Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 62 of 210
Found at i:18648764 original size:50 final size:51
Alignment explanation
Indices: 18648707--18648814 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 51
18648697 TCGATACACC
* * * ** *
18648707 TAGTAGCCTTCACATAGCACTACACACGTGATCAA-GCTTTTTGGTTCACG
1 TAGTAGCCTACACATAGCACTACACACGTGACCAATGCCTTGCGGTTCACA
*
18648757 TAGTAGCCTACACATAGTACTACACACGTGACCAATGCCTTGCGGTTCACA
1 TAGTAGCCTACACATAGCACTACACACGTGACCAATGCCTTGCGGTTCACA
18648808 TAGTAGC
1 TAGTAGC
18648815 ATGTACTTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 32 0.64
51 18 0.36
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTACACATAGCACTACACACGTGACCAATGCCTTGCGGTTCACA
Found at i:18648831 original size:51 final size:50
Alignment explanation
Indices: 18648707--18648840 Score: 133
Period size: 51 Copynumber: 2.7 Consensus size: 50
18648697 TCGATACACC
* * * * * ** *
18648707 TAGTAGCCTTCACATAGCACTACACACGTGATCAAGCTTTTTGGTTCACG
1 TAGTAGCATACACATAGTACTACACACGTGACCAAGCCTTGCGGTTCACA
*
18648757 TAGTAGCCTACACATAGTACTACACACGTGACCAATGCCTTGCGGTTCACA
1 TAGTAGCATACACATAGTACTACACACGTGACCAA-GCCTTGCGGTTCACA
** * * *
18648808 TAGTAGCATGTACTTAGTTCTACACATGTGACC
1 TAGTAGCATACACATAGTACTACACACGTGACC
18648841 TTTATTTATC
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
50 32 0.46
51 38 0.54
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (50 bp):
TAGTAGCATACACATAGTACTACACACGTGACCAAGCCTTGCGGTTCACA
Found at i:18650905 original size:33 final size:33
Alignment explanation
Indices: 18650868--18650992 Score: 106
Period size: 33 Copynumber: 3.5 Consensus size: 33
18650858 ATCGGTGGAT
*
18650868 TCAGCACTTAGCAACCACCAGTGATTCGAAGAA
1 TCAGCACTTAGCAACCACCAATGATTCGAAGAA
* * **
18650901 TCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAA
1 TCAGCACTTAGCAA---C---CAC---CAATGAT-TCGAAGAA
*
18650944 TCAGCACTTAGCAACCACCAATGATTCGGAGAA
1 TCAGCACTTAGCAACCACCAATGATTCGAAGAA
18650977 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
18650993 CCCTTCACAT
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
33 35 0.48
34 6 0.08
36 1 0.01
37 3 0.04
39 3 0.04
40 1 0.01
42 5 0.07
43 19 0.26
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGATTCGAAGAA
Found at i:18650959 original size:43 final size:43
Alignment explanation
Indices: 18650898--18651078 Score: 195
Period size: 43 Copynumber: 4.4 Consensus size: 43
18650888 GTGATTCGAA
*
18650898 GAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTG
1 GAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGTG
* * *
18650941 GAATCAGCACTTAGCAA---C---CAC---CAATGATTCGG-A
1 GAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGTG
* *
18650974 GAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTG
1 GAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGTG
* *
18651017 GAATCAGCACTTAGCAACCCCCTTT-ATATTTAAAGATACGGTG
1 GAATCAGCACTTAGCAA-CCCCTTTCACATTCAAAGATACGGTG
*
18651060 GAATCAGCACTCAGCAACC
1 GAATCAGCACTTAGCAACC
18651079 ACCAATGAGT
Statistics
Matches: 116, Mismatches: 11, Indels: 23
0.77 0.07 0.15
Matches are distributed among these distances:
33 17 0.15
34 8 0.07
36 1 0.01
37 3 0.03
39 3 0.03
40 1 0.01
42 10 0.09
43 67 0.58
44 6 0.05
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
GAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGTG
Found at i:18650987 original size:76 final size:76
Alignment explanation
Indices: 18650860--18651035 Score: 298
Period size: 76 Copynumber: 2.3 Consensus size: 76
18650850 TAACCGTTAT
* * *
18650860 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGAAGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAAGAATCAGCACTTAGCAACCCCCTTCAC
18650925 ATTCAAAGATA
66 ATTCAAAGATA
* *
18650936 TGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGAGAATCAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAAGAATCAGCACTTAGCAACCCCCTTCAC
*
18651001 ATTTAAAGATA
66 ATTCAAAGATA
18651012 CGGTGGAATCAGCACTTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACC
18651036 CCCTTTATAT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 93 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (76 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAAGAATCAGCACTTAGCAACCCCCTTCAC
ATTCAAAGATA
Found at i:18651109 original size:119 final size:118
Alignment explanation
Indices: 18650898--18651117 Score: 361
Period size: 119 Copynumber: 1.9 Consensus size: 118
18650888 GTGATTCGAA
* *
18650898 GAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACCACC
1 GAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGTGGAATCAGCACTCAGCAACCACC
*
18650963 AATGATTCGGAGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTG
66 AATGAGTCGGAGAATCAGCACTTAGCAA-CCCCTTCACATTTAAAGATACGGTG
* *
18651017 GAATCAGCACTTAGCAACCCCCTTT-ATATTTAAAGATACGGTGGAATCAGCACTCAGCAACCAC
1 GAATCAGCACTTAGCAA-CCCCTTTCACATTCAAAGATACGGTGGAATCAGCACTCAGCAACCAC
*
18651081 CAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTCA
65 CAATGAGTCGGAGAATCAGCACTTAGCAACCCCTTCA
18651118 TATTCAATGT
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
118 8 0.09
119 79 0.84
120 7 0.07
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (118 bp):
GAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATACGGTGGAATCAGCACTCAGCAACCACC
AATGAGTCGGAGAATCAGCACTTAGCAACCCCTTCACATTTAAAGATACGGTG
Found at i:18659124 original size:50 final size:50
Alignment explanation
Indices: 18659060--18659237 Score: 203
Period size: 51 Copynumber: 3.5 Consensus size: 50
18659050 TCGATACACA
* *
18659060 TAGTAGCCTTCACATAGTACTACACATGTGATCAAGCTTTTCGGTTCACG
1 TAGTAGCCTACACATAGTACTACACATGTGACCAAGCTTTTCGGTTCACG
* * * *
18659110 TAGTAGCCTACACATAGTACTACACACGTGACCAATGCCTTCCGGTTCACA
1 TAGTAGCCTACACATAGTACTACACATGTGACCAA-GCTTTTCGGTTCACG
* *** * * *
18659161 TAGTAGCCTACACTTAGTACTACACATGTGACCATTATTTATCGATACAGG
1 TAGTAGCCTACACATAGTACTACACATGTGACCAAGCTTT-TCGGTTCACG
* *
18659212 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTACACATAGTACTACACA
18659238 CGTGTTCGCA
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
50 34 0.31
51 74 0.69
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
TAGTAGCCTACACATAGTACTACACATGTGACCAAGCTTTTCGGTTCACG
Found at i:18659168 original size:51 final size:50
Alignment explanation
Indices: 18659056--18659194 Score: 206
Period size: 51 Copynumber: 2.8 Consensus size: 50
18659046 TCATTCGATA
* * * *
18659056 CACATAGTAGCCTTCACATAGTACTACACATGTGATCAAGCTTTTCGGTT
1 CACATAGTAGCCTACACATAGTACTACACATGTGACCAAGCCTTCCGGTT
* *
18659106 CACGTAGTAGCCTACACATAGTACTACACACGTGACCAATGCCTTCCGGTT
1 CACATAGTAGCCTACACATAGTACTACACATGTGACCAA-GCCTTCCGGTT
*
18659157 CACATAGTAGCCTACACTTAGTACTACACATGTGACCA
1 CACATAGTAGCCTACACATAGTACTACACATGTGACCA
18659195 TTATTTATCG
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 35 0.44
51 44 0.56
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (50 bp):
CACATAGTAGCCTACACATAGTACTACACATGTGACCAAGCCTTCCGGTT
Found at i:18670748 original size:73 final size:74
Alignment explanation
Indices: 18670621--18670762 Score: 223
Period size: 73 Copynumber: 1.9 Consensus size: 74
18670611 AAGTTCTCCA
*
18670621 AAGCTAACATTAGTACCATACTTGCTCAAGGGTCATCTTTTCATTTATTATCTTTATTTATGTTG
1 AAGCTAACATTAGTACCATACTTGCCCAAGGGTCATCTTTTCATTTATTATCTTTATTTATGTTG
18670686 CTTGTCCTC
66 CTTGTCCTC
* * * * *
18670695 AAGC-AACATTCGTACCATACTTGCCCAAGGGTTATCTTTTCATTTATTGTCTTTGTTTGTGTTG
1 AAGCTAACATTAGTACCATACTTGCCCAAGGGTCATCTTTTCATTTATTATCTTTATTTATGTTG
18670759 CTTG
66 CTTG
18670763 AGGACAAGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 58 0.94
74 4 0.06
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.44
Consensus pattern (74 bp):
AAGCTAACATTAGTACCATACTTGCCCAAGGGTCATCTTTTCATTTATTATCTTTATTTATGTTG
CTTGTCCTC
Found at i:18673260 original size:25 final size:25
Alignment explanation
Indices: 18673184--18673325 Score: 114
Period size: 25 Copynumber: 5.8 Consensus size: 25
18673174 TTATTAGGGA
*
18673184 TTACCAATTCTCAGCTCGTATGAGC
1 TTACCAATTCACAGCTCGTATGAGC
* * *
18673209 TTACCAATTGGA-A-ATTGTGA-GAGC
1 TTACCAATT-CACAGCTCGT-ATGAGC
* *
18673233 TTACTAATTCACAACTCGTATGAGC
1 TTACCAATTCACAGCTCGTATGAGC
**
18673258 TTACCAATT-GTAGCTCGTGA-GAGC
1 TTACCAATTCACAGCTCGT-ATGAGC
*
18673282 TTACCAATTCTCAGCTCGTATGAGC
1 TTACCAATTCACAGCTCGTATGAGC
* * *
18673307 TTACCGATTTATAGCTCGT
1 TTACCAATTCACAGCTCGT
18673326 GAGAGCATAT
Statistics
Matches: 91, Mismatches: 18, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
23 1 0.01
24 37 0.41
25 53 0.58
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (25 bp):
TTACCAATTCACAGCTCGTATGAGC
Found at i:18673261 original size:49 final size:49
Alignment explanation
Indices: 18673184--18673311 Score: 193
Period size: 49 Copynumber: 2.6 Consensus size: 49
18673174 TTATTAGGGA
*
18673184 TTACCAATTCTCAGCTCGTATGAGCTTACCAATTGGAAATTGTGAGAGC
1 TTACCAATTCTCAGCTCGTATGAGCTTACCAATTGGAAATCGTGAGAGC
* * * * **
18673233 TTACTAATTCACAACTCGTATGAGCTTACCAATTGTAGCTCGTGAGAGC
1 TTACCAATTCTCAGCTCGTATGAGCTTACCAATTGGAAATCGTGAGAGC
18673282 TTACCAATTCTCAGCTCGTATGAGCTTACC
1 TTACCAATTCTCAGCTCGTATGAGCTTACC
18673312 GATTTATAGC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (49 bp):
TTACCAATTCTCAGCTCGTATGAGCTTACCAATTGGAAATCGTGAGAGC
Found at i:18673356 original size:50 final size:49
Alignment explanation
Indices: 18673185--18673334 Score: 183
Period size: 49 Copynumber: 3.0 Consensus size: 49
18673175 TATTAGGGAT
** ** * *
18673185 TACCAATTCTCAGCTCGTATGAGCTTACCAATTGGAAATTGTGAGAGCT
1 TACCAATTCTCAGCTCGTATGAGCTTACCAATTATAGCTCGTGAGAGCA
* * * * *
18673234 TACTAATTCACAACTCGTATGAGCTTACCAATTGTAGCTCGTGAGAGCT
1 TACCAATTCTCAGCTCGTATGAGCTTACCAATTATAGCTCGTGAGAGCA
*
18673283 TACCAATTCTCAGCTCGTATGAGCTTACCGATTTATAGCTCGTGAGAGCA
1 TACCAATTCTCAGCTCGTATGAGCTTACC-AATTATAGCTCGTGAGAGCA
18673333 TA
1 TA
18673335 TTGATTCATA
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 68 0.78
50 19 0.22
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (49 bp):
TACCAATTCTCAGCTCGTATGAGCTTACCAATTATAGCTCGTGAGAGCA
Found at i:18673547 original size:30 final size:29
Alignment explanation
Indices: 18673508--18673569 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
18673498 TACATGAAAT
18673508 ACATGGAAATG-ATATTACATGATATATTGAA
1 ACATGGAAATGAATA-TACATG-TATA-TGAA
18673539 ACAT-GAAATGAATGATACATGTATATGAA
1 ACATGGAAATGAAT-ATACATGTATATGAA
18673568 AC
1 AC
18673570 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 10 0.34
31 12 0.41
32 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (29 bp):
ACATGGAAATGAATATACATGTATATGAA
Found at i:18681902 original size:14 final size:14
Alignment explanation
Indices: 18681885--18681925 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
18681875 ATATGTGTAT
*
18681885 TGTGATATATGACA
1 TGTGACATATGACA
*
18681899 TGTGACATGTGACA
1 TGTGACATATGACA
*
18681913 TGTGACATGTGAC
1 TGTGACATATGAC
18681926 CATTACGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (14 bp):
TGTGACATATGACA
Found at i:18681904 original size:7 final size:7
Alignment explanation
Indices: 18681894--18681925 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
18681884 TTGTGATATA
18681894 TGACATG
1 TGACATG
18681901 TGACATG
1 TGACATG
18681908 TGACATG
1 TGACATG
18681915 TGACATG
1 TGACATG
18681922 TGAC
