanation
Indices: 50113028--50113091 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
50113018 AAATTAACCC
*
50113028 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
50113056 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
50113084 TAGGGGTA
1 TAGGGGTA
50113092 CTCTAGTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:50118422 original size:40 final size:40
Alignment explanation
Indices: 50118377--50118544 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
50118367 CGGAATATAA
50118377 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
50118417 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
50118457 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50118497 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
50118537 CCGGATAT
1 CCGGATAT
50118545 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50118527 original size:80 final size:80
Alignment explanation
Indices: 50118393--50118542 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
50118383 ATAATCACGT
*
50118393 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
50118457 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
50118473 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
50118536 CCCGGAT
64 CCCGGAT
50118543 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:50126433 original size:40 final size:40
Alignment explanation
Indices: 50126388--50126555 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
50126378 CGGAATATAA
50126388 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
50126428 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
50126468 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50126508 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
50126548 CCGGATAT
1 CCGGATAT
50126556 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50126538 original size:80 final size:80
Alignment explanation
Indices: 50126404--50126553 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
50126394 ATAATCACGT
*
50126404 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGAT-TTAGC
50126468 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
50126484 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTTAG
50126547 CCCGGAT
64 CCCGGAT
50126554 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:50141524 original size:11 final size:10
Alignment explanation
Indices: 50141504--50141538 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
50141494 AGTACAGACA
50141504 AATAATTCAG
1 AATAATTCAG
50141514 AATATATTCAG
1 AATA-ATTCAG
*
50141525 AAAAATTCAG
1 AATAATTCAG
50141535 AATA
1 AATA
50141539 CTTACAGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (10 bp):
AATAATTCAG
Done.