1 TGAC
18681926 CATTACGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (7 bp):
TGACATG
Found at i:18681909 original size:21 final size:21
Alignment explanation
Indices: 18681885--18681925 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18681875 ATATGTGTAT
*
18681885 TGTGATATATGACATGTGACA
1 TGTGACATATGACATGTGACA
*
18681906 TGTGACATGTGACATGTGAC
1 TGTGACATATGACATGTGAC
18681926 CATTACGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (21 bp):
TGTGACATATGACATGTGACA
Found at i:18696333 original size:12 final size:12
Alignment explanation
Indices: 18696316--18696340 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18696306 TCTCATCTAT
18696316 ACAAATCAATCA
1 ACAAATCAATCA
18696328 ACAAATCAATCA
1 ACAAATCAATCA
18696340 A
1 A
18696341 GTACTTTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (12 bp):
ACAAATCAATCA
Found at i:18701458 original size:15 final size:15
Alignment explanation
Indices: 18701435--18701471 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
18701425 GACAAACCAC
*
18701435 AAAAGCACACAATCA
1 AAAATCACACAATCA
18701450 AAAATCACACAATCA
1 AAAATCACACAATCA
18701465 AAAATCA
1 AAAATCA
18701472 GCCATTGACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.62, C:0.24, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAATCACACAATCA
Found at i:18705055 original size:41 final size:41
Alignment explanation
Indices: 18704994--18705143 Score: 237
Period size: 41 Copynumber: 3.6 Consensus size: 41
18704984 GACTATACGT
*
18704994 CTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
18705035 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * * *
18705076 CTAGCAGGCTAAGTTCTGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
18705117 CTAGCAGGGTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
18705144 TTAAATTAAG
Statistics
Matches: 100, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
41 95 0.95
42 5 0.05
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:18709532 original size:26 final size:26
Alignment explanation
Indices: 18709503--18709570 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
18709493 CCTGATATAT
18709503 GGCTCTTCATGAGCTTCCCAATTAAA
1 GGCTCTTCATGAGCTTCCCAATTAAA
** * *
18709529 GGCTCTTGGTGAGCTTCCTAATTAAT
1 GGCTCTTCATGAGCTTCCCAATTAAA
* *
18709555 GTCTCTCCA-GAGCTTC
1 GGCTCTTCATGAGCTTC
18709571 TCGATATGGC
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 7 0.21
26 27 0.79
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCCAATTAAA
Found at i:18709637 original size:24 final size:25
Alignment explanation
Indices: 18709601--18709681 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 25
18709591 TTCTCTATAT
* *
18709601 ATGGCTATCCAGA-CTTCCCGATTA
1 ATGGCTCTTCAGACCTTCCCGATTA
* *
18709625 ATGGCTCTTCAGAGCTACCCG-TTA
1 ATGGCTCTTCAGACCTTCCCGATTA
* * *
18709649 TTGGCTC-ACATGACCTTCCTGATT-
1 ATGGCTCTTCA-GACCTTCCCGATTA
18709673 ATGGCTCTT
1 ATGGCTCTT
18709682 ATAAGCTTCC
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
23 2 0.05
24 33 0.77
25 8 0.19
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (25 bp):
ATGGCTCTTCAGACCTTCCCGATTA
Found at i:18713417 original size:20 final size:20
Alignment explanation
Indices: 18713392--18713432 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
18713382 TCAGATACAA
18713392 AAAATTGTTTCAGGTTACCC
1 AAAATTGTTTCAGGTTACCC
18713412 AAAATTGTTTCAGGTTACCC
1 AAAATTGTTTCAGGTTACCC
18713432 A
1 A
18713433 TTCCGGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (20 bp):
AAAATTGTTTCAGGTTACCC
Found at i:18721637 original size:13 final size:13
Alignment explanation
Indices: 18721591--18721767 Score: 84
Period size: 13 Copynumber: 13.4 Consensus size: 13
18721581 TCCAATATTC
18721591 CATTTCATAT-AT
1 CATTTCATATAAT
18721603 CAATTTCCATATAATT
1 C-ATTT-CATATAA-T
*
18721619 GA-TTCATATAAT
1 CATTTCATATAAT
18721631 CATTTCATAT-AT
1 CATTTCATATAAT
*
18721643 CTATTTCCATTTAA-
1 C-ATTT-CATATAAT
*
18721657 CTAATTCATATAA-
1 C-ATTTCATATAAT
18721670 CTATTTCATAT-AT
1 C-ATTTCATATAAT
* *
18721683 CTATTCCGTATAATT
1 C-ATTTCATATAA-T
* *
18721698 GA-TTCATATAAC
1 CATTTCATATAAT
18721710 CATTTCATAT-AT
1 CATTTCATATAAT
18721722 CTATTTTCATATAACT
1 C-A-TTTCATATAA-T
* *
18721738 GA-TTCATATAAA
1 CATTTCATATAAT
* *
18721750 CATTTCATTTATT
1 CATTTCATATAAT
18721763 CATTT
1 CATTT
18721768 TTCATCCAAT
Statistics
Matches: 128, Mismatches: 20, Indels: 33
0.71 0.11 0.18
Matches are distributed among these distances:
12 11 0.09
13 83 0.65
14 26 0.20
15 6 0.05
16 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.47
Consensus pattern (13 bp):
CATTTCATATAAT
Found at i:18721702 original size:79 final size:80
Alignment explanation
Indices: 18721591--18721757 Score: 257
Period size: 79 Copynumber: 2.1 Consensus size: 80
18721581 TCCAATATTC
* *
18721591 CATTTCATATATCAATTTCCATATAATTGATTCATATAATCATTTCATATATCTATTTCCATTTA
1 CATTTCATATATCAATTTCCATATAATTGATTCATATAACCATTTCATATATCTATTTCCATATA
18721656 ACTAATTCATAT-AA
66 ACTAATTCATATAAA
* * *
18721670 CTATTTCATATATCTA-TTCCGTATAATTGATTCATATAACCATTTCATATATCTATTTTCATAT
1 C-ATTTCATATATCAATTTCCATATAATTGATTCATATAACCATTTCATATATCTATTTCCATAT
*
18721734 AACTGATTCATATAAA
65 AACTAATTCATATAAA
18721750 CATTTCAT
1 CATTTCAT
18721758 TTATTCATTT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 64 0.80
80 16 0.20
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (80 bp):
CATTTCATATATCAATTTCCATATAATTGATTCATATAACCATTTCATATATCTATTTCCATATA
ACTAATTCATATAAA
Found at i:18721768 original size:40 final size:40
Alignment explanation
Indices: 18721591--18721757 Score: 230
Period size: 40 Copynumber: 4.2 Consensus size: 40
18721581 TCCAATATTC
* * *
18721591 CATTTCATATATCAATTTCCATATAATTGATTCATATAAT
1 CATTTCATATATCTATTTCCATATAACTGATTCATATAAA
* *
18721631 CATTTCATATATCTATTTCCATTTAACTAATTCATAT-AA
1 CATTTCATATATCTATTTCCATATAACTGATTCATATAAA
* * *
18721670 CTATTTCATATATCTA-TTCCGTATAATTGATTCATATAAC
1 C-ATTTCATATATCTATTTCCATATAACTGATTCATATAAA
*
18721710 CATTTCATATATCTATTTTCATATAACTGATTCATATAAA
1 CATTTCATATATCTATTTCCATATAACTGATTCATATAAA
18721750 CATTTCAT
1 CATTTCAT
18721758 TTATTCATTT
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
39 33 0.30
40 77 0.70
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (40 bp):
CATTTCATATATCTATTTCCATATAACTGATTCATATAAA
Found at i:18721875 original size:26 final size:25
Alignment explanation
Indices: 18721813--18721876 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
18721803 CGCGGGAACG
* *
18721813 ATGCTCACACAAGCTGTAACTGTCT
1 ATGCTCACACAAGCTGTAAATGGCT
*
18721838 ATGCTCACACAAGCTGTAAAATGGGT
1 ATGCTCACACAAGCTGT-AAATGGCT
*
18721864 CTGCTCACACAAG
1 ATGCTCACACAAG
18721877 ATGTGGGTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 17 0.50
26 17 0.50
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (25 bp):
ATGCTCACACAAGCTGTAAATGGCT
Found at i:18722974 original size:17 final size:18
Alignment explanation
Indices: 18722948--18722981 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18722938 TAACATTTAA
18722948 TTATTATAAAA-ATAAAC
1 TTATTATAAAACATAAAC
*
18722965 TTATTTTAAAACATAAA
1 TTATTATAAAACATAAA
18722982 AATACATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (18 bp):
TTATTATAAAACATAAAC
Found at i:18730399 original size:31 final size:31
Alignment explanation
Indices: 18730364--18730429 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
18730354 AAAAATACTT
*
18730364 AATAGCCTAGTAACTTAAATAAAAATTTTCA
1 AATAGCCTAGTAACATAAATAAAAATTTTCA
** * *
18730395 AATAGTTTAGTAACATAAATGAAAATTTTCT
1 AATAGCCTAGTAACATAAATAAAAATTTTCA
18730426 AATA
1 AATA
18730430 AATTAGTAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (31 bp):
AATAGCCTAGTAACATAAATAAAAATTTTCA
Found at i:18730436 original size:31 final size:31
Alignment explanation
Indices: 18730371--18730439 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
18730361 CTTAATAGCC
* **
18730371 TAGTAACTTAAATAAAAATTTTCAAATAGTT
1 TAGTAACATAAATAAAAATTTTCAAATAAAT
* *
18730402 TAGTAACATAAATGAAAATTTTCTAATAAAT
1 TAGTAACATAAATAAAAATTTTCAAATAAAT
18730433 TAGTAAC
1 TAGTAAC
18730440 TATTTTGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (31 bp):
TAGTAACATAAATAAAAATTTTCAAATAAAT
Found at i:18735598 original size:16 final size:16
Alignment explanation
Indices: 18735577--18735607 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18735567 CATATTAAAG
18735577 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
18735593 CATATATATTTGAAA
1 CATATAAATTTGAAA
18735608 ACTAAACTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:18735769 original size:19 final size:20
Alignment explanation
Indices: 18735739--18735789 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
18735729 AAATATATCA
*
18735739 ATTTTAGAATTTTTATAAA-T
1 ATTTT-GAATTTTTAAAAATT
18735759 ATTTTGAATTTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
18735779 ATTTTGAATTT
1 ATTTTGAATTT
18735790 GTTTTTTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:18735900 original size:18 final size:18
Alignment explanation
Indices: 18735877--18735911 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18735867 CAATCTATTA
*
18735877 TTTGAGTTATTCGAATTT
1 TTTGAGTTATGCGAATTT
18735895 TTTGAGTTATGCGAATT
1 TTTGAGTTATGCGAATT
18735912 GTATAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.20, T:0.51
Consensus pattern (18 bp):
TTTGAGTTATGCGAATTT
Found at i:18739076 original size:100 final size:101
Alignment explanation
Indices: 18738903--18739110 Score: 391
Period size: 100 Copynumber: 2.1 Consensus size: 101
18738893 GCAATAAAAC
18738903 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
18738968 TTTAAAATCCCAAACTTGGAATATTTCCTTTATTA-
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
18739003 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
18739068 TTTAAAATCTCAAACTCGGAATATTTCCTTTATTAT
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
18739104 TTTAAAA
1 TTTAAAA
18739111 AAAATCTTCA
Statistics
Matches: 105, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
100 98 0.93
101 7 0.07
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (101 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
Found at i:18741669 original size:44 final size:44
Alignment explanation
Indices: 18741621--18742151 Score: 308
Period size: 44 Copynumber: 12.2 Consensus size: 44
18741611 AACTTTAGAA
* *
18741621 AGATAAGATCTGAGATTTTAATCCGCTCTACTGCAACTTCAGGG
1 AGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTCAGGG
** * *
18741665 AGAT-AGAAT-T-ATCGGCTTTAATCTGCTCCGCTGCAACTTCAGGA
1 AGATAAG-ATCTGA--GATTTTAATCTGCTCCACTGCAACTTCAGGG
* ** * *
18741709 AGATAAGATTTGCCATCTTTAGTCTAC-CTCACTGCAACTTCAGGG
1 AGATAAGATCTGAGAT-TTTAATCTGCTC-CACTGCAACTTCAGGG
* * *** * * *
18741754 AAATAAG-GCT-AGA-TGCGATCTGCT-CTCTACAACTTCAGAG
1 AGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTCAGGG
* *
18741794 AGATAAGATCTGAGGTTTTAATCCGCTCCACTGCAACTTCAGGG
1 AGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTCAGGG
* ** * *
18741838 AGATAAGAT-TGTCGGCTTTAATCTGCTCCGCTGCAACTTCAGGA
1 AGATAAGATCTG-AGATTTTAATCTGCTCCACTGCAACTTCAGGG
* ** * *
18741882 AGATAAGATTTGCCATTTTTAGTCTGCCCCACTGCAACTTCA-GG
1 AGATAAGATCTGAGA-TTTTAATCTGCTCCACTGCAACTTCAGGG
* * * * *
18741926 AGGATAAGACCT--GCTTACTTAGTCTGCTCCACTACAACTTTAGGG
1 A-GATAAGATCTGAGATT--TTAATCTGCTCCACTGCAACTTCAGGG
*** * * *
18741971 AGATAAGA-CT-AGA-TGCGATCTGCT-CTCTACAACTTCAGAG
1 AGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTCAGGG
* **
18742011 AGATAAGATCTGAGGTTTTAATCCACTCCACTGCAACTTCAGGG
1 AGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTCAGGG
* * ** * *
18742055 AGATAGGAT-TGTCGGCTTTAATCTGCTCCGCTGCAACTTCATGG
1 AGATAAGATCTG-AGATTTTAATCTGCTCCACTGCAACTTCAGGG
* ** *
18742099 AGATAAGATTTGTCATCTTTAGTCTG-TCTCACTGCAACTTCA-GG
1 AGATAAGATCTGAGAT-TTTAATCTGCTC-CACTGCAACTTCAGGG
18742143 AGGATAAGA
1 A-GATAAGA
18742152 CTCGATCTGT
Statistics
Matches: 370, Mismatches: 87, Indels: 59
0.72 0.17 0.11
Matches are distributed among these distances:
40 40 0.11
41 15 0.04
42 7 0.02
43 24 0.06
44 189 0.51
45 95 0.26
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
AGATAAGATCTGAGATTTTAATCTGCTCCACTGCAACTTCAGGG
Found at i:18741829 original size:173 final size:173
Alignment explanation
Indices: 18741570--18741925 Score: 565
Period size: 173 Copynumber: 2.1 Consensus size: 173
18741560 TACTCCATTA
* *
18741570 CAACTTCAGGGAGATAAGACTAGTCACGATCTGCTCTCTGAAACTTTAGAAAGATAAGATCTGAG
1 CAACTTCAGGGAAATAAGACTAGTCACGATCTGCTCTCTGAAACTTCAGAAAGATAAGATCTGAG
*
18741635 ATTTTAATCCGCTCTACTGCAACTTCAGGGAGAT-AGAATTATCGGCTTTAATCTGCTCCGCTGC
66 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAG-ATTATCGGCTTTAATCTGCTCCGCTGC
*
18741699 AACTTCAGGAAGATAAGATTTGCCATCTTTAGTCTACCTCACTG
130 AACTTCAGGAAGATAAGATTTGCCATCTTTAGTCTACCCCACTG
* * *
18741743 CAACTTCAGGGAAATAAGGCTAGAT-GCGATCTGCTCTCT-ACAACTTCAGAGAGATAAGATCTG
1 CAACTTCAGGGAAATAAGACTAG-TCACGATCTGCTCTCTGA-AACTTCAGAAAGATAAGATCTG
* *
18741806 AGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAATCTGCTCCGCTG
64 AGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTGCTCCGCTG
* *
18741871 CAACTTCAGGAAGATAAGATTTGCCATTTTTAGTCTGCCCCACTG
129 CAACTTCAGGAAGATAAGATTTGCCATCTTTAGTCTACCCCACTG
18741916 CAACTTCAGG
1 CAACTTCAGG
18741926 AGGATAAGAC
Statistics
Matches: 169, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
172 1 0.01
173 165 0.98
174 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (173 bp):
CAACTTCAGGGAAATAAGACTAGTCACGATCTGCTCTCTGAAACTTCAGAAAGATAAGATCTGAG
ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTGCTCCGCTGCA
ACTTCAGGAAGATAAGATTTGCCATCTTTAGTCTACCCCACTG
Found at i:18741879 original size:217 final size:217
Alignment explanation
Indices: 18741637--18742152 Score: 743
Period size: 217 Copynumber: 2.4 Consensus size: 217
18741627 GATCTGAGAT
* ** * * ** * *
18741637 TTTAATCCGCTCTACTGCAACTTCAGGGAGAT-AGAATTATCGGCTTTAATCTGCTCCGCTGCAA
1 TTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTTGTCATCTTTAGTCTGCTCCACTGCAA
* ** * *
18741701 CTTCAGGAAGATAAGATTTGCCAT-CTTTAGTCTACCT-CACTGCAACTTCAGGGAAATAAGGCT
66 CTTCAGGAGGATAAGACCTG-CATAC-TTAGTCT-CCTCCACTACAACTTCAGGGAAATAAGACT
*
18741764 AGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTGCA
128 AGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCACTCCACTGCA
18741829 ACTTCAGGGAGATAAGATTGTCGGC
193 ACTTCAGGGAGATAAGATTGTCGGC
* * * *
18741854 TTTAATCTGCTCCGCTGCAACTTCAGGAAGATAAGATTTGCCATTTTTAGTCTGCCCCACTGCAA
1 TTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTTGTCATCTTTAGTCTGCTCCACTGCAA
* * * *
18741919 CTTCAGGAGGATAAGACCTGCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGA
66 CTTCAGGAGGATAAGACCTGCATACTTAGTCTCCTCCACTACAACTTCAGGGAAATAAGACTAGA
18741984 TGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCACTCCACTGCAACT
131 TGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCACTCCACTGCAACT
*
18742049 TCAGGGAGATAGGATTGTCGGC
196 TCAGGGAGATAAGATTGTCGGC
*
18742071 TTTAATCTGCTCCGCTGCAACTTCATGGAGATAAGATTTGTCATCTTTAGTCTG-TCTCACTGCA
1 TTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTTGTCATCTTTAGTCTGCTC-CACTGCA
18742135 ACTTCAGGAGGATAAGAC
65 ACTTCAGGAGGATAAGAC
18742153 TCGATCTGTC
Statistics
Matches: 266, Mismatches: 29, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
216 3 0.01
217 222 0.83
218 41 0.15
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (217 bp):
TTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTTGTCATCTTTAGTCTGCTCCACTGCAA
CTTCAGGAGGATAAGACCTGCATACTTAGTCTCCTCCACTACAACTTCAGGGAAATAAGACTAGA
TGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCACTCCACTGCAACT
TCAGGGAGATAAGATTGTCGGC
Found at i:18741952 original size:89 final size:86
Alignment explanation
Indices: 18741650--18741978 Score: 269
Period size: 89 Copynumber: 3.7 Consensus size: 86
18741640 AATCCGCTCT
* *
18741650 ACTGCAACTTCAGGGAGAT-AGAAT-TATCGGCTTTAATCTGCTCCGCTGCAACTTCAGGAAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGT-T--GC-TT-ATCTGCTCCGCTACAACTTCAGGAAGAT
* * *
18741713 AAGATTTGCCATCTTTAGTCTACCTC
61 AAGATTTGCCATTTTTAGTCTGCCCC
* * * * *
18741739 ACTGCAACTTCAGGGAAATAAGGCTAGATGC-GATCTGCT-CTCTACAACTTCA-GAGAGATAAG
1 ACTGCAACTTCAGGGAGATAAGACT-GTTGCTTATCTGCTCCGCTACAACTTCAGGA-AGATAAG
* * * * *
18741801 ATCTG--AGGTTTTAATCCGCTCC
64 ATTTGCCA-TTTTTAGTCTGCCCC
* * *
18741823 ACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAATCTGCTCCGCTGCAACTTCAGGAAGATAA
1 ACTGCAACTTCAGGGAGATAAGACTGT-TGC-TT-ATCTGCTCCGCTACAACTTCAGGAAGATAA
18741888 GATTTGCCATTTTTAGTCTGCCCC
63 GATTTGCCATTTTTAGTCTGCCCC
* * * *
18741912 ACTGCAACTTCA-GGAGGATAAGACCTGCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATA
1 ACTGCAACTTCAGGGA-GATAAGA-CTG-TTGCTTA-TCTGCTCCGCTACAACTTCAGGAAGATA
18741976 AGA
62 AGA
18741979 CTAGATGCGA
Statistics
Matches: 188, Mismatches: 35, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
83 2 0.01
84 34 0.18
85 22 0.12
86 7 0.04
87 7 0.04
88 26 0.14
89 81 0.43
90 7 0.04
91 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (86 bp):
ACTGCAACTTCAGGGAGATAAGACTGTTGCTTATCTGCTCCGCTACAACTTCAGGAAGATAAGAT
TTGCCATTTTTAGTCTGCCCC
Found at i:18742006 original size:173 final size:172
Alignment explanation
Indices: 18741570--18742064 Score: 497
Period size: 173 Copynumber: 2.9 Consensus size: 172
18741560 TACTCCATTA
* * * * *
18741570 CAACTTCAGGGAGATAAGACTAG-TCACGATCTGCTCTCTGA-AACTTTAGAAAGATAAGATCTG
1 CAACTTCAGGGAAATAAGCCTAGAT-ACGATCTGCTCACT-ACAACTTCAGAGAGATAAGATCTG
** *
18741633 A-GATTTTAATCCGCTCTACTGCAACTTCAGGGAGAT-AGAATTATCGGCTTTAATCTGCTCCGC
64 AGGA-TGCAATCCGCTCT-CTGCAACTTCAGGGAGATAAG-ATTGTCGGCTTTAATCTGCTCCGC
*
18741696 TGCAACTTCAGGAAGATAAGATTTGCCATCTTTAGTCTACCTCACTG
126 TGCAACTTCAGGAAGATAAGATTTGCCATCTTTAGTCTACCCCACTG
* * *
18741743 CAACTTCAGGGAAATAAGGCTAGATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTGAG
1 CAACTTCAGGGAAATAAGCCTAGATACGATCTGCTCACTACAACTTCAGAGAGATAAGATCTGAG
* ** *
18741808 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAATCTGCTCCGCTGCA
66 GATGCAATCCGCT-CTCTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAATCTGCTCCGCTGCA
* *
18741873 ACTTCAGGAAGATAAGATTTGCCATTTTTAGTCTGCCCCACTG
130 ACTTCAGGAAGATAAGATTTGCCATCTTTAGTCTACCCCACTG
* * * * *
18741916 CAACTTCA-GGAGGATAAGACCT-GCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGA
1 CAACTTCAGGGA-AATAAG-CCTAG-ATAC-GA-TCTGCT-CACTACAACTTCAGAGAGATAAGA
* * * * * * **
18741979 -CT-A-GATGCGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTG-AGGTTTTAATCCACTCC
60 TCTGAGGATGCAATCCGCTCTCTGCAACTTCAGGGAGATAAGAT-TGTCGGCTTTAATCTGCTCC
* * *
18742040 ACTGCAACTTCAGGGAGATAGGATT
124 GCTGCAACTTCAGGAAGATAAGATT
18742065 GTCGGCTTTA
Statistics
Matches: 276, Mismatches: 34, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
172 4 0.01
173 222 0.80
174 19 0.07
175 2 0.01
176 8 0.03
177 21 0.08
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (172 bp):
CAACTTCAGGGAAATAAGCCTAGATACGATCTGCTCACTACAACTTCAGAGAGATAAGATCTGAG
GATGCAATCCGCTCTCTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAATCTGCTCCGCTGCAA
CTTCAGGAAGATAAGATTTGCCATCTTTAGTCTACCCCACTG
Found at i:18742123 original size:173 final size:173
Alignment explanation
Indices: 18741645--18742153 Score: 398
Period size: 173 Copynumber: 2.9 Consensus size: 173
18741635 ATTTTAATCC
* * * * ** *
18741645 GCTCTACTGCAACTTCAGGGAGAT-AGAATTATCGGCTTTAATCTGCTCCGCTGCAACTTCAGGA
1 GCTCT-CTACAACTTCAGAGAGATAAG-ATTGTAGGCTTTAATCCACTCCACTGCAACTTCAGGA
* * * * * * *
18741709 AGATAAGATTTGCCATCTTTAGTCTACCTCACTGCAACTTCAGG-GAAATAAG-GCTAG-ATGC-
64 AGATAAGATTTGCCAGCTTTAATCTGCCCCACTGCAACTTCAGGAG-GATAAGACCT-GCATACT
* * * *** *
18741770 GA-TCTG-CTCTCTACAACTTCA-GAGAGATAAGATCTGAGGTTTTAATCC
127 TAGTCTGTCTCACTACAACTTCAGGAG-GATAAGA-CT-A-GATGCGATCT
* * * * ** *
18741818 GCTCCACTGCAACTTCAGGGAGATAAGATTGTCGGCTTTAATCTGCTCCGCTGCAACTTCAGGAA
1 GCT-CTCTACAACTTCAGAGAGATAAGATTGTAGGCTTTAATCCACTCCACTGCAACTTCAGGAA
** * *
18741883 GATAAGATTTGCCATTTTTAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACCTGCTTACTTAG
65 GATAAGATTTGCCAGCTTTAATCTGCCCCACTGCAACTTCAGGAGGATAAGACCTGCATACTTAG
*
18741948 TCTG-CTCCACTACAACTTTAGG-GAGATAAGACTAGATGCGATCT
130 TCTGTCT-CACTACAACTTCAGGAG-GATAAGACTAGATGCGATCT
* *
18741992 GCTCTCTACAACTTCAGAGAGATAAGATCTG-AGGTTTTAATCCACTCCACTGCAACTTCAGGGA
1 GCTCTCTACAACTTCAGAGAGATAAGAT-TGTAGGCTTTAATCCACTCCACTGCAACTTCAGGAA
* * * * * **
18742056 GATAGGA-TTGTCGGCTTTAATCTGCTCCGCTGCAACTTCATGGA-GATAAGATTTGTCAT-CTT
65 GATAAGATTTGCCAGCTTTAATCTGCCCCACTGCAACTTCA-GGAGGATAAGACCTG-CATAC-T
*
18742118 TAGTCTGTCTCACTGCAACTTCAGGAGGATAAGACT
127 TAGTCTGTCTCACTACAACTTCAGGAGGATAAGACT
18742154 CGATCTGTCA
Statistics
Matches: 282, Mismatches: 39, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
172 36 0.13
173 194 0.69
174 21 0.07
175 2 0.01
176 8 0.03
177 20 0.07
178 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (173 bp):
GCTCTCTACAACTTCAGAGAGATAAGATTGTAGGCTTTAATCCACTCCACTGCAACTTCAGGAAG
ATAAGATTTGCCAGCTTTAATCTGCCCCACTGCAACTTCAGGAGGATAAGACCTGCATACTTAGT
CTGTCTCACTACAACTTCAGGAGGATAAGACTAGATGCGATCT
Found at i:18756941 original size:100 final size:101
Alignment explanation
Indices: 18756768--18756975 Score: 373
Period size: 100 Copynumber: 2.1 Consensus size: 101
18756758 GCAATAAAAC
*
18756768 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATTCC
18756833 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTA-
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
18756868 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATTCC
* * *
18756933 TTTAAAATCTCAAACTTGGGATATTTCCTTTATTAT
66 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
18756969 TTTAAAA
1 TTTAAAA
18756976 AAAATCTTCA
Statistics
Matches: 103, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
100 96 0.93
101 7 0.07
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (101 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATTCC
TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
Found at i:18758522 original size:15 final size:15
Alignment explanation
Indices: 18758504--18758533 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18758494 ACACATAATG
18758504 ATAAAAAAACATAAA
1 ATAAAAAAACATAAA
*
18758519 ATAAAAAAATATAAA
1 ATAAAAAAACATAAA
18758534 TATCAACCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (15 bp):
ATAAAAAAACATAAA
Found at i:18768742 original size:27 final size:27
Alignment explanation
Indices: 18768712--18768764 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
18768702 TACAGATTTT
*
18768712 CCACCAAGGAGACCCACTCAGAGTACG
1 CCACAAAGGAGACCCACTCAGAGTACG
* * *
18768739 CCACAAAGGTGATCCACTCCGAGTAC
1 CCACAAAGGAGACCCACTCAGAGTAC
18768765 ACCATGAAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.21, T:0.11
Consensus pattern (27 bp):
CCACAAAGGAGACCCACTCAGAGTACG
Found at i:18768774 original size:27 final size:27
Alignment explanation
Indices: 18768725--18768778 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18768715 CCAAGGAGAC
*
18768725 CCACTCAGAGTACGCCACAAAGGTGAT
1 CCACTCAGAGTACACCACAAAGGTGAT
* **
18768752 CCACTCCGAGTACACCATGAAGGTGAT
1 CCACTCAGAGTACACCACAAAGGTGAT
18768779 TTATTTAGAT
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:0.31, C:0.30, G:0.22, T:0.17
Consensus pattern (27 bp):
CCACTCAGAGTACACCACAAAGGTGAT
Found at i:18770191 original size:38 final size:37
Alignment explanation
Indices: 18770140--18770322 Score: 213
Period size: 38 Copynumber: 4.8 Consensus size: 37
18770130 TGAATTATAT
* *
18770140 TGTTATTCAAGCTTTGTGCCTAGCAAGCTTTGTGCCGG
1 TGTTATTC-AGCTTTGTGCCTAGCAGGCTTAGTGCCGG
*
18770178 TGTTATTCGAGCTTTGTGCCTAGCAGGCTTAGTGCCGA
1 TGTTATTC-AGCTTTGTGCCTAGCAGGCTTAGTGCCGG
* * *
18770216 TGTTATTCAGGCTTTTTGCCTAGCAAGCTTAGTGGCGG
1 TGTTATTCA-GCTTTGTGCCTAGCAGGCTTAGTGCCGG
* * * *
18770254 TGTTATTCAGAATTTATGCCTAGTAGGCTTAGTGTCGG
1 TGTTATTCAG-CTTTGTGCCTAGCAGGCTTAGTGCCGG
* *
18770292 TGTTATTTAGGCTTAGTGCCTAGCAGGCTTA
1 TGTTATTCA-GCTTTGTGCCTAGCAGGCTTA
18770323 TTACCAGTGT
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
37 2 0.02
38 121 0.98
39 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.27, T:0.37
Consensus pattern (37 bp):
TGTTATTCAGCTTTGTGCCTAGCAGGCTTAGTGCCGG
Found at i:18770274 original size:76 final size:76
Alignment explanation
Indices: 18770140--18770322 Score: 242
Period size: 76 Copynumber: 2.4 Consensus size: 76
18770130 TGAATTATAT
* * * *
18770140 TGTTATTCAAGCTTTGTGCCTAGCAAGCTTTGTGCCGGTGTTATTCGAGCTTTGTGCCTAGCAGG
1 TGTTATTCAGGCTTTGTGCCTAGCAAGCTTAGTGCCGGTGTTATTCGAGATTTATGCCTAGCAGG
18770205 CTTAGTGCCGA
66 CTTAGTGCCGA
* * *
18770216 TGTTATTCAGGCTTTTTGCCTAGCAAGCTTAGTGGCGGTGTTATTC-AGAATTTATGCCTAGTAG
1 TGTTATTCAGGCTTTGTGCCTAGCAAGCTTAGTGCCGGTGTTATTCGAG-ATTTATGCCTAGCAG
* *
18770280 GCTTAGTGTCGG
65 GCTTAGTGCCGA
* * *
18770292 TGTTATTTAGGCTTAGTGCCTAGCAGGCTTA
1 TGTTATTCAGGCTTTGTGCCTAGCAAGCTTA
18770323 TTACCAGTGT
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
75 2 0.02
76 91 0.98
ACGTcount: A:0.17, C:0.18, G:0.27, T:0.37
Consensus pattern (76 bp):
TGTTATTCAGGCTTTGTGCCTAGCAAGCTTAGTGCCGGTGTTATTCGAGATTTATGCCTAGCAGG
CTTAGTGCCGA
Found at i:18770839 original size:21 final size:21
Alignment explanation
Indices: 18770815--18770870 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
18770805 AACAGCGGTG
*
18770815 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
18770836 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
18770857 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
18770871 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:18774873 original size:39 final size:39
Alignment explanation
Indices: 18774819--18774899 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
18774809 ATGCAATCGA
18774819 TTTGTTCATCTTTAAAACTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAACTTTACTTGAACTATTGTTTTC
*
18774858 TTTGTTCATCTTTAAAGCTTTACTTGAACTATTGTTTTC
1 TTTGTTCATCTTTAAAACTTTACTTGAACTATTGTTTTC
18774897 TTT
1 TTT
18774900 TCACTTTAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (39 bp):
TTTGTTCATCTTTAAAACTTTACTTGAACTATTGTTTTC
Found at i:18775261 original size:30 final size:29
Alignment explanation
Indices: 18775209--18775780 Score: 984
Period size: 29 Copynumber: 19.2 Consensus size: 29
18775199 GAATAAACCG
18775209 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18775238 AATACACTACATATATATTTTTATTTTTAA
1 AATACACTACATATAT-TTTTTATTTTTAA
18775268 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18775297 AATACACTACATATATTTTTTTTATTTTTAA
1 AATACACTACATATA--TTTTTTATTTTTAA
18775328 AATACACTACATATA-TTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18775356 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAA
*
18775386 AATACAGTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAA
18775416 AATACACTACATATATTTTTTTTTATTTTTAA
1 AATACACTACATATA---TTTTTTATTTTTAA
18775448 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
*
18775477 AATAAACTACATATATTTTTTTTATTTTTAA
1 AATACACTACATATA--TTTTTTATTTTTAA
18775508 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18775537 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18775566 AATACACTACATATATTTCTTTATTTTTAA
1 AATACACTACATATATTT-TTTATTTTTAA
18775596 AATACACTACATATATTTTTTTTATTTTTAA
1 AATACACTACATATA--TTTTTTATTTTTAA
18775627 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18775656 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18775685 AATACACTACATATATTTTTTATTTTTAA
1 AATACACTACATATATTTTTTATTTTTAA
18775714 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAA
18775744 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATA-TTTTTTATTTTTAA
18775774 AATACAC
1 AATACAC
18775781 AAATACAATG
Statistics
Matches: 526, Mismatches: 4, Indels: 25
0.95 0.01 0.05
Matches are distributed among these distances:
28 28 0.05
29 220 0.42
30 162 0.31
31 83 0.16
32 33 0.06
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (29 bp):
AATACACTACATATATTTTTTATTTTTAA
Found at i:18775412 original size:148 final size:147
Alignment explanation
Indices: 18775209--18775780 Score: 1015
Period size: 148 Copynumber: 3.9 Consensus size: 147
18775199 GAATAAACCG
18775209 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATATTTTTATTTTTAAAATACA
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATAT-TTTTTATTTTTAAAATACA
18775274 CTACATATA-TTTTTTATTTTTAAAATACACTACATATATTTTTTTTATTTTTAAAATACACTAC
65 CTACATATATTTTTTTATTTTTAAAATACACTACATATA-TTTTTTTATTTTTAAAATACACTAC
18775338 ATATA-TTTTTATTTTTAA
129 ATATATTTTTTATTTTTAA
*
18775356 AATACACTACATATATTTTTTTATTTTTAAAATACAGTACATATATTTTTTTATTTTTAAAATAC
1 AATACACTACATATA-TTTTTTATTTTTAAAATACACTACATATA-TTTTTTATTTTTAAAATAC
*
18775421 ACTACATATATTTTTTTTTATTTTTAAAATACACTACATATA-TTTTTTATTTTTAAAATAAACT
64 ACTACATATA--TTTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACT
18775485 ACATATATTTTTTTTATTTTTAA
127 ACATATA--TTTTTTATTTTTAA
18775508 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACAC
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACAC
*
18775573 TACATATATTTCTTTATTTTTAAAATACACTACATATATTTTTTTTATTTTTAAAATACACTACA
66 TACATATATTTTTTTATTTTTAAAATACACTACATATA-TTTTTTTATTTTTAAAATACACTACA
18775638 TATATTTTTTATTTTTAA
130 TATATTTTTTATTTTTAA
18775656 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACAC
1 AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACAC
18775721 TACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACAC
66 TACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACAC
18775781 AAATACAATG
Statistics
Matches: 409, Mismatches: 6, Indels: 20
0.94 0.01 0.05
Matches are distributed among these distances:
147 37 0.09
148 201 0.49
149 29 0.07
150 57 0.14
151 57 0.14
152 28 0.07
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (147 bp):
AATACACTACATATATTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACAC
TACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTTATTTTTAAAATACACTACAT
ATATTTTTTATTTTTAA
Found at i:18778681 original size:17 final size:17
Alignment explanation
Indices: 18778659--18778692 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18778649 GCTTCGAGGG
*
18778659 AAAACTATTTTAAATAA
1 AAAACTATTCTAAATAA
18778676 AAAACTATTCTAAATAA
1 AAAACTATTCTAAATAA
18778693 TAAATATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAACTATTCTAAATAA
Found at i:18778917 original size:21 final size:21
Alignment explanation
Indices: 18778882--18778966 Score: 98
Period size: 21 Copynumber: 4.0 Consensus size: 21
18778872 CCAAGAACAA
*
18778882 AGCAAAAAAGAAGGGAGAAACC
1 AGCAAAAACG-AGGGAGAAACC
*
18778904 AGCAAAAACGAGGGACAAACC
1 AGCAAAAACGAGGGAGAAACC
* * *
18778925 AGTAAGAACAAGGGAGAAACC
1 AGCAAAAACGAGGGAGAAACC
*
18778946 AGCAAGAACGAGGGGAGAAAC
1 AGCAAAAACGA-GGGAGAAAC
18778967 TGCTGTTTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
21 36 0.67
22 18 0.33
ACGTcount: A:0.53, C:0.16, G:0.29, T:0.01
Consensus pattern (21 bp):
AGCAAAAACGAGGGAGAAACC
Found at i:18782763 original size:87 final size:86
Alignment explanation
Indices: 18782644--18782899 Score: 354
Period size: 87 Copynumber: 3.0 Consensus size: 86
18782634 TGTACATGCA
* * * *
18782644 TAAGATTGAG-TTATTATTCTTAATGAATTCATAGCCCAAAGTTTGGGTAGTCCTATTGAGACAG
1 TAAGGTTGAGTTTATTACTCTTAATGAACTCATATCCCAAAGTTTGGGT-GTCCTATTGAGACAG
18782708 ACTTGATGAATTCACCGACATG
65 ACTTGATGAATTCACCGACATG
*
18782730 TAAGGTTGAGTTTCTTACTCTTAATGAACTCATATCCCAAAGTTTGGGTGATCCTATTGAGACAG
1 TAAGGTTGAGTTTATTACTCTTAATGAACTCATATCCCAAAGTTTGGGTG-TCCTATTGAGACAG
* *
18782795 ACTTGATGAATTCACTGACGTG
65 ACTTGATGAATTCACCGACATG
* * * * *
18782817 TGAGGTTGAGTTTATTACTCTTAATGAGCTCATATTCTAAAGTTTGGGTGGT-CTAATTGAGACG
1 TAAGGTTGAGTTTATTACTCTTAATGAACTCATATCCCAAAGTTTGGGT-GTCCT-ATTGAGACA
18782881 GACTTGATGAATTCACCGA
64 GACTTGATGAATTCACCGA
18782900 ATTTAAATTT
Statistics
Matches: 152, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
86 12 0.08
87 139 0.91
88 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (86 bp):
TAAGGTTGAGTTTATTACTCTTAATGAACTCATATCCCAAAGTTTGGGTGTCCTATTGAGACAGA
CTTGATGAATTCACCGACATG
Found at i:18785054 original size:7 final size:7
Alignment explanation
Indices: 18785042--18785095 Score: 81
Period size: 7 Copynumber: 7.7 Consensus size: 7
18785032 CAATTTTCAA
18785042 CATCTTG
1 CATCTTG
18785049 CATCTTG
1 CATCTTG
*
18785056 CATCATG
1 CATCTTG
*
18785063 CATCATG
1 CATCTTG
*
18785070 CATCATG
1 CATCTTG
18785077 CATCTTG
1 CATCTTG
18785084 CATCTTG
1 CATCTTG
18785091 CATCT
1 CATCT
18785096 CTCTTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (7 bp):
CATCTTG
Found at i:18790727 original size:4 final size:4
Alignment explanation
Indices: 18790718--18790786 Score: 129
Period size: 4 Copynumber: 17.2 Consensus size: 4
18790708 ACAGTACTAA
18790718 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
18790766 ACAT ACAT ATAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT A
18790787 AACATTAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:18794471 original size:28 final size:27
Alignment explanation
Indices: 18794409--18794460 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
18794399 GGTAATAGAT
*
18794409 ATTTTTAATTATAAAAATGCAATACGC
1 ATTTTTAATTATAAAAATGCAAGACGC
*
18794436 ATTTTTAATTATAAAAATGTAAGAC
1 ATTTTTAATTATAAAAATGCAAGAC
18794461 ATTCTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (27 bp):
ATTTTTAATTATAAAAATGCAAGACGC
Found at i:18794746 original size:24 final size:25
Alignment explanation
Indices: 18794719--18794767 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
18794709 GGTAAATTTT
18794719 AATTAA-AAATATTTTGTTGA-ATAA
1 AATTAATAAATATTTT-TTGACATAA
*
18794743 AATTAATATATATTTTTTGACATAA
1 AATTAATAAATATTTTTTGACATAA
18794768 TTAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (25 bp):
AATTAATAAATATTTTTTGACATAA
Found at i:18794769 original size:23 final size:23
Alignment explanation
Indices: 18794718--18794777 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
18794708 AGGTAAATTT
*
18794718 TAATTAA-AAATATTTTGTTGAA
1 TAATTAATATATATTTTGTTGAA
18794740 TAAAATTAATATATATTTT-TTGACA
1 T--AATTAATATATATTTTGTTGA-A
18794765 TAATTAATATATA
1 TAATTAATATATA
18794778 AATTTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
22 1 0.03
23 12 0.36
24 10 0.30
25 10 0.30
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (23 bp):
TAATTAATATATATTTTGTTGAA
Found at i:18808793 original size:44 final size:44
Alignment explanation
Indices: 18808730--18808819 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
18808720 AACTCTATTT
* *
18808730 TTAGTTTACCACTTAAACTCTGATTAGTGTAAGTTATTTTAATA
1 TTAGTTTACCACTTAAACTCTGATCAGTATAAGTTATTTTAATA
* * *
18808774 TTAGTTT-CTCACTTAAACTCTTATCGGTATAGGTTATTTTAATA
1 TTAGTTTAC-CACTTAAACTCTGATCAGTATAAGTTATTTTAATA
18808818 TT
1 TT
18808820 CTTTAACCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (44 bp):
TTAGTTTACCACTTAAACTCTGATCAGTATAAGTTATTTTAATA
Found at i:18816210 original size:16 final size:16
Alignment explanation
Indices: 18816181--18816242 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
18816171 ACTGGAATTG
* *
18816181 AATAGGGTTATAATGA
1 AATAGAGTTGTAATGA
* *
18816197 AATACATTTGTAATAGA
1 AATAGAGTTGTAAT-GA
*
18816214 AA-AGAGTTATAATGA
1 AATAGAGTTGTAATGA
18816229 AATAGAGTTGTAAT
1 AATAGAGTTGTAAT
18816243 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
15 4 0.11
16 28 0.78
17 4 0.11
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.32
Consensus pattern (16 bp):
AATAGAGTTGTAATGA
Found at i:18816517 original size:24 final size:23
Alignment explanation
Indices: 18816490--18816553 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
18816480 ATATATTTTG
18816490 AAATAAAATATATTATATTAAATT
1 AAAT-AAATATATTATATTAAATT
* *
18816514 AAATTAATATTTTTATATTAAATT
1 AAATAAATA-TATTATATTAAATT
**
18816538 ATTTCAAATATATTAT
1 AAAT-AAATATATTAT
18816554 TTTTATATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
23 4 0.12
24 24 0.75
25 4 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATAAATATATTATATTAAATT
Found at i:18816530 original size:29 final size:30
Alignment explanation
Indices: 18816498--18816562 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
18816488 TGAAATAAAA
*
18816498 TATATTATATTAAATT-AAAT-TAATATTTT
1 TATATTAAATT-AATTCAAATATAATATTTT
* *
18816527 TATATTAAATTATTTCAAATATATTATTTT
1 TATATTAAATTAATTCAAATATAATATTTT
18816557 TATATT
1 TATATT
18816563 TTCTGAATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 3 0.10
29 14 0.45
30 14 0.45
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (30 bp):
TATATTAAATTAATTCAAATATAATATTTT
Found at i:18828368 original size:28 final size:28
Alignment explanation
Indices: 18828328--18828395 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
18828318 ATCGATATAA
*
18828328 CTTTTAAGTTTGAGATGCAATTAGAATG
1 CTTTGAAGTTTGAGATGCAATTAGAATG
*
18828356 CTTTGAAGTTTGAGATGTAATTAGAATG
1 CTTTGAAGTTTGAGATGCAATTAGAATG
*
18828384 TTTTGAAGTTTG
1 CTTTGAAGTTTG
18828396 TGAACCGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.43
Consensus pattern (28 bp):
CTTTGAAGTTTGAGATGCAATTAGAATG
Found at i:18839763 original size:662 final size:658
Alignment explanation
Indices: 18838460--18839778 Score: 1634
Period size: 662 Copynumber: 2.0 Consensus size: 658
18838450 TTCCATAATC
* * * *
18838460 TTAAACACAAATATCCCATAAACAAAGCCTTACTTCTTTAGGCATTCACGTAGATCTACTTTTCA
1 TTAAACACAAATATCACATAAACAAAGCATTACTTCTTTAGGCATTCACATAGATATACTTTTCA
* * * * **
18838525 TAGCCATAAAACTCACCTCGACATGGAGAAATTTTTAGAAGAATCTAGAGTTTTTGATCCAGCTT
66 GAGCCATAAAACTCACCTCGACATGGAGAAATTTCTAGAAGAATCCAAAGTTTCAGATCCAGCTT
* *
18838590 AAAAAAATTCTTCTCCTTTCCCTCTAGCCTTAGATTTCAATATTTTTAAAAGAGAAGAGAACTTC
131 AAAAAAATGCTTCTCCTTTCCCTCTAGCCTTAGATTTCAATATTTTAAAAAGAGAAGAGAACTTC
* * *
18838655 CTTTGTTTTAACTTGAAAACCTATTAAAATAGTCTAATTCTTTATTAAAACTTGAAAAATGTCAC
196 CTTTGTTTTAACTTGAAAACCTATTAAAATAGTCCAAGTCTTTATTAAAACTTGAAAAATGTAAC
* * * * *
18838720 ATCATTACTTAGTTGTCTTATCAAGGGTCTACAACTTCTGAGGAAACTAATTGAATACTTCCCCT
261 ATCACTACTGACTTGTCCTATCAAAGGTCTACAACTTCTGAGGAAACTAATTGAATACTTCCCCT
* * *
18838785 TTGTCTTTTAACTATCCTTGTTCTCATTCAATTAGCTCATAACCAGCTTACGTTATAACTTAACC
326 TTCTCTTTTAACTATCCTTGTTCTCATTCAATTAGCTCATAACCAGCTTACATTATAACTTAACA
* * *
18838850 TGTACAGTATCACAGGGTAAAGGGTATAGTACTTCTGACTAGGGCTCATACCATCAATATCTATT
391 TGTACAATATCACAGGGAAAAGGGTATACTACTTCTGACTAGGGCTCATACCATCAATATCTATT
* * * *** * *
18838915 TACTTGAGCACATCCTTCTTCCATCAAATTGTAATTATCTGGCATGGAACTCTCAATATCTTGAA
456 TACTTAACCACATCCTTCTTCCATAAAATCACAATTATCTGGCATGAAACTCTCAACATCTTGAA
** *
18838980 CACACAATTGTGTTCACCTACATTATACGTCAAAAAGTGCACTTGGGCGATTACCAATTCGCCAA
521 CACACAACAGTGTTCACCTACATTATACGTCAAAAAGTGCACTTGGGCGATTACCAATTCACCAA
* * * ** * *
18839045 TCCTACTTTTCAAAGGCTACGCTAGACCTTGTGCTTGCCAGACCCGGGCGTTATAGGCTTGCTCA
586 TACTACTTTTCAAAGACTACGCTAAACCTTGTGCCCGCCAGACCAGGGCATTATAGGCTTGCTCA
18839110 AAGAATTA
651 AAGAATTA
* * *
18839118 TTAAACACAAATATCATATAAA-AAAGGATTACTTCTTTAGGCATTCATATAGATATACTTTTCA
1 TTAAACACAAATATCACATAAACAAAGCATTACTTCTTTAGGCATTCACATAGATATACTTTTCA
* *
18839182 GAGCCATAAAACTCACCTGGACATGGAGAAATTTCTAGAAGAATCCAAAGTTTCAGATCTAGCTT
66 GAGCCATAAAACTCACCTCGACATGGAGAAATTTCTAGAAGAATCCAAAGTTTCAGATCCAGCTT
* *
18839247 AAAGATAAATGCTTCTCCTTTCCTTCTAGCCTTA-AGTTTCAGTATTTTCAAAAGAGAAGAAGAG
131 AAA-A-AAATGCTTCTCCTTTCCCTCTAGCCTTAGA-TTTCAATATTTT-AAAA-AG-AGAAGAG
** *
18839311 AAC-TCCTTT-TATTTCAACTT-AAAGACCTATTAAAATAGTCCAAGTCTTTATTGGAACTTGAC
190 AACTTCCTTTGT-TTT-AACTTGAAA-ACCTATTAAAATAGTCCAAGTCTTTATTAAAACTTGAA
* * *
18839373 AAATGTAACATCACTACTGACTTGTCCTATCAAAGGTCTACACCTTTTGAGGAAACTAATTGAGT
252 AAATGTAACATCACTACTGACTTGTCCTATCAAAGGTCTACAACTTCTGAGGAAACTAATTGAAT
*** *** * * **
18839438 ACTTTTTCTTTCTCTTTTAACTATCC-TGATTCTCATTTGGTTAGTTCCTAAGTAGCTTACATTA
317 ACTTCCCCTTTCTCTTTTAACTATCCTTG-TTCTCATTCAATTAGCTCATAACCAGCTTACATTA
* * * *
18839502 TAACTTAACATGTACAATATCATAGGGAAAATGGTGTACTACTTCTGAC-AGGGGCTCATACCTT
381 TAACTTAACATGTACAATATCACAGGGAAAAGGGTATACTACTTCTGACTA-GGGCTCATACCAT
* * * * * * * *
18839566 CAGTATTTATTTA-TCTAACCACATCTTTCTTCTATAAAATCACATTTATTTGGTATGAAATTCT
445 CAATATCTATTTACT-TAACCACATCCTTCTTCCATAAAATCACAATTATCTGGCATGAAACTCT
* * * *
18839630 CAACATCTTGAATACACAACAGTGTAATC-CC-CCATTATATG-CCAAAAGTGCACTTGGGCGAT
509 CAACATCTTGAACACACAACAGTGT--TCACCTACATTATACGTCAAAAAGTGCACTTGGGCGAT
* * * **
18839692 TACCAATTCACCAATAGTACTTTTCAAAGACTACGTTAAACCTTGTGCCCGCTAGAATTAGGGCA
572 TACCAATTCACCAATACTACTTTTCAAAGACTACGCTAAACCTTGTGCCCGCCAG-ACCAGGGCA
18839757 TTATAGGCTTGCTCAAAGAATT
636 TTATAGGCTTGCTCAAAGAATT
18839779 CTTATACTTA
Statistics
Matches: 558, Mismatches: 88, Indels: 26
0.83 0.13 0.04
Matches are distributed among these distances:
657 97 0.17
658 22 0.04
659 37 0.07
660 4 0.01
661 84 0.15
662 310 0.56
663 2 0.00
664 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (658 bp):
TTAAACACAAATATCACATAAACAAAGCATTACTTCTTTAGGCATTCACATAGATATACTTTTCA
GAGCCATAAAACTCACCTCGACATGGAGAAATTTCTAGAAGAATCCAAAGTTTCAGATCCAGCTT
AAAAAAATGCTTCTCCTTTCCCTCTAGCCTTAGATTTCAATATTTTAAAAAGAGAAGAGAACTTC
CTTTGTTTTAACTTGAAAACCTATTAAAATAGTCCAAGTCTTTATTAAAACTTGAAAAATGTAAC
ATCACTACTGACTTGTCCTATCAAAGGTCTACAACTTCTGAGGAAACTAATTGAATACTTCCCCT
TTCTCTTTTAACTATCCTTGTTCTCATTCAATTAGCTCATAACCAGCTTACATTATAACTTAACA
TGTACAATATCACAGGGAAAAGGGTATACTACTTCTGACTAGGGCTCATACCATCAATATCTATT
TACTTAACCACATCCTTCTTCCATAAAATCACAATTATCTGGCATGAAACTCTCAACATCTTGAA
CACACAACAGTGTTCACCTACATTATACGTCAAAAAGTGCACTTGGGCGATTACCAATTCACCAA
TACTACTTTTCAAAGACTACGCTAAACCTTGTGCCCGCCAGACCAGGGCATTATAGGCTTGCTCA
AAGAATTA
Found at i:18856296 original size:24 final size:23
Alignment explanation
Indices: 18856269--18856319 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
18856259 CGATAACAAT
* *
18856269 ATGCAAAAAATTCTACTAGTAAAA
1 ATGCAAAAAA-CCTACCAGTAAAA
* *
18856293 ATGCAGACAACCTACCAGTAAAA
1 ATGCAAAAAACCTACCAGTAAAA
18856316 ATGC
1 ATGC
18856320 GATAAGTCGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.49, C:0.20, G:0.12, T:0.20
Consensus pattern (23 bp):
ATGCAAAAAACCTACCAGTAAAA
Found at i:18866733 original size:42 final size:41
Alignment explanation
Indices: 18866631--18866825 Score: 160
Period size: 42 Copynumber: 4.7 Consensus size: 41
18866621 CGAATGTTGT
* * * **
18866631 ACTGAAGCACATAAGTGCTAAACAGAAACCTGTAAGGGTTGA
1 ACTGAAGCTCAGAAGAGCTAAACAGAAACCCATAAGGGTT-A
* * * *
18866673 ACGGAAGCTCATAGGAGCTGAACAGAAACCCATAAGGGTTA
1 ACTGAAGCTCAGAAGAGCTAAACAGAAACCCATAAGGGTTA
* *
18866714 ATCTGAAGCTCAGAAGAGCTAAA-ATAAAACCCATTAGGGTTAA
1 A-CTGAAGCTCAGAAGAGCTAAACA-GAAACCCATAAGGGTT-A
* * * * * * *
18866757 ACTGAAGCTCAAAAGAGTTGAACTGAAACTCATATGAGTTA
1 ACTGAAGCTCAGAAGAGCTAAACAGAAACCCATAAGGGTTA
*
18866798 ACTGAAGCTCATG-AGAGCTAAACGGAAA
1 ACTGAAGCTCA-GAAGAGCTAAACAGAAA
18866826 GCAAACACGA
Statistics
Matches: 122, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
41 27 0.22
42 93 0.76
43 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.19
Consensus pattern (41 bp):
ACTGAAGCTCAGAAGAGCTAAACAGAAACCCATAAGGGTTA
Found at i:18866779 original size:84 final size:83
Alignment explanation
Indices: 18866665--18866819 Score: 204
Period size: 84 Copynumber: 1.9 Consensus size: 83
18866655 GAAACCTGTA
* * * *
18866665 AGGGTTGAACGGAAGCTCATAGGAGCTGAACAGAAACCCATAAGGGTTAATCTGAAGCTCA-GAA
1 AGGGTTAAACGGAAGCTCAAAAGAGCTGAACAGAAACCCATAAGAGTTAA-CTGAAGCTCATG-A
18866729 GAGCTAAAATAAAACCCATT
64 GAGCTAAAATAAAACCCATT
* * * * *
18866749 AGGGTTAAACTGAAGCTCAAAAGAGTTGAACTGAAACTCATATGAGTTAACTGAAGCTCATGAGA
1 AGGGTTAAACGGAAGCTCAAAAGAGCTGAACAGAAACCCATAAGAGTTAACTGAAGCTCATGAGA
18866814 GCTAAA
66 GCTAAA
18866820 CGGAAAGCAA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
83 19 0.31
84 42 0.69
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (83 bp):
AGGGTTAAACGGAAGCTCAAAAGAGCTGAACAGAAACCCATAAGAGTTAACTGAAGCTCATGAGA
GCTAAAATAAAACCCATT
Found at i:18866802 original size:20 final size:21
Alignment explanation
Indices: 18866663--18866814 Score: 83
Period size: 21 Copynumber: 7.3 Consensus size: 21
18866653 CAGAAACCTG
* *
18866663 TAAGGGTTGAACGGAAGCTCA
1 TAAGAGTTGAACTGAAGCTCA
* * * * *
18866684 TAGGAGCTGAACAGAAACCCA
1 TAAGAGTTGAACTGAAGCTCA
*
18866705 TAAGGGTT-AATCTGAAGCTCA
1 TAAGAGTTGAA-CTGAAGCTCA
* * * * * * *
18866726 GAAGAGCTAAAATAAAACCCA
1 TAAGAGTTGAACTGAAGCTCA
* * *
18866747 TTAGGGTTAAACTGAAGCTCA
1 TAAGAGTTGAACTGAAGCTCA
* *
18866768 AAAGAGTTGAACTGAAACTCA
1 TAAGAGTTGAACTGAAGCTCA
*
18866789 TATGAGTT-AACTGAAGCTCA
1 TAAGAGTTGAACTGAAGCTCA
*
18866809 TGAGAG
1 TAAGAG
18866815 CTAAACGGAA
Statistics
Matches: 92, Mismatches: 37, Indels: 5
0.69 0.28 0.04
Matches are distributed among these distances:
20 17 0.18
21 73 0.79
22 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (21 bp):
TAAGAGTTGAACTGAAGCTCA
Found at i:18878643 original size:29 final size:29
Alignment explanation
Indices: 18878611--18878697 Score: 122
Period size: 31 Copynumber: 2.9 Consensus size: 29
18878601 TATTTTTTTA
* *
18878611 TTTTTGATTTAAAAATATTTTGAAAATACTT
1 TTTTTAATTTTAAAATATTTT-AAAATAC-T
18878642 TTTTTAATTTTAAAATATTTTAAAATACT
1 TTTTTAATTTTAAAATATTTTAAAATACT
18878671 TTTTT-ATTTTAAAATATTTTTAAAATA
1 TTTTTAATTTTAAAATA-TTTTAAAATA
18878698 AATACTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
28 11 0.21
29 16 0.30
30 7 0.13
31 19 0.36
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (29 bp):
TTTTTAATTTTAAAATATTTTAAAATACT
Found at i:18878667 original size:30 final size:28
Alignment explanation
Indices: 18878611--18878697 Score: 120
Period size: 29 Copynumber: 3.0 Consensus size: 28
18878601 TATTTTTTTA
* *
18878611 TTTTTGATTTAAAAATATTTTGAAAATAC
1 TTTTTTATTTTAAAATATTTT-AAAATAC
18878640 TTTTTTTAATTTTAAAATATTTTAAAATAC
1 -TTTTTT-ATTTTAAAATATTTTAAAATAC
18878670 TTTTTTATTTTAAAATATTTTTAAAATA
1 TTTTTTATTTTAAAATA-TTTTAAAATA
18878698 AATACTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
28 11 0.21
29 16 0.30
30 12 0.23
31 14 0.26
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (28 bp):
TTTTTTATTTTAAAATATTTTAAAATAC
Found at i:18878678 original size:18 final size:17
Alignment explanation
Indices: 18878657--18878691 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
18878647 AATTTTAAAA
18878657 TATTTTAAAATACTTTTT
1 TATTTTAAAATA-TTTTT
18878675 TATTTTAAAATATTTTT
1 TATTTTAAAATATTTTT
18878692 AAAATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTTAAAATATTTTT
Found at i:18878708 original size:28 final size:28
Alignment explanation
Indices: 18878648--18878710 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
18878638 ACTTTTTTTA
** **
18878648 ATTTTAAAATATTTTAAAATACTTTTTT
1 ATTTTAAAATATTTTAAAATAAATACTT
18878676 ATTTTAAAATATTTTTAAAATAAATACTT
1 ATTTTAAAATA-TTTTAAAATAAATACTT
18878705 -TTTTAA
1 ATTTTAA
18878711 TTTTTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTTTAAAATATTTTAAAATAAATACTT
Found at i:18879562 original size:7 final size:7
Alignment explanation
Indices: 18879546--18879579 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
18879536 TTCCAAGTTC
18879546 CTTTCC-
1 CTTTCCA
18879552 CTTTCCA
1 CTTTCCA
18879559 CTTTCC-
1 CTTTCCA
18879565 CTTTCCA
1 CTTTCCA
18879572 CTTTCCA
1 CTTTCCA
18879579 C
1 C
18879580 CATTTTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.09, C:0.47, G:0.00, T:0.44
Consensus pattern (7 bp):
CTTTCCA
Found at i:18879564 original size:13 final size:13
Alignment explanation
Indices: 18879546--18879577 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
18879536 TTCCAAGTTC
18879546 CTTTCCCTTTCCA
1 CTTTCCCTTTCCA
18879559 CTTTCCCTTTCCA
1 CTTTCCCTTTCCA
18879572 CTTTCC
1 CTTTCC
18879578 ACCATTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.47, G:0.00, T:0.47
Consensus pattern (13 bp):
CTTTCCCTTTCCA
Found at i:18881753 original size:27 final size:26
Alignment explanation
Indices: 18881686--18881763 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 26
18881676 CCCCTCCACA
* * *
18881686 ATTCACCACAAAGGCATTCCTTTGAT
1 ATTCACCACAAAGGCTTTTCTTTCAT
* *
18881712 ATTCAAACACGAAGGCTTTTCTTTCAT
1 ATTC-ACCACAAAGGCTTTTCTTTCAT
18881739 ATTTCACCACAAAGGCTTTTCTTTC
1 A-TTCACCACAAAGGCTTTTCTTTC
18881764 CTGGCGTGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (26 bp):
ATTCACCACAAAGGCTTTTCTTTCAT
Found at i:18894195 original size:19 final size:19
Alignment explanation
Indices: 18894171--18894209 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18894161 ATAAAAGTCA
18894171 TTCATGACTTTGTGCTAAC
1 TTCATGACTTTGTGCTAAC
18894190 TTCATGACTTTGTGCTAAC
1 TTCATGACTTTGTGCTAAC
18894209 T
1 T
18894210 GACTCTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (19 bp):
TTCATGACTTTGTGCTAAC
Found at i:18906802 original size:38 final size:38
Alignment explanation
Indices: 18906751--18906824 Score: 123
Period size: 38 Copynumber: 1.9 Consensus size: 38
18906741 TGTAATAGAA
18906751 CAATTCAACACTAGCAAT-GAACATGCTTAACATGTATT
1 CAATTCAACACTAGCAATAG-ACATGCTTAACATGTATT
*
18906789 CAATTCAACACTAGCAGTAGACATGCTTAACATGTA
1 CAATTCAACACTAGCAATAGACATGCTTAACATGTA
18906825 CTCAGTAGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 33 0.97
39 1 0.03
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (38 bp):
CAATTCAACACTAGCAATAGACATGCTTAACATGTATT
Found at i:18907610 original size:16 final size:18
Alignment explanation
Indices: 18907591--18907624 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18907581 AATTTGATGT
18907591 AAAGAAA-A-GGAAAAAA
1 AAAGAAAGAGGGAAAAAA
18907607 AAAGAAAGAGGGAAAAAA
1 AAAGAAAGAGGGAAAAAA
18907625 TAAAAGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAGGGAAAAAA
Found at i:18914852 original size:24 final size:21
Alignment explanation
Indices: 18914797--18914852 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
18914787 GCAACACACA
*
18914797 ATATTTTATATATAAAATATT
1 ATATTTTAAATATAAAATATT
*
18914818 ATAATTATAAATATAAAAATTCATT
1 AT-ATTTTAAATAT-AAAA-T-ATT
18914843 ATATTTTAAA
1 ATATTTTAAA
18914853 ATTTTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.07
22 9 0.32
23 4 0.14
24 8 0.29
25 5 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATTTTAAATATAAAATATT
Found at i:18914892 original size:43 final size:49
Alignment explanation
Indices: 18914842--18914932 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 49
18914832 AAAAATTCAT
18914842 TATATTTTAAA-ATT-TTTTAT-T-TTA-TATATATT-TATTAT-TTATC
1 TATATTTTAAATATTCTTTTATATCTTAGT-TATATTATATTATATTATC
18914885 TATATTTTAAATATTCTTTTATATCTTAGTTATATTATATTATATTAT
1 TATATTTTAAATATTCTTTTATATCTTAGTTATATTATATTATATTAT
18914933 ATTATATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
43 11 0.27
44 3 0.07
45 6 0.15
46 1 0.02
47 9 0.22
48 7 0.17
49 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (49 bp):
TATATTTTAAATATTCTTTTATATCTTAGTTATATTATATTATATTATC
Found at i:18914924 original size:5 final size:5
Alignment explanation
Indices: 18914914--18914959 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
18914904 TATATCTTAG
18914914 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T
18914960 GTTATATTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:18915053 original size:17 final size:17
Alignment explanation
Indices: 18915031--18915069 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18915021 CTACCTCCAT
* *
18915031 TTTTATTTTTTAGTTTA
1 TTTTATATTTTAGTATA
18915048 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
18915065 TTTTA
1 TTTTA
18915070 CATCTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:18915416 original size:41 final size:41
Alignment explanation
Indices: 18915371--18915465 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
18915361 TGATGTGGCA
*
18915371 GAAAGCGCTTCCAGCAGAAATCGTTTTTCTGCAAA-TT-ACCT
1 GAAAGCGCTTCCAGCAGAAAGCGTTTTTCT--AAATTTCACCT
* * * *
18915412 GAAAGCGCTTACAGCTGGACGCGTTTTTCTAAATTTCACCT
1 GAAAGCGCTTCCAGCAGAAAGCGTTTTTCTAAATTTCACCT
*
18915453 GAAAGGGCTTCCA
1 GAAAGCGCTTCCA
18915466 ATTGGAAGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
39 3 0.07
40 2 0.04
41 40 0.89
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (41 bp):
GAAAGCGCTTCCAGCAGAAAGCGTTTTTCTAAATTTCACCT
Found at i:18917231 original size:43 final size:43
Alignment explanation
Indices: 18917174--18917443 Score: 301
Period size: 43 Copynumber: 6.3 Consensus size: 43
18917164 TCTTTCACAT
* *
18917174 AAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * ** *
18917217 AAATGCCGCTAAAGATCATGACCTTTAGCGGCG-TTTAAAGAG
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* ** ** *
18917259 AAGCGCCGCTAAAGGCCATGTTCTTTAACGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* *
18917302 AAACGCAGTTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * *
18917345 AAACGCCACTAAAGAACATGACTTTTAGCGACGCCTTTT-TCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCG-CTTTTATCAC
* * * *
18917388 AAACACCGCTAAGGAACATGACCTTTAGCGACGCTTTTTTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
*
18917431 AAACGCTGCTAAA
1 AAACGCCGCTAAA
18917444 AGCACCGTTC
Statistics
Matches: 185, Mismatches: 39, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
42 35 0.19
43 145 0.78
44 5 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
Found at i:18917322 original size:85 final size:85
Alignment explanation
Indices: 18917177--18917417 Score: 268
Period size: 85 Copynumber: 2.8 Consensus size: 85
18917167 TTCACATAAA
* * * *
18917177 CGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTGTCACAAATGCCGCTAAAGATCATGACCTT
1 CGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTATCACAAACGCAGCTAAAGAACATGACCTT
18917242 TAGCGGCGTTTAAAGAGAAG
66 TAGCGGCGTTTAAAGAGAAG
** ** *
18917262 CGCCGCTAAAGGCCATGTTCTTTAACGGCGCTTTTATCACAAACGCAGTTAAAGAACATGACCTT
1 CGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTATCACAAACGCAGCTAAAGAACATGACCTT
* ** * *
18917327 TAGCGGCGCTTTTATCACAAA
66 TAGCGGCG-TTTAAAGAGAAG
* * * * * * *
18917348 CGCCACTAAAGAACATGACTTTTAGCGACGCCTTTT-TCACAAACACCGCTAAGGAACATGACCT
1 CGCCGCTAAAGAACATGACCTTTAACGGCG-CTTTTATCACAAACGCAGCTAAAGAACATGACCT
18917412 TTAGCG
65 TTAGCG
18917418 ACGCTTTTTT
Statistics
Matches: 128, Mismatches: 26, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
85 64 0.50
86 59 0.46
87 5 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (85 bp):
CGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTATCACAAACGCAGCTAAAGAACATGACCTT
TAGCGGCGTTTAAAGAGAAG
Found at i:18917458 original size:86 final size:84
Alignment explanation
Indices: 18917278--18917468 Score: 197
Period size: 86 Copynumber: 2.2 Consensus size: 84
18917268 TAAAGGCCAT
* * * * *
18917278 GTTCTTTAACGGCGCTTTTATCACAAACGCAGTTAAAGAACATGACCTTTAGCGGCGCTTTTATC
1 GTTCTTTAGCGACGCTTTTATCACAAACACAGCTAAAGAACATGACCTTTAGCGACGCTTTTATC
18917343 ACAAACGCCACTAAAGAAC
66 ACAAACGCCACTAAAGAAC
* * * *
18917362 ATGACTTTTAGCGACGCCTTTT-TCACAAACACCGCTAAGGAACATGACCTTTAGCGACGCTTTT
1 GT-TC-TTTAGCGACG-CTTTTATCACAAACACAGCTAAAGAACATGACCTTTAGCGACGCTTTT
* ** *
18917426 TTCACAAACGCTGCTAAAAGCACC
63 ATCACAAACGCCACT-AAAG-AAC
*
18917450 GTTCTTTAGCGGCG-TTTTA
1 GTTCTTTAGCGACGCTTTTA
18917469 CAAAAAATGC
Statistics
Matches: 85, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
84 5 0.06
85 1 0.01
86 66 0.78
87 10 0.12
88 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (84 bp):
GTTCTTTAGCGACGCTTTTATCACAAACACAGCTAAAGAACATGACCTTTAGCGACGCTTTTATC
ACAAACGCCACTAAAGAAC
Found at i:18921563 original size:12 final size:12
Alignment explanation
Indices: 18921548--18921573 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18921538 ATCATCATCT
18921548 TCATCAGATTCA
1 TCATCAGATTCA
18921560 TCATCAGATTCA
1 TCATCAGATTCA
18921572 TC
1 TC
18921574 CTTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:18923068 original size:13 final size:13
Alignment explanation
Indices: 18923052--18923084 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
18923042 AATGGAATAA
18923052 AAATAATATAAAC-
1 AAATAA-ATAAACG
18923065 AAATAAATAAACG
1 AAATAAATAAACG
18923078 AAATAAA
1 AAATAAA
18923085 AAGCAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATAAATAAACG
Found at i:18924300 original size:20 final size:20
Alignment explanation
Indices: 18924271--18924321 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
18924261 TTTATGTACG
18924271 AATTAAAATAAAA-AACAATA
1 AATTAAAATAAAACAA-AATA
*
18924291 AATTAGAATAAAACAAAATA
1 AATTAAAATAAAACAAAATA
18924311 AA-TAAAA-AAAA
1 AATTAAAATAAAA
18924322 TGCGAATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.14
19 4 0.14
20 18 0.64
21 2 0.07
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (20 bp):
AATTAAAATAAAACAAAATA
Found at i:18925053 original size:44 final size:44
Alignment explanation
Indices: 18924951--18925503 Score: 292
Period size: 44 Copynumber: 12.8 Consensus size: 44
18924941 TCGGCTTTAA
* *
18924951 TCTGCTCCACTGCAACTTCAAGGA-GATAAGATTTGC-CATCTTTAG
1 TCTGCTCCACTGCAACTTC-AGGAGGATAAGACTTGCTTA-C-TTAG
*
18924996 TCTGC-CTCACTGCAACTTCAGGAGGATAAGACTTGCTTACGTAG
1 TCTGCTC-CACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
* * * * * * *
18925040 TTTGCTCCACTGCAACCTCAGG-GAGATATGACTAG-ATGC-GA-
1 TCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCTTACTTAG
* * *
18925081 TCTGCT-CTCTGCAACTTCAGGAGGATAAGACTTGCGTATTTAG
1 TCTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
*** * *
18925124 TCTGCTCCACTGCAACTTCAGG-GAGATAAGAC-TAAAT-GTGA-
1 TCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCTTACTTAG
* * *
18925165 TCTGCT-CTCTGCAACTTCA-GAGAGATAAGA--T-CTAAGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCTTA--C-TTAG
* * * * *
18925208 ACCGCTCCACTGCAACTTCACGGA-GATAGGATTATCGGC-T--TTAA
1 TCTGCTCCACTGCAACTTCA-GGAGGATAAGACT-T--GCTTACTTAG
* *
18925252 TCTGCTCCACTGCAACTTCAGG-GAGATAAGACTTGCCTATTTAG
1 TCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCTTACTTAG
*
18925296 TCTGCTCCACTGCAACTTCAGG-GAGATAAGACTTGC-CATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCTTA-CTT-AG
*
18925341 TCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTA-
1 TCTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
* * * * *
18925384 --TGCT-CTCTGCAACTTCAGGAAGATAAGATCTGAGGTT--TTAA
1 TCTGCTCCACTGCAACTTCAGGAGGATAAGA-CT-TGCTTACTTAG
* * * *
18925425 TCTGCTCTACTGCAACTTCAGG-GAGATAAGA-TT-ATCGACTTAA
1 TCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCT-TACTTAG
* *
18925468 TCTACTCCACTGTAACTTCAGG-GAGATAAGACTTGC
1 TCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGC
18925504 CATCTTCGAT
Statistics
Matches: 401, Mismatches: 60, Indels: 94
0.72 0.11 0.17
Matches are distributed among these distances:
39 2 0.00
40 69 0.17
41 20 0.05
42 11 0.03
43 56 0.14
44 168 0.42
45 68 0.17
46 5 0.01
47 1 0.00
50 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
Found at i:18925109 original size:84 final size:84
Alignment explanation
Indices: 18924996--18925328 Score: 298
Period size: 84 Copynumber: 3.9 Consensus size: 84
18924986 CCATCTTTAG
* * *
18924996 TCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACGTAGTTTGCTCCACTGCAACCTCAG
1 TCTG-CTCTCTGCAACTTCAGGAGGATAAGACTTGCGTACGTAGTCTGCTCCACTGCAACCTCAG
* *
18925061 GGAGATATGACTAGATGCGA
65 GGAGATAAGACTAAATGCGA
** *
18925081 TCTGCTCTCTGCAACTTCAGGAGGATAAGACTTGCGTATTTAGTCTGCTCCACTGCAACTTCAGG
1 TCTGCTCTCTGCAACTTCAGGAGGATAAGACTTGCGTACGTAGTCTGCTCCACTGCAACCTCAGG
*
18925146 GAGATAAGACTAAATGTGA
66 GAGATAAGACTAAATGCGA
* * ** * *
18925165 TCTGCTCTCTGCAACTTCA-GAGAGATAAGATCTAAG-G--CTTTAAACCGCTCCACTGCAACTT
1 TCTGCTCTCTGCAACTTCAGGAG-GATAAGA-CT-TGCGTAC-GTAGTCTGCTCCACTGCAACCT
* * * *** *
18925226 CACGGAGATAGGATTATCGGCTTTAA
62 CAGGGAGATAAGACTAAATGC---GA
* * ** *
18925252 TCTGCTCCACTGCAACTTCAGG-GAGATAAGACTTGCCTATTTAGTCTGCTCCACTGCAACTTCA
1 TCTGCT-CTCTGCAACTTCAGGAG-GATAAGACTTGCGTACGTAGTCTGCTCCACTGCAACCTCA
18925316 GGGAGATAAGACT
64 GGGAGATAAGACT
18925329 TGCCATCTTC
Statistics
Matches: 204, Mismatches: 32, Indels: 21
0.79 0.12 0.08
Matches are distributed among these distances:
83 3 0.01
84 130 0.64
85 7 0.03
86 2 0.01
87 9 0.04
88 52 0.25
89 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (84 bp):
TCTGCTCTCTGCAACTTCAGGAGGATAAGACTTGCGTACGTAGTCTGCTCCACTGCAACCTCAGG
GAGATAAGACTAAATGCGA
Found at i:18925519 original size:217 final size:215
Alignment explanation
Indices: 18925044--18925520 Score: 584
Period size: 217 Copynumber: 2.2 Consensus size: 215
18925034 ACGTAGTTTG
* * * * *
18925044 CTCCACTGCAACCTCAGGGAGATATGACTAG---A-TGCGATCTGCT-CTCTGCAACTTCAGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCTATTTCGATCTGCTCCACTGCAACTTCAGGAG
* * *
18925104 GATAAGACTTGCGTATTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATGTGATCTG
66 GATAAGACTTGCGCATTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACT--ATGTGATATG
18925169 CTCTCTGCAACTTCAGAGAGATAAGATCTAAGGCTTTAAACCGCTCCACTGCAACTTCACGGAGA
129 CTCTCTGCAACTTCAGAGAGATAAGATCTAAGGCTTTAAACCGCTCCACTGCAACTTCACGGAGA
* * *
18925234 TAGGATTATCGGCTTTAATCTG
194 TAAGATTATCGACTTTAATCTA
*
18925256 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCTATTTAG-TCTGCTCCACTGCAACTTCAGG-G
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCTATTTCGATCTGCTCCACTGCAACTTCAGGAG
*
18925319 AGATAAGACTTGC-CATCTTCAGTCTGCCCCACTGCAACTTCA-GGAGGATAAGACT-TGCTTAC
66 -GATAAGACTTGCGCAT-TT-AGTCTGCCCCACTGCAACTTCAGGGA-GATAAGACTATG-TGA-
* * * * *
18925381 TTATGCTCTCTGCAACTTCAG-GAAGATAAGATCTGAGGTTTTAATCTGCTCTACTGCAACTTCA
125 -TATGCTCTCTGCAACTTCAGAG-AGATAAGATCTAAGGCTTTAAACCGCTCCACTGCAACTTCA
*
18925445 GGGAGATAAGATTATCGAC-TTAATCTA
188 CGGAGATAAGATTATCGACTTTAATCTA
*
18925472 CTCCACTGTAACTTCAGGGAGATAAGACTTGCC-ATCTTCGATCTGCTCC
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCTAT-TTCGATCTGCTCC
18925521 GCTGTCGATG
Statistics
Matches: 229, Mismatches: 21, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
212 28 0.12
214 2 0.01
215 14 0.06
216 76 0.33
217 109 0.48
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (215 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCCTATTTCGATCTGCTCCACTGCAACTTCAGGAG
GATAAGACTTGCGCATTTAGTCTGCCCCACTGCAACTTCAGGGAGATAAGACTATGTGATATGCT
CTCTGCAACTTCAGAGAGATAAGATCTAAGGCTTTAAACCGCTCCACTGCAACTTCACGGAGATA
AGATTATCGACTTTAATCTA
Found at i:18926765 original size:13 final size:13
Alignment explanation
Indices: 18926731--18926770 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
18926721 CACCTTGGCC
18926731 TCTCTATTTTCTT
1 TCTCTATTTTCTT
18926744 TCT-TATTTTCTT
1 TCTCTATTTTCTT
*
18926756 TTTCTATTTT-TT
1 TCTCTATTTTCTT
18926768 TCT
1 TCT
18926771 TTTCGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (13 bp):
TCTCTATTTTCTT
Found at i:18932717 original size:21 final size:21
Alignment explanation
Indices: 18932676--18932717 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18932666 CATATAGGTT
* *
18932676 ATAAAAAATAATTACATATAA
1 ATAAAAAATAAATACAAATAA
18932697 ATAAAAAATAAAATA-AAATAA
1 ATAAAAAAT-AAATACAAATAA
18932718 TTATATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
ATAAAAAATAAATACAAATAA
Found at i:18932800 original size:24 final size:21
Alignment explanation
Indices: 18932773--18932827 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 21
18932763 TACATATATT
18932773 TAAAAAAATTAATATGAAAAAGAA
1 TAAAAAAATTAAT-T-AAAAA-AA
*
18932797 TAAAAAAACTAATTAAAAAAA
1 TAAAAAAATTAATTAAAAAAA
18932818 TAAAGAAAAT
1 TAAA-AAAAT
18932828 GAAAAAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.21
22 9 0.32
23 1 0.04
24 12 0.43
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (21 bp):
TAAAAAAATTAATTAAAAAAA
Found at i:18935077 original size:9 final size:9
Alignment explanation
Indices: 18935063--18935132 Score: 65
Period size: 9 Copynumber: 8.0 Consensus size: 9
18935053 CAAGTATAAA
18935063 TAAGTTATG
1 TAAGTTATG
18935072 TAAGTTATG
1 TAAGTTATG
* * *
18935081 ATATGCTATA
1 -TAAGTTATG
*
18935091 T-ATTTATG
1 TAAGTTATG
18935099 T-A-TTATG
1 TAAGTTATG
18935106 TAAGTTATG
1 TAAGTTATG
18935115 TAAGTTATG
1 TAAGTTATG
*
18935124 TGAGTTATG
1 TAAGTTATG
18935133 ATATGATATA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 32 0.64
10 6 0.12
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:18935132 original size:34 final size:34
Alignment explanation
Indices: 18935067--18935132 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
18935057 TATAAATAAG
* *
18935067 TTATGTAAGTTATGATATGCTATATATTTATGTA
1 TTATGTAAGTTATGATAAGCTATATAGTTATGTA
* *
18935101 TTATGTAAGTTATG-TAAGTTATGTGAGTTATG
1 TTATGTAAGTTATGATAAGCTATAT-AGTTATG
18935133 ATATGATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 7 0.26
34 20 0.74
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (34 bp):
TTATGTAAGTTATGATAAGCTATATAGTTATGTA
Found at i:18935288 original size:21 final size:21
Alignment explanation
Indices: 18935264--18935303 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
18935254 TCAAATTTTG
18935264 AATAATAATACAAAGTTGTAA
1 AATAATAATACAAAGTTGTAA
18935285 AATAATAATACAAAGTTGT
1 AATAATAATACAAAGTTGT
18935304 CTTCAAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (21 bp):
AATAATAATACAAAGTTGTAA
Found at i:18937289 original size:114 final size:114
Alignment explanation
Indices: 18937071--18937289 Score: 239
Period size: 114 Copynumber: 1.9 Consensus size: 114
18937061 CACAAGCGCC
* ** * *
18937071 GCTAAATCCCTACATATTGCGGCGTTTAACCGAAAATGCCACTAAAAAACCTACAAAAATGGCAC
1 GCTAAATCCCGACATATTGCGGCGTTTAACCGAAAACACCACTAAAAAACCTAAAAAAACGGCAC
* * *
18937136 CATTTTTATAAAAACAGAATAACATTTTGCAGCATTTTTTGGTAGCGTT
66 CATTTTGATAAAAACAGAATAACATTTTGCAGAAGTTTTTGGTAGCGTT
* * *
18937185 GCTAAATCCCGACCTATTGCGGCGTTTTGA-CGAAAACACCACTAAAAAA-ATCAAATAAAACGG
1 GCTAAATCCCGACATATTGCGGCG-TTTAACCGAAAACACCACTAAAAAACCT-AAA-AAAACGG
* * * *
18937248 CTCTATTTTGATTAAAACA-AATTAACCTTTTGC-GAAGTTTTT
63 CACCATTTTGATAAAAACAGAA-TAACATTTTGCAGAAGTTTTT
18937290 CACCTTGCGC
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
113 1 0.01
114 50 0.58
115 35 0.41
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (114 bp):
GCTAAATCCCGACATATTGCGGCGTTTAACCGAAAACACCACTAAAAAACCTAAAAAAACGGCAC
CATTTTGATAAAAACAGAATAACATTTTGCAGAAGTTTTTGGTAGCGTT
Found at i:18938063 original size:14 final size:14
Alignment explanation
Indices: 18938027--18938101 Score: 60
Period size: 14 Copynumber: 5.3 Consensus size: 14
18938017 TCAAAAAACA
*
18938027 TAAACCCTAAACCCC
1 TAAACCCTAAA-CCT
* *
18938042 TAACCCCCAAACCT
1 TAAACCCTAAACCT
** *
18938056 TAAACCCCGACCCT
1 TAAACCCTAAACCT
* *
18938070 TAAACCATAAACCA
1 TAAACCCTAAACCT
*
18938084 TAAACCATAAACCT
1 TAAACCCTAAACCT
18938098 TAAA
1 TAAA
18938102 ATAGTAACTC
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
14 39 0.81
15 9 0.19
ACGTcount: A:0.44, C:0.39, G:0.01, T:0.16
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:18938117 original size:22 final size:23
Alignment explanation
Indices: 18938091--18938196 Score: 76
Period size: 22 Copynumber: 4.5 Consensus size: 23
18938081 CCATAAACCA
18938091 TAAACCTTAAA-ATAGTAACTCC
1 TAAACCTTAAACATAGTAACTCC
* * *
18938113 TAAACCTTAAACCATAAACCATAAATCA
1 TAAACCTTAAA-CAT--A--GTAACTCC
* * *
18938141 TAATCCCTAAACACA-TAA-TCC
1 TAAACCTTAAACATAGTAACTCC
18938162 ATAAACCTTAAA-ATAGTAACTCC
1 -TAAACCTTAAACATAGTAACTCC
18938185 TAAACCTTAAAC
1 TAAACCTTAAAC
18938197 TCTAAACCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
21 4 0.06
22 37 0.58
23 3 0.05
24 2 0.03
25 1 0.02
26 1 0.02
27 2 0.03
28 14 0.22
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (23 bp):
TAAACCTTAAACATAGTAACTCC
Found at i:18938121 original size:50 final size:50
Alignment explanation
Indices: 18938067--18938173 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 50
18938057 AAACCCCGAC
* *
18938067 CCTTAAACCATAAACCATAAACCATAAACCTTAAA-ATAGTAACTCC-TAAA
1 CCTTAAACCATAAACCATAAACCATAAACCCTAAACACA-TAA-TCCATAAA
* *
18938117 CCTTAAACCATAAACCATAAATCATAATCCCTAAACACATAATCCATAAA
1 CCTTAAACCATAAACCATAAACCATAAACCCTAAACACATAATCCATAAA
18938167 CCTTAAA
1 CCTTAAA
18938174 ATAGTAACTC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
49 3 0.06
50 46 0.90
51 2 0.04
ACGTcount: A:0.50, C:0.27, G:0.01, T:0.22
Consensus pattern (50 bp):
CCTTAAACCATAAACCATAAACCATAAACCCTAAACACATAATCCATAAA
Found at i:18938125 original size:7 final size:7
Alignment explanation
Indices: 18938113--18938225 Score: 61
Period size: 7 Copynumber: 15.9 Consensus size: 7
18938103 TAGTAACTCC
*
18938113 TAAACCT
1 TAAACCA
18938120 TAAACCA
1 TAAACCA
18938127 TAAACCA
1 TAAACCA
*
18938134 TAAATCA
1 TAAACCA
* *
18938141 TAATCCC
1 TAAACCA
18938148 TAAACACA
1 TAAAC-CA
*
18938156 TAATCCA
1 TAAACCA
*
18938163 TAAACCT
1 TAAACCA
18938170 TAAA--A
1 TAAACCA
*
18938175 TAGTAACTCC
1 TA--AAC-CA
*
18938185 TAAACCT
1 TAAACCA
18938192 TAAACTC-
1 TAAAC-CA
18938199 TAAACCA
1 TAAACCA
* *
18938206 TATACCC
1 TAAACCA
*
18938213 TTAACCA
1 TAAACCA
18938220 TAAACC
1 TAAACC
18938226 CAAAACTATA
Statistics
Matches: 79, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
5 2 0.03
6 1 0.01
7 65 0.82
8 9 0.11
10 2 0.03
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:18938132 original size:14 final size:14
Alignment explanation
Indices: 18938067--18938225 Score: 78
Period size: 14 Copynumber: 11.1 Consensus size: 14
18938057 AAACCCCGAC
18938067 CCTTAAACCATAAA
1 CCTTAAACCATAAA
*
18938081 CCATAAACCATAAA
1 CCTTAAACCATAAA
18938095 CCTTAAA--ATAGTAA
1 CCTTAAACCATA--AA
* *
18938109 CTCCTAAACCTTAAA
1 C-CTTAAACCATAAA
*
18938124 CCATAAACCATAAA
1 CCTTAAACCATAAA
* * * *
18938138 TCATAATCCCTAAA
1 CCTTAAACCATAAA
* *
18938152 CACATAATCCATAAA
1 C-CTTAAACCATAAA
18938167 CCTTAAA--ATAGTAA
1 CCTTAAACCATA--AA
* *
18938181 CTCCTAAACCTTAAA
1 C-CTTAAACCATAAA
*
18938196 -CTCTAAACCATATAC
1 CCT-TAAACCATA-AA
18938211 CCTT-AACCATAAA
1 CCTTAAACCATAAA
18938224 CC
1 CC
18938226 CAAAACTATA
Statistics
Matches: 112, Mismatches: 19, Indels: 29
0.70 0.12 0.18
Matches are distributed among these distances:
12 6 0.05
13 4 0.04
14 66 0.59
15 30 0.27
16 2 0.02
17 4 0.04
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.23
Consensus pattern (14 bp):
CCTTAAACCATAAA
Found at i:18938224 original size:72 final size:70
Alignment explanation
Indices: 18938065--18938225 Score: 225
Period size: 72 Copynumber: 2.2 Consensus size: 70
18938055 TTAAACCCCG
18938065 ACCCTTAAACCATAAACCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTTAAACCATAA
1 ACCCTT-AACCATAAACCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTTAAACCATAA
18938130 ACCATA
65 ACCATA
** * * *
18938136 AATCATAATCCCTAAACACATAATCCATAAACCTTAAAATAGTAACTCCTAAACCTTAAACTC-T
1 ACCCTTAA-CCATAAAC-CATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTTAAAC-CAT
18938200 AAACCATA
63 AAACCATA
18938208 TACCCTTAACCATAAACC
1 -ACCCTTAACCATAAACC
18938226 CAAAACTATA
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
70 2 0.03
71 11 0.14
72 58 0.75
73 6 0.08
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (70 bp):
ACCCTTAACCATAAACCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTTAAACCATAAA
CCATA
Found at i:18938862 original size:40 final size:38
Alignment explanation
Indices: 18938784--18938890 Score: 90
Period size: 40 Copynumber: 2.7 Consensus size: 38
18938774 AATTTTTTTG
* *
18938784 CGGCGTTTTTCATAAAGCGTCGCTAATTGTTGACCTATAA
1 CGGCG-TTTTCA-AAAGCGCCGCTAATGGTTGACCTATAA
* *
18938824 CGGCGTTTTCCAAGAAGCGCCGCTAATGGTCT-ATCTATAG
1 CGGCGTTTT-CAA-AAGCGCCGCTAATGGT-TGACCTATAA
* *
18938864 TGGCGATTTTTAAAAAGCGCCGCTAAT
1 CGGCG--TTTTCAAAAGCGCCGCTAAT
18938891 ACTCGTTCTA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
39 5 0.09
40 44 0.79
41 3 0.05
42 4 0.07
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (38 bp):
CGGCGTTTTCAAAAGCGCCGCTAATGGTTGACCTATAA
Found at i:18938901 original size:40 final size:40
Alignment explanation
Indices: 18938838--18938914 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
18938828 GTTTTCCAAG
** *
18938838 AAGCGCCGCTAATGGTCTATCTATAGTGGCGATTTTTAAA
1 AAGCGCCGCTAATACTCTATCTATAGAGGCGATTTTTAAA
*
18938878 AAGCGCCGCTAATACTCGT-TCTATAGAGGCGTTTTTT
1 AAGCGCCGCTAATACTC-TATCTATAGAGGCGATTTTT
18938915 GTCCGCCACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (40 bp):
AAGCGCCGCTAATACTCTATCTATAGAGGCGATTTTTAAA
Found at i:18939297 original size:20 final size:20
Alignment explanation
Indices: 18939272--18939310 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18939262 TATTTTTTTT
*
18939272 ATTTTATGAGAGTTTAATTG
1 ATTTTACGAGAGTTTAATTG
*
18939292 ATTTTACGAGGGTTTAATT
1 ATTTTACGAGAGTTTAATT
18939311 AATTATTTAA
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:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (20 bp):
ATTTTACGAGAGTTTAATTG
Found at i:18941319 original size:20 final size:20
Alignment explanation
Indices: 18941294--18941332 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18941284 TATTTTCTTC
18941294 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
18941314 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
18941333 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:18941675 original size:50 final size:50
Alignment explanation
Indices: 18941621--18941723 Score: 145
Period size: 50 Copynumber: 2.1 Consensus size: 50
18941611 ACATGAAAGT
* *
18941621 TCTCATATCGGTGCTC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACC
1 TCTCATATCGGTAC-CAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
* * *
18941671 TCTCATCTCGGTACCAACGCCATGTCTCAGACATGGTCTTACGTGGGACC
1 TCTCATATCGGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
18941721 TCT
1 TCT
18941724 TATAACCTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.02
50 46 0.98
ACGTcount: A:0.18, C:0.31, G:0.23, T:0.27
Consensus pattern (50 bp):
TCTCATATCGGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
Found at i:18941759 original size:56 final size:50
Alignment explanation
Indices: 18941639--18941773 Score: 144
Period size: 50 Copynumber: 2.6 Consensus size: 50
18941629 CGGTGCTCAT
* **
18941639 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAAC
1 GCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCAATACCAAC
* * *
18941689 GCCATGTCTCAGACATGGTCTTACGTGGGACCTCTTATAACCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT---CTCAAT-A--CCAAC
* *
18941745 GTCATGTCCCAGACATGGTCTTACATGGG
1 GCCATGTCCCAGACATGGTCTTACGTGGG
18941774 GTCTCATCCC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
50 35 0.50
53 4 0.06
54 1 0.01
56 30 0.43
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCAATACCAAC
Found at i:18943061 original size:33 final size:32
Alignment explanation
Indices: 18943024--18943088 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
18943014 TGTGAAATGG
*
18943024 TAGCAAAATAGTGAAAAAAAAACAACAAGAAAA
1 TAGCAAAATAAT-AAAAAAAAACAACAAGAAAA
* * *
18943057 TAGCAAAATAATAATAATAAACAACAATAAAA
1 TAGCAAAATAATAAAAAAAAACAACAAGAAAA
18943089 CAGTAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.69, C:0.09, G:0.08, T:0.14
Consensus pattern (32 bp):
TAGCAAAATAATAAAAAAAAACAACAAGAAAA
Found at i:18943452 original size:61 final size:61
Alignment explanation
Indices: 18943368--18943486 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
18943358 ATAATTTTAA
** * *
18943368 TAAAATTTATATATTATTCTAAAATCTTTATAACATTTAAAACTTTTCTATACTTTTTTTT
1 TAAAATTTATATATTATTCTAAAAAATTTATAACATTTAAAAATTTTCTATAATTTTTTTT
18943429 TAAAATTCTATAT-TT-TTCTTAAAAAATTTATAACATTTAAAAATTTTCTATAATTTTT
1 TAAAATT-TATATATTATTC-TAAAAAATTTATAACATTTAAAAATTTTCTATAATTTTT
18943487 AATAATTTGT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
60 3 0.06
61 44 0.85
62 5 0.10
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (61 bp):
TAAAATTTATATATTATTCTAAAAAATTTATAACATTTAAAAATTTTCTATAATTTTTTTT
Found at i:18943454 original size:21 final size:21
Alignment explanation
Indices: 18943413--18943460 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
18943403 TTTAAAACTT
**
18943413 TTCTATACTTTTTTTTTAAAA
1 TTCTATACTTTTTTTAAAAAA
18943434 TTCTATA-TTTTTCTTAAAAAA
1 TTCTATACTTTTT-TTAAAAAA
18943455 TT-TATA
1 TTCTATA
18943461 ACATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (21 bp):
TTCTATACTTTTTTTAAAAAA
Found at i:18943485 original size:10 final size:10
Alignment explanation
Indices: 18943464--18943544 Score: 51
Period size: 10 Copynumber: 8.1 Consensus size: 10
18943454 ATTTATAACA
*
18943464 TTTAAAAATT
1 TTTAATAATT
18943474 TTCT-ATAATT
1 TT-TAATAATT
18943484 TTTAATAATT
1 TTTAATAATT
* *
18943494 TGT-ATAACT
1 TTTAATAATT
* *
18943503 ATTGATAATT
1 TTTAATAATT
18943513 TTTAATATATAT
1 TTTAATA-AT-T
*
18943525 TTTTA-AATT
1 TTTAATAATT
*
18943534 TTTAACAATT
1 TTTAATAATT
18943544 T
1 T
18943545 CCTACTTAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
9 12 0.22
10 34 0.62
11 4 0.07
12 5 0.09
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (10 bp):
TTTAATAATT
Found at i:18946828 original size:20 final size:20
Alignment explanation
Indices: 18946803--18946842 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18946793 ATATTTTCAA
* *
18946803 TTATTTCAATTTTATTTTAT
1 TTATTTCAATGTTATGTTAT
*
18946823 TTATTTTAATGTTATGTTAT
1 TTATTTCAATGTTATGTTAT
18946843 CCTATAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTATTTCAATGTTATGTTAT
Found at i:18947398 original size:21 final size:22
Alignment explanation
Indices: 18947374--18947425 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
18947364 ATATTTTCTC
*
18947374 TATTTTCTTTAAATTTTT-AAT
1 TATTTTCTTCAAATTTTTAAAT
*
18947395 TATTTAT-TTCAAGTTTTTAAAT
1 TATTT-TCTTCAAATTTTTAAAT
*
18947417 TTTTTTCTT
1 TATTTTCTT
18947426 ATGACTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTTTCTTCAAATTTTTAAAT
Found at i:18956077 original size:13 final size:13
Alignment explanation
Indices: 18956061--18956085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18956051 AAAATGCATA
18956061 AGTAAATACAACG
1 AGTAAATACAACG
18956074 AGTAAATACAAC
1 AGTAAATACAAC
18956086 TACAATGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (13 bp):
AGTAAATACAACG
Found at i:18958101 original size:23 final size:23
Alignment explanation
Indices: 18958071--18958116 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18958061 TTTTTGAGGA
18958071 AGGAAGAAGAGAAACTCCCTCTT
1 AGGAAGAAGAGAAACTCCCTCTT
18958094 AGGAAGAAGAGAAACTCCCTCTT
1 AGGAAGAAGAGAAACTCCCTCTT
18958117 TTTTAACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (23 bp):
AGGAAGAAGAGAAACTCCCTCTT
Found at i:18963693 original size:21 final size:21
Alignment explanation
Indices: 18963642--18963693 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
18963632 TTACGTTTAA
*
18963642 TAATATTGAAAATTATAATAT
1 TAATATTTAAAATTATAATAT
18963663 TAATATTTTAAAAGTTA-AA-AT
1 TAATA-TTTAAAA-TTATAATAT
18963684 TAAATATTTA
1 T-AATATTTA
18963694 TATATTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 12 0.44
22 12 0.44
23 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (21 bp):
TAATATTTAAAATTATAATAT
Found at i:18965824 original size:2 final size:2
Alignment explanation
Indices: 18965817--18965845 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18965807 TAATATAGTA
18965817 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18965846 AAATGGTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